Mercurial > repos > dereeper > roary_plots
changeset 0:c47a5f61bc9f draft
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/.gitignore Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,35 @@ +.DS_Store +blib/ +.build/ +_build/ +cover_db/ +inc/ +Build +!Build/ +Build.bat +.last_cover_stats +Makefile +Makefile.old +MANIFEST.bak +META.yml +MYMETA.yml +nytprof.out +pm_to_blib +_clustered +_clustered.bak.clstr +example_1.faa.tmp.filtered.fa +example_2.faa.tmp.filtered.fa +pan_genome.fa +query_1.fa.tmp.filtered.fa +query_2.fa.tmp.filtered.fa +query_3.fa.tmp.filtered.fa +accessory.header.embl +blast_identity_frequency.Rtab +core_accessory.header.embl +reannotated_groups_file +set_difference_common_set_reannotated +set_difference_unique_set_one_reannotated +set_difference_unique_set_two_reannotated +extras/ +bin/shred_assemblies +Bio-Roary-*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/.travis.yml Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,32 @@ +language: perl +sudo: false +addons: + apt: + packages: + - libssl-dev + - mafft +cache: + directories: + - build/parallel-20160722 + - build/parallel-20170822 + - build/bedtools2 + - build/cd-hit-v4.6.8-2017-0621 + - build/prank-msa-master + - build/ncbi-blast-2.6.0+ + - build/mcl-14-137 + - build/fasttree +perl: + - "5.14" + - "5.26" +env: + - PARALLEL_VERSION=20160722 + - PARALLEL_VERSION=20170822 +install: + - "source ./install_dependencies.sh" +before_script: + - cpanm --quiet --notest Dist::Zilla::App::Command::cover + - cpanm --quiet --notest --skip-satisfied Devel::Cover::Report::Codecov +script: + - ROARY_FULL_TESTS=1 dzil test +after_success: + - dzil cover -test -report codecov \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/AUTHORS Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,2 @@ +Andrew J. Page (ap13@sanger.ac.uk) +Carla A. Cummins (path-help@sanger.ac.uk)
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/CHANGELOG.md Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,977 @@ +# Change Log + +## [Unreleased](https://github.com/sanger-pathogens/Roary/tree/HEAD) + +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.12.0...HEAD) + +**Implemented enhancements:** + +- Feature Request: Clear error message for duplicated file names [\#363](https://github.com/sanger-pathogens/Roary/issues/363) + +**Fixed bugs:** + +- uninitialized value warning [\#297](https://github.com/sanger-pathogens/Roary/issues/297) +- Bio::Root::Exception thrown during core genome alignment, missing some sequence in core\_gene\_alignment.aln [\#224](https://github.com/sanger-pathogens/Roary/issues/224) + +**Closed issues:** + +- Interpretation accessory\_binary\_genes newick [\#429](https://github.com/sanger-pathogens/Roary/issues/429) +- No gene annotation in gene\_presence\_absence.csv output [\#428](https://github.com/sanger-pathogens/Roary/issues/428) +- Compilation aborted at pan\_genome\_post\_analysis [\#427](https://github.com/sanger-pathogens/Roary/issues/427) +- Could not obtain pan\_genome\_sequences [\#426](https://github.com/sanger-pathogens/Roary/issues/426) +- Pan genome for fungal genomes [\#425](https://github.com/sanger-pathogens/Roary/issues/425) +- multifasta for all proteins [\#424](https://github.com/sanger-pathogens/Roary/issues/424) +- roary\_plots.py KeyError: "X" not in index [\#423](https://github.com/sanger-pathogens/Roary/issues/423) +- Confirm that use of BLAST's `-max\_target\_seqs` is intentional [\#422](https://github.com/sanger-pathogens/Roary/issues/422) +- query\_pan\_genome 'Cant access file' error \(Non-Working-Directory inputs\) [\#421](https://github.com/sanger-pathogens/Roary/issues/421) +- How many .gff files does Roary need? [\#419](https://github.com/sanger-pathogens/Roary/issues/419) +- Installation through Bioconda not working [\#418](https://github.com/sanger-pathogens/Roary/issues/418) +- Is it possible to run roary without prokka output files? [\#417](https://github.com/sanger-pathogens/Roary/issues/417) +- Exiting early because number of clusters is too high [\#415](https://github.com/sanger-pathogens/Roary/issues/415) +- MSG: Got a sequence without letters. Could not guess alphabet? [\#414](https://github.com/sanger-pathogens/Roary/issues/414) +- Which is the advantage to pre-use prokka to perform analysis using genbank \(.gbk and gbff\) files? [\#412](https://github.com/sanger-pathogens/Roary/issues/412) +- issues with running and empty files [\#411](https://github.com/sanger-pathogens/Roary/issues/411) +- MSG: Got a sequence without letters. Could not guess alphabet [\#410](https://github.com/sanger-pathogens/Roary/issues/410) +- moose.pm issue [\#407](https://github.com/sanger-pathogens/Roary/issues/407) +- Tutorial data: extract\_proteome\_from\_gff [\#406](https://github.com/sanger-pathogens/Roary/issues/406) +- Tutorial data: extract\_proteome\_from\_gff [\#403](https://github.com/sanger-pathogens/Roary/issues/403) +- gene\_presence\_absence.csv incomplete [\#402](https://github.com/sanger-pathogens/Roary/issues/402) +- Roary including non-protein coding features? [\#398](https://github.com/sanger-pathogens/Roary/issues/398) +- Question: what programs can be used to visualize embl and dot files? [\#394](https://github.com/sanger-pathogens/Roary/issues/394) +- Roary Does not terminated successfully [\#388](https://github.com/sanger-pathogens/Roary/issues/388) +- python: can't open file 'roary\_plots.py': \[Errno 2\] No such file or directory [\#385](https://github.com/sanger-pathogens/Roary/issues/385) +- Roary does not finish analysis even though cluster job queue returns successful completion [\#383](https://github.com/sanger-pathogens/Roary/issues/383) +- Genes \(well\) annotated in prokka end up all in different groups?? [\#355](https://github.com/sanger-pathogens/Roary/issues/355) +- could not determine version of cd-hit [\#322](https://github.com/sanger-pathogens/Roary/issues/322) +- Use of uninitialized value in require at \(eval 792\) line 1. [\#308](https://github.com/sanger-pathogens/Roary/issues/308) +- Error: unexpected input in "\_" [\#299](https://github.com/sanger-pathogens/Roary/issues/299) +- inconsistent referencing of $TMPDIR ? [\#287](https://github.com/sanger-pathogens/Roary/issues/287) + +**Merged pull requests:** + +- Include tests in README [\#430](https://github.com/sanger-pathogens/Roary/pull/430) ([ssjunnebo](https://github.com/ssjunnebo)) +- 621556 badges [\#420](https://github.com/sanger-pathogens/Roary/pull/420) ([ssjunnebo](https://github.com/ssjunnebo)) +- Update roary\_plots from .ix to .loc [\#416](https://github.com/sanger-pathogens/Roary/pull/416) ([EvdH0](https://github.com/EvdH0)) +- Use only CDS features from GFF [\#400](https://github.com/sanger-pathogens/Roary/pull/400) ([embatty](https://github.com/embatty)) +- also mention Devel::OverloadInfo and Digest::MD5::File as required Perl dependencies [\#397](https://github.com/sanger-pathogens/Roary/pull/397) ([boegel](https://github.com/boegel)) +- Avoid deprecation errors in roary\_plots [\#389](https://github.com/sanger-pathogens/Roary/pull/389) ([mgalardini](https://github.com/mgalardini)) + +## [v3.12.0](https://github.com/sanger-pathogens/Roary/tree/v3.12.0) (2018-01-23) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.11.4...v3.12.0) + +**Merged pull requests:** + +- Reduce min gene size [\#384](https://github.com/sanger-pathogens/Roary/pull/384) ([ssjunnebo](https://github.com/ssjunnebo)) + +## [v3.11.4](https://github.com/sanger-pathogens/Roary/tree/v3.11.4) (2018-01-16) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.11.3...v3.11.4) + +**Closed issues:** + +- Roary seemed to have stopped prematurely; any way to continue the run? [\#380](https://github.com/sanger-pathogens/Roary/issues/380) +- Getting prank version without the online check [\#377](https://github.com/sanger-pathogens/Roary/issues/377) +- Kraken version parsing error: [\#376](https://github.com/sanger-pathogens/Roary/issues/376) +- 3.11.1 failing 2/55 \(3/791\) tests [\#375](https://github.com/sanger-pathogens/Roary/issues/375) +- Fix for prank version check [\#361](https://github.com/sanger-pathogens/Roary/issues/361) +- mafft version check still failing - bug in regexp found [\#360](https://github.com/sanger-pathogens/Roary/issues/360) +- roary -a =\> Use of uninitialized value in concatenation \(.\) [\#270](https://github.com/sanger-pathogens/Roary/issues/270) + +**Merged pull requests:** + +- Fix dependancy checking option [\#382](https://github.com/sanger-pathogens/Roary/pull/382) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.11.3](https://github.com/sanger-pathogens/Roary/tree/v3.11.3) (2018-01-12) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.11.2...v3.11.3) + +**Merged pull requests:** + +- Version fix [\#379](https://github.com/sanger-pathogens/Roary/pull/379) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.11.2](https://github.com/sanger-pathogens/Roary/tree/v3.11.2) (2018-01-12) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.11.1...v3.11.2) + +**Fixed bugs:** + +- ExtractProteomeFromGff.t failing tests 3.11.0 [\#373](https://github.com/sanger-pathogens/Roary/issues/373) + +**Merged pull requests:** + +- fix mafft and kraken version extraction [\#378](https://github.com/sanger-pathogens/Roary/pull/378) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.11.1](https://github.com/sanger-pathogens/Roary/tree/v3.11.1) (2018-01-10) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.11.0...v3.11.1) + +**Closed issues:** + +- Sorting in version 3.11.0: uppercase letters first, lowercase second \(non-alphabetical\) [\#371](https://github.com/sanger-pathogens/Roary/issues/371) +- Genbank input [\#365](https://github.com/sanger-pathogens/Roary/issues/365) +- not all annotated features are allocated to the clusters [\#359](https://github.com/sanger-pathogens/Roary/issues/359) + +**Merged pull requests:** + +- Bedtools getfasta format fix [\#374](https://github.com/sanger-pathogens/Roary/pull/374) ([andrewjpage](https://github.com/andrewjpage)) +- Update roary\_plots.py [\#372](https://github.com/sanger-pathogens/Roary/pull/372) ([franz89](https://github.com/franz89)) +- Issue \#363 add check for duplicate basenames [\#370](https://github.com/sanger-pathogens/Roary/pull/370) ([nickp60](https://github.com/nickp60)) +- README.md: Update Guix install instructions. [\#362](https://github.com/sanger-pathogens/Roary/pull/362) ([wwood](https://github.com/wwood)) + +## [v3.11.0](https://github.com/sanger-pathogens/Roary/tree/v3.11.0) (2017-10-10) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.10.2...v3.11.0) + +**Fixed bugs:** + +- Can't get version of kraken, kraken-report or mafft ? [\#312](https://github.com/sanger-pathogens/Roary/issues/312) + +**Closed issues:** + +- number\_of\_conserved\_genes.Rtab [\#354](https://github.com/sanger-pathogens/Roary/issues/354) +- \[question\] Should it take this long? [\#352](https://github.com/sanger-pathogens/Roary/issues/352) + +**Merged pull requests:** + +- change missing gene in core to be dashes rather than Ns [\#358](https://github.com/sanger-pathogens/Roary/pull/358) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.10.2](https://github.com/sanger-pathogens/Roary/tree/v3.10.2) (2017-09-08) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.10.1...v3.10.2) + +**Closed issues:** + +- \[version 3.8.0\] Roary crashes at end on perl error message [\#323](https://github.com/sanger-pathogens/Roary/issues/323) +- Cant open file: \_accessory\_clusters.clstr [\#320](https://github.com/sanger-pathogens/Roary/issues/320) + +**Merged pull requests:** + +- get kraken version [\#351](https://github.com/sanger-pathogens/Roary/pull/351) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.10.1](https://github.com/sanger-pathogens/Roary/tree/v3.10.1) (2017-09-07) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.10.0...v3.10.1) + +**Implemented enhancements:** + +- Auto-detect if input files are GFF or FASTA [\#348](https://github.com/sanger-pathogens/Roary/issues/348) +- Can "Fixing input GFF files" be parallelized? [\#342](https://github.com/sanger-pathogens/Roary/issues/342) + +**Fixed bugs:** + +- The GNU General Public License, Version not specified [\#344](https://github.com/sanger-pathogens/Roary/issues/344) + +**Closed issues:** + +- MSG: The sequence does not appear to be FASTA format \(lacks a descriptor line '\>'\) [\#346](https://github.com/sanger-pathogens/Roary/issues/346) + +**Merged pull requests:** + +- Improve input file handling [\#350](https://github.com/sanger-pathogens/Roary/pull/350) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.10.0](https://github.com/sanger-pathogens/Roary/tree/v3.10.0) (2017-09-07) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.9.1...v3.10.0) + +**Closed issues:** + +- Use of uninitialized value \(Perl\) [\#345](https://github.com/sanger-pathogens/Roary/issues/345) +- identical .gff file names from different genome, and then issue with mcl groups [\#341](https://github.com/sanger-pathogens/Roary/issues/341) +- Cant open file: \_clustered.clstr [\#339](https://github.com/sanger-pathogens/Roary/issues/339) + +## [v3.9.1](https://github.com/sanger-pathogens/Roary/tree/v3.9.1) (2017-08-22) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.9.0...v3.9.1) + +**Merged pull requests:** + +- Optionally allow paralogs in core gene alignment [\#343](https://github.com/sanger-pathogens/Roary/pull/343) ([andrewjpage](https://github.com/andrewjpage)) +- Script to find frequency of unique genes in samples [\#340](https://github.com/sanger-pathogens/Roary/pull/340) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.9.0](https://github.com/sanger-pathogens/Roary/tree/v3.9.0) (2017-08-09) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.8.2...v3.9.0) + +**Closed issues:** + +- roary\_plots: pangenome matrix tree does not look like input.newick tree [\#333](https://github.com/sanger-pathogens/Roary/issues/333) +- use Roary with RAST files [\#332](https://github.com/sanger-pathogens/Roary/issues/332) +- Roary [\#329](https://github.com/sanger-pathogens/Roary/issues/329) +- sampling number is 10 in number of genes in pan and core genome [\#319](https://github.com/sanger-pathogens/Roary/issues/319) + +**Merged pull requests:** + +- Grammar edits [\#327](https://github.com/sanger-pathogens/Roary/pull/327) ([cgreene](https://github.com/cgreene)) +- allow for inflation factor for MCL to be changed [\#326](https://github.com/sanger-pathogens/Roary/pull/326) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.8.2](https://github.com/sanger-pathogens/Roary/tree/v3.8.2) (2017-05-21) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.8.1...v3.8.2) + +## [v3.8.1](https://github.com/sanger-pathogens/Roary/tree/v3.8.1) (2017-05-21) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.8.0...v3.8.1) + +**Closed issues:** + +- BLAST Database error [\#321](https://github.com/sanger-pathogens/Roary/issues/321) +- Results for same input differ always a bit \(summary\_statistics.txt\) [\#318](https://github.com/sanger-pathogens/Roary/issues/318) +- Error: Couldnt open GFF file [\#314](https://github.com/sanger-pathogens/Roary/issues/314) +- Help with query\_pan\_genome [\#313](https://github.com/sanger-pathogens/Roary/issues/313) + +**Merged pull requests:** + +- update email address [\#325](https://github.com/sanger-pathogens/Roary/pull/325) ([ssjunnebo](https://github.com/ssjunnebo)) +- New option to roary\_plots.py [\#317](https://github.com/sanger-pathogens/Roary/pull/317) ([mgalardini](https://github.com/mgalardini)) + +## [v3.8.0](https://github.com/sanger-pathogens/Roary/tree/v3.8.0) (2017-01-25) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.7.1...v3.8.0) + +**Closed issues:** + +- Old version in the master tarball? [\#300](https://github.com/sanger-pathogens/Roary/issues/300) +- prank is not installed \(Linuxbrew\) [\#294](https://github.com/sanger-pathogens/Roary/issues/294) +- roary\_plots.py problem [\#292](https://github.com/sanger-pathogens/Roary/issues/292) + +**Merged pull requests:** + +- Support latest version of blast [\#306](https://github.com/sanger-pathogens/Roary/pull/306) ([andrewjpage](https://github.com/andrewjpage)) +- infgen [\#305](https://github.com/sanger-pathogens/Roary/pull/305) ([andrewjpage](https://github.com/andrewjpage)) +- update from 108 to 118 [\#304](https://github.com/sanger-pathogens/Roary/pull/304) ([andrewjpage](https://github.com/andrewjpage)) +- update usage text for iterative CD-hit [\#301](https://github.com/sanger-pathogens/Roary/pull/301) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.7.1](https://github.com/sanger-pathogens/Roary/tree/v3.7.1) (2016-11-01) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.7.0...v3.7.1) + +**Closed issues:** + +- core\_gene\_alignment.aln missing [\#284](https://github.com/sanger-pathogens/Roary/issues/284) +- Is these results fine to use? [\#282](https://github.com/sanger-pathogens/Roary/issues/282) + +**Merged pull requests:** + +- fix spelling [\#280](https://github.com/sanger-pathogens/Roary/pull/280) ([satta](https://github.com/satta)) +- dont add POD to end of R scripts [\#279](https://github.com/sanger-pathogens/Roary/pull/279) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.7.0](https://github.com/sanger-pathogens/Roary/tree/v3.7.0) (2016-09-23) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.9...v3.7.0) + +## [v3.6.9](https://github.com/sanger-pathogens/Roary/tree/v3.6.9) (2016-09-22) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.8...v3.6.9) + +**Implemented enhancements:** + +- I have published a Roary homebrew formula [\#208](https://github.com/sanger-pathogens/Roary/issues/208) +- Getting Roary into Homebrew [\#152](https://github.com/sanger-pathogens/Roary/issues/152) + +**Closed issues:** + +- roary\_plots.py missing [\#277](https://github.com/sanger-pathogens/Roary/issues/277) +- Errors when downloaded sequences from NCBI [\#274](https://github.com/sanger-pathogens/Roary/issues/274) +- Same dataset different results! [\#271](https://github.com/sanger-pathogens/Roary/issues/271) +- \_clustered.clstr file does not exist, cannot be read [\#250](https://github.com/sanger-pathogens/Roary/issues/250) + +**Merged pull requests:** + +- Fixed easy-init warnings - 529655 [\#278](https://github.com/sanger-pathogens/Roary/pull/278) ([psweston](https://github.com/psweston)) +- README.md: Add instructions for GNU Guix. [\#273](https://github.com/sanger-pathogens/Roary/pull/273) ([wwood](https://github.com/wwood)) + +## [v3.6.8](https://github.com/sanger-pathogens/Roary/tree/v3.6.8) (2016-08-02) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.7...v3.6.8) + +**Merged pull requests:** + +- Allow gene names from gb [\#266](https://github.com/sanger-pathogens/Roary/pull/266) ([andrewjpage](https://github.com/andrewjpage)) +- Missing genes [\#265](https://github.com/sanger-pathogens/Roary/pull/265) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.6.7](https://github.com/sanger-pathogens/Roary/tree/v3.6.7) (2016-07-26) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.6...v3.6.7) + +**Fixed bugs:** + +- Roary 3.6.5 giving different \(erroneous\) results compared to 3.5.7 and 3.6.1/3.6.3/3.6.4 [\#263](https://github.com/sanger-pathogens/Roary/issues/263) +- roary R plots don't work on server --- lack of X11 [\#194](https://github.com/sanger-pathogens/Roary/issues/194) + +**Closed issues:** + +- empty accessory\_binary\_genes.fa file [\#262](https://github.com/sanger-pathogens/Roary/issues/262) +- a guix package [\#259](https://github.com/sanger-pathogens/Roary/issues/259) +- create\_pan\_genome\_plots.R - X11 font problem [\#230](https://github.com/sanger-pathogens/Roary/issues/230) +- Roary not generating pan\_genome\_reference.fa [\#223](https://github.com/sanger-pathogens/Roary/issues/223) +- Roary not using packaged executables [\#215](https://github.com/sanger-pathogens/Roary/issues/215) + +## [v3.6.6](https://github.com/sanger-pathogens/Roary/tree/v3.6.6) (2016-07-25) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.5...v3.6.6) + +**Fixed bugs:** + +- GFF parsing doesn't match GFF3 specification [\#249](https://github.com/sanger-pathogens/Roary/issues/249) + +**Merged pull requests:** + +- Fix empty accessory binary [\#264](https://github.com/sanger-pathogens/Roary/pull/264) ([andrewjpage](https://github.com/andrewjpage)) +- change to dist zilla starter bundle [\#261](https://github.com/sanger-pathogens/Roary/pull/261) ([nds](https://github.com/nds)) + +## [v3.6.5](https://github.com/sanger-pathogens/Roary/tree/v3.6.5) (2016-07-20) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.4...v3.6.5) + +**Merged pull requests:** + +- allow new format bedtools and dont look for FASTA in GFF [\#260](https://github.com/sanger-pathogens/Roary/pull/260) ([andrewjpage](https://github.com/andrewjpage)) +- catch divide by zero error [\#258](https://github.com/sanger-pathogens/Roary/pull/258) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.6.4](https://github.com/sanger-pathogens/Roary/tree/v3.6.4) (2016-07-06) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.3...v3.6.4) + +**Merged pull requests:** + +- drop testing for perl 5.10, add 5.24. dzil no longer works below 5.14 [\#257](https://github.com/sanger-pathogens/Roary/pull/257) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.6.3](https://github.com/sanger-pathogens/Roary/tree/v3.6.3) (2016-07-01) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.2...v3.6.3) + +**Merged pull requests:** + +- Speed up alignments [\#256](https://github.com/sanger-pathogens/Roary/pull/256) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.6.2](https://github.com/sanger-pathogens/Roary/tree/v3.6.2) (2016-05-10) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.1...v3.6.2) + +**Implemented enhancements:** + +- Prefix utility commands with roary- ? [\#226](https://github.com/sanger-pathogens/Roary/issues/226) + +**Merged pull requests:** + +- fix bug Can't exec /bin/sh: Argument list too long [\#247](https://github.com/sanger-pathogens/Roary/pull/247) ([duytintruong](https://github.com/duytintruong)) +- get rid of warning message [\#246](https://github.com/sanger-pathogens/Roary/pull/246) ([satta](https://github.com/satta)) + +## [v3.6.1](https://github.com/sanger-pathogens/Roary/tree/v3.6.1) (2016-04-18) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.6.0...v3.6.1) + +**Fixed bugs:** + +- roary\_plots.py generating flawed plots [\#221](https://github.com/sanger-pathogens/Roary/issues/221) + +**Closed issues:** + +- Core gene file missing error [\#241](https://github.com/sanger-pathogens/Roary/issues/241) + +**Merged pull requests:** + +- prefix commands with roary [\#244](https://github.com/sanger-pathogens/Roary/pull/244) ([andrewjpage](https://github.com/andrewjpage)) +- More improvements to roary\_plots [\#240](https://github.com/sanger-pathogens/Roary/pull/240) ([mgalardini](https://github.com/mgalardini)) + +## [v3.6.0](https://github.com/sanger-pathogens/Roary/tree/v3.6.0) (2016-02-23) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.9...v3.6.0) + +**Fixed bugs:** + +- MSG: Got a sequence without letters. Could not guess alphabet [\#229](https://github.com/sanger-pathogens/Roary/issues/229) + +**Closed issues:** + +- Roary 3.5.8 works with -i 80 switch, but not with -i 90 or higher with large datasets? [\#234](https://github.com/sanger-pathogens/Roary/issues/234) +- How to use multiple switches in commandline? [\#232](https://github.com/sanger-pathogens/Roary/issues/232) + +**Merged pull requests:** + +- Improvements to roary\_plots [\#236](https://github.com/sanger-pathogens/Roary/pull/236) ([mgalardini](https://github.com/mgalardini)) +- Rollback 3 5 8 [\#235](https://github.com/sanger-pathogens/Roary/pull/235) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.5.9](https://github.com/sanger-pathogens/Roary/tree/v3.5.9) (2016-02-17) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.8...v3.5.9) + +**Implemented enhancements:** + +- What clusters end up in gene accessory\_binary\_genes.fa ? [\#225](https://github.com/sanger-pathogens/Roary/issues/225) + +**Closed issues:** + +- roary.github.io just prints HELLO [\#233](https://github.com/sanger-pathogens/Roary/issues/233) + +**Merged pull requests:** + +- Fix minor typo [\#231](https://github.com/sanger-pathogens/Roary/pull/231) ([abremges](https://github.com/abremges)) + +## [v3.5.8](https://github.com/sanger-pathogens/Roary/tree/v3.5.8) (2016-01-20) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.7...v3.5.8) + +**Implemented enhancements:** + +- Getting Roary into Debian Med [\#219](https://github.com/sanger-pathogens/Roary/issues/219) +- Add embl output file mapping location of each core gene in the core genome alignment [\#192](https://github.com/sanger-pathogens/Roary/issues/192) + +**Closed issues:** + +- Error message: Cannot find the mcxdeblast executable, please ensure its in your PATH [\#217](https://github.com/sanger-pathogens/Roary/issues/217) + +**Merged pull requests:** + +- Provide full accessory for building binary tree [\#227](https://github.com/sanger-pathogens/Roary/pull/227) ([andrewjpage](https://github.com/andrewjpage)) +- roary\_plots: new fields in roary output must be parsed away [\#222](https://github.com/sanger-pathogens/Roary/pull/222) ([mgalardini](https://github.com/mgalardini)) +- Debian nitpicks [\#220](https://github.com/sanger-pathogens/Roary/pull/220) ([satta](https://github.com/satta)) +- Core alignment header file [\#218](https://github.com/sanger-pathogens/Roary/pull/218) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.5.7](https://github.com/sanger-pathogens/Roary/tree/v3.5.7) (2015-12-17) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.6...v3.5.7) + +**Closed issues:** + +- Roary not checking tools needed to run [\#214](https://github.com/sanger-pathogens/Roary/issues/214) + +**Merged pull requests:** + +- Core gene count [\#213](https://github.com/sanger-pathogens/Roary/pull/213) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.5.6](https://github.com/sanger-pathogens/Roary/tree/v3.5.6) (2015-12-01) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.5...v3.5.6) + +**Implemented enhancements:** + +- Non-issue, FYI regarding my 'roary2svg.pl' script [\#195](https://github.com/sanger-pathogens/Roary/issues/195) + +**Merged pull requests:** + +- add roary2svg script [\#212](https://github.com/sanger-pathogens/Roary/pull/212) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.5.5](https://github.com/sanger-pathogens/Roary/tree/v3.5.5) (2015-11-26) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.4...v3.5.5) + +**Merged pull requests:** + +- CD-hit threads limit [\#211](https://github.com/sanger-pathogens/Roary/pull/211) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.5.4](https://github.com/sanger-pathogens/Roary/tree/v3.5.4) (2015-11-26) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.3...v3.5.4) + +**Fixed bugs:** + +- Use of uninitialized value in require at \(eval ..\) line 1. [\#204](https://github.com/sanger-pathogens/Roary/issues/204) +- \[bug\] Newick files in 3.5.1 have branch lengths of 0.0 [\#202](https://github.com/sanger-pathogens/Roary/issues/202) + +**Merged pull requests:** + +- Accessory binary fasta contains all C's fix [\#210](https://github.com/sanger-pathogens/Roary/pull/210) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.5.3](https://github.com/sanger-pathogens/Roary/tree/v3.5.3) (2015-11-26) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.2...v3.5.3) + +**Implemented enhancements:** + +- Enhancement: roary -a to continue on if other parameters as well [\#207](https://github.com/sanger-pathogens/Roary/issues/207) +- Make summary\_statistics a TAB/TSV file? [\#193](https://github.com/sanger-pathogens/Roary/issues/193) + +**Fixed bugs:** + +- roary --version should return 0 not 255 exit code [\#206](https://github.com/sanger-pathogens/Roary/issues/206) +- Is the roary -a check complete? [\#205](https://github.com/sanger-pathogens/Roary/issues/205) + +## [v3.5.2](https://github.com/sanger-pathogens/Roary/tree/v3.5.2) (2015-11-25) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.1...v3.5.2) + +**Fixed bugs:** + +- Use of uninitialized value in File::Slurper and Encode.pm [\#196](https://github.com/sanger-pathogens/Roary/issues/196) + +**Merged pull requests:** + +- Improved dependancy checking [\#209](https://github.com/sanger-pathogens/Roary/pull/209) ([andrewjpage](https://github.com/andrewjpage)) +- Lsf update gene alignments [\#201](https://github.com/sanger-pathogens/Roary/pull/201) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.5.1](https://github.com/sanger-pathogens/Roary/tree/v3.5.1) (2015-11-12) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.5.0...v3.5.1) + +**Fixed bugs:** + +- Accessory genes newick file contains full path of infividual files [\#200](https://github.com/sanger-pathogens/Roary/issues/200) +- add optional dependancy from File::Slurper to stop warnings being printed [\#199](https://github.com/sanger-pathogens/Roary/pull/199) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.5.0](https://github.com/sanger-pathogens/Roary/tree/v3.5.0) (2015-11-12) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.4.3...v3.5.0) + +**Merged pull requests:** + +- remove path from accessory tree [\#198](https://github.com/sanger-pathogens/Roary/pull/198) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.4.3](https://github.com/sanger-pathogens/Roary/tree/v3.4.3) (2015-11-11) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.4.2...v3.4.3) + +**Merged pull requests:** + +- consensus group name for pan reference [\#190](https://github.com/sanger-pathogens/Roary/pull/190) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.4.2](https://github.com/sanger-pathogens/Roary/tree/v3.4.2) (2015-10-12) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.4.1...v3.4.2) + +**Merged pull requests:** + +- Gene presence and absence rtab [\#189](https://github.com/sanger-pathogens/Roary/pull/189) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.4.1](https://github.com/sanger-pathogens/Roary/tree/v3.4.1) (2015-10-08) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.4.0...v3.4.1) + +**Implemented enhancements:** + +- Need protein lengths in the final spreadsheet [\#116](https://github.com/sanger-pathogens/Roary/issues/116) + +**Fixed bugs:** + +- Bio-RetrieveAssemblies-1.0.1 fails to install [\#151](https://github.com/sanger-pathogens/Roary/issues/151) + +**Merged pull requests:** + +- \* Proposed fix for CPANTS error. [\#187](https://github.com/sanger-pathogens/Roary/pull/187) ([manwar](https://github.com/manwar)) + +## [v3.4.0](https://github.com/sanger-pathogens/Roary/tree/v3.4.0) (2015-10-07) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.3.4...v3.4.0) + +**Merged pull requests:** + +- Extra columns in spreadsheet with gene lengths [\#186](https://github.com/sanger-pathogens/Roary/pull/186) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.3.4](https://github.com/sanger-pathogens/Roary/tree/v3.3.4) (2015-10-07) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.3.3...v3.3.4) + +**Closed issues:** + +- EXCEPTION: Bio::Root::Exception could not read ...faa.intermediate.extracted.fa [\#175](https://github.com/sanger-pathogens/Roary/issues/175) + +**Merged pull requests:** + +- increase dependancy RAM [\#185](https://github.com/sanger-pathogens/Roary/pull/185) ([andrewjpage](https://github.com/andrewjpage)) +- Use lsf for gene alignment [\#184](https://github.com/sanger-pathogens/Roary/pull/184) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.3.3](https://github.com/sanger-pathogens/Roary/tree/v3.3.3) (2015-09-29) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.3.2...v3.3.3) + +**Merged pull requests:** + +- dont align if sequences same length and nearly the same [\#183](https://github.com/sanger-pathogens/Roary/pull/183) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.3.2](https://github.com/sanger-pathogens/Roary/tree/v3.3.2) (2015-09-28) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.3.1...v3.3.2) + +**Implemented enhancements:** + +- Use of temporary folders and files [\#177](https://github.com/sanger-pathogens/Roary/issues/177) + +**Merged pull requests:** + +- Duplicate sequences in pan genome reference fasta [\#182](https://github.com/sanger-pathogens/Roary/pull/182) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.3.1](https://github.com/sanger-pathogens/Roary/tree/v3.3.1) (2015-09-25) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.3.0...v3.3.1) + +**Merged pull requests:** + +- Fix usage text [\#181](https://github.com/sanger-pathogens/Roary/pull/181) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.3.0](https://github.com/sanger-pathogens/Roary/tree/v3.3.0) (2015-09-24) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.2.9...v3.3.0) + +**Fixed bugs:** + +- Check at least 2 gff files have been passed in [\#171](https://github.com/sanger-pathogens/Roary/issues/171) +- Pentuple memory for worst case sCenario [\#170](https://github.com/sanger-pathogens/Roary/issues/170) +- 00\_requires\_external.t missing "mafft" ? [\#168](https://github.com/sanger-pathogens/Roary/issues/168) + +**Merged pull requests:** + +- Check dependancies [\#180](https://github.com/sanger-pathogens/Roary/pull/180) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.2.9](https://github.com/sanger-pathogens/Roary/tree/v3.2.9) (2015-09-23) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.2.8...v3.2.9) + +**Implemented enhancements:** + +- Add --outdir option to avoid blatting current directory [\#176](https://github.com/sanger-pathogens/Roary/issues/176) + +**Fixed bugs:** + +- CPAN install failure "unknown option mafft" [\#169](https://github.com/sanger-pathogens/Roary/issues/169) + +**Closed issues:** + +- Error "Cant open file: \_uninflated\_mcl\_groups" [\#179](https://github.com/sanger-pathogens/Roary/issues/179) + +**Merged pull requests:** + +- Add the option to specify an output directory [\#178](https://github.com/sanger-pathogens/Roary/pull/178) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.2.8](https://github.com/sanger-pathogens/Roary/tree/v3.2.8) (2015-09-23) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.2.7...v3.2.8) + +## [v3.2.7](https://github.com/sanger-pathogens/Roary/tree/v3.2.7) (2015-09-02) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.2.6...v3.2.7) + +**Merged pull requests:** + +- count paralogs correctly when looking for differences in datasets [\#174](https://github.com/sanger-pathogens/Roary/pull/174) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.2.6](https://github.com/sanger-pathogens/Roary/tree/v3.2.6) (2015-09-02) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.2.5...v3.2.6) + +**Merged pull requests:** + +- revert core tree generation [\#173](https://github.com/sanger-pathogens/Roary/pull/173) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.2.5](https://github.com/sanger-pathogens/Roary/tree/v3.2.5) (2015-08-17) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.2.4...v3.2.5) + +**Merged pull requests:** + +- Verbose stats [\#172](https://github.com/sanger-pathogens/Roary/pull/172) ([andrewjpage](https://github.com/andrewjpage)) +- dont set bioperl version [\#167](https://github.com/sanger-pathogens/Roary/pull/167) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.2.4](https://github.com/sanger-pathogens/Roary/tree/v3.2.4) (2015-07-23) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.2.3...v3.2.4) + +**Merged pull requests:** + +- update readme citation [\#165](https://github.com/sanger-pathogens/Roary/pull/165) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.2.3](https://github.com/sanger-pathogens/Roary/tree/v3.2.3) (2015-07-22) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.2.1...v3.2.3) + +**Merged pull requests:** + +- update citation message [\#164](https://github.com/sanger-pathogens/Roary/pull/164) ([andrewjpage](https://github.com/andrewjpage)) +- Pass mafft through to alignment [\#163](https://github.com/sanger-pathogens/Roary/pull/163) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.2.1](https://github.com/sanger-pathogens/Roary/tree/v3.2.1) (2015-07-21) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.2.0...v3.2.1) + +## [v3.2.0](https://github.com/sanger-pathogens/Roary/tree/v3.2.0) (2015-07-20) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.1.2...v3.2.0) + +**Merged pull requests:** + +- Use mafft [\#162](https://github.com/sanger-pathogens/Roary/pull/162) ([andrewjpage](https://github.com/andrewjpage)) +- output summary file [\#161](https://github.com/sanger-pathogens/Roary/pull/161) ([andrewjpage](https://github.com/andrewjpage)) +- Pass through dont delete flag [\#160](https://github.com/sanger-pathogens/Roary/pull/160) ([andrewjpage](https://github.com/andrewjpage)) +- Assembly statistics [\#159](https://github.com/sanger-pathogens/Roary/pull/159) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.1.2](https://github.com/sanger-pathogens/Roary/tree/v3.1.2) (2015-07-13) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/3.1.2...v3.1.2) + +## [3.1.2](https://github.com/sanger-pathogens/Roary/tree/3.1.2) (2015-07-13) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.1.1...3.1.2) + +**Fixed bugs:** + +- prank seg fault [\#157](https://github.com/sanger-pathogens/Roary/issues/157) + +**Merged pull requests:** + +- Core gene missing files [\#158](https://github.com/sanger-pathogens/Roary/pull/158) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.1.1](https://github.com/sanger-pathogens/Roary/tree/v3.1.1) (2015-06-26) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.1.0...v3.1.1) + +**Closed issues:** + +- sadaf [\#154](https://github.com/sanger-pathogens/Roary/issues/154) + +## [v3.1.0](https://github.com/sanger-pathogens/Roary/tree/v3.1.0) (2015-06-22) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.0.3...v3.1.0) + +**Merged pull requests:** + +- Accessory binary tree [\#155](https://github.com/sanger-pathogens/Roary/pull/155) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.0.3](https://github.com/sanger-pathogens/Roary/tree/v3.0.3) (2015-06-15) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.0.2...v3.0.3) + +**Fixed bugs:** + +- Annotation missing in set\_difference\_unique\_set\_one/two\_statistics.csv files [\#137](https://github.com/sanger-pathogens/Roary/issues/137) + +**Merged pull requests:** + +- when creating core gene alignment, lookup sample names to genes in sp… [\#153](https://github.com/sanger-pathogens/Roary/pull/153) ([andrewjpage](https://github.com/andrewjpage)) +- Only align core files [\#150](https://github.com/sanger-pathogens/Roary/pull/150) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.0.2](https://github.com/sanger-pathogens/Roary/tree/v3.0.2) (2015-06-12) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.0.1...v3.0.2) + +**Implemented enhancements:** + +- Print out the version number [\#119](https://github.com/sanger-pathogens/Roary/issues/119) + +**Merged pull requests:** + +- Mafft and exonerate dependancies [\#149](https://github.com/sanger-pathogens/Roary/pull/149) ([andrewjpage](https://github.com/andrewjpage)) +- Add a version parameter and add in marcos plots code [\#148](https://github.com/sanger-pathogens/Roary/pull/148) ([andrewjpage](https://github.com/andrewjpage)) + +## [v3.0.1](https://github.com/sanger-pathogens/Roary/tree/v3.0.1) (2015-06-12) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v3.0.0...v3.0.1) + +**Fixed bugs:** + +- Use of -e switch gives multifasta file with N's only [\#132](https://github.com/sanger-pathogens/Roary/issues/132) + +## [v3.0.0](https://github.com/sanger-pathogens/Roary/tree/v3.0.0) (2015-06-11) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.3.4...v3.0.0) + +**Merged pull requests:** + +- Use prank for core genome alignments [\#147](https://github.com/sanger-pathogens/Roary/pull/147) ([andrewjpage](https://github.com/andrewjpage)) +- Accessory graph [\#146](https://github.com/sanger-pathogens/Roary/pull/146) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.3.4](https://github.com/sanger-pathogens/Roary/tree/v2.3.4) (2015-06-10) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.3.3...v2.3.4) + +## [v2.3.3](https://github.com/sanger-pathogens/Roary/tree/v2.3.3) (2015-06-08) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.3.2...v2.3.3) + +**Merged pull requests:** + +- Simplify perl dependency installation [\#145](https://github.com/sanger-pathogens/Roary/pull/145) ([bewt85](https://github.com/bewt85)) +- Pan genome reference [\#144](https://github.com/sanger-pathogens/Roary/pull/144) ([andrewjpage](https://github.com/andrewjpage)) +- Fix input files with duplicate IDs [\#143](https://github.com/sanger-pathogens/Roary/pull/143) ([andrewjpage](https://github.com/andrewjpage)) +- Test against different versions of GNU Parallel [\#142](https://github.com/sanger-pathogens/Roary/pull/142) ([bewt85](https://github.com/bewt85)) + +## [v2.3.2](https://github.com/sanger-pathogens/Roary/tree/v2.3.2) (2015-06-08) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.3.1...v2.3.2) + +**Fixed bugs:** + +- GFF files derived from Prokka genbank raise errors [\#130](https://github.com/sanger-pathogens/Roary/issues/130) +- MSG: Got a sequence without letters. Could not guess alphabet [\#127](https://github.com/sanger-pathogens/Roary/issues/127) + +**Merged pull requests:** + +- TravisCI only wants the major and minor version of perl [\#141](https://github.com/sanger-pathogens/Roary/pull/141) ([bewt85](https://github.com/bewt85)) +- Add TravisCI support [\#140](https://github.com/sanger-pathogens/Roary/pull/140) ([bewt85](https://github.com/bewt85)) +- Use locus tag when ID is missing from GFF [\#139](https://github.com/sanger-pathogens/Roary/pull/139) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.3.1](https://github.com/sanger-pathogens/Roary/tree/v2.3.1) (2015-06-02) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.3.0...v2.3.1) + +**Merged pull requests:** + +- Extract IDs from GFF file using Bio::Perl [\#138](https://github.com/sanger-pathogens/Roary/pull/138) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.3.0](https://github.com/sanger-pathogens/Roary/tree/v2.3.0) (2015-06-01) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.2.6...v2.3.0) + +**Closed issues:** + +- "cpan" command reports Bio::Roary as version '\(undef\)' [\#134](https://github.com/sanger-pathogens/Roary/issues/134) + +## [v2.2.6](https://github.com/sanger-pathogens/Roary/tree/v2.2.6) (2015-06-01) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.2.4...v2.2.6) + +**Closed issues:** + +- No tagged release for 2.2.3 [\#133](https://github.com/sanger-pathogens/Roary/issues/133) +- Syntax \(?\) errors on perl 5.10.1 [\#128](https://github.com/sanger-pathogens/Roary/issues/128) + +**Merged pull requests:** + +- include version numbers for cpan [\#136](https://github.com/sanger-pathogens/Roary/pull/136) ([andrewjpage](https://github.com/andrewjpage)) +- New version number for contributed fix for issue \#128 [\#135](https://github.com/sanger-pathogens/Roary/pull/135) ([andrewjpage](https://github.com/andrewjpage)) +- gnu parallel switch for ubuntu [\#131](https://github.com/sanger-pathogens/Roary/pull/131) ([andrewjpage](https://github.com/andrewjpage)) +- Backward compatible deferencing of hashes [\#129](https://github.com/sanger-pathogens/Roary/pull/129) ([mgalardini](https://github.com/mgalardini)) + +## [v2.2.4](https://github.com/sanger-pathogens/Roary/tree/v2.2.4) (2015-05-29) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.2.3...v2.2.4) + +**Closed issues:** + +- ERROR: cannot remove directory for split\_groups [\#115](https://github.com/sanger-pathogens/Roary/issues/115) +- cleanup outputfiles [\#114](https://github.com/sanger-pathogens/Roary/issues/114) + +**Merged pull requests:** + +- Cleanup files [\#126](https://github.com/sanger-pathogens/Roary/pull/126) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.2.3](https://github.com/sanger-pathogens/Roary/tree/v2.2.3) (2015-05-21) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.2.2...v2.2.3) + +**Closed issues:** + +- Change QC so that it doesnt shred reads [\#117](https://github.com/sanger-pathogens/Roary/issues/117) +- QC doesnt work outside sanger [\#112](https://github.com/sanger-pathogens/Roary/issues/112) + +**Merged pull requests:** + +- Update Kraken QC [\#125](https://github.com/sanger-pathogens/Roary/pull/125) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.2.2](https://github.com/sanger-pathogens/Roary/tree/v2.2.2) (2015-05-21) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.2.0...v2.2.2) + +**Closed issues:** + +- Hard-coded Sanger paths in some scripts [\#124](https://github.com/sanger-pathogens/Roary/issues/124) +- You're missing some Perl dependancies [\#123](https://github.com/sanger-pathogens/Roary/issues/123) +- Add support for GFF files from NCBI [\#120](https://github.com/sanger-pathogens/Roary/issues/120) + +**Merged pull requests:** + +- Fix usage text [\#122](https://github.com/sanger-pathogens/Roary/pull/122) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.2.0](https://github.com/sanger-pathogens/Roary/tree/v2.2.0) (2015-05-14) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.1.2...v2.2.0) + +**Closed issues:** + +- Verbose output with -v [\#113](https://github.com/sanger-pathogens/Roary/issues/113) + +**Merged pull requests:** + +- Accept genbank files [\#121](https://github.com/sanger-pathogens/Roary/pull/121) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.1.2](https://github.com/sanger-pathogens/Roary/tree/v2.1.2) (2015-05-12) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.1.1...v2.1.2) + +**Merged pull requests:** + +- Verbose output [\#118](https://github.com/sanger-pathogens/Roary/pull/118) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.1.1](https://github.com/sanger-pathogens/Roary/tree/v2.1.1) (2015-04-29) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.0.9...v2.1.1) + +**Merged pull requests:** + +- pass core definition into number of conserved genes plot [\#111](https://github.com/sanger-pathogens/Roary/pull/111) ([andrewjpage](https://github.com/andrewjpage)) +- Vary core definition [\#110](https://github.com/sanger-pathogens/Roary/pull/110) ([andrewjpage](https://github.com/andrewjpage)) +- Use block quotes in readme [\#109](https://github.com/sanger-pathogens/Roary/pull/109) ([bewt85](https://github.com/bewt85)) + +## [v2.0.9](https://github.com/sanger-pathogens/Roary/tree/v2.0.9) (2015-04-20) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.0.8...v2.0.9) + +**Merged pull requests:** + +- Allow for multiple processors to be used [\#108](https://github.com/sanger-pathogens/Roary/pull/108) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.0.8](https://github.com/sanger-pathogens/Roary/tree/v2.0.8) (2015-04-09) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.0.7...v2.0.8) + +**Merged pull requests:** + +- Speedup [\#107](https://github.com/sanger-pathogens/Roary/pull/107) ([andrewjpage](https://github.com/andrewjpage)) +- new version 2.0.7 [\#106](https://github.com/sanger-pathogens/Roary/pull/106) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.0.7](https://github.com/sanger-pathogens/Roary/tree/v2.0.7) (2015-03-28) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.0.5...v2.0.7) + +**Merged pull requests:** + +- old splits [\#105](https://github.com/sanger-pathogens/Roary/pull/105) ([andrewjpage](https://github.com/andrewjpage)) +- Speedup split [\#104](https://github.com/sanger-pathogens/Roary/pull/104) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.0.5](https://github.com/sanger-pathogens/Roary/tree/v2.0.5) (2015-03-26) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/2.0.4...v2.0.5) + +**Merged pull requests:** + +- Stop deep recursion [\#103](https://github.com/sanger-pathogens/Roary/pull/103) ([andrewjpage](https://github.com/andrewjpage)) +- check programs installed [\#102](https://github.com/sanger-pathogens/Roary/pull/102) ([andrewjpage](https://github.com/andrewjpage)) + +## [2.0.4](https://github.com/sanger-pathogens/Roary/tree/2.0.4) (2015-03-23) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/2.0.3...2.0.4) + +**Merged pull requests:** + +- File slurp tiny [\#101](https://github.com/sanger-pathogens/Roary/pull/101) ([andrewjpage](https://github.com/andrewjpage)) +- version 2.0.3 [\#100](https://github.com/sanger-pathogens/Roary/pull/100) ([andrewjpage](https://github.com/andrewjpage)) + +## [2.0.3](https://github.com/sanger-pathogens/Roary/tree/2.0.3) (2015-03-17) +[Full Changelog](https://github.com/sanger-pathogens/Roary/compare/v2.0.0...2.0.3) + +**Merged pull requests:** + +- Remove LSF support [\#99](https://github.com/sanger-pathogens/Roary/pull/99) ([andrewjpage](https://github.com/andrewjpage)) +- Dont set LSF as the default runner [\#98](https://github.com/sanger-pathogens/Roary/pull/98) ([andrewjpage](https://github.com/andrewjpage)) +- Rename directories to Roary [\#97](https://github.com/sanger-pathogens/Roary/pull/97) ([andrewjpage](https://github.com/andrewjpage)) + +## [v2.0.0](https://github.com/sanger-pathogens/Roary/tree/v2.0.0) (2015-03-16) +**Merged pull requests:** + +- Ship binaries [\#96](https://github.com/sanger-pathogens/Roary/pull/96) ([andrewjpage](https://github.com/andrewjpage)) +- Pad merged multifastas when data is missing [\#95](https://github.com/sanger-pathogens/Roary/pull/95) ([carlacummins](https://github.com/carlacummins)) +- Subsample reads [\#94](https://github.com/sanger-pathogens/Roary/pull/94) ([andrewjpage](https://github.com/andrewjpage)) +- Merge Carlas CGN [\#93](https://github.com/sanger-pathogens/Roary/pull/93) ([andrewjpage](https://github.com/andrewjpage)) +- rename spreadsheet [\#92](https://github.com/sanger-pathogens/Roary/pull/92) ([andrewjpage](https://github.com/andrewjpage)) +- Refactor out fasta grep [\#91](https://github.com/sanger-pathogens/Roary/pull/91) ([andrewjpage](https://github.com/andrewjpage)) +- remove fasta\_grep [\#90](https://github.com/sanger-pathogens/Roary/pull/90) ([andrewjpage](https://github.com/andrewjpage)) +- Add gnu parallel support [\#89](https://github.com/sanger-pathogens/Roary/pull/89) ([andrewjpage](https://github.com/andrewjpage)) +- Updated create\_pan\_genome help text to include -qc option [\#88](https://github.com/sanger-pathogens/Roary/pull/88) ([carlacummins](https://github.com/carlacummins)) +- QC report option added [\#87](https://github.com/sanger-pathogens/Roary/pull/87) ([carlacummins](https://github.com/carlacummins)) +- increase blastp min memory to 3gb from 100 [\#86](https://github.com/sanger-pathogens/Roary/pull/86) ([andrewjpage](https://github.com/andrewjpage)) +- Remove fastatranslate dependancy [\#85](https://github.com/sanger-pathogens/Roary/pull/85) ([andrewjpage](https://github.com/andrewjpage)) +- Queue set to basement if number of samples \> 600 \(previously 800\) [\#84](https://github.com/sanger-pathogens/Roary/pull/84) ([carlacummins](https://github.com/carlacummins)) +- Bug fix [\#83](https://github.com/sanger-pathogens/Roary/pull/83) ([carlacummins](https://github.com/carlacummins)) +- Added verbose stats option [\#82](https://github.com/sanger-pathogens/Roary/pull/82) ([carlacummins](https://github.com/carlacummins)) +- Group limit changed to 50,000 [\#81](https://github.com/sanger-pathogens/Roary/pull/81) ([carlacummins](https://github.com/carlacummins)) +- Multifastas not created when group limit \(default 8000\) exceeded [\#80](https://github.com/sanger-pathogens/Roary/pull/80) ([carlacummins](https://github.com/carlacummins)) +- allow for translation table to be passed in [\#79](https://github.com/sanger-pathogens/Roary/pull/79) ([andrewjpage](https://github.com/andrewjpage)) +- increase memory [\#78](https://github.com/sanger-pathogens/Roary/pull/78) ([andrewjpage](https://github.com/andrewjpage)) +- Allow user specify sorting when reordering spreadsheet against a tree [\#77](https://github.com/sanger-pathogens/Roary/pull/77) ([andrewjpage](https://github.com/andrewjpage)) +- Bug fixing [\#76](https://github.com/sanger-pathogens/Roary/pull/76) ([carlacummins](https://github.com/carlacummins)) +- Added AUTHORS file [\#75](https://github.com/sanger-pathogens/Roary/pull/75) ([aslett1](https://github.com/aslett1)) +- if theres more than 1k samples use basement for default analysis [\#74](https://github.com/sanger-pathogens/Roary/pull/74) ([andrewjpage](https://github.com/andrewjpage)) +- use long queue for more than 200 samples [\#73](https://github.com/sanger-pathogens/Roary/pull/73) ([andrewjpage](https://github.com/andrewjpage)) +- core alignment gets run with lsf [\#72](https://github.com/sanger-pathogens/Roary/pull/72) ([andrewjpage](https://github.com/andrewjpage)) +- Job runner ids lsf [\#71](https://github.com/sanger-pathogens/Roary/pull/71) ([andrewjpage](https://github.com/andrewjpage)) +- Core alignment missing file [\#70](https://github.com/sanger-pathogens/Roary/pull/70) ([andrewjpage](https://github.com/andrewjpage)) +- Core alignment missing file [\#69](https://github.com/sanger-pathogens/Roary/pull/69) ([andrewjpage](https://github.com/andrewjpage)) +- update error reporting [\#68](https://github.com/sanger-pathogens/Roary/pull/68) ([andrewjpage](https://github.com/andrewjpage)) +- Create core alignment from spreadsheet and multifasta files [\#67](https://github.com/sanger-pathogens/Roary/pull/67) ([andrewjpage](https://github.com/andrewjpage)) +- make script executable [\#66](https://github.com/sanger-pathogens/Roary/pull/66) ([andrewjpage](https://github.com/andrewjpage)) +- script to merge multifasta files together [\#65](https://github.com/sanger-pathogens/Roary/pull/65) ([andrewjpage](https://github.com/andrewjpage)) +- rename output gene multfastas and pass all sequences through [\#64](https://github.com/sanger-pathogens/Roary/pull/64) ([andrewjpage](https://github.com/andrewjpage)) +- Align genes at protein level and back translate to nucleotides [\#63](https://github.com/sanger-pathogens/Roary/pull/63) ([andrewjpage](https://github.com/andrewjpage)) +- Depth first search for reordering spreadsheet [\#62](https://github.com/sanger-pathogens/Roary/pull/62) ([andrewjpage](https://github.com/andrewjpage)) +- make the iterative cdhit script useful for standalone use [\#61](https://github.com/sanger-pathogens/Roary/pull/61) ([andrewjpage](https://github.com/andrewjpage)) +- query\_pan\_genome\_update\_text [\#60](https://github.com/sanger-pathogens/Roary/pull/60) ([andrewjpage](https://github.com/andrewjpage)) +- fix failing tests [\#59](https://github.com/sanger-pathogens/Roary/pull/59) ([andrewjpage](https://github.com/andrewjpage)) +- Create plot for % blast identity [\#58](https://github.com/sanger-pathogens/Roary/pull/58) ([andrewjpage](https://github.com/andrewjpage)) +- add a flag to keep intermediate files [\#57](https://github.com/sanger-pathogens/Roary/pull/57) ([andrewjpage](https://github.com/andrewjpage)) +- set the known gene names to black and rest to colours [\#56](https://github.com/sanger-pathogens/Roary/pull/56) ([andrewjpage](https://github.com/andrewjpage)) +- print fragment blocks [\#55](https://github.com/sanger-pathogens/Roary/pull/55) ([andrewjpage](https://github.com/andrewjpage)) +- Fix ordering of accessory [\#54](https://github.com/sanger-pathogens/Roary/pull/54) ([andrewjpage](https://github.com/andrewjpage)) +- fix r plots [\#53](https://github.com/sanger-pathogens/Roary/pull/53) ([andrewjpage](https://github.com/andrewjpage)) +- Overlapping proteins [\#52](https://github.com/sanger-pathogens/Roary/pull/52) ([andrewjpage](https://github.com/andrewjpage)) +- Gene order [\#51](https://github.com/sanger-pathogens/Roary/pull/51) ([andrewjpage](https://github.com/andrewjpage)) +- pass job runner to iterative cdhit [\#50](https://github.com/sanger-pathogens/Roary/pull/50) ([andrewjpage](https://github.com/andrewjpage)) +- iterative cdhit in a job [\#49](https://github.com/sanger-pathogens/Roary/pull/49) ([andrewjpage](https://github.com/andrewjpage)) +- Fix tests [\#48](https://github.com/sanger-pathogens/Roary/pull/48) ([andrewjpage](https://github.com/andrewjpage)) +- Prefilter optimisation [\#47](https://github.com/sanger-pathogens/Roary/pull/47) ([andrewjpage](https://github.com/andrewjpage)) +- dont split groups [\#46](https://github.com/sanger-pathogens/Roary/pull/46) ([andrewjpage](https://github.com/andrewjpage)) +- rename create plots R script [\#45](https://github.com/sanger-pathogens/Roary/pull/45) ([andrewjpage](https://github.com/andrewjpage)) +- cdhit should output full description of sequence name [\#44](https://github.com/sanger-pathogens/Roary/pull/44) ([andrewjpage](https://github.com/andrewjpage)) +- Gene count plot [\#43](https://github.com/sanger-pathogens/Roary/pull/43) ([andrewjpage](https://github.com/andrewjpage)) +- align gene multifasta files using muscle [\#42](https://github.com/sanger-pathogens/Roary/pull/42) ([andrewjpage](https://github.com/andrewjpage)) +- Reorder spreadsheet [\#41](https://github.com/sanger-pathogens/Roary/pull/41) ([andrewjpage](https://github.com/andrewjpage)) +- Reorder spreadsheet [\#40](https://github.com/sanger-pathogens/Roary/pull/40) ([andrewjpage](https://github.com/andrewjpage)) +- Speedup post analysis [\#39](https://github.com/sanger-pathogens/Roary/pull/39) ([andrewjpage](https://github.com/andrewjpage)) +- Presence and absence of genes [\#38](https://github.com/sanger-pathogens/Roary/pull/38) ([andrewjpage](https://github.com/andrewjpage)) +- split big groups based on annotation [\#37](https://github.com/sanger-pathogens/Roary/pull/37) ([andrewjpage](https://github.com/andrewjpage)) +- make multifasta files easier to sort [\#36](https://github.com/sanger-pathogens/Roary/pull/36) ([andrewjpage](https://github.com/andrewjpage)) +- dont wait in lfs scheduler [\#35](https://github.com/sanger-pathogens/Roary/pull/35) ([andrewjpage](https://github.com/andrewjpage)) +- run post analysis as a job [\#34](https://github.com/sanger-pathogens/Roary/pull/34) ([andrewjpage](https://github.com/andrewjpage)) +- annotate the names of the groups files [\#33](https://github.com/sanger-pathogens/Roary/pull/33) ([andrewjpage](https://github.com/andrewjpage)) +- Output all sequences making up pan genome in multifasta files [\#32](https://github.com/sanger-pathogens/Roary/pull/32) ([andrewjpage](https://github.com/andrewjpage)) +- Run external applications through lsf [\#31](https://github.com/sanger-pathogens/Roary/pull/31) ([andrewjpage](https://github.com/andrewjpage)) +- remove done dependancy job [\#30](https://github.com/sanger-pathogens/Roary/pull/30) ([andrewjpage](https://github.com/andrewjpage)) +- blocking job [\#29](https://github.com/sanger-pathogens/Roary/pull/29) ([andrewjpage](https://github.com/andrewjpage)) +- Filter unknowns in LSF jobs [\#28](https://github.com/sanger-pathogens/Roary/pull/28) ([andrewjpage](https://github.com/andrewjpage)) +- Pass job runner through to extract gffs [\#27](https://github.com/sanger-pathogens/Roary/pull/27) ([andrewjpage](https://github.com/andrewjpage)) +- Change case of GFF commandline class [\#26](https://github.com/sanger-pathogens/Roary/pull/26) ([andrewjpage](https://github.com/andrewjpage)) +- use LSF to do the inital parsing of input files [\#25](https://github.com/sanger-pathogens/Roary/pull/25) ([andrewjpage](https://github.com/andrewjpage)) +- renamed LICENSE [\#24](https://github.com/sanger-pathogens/Roary/pull/24) ([CraigPorter](https://github.com/CraigPorter)) +- GPL [\#23](https://github.com/sanger-pathogens/Roary/pull/23) ([andrewjpage](https://github.com/andrewjpage)) +- lsf memory in mb [\#22](https://github.com/sanger-pathogens/Roary/pull/22) ([andrewjpage](https://github.com/andrewjpage)) +- low complexity filtering [\#21](https://github.com/sanger-pathogens/Roary/pull/21) ([andrewjpage](https://github.com/andrewjpage)) +- inflate clusters where the representative gene is not the first [\#20](https://github.com/sanger-pathogens/Roary/pull/20) ([andrewjpage](https://github.com/andrewjpage)) +- report more sequences from blastp [\#19](https://github.com/sanger-pathogens/Roary/pull/19) ([andrewjpage](https://github.com/andrewjpage)) +- update tests for different input processing [\#18](https://github.com/sanger-pathogens/Roary/pull/18) ([andrewjpage](https://github.com/andrewjpage)) +- speedup extracting proteins from gff [\#17](https://github.com/sanger-pathogens/Roary/pull/17) ([andrewjpage](https://github.com/andrewjpage)) +- sort spreadsheet by number of isolates [\#16](https://github.com/sanger-pathogens/Roary/pull/16) ([andrewjpage](https://github.com/andrewjpage)) +- create spreadsheets of differences between sets [\#15](https://github.com/sanger-pathogens/Roary/pull/15) ([andrewjpage](https://github.com/andrewjpage)) +- Output statistics on groups [\#14](https://github.com/sanger-pathogens/Roary/pull/14) ([andrewjpage](https://github.com/andrewjpage)) +- Find the difference between isolates [\#13](https://github.com/sanger-pathogens/Roary/pull/13) ([andrewjpage](https://github.com/andrewjpage)) +- check if group is null [\#12](https://github.com/sanger-pathogens/Roary/pull/12) ([andrewjpage](https://github.com/andrewjpage)) +- catch undef [\#11](https://github.com/sanger-pathogens/Roary/pull/11) ([andrewjpage](https://github.com/andrewjpage)) +- tests for create pan genome script [\#10](https://github.com/sanger-pathogens/Roary/pull/10) ([andrewjpage](https://github.com/andrewjpage)) +- label fasta sequences with annotation ID [\#9](https://github.com/sanger-pathogens/Roary/pull/9) ([andrewjpage](https://github.com/andrewjpage)) +- extract proteomes from gffs and transfer anntotation as part of script [\#8](https://github.com/sanger-pathogens/Roary/pull/8) ([andrewjpage](https://github.com/andrewjpage)) +- transfer annotation [\#7](https://github.com/sanger-pathogens/Roary/pull/7) ([andrewjpage](https://github.com/andrewjpage)) +- speedup searching fastas [\#6](https://github.com/sanger-pathogens/Roary/pull/6) ([andrewjpage](https://github.com/andrewjpage)) +- typo in memory estimation [\#5](https://github.com/sanger-pathogens/Roary/pull/5) ([andrewjpage](https://github.com/andrewjpage)) +- run mcl and inflate results [\#4](https://github.com/sanger-pathogens/Roary/pull/4) ([andrewjpage](https://github.com/andrewjpage)) +- vary memory usage according to input file size [\#3](https://github.com/sanger-pathogens/Roary/pull/3) ([andrewjpage](https://github.com/andrewjpage)) +- working on real data [\#2](https://github.com/sanger-pathogens/Roary/pull/2) ([andrewjpage](https://github.com/andrewjpage)) +- Initial functionality [\#1](https://github.com/sanger-pathogens/Roary/pull/1) ([andrewjpage](https://github.com/andrewjpage)) +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/Dockerfile Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,14 @@ +# +# From this base-image / starting-point +# +FROM debian:testing + +# +# Authorship +# +MAINTAINER ap13@sanger.ac.uk + +# +# Pull in packages from testing +# +RUN apt-get update -qq && apt-get install -y roary
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/GPL-LICENSE Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,680 @@ +This software is Copyright (c) 2013 by Wellcome Trust Sanger Institute. + +This is free software, licensed under: + + The GNU General Public License, Version 3, June 2007 + + GNU GENERAL PUBLIC LICENSE + Version 3, 29 June 2007 + + Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/> + Everyone is permitted to copy and distribute verbatim copies + of this license document, but changing it is not allowed. + + Preamble + + The GNU General Public License is a free, copyleft license for +software and other kinds of works. + + The licenses for most software and other practical works are designed +to take away your freedom to share and change the works. By contrast, +the GNU General Public License is intended to guarantee your freedom to +share and change all versions of a program--to make sure it remains free +software for all its users. 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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/README.md Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,219 @@ +# Roary - The pan genome pipeline +Takes annotated assemblies in GFF3 format and calculates the pan genome. + +PLEASE NOTE: we currently do not have the resources to provide support for Roary, so please do not expect a reply if you flag any issue. + +[](http://unmaintained.tech/) +[](https://travis-ci.org/sanger-pathogens/Roary) +[](https://github.com/sanger-pathogens/roary/blob/master/GPL-LICENSE) +[](https://academic.oup.com/bioinformatics/article/31/22/3691/240757) +[](http://bioconda.github.io/recipes/roary/README.html) +[](https://quay.io/repository/biocontainers/roary) +[](https://hub.docker.com/r/sangerpathogens/roary) +[](https://hub.docker.com/r/sangerpathogens/roary) +[](https://codecov.io/gh/sanger-pathogens/roary) + +## Contents + * [Introduction](#introduction) + * [Installation](#installation) + * [Required dependencies](#required-dependencies) + * [Optional dependencies](#optional-dependencies) + * [Ubuntu/Debian](#ubuntudebian) + * [Debian Testing](#debian-testing) + * [Ubuntu 14\.04/16\.04](#ubuntu-14041604) + * [Ubuntu 12\.04](#ubuntu-1204) + * [Bioconda \- OSX/Linux](#bioconda---osxlinux) + * [Galaxy](#galaxy) + * [GNU Guix](#gnu-guix) + * [Virtual Machine \- OSX/Linux/Windows](#virtual-machine---osxlinuxwindows) + * [Docker \- OSX/Linux/Windows/Cloud](#docker---osxlinuxwindowscloud) + * [Installing from source (advanced Linux users only)](#installing-from-source-advanced-linux-users-only) + * [Ancient systems and versions of perl](#ancient-systems-and-versions-of-perl) + * [Running the tests](#running-the-tests) + * [Versions of software we test against](#versions-of-software-we-test-against) + * [Usage](#usage) + * [License](#license) + * [Feedback/Issues](#feedbackissues) + * [Citation](#citation) + * [Further Information](#further-information) + +## Introduction +Roary is a high speed stand alone pan genome pipeline, which takes annotated assemblies in GFF3 format (produced by Prokka) and calculates the pan genome. Using a standard desktop PC, it can analyse datasets with thousands of samples, something which is computationally infeasible with existing methods, without compromising the quality of the results. 128 samples can be analysed in under 1 hour using 1 GB of RAM and a single processor. To perform this analysis using existing methods would take weeks and hundreds of GB of RAM. + +## Installation +Roary has the following dependencies: + +### Required dependencies +* [bedtools](https://bedtools.readthedocs.io/en/latest/) +* [cd-hit](http://weizhongli-lab.org/cd-hit/) +* [ncbi-blast+](https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=Download) +* [mcl](https://micans.org/mcl/) +* [parallel](https://www.gnu.org/software/parallel/) +* [prank](http://wasabiapp.org/software/prank/) +* [mafft](https://mafft.cbrc.jp/alignment/software/) +* [fasttree](http://www.microbesonline.org/fasttree/) + +### Optional dependencies +* [kraken](http://ccb.jhu.edu/software/kraken/MANUAL.html) + +There are a number of ways to install Roary and details are provided below. If you encounter an issue when installing Roary please contact your local system administrator. + +### Ubuntu/Debian +#### Debian Testing +``` +sudo apt-get install roary +``` + +#### Ubuntu 14.04/16.04 +All the dependancies can be installed using apt and cpanm. Root permissions are required. Ubuntu 16.04 contains a package for Roary but it is frozen at v3.6.0. + +``` +sudo apt-get install bedtools cd-hit ncbi-blast+ mcl parallel cpanminus prank mafft fasttree +sudo cpanm -f Bio::Roary +``` + +#### Ubuntu 12.04 +Some of the software versions in apt are quite old so follow the instructions for Bioconda below. + +### Bioconda - OSX/Linux +Install conda. Then install bioconda and roary: + +``` +conda config --add channels r +conda config --add channels defaults +conda config --add channels conda-forge +conda config --add channels bioconda +conda install roary +``` + +### Galaxy +Roary is available from the Galaxy toolshed (as is Prokka). + +### GNU Guix +Roary is included in [Guix](https://www.gnu.org/software/guix) and can be installed in the usual way: +``` +guix package --install roary +``` + +### Virtual Machine - OSX/Linux/Windows +Roary wont run natively on Windows but we have created virtual machine which has all of the software setup, including Prokka, along with the test datasets from the paper. It is based on [Bio-Linux 8](http://environmentalomics.org/bio-linux/). You need to first install [VirtualBox](https://www.virtualbox.org/), then load the virtual machine, using the 'File -> Import Appliance' menu option. The root password is 'manager'. + +ftp://ftp.sanger.ac.uk/pub/pathogens/pathogens-vm/pathogens-vm.latest.ova + +More importantly though, if you're trying to do bioinformatics on Windows, you're not going to get very far and you should seriously consider upgrading to Linux. + +### Docker - OSX/Linux/Windows/Cloud +We have a docker container which gets automatically built from the latest version of Roary in Debian Med. To install it: + +``` +docker pull sangerpathogens/roary +``` + +To use it you would use a command such as this (substituting in your directories), where your GFF files are assumed to be stored in /home/ubuntu/data: +``` +docker run --rm -it -v /home/ubuntu/data:/data sangerpathogens/roary roary -f /data /data/*.gff +``` + +### Installing from source (advanced Linux users only) +As a last resort you can install everything from source. This is for users with advanced Linux skills and we do not provide any support with this method since you have the skills to figure things out. +Download the latest software from (https://github.com/sanger-pathogens/Roary/tarball/master). + +Choose somewhere to put it, for example in your home directory (no root access required): + +``` +cd $HOME +tar zxvf sanger-pathogens-Roary-xxxxxx.tar.gz +ls Roary-* +``` + +Add the following lines to your $HOME/.bashrc file, or to /etc/profile.d/roary.sh to make it available to all users: + +``` +export PATH=$PATH:$HOME/Roary-x.x.x/bin +export PERL5LIB=$PERL5LIB:$HOME/Roary-x.x.x/lib +``` +Install the Perl dependencies: + +``` +sudo cpanm Array::Utils Bio::Perl Exception::Class File::Basename File::Copy File::Find::Rule File::Grep File::Path File::Slurper File::Spec File::Temp File::Which FindBin Getopt::Long Graph Graph::Writer::Dot List::Util Log::Log4perl Moose Moose::Role Text::CSV PerlIO::utf8_strict Devel::OverloadInfo Digest::MD5::File +``` +Install the external dependances either from source or from your packaging system: +``` +bedtools cd-hit blast mcl GNUparallel prank mafft fasttree +``` + +### Ancient systems and versions of perl +The code will not work with perl 5.8 or below (pre-modern perl). We no longer test against 5.10 (released 2007) or 5.12 (released 2010). If you're running a very old verison of Linux, you're also in trouble. + +### Running the tests +The test can be run with dzil from the top level directory: + +``` +dzil test +``` + +### Versions of software we test against +* Perl 5.14, 5.26 +* cdhit 4.6.8 +* ncbi blast+ 2.6.0 +* mcl 14-137 +* bedtools 2.27.1 +* prank 140603 +* GNU parallel 20170822, 20160722 +* FastTree 2.1.9 + +## Usage +``` +Usage: roary [options] *.gff + +Options: -p INT number of threads [1] + -o STR clusters output filename [clustered_proteins] + -f STR output directory [.] + -e create a multiFASTA alignment of core genes using PRANK + -n fast core gene alignment with MAFFT, use with -e + -i minimum percentage identity for blastp [95] + -cd FLOAT percentage of isolates a gene must be in to be core [99] + -qc generate QC report with Kraken + -k STR path to Kraken database for QC, use with -qc + -a check dependancies and print versions + -b STR blastp executable [blastp] + -c STR mcl executable [mcl] + -d STR mcxdeblast executable [mcxdeblast] + -g INT maximum number of clusters [50000] + -m STR makeblastdb executable [makeblastdb] + -r create R plots, requires R and ggplot2 + -s dont split paralogs + -t INT translation table [11] + -ap allow paralogs in core alignment + -z dont delete intermediate files + -v verbose output to STDOUT + -w print version and exit + -y add gene inference information to spreadsheet, doesnt work with -e + -iv STR Change the MCL inflation value [1.5] + -h this help message + +Example: Quickly generate a core gene alignment using 8 threads + roary -e --mafft -p 8 *.gff + +For further info see: http://sanger-pathogens.github.io/Roary/ +``` +For further instructions on how to use the software, the input format and output formats, please see [the Roary website](http://sanger-pathogens.github.io/Roary). + +## License +Roary is free software, licensed under [GPLv3](https://github.com/sanger-pathogens/Roary/blob/master/GPL-LICENSE). + +## Feedback/Issues +We currently do not have the resources to provide support for Roary. However, the community might be able to help you out if you report any issues about usage of the software to the [issues page](https://github.com/sanger-pathogens/Roary/issues). + +## Citation +If you use this software please cite: + + "Roary: Rapid large-scale prokaryote pan genome analysis", + Andrew J. Page, Carla A. Cummins, Martin Hunt, Vanessa K. Wong, Sandra Reuter, Matthew T. G. Holden, Maria Fookes, Daniel Falush, Jacqueline A. Keane, Julian Parkhill, + Bioinformatics, (2015). doi: http://dx.doi.org/10.1093/bioinformatics/btv421 +[Roary: Rapid large-scale prokaryote pan genome analysis](http://dx.doi.org/10.1093/bioinformatics/btv421) + +## Further Information +For more information on this software see: +* [The Roary website](http://sanger-pathogens.github.io/Roary) +* [The Jupyter notebook tutorial](https://github.com/sanger-pathogens/pathogen-informatics-training)
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/create_pan_genome Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::CreatePanGenome; + +# ABSTRACT: Create a pan genome from a set of GFF files with WTSI defaults +# PODNAME: create_pan_genome + +=head1 SYNOPSIS + +Create a pan genome from a set of GFF files with WTSI defaults + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::CreatePanGenome; + +Bio::Roary::CommandLine::CreatePanGenome->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/create_pan_genome_plots.R Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,59 @@ +#!/usr/bin/env Rscript +# ABSTRACT: Create R plots +# PODNAME: create_plots.R +# Take the output files from the pan genome pipeline and create nice plots. +library(ggplot2) + + +mydata = read.table("number_of_new_genes.Rtab") +boxplot(mydata, data=mydata, main="Number of new genes", + xlab="No. of genomes", ylab="No. of genes",varwidth=TRUE, ylim=c(0,max(mydata)), outline=FALSE) + +mydata = read.table("number_of_conserved_genes.Rtab") +boxplot(mydata, data=mydata, main="Number of conserved genes", + xlab="No. of genomes", ylab="No. of genes",varwidth=TRUE, ylim=c(0,max(mydata)), outline=FALSE) + +mydata = read.table("number_of_genes_in_pan_genome.Rtab") +boxplot(mydata, data=mydata, main="No. of genes in the pan-genome", + xlab="No. of genomes", ylab="No. of genes",varwidth=TRUE, ylim=c(0,max(mydata)), outline=FALSE) + +mydata = read.table("number_of_unique_genes.Rtab") +boxplot(mydata, data=mydata, main="Number of unique genes", + xlab="No. of genomes", ylab="No. of genes",varwidth=TRUE, ylim=c(0,max(mydata)), outline=FALSE) + +mydata = read.table("blast_identity_frequency.Rtab") +plot(mydata,main="Number of blastp hits with different percentage identity", xlab="Blast percentage identity", ylab="No. blast results") + + +library(ggplot2) +conserved = colMeans(read.table("number_of_conserved_genes.Rtab")) +total = colMeans(read.table("number_of_genes_in_pan_genome.Rtab")) + +genes = data.frame( genes_to_genomes = c(conserved,total), + genomes = c(c(1:length(conserved)),c(1:length(conserved))), + Key = c(rep("Conserved genes",length(conserved)), rep("Total genes",length(total))) ) + +ggplot(data = genes, aes(x = genomes, y = genes_to_genomes, group = Key, linetype=Key)) +geom_line()+ +theme_classic() + +ylim(c(1,max(total)))+ +xlim(c(1,length(total)))+ +xlab("No. of genomes") + +ylab("No. of genes")+ theme_bw(base_size = 16) + theme(legend.justification=c(0,1),legend.position=c(0,1))+ +ggsave(filename="conserved_vs_total_genes.png", scale=1) + +###################### + +unique_genes = colMeans(read.table("number_of_unique_genes.Rtab")) +new_genes = colMeans(read.table("number_of_new_genes.Rtab")) + +genes = data.frame( genes_to_genomes = c(unique_genes,new_genes), + genomes = c(c(1:length(unique_genes)),c(1:length(unique_genes))), + Key = c(rep("Unique genes",length(unique_genes)), rep("New genes",length(new_genes))) ) + +ggplot(data = genes, aes(x = genomes, y = genes_to_genomes, group = Key, linetype=Key)) +geom_line()+ +theme_classic() + +ylim(c(1,max(unique_genes)))+ +xlim(c(1,length(unique_genes)))+ +xlab("No. of genomes") + +ylab("No. of genes")+ theme_bw(base_size = 16) + theme(legend.justification=c(1,1),legend.position=c(1,1))+ +ggsave(filename="unique_vs_new_genes.png", scale=1)
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/extract_proteome_from_gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::ExtractProteomeFromGFF; + +# ABSTRACT: Take in GFF files and output the proteome +# PODNAME: extract_proteome_from_gff + +=head1 SYNOPSIS + +Take in GFF files and output the proteome + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::ExtractProteomeFromGff; + +Bio::Roary::CommandLine::ExtractProteomeFromGff->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/iterative_cdhit Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::IterativeCdhit; + +# ABSTRACT: Iteratively run cdhit +# PODNAME: iterative_cdhit + +=head1 SYNOPSIS + +Iteratively run cdhit + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::IterativeCdhit; + +Bio::Roary::CommandLine::IterativeCdhit->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/pan_genome_assembly_statistics Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::AssemblyStatistics; + +# ABSTRACT: Given a spreadsheet of gene presence and absence calculate some statistics +# PODNAME: pan_genome_assembly_statistics + +=head1 SYNOPSIS + +Given a spreadsheet of gene presence and absence calculate some statistics + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::AssemblyStatistics; + +Bio::Roary::CommandLine::AssemblyStatistics->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/pan_genome_core_alignment Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::RoaryCoreAlignment; + +# ABSTRACT: Take in the group statistics spreadsheet and the location of the gene multifasta files and create a core alignment. +# PODNAME: pan_genome_core_alignment + +=head1 SYNOPSIS + + Take in the group statistics spreadsheet and the location of the gene multifasta files and create a core alignment. + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::RoaryCoreAlignment; + +Bio::Roary::CommandLine::RoaryCoreAlignment->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/pan_genome_post_analysis Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::RoaryPostAnalysis; + +# ABSTRACT: Perform the post analysis on the pan genome +# PODNAME: pan_genome_post_analysis + +=head1 SYNOPSIS + +Perform the post analysis on the pan genome + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::RoaryPostAnalysis; + +Bio::Roary::CommandLine::RoaryPostAnalysis->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/pan_genome_reorder_spreadsheet Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::RoaryReorderSpreadsheet; + +# ABSTRACT: Take in a tree and a spreadsheet and output a reordered spreadsheet +# PODNAME: pan_genome_reorder_spreadsheet + +=head1 SYNOPSIS + +Take in a tree and a spreadsheet and output a reordered spreadsheet + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::RoaryReorderSpreadsheet; + +Bio::Roary::CommandLine::RoaryReorderSpreadsheet->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/parallel_all_against_all_blastp Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::ParallelAllAgainstAllBlastp; + +# ABSTRACT: Take in a FASTA file of proteins and blast against itself +# PODNAME: parallel_all_against_all_blastp + +=head1 SYNOPSIS + +Take in a FASTA file of proteins and blast against itself + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::ParallelAllAgainstAllBlastp; + +Bio::Roary::CommandLine::ParallelAllAgainstAllBlastp->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/protein_alignment_from_nucleotides Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::GeneAlignmentFromNucleotides; + +# ABSTRACT: Take in multi-FASTA files of nucleotides and align each file with PRANK or MAFFT +# PODNAME: protein_alignment_from_nucleotides + +=head1 SYNOPSIS + +Take in multi-FASTA files of nucleotides and align each file with PRANK or MAFFT + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::GeneAlignmentFromNucleotides; + +Bio::Roary::CommandLine::GeneAlignmentFromNucleotides->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/query_pan_genome Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::QueryRoary; + +# ABSTRACT: Take in a groups file and the protein fasta files and output selected data +# PODNAME: query_pan_genome + +=head1 SYNOPSIS + +Take in a groups file and the protein fasta files and output selected data + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::QueryRoary; + +Bio::Roary::CommandLine::QueryRoary->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/roary Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::Roary; + +# ABSTRACT: Create a pan genome from a set of GFF files +# PODNAME: roary + +=head1 SYNOPSIS + +Create a pan genome from a set of GFF files + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::Roary; + +Bio::Roary::CommandLine::Roary->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/roary-create_pan_genome_plots.R Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,59 @@ +#!/usr/bin/env Rscript +# ABSTRACT: Create R plots +# PODNAME: create_plots.R +# Take the output files from the pan genome pipeline and create nice plots. +library(ggplot2) + + +mydata = read.table("number_of_new_genes.Rtab") +boxplot(mydata, data=mydata, main="Number of new genes", + xlab="No. of genomes", ylab="No. of genes",varwidth=TRUE, ylim=c(0,max(mydata)), outline=FALSE) + +mydata = read.table("number_of_conserved_genes.Rtab") +boxplot(mydata, data=mydata, main="Number of conserved genes", + xlab="No. of genomes", ylab="No. of genes",varwidth=TRUE, ylim=c(0,max(mydata)), outline=FALSE) + +mydata = read.table("number_of_genes_in_pan_genome.Rtab") +boxplot(mydata, data=mydata, main="No. of genes in the pan-genome", + xlab="No. of genomes", ylab="No. of genes",varwidth=TRUE, ylim=c(0,max(mydata)), outline=FALSE) + +mydata = read.table("number_of_unique_genes.Rtab") +boxplot(mydata, data=mydata, main="Number of unique genes", + xlab="No. of genomes", ylab="No. of genes",varwidth=TRUE, ylim=c(0,max(mydata)), outline=FALSE) + +mydata = read.table("blast_identity_frequency.Rtab") +plot(mydata,main="Number of blastp hits with different percentage identity", xlab="Blast percentage identity", ylab="No. blast results") + + +library(ggplot2) +conserved = colMeans(read.table("number_of_conserved_genes.Rtab")) +total = colMeans(read.table("number_of_genes_in_pan_genome.Rtab")) + +genes = data.frame( genes_to_genomes = c(conserved,total), + genomes = c(c(1:length(conserved)),c(1:length(conserved))), + Key = c(rep("Conserved genes",length(conserved)), rep("Total genes",length(total))) ) + +ggplot(data = genes, aes(x = genomes, y = genes_to_genomes, group = Key, linetype=Key)) +geom_line()+ +theme_classic() + +ylim(c(1,max(total)))+ +xlim(c(1,length(total)))+ +xlab("No. of genomes") + +ylab("No. of genes")+ theme_bw(base_size = 16) + theme(legend.justification=c(0,1),legend.position=c(0,1))+ +ggsave(filename="conserved_vs_total_genes.png", scale=1) + +###################### + +unique_genes = colMeans(read.table("number_of_unique_genes.Rtab")) +new_genes = colMeans(read.table("number_of_new_genes.Rtab")) + +genes = data.frame( genes_to_genomes = c(unique_genes,new_genes), + genomes = c(c(1:length(unique_genes)),c(1:length(unique_genes))), + Key = c(rep("Unique genes",length(unique_genes)), rep("New genes",length(new_genes))) ) + +ggplot(data = genes, aes(x = genomes, y = genes_to_genomes, group = Key, linetype=Key)) +geom_line()+ +theme_classic() + +ylim(c(1,max(unique_genes)))+ +xlim(c(1,length(unique_genes)))+ +xlab("No. of genomes") + +ylab("No. of genes")+ theme_bw(base_size = 16) + theme(legend.justification=c(1,1),legend.position=c(1,1))+ +ggsave(filename="unique_vs_new_genes.png", scale=1)
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/roary-pan_genome_reorder_spreadsheet Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::RoaryReorderSpreadsheet; + +# ABSTRACT: Take in a tree and a spreadsheet and output a reordered spreadsheet +# PODNAME: pan_genome_reorder_spreadsheet + +=head1 SYNOPSIS + +Take in a tree and a spreadsheet and output a reordered spreadsheet + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::RoaryReorderSpreadsheet; + +Bio::Roary::CommandLine::RoaryReorderSpreadsheet->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/roary-query_pan_genome Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::QueryRoary; + +# ABSTRACT: Take in a groups file and the protein fasta files and output selected data +# PODNAME: query_pan_genome + +=head1 SYNOPSIS + +Take in a groups file and the protein fasta files and output selected data + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::QueryRoary; + +Bio::Roary::CommandLine::QueryRoary->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/roary-unique_genes_per_sample Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::UniqueGenesPerSample; + +# ABSTRACT: Take in the clustered file and produce a sorted file with the frequency of each samples unique genes +# PODNAME: roary-unique_genes_per_sample + +=head1 SYNOPSIS + +Take in the clustered file and produce a sorted file with the frequency of each samples unique genes + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::UniqueGenesPerSample; + +Bio::Roary::CommandLine::UniqueGenesPerSample->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/bin/transfer_annotation_to_groups Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +#!/usr/bin/env perl + +package Bio::Roary::Main::TransferAnnotationToGroups; + +# ABSTRACT: Take in a groups file and a set of GFF files and transfer the consensus annotation +# PODNAME: transfer_annotation_to_groups + +=head1 SYNOPSIS + +Take in a groups file and a set of GFF files and transfer the consensus annotation + +=cut + +use Cwd qw(abs_path); +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +use Bio::Roary::CommandLine::TransferAnnotationToGroups; + +Bio::Roary::CommandLine::TransferAnnotationToGroups->new(args => \@ARGV, script_name => $0)->run;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/contrib/roary2svg/roary2svg.pl Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,147 @@ +#!/usr/bin/env perl +# From Torsten Seemann commit f46312e9df539c56b058f0ef25479d7297ceec89 +# https://raw.githubusercontent.com/tseemann/nullarbor/master/bin/roary2svg.pl +use warnings; +use strict; +use Data::Dumper; +use List::Util qw(min max sum); +use List::MoreUtils qw(uniq all any); +use Text::CSV; +use SVG; + +use constant FONT_ASPECT => 0.8; + +my(@Options, $verbose, $taxacol, $width, $height, $acconly, + $consensus, $border, $colour, $sepcolour); +setOptions(); + +# read gene_presence_absence.csv from stdin +# "Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","SRR2352235","SRR2352236","SRR2352237","SRR2352238","SRR2352239","SRR2352240","SRR2352241","SRR2352242","SRR2352243","SRR2352244","SRR2352245","SRR2352246","SRR2352247","SRR2352248","SRR2352249","SRR2352250","SRR2352251","SRR2352252" +my $csv = Text::CSV->new() or die $!; +my $count=0; +my @matrix; +my @id; +my $N; +my $C=0; +my @tally; # genes per taxon +my @is_core; # boolean for this cluster being core + +while (my $row = $csv->getline(\*ARGV) ) { + if ($count == 0) { + @id = splice @$row, $taxacol; + $N = scalar(@id); + print STDERR "Found $N taxa: @id\n"; + } + else { + my @present = map { $row->[$taxacol+$_] ? 1 : 0 } (0 .. $N-1); + my $num_present = sum(@present); + $is_core[$count] = ($num_present == $N); + next if $acconly and $is_core[$count]; +# next if $panonly and all { $_==1 } @present; + push @{ $matrix[$_] }, $present[$_] for (0 .. $N-1); + $tally[$_] += $present[$_] for (0 .. $N-1); + $C++; + } + $count++; +} +print STDERR "Found $C clusters.\n"; + +my $real_height = $height*($N+1); +my $svg = SVG->new(width=>$width, height=>$real_height); +my $dy = $height; +my $fontsize = 0.75 * $dy; + +my $lchars = max( map { length($_) } @id ); +my $llen = $fontsize * (1 + $lchars) * FONT_ASPECT; + +my $rchars = max( map { length("$_") } @tally); +my $rlen = $fontsize * (1 + $rchars) * FONT_ASPECT; + +my $width2 = $width - $llen - $rlen; +my $dx = $width2 / $C; +my $font_style = { 'font-family'=>'sans-serif', 'fill'=>'black', 'font-size'=>$fontsize }; + +print STDERR "Box = $dx x $dy px\n"; +print STDERR "Left label = $lchars chr x $fontsize px\n"; +print STDERR "Right label = $rchars chr x $fontsize px\n"; + +for my $j (0 .. $N-1) { + for my $i (0 .. $C-1) { +# print STDERR "$j $i $matrix[$j][$i]\n"; + if ($matrix[$j][$i]) { + # box for each present gene + $svg->rectangle( + 'x' => $llen+$i*$dx, 'y' => $j*$dy, 'width' => $dx, 'height' => $dy-1, + 'style' => { fill=>$colour, opacity=>($is_core[$i] ? 1 : 0.75) }, + ); + } + } + # taxon label for each row + $svg->text( x=>$fontsize, y=>($j+0.75)*$dy, -cdata=>$id[$j], style=>$font_style ); + # number of genes for each row + $svg->text( x=>$llen+$width2+$fontsize, y=>($j+0.75)*$dy, -cdata=>$tally[$j], style=>$font_style ); + # separator line + my $ypos = ($j+1)*$dy; + $svg->line( x1=>0, y1=>$ypos, x2=>$width, y2=>$ypos, style=>{stroke=>$sepcolour}); +} + +# bottom label +my $bottom_text = "$N taxa, $C clusters"; +$bottom_text .= $acconly ? " (accessory only)" : " (core + accessory)"; +$svg->text( x=>$llen, y=>($N+0.75)*$dy, -cdata=>$bottom_text, style=>$font_style ); + +# border +if ($border) { + $svg->rectangle( + 'x' => 0, 'y' => 0, 'width' => $width, 'height' => $real_height, + 'style' => { stroke=>$sepcolour, fill=>'none' }, + ); +} + +print STDERR "Writing SVG file\n"; +print STDOUT $svg->xmlify; + +print STDERR "Done.\n"; + +#---------------------------------------------------------------------- +# Option setting routines + +sub setOptions { + use Getopt::Long; + + @Options = ( + {OPT=>"help", VAR=>\&usage, DESC=>"This help"}, + {OPT=>"verbose!", VAR=>\$verbose, DEFAULT=>0, DESC=>"Verbose output"}, + {OPT=>"width=i", VAR=>\$width, DEFAULT=>1024, DESC=>"Canvas width"}, + {OPT=>"height=i", VAR=>\$height, DEFAULT=>20, DESC=>"Row height"}, + {OPT=>"taxacolumn=i", VAR=>\$taxacol, DEFAULT=>14, DESC=>"Column in gpa.csv where taxa begin"}, + {OPT=>"colour=s", VAR=>\$colour, DEFAULT=>'DimGray', DESC=>"Colour of core cells"}, + {OPT=>"sepcolour=s", VAR=>\$sepcolour, DEFAULT=>'LightGray', DESC=>"Colour of horizontal separators/borders"}, + {OPT=>"acconly!", VAR=>\$acconly, DEFAULT=>0, DESC=>"Only draw accessory (non-core) genes"}, +# {OPT=>"consensus!", VAR=>\$consensus, DEFAULT=>0, DESC=>"Add consensus row"}, + {OPT=>"border!", VAR=>\$border, DEFAULT=>0, DESC=>"Add outline border"}, + ); + + (!@ARGV) && (usage()); + + &GetOptions(map {$_->{OPT}, $_->{VAR}} @Options) || usage(); + + # Now setup default values. + foreach (@Options) { + if (defined($_->{DEFAULT}) && !defined(${$_->{VAR}})) { + ${$_->{VAR}} = $_->{DEFAULT}; + } + } +} + +sub usage { + print "Usage: $0 [options] gene_presence_absence.csv > pan_genome.svg\n"; + foreach (@Options) { + printf " --%-13s %s%s.\n",$_->{OPT},$_->{DESC}, + defined($_->{DEFAULT}) ? " (default '$_->{DEFAULT}')" : ""; + } + exit(1); +} + +#---------------------------------------------------------------------- +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/contrib/roary_plots/README.md Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,20 @@ +#Roary plots +Marco Galardini (marco@ebi.ac.uk) has prepared an ipython notebook which can take in a tree (newick) and the gene presence and absence spreadsheet, and generate some nice plots. + +The dependancies are: +- python (2 or 3) +- Biopython +- numpy +- pandas +- matplotlib +- seaborn + +Usage: +``` +python roary_plots.py my_tree.tre gene_presence_absence.csv +``` + +The images it produces are: +* A pan genome frequency plot +* A presence and absence matrix against a tree +* A piechart of the pan genome, breaking down the core, soft core, shell and cloud.
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/contrib/roary_plots/roary.html Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,600 @@ +<!DOCTYPE html> +<!-- saved from url=(0038)http://www.ebi.ac.uk/~marco/roary.html --> +<html class=""><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"> + +<meta charset="utf-8"> +<title>roary</title> + +<script src="./roary_files/require.min.js"></script> +<script src="./roary_files/jquery.min.js"></script> + +<style type="text/css"> + /*! +* +* Twitter Bootstrap +* +*//*! normalize.css v3.0.2 | MIT License | git.io/normalize */html{font-family:sans-serif;-ms-text-size-adjust:100%;-webkit-text-size-adjust:100%}body{margin:0}article,aside,details,figcaption,figure,footer,header,hgroup,main,menu,nav,section,summary{display:block}audio,canvas,progress,video{display:inline-block;vertical-align:baseline}audio:not([controls]){display:none;height:0}[hidden],template{display:none}a{background-color:transparent}a:active,a:hover{outline:0}abbr[title]{border-bottom:1px dotted}b,strong{font-weight:bold}dfn{font-style:italic}h1{font-size:2em;margin:.67em 0}mark{background:#ff0;color:#000}small{font-size:80%}sub,sup{font-size:75%;line-height:0;position:relative;vertical-align:baseline}sup{top:-0.5em}sub{bottom:-0.25em}img{border:0}svg:not(:root){overflow:hidden}figure{margin:1em 40px}hr{-moz-box-sizing:content-box;box-sizing:content-box;height:0}pre{overflow:auto}code,kbd,pre,samp{font-family:monospace,monospace;font-size:1em}button,input,optgroup,select,textarea{color:inherit;font:inherit;margin:0}button{overflow:visible}button,select{text-transform:none}button,html input[type="button"],input[type="reset"],input[type="submit"]{-webkit-appearance:button;cursor:pointer}button[disabled],html input[disabled]{cursor:default}button::-moz-focus-inner,input::-moz-focus-inner{border:0;padding:0}input{line-height:normal}input[type="checkbox"],input[type="radio"]{box-sizing:border-box;padding:0}input[type="number"]::-webkit-inner-spin-button,input[type="number"]::-webkit-outer-spin-button{height:auto}input[type="search"]{-webkit-appearance:textfield;-moz-box-sizing:content-box;-webkit-box-sizing:content-box;box-sizing:content-box}input[type="search"]::-webkit-search-cancel-button,input[type="search"]::-webkit-search-decoration{-webkit-appearance:none}fieldset{border:1px solid #c0c0c0;margin:0 2px;padding:.35em .625em .75em}legend{border:0;padding:0}textarea{overflow:auto}optgroup{font-weight:bold}table{border-collapse:collapse;border-spacing:0}td,th{padding:0}/*! 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-moz-transform: scaleX(.6); -ms-transform: scaleX(.6); -o-transform: scaleX(.6); transform: scaleX(.6)} +.MJXc-scale7 {-webkit-transform: scaleX(.7); -moz-transform: scaleX(.7); -ms-transform: scaleX(.7); -o-transform: scaleX(.7); transform: scaleX(.7)} +.MJXc-scale8 {-webkit-transform: scaleX(.8); -moz-transform: scaleX(.8); -ms-transform: scaleX(.8); -o-transform: scaleX(.8); transform: scaleX(.8)} +.MJXc-scale9 {-webkit-transform: scaleX(.9); -moz-transform: scaleX(.9); -ms-transform: scaleX(.9); -o-transform: scaleX(.9); transform: scaleX(.9)} +.MathJax_CHTML .noError {vertical-align: ; font-size: 90%; text-align: left; color: black; padding: 1px 3px; border: 1px solid} +</style></head> + + +<body><div id="MathJax_Message" style="display: none;"></div> + <div tabindex="-1" id="notebook" class="border-box-sizing"> + <div class="container" id="notebook-container"> + +<div class="cell border-box-sizing text_cell rendered"> +<div class="prompt input_prompt"> +</div> +<div class="inner_cell"> +<div class="text_cell_render border-box-sizing rendered_html"> +<h1 id="Roary-pangenome-plots">Roary pangenome plots<a class="anchor-link" href="http://www.ebi.ac.uk/~marco/roary.html#Roary-pangenome-plots">¶</a></h1> +</div> +</div> +</div> +<div class="cell border-box-sizing text_cell rendered"> +<div class="prompt input_prompt"> +</div> +<div class="inner_cell"> +<div class="text_cell_render border-box-sizing rendered_html"> +<h6><a href="javascript:toggle()" target="_self">Toggle source code</a></h6> +</div> +</div> +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [1]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># Plotting imports</span> +<span class="o">%</span><span class="k">matplotlib</span> inline + +<span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="kn">as</span> <span class="nn">plt</span> +<span class="kn">import</span> <span class="nn">seaborn</span> <span class="kn">as</span> <span class="nn">sns</span> + +<span class="n">sns</span><span class="o">.</span><span class="n">set_style</span><span class="p">(</span><span class="s">'white'</span><span class="p">)</span> +</pre></div> + +</div> +</div> +</div> + +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [2]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># Other imports</span> +<span class="kn">import</span> <span class="nn">os</span> +<span class="kn">import</span> <span class="nn">pandas</span> <span class="kn">as</span> <span class="nn">pd</span> +<span class="kn">import</span> <span class="nn">numpy</span> <span class="kn">as</span> <span class="nn">np</span> +<span class="kn">from</span> <span class="nn">Bio</span> <span class="kn">import</span> <span class="n">Phylo</span> +</pre></div> + +</div> +</div> +</div> + +</div> +<div class="cell border-box-sizing text_cell rendered"> +<div class="prompt input_prompt"> +</div> +<div class="inner_cell"> +<div class="text_cell_render border-box-sizing rendered_html"> +<h2 id="parSNP-tree">parSNP tree<a class="anchor-link" href="http://www.ebi.ac.uk/~marco/roary.html#parSNP-tree">¶</a></h2><p>Any other valid newick file is fine, if the tip labels is the same as in the gene_presence_absence matrix from roary.</p> + +</div> +</div> +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [3]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="n">t</span> <span class="o">=</span> <span class="n">Phylo</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="s">'parsnp.tree'</span><span class="p">,</span> <span class="s">'newick'</span><span class="p">)</span> +</pre></div> + +</div> +</div> +</div> + +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [4]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># Max distance to create better plots</span> +<span class="n">mdist</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([</span><span class="n">t</span><span class="o">.</span><span class="n">distance</span><span class="p">(</span><span class="n">t</span><span class="o">.</span><span class="n">root</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">t</span><span class="o">.</span><span class="n">get_terminals</span><span class="p">()])</span> +</pre></div> + +</div> +</div> +</div> + +</div> +<div class="cell border-box-sizing text_cell rendered"> +<div class="prompt input_prompt"> +</div> +<div class="inner_cell"> +<div class="text_cell_render border-box-sizing rendered_html"> +<h2 id="Roary">Roary<a class="anchor-link" href="http://www.ebi.ac.uk/~marco/roary.html#Roary">¶</a></h2> +</div> +</div> +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [5]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># Load roary</span> +<span class="n">roary</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_table</span><span class="p">(</span><span class="s">'gene_presence_absence.csv'</span><span class="p">,</span> + <span class="n">sep</span><span class="o">=</span><span class="s">','</span><span class="p">,</span> + <span class="n">low_memory</span><span class="o">=</span><span class="bp">False</span><span class="p">)</span> +<span class="c"># Set index (group name)</span> +<span class="n">roary</span><span class="o">.</span><span class="n">set_index</span><span class="p">(</span><span class="s">'Gene'</span><span class="p">,</span> <span class="n">inplace</span><span class="o">=</span><span class="bp">True</span><span class="p">)</span> +<span class="c"># Drop the other info columns</span> +<span class="n">roary</span><span class="o">.</span><span class="n">drop</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">roary</span><span class="o">.</span><span class="n">columns</span><span class="p">[:</span><span class="mi">13</span><span class="p">]),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">inplace</span><span class="o">=</span><span class="bp">True</span><span class="p">)</span> +</pre></div> + +</div> +</div> +</div> + +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [6]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># Transform it in a presence/absence matrix (1/0)</span> +<span class="n">roary</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s">'.{2,100}'</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">regex</span><span class="o">=</span><span class="bp">True</span><span class="p">,</span> <span class="n">inplace</span><span class="o">=</span><span class="bp">True</span><span class="p">)</span> +<span class="n">roary</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">nan</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">regex</span><span class="o">=</span><span class="bp">True</span><span class="p">,</span> <span class="n">inplace</span><span class="o">=</span><span class="bp">True</span><span class="p">)</span> +</pre></div> + +</div> +</div> +</div> + +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [7]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># Sort the matrix by the sum of strains presence</span> +<span class="n">idx</span> <span class="o">=</span> <span class="n">roary</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span><span class="o">.</span><span class="n">sort_values</span><span class="p">(</span><span class="n">ascending</span><span class="o">=</span><span class="bp">False</span><span class="p">)</span><span class="o">.</span><span class="n">index</span> +<span class="n">roary_sorted</span> <span class="o">=</span> <span class="n">roary</span><span class="o">.</span><span class="n">ix</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span> +</pre></div> + +</div> +</div> +</div> + +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [8]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># Pangenome frequency plot</span> +<span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">7</span><span class="p">,</span> <span class="mi">5</span><span class="p">))</span> + +<span class="n">plt</span><span class="o">.</span><span class="n">hist</span><span class="p">(</span><span class="n">roary</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">),</span> <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> + <span class="n">histtype</span><span class="o">=</span><span class="s">"stepfilled"</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=.</span><span class="mi">7</span><span class="p">)</span> + +<span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s">'Number of genomes'</span><span class="p">)</span> +<span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s">'Number of genes'</span><span class="p">)</span> + +<span class="n">sns</span><span class="o">.</span><span class="n">despine</span><span class="p">(</span><span class="n">left</span><span class="o">=</span><span class="bp">True</span><span class="p">,</span> + <span class="n">bottom</span><span class="o">=</span><span class="bp">True</span><span class="p">)</span> +</pre></div> + +</div> +</div> +</div> + +<div class="output_wrapper"> +<div class="output"> + + +<div class="output_area"><div class="prompt"></div> + + +<div class="output_png output_subarea "> +<img src="data:image/png;base64,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"> +</div> + +</div> + +</div> +</div> + +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [9]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># Sort the matrix according to tip labels in the tree</span> +<span class="n">roary_sorted</span> <span class="o">=</span> <span class="n">roary_sorted</span><span class="p">[[</span><span class="n">x</span><span class="o">.</span><span class="n">name</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">t</span><span class="o">.</span><span class="n">get_terminals</span><span class="p">()]]</span> +</pre></div> + +</div> +</div> +</div> + +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [10]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># PLot presence/absence matrix against the tree</span> +<span class="k">with</span> <span class="n">sns</span><span class="o">.</span><span class="n">axes_style</span><span class="p">(</span><span class="s">'whitegrid'</span><span class="p">):</span> + <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">17</span><span class="p">,</span> <span class="mi">10</span><span class="p">))</span> + + <span class="n">ax1</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">subplot2grid</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span><span class="mi">40</span><span class="p">),</span> <span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">10</span><span class="p">),</span> <span class="n">colspan</span><span class="o">=</span><span class="mi">30</span><span class="p">)</span> + <span class="n">a</span><span class="o">=</span><span class="n">ax1</span><span class="o">.</span><span class="n">imshow</span><span class="p">(</span><span class="n">roary_sorted</span><span class="o">.</span><span class="n">T</span><span class="p">,</span> <span class="n">cmap</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">cm</span><span class="o">.</span><span class="n">Blues</span><span class="p">,</span> + <span class="n">vmin</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">vmax</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> + <span class="n">aspect</span><span class="o">=</span><span class="s">'auto'</span><span class="p">,</span> + <span class="n">interpolation</span><span class="o">=</span><span class="s">'none'</span><span class="p">,</span> + <span class="p">)</span> + <span class="n">ax1</span><span class="o">.</span><span class="n">set_yticks</span><span class="p">([])</span> + <span class="n">ax1</span><span class="o">.</span><span class="n">set_xticks</span><span class="p">([])</span> + <span class="n">ax1</span><span class="o">.</span><span class="n">axis</span><span class="p">(</span><span class="s">'off'</span><span class="p">)</span> + + <span class="n">ax</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span><span class="mi">2</span><span class="p">,</span><span class="mi">1</span><span class="p">)</span> + <span class="n">ax</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">subplot2grid</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span><span class="mi">40</span><span class="p">),</span> <span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">),</span> <span class="n">colspan</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span> <span class="n">axisbg</span><span class="o">=</span><span class="s">'white'</span><span class="p">)</span> + + <span class="n">fig</span><span class="o">.</span><span class="n">subplots_adjust</span><span class="p">(</span><span class="n">wspace</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span> + + <span class="n">ax1</span><span class="o">.</span><span class="n">set_title</span><span class="p">(</span><span class="s">'Roary matrix</span><span class="se">\n</span><span class="s">(</span><span class="si">%d</span><span class="s"> gene clusters)'</span><span class="o">%</span><span class="k">roary</span>.shape[0]) + + <span class="n">Phylo</span><span class="o">.</span><span class="n">draw</span><span class="p">(</span><span class="n">t</span><span class="p">,</span> <span class="n">axes</span><span class="o">=</span><span class="n">ax</span><span class="p">,</span> + <span class="n">show_confidence</span><span class="o">=</span><span class="bp">False</span><span class="p">,</span> + <span class="n">label_func</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="bp">None</span><span class="p">,</span> + <span class="n">xticks</span><span class="o">=</span><span class="p">([],),</span> <span class="n">yticks</span><span class="o">=</span><span class="p">([],),</span> + <span class="n">ylabel</span><span class="o">=</span><span class="p">(</span><span class="s">''</span><span class="p">,),</span> <span class="n">xlabel</span><span class="o">=</span><span class="p">(</span><span class="s">''</span><span class="p">,),</span> + <span class="n">xlim</span><span class="o">=</span><span class="p">(</span><span class="o">-</span><span class="mf">0.01</span><span class="p">,</span><span class="n">mdist</span><span class="o">+</span><span class="mf">0.01</span><span class="p">),</span> + <span class="n">axis</span><span class="o">=</span><span class="p">(</span><span class="s">'off'</span><span class="p">,),</span> + <span class="n">title</span><span class="o">=</span><span class="p">(</span><span class="s">'parSNP tree</span><span class="se">\n</span><span class="s">(</span><span class="si">%d</span><span class="s"> strains)'</span><span class="o">%</span><span class="k">roary</span>.shape[1],), + <span class="p">)</span> +</pre></div> + +</div> +</div> +</div> + +<div class="output_wrapper"> +<div class="output"> + + +<div class="output_area"><div class="prompt"></div> + + +<div class="output_png output_subarea "> +<img 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"> +</div> + +</div> + +</div> +</div> + +</div> +<div class="cell border-box-sizing code_cell rendered"> +<div class="input" style="display: none;"> +<div class="prompt input_prompt">In [11]:</div> +<div class="inner_cell"> + <div class="input_area"> +<div class=" highlight hl-ipython2"><pre><span class="c"># Plot the pangenome pie chart</span> +<span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">10</span><span class="p">,</span> <span class="mi">10</span><span class="p">))</span> + +<span class="n">core</span> <span class="o">=</span> <span class="n">roary</span><span class="p">[</span><span class="n">roary</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o">==</span> <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> +<span class="n">softcore</span> <span class="o">=</span> <span class="n">roary</span><span class="p">[(</span><span class="n">roary</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o"><</span> <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span> <span class="o">&</span> + <span class="p">(</span><span class="n">roary</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o">>=</span> <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">*</span><span class="mf">0.95</span><span class="p">)]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> +<span class="n">shell</span> <span class="o">=</span> <span class="n">roary</span><span class="p">[(</span><span class="n">roary</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o"><</span> <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">*</span><span class="mf">0.95</span><span class="p">)</span> <span class="o">&</span> + <span class="p">(</span><span class="n">roary</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o">>=</span> <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">*</span><span class="mf">0.15</span><span class="p">)]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> +<span class="n">cloud</span> <span class="o">=</span> <span class="n">roary</span><span class="p">[</span><span class="n">roary</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o"><</span> <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">*</span><span class="mf">0.15</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> + +<span class="n">total</span> <span class="o">=</span> <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> + +<span class="k">def</span> <span class="nf">my_autopct</span><span class="p">(</span><span class="n">pct</span><span class="p">):</span> + <span class="n">val</span><span class="o">=</span><span class="nb">int</span><span class="p">(</span><span class="n">pct</span><span class="o">*</span><span class="n">total</span><span class="o">/</span><span class="mf">100.0</span><span class="p">)</span> + <span class="k">return</span> <span class="s">'{v:d}'</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">v</span><span class="o">=</span><span class="n">val</span><span class="p">)</span> + +<span class="n">a</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">pie</span><span class="p">([</span><span class="n">core</span><span class="p">,</span> <span class="n">softcore</span><span class="p">,</span> <span class="n">shell</span><span class="p">,</span> <span class="n">cloud</span><span class="p">],</span> + <span class="n">labels</span><span class="o">=</span><span class="p">[</span><span class="s">'core</span><span class="se">\n</span><span class="s">(</span><span class="si">%d</span><span class="s"> strains)'</span><span class="o">%</span><span class="k">roary</span>.shape[1], + <span class="s">'soft-core</span><span class="se">\n</span><span class="s">(</span><span class="si">%d</span><span class="s"> <= strains < </span><span class="si">%d</span><span class="s">)'</span><span class="o">%</span><span class="p">(</span><span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">*.</span><span class="mi">95</span><span class="p">,</span> + <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]),</span> + <span class="s">'shell</span><span class="se">\n</span><span class="s">(</span><span class="si">%d</span><span class="s"> <= strains < </span><span class="si">%d</span><span class="s">)'</span><span class="o">%</span><span class="p">(</span><span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">*.</span><span class="mi">15</span><span class="p">,</span> + <span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">*.</span><span class="mi">95</span><span class="p">),</span> + <span class="s">'cloud</span><span class="se">\n</span><span class="s">(strains < </span><span class="si">%d</span><span class="s">)'</span><span class="o">%</span><span class="p">(</span><span class="n">roary</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">*.</span><span class="mi">15</span><span class="p">)],</span> + <span class="n">explode</span><span class="o">=</span><span class="p">[</span><span class="mf">0.1</span><span class="p">,</span> <span class="mf">0.05</span><span class="p">,</span> <span class="mf">0.02</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">radius</span><span class="o">=</span><span class="mf">0.9</span><span class="p">,</span> + <span class="n">colors</span><span class="o">=</span><span class="p">[(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span><span class="o">/</span><span class="n">total</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">(</span><span class="n">core</span><span class="p">,</span> <span class="n">softcore</span><span class="p">,</span> <span class="n">shell</span><span class="p">,</span> <span class="n">cloud</span><span class="p">)],</span> + <span class="n">autopct</span><span class="o">=</span><span class="n">my_autopct</span><span class="p">)</span> +</pre></div> + +</div> +</div> +</div> + +<div class="output_wrapper"> +<div class="output"> + + +<div class="output_area"><div class="prompt"></div> + + +<div class="output_png output_subarea "> +<img 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"> 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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/contrib/roary_plots/roary_plots.ipynb Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1407 @@ +{ + "cells": [ + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "Roary pangenome plots\n", + "=============" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "<h6><a href=\"javascript:toggle()\" target=\"_self\">Toggle source code</a></h6>" + ] + }, + { + "cell_type": "code", + "execution_count": 1, + "metadata": { + "collapsed": true + }, + "outputs": [], + "source": [ + "# Plotting imports\n", + "%matplotlib inline\n", + "\n", + "import matplotlib.pyplot as plt\n", + "import seaborn as sns\n", + "\n", + "sns.set_style('white')" + ] + }, + { + "cell_type": "code", + "execution_count": 2, + "metadata": { + "collapsed": true + }, + "outputs": [], + "source": [ + "# Other imports\n", + "import os\n", + "import pandas as pd\n", + "import numpy as np\n", + "from Bio import Phylo" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "parSNP tree\n", + "-------------\n", + "\n", + "Any other valid newick file is fine, if the tip labels is the same as in the gene_presence_absence matrix from roary." + ] + }, + { + "cell_type": "code", + "execution_count": 3, + "metadata": { + "collapsed": false + }, + "outputs": [], + "source": [ + "t = Phylo.read('parsnp.tree', 'newick')" + ] + }, + { + "cell_type": "code", + "execution_count": 4, + "metadata": { + "collapsed": true + }, + "outputs": [], + "source": [ + "# Max distance to create better plots\n", + "mdist = max([t.distance(t.root, x) for x in t.get_terminals()])" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "Roary\n", + "------" + ] + }, + { + "cell_type": "code", + "execution_count": 5, + "metadata": { + "collapsed": false + }, + "outputs": [], + "source": [ + "# Load roary\n", + "roary = pd.read_table('gene_presence_absence.csv',\n", + " sep=',',\n", + " low_memory=False)\n", + "# Set index (group name)\n", + "roary.set_index('Gene', inplace=True)\n", + "# Drop the other info columns\n", + "roary.drop(list(roary.columns[:13]), axis=1, inplace=True)" + ] + }, + { + "cell_type": "code", + "execution_count": 6, + "metadata": { + "collapsed": false + }, + "outputs": [], + "source": [ + "# Transform it in a presence/absence matrix (1/0)\n", + "roary.replace('.{2,100}', 1, regex=True, inplace=True)\n", + "roary.replace(np.nan, 0, regex=True, inplace=True)" + ] + }, + { + "cell_type": "code", + "execution_count": 7, + "metadata": { + "collapsed": true + }, + "outputs": [], + "source": [ + "# Sort the matrix by the sum of strains presence\n", + "idx = roary.sum(axis=1).sort_values(ascending=False).index\n", + "roary_sorted = roary.loc[idx]" + ] + }, + { + "cell_type": "code", + "execution_count": 8, + "metadata": { + "collapsed": false + }, + "outputs": [ + { + "data": { + "image/png": [ + 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a=ax1.imshow(roary_sorted.T, cmap=plt.cm.Blues,\n", + " vmin=0, vmax=1,\n", + " aspect='auto',\n", + " interpolation='none',\n", + " )\n", + " ax1.set_yticks([])\n", + " ax1.set_xticks([])\n", + " ax1.axis('off')\n", + "\n", + " ax = fig.add_subplot(1,2,1)\n", + " ax=plt.subplot2grid((1,40), (0, 0), colspan=10, facecolor='white')\n", + "\n", + " fig.subplots_adjust(wspace=0, hspace=0)\n", + "\n", + " ax1.set_title('Roary matrix\\n(%d gene clusters)'%roary.shape[0])\n", + "\n", + " Phylo.draw(t, axes=ax, \n", + " show_confidence=False,\n", + " label_func=lambda x: None,\n", + " xticks=([],), yticks=([],),\n", + " ylabel=('',), xlabel=('',),\n", + " xlim=(-0.01,mdist+0.01),\n", + " axis=('off',),\n", + " title=('parSNP tree\\n(%d strains)'%roary.shape[1],), \n", + " )" + ] + }, + { + "cell_type": "code", + "execution_count": 11, + "metadata": { + "collapsed": false + }, + "outputs": [ + { + "data": { + "image/png": [ + 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roary.shape[1]*0.15].shape[0]\n", + "\n", + "total = roary.shape[0]\n", + "\n", + "def my_autopct(pct):\n", + " val=int(pct*total/100.0)\n", + " return '{v:d}'.format(v=val)\n", + "\n", + "a=plt.pie([core, softcore, shell, cloud],\n", + " labels=['core\\n(%d strains)'%roary.shape[1],\n", + " 'soft-core\\n(%d <= strains < %d)'%(roary.shape[1]*.95,\n", + " roary.shape[1]),\n", + " 'shell\\n(%d <= strains < %d)'%(roary.shape[1]*.15,\n", + " roary.shape[1]*.95),\n", + " 'cloud\\n(strains < %d)'%(roary.shape[1]*.15)],\n", + " explode=[0.1, 0.05, 0.02, 0], radius=0.9,\n", + " colors=[(0, 0, 1, float(x)/total) for x in (core, softcore, shell, cloud)],\n", + " autopct=my_autopct)" + ] + } + ], + "metadata": { + "kernelspec": { + "display_name": "Python 2", + "language": "python", + "name": "python2" + }, + "language_info": { + "codemirror_mode": { + "name": "ipython", + "version": 2 + }, + "file_extension": ".py", + "mimetype": "text/x-python", + "name": "python", + "nbconvert_exporter": "python", + "pygments_lexer": "ipython2", + "version": "2.7.8" + } + }, + "nbformat": 4, + "nbformat_minor": 0 +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/contrib/roary_plots/roary_plots.py Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,191 @@ +#!/usr/bin/env python +# Copyright (C) <2015> EMBL-European Bioinformatics Institute + +# This program is free software: you can redistribute it and/or +# modify it under the terms of the GNU General Public License as +# published by the Free Software Foundation, either version 3 of +# the License, or (at your option) any later version. + +# This program is distributed in the hope that it will be useful, +# but WITHOUT ANY WARRANTY; without even the implied warranty of +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the +# GNU General Public License for more details. + +# Neither the institution name nor the name roary_plots +# can be used to endorse or promote products derived from +# this software without prior written permission. +# For written permission, please contact <marco@ebi.ac.uk>. + +# Products derived from this software may not be called roary_plots +# nor may roary_plots appear in their names without prior written +# permission of the developers. You should have received a copy +# of the GNU General Public License along with this program. +# If not, see <http://www.gnu.org/licenses/>. + +__author__ = "Marco Galardini" +__version__ = '0.1.0' + +def get_options(): + import argparse + + # create the top-level parser + description = "Create plots from roary outputs" + parser = argparse.ArgumentParser(description = description, + prog = 'roary_plots.py') + + parser.add_argument('tree', action='store', + help='Newick Tree file', default='accessory_binary_genes.fa.newick') + parser.add_argument('spreadsheet', action='store', + help='Roary gene presence/absence spreadsheet', default='gene_presence_absence.csv') + + parser.add_argument('--labels', action='store_true', + default=False, + help='Add node labels to the tree (up to 10 chars)') + parser.add_argument('--format', + choices=('png', + 'tiff', + 'pdf', + 'svg'), + default='png', + help='Output format [Default: png]') + parser.add_argument('-N', '--skipped-columns', action='store', + type=int, + default=14, + help='First N columns of Roary\'s output to exclude [Default: 14]') + + parser.add_argument('--version', action='version', + version='%(prog)s '+__version__) + + return parser.parse_args() + +if __name__ == "__main__": + options = get_options() + + import matplotlib + matplotlib.use('Agg') + + import matplotlib.pyplot as plt + import seaborn as sns + + sns.set_style('white') + + import os + import pandas as pd + import numpy as np + from Bio import Phylo + + t = Phylo.read(options.tree, 'newick') + + # Max distance to create better plots + mdist = max([t.distance(t.root, x) for x in t.get_terminals()]) + + # Load roary + roary = pd.read_csv(options.spreadsheet, low_memory=False) + # Set index (group name) + roary.set_index('Gene', inplace=True) + # Drop the other info columns + roary.drop(list(roary.columns[:options.skipped_columns-1]), axis=1, inplace=True) + + # Transform it in a presence/absence matrix (1/0) + roary.replace('.{2,100}', 1, regex=True, inplace=True) + roary.replace(np.nan, 0, regex=True, inplace=True) + + # Sort the matrix by the sum of strains presence + idx = roary.sum(axis=1).sort_values(ascending=False).index + roary_sorted = roary.loc[idx] + + # Pangenome frequency plot + plt.figure(figsize=(7, 5)) + + plt.hist(roary.sum(axis=1), roary.shape[1], + histtype="stepfilled", alpha=.7) + + plt.xlabel('No. of genomes') + plt.ylabel('No. of genes') + + sns.despine(left=True, + bottom=True) + plt.savefig('pangenome_frequency.%s'%options.format, dpi=300) + plt.clf() + + # Sort the matrix according to tip labels in the tree + roary_sorted = roary_sorted[[x.name for x in t.get_terminals()]] + + # Plot presence/absence matrix against the tree + with sns.axes_style('whitegrid'): + fig = plt.figure(figsize=(17, 10)) + + ax1=plt.subplot2grid((1,40), (0, 10), colspan=30) + a=ax1.matshow(roary_sorted.T, cmap=plt.cm.Blues, + vmin=0, vmax=1, + aspect='auto', + interpolation='none', + ) + ax1.set_yticks([]) + ax1.set_xticks([]) + ax1.axis('off') + + ax = fig.add_subplot(1,2,1) + # matplotlib v1/2 workaround + try: + ax=plt.subplot2grid((1,40), (0, 0), colspan=10, facecolor='white') + except AttributeError: + ax=plt.subplot2grid((1,40), (0, 0), colspan=10, axisbg='white') + + fig.subplots_adjust(wspace=0, hspace=0) + + ax1.set_title('Roary matrix\n(%d gene clusters)'%roary.shape[0]) + + if options.labels: + fsize = 12 - 0.1*roary.shape[1] + if fsize < 7: + fsize = 7 + with plt.rc_context({'font.size': fsize}): + Phylo.draw(t, axes=ax, + show_confidence=False, + label_func=lambda x: str(x)[:10], + xticks=([],), yticks=([],), + ylabel=('',), xlabel=('',), + xlim=(-mdist*0.1,mdist+mdist*0.45-mdist*roary.shape[1]*0.001), + axis=('off',), + title=('Tree\n(%d strains)'%roary.shape[1],), + do_show=False, + ) + else: + Phylo.draw(t, axes=ax, + show_confidence=False, + label_func=lambda x: None, + xticks=([],), yticks=([],), + ylabel=('',), xlabel=('',), + xlim=(-mdist*0.1,mdist+mdist*0.1), + axis=('off',), + title=('Tree\n(%d strains)'%roary.shape[1],), + do_show=False, + ) + plt.savefig('pangenome_matrix.%s'%options.format, dpi=300) + plt.clf() + + # Plot the pangenome pie chart + plt.figure(figsize=(10, 10)) + + core = roary[(roary.sum(axis=1) >= roary.shape[1]*0.99) & (roary.sum(axis=1) <= roary.shape[1] )].shape[0] + softcore = roary[(roary.sum(axis=1) >= roary.shape[1]*0.95) & (roary.sum(axis=1) < roary.shape[1]*0.99)].shape[0] + shell = roary[(roary.sum(axis=1) >= roary.shape[1]*0.15) & (roary.sum(axis=1) < roary.shape[1]*0.95)].shape[0] + cloud = roary[roary.sum(axis=1) < roary.shape[1]*0.15].shape[0] + + total = roary.shape[0] + + def my_autopct(pct): + val=int(round(pct*total/100.0)) + return '{v:d}'.format(v=val) + + a=plt.pie([core, softcore, shell, cloud], + labels=['core\n(%d <= strains <= %d)'%(roary.shape[1]*.99,roary.shape[1]), + 'soft-core\n(%d <= strains < %d)'%(roary.shape[1]*.95,roary.shape[1]*.99), + 'shell\n(%d <= strains < %d)'%(roary.shape[1]*.15,roary.shape[1]*.95), + 'cloud\n(strains < %d)'%(roary.shape[1]*.15)], + explode=[0.1, 0.05, 0.02, 0], radius=0.9, + colors=[(0, 0, 1, float(x)/total) for x in (core, softcore, shell, cloud)], + autopct=my_autopct) + plt.savefig('pangenome_pie.%s'%options.format, dpi=300) + plt.clf()
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/deployment_process Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,7 @@ +# Releasing a new version + +Update the version number in dist.ini +Commit all changes. +Tag with the current version. +Push all changes, and on github.com submit,accepted pull request +dzil release
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/dist.ini Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,40 @@ +name = Bio-Roary +author = Andrew J. Page <ap13@sanger.ac.uk> +license = GPL_3 +copyright_holder = Wellcome Trust Sanger Institute +copyright_year = 2013 +version = 3.13.0 +main_module = lib/Bio/Roary.pm + +[MetaResources] +homepage = http://www.sanger.ac.uk/ +repository.web = http://sanger-pathogens.github.io/Roary/ +repository.url = https://github.com/sanger-pathogens/Roary.git +repository.type = git + +[@Starter] +[PruneCruft] +[ExtraTests] +[AutoPrereqs] + +[FileFinder::ByName / BinNotR] +dir = bin +skip = .*\.R$ + +[PodWeaver] +finder = :InstallModules +finder = BinNotR + +[PkgVersion] + +[Prereqs] +PerlIO::utf8_strict = 0 + +[Encoding] +filename = t/data/kraken_test/database.idx +filename = t/data/kraken_test/database.jdb +filename = t/data/kraken_test/database.kdb +filename = t/data/kraken_test/taxonomy/names.dmp +filename = t/data/kraken_test/taxonomy/nodes.dmp + +encoding = bytes
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/install_dependencies.sh Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,248 @@ +#!/bin/bash + +set -x +set -eu + +start_dir=$(pwd) +ROARY_LIB_DIR="${start_dir}/lib" +ROARY_BIN_DIR="${start_dir}/bin" + +PARALLEL_VERSION=${PARALLEL_VERSION:-"20160722"} +PARALLEL_DOWNLOAD_FILENAME="parallel-${PARALLEL_VERSION}.tar.bz2" +PARALLEL_URL="http://ftp.gnu.org/gnu/parallel/${PARALLEL_DOWNLOAD_FILENAME}" + +BEDTOOLS_VERSION="2.27.1" +BEDTOOLS_DOWNLOAD_FILENAME="bedtools-${BEDTOOLS_VERSION}.tar.gz" +BEDTOOLS_URL="https://github.com/arq5x/bedtools2/releases/download/v${BEDTOOLS_VERSION}/${BEDTOOLS_DOWNLOAD_FILENAME}" + +CDHIT_SHORT_VERSION="4.6.8" +CDHIT_LONG_VERSION="4.6.8-2017-0621" +CDHIT_DOWNLOAD_FILENAME="cd-hit-${CDHIT_SHORT_VERSION}.tar.gz" +CDHIT_URL="https://github.com/weizhongli/cdhit/releases/download/V${CDHIT_SHORT_VERSION}/cd-hit-v${CDHIT_LONG_VERSION}-source.tar.gz" + +PRANK_VERSION="0.140603" +PRANK_DOWNLOAD_FILENAME="prank-msa-master.tar.gz" +PRANK_URL="https://github.com/ariloytynoja/prank-msa/archive/master.tar.gz" + +BLAST_VERSION="2.6.0" +BLAST_DOWNLOAD_FILENAME="ncbi-blast-${BLAST_VERSION}+-x64-linux.tar.gz" +BLAST_URL="ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/${BLAST_VERSION}/${BLAST_DOWNLOAD_FILENAME}" + +MCL_VERSION="14-137" +MCL_DOWNLOAD_FILENAME="mcl-${MCL_VERSION}.tar.gz" +MCL_URL="http://micans.org/mcl/src/mcl-${MCL_VERSION}.tar.gz" + +FASTTREE_VERSION="2.1.10" +FASTTREE_DOWNLOAD_FILENAME="FastTree-${FASTTREE_VERSION}.c" +FASTTREE_URL="http://microbesonline.org/fasttree/FastTree-${FASTTREE_VERSION}.c" + +MAFFT_VERSION="7.310" +MAFFT_DOWNLOAD_FILENAME="mafft-${MAFFT_VERSION}-without-extensions-src.tgz" +MAFFT_URL="http://mafft.cbrc.jp/alignment/software/${MAFFT_DOWNLOAD_FILENAME}" + +# Make an install location +if [ ! -d 'build' ]; then + mkdir build +fi +cd build +build_dir=$(pwd) + +PARALLEL_DOWNLOAD_PATH="$(pwd)/${PARALLEL_DOWNLOAD_FILENAME}" +BEDTOOLS_DOWNLOAD_PATH="$(pwd)/${BEDTOOLS_DOWNLOAD_FILENAME}" +CDHIT_DOWNLOAD_PATH="$(pwd)/${CDHIT_DOWNLOAD_FILENAME}" +PRANK_DOWNLOAD_PATH="$(pwd)/${PRANK_DOWNLOAD_FILENAME}" +BLAST_DOWNLOAD_PATH="$(pwd)/${BLAST_DOWNLOAD_FILENAME}" +MCL_DOWNLOAD_PATH="$(pwd)/${MCL_DOWNLOAD_FILENAME}" +FASTTREE_DOWNLOAD_PATH="$(pwd)/${FASTTREE_DOWNLOAD_FILENAME}" +MAFFT_DOWNLOAD_PATH="$(pwd)/${MAFFT_DOWNLOAD_FILENAME}" + +PARALLEL_BUILD_DIR="$(pwd)/parallel-${PARALLEL_VERSION}" +BEDTOOLS_BUILD_DIR="$(pwd)/bedtools2" +CDHIT_BUILD_DIR="$(pwd)/cd-hit-v${CDHIT_LONG_VERSION}" +PRANK_BUILD_DIR="$(pwd)/prank-msa-master" +BLAST_BUILD_DIR="$(pwd)/ncbi-blast-${BLAST_VERSION}+" +MCL_BUILD_DIR="$(pwd)/mcl-${MCL_VERSION}" +FASTTREE_BUILD_DIR="$(pwd)/fasttree" +MAFFT_BUILD_DIR="$(pwd)/mafft-${MAFFT_VERSION}-without-extensions" + + +download () { + download_url=$1 + download_path=$2 + cd $build_dir + if [ -e "$download_path" ]; then + echo "Skipping download of $download_url, $download_path already exists" + else + echo "Downloading $download_url to $download_path" + wget $download_url -O $download_path + pwd + fi +} + +untar () { + to_untar=$1 + expected_directory=$2 + if [ -d "$expected_directory" ]; then + rm -rf $expected_directory + fi + echo "Untarring $to_untar to $expected_directory" + cd $build_dir + tar xzvf $to_untar + rm $to_untar + pwd +} + +if [ -e "$BLAST_BUILD_DIR/bin/blastp" ]; then + echo "blast already untarred to $BLAST_BUILD_DIR, skipping" +else + download $BLAST_URL $BLAST_DOWNLOAD_PATH + untar $BLAST_DOWNLOAD_PATH $BLAST_BUILD_DIR +fi + +# Build parallel +if [ -e "$PARALLEL_BUILD_DIR/src/parallel" ]; then + echo "Parallel already built, skipping" +else + download $PARALLEL_URL $PARALLEL_DOWNLOAD_PATH + echo "Untarring parallel to $PARALLEL_BUILD_DIR" + tar xjvf $PARALLEL_DOWNLOAD_PATH + echo "Building parallel" + cd $PARALLEL_BUILD_DIR + ./configure + make +fi + +# Build bedtools +if [ -e "$BEDTOOLS_BUILD_DIR/bin/bedtools" ]; then + echo "Bedtools already built, skipping" +else + + download $BEDTOOLS_URL $BEDTOOLS_DOWNLOAD_PATH + untar $BEDTOOLS_DOWNLOAD_PATH $BEDTOOLS_BUILD_DIR + cd $BEDTOOLS_BUILD_DIR + echo "Building bedtools" + ls -alrt + make +fi + +# Build cd-hit +if [ -e "$CDHIT_BUILD_DIR/cd-hit" ]; then + echo "cd-hit already built, skipping" +else + download $CDHIT_URL $CDHIT_DOWNLOAD_PATH + untar $CDHIT_DOWNLOAD_PATH $CDHIT_BUILD_DIR + echo "Building cd-hit" + cd $CDHIT_BUILD_DIR + make +fi + +# Build prank +if [ -e "$PRANK_BUILD_DIR/src/prank" ]; then + echo "prank already built, skipping" +else + download $PRANK_URL $PRANK_DOWNLOAD_PATH + untar $PRANK_DOWNLOAD_PATH $PRANK_BUILD_DIR + echo "Building prank" + cd $PRANK_BUILD_DIR + cd src + make +fi + +# Build MCL +if [ -e "$MCL_BUILD_DIR/src/shmcl/mcl" ]; then + echo "MCL already built, skipping" +else + download $MCL_URL $MCL_DOWNLOAD_PATH + untar $MCL_DOWNLOAD_PATH $MCL_BUILD_DIR + echo "Building MCL" + cd $MCL_BUILD_DIR + ./configure + make +fi + +# Build FastTree +if [ -e "$FASTTREE_BUILD_DIR/FastTree" ]; then + echo "FastTree already built, skipping" +else + download $FASTTREE_URL $FASTTREE_DOWNLOAD_PATH + mkdir -p $FASTTREE_BUILD_DIR + mv $FASTTREE_DOWNLOAD_FILENAME $FASTTREE_BUILD_DIR + cd $FASTTREE_BUILD_DIR + echo "Building FastTree" + gcc -o FastTree FastTree-${FASTTREE_VERSION}.c -lm +fi + +export MAFFT_INSTALL_DIR="${MAFFT_BUILD_DIR}/build" +# Build MAFFT +if [ -e "$MAFFT_BUILD_DIR/build/mafft" ]; then + echo "MAFFT already built, skipping" +else + download $MAFFT_URL $MAFFT_DOWNLOAD_PATH + untar $MAFFT_DOWNLOAD_PATH $MAFFT_BUILD_DIR + echo "Building MAFFT" + cd $MAFFT_BUILD_DIR + mkdir -p $MAFFT_INSTALL_DIR + cd core + sed -i '1s!.*!PREFIX = $(MAFFT_INSTALL_DIR)!' Makefile + make + make install +fi + + +# Add things to PATH +update_path () { + new_dir=$1 + if [[ ! "$PATH" =~ (^|:)"${new_dir}"(:|$) ]]; then + echo "export PATH=${new_dir}:${PATH}" + export PATH=${new_dir}:${PATH} + fi +} + +export PATH +PARALLEL_BIN_DIR="$PARALLEL_BUILD_DIR/src" +update_path $PARALLEL_BIN_DIR +BEDTOOLS_BIN_DIR="$BEDTOOLS_BUILD_DIR/bin" +update_path $BEDTOOLS_BIN_DIR +CDHIT_BIN_DIR="$CDHIT_BUILD_DIR" +update_path $CDHIT_BIN_DIR +PRANK_BIN_DIR="$PRANK_BUILD_DIR/src" +update_path $PRANK_BIN_DIR + +BLAST_BIN_DIR="$BLAST_BUILD_DIR/bin" +update_path $BLAST_BIN_DIR + +MCL_BIN_DIR="$MCL_BUILD_DIR/src/shmcl" +update_path $MCL_BIN_DIR +MCL_BIN_DIR_2="$MCL_BUILD_DIR/src/alien/oxygen/src" +update_path $MCL_BIN_DIR_2 + +FASTTREE_BIN_DIR=$FASTTREE_BUILD_DIR +update_path $FASTTREE_BIN_DIR +MAFFT_BIN_DIR="$MAFFT_INSTALL_DIR/bin" +update_path $MAFFT_BIN_DIR + +update_perl_path () { + new_dir=$1 + PERL5LIB=${PERL5LIB-$new_dir} + if [[ ! "$PERL5LIB" =~ (^|:)"${new_dir}"(:|$) ]]; then + echo "export PERL5LIB=${new_dir}:${PERL5LIB}" + export PERL5LIB=${new_dir}:${PERL5LIB} + fi +} + +BEDTOOLS_LIB_DIR="$BEDTOOLS_BUILD_DIR/lib" +update_perl_path $BEDTOOLS_LIB_DIR + +cd $start_dir +cpanm --notest Dist::Zilla +dzil authordeps --missing | cpanm --notest +dzil listdeps --missing | cpanm --notest + +cd $start_dir + +echo "Add the following lines to one of these files ~/.bashrc or ~/.bash_profile or ~/.profile" +echo "export PATH=${ROARY_BIN_DIR}:${PARALLEL_BIN_DIR}:${BEDTOOLS_BIN_DIR}:${CDHIT_BIN_DIR}:${PRANK_BIN_DIR}:${BLAST_BIN_DIR}:${MCL_BIN_DIR}:${MCL_BIN_DIR_2}:${FASTTREE_BIN_DIR}:${MAFFT_BIN_DIR}:${PATH}" +echo "export PERL5LIB=${ROARY_LIB_DIR}:${BEDTOOLS_LIB_DIR}:${PERL5LIB}" + +set +eu +set +x
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,150 @@ +package Bio::Roary; + +# ABSTRACT: Create a pan genome + +=head1 SYNOPSIS + +Create a pan genome + +=cut + +use Moose; +use File::Copy; +use Bio::Perl; +use Bio::Roary::ParallelAllAgainstAllBlast; +use Bio::Roary::CombinedProteome; +use Bio::Roary::External::Cdhit; +use Bio::Roary::External::Mcl; +use Bio::Roary::InflateClusters; +use Bio::Roary::AnalyseGroups; +use Bio::Roary::GroupLabels; +use Bio::Roary::AnnotateGroups; +use Bio::Roary::GroupStatistics; +use Bio::Roary::Output::GroupsMultifastasNucleotide; +use Bio::Roary::External::PostAnalysis; +use Bio::Roary::FilterFullClusters; +use Bio::Roary::External::IterativeCdhit; +use Bio::Roary::Output::BlastIdentityFrequency; + +has 'fasta_files' => ( is => 'rw', isa => 'ArrayRef', required => 1 ); +has 'input_files' => ( is => 'rw', isa => 'ArrayRef', required => 1 ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'clustered_proteins' ); +has 'output_pan_geneome_filename' => ( is => 'rw', isa => 'Str', default => 'pan_genome.fa' ); +has 'output_statistics_filename' => ( is => 'rw', isa => 'Str', default => 'gene_presence_absence.csv' ); +has 'job_runner' => ( is => 'rw', isa => 'Str', default => 'Local' ); +has 'cpus' => ( is => 'ro', isa => 'Int', default => 1 ); +has 'makeblastdb_exec' => ( is => 'rw', isa => 'Str', default => 'makeblastdb' ); +has 'blastp_exec' => ( is => 'rw', isa => 'Str', default => 'blastp' ); +has 'mcxdeblast_exec' => ( is => 'ro', isa => 'Str', default => 'mcxdeblast' ); +has 'mcl_exec' => ( is => 'ro', isa => 'Str', default => 'mcl' ); +has 'perc_identity' => ( is => 'ro', isa => 'Num', default => 98 ); +has 'dont_delete_files' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'dont_create_rplots' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'dont_split_groups' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'verbose_stats' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); +has 'group_limit' => ( is => 'rw', isa => 'Num', default => 50000 ); +has 'core_definition' => ( is => 'rw', isa => 'Num', default => 1.0 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'mafft' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'inflation_value' => ( is => 'rw', isa => 'Num', default => 1.5 ); +has 'allow_paralogs' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'output_multifasta_files' => ( is => 'ro', isa => 'Bool', default => 0 ); + +sub run { + my ($self) = @_; + + my $output_combined_filename = '_combined_files'; + my $output_cd_hit_filename = '_clustered'; + my $output_blast_results_filename = '_blast_results'; + my $output_mcl_filename = '_uninflated_mcl_groups'; + my $output_filtered_clustered_fasta = '_clustered_filtered.fa'; + my $cdhit_groups = $output_combined_filename.'.groups'; + + + unlink($cdhit_groups) unless($self->dont_delete_files == 1); + + print "Combine proteins into a single file\n" if($self->verbose); + my $combine_fasta_files = Bio::Roary::CombinedProteome->new( + proteome_files => $self->fasta_files, + output_filename => $output_combined_filename, + ); + $combine_fasta_files->create_combined_proteome_file; + + my $number_of_input_files = @{$self->input_files}; + + print "Iteratively run cd-hit\n" if($self->verbose); + my $iterative_cdhit= Bio::Roary::External::IterativeCdhit->new( + output_cd_hit_filename => $output_cd_hit_filename, + output_combined_filename => $output_combined_filename, + number_of_input_files => $number_of_input_files, + output_filtered_clustered_fasta => $output_filtered_clustered_fasta, + job_runner => $self->job_runner, + cpus => $self->cpus + ); + + $iterative_cdhit->run(); + + print "Parallel all against all blast\n" if($self->verbose); + my $blast_obj = Bio::Roary::ParallelAllAgainstAllBlast->new( + fasta_file => $output_cd_hit_filename, + blast_results_file_name => $output_blast_results_filename, + job_runner => $self->job_runner, + cpus => $self->cpus, + makeblastdb_exec => $self->makeblastdb_exec, + blastp_exec => $self->blastp_exec, + perc_identity => $self->perc_identity + ); + $blast_obj->run(); + + my $blast_identity_frequency_obj = Bio::Roary::Output::BlastIdentityFrequency->new( + input_filename => $output_blast_results_filename, + ); + $blast_identity_frequency_obj->create_file(); + + print "Cluster with MCL\n" if($self->verbose); + my $mcl = Bio::Roary::External::Mcl->new( + blast_results => $output_blast_results_filename, + mcxdeblast_exec => $self->mcxdeblast_exec, + mcl_exec => $self->mcl_exec, + job_runner => $self->job_runner, + cpus => $self->cpus, + inflation_value => $self->inflation_value, + output_file => $output_mcl_filename + ); + $mcl->run(); + + unlink($output_blast_results_filename) unless($self->dont_delete_files == 1); + + my $post_analysis = Bio::Roary::External::PostAnalysis->new( + job_runner => 'Local', + cpus => $self->cpus, + fasta_files => $self->fasta_files, + input_files => $self->input_files, + output_filename => $self->output_filename, + output_pan_geneome_filename => $self->output_pan_geneome_filename, + output_statistics_filename => $self->output_statistics_filename, + clusters_filename => $output_cd_hit_filename.'.clstr', + dont_wait => 1, + output_multifasta_files => $self->output_multifasta_files, + dont_delete_files => $self->dont_delete_files, + dont_create_rplots => $self->dont_create_rplots, + dont_split_groups => $self->dont_split_groups, + verbose_stats => $self->verbose_stats, + translation_table => $self->translation_table, + group_limit => $self->group_limit, + core_definition => $self->core_definition, + verbose => $self->verbose, + mafft => $self->mafft, + allow_paralogs => $self->allow_paralogs, + ); + $post_analysis->run(); + +} + + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/AccessoryBinaryFasta.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,100 @@ +package Bio::Roary::AccessoryBinaryFasta; + +# ABSTRACT: Output a FASTA file which represents the binary presence and absence of genes in the accessory genome + +=head1 SYNOPSIS + +Output a FASTA file which represents the binary presence and absence of genes in the accessory genome + use Bio::Roary::AccessoryBinaryFasta; + my $obj = Bio::Roary::AccessoryBinaryFasta->new(input_files => ['abc','efg'], + groups_to_files => {'group_1' => ['abc'], group_2 => ['abc', 'efg']} + ); + $obj->create_accessory_binary_fasta(); +=cut + +use Moose; +use POSIX; +use Bio::Roary::AnnotateGroups; +use Bio::Roary::AnalyseGroups; +use Bio::Roary::Exceptions; +use Bio::SeqIO; +use File::Basename; + +has 'input_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'annotate_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnnotateGroups', required => 1 ); +has 'analyse_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnalyseGroups', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'accessory_binary_genes.fa' ); +has 'lower_bound_percentage' => ( is => 'ro', isa => 'Int', default => 5 ); +has 'upper_bound_percentage' => ( is => 'ro', isa => 'Int', default => 5 ); +has 'max_accessory_to_include' => ( is => 'ro', isa => 'Int', default => 4000 ); +has 'groups_to_files' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__groups_to_files' ); +has '_lower_bound_value' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build__lower_bound_value' ); +has '_upper_bound_value' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build__upper_bound_value' ); + +sub _build__groups_to_files { + my ($self) = @_; + my %groups_to_files; + for my $group ( @{ $self->annotate_groups_obj->_groups } ) { + my $genes = $self->annotate_groups_obj->_groups_to_id_names->{$group}; + my %filenames; + for my $gene_name ( @{$genes} ) { + my $filename = $self->analyse_groups_obj->_genes_to_file->{$gene_name}; + push( @{ $filenames{$filename} }, $gene_name ); + } + $groups_to_files{$group} = \%filenames; + } + + return \%groups_to_files; +} + +sub _build__lower_bound_value { + my ($self) = @_; + my $num_files = @{ $self->input_files }; + return ceil( $num_files * ( $self->lower_bound_percentage / 100 ) ); +} + +sub _build__upper_bound_value { + my ($self) = @_; + my $num_files = @{ $self->input_files }; + return $num_files - ceil( $num_files * ( $self->upper_bound_percentage / 100 ) ); +} + +sub create_accessory_binary_fasta { + my ($self) = @_; + my $out_seq_io = Bio::SeqIO->new( -file => ">" . $self->output_filename, -format => 'Fasta' ); + + for my $full_filename ( @{ $self->input_files } ) { + my($filename, $dirs, $suffix) = fileparse($full_filename); + + my $output_sequence = ''; + my $sample_name = $filename; + $sample_name =~ s!\.gff\.proteome\.faa!!; + + my $gene_count = 0; + for my $group ( sort keys %{ $self->groups_to_files } ) { + last if($gene_count > $self->max_accessory_to_include); + + my @files = keys %{ $self->groups_to_files->{$group} }; + + next if ( @files <= $self->_lower_bound_value || @files > $self->_upper_bound_value ); + + my $group_to_file_genes = $self->groups_to_files->{$group}->{$full_filename}; + if ( defined($group_to_file_genes) && @{$group_to_file_genes} > 0 ) { + $output_sequence .= 'A'; + } + else { + $output_sequence .= 'C'; + } + $gene_count++; + + } + next if($output_sequence eq ''); + $out_seq_io->write_seq( Bio::Seq->new( -display_id => $sample_name, -seq => $output_sequence ) ); + } + return 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/AccessoryClustering.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,95 @@ +package Bio::Roary::AccessoryClustering; + +# ABSTRACT: Take an a clusters file from CD-hit and the fasta file and output a fasta file without full clusters + +=head1 SYNOPSIS + +Take an a clusters file from CD-hit and the fasta file and output a fasta file without full clusters + use Bio::Roary::AccessoryClustering; + + my $obj = Bio::Roary::AccessoryClustering->new( + input_file => 'accessory_binary_genes.fa', + identity => 0.96, + cpus => 10, + ); + $obj->sample_weights(); + +=cut + +use Moose; +use Bio::Roary::External::Cdhit; +with 'Bio::Roary::ClustersRole'; + +has 'input_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'identity' => ( is => 'ro', isa => 'Num', default => 0.9 ); +has 'cpus' => ( is => 'ro', isa => 'Int', default => 1 ); +has '_output_cd_hit_filename' => ( is => 'ro', isa => 'Str', default => '_accessory_clusters' ); +has 'clusters_to_samples' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_clusters_to_samples' ); +has 'samples_to_clusters' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_samples_to_clusters' ); +has 'sample_weights' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_sample_weights' ); +has 'clusters_filename' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_clusters_filename' ); +has 'clusters' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__clusters' ); + +sub _build_sample_weights { + my ($self) = @_; + my %sample_weights; + for my $cluster_name ( keys %{ $self->clusters_to_samples } ) { + my $cluster_size = @{ $self->clusters_to_samples->{$cluster_name} }; + for my $sample_name ( @{ $self->clusters_to_samples->{$cluster_name} } ) { + $sample_weights{$sample_name} = 1 / $cluster_size; + } + } + return \%sample_weights; +} + +sub _build_samples_to_clusters { + my ($self) = @_; + my %samples_to_clusters; + for my $cluster_name ( keys %{ $self->clusters_to_samples } ) { + for my $sample_name ( @{ $self->clusters_to_samples->{$cluster_name} } ) { + $samples_to_clusters{$sample_name} = $cluster_name; + } + } + return \%samples_to_clusters; +} + +sub _build_clusters_filename { + my ($self) = @_; + return $self->_output_cd_hit_filename . '.clstr'; +} + +sub _build_clusters_to_samples { + my ($self) = @_; + + my $cdhit_obj = Bio::Roary::External::Cdhit->new( + input_file => $self->input_file, + output_base => $self->_output_cd_hit_filename, + _length_difference_cutoff => 1, + _sequence_identity_threshold => $self->identity, + cpus => $self->cpus + ); + $cdhit_obj->run(); + my $clusterd_genes = $self->_clustered_genes; + + for my $cluster_name ( keys %{$clusterd_genes} ) { + my $found = 0; + for my $gene_name ( @{ $clusterd_genes->{$cluster_name} } ) { + if ( $gene_name eq $cluster_name ) { + $found = 1; + last; + } + } + + if ( $found == 0 ) { + push( @{ $clusterd_genes->{$cluster_name} }, $cluster_name ); + } + } + + return $clusterd_genes; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/AnalyseGroups.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,119 @@ +package Bio::Roary::AnalyseGroups; + +# ABSTRACT: Take in a groups file and the original FASTA files and create plots and stats + +=head1 SYNOPSIS + +Take in a groups file and the original FASTA files and create plots and stats + use Bio::Roary::AnalyseGroups; + + my $plot_groups_obj = Bio::Roary::AnalyseGroups->new( + fasta_files => $fasta_files, + groups_filename => $groups_filename, + output_filename => $output_filename + ); + $plot_groups_obj->create_plots(); + +=cut + +use Moose; +use Bio::Roary::Exceptions; + +has 'fasta_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'groups_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'summary_of_groups' ); + +has '_number_of_isolates' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_builder__number_of_isolates' ); +has '_genes_to_file' => ( is => 'rw', isa => 'HashRef' ); +has '_files_to_genes' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_builder__files_to_genes' ); +has '_groups_to_genes' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_builder__groups_to_genes' ); +has '_genes_to_groups' => ( is => 'rw', isa => 'HashRef' ); + +has '_groups' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_builder__groups' ); + + +sub BUILD { + my ($self) = @_; + # This triggers _genes_to_groups to be built + $self->_groups_to_genes; + # This triggers _genes_to_file to be built + $self->_files_to_genes; +} + +sub _builder__groups +{ + my ($self) = @_; + my @groups = sort keys %{$self->_groups_to_genes}; + return \@groups; +} + +sub _builder__number_of_isolates { + my ($self) = @_; + return @{ $self->fasta_files }; +} + +sub _builder__files_to_genes { + my ($self) = @_; + my %files_to_genes; + my %genes_to_file; + for my $filename ( @{ $self->fasta_files } ) { + open( my $fh, '-|', 'grep \> ' . $filename . ' | awk \'{print $1}\' | sed \'s/>//\' ' ); + while (<$fh>) { + chomp; + my $gene_name = $_; + next if($gene_name eq ""); + push( @{ $files_to_genes{$filename} }, $gene_name ); + $genes_to_file{$gene_name} = $filename; + } + close($fh); + } + $self->_genes_to_file(\%genes_to_file); + + return \%files_to_genes; +} + +sub _count_num_files_in_group { + my ( $self, $genes ) = @_; + my $count = 0; + my %filename_freq; + for my $gene ( @{$genes} ) { + next if ( $gene eq "" ); + if ( defined( $self->_genes_to_file->{$gene} ) ) { + $filename_freq{ $self->_genes_to_file->{$gene} }++; + } + } + my @uniq_filenames = keys %filename_freq; + return @uniq_filenames; +} + +sub _builder__groups_to_genes { + my ($self) = @_; + my %groups_to_genes; + my %genes_to_groups; + + open( my $fh, $self->groups_filename ) + or Bio::Roary::Exceptions::FileNotFound->throw( error => "Group file not found:" . $self->groups_filename ); + while (<$fh>) { + chomp; + my $line = $_; + if ( $line =~ /^(.+): (.+)$/ ) { + my $group_name = $1; + my $genes = $2; + my @elements = split( /[\s\t]+/, $genes ); + $groups_to_genes{$group_name} = \@elements; + + for my $gene (@elements) { + $genes_to_groups{$gene} = $group_name; + } + } + } + $self->_genes_to_groups(\%genes_to_groups); + + return \%groups_to_genes; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/AnnotateGroups.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,356 @@ +package Bio::Roary::AnnotateGroups; + +# ABSTRACT: Take in a group file and associated GFF files for the isolates and update the group name to the gene name + +=head1 SYNOPSIS + +Take in a group file and associated GFF files for the isolates and update the group name to the gene name + use Bio::Roary::AnnotateGroups; + + my $obj = Bio::Roary::AnnotateGroups->new( + gff_files => ['abc.gff','efg.gff'], + output_filename => 'example_output.fa', + groups_filename => 'groupsfile', + ); + $obj->reannotate; + +=cut + +use Moose; +use Bio::Roary::Exceptions; +use Bio::Roary::GeneNamesFromGFF; +use Array::Utils qw(array_minus); +use List::Util qw(max min sum); +use File::Grep qw(fgrep); + +has 'gff_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'reannotated_groups_file' ); +has 'groups_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has '_ids_to_gene_names' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__ids_to_gene_names' ); +has '_ids_to_product' => ( is => 'rw', isa => 'HashRef', default => sub { {} } ); +has '_ids_to_gene_size' => ( is => 'rw', isa => 'HashRef', default => sub { {} } ); +has 'group_nucleotide_lengths' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_group_nucleotide_lengths'); + +has '_groups_to_id_names' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_builder__groups_to_id_names' ); +has '_output_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_fh' ); +has '_groups_to_consensus_gene_names' => + ( is => 'rw', isa => 'HashRef', lazy => 1, builder => '_build__groups_to_consensus_gene_names' ); +has '_filtered_gff_files' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__filtered_gff_files' ); +has '_number_of_files' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build__number_of_files' ); +has '_ids_to_groups' => ( is => 'rw', isa => 'HashRef', lazy => 1, builder => '_builder__ids_to_groups' ); +has '_group_counter' => ( is => 'rw', isa => 'Int', lazy => 1, builder => '_builder__group_counter' ); +has '_group_default_prefix' => ( is => 'rw', isa => 'Str', default => 'group_' ); +has '_ids_to_verbose_stats' => ( is => 'rw', isa => 'HashRef', lazy_build => 1 ); + +sub BUILD { + my ($self) = @_; + $self->_ids_to_gene_names; +} + +sub _builder__group_counter { + my ($self) = @_; + my $prefix = $self->_group_default_prefix; + my $highest_group = 0; + for my $group ( @{ $self->_groups } ) { + if ( $group =~ /$prefix([\d]+)$/ ) { + my $group_id = $1; + if ( $group_id > $highest_group ) { + $highest_group = $group_id; + } + } + } + return $highest_group + 1; +} + +sub _generate__ids_to_groups { + my ($self) = @_; + my %ids_to_groups; + + for my $group ( keys %{ $self->_groups_to_id_names } ) { + for my $id_name ( @{ $self->_groups_to_id_names->{$group} } ) { + $ids_to_groups{$id_name} = $group; + } + } + return \%ids_to_groups; +} + +sub _builder__ids_to_groups { + my ($self) = @_; + return $self->_generate__ids_to_groups; +} + +sub _build__output_fh { + my ($self) = @_; + open( my $fh, '>', $self->output_filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( + error => "Couldnt write output file:" . $self->output_filename ); + return $fh; +} + +sub _build__filtered_gff_files { + my ($self) = @_; + my @gff_files = grep( /\.gff$/, @{ $self->gff_files } ); + return \@gff_files; +} + +sub _build__ids_to_gene_names { + my ($self) = @_; + my %ids_to_gene_names; + my %ids_to_product; + my %ids_to_gene_size; + for my $filename ( @{ $self->_filtered_gff_files } ) { + my $gene_names_from_gff = Bio::Roary::GeneNamesFromGFF->new( gff_file => $filename ); + my %id_to_gene_lookup = %{ $gene_names_from_gff->ids_to_gene_name }; + @ids_to_gene_names{ keys %id_to_gene_lookup } = values %id_to_gene_lookup; + + my %id_to_product_lookup = %{ $gene_names_from_gff->ids_to_product }; + @ids_to_product{ keys %id_to_product_lookup } = values %id_to_product_lookup; + + my %ids_to_gene_size_lookup = %{ $gene_names_from_gff->ids_to_gene_size }; + @ids_to_gene_size{ keys %ids_to_gene_size_lookup } = values %ids_to_gene_size_lookup; + } + $self->_ids_to_product( \%ids_to_product ); + $self->_ids_to_gene_size( \%ids_to_gene_size ); + + return \%ids_to_gene_names; +} + +sub _build__ids_to_verbose_stats { + my $self = shift; + + my @matches_hash = fgrep { /ID=/i } @{ $self->_filtered_gff_files }; + my @matches; + foreach my $m ( @matches_hash ){ + push( @matches, values %{$m->{matches}} ); + } + # chomp @matches; + + my %verbose; + foreach my $line ( @matches ){ + my ( $id, $inf, $prod ); + if( $line =~ m/ID=["']?([^;"']+)["']?;?/i ){ + $id = $1; + } + else { + next; + } + + $inf = $1 if ( $line =~ m/inference=([^;]+);/ ); + $prod = $1 if ( $line =~ m/product=([^;]+)[;\n]/ ); + + my %info = ( 'inference' => $inf, 'product' => $prod ); + $verbose{$id} = \%info; + } + return \%verbose; +} + + +sub consensus_product_for_id_names { + my ( $self, $id_names ) = @_; + my %product_freq; + for my $id_name ( @{$id_names} ) { + next unless ( defined( $self->_ids_to_product->{$id_name} ) ); + $product_freq{ $self->_ids_to_product->{$id_name} }++; + } + + my @sorted_product_keys = sort { $product_freq{$b} <=> $product_freq{$a} } keys(%product_freq); + + if ( @sorted_product_keys > 0 ) { + return $sorted_product_keys[0]; + } + else { + return ''; + } +} + +sub _builder__groups_to_id_names { + my ($self) = @_; + my %groups_to_id_names; + + open( my $fh, $self->groups_filename ) + or Bio::Roary::Exceptions::FileNotFound->throw( error => "Group file not found:" . $self->groups_filename ); + while (<$fh>) { + chomp; + my $line = $_; + if ( $line =~ /^(.+): (.+)$/ ) { + my $group_name = $1; + my $genes = $2; + my @elements = split( /[\s\t]+/, $genes ); + $groups_to_id_names{$group_name} = \@elements; + } + } + + return \%groups_to_id_names; +} + +sub _groups { + my ($self) = @_; + my @groups = keys %{ $self->_groups_to_id_names }; + return \@groups; +} + +sub _ids_grouped_by_gene_name_for_group { + my ( $self, $group_name ) = @_; + my %gene_name_freq; + for my $id_name ( @{ $self->_groups_to_id_names->{$group_name} } ) { + if ( defined( $self->_ids_to_gene_names->{$id_name} ) && $self->_ids_to_gene_names->{$id_name} ne "" ) { + push( @{ $gene_name_freq{ $self->_ids_to_gene_names->{$id_name} } }, $id_name ); + } + } + return \%gene_name_freq; +} + +sub _consensus_gene_name_for_group { + my ( $self, $group_name ) = @_; + my $gene_name_freq = $self->_ids_grouped_by_gene_name_for_group($group_name); + + my @sorted_gene_names = sort { @{ $gene_name_freq->{$b} } <=> @{ $gene_name_freq->{$a} } } keys %{$gene_name_freq}; + if ( @sorted_gene_names > 0 ) { + return shift(@sorted_gene_names); + } + else { + return $group_name; + } +} + +sub _build_group_nucleotide_lengths +{ + my ($self) = @_; + my %group_nucleotide_lengths; + for my $group_name (keys %{ $self->_groups_to_id_names } ) + { + my @gene_lengths; + for my $gene_id (@{$self->_groups_to_id_names->{$group_name}}) + { + my $current_gene_size = $self->_ids_to_gene_size->{$gene_id}; + next unless(defined($current_gene_size) ); + next if($current_gene_size < 1); + push(@gene_lengths, $current_gene_size); + } + + next if(@gene_lengths == 0); + my $average_gene_size = (int((sum @gene_lengths)/@gene_lengths)) || 0; + my $min_gene_size = (min @gene_lengths) || 0; + my $max_gene_size = (max @gene_lengths) || 0; + $group_nucleotide_lengths{$group_name} = {'min' => $min_gene_size, 'max' =>$max_gene_size , 'average' => $average_gene_size}; + } + return \%group_nucleotide_lengths; +} + +sub _generate_groups_to_consensus_gene_names { + my ($self) = @_; + my %groups_to_gene_names; + my %gene_name_freq; + my $group_prefix = $self->_group_default_prefix; + + #Â These are already annotated + for my $group_name ( sort { @{ $self->_groups_to_id_names->{$b} } <=> @{ $self->_groups_to_id_names->{$a} } } + keys %{ $self->_groups_to_id_names } ) + { + next if ( $group_name =~ /$group_prefix/ ); + $groups_to_gene_names{$group_name} = $group_name; + } + + for my $group_name ( sort { @{ $self->_groups_to_id_names->{$b} } <=> @{ $self->_groups_to_id_names->{$a} } } + keys %{ $self->_groups_to_id_names } ) + { + next unless ( $group_name =~ /$group_prefix/ ); + my $consensus_gene_name = $self->_consensus_gene_name_for_group($group_name); + + if ( defined( $gene_name_freq{$consensus_gene_name} ) ) { + $groups_to_gene_names{$group_name} = $group_name; + } + else { + $groups_to_gene_names{$group_name} = $consensus_gene_name; + $gene_name_freq{$consensus_gene_name}++; + } + } + return \%groups_to_gene_names; +} + +sub _build__groups_to_consensus_gene_names { + my ($self) = @_; + return $self->_generate_groups_to_consensus_gene_names; +} + +sub _build__number_of_files { + my ($self) = @_; + return @{ $self->gff_files }; +} + + +sub _split_groups { + my ($self) = @_; + + $self->_groups_to_consensus_gene_names( $self->_generate_groups_to_consensus_gene_names ); + $self->_ids_to_groups( $self->_generate__ids_to_groups ); +} + +sub _remove_ids_from_group { + my ( $self, $ids_to_remove, $group ) = @_; + + my @remaining_ids = array_minus( @{ $self->_groups_to_id_names->{$group} }, @{ $ids_to_remove } ); + $self->_groups_to_id_names->{$group} = \@remaining_ids; + if ( @{ $self->_groups_to_id_names->{$group} } == 0 ) { + delete( $self->_groups_to_id_names->{$group} ); + } +} + +sub reannotate { + my ($self) = @_; + + $self->_split_groups; + + my %groups_to_id_names = %{ $self->_groups_to_id_names }; + for + my $group_name ( sort { @{ $groups_to_id_names{$b} } <=> @{ $groups_to_id_names{$a} } } keys %groups_to_id_names ) + { + my $consensus_gene_name = $self->_groups_to_consensus_gene_names->{$group_name}; + print { $self->_output_fh } $consensus_gene_name . ": " + . join( "\t", @{ $self->_groups_to_id_names->{$group_name} } ) . "\n"; + } + close( $self->_output_fh ); + return $self; +} + +sub full_annotation { + my ( $self, $group ) = @_; + + my @id_names = @{ $self->_groups_to_id_names->{$group} }; + + my %product_freq; + for my $id_name ( @id_names ) { + next unless ( defined( $self->_ids_to_verbose_stats->{$id_name}->{'product'} ) ); + $product_freq{ $self->_ids_to_verbose_stats->{$id_name}->{'product'} }++; + } + + my @sorted_product_keys = sort { $product_freq{$b} <=> $product_freq{$a} } keys(%product_freq); + + if ( @sorted_product_keys > 0 ) { + return join('; ', @sorted_product_keys); + } + else { + return ''; + } + +} + +sub inference { + my ( $self, $group ) = @_; + + my @infs; + foreach my $g ( @{ $self->_groups_to_id_names->{$group} } ){ + next unless ( defined $self->_ids_to_verbose_stats->{$g}->{'inference'} ); + push( @infs, $self->_ids_to_verbose_stats->{$g}->{'inference'} ); + } + + # maybe make a consensus in the future? + + return $infs[0]; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; + \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/AssemblyStatistics.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,207 @@ +package Bio::Roary::AssemblyStatistics; + +# ABSTRACT: Given a spreadsheet of gene presence and absence calculate some statistics + +=head1 SYNOPSIS + +Given a spreadsheet of gene presence and absence calculate some statistics + +=cut + +use Moose; +use Bio::Roary::ExtractCoreGenesFromSpreadsheet; +use Log::Log4perl qw(:easy); +with 'Bio::Roary::SpreadsheetRole'; + +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'assembly_statistics.csv' ); +has 'job_runner' => ( is => 'ro', isa => 'Str', default => 'Local' ); +has 'cpus' => ( is => 'ro', isa => 'Int', default => 1 ); +has 'core_definition' => ( is => 'rw', isa => 'Num', default => 0.99 ); +has '_cloud_percentage' => ( is => 'rw', isa => 'Num', default => 0.15 ); +has '_shell_percentage' => ( is => 'rw', isa => 'Num', default => 0.95 ); +has '_soft_core_percentage' => ( is => 'rw', isa => 'Num', default => 0.99 ); +has 'verbose' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'contiguous_window' => ( is => 'ro', isa => 'Int', default => 10 ); +has 'ordered_genes' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build_ordered_genes' ); +has '_genes_to_rows' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__genes_to_rows' ); +has 'all_sample_statistics' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_all_sample_statistics' ); +has 'sample_names_to_column_index' => ( is => 'rw', isa => 'Maybe[HashRef]' ); +has 'summary_output_filename'=> ( is => 'ro', isa => 'Str', default => 'summary_statistics.txt' ); +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger'); +has 'gene_category_count' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_gene_category_count' ); + +sub BUILD { + my ($self) = @_; + $self->_genes_to_rows; + $self->gene_category_count; +} + +sub _build_logger +{ + my ($self) = @_; + Log::Log4perl->easy_init( $ERROR ); + my $logger = get_logger(); + return $logger; +} + +sub create_summary_output +{ + my ($self) = @_; + open(my $fh, '>', $self->summary_output_filename) or Bio::Roary::Exceptions::CouldntWriteToFile->throw(error => "Couldnt write to ".$self->summary_output_filename); + + my $core_percentage = $self->core_definition()*100; + my $soft_core_percentage = $self->_soft_core_percentage*100; + my $shell_percentage = $self->_shell_percentage()*100; + my $cloud_percentage = $self->_cloud_percentage()*100; + + my $core_genes = ($self->gene_category_count->{core} ? $self->gene_category_count->{core} : 0); + my $soft_core_genes = ($self->gene_category_count->{soft_core} ? $self->gene_category_count->{soft_core} : 0); + my $shell_genes =($self->gene_category_count->{shell} ? $self->gene_category_count->{shell} : 0); + my $cloud_genes = ($self->gene_category_count->{cloud} ? $self->gene_category_count->{cloud} : 0); + my $total_genes = $core_genes + $soft_core_genes + $shell_genes + $cloud_genes ; + + $self->logger->warn("Very few core genes detected with the current settings. Try modifying the core definition ( -cd 90 ) and/or + the blast identity (-i 70) parameters. Also try checking for contamination (-qc) and ensure you only have one species.") if($core_genes < 100); + + print {$fh} "Core genes\t($core_percentage".'% <= strains <= 100%)'."\t$core_genes\n"; + print {$fh} "Soft core genes\t(".$shell_percentage."% <= strains < ".$soft_core_percentage."%)\t$soft_core_genes\n"; + print {$fh} "Shell genes\t(".$cloud_percentage."% <= strains < ".$shell_percentage."%)\t$shell_genes\n"; + print {$fh} "Cloud genes\t(0% <= strains < ".$cloud_percentage."%)\t$cloud_genes\n"; + print {$fh} "Total genes\t(0% <= strains <= 100%)\t$total_genes\n"; + + close($fh); + return 1; +} + +sub _build_gene_category_count { + my ($self) = @_; + my %gene_category_count; + $self->_soft_core_percentage($self->core_definition); + + if ( $self->_soft_core_percentage <= $self->_shell_percentage ) { + $self->_shell_percentage( $self->_soft_core_percentage - 0.01 ); + } + + my $number_of_samples = keys %{ $self->sample_names_to_column_index }; + for my $gene_name ( keys %{ $self->_genes_to_rows } ) { + my $isolates_with_gene = 0; + + for ( my $i = $self->_num_fixed_headers ; $i < @{ $self->_genes_to_rows->{$gene_name} } ; $i++ ) { + $isolates_with_gene++ + if ( defined( $self->_genes_to_rows->{$gene_name}->[$i] ) && $self->_genes_to_rows->{$gene_name}->[$i] ne "" ); + } + + if ( $isolates_with_gene < $self->_cloud_percentage() * $number_of_samples ) { + $gene_category_count{cloud}++; + } + elsif ( $isolates_with_gene < $self->_shell_percentage() * $number_of_samples ) { + $gene_category_count{shell}++; + } + elsif ( $isolates_with_gene < $self->_soft_core_percentage() * $number_of_samples ) { + $gene_category_count{soft_core}++; + } + else { + $gene_category_count{core}++; + } + } + return \%gene_category_count; +} + +sub _build_ordered_genes { + my ($self) = @_; + return Bio::Roary::ExtractCoreGenesFromSpreadsheet->new( spreadsheet => $self->spreadsheet, core_definition => $self->core_definition ) + ->ordered_core_genes(); +} + +sub _build__genes_to_rows { + my ($self) = @_; + + my %genes_to_rows; + seek( $self->_input_spreadsheet_fh, 0, 0 ); + my $header_row = $self->_csv_parser->getline( $self->_input_spreadsheet_fh ); + $self->_populate_sample_names_to_column_index($header_row); + + while ( my $row = $self->_csv_parser->getline( $self->_input_spreadsheet_fh ) ) { + next if ( !defined( $row->[0] ) || $row->[0] eq "" ); + $genes_to_rows{ $row->[0] } = $row; + } + + return \%genes_to_rows; +} + +sub _populate_sample_names_to_column_index { + my ( $self, $row ) = @_; + + my %samples_to_index; + for ( my $i = $self->_num_fixed_headers ; $i < @{$row} ; $i++ ) { + next if ( ( !defined( $row->[$i] ) ) || $row->[$i] eq "" ); + $samples_to_index{ $row->[$i] } = $i; + } + $self->sample_names_to_column_index( \%samples_to_index ); +} + +sub _build_all_sample_statistics { + my ($self) = @_; + + my %sample_stats; + + # For each sample - loop over genes in order - number of contiguous blocks - max size of contiguous block - n50 - incorrect joins + for my $sample_name ( sort keys %{ $self->sample_names_to_column_index } ) { + $sample_stats{$sample_name} = $self->_sample_statistics($sample_name); + } + return \%sample_stats; +} + +sub _sample_statistics { + my ( $self, $sample_name ) = @_; + + my $sample_column_index = $self->sample_names_to_column_index->{$sample_name}; + my @gene_ids; + for my $gene_name ( @{ $self->ordered_genes } ) { + my $sample_gene_id = $self->_genes_to_rows->{$gene_name}->[$sample_column_index]; + next unless ( defined($sample_gene_id) ); + + if ( $sample_gene_id =~ /_([\d]+)$/ ) { + my $gene_number = $1; + push( @gene_ids, $gene_number ); + } + else { + next; + } + } + + return $self->_number_of_contiguous_blocks( \@gene_ids ); +} + +sub _number_of_contiguous_blocks { + my ( $self, $gene_ids ) = @_; + + my $current_gene_id = $gene_ids->[0]; + my $number_of_blocks = 1; + my $largest_block_size = 0; + my $block_size = 0; + for my $gene_id ( @{$gene_ids} ) { + if ( !( ( $current_gene_id + $self->contiguous_window >= $gene_id ) && ( $current_gene_id - $self->contiguous_window <= $gene_id ) ) + ) + { + if ( $block_size >= $largest_block_size ) { + $largest_block_size = $block_size; + $block_size = 0; + } + $number_of_blocks++; + } + $current_gene_id = $gene_id; + $block_size++; + } + + if ( $block_size > $largest_block_size ) { + $largest_block_size = $block_size; + } + return { num_blocks => $number_of_blocks, largest_block_size => $largest_block_size }; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/BedFromGFFRole.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,71 @@ +package Bio::Roary::BedFromGFFRole; + +# ABSTRACT: A role to create a bed file from a gff + +=head1 SYNOPSIS + + A role to create a bed file from a gff + with 'Bio::Roary::BedFromGFFRole'; + +=cut + +use Moose::Role; +use Bio::Tools::GFF; + +has '_tags_to_filter' => ( is => 'ro', isa => 'Str', default => 'CDS' ); +has 'min_gene_size_in_nucleotides' => ( is => 'ro', isa => 'Int', default => 18 ); +has 'output_directory' => ( is => 'ro', isa => 'Str', default => '.' ); + +sub _bed_output_filename { + my ($self) = @_; + return join('/',($self->output_directory,join( '.', ( $self->output_filename, 'intermediate.bed' ) ))); +} + +sub _create_bed_file_from_gff { + my ($self) = @_; + + open( my $bed_fh, '>', $self->_bed_output_filename ); + my $gffio = Bio::Tools::GFF->new( -file => $self->gff_file, -gff_version => 3 ); + while ( my $feature = $gffio->next_feature() ) { + + next unless defined($feature); + + # Only interested in a few tags + my $tags_regex = $self->_tags_to_filter; + next if !( $feature->primary_tag =~ /$tags_regex/ ); + + # Must have an ID tag + my $gene_id = $self->_get_feature_id($feature); + next unless($gene_id); + + #filter out small genes + next if ( ( $feature->end - $feature->start ) < $self->min_gene_size_in_nucleotides ); + + my $strand = ($feature->strand > 0)? '+':'-' ; + print {$bed_fh} join( "\t", ( $feature->seq_id, $feature->start -1, $feature->end, $gene_id, 1, $strand ) ) . "\n"; + } + $gffio->close(); +} + +sub _get_feature_id +{ + my ($self, $feature) = @_; + my ( $gene_id, @junk ) ; + if ( $feature->has_tag('ID') ) + { + ( $gene_id, @junk ) = $feature->get_tag_values('ID'); + } + elsif($feature->has_tag('locus_tag')) + { + ( $gene_id, @junk ) = $feature->get_tag_values('locus_tag'); + } + else + { + return undef; + } + $gene_id =~ s!["']!!g; + return undef if ( $gene_id eq "" ); + return $gene_id ; +} + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ChunkFastaFile.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,77 @@ +package Bio::Roary::ChunkFastaFile; + +# ABSTRACT: Take in a FASTA file and chunk it up into smaller pieces. + +=head1 SYNOPSIS + +Take in a FASTA file and chunk it up into smaller pieces. + use Bio::Roary::ChunkFastaFile; + + my $obj = Bio::Roary::ChunkFastaFile->new( + fasta_file => 'abc.fa', + ); + $obj->sequence_file_names; + +=cut + +use Moose; +use Bio::SeqIO; +use Bio::Roary::Exceptions; +use Cwd; +use File::Temp; + +has 'fasta_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'target_chunk_size' => ( is => 'ro', isa => 'Int', default => 200000 ); +has 'sequence_file_names' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build_sequence_file_names' ); +has '_working_directory' => + ( is => 'ro', isa => 'File::Temp::Dir', default => sub { File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); } ); +has '_working_directory_name' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__working_directory_name' ); +has '_input_seqio' => ( is => 'ro', isa => 'Bio::SeqIO', lazy => 1, builder => '_build__input_seqio' ); + +sub _build__working_directory_name { + my ($self) = @_; + return $self->_working_directory->dirname(); +} + +sub _build__input_seqio { + my ($self) = @_; + return Bio::SeqIO->new( -file => $self->fasta_file, -format => 'Fasta' ); +} + +sub _create_next_chunk_file_name { + my ( $self, $chunk_number ) = @_; + return join( '/', ( $self->_working_directory_name, $chunk_number . '.seq' ) ); +} + +sub _create_next_chunk_seqio { + my ( $self, $chunk_number ) = @_; + return Bio::SeqIO->new( -file => ">".$self->_create_next_chunk_file_name($chunk_number), -format => 'Fasta' ); +} + +sub _build_sequence_file_names { + my ($self) = @_; + my @sequence_file_names; + my $chunk_number = 0; + my $current_chunk_length = 0; + my $current_chunk_seqio = $self->_create_next_chunk_seqio($chunk_number); + push( @sequence_file_names, $self->_create_next_chunk_file_name($chunk_number) ); + + while ( my $input_seq = $self->_input_seqio->next_seq() ) { + if ( $current_chunk_length > $self->target_chunk_size ) { + + # next chunk + $chunk_number++; + $current_chunk_length = 0; + $current_chunk_seqio = $self->_create_next_chunk_seqio($chunk_number); + push( @sequence_file_names, $self->_create_next_chunk_file_name($chunk_number) ); + } + $current_chunk_seqio->write_seq($input_seq); + $current_chunk_length += $input_seq->length(); + } + return \@sequence_file_names; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ClustersRole.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,70 @@ +package Bio::Roary::ClustersRole; +# ABSTRACT: A role to read a clusters file from CD hit + +=head1 SYNOPSIS + +A role to read a clusters file from CD hit + with 'Bio::Roary::ClustersRole'; + +=cut + +use Moose::Role; +use Bio::Roary::Exceptions; + +has 'clusters_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has '_clustered_genes' => ( is => 'ro',lazy => 1, builder => '_build__clustered_genes' ); +has '_clusters_fh' => ( is => 'ro',lazy => 1, builder => '_build__clusters_fh' ); + +sub _build__clusters_fh +{ + my($self) = @_; + open(my $fh, $self->clusters_filename) or Bio::Roary::Exceptions::FileNotFound->throw( error => 'Cant open file: ' . $self->clusters_filename ); + return $fh; +} + +sub _build__clustered_genes +{ + my($self) = @_; + my $fh = $self->_clusters_fh; + my %clustered_genes ; + + my %raw_clusters; + my $current_cluster_name; + while(<$fh>) + { + my $line = $_; + if($line =~ /^>(.+)$/) + { + $current_cluster_name = $1; + } + + #>Cluster 5 + #0 4201aa, >6630_4#9_00008... * + #1 4201aa, >6631_1#23_00379... at 100.00% + + if($line =~ /[\d]+\t[\w]+, >(.+)\.\.\. (.+)$/) + { + my $gene_name = $1; + my $identity = $2; + + if($identity eq '*') + { + $raw_clusters{$current_cluster_name}{representative_gene_name} = $gene_name; + } + else + { + push(@{$raw_clusters{$current_cluster_name}{gene_names}}, $gene_name); + } + } + } + + # iterate over the raw clusters and convert to a simple hash + for my $cluster_name (keys %raw_clusters) + { + $clustered_genes{$raw_clusters{$cluster_name}{representative_gene_name}} = $raw_clusters{$cluster_name}{gene_names}; + } + + return \%clustered_genes; +} + +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CombinedProteome.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,51 @@ +package Bio::Roary::CombinedProteome; + +# ABSTRACT: Take in multiple FASTA sequences containing proteomes and concat them together and output a FASTA file, filtering out more than 5% X's + +=head1 SYNOPSIS + +Take in multiple FASTA sequences containing proteomes and concat them together and output a FASTA file, filtering out more than 5% X's + use Bio::Roary::CombinedProteome; + + my $obj = Bio::Roary::CombinedProteome->new( + proteome_files => ['abc.fa','efg.fa'], + output_filename => 'example_output.fa', + maximum_percentage_of_unknowns => 5.0, + ); + $obj->create_combined_proteome_file; + +=cut + +use Moose; +use Bio::Roary::Exceptions; + +has 'proteome_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'combined_output.fa' ); + +sub BUILD { + my ($self) = @_; + + for my $filename ( @{ $self->proteome_files } ) { + Bio::Roary::Exceptions::FileNotFound->throw( error => 'Cant open file: ' . $filename ) + unless ( -e $filename ); + } +} + + + +sub create_combined_proteome_file { + my ($self) = @_; + + unlink($self->output_filename); + for my $filename (@{$self->proteome_files }) + { + system(join(' ', ("cat", $filename, ">>", $self->output_filename))); + } + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/AssemblyStatistics.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,134 @@ +undef $VERSION; +package Bio::Roary::CommandLine::AssemblyStatistics; + +# ABSTRACT: Given a spreadsheet of gene presence and absence calculate some statistics + +=head1 SYNOPSIS + +Given a spreadsheet of gene presence and absence calculate some statistics + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary::AssemblyStatistics; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'spreadsheet' => ( is => 'rw', isa => 'Str', default => 'gene_presence_absence.csv' ); +has 'job_runner' => ( is => 'rw', isa => 'Str', default => 'Local' ); +has 'cpus' => ( is => 'rw', isa => 'Int', default => 1 ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'assembly_statistics.csv' ); +has 'version' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'core_definition' => ( is => 'rw', isa => 'Num', default => 0.99 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); + + +sub BUILD { + my ($self) = @_; + + my ( + $spreadsheet, + $job_runner, + $cpus, + $output_filename, + $version, + $core_definition, + $verbose, + $help + ); + + GetOptionsFromArray( + $self->args, + 'o|output_filename=s' => \$output_filename, + 'j|job_runner=s' => \$job_runner, + 'p|processors=i' => \$cpus, + 'cd|core_definition=f' => \$core_definition, + 'v|verbose' => \$verbose, + 'w|version' => \$version, + 'h|help' => \$help, + ); + + $self->version($version) if ( defined($version) ); + if ( $self->version ) { + die($self->_version()); + } + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + + $self->help($help) if ( defined($help) ); + ( !$self->help ) or die $self->usage_text; + if(@{$self->args} == 0) + { + $self->logger->error("Error: You need to provide a gene_presence_absence.csv spreadsheet"); + die $self->usage_text; + } + $self->output_filename($output_filename) if ( defined($output_filename) ); + $self->job_runner($job_runner) if ( defined($job_runner) ); + $self->cpus($cpus) if ( defined($cpus) ); + + if ( $self->cpus > 1 ) { + $self->job_runner('Parallel'); + } + + $self->core_definition( $core_definition / 100 ) if ( defined($core_definition) ); + + for my $filename ( @{ $self->args } ) { + if ( !-e $filename ) { + $self->logger->error("Error: Cant access file $filename"); + die $self->usage_text; + } + } + $self->spreadsheet( $self->args->[0] ); + +} + +sub _version +{ + my ($self) = @_; + if(defined($Bio::Roary::CommandLine::AssemblyStatistics::VERSION)) + { + return $Bio::Roary::CommandLine::AssemblyStatistics::VERSION ."\n"; + } + else + { + return "x.y.z\n"; + } +} + +sub run { + my ($self) = @_; + + my $obj = Bio::Roary::AssemblyStatistics->new( spreadsheet => $self->spreadsheet, logger => $self->logger ); + $obj->create_summary_output; +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: pan_genome_assembly_statistics [options] gene_presence_absence.csv +Take in a gene presence and absence spreadsheet and output some statistics + +Options: -p INT number of threads [1] + -o STR output filename [assembly_statistics.csv] + -cd FLOAT percentage of isolates a gene must be in to be core [99] + -v verbose output to STDOUT + -w print version and exit + -h this help message + +Example: Run with defaults + pan_genome_assembly_statistics gene_presence_absence.csv + +For further information see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/Common.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,57 @@ +package Bio::Roary::CommandLine::Common; +# ABSTRACT: Common command line settings + +=head1 SYNOPSIS + +Common command line settings + + extends 'Bio::Roary::CommandLine::Common'; + +=cut + +use Moose; +use FindBin; +use Log::Log4perl qw(:easy); + +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger'); +has 'version' => ( is => 'rw', isa => 'Bool', default => 0 ); + +sub _build_logger +{ + my ($self) = @_; + Log::Log4perl->easy_init($ERROR); + my $logger = get_logger(); + return $logger; +} + + +sub run { + my ($self) = @_; +} + +sub usage_text { + my ($self) = @_; + return "Usage text"; +} + +sub _version { + my ($self) = @_; + return "x.y.z\n"; +} + + +# add our included binaries to the END of the PATH +before 'run' => sub { + my ($self) = @_; + my $OPSYS = $^O; + my $BINDIR = "$FindBin::RealBin/../binaries/$OPSYS"; + + for my $dir ($BINDIR, $FindBin::RealBin) { + if (-d $dir) { + $ENV{PATH} .= ":$dir"; + } + } +}; + +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/CreatePanGenome.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,72 @@ +undef $VERSION; +package Bio::Roary::CommandLine::CreatePanGenome; + +# ABSTRACT: Take in FASTA files of proteins and cluster them + +=head1 SYNOPSIS + +Take in FASTA files of proteins and cluster them + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary; +use Bio::Roary::PrepareInputFiles; +use Bio::Roary::QC::Report; +extends 'Bio::Roary::CommandLine::Roary'; + +has 'job_runner' => ( is => 'rw', isa => 'Str', default => 'Local' ); +has 'output_multifasta_files' => ( is => 'rw', isa => 'Bool', default => 1 ); +has 'dont_create_rplots' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'core_definition' => ( is => 'rw', isa => 'Num', default => 0.99 ); +has 'run_qc' => ( is => 'rw', isa => 'Bool', default => 1 ); + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: create_pan_genome [options] *.gff +Build a pan genome with WTSI defaults. + +Options: -p INT number of threads [1] + -o STR clusters output filename [clustered_proteins] + -f STR output directory [.] + -e create a multiFASTA alignment of core genes + -n fast core gene alignement with MAFFT, use with -e + -i minimum percentage identity for blastp [95] + -cd FLOAT percentage of isolates a gene must be in to be core [99] + -z dont delete intermediate files + -t INT translation table [11] + -v verbose output to STDOUT + -y add gene inference information to spreadsheet, doesnt work with -e + -g INT maximum number of clusters [50000] + -qc generate QC report with Kraken + -k STR path to Kraken database for QC, use with -qc + -w print version and exit + -a check dependancies and print versions + -h this help message + +Example: Quickly generate a core gene alignment using 16 threads + + bsub.py --threads 16 10 log create_pan_genome -e --mafft -p 16 *.gff + +Example: Allow Roary to bsub the jobs to LSF - you cant bsub this command itself + + create_pan_genome -j LSF -e --mafft -p 16 *.gff + +Example: Create a tree and visualise with iCANDY + + annotationfind –t file –i file_of_lanes -symlink . + bsub.py --threads 16 10 log create_pan_genome -e --mafft -p 16 *.gff + ~sh16/scripts/run_RAxML.py -a core_gene_alignment.aln -q normal -M 8 -n 8 -V AVX -o tree + bsub.py 10 log ~sh16/scripts/iCANDY.py -t RAxML_bipartitions.tree -q taxa -l 1 -E 30 -o accessory.pdf -M -L left -p A1 -g 90 accessory.tab accessory.header.embl + +For further info see: http://mediawiki.internal.sanger.ac.uk/index.php/Pathogen_Informatics_Pan_Genome_Pipeline + +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/ExtractProteomeFromGff.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,121 @@ +undef $VERSION; +package Bio::Roary::CommandLine::ExtractProteomeFromGff; + +# ABSTRACT: Take in GFF files and output the proteome + +=head1 SYNOPSIS + +Take in a GFF file and output the proteome + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary::ExtractProteomeFromGFF; +use File::Basename; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'gff_files' => ( is => 'rw', isa => 'ArrayRef' ); +has 'output_suffix' => ( is => 'rw', isa => 'Str', default => 'proteome.faa' ); +has '_error_message' => ( is => 'rw', isa => 'Str' ); +has 'apply_unknowns_filter' => ( is => 'rw', isa => 'Bool', default => 1 ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'output_directory' => ( is => 'rw', isa => 'Str', default => '.' ); + +sub BUILD { + my ($self) = @_; + + my ( $gff_files, $output_suffix, $apply_unknowns_filter, $help, $translation_table, $verbose, $cmd_version, $output_directory ); + + GetOptionsFromArray( + $self->args, + 'o|output_suffix=s' => \$output_suffix, + 'f|apply_unknowns_filter=i' => \$apply_unknowns_filter, + 't|translation_table=i' => \$translation_table, + 'v|verbose' => \$verbose, + 'd|output_directory=s' => \$output_directory, + 'w|version' => \$cmd_version, + 'h|help' => \$help, + ); + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + + $self->help($help) if(defined($help)); + ( !$self->help ) or die $self->usage_text; + + $self->version($cmd_version) if ( defined($cmd_version) ); + if ( $self->version ) { + die($self->_version()); + } + + if ( @{ $self->args } == 0 ) { + $self->_error_message("Error: You need to provide a GFF file"); + } + + $self->output_suffix($output_suffix) if ( defined($output_suffix) ) ; + $self->apply_unknowns_filter($apply_unknowns_filter) if ( defined($apply_unknowns_filter) ); + $self->translation_table($translation_table) if ( defined($translation_table) ); + $self->output_directory($output_directory) if ( defined($output_directory) ); + + for my $filename ( @{ $self->args } ) { + if ( !-e $filename ) { + $self->_error_message("Error: Cant access file $filename"); + last; + } + } + $self->gff_files( $self->args ); + +} + +sub run { + my ($self) = @_; + + if ( defined( $self->_error_message ) ) { + print $self->_error_message . "\n"; + die $self->usage_text; + } + + for my $gff_file ( @{ $self->gff_files } ) { + my ( $filename, $directories, $suffix ) = fileparse($gff_file); + my $obj = Bio::Roary::ExtractProteomeFromGFF->new( + gff_file => $gff_file, + output_filename => $filename . '.' . $self->output_suffix, + apply_unknowns_filter => $self->apply_unknowns_filter, + translation_table => $self->translation_table, + output_directory => $self->output_directory, + ); + $obj->fasta_file(); + } + +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: extract_proteome_from_gff [options] *.gff +Take in GFF files and create FASTA files of the protein sequences + +Options: -o STR output suffix [proteome.faa] + -t INT translation table [11] + -f filter sequences with missing data + -v verbose output to STDOUT + -d STR output directory + -w print version and exit + -h this help message + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/GeneAlignmentFromNucleotides.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,134 @@ +undef $VERSION; +package Bio::Roary::CommandLine::GeneAlignmentFromNucleotides; + +# ABSTRACT: Take in a multifasta file of nucleotides, convert to proteins and align with PRANK + +=head1 SYNOPSIS + +Take in a multifasta file of nucleotides, convert to proteins and align with PRANK or MAFFT, reverse translate back to nucleotides + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use File::Copy; +use Bio::Roary::AnnotateGroups; +use Bio::Roary::External::Prank; +use Bio::Roary::Output::GroupsMultifastaProtein; +use Bio::Roary::SortFasta; +use Bio::Roary::External::Mafft; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'nucleotide_fasta_files' => ( is => 'rw', isa => 'ArrayRef' ); +has '_error_message' => ( is => 'rw', isa => 'Str' ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'mafft' => ( is => 'rw', isa => 'Bool', default => 0 ); +has '_min_similarity' => ( is => 'rw', isa => 'Num', default => 0.98 ); + +sub BUILD { + my ($self) = @_; + + my ( $nucleotide_fasta_files, $help, $verbose,$mafft, ); + + GetOptionsFromArray( + $self->args, + 'v|verbose' => \$verbose, + 'n|mafft' => \$mafft, + 'h|help' => \$help, + ); + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + $self->mafft($mafft) if (defined($mafft)); + $self->help($help) if ( defined($help) ); + if ( @{ $self->args } == 0 ) { + $self->_error_message("Error: You need to provide at least 1 FASTA file"); + } + + for my $filename ( @{ $self->args } ) { + if ( !-e $filename ) { + $self->_error_message("Error: Cant access file $filename"); + last; + } + } + $self->nucleotide_fasta_files( $self->args ); +} + +sub run { + my ($self) = @_; + + ( !$self->help ) or die $self->usage_text; + if ( defined( $self->_error_message ) ) { + print $self->_error_message . "\n"; + die $self->usage_text; + } + + for my $fasta_file ( @{ $self->nucleotide_fasta_files } ) { + + my $sort_fasta_before = Bio::Roary::SortFasta->new( + input_filename => $fasta_file, + make_multiple_of_three => 1, + ); + $sort_fasta_before->sort_fasta->replace_input_with_output_file; + + if ( $sort_fasta_before->sequences_unaligned == 1 || $sort_fasta_before->sequences_unaligned == 0 && $sort_fasta_before->similarity <= $self->_min_similarity) { + + if ( $self->mafft == 1 ) { + my $mafft_obj = Bio::Roary::External::Mafft->new( + input_filename => $fasta_file, + output_filename => $fasta_file . '.aln', + job_runner => 'Local', + logger => $self->logger, + verbose => $self->verbose + ); + $mafft_obj->run(); + } + else { + + my $prank_obj = Bio::Roary::External::Prank->new( + input_filename => $fasta_file, + output_filename => $fasta_file . '.aln', + job_runner => 'Local', + logger => $self->logger, + verbose => $self->verbose + ); + $prank_obj->run(); + } + } + else { + move( $fasta_file, $fasta_file . '.aln' ); + } + + my $sort_fasta_after_revtrans = Bio::Roary::SortFasta->new( + input_filename => $fasta_file . '.aln', + remove_nnn_from_end => 1, + ); + $sort_fasta_after_revtrans->sort_fasta->replace_input_with_output_file; + unlink($fasta_file); + } +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: protein_alignment_from_nucleotides [options] *.fa +Take in multi-FASTA files of nucleotides and align each file with PRANK or MAFFT + +Options: -n nucleotide alignment with MAFFT + -v verbose output to STDOUT + -h this help message + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/IterativeCdhit.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,121 @@ +undef $VERSION; +package Bio::Roary::CommandLine::IterativeCdhit; + +# ABSTRACT: Iteratively run cdhit + +=head1 SYNOPSIS + +Iteratively run cdhit + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary::IterativeCdhit; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); +has '_error_message' => ( is => 'rw', isa => 'Str' ); + +has 'output_cd_hit_filename' => ( is => 'rw', isa => 'Str', default => '_clustered' ); +has 'output_combined_filename' => ( is => 'rw', isa => 'Str', default => '_combined_files' ); +has 'number_of_input_files' => ( is => 'rw', isa => 'Int', default => 1 ); +has 'output_filtered_clustered_fasta' => ( is => 'rw', isa => 'Str', default => '_clustered_filtered.fa' ); + +has 'lower_bound_percentage' => ( is => 'rw', isa => 'Num', default => 0.98 ); +has 'upper_bound_percentage' => ( is => 'rw', isa => 'Num', default => 0.99 ); +has 'step_size_percentage' => ( is => 'rw', isa => 'Num', default => 0.005 ); +has 'cpus' => ( is => 'rw', isa => 'Int', default => 1 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); + + +sub BUILD { + my ($self) = @_; + + my ( $output_cd_hit_filename,$cpus,$lower_bound_percentage,$upper_bound_percentage,$step_size_percentage, $output_combined_filename, $number_of_input_files, $output_filtered_clustered_fasta,$verbose, + $help ); + + GetOptionsFromArray( + $self->args, + 'c|output_cd_hit_filename=s' => \$output_cd_hit_filename, + 'm|output_combined_filename=s' => \$output_combined_filename, + 'n|number_of_input_files=i' => \$number_of_input_files, + 'f|output_filtered_clustered_fasta=s' => \$output_filtered_clustered_fasta, + 'l|lower_bound_percentage=s' => \$lower_bound_percentage, + 'u|upper_bound_percentage=s' => \$upper_bound_percentage, + 's|step_size_percentage=s' => \$step_size_percentage, + 'p|cpus=i' => \$cpus, + 'v|verbose' => \$verbose, + 'h|help' => \$help, + ); + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + $self->help($help) if(defined($help)); + $self->lower_bound_percentage($lower_bound_percentage/100) if ( defined($lower_bound_percentage) ); + $self->upper_bound_percentage($upper_bound_percentage/100) if ( defined($upper_bound_percentage) ); + $self->step_size_percentage($step_size_percentage/100) if ( defined($step_size_percentage) ); + $self->output_cd_hit_filename($output_cd_hit_filename) if ( defined($output_cd_hit_filename) ); + $self->output_combined_filename($output_combined_filename) if ( defined($output_combined_filename) ); + $self->number_of_input_files($number_of_input_files) if ( defined($number_of_input_files) ); + $self->cpus($cpus) if ( defined($cpus) ); + $self->output_filtered_clustered_fasta($output_filtered_clustered_fasta) + if ( defined($output_filtered_clustered_fasta) ); + +} + +sub run { + my ($self) = @_; + + ( !$self->help ) or die $self->usage_text; + if ( defined( $self->_error_message ) ) { + print $self->_error_message . "\n"; + die $self->usage_text; + } + + my $obj = Bio::Roary::IterativeCdhit->new( + output_cd_hit_filename => $self->output_cd_hit_filename, + output_combined_filename => $self->output_combined_filename, + number_of_input_files => $self->number_of_input_files, + output_filtered_clustered_fasta => $self->output_filtered_clustered_fasta, + lower_bound_percentage => $self->lower_bound_percentage, + upper_bound_percentage => $self->upper_bound_percentage, + step_size_percentage => $self->step_size_percentage, + cpus => $self->cpus, + logger => $self->logger + + ); + $obj->run; +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: iterative_cdhit [options] +Iteratively cluster a FASTA file of proteins with CD-hit, lower the threshold each time and extracting core genes (1 per isolate) to another file, and remove them from the input proteins file. + +Required arguments: + -m STR input FASTA file of protein sequences [_combined_files] + +Options: -p INT number of threads [1] + -n INT number of isolates [1] + -c STR cd-hit output filename [_clustered] + -f STR output filename for filtered sequences [_clustered_filtered.fa] + -l FLOAT lower bound percentage identity [98.0] + -u FLOAT upper bound percentage identity [99.0] + -s FLOAT step size for percentage identity [0.5] + -v verbose output to STDOUT + -h this help message + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/ParallelAllAgainstAllBlastp.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,141 @@ +undef $VERSION; +package Bio::Roary::CommandLine::ParallelAllAgainstAllBlastp; + +# ABSTRACT: Take in a FASTA file of proteins and blast against itself + +=head1 SYNOPSIS + +Take in a FASTA file of proteins and blast against itself + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary::ParallelAllAgainstAllBlast; +use Bio::Roary::CombinedProteome; +use Bio::Roary::PrepareInputFiles; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'fasta_files' => ( is => 'rw', isa => 'ArrayRef' ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'blast_results' ); +has 'job_runner' => ( is => 'rw', isa => 'Str', default => 'Local' ); +has 'cpus' => ( is => 'rw', isa => 'Int', default => 1 ); +has 'makeblastdb_exec' => ( is => 'rw', isa => 'Str', default => 'makeblastdb' ); +has 'blastp_exec' => ( is => 'rw', isa => 'Str', default => 'blastp' ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has '_error_message' => ( is => 'rw', isa => 'Str' ); + +sub BUILD { + my ($self) = @_; + + my ( $fasta_files, $output_filename, $job_runner, $makeblastdb_exec, $blastp_exec, $help, $cpus, $verbose, ); + + GetOptionsFromArray( + $self->args, + 'o|output=s' => \$output_filename, + 'j|job_runner=s' => \$job_runner, + 'm|makeblastdb_exec=s' => \$makeblastdb_exec, + 'b|blastp_exec=s' => \$blastp_exec, + 'p|processors=i' => \$cpus, + 'v|verbose' => \$verbose, + 'h|help' => \$help, + ); + + if ( @{ $self->args } == 0 ) { + $self->_error_message("Error: You need to provide a FASTA file"); + } + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + $self->help($help) if(defined($help)); + $self->output_filename($output_filename) if ( defined($output_filename) ); + $self->makeblastdb_exec($makeblastdb_exec) if ( defined($makeblastdb_exec) ); + $self->blastp_exec($blastp_exec) if ( defined($blastp_exec) ); + $self->job_runner($job_runner) if ( defined($job_runner) ); + $self->cpus($cpus) if ( defined($cpus) ); + if ( $self->cpus > 1 ) { + $self->job_runner('Parallel'); + } + + for my $filename ( @{ $self->args } ) { + if ( !-e $filename ) { + $self->_error_message("Error: Cant access file $filename"); + last; + } + } + $self->fasta_files( $self->args ); + +} + +sub run { + my ($self) = @_; + + ( !$self->help ) or die $self->usage_text; + if ( defined( $self->_error_message ) ) { + print $self->_error_message . "\n"; + die $self->usage_text; + } + + my $prepare_input_files = Bio::Roary::PrepareInputFiles->new( + input_files => $self->fasta_files, + ); + + my $output_combined_filename; + if(@{$self->fasta_files} > 1) + { + $output_combined_filename = 'combined_files.fa'; + $self->logger->info("Combining protein files"); + my $combine_fasta_files = Bio::Roary::CombinedProteome->new( + proteome_files => $prepare_input_files->fasta_files, + output_filename => $output_combined_filename, + maximum_percentage_of_unknowns => 5.0, + apply_unknowns_filter => 0 + ); + $combine_fasta_files->create_combined_proteome_file; + } + else + { + $output_combined_filename = $self->fasta_files->[0]; + } + + $self->logger->info("Beginning all against all blast"); + my $blast_obj = Bio::Roary::ParallelAllAgainstAllBlast->new( + fasta_file => $output_combined_filename, + blast_results_file_name => $self->output_filename, + job_runner => $self->job_runner, + cpus => $self->cpus, + makeblastdb_exec => $self->makeblastdb_exec, + blastp_exec => $self->blastp_exec, + logger => $self->logger + ); + $blast_obj->run(); +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: parallel_all_against_all_blastp [options] file.faa +Take in a FASTA file of proteins and blast against itself + +Options: -p INT number of threads [1] + -o STR output filename for blast results [blast_results] + -m STR makeblastdb executable [makeblastdb] + -b STR blastp executable [blastp] + -v verbose output to STDOUT + -h this help message + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/QueryRoary.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,253 @@ +undef $VERSION; +package Bio::Roary::CommandLine::QueryRoary; + +# ABSTRACT: Take in a groups file and the protein fasta files and output selected data + +=head1 SYNOPSIS + +Take in a groups file and the protein fasta files and output selected data + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary::AnalyseGroups; +use Bio::Roary::Output::GroupsMultifastas; +use Bio::Roary::Output::QueryGroups; +use Bio::Roary::PrepareInputFiles; +use Bio::Roary::Output::DifferenceBetweenSets; +use Bio::Roary::AnnotateGroups; +use Bio::Roary::GroupStatistics; +use Bio::Roary::OrderGenes; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'rw', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'input_files' => ( is => 'rw', isa => 'ArrayRef' ); +has 'groups_filename' => ( is => 'rw', isa => 'Str', default => 'clustered_proteins'); +has 'group_names' => ( is => 'rw', isa => 'ArrayRef' ); +has 'input_set_one' => ( is => 'rw', isa => 'ArrayRef' ); +has 'input_set_two' => ( is => 'rw', isa => 'ArrayRef' ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'pan_genome_results' ); +has 'action' => ( is => 'rw', isa => 'Str', default => 'union' ); +has 'core_definition' => ( is => 'rw', isa => 'Num', default => 0.99 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has '_error_message' => ( is => 'rw', isa => 'Str' ); + +sub BUILD { + my ($self) = @_; + + my ( $input_files, $output_filename, $groups_filename, @group_names, @input_set_one, @input_set_two, $action, $core_definition,$verbose, $help ); + + GetOptionsFromArray( + $self->args, + 'o|output=s' => \$output_filename, + 'g|groups_filename=s' => \$groups_filename, + 'n|group_names=s' => \@group_names, + 'a|action=s' => \$action, + 'i|input_set_one=s' => \@input_set_one, + 't|input_set_two=s' => \@input_set_two, + 'c|core_definition=f' => \$core_definition, + 'v|verbose' => \$verbose, + 'h|help' => \$help, + ); + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + $self->help($help) if(defined($help)); + + $self->output_filename($output_filename) if ( defined($output_filename) ); + $self->action($action) if ( defined($action) ); + $self->core_definition( $core_definition / 100 ) if ( defined($core_definition) ); + if ( defined($groups_filename) && ( -e $groups_filename ) ) { + $self->groups_filename($groups_filename); + } + + if(! (-e $self->groups_filename)) { + $self->_error_message("Error: Cant access the groups file: ".$self->groups_filename); + } + + @group_names = split( /,/, join( ',', @group_names ) ); + $self->group_names( \@group_names ) if (@group_names); + + @input_set_one = split( /,/, join( ',', @input_set_one ) ); + $self->input_set_one( \@input_set_one ) if (@input_set_one); + + @input_set_two = split( /,/, join( ',', @input_set_two ) ); + $self->input_set_two( \@input_set_two ) if (@input_set_two); + + if(defined($self->input_set_one) && defined($self->input_set_two) ) + { + my @all_input_files = (@{ $self->input_set_one },@{ $self->input_set_two }); + $self->args(\@all_input_files); + } + + + if ( !defined($self->input_set_two) && @{ $self->args } == 0) { + $self->_error_message("Error: You need to provide a FASTA file"); + } + + for my $filename ( @{ $self->args } ) { + if ( !-e $filename ) { + $self->_error_message("Error: Cant access file $filename"); + last; + } + } + $self->input_files( $self->args ); + +} + +sub run { + my ($self) = @_; + + ( !$self->help ) or die $self->usage_text; + if ( defined( $self->_error_message ) ) { + print $self->_error_message . "\n"; + die $self->usage_text; + } + + my $prepare_input_files = Bio::Roary::PrepareInputFiles->new( + input_files => $self->input_files, + ); + + my $analyse_groups_obj = Bio::Roary::AnalyseGroups->new( + fasta_files => $prepare_input_files->fasta_files, + groups_filename => $self->groups_filename, + ); + + if ( $self->action eq 'union' ) { + my $query_groups = Bio::Roary::Output::QueryGroups->new( + analyse_groups => $analyse_groups_obj, + output_union_filename => $self->output_filename, + input_filenames => $prepare_input_files->fasta_files + ); + $query_groups->groups_union(); + } + elsif ( $self->action eq 'intersection' ) { + my $query_groups = Bio::Roary::Output::QueryGroups->new( + analyse_groups => $analyse_groups_obj, + output_intersection_filename => $self->output_filename, + input_filenames => $prepare_input_files->fasta_files, + core_definition => $self->core_definition + ); + $query_groups->groups_intersection(); + } + elsif ( $self->action eq 'complement' ) { + my $query_groups = Bio::Roary::Output::QueryGroups->new( + analyse_groups => $analyse_groups_obj, + output_complement_filename => $self->output_filename, + input_filenames => $prepare_input_files->fasta_files, + core_definition => $self->core_definition + ); + $query_groups->groups_complement(); + } + elsif ( $self->action eq 'gene_multifasta' && defined( $self->group_names ) ) { + my $group_multi_fastas = Bio::Roary::Output::GroupsMultifastas->new( + group_names => $self->group_names, + analyse_groups => $analyse_groups_obj, + output_filename_base => $self->output_filename + ); + $group_multi_fastas->create_files(); + } + elsif($self->action eq 'difference' && defined($self->input_set_one) && defined($self->input_set_two)) + { + my $difference_between_sets = Bio::Roary::Output::DifferenceBetweenSets->new( + analyse_groups => $analyse_groups_obj, + input_filenames_sets => [ + $prepare_input_files->lookup_fasta_files_from_unknown_input_files($self->input_set_one), + $prepare_input_files->lookup_fasta_files_from_unknown_input_files($self->input_set_two) + ], + ); + $difference_between_sets->groups_set_one_unique(); + $difference_between_sets->groups_set_two_unique(); + $difference_between_sets->groups_in_common(); + + for my $differences_group_filename(($difference_between_sets->groups_set_one_unique_filename,$difference_between_sets->groups_set_two_unique_filename,$difference_between_sets->groups_in_common_filename)) + { + $self->create_spreadsheets($differences_group_filename, $prepare_input_files->fasta_files, $self->input_files); + } + + } + else { + print "Nothing done\n"; + } +} + +sub create_spreadsheets +{ + my ($self, $groups_file, $fasta_files, $gff_files) = @_; + + my $analyse_groups_obj = Bio::Roary::AnalyseGroups->new( + fasta_files => $fasta_files, + groups_filename => $groups_file, + ); + + my $annotate_groups = Bio::Roary::AnnotateGroups->new( + gff_files => $gff_files, + output_filename => $groups_file.'_reannotated', + groups_filename => $groups_file, + ); + $annotate_groups->reannotate; + + my $order_genes_obj = Bio::Roary::OrderGenes->new( + analyse_groups_obj => $analyse_groups_obj, + gff_files => $gff_files, + core_definition => $self->core_definition, + pan_graph_filename => 'set_difference_core_accessory_graph.dot', + accessory_graph_filename => 'set_difference_accessory_graph.dot', + ); + + my $group_statistics = Bio::Roary::GroupStatistics->new( + output_filename => $groups_file.'_statistics.csv', + annotate_groups_obj => $annotate_groups, + analyse_groups_obj => $analyse_groups_obj, + groups_to_contigs => $order_genes_obj->groups_to_contigs + ); + $group_statistics->create_spreadsheet; +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: query_pan_genome [options] *.gff +Perform set operations on the pan genome to see the gene differences between groups of isolates. + +Options: -g STR groups filename [clustered_proteins] + -a STR action (union/intersection/complement/gene_multifasta/difference) [union] + -c FLOAT percentage of isolates a gene must be in to be core [99] + -o STR output filename [pan_genome_results] + -n STR comma separated list of gene names for use with gene_multifasta action + -i STR comma separated list of filenames, comparison set one + -t STR comma separated list of filenames, comparison set two + -v verbose output to STDOUT + -h this help message + +Examples: +Union of genes found in isolates + query_pan_genome -a union *.gff + +Intersection of genes found in isolates (core genes) + query_pan_genome -a intersection *.gff + +Complement of genes found in isolates (accessory genes) + query_pan_genome -a complement *.gff + +Extract the sequence of each gene listed and create multi-FASTA files + query_pan_genome -a gene_multifasta -n gryA,mecA,abc *.gff + +Gene differences between sets of isolates + query_pan_genome -a difference --input_set_one 1.gff,2.gff --input_set_two 3.gff,4.gff,5.gff + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/Roary.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,386 @@ +undef $VERSION; + +package Bio::Roary::CommandLine::Roary; + +# ABSTRACT: Take in FASTA files of proteins and cluster them + +=head1 SYNOPSIS + +Take in FASTA files of proteins and cluster them + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary; +use Bio::Roary::PrepareInputFiles; +use Bio::Roary::QC::Report; +use Bio::Roary::ReformatInputGFFs; +use Bio::Roary::External::CheckTools; +use File::Which; +use File::Path qw(make_path); +use Cwd qw(abs_path getcwd); +use File::Temp; +use File::Basename; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'fasta_files' => ( is => 'rw', isa => 'ArrayRef', default => sub { [] } ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'clustered_proteins' ); +has 'output_directory' => ( is => 'rw', isa => 'Str', default => '.' ); +has '_original_directory' => ( is => 'rw', isa => 'Str', default => '.' ); +has 'job_runner' => ( is => 'rw', isa => 'Str', default => 'Local' ); +has 'makeblastdb_exec' => ( is => 'rw', isa => 'Str', default => 'makeblastdb' ); +has 'blastp_exec' => ( is => 'rw', isa => 'Str', default => 'blastp' ); +has 'mcxdeblast_exec' => ( is => 'rw', isa => 'Str', default => 'mcxdeblast' ); +has 'mcl_exec' => ( is => 'rw', isa => 'Str', default => 'mcl' ); +has 'apply_unknowns_filter' => ( is => 'rw', isa => 'Bool', default => 1 ); +has 'cpus' => ( is => 'rw', isa => 'Int', default => 1 ); +has 'output_multifasta_files' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'perc_identity' => ( is => 'rw', isa => 'Num', default => 95 ); +has 'dont_delete_files' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'check_dependancies' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'dont_create_rplots' => ( is => 'rw', isa => 'Bool', default => 1 ); +has 'dont_run_qc' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'dont_split_groups' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'verbose_stats' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); +has 'mafft' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'allow_paralogs' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'group_limit' => ( is => 'rw', isa => 'Num', default => 50000 ); +has 'core_definition' => ( is => 'rw', isa => 'Num', default => 0.99 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'kraken_db' => ( is => 'rw', isa => 'Str', default => '/lustre/scratch118/infgen/pathogen/pathpipe/kraken/minikraken_20140330/' ); +has 'run_qc' => ( is => 'rw', isa => 'Bool', default => 0 ); +has '_working_directory' => ( is => 'rw', isa => 'File::Temp::Dir', lazy => 1, builder => '_build__working_directory' ); + +has 'inflation_value' => ( is => 'rw', isa => 'Num', default => 1.5 ); + +sub _build__working_directory +{ + my ($self) = @_; + return File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); +} + +sub BUILD { + my ($self) = @_; + + my ( + $fasta_files, $verbose, $create_rplots, $group_limit, $dont_run_qc, + $max_threads, $dont_delete_files, $dont_split_groups, $perc_identity, $output_filename, + $job_runner, $makeblastdb_exec, $mcxdeblast_exec, $mcl_exec, $blastp_exec, + $apply_unknowns_filter, $cpus, $output_multifasta_files, $verbose_stats, $translation_table, + $run_qc, $core_definition, $help, $kraken_db, $cmd_version, + $mafft, $output_directory, $check_dependancies, $inflation_value, $allow_paralogs, + ); + + GetOptionsFromArray( + $self->args, + 'o|output=s' => \$output_filename, + 'f|output_directory=s' => \$output_directory, + 'j|job_runner=s' => \$job_runner, + 'm|makeblastdb_exec=s' => \$makeblastdb_exec, + 'b|blastp_exec=s' => \$blastp_exec, + 'd|mcxdeblast_exec=s' => \$mcxdeblast_exec, + 'c|mcl_exec=s' => \$mcl_exec, + 'p|processors=i' => \$cpus, + 'u|apply_unknowns_filter=i' => \$apply_unknowns_filter, + 'e|output_multifasta_files' => \$output_multifasta_files, + 'i|perc_identity=i' => \$perc_identity, + 'z|dont_delete_files' => \$dont_delete_files, + 's|dont_split_groups' => \$dont_split_groups, + 'r|create_rplots' => \$create_rplots, + 'y|verbose_stats' => \$verbose_stats, + 't|translation_table=i' => \$translation_table, + 'g|group_limit=i' => \$group_limit, + 'qc|run_qc' => \$run_qc, + 'x|dont_run_qc' => \$dont_run_qc, + 'cd|core_definition=f' => \$core_definition, + 'v|verbose' => \$verbose, + 'n|mafft' => \$mafft, + 'ap|allow_paralogs' => \$allow_paralogs, + 'k|kraken_db=s' => \$kraken_db, + 'w|version' => \$cmd_version, + 'a|check_dependancies' => \$check_dependancies, + 'iv|inflation_value=f' => \$inflation_value, + 'h|help' => \$help, + ); + + $self->version($cmd_version) if ( defined($cmd_version) ); + if ( $self->version ) { + print $self->_version() ; + return; + } + + print "\nPlease cite Roary if you use any of the results it produces: + Andrew J. Page, Carla A. Cummins, Martin Hunt, Vanessa K. Wong, Sandra Reuter, Matthew T. G. Holden, Maria Fookes, Daniel Falush, Jacqueline A. Keane, Julian Parkhill, + \"Roary: Rapid large-scale prokaryote pan genome analysis\", Bioinformatics, 2015 Nov 15;31(22):3691-3693 + doi: http://doi.org/10.1093/bioinformatics/btv421 + Pubmed: 26198102\n\n"; + + $self->help($help) if ( defined($help) ); + if( $self->help ) + { + print $self->usage_text; + return; + } + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + + $self->check_dependancies($check_dependancies) if ( defined($check_dependancies) ); + if ($self->check_dependancies) { + my $check_tools = Bio::Roary::External::CheckTools->new(); + $check_tools->check_all_tools; + $self->logger->error( "Roary version " . $self->_version() ); + + if( @{ $self->args } < 1 ) + { + return; + } + } + + if ( @{ $self->args } < 2 ) { + $self->logger->error("Error: You need to provide at least 2 files to build a pan genome"); + die $self->usage_text; + } + my %basenames; + foreach my $string (@{$self->args}) { + my($base, $path, $suf) = fileparse($string); + next unless $basenames{$base}++; + $self->logger->error("Error: GFF files must have unique basenames."); + die $self->usage_text; + } + + if ( @{ $self->args } < 2 ) { + $self->logger->error("Error: You need to provide at least 2 files to build a pan genome"); + die $self->usage_text; + } + $self->output_filename($output_filename) if ( defined($output_filename) ); + $self->job_runner($job_runner) if ( defined($job_runner) ); + $self->makeblastdb_exec($makeblastdb_exec) if ( defined($makeblastdb_exec) ); + $self->blastp_exec($blastp_exec) if ( defined($blastp_exec) ); + $self->mcxdeblast_exec($mcxdeblast_exec) if ( defined($mcxdeblast_exec) ); + $self->mcl_exec($mcl_exec) if ( defined($mcl_exec) ); + $self->cpus($cpus) if ( defined($cpus) ); + $self->inflation_value($inflation_value) if ( defined($inflation_value)); + + if ( defined($perc_identity) ) { + $self->perc_identity($perc_identity); + if ( $perc_identity < 50 ) { + $self->logger->error( +"The percentage identity is too low. Either something is wrong with your data, like contamination, or your doing something that the software isnt designed to support." + ); + } + } + + $self->mafft($mafft) if ( defined($mafft) ); + $self->apply_unknowns_filter($apply_unknowns_filter) + if ( defined($apply_unknowns_filter) ); + + if ( defined($output_multifasta_files) ) { + if ( which('prank') ) { + $self->output_multifasta_files($output_multifasta_files); + } + else { + + if ( which('mafft') ) { + $self->output_multifasta_files($output_multifasta_files); + $self->mafft(1); + $self->logger->warn("PRANK not found in your PATH so using MAFFT instead to generate multiFASTA alignments."); + } + else { + $self->logger->warn("PRANK (or MAFFT) not found in your PATH so cannot generate multiFASTA alignments, skipping for now."); + } + } + } + $self->dont_delete_files($dont_delete_files) if ( defined($dont_delete_files) ); + $self->dont_split_groups($dont_split_groups) if ( defined($dont_split_groups) ); + $self->dont_create_rplots(0) if ( defined($create_rplots) ); + $self->verbose_stats($verbose_stats) if ( defined $verbose_stats ); + $self->translation_table($translation_table) if ( defined($translation_table) ); + $self->group_limit($group_limit) if ( defined($group_limit) ); + $self->kraken_db($kraken_db) if ( defined($kraken_db) ); + $self->output_directory($output_directory) if ( defined($output_directory) ); + + if ( defined $verbose_stats && defined($output_multifasta_files) ) { + $self->verbose_stats(0); + $self->logger->warn("The verbose stats spreadsheet is not compatible with the core gene alignement so disabling verbose_stats"); + } + + if ( defined($run_qc) ) { + if ( which('kraken') && which('kraken-report') ) { + $self->run_qc($run_qc); + } + else { + $self->logger->warn("kraken or kraken-report not found in your PATH so cannot run QC, skipping for now."); + } + } + + if ( $self->cpus > 1 ) { + $self->job_runner('Parallel'); + } + + $self->core_definition( $core_definition / 100 ) if ( defined($core_definition) ); + + for my $filename ( @{ $self->args } ) { + if ( !-e $filename ) { + $self->logger->error("Error: Cant access file $filename"); + die $self->usage_text; + } + push( @{ $self->fasta_files }, abs_path($filename) ); + } + + $self->_working_directory( File::Temp->newdir( DIR => getcwd, CLEANUP => 0 ) ) if ( $self->dont_delete_files ); +} + +sub _setup_output_directory { + my ($self) = @_; + return if ( $self->output_directory eq '.' || $self->output_directory eq '' ); + + if ( -e $self->output_directory || -d $self->output_directory ) { + $self->logger->warn("Output directory name exists already so adding a timestamp to the end"); + $self->output_directory( $self->output_directory() . '_' . time() ); + if ( -e $self->output_directory || -d $self->output_directory ) { + die("Output directory name with time stamp exist so giving up"); + } + } + make_path( $self->output_directory, { error => \my $err } ); + if (@$err) { + for my $diag (@$err) { + my ( $file, $message ) = %$diag; + die("Error creating output directory $message"); + } + } + $self->logger->info( "Output directory created: " . $self->output_directory ); + + $self->_original_directory( getcwd() ); + chdir( $self->output_directory ); + return $self; +} + +sub run { + my ($self) = @_; + + return if($self->version || $self->help || ($self->check_dependancies && @{$self->fasta_files} < 1) ); + + $self->_setup_output_directory; + + $self->logger->info("Fixing input GFF files"); + my $reformat_input_files = Bio::Roary::ReformatInputGFFs->new( gff_files => $self->fasta_files, logger => $self->logger ); + $reformat_input_files->fix_duplicate_gene_ids(); + if ( @{ $reformat_input_files->fixed_gff_files } == 0 ) { + die( +"All input files have been excluded from analysis. Please check you have valid GFF files, with annotation and a FASTA sequence at the end. Better still, reannotate your FASTA file with PROKKA." + ); + } + $self->fasta_files( $reformat_input_files->fixed_gff_files ); + + $self->logger->info("Extracting proteins from GFF files"); + my $prepare_input_files = Bio::Roary::PrepareInputFiles->new( + input_files => $self->fasta_files, + job_runner => $self->job_runner, + apply_unknowns_filter => $self->apply_unknowns_filter, + cpus => $self->cpus, + translation_table => $self->translation_table, + verbose => $self->verbose, + working_directory => $self->_working_directory, + + ); + + if ( $self->run_qc ) { + $self->logger->info("Running Kraken on each input assembly"); + my $qc_input_files = Bio::Roary::QC::Report->new( + input_files => $self->fasta_files, + job_runner => $self->job_runner, + cpus => $self->cpus, + verbose => $self->verbose, + kraken_db => $self->kraken_db + ); + $qc_input_files->report; + } + + my $pan_genome_obj = Bio::Roary->new( + input_files => $self->fasta_files, + fasta_files => $prepare_input_files->fasta_files, + output_filename => $self->output_filename, + job_runner => $self->job_runner, + cpus => $self->cpus, + makeblastdb_exec => $self->makeblastdb_exec, + blastp_exec => $self->blastp_exec, + output_multifasta_files => $self->output_multifasta_files, + perc_identity => $self->perc_identity, + dont_delete_files => $self->dont_delete_files, + dont_create_rplots => $self->dont_create_rplots, + dont_split_groups => $self->dont_split_groups, + verbose_stats => $self->verbose_stats, + translation_table => $self->translation_table, + group_limit => $self->group_limit, + core_definition => $self->core_definition, + verbose => $self->verbose, + mafft => $self->mafft, + allow_paralogs => $self->allow_paralogs, + inflation_value => $self->inflation_value, + ); + $pan_genome_obj->run(); + + chdir( $self->_original_directory ); +} + +sub _version { + my ($self) = @_; + if ( defined($Bio::Roary::CommandLine::Roary::VERSION) ) { + return $Bio::Roary::CommandLine::Roary::VERSION . "\n"; + } + else { + return "x.y.z\n"; + } +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: roary [options] *.gff + +Options: -p INT number of threads [1] + -o STR clusters output filename [clustered_proteins] + -f STR output directory [.] + -e create a multiFASTA alignment of core genes using PRANK + -n fast core gene alignment with MAFFT, use with -e + -i minimum percentage identity for blastp [95] + -cd FLOAT percentage of isolates a gene must be in to be core [99] + -qc generate QC report with Kraken + -k STR path to Kraken database for QC, use with -qc + -a check dependancies and print versions + -b STR blastp executable [blastp] + -c STR mcl executable [mcl] + -d STR mcxdeblast executable [mcxdeblast] + -g INT maximum number of clusters [50000] + -m STR makeblastdb executable [makeblastdb] + -r create R plots, requires R and ggplot2 + -s dont split paralogs + -t INT translation table [11] + -ap allow paralogs in core alignment + -z dont delete intermediate files + -v verbose output to STDOUT + -w print version and exit + -y add gene inference information to spreadsheet, doesnt work with -e + -iv STR Change the MCL inflation value [1.5] + -h this help message + +Example: Quickly generate a core gene alignment using 8 threads + roary -e --mafft -p 8 *.gff + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/RoaryCoreAlignment.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,148 @@ +undef $VERSION; +package Bio::Roary::CommandLine::RoaryCoreAlignment; + +# ABSTRACT: Take in the group statistics spreadsheet and the location of the gene multifasta files and create a core alignment. + +=head1 SYNOPSIS + +Take in the group statistics spreadsheet and the location of the gene multifasta files and create a core alignment. + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Cwd 'abs_path'; +use File::Path qw(remove_tree); +use Bio::Roary::ExtractCoreGenesFromSpreadsheet; +use Bio::Roary::LookupGeneFiles; +use Bio::Roary::MergeMultifastaAlignments; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'multifasta_base_directory' => ( is => 'rw', isa => 'Str', default => 'pan_genome_sequences' ); +has 'spreadsheet_filename' => ( is => 'rw', isa => 'Str', default => 'gene_presence_absence.csv' ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'core_gene_alignment.aln' ); +has 'core_definition' => ( is => 'rw', isa => 'Num', default => 0.99 ); +has 'dont_delete_files' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'allow_paralogs' => ( is => 'rw', isa => 'Bool', default => 0 ); +has '_error_message' => ( is => 'rw', isa => 'Str' ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); + +sub BUILD { + my ($self) = @_; + + my ( $multifasta_base_directory, $spreadsheet_filename, $output_filename, $core_definition,$verbose, $help, $mafft, $allow_paralogs, $dont_delete_files ); + + GetOptionsFromArray( + $self->args, + 'm|multifasta_base_directory=s' => \$multifasta_base_directory, + 's|spreadsheet_filename=s' => \$spreadsheet_filename, + 'o|output_filename=s' => \$output_filename, + 'cd|core_definition=f' => \$core_definition, + 'z|dont_delete_files' => \$dont_delete_files, + 'p|allow_paralogs' => \$allow_paralogs, + 'v|verbose' => \$verbose, + 'h|help' => \$help, + ); + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + $self->help($help) if(defined($help)); + $self->allow_paralogs($allow_paralogs) if(defined($allow_paralogs)); + + if ( defined($multifasta_base_directory) && ( -d $multifasta_base_directory ) ) { + $self->multifasta_base_directory( abs_path($multifasta_base_directory)); + } + if(! -d $self->multifasta_base_directory ) + { + $self->_error_message("Error: Cant access the multifasta base directory: ".$self->multifasta_base_directory); + } + + if ( defined($spreadsheet_filename) && ( -e $spreadsheet_filename ) ) { + $self->spreadsheet_filename( abs_path($spreadsheet_filename)); + } + if(! -e $self->spreadsheet_filename ) + { + $self->_error_message("Error: Cant access the spreadsheet: ".$self->spreadsheet_filename); + } + $self->output_filename( $output_filename ) if ( defined($output_filename) ); + if ( defined($core_definition) ) + { + if($core_definition > 1) + { + $self->core_definition( $core_definition/100 ); + } + else + { + $self->core_definition( $core_definition ); + } + } + $self->dont_delete_files($dont_delete_files) if ( defined($dont_delete_files) ); + +} + +sub run { + my ($self) = @_; + + ( !$self->help ) or die $self->usage_text; + if ( defined( $self->_error_message ) ) { + print $self->_error_message . "\n"; + die $self->usage_text; + } + + $self->logger->info("Extract core genes from spreadsheet"); + my $core_genes_obj = Bio::Roary::ExtractCoreGenesFromSpreadsheet->new( + spreadsheet => $self->spreadsheet_filename, + core_definition => $self->core_definition, + allow_paralogs => $self->allow_paralogs + ); + + $self->logger->info("Looking up genes in files"); + my $gene_files = Bio::Roary::LookupGeneFiles->new( + multifasta_directory => $self->multifasta_base_directory, + ordered_genes => $core_genes_obj->ordered_core_genes, + ); + + $self->logger->info("Merge multifasta alignments"); + my $merge_alignments_obj = Bio::Roary::MergeMultifastaAlignments->new( + sample_names => $core_genes_obj->sample_names, + multifasta_files => $gene_files->ordered_gene_files(), + output_filename => $self->output_filename, + sample_names_to_genes => $core_genes_obj->sample_names_to_genes + ); + $merge_alignments_obj->merge_files; + + if($self->dont_delete_files == 0) + { + remove_tree('pan_genome_sequences'); + } +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: pan_genome_core_alignment [options] +Create an alignment of core genes from the spreadsheet and the directory of gene multi-FASTAs. + +Options: -o STR output filename [core_gene_alignment.aln] + -cd FLOAT percentage of isolates a gene must be in to be core [99] + -m STR directory containing gene multi-FASTAs [pan_genome_sequences] + -s STR gene presence and absence spreadsheet [gene_presence_absence.csv] + -p allow paralogs + -z dont delete intermediate files + -v verbose output to STDOUT + -h this help message + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/RoaryPostAnalysis.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,242 @@ +undef $VERSION; +package Bio::Roary::CommandLine::RoaryPostAnalysis; + +# ABSTRACT: Perform the post analysis on the pan genome + +=head1 SYNOPSIS + +Perform the post analysis on the pan genome + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary::PostAnalysis; +use File::Find::Rule; +use Bio::Roary::External::GeneAlignmentFromNucleotides; +use File::Path qw(remove_tree); +use Bio::Roary::External::Fasttree; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); +has '_error_message' => ( is => 'rw', isa => 'Str' ); + +has 'fasta_files' => ( is => 'rw', isa => 'Str', default => '_fasta_files' ); +has 'input_files' => ( is => 'rw', isa => 'Str', default => '_gff_files'); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'clustered_proteins' ); +has 'output_pan_geneome_filename' => ( is => 'rw', isa => 'Str', default => 'pan_genome.fa' ); +has 'output_statistics_filename' => ( is => 'rw', isa => 'Str', default => 'gene_presence_absence.csv' ); +has 'output_multifasta_files' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'clusters_filename' => ( is => 'rw', isa => 'Str', default => '_clustered.clstr' ); +has 'job_runner' => ( is => 'rw', isa => 'Str', default => 'Local' ); +has 'cpus' => ( is => 'rw', isa => 'Int', default => 1 ); +has 'dont_delete_files' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'dont_create_rplots' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'dont_split_groups' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'verbose_stats' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); +has 'group_limit' => ( is => 'rw', isa => 'Num', default => 50000 ); +has 'core_definition' => ( is => 'rw', isa => 'Num', default => 0.99 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'mafft' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'allow_paralogs' => ( is => 'rw', isa => 'Bool', default => 0 ); + +sub BUILD { + my ($self) = @_; + + my ( + $output_filename, $dont_create_rplots, $dont_delete_files, $dont_split_groups, $output_pan_geneome_filename, + $job_runner, $output_statistics_filename, $output_multifasta_files, $clusters_filename, $core_definition, + $fasta_files, $input_files, $verbose_stats, $translation_table, $help, $cpus,$group_limit,$verbose,$mafft, $allow_paralogs + ); + + + GetOptionsFromArray( + $self->args, + 'o|output=s' => \$output_filename, + 'j|job_runner=s' => \$job_runner, + 'm|output_multifasta_files' => \$output_multifasta_files, + 'p=s' => \$output_pan_geneome_filename, + 's=s' => \$output_statistics_filename, + 'c=s' => \$clusters_filename, + 'f=s' => \$fasta_files, + 'i=s' => \$input_files, + 'a|dont_delete_files' => \$dont_delete_files, + 'b|dont_create_rplots' => \$dont_create_rplots, + 'd|dont_split_groups' => \$dont_split_groups, + 'e|verbose_stats' => \$verbose_stats, + 'z|processors=i' => \$cpus, + 't|translation_table=i' => \$translation_table, + 'g|group_limit=i' => \$group_limit, + 'cd|core_definition=f' => \$core_definition, + 'v|verbose' => \$verbose, + 'n|mafft' => \$mafft, + 'q|allow_paralogs' => \$allow_paralogs, + 'h|help' => \$help, + ); + + $self->help($help) if(defined($help)); + $self->job_runner($job_runner) if ( defined($job_runner) ); + $self->fasta_files($fasta_files) if ( defined($fasta_files) ); + $self->input_files($input_files) if ( defined($input_files) ); + $self->output_filename($output_filename) if ( defined($output_filename) ); + $self->output_pan_geneome_filename($output_pan_geneome_filename) if ( defined($output_pan_geneome_filename) ); + $self->output_statistics_filename($output_statistics_filename) if ( defined($output_statistics_filename) ); + $self->output_multifasta_files($output_multifasta_files) if ( defined($output_multifasta_files) ); + $self->clusters_filename($clusters_filename) if ( defined($clusters_filename) ); + $self->dont_delete_files($dont_delete_files) if ( defined($dont_delete_files) ); + $self->dont_create_rplots($dont_create_rplots) if ( defined($dont_create_rplots) ); + $self->dont_split_groups($dont_split_groups) if ( defined($dont_split_groups) ); + $self->verbose_stats($verbose_stats) if ( defined($verbose_stats)); + $self->translation_table($translation_table) if ( defined($translation_table) ); + $self->cpus($cpus) if ( defined($cpus) ); + $self->group_limit($group_limit) if ( defined($group_limit) ); + $self->core_definition( $core_definition/100 ) if ( defined($core_definition) ); + $self->mafft($mafft) if ( defined($mafft) ); + $self->allow_paralogs($allow_paralogs) if ( defined($allow_paralogs) ); + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } +} + +sub run { + my ($self) = @_; + + ( !$self->help ) or die $self->usage_text; + if ( defined( $self->_error_message ) ) { + print $self->_error_message . "\n"; + die $self->usage_text; + } + + my $input_files = $self->_read_file_into_array($self->input_files); + my $obj = Bio::Roary::PostAnalysis->new( + fasta_files => $self->_read_file_into_array($self->fasta_files) , + input_files => $input_files , + output_filename => $self->output_filename , + output_pan_geneome_filename => $self->output_pan_geneome_filename, + output_statistics_filename => $self->output_statistics_filename , + output_multifasta_files => $self->output_multifasta_files , + clusters_filename => $self->clusters_filename , + dont_delete_files => $self->dont_delete_files, + dont_create_rplots => $self->dont_create_rplots, + dont_split_groups => $self->dont_split_groups, + verbose_stats => $self->verbose_stats, + group_limit => $self->group_limit, + verbose => $self->verbose, + cpus => $self->cpus, + logger => $self->logger, + core_definition => $self->core_definition, + ); + $obj->run(); + + if($self->dont_delete_files == 0) + { + unlink('_inflated_unsplit_mcl_groups'); + remove_tree('split_groups'); + } + + if($self->output_multifasta_files == 1) + { + print "Aligning each cluster\n" if($self->verbose); + + my $job_runner_to_use = $self->job_runner; + if($self->_is_lsf_job_runner_available && $self->job_runner eq "LSF") + { + $job_runner_to_use = $self->job_runner; + } + else + { + $job_runner_to_use = 'Parallel'; + } + + my $output_gene_files = $self->_find_input_files; + my $seg = Bio::Roary::External::GeneAlignmentFromNucleotides->new( + fasta_files => $output_gene_files, + job_runner => $job_runner_to_use, + translation_table => $self->translation_table, + core_definition => $self->core_definition, + cpus => $self->cpus, + verbose => $self->verbose, + mafft => $self->mafft, + allow_paralogs => $self->allow_paralogs, + dont_delete_files => $self->dont_delete_files, + num_input_files => $#{$input_files}, + ); + $seg->run(); + } +} + +sub _is_lsf_job_runner_available +{ + my ($self) = @_; + my $rc = eval "require Bio::Roary::JobRunner::LSF; 1;"; + if(defined($rc) && $rc == 1) + { + return 1; + } + else + { + return 0; + } +} + +sub _find_input_files +{ + my ($self) = @_; + my @files = File::Find::Rule->file() + ->name( '*.fa' ) + ->in('pan_genome_sequences' ); + return \@files; +} + +sub _read_file_into_array +{ + my ($self, $filename) = @_; + open(my $in_fh, $filename); + + my @filenames; + while(<$in_fh>){ + chomp; + my $line = $_; + push(@filenames, $line); + } + return \@filenames; +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: pan_genome_post_analysis [options] +Perform the post analysis on the pan genome. This script is usally only called by another script. + +Options: -a dont delete intermediate files + -b dont create R plots + -c STR clusters filename [_clustered.clstr] + -cd FLOAT percentage of isolates a gene must be in to be core [0.99] + -d dont split groups + -e add inference values to gene presence and absence spreadsheet + -f STR file of protein filenames [_fasta_files] + -g INT maximum number of clusters [50000] + -i STR file of GFF filenames [_gff_files] + -m core gene alignement with PRANK + -n fast core gene alignement with MAFFT instead of PRANK + -o STR clusters output filename [clustered_proteins] + -p STR output pan genome filename [pan_genome.fa] + -q allow paralogs in core alignment + -s STR output gene presence and absence filename [gene_presence_absence.csv] + -t INT translation table [11] + -z INT number of threads [1] + -v verbose output to STDOUT + -h this help message + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/RoaryReorderSpreadsheet.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,100 @@ +undef $VERSION; +package Bio::Roary::CommandLine::RoaryReorderSpreadsheet; + +# ABSTRACT: Take in a tree and a spreadsheet and output a reordered spreadsheet + +=head1 SYNOPSIS + +Take in a tree and a spreadsheet and output a reordered spreadsheet + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary::ReorderSpreadsheet; +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'tree_file' => ( is => 'rw', isa => 'Str' ); +has 'spreadsheet_filename' => ( is => 'rw', isa => 'Str', default => 'gene_presence_absence.csv' ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'reordered_spreadsheet.csv' ); +has 'tree_format' => ( is => 'rw', isa => 'Str', default => 'newick' ); +has 'search_strategy' => ( is => 'rw', isa => 'Str', default => 'depth' ); +has 'sortby' => ( is => 'rw', isa => 'Str', default => 'height'); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); + + +sub BUILD { + my ($self) = @_; + + my ( $output_filename, $tree_file,$search_strategy, $sortby, $tree_format, $spreadsheet_filename,$verbose, $help ); + + GetOptionsFromArray( + $self->args, + 'o|output_filename=s' => \$output_filename, + 't|tree_file=s' => \$tree_file, + 'f|tree_format=s' => \$tree_format, + 's|spreadsheet_filename=s' => \$spreadsheet_filename, + 'a|search_strategy=s' => \$search_strategy, + 'b|sortby=s' => \$sortby, + 'v|verbose' => \$verbose, + 'h|help' => \$help, + ); + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + $self->help($help) if(defined($help)); + $self->output_filename($output_filename) if ( defined($output_filename) ); + $self->tree_file($tree_file) if ( defined($tree_file) ); + $self->tree_format($tree_format) if ( defined($tree_format) ); + $self->spreadsheet_filename($spreadsheet_filename) if ( defined($spreadsheet_filename) ); + $self->sortby($sortby) if ( defined($sortby) ); + $self->search_strategy($search_strategy) if ( defined($search_strategy) ); +} + +sub run { + my ($self) = @_; + ( defined($self->spreadsheet_filename) && defined($self->tree_file) && ( -e $self->spreadsheet_filename ) && ( -e $self->tree_file ) && ( !$self->help ) ) or die $self->usage_text; + + ($self->sortby eq "height" || $self->sortby eq "creation" || $self->sortby eq "alpha" || $self->sortby eq "revalpha") or die $self->usage_text; + ($self->search_strategy eq "breadth" || $self->search_strategy eq "depth") or die $self->usage_text; + + my $obj = Bio::Roary::ReorderSpreadsheet->new( + tree_file => $self->tree_file, + spreadsheet => $self->spreadsheet_filename, + output_filename => $self->output_filename, + sortby => $self->sortby, + search_strategy => $self->search_strategy + ); + $obj->reorder_spreadsheet(); + +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: pan_genome_reorder_spreadsheet [options] -t tree.newick +Reorder the columns in the gene presence and absence spreadsheet against a phylogenetic tree. + +Options: -t STR tree filename [] + -o STR output filename [reordered_spreadsheet.csv] + -f STR tree format (newick/nexus/nhx/svggraph/tabtree/lintree) [newick] + -s STR input gene presence and absence spreadsheet [gene_presence_absence.csv] + -a STR search strategy (depth/breadth) [depth] + -b STR sorting method (height/creation/alpha/revalpha) [height] + -v verbose output to STDOUT + -h this help message + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/TransferAnnotationToGroups.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,108 @@ +undef $VERSION; +package Bio::Roary::CommandLine::TransferAnnotationToGroups; + +# ABSTRACT: Take in a groups file and a set of GFF files and transfer the consensus annotation + +=head1 SYNOPSIS + +Take in a groups file and a set of GFF files and transfer the consensus annotation + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary::AnnotateGroups; +extends 'Bio::Roary::CommandLine::Common'; + + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'gff_files' => ( is => 'rw', isa => 'ArrayRef' ); +has 'groups_filename' => ( is => 'rw', isa => 'Str' ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'reannotated_groups' ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has '_error_message' => ( is => 'rw', isa => 'Str' ); + +sub BUILD { + my ($self) = @_; + + my ( $gff_files, $output_filename, $groups_filename, @group_names, $action,$verbose, $help ); + + GetOptionsFromArray( + $self->args, + 'o|output=s' => \$output_filename, + 'g|groups_filename=s' => \$groups_filename, + 'v|verbose' => \$verbose, + 'h|help' => \$help, + ); + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + + $self->help($help) if(defined($help)); + ( !$self->help ) or die $self->usage_text; + + if ( @{ $self->args } == 0 ) { + $self->_error_message("Error: You need to provide a FASTA file"); + } + + $self->output_filename($output_filename) if ( defined($output_filename) ); + if ( defined($groups_filename) && ( -e $groups_filename ) ) { + $self->groups_filename($groups_filename); + } + else { + $self->_error_message("Error: Cant access the groups file"); + } + + for my $filename ( @{ $self->args } ) { + if ( !-e $filename ) { + $self->_error_message("Error: Cant access file $filename"); + last; + } + } + $self->gff_files( $self->args ); + +} + +sub run { + my ($self) = @_; + + + if ( defined( $self->_error_message ) ) { + print $self->_error_message . "\n"; + die $self->usage_text; + } + + + my $obj = Bio::Roary::AnnotateGroups->new( + gff_files => $self->gff_files, + output_filename => $self->output_filename, + groups_filename => $self->groups_filename, + ); + $obj->reannotate; + +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: transfer_annotation_to_groups [options] *.gff +Take in a groups file and the protein fasta files and output selected data + +Options: -o STR output filename [reannotated_groups] + -g STR clusters filename [clustered_proteins] + -v verbose output to STDOUT + -h this help message + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/CommandLine/UniqueGenesPerSample.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,92 @@ +undef $VERSION; + +package Bio::Roary::CommandLine::UniqueGenesPerSample; + +# ABSTRACT: Take in the clustered file and produce a sorted file with the frequency of each samples unique genes + +=head1 SYNOPSIS + +Take in the clustered file and produce a sorted file with the frequency of each samples unique genes + +=cut + +use Moose; +use Getopt::Long qw(GetOptionsFromArray); +use Bio::Roary::UniqueGenesPerSample; + +extends 'Bio::Roary::CommandLine::Common'; + +has 'args' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'script_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'help' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has 'clustered_proteins' => ( is => 'rw', isa => 'Str', default => 'clustered_proteins' ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'unique_genes_per_sample.tsv' ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has '_error_message' => ( is => 'rw', isa => 'Str' ); + +sub BUILD { + my ($self) = @_; + + my ( $clustered_proteins, $output_filename, $verbose, $help ); + + GetOptionsFromArray( + $self->args, + 'o|output=s' => \$output_filename, + 'c|clustered_proteins=s' => \$clustered_proteins, + 'v|verbose' => \$verbose, + 'h|help' => \$help, + ); + + if ( defined($verbose) ) { + $self->verbose($verbose); + $self->logger->level(10000); + } + + $self->help($help) if ( defined($help) ); + ( !$self->help ) or die $self->usage_text; + + $self->output_filename($output_filename) if ( defined($output_filename) ); + if ( defined($clustered_proteins) && ( -e $clustered_proteins ) ) { + $self->clustered_proteins($clustered_proteins); + } + else { + $self->_error_message("Error: Cant access the clustered proteins file"); + } +} + +sub run { + my ($self) = @_; + + if ( defined( $self->_error_message ) ) { + print $self->_error_message . "\n"; + die $self->usage_text; + } + + my $obj = Bio::Roary::UniqueGenesPerSample->new( + clustered_proteins => $self->clustered_proteins, + output_filename => $self->output_filename, + ); + $obj->write_unique_frequency; + +} + +sub usage_text { + my ($self) = @_; + + return <<USAGE; +Usage: roary-unique_genes_per_sample [options] -c clustered_proteins +Take in the clustered file and produce a sorted file with the frequency of each samples unique genes + +Options: -o STR output filename [unique_genes_per_sample.tsv] + -c STR clusters filename [clustered_proteins] + -v verbose output to STDOUT + -h this help message + +For further info see: http://sanger-pathogens.github.io/Roary/ +USAGE +} + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ContigsToGeneIDsFromGFF.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,145 @@ +package Bio::Roary::ContigsToGeneIDsFromGFF; + +# ABSTRACT: Parse a GFF and efficiently and extract ordered gene ids on each contig + +=head1 SYNOPSIS + +Parse a GFF and efficiently and extract ordered gene ids on each contig + use Bio::Roary::ContigsToGeneIDsFromGFF; + + my $obj = Bio::Roary::ContigsToGeneIDsFromGFF->new( + gff_file => 'abc.gff' + ); + $obj->contig_to_ids; + +=cut + +use Moose; +use Bio::Tools::GFF; +with 'Bio::Roary::ParseGFFAnnotationRole'; + +has 'contig_to_ids' => ( is => 'rw', isa => 'HashRef', lazy => 1, builder => '_build_contig_to_ids'); + +has 'overlapping_hypothetical_protein_ids' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_overlapping_hypothetical_protein_ids'); +has '_genes_annotation' => ( is => 'rw', isa => 'ArrayRef', default => sub{[]}); + +has '_min_nucleotide_overlap_percentage' => ( is => 'ro', isa => 'Int', default => 10); + +# Manually parse the GFF file because the BioPerl module is too slow +sub _build_contig_to_ids +{ + my ($self) = @_; + my %contigs_to_ids; + my @genes_annotation; + + open( my $fh, '-|', $self->_gff_fh_input_string ) or die "Couldnt open GFF file"; + while(<$fh>) + { + chomp; + my $line = $_; + my $id_name; + if($line =~/ID=["']?([^;"']+)["']?;?/i) + { + $id_name= $1; + } + else + { + next; + } + + my @annotation_elements = split(/\t/,$line); + # Map gene IDs to the contig + push(@{$contigs_to_ids{$annotation_elements[0]}}, $id_name); + + if($line =~/product=["']?([^;,"']+)[,"']?;?/i) + { + my %gene_data; + $gene_data{product} = $1; + $gene_data{id_name} = $id_name; + if($line =~ /UniProtKB/ || $line =~ /RefSeq/ || $line =~ /protein motif/) + { + $gene_data{database_annotation_exists} = 1; + } + else + { + $gene_data{database_annotation_exists} = 0; + } + + $gene_data{contig} = $annotation_elements[0]; + $gene_data{start} = $annotation_elements[1]; + $gene_data{end} = $annotation_elements[2]; + push(@genes_annotation,\%gene_data); + } + + } + close($fh); + + $self->_genes_annotation(\@genes_annotation); + return \%contigs_to_ids; +} + +sub _build_overlapping_hypothetical_protein_ids +{ + my ($self) = @_; + $self->contig_to_ids; + + my %overlapping_protein_ids; + + #Checking to see if the current feature is hypotheitical and if the next one has annotation + for(my $i = 0; $i< (@{$self->_genes_annotation} -1) ; $i++ ) + { + my $current_feature = $self->_genes_annotation->[$i]; + my $next_feature = $self->_genes_annotation->[$i+1]; + + next if($current_feature->{database_annotation_exists} == 1); + next unless($current_feature->{product} =~ /hypothetical/i); + next unless($next_feature->{database_annotation_exists} == 1); + + my $start_coord = $current_feature->{start} ; + my $end_coord = $current_feature->{end} ; + my $comparison_start_coord =$next_feature->{start} ; + my $comparison_end_coord =$next_feature->{end} ; + if($comparison_start_coord < $end_coord && $comparison_end_coord > $start_coord ) + { + my $percent_overlap = $self->_percent_overlap($start_coord, $end_coord , $comparison_start_coord,$comparison_end_coord); + if($percent_overlap >= $self->_min_nucleotide_overlap_percentage) + { + $overlapping_protein_ids{$current_feature->{id_name}}++; + } + } + } + + return \%overlapping_protein_ids; +} + +sub _percent_overlap +{ + my ($self, $start_coord, $end_coord , $comparison_start_coord,$comparison_end_coord) = @_; + my $size_of_hypothetical_gene = $end_coord - $start_coord; + + my $lower_bound = $start_coord; + if($comparison_start_coord > $start_coord) + { + $lower_bound = $comparison_start_coord; + } + my $upper_bound = $end_coord; + if($comparison_end_coord < $end_coord ) + { + $upper_bound = $comparison_end_coord; + } + return (($upper_bound-$lower_bound)*100) / $size_of_hypothetical_gene; +} + + +sub _build__awk_filter { + my ($self) = @_; + return + 'awk \'BEGIN {FS="\t"};{ if ($3 ~/' + . $self->_tags_to_filter + . '/) print $1"\t"$4"\t"$5"\t"$9;}\' '; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Exceptions.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,16 @@ +package Bio::Roary::Exceptions; +# ABSTRACT: Exceptions for input data + +=head1 SYNOPSIS + +Exceptions for input data + +=cut + +use strict; use warnings; +use Exception::Class ( + 'Bio::Roary::Exceptions::FileNotFound' => { description => 'Couldnt open the file' }, + 'Bio::Roary::Exceptions::CouldntWriteToFile' => { description => 'Couldnt open the file for writing' }, +); + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/Blastp.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,68 @@ +package Bio::Roary::External::Blastp; + +# ABSTRACT: Wrapper around NCBIs blastp command + +=head1 SYNOPSIS + +Wrapper around NCBIs blastp command + + use Bio::Roary::External::Blastp; + + my $blast_database= Bio::Roary::External::Blastp->new( + fasta_file => 'contigs.fa', + blast_database => 'db', + exec => 'blastp', + output_file => 'results.out' + ); + + $blast_database->run(); + +=method result_file + +Returns the path to the results file + +=cut + +use Moose; +with 'Bio::Roary::JobRunner::Role'; + +has 'fasta_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'blast_database' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'exec' => ( is => 'ro', isa => 'Str', default => 'blastp' ); +has '_evalue' => ( is => 'ro', isa => 'Num', default => 1E-6 ); +has '_num_threads' => ( is => 'ro', isa => 'Int', default => 1 ); +has '_max_target_seqs' => ( is => 'ro', isa => 'Int', default => 2000 ); +has '_logging' => ( is => 'ro', isa => 'Str', default => '2> /dev/null' ); +has 'output_file' => ( is => 'ro', isa => 'Str', default => 'results.out' ); +has 'perc_identity' => ( is => 'ro', isa => 'Num', default => 98 ); + +sub _command_to_run { + my ($self) = @_; + return join( + " ", + ( + $self->exec, + '-query', $self->fasta_file, + '-db', $self->blast_database, + '-evalue', $self->_evalue, + '-num_threads', $self->_num_threads, + '-outfmt 6', + '-max_target_seqs', $self->_max_target_seqs, + ' | awk \'{ if ($3 > '.$self->perc_identity.') print $0;}\'', + $self->_logging, '1> ', $self->output_file, + ) + + + ); +} + +sub run { + my ($self) = @_; + $self->logger->info( "Running command: " . $self->_command_to_run() ); + system( $self->_command_to_run ); + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/Cdhit.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,103 @@ +package Bio::Roary::External::Cdhit; + +# ABSTRACT: Wrapper to run cd-hit + +=head1 SYNOPSIS + +Wrapper to run cd-hit + use Bio::Roary::External::Cdhit; + + my $obj = Bio::Roary::External::Cdhit->new( + input_file => 'abc.fa', + exec => 'cd-hit', + output_base => 'efg', + ); + $obj->run; + +=cut + +use Moose; + +with 'Bio::Roary::JobRunner::Role'; + +has 'input_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_base' => ( is => 'ro', isa => 'Str', default => 'output' ); +has 'exec' => ( is => 'ro', isa => 'Str', default => 'cd-hit' ); +has 'alt_exec' => ( is => 'ro', isa => 'Str', default => 'cdhit' ); +has '_max_available_memory_in_mb' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build__max_available_memory_in_mb' ); +has '_use_most_similar_clustering' => ( is => 'ro', isa => 'Bool', default => 1 ); +has '_length_difference_cutoff' => ( is => 'ro', isa => 'Num', default => 1 ); +has '_sequence_identity_threshold' => ( is => 'ro', isa => 'Num', default => 1 ); +has '_description_length' => ( is => 'ro', isa => 'Int', default => 256 ); +has '_logging' => ( is => 'ro', isa => 'Str', default => '> /dev/null 2>&1' ); +has '_max_cpus' => ( is => 'ro', isa => 'Int', default => 40 ); + + +# Overload Role +has 'memory_in_mb' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build_memory_in_mb' ); + +sub _build_memory_in_mb +{ + my ($self) = @_; + my $filename = $self->input_file; + my $memory_required = 2000; + if(-e $filename) + { + $memory_required = -s $filename; + # Convert to mb + $memory_required = int($memory_required/1000000); + # Give it bucket loads of memory for the worst case scenario + $memory_required *= 5; + $memory_required = 2000 if($memory_required < 2000); + } + + return $memory_required; +} + +sub _build__max_available_memory_in_mb +{ + my ($self) = @_; + my $memory_to_cdhit = int($self->memory_in_mb *0.9); + return $memory_to_cdhit; +} + +sub clusters_filename +{ + my ($self) = @_; + return join('.',($self->output_base,'clstr')); +} + +sub _command_to_run { + my ($self) = @_; + + my $executable = $self->_find_exe([$self->exec, $self->alt_exec]); + + my $cpus = ($self->cpus > $self->_max_cpus) ? $self->_max_cpus : $self->cpus; + return join( + ' ', + ( + $executable, '-i', $self->input_file, '-o', + $self->output_base, '-T', $cpus, '-M', + $self->_max_available_memory_in_mb, '-g', $self->_use_most_similar_clustering, '-s', + $self->_length_difference_cutoff, '-d', $self->_description_length ,'-c', $self->_sequence_identity_threshold, + $self->_logging + ) + ); +} + +sub run { + my ($self) = @_; + my @commands_to_run; + + push(@commands_to_run, $self->_command_to_run() ); + $self->logger->info( "Running command: " . $self->_command_to_run() ); + my $job_runner_obj = $self->_job_runner_class->new( commands_to_run => \@commands_to_run, memory_in_mb => $self->memory_in_mb, queue => $self->_queue, cpus => $self->cpus ); + $job_runner_obj->run(); + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/CheckTools.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,192 @@ +package Bio::Roary::External::CheckTools; + +# ABSTRACT: Check external executables are available and are the correct version + +=head1 SYNOPSIS +Functionality borrowed from PROKKA by Torsten Seemann. +Check external executables are available and are the correct version + + use Bio::Roary::External::CheckTools; + + my $obj = Bio::Roary::External::CheckTools->new(); + $obj->check_all_tools; + +=cut + +use Moose; +use File::Spec; +use Log::Log4perl qw(:easy); +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger' ); + +sub _build_logger { + my ($self) = @_; + Log::Log4perl->easy_init($DEBUG); + my $logger = get_logger(); + return $logger; +} + +my $BIDEC = '(\d+\.\d+)'; # pattern of NN.NN for versions that can be compared + +my %tools = ( + 'parallel' => { + GETVER => "parallel --version | grep '^GNU parallel 2'", + REGEXP => qr/GNU parallel (\d+)/, + MINVER => "20130422", + NEEDED => 1, + }, + 'blastp' => { + GETVER => "blastp -version", + REGEXP => qr/blastp:\s+(\d+\.\d+\.\d+)/, + NEEDED => 1, + }, + 'makeblastdb' => { + GETVER => "makeblastdb -version", + REGEXP => qr/makeblastdb:\s+(\d+\.\d+\.\d+)/, + NEEDED => 1, + }, + 'mcl' => { + GETVER => "mcl --version | head -n 1", + REGEXP => qr/(\d+\-\d+)/, + NEEDED => 1, + }, + 'bedtools' => { + GETVER => "bedtools --version", + REGEXP => qr/bedtools v($BIDEC)/, + MINVER => "2.1", + NEEDED => 1, + }, + 'mafft' => { + GETVER => "mafft --version < /dev/null 2>&1", + REGEXP => qr/(\d+\.\d+)/, + NEEDED => 1, + }, + 'kraken' => { + GETVER => "kraken -v | head -n 1", + REGEXP => qr/(\d+\.\d+\.*\d*.*)/, + NEEDED => 0, + }, + 'kraken-report' => { + GETVER => "kraken-report -v | head -n 1", + REGEXP => qr/(\d+\.\d+\.*\d*.*)/, + NEEDED => 0, + }, + 'Rscript' => { + GETVER => "Rscript --version 2>&1 | head -n 1", + REGEXP => qr/R scripting front-end version ($BIDEC)/, + MINVER => "3", + NEEDED => 0, + }, + 'prank' => { + GETVER => "prank | grep -m 1 ^prank", + REGEXP => qr/prank v.(\d+)/, + NEEDED => 0, + }, + + # now just the standard unix tools we need + 'grep' => { NEEDED => 1 }, + 'sed' => { NEEDED => 1 }, + 'awk' => { NEEDED => 1 }, + +); + +my %cdhit_tools = ( + 'cdhit' => { + GETVER => "cdhit -h | grep 'CD-HIT version'", + REGEXP => qr/version\s+($BIDEC)/i, + MINVER => "4.6", + }, + 'cd-hit' => { + GETVER => "cd-hit -h | grep 'CD-HIT version'", + REGEXP => qr/version\s+($BIDEC)/i, + MINVER => "4.6", + } +); + +my %fasttree_tools = ( + 'fasttree' => { + GETVER => "fasttree 2>&1 | head -n 1", + REGEXP => qr/Usage for FastTree version ($BIDEC)/, + }, + 'FastTree' => { + GETVER => "FastTree 2>&1 | head -n 1", + REGEXP => qr/Usage for FastTree version ($BIDEC)/, + } +); + +sub which_tool_exec { + my ( $self, $alt_tools ) = @_; + for my $toolname ( sort keys %{$alt_tools} ) { + my $fp = $self->find_exe($toolname); + return $toolname if $fp; + } + $self->logger->error( "Required tool missing. Can't find one of " . join( '/', keys %{$alt_tools} ) . " in your \$PATH." ); + return undef; +} + +sub check_tool { + my ( $self, $toolname ) = @_; + my $t = $tools{$toolname}; + my $fp = $self->find_exe($toolname); + $self->logger->error("ERROR: Can't find required '$toolname' in your \$PATH") if !$fp and $t->{NEEDED}; + $self->logger->error("Optional tool '$toolname' not found in your \$PATH") if !$fp and !$t->{NEEDED}; + + if ($fp) { + $t->{HAVE} = $fp; + $self->logger->warn("Looking for '$toolname' - found $fp"); + if ( $t->{GETVER} ) { + my ($s) = qx($t->{GETVER}); + if ( defined $s ) { + $s =~ $t->{REGEXP}; + $t->{VERSION} = $1 if defined $1; + $self->logger->warn("Determined $toolname version is $t->{VERSION}"); + if ( defined $t->{MINVER} and $t->{VERSION} < $t->{MINVER} ) { + $self->logger->error("Roary needs $toolname $t->{MINVER} or higher. Please upgrade and try again."); + } + if ( defined $t->{MAXVER} and $t->{VERSION} > $t->{MAXVER} ) { + $self->logger->error( + "Roary needs a version of $toolname between $t->{MINVER} and $t->{MAXVER}. Please downgrade and try again."); + } + } + else { + $self->logger->error( "Could not determine version of $toolname - please install version ", $t->{MINVER}, " or higher" ) + ; # FIXME: or less <= MAXVER if given + } + } + } +} + +sub check_all_tools { + my ($self) = @_; + $ENV{"GREP_OPTIONS"} = ''; # --colour => version grep fails (Issue #117) + for my $toolname ( sort keys %tools ) { + $self->check_tool($toolname); + } + + my $cdhit = $self->which_tool_exec( \%cdhit_tools ); + if ($cdhit) { + $tools{$cdhit} = $cdhit_tools{$cdhit}; + $self->check_tool($cdhit); + } + + my $fasttree = $self->which_tool_exec( \%fasttree_tools ); + if ($fasttree) { + $tools{$fasttree} = $fasttree_tools{$fasttree}; + $self->check_tool($fasttree); + } + + return $self; +} + +sub find_exe { + my ( $self, $bin ) = @_; + for my $dir ( File::Spec->path ) { + my $exe = File::Spec->catfile( $dir, $bin ); + return $exe if -x $exe; + } + return; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/Fasttree.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,73 @@ +package Bio::Roary::External::Fasttree; + +# ABSTRACT: Wrapper to run Fasttree + +=head1 SYNOPSIS + +Wrapper to run cd-hit + use Bio::Roary::External::Fasttree; + + my $obj = Bio::Roary::External::Fasttree->new( + input_file => 'abc.fa', + exec => 'Fasttree', + output_base => 'efg', + ); + $obj->run; + +=cut + +use Moose; +with 'Bio::Roary::JobRunner::Role'; + +has 'input_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_file' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_output_file' ); +has 'exec' => ( is => 'ro', isa => 'Str', default => 'FastTree' ); +has 'alt_exec' => ( is => 'ro', isa => 'Str', default => 'fasttree' ); +has '_logging' => ( is => 'ro', isa => 'Str', default => '2> /dev/null' ); + +sub _build_output_file +{ + my ($self) = @_; + return $self->input_file.".newick"; +} + +sub _command_to_run { + my ($self) = @_; + + my $executable = $self->_find_exe([$self->exec, $self->alt_exec]); + my $logging_str = ""; + $logging_str = $self->_logging if(! $self->verbose); + + return join( + ' ', ($executable, '-fastest', '-nt', $self->input_file, '>', $self->output_file, $logging_str) + ); +} + +sub run { + my ($self) = @_; + my @commands_to_run; + + if(!defined($self->input_file) || ! ( -e $self->input_file)) + { + $self->logger->error( "The input file is missing so not creating a tree" ); + return 1; + } + + if(-s $self->input_file < 5) + { + $self->logger->info( "The input file is too small so not creating a tree" ); + return 1; + } + + push(@commands_to_run, $self->_command_to_run() ); + $self->logger->info( "Running command: " . $self->_command_to_run() ); + my $job_runner_obj = $self->_job_runner_class->new( commands_to_run => \@commands_to_run, memory_in_mb => $self->memory_in_mb, queue => $self->_queue, cpus => $self->cpus ); + $job_runner_obj->run(); + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/GeneAlignmentFromNucleotides.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,132 @@ +package Bio::Roary::External::GeneAlignmentFromNucleotides; + +# ABSTRACT: Take in multi-FASTA files of nucleotides and align each file with PRANK or MAFFT + +=head1 SYNOPSIS + +Take in multi-FASTA files of nucleotides and align each file with PRANK or MAFFT + + use Bio::Roary::External::GeneAlignmentFromNucleotides; + + my $seg = Bio::Roary::External::GeneAlignmentFromNucleotides->new( + fasta_files => [], + ); + + $seg->run(); + +=method output_file + +Returns the path to the results file + +=cut + +use Moose; +with 'Bio::Roary::JobRunner::Role'; + +has 'fasta_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'exec' => ( is => 'ro', isa => 'Str', default => 'protein_alignment_from_nucleotides' ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); +has 'core_definition' => ( is => 'ro', isa => 'Num', default => 1 ); +has 'mafft' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'dont_delete_files' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'allow_paralogs' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'num_input_files' => ( is => 'ro', isa => 'Int', required => 1); + +# Overload Role` +has 'memory_in_mb' => ( is => 'rw', isa => 'Int', lazy => 1, builder => '_build_memory_in_mb' ); +has '_min_memory_in_mb' => ( is => 'ro', isa => 'Int', default => 1500 ); +has '_max_memory_in_mb' => ( is => 'ro', isa => 'Int', default => 60000 ); +has '_queue' => ( is => 'rw', isa => 'Str', default => 'normal' ); +has '_files_per_chunk' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build__files_per_chunk' ); +has '_core_alignment_cmd' => ( is => 'rw', isa => 'Str', lazy_build => 1 ); +has '_dependancy_memory_in_mb' => ( is => 'ro', isa => 'Int', default => 15000 ); + +sub _build__files_per_chunk +{ + my ($self) = @_; + return 1; +} + +sub _build_memory_in_mb { + my ($self) = @_; + + my $largest_file_size = 1; + for my $file (@{$self->fasta_files}) + { + my $file_size = -s $file; + if($file_size > $largest_file_size) + { + $largest_file_size = $file_size; + } + } + + my $approx_sequence_length_of_largest_file = $largest_file_size/ $self->num_input_files; + my $memory_required = int((($approx_sequence_length_of_largest_file*$approx_sequence_length_of_largest_file)/1000000)*2 + $self->_min_memory_in_mb); + + $memory_required = $self->_max_memory_in_mb if($memory_required > $self->_max_memory_in_mb); + + return $memory_required; +} + +sub _command_to_run { + my ( $self, $fasta_files) = @_; + my $verbose = ""; + if($self->verbose) + { + $verbose = ' -v '; + } + my $mafft_str = ""; + $mafft_str = ' --mafft ' if($self->mafft); + return $self->exec." ".$verbose.$mafft_str.join( " ", @{$fasta_files} ); +} + +sub _build__core_alignment_cmd { + my ( $self ) = @_; + + my $core_cmd = "pan_genome_core_alignment"; + $core_cmd .= " -cd " . ($self->core_definition*100) if ( defined $self->core_definition ); + $core_cmd .= " --dont_delete_files " if ( defined $self->dont_delete_files && $self->dont_delete_files == 1 ); + $core_cmd .= " --allow_paralogs " if ( defined $self->allow_paralogs && $self->allow_paralogs == 1 ); + + return $core_cmd; +} + +sub run { + my ($self) = @_; + my @commands_to_run; + + my @files_chunk; + for my $fasta_file ( @{ $self->fasta_files } ) { + push(@files_chunk,$fasta_file); + if(@files_chunk == $self->_files_per_chunk ) + { + push(@commands_to_run, $self->_command_to_run(\@files_chunk)); + $self->logger->info( "Running command: " . $self->_command_to_run(\@files_chunk) ); + @files_chunk = (); + } + } + + if(@files_chunk > 0) + { + push(@commands_to_run, $self->_command_to_run(\@files_chunk)); + $self->logger->info( "Running command: " . $self->_command_to_run(\@files_chunk) ); + } + + my $job_runner_obj = $self->_job_runner_class->new( + commands_to_run => \@commands_to_run, + memory_in_mb => $self->memory_in_mb, + queue => $self->_queue, + dont_wait => 1, + cpus => $self->cpus + ); + $job_runner_obj->run(); + + $job_runner_obj->memory_in_mb($self->_dependancy_memory_in_mb); + $self->logger->info( "Running command: " . $self->_core_alignment_cmd() ); + $job_runner_obj->submit_dependancy_job($self->_core_alignment_cmd); + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/IterativeCdhit.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,92 @@ +package Bio::Roary::External::IterativeCdhit; + +# ABSTRACT: Iteratively run CDhit + +=head1 SYNOPSIS + +Iteratively run CDhit + + use Bio::Roary::External::IterativeCdhit; + + my $seg= Bio::Roary::External::IterativeCdhit->new( + output_cd_hit_filename => '', + output_combined_filename => '', + number_of_input_files => 10, + output_filtered_clustered_fasta => '', + ); + + $seg->run(); + +=cut + +use Moose; +with 'Bio::Roary::JobRunner::Role'; + +has 'output_cd_hit_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_combined_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'number_of_input_files' => ( is => 'ro', isa => 'Int', required => 1 ); +has 'output_filtered_clustered_fasta' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'exec' => ( is => 'ro', isa => 'Str', default => 'iterative_cdhit' ); +has '_max_cpus' => ( is => 'ro', isa => 'Int', default => 40 ); +# Overload Role +has 'memory_in_mb' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build_memory_in_mb' ); + +sub _build_memory_in_mb { + my ($self) = @_; + my $filename = $self->output_combined_filename; + my $memory_required = 2000; + if ( -e $filename ) { + $memory_required = -s $filename; + + # Convert to mb + $memory_required = int( $memory_required / 1000000 ); + + # Pentuple memory for worst case senario + $memory_required *= 5; + $memory_required = 2000 if ( $memory_required < 2000 ); + } + + return $memory_required; +} + +sub _build__max_available_memory_in_mb { + my ($self) = @_; + my $memory_to_cdhit = int( $self->memory_in_mb * 0.9 ); + return $memory_to_cdhit; +} + +sub _command_to_run { + my ($self) = @_; + my $cpus = ($self->cpus > $self->_max_cpus) ? $self->_max_cpus : $self->cpus; + + return join( + ' ', + ( + $self->exec, '-c', $self->output_cd_hit_filename, '-m', + $self->output_combined_filename, '-n', $self->number_of_input_files, '--cpus', $cpus, '-f', + $self->output_filtered_clustered_fasta + ) + ); +} + +sub run { + my ($self) = @_; + my @commands_to_run; + push( @commands_to_run, $self->_command_to_run ); + $self->logger->info( "Running command: " . $self->_command_to_run() ); + + my $job_runner_obj = $self->_job_runner_class->new( + commands_to_run => \@commands_to_run, + memory_in_mb => $self->memory_in_mb, + queue => $self->_queue, + cpus => $self->cpus + ); + $job_runner_obj->run(); + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/Mafft.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,76 @@ +package Bio::Roary::External::Mafft; + +# ABSTRACT: Wrapper to run mafft + +=head1 SYNOPSIS + +Wrapper to run mafft + use Bio::Roary::External::Mafft; + + my $mafft_obj = Bio::Roary::External::Mafft->new( + input_filename => $fasta_file, + output_filename => $fasta_file.'.aln', + job_runner => 'Local' + ); + $mafft_obj->run(); +=cut + +use Moose; +use File::Spec; +with 'Bio::Roary::JobRunner::Role'; + +has 'input_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'output' ); +has 'exec' => ( is => 'ro', isa => 'Str', default => 'mafft' ); + +# Overload Role +has 'memory_in_mb' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build_memory_in_mb' ); + +sub _build_memory_in_mb { + my ($self) = @_; + my $memory_required = 2000; + return $memory_required; +} + +sub _command_to_run { + my ($self) = @_; + + if(! -e $self->input_filename) + { + $self->logger->error( "Input file to MAFFT missing: " . $self->input_filename ); + } + return join( + ' ', + ( + $self->exec, + '--auto', + '--quiet', + $self->input_filename, + '>', + $self->output_filename + ) + ); +} + +sub run { + my ($self) = @_; + my @commands_to_run; + + push( @commands_to_run, $self->_command_to_run() ); + $self->logger->info( "Running command: " . $self->_command_to_run() ); + + my $job_runner_obj = $self->_job_runner_class->new( + commands_to_run => \@commands_to_run, + memory_in_mb => $self->memory_in_mb, + queue => $self->_queue, + cpus => $self->cpus + ); + $job_runner_obj->run(); + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/Makeblastdb.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,71 @@ +package Bio::Roary::External::Makeblastdb; + +# ABSTRACT: Wrapper around NCBIs makeblastdb command + +=head1 SYNOPSIS + +Take in a fasta file and create a temporary blast database. + + use Bio::Roary::External::Makeblastdb; + + my $blast_database= Bio::Roary::External::Makeblastdb->new( + fasta_file => 'contigs.fa', + exec => 'makeblastdb' + ); + + $blast_database->run(); + +=method output_database + +Returns the path to the temporary blast database files + +=cut + +use Moose; +use File::Temp; +use Cwd; +with 'Bio::Roary::JobRunner::Role'; + +has 'fasta_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'exec' => ( is => 'ro', isa => 'Str', default => 'makeblastdb' ); +has '_working_directory' => ( is => 'ro', isa => 'File::Temp::Dir', default => sub { File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); } ); +has '_dbtype' => ( is => 'ro', isa => 'Str', default => 'prot' ); +has '_logfile' => ( is => 'ro', isa => 'Str', default => '/dev/null' ); +has 'output_database' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_output_database' ); + +# Overload Role +has 'memory_in_mb' => ( is => 'ro', isa => 'Int', default => 4000); + +sub _build_output_database { + my ($self) = @_; + return join( '/', ( $self->_working_directory->dirname(), 'output_contigs' ) ); +} + +sub _command_to_run { + my ($self) = @_; + return join( + " ", + ( + $self->exec, + '-in', $self->fasta_file, + '-dbtype', $self->_dbtype, + '-out', $self->output_database, + '-logfile', $self->_logfile + ) + ); +} + +sub run { + my ($self) = @_; + my @commands_to_run; + push(@commands_to_run, $self->_command_to_run ); + $self->logger->info( "Running command: " . $self->_command_to_run() ); + my $job_runner_obj = $self->_job_runner_class->new( commands_to_run => \@commands_to_run, memory_in_mb => $self->memory_in_mb, queue => $self->_queue, cpus => $self->cpus ); + $job_runner_obj->run(); + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/Mcl.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,106 @@ +package Bio::Roary::External::Mcl; + +# ABSTRACT: Wrapper around MCL which takes in blast results and outputs clustered results + +=head1 SYNOPSIS + +Wrapper around MCL which takes in blast results and outputs clustered results + + use Bio::Roary::External::Mcl; + + my $mcl= Bio::Roary::External::Mcl->new( + blast_results => 'db', + mcxdeblast_exec => 'mcxdeblast', + mcl_exec => 'mcl', + output_file => 'output.groups' + ); + + $mcl->run(); + +=cut + +use Moose; +use File::Which; +with 'Bio::Roary::JobRunner::Role'; + +has 'blast_results' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'mcxdeblast_exec' => ( is => 'ro', isa => 'Str', default => 'mcxdeblast' ); +has '_full_mcxdeblast_exec' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__full_mcxdeblast_exec'); +has 'mcl_exec' => ( is => 'ro', isa => 'Str', default => 'mcl' ); +has 'output_file' => ( is => 'ro', isa => 'Str', default => 'output_groups' ); + +has '_score' => ( is => 'ro', isa => 'Str', default => 'r' ); + +has 'inflation_value' => ( is => 'ro', isa => 'Num', default => 1.5 ); +has '_logging' => ( is => 'ro', isa => 'Str', default => '> /dev/null 2>&1' ); + +has 'memory_in_mb' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build_memory_in_mb' ); + +sub _build_memory_in_mb +{ + my ($self) = @_; + #Â Todo: implement this equation for memory estimation if this hardcoded value proves too unstable. + # http://micans.org/mcl/man/mcl.html#opt-how-much-ram + + my $filename = $self->blast_results; + my $memory_required = 2000; + if(-e $filename) + { + $memory_required = -s $filename; + # Convert to mb + $memory_required = int($memory_required/1000000); + # increase memory for worst case senario + $memory_required *= 3; + $memory_required += 2000; + } + + return $memory_required; +} + + +sub _build__full_mcxdeblast_exec +{ + my ($self) = @_; + + if(-e $self->mcxdeblast_exec) + { + return $self->mcxdeblast_exec; + } + + my $full_exec = which($self->mcxdeblast_exec); + if(! defined($full_exec)) + { + $self->logger->error("Cannot find the mcxdeblast executable, please ensure its in your PATH") ; + exit(); + } + return "perl $full_exec"; +} + +sub _command_to_run { + my ($self) = @_; + return join( + " ", + ( + $self->_full_mcxdeblast_exec, '-m9', '--score='.$self->_score, + '--line-mode=abc', $self->blast_results, '2> /dev/null', + '|', $self->mcl_exec, '-', '--abc', + '-I', $self->inflation_value, '-o', $self->output_file, + $self->_logging + ) + ); +} + +sub run { + my ($self) = @_; + my @commands_to_run; + push(@commands_to_run, $self->_command_to_run ); + $self->logger->info( "Running command: " . $self->_command_to_run() ); + my $job_runner_obj = $self->_job_runner_class->new( commands_to_run => \@commands_to_run, memory_in_mb => $self->memory_in_mb, queue => $self->_queue, cpus => $self->cpus ); + $job_runner_obj->run(); + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/PostAnalysis.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,192 @@ +package Bio::Roary::External::PostAnalysis; + +# ABSTRACT: Perform the post analysis + +=head1 SYNOPSIS + +Perform the post analysis + + use Bio::Roary::External::PostAnalysis; + + my $seg= Bio::Roary::External::PostAnalysis->new( + fasta_file => 'contigs.fa', + ); + + $seg->run(); + +=cut + +use Moose; +use Cwd qw(getcwd); +with 'Bio::Roary::JobRunner::Role'; + +has 'input_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'exec' => ( is => 'ro', isa => 'Str', default => 'pan_genome_post_analysis' ); +has 'fasta_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_pan_geneome_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_statistics_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'clusters_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_multifasta_files' => ( is => 'ro', isa => 'Bool', required => 1 ); +has 'dont_delete_files' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'dont_create_rplots' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'dont_split_groups' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'verbose_stats' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); +has 'group_limit' => ( is => 'rw', isa => 'Num', default => 50000 ); +has 'core_definition' => ( is => 'ro', isa => 'Num', default => 1.0 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'mafft' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'allow_paralogs' => ( is => 'ro', isa => 'Bool', default => 0 ); +has '_working_directory' => ( is => 'ro', isa => 'File::Temp::Dir', default => sub { File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); } ); +has '_gff_fofn' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__gff_fofn' ); +has '_fasta_fofn' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__fasta_fofn' ); + +# Overload Role +has 'memory_in_mb' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build_memory_in_mb' ); +has '_minimum_memory_mb' => ( is => 'ro', isa => 'Int', default => 4000 ); +has '_memory_per_sample_mb' => ( is => 'ro', isa => 'Int', default => 30 ); +has '_queue' => ( is => 'rw', isa => 'Str', lazy => 1, builder => '_build__queue'); + + +sub _build__queue { + my ($self) = @_; + my $queue = 'normal'; + my $num_samples = @{ $self->input_files }; + if($num_samples > 200) + { + $queue = 'long'; + } + elsif($num_samples > 600) + { + $queue = 'basement'; + } + return $queue; +} + + +sub _build_memory_in_mb { + my ($self) = @_; + my $num_samples = @{ $self->input_files }; + + my $memory_required = $num_samples * $self->_memory_per_sample_mb; + if ( $memory_required < $self->_minimum_memory_mb ) { + $memory_required = $self->_minimum_memory_mb; + } + + return $memory_required; +} + +sub _build__gff_fofn +{ + my ($self) = @_; + return join('/', ($self->_working_directory, '/_gff_files')); +} + +sub _build__fasta_fofn +{ + my ($self) = @_; + return join('/', ($self->_working_directory, '/_fasta_files')); +} + + +sub _output_gff_files +{ + my ($self) = @_; + open(my $out_fh, '>', $self->_gff_fofn); + for my $filename (@{$self->input_files}) + { + print {$out_fh} $filename."\n"; + } + close($out_fh); +} + +sub _output_fasta_files +{ + my ($self) = @_; + open(my $out_fh, '>', $self->_fasta_fofn); + for my $filename (@{$self->fasta_files}) + { + print {$out_fh} $filename."\n"; + } + close($out_fh); +} + +sub _command_to_run { + my ($self) = @_; + + $self->_output_fasta_files; + $self->_output_gff_files; + + my $output_multifasta_files_flag = ''; + $output_multifasta_files_flag = '--output_multifasta_files' if(defined($self->output_multifasta_files) && $self->output_multifasta_files == 1); + + my $dont_delete_files_flag = ''; + $dont_delete_files_flag = '--dont_delete_files' if(defined($self->dont_delete_files) && $self->dont_delete_files == 1); + + my $dont_create_rplots_flag = ''; + $dont_create_rplots_flag = '--dont_create_rplots' if(defined($self->dont_create_rplots) && $self->dont_create_rplots == 1); + + my $dont_split_groups_flag = ''; + $dont_split_groups_flag = '--dont_split_groups' if ( defined $self->dont_split_groups && $self->dont_split_groups == 1 ); + + my $verbose_stats_flag = ''; + $verbose_stats_flag = '--verbose_stats' if ( defined($self->verbose_stats) && $self->verbose_stats == 1 ); + + my $mafft_flag = ''; + $mafft_flag = '--mafft' if ( defined($self->mafft) && $self->mafft == 1 ); + + my $verbose_flag = ''; + $verbose_flag = '-v' if ( defined($self->verbose) && $self->verbose == 1 ); + + my $allow_paralogs_flag = ''; + $allow_paralogs_flag = '--allow_paralogs' if ( defined($self->allow_paralogs) && $self->allow_paralogs == 1 ); + + return join( + " ", + ( + $self->exec, + '-o', $self->output_filename, + '-p', $self->output_pan_geneome_filename, + '-s', $self->output_statistics_filename, + '-c', $self->clusters_filename, + $output_multifasta_files_flag, + '-i', $self->_gff_fofn, + '-f', $self->_fasta_fofn, + '-t', $self->translation_table, + $dont_delete_files_flag, + $dont_create_rplots_flag, + $dont_split_groups_flag, + $verbose_stats_flag, + $verbose_flag, + $mafft_flag, + $allow_paralogs_flag, + '-j', $self->job_runner, + '--processors', $self->cpus, + '--group_limit', $self->group_limit, + '-cd', ($self->core_definition*100) + ) + ); +} + +sub run { + my ($self) = @_; + + my @commands_to_run; + push( @commands_to_run, $self->_command_to_run ); + $self->logger->info( "Running command: " . $self->_command_to_run() ); + my $job_runner_obj = $self->_job_runner_class->new( + commands_to_run => \@commands_to_run, + memory_in_mb => $self->memory_in_mb, + queue => $self->_queue, + dont_wait => $self->dont_wait, + cpus => $self->cpus + ); + $job_runner_obj->run(); + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/External/Prank.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,77 @@ +package Bio::Roary::External::Prank; + +# ABSTRACT: Wrapper to run prank + +=head1 SYNOPSIS + +Wrapper to run cd-hit + use Bio::Roary::External::Prank; + + my $prank_obj = Bio::Roary::External::Prank->new( + input_filename => $fasta_file, + output_filename => $fasta_file.'.aln', + job_runner => 'Local' + ); + $prank_obj->run(); +=cut + +use Moose; +use File::Spec; +with 'Bio::Roary::JobRunner::Role'; + +has 'input_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'output' ); +has 'exec' => ( is => 'ro', isa => 'Str', default => 'prank' ); + +# Overload Role +has 'memory_in_mb' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build_memory_in_mb' ); + +sub _build_memory_in_mb { + my ($self) = @_; + my $memory_required = 2000; + return $memory_required; +} + +sub _command_to_run { + my ($self) = @_; + + if(! -e $self->input_filename) + { + $self->logger->error( "Input file to PRANK missing: " . $self->input_filename ); + } + + return join( + ' ', + ( + $self->exec, + "-d=" . $self->input_filename, + "-o=" . $self->output_filename, + '-codon', '-F', '-quiet', '-once', '> /dev/null 2>&1', + '&&', 'mv', $self->output_filename . '*.fas', + $self->output_filename + ) + ); +} + +sub run { + my ($self) = @_; + my @commands_to_run; + + push( @commands_to_run, $self->_command_to_run() ); + $self->logger->info( "Running command: " . $self->_command_to_run() ); + + my $job_runner_obj = $self->_job_runner_class->new( + commands_to_run => \@commands_to_run, + memory_in_mb => $self->memory_in_mb, + queue => $self->_queue, + cpus => $self->cpus + ); + $job_runner_obj->run(); + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ExtractCoreGenesFromSpreadsheet.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,167 @@ +package Bio::Roary::ExtractCoreGenesFromSpreadsheet; + +# ABSTRACT: Take in a spreadsheet produced by the pipeline and identify the core genes. + +=head1 SYNOPSIS + +Take in a spreadsheet produced by the pipeline and identify the core genes. + use Bio::Roary::ExtractCoreGenesFromSpreadsheet; + + my $obj = Bio::Roary::ExtractCoreGenesFromSpreadsheet->new( + spreadsheet => 'group_statistics.csv', + ); + $obj->ordered_core_genes(); + +=cut + +use Moose; +use Text::CSV; +use Bio::Roary::GroupStatistics; +use POSIX; + +has 'spreadsheet' => ( is => 'ro', isa => 'Str', required => 1 ); +has '_csv_parser' => ( is => 'ro', isa => 'Text::CSV', lazy => 1, builder => '_build__csv_parser' ); +has '_input_spreadsheet_fh' => ( is => 'ro', lazy => 1, builder => '_build__input_spreadsheet_fh' ); +has 'ordered_core_genes' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build_ordered_core_genes' ); +has 'core_definition' => ( is => 'ro', isa => 'Num', default => 1 ); +has 'sample_names' => ( is => 'rw', isa => 'ArrayRef', default => sub { [] } ); +has 'sample_names_to_genes' => ( is => 'rw', isa => 'HashRef', default => sub { {} } ); +has 'allow_paralogs' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has '_number_of_isolates' => ( is => 'rw', isa => 'Int' ); +has '_gene_column' => ( is => 'rw', isa => 'Int' ); +has '_num_isolates_column' => ( is => 'rw', isa => 'Int' ); +has '_avg_sequences_per_isolate_column' => ( is => 'rw', isa => 'Int' ); +has '_genome_fragement_column' => ( is => 'rw', isa => 'Int' ); +has '_order_within_fragement_column' => ( is => 'rw', isa => 'Int' ); +has '_min_no_isolates_for_core' => ( is => 'rw', isa => 'Num', lazy => 1, builder => '_build__min_no_isolates_for_core' ); + +sub _build__min_no_isolates_for_core { + my ($self) = @_; + my $threshold = $self->_number_of_isolates * $self->core_definition; + + return $threshold; +} + +sub _build__csv_parser { + my ($self) = @_; + return Text::CSV->new( { binary => 1, always_quote => 1 } ); +} + +sub _build__input_spreadsheet_fh { + my ($self) = @_; + open( my $fh, $self->spreadsheet ); + return $fh; +} + +sub _update_number_of_isolates { + my ( $self, $header_row ) = @_; + my $number_of_isolates = @{$header_row} - @{ Bio::Roary::GroupStatistics->fixed_headers }; + $self->_number_of_isolates($number_of_isolates); +} + +sub _setup_column_mappings { + my ( $self, $header_row ) = @_; + + #Â current ordering + my %columns_of_interest_mappings = ( + 'Gene' => 0, + 'No. isolates' => 3, + 'Avg sequences per isolate' => 5, + 'Genome Fragment' => 6, + 'Order within Fragment' => 7, + 'QC' => 10, + ); + + # Dynamically overwrite the default ordering + for ( my $i = 0 ; $i < @{$header_row} ; $i++ ) { + for my $col_name (%columns_of_interest_mappings) { + if ( $header_row->[$i] eq $col_name ) { + $columns_of_interest_mappings{$col_name} = $i; + last; + } + } + } + $self->_gene_column( $columns_of_interest_mappings{'Gene'} ); + $self->_num_isolates_column( $columns_of_interest_mappings{'No. isolates'} ); + $self->_avg_sequences_per_isolate_column( $columns_of_interest_mappings{'Avg sequences per isolate'} ); + $self->_genome_fragement_column( $columns_of_interest_mappings{'Genome Fragment'} ); + $self->_order_within_fragement_column( $columns_of_interest_mappings{'Order within Fragment'} ); + $self->_update_number_of_isolates($header_row); + + # Get the sample_names + my @sample_names; + for ( my $i = $self->_length_of_fixed_headers() ; $i < @{$header_row} ; $i++ ) { + push( @sample_names, $header_row->[$i] ); + } + $self->sample_names( \@sample_names ); +} + +sub _length_of_fixed_headers { + my ($self) = @_; + return @{ Bio::Roary::GroupStatistics->fixed_headers() }; +} + +sub _populate_sample_to_gene_lookup_with_row { + my ( $self, $row ) = @_; + + for ( my $i = $self->_length_of_fixed_headers() ; $i < @{$row} ; $i++ ) { + if ( defined( $row->[$i] ) && $row->[$i] ne "" ) { + my $sample_name = $self->sample_names->[ $i - $self->_length_of_fixed_headers() ]; + + $self->sample_names_to_genes->{$sample_name}->{ $row->[$i] } = 1; + } + } + return 1; +} + +sub _ordered_core_genes { + my ($self) = @_; + my %ordered_genes; + while ( my $row = $self->_csv_parser->getline( $self->_input_spreadsheet_fh ) ) { + next if ( @{$row} < 12 ); # no genes in group + next if ( !defined( $row->[ $self->_gene_column ] ) || $row->[ $self->_gene_column ] eq '' ); # no gene name + next + if ( !defined( $row->[ $self->_avg_sequences_per_isolate_column ] ) || $row->[ $self->_avg_sequences_per_isolate_column ] eq '' ) + ; # no average + next + if ( !defined( $row->[ $self->_genome_fragement_column ] ) || $row->[ $self->_genome_fragement_column ] eq '' ) + ; # fragment not defined + + # next if($self->_number_of_isolates != $row->[$self->_num_isolates_column]); # if gene is not in all isolates + next if ( $row->[ $self->_num_isolates_column ] < $self->_min_no_isolates_for_core ); + + if ( $self->allow_paralogs ) { + # should never happen + next if ( $row->[ $self->_avg_sequences_per_isolate_column ] < 1 ); + } + else { + next if ( $row->[ $self->_avg_sequences_per_isolate_column ] != 1 ); + } + + $ordered_genes{ $row->[ $self->_genome_fragement_column ] }{ $row->[ $self->_order_within_fragement_column ] } = + $row->[ $self->_gene_column ]; + $self->_populate_sample_to_gene_lookup_with_row($row); + } + + my @ordered_core_genes; + for my $fragment_key ( sort { $a <=> $b } keys %ordered_genes ) { + for my $order_within_fragement ( sort { $a <=> $b } keys %{ $ordered_genes{$fragment_key} } ) { + push( @ordered_core_genes, $ordered_genes{$fragment_key}{$order_within_fragement} ); + } + } + return \@ordered_core_genes; +} + +sub _build_ordered_core_genes { + my ($self) = @_; + my $header_row = $self->_csv_parser->getline( $self->_input_spreadsheet_fh ); + $self->_setup_column_mappings($header_row); + + return $self->_ordered_core_genes(); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ExtractProteomeFromGFF.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,223 @@ +package Bio::Roary::ExtractProteomeFromGFF; + +# ABSTRACT: Take in a GFF file and create protein sequences in FASTA format + +=head1 SYNOPSIS + +Take in GFF files and create protein sequences in FASTA format + use Bio::Roary::ExtractProteomeFromGFF; + + my $obj = Bio::Roary::ExtractProteomeFromGFF->new( + gff_file => $fasta_file, + ); + $obj->fasta_file(); + +=cut + +use Moose; +use Bio::SeqIO; +use Cwd; +use Bio::Roary::Exceptions; +use File::Basename; +use File::Temp; +use File::Copy; +use Bio::Tools::GFF; +with 'Bio::Roary::JobRunner::Role'; +with 'Bio::Roary::BedFromGFFRole'; + +has 'gff_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'apply_unknowns_filter' => ( is => 'rw', isa => 'Bool', default => 1 ); +has 'maximum_percentage_of_unknowns' => ( is => 'ro', isa => 'Num', default => 5 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_output_filename' ); +has 'fasta_file' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_fasta_file' ); +has '_working_directory' => ( is => 'ro', isa => 'File::Temp::Dir', default => sub { File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); } ); +has '_working_directory_name' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__working_directory_name' ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); + +sub _build_fasta_file { + my ($self) = @_; + $self->_extract_nucleotide_regions; + $self->_convert_nucleotide_to_protein; + $self->_cleanup_fasta; + $self->_cleanup_intermediate_files; + $self->_filter_fasta_sequences( join('/',($self->output_directory,$self->output_filename)) ); + return join('/',($self->output_directory,$self->output_filename)); +} + +sub _build__working_directory_name { + my ($self) = @_; + return $self->_working_directory->dirname(); +} + +sub _build_output_filename { + my ($self) = @_; + my ( $filename, $directories, $suffix ) = fileparse( $self->gff_file, qr/\.[^.]*/ ); + return join( '/', ( $self->_working_directory_name, $filename . '.faa' ) ); +} + + + +sub _cleanup_intermediate_files { + my ($self) = @_; + unlink( $self->_unfiltered_output_filename ); + unlink( $self->_fastatranslate_filename ); +} + +sub _nucleotide_fasta_file_from_gff_filename { + my ($self) = @_; + return join('/',($self->output_directory,join( '.', ( $self->output_filename, 'intermediate.fa' ) ))); +} + +sub _extracted_nucleotide_fasta_file_from_bed_filename { + my ($self) = @_; + return join('/',($self->output_directory,join( '.', ( $self->output_filename,'intermediate.extracted.fa' ) ))); +} + +sub _unfiltered_output_filename { + my $self = shift; + return join('/',($self->output_directory,join( '.', ( $self->output_filename, 'unfiltered.fa' ) ))); +} + + +sub _create_nucleotide_fasta_file_from_gff { + my ($self) = @_; + + open(my $input_fh, $self->gff_file); + open(my $output_fh, '>', $self->_nucleotide_fasta_file_from_gff_filename); + my $at_sequence = 0; + while(<$input_fh>) + { + my $line = $_; + if($line =~/^>/) + { + $at_sequence = 1; + } + + if($at_sequence == 1) + { + print {$output_fh} $line; + } + } + close($input_fh); + close($output_fh); +} + +sub _extract_nucleotide_regions { + my ($self) = @_; + + $self->_create_nucleotide_fasta_file_from_gff; + $self->_create_bed_file_from_gff; + + my $cmd = + 'bedtools getfasta -s -fi ' + . $self->_nucleotide_fasta_file_from_gff_filename + . ' -bed ' + . $self->_bed_output_filename . ' -fo ' + . $self->_extracted_nucleotide_fasta_file_from_bed_filename + . ' -name > /dev/null 2>&1'; + + $self->logger->debug($cmd); + system($cmd); + unlink( $self->_nucleotide_fasta_file_from_gff_filename ); + unlink( $self->_bed_output_filename ); + unlink( $self->_nucleotide_fasta_file_from_gff_filename . '.fai' ); +} + +sub _cleanup_fasta { + my $self = shift; + my $infile = $self->_unfiltered_output_filename; + my $outfile = join('/',($self->output_directory,$self->output_filename)); + return unless ( -e $infile ); + + open( my $in, '<', $infile ); + open( my $out, '>', $outfile ); + while ( my $line = <$in> ) { + chomp $line; + if ( $line =~ /^>/ ) + { + $line =~ s/"//g; + # newer versions of Bedtools add (-) or (+) to the end of the sequence name, remove them + $line =~ s!\([-+]\)!!; + } + + if($line =~ /^(>[^:]+)/) + { + $line = $1; + } + print $out "$line\n"; + } + close $in; + close $out; +} + +sub _fastatranslate_filename { + my ($self) = @_; + return join('/',($self->output_directory,join( '.', ( $self->output_filename, 'intermediate.translate.fa' ) ))); +} + +sub _fastatranslate { + my ( $self, $inputfile, $outputfile ) = @_; + + my $input_fasta_file_obj = Bio::SeqIO->new( -file => $inputfile, -format => 'Fasta' ); + my $output_protein_file_obj = Bio::SeqIO->new( -file => ">" . $outputfile, -format => 'Fasta', -alphabet => 'protein' ); + + my %protein_sequence_objs; + while ( my $seq = $input_fasta_file_obj->next_seq ) { + $seq->desc(undef); + my $protseq = $seq->translate( -codontable_id => $self->translation_table ); + $output_protein_file_obj->write_seq($protseq); + } + return 1; +} + +sub _convert_nucleotide_to_protein { + my ($self) = @_; + $self->_fastatranslate( $self->_extracted_nucleotide_fasta_file_from_bed_filename, $self->_unfiltered_output_filename ); + unlink( $self->_extracted_nucleotide_fasta_file_from_bed_filename ); +} + +sub _does_sequence_contain_too_many_unknowns { + my ( $self, $sequence_obj ) = @_; + my $maximum_number_of_Xs = int( ( $sequence_obj->length() * $self->maximum_percentage_of_unknowns ) / 100 ); + my $number_of_Xs_found = () = $sequence_obj->seq() =~ /X/g; + if ( $number_of_Xs_found > $maximum_number_of_Xs ) { + return 1; + } + else { + return 0; + } +} + +sub _filter_fasta_sequences { + my ( $self, $filename ) = @_; + my $temp_output_file = $filename . '.tmp.filtered.fa'; + my $out_fasta_obj = Bio::SeqIO->new( -file => ">" . $temp_output_file, -format => 'Fasta' ); + my $fasta_obj = Bio::SeqIO->new( -file => $filename, -format => 'Fasta' ); + + my $sequence_found = 0; + + while ( my $seq = $fasta_obj->next_seq() ) { + if ( $self->_does_sequence_contain_too_many_unknowns($seq) ) { + next; + } + $seq->desc(undef); + $out_fasta_obj->write_seq($seq); + $sequence_found = 1; + } + + if ( $sequence_found == 0 ) { + $self->logger->error( "Could not extract any protein sequences from " + . $self->gff_file + . ". Does the file contain the assembly as well as the annotation?" ); + } + + # Replace the original file. + move( $temp_output_file, $filename ); + return 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ExtractProteomeFromGFFs.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,80 @@ +package Bio::Roary::ExtractProteomeFromGFFs; + +# ABSTRACT: Take in GFF files and create protein sequences in FASTA format + +=head1 SYNOPSIS + +Take in GFF files and create protein sequences in FASTA format + use Bio::Roary::ExtractProteomeFromGFFs; + + my $plot_groups_obj = Bio::Roary::ExtractProteomeFromGFFs->new( + gff_files => $fasta_files, + ); + $plot_groups_obj->fasta_files(); + +=cut + +use Moose; +use Bio::Roary::Exceptions; +use Bio::Roary::ExtractProteomeFromGFF; +use File::Basename; +use Cwd qw(getcwd); +use File::Temp; +with 'Bio::Roary::JobRunner::Role'; + +has 'gff_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'fasta_files' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build_fasta_files' ); +has 'fasta_files_to_gff_files' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_fasta_files_to_gff_files' ); +has 'apply_unknowns_filter' => ( is => 'rw', isa => 'Bool', default => 1 ); +has '_queue' => ( is => 'rw', isa => 'Str', default => 'small' ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'working_directory' => ( is => 'ro', isa => 'File::Temp::Dir', default => sub { File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); } ); + +sub _build__extract_proteome_objects +{ + my ($self) = @_; + + my %extract_proteome_objects; + for my $filename ( @{ $self->gff_files } ) { + my $extract_proteome = Bio::Roary::ExtractProteomeFromGFF->new( + gff_file => $filename, + ); + $extract_proteome_objects{ $filename } = $extract_proteome; + } + return \%extract_proteome_objects; +} + +sub _build_fasta_files { + my ($self) = @_; + my @fasta_files = sort values( %{$self->fasta_files_to_gff_files} ); + return \@fasta_files; +} + +sub _build_fasta_files_to_gff_files { + my ($self) = @_; + + my %fasta_files; + my @commands_to_run; + for my $filename ( @{ $self->gff_files } ) + { + print "Extracting proteins from $filename\n" if($self->verbose); + my($gff_filename_without_directory, $directories, $suffix) = fileparse($filename); + my $output_suffix = "proteome.faa"; + + my $output_filename = $filename.'.'.$output_suffix; + $fasta_files{ $filename } = $self->working_directory.'/'.$gff_filename_without_directory.'.'.$output_suffix; + push(@commands_to_run, "extract_proteome_from_gff --translation_table ".$self->translation_table." --apply_unknowns_filter ".$self->apply_unknowns_filter." -d ".$self->working_directory." -o $output_suffix $filename"); + } + #Farm out the computation and block until its ready + my $job_runner_obj = $self->_job_runner_class->new( commands_to_run => \@commands_to_run, memory_in_mb => $self->memory_in_mb, queue => $self->_queue, cpus => $self->cpus); + $job_runner_obj->run(); + + return \%fasta_files; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/FilterFullClusters.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,144 @@ +package Bio::Roary::FilterFullClusters; + +# ABSTRACT: Take an a clusters file from CD-hit and the fasta file and output a fasta file without full clusters + +=head1 SYNOPSIS + +Take an a clusters file from CD-hit and the fasta file and output a fasta file without full clusters + use Bio::Roary::FilterFullClusters; + + my $obj = Bio::Roary::FilterFullClusters->new( + clusters_filename => $cluster_file, + fasta_file => $fasta_file, + number_of_input_files => 10, + output_file => 'filtered_file' + ); + $obj->filter_full_clusters_from_fasta(); + +=cut + +use Moose; +use Bio::SeqIO; +with 'Bio::Roary::ClustersRole'; + +has 'number_of_input_files' => ( is => 'ro', isa => 'Int', required => 1 ); +has 'fasta_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has '_greater_than_or_equal' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'cdhit_input_fasta_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'cdhit_output_fasta_file' => ( is => 'ro', isa => 'Str', required => 1 ); + +has 'output_groups_file' => ( is => 'ro', isa => 'Str', required => 1 ); + +has '_full_cluster_gene_names' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__full_cluster_gene_names' ); +has '_input_seqio' => ( is => 'ro', isa => 'Bio::SeqIO', lazy => 1, builder => '_build__input_seqio' ); +has '_output_seqio' => ( is => 'ro', isa => 'Bio::SeqIO', lazy => 1, builder => '_build__output_seqio' ); + +has '_all_full_cluster_genes' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__all_full_cluster_genes' ); + +sub _build__full_cluster_gene_names +{ + my($self) = @_; + + my %full_cluster_gene_names ; + + for my $gene_name (keys %{$self->_clustered_genes}) + { + + if($self->_greater_than_or_equal == 0) + { + if(defined($self->_clustered_genes->{$gene_name}) && @{$self->_clustered_genes->{$gene_name}} >= ($self->number_of_input_files -1)) + { + $full_cluster_gene_names{$gene_name}++; + } + } + else + { + if(defined($self->_clustered_genes->{$gene_name}) && @{$self->_clustered_genes->{$gene_name}} == ($self->number_of_input_files -1)) + { + $full_cluster_gene_names{$gene_name}++; + } + } + } + + return \%full_cluster_gene_names; +} + +sub _build__input_seqio { + my ($self) = @_; + return Bio::SeqIO->new( -file => $self->fasta_file, -format => 'Fasta' ); +} + +sub _build__output_seqio { + my ( $self, $chunk_number ) = @_; + return Bio::SeqIO->new( -file => ">".$self->output_file, -format => 'Fasta' ); +} + +sub _build__all_full_cluster_genes +{ + my ($self) = @_; + my %full_cluster_genes; + + for my $gene_name (keys %{$self->_full_cluster_gene_names}) + { + $full_cluster_genes{$gene_name}++; + for my $cluster_gene_name (@{$self->_clustered_genes->{$gene_name}}) + { + $full_cluster_genes{$cluster_gene_name}++; + } + } + return \%full_cluster_genes; +} + + +sub _create_groups_file +{ + my ($self) = @_; + open(my $out_fh, '>>', $self->output_groups_file); + + for my $gene_name (keys %{$self->_full_cluster_gene_names}) + { + print {$out_fh} $gene_name."\t". join("\t", @{$self->_clustered_genes->{$gene_name}}). "\n"; + } + close($out_fh); +} + + + +sub filter_complete_cluster_from_original_fasta +{ + my ($self) = @_; + + my $input_seq_io = Bio::SeqIO->new( -file => $self->cdhit_input_fasta_file, -format => 'Fasta' ); + my $output_seq_io = Bio::SeqIO->new( -file => ">".$self->cdhit_output_fasta_file, -format => 'Fasta' ); + + while ( my $input_seq = $input_seq_io->next_seq() ) + { + unless(defined($self->_all_full_cluster_genes->{$input_seq->display_id})) + { + $output_seq_io->write_seq($input_seq); + } + } + + $self->_create_groups_file; + return $self; +} + +sub filter_full_clusters_from_fasta +{ + my ($self) = @_; + + while ( my $input_seq = $self->_input_seqio->next_seq() ) { + unless(defined($self->_full_cluster_gene_names->{$input_seq->display_id})) + { + $self->_output_seqio->write_seq($input_seq); + } + } + return $self; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/FilterUnknownsFromFasta.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,88 @@ +package Bio::Roary::FilterUnknownsFromFasta; + +# ABSTRACT: Take in fasta files, remove sequences with too many unknowns and return a list of the new files + +=head1 SYNOPSIS + +Take in fasta files, remove sequences with too many unknowns and return a list of the new files + use Bio::Roary::FilterUnknownsFromFasta; + + my $obj = Bio::Roary::FilterUnknownsFromFasta->new( + fasta_files => [], + ); + $obj->filtered_fasta_files(); + +=cut + +use Moose; +use Bio::SeqIO; +use Cwd; +use Bio::Roary::Exceptions; +use File::Basename; + +has 'fasta_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'apply_unknowns_filter' => ( is => 'rw', isa => 'Bool', default => 1 ); +has 'maximum_percentage_of_unknowns' => ( is => 'ro', isa => 'Num', default => 5 ); + +has 'filtered_fasta_files' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build_filtered_fasta_files' ); + +has 'input_fasta_to_output_fasta' => ( is => 'ro', isa => 'HashRef', default => sub {{}} ); + +sub _build_filtered_fasta_files +{ + my ($self) = @_; + + my @output_file_names; + for my $fasta_file (@{$self->fasta_files}) + { + my ( $filename, $directories, $suffix ) = fileparse($fasta_file); + push(@output_file_names, $self->_filter_fasta_sequences_and_return_new_file($filename,$fasta_file )); + } + return \@output_file_names; +} + +sub _does_sequence_contain_too_many_unknowns +{ + my ($self, $sequence_obj) = @_; + my $maximum_number_of_Xs = int(($sequence_obj->length()*$self->maximum_percentage_of_unknowns)/100); + my $number_of_Xs_found = () = $sequence_obj->seq() =~ /X/g; + if($number_of_Xs_found > $maximum_number_of_Xs) + { + return 1; + } + else + { + return 0; + } +} + + +sub _filter_fasta_sequences_and_return_new_file +{ + my ($self, $output_file, $input_file) = @_; + my $output_filename = $output_file.'.tmp.filtered.fa'; + my $out_fasta_obj = Bio::SeqIO->new( -file => ">".$output_filename, -format => 'Fasta'); + my $fasta_obj = Bio::SeqIO->new( -file => $input_file, -format => 'Fasta'); + + $self->input_fasta_to_output_fasta->{$input_file} = $output_filename; + + while(my $seq = $fasta_obj->next_seq()) + { + if($self->_does_sequence_contain_too_many_unknowns($seq)) + { + next; + } + #Â strip out extra details put in by fastatranslate + $seq->description(undef); + $out_fasta_obj->write_seq($seq); + } + return $output_filename; +} + + + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/GeneNamesFromGFF.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,81 @@ +package Bio::Roary::GeneNamesFromGFF; + +# ABSTRACT: Parse a GFF and efficiently extract ID -> Gene Name + +=head1 SYNOPSIS + +Parse a GFF and efficiently extract ID -> Gene Name + use Bio::Roary::GeneNamesFromGFF; + + my $obj = Bio::Roary::GeneNamesFromGFF->new( + gff_file => 'abc.gff' + ); + $obj->ids_to_gene_name; + +=cut + +use Moose; + +use Bio::Tools::GFF; +with 'Bio::Roary::ParseGFFAnnotationRole'; + +has 'ids_to_gene_name' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_ids_to_gene_name' ); +has 'ids_to_product' => ( is => 'rw', isa => 'HashRef', default => sub { {} } ); +has 'ids_to_gene_size' => ( is => 'rw', isa => 'HashRef', default => sub { {} } ); + +# Parsing with the perl GFF module is exceptionally slow. +sub _build_ids_to_gene_name { + my ($self) = @_; + my %id_to_gene_name; + + my $gffio = Bio::Tools::GFF->new( -file => $self->gff_file, -gff_version => 3 ); + while ( my $feature = $gffio->next_feature() ) { + my $gene_id = $self->_get_feature_id($feature); + next unless ($gene_id); + + if ( $feature->has_tag('gene') ) { + my ( $gene_name, @junk ) = $feature->get_tag_values('gene'); + $gene_name =~ s!"!!g; + if ( $gene_name ne "" ) { + $id_to_gene_name{$gene_id} = $gene_name; + } + } + elsif ( $feature->has_tag('Name') ) { + my ( $gene_name, @junk ) = $feature->get_tag_values('Name'); + $gene_name =~ s!"!!g; + if ( $gene_name ne "" ) { + $id_to_gene_name{$gene_id} = $gene_name; + } + } + + if ( $feature->has_tag('product') ) { + my ( $product, @junk ) = $feature->get_tag_values('product'); + $self->ids_to_product->{$gene_id} = $product; + } + $self->ids_to_gene_size->{$gene_id} = $feature->end - $feature->start; + } + + return \%id_to_gene_name; +} + +sub _get_feature_id { + my ( $self, $feature ) = @_; + my ( $gene_id, @junk ); + if ( $feature->has_tag('ID') ) { + ( $gene_id, @junk ) = $feature->get_tag_values('ID'); + } + elsif ( $feature->has_tag('locus_tag') ) { + ( $gene_id, @junk ) = $feature->get_tag_values('locus_tag'); + } + else { + return undef; + } + $gene_id =~ s!["']!!g; + return undef if ( $gene_id eq "" ); + return $gene_id; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/GroupLabels.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,62 @@ +package Bio::Roary::GroupLabels; + +# ABSTRACT: Add labels to the groups + +=head1 SYNOPSIS + +Add labels to the groups + use Bio::Roary::GroupLabels; + + my $obj = Bio::Roary::GroupLabels->new( + groups_filename => 'abc.groups', + output_filename => 'output.groups' + ); + $obj->add_labels; + +=cut + +use Moose; +use Bio::Roary::Exceptions; + +has 'groups_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'labelled_groups_file' ); + +has '_input_fh' => ( is => 'ro', lazy => 1, builder => '_build__input_fh' ); +has '_output_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_fh' ); +has '_group_default_prefix' => ( is => 'ro', isa => 'Str', default => 'group_' ); + +sub _build__input_fh { + my ($self) = @_; + open( my $fh, $self->groups_filename ) + or Bio::Roary::Exceptions::FileNotFound->throw( error => "Group file not found:" . $self->groups_filename ); + return $fh; +} + +sub _build__output_fh { + my ($self) = @_; + open( my $fh, '>', $self->output_filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( + error => "Couldnt write output file:" . $self->output_filename ); + return $fh; +} + +sub add_labels { + my ($self) = @_; + + my $counter = 1; + my $in_fh = $self->_input_fh; + while (<$in_fh>) { + my $line = $_; + next if ( $line eq "" ); + print { $self->_output_fh } $self->_group_default_prefix . $counter . ": " . $line; + $counter++; + } + close( $self->_input_fh ); + close( $self->_output_fh ); + return 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/GroupStatistics.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,242 @@ +package Bio::Roary::GroupStatistics; + +# ABSTRACT: Add labels to the groups + +=head1 SYNOPSIS + +Add labels to the groups + use Bio::Roary::GroupStatistics; + + my $obj = Bio::Roary::GroupStatistics->new( + output_filename => 'group_statitics.csv', + annotate_groups_obj => $annotate_groups_obj, + analyse_groups_obj => $analyse_groups_obj + ); + $obj->create_spreadsheet; + +=cut + +use Moose; +use POSIX; +use Text::CSV; +use File::Basename; +use Bio::SeqIO; +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; +use Bio::Roary::AnnotateGroups; +use Bio::Roary::PresenceAbsenceMatrix; + +has 'annotate_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnnotateGroups', required => 1 ); +has 'analyse_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnalyseGroups', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'gene_presence_absence.csv' ); +has 'output_rtab_filename' => ( is => 'ro', isa => 'Str', default => 'gene_presence_absence.Rtab' ); +has 'groups_to_contigs' => ( is => 'ro', isa => 'Maybe[HashRef]'); +has '_output_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_fh' ); +has '_text_csv_obj' => ( is => 'ro', isa => 'Text::CSV', lazy => 1, builder => '_build__text_csv_obj' ); +has '_sorted_file_names' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__sorted_file_names' ); +has '_groups_to_files' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__groups_to_files' ); +has '_files_to_groups' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__files_to_groups' ); +has '_num_files_in_groups' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__num_files_in_groups' ); +has '_verbose' => ( is => 'ro', isa => 'Bool', default => 0 ); + + +sub _build__output_fh { + my ($self) = @_; + open( my $fh, '>', $self->output_filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( + error => "Couldnt write output file:" . $self->output_filename ); + return $fh; +} + +sub _build__text_csv_obj { + my ($self) = @_; + return Text::CSV->new( { binary => 1, always_quote => 1, eol => "\r\n" } ); +} + +sub fixed_headers { + my ($self) = @_; + my @header = + ( 'Gene', 'Non-unique Gene name', 'Annotation', 'No. isolates', 'No. sequences', 'Avg sequences per isolate', 'Genome Fragment','Order within Fragment', 'Accessory Fragment','Accessory Order with Fragment', 'QC','Min group size nuc', 'Max group size nuc', 'Avg group size nuc' ); + return \@header; +} + +sub _sample_headers +{ + my ($self) = @_; + my @header; + for my $filename ( @{ $self->_sorted_file_names } ) { + my $filename_cpy = basename($filename); + $filename_cpy =~ s!\.gff\.proteome\.faa!!; + push( @header, $filename_cpy ); + } + return \@header; +} + +sub _header { + my ($self) = @_; + my @header = @{ $self->fixed_headers }; + push( @header, @{$self->_sample_headers}); + push( @header, 'Inference' ) if ( $self->_verbose ); + return \@header; +} + +sub _build__sorted_file_names { + my ($self) = @_; + my @sorted_file_names = sort( @{ $self->analyse_groups_obj->fasta_files } ); + return \@sorted_file_names; +} + +sub _non_unique_name_for_group { + my ( $self, $annotated_group_name ) = @_; + my $duplicate_gene_name = ''; + my $prefix = $self->annotate_groups_obj->_group_default_prefix; + if ( $annotated_group_name =~ /$prefix/ ) { + my $non_unique_name_for_group = + $self->annotate_groups_obj->_consensus_gene_name_for_group($annotated_group_name); + if ( !( $non_unique_name_for_group =~ /$prefix/ ) ) { + $duplicate_gene_name = $non_unique_name_for_group; + } + } + return $duplicate_gene_name; +} + +sub _build__groups_to_files { + my ($self) = @_; + my %groups_to_files; + for my $group ( @{ $self->annotate_groups_obj->_groups } ) { + my $genes = $self->annotate_groups_obj->_groups_to_id_names->{$group}; + my %filenames; + for my $gene_name ( @{$genes} ) { + my $filename = $self->analyse_groups_obj->_genes_to_file->{$gene_name}; + push( @{ $filenames{$filename} }, $gene_name ); + } + $groups_to_files{$group} = \%filenames; + } + + return \%groups_to_files; +} + +sub _build__files_to_groups +{ + my ($self) = @_; + my %files_to_groups; + + for my $group (keys %{$self->_groups_to_files}) + { + for my $filename (keys %{$self->_groups_to_files->{$group}}) + { + push(@{$files_to_groups{$filename}}, $group); + } + } + + return \%files_to_groups; +} + +sub _build__num_files_in_groups +{ + my ($self) = @_; + my %num_files_in_groups; + for my $group (@{ $self->annotate_groups_obj->_groups }) + { + my $num_files = $self->analyse_groups_obj->_count_num_files_in_group( $self->annotate_groups_obj->_groups_to_id_names->{$group}); + $num_files_in_groups{$group} = $num_files; + } + return \%num_files_in_groups; +} + +sub _row { + my ( $self, $group ) = @_; + my $genes = $self->annotate_groups_obj->_groups_to_id_names->{$group}; + + my $num_isolates_in_group = $self->analyse_groups_obj->_count_num_files_in_group($genes); + my $num_sequences_in_group = $#{$genes} + 1; + my $avg_sequences_per_isolate = ceil( ( $num_sequences_in_group / $num_isolates_in_group ) * 100 ) / 100; + + my $annotation = $self->annotate_groups_obj->consensus_product_for_id_names($genes); + my $annotated_group_name = $self->annotate_groups_obj->_groups_to_consensus_gene_names->{$group}; + + my $duplicate_gene_name = $self->_non_unique_name_for_group($annotated_group_name); + + my $genome_number = ''; + my $qc_comment = ''; + my $order_within_fragement = ''; + my $accessory_order_within_fragement = ''; + my $accessory_genome_number = ''; + if(defined($self->groups_to_contigs) && defined($self->groups_to_contigs->{$annotated_group_name})) + { + $genome_number = $self->groups_to_contigs->{$annotated_group_name}->{label}; + $qc_comment = $self->groups_to_contigs->{$annotated_group_name}->{comment}; + $order_within_fragement = $self->groups_to_contigs->{$annotated_group_name}->{order}; + + $accessory_genome_number = $self->groups_to_contigs->{$annotated_group_name}->{accessory_label}; + $accessory_order_within_fragement = $self->groups_to_contigs->{$annotated_group_name}->{accessory_order}; + } + + my $group_size = $self->annotate_groups_obj->group_nucleotide_lengths->{$group}; + + my @row = ( + $annotated_group_name, $duplicate_gene_name, $annotation, + $num_isolates_in_group, $num_sequences_in_group, $avg_sequences_per_isolate,$genome_number,$order_within_fragement,$accessory_genome_number,$accessory_order_within_fragement,$qc_comment,$group_size->{min}, $group_size->{max}, $group_size->{average} + ); + + for(my $i =0; $i < @row; $i++) + { + if(!defined($row[$i])) + { + $row[$i] = ''; + } + } + + for my $filename ( @{ $self->_sorted_file_names } ) { + my $group_to_file_genes = $self->_groups_to_files->{$group}->{$filename}; + + if ( defined($group_to_file_genes) && @{$group_to_file_genes} > 0 ) { + + push( @row, join( "\t", @{$group_to_file_genes} ) ); + next; + } + else { + push( @row, '' ); + } + } + + ## ADD INFERENCE AND FULL ANNOTATION IF VERBOSE REQUESTED ## + if ( $self->_verbose ){ + my ( $full_annotation, $inference ); + $row[2] = $self->annotate_groups_obj->full_annotation($group); + push( @row, $self->annotate_groups_obj->inference($group) ); + } + + return \@row; +} + +sub create_rtab +{ + my ($self) = @_; + my $presence_absence_matrix_obj = Bio::Roary::PresenceAbsenceMatrix->new( + output_filename => $self->output_rtab_filename, + annotate_groups_obj => $self->annotate_groups_obj, + sorted_file_names => $self->_sorted_file_names, + groups_to_files => $self->_groups_to_files, + num_files_in_groups => $self->_num_files_in_groups, + sample_headers => $self->_sample_headers, + ); + $presence_absence_matrix_obj->create_matrix_file; + return $self; +} + +sub create_spreadsheet { + my ($self) = @_; + + $self->_text_csv_obj->print( $self->_output_fh, $self->_header ); + + for my $group (sort {$self->_num_files_in_groups->{$b}<=>$self->_num_files_in_groups->{$a} || $a cmp $b} keys %{$self->_num_files_in_groups}){ + $self->_text_csv_obj->print( $self->_output_fh, $self->_row($group) ); + } + close( $self->_output_fh ); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/InflateClusters.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,109 @@ +package Bio::Roary::InflateClusters; + +# ABSTRACT: Take the clusters file from cd-hit and use it to inflate the output of MCL + +=head1 SYNOPSIS + +Take the clusters file from cd-hit and use it to inflate the output of MCL + use Bio::Roary::InflateClusters; + + my $obj = Bio::Roary::InflateClusters->new( + clusters_filename => 'example.clstr', + mcl_filename => 'example.mcl', + output_file => 'example.output' + ); + $obj->inflate; + +=cut + +use Moose; +use Bio::Roary::Exceptions; +with 'Bio::Roary::ClustersRole'; + +has 'mcl_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_file' => ( is => 'ro', isa => 'Str', default => 'inflated_results' ); +has '_mcl_fh' => ( is => 'ro',lazy => 1, builder => '_build__mcl_fh' ); +has '_output_fh' => ( is => 'ro',lazy => 1, builder => '_build__output_fh' ); +has 'cdhit_groups_filename' => ( is => 'ro', isa => 'Maybe[Str]' ); + +sub _build__output_fh +{ + my($self) = @_; + open(my $fh, '>', $self->output_file) or Bio::Roary::Exceptions::CouldntWriteToFile->throw( error => 'Cant write to file: ' . $self->output_file ); + return $fh; +} + +sub _build__mcl_fh +{ + my($self) = @_; + open(my $fh, $self->mcl_filename) or Bio::Roary::Exceptions::FileNotFound->throw( error => 'Cant open file: ' . $self->mcl_filename ); + return $fh; +} + +sub _inflate_line +{ + my($self, $line) = @_; + my @inflated_genes; + chomp($line); + my @gene_names = split(/[\t\s]+/, $line); + for my $gene_name (@gene_names) + { + push(@inflated_genes, $self->_inflate_gene($gene_name)); + } + return join(' ',@inflated_genes); +} + +sub _inflate_gene +{ + my($self, $gene_name) = @_; + my $inflated_gene = $gene_name; + if(defined($self->_clustered_genes->{$gene_name})) + { + $inflated_gene = $inflated_gene."\t". join("\t",@{$self->_clustered_genes->{$gene_name}}); + delete($self->_clustered_genes->{$gene_name}); + } + return $inflated_gene; +} + +sub inflate +{ + my($self) = @_; + my $mcl_fh = $self->_mcl_fh; + + # Inflate genes from cdhit which were sent to mcl + while(<$mcl_fh>) + { + my $line = $_; + print { $self->_output_fh } $self->_inflate_line($line) . "\n"; + } + + #Â Inflate any clusters that were in the clusters file but not sent to mcl + for my $gene_name(keys %{$self->_clustered_genes}) + { + next unless(defined($self->_clustered_genes->{$gene_name})); + print { $self->_output_fh } $gene_name."\t". join("\t",@{$self->_clustered_genes->{$gene_name}})."\n"; + } + + if(defined($self->cdhit_groups_filename)) + { + #Â Add clusters which were excluded because the groups were full at the cdhit stage + open(my $cdhit_fh, $self->cdhit_groups_filename) or Bio::Roary::Exceptions::FileNotFound->throw( error => "CD hit group file not found: " . $self->cdhit_groups_filename); + while(<$cdhit_fh>) + { + my $line = $_; + + if(defined($line)) + { + print { $self->_output_fh } $line ; + } + } + } + + close($self->_output_fh); + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/IterativeCdhit.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,114 @@ +package Bio::Roary::IterativeCdhit; + +# ABSTRACT: Run CDhit iteratively with reducing thresholds, removing full clusters each time + +=head1 SYNOPSIS + +Run CDhit iteratively with reducing thresholds, removing full clusters each time + use Bio::Roary::IterativeCdhit; + + my $obj = Bio::Roary::IterativeCdhit->new( + output_cd_hit_filename => 'output_cd_hit_filename.fa', + output_combined_filename => 'output_combined_filename.fa', + number_of_input_files => 5, + output_filtered_clustered_fasta= > 'output_filtered_clustered_fasta.fa', + ); + $obj->run; + +=cut + +use Moose; +use Bio::SeqIO; +use Bio::Roary::Exceptions; +use Bio::Roary::External::Cdhit; +use Bio::Roary::FilterFullClusters; +use File::Copy; +use Log::Log4perl qw(:easy); +# CD hit is run locally + +has 'output_cd_hit_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_combined_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'number_of_input_files' => ( is => 'ro', isa => 'Int', required => 1 ); +has 'output_filtered_clustered_fasta' => ( is => 'ro', isa => 'Str', required => 1 ); + +has 'lower_bound_percentage' => ( is => 'ro', isa => 'Num', default => 0.98 ); +has 'upper_bound_percentage' => ( is => 'ro', isa => 'Num', default => 0.99 ); +has 'step_size_percentage' => ( is => 'ro', isa => 'Num', default => 0.005 ); +has 'cpus' => ( is => 'ro', isa => 'Int', default => 1 ); +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger'); + +sub _build_logger +{ + my ($self) = @_; + Log::Log4perl->easy_init(level => $ERROR); + my $logger = get_logger(); + return $logger; +} + + +sub run { + my ($self) = @_; + + $self->filter_complete_clusters( + $self->output_cd_hit_filename, + 1, + $self->output_combined_filename, + $self->number_of_input_files, + $self->output_filtered_clustered_fasta, 1 + ); + + for ( my $percent_match = $self->upper_bound_percentage ; $percent_match >= $self->lower_bound_percentage ; $percent_match -= $self->step_size_percentage ) { + $self->filter_complete_clusters( + $self->output_cd_hit_filename, + $percent_match, + $self->output_combined_filename, + $self->number_of_input_files, + $self->output_filtered_clustered_fasta, 0 + ); + } + + my $cdhit_obj = Bio::Roary::External::Cdhit->new( + input_file => $self->output_combined_filename, + output_base => $self->output_cd_hit_filename, + _length_difference_cutoff => $self->lower_bound_percentage, + _sequence_identity_threshold => $self->lower_bound_percentage, + cpus => $self->cpus, + logger => $self->logger + ); + $cdhit_obj->run(); + return $cdhit_obj->clusters_filename; +} + +sub filter_complete_clusters { + my ( $self, $output_cd_hit_filename, $percentage_match, $output_combined_filename, $number_of_input_files, + $output_filtered_clustered_fasta, + $greater_than_or_equal ) + = @_; + my $cdhit_obj = Bio::Roary::External::Cdhit->new( + input_file => $output_combined_filename, + output_base => $output_cd_hit_filename, + _length_difference_cutoff => $percentage_match, + _sequence_identity_threshold => $percentage_match, + cpus => $self->cpus, + ); + $cdhit_obj->run(); + + my $filter_clusters = Bio::Roary::FilterFullClusters->new( + clusters_filename => $cdhit_obj->clusters_filename, + fasta_file => $output_cd_hit_filename, + number_of_input_files => $number_of_input_files, + output_file => $output_filtered_clustered_fasta, + _greater_than_or_equal => $greater_than_or_equal, + cdhit_input_fasta_file => $output_combined_filename, + cdhit_output_fasta_file => $output_combined_filename . '.filtered', + output_groups_file => $output_combined_filename . '.groups' + ); + + $filter_clusters->filter_complete_cluster_from_original_fasta(); + move( $filter_clusters->cdhit_output_fasta_file, $output_combined_filename ); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/JobRunner/Local.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,64 @@ +package Bio::Roary::JobRunner::Local; + +# ABSTRACT: Execute a set of commands locally + +=head1 SYNOPSIS + + Execute a set of commands locally + use Bio::Roary::JobRunner::Local; + + my $obj = Bio::Roary::JobRunner::Local->new( + commands_to_run => ['ls', 'echo "abc"'], + ); + $obj->run(); + +=cut + +use Moose; +use Log::Log4perl qw(:easy); + +has 'commands_to_run' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger'); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'memory_in_mb' => ( is => 'rw', isa => 'Int', default => '200' ); + +sub run { + my ($self) = @_; + + for my $command_to_run ( @{ $self->commands_to_run } ) { + $self->logger->info($command_to_run); + system($command_to_run ); + } + 1; +} + + +sub _construct_dependancy_params +{ + my ($self) = @_; + return ''; +} + +sub submit_dependancy_job { + my ( $self,$command_to_run) = @_; + $self->logger->info($command_to_run); + system($command_to_run ); +} + +sub _build_logger +{ + my ($self) = @_; + my $level = $ERROR; + if($self->verbose) + { + $level = $DEBUG; + } + Log::Log4perl->easy_init($level); + my $logger = get_logger(); + return $logger; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/JobRunner/Parallel.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,75 @@ +package Bio::Roary::JobRunner::Parallel; + +# ABSTRACT: Use GNU Parallel + +=head1 SYNOPSIS + + Execute a set of commands using GNU parallel + use Bio::Roary::JobRunner::Parallel; + + my $obj = Bio::Roary::JobRunner::Local->new( + commands_to_run => ['ls', 'echo "abc"'], + max_jobs => 4 + ); + $obj->run(); + +=cut + +use Moose; +use File::Temp qw/ tempfile /; +use Log::Log4perl qw(:easy); +use File::Slurper 'write_text'; +use File::Temp qw/ tempfile /; + +has 'commands_to_run' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'cpus' => ( is => 'ro', isa => 'Int', default => 1 ); +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger'); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'memory_in_mb' => ( is => 'rw', isa => 'Int', default => '200' ); + +sub run { + my ($self) = @_; + + my($fh, $temp_command_filename) = tempfile(); + write_text($temp_command_filename, join("\n", @{ $self->commands_to_run }) ); + + for my $command_to_run(@{ $self->commands_to_run }) + { + $self->logger->info($command_to_run); + } + my $parallel_command = "parallel --gnu -j ".$self->cpus." < ".$temp_command_filename ; + $self->logger->info($parallel_command ); + + system($parallel_command); + 1; +} + +sub _construct_dependancy_params +{ + my ($self) = @_; + return ''; +} + +sub submit_dependancy_job { + my ( $self,$command_to_run) = @_; + $self->logger->info($command_to_run); + system($command_to_run ); +} + +sub _build_logger +{ + my ($self) = @_; + my $level = $ERROR; + if($self->verbose) + { + $level = $DEBUG; + } + Log::Log4perl->easy_init($level); + my $logger = get_logger(); + return $logger; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/JobRunner/Role.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,65 @@ +package Bio::Roary::JobRunner::Role; + +# ABSTRACT: A role to add job runner functionality + +=head1 SYNOPSIS + +A role to add job runner functionality + with 'Bio::Roary::JobRunner::Role'; + +=cut + +use Moose::Role; +use Log::Log4perl qw(:easy); +use File::Spec; + +has 'job_runner' => ( is => 'rw', isa => 'Str', default => 'Local' ); +has '_job_runner_class' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__job_runner_class' ); +has 'memory_in_mb' => ( is => 'rw', isa => 'Int', default => '200' ); +has '_queue' => ( is => 'rw', isa => 'Str', default => 'normal' ); +has 'dont_wait' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'cpus' => ( is => 'ro', isa => 'Int', default => 1 ); +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger'); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); + +sub _build_logger +{ + my ($self) = @_; + my $level = $ERROR; + if($self->verbose) + { + $level = $DEBUG; + } + Log::Log4perl->easy_init($level); + my $logger = get_logger(); + return $logger; +} + +sub _build__job_runner_class { + my ($self) = @_; + my $job_runner_class = "Bio::Roary::JobRunner::" . $self->job_runner; + eval "require $job_runner_class"; + return $job_runner_class; +} + +sub _find_exe { + my($self,$executables) = @_; + + # If there is an explicit full path passed in, just return. + if($executables->[0] =~ m!/!) + { + return $executables->[0]; + } + + for my $dir (File::Spec->path) { + for my $exec (@{$executables}) + { + my $exe = File::Spec->catfile($dir, $exec); + return $exe if -x $exe; + } + } + return $executables->[0]; +} + + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/LookupGeneFiles.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,53 @@ +package Bio::Roary::LookupGeneFiles; + +# ABSTRACT: Take in an ordering of genes and a directory and return an ordered list of file locations + +=head1 SYNOPSIS + +Take in an ordering of genes and a directory and return an ordered list of file locations + use Bio::Roary::LookupGeneFiles; + + my $obj = Bio::Roary::LookupGeneFiles->new( + multifasta_directory => 'pan_genome_sequences', + ordered_genes => ['gene5','gene2','gene3'], + + ); + $obj->ordered_gene_files(); + +=cut + +use Moose; + +has 'multifasta_directory' => ( is => 'ro', isa => 'Str', default => 'pan_genome_sequences' ); +has 'ordered_genes' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); + +has 'ordered_gene_files' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build_ordered_gene_files' ); + + +sub _build_ordered_gene_files +{ + my ($self) = @_; + my @gene_files; + for my $gene (@{$self->ordered_genes}) + { + $gene =~ s!\W!_!gi; + my $filename = $gene.'.fa.aln'; + my $gene_filepath = join('/',($self->multifasta_directory, $filename)); + + if(! -e $gene_filepath) + { + print "Core gene file missing: ". $gene_filepath."\n"; + } + else + { + push(@gene_files, $gene_filepath); + } + } + return \@gene_files; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/MergeMultifastaAlignments.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,121 @@ +package Bio::Roary::MergeMultifastaAlignments; + +# ABSTRACT: Merge multifasta alignment files with equal numbers of sequences. + +=head1 SYNOPSIS + +Merge multifasta alignment files with equal numbers of sequences.So each sequence in each file gets concatenated together. It is assumed the +sequences are in the correct order. + use Bio::Roary::MergeMultifastaAlignments; + + my $obj = Bio::Roary::MergeMultifastaAlignments->new( + multifasta_files => [], + output_filename => 'output_merged.aln' + ); + $obj->merge_files; + +=cut + +use Moose; +use Bio::SeqIO; +use Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL; + +has 'multifasta_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'sample_names' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'sample_names_to_genes' => ( is => 'rw', isa => 'HashRef', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'core_alignment.aln' ); +has 'output_header_filename' => ( is => 'ro', isa => 'Str', default => 'core_alignment_header.embl' ); +has '_output_seqio_obj' => ( is => 'ro', isa => 'Bio::SeqIO', lazy => 1, builder => '_build__output_seqio_obj' ); +has '_gene_lengths' => ( is => 'rw', isa => 'HashRef', lazy => 1, builder => '_build__gene_lengths' ); +has '_gene_to_sequence' => ( is => 'rw', isa => 'HashRef', default => sub { {} } ); +has '_sorted_multifasta_files' => ( is => 'rw', isa => 'ArrayRef', lazy => 1, builder => '_build__sorted_multifasta_files' ); + +sub BUILD { + my ($self) = @_; + $self->_gene_lengths; +} + +sub _input_seq_io_obj { + my ( $self, $filename ) = @_; + return Bio::SeqIO->new( -file => $filename, -format => 'Fasta' ); +} + +sub _build__output_seqio_obj { + my ($self) = @_; + return Bio::SeqIO->new( -file => ">" . $self->output_filename, -format => 'Fasta' ); +} + +sub _build__gene_lengths { + my ($self) = @_; + my %gene_lengths; + for my $filename ( @{ $self->_sorted_multifasta_files } ) { + my $seq_io = $self->_input_seq_io_obj($filename); + next unless ( defined($seq_io) ); + while ( my $seq_record = $seq_io->next_seq ) { + + # Save all of the gene sequences to memory, massive speedup but a bit naughty. + $self->_gene_to_sequence->{$filename}->{ $seq_record->display_id } = $seq_record->seq; + $gene_lengths{$filename} = $seq_record->length() if ( !defined( $gene_lengths{$filename} ) ); + } + } + + return \%gene_lengths; +} + +sub _build__sorted_multifasta_files { + my ($self) = @_; + my @sorted_gene_files = sort @{ $self->multifasta_files }; + return \@sorted_gene_files; +} + +sub _sequence_for_sample_from_gene_file { + my ( $self, $sample_name, $gene_file ) = @_; + + # loop over this to get the geneIDs + for my $gene_id ( sort keys %{ $self->_gene_to_sequence->{$gene_file} } ) { + if ( defined( $self->sample_names_to_genes->{$sample_name}->{$gene_id} ) ) { + return $self->_gene_to_sequence->{$gene_file}->{$gene_id}; + } + } + return $self->_padded_string_for_gene_file($gene_file); +} + +sub _padded_string_for_gene_file { + my ( $self, $gene_file ) = @_; + return '' unless ( defined( $self->_gene_lengths->{$gene_file} ) ); + return '-' x ( $self->_gene_lengths->{$gene_file} ); +} + +sub _create_merged_sequence_for_sample { + my ( $self, $sample_name ) = @_; + my $merged_sequence = ''; + for my $gene_file ( @{ $self->_sorted_multifasta_files } ) { + $merged_sequence .= $self->_sequence_for_sample_from_gene_file( $sample_name, $gene_file ); + } + return $merged_sequence; +} + +sub merge_files { + my ($self) = @_; + + for my $sample_name ( @{ $self->sample_names } ) { + my $sequence = $self->_create_merged_sequence_for_sample($sample_name); + my $seq_io = Bio::Seq->new( -display_id => $sample_name, -seq => $sequence ); + $self->_output_seqio_obj->write_seq($seq_io); + } + + # Create a header file which gives the coordinates of each gene in the multifasta + Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL->new( + multifasta_files => $self->_sorted_multifasta_files, + gene_lengths => $self->_gene_lengths, + output_filename => $self->output_header_filename + )->create_file(); + + return 1; +} + +no Moose; + __PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/OrderGenes.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,391 @@ +package Bio::Roary::OrderGenes; + +# ABSTRACT: Take in GFF files and create a matrix of what genes are beside what other genes + +=head1 SYNOPSIS + +Take in the analyse groups and create a matrix of what genes are beside what other genes + use Bio::Roary::OrderGenes; + + my $obj = Bio::Roary::OrderGenes->new( + analyse_groups_obj => $analyse_groups_obj, + gff_files => ['file1.gff','file2.gff'] + ); + $obj->groups_to_contigs; + +=cut + +use Moose; +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; +use Bio::Roary::ContigsToGeneIDsFromGFF; +use Graph; +use Graph::Writer::Dot; +use File::Basename; + +has 'gff_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'analyse_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnalyseGroups', required => 1 ); +has 'core_definition' => ( is => 'ro', isa => 'Num', default => 1.0 ); +has 'pan_graph_filename' => ( is => 'ro', isa => 'Str', default => 'core_accessory_graph.dot' ); +has 'accessory_graph_filename' => ( is => 'ro', isa => 'Str', default => 'accessory_graph.dot' ); +has 'sample_weights' => ( is => 'ro', isa => 'Maybe[HashRef]' ); +has 'samples_to_clusters' => ( is => 'ro', isa => 'Maybe[HashRef]' ); +has 'group_order' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_group_order' ); +has 'groups_to_sample_names' => ( is => 'rw', isa => 'HashRef', default => sub { {} } ); +has 'group_graphs' => ( is => 'ro', isa => 'Graph', lazy => 1, builder => '_build_group_graphs' ); +has 'groups_to_contigs' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_groups_to_contigs' ); +has '_groups_to_file_contigs' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__groups_to_file_contigs' ); +has '_groups' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_groups' ); +has 'number_of_files' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build_number_of_files' ); +has '_groups_qc' => ( is => 'ro', isa => 'HashRef', default => sub { {} } ); +has '_percentage_of_largest_weak_threshold' => ( is => 'ro', isa => 'Num', default => 0.9 ); + +sub _build_number_of_files { + my ($self) = @_; + return @{ $self->gff_files }; +} + +sub _build_groups { + my ($self) = @_; + my %groups; + for my $group_name ( @{ $self->analyse_groups_obj->_groups } ) { + $groups{$group_name}++; + } + return \%groups; +} + +sub _build__groups_to_file_contigs { + my ($self) = @_; + + my @overlapping_hypothetical_gene_ids; + my %samples_to_groups_contigs; + + # Open each GFF file + for my $filename ( @{ $self->gff_files } ) { + my @groups_to_contigs; + my $contigs_to_ids_obj = Bio::Roary::ContigsToGeneIDsFromGFF->new( gff_file => $filename ); + + my ( $sample_name, $directories, $suffix ) = fileparse($filename); + $sample_name =~ s/\.gff//gi; + + # Loop over each contig in the GFF file + for my $contig_name ( keys %{ $contigs_to_ids_obj->contig_to_ids } ) { + my @groups_on_contig; + + #Â loop over each gene in each contig in the GFF file + for my $gene_id ( @{ $contigs_to_ids_obj->contig_to_ids->{$contig_name} } ) { + + #Â convert to group name + my $group_name = $self->analyse_groups_obj->_genes_to_groups->{$gene_id}; + next unless ( defined($group_name) ); + + if ( $contigs_to_ids_obj->overlapping_hypothetical_protein_ids->{$gene_id} ) { + $self->_groups_qc->{$group_name} = +'Hypothetical protein with no hits to refseq/uniprot/clusters/cdd/tigrfams/pfam overlapping another protein with hits'; + } + push( @groups_on_contig, $group_name ); + } + push( @groups_to_contigs, \@groups_on_contig ); + } + $samples_to_groups_contigs{$sample_name} = \@groups_to_contigs; + } + + return \%samples_to_groups_contigs; + +} + +sub _build_group_order { + my ($self) = @_; + my %group_order; + + my %groups_to_sample_names; + for my $sample_name ( keys %{ $self->_groups_to_file_contigs } ) { + my $groups_to_file_contigs = $self->_groups_to_file_contigs->{$sample_name}; + for my $groups_on_contig ( @{$groups_to_file_contigs} ) { + for ( my $i = 1 ; $i < @{$groups_on_contig} ; $i++ ) { + my $group_from = $groups_on_contig->[ $i - 1 ]; + my $group_to = $groups_on_contig->[$i]; + + if ( defined( $self->sample_weights ) && $self->sample_weights->{$sample_name} ) { + $group_order{$group_from}{$group_to} += $self->sample_weights->{$sample_name}; + push( @{ $groups_to_sample_names{$group_from} }, $sample_name ); + } + else { + $group_order{$group_from}{$group_to}++; + } + } + if ( @{$groups_on_contig} == 1 ) { + my $group_from = $groups_on_contig->[0]; + my $group_to = $groups_on_contig->[0]; + if ( defined( $self->sample_weights ) && $self->sample_weights->{$sample_name} ) { + $group_order{$group_from}{$group_to} += $self->sample_weights->{$sample_name}; + push( @{ $groups_to_sample_names{$group_from} }, $sample_name ); + } + else { + $group_order{$group_from}{$group_to}++; + } + } + } + } + + $self->groups_to_sample_names( \%groups_to_sample_names ); + return \%group_order; +} + +sub _build_group_graphs { + my ($self) = @_; + return Graph->new( undirected => 1 ); +} + +sub _save_graph_to_file { + my ( $self, $graph, $output_filename ) = @_; + my $writer = Graph::Writer::Dot->new(); + $writer->write_graph( $graph, $output_filename ); + return 1; +} + +sub _add_groups_to_graph { + my ($self) = @_; + + for my $current_group ( keys %{ $self->group_order() } ) { + for my $group_to ( keys %{ $self->group_order->{$current_group} } ) { + my $weight = 1.0 / ( $self->group_order->{$current_group}->{$group_to} ); + $self->group_graphs->add_weighted_edge( $current_group, $group_to, $weight ); + } + } + +} + +sub _reorder_connected_components { + my ( $self, $graph_groups ) = @_; + my @ordered_graph_groups; + my @paths_and_weights; + + for my $graph_group ( @{$graph_groups} ) { + my %groups; + $groups{$_}++ for ( @{$graph_group} ); + my $edge_sum = 0; + + for my $current_group ( keys %groups ) { + for my $group_to ( keys %{ $self->group_order->{$current_group} } ) { + next unless defined( $groups{$group_to} ); + $edge_sum += $self->group_order->{$current_group}->{$group_to}; + } + } + + my %samples_in_graph; + for my $current_group ( keys %groups ) { + my $sample_names = $self->groups_to_sample_names->{$current_group}; + if ( defined($sample_names) ) { + for my $sample_name ( @{$sample_names} ) { + $samples_in_graph{$sample_name}++; + } + } + } + my @sample_names = sort keys %samples_in_graph; + + if ( @{$graph_group} == 1 ) { + + push( + @paths_and_weights, + { + path => $graph_group, + average_weight => $edge_sum, + sample_names => \@sample_names + } + ); + } + else { + my $graph = Graph->new( undirected => 1 ); + for my $current_group ( keys %groups ) { + for my $group_to ( keys %{ $self->group_order->{$current_group} } ) { + if ( $groups{$group_to} ) { + my $weight = 1 / $self->group_order->{$current_group}->{$group_to}; + $graph->add_weighted_edge( $current_group, $group_to, $weight ); + } + } + } + my $minimum_spanning_tree = $graph->minimum_spanning_tree; + my $dfs_obj = Graph::Traversal::DFS->new($minimum_spanning_tree); + my @reordered_dfs_groups = $dfs_obj->dfs; + push( + @paths_and_weights, + { + path => \@reordered_dfs_groups, + average_weight => $edge_sum, + sample_names => \@sample_names + } + ); + } + + } + + return $self->_order_by_samples_and_weights( \@paths_and_weights ); +} + +sub _order_by_samples_and_weights { + my ( $self, $paths_and_weights ) = @_; + + my @ordered_graph_groups; + if ( !defined( $self->samples_to_clusters ) ) { + my @ordered_paths_and_weights = sort { $a->{average_weight} <=> $b->{average_weight} } @{$paths_and_weights}; + @ordered_graph_groups = map { $_->{path} } @ordered_paths_and_weights; + return \@ordered_graph_groups; + } + + # Find the largest cluster in each graph and regroup + my %largest_cluster_to_paths_and_weights; + for my $graph_details ( @{$paths_and_weights} ) { + my %cluster_count; + for my $sample_name ( @{ $graph_details->{sample_names} } ) { + if ( defined( $self->samples_to_clusters->{$sample_name} ) ) { + $cluster_count{ $self->samples_to_clusters->{$sample_name} }++; + } + } + my $largest_cluster = ( sort { $cluster_count{$b} <=> $cluster_count{$a} || $a cmp $b} keys %cluster_count )[0]; + if ( !defined($largest_cluster) ) { + my @ordered_paths_and_weights = sort { $b->{average_weight} <=> $a->{average_weight} } @{$paths_and_weights}; + @ordered_graph_groups = map { $_->{path} } @ordered_paths_and_weights; + return \@ordered_graph_groups; + } + + push( @{ $largest_cluster_to_paths_and_weights{$largest_cluster}{graph_details} }, $graph_details ); + $largest_cluster_to_paths_and_weights{$largest_cluster}{largest_cluster_size} += $cluster_count{$largest_cluster}; + } + + # go through each cluster group and order by weight + my @clustered_ordered_graph_groups; + for my $cluster_name ( + sort { + $largest_cluster_to_paths_and_weights{$b}->{largest_cluster_size} + <=> $largest_cluster_to_paths_and_weights{$a}->{largest_cluster_size} + } keys %largest_cluster_to_paths_and_weights + ) + { + + my @ordered_paths_and_weights = + sort { $b->{average_weight} <=> $a->{average_weight} } @{ $largest_cluster_to_paths_and_weights{$cluster_name}->{graph_details} }; + @ordered_graph_groups = map { $_->{path} } @ordered_paths_and_weights; + + for my $graph_group (@ordered_graph_groups) { + push( @clustered_ordered_graph_groups, $graph_group ); + } + } + return \@clustered_ordered_graph_groups; +} + +sub _build_groups_to_contigs { + my ($self) = @_; + $self->_add_groups_to_graph; + + my %groups_to_contigs; + my $counter = 1; + my $overall_counter = 1; + my $counter_filtered = 1; + + # Accessory + my $accessory_graph = $self->_create_accessory_graph; + my @group_graphs = $accessory_graph->connected_components(); + my $reordered_graphs = $self->_reorder_connected_components( \@group_graphs ); + + $self->_save_graph_to_file( $accessory_graph, $self->accessory_graph_filename ); + + for my $contig_groups ( @{$reordered_graphs} ) { + my $order_counter = 1; + + for my $group_name ( @{$contig_groups} ) { + $groups_to_contigs{$group_name}{accessory_label} = $counter; + $groups_to_contigs{$group_name}{accessory_order} = $order_counter; + $groups_to_contigs{$group_name}{'accessory_overall_order'} = $overall_counter; + $order_counter++; + $overall_counter++; + } + $counter++; + } + + # Core + accessory + my @group_graphs_all = $self->group_graphs->connected_components(); + my $reordered_graphs_all = $self->_reorder_connected_components( \@group_graphs_all ); + $self->_save_graph_to_file( $self->group_graphs, $self->pan_graph_filename ); + + $overall_counter = 1; + $counter = 1; + $counter_filtered = 1; + for my $contig_groups ( @{$reordered_graphs_all} ) { + my $order_counter = 1; + + for my $group_name ( @{$contig_groups} ) { + $groups_to_contigs{$group_name}{label} = $counter; + $groups_to_contigs{$group_name}{comment} = ''; + $groups_to_contigs{$group_name}{order} = $order_counter; + $groups_to_contigs{$group_name}{'core_accessory_overall_order'} = $overall_counter; + + if ( @{$contig_groups} <= 2 ) { + $groups_to_contigs{$group_name}{comment} = 'Investigate'; + } + elsif ( $self->_groups_qc->{$group_name} ) { + $groups_to_contigs{$group_name}{comment} = $self->_groups_qc->{$group_name}; + } + else { + $groups_to_contigs{$group_name}{'core_accessory_overall_order_filtered'} = $counter_filtered; + $counter_filtered++; + } + $order_counter++; + $overall_counter++; + } + $counter++; + } + + $counter_filtered = 1; + for my $contig_groups ( @{$reordered_graphs} ) { + for my $group_name ( @{$contig_groups} ) { + if ( ( !defined( $groups_to_contigs{$group_name}{comment} ) ) + || ( defined( $groups_to_contigs{$group_name}{comment} ) && $groups_to_contigs{$group_name}{comment} eq '' ) ) + { + $groups_to_contigs{$group_name}{'accessory_overall_order_filtered'} = $counter_filtered; + $counter_filtered++; + } + } + } + + return \%groups_to_contigs; +} + +sub _create_accessory_graph { + my ($self) = @_; + my $graph = Graph->new( undirected => 1 ); + + my %core_groups; + my %group_freq; + + for my $sample_name ( keys %{ $self->_groups_to_file_contigs } ) { + my $groups_to_file_contigs = $self->_groups_to_file_contigs->{$sample_name}; + + for my $groups_on_contig ( @{$groups_to_file_contigs} ) { + for my $current_group ( @{$groups_on_contig} ) { + $group_freq{$current_group}++; + } + } + } + + for my $current_group ( keys %{ $self->group_order() } ) { + next if ( $group_freq{$current_group} >= ( $self->number_of_files * $self->core_definition ) ); + + for my $group_to ( keys %{ $self->group_order->{$current_group} } ) { + if ( $group_freq{$group_to} >= ( $self->number_of_files * $self->core_definition ) ) { + $graph->add_vertex($current_group); + } + else { + my $weight = 1.0 / ( $self->group_order->{$current_group}->{$group_to} ); + $graph->add_weighted_edge( $current_group, $group_to, $weight ); + } + } + } + + return $graph; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/BlastIdentityFrequency.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,62 @@ +package Bio::Roary::Output::BlastIdentityFrequency; + +# ABSTRACT: Take in blast results and find the percentage identity graph + +=head1 SYNOPSIS + +Take in blast results and find the percentage identity graph + use Bio::Roary::Output::BlastIdentityFrequency; + + my $obj = Bio::Roary::Output::BlastIdentityFrequency->new( + input_filename => '_blast_results', + output_filename => 'blast_identity_frequency.Rtab', + ); + $obj->create_file(); + +=cut + +use Moose; +use Bio::SeqIO; +use Bio::Roary::Exceptions; + +has 'input_filename' => ( is => 'ro', isa => 'Str', default => '_blast_results' ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'blast_identity_frequency.Rtab' ); + +has '_output_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_fh' ); +has '_input_fh' => ( is => 'ro', lazy => 1, builder => '_build__input_fh' ); + +sub _build__output_fh +{ + my ($self) = @_; + open( my $fh, '>', $self->output_filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( + error => "Couldnt write output file:" . $self->output_filename ); + return $fh; +} + +sub _build__input_fh +{ + my ($self) = @_; + my $input_string = 'awk \'{print $3}\' '.$self->input_filename.' | awk \'BEGIN {FS="."}; {print $1}\'| sort | uniq -c | awk \'{print $2"\t"$1}\''; + + open( my $fh, '-|', $input_string ) or die "Couldnt open results file"; + return $fh; +} + +sub create_file +{ + my ($self) = @_; + + my $input_fh = $self->_input_fh; + while(<$input_fh>) + { + print {$self->_output_fh} $_; + } + close($self->_input_fh); + close($self->_output_fh); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/CoreGeneAlignmentCoordinatesEMBL.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,81 @@ +package Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL; + +# ABSTRACT: Create an embl file for the header with locations of where genes are in the multifasta alignment of core genes + +=head1 SYNOPSIS + +Create an embl file for the header with locations of where genes are in the multifasta alignment of core genes + use Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL; + + my $obj = Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL->new( + output_filename => 'core_alignment_header.embl', + multifasta_files => [ + 't/data/multifasta_files/1.aln', 't/data/multifasta_files/outof_order.aln', + 't/data/multifasta_files/2.aln', 't/data/multifasta_files/3.aln' + ], + gene_lengths => { + 't/data/multifasta_files/1.aln' => 1, + 't/data/multifasta_files/outof_order.aln' => 10, + 't/data/multifasta_files/2.aln' => 100, + 't/data/multifasta_files/3.aln' => 1000 + }, + ); + $obj->create_file; + +=cut + +use Moose; +use Bio::Roary::Exceptions; +use File::Basename; +with 'Bio::Roary::Output::EMBLHeaderCommon'; + +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'core_alignment_header.embl' ); +has 'multifasta_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'gene_lengths' => ( is => 'ro', isa => 'HashRef', required => 1 ); +has '_current_coordinate' => ( is => 'rw', isa => 'Int', default => 1 ); +has '_output_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_fh' ); + +sub _build__output_fh { + my ($self) = @_; + open( my $fh, '>', $self->output_filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( error => "Couldnt write output file:" . $self->output_filename ); + return $fh; +} + +sub _gene_name_from_filename { + my ( $self, $filename ) = @_; + my $gene_name = basename($filename); + $gene_name =~ s!\.aln!!; + $gene_name =~ s!\.fa!!; + return $gene_name; +} + +sub _header_block { + my ( $self, $gene_filename ) = @_; + my $gene_name = $self->_gene_name_from_filename($gene_filename); + my $gene_length = $self->gene_lengths->{$gene_filename}; + my $end_coordinate = $self->_current_coordinate + $gene_length - 1; + my $annotation_type = $self->_annotation_type($gene_name); + + my $tab_file_entry = join( '', ( 'FT', $annotation_type, $self->_current_coordinate, '..', $end_coordinate, "\n" ) ); + $tab_file_entry .= "FT /label=$gene_name\n"; + $tab_file_entry .= "FT /locus_tag=$gene_name\n"; + + $self->_current_coordinate( $end_coordinate + 1 ); + return $tab_file_entry; +} + +sub create_file { + my ($self) = @_; + print { $self->_output_fh } $self->_header_top; + for my $filename ( @{ $self->multifasta_files } ) { + print { $self->_output_fh } $self->_header_block($filename); + } + print { $self->_output_fh } $self->_header_bottom; + close( $self->_output_fh ); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/DifferenceBetweenSets.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,126 @@ +package Bio::Roary::Output::DifferenceBetweenSets; + +# ABSTRACT: Given two sets of isolates and a group file, output whats unique in each and whats in common + +=head1 SYNOPSIS + +Given two sets of isolates and a group file, output whats unique in each and whats in common + use Bio::Roary::Output::DifferenceBetweenSets; + + my $obj = Bio::Roary::Output::DifferenceBetweenSets->new( + analyse_groups => $analyse_groups, + input_filenames_sets => + [ + ['aaa.faa','bbb.faa'], + ['ccc.faa','ddd.faa'] + ], + ); + $obj->groups_set_one_unique(); + $obj->groups_set_two_unique(); + $obj->groups_in_common(); + +=cut + +use Moose; +use Bio::SeqIO; +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; +use Bio::Roary::Output::QueryGroups; + +has 'analyse_groups' => ( is => 'ro', isa => 'Bio::Roary::AnalyseGroups', required => 1 ); +has 'input_filenames_sets' => ( is => 'ro', isa => 'ArrayRef[ArrayRef]', required => 1 ); +has 'output_filename_base' => ( is => 'ro', isa => 'Str', default => 'set_difference' ); + +has '_query_groups_objs' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__query_groups_objs' ); + +# TODO: update to handle more than 2 input sets + +sub _build__query_groups_objs { + my ($self) = @_; + my @query_groups_objs; + for my $file_name_set ( @{ $self->input_filenames_sets } ) { + push( + @query_groups_objs, + Bio::Roary::Output::QueryGroups->new( + analyse_groups => $self->analyse_groups, + input_filenames => $file_name_set + ) + ); + } + + my @all_input_files = (@{ $self->input_filenames_sets->[0] },@{ $self->input_filenames_sets->[1] }); + push( + @query_groups_objs, + Bio::Roary::Output::QueryGroups->new( + analyse_groups => $self->analyse_groups, + input_filenames => \@all_input_files + ) + ); + + + return \@query_groups_objs; +} + +sub _subtract_arrays { + my ( $self, $array_1, $array_2 ) = @_; + my %array_1 = map { $_ => 1 } @{$array_1}; + my @difference = grep { not $array_1{$_} } @{$array_2}; + return \@difference; +} + +sub _groups_unique { + my ( $self, $output_filename, $query_group1, $query_group2 ) = @_; + my $unique_groups = $self->_subtract_arrays( $query_group2->_groups, $query_group1->_groups ); + $query_group1->groups_with_external_inputs( $output_filename, $unique_groups ); +} + +sub groups_set_one_unique_filename +{ + my ($self) = @_; + return $self->output_filename_base . '_unique_set_one'; +} + +sub groups_set_two_unique_filename +{ + my ($self) = @_; + return $self->output_filename_base . '_unique_set_two'; +} + +sub groups_in_common_filename +{ + my ($self) = @_; + return $self->output_filename_base . '_common_set'; +} + + +sub groups_set_one_unique { + my ($self) = @_; + $self->_groups_unique( + $self->groups_set_one_unique_filename, + $self->_query_groups_objs->[0], + $self->_query_groups_objs->[1] + ); +} + +sub groups_set_two_unique { + my ($self) = @_; + $self->_groups_unique( + $self->groups_set_two_unique_filename, + $self->_query_groups_objs->[1], + $self->_query_groups_objs->[0] + ); +} + +sub groups_in_common { + my ($self) = @_; + my $unique_group_1 = $self->_subtract_arrays( $self->_query_groups_objs->[0]->_groups, $self->_query_groups_objs->[1]->_groups ); + my $unique_group_2 = $self->_subtract_arrays( $self->_query_groups_objs->[1]->_groups, $self->_query_groups_objs->[0]->_groups ); + my $common_groups_1 = $self->_subtract_arrays( $unique_group_1,$self->_query_groups_objs->[2]->_groups); + my $common_groups_2 = $self->_subtract_arrays( $unique_group_2,$common_groups_1); + $self->_query_groups_objs->[2]->groups_with_external_inputs( $self->groups_in_common_filename, $common_groups_2 ); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/EMBLHeaderCommon.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,41 @@ +package Bio::Roary::Output::EMBLHeaderCommon; + +# ABSTRACT: a role containing some common methods for embl header files + +=head1 SYNOPSIS + +a role containing some common methods for embl header files + with 'Bio::Roary::Output::EMBLHeaderCommon'; + +=cut + +use Moose::Role; + +sub _header_top { + my ($self) = @_; + my $header_lines = 'ID Genome standard; DNA; PRO; 1234 BP.' . "\n"; + $header_lines .= 'XX' . "\n"; + $header_lines .= 'FH Key Location/Qualifiers' . "\n"; + $header_lines .= 'FH' . "\n"; + return $header_lines; +} + +sub _header_bottom { + my ($self) = @_; + my $header_lines = 'XX' . "\n"; + $header_lines .= 'SQ Sequence 1234 BP; 789 A; 1717 C; 1693 G; 691 T; 0 other;' . "\n"; + $header_lines .= '//' . "\n"; + return $header_lines; +} + +sub _annotation_type { + my ( $self, $annotated_group_name ) = @_; + my $annotation_type = " feature "; + if ( $annotated_group_name =~ /group_/ ) { + $annotation_type = " misc_feature "; + } + return $annotation_type; +} + + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/EmblGroups.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,246 @@ +package Bio::Roary::Output::EmblGroups; + +# ABSTRACT: Create a tab/embl file with the features for drawing pretty pictures + +=head1 SYNOPSIS + +reate a tab/embl file with the features for drawing pretty pictures + use Bio::Roary::Output::EmblGroups; + + my $obj = Bio::Roary::Output::EmblGroups->new( + output_filename => 'group_statitics.csv', + annotate_groups_obj => $annotate_groups_obj, + analyse_groups_obj => $analyse_groups_obj + ); + $obj->create_file; + +=cut + +use Moose; +use POSIX; +use File::Basename; +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; +use Bio::Roary::AnnotateGroups; +with 'Bio::Roary::Output::EMBLHeaderCommon'; + +has 'annotate_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnnotateGroups', required => 1 ); +has 'analyse_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnalyseGroups', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'core_accessory.tab' ); +has 'output_header_filename' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_output_header_filename' ); +has 'groups_to_contigs' => ( is => 'ro', isa => 'Maybe[HashRef]' ); +has 'ordering_key' => ( is => 'ro', isa => 'Str', default => 'core_accessory_overall_order' ); + +has '_output_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_fh' ); +has '_output_header_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_header_fh' ); +has '_sorted_file_names' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__sorted_file_names' ); +has '_groups_to_files' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__groups_to_files' ); +has 'heatmap_lookup_table' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build_heatmap_lookup_table' ); + +sub _build__output_fh { + my ($self) = @_; + open( my $fh, '>', $self->output_filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( error => "Couldnt write output file:" . $self->output_filename ); + return $fh; +} + +sub _build__output_header_fh { + my ($self) = @_; + open( my $fh, '>', $self->output_header_filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( error => "Couldnt write output file:" . $self->output_filename ); + return $fh; +} + +sub _build_output_header_filename { + my ($self) = @_; + my $base_name = $self->output_filename; + $base_name =~ s/\.tab/.header.embl/i; + return $base_name; +} + +sub _build__sorted_file_names { + my ($self) = @_; + my @sorted_file_names = sort( @{ $self->analyse_groups_obj->fasta_files } ); + return \@sorted_file_names; +} + +sub _build__groups_to_files { + my ($self) = @_; + my %groups_to_files; + for my $group ( @{ $self->annotate_groups_obj->_groups } ) { + my $genes = $self->annotate_groups_obj->_groups_to_id_names->{$group}; + my %filenames; + for my $gene_name ( @{$genes} ) { + my $filename = $self->analyse_groups_obj->_genes_to_file->{$gene_name}; + push( @{ $filenames{$filename} }, $gene_name ); + } + $groups_to_files{$group} = \%filenames; + } + return \%groups_to_files; +} + +sub _block { + my ( $self, $group ) = @_; + my @taxon_names_array; + my $annotated_group_name = $self->annotate_groups_obj->_groups_to_consensus_gene_names->{$group}; + + return '' + if ( + !( + defined( $self->groups_to_contigs->{$annotated_group_name} ) + && defined( $self->groups_to_contigs->{$annotated_group_name}->{ $self->ordering_key } ) + ) + ); + + return '' + if ( defined( $self->groups_to_contigs->{$annotated_group_name}->{comment} ) + && $self->groups_to_contigs->{$annotated_group_name}->{comment} ne '' ); + + my $coordindates = $self->groups_to_contigs->{$annotated_group_name}->{ $self->ordering_key }; + + for my $filename ( @{ $self->_sorted_file_names } ) { + my $group_to_file_genes = $self->_groups_to_files->{$group}->{$filename}; + + if ( defined($group_to_file_genes) && @{$group_to_file_genes} > 0 ) { + my $filename_cpy = basename($filename); + $filename_cpy =~ s!\.gff\.proteome\.faa!!; + push( @taxon_names_array, $filename_cpy ); + next; + } + } + + my $colour = $self->_get_heat_map_colour( \@taxon_names_array, $self->annotate_groups_obj->_number_of_files ); + + my $taxon_names = join( " ", @taxon_names_array ); + + my $tab_file_entry = "FT variation $coordindates\n"; + $tab_file_entry .= "FT /colour=$colour\n"; + $tab_file_entry .= "FT /gene=$annotated_group_name\n"; + $tab_file_entry .= "FT /taxa=\"$taxon_names\"\n"; + + return $tab_file_entry; +} + +sub _get_heat_map_colour { + my ( $self, $taxon_names, $number_of_files ) = @_; + return $self->heatmap_lookup_table->[0] if ( @{$taxon_names} == 1 ); + my $number_of_colours = @{ $self->heatmap_lookup_table }; + return $self->heatmap_lookup_table->[ $number_of_colours - 1 ] if ( @{$taxon_names} == $number_of_files ); + + my $block_size = $number_of_files / @{ $self->heatmap_lookup_table }; + my $colour_index = ceil( @{$taxon_names} / $block_size ) - 1; + return $self->heatmap_lookup_table->[$colour_index]; +} + +sub _build_heatmap_lookup_table { + my ($self) = @_; + return [ + 4, # blue (RGB values: 0 0 255) + 5, # cyan (RGB values: 0 255 255) + 9, # light sky blue (RGB values: 135 206 250) + 8, # pale green (RGB values: 152 251 152) + 3, # green (RGB values: 0 255 0) + 7, # yellow (RGB values: 255 255 0) + 10, # orange (RGB values: 255 165 0) + 16, # light red (RGB values: 255 127 127) + 15, # mid red: (RGB values: 255 63 63) + 2, # red (RGB values: 255 0 0) + ]; +} + +sub _block_colour { + my ( $self, $accessory_label ) = @_; + my $colour = 2; + return $colour unless ( defined($accessory_label) ); + + $colour += $accessory_label % 6; + return $colour; +} + +sub _header_block { + my ( $self, $group ) = @_; + my $annotated_group_name = $self->annotate_groups_obj->_groups_to_consensus_gene_names->{$group}; + my $colour = 1; + + return '' + if ( + !( + defined( $self->groups_to_contigs->{$annotated_group_name} ) + && defined( $self->groups_to_contigs->{$annotated_group_name}->{ $self->ordering_key } ) + ) + ); + return '' + if ( defined( $self->groups_to_contigs->{$annotated_group_name}->{comment} ) + && $self->groups_to_contigs->{$annotated_group_name}->{comment} ne '' ); + my $coordindates = $self->groups_to_contigs->{$annotated_group_name}->{ $self->ordering_key }; + my $annotation_type = $self->_annotation_type($annotated_group_name); + + $colour = $self->_block_colour( $self->groups_to_contigs->{$annotated_group_name}->{accessory_label} ); + + my $tab_file_entry = "FT$annotation_type$coordindates\n"; + $tab_file_entry .= "FT /label=$annotated_group_name\n"; + $tab_file_entry .= "FT /locus_tag=$annotated_group_name\n"; + $tab_file_entry .= "FT /colour=$colour\n"; + + return $tab_file_entry; +} + +sub _fragment_blocks { + my ( $self, $fh ) = @_; + my %fragment_numbers; + for my $group ( @{ $self->annotate_groups_obj->_groups } ) { + my $annotated_group_name = $self->annotate_groups_obj->_groups_to_consensus_gene_names->{$group}; + + next unless ( defined( $self->groups_to_contigs->{$annotated_group_name}->{accessory_label} ) ); + next unless ( defined( $self->groups_to_contigs->{$annotated_group_name}->{ $self->ordering_key } ) ); + next if ( $self->groups_to_contigs->{$annotated_group_name}->{ $self->ordering_key } eq '' ); + push( + @{ $fragment_numbers{ $self->groups_to_contigs->{$annotated_group_name}->{accessory_label} } }, + $self->groups_to_contigs->{$annotated_group_name}->{ $self->ordering_key } + ); + } + + for my $accessory_label ( keys %fragment_numbers ) { + next unless ( defined( $fragment_numbers{$accessory_label} ) ); + my @sorted_fragment = sort { $a <=> $b } @{ $fragment_numbers{$accessory_label} }; + my $tab_file_entry = ''; + if ( @sorted_fragment > 1 ) { + my $min = $sorted_fragment[0]; + my $max = $sorted_fragment[-1]; + + next if ( !defined($min) || !defined($max) || $min eq '' || $max eq '' ); + $tab_file_entry = "FT feature $min" . '..' . "$max\n"; + } + elsif ( @sorted_fragment == 1 ) { + my $min = $sorted_fragment[0]; + next if ( !defined($min) || $min eq '' ); + $tab_file_entry = "FT feature $min\n"; + } + else { + next; + } + $tab_file_entry .= "FT /colour=" . $self->_block_colour($accessory_label) . "\n"; + + print {$fh} $tab_file_entry; + } + +} + +sub create_files { + my ($self) = @_; + + print { $self->_output_header_fh } $self->_header_top(); + for my $group ( @{ $self->annotate_groups_obj->_groups } ) { + print { $self->_output_fh } $self->_block($group); + print { $self->_output_header_fh } $self->_header_block($group); + } + $self->_fragment_blocks( $self->_output_header_fh ); + print { $self->_output_header_fh } $self->_header_bottom(); + close( $self->_output_header_fh ); + close( $self->_output_fh ); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/GroupMultifasta.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,69 @@ +package Bio::Roary::Output::GroupMultifasta; + +# ABSTRACT: Take in a group and create a multifasta file + +=head1 SYNOPSIS + +Take in a group and create a multifasta file + use Bio::Roary::Output::GroupMultifasta; + + my $obj = Bio::Roary::Output::GroupMultifasta->new( + group_name => 'aaa', + analyse_groups => $analyse_groups, + output_filename_base => 'abc' + ); + $obj->create_file(); + +=cut + +use Moose; +use Bio::SeqIO; +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; + +has 'group_name' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'analyse_groups' => ( is => 'ro', isa => 'Bio::Roary::AnalyseGroups', required => 1 ); +has 'output_filename_base' => ( is => 'ro', isa => 'Str', default => 'output_groups' ); +has '_genes' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__genes' ); +has '_output_seq_io' => ( is => 'ro', lazy => 1, builder => '_build__output_seq_io' ); + +sub _build__output_seq_io { + my ($self) = @_; + my $output_name = $self->output_filename_base . '_' . $self->group_name; + $output_name =~ s!\W!_!g; + $output_name .= '.fa'; + return Bio::SeqIO->new( -file => ">" . $output_name, -format => 'Fasta' ); +} + +sub _build__genes { + my ($self) = @_; + return $self->analyse_groups->_groups_to_genes->{ $self->group_name }; +} + +sub _lookup_sequence { + my ( $self, $gene, $filename ) = @_; + return undef if(! defined($filename)); + my $fasta_obj = Bio::SeqIO->new( -file => $filename, -format => 'Fasta' ); + while ( my $seq = $fasta_obj->next_seq() ) { + next unless ( $seq->display_id eq $gene ); + return $seq; + } + return undef; +} + +sub create_file { + my ($self) = @_; + for my $gene ( @{ $self->_genes } ) { + my $seq = $self->_lookup_sequence( $gene, $self->analyse_groups->_genes_to_file->{$gene} ); + next unless ( defined($seq) ); + $self->_output_seq_io->write_seq($seq); + } + + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/GroupsMultifastaNucleotide.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,211 @@ +package Bio::Roary::Output::GroupsMultifastaNucleotide; + +# ABSTRACT: Take in a GFF files and a groups file and output one multifasta file per group with nucleotide sequences. + +=head1 SYNOPSIS + +Take in a GFF files and a groups file and output one multifasta file per group with nucleotide sequences. + use Bio::Roary::Output::GroupsMultifastas; + + my $obj = Bio::Roary::Output::GroupsMultifastasNucleotide->new( + group_names => ['aaa','bbb'], + ); + $obj->populate_files(); + +=cut + +use Moose; +use Bio::SeqIO; +use File::Path qw(make_path); +use File::Basename; +use File::Copy; +use File::Temp qw/ tempfile /; +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; +use Bio::Tools::GFF; +with 'Bio::Roary::BedFromGFFRole'; + +has 'gff_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'group_names' => ( is => 'ro', isa => 'ArrayRef', required => 0 ); +has 'output_directory' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'pan_reference_groups_seen' => ( is => 'rw', isa => 'HashRef', required => 1 ); +has 'number_of_gff_files' => ( is => 'ro', isa => 'Int', required => 1 ); +has 'pan_reference_filename' => ( is => 'ro', isa => 'Str',default => 'pan_genome_reference.fa' ); +has 'dont_delete_files' => ( is => 'ro', isa => 'Bool',default => 0 ); +has 'core_definition' => ( is => 'ro', isa => 'Num', default => 1.0 ); + +has 'annotate_groups' => ( is => 'ro', isa => 'Bio::Roary::AnnotateGroups', required => 1 ); +has 'output_multifasta_files' => ( is => 'ro', isa => 'Bool', default => 0 ); + +has 'fasta_file' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_fasta_file' ); +has '_input_seqio' => ( is => 'ro', isa => 'Bio::SeqIO', lazy => 1, builder => '_build__input_seqio' ); + +has 'output_filename' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_output_filename' ); + +sub _build_output_filename +{ + my ($self) = @_; + my ( $filename, $directories, $suffix ) = fileparse($self->gff_file); + return join('/',($self->output_directory, $filename.'.tmp_nuc_sequences.fa' )); +} + +sub _build__input_seqio { + my ($self) = @_; + return Bio::SeqIO->new( -file => $self->fasta_file, -format => 'Fasta' ); +} + +sub _bed_output_filename { + my ($self) = @_; + return join( '.', ( $self->output_filename, 'intermediate.bed' ) ); +} + +sub populate_files { + my ($self) = @_; + while ( my $input_seq = $self->_input_seqio->next_seq() ) + { + if ( $self->annotate_groups->_ids_to_groups->{$input_seq->display_id} ) + { + my $current_group = $self->annotate_groups->_ids_to_groups->{$input_seq->display_id}; + my $gene_name = $self->annotate_groups->_groups_to_consensus_gene_names->{$current_group}; + + if(! defined($self->pan_reference_groups_seen->{$current_group})) + { + my $pan_output_seq = $self->_pan_genome_reference_io_obj($current_group); + $pan_output_seq->write_seq(Bio::Seq->new( -display_id => $input_seq->display_id, -desc => ($gene_name ? $gene_name : $current_group), -seq => $input_seq->seq ) ); + $self->pan_reference_groups_seen->{$current_group} = 1; + } + + my $number_of_genes = @{$self->annotate_groups->_groups_to_id_names->{$current_group}}; + # Theres no need to align noncore files + next if($self->dont_delete_files == 0 && $number_of_genes < ($self->core_definition * $self->number_of_gff_files )); + + my $output_seq = $self->_group_seq_io_obj($current_group,$number_of_genes); + $output_seq->write_seq($input_seq); + } + } + + unlink($self->fasta_file); + 1; +} + +sub _group_file_name +{ + my ($self,$group_name,$num_group_genes) = @_; + my $annotated_group_name = $self->annotate_groups->_groups_to_consensus_gene_names->{$group_name}; + $annotated_group_name =~ s!\W!_!gi; + my $filename = $annotated_group_name.'.fa'; + my $group_file_name = join('/',($self->output_directory, $filename )); + return $group_file_name; +} + + +sub _pan_genome_reference_io_obj +{ + my ($self) = @_; + return Bio::SeqIO->new( -file => ">>".$self->pan_reference_filename, -format => 'Fasta' ); +} + + +sub _group_seq_io_obj +{ + my ($self,$group_name,$num_group_genes) = @_; + my $filename = $self->_group_file_name($group_name,$num_group_genes); + return Bio::SeqIO->new( -file => ">>".$filename, -format => 'Fasta' ); +} + + +sub _extracted_nucleotide_fasta_file_from_bed_filename { + my ($self) = @_; + return join( '.', ( $self->output_filename, 'intermediate.extracted.fa' ) ); +} + +sub _create_nucleotide_fasta_file_from_gff { + my ($self) = @_; + + open(my $input_fh, $self->gff_file); + open(my $output_fh, '>', $self->_nucleotide_fasta_file_from_gff_filename); + my $at_sequence = 0; + while(<$input_fh>) + { + my $line = $_; + if($line =~/^>/) + { + $at_sequence = 1; + } + + if($at_sequence == 1) + { + print {$output_fh} $line; + } + } + close($input_fh); + close($output_fh); +} + +sub _nucleotide_fasta_file_from_gff_filename { + my ($self) = @_; + return join( '.', ( $self->output_filename, 'intermediate.fa' ) ); +} + +sub _extract_nucleotide_regions { + my ($self) = @_; + + $self->_create_nucleotide_fasta_file_from_gff; + $self->_create_bed_file_from_gff; + + my $cmd = + 'bedtools getfasta -s -fi ' + . $self->_nucleotide_fasta_file_from_gff_filename + . ' -bed ' + . $self->_bed_output_filename . ' -fo ' + . $self->_extracted_nucleotide_fasta_file_from_bed_filename + . ' -name > /dev/null 2>&1'; + system($cmd); + unlink( $self->_nucleotide_fasta_file_from_gff_filename ); + unlink( $self->_bed_output_filename ); + unlink( $self->_nucleotide_fasta_file_from_gff_filename . '.fai' ); + return $self->_extracted_nucleotide_fasta_file_from_bed_filename; +} + +sub _cleanup_fasta { + my ($self,$infile) = @_; + + my($fh, $outfile) = tempfile(); + return unless ( -e $infile ); + + open( my $in, '<', $infile ); + open( my $out, '>', $outfile ); + while ( my $line = <$in> ) { + chomp $line; + if ( $line =~ /^>/ ) + { + $line =~ s/"//g ; + # newer versions of Bedtools add (-) or (+) to the end of the sequence name, remove them + $line =~ s!\([-+]\)!!; + } + + if($line =~ /^(>[^:]+)/) + { + $line = $1; + } + print $out "$line\n"; + } + close $in; + close $out; + + move( $outfile, $infile); + return $infile; +} + + +sub _build_fasta_file { + my ($self) = @_; + my $fasta_filename = $self->_extract_nucleotide_regions; + return $self->_cleanup_fasta($fasta_filename); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/GroupsMultifastaProtein.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,68 @@ +package Bio::Roary::Output::GroupsMultifastaProtein; + +# ABSTRACT: Take a multifasta nucleotide file and output it as proteins. + +=head1 SYNOPSIS + +Take a multifasta nucleotide file and output it as proteins. + use Bio::Roary::Output::GroupsMultifastaProtein; + + my $obj = Bio::Roary::Output::GroupsMultifastaProtein->new( + nucleotide_fasta_file => 'example.fa' + ); + $obj->convert_nucleotide_to_protein(); + +=cut + +use Moose; +use Bio::SeqIO; +use File::Path qw(make_path); +use File::Basename; +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; + +has 'nucleotide_fasta_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_output_filename' ); +has '_suffix' => ( is => 'ro', isa => 'Str', default => '.faa' ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); + +sub _build_output_filename +{ + my ($self) = @_; + my ( $filename, $directories, $suffix ) = fileparse($self->nucleotide_fasta_file, qr/\.[^.]*/); + + return join('',($directories, $filename.$self->_suffix)); +} + +#Â Read all the sequences for a gene into memory to sort them - very small files so shouldnt be a problem +sub _fastatranslate +{ + my ($self) = @_; + my $input_fasta_file_obj = Bio::SeqIO->new(-file => $self->nucleotide_fasta_file, -format => 'Fasta' ); + my $output_protein_file_obj = Bio::SeqIO->new(-file =>">".$self->output_filename, -format => 'Fasta', -alphabet => 'protein' ); + + my %protein_sequence_objs; + while (my $seq = $input_fasta_file_obj->next_seq){ + $protein_sequence_objs{$seq->display_id} = $seq->translate(-codontable_id => $self->translation_table ); + } + + for my $sequence_name ( sort keys %protein_sequence_objs) + { + $output_protein_file_obj->write_seq($protein_sequence_objs{$sequence_name}); + } + + return 1; +} + +sub convert_nucleotide_to_protein +{ + my ($self) = @_; + $self->_fastatranslate(); + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/GroupsMultifastas.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,46 @@ +package Bio::Roary::Output::GroupsMultifastas; + +# ABSTRACT: Take in a list of groups and create multifastas files for each group + +=head1 SYNOPSIS + +Take in a list of groups and create multifastas files for each group + use Bio::Roary::Output::GroupsMultifastas; + + my $obj = Bio::Roary::Output::GroupsMultifastas->new( + group_names => ['aaa','bbb'], + analyse_groups => $analyse_groups + ); + $obj->create_files(); + +=cut + +use Moose; +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; +use Bio::Roary::Output::GroupMultifasta; + +has 'group_names' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'analyse_groups' => ( is => 'ro', isa => 'Bio::Roary::AnalyseGroups', required => 1 ); +has 'output_filename_base' => ( is => 'ro', isa => 'Str', default => 'output_groups' ); + +sub create_files { + my ($self) = @_; + for my $group_name ( @{ $self->group_names } ) { + # Check the group name exists + next unless($self->analyse_groups->_groups_to_genes->{$group_name}); + my $group_multifasta = Bio::Roary::Output::GroupMultifasta->new( + group_name => $group_name, + analyse_groups => $self->analyse_groups, + output_filename_base => $self->output_filename_base + ); + $group_multifasta->create_file; + } + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/GroupsMultifastasNucleotide.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,86 @@ + +package Bio::Roary::Output::GroupsMultifastasNucleotide; + +# ABSTRACT: Take in a set of GFF files and a groups file and output one multifasta file per group with nucleotide sequences. + +=head1 SYNOPSIS + +Take in a set of GFF files and a groups file and output one multifasta file per group with nucleotide sequences. + use Bio::Roary::Output::GroupsMultifastasNucleotide; + + my $obj = Bio::Roary::Output::GroupsMultifastasNucleotide->new( + group_names => ['aaa','bbb'], + analyse_groups => $analyse_groups + ); + $obj->create_files(); + +=cut + +use Moose; +use File::Path qw(make_path); +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; +use Bio::Roary::Output::GroupsMultifastaNucleotide; + +has 'gff_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'group_names' => ( is => 'ro', isa => 'ArrayRef', required => 0 ); +has 'annotate_groups' => ( is => 'ro', isa => 'Bio::Roary::AnnotateGroups', required => 1 ); +has 'output_multifasta_files' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'core_definition' => ( is => 'ro', isa => 'Num', default => 1.0 ); +has 'dont_delete_files' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'output_directory' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_output_directory'); +has '_number_of_groups' => ( is => 'rw', isa => 'Num', lazy => 1, builder => '_build__number_of_groups' ); +has 'group_limit' => ( is => 'rw', isa => 'Num', default => 50000 ); + +sub _build_output_directory +{ + my ($self) = @_; + my $output_directory = 'pan_genome_sequences'; + return $output_directory; +} + +sub _build__number_of_groups { + my $self = shift; + + return $self->annotate_groups->_group_counter; +} + +sub create_files { + my ($self) = @_; + + my $num_groups = $self->_number_of_groups; + my $limit = $self->group_limit; + if ( $num_groups > $limit ){ + print STDERR "Number of clusters ($num_groups) exceeds limit ($limit). Multifastas not created. Please check the spreadsheet for contamination from different species or increase the --group_limit parameter.\n"; + return 0; + } + + make_path($self->output_directory); + unlink('pan_genome_reference.fa'); + + my $number_of_gff_files = @{$self->gff_files}; + my %pan_reference_groups_seen; + # if its output_multifasta_files == false then you want to create the core genome and delete all intermediate multifasta files + for my $gff_file ( @{ $self->gff_files } ) + { + my $gff_multifasta = Bio::Roary::Output::GroupsMultifastaNucleotide->new( + gff_file => $gff_file, + group_names => $self->group_names, + output_directory => $self->output_directory, + annotate_groups => $self->annotate_groups, + output_multifasta_files => $self->output_multifasta_files, + pan_reference_groups_seen => \%pan_reference_groups_seen, + core_definition => $self->core_definition, + dont_delete_files => $self->dont_delete_files, + number_of_gff_files => $number_of_gff_files + ); + $gff_multifasta->populate_files; + } + 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/NumberOfGroups.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,121 @@ +package Bio::Roary::Output::NumberOfGroups; + +# ABSTRACT: Create raw output files of group counts for turning into plots + +=head1 SYNOPSIS + +# ABSTRACT: Create raw output files of group counts for turning into plots +use Bio::Roary::Output::NumberOfGroups; + +my $obj = Bio::Roary::Output::NumberOfGroups->new( + group_statistics_obj => $group_stats + ); +$obj->create_files(); + +=cut + +use Moose; +use List::Util qw(shuffle); +use Bio::Roary::AnnotateGroups; +use Bio::Roary::GroupStatistics; + +has 'group_statistics_obj' => ( is => 'ro', isa => 'Bio::Roary::GroupStatistics', required => 1 ); +has 'number_of_iterations' => ( is => 'ro', isa => 'Int', default => 10); +has 'groups_to_contigs' => ( is => 'ro', isa => 'Maybe[HashRef]' ); +has 'annotate_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnnotateGroups', required => 1 ); +has 'core_definition' => ( is => 'ro', isa => 'Num', default => 1.0 ); + +has 'output_raw_filename_conserved_genes' => ( is => 'ro', isa => 'Str', default => 'number_of_conserved_genes.Rtab' ); +has 'output_raw_filename_unique_genes' => ( is => 'ro', isa => 'Str', default => 'number_of_unique_genes.Rtab' ); +has 'output_raw_filename_total_genes' => ( is => 'ro', isa => 'Str', default => 'number_of_genes_in_pan_genome.Rtab' ); +has 'output_raw_filename_new_genes' => ( is => 'ro', isa => 'Str', default => 'number_of_new_genes.Rtab' ); +has '_conserved_genes' => ( is => 'ro', isa => 'ArrayRef', default => sub { [] } ); +has '_unique_genes' => ( is => 'ro', isa => 'ArrayRef', default => sub { [] } ); +has '_total_genes' => ( is => 'ro', isa => 'ArrayRef', default => sub { [] } ); +has '_new_genes' => ( is => 'ro', isa => 'ArrayRef', default => sub { [] } ); + +sub create_output_files { + my ($self) = @_; + + for ( my $i = 0 ; $i < $self->number_of_iterations ; $i++ ) { + $self->_single_iteration_gene_expansion; + } + + $self->_create_raw_output_file( $self->output_raw_filename_conserved_genes, $self->_conserved_genes ); + $self->_create_raw_output_file( $self->output_raw_filename_unique_genes, $self->_unique_genes ); + $self->_create_raw_output_file( $self->output_raw_filename_total_genes, $self->_total_genes ); + $self->_create_raw_output_file( $self->output_raw_filename_new_genes, $self->_new_genes ); + return 1; +} + +sub _create_raw_output_file { + my ( $self, $filename, $output_data ) = @_; + open( my $fh, '>', $filename ); + for my $iterations ( @{$output_data} ) { + print {$fh} join( "\t", @{$iterations} ); + print {$fh} "\n"; + } + close($fh); +} + +sub _shuffle_input_files { + my ($self) = @_; + my @shuffled_input_files = shuffle( @{ $self->group_statistics_obj->_sorted_file_names } ); + return \@shuffled_input_files; +} + +sub _single_iteration_gene_expansion { + my ($self) = @_; + my %existing_groups; + my @conserved_genes_added_per_file; + my @unique_genes_added_per_file; + my @total_genes_added_per_file; + my @new_genes_added_per_file; + + my $shuffled_input_files = $self->_shuffle_input_files(); + + my $files_counter = 1; + for my $input_file ( @{$shuffled_input_files} ) { + my $unique_groups_counter = 0; + my $total_groups_counter = 0; + my $new_group_counter = 0; + my $conserved_groups_counter = 0; + my $new_groups = $self->group_statistics_obj->_files_to_groups->{$input_file}; + + for my $group ( @{$new_groups} ) { + if ( !defined( $existing_groups{$group} ) ) { + $new_group_counter++; + } + $existing_groups{$group}++; + } + + for my $group ( keys %existing_groups ) { + if ( $existing_groups{$group} >= ($files_counter*$self->core_definition) ) { + $conserved_groups_counter++; + } + + if ( $existing_groups{$group} == 1 ) { + $unique_groups_counter++; + } + $total_groups_counter++; + } + + push( @conserved_genes_added_per_file, $conserved_groups_counter ); + push( @unique_genes_added_per_file, $unique_groups_counter ); + push( @total_genes_added_per_file, $total_groups_counter ); + push( @new_genes_added_per_file, $new_group_counter ); + $files_counter++; + } + push( @{ $self->_conserved_genes }, \@conserved_genes_added_per_file ); + push( @{ $self->_unique_genes }, \@unique_genes_added_per_file ); + push( @{ $self->_total_genes }, \@total_genes_added_per_file ); + push( @{ $self->_new_genes }, \@new_genes_added_per_file ); + + return; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/Output/QueryGroups.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,139 @@ +package Bio::Roary::Output::QueryGroups; + +# ABSTRACT: Output the groups of the union of a set of input isolates + +=head1 SYNOPSIS + +Output the groups of the union of a set of input isolates + use Bio::Roary::Output::QueryGroups; + + my $obj = Bio::Roary::Output::QueryGroups->new( + analyse_groups => $analyse_groups + ); + $obj->groups_union(); + $obj->groups_intersection(); + $obj->groups_complement(); + +=cut + +use Moose; +use Bio::SeqIO; +use Bio::Roary::Exceptions; +use Bio::Roary::AnalyseGroups; +use POSIX; + +has 'analyse_groups' => ( is => 'ro', isa => 'Bio::Roary::AnalyseGroups', required => 1 ); +has 'input_filenames' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'output_union_filename' => ( is => 'ro', isa => 'Str', default => 'union_of_groups.gg' ); +has 'output_intersection_filename' => ( is => 'ro', isa => 'Str', default => 'intersection_of_groups.gg' ); +has 'output_complement_filename' => ( is => 'ro', isa => 'Str', default => 'complement_of_groups.gg' ); +has 'core_definition' => ( is => 'ro', isa => 'Num', default => 1.0 ); + +has '_groups_freq' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build__groups_freq' ); +has '_groups_intersection' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__groups_intersection' ); +has '_groups_complement' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__groups_complement' ); +has '_groups' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__groups' ); +has '_number_of_isolates' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_builder__number_of_isolates' ); +has '_min_no_isolates_for_core' => ( is => 'rw', isa => 'Int', lazy_build => 1 ); + +sub _build__min_no_isolates_for_core { + my ( $self ) = @_; + my $threshold = ceil( $self->_number_of_isolates * $self->core_definition ); + + return $threshold; +} + +sub _builder__number_of_isolates { + my ($self) = @_; + return @{ $self->input_filenames }; +} + +sub _build__groups_freq { + my ($self) = @_; + my %groups_freq; + + for my $filename ( @{ $self->input_filenames } ) { + my $genes = $self->analyse_groups->_files_to_genes->{$filename}; + + my %file_groups_seen; + for my $gene ( @{$genes} ) { + next if(!defined($gene)); + next if(!defined($self->analyse_groups->_genes_to_groups->{$gene})); + next if(defined($file_groups_seen{$self->analyse_groups->_genes_to_groups->{$gene}})); + + push(@{$groups_freq{ $self->analyse_groups->_genes_to_groups->{$gene} }}, $gene); + $file_groups_seen{$self->analyse_groups->_genes_to_groups->{$gene}} = 1; + } + } + + return \%groups_freq; +} + +sub _build__groups { + my ($self) = @_; + my %groups_freq = %{ $self->_groups_freq }; + my @groups = sort { @{$groups_freq{$b}} <=> @{$groups_freq{$a}} } keys %groups_freq; + return \@groups; +} + +sub _build__groups_intersection { + my ($self) = @_; + my @groups_intersection; + + for my $group ( @{$self->_groups} ) { + if ( scalar @{$self->_groups_freq->{$group}} >= $self->_min_no_isolates_for_core ) { + push( @groups_intersection, $group ); + } + } + return \@groups_intersection; +} + +sub _build__groups_complement { + my ($self) = @_; + my %groups_intersection = map { $_ => 1 } @{ $self->_groups_intersection }; + my @complement = grep { not $groups_intersection{$_} } @{ $self->_groups }; + return \@complement; +} + +sub _print_out_groups { + my ( $self, $filename, $groups ) = @_; + open( my $fh, '>', $filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( error => 'Couldnt write to file: ' . $filename ); + + my %groups_freq = %{ $self->_groups_freq }; + my @sorted_groups = sort { @{$groups_freq{$b}} <=> @{$groups_freq{$a}} } @{$groups}; + + for my $group ( @sorted_groups ) { + print {$fh} $group.': '.join("\t",@{$self->_groups_freq->{$group}}) . "\n"; + } + close($fh); + return $self; +} + +sub groups_complement { + my ($self) = @_; + $self->_print_out_groups( $self->output_complement_filename, $self->_groups_complement ); +} + +sub groups_intersection { + my ($self) = @_; + $self->_print_out_groups( $self->output_intersection_filename, $self->_groups_intersection ); +} + +sub groups_union { + my ($self) = @_; + $self->_print_out_groups( $self->output_union_filename, $self->_groups ); +} + +sub groups_with_external_inputs +{ + my ($self, $output_filename,$groups) = @_; + $self->_print_out_groups( $output_filename, $groups ); + +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ParallelAllAgainstAllBlast.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,149 @@ +package Bio::Roary::ParallelAllAgainstAllBlast; + +# ABSTRACT: Run all against all blast in parallel + +=head1 SYNOPSIS + +Run blastp in parallel over a FASTA file of proteins + use Bio::Roary::ParallelAllAgainstAllBlast; + + my $obj = Bio::Roary::ParallelAllAgainstAllBlast->new( + fasta_file => 'abc.fa', + ); + $obj->run(); + +=cut + +use Moose; +use Bio::Roary::Exceptions; +use Bio::Roary::ChunkFastaFile; +use Bio::Roary::External::Makeblastdb; +use Bio::Roary::External::Blastp; +use Cwd; +use File::Temp; +use File::Basename; +with 'Bio::Roary::JobRunner::Role'; + +has 'fasta_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'blast_results_file_name' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_blast_results_file_name' ); +has 'makeblastdb_exec' => ( is => 'ro', isa => 'Str', default => 'makeblastdb' ); +has 'blastp_exec' => ( is => 'ro', isa => 'Str', default => 'blastp' ); +has 'segmasker_exec' => ( is => 'ro', isa => 'Str', default => 'segmasker' ); +has 'perc_identity' => ( is => 'ro', isa => 'Num', default => 98 ); +has '_chunk_fasta_file_obj' => ( is => 'ro', isa => 'Bio::Roary::ChunkFastaFile', lazy => 1, builder => '_build__chunk_fasta_file_obj' ); +has '_sequence_file_names' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__sequence_file_names' ); +has '_makeblastdb_obj' => ( is => 'ro', isa => 'Bio::Roary::External::Makeblastdb', lazy => 1, builder => '_build__makeblastdb_obj' ); +has '_blast_database' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__blast_database' ); +has 'cpus' => ( is => 'ro', isa => 'Int', default => 1 ); + +has '_working_directory' => + ( is => 'ro', isa => 'File::Temp::Dir', default => sub { File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); } ); +has '_working_directory_name' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__working_directory_name' ); + +has 'memory_in_mb' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build_memory_in_mb' ); + + +sub BUILD { + my ($self) = @_; + $self->_makeblastdb_obj(); +} + + +sub _build__blast_database { + my ($self) = @_; + return $self->_makeblastdb_obj->output_database; +} + +sub _build__makeblastdb_obj { + my ($self) = @_; + my $blast_database = + Bio::Roary::External::Makeblastdb->new( fasta_file => $self->fasta_file, exec => $self->makeblastdb_exec, job_runner => $self->job_runner, cpus => $self->cpus ); + $blast_database->run(); + return $blast_database; +} + +sub _build__chunk_fasta_file_obj { + my ($self) = @_; + return Bio::Roary::ChunkFastaFile->new( fasta_file => $self->fasta_file, ); +} + +sub _build__sequence_file_names { + my ($self) = @_; + return $self->_chunk_fasta_file_obj->sequence_file_names; +} + +sub _build__working_directory_name { + my ($self) = @_; + return $self->_working_directory->dirname(); +} + +sub _build_blast_results_file_name { + my ($self) = @_; + return join( '/', ( $self->_working_directory_name, 'blast_results' ) ); +} + +sub _combine_blast_results { + my ( $self, $output_files ) = @_; + for my $output_file ( @{$output_files} ) { + Bio::Roary::Exceptions::FileNotFound->throw( error => "Cant find blast results: " . $output_file ) + unless ( -e $output_file ); + } + if ( -e $self->blast_results_file_name ) + { + system( "rm " . $self->blast_results_file_name ); + } + system( "touch " . $self->blast_results_file_name ); + for my $output_file ( @{$output_files} ) { + system( "cat $output_file >> " . $self->blast_results_file_name ); + } + return 1; +} + +sub _build_memory_in_mb +{ + my ($self) = @_; + my $filename = $self->fasta_file; + my $file_size = 3000; + if(-e $filename) + { + $file_size = -s $filename; + $file_size *=12; + $file_size = int($file_size/1000000); + $file_size = 3000 if($file_size < 3000); + } + + return $file_size; +} + +sub run { + my ($self) = @_; + my @expected_output_files; + my @commands_to_run; + + for my $filename ( @{ $self->_sequence_file_names } ) { + my ( $filename_without_directory, $directories, $suffix ) = fileparse($filename); + my $output_seq_results_file = + join( '/', ( $self->_working_directory_name, $filename_without_directory . '.out' ) ); + + my $blast_database = Bio::Roary::External::Blastp->new( + fasta_file => $filename, + blast_database => $self->_blast_database, + exec => $self->blastp_exec, + output_file => $output_seq_results_file, + perc_identity => $self->perc_identity + ); + push( @expected_output_files, $output_seq_results_file ); + push( @commands_to_run, $blast_database->_command_to_run() ); + $self->logger->info( "Running command: " . $blast_database->_command_to_run() ); + } + my $job_runner_obj = $self->_job_runner_class->new( commands_to_run => \@commands_to_run, memory_in_mb => $self->memory_in_mb, queue => $self->_queue, cpus => $self->cpus ); + $job_runner_obj->run(); + $self->logger->info( "Combining blast results" ); + $self->_combine_blast_results(\@expected_output_files); + return 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ParseGFFAnnotationRole.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,32 @@ +package Bio::Roary::ParseGFFAnnotationRole; + +# ABSTRACT: A role for parsing a gff file efficiently + +=head1 SYNOPSIS + +with 'Bio::Roary::ParseGFFAnnotationRole'; + +=cut +use Moose::Role; +use Bio::Tools::GFF; + +has 'gff_file' => ( is => 'ro', isa => 'Str', required => 1 ); + +has '_tags_to_filter' => ( is => 'ro', isa => 'Str', default => 'CDS' ); +has '_gff_parser' => ( is => 'ro', isa => 'Bio::Tools::GFF', lazy => 1, builder => '_build__gff_parser' ); +has '_awk_filter' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__awk_filter' ); + +sub _gff_fh_input_string { + my ($self) = @_; + return 'sed -n \'/##gff-version 3/,/^>/p\' '.$self->gff_file.'| grep -v \'^>\''." | " . $self->_awk_filter; +} + +sub _build__awk_filter { + my ($self) = @_; + return + 'awk \'BEGIN {FS="\t"};{ if ($3 ~/' + . $self->_tags_to_filter + . '/) print $9;}\' '; +} + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/PostAnalysis.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,353 @@ +package Bio::Roary::PostAnalysis; + +# ABSTRACT: Post analysis of pan genomes + +=head1 SYNOPSIS + +Create a pan genome + +=cut + +use Moose; +use File::Copy; +use Bio::Roary::InflateClusters; +use Bio::Roary::AnalyseGroups; +use Bio::Roary::GroupLabels; +use Bio::Roary::AnnotateGroups; +use Bio::Roary::GroupStatistics; +use Bio::Roary::Output::GroupsMultifastasNucleotide; +use Bio::Roary::Output::NumberOfGroups; +use Bio::Roary::OrderGenes; +use Bio::Roary::Output::EmblGroups; +use Bio::Roary::SplitGroups; +use Bio::Roary::AccessoryBinaryFasta; +use Bio::Roary::External::Fasttree; +use Bio::Roary::AccessoryClustering; +use Bio::Roary::AssemblyStatistics; +use Log::Log4perl qw(:easy); + +has 'fasta_files' => ( is => 'rw', isa => 'ArrayRef', required => 1 ); +has 'input_files' => ( is => 'rw', isa => 'ArrayRef', required => 1 ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'clustered_proteins' ); +has 'output_pan_geneome_filename' => ( is => 'rw', isa => 'Str', default => 'pan_genome.fa' ); +has 'output_statistics_filename' => ( is => 'rw', isa => 'Str', default => 'gene_presence_absence.csv' ); +has 'output_multifasta_files' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'verbose_stats' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has 'cpus' => ( is => 'ro', isa => 'Int', default => 1 ); + +has 'clusters_filename' => ( is => 'rw', isa => 'Str', required => 1 ); +has 'dont_delete_files' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'dont_split_groups' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'dont_create_rplots' => ( is => 'rw', isa => 'Bool', default => 1 ); +has 'group_limit' => ( is => 'rw', isa => 'Num', default => 50000 ); + +has '_output_mcl_filename' => ( is => 'ro', isa => 'Str', default => '_uninflated_mcl_groups' ); +has '_output_inflate_unsplit_clusters_filename' => ( is => 'ro', isa => 'Str', default => '_inflated_unsplit_mcl_groups' ); +has '_output_inflate_clusters_filename' => ( is => 'ro', isa => 'Str', default => '_inflated_mcl_groups' ); +has '_output_group_labels_filename' => ( is => 'ro', isa => 'Str', default => '_labeled_mcl_groups' ); +has '_output_combined_filename' => ( is => 'ro', isa => 'Str', default => '_combined_files' ); +has '_input_cd_hit_groups_file' => ( is => 'ro', isa => 'Str', default => '_combined_files.groups' ); +has 'core_accessory_tab_output_filename' => ( is => 'ro', isa => 'Str', default => 'core_accessory.tab' ); +has 'accessory_tab_output_filename' => ( is => 'ro', isa => 'Str', default => 'accessory.tab' ); +has 'core_accessory_ordering_key' => ( is => 'ro', isa => 'Str', default => 'core_accessory_overall_order_filtered' ); +has 'accessory_ordering_key' => ( is => 'ro', isa => 'Str', default => 'accessory_overall_order_filtered' ); +has 'core_definition' => ( is => 'ro', isa => 'Num', default => 1.0 ); +has 'pan_genome_reference_filename' => ( is => 'ro', isa => 'Str', default => 'pan_genome_reference.fa' ); + +has '_inflate_clusters_obj' => ( is => 'ro', isa => 'Bio::Roary::InflateClusters', lazy => 1, builder => '_build__inflate_clusters_obj' ); +has '_group_labels_obj' => ( is => 'ro', isa => 'Bio::Roary::GroupLabels', lazy => 1, builder => '_build__group_labels_obj' ); +has '_annotate_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnnotateGroups', lazy => 1, builder => '_build__annotate_groups_obj' ); +has '_analyse_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnalyseGroups', lazy => 1, builder => '_build__analyse_groups_obj' ); +has '_order_genes_obj' => ( is => 'ro', isa => 'Bio::Roary::OrderGenes', lazy => 1, builder => '_build__order_genes_obj' ); +has '_group_statistics_obj' => ( is => 'ro', isa => 'Bio::Roary::GroupStatistics', lazy => 1, builder => '_build__group_statistics_obj' ); +has '_number_of_groups_obj' => + ( is => 'ro', isa => 'Bio::Roary::Output::NumberOfGroups', lazy => 1, builder => '_build__number_of_groups_obj' ); +has '_accessory_binary_fasta' => + ( is => 'ro', isa => 'Bio::Roary::AccessoryBinaryFasta', lazy => 1, builder => '_build__accessory_binary_fasta' ); +has '_groups_multifastas_nuc_obj' => + ( is => 'ro', isa => 'Bio::Roary::Output::GroupsMultifastasNucleotide', lazy => 1, builder => '_build__groups_multifastas_nuc_obj' ); +has '_split_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::SplitGroups', lazy => 1, builder => '_build__split_groups_obj' ); +has '_accessory_binary_tree' => + ( is => 'ro', isa => 'Bio::Roary::External::Fasttree', lazy => 1, builder => '_build__accessory_binary_tree' ); +has '_accessory_clustering' => + ( is => 'ro', isa => 'Maybe[Bio::Roary::AccessoryClustering]', lazy => 1, builder => '_build__accessory_clustering' ); +has '_assembly_statistics' => ( is => 'ro', isa => 'Bio::Roary::AssemblyStatistics', lazy => 1, builder => '_build__assembly_statistics' ); + +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger' ); + +sub _build_logger { + my ($self) = @_; + Log::Log4perl->easy_init( level => $ERROR ); + my $logger = get_logger(); + return $logger; +} + +sub run { + my ($self) = @_; + + $self->logger->info("Reinflate clusters"); + $self->_inflate_clusters_obj->inflate(); + + $self->logger->info("Split groups with paralogs"); + ## SPLIT GROUPS WITH PARALOGS ## + if ( $self->dont_split_groups ) { + move( $self->_output_inflate_unsplit_clusters_filename, $self->_output_inflate_clusters_filename ); + } + else { + $self->_split_groups_obj->split_groups; + } + + $self->logger->info("Labelling the groups"); + $self->_group_labels_obj->add_labels(); + + $self->logger->info("Transfering the annotation to the groups"); + $self->_annotate_groups_obj->reannotate; + + $self->logger->info("Creating accessory binary gene presence and absence fasta"); + $self->_accessory_binary_fasta->create_accessory_binary_fasta; + + $self->logger->info("Creating accessory binary gene presence and absence tree"); + $self->_accessory_binary_tree->run; + + $self->logger->info("Creating accessory gene presence and absence clusters"); + if ( $self->_accessory_clustering ) { + $self->_accessory_clustering->sample_weights; + } + + $self->logger->info("Creating the spreadsheet with gene presence and absence"); + $self->_group_statistics_obj->create_spreadsheet; + $self->_group_statistics_obj->create_rtab; + + $self->logger->info("Creating summary statistics of the spreadsheet"); + $self->_assembly_statistics->create_summary_output; + + $self->logger->info("Creating tab files for R"); + $self->_number_of_groups_obj->create_output_files; + + system("create_pan_genome_plots.R") unless ( $self->dont_create_rplots == 1 ); + + $self->logger->info("Create EMBL files"); + $self->_create_embl_files; + + my $clusters_not_exceeded = 1; + if ( $self->output_multifasta_files ) { + $self->logger->info("Creating files with the nucleotide sequences for every cluster"); + $clusters_not_exceeded = $self->_groups_multifastas_nuc_obj->create_files(); + } + + $self->_delete_intermediate_files; + if ( $clusters_not_exceeded == 0 && $self->output_multifasta_files ) { + $self->logger->error("Exiting early because number of clusters is too high"); + exit(); + } +} + +sub _build__assembly_statistics { + my ($self) = @_; + return Bio::Roary::AssemblyStatistics->new( + spreadsheet => $self->_group_statistics_obj->output_filename, + core_definition => $self->core_definition, + logger => $self->logger + ); +} + +sub _build__accessory_clustering { + my ($self) = @_; + if ( ( -e $self->_accessory_binary_fasta->output_filename ) && ( -s $self->_accessory_binary_fasta->output_filename > 5 ) ) { + $self->logger->info( $self->_accessory_binary_fasta->output_filename ); + return Bio::Roary::AccessoryClustering->new( + input_file => $self->_accessory_binary_fasta->output_filename, + cpus => $self->cpus, + logger => $self->logger + ); + } + else { + $self->logger->info("Theres no accessory binary file so skipping accessory binary clustering"); + return undef; + } + +} + +sub _build__accessory_binary_tree { + my ($self) = @_; + return Bio::Roary::External::Fasttree->new( + input_file => $self->_accessory_binary_fasta->output_filename, + verbose => $self->verbose, + logger => $self->logger + ); +} + +sub _build__accessory_binary_fasta { + my ($self) = @_; + return Bio::Roary::AccessoryBinaryFasta->new( + input_files => $self->fasta_files, + annotate_groups_obj => $self->_annotate_groups_obj, + analyse_groups_obj => $self->_analyse_groups_obj, + logger => $self->logger + ); +} + +sub _build__split_groups_obj { + my ($self) = @_; + return Bio::Roary::SplitGroups->new( + groupfile => $self->_output_inflate_unsplit_clusters_filename, + gff_files => $self->input_files, + fasta_files => $self->fasta_files, + outfile => $self->_output_inflate_clusters_filename, + dont_delete => $self->dont_delete_files, + logger => $self->logger + ); +} + +sub _build__number_of_groups_obj { + my ($self) = @_; + return Bio::Roary::Output::NumberOfGroups->new( + group_statistics_obj => $self->_group_statistics_obj, + groups_to_contigs => $self->_order_genes_obj->groups_to_contigs, + annotate_groups_obj => $self->_annotate_groups_obj, + core_definition => $self->core_definition, + logger => $self->logger + ); +} + +sub _build__group_statistics_obj { + my ($self) = @_; + return Bio::Roary::GroupStatistics->new( + output_filename => $self->output_statistics_filename, + annotate_groups_obj => $self->_annotate_groups_obj, + analyse_groups_obj => $self->_analyse_groups_obj, + groups_to_contigs => $self->_order_genes_obj->groups_to_contigs, + _verbose => $self->verbose_stats, + logger => $self->logger + ); +} + +sub _build__order_genes_obj { + my ($self) = @_; + if ( defined( $self->_accessory_clustering ) ) { + return Bio::Roary::OrderGenes->new( + analyse_groups_obj => $self->_analyse_groups_obj, + gff_files => $self->input_files, + core_definition => $self->core_definition, + sample_weights => $self->_accessory_clustering->sample_weights, + samples_to_clusters => $self->_accessory_clustering->samples_to_clusters, + logger => $self->logger + ); + } + else { + return Bio::Roary::OrderGenes->new( + analyse_groups_obj => $self->_analyse_groups_obj, + gff_files => $self->input_files, + core_definition => $self->core_definition, + logger => $self->logger + ); + } +} + +sub _build__group_labels_obj { + my ($self) = @_; + return Bio::Roary::GroupLabels->new( + groups_filename => $self->_output_inflate_clusters_filename, + output_filename => $self->_output_group_labels_filename, + logger => $self->logger + ); +} + +sub _build__annotate_groups_obj { + my ($self) = @_; + return Bio::Roary::AnnotateGroups->new( + gff_files => $self->input_files, + output_filename => $self->output_filename, + groups_filename => $self->_output_group_labels_filename, + logger => $self->logger + ); +} + +sub _build__analyse_groups_obj { + my ($self) = @_; + return Bio::Roary::AnalyseGroups->new( + fasta_files => $self->fasta_files, + groups_filename => $self->output_filename, + logger => $self->logger + ); +} + +sub _build__inflate_clusters_obj { + my ($self) = @_; + return Bio::Roary::InflateClusters->new( + clusters_filename => $self->clusters_filename, + cdhit_groups_filename => $self->_input_cd_hit_groups_file, + mcl_filename => $self->_output_mcl_filename, + output_file => $self->_output_inflate_unsplit_clusters_filename, + logger => $self->logger + ); +} + +sub _build__groups_multifastas_nuc_obj { + my ($self) = @_; + return Bio::Roary::Output::GroupsMultifastasNucleotide->new( + output_multifasta_files => $self->output_multifasta_files, + gff_files => $self->input_files, + annotate_groups => $self->_annotate_groups_obj, + group_names => $self->_analyse_groups_obj->_groups, + group_limit => $self->group_limit, + core_definition => $self->core_definition, + dont_delete_files => $self->dont_delete_files, + logger => $self->logger + ); +} + +sub _create_embl_files { + my ($self) = @_; + my $core_accessory_tab_obj = Bio::Roary::Output::EmblGroups->new( + output_filename => $self->core_accessory_tab_output_filename, + annotate_groups_obj => $self->_annotate_groups_obj, + analyse_groups_obj => $self->_analyse_groups_obj, + ordering_key => $self->core_accessory_ordering_key, + groups_to_contigs => $self->_order_genes_obj->groups_to_contigs, + logger => $self->logger + ); + $core_accessory_tab_obj->create_files; + + my $accessory_tab_obj = Bio::Roary::Output::EmblGroups->new( + output_filename => $self->accessory_tab_output_filename, + annotate_groups_obj => $self->_annotate_groups_obj, + analyse_groups_obj => $self->_analyse_groups_obj, + ordering_key => $self->accessory_ordering_key, + groups_to_contigs => $self->_order_genes_obj->groups_to_contigs, + logger => $self->logger + ); + $accessory_tab_obj->create_files; +} + +sub _delete_intermediate_files { + my ($self) = @_; + return if ( $self->dont_delete_files == 1 ); + $self->logger->info("Cleaning up files"); + + for my $fasta_file ( @{ $self->fasta_files } ) { + unlink($fasta_file) if ( -e $fasta_file ); + } + + unlink( $self->_output_mcl_filename ); + unlink( $self->_output_inflate_clusters_filename ); + unlink( $self->_output_group_labels_filename ); + unlink( $self->_output_combined_filename ); + unlink( $self->clusters_filename ); + unlink( $self->clusters_filename . '.clstr' ); + unlink( $self->clusters_filename . '.bak.clstr' ); + unlink('_gff_files'); + unlink('_fasta_files'); + unlink('_clustered_filtered.fa'); + unlink( $self->_input_cd_hit_groups_file ); + unlink('database_masking.asnb'); + unlink('_clustered'); + unlink('_accessory_clusters'); + unlink('_accessory_clusters.clstr'); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/PrepareInputFiles.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,149 @@ +package Bio::Roary::PrepareInputFiles; + +# ABSTRACT: Take in a mixture of FASTA and GFF input files and output FASTA proteomes only + +=head1 SYNOPSIS + +Take in a mixture of FASTA and GFF input files and output FASTA proteomes only + use Bio::Roary::PrepareInputFiles; + + my $obj = Bio::Roary::PrepareInputFiles->new( + input_files => ['abc.gff','ddd.faa'], + ); + $obj->fasta_files; + +=cut + +use Moose; +use Bio::Roary::Exceptions; +use Bio::Roary::ExtractProteomeFromGFFs; +use Bio::Roary::FilterUnknownsFromFasta; +use Cwd qw(getcwd); +use File::Temp; +use Log::Log4perl qw(:easy); + +has 'input_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'job_runner' => ( is => 'ro', isa => 'Str', default => 'Local' ); +has 'cpus' => ( is => 'ro', isa => 'Int', default => 1 ); +has '_input_gff_files' => ( is => 'ro', isa => 'Maybe[ArrayRef]', lazy => 1, builder => '_build__input_gff_files' ); +has '_input_fasta_files' => ( is => 'ro', isa => 'Maybe[ArrayRef]', lazy => 1, builder => '_build__input_fasta_files' ); +has '_input_fasta_files_filtered' => ( is => 'ro', isa => 'Maybe[ArrayRef]', lazy => 1, builder => '_build__input_fasta_files_filtered' ); +has '_input_fasta_files_filtered_obj' => + ( is => 'ro', isa => 'Bio::Roary::FilterUnknownsFromFasta', lazy => 1, builder => '_build__input_fasta_files_filtered_obj' ); + +has '_derived_fasta_files' => ( is => 'ro', isa => 'Maybe[ArrayRef]', lazy => 1, builder => '_build__derived_fasta_files' ); +has '_extract_proteome_obj' => ( + is => 'ro', + isa => 'Bio::Roary::ExtractProteomeFromGFFs', + lazy => 1, + builder => '_build__extract_proteome_obj' +); +has 'apply_unknowns_filter' => ( is => 'rw', isa => 'Bool', default => 1 ); +has 'translation_table' => ( is => 'rw', isa => 'Int', default => 11 ); +has 'verbose' => ( is => 'rw', isa => 'Bool', default => 0 ); +has '_fasta_filter_obj' => ( is => 'ro', isa => 'Bio::Roary::FilterUnknowsFromFasta', lazy => 1, builder => '_fasta_filter_obj' ); +has 'working_directory' => ( is => 'ro', isa => 'File::Temp::Dir', default => sub { File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); } ); +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger' ); + +sub _build_logger { + my ($self) = @_; + Log::Log4perl->easy_init($ERROR); + my $logger = get_logger(); + return $logger; +} + +sub _build__input_gff_files { + my ($self) = @_; + my @gff_files = grep( /\.gff$/, @{ $self->input_files } ); + return \@gff_files; +} + +sub _build__input_fasta_files { + my ($self) = @_; + my @fasta_files = grep( !/\.gff$/, @{ $self->input_files } ); + + my @validated_fasta_files; + + for my $fasta_file (@fasta_files) { + eval { + my $inseq = Bio::SeqIO->new( + -file => $fasta_file, + -format => 'fasta', + -alphabet => 'protein' + ); + while ( my $seq = $inseq->next_seq ) { + + # do something to force the reading. + $seq->seq; + } + }; + if ($@) { + $self->logger->warn( + "Input file doesnt have a .gff extension and isnt a protein FASTA file so excluding it from further analysis: $fasta_file" + ); + } + else { + push( @validated_fasta_files, $fasta_file ); + } + + } + + return \@fasta_files; +} + +sub _build__input_fasta_files_filtered_obj { + my ($self) = @_; + return Bio::Roary::FilterUnknownsFromFasta->new( fasta_files => $self->_input_fasta_files ); +} + +sub _build__input_fasta_files_filtered { + my ($self) = @_; + return undef if ( !defined( $self->_input_fasta_files ) ); + return $self->_input_fasta_files_filtered_obj->filtered_fasta_files(); +} + +sub _build__extract_proteome_obj { + my ($self) = @_; + return Bio::Roary::ExtractProteomeFromGFFs->new( + gff_files => $self->_input_gff_files, + job_runner => $self->job_runner, + apply_unknowns_filter => $self->apply_unknowns_filter, + translation_table => $self->translation_table, + cpus => $self->cpus, + verbose => $self->verbose, + working_directory => $self->working_directory, + ); +} + +sub _build__derived_fasta_files { + my ($self) = @_; + return undef if ( !defined( $self->_input_gff_files ) ); + return $self->_extract_proteome_obj->fasta_files(); +} + +sub fasta_files { + my ($self) = @_; + my @output_fasta_files = ( @{ $self->_input_fasta_files_filtered }, @{ $self->_derived_fasta_files } ); + return \@output_fasta_files; +} + +sub lookup_fasta_files_from_unknown_input_files { + my ( $self, $input_files ) = @_; + $self->fasta_files; + + my @output_fasta_files; + for my $input_file ( @{$input_files} ) { + if ( defined( $self->_extract_proteome_obj->fasta_files_to_gff_files->{$input_file} ) ) { + push( @output_fasta_files, $self->_extract_proteome_obj->fasta_files_to_gff_files->{$input_file} ); + } + else { + push( @output_fasta_files, $self->_input_fasta_files_filtered_obj->input_fasta_to_output_fasta->{$input_file} ); + } + } + return \@output_fasta_files; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/PresenceAbsenceMatrix.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,84 @@ +package Bio::Roary::PresenceAbsenceMatrix; + +# ABSTRACT: Create a matrix with presence and absence + +=head1 SYNOPSIS + +Create a matrix with presence and absence. Since its computationally intensive to generate the inputs, calculate them once +in the GroupStatistics module and pass them through. + use Bio::Roary::PresenceAbsenceMatrix; + + my $obj = Bio::Roary::PresenceAbsenceMatrix->new( + annotate_groups_obj => $annotate_groups_obj, + output_filename => 'gene_presence_absence.Rtab', + sorted_file_names => $sorted_file_names, + groups_to_files => $groups_to_files, + num_files_in_groups => $num_files_in_groups, + sample_headers => $sample_headers, + ); + $obj->create_matrix_file; + +=cut + +use Moose; +use Text::CSV; +use Bio::SeqIO; +use Bio::Roary::Exceptions; +use Bio::Roary::AnnotateGroups; + +has 'annotate_groups_obj' => ( is => 'ro', isa => 'Bio::Roary::AnnotateGroups', required => 1 ); +has 'sorted_file_names' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'groups_to_files' => ( is => 'ro', isa => 'HashRef', required => 1 ); +has 'num_files_in_groups' => ( is => 'ro', isa => 'HashRef', required => 1 ); +has 'sample_headers' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'gene_presence_absence.Rtab' ); + +has '_output_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_fh' ); +has '_text_csv_obj' => ( is => 'ro', isa => 'Text::CSV', lazy => 1, builder => '_build__text_csv_obj' ); + +sub _build__output_fh { + my ($self) = @_; + open( my $fh, '>', $self->output_filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( error => "Couldnt write output file:" . $self->output_filename ); + return $fh; +} + +sub _build__text_csv_obj { + my ($self) = @_; + return Text::CSV->new( { binary => 1, always_quote => 0, sep_char => "\t", eol => "\r\n" } ); +} + +sub create_matrix_file { + my ($self) = @_; + + # Header row + unshift @{ $self->sample_headers }, 'Gene'; + $self->_text_csv_obj->print( $self->_output_fh, $self->sample_headers ); + + for my $group ( sort { $self->num_files_in_groups->{$b} <=> $self->num_files_in_groups->{$a} || $a cmp $b } + keys %{ $self->num_files_in_groups } ) + { + my @row; + my $annotated_group_name = $self->annotate_groups_obj->_groups_to_consensus_gene_names->{$group}; + push( @row, $annotated_group_name ); + for my $filename ( @{ $self->sorted_file_names } ) { + my $group_to_file_genes = $self->groups_to_files->{$group}->{$filename}; + + if ( defined($group_to_file_genes) && @{$group_to_file_genes} > 0 ) { + push( @row, 1 ); + next; + } + else { + push( @row, 0 ); + } + } + $self->_text_csv_obj->print( $self->_output_fh, \@row ); + } + close( $self->_output_fh ); + return $self; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/QC/Report.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,241 @@ +package Bio::Roary::QC::Report; + +# ABSTRACT: generate a report based on kraken output + +=head1 SYNOPSIS + +=cut + +use Moose; +use File::Temp; +use File::Path 'rmtree'; +use Cwd; +use File::Basename; +with 'Bio::Roary::JobRunner::Role'; + +has 'input_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'kraken_exec' => ( is => 'ro', isa => 'Str', default => 'kraken' ); +has 'kraken_report_exec' => ( is => 'ro', isa => 'Str', default => 'kraken-report' ); +has 'kraken_db' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'outfile' => ( is => 'rw', isa => 'Str', default => 'qc_report.csv' ); +has '_kraken_data' => ( is => 'rw', isa => 'ArrayRef', lazy_build => 1 ); +has '_header' => ( is => 'rw', isa => 'Str', lazy_build => 1 ); +has 'kraken_memory' => ( is => 'rw', isa => 'Int', default => 2000 ); + +has '_tmp_directory_obj' => ( is => 'rw', lazy_build => 1 ); +has '_tmp_directory' => ( is => 'rw', lazy_build => 1, isa => 'Str', ); + + +sub _nuc_fasta_filename +{ + my ($self, $gff) = @_; + + my $prefix = basename( $gff, ".gff" ); + my $outfile = $self->_tmp_directory . "/$prefix.fna"; + return $outfile; +} + +sub _extract_nuc_fasta_cmd { + my ($self, $gff) = @_; + my $outfile = $self->_nuc_fasta_filename($gff); + my $cmd = "sed -n '/##FASTA/,//p' $gff | grep -v \'##FASTA\' > $outfile"; + + return $cmd; +} + +sub _extract_nuc_files_from_all_gffs +{ + my ($self) = @_; + my @nuc_files; + my @commands_to_run; + for my $input_file(@{$self->input_files}) + { + push(@nuc_files,$self->_nuc_fasta_filename($input_file)); + push(@commands_to_run,$self->_extract_nuc_fasta_cmd($input_file)); + } + my $kraken_runner_obj = $self->_job_runner_class->new( + commands_to_run => \@commands_to_run, + memory_in_mb => $self->kraken_memory, + verbose => $self->verbose, + cpus => $self->cpus + ); + $kraken_runner_obj->run(); + return \@nuc_files; +} + +sub _kraken_cmd { + my ( $self, $a, $kraken_output ) = @_; + + my $kcmd = $self->kraken_exec . + " --fasta-input ". + " --preload ". + " --db " . $self->kraken_db . + " --output $kraken_output $a > /dev/null 2>&1"; + return $kcmd; +} + +sub _kraken_report_cmd { + my ( $self, $k, $report_output ) = @_; + + my $krcmd = $self->kraken_report_exec . + " --db " . $self->kraken_db . + " $k > $report_output"; + return $krcmd; +} + +sub _kraken_output_filename +{ + my ( $self, $assembly ) = @_; + my $kraken_output = $assembly; + $kraken_output =~ s/fna$/kraken/; + return $kraken_output; +} + +sub _run_kraken_on_nuc_files +{ + my ( $self, $nuc_files ) = @_; + my @kraken_output_files; + my @commands_to_run; + for my $nuc_file(@{$nuc_files}) + { + my $kraken_output = $self->_kraken_output_filename($nuc_file); + push(@kraken_output_files, $kraken_output ); + push(@commands_to_run, $self->_kraken_cmd( $nuc_file, $kraken_output )); + } + + my $kraken_runner_obj = $self->_job_runner_class->new( + commands_to_run => \@commands_to_run, + memory_in_mb => $self->kraken_memory, + verbose => $self->verbose, + cpus => $self->cpus + ); + $kraken_runner_obj->run(); + + for my $filename(@{$nuc_files}) + { + unlink($filename); + } + + return \@kraken_output_files; +} + +sub _kraken_report_output_filename +{ + my ( $self, $assembly ) = @_; + return $assembly.".report"; +} + +sub _run_kraken_report_on_kraken_files +{ + my ( $self, $kraken_files ) = @_; + + my @kraken_report_output_files; + my @commands_to_run; + for my $nuc_file(@{$kraken_files}) + { + my $kraken_output = $self->_kraken_report_output_filename($nuc_file); + push(@kraken_report_output_files, $kraken_output ); + push(@commands_to_run, $self->_kraken_report_cmd( $nuc_file, $kraken_output )); + } + + my $kraken_runner_obj = $self->_job_runner_class->new( + commands_to_run => \@commands_to_run, + memory_in_mb => $self->kraken_memory, + verbose => $self->verbose, + cpus => $self->cpus + ); + $kraken_runner_obj->run(); + for my $filename(@{$kraken_files}) + { + unlink($filename); + } + return \@kraken_report_output_files; +} + +sub _build__kraken_data { + my $self = shift; + my $nuc_files = $self->_extract_nuc_files_from_all_gffs(); + my $kraken_files = $self->_run_kraken_on_nuc_files($nuc_files); + my $kraken_report_files = $self->_run_kraken_report_on_kraken_files( $kraken_files ); + + return $self->_parse_kraken_reports($kraken_report_files); +} + +sub _parse_kraken_reports +{ + my ( $self, $kraken_report_files ) = @_; + + my @report_rows; + for my $kraken_report(@{$kraken_report_files}) + { + push(@report_rows, $self->_parse_kraken_report($kraken_report)); + } + + for my $kraken_report(@{$kraken_report_files}) + { + unlink($kraken_report); + } + + return \@report_rows; +} + +sub _parse_kraken_report { + my ( $self, $kraken_report ) = @_; + + # parse report + open( my $report_fh, '<', $kraken_report ); + + my $sample_name = $kraken_report; + $sample_name =~ s/.report$//; + $sample_name =~ s/.kraken$//; + my($sample_base_name, $dirs, $suffix) = fileparse($sample_name); + + my ( $top_genus, $top_species ); + while ( <$report_fh> ){ + my @parts = split( "\t" ); + chomp @parts; + + $top_genus = $parts[5] if ( (! defined $top_genus) && $parts[3] eq 'G' ); + $top_species = $parts[5] if ( (! defined $top_species) && $parts[3] eq 'S' ); + + last if (defined $top_genus && defined $top_species); + } + close($report_fh); + + $top_genus ||= "not_found"; + $top_genus =~ s/^\s+//g; + $top_species ||= "not_found"; + $top_species =~ s/^\s+//g; + + return [ $sample_base_name, $top_genus, $top_species ]; +} + + +sub _build__header { + return join( ',', ( 'Sample', 'Genus', 'Species' ) ); +} + +sub _build__tmp_directory_obj { + return File::Temp->newdir(DIR => getcwd, CLEANUP => 1 ); +} + +sub _build__tmp_directory { + my $self = shift; + return $self->_tmp_directory_obj->dirname(); +} + +sub report { + my $self = shift; + + open( OUTFILE, '>', $self->outfile ); + print OUTFILE $self->_header . "\n"; + for my $line ( @{ $self->_kraken_data } ){ + print OUTFILE join( ',', @{ $line } ) . "\n"; + } + close OUTFILE; +} + + +__PACKAGE__->meta->make_immutable; +no Moose; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ReformatInputGFFs.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,210 @@ +package Bio::Roary::ReformatInputGFFs; + +# ABSTRACT: Take in gff files and add suffix where a gene id is seen twice + +=head1 SYNOPSIS + +Take in gff files and add suffix where a gene id is seen twice + use Bio::Roary::ReformatInputGFFs; + + my $obj = Bio::Roary::PrepareInputFiles->new( + gff_files => ['abc.gff','ddd.faa'], + ); + $obj->fix_duplicate_gene_ids; + $obj->fixed_gff_files; + +=cut + +use Moose; +use Bio::Roary::Exceptions; +use Cwd; +use File::Copy; +use Log::Log4perl qw(:easy); +use Bio::Tools::GFF; +use File::Path qw(make_path); +use File::Basename; +use Digest::MD5::File qw(file_md5_hex); + +has 'gff_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'logger' => ( is => 'ro', lazy => 1, builder => '_build_logger' ); +has '_tags_to_filter' => ( is => 'ro', isa => 'Str', default => 'CDS' ); +has 'output_directory' => ( is => 'ro', isa => 'Str', default => 'fixed_input_files' ); +has 'suffix_counter' => ( is => 'rw', isa => 'Int', default => 1 ); + +has 'fixed_gff_files' => ( is => 'rw', isa => 'ArrayRef', default => sub { [] } ); + +sub _build_logger { + my ($self) = @_; + Log::Log4perl->easy_init( $ERROR ); + my $logger = get_logger(); + return $logger; +} + +sub fix_duplicate_gene_ids { + my ($self) = @_; + + my %gene_ids_seen_before; + + my %file_md5s; + + for my $file ( @{ $self->gff_files } ) { + my $digest = file_md5_hex($file); + + if(defined($file_md5s{$digest})) + { + $self->logger->warn( + "Input files have identical MD5 hashes, only using the first file: ".$file_md5s{$digest}." == ".$file + ); + next; + } + else + { + $file_md5s{$digest} = $file; + } + + my $ids_seen = 0; + my $ids_from_file = $self->_get_ids_for_gff_file($file); + + if ( @{$ids_from_file} < 1 ) { + $self->logger->error( + "Input GFF file doesnt contain annotation we can use so excluding it from the analysis: $file" + ); + } + else { + for my $gene_id ( @{$ids_from_file} ) { + if ( $gene_ids_seen_before{$gene_id} ) { + $self->logger->error( + "Input file contains duplicate gene IDs, attempting to fix by adding a unique suffix, new GFF in the fixed_input_files directory: $file " + ); + my $updated_file = $self->_add_suffix_to_gene_ids_and_return_new_file($file, $digest); + push( @{ $self->fixed_gff_files }, $updated_file ) if ( defined($updated_file) ); + $ids_seen = 1; + last; + } + $gene_ids_seen_before{$gene_id}++; + } + + # We know its a valid GFF file since we could open it and extract IDs. + # We need to make sure the filenames end in .gff. If it contained duplicate IDs, then they are fixed so nothing to do, but + # if they didnt, then we have to double check and repair if necessary. + if ( $ids_seen == 0 ) { + + + push( @{ $self->fixed_gff_files }, $self->_fix_gff_file_extension($file) ); + } + } + } + return 1; +} + +sub _fix_gff_file_extension +{ + my ( $self, $input_file ) = @_; + + my ( $filename, $directories, $suffix ) = fileparse( $input_file, qr/\.[^.]*/ ); + return $input_file if($suffix eq '.gff'); + + + make_path( $self->output_directory ) if ( !( -d $self->output_directory ) ); + my $output_file = $self->output_directory . '/' . $filename . '.gff'; + copy($input_file, $output_file) or $self->logger->error("Couldnt copy file with invalid gff extention: $input_file -> $output_file"); + return $output_file; +} + + +sub _add_suffix_to_gene_ids_and_return_new_file { + my ( $self, $input_file, $digest ) = @_; + my ( $filename, $directories, $suffix ) = fileparse( $input_file, qr/\.[^.]*/ ); + make_path( $self->output_directory ) if ( !( -d $self->output_directory ) ); + my $output_file = $self->output_directory . '/' . $filename . '.gff'; + + open( my $input_gff_fh, $input_file ); + open( my $out_gff_fh, '>', $output_file ); + + # There is a chance that there can be a collision here, but its remote. + my $random_locus_tag = "".$digest; + + $self->logger->warn( + "Renamed GFF file from: $input_file -> $output_file" ); + $self->logger->warn( + "Locus tag used is '$random_locus_tag' for file: $input_file" ); + + my $found_fasta = 0; + my $gene_counter = 1; + while (<$input_gff_fh>) { + my $line = $_; + + if ( $line =~ /^\#\#FASTA/ ) { + $found_fasta = 1; + } + + if ( $line =~ /\#/ || $found_fasta == 1 ) { + print {$out_gff_fh} $line; + next; + } + + my @cells = split( /\t/, $line ); + my @tags = split( /;/, $cells[8] ); + my $found_id = 0; + for ( my $i = 0 ; $i < @tags ; $i++ ) { + if ( $tags[$i] =~ /^(ID=["']?)([^;"']+)(["']?)/ ) { + my $current_id = $2; + $current_id .= '___' . $self->suffix_counter; + $tags[$i] = $1 .$random_locus_tag.'_'. $gene_counter . $3; + $gene_counter++; + $found_id++; + last; + } + } + if ( $found_id == 0 ) { + unshift( @tags, 'ID=' . $random_locus_tag.'_'. $gene_counter ); + $gene_counter++; + } + $cells[8] = join( ';', @tags ); + print {$out_gff_fh} join( "\t", @cells ); + } + + if ( $found_fasta == 0 ) { + $self->logger->warn( + "Input GFF file doesnt appear to have the FASTA sequence at the end of the file so is being excluded from the analysis: $input_file" ); + return undef; + } + close($out_gff_fh); + close($input_gff_fh); + return $output_file; +} + +sub _get_ids_for_gff_file { + my ( $self, $file ) = @_; + my @gene_ids; + my $tags_regex = $self->_tags_to_filter; + my $gffio = Bio::Tools::GFF->new( -file => $file, -gff_version => 3 ); + while ( my $feature = $gffio->next_feature() ) { + next if !( $feature->primary_tag =~ /$tags_regex/ ); + my $gene_id = $self->_get_feature_id($feature); + push( @gene_ids, $gene_id ) if ( defined($gene_id) ); + } + return \@gene_ids; +} + +sub _get_feature_id { + my ( $self, $feature ) = @_; + my ( $gene_id, @junk ); + if ( $feature->has_tag('ID') ) { + ( $gene_id, @junk ) = $feature->get_tag_values('ID'); + } + elsif ( $feature->has_tag('locus_tag') ) { + ( $gene_id, @junk ) = $feature->get_tag_values('locus_tag'); + } + else { + return undef; + } + $gene_id =~ s!["']!!g; + return undef if ( $gene_id eq "" ); + return $gene_id; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/ReorderSpreadsheet.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,133 @@ +package Bio::Roary::ReorderSpreadsheet; + +# ABSTRACT: Take in a tree file and a spreadsheet and output a spreadsheet with reordered columns + +=head1 SYNOPSIS + +Take in a tree file and a spreadsheet and output a spreadsheet with reordered columns + use Bio::Roary::ReorderSpreadsheet; + + my $obj = Bio::Roary::ReorderSpreadsheet->new( + tree_file => $tree_file, + spreadsheet => 'groups.csv' + ); + $obj->reorder_spreadsheet(); + +=cut + +use Moose; +use Text::CSV; +use Bio::Roary::SampleOrder; +use Bio::Roary::GroupStatistics; +with 'Bio::Roary::SpreadsheetRole'; + +has 'tree_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'spreadsheet' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'tree_format' => ( is => 'ro', isa => 'Str', default => 'newick' ); +has 'output_filename' => ( is => 'ro', isa => 'Str', default => 'reordered_groups_stats.csv' ); +has 'search_strategy' => ( is => 'ro', isa => 'Str', default => 'depth' ); +has 'sortby' => ( is => 'ro', isa => 'Maybe[Str]'); + +has '_sample_order' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__sample_order' ); +has '_column_mappings' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__column_mappings' ); + + +sub BUILD { + my ($self) = @_; + #Â read the headers first + $self->_column_mappings; +} + + +sub reorder_spreadsheet { + my ($self) = @_; + + # make sure the file handle is at the start + seek($self->_input_spreadsheet_fh ,0,0); + while ( my $row = $self->_csv_parser->getline( $self->_input_spreadsheet_fh ) ) + { + $self->_csv_output->print($self->_output_spreadsheet_fh, $self->_remap_columns($row)); + } + + close($self->_output_spreadsheet_fh); + close($self->_input_spreadsheet_fh); + return 1; +} + +sub _remap_columns +{ + my ($self, $row) = @_; + + my @output_row; + for(my $output_index = 0; $output_index < @{$self->_column_mappings}; $output_index++) + { + my $input_index = $self->_column_mappings->[$output_index]; + push(@output_row, $row->[$input_index]); + } + return \@output_row; +} + +sub _column_mappings_populate_fixed_headers +{ + my ($self, $column_mappings,$header_row) = @_; + my $column_counter = 0; + for($column_counter = 0; $column_counter < $self->_num_fixed_headers; $column_counter++) + { + push(@{$column_mappings}, $column_counter); + shift(@{$header_row}); + } + return $column_counter; +} + +sub _build__column_mappings +{ + my ($self) = @_; + my $header_row = $self->_csv_parser->getline( $self->_input_spreadsheet_fh ); + + my @column_mappings; + my $column_counter = $self->_column_mappings_populate_fixed_headers(\@column_mappings, $header_row); + + #Â put the input column names into an array where the key is the name and the value is the order + my %input_sample_order; + for(my $i = 0; $i < @{$header_row}; $i++) + { + $input_sample_order{$header_row->[$i]} = $i + $column_counter; + } + + # Go through the order of the samples from the tree and see if the headers exist + for my $sample_name (@{$self->_sample_order}) + { + if(defined($input_sample_order{$sample_name})) + { + push(@column_mappings, $input_sample_order{$sample_name}); + delete($input_sample_order{$sample_name}); + } + $column_counter++; + } + + #Â Add any columns not in the tree to the end + for my $sample_name (keys %input_sample_order) + { + push(@column_mappings, $input_sample_order{$sample_name}); + delete($input_sample_order{$sample_name}); + $column_counter++; + } + return \@column_mappings; +} + +sub _build__sample_order { + my ($self) = @_; + my $obj = Bio::Roary::SampleOrder->new( + tree_file => $self->tree_file, + tree_format => $self->tree_format, + search_strategy => $self->search_strategy, + sortby => $self->sortby + ); + return $obj->ordered_samples(); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/SampleOrder.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,50 @@ +package Bio::Roary::SampleOrder; + +# ABSTRACT: Take in a tree file and return an ordering of the samples + +=head1 SYNOPSIS + +Take in a tree file and return an ordering of the samples. Defaults to depth first search + use Bio::Roary::SampleOrder; + + my $obj = Bio::Roary::SampleOrder->new( + tree_file => $tree_file, + ); + $obj->ordered_samples(); + +=cut + +use Moose; +use Bio::TreeIO; + +has 'tree_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'tree_format' => ( is => 'ro', isa => 'Str', default => 'newick' ); +has 'ordered_samples' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build_ordered_samples' ); + +# 'b|breadth' first order or 'd|depth' first order +has 'search_strategy' => ( is => 'ro', isa => 'Str', default => 'depth' ); +has 'sortby' => (is => 'ro', isa => 'Maybe[Str]'); + + +sub _build_ordered_samples { + my ($self) = @_; + my $input = Bio::TreeIO->new( + -file => $self->tree_file, + -format => $self->tree_format + ); + my $tree = $input->next_tree; + my @taxa; + for my $leaf_node ( $tree->get_nodes($self->search_strategy,$self->sortby) ) { + if($leaf_node->is_Leaf) + { + push( @taxa, $leaf_node->id ); + } + } + return \@taxa; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/SequenceLengths.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,43 @@ +package Bio::Roary::SequenceLengths; + +# ABSTRACT: Take in a fasta file and create a hash with the length of each sequence + +=head1 SYNOPSIS + +Add labels to the groups + use Bio::Roary::SequenceLengths; + + my $obj = Bio::Roary::SequenceLengths->new( + fasta_file => 'abc.fa', + ); + $obj->sequence_lengths; + +=cut + +use Moose; +use Bio::SeqIO; +use Bio::Roary::Exceptions; + +has 'fasta_file' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'sequence_lengths' => ( is => 'ro', isa => 'HashRef', lazy => 1, builder => '_build_sequence_lengths' ); +has '_input_seqio' => ( is => 'ro', isa => 'Bio::SeqIO', lazy => 1, builder => '_build__input_seqio' ); + +sub _build__input_seqio { + my ($self) = @_; + return Bio::SeqIO->new( -file => $self->fasta_file, -format => 'Fasta' ); +} + +sub _build_sequence_lengths { + my ($self) = @_; + + my %sequence_lengths; + while ( my $input_seq = $self->_input_seqio->next_seq() ) { + $sequence_lengths{ $input_seq->display_id } = $input_seq->length(); + } + return \%sequence_lengths; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/SortFasta.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,127 @@ +package Bio::Roary::SortFasta; + +# ABSTRACT: sort a fasta file by name + +=head1 SYNOPSIS + +sort a fasta file by name + use Bio::Roary::SortFasta; + + my $obj = Bio::Roary::SortFasta->new( + input_filename => 'infasta.fa', + ); + $obj->sort_fasta->replace_input_with_output_file; + +=cut + +use Moose; +use File::Copy; +use Bio::SeqIO; + +has 'input_filename' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'output_filename' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_output_filename' ); +has 'make_multiple_of_three' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'remove_nnn_from_end' => ( is => 'ro', isa => 'Bool', default => 0 ); +has 'similarity' => ( is => 'rw', isa => 'Num', default => 1 ); +has 'sequences_unaligned' => ( is => 'rw', isa => 'Bool', default => 0 ); + +has '_input_seqio' => ( is => 'ro', isa => 'Bio::SeqIO', lazy => 1, builder => '_build__input_seqio' ); +has '_output_seqio' => ( is => 'ro', isa => 'Bio::SeqIO', lazy => 1, builder => '_build__output_seqio' ); + +sub _build_output_filename { + my ($self) = @_; + return $self->input_filename . ".sorted.fa"; +} + +sub _build__input_seqio { + my ($self) = @_; + return Bio::SeqIO->new( -file => $self->input_filename, -format => 'Fasta' ); +} + +sub _build__output_seqio { + my ($self) = @_; + return Bio::SeqIO->new( -file => ">" . $self->output_filename, -format => 'Fasta' ); +} + +sub _add_padding_to_make_sequence_length_multiple_of_three { + my ( $self, $input_seq ) = @_; + + my $seq_length = $input_seq->length(); + if ( $seq_length % 3 == 1 ) { + $input_seq->seq( $input_seq->seq() . "NN" ); + } + elsif ( $seq_length % 3 == 2 ) { + $input_seq->seq( $input_seq->seq() . "N" ); + } + + return $input_seq; +} + +sub _remove_nnn_from_all_sequences { + my ( $self, $input_sequences ) = @_; + + for my $sequence_name ( sort keys %{$input_sequences} ) { + my $sequence = $input_sequences->{$sequence_name}->seq(); + $sequence =~ s/NNN$//i; + $input_sequences->{$sequence_name}->seq($sequence); + } + return $input_sequences; +} + +sub sort_fasta { + my ($self) = @_; + + my %input_sequences; + + my $nnn_at_end_of_all_sequences = 1; + my $sequence; + my $variation_detected = 0; + while ( my $input_seq = $self->_input_seqio->next_seq() ) { + $sequence = $input_seq->seq if(!defined($sequence)); + $self->_add_padding_to_make_sequence_length_multiple_of_three($input_seq) if ( $self->make_multiple_of_three ); + $nnn_at_end_of_all_sequences = 0 if ( $nnn_at_end_of_all_sequences == 1 && !( $input_seq->seq() =~ /NNN$/i ) ); + $input_sequences{ $input_seq->display_id } = $input_seq; + + my $factor = $self->_percentage_similarity($sequence, $input_seq->seq); + if($factor < $self->similarity) + { + $self->similarity($factor); + } + } + + $self->_remove_nnn_from_all_sequences( \%input_sequences ) if ( $self->remove_nnn_from_end && $nnn_at_end_of_all_sequences ); + + my $sequence_length = 0; + my $sequences_unaligned = 0; + for my $sequence_name ( sort keys %input_sequences ) { + $sequence_length = $input_sequences{$sequence_name}->length if($sequence_length == 0); + $self->sequences_unaligned(1) if($input_sequences{$sequence_name}->length != $sequence_length); + $self->_output_seqio->write_seq( $input_sequences{$sequence_name} ); + } + return $self; +} + +sub replace_input_with_output_file { + my ($self) = @_; + move( $self->output_filename, $self->input_filename ); + return $self; +} + +sub _percentage_similarity +{ + my ($self, $string1, $string2) = @_; + my $num_differences = 0; + my $string1_length = length($string1); + for(my $i = 0; $i < $string1_length && $i< length($string2); $i++) + { + $num_differences++ if( substr($string1, $i, 1) ne substr($string2, $i, 1)); + } + return 1 if($num_differences == 0); + return 0 if($string1_length == 0); + return (1.0 - ($num_differences/$string1_length)); +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/SplitGroups.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,328 @@ +package Bio::Roary::SplitGroups; + +# ABSTRACT: split groups + +=head1 SYNOPSIS + + use Bio::Roary::SplitGroups; + +=cut + +use Moose; +use Bio::Roary::AnalyseGroups; +use File::Path qw(make_path remove_tree); +use File::Copy qw(move); +use File::Temp; +use File::Basename; +use File::Slurper 'read_lines'; +use Cwd; + + +has 'groupfile' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'fasta_files' => ( is => 'ro', isa => 'ArrayRef', required => 1 ); +has 'outfile' => ( is => 'ro', isa => 'Str', required => 1 ); +has 'iterations' => ( is => 'ro', isa => 'Int', default => 5 ); +has 'dont_delete' => ( is => 'ro', isa => 'Bool', default => 0 ); + +has '_neighbourhood_size' => ( is => 'ro', isa => 'Int', default => 5 ); + +has '_group_filelist' => ( is => 'rw', isa => 'ArrayRef', lazy_build => 1 ); +has '_tmp_dir_object' => ( is => 'ro', isa => 'File::Temp::Dir', default => sub { File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); } ); +has '_tmp_dir' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build__tmp_dir' ); + +has '_analyse_groups_obj' => ( is => 'ro', lazy_build => 1 ); +has '_genes_to_files' => ( is => 'ro', lazy_build => 1 ); +has '_genes_to_groups' => ( is => 'rw', isa => 'HashRef' ); + +has '_first_gene_of_group_which_doesnt_have_paralogs' => ( is => 'rw', isa => 'HashRef', default => sub {{}} ); + +has '_genes_to_neighbourhood' => ( is => 'rw', isa => 'HashRef', lazy => 1, builder => '_build__genes_to_neighbourhood' ); + + +has '_gene_files_temp_dir_obj' => + ( is => 'ro', isa => 'File::Temp::Dir', default => sub { File::Temp->newdir( DIR => getcwd, CLEANUP => 1 ); } ); + + +has '_do_sorting' => ( is => 'rw', isa => 'Bool', default => 0 ); # set to 1 for testing only + +sub _build__tmp_dir { + my ($self) = @_; + return $self->_tmp_dir_object->dirname(); +} + +sub _build__analyse_groups_obj { + my ( $self ) = @_; + + return Bio::Roary::AnalyseGroups->new( + fasta_files => $self->fasta_files, + groups_filename => $self->groupfile + ); +} + +sub _build__genes_to_files { + my ( $self ) = @_; + return $self->_analyse_groups_obj->_genes_to_file; +} + +sub _build__group_filelist { + my ( $self ) = @_; + my $tmp = $self->_tmp_dir; + + my @filelist = ( $self->groupfile ); + for my $i ( 1..($self->iterations - 1) ){ + push( @filelist, "$tmp/group_$i" ); + } + push( @filelist, $self->outfile ); + + return \@filelist; +} + +sub _build__genes_to_neighbourhood +{ + my ( $self ) = @_; + my %genes_to_neighbourhood; + for my $fasta_file( @{$self->fasta_files}) + { + my ( $filename, $directories, $suffix ) = fileparse( $fasta_file, qr/\.[^.]*/ ); + system('grep \> '.$fasta_file.'| sed \'s/>//\' >'.$self->_gene_files_temp_dir_obj."/".$filename.$suffix ) ; + + my @genes = read_lines($self->_gene_files_temp_dir_obj."/".$filename.$suffix ); + + for(my $i =0; $i< @genes; $i++) + { + for(my $offset = 1; $offset <= $self->_neighbourhood_size; $offset++) + { + if($i -$offset >= 0) + { + push(@{$genes_to_neighbourhood{$genes[$i]}}, $genes[$i - $offset ]); + } + if($i +$offset <@genes) + { + push(@{$genes_to_neighbourhood{$genes[$i]}}, $genes[$i + $offset ]); + } + } + } + } + return \%genes_to_neighbourhood; +} + +sub split_groups { + my ( $self ) = @_; + + # iteratively + for my $x ( 0..($self->iterations - 1) ){ + my ( $in_groups, $out_groups ) = $self->_get_files_for_iteration( $x ); + + # read in groups, check paralogs and split + my @newgroups; + my $any_paralogs = 0; + $self->_set_genes_to_groups( $in_groups ); + open( my $group_handle, '<', $in_groups ); + while( my $line = <$group_handle> ){ + my @group = split( /\s+/, $line ); + + if($self->_first_gene_of_group_which_doesnt_have_paralogs->{$group[0]}) + { + push( @newgroups, \@group ); + } + elsif(@group == 1) + { + $self->_first_gene_of_group_which_doesnt_have_paralogs->{$group[0]}++; + push( @newgroups, \@group ); + } + elsif( $self->_contains_paralogs( \@group ) ){ + my @true_orthologs = @{ $self->_true_orthologs( \@group ) }; + push( @newgroups, @true_orthologs); + $any_paralogs = 1; + } + else { + $self->_first_gene_of_group_which_doesnt_have_paralogs->{$group[0]}++; + push( @newgroups, \@group ); + } + } + close( $group_handle ); + + # check if next iteration required, move output if not + unless ($any_paralogs){ + move $in_groups, $self->outfile; # input file will be the same as new output file if no splitting has been performed + last; + } + + # write split groups to file + open( my $outfile_handle, '>', $out_groups ); + for my $g ( @newgroups ) { + my $group_str = join( "\t", @{ $g } ) . "\n"; + print $outfile_handle $group_str; + } + close( $outfile_handle ); + } +} + +sub _set_genes_to_groups { + my ( $self, $groupfile ) = @_; + + my %genes2groups; + my $c = 0; + open( my $gfh, '<', $groupfile ); + while( my $line = <$gfh> ){ + chomp $line; + my @genes = split( /\s+/, $line ); + for my $g ( @genes ){ + $genes2groups{$g} = $c; + } + $c++; + } + close($gfh); + $self->_genes_to_groups( \%genes2groups ); +} + +sub _update_genes_to_groups { + my ( $self, $groups ) = @_; + + my %genes2groups = %{ $self->_genes_to_groups }; + my $c = 1; + for my $g ( @{ $groups } ){ + for my $h ( @{ $g } ){ + $genes2groups{$h} .= ".$c"; + } + $c++; + } + + $self->_genes_to_groups( \%genes2groups ); +} + +sub _get_files_for_iteration { + my ( $self, $n ) = @_; + my @filelist = @{ $self->_group_filelist }; + return ( $filelist[$n], $filelist[$n+1] ); +} + +sub _contains_paralogs { + my ( $self, $group ) = @_; + + return 1 if defined $self->_find_paralogs( $group ); + return 0; +} + +sub _find_paralogs { + my ( $self, $group ) = @_; + + my %occ; + for my $gene ( @{ $group } ){ + my $gene_file = $self->_genes_to_files->{ $gene }; + push( @{ $occ{$gene_file} }, $gene ); + } + + # pick the smallest number of paralogs + my $smallest_number = 1000000; + my $smallest_group; + for my $v ( values %occ ){ + my $v_len = scalar( @{$v} ); + if ( $v_len < $smallest_number && $v_len > 1 ){ + $smallest_number = $v_len; + $smallest_group = $v; + } + } + return $smallest_group if ( defined $smallest_group ); + + return undef; +} + +sub _true_orthologs { + my ( $self, $group ) = @_; + + # first, create CGN hash for group + my %cgns; + for my $g ( @{ $group } ){ + $cgns{$g} = $self->_parse_gene_neighbourhood( $g ); + } + + # finding paralogs in the group + my @paralogs = @{ $self->_find_paralogs( $group ) }; + my @paralog_cgns_groups; + for my $p ( @paralogs ){ + my %paralog_groups ; + for my $paralog_gene (@{$cgns{$p}}) + { + my $gene_paralog_group = $self->_genes_to_groups->{$paralog_gene}; + next unless( defined($gene_paralog_group)); + $paralog_groups{$self->_genes_to_groups->{$paralog_gene}}++; + } + push( @paralog_cgns_groups, \%paralog_groups ); + } + + # create data structure to hold new groups + my @new_groups; + for my $p ( @paralogs ){ + push( @new_groups, [ $p ] ); + } + push( @new_groups, [] ); # extra "leftovers" array to gather genes that don't share CGN with anything + + # cluster other members of the group to their closest match + for my $g ( @{ $group } ){ + next if ( grep {$_ eq $g} @paralogs ); + my $closest = $self->_closest_cgn( $cgns{$g}, \@paralog_cgns_groups ); + push( @{ $new_groups[$closest] }, $g ); + } + + # check for "leftovers", remove if absent + my $last = pop @new_groups; + push( @new_groups, $last ) if ( @$last > 0 ); + + # sort + if ( $self->_do_sorting ){ + my @sorted_new_groups; + for my $gr ( @new_groups ){ + my @s_gr = sort @{ $gr }; + push( @sorted_new_groups, \@s_gr ); + } + return \@sorted_new_groups; + } + + return \@new_groups; +} + +sub _closest_cgn { + my ( $self, $cgn, $p_cgns ) = @_; + + my @paralog_cgns = @{ $p_cgns }; + my $best_score = 0; + my $bs_index = -1; # return -1 to add to "leftovers" array if no better score is found + for my $i ( 0..$#paralog_cgns ){ + my $p_cgn = $paralog_cgns[$i]; + my $score = $self->_shared_cgn_score( $cgn, $p_cgn ); + if ( $score > $best_score ){ + $best_score = $score; + $bs_index = $i; + } + } + return $bs_index; +} + +sub _shared_cgn_score { + my ( $self, $cgn1, $cgn2 ) = @_; + + my $total_shared = 0; + for my $i ( @{ $cgn1 } ){ + my $input_group = $self->_genes_to_groups->{$i}; + next unless(defined($input_group)); + $total_shared++ if($cgn2->{$input_group}); + } + if( (scalar @{ $cgn1 }) == 0) + { + return 0; + } + my $score = $total_shared/scalar @{ $cgn1 }; + return $score; +} + +sub _parse_gene_neighbourhood { + my ( $self, $gene_id ) = @_; + + return $self->_genes_to_neighbourhood->{$gene_id }; + +} + +no Moose; +__PACKAGE__->meta->make_immutable; +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/SpreadsheetRole.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,66 @@ +package Bio::Roary::SpreadsheetRole; + +# ABSTRACT: Read and write a spreadsheet + +=head1 SYNOPSIS + +with 'Bio::Roary::SpreadsheetRole'; + +=cut +use Moose::Role; + +has 'spreadsheet' => ( is => 'ro', isa => 'Str', required => 1 ); +has '_fixed_headers' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__fixed_headers' ); +has '_input_spreadsheet_fh' => ( is => 'ro', lazy => 1, builder => '_build__input_spreadsheet_fh' ); +has '_output_spreadsheet_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_spreadsheet_fh' ); +has '_fixed_headers' => ( is => 'ro', isa => 'ArrayRef', lazy => 1, builder => '_build__fixed_headers' ); +has '_num_fixed_headers' => ( is => 'ro', isa => 'Int', lazy => 1, builder => '_build__num_fixed_headers' ); +has '_csv_parser' => ( is => 'ro', isa => 'Text::CSV',lazy => 1, builder => '_build__csv_parser' ); +has '_csv_output' => ( is => 'ro', isa => 'Text::CSV',lazy => 1, builder => '_build__csv_output' ); + +sub BUILD +{ + my ($self) = @_; + $self->_input_spreadsheet_fh; +} + +sub _build__fixed_headers +{ + my ($self) = @_; + my @fixed_headers = @{Bio::Roary::GroupStatistics->fixed_headers()}; + return \@fixed_headers; +} + +sub _build__csv_parser +{ + my ($self) = @_; + return Text::CSV->new( { binary => 1, always_quote => 1} ); +} + +sub _build__csv_output +{ + my ($self) = @_; + return Text::CSV->new( { binary => 1, always_quote => 1, eol => "\r\n"} ); +} + +sub _build__input_spreadsheet_fh { + my ($self) = @_; + open( my $fh, $self->spreadsheet ) or die "Couldnt open input spreadsheet: ".$self->spreadsheet ; + return $fh; +} + +sub _build__output_spreadsheet_fh { + my ($self) = @_; + open( my $fh, '>', $self->output_filename ); + return $fh; +} + +sub _build__num_fixed_headers +{ + my ($self) = @_; + return @{$self->_fixed_headers}; +} + + + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/lib/Bio/Roary/UniqueGenesPerSample.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,80 @@ +package Bio::Roary::UniqueGenesPerSample; + +# ABSTRACT: Take in the clustered file and produce a sorted file with the frequency of each samples unique genes + +=head1 SYNOPSIS + +Take in the clustered file and produce a sorted file with the frequency of each samples unique genes + use Bio::Roary::UniqueGenesPerSample; + + my $obj = Bio::Roary::SequenceLengths->new( + clustered_proteins => 'clustered_proteins', + output_filename => 'output_filename', + ); + $obj->write_unique_frequency; + +=cut + +use Moose; +use Bio::Roary::Exceptions; + +has 'clustered_proteins' => ( is => 'rw', isa => 'Str', default => 'clustered_proteins' ); +has 'output_filename' => ( is => 'rw', isa => 'Str', default => 'unique_genes_per_sample.tsv' ); + +has '_output_fh' => ( is => 'ro', lazy => 1, builder => '_build__output_fh' ); + +sub _build__output_fh { + my ($self) = @_; + open( my $fh, '>', $self->output_filename ) + or Bio::Roary::Exceptions::CouldntWriteToFile->throw( error => "Couldnt write output file:" . $self->output_filename ); + return $fh; +} + +#group_17585: 14520_6#21_00645 +sub _sample_to_gene_freq { + my ($self) = @_; + + open( my $input_fh, $self->clustered_proteins ) + or Bio::Roary::Exceptions::FileNotFound->throw( error => "Couldnt read input file:" . $self->clustered_proteins ); + + my %sample_to_gene_freq; + while (<$input_fh>) { + chomp; + my $line = $_; + next if ( length( $line ) < 6 ); + if ( $line =~ /^.+: ([^\s]+)$/ ) { + my $gene_id = $1; + if ( $gene_id =~ /^(.+)_[\d]+$/ ) { + my $sample_name = $1; + $sample_to_gene_freq{$sample_name}++; + } + else { + # gene id may not be valid so ignore + next; + } + } + else { + # its either an invalid line or theres more than 1 gene in the cluster + next; + } + } + + return \%sample_to_gene_freq; +} + +sub write_unique_frequency { + my ($self) = @_; + + my %sample_to_gene_freq = %{$self->_sample_to_gene_freq}; + + for my $sample ( sort { $sample_to_gene_freq{$b} <=> $sample_to_gene_freq{$a} || $a cmp $b } keys %sample_to_gene_freq ) { + print { $self->_output_fh } $sample . "\t" . $sample_to_gene_freq{$sample} . "\n"; + } + close($self->_output_fh); + return 1; +} + +no Moose; +__PACKAGE__->meta->make_immutable; + +1;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/00_requires_external.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,20 @@ +#!/usr/bin/env perl + +use Test::Most; +use FindBin; +plan tests => 8; +bail_on_fail if 0; +use Env::Path 'PATH'; + + +my $OPSYS = $^O; +my $BINDIR = "$FindBin::RealBin/../binaries/$OPSYS"; + +for my $dir ($BINDIR, $FindBin::RealBin) { + if (-d $dir) { + $ENV{PATH} .= ":$dir"; + } +} + +ok(scalar PATH->Whence($_), "$_ in PATH") for qw(blastp makeblastdb mcl mcxdeblast bedtools prank parallel mafft); +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/AccessoryBinaryFasta.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,72 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::AccessoryBinaryFasta'); +} + +my $dummy_annotate_groups = Bio::Roary::AnnotateGroups->new( + gff_files => ['t/data/query_1.gff','t/data/query_2.gff','t/data/query_3.gff'], + groups_filename => 't/data/query_groups', +); + +my $dummy_analyse_groups = Bio::Roary::AnalyseGroups->new( + fasta_files => ['t/data/query_1.fa','t/data/query_2.fa','t/data/query_3.fa'], + groups_filename => 't/data/query_groups' +); + + + +ok( + my $obj = Bio::Roary::AccessoryBinaryFasta->new( + input_files => [ 't/abc/aaa', 't/abc/bbb', 't/abc/ccc', 't/abc/ddd' ], + groups_to_files => + { + group_1 => { 't/abc/aaa' => [1] }, + group_2 => { 't/abc/aaa' => [1], 't/abc/bbb' => [2] }, + group_3 => { 't/abc/aaa' => [1], 't/abc/bbb' => [2], 't/abc/ccc' => [3] }, + group_4 => { 't/abc/aaa' => [1], 't/abc/bbb' => [2], 't/abc/ccc' => [3], 't/abc/ddd' => [4] }, + }, + _lower_bound_value => 0, + _upper_bound_value => 4, + annotate_groups_obj => $dummy_annotate_groups, + analyse_groups_obj => $dummy_analyse_groups + ), + 'initialise accessory binary fasta file' +); + +ok( $obj->create_accessory_binary_fasta(), 'create output file' ); + +compare_ok( 'accessory_binary_genes.fa', 't/data/expected_accessory_binary_genes.fa','binary accessory fasta file created'); + + +ok( + $obj = Bio::Roary::AccessoryBinaryFasta->new( + input_files => [ 'aaa', 'bbb', 'ccc', 'ddd' ], + groups_to_files => + { + group_1 => { 'aaa' => [1] }, + group_2 => { 'aaa' => [1], 'bbb' => [2] }, + group_3 => { 'aaa' => [1], 'bbb' => [2], 'ccc' => [3] }, + group_4 => { 'aaa' => [1], 'bbb' => [2], 'ccc' => [3], 'ddd' => [4] }, + }, + annotate_groups_obj => $dummy_annotate_groups, + analyse_groups_obj => $dummy_analyse_groups + ), + 'initialise accessory binary fasta file bounded' +); + +is($obj->_lower_bound_value, 1, 'lower bound value'); +is($obj->_upper_bound_value, 3, 'upper bound value'); +ok( $obj->create_accessory_binary_fasta(), 'create output file bounded' ); + +compare_ok( 'accessory_binary_genes.fa', 't/data/expected_accessory_binary_genes_bounded.fa','binary accessory fasta file created bounded'); + + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/AccessoryClustering.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,104 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::AccessoryClustering'); +} + +my $identity_to_num_clusters = { + '1' => [ 10, 10 ], + '0.99' => [ 4, 5 ], + '0.95' => [ 2, 4 ], + '0.90' => [ 1, 1 ], +}; + +for my $percentage_identity ( keys %{$identity_to_num_clusters} ) { + ok( + my $obj = Bio::Roary::AccessoryClustering->new( + input_file => 't/data/input_accessory_binary.fa', + identity => $percentage_identity + ), + "initialise object with identity of $percentage_identity" + ); + ok( my @clusters = keys %{ $obj->clusters_to_samples }, "build the clusters for $percentage_identity" ); + ok( $obj->sample_weights, "build samples weights for $percentage_identity" ); + ok( $obj->samples_to_clusters, "build samples to clusters for $percentage_identity" ); + + my $min_cluster_size = $identity_to_num_clusters->{$percentage_identity}->[0]; + my $max_cluster_size = $identity_to_num_clusters->{$percentage_identity}->[1]; + ok( + ( @clusters >= $min_cluster_size && @clusters <= $max_cluster_size ? 1 : 0 ), + "check number of clusters as expected, allowing for some variation for $percentage_identity" + ); +} + +my $obj = Bio::Roary::AccessoryClustering->new( + input_file => 't/data/input_accessory_binary.fa', + identity => 0.9 +); +is_deeply( + $obj->samples_to_clusters, + { + 'seq6' => 'seq1', + 'seq3' => 'seq1', + 'seq7' => 'seq1', + 'seq9' => 'seq1', + 'seq10' => 'seq1', + 'seq2' => 'seq1', + 'seq8' => 'seq1', + 'seq1' => 'seq1', + 'seq4' => 'seq1', + 'seq5' => 'seq1' + }, + 'samples to clusters' +); +my @sample_weights = values %{ $obj->sample_weights }; +is_deeply( \@sample_weights, [ 0.1, 0.1, 0.1, 0.1, 0.1, 0.1, 0.1, 0.1, 0.1, 0.1 ], 'sample weights' ); + +$obj = Bio::Roary::AccessoryClustering->new( + input_file => 't/data/input_accessory_binary.fa', + identity => 1 +); + +is_deeply( + $obj->samples_to_clusters, + { + 'seq6' => 'seq6', + 'seq3' => 'seq3', + 'seq7' => 'seq7', + 'seq9' => 'seq9', + 'seq10' => 'seq10', + 'seq2' => 'seq2', + 'seq8' => 'seq8', + 'seq1' => 'seq1', + 'seq4' => 'seq4', + 'seq5' => 'seq5' + }, + 'samples to clusters' +); +@sample_weights = values %{ $obj->sample_weights }; +is_deeply( \@sample_weights, [ 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 ], 'sample weights' ); + + + +$obj = Bio::Roary::AccessoryClustering->new( + input_file => 't/data/large_accessory_binary_genes.fa' +); + +ok( my @clusters = keys %{ $obj->clusters_to_samples }, "build the clusters for large_accessory_binary_genes.fa" ); +ok( $obj->sample_weights, "build samples weights for large_accessory_binary_genes.fa" ); +ok( $obj->samples_to_clusters, "build samples to clusters for large_accessory_binary_genes.fa" ); + +ok( + ( @clusters >= 6 && @clusters <= 14 ? 1 : 0 ), + "check number of clusters as expected, allowing for some variation for large_accessory_binary_genes.fa" +); + +unlink('_accessory_clusters'); +unlink('_accessory_clusters.clstr'); +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/AnalyseGroups.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,70 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::AnalyseGroups'); +} + +ok( + my $plot_groups_obj = Bio::Roary::AnalyseGroups->new( + fasta_files => [ 't/data/example_1.faa', 't/data/example_2.faa' ], + groups_filename => 't/data/example_groups' + ), + 'initialise with two fasta files' +); + +is( $plot_groups_obj->_number_of_isolates, 2, 'Number of isolates' ); + +is_deeply( + $plot_groups_obj->_genes_to_file, + { + '1234#10_00003' => 't/data/example_1.faa', + '1234#10_00017' => 't/data/example_2.faa', + '1234#10_00001' => 't/data/example_1.faa', + '1234#10_00016' => 't/data/example_2.faa', + '1234#10_00007' => 't/data/example_1.faa', + '1234#10_00006' => 't/data/example_1.faa', + '1234#10_00018' => 't/data/example_2.faa', + '1234#10_00005' => 't/data/example_1.faa', + '1234#10_00002' => 't/data/example_1.faa' + }, + 'genes map to the correct files' +); + + +is_deeply( + $plot_groups_obj->_groups_to_genes, + { + 'group_3' => [ '1234#10_00005', '1234#10_00005' ], + 'group_5' => [ '1234#10_00016' ], + 'group_4' => [ '1234#10_00006', '1234#10_00007' ], + 'group_6' => [ '1234#10_00017' ], + 'group_1' => [ '1234#10_00001', '1234#10_00002' ], + 'group_2' => [ '1234#10_00003', '1234#10_00018', '1234#10_00005' ] + }, + 'Groups to genes hash' +); + +is_deeply( + $plot_groups_obj->_genes_to_groups, + { + '1234#10_00003' => 'group_2', + '1234#10_00017' => 'group_6', + '1234#10_00001' => 'group_1', + '1234#10_00016' => 'group_5', + '1234#10_00007' => 'group_4', + '1234#10_00006' => 'group_4', + '1234#10_00018' => 'group_2', + '1234#10_00005' => 'group_3', + '1234#10_00002' => 'group_1' + }, + 'genes to groups hash' +); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/AnnotateGroups.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,119 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Moose; +use Test::Files; +use File::Slurper qw(read_lines); +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::AnnotateGroups'); +} + +my $obj; + +ok( + $obj = Bio::Roary::AnnotateGroups->new( + gff_files => [ 't/data/query_1.gff', 't/data/query_2.gff', 't/data/query_3.gff' ], + groups_filename => 't/data/query_groups', + ), + 'initalise' +); + +ok( $obj->reannotate, 'reannotate' ); +is_deeply( + $obj->_ids_to_gene_size, + { + 'abc_00012' => 188, + '2_3' => 1001, + '1_1' => 959, + 'abc_00004' => 716, + '3_3' => 1001, + '3_2' => 725, + '2_2' => 725, + 'abc_00006' => 725, + 'abc_00008' => 935, + '1_6' => 134, + 'abc_00015' => 134, + '3_1' => 959, + 'abc_00014' => 134, + 'abc_01705' => 1556, + 'abc_00013' => 75, + 'abc_00010' => 227, + '1_2' => 725, + 'abc_00011' => 947, + 'abc_00016' => 686, + '2_7' => 134, + '1_3' => 1001, + '2_1' => 959, + '3_5' => 686, + 'abc_00002' => 146, + 'abc_00003' => 197 + }, + 'gene lengths as expected' +); + +is_deeply( + $obj->group_nucleotide_lengths, + { + 'group_3' => { + 'average' => 1001, + 'min' => 1001, + 'max' => 1001 + }, + 'group_5' => { + 'average' => 686, + 'min' => 686, + 'max' => 686 + }, + 'group_7' => { + 'average' => 134, + 'min' => 134, + 'max' => 134 + }, + 'group_1' => { + 'average' => 959, + 'min' => 959, + 'max' => 959 + }, + 'group_6' => { + 'average' => 134, + 'min' => 134, + 'max' => 134 + }, + 'group_2' => { + 'average' => 725, + 'min' => 725, + 'max' => 725 + } + }, + 'group lengths' +); + +compare_files( 'reannotated_groups_file', 't/data/expected_reannotated_groups_file', 'groups reannotated as expected' ); + +unlink('reannotated_groups_file'); + + +ok( + $obj = Bio::Roary::AnnotateGroups->new( + gff_files => [ 't/data/gene_name_field/annotation_1.gff', 't/data/gene_name_field/annotation_2.gff' ], + groups_filename => 't/data/gene_name_field/groups', + ), + 'initalise where gene key is replaced by Name' +); +ok( $obj->reannotate, 'reannotate' ); +compare_files('reannotated_groups_file', + 't/data/gene_name_field/expected_reannotated_groups_file', + 'Reannoated groups file has the gene names transferred' +); +unlink('reannotated_groups_file'); + +done_testing(); +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/AssemblyStatistics.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,121 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::AssemblyStatistics'); +} + +my $obj; +ok( $obj = Bio::Roary::AssemblyStatistics->new( spreadsheet => 't/data/input_block_spreadsheet.csv' ), 'initialise spreadsheet' ); + +my @genes = sort keys %{ $obj->_genes_to_rows }; +is_deeply( + \@genes, + [ + 'SBOV29371', 'SBOV38871', 'SBOV43201', 'STY3593', 'STY4162', 'bcsC_1', 'betC_2', 'comM_2', + 'dmsA4_1', 'dosC', 'dsbA_3', 'fadH_1', 'fimD_3', 'fliB_2', 'fliF', 'ftsN', + 'gatY_1', 'glfT2', 'group_1000', 'group_1001', 'group_1004', 'group_1006', 'group_1009', 'group_220', + 'group_277', 'group_281', 'group_283', 'group_284', 'group_288', 'hemD', 'hsrA_2', 'icsA', + 'kdpD', 'ligB_1', 'marT_1', 'nepI', 'rffH', 'rpoS', 'selA_1', 'speC_3', + 'sptP', 'srgB', 'stp', 'tmcA', 'tub', 'yadA', 'ybbW_1', 'yhaO_2', + 'yicJ_1', 'yigZ' + ], + 'all gene rows available' +); + +is_deeply( + $obj->ordered_genes, + [ + 'dmsA4_1', 'group_1000', 'group_1001', 'SBOV43201', 'dosC', 'stp', 'fliB_2', 'fliF', + 'dsbA_3', 'srgB', 'fimD_3', 'betC_2', 'tmcA', 'tub', 'rffH', 'hemD', + 'group_1006', 'STY3593', 'group_1004', 'yigZ', 'group_220', 'glfT2', 'kdpD', 'speC_3', + 'ybbW_1', 'sptP', 'SBOV29371', 'rpoS', 'fadH_1', 'yhaO_2', 'bcsC_1', 'STY4162', + 'yadA', 'ligB_1', 'icsA', 'marT_1', 'selA_1', 'nepI', 'gatY_1', 'SBOV38871', + 'group_288', 'hsrA_2', 'group_281', 'group_283', 'group_284', 'yicJ_1', 'ftsN', 'group_277', + 'group_1009', 'comM_2' + ], + 'ordered genes' +); + +is_deeply( + $obj->sample_names_to_column_index, + { + 'threeblocks' => 18, + 'nocontigs' => 17, + 'contigwithgaps' => 16, + 'oneblock' => 14, + 'threeblocksinversion' => 19, + 'oneblockrev' => 15 + }, + 'sample names to column index' +); + +is_deeply( $obj->_sample_statistics('oneblock'), { num_blocks => 1, largest_block_size => 50 }, 'one block' ); +is_deeply( $obj->_sample_statistics('oneblockrev'), { num_blocks => 1, largest_block_size => 50 }, 'one block reversed' ); +is_deeply( + $obj->_sample_statistics('contigwithgaps'), + { num_blocks => 1, largest_block_size => 50 }, + 'one block where there are gaps everywhere' +); +is_deeply( $obj->_sample_statistics('nocontigs'), { num_blocks => 50, largest_block_size => 1 }, 'no contiguous blocks' ); +is_deeply( $obj->_sample_statistics('threeblocks'), { num_blocks => 3, largest_block_size => 21 }, 'three blocks' ); +is_deeply( + $obj->_sample_statistics('threeblocksinversion'), + { num_blocks => 3, largest_block_size => 20 }, + 'three blocks with an inversion in the middle' +); +is_deeply( $obj->gene_category_count, { core => 50 }, 'Gene category counts' ); + +# t/data/gene_category_count.csv +ok( $obj = Bio::Roary::AssemblyStatistics->new( spreadsheet => 't/data/gene_category_count.csv' ), + 'initialise spreadsheet with variable numbers of genes in samples' ); +is_deeply( + $obj->gene_category_count, + { + 'core' => 1, + 'cloud' => 4, + 'soft_core' => 1, + 'shell' => 24 + }, + 'Categories as expected' +); +ok($obj->create_summary_output, 'create output file'); +compare_ok('summary_statistics.txt', 't/data/expected_summary_statistics.txt', 'summary statistics as expected'); + + +# t/data/gene_category_count.csv +ok( $obj = Bio::Roary::AssemblyStatistics->new( spreadsheet => 't/data/gene_category_count.csv', core_definition => 0.9667 ), + 'initialise spreadsheet with core of 96.67%' ); +is_deeply( + $obj->gene_category_count, + { + 'core' => 1, + 'soft_core' => 1, + 'cloud' => 4, + 'shell' => 24 + }, + 'Categories as expected with cd of 96.67%' +); + +# t/data/gene_category_count.csv +ok( $obj = Bio::Roary::AssemblyStatistics->new( spreadsheet => 't/data/gene_category_count.csv', core_definition => 0.9666 ), + 'initialise spreadsheet with core of 96.66%' ); +is_deeply( + $obj->gene_category_count, + { + 'core' => 2, + 'cloud' => 4, + 'shell' => 24 + }, + 'Categories as expected with cd of 96.66%' +); + + +unlink('summary_statistics.txt'); +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/ChunkFastaFile.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,41 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::ChunkFastaFile'); +} + +my $obj; + + +ok($obj = Bio::Roary::ChunkFastaFile->new( + fasta_file => 't/data/example_1.faa', +),'initalise object to produce a single sequence file'); +is_deeply($obj->sequence_file_names, [$obj->_working_directory_name.'/0.seq'], 'a single sequence file is created' ); +compare_ok('t/data/example_1.faa', $obj->_working_directory_name.'/0.seq', 'input and output file should be the same'); + +ok($obj = Bio::Roary::ChunkFastaFile->new( + fasta_file => 't/data/example_1.faa', + target_chunk_size => 1, +),'initalise object to produce one file per sequence'); +is_deeply($obj->sequence_file_names, [ + $obj->_working_directory_name.'/0.seq', +$obj->_working_directory_name.'/1.seq', +$obj->_working_directory_name.'/2.seq', +$obj->_working_directory_name.'/3.seq', +$obj->_working_directory_name.'/4.seq', +$obj->_working_directory_name.'/5.seq', +], +'a sequence file per sequence is created' ); +compare_ok('t/data/expected_0.seq',$obj->_working_directory_name.'/0.seq', 'the first sequence file is as expected'); +compare_ok('t/data/expected_5.seq', $obj->_working_directory_name.'/5.seq', 'the last sequence file is as expected'); + + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CombinedProteome.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,39 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CombinedProteome'); +} + +my $obj; + +ok( + $obj = Bio::Roary::CombinedProteome->new( + proteome_files => [ 't/data/example_1.faa', 't/data/example_2.faa' ], + output_filename => 'combined_proteome.fa' + ), + 'initalise object with two files' +); + +ok( $obj->create_combined_proteome_file, 'Create a combined file' ); + +compare_ok('combined_proteome.fa', + 't/data/expected_combined_proteome.fa', + 'Combined file is as expected' +); +unlink('combined_proteome.fa'); + +throws_ok{ + Bio::Roary::CombinedProteome->new( + proteome_files => [ 't/data/example_1.faa', 't/data/non_existant_file.faa' ], + output_filename => 'combined_proteome.fa') + } qr /Cant open file/, 'non existant files should throw an error'; + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CommandLine/ExtractProteomeFromGff.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,28 @@ +#!/usr/bin/env perl +use Moose; +use Data::Dumper; +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CommandLine::ExtractProteomeFromGff'); +} +my $script_name = 'Bio::Roary::CommandLine::ExtractProteomeFromGff'; +my $cwd = getcwd(); +system('touch empty_file'); +my %scripts_and_expected_files = ( + 't/data/example_annotation.gff' => + ['example_annotation.gff.proteome.faa','t/data/example_annotation.gff.proteome.faa.expected' ], + '-t 1 t/data/example_annotation.gff' => + ['example_annotation.gff.proteome.faa','t/data/example_annotation.gff.proteome.faa.expected' ], + '-h' => + [ 'empty_file', 't/data/empty_file' ], +); + +mock_execute_script_and_check_output( $script_name, \%scripts_and_expected_files ); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CommandLine/GeneAlignmentFromNucleotides.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,41 @@ +#!/usr/bin/env perl +use Moose; +use Data::Dumper; +use Cwd; +use File::Which; + +BEGIN { unshift( @INC, './lib' ) } +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CommandLine::GeneAlignmentFromNucleotides'); +} + +my $script_name = 'Bio::Roary::CommandLine::GeneAlignmentFromNucleotides'; +my $cwd = getcwd(); +system('touch empty_file'); +system('cp t/data/nuc_to_be_aligned.fa t/data/f.fa'); +my %scripts_and_expected_files = ( + 't/data/f.fa' => [ 't/data/f.fa.aln', 't/data/expected_nuc_multifasta.fa.aln' ], + '-h' => [ 'empty_file', 't/data/empty_file' ], +); + +SKIP: +{ + skip "prank not installed", 2 unless ( which('prank') ); + mock_execute_script_and_check_output( $script_name, \%scripts_and_expected_files ); +} + +SKIP: +{ + skip "mafft not installed", 2 unless ( which('mafft') ); + system('cp t/data/nuc_to_be_aligned.fa t/data/f.fa'); + %scripts_and_expected_files = ( + '--mafft t/data/f.fa' => [ 't/data/f.fa.aln', 't/data/expected_nuc_multifasta_mafft.fa.aln' ], + ); + mock_execute_script_and_check_output( $script_name, \%scripts_and_expected_files ); +} + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CommandLine/ParallelAllAgainstAllBlastp.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,29 @@ +#!/usr/bin/env perl +use Moose; +use Data::Dumper; +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CommandLine::ParallelAllAgainstAllBlastp'); +} +my $script_name = 'Bio::Roary::CommandLine::ParallelAllAgainstAllBlastp'; +my $cwd = getcwd(); + +system('touch empty_file'); +my %scripts_and_expected_files = ( + '-m '.$cwd.'/t/bin/dummy_makeblastdb -b '.$cwd.'/t/bin/dummy_blastp -j Local t/data/example_1.faa' => + [ 'blast_results', 't/data/empty_file' ], + '-o different_output_filename -m '.$cwd.'/t/bin/dummy_makeblastdb -b '.$cwd.'/t/bin/dummy_blastp -j Local t/data/example_1.faa' => + [ 'different_output_filename', 't/data/empty_file' ], + '-h' => + [ 'empty_file', 't/data/empty_file' ], +); + +mock_execute_script_and_check_output( $script_name, \%scripts_and_expected_files ); + +done_testing(); \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CommandLine/QueryRoary.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,71 @@ +#!/usr/bin/env perl +use Moose; +use Data::Dumper; +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CommandLine::QueryRoary'); +} +my $script_name = 'Bio::Roary::CommandLine::QueryRoary'; +my $cwd = getcwd(); + +system('touch empty_file'); +system('touch empty_file2'); + +my %scripts_and_expected_files = ( + '-g t/data/example_groups -a gene_multifasta -n group_2 t/data/example_1.faa t/data/example_2.faa' => + [ 'pan_genome_results_group_2.fa', 't/data/expected_output_groups_group_2.fa' ], + '-g t/data/example_groups -a gene_multifasta -n group_5 t/data/example_1.faa t/data/example_2.faa ' => + [ 'pan_genome_results_group_5.fa', 't/data/expected_output_groups_group_5.fa' ], + '-g t/data/example_groups -a gene_multifasta -n group_2,group_5 t/data/example_1.faa t/data/example_2.faa' => + [ 'pan_genome_results_group_5.fa', 't/data/expected_output_groups_group_5.fa' ], + '-g t/data/example_groups -a gene_multifasta -n group_5,group_2 t/data/example_1.faa t/data/example_2.faa ' => + [ 'pan_genome_results_group_5.fa', 't/data/expected_output_groups_group_5.fa' ], + '-g t/data/example_groups -a gene_multifasta -n group_5,group_2 t/data/example_1.faa t/data/example_2.faa ' => + [ 'pan_genome_results_group_2.fa', 't/data/expected_output_groups_group_2.fa' ], + '-g t/data/example_groups -a gene_multifasta -n group_2,group_5 t/data/example_1.faa t/data/example_2.faa ' => + [ 'pan_genome_results_group_2.fa', 't/data/expected_output_groups_group_2.fa' ], + '-g t/data/example_groups -n group_which_doesnt_exist t/data/example_1.faa t/data/example_2.faa' => + [ 'empty_file', 't/data/empty_file' ], + '-g t/data/query_groups -a union t/data/query_1.fa t/data/query_2.fa t/data/query_3.fa' => + [ 'pan_genome_results', 't/data/expected_union_of_groups.gg' ], + '-g t/data/query_groups -a intersection t/data/query_1.fa t/data/query_2.fa t/data/query_3.fa' => + [ 'pan_genome_results', 't/data/expected_intersection_of_groups.gg' ], + '-g t/data/query_groups -a complement t/data/query_1.fa t/data/query_2.fa t/data/query_3.fa' => + [ 'pan_genome_results', 't/data/expected_complement_of_groups.gg' ], + '-g t/data/query_groups -a difference -i t/data/query_1.fa -t t/data/query_2.fa,t/data/query_3.fa' => + [ 'set_difference_unique_set_one', 't/data/expected_set_difference_unique_set_one' ], + '-g t/data/query_groups -a difference -i t/data/query_1.fa -t t/data/query_2.fa,t/data/query_3.fa' => + [ 'set_difference_unique_set_two', 't/data/expected_set_difference_unique_set_two' ], + '-g t/data/query_groups -a difference -i t/data/query_1.fa -t t/data/query_2.fa,t/data/query_3.fa' => + [ 'set_difference_common_set', 't/data/expected_set_difference_common_set' ], + '-g t/data/query_groups -a difference -i t/data/query_1.fa -t t/data/query_2.fa,t/data/query_3.fa ' => + [ 'set_difference_unique_set_two_statistics.csv', 't/data/expected_set_difference_unique_set_two_statistics.csv' ], + '-g t/data/query_groups -a difference -i t/data/query_1.fa -t t/data/query_2.fa,t/data/query_3.fa ' => + [ 'set_difference_unique_set_one_statistics.csv', 't/data/expected_set_difference_unique_set_one_statistics.csv' ], + '-g t/data/query_groups -a difference -i t/data/query_1.fa -t t/data/query_2.fa,t/data/query_3.fa ' => + [ 'set_difference_common_set_statistics.csv', 't/data/expected_set_difference_common_set_statistics.csv' ], + '-g t/data/query_groups -a difference -i t/data/query_1.gff -t t/data/query_2.gff,t/data/query_3.gff' => + [ 'set_difference_common_set_statistics.csv', 't/data/expected_gff_set_difference_common_set_statistics.csv' ], + '-h' => [ 'empty_file2', 't/data/empty_file' ], +); + +mock_execute_script_and_check_output_sorted( $script_name, \%scripts_and_expected_files ); + +unlink('set_difference_unique_set_two') if ( -e 'set_difference_unique_set_two' ); +unlink('set_difference_common_set') if ( -e 'set_difference_common_set' ); +unlink('pan_genome_results_group_5.fa') if ( -e 'pan_genome_results_group_5.fa' ); +unlink('gene_presence_absence.csv') if ( -e 'gene_presence_absence.csv' ); +unlink('set_difference_unique_set_two_statistics.csv') if ( -e 'set_difference_unique_set_two_statistics.csv' ); +unlink('set_difference_unique_set_one_statistics.csv') if ( -e 'set_difference_unique_set_one_statistics.csv' ); +unlink('set_difference_common_set_statistics.csv') if ( -e 'set_difference_common_set_statistics.csv' ); +unlink('pan_genome_reference.fa') if ( -e 'pan_genome_reference.fa' ); +unlink('set_difference_core_accessory_graph.dot') if ( -e 'set_difference_core_accessory_graph.dot' ); +unlink('set_difference_accessory_graph.dot') if ( -e 'set_difference_accessory_graph.dot' ); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CommandLine/Roary.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,188 @@ +#!/usr/bin/env perl +use Moose; +use Data::Dumper; +use File::Path qw( remove_tree); +use File::Which; +use File::Path qw(make_path); +use Cwd qw(abs_path getcwd); +use File::Find::Rule; + +#Test changes current working directory so relative paths can get out of sync +local $ENV{PERL5LIB} = join(':', ("$ENV{PERL5LIB}", abs_path('./lib'), abs_path('./t/lib'))); +local $ENV{PATH} = join(':', ("$ENV{PATH}", abs_path('./bin'))); + +BEGIN { unshift( @INC, abs_path('./lib') ) } +BEGIN { unshift( @INC, abs_path('./t/lib') ) } +with 'TestHelper'; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CommandLine::Roary'); + use_ok('Bio::Roary::CommandLine::CreatePanGenome'); + use Bio::Roary::SequenceLengths; +} +my $script_name = 'Bio::Roary::CommandLine::Roary'; +my $cwd = getcwd(); + +local $ENV{PATH} = "$ENV{PATH}:./bin"; +my %scripts_and_expected_files; +system('touch empty_file'); +cleanup_files(); + +%scripts_and_expected_files = ( + ' -j Parallel --dont_split_groups t/data/query_1.gff t/data/query_2.gff t/data/query_5.gff ' => + [ 'gene_presence_absence.csv', 't/data/overall_gene_presence_absence.csv' ], + ' -j Local -t 1 --dont_split_groups t/data/genbank_gbff/genbank1.gff t/data/genbank_gbff/genbank2.gff t/data/genbank_gbff/genbank3.gff' => + [ 'gene_presence_absence.csv', 't/data/genbank_gbff/genbank_gene_presence_absence.csv' ], + '-h' => [ 'empty_file', 't/data/empty_file' ], +); + +mock_execute_script_and_check_output_sorted( $script_name, \%scripts_and_expected_files, [ 0, 6, 7, 8, 9 ] ); + +cleanup_files(); + +stderr_should_have($script_name,'-a', 'Looking for'); + +my $current_cwd = getcwd(); +stderr_should_have($script_name,'-v --output_directory t/data/directory_which_doesnt_exist t/data/query_1.gff t/data/query_2.gff t/data/query_5.gff', 'Output directory created'); +ok( ( -e 't/data/directory_which_doesnt_exist/clustered_proteins' ), 'pan genome files should be in directory' ); +is(getcwd(),$current_cwd , 'current working directory should not have changed after script is finished'); + +SKIP: +{ + skip "prank not installed", 11 unless ( which('prank') ); + + %scripts_and_expected_files = + ( '-j Local --dont_delete_files --dont_split_groups --output_multifasta_files t/data/real_data_1.gff t/data/real_data_2.gff' => + [ 'pan_genome_sequences/mdoH.fa.aln', 't/data/mdoH.fa.aln' ], ); + mock_execute_script_and_check_output( $script_name, \%scripts_and_expected_files ); + + ok( -e 'core_gene_alignment.aln', 'Core gene alignment exists' ); + + ok( + my $seq_len = Bio::Roary::SequenceLengths->new( + fasta_file => 'core_gene_alignment.aln', + ), + 'Check size of the core_gene_alignment.aln init' + ); + + my @keys = keys %{ $seq_len->sequence_lengths }; + is( $seq_len->sequence_lengths->{ $keys[0] }, 64983, 'length of first sequence' ); + + ok( -e 'core_alignment_header.embl', 'Core gene alignment header exists' ); + + ok( -e 'accessory.tab' ); + ok( -e 'core_accessory.tab' ); + ok( -e 'number_of_conserved_genes.Rtab' ); + ok( -e 'number_of_genes_in_pan_genome.Rtab' ); + ok( -e 'number_of_new_genes.Rtab' ); + ok( -e 'number_of_unique_genes.Rtab' ); + ok( -e 'blast_identity_frequency.Rtab' ); + + cleanup_files(); + %scripts_and_expected_files = + ( +'-j Local --output_multifasta_files t/data/core_alignment_gene_lookup/query_1.gff t/data/core_alignment_gene_lookup/query_2.gff t/data/core_alignment_gene_lookup/query_3.gff' + => [ 'core_gene_alignment.aln', 't/data/core_alignment_gene_lookup/expected_core_gene_alignment.aln' ], ); + mock_execute_script_and_check_output( $script_name, \%scripts_and_expected_files ); + + cleanup_files(); +} + +SKIP: +{ + skip "extended tests not run", 40 unless ( defined($ENV{ROARY_FULL_TESTS})); + + %scripts_and_expected_files = ( + '-o some_different_output -i 90 -p 2 --translation_table 1 t/data/real_data_1.gff t/data/real_data_2.gff' => [ 'some_different_output', 't/data/expected_some_different_output' ], + ); + mock_execute_script_and_check_output_sorted( $script_name, \%scripts_and_expected_files, [ 0 ] ); + + stderr_should_have($script_name,'--translation_table 1 -o some_different_output --core_definition 60 -p 2 -e --mafft --group_limit 10 t/data/real_data_1.gff t/data/real_data_2.gff', 'Exiting early because number of clusters is too high'); + stderr_should_have($script_name,'--verbose_stats --group_limit 10 -e t/data/query_1.gff t/data/query_2.gff t/data/query_5.gff', 'Exiting early because number of clusters is too high'); + stderr_should_not_have($script_name,'-e --group_limit 10 t/data/query_1.gff t/data/query_2.gff t/data/query_5.gff ', 'Cant access the multifasta base directory'); + stderr_should_have($script_name,'-i 90 --core_definition 60 -p 2 -v t/data/real_data_1.gff t/data/real_data_2.gff ','Cleaning up files'); + stderr_should_have($script_name,'-i 30 t/data/query_1.gff t/data/query_2.gff t/data/query_5.gff','The percentage identity is too low'); + stderr_should_not_have($script_name,'--dont_delete_files -v t/data/query_1.gff t/data/query_2.gff t/data/query_5.gff ','Cleaning up files'); + stderr_should_have($script_name,'-v --group_limit 100000 -e t/data/query_1.gff t/data/query_2.gff t/data/query_5.gff ' ,'Running command: pan_genome_core_alignment'); + stderr_should_have($script_name,'--translation_table 1 -v t/data/real_data_1.gff t/data/real_data_2.gff ' ,'Cleaning up files'); + stderr_should_have($script_name,'-e -v t/data/real_data_1.gff t/data/real_data_2.gff ','Creating files with the nucleotide sequences for every cluster'); + + SKIP: + { + skip "kraken not installed", 2 unless ( which('kraken') ); + skip "kraken-report not installed", 2 unless ( which('kraken-report') ); + stderr_should_have($script_name,'-v --qc t/data/real_data_1.gff t/data/real_data_2.gff' ,'Running Kraken on each input assembly'); + } + + %scripts_and_expected_files = ( + # output + '-o some_different_output -e --dont_delete_files t/data/real_data_1.gff t/data/real_data_2.gff' => + [ 'pan_genome_sequences/mdoH.fa.aln', 't/data/mdoH.fa.aln' ], + '-o some_different_output --core_definition 60 t/data/real_data_1.gff t/data/real_data_2.gff' => + [ 'summary_statistics.txt', 't/data/expected_core_60_summary_statistics.txt' ], + '-e -i 95.3 --translation_table 1 -v --group_limit 100000 --qc t/data/real_data_1.gff t/data/real_data_2.gff' => [ 'core_gene_alignment.aln', 't/data/expected_real_data_core_gene_alignment.aln' ], + + '-e --verbose_stats t/data/real_data_1.gff t/data/real_data_2.gff' => [ 'core_gene_alignment.aln', 't/data/expected_real_data_core_gene_alignment.aln' ], + '--core_definition 60 t/data/real_data_1.gff t/data/real_data_2.gff' => [ 'summary_statistics.txt', 't/data/expected_core_60_summary_statistics.txt' ], + '-p 2 -e --dont_delete_files t/data/real_data_1.gff t/data/real_data_2.gff' => [ 'pan_genome_sequences/mdoH.fa.aln', 't/data/mdoH.fa.aln' ], + '-p 2 --core_definition 60 t/data/real_data_1.gff t/data/real_data_2.gff' => [ 'summary_statistics.txt', 't/data/expected_core_60_summary_statistics.txt' ], + '-p 2 -e --mafft t/data/real_data_1.gff t/data/real_data_2.gff' => [ 'core_gene_alignment.aln', 't/data/expected_mafft_real_data_core_gene_alignment.aln' ], + + ); + mock_execute_script_and_check_output_sorted( $script_name, \%scripts_and_expected_files ); + +} + +cleanup_files(); + +done_testing(); + +sub cleanup_files { + remove_tree('pan_genome_sequences'); + remove_tree('fixed_input_files'); + remove_tree('t/data/directory_which_doesnt_exist'); + remove_tree('locus_tags_gffs_output'); + unlink('_blast_results'); + unlink('_clustered'); + unlink('_clustered.bak.clstr'); + unlink('_clustered.clstr'); + unlink('_combined_files'); + unlink('_combined_files.groups'); + unlink('_fasta_files'); + unlink('_gff_files'); + unlink('_inflated_mcl_groups'); + unlink('_inflated_unsplit_mcl_groups'); + unlink('_labeled_mcl_groups'); + unlink('_uninflated_mcl_groups'); + unlink('accessory.header.embl'); + unlink('accessory.header.tab'); + unlink('accessory.tab'); + unlink('blast_identity_frequency.Rtab'); + unlink('clustered_proteins'); + unlink('core_accessory.header.embl'); + unlink('core_accessory.header.tab'); + unlink('core_accessory.tab'); + unlink('core_gene_alignment.aln'); + unlink('database_masking.asnb'); + unlink('example_1.faa.tmp.filtered.fa'); + unlink('example_2.faa.tmp.filtered.fa'); + unlink('example_3.faa.tmp.filtered.fa'); + unlink('gene_presence_absence.csv'); + unlink('number_of_conserved_genes.Rtab'); + unlink('number_of_genes_in_pan_genome.Rtab'); + unlink('number_of_new_genes.Rtab'); + unlink('number_of_unique_genes.Rtab'); + unlink('pan_genome.fa'); + unlink('query_1.gff.proteome.faa'); + unlink('query_2.gff.proteome.faa'); + unlink('query_3.gff.proteome.faa'); + unlink('query_5.gff.proteome.faa'); + unlink('real_data_1.gff.proteome.faa'); + unlink('real_data_2.gff.proteome.faa'); + unlink('pan_genome_reference.fa'); + unlink('accessory_graph.dot'); + unlink('core_accessory_graph.dot'); + unlink('some_different_output'); + unlink('core_alignment_header.embl'); +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CommandLine/RoaryCoreAlignment.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,27 @@ +#!/usr/bin/env perl +use Moose; +use Data::Dumper; +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CommandLine::RoaryCoreAlignment'); +} +my $script_name = 'Bio::Roary::CommandLine::RoaryCoreAlignment'; +system('touch empty_file'); +my %scripts_and_expected_files = ( + '-m t/data/core_alignment -s t/data/core_alignment.csv' => + [ 'core_gene_alignment.aln', 't/data/expected_core_gene_alignment.aln' ], + '-m t/data/core_alignment -s t/data/core_alignment_core0.66.csv --core_definition 0.66' => + [ 'core_gene_alignment.aln', 't/data/expected_core_gene_alignment_core0.66.aln' ], + '-h' => + [ 'empty_file', 't/data/empty_file' ], +); + +mock_execute_script_and_check_output( $script_name, \%scripts_and_expected_files ); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CommandLine/RoaryPostAnalysis.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,108 @@ +#!/usr/bin/env perl +use Moose; +use Data::Dumper; +use File::Path qw( remove_tree); +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CommandLine::RoaryPostAnalysis'); +} +my $script_name = 'Bio::Roary::CommandLine::RoaryPostAnalysis'; +my $cwd = getcwd(); + +local $ENV{PATH} = "$ENV{PATH}:./bin"; + +system('cp t/data/post_analysis/* .'); +system('touch empty_file'); + +my %scripts_and_expected_files = ( + '-o clustered_proteins -p pan_genome.fa -s gene_presence_absence.csv -c _clustered.clstr -i _gff_files -f _fasta_files -j Local --dont_create_rplots --dont_split_groups' => + [ 'clustered_proteins', 't/data/clustered_proteins_post_analysis' ], + '-h' => + [ 'empty_file', 't/data/empty_file' ], +); + +SKIP: +{ + + skip "Tests dont take variablity into account", 2 if(1); + mock_execute_script_and_check_output_sorted_groups( $script_name, \%scripts_and_expected_files ); + + ok( -e 'number_of_unique_genes.Rtab', 'number_of_unique_genes.Rtab exists'); + ok( -e 'number_of_new_genes.Rtab', 'number_of_new_genes exists'); + ok( -e 'number_of_genes_in_pan_genome.Rtab', 'number_of_genes_in_pan_genome exists'); + ok( -e 'number_of_conserved_genes.Rtab','number_of_conserved_genes'); + ok( -e 'gene_presence_absence.csv', 'gene_presence_absence exists'); + ok( -e 'core_accessory.tab', 'core_accessory.tab exists'); + ok( -e 'core_accessory.header.embl','core_accessory.header.embl exists'); + ok( -e 'accessory.tab','accessory.tab exists'); + ok( -e 'accessory.header.embl','accessory.header.embl exists'); + ok( -e 'summary_statistics.txt' ,'summary_statistics.txt exists'); + + compare_tab_files_with_variable_coordinates('accessory.header.embl', 't/data/post_analysis_expected/accessory.header.embl'); + compare_tab_files_with_variable_coordinates('accessory.tab', 't/data/post_analysis_expected/accessory.tab'); + compare_tab_files_with_variable_coordinates('core_accessory.header.embl', 't/data/post_analysis_expected/core_accessory.header.embl'); + compare_tab_files_with_variable_coordinates('core_accessory.tab', 't/data/post_analysis_expected/core_accessory.tab'); + + cleanup_files(); + + system('cp t/data/post_analysis/* .'); + system('touch empty_file'); + %scripts_and_expected_files = ( + '-t 1 -o clustered_proteins -p pan_genome.fa -s gene_presence_absence.csv -c _clustered.clstr -i _gff_files -f _fasta_files -j Local --dont_create_rplots --dont_split_groups' => + [ 'clustered_proteins', 't/data/clustered_proteins_post_analysis' ], + '-h' => + [ 'empty_file', 't/data/empty_file' ], + ); + + mock_execute_script_and_check_output_sorted_groups( $script_name, \%scripts_and_expected_files ); + + ok( -e 'number_of_unique_genes.Rtab', 'number_of_unique_genes.Rtab exists'); + ok( -e 'number_of_new_genes.Rtab', 'number_of_new_genes exists'); + ok( -e 'number_of_genes_in_pan_genome.Rtab', 'number_of_genes_in_pan_genome exists'); + ok( -e 'number_of_conserved_genes.Rtab','number_of_conserved_genes'); + ok( -e 'gene_presence_absence.csv', 'gene_presence_absence exists'); + ok( -e 'core_accessory.tab', 'core_accessory.tab exists'); + ok( -e 'core_accessory.header.embl','core_accessory.header.embl exists'); + ok( -e 'accessory.tab','accessory.tab exists'); + ok( -e 'accessory.header.embl','accessory.header.embl exists'); + + compare_tab_files_with_variable_coordinates('accessory.header.embl', 't/data/post_analysis_expected/accessory.header.embl'); + compare_tab_files_with_variable_coordinates('accessory.tab', 't/data/post_analysis_expected/accessory.tab'); + compare_tab_files_with_variable_coordinates('core_accessory.header.embl', 't/data/post_analysis_expected/core_accessory.header.embl'); + compare_tab_files_with_variable_coordinates('core_accessory.tab', 't/data/post_analysis_expected/core_accessory.tab'); + +} +cleanup_files(); +done_testing(); + +sub cleanup_files +{ + unlink('_clustered'); + unlink('_clustered.bak.clstr'); + unlink('_clustered.clstr'); + unlink('_combined_files'); + unlink('_combined_files.groups'); + unlink('_fasta_files'); + unlink('_gff_files'); + unlink('_uninflated_mcl_groups'); + unlink('query_1.gff.proteome.faa'); + unlink('query_2.gff.proteome.faa'); + unlink('query_6.gff.proteome.faa'); + unlink('accessory.header.embl'); + unlink('accessory.tab'); + unlink('core_accessory.header.embl'); + unlink('core_accessory.tab'); + unlink('gene_presence_absence.csv'); + unlink('number_of_unique_genes.Rtab'); + unlink('number_of_new_genes.Rtab'); + unlink('number_of_genes_in_pan_genome.Rtab'); + unlink('number_of_conserved_genes.Rtab'); +} + +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CommandLine/RoaryReorderSpreadsheet.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,52 @@ +#!/usr/bin/env perl +use Moose; +use Data::Dumper; +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CommandLine::RoaryReorderSpreadsheet'); +} +my $script_name = 'Bio::Roary::CommandLine::RoaryReorderSpreadsheet'; +system('touch empty_file'); +my %scripts_and_expected_files = ( + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -o different_output_name.csv' => + [ 'different_output_name.csv', 't/data/reorder_isolates_expected_output.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -f newick' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output.csv' ], + + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a depth' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a depth -b height' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output_depth_height.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a depth -b creation' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output_depth_creation.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a depth -b alpha' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output_depth_alpha.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a depth -b revalpha' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output_depth_revalpha.csv' ], + + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a breadth' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a breadth -b height' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output_breadth_height.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a breadth -b creation' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output_breadth_creation.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a breadth -b alpha' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output_breadth_alpha.csv' ], + '-t t/data/reorder_isolates.tre -s t/data/reorder_isolates_input.csv -a breadth -b revalpha' => + [ 'reordered_spreadsheet.csv', 't/data/reorder_isolates_expected_output_breadth_revalpha.csv' ], + + '-h' => + [ 'empty_file', 't/data/empty_file' ], +); + +mock_execute_script_and_check_output( $script_name, \%scripts_and_expected_files ); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/CommandLine/TransferAnnotationToGroups.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,26 @@ +#!/usr/bin/env perl +use Moose; +use Data::Dumper; +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::CommandLine::TransferAnnotationToGroups'); +} +my $script_name = 'Bio::Roary::CommandLine::TransferAnnotationToGroups'; +my $cwd = getcwd(); +system('touch empty_file'); +my %scripts_and_expected_files = ( + '-g t/data/query_groups t/data/query_1.gff t/data/query_2.gff t/data/query_3.gff' => + [ 'reannotated_groups', 't/data/expected_reannotated_groups_file' ], + '-h' => + [ 'empty_file', 't/data/empty_file' ], +); + +mock_execute_script_and_check_output_sorted( $script_name, \%scripts_and_expected_files ); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/ContigsToGeneIDsFromGFF.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,76 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::ContigsToGeneIDsFromGFF'); +} + +ok( + my $obj = Bio::Roary::ContigsToGeneIDsFromGFF->new( + gff_file => 't/data/query_1.gff' + ), + 'Initialise contigs to gene ids obj' +); + +is_deeply( + $obj->contig_to_ids, + { + 'abc|SC|contig000001' => [ + '1_1', 'abc_00002', 'abc_00003', 'abc_00004', '1_2', 'abc_00006', '1_3', 'abc_00008', + 'abc_00010', 'abc_00011', 'abc_00012', 'abc_00014', '1_6', 'abc_00016' + ] + }, + 'Contigs match expected with standard output' +); + +ok( + $obj = Bio::Roary::ContigsToGeneIDsFromGFF->new( + gff_file => 't/data/query_1_alternative_patterns.gff' + ), + 'Initialise contigs to gene ids obj with alternative ID patterns' +); +is_deeply( + $obj->contig_to_ids, + { + 'abc|SC|contig000001' => [ '1_1', 'abc_00002', 'abc_00003', 'abc_00004', '1_2', 'abc_00006' ] + }, + 'Contigs match expected with alternative output' +); + +is_deeply( + $obj->_genes_annotation, + [ + { + 'database_annotation_exists' => 1, + 'product' => 'superantigen-like protein', + 'end' => '3337', + 'start' => '2621', + 'contig' => 'abc|SC|contig000001', + 'id_name' => 'abc_00004' + }, + { + 'database_annotation_exists' => 1, + 'product' => 'hypothetical protein', + 'end' => '4170', + 'start' => '3445', + 'contig' => 'abc|SC|contig000001', + 'id_name' => '1_2' + }, + { + 'database_annotation_exists' => 1, + 'product' => 'superantigen-like protein', + 'end' => '4990', + 'start' => '4265', + 'contig' => 'abc|SC|contig000001', + 'id_name' => 'abc_00006' + } + ], + 'Product annotation with non standard format' +); +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/EmblGroups.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,47 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::Output::EmblGroups'); +} + + +my $annotate_groups = Bio::Roary::AnnotateGroups->new( + gff_files => ['t/data/query_1.gff','t/data/query_2.gff','t/data/query_3.gff'], + groups_filename => 't/data/query_groups', +); + +my $analyse_groups = Bio::Roary::AnalyseGroups->new( + fasta_files => ['t/data/query_1.fa','t/data/query_2.fa','t/data/query_3.fa'], + groups_filename => 't/data/query_groups' +); + +ok(my $obj = Bio::Roary::Output::EmblGroups->new( + output_filename => 'group_statitics.csv', + annotate_groups_obj => $annotate_groups, + analyse_groups_obj => $analyse_groups +), 'initialise embl groups'); + +is($obj->_get_heat_map_colour(['a','b','c','d'], 4),2, 'heatmap colour'); +is($obj->_get_heat_map_colour(['a','b','c'], 4),16, 'heatmap colour'); +is($obj->_get_heat_map_colour(['a','b'], 4),3, 'heatmap colour'); +is($obj->_get_heat_map_colour(['a'], 4),4, 'heatmap colour'); + + +is($obj->_get_heat_map_colour(['a','b','c','d','e','f','g','h','i','j'], 10),2, 'heatmap colour loop over each colour 10'); +is($obj->_get_heat_map_colour(['a','b','c','d','e','f','g','h','i' ], 10),15, 'heatmap colour loop over each colour 9'); +is($obj->_get_heat_map_colour(['a','b','c','d','e','f','g','h' ], 10),16, 'heatmap colour loop over each colour 8'); +is($obj->_get_heat_map_colour(['a','b','c','d','e','f','g' ], 10),10, 'heatmap colour loop over each colour 7'); +is($obj->_get_heat_map_colour(['a','b','c','d','e','f' ], 10),7, 'heatmap colour loop over each colour 6'); +is($obj->_get_heat_map_colour(['a','b','c','d','e' ], 10),3, 'heatmap colour loop over each colour 5'); +is($obj->_get_heat_map_colour(['a','b','c','d' ], 10),8, 'heatmap colour loop over each colour 4'); +is($obj->_get_heat_map_colour(['a','b','c' ], 10),9, 'heatmap colour loop over each colour 3'); +is($obj->_get_heat_map_colour(['a','b' ], 10),5, 'heatmap colour loop over each colour 2'); +is($obj->_get_heat_map_colour(['a' ], 10),4, 'heatmap colour loop over each colour 1 '); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/External/Blastp.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,44 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Cwd; + + +BEGIN { unshift( @INC, './lib' ) } +use Bio::Roary::External::Makeblastdb; +BEGIN { + use Test::Most; + use_ok('Bio::Roary::External::Blastp'); +} + +my $cwd = getcwd(); +my $obj; + +ok($obj = Bio::Roary::External::Blastp->new( + fasta_file => 't/data/some_fasta_file.fa', + blast_database => 'some_blast_database', + exec => $cwd.'/t/bin/dummy_blastp', +),'initialise object'); + +is($obj->_command_to_run, $cwd.'/t/bin/dummy_blastp -query t/data/some_fasta_file.fa -db some_blast_database -evalue 1e-06 -num_threads 1 -outfmt 6 -max_target_seqs 2000 | awk \'{ if ($3 > 98) print $0;}\' 2> /dev/null 1> results.out', 'Command constructed as expected'); +ok($obj->run(), 'run dummy command'); +unlink('results.out'); + +done_testing(); + + + + + + + + + + + + + + + +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/External/Cdhit.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,39 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::External::Cdhit'); +} + +my $cwd = getcwd(); +my $obj; + +ok($obj = Bio::Roary::External::Cdhit->new( + input_file => 't/data/some_fasta_file.fa', + output_base => 'output', + exec => $cwd.'/t/bin/dummy_cd-hit', +),'initialise object'); + +is($obj->_command_to_run, $cwd.'/t/bin/dummy_cd-hit -i t/data/some_fasta_file.fa -o output -T 1 -M 1800 -g 1 -s 1 -d 256 -c 1 > /dev/null 2>&1', 'Command constructed as expected'); +ok($obj->run(), 'run dummy command'); +unlink('output'); +unlink('output.clstr'); +unlink('output.bak.clstr'); + + +ok($obj = Bio::Roary::External::Cdhit->new( + input_file => 't/data/some_fasta_file.fa', + output_base => 'output', + exec => $cwd.'/t/bin/dummy_cd-hit', + cpus => 1000 +),'initialise object with lots of threads'); +is($obj->_command_to_run, $cwd.'/t/bin/dummy_cd-hit -i t/data/some_fasta_file.fa -o output -T 40 -M 1800 -g 1 -s 1 -d 256 -c 1 > /dev/null 2>&1', 'number of threads capped at a lower level'); + + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/External/CheckTools.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,23 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Cwd; +use Test::Output; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::External::CheckTools'); +} +ok( my $check_tools = Bio::Roary::External::CheckTools->new(), 'initialise checking for tools' ); +for my $tool ( ( 'parallel', 'blastp', 'makeblastdb', 'mcl', 'bedtools', 'prank', 'mafft', 'grep', 'sed', 'awk', ) ) { + my $pattern = "Looking for '$tool' - found "; + stderr_like { $check_tools->check_tool($tool); } qr/$pattern/, "Check for $tool"; +} + +stderr_like { $check_tools->check_all_tools; } qr/Looking for /, "Check for all tools"; +1; + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/External/Mafft.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,43 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Cwd; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +BEGIN { + use Test::Most; + use Bio::Roary::SortFasta; + use_ok('Bio::Roary::External::Mafft'); +} + +ok( + my $obj = Bio::Roary::External::Mafft->new( + input_filename => 't/data/mafft_input.fa', + output_filename => 't/data/mafft_input.fa.aln', + job_runner => 'Local' + ), + 'initialise mafft obj' +); + +is( + $obj->_command_to_run, +'mafft --auto --quiet t/data/mafft_input.fa > t/data/mafft_input.fa.aln', + 'Command constructed as expected' +); + +ok( $obj->run(), 'run mafft' ); + +ok(-e 't/data/mafft_input.fa.aln', 'output file exists'); +my $sort_fasta_after_revtrans = Bio::Roary::SortFasta->new( + input_filename => 't/data/mafft_input.fa.aln', + remove_nnn_from_end => 1, +); +$sort_fasta_after_revtrans->sort_fasta->replace_input_with_output_file; + +compare_ok( 't/data/mafft_input.fa.aln', 't/data/expected_mafft_input.fa.aln', "output for mafft matches" ); + +unlink('t/data/mafft_input.fa.aln'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/External/Makeblastdb.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,32 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::External::Makeblastdb'); +} + +my $cwd = getcwd(); +my $obj; + +ok($obj = Bio::Roary::External::Makeblastdb->new( + fasta_file => 't/data/some_fasta_file.fa', + exec => $cwd.'/t/bin/dummy_makeblastdb', + mask_data => 'masking_data_file' +),'initialise object'); + +is($obj->_command_to_run, $cwd.'/t/bin/dummy_makeblastdb -in t/data/some_fasta_file.fa -dbtype prot -out '.$obj->_working_directory->dirname().'/output_contigs -logfile /dev/null', 'Command constructed as expected'); +ok($obj->run(), 'run dummy command'); + +unlink("output_contigs.phr"); +unlink("output_contigs.pin"); +unlink("output_contigs.psq"); + +1; + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/External/Mcl.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,54 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Cwd; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::External::Mcl'); +} + +my $cwd = getcwd(); +my $obj; + + +ok( + $obj = Bio::Roary::External::Mcl->new( + blast_results => 'some_blast_results', + mcxdeblast_exec => $cwd . '/t/bin/dummy_mcxdeblast', + mcl_exec => $cwd . '/t/bin/dummy_mcl', + output_file => 'output.groups' + ), + 'initialise object with dummy values' +); + +is( + $obj->_command_to_run, + $cwd + . '/t/bin/dummy_mcxdeblast -m9 --score=r --line-mode=abc some_blast_results 2> /dev/null | ' + . $cwd + . '/t/bin/dummy_mcl - --abc -I 1.5 -o output.groups > /dev/null 2>&1', + 'Command constructed as expected' +); +ok( $obj->run(), 'run dummy command' ); + +unlink('output.groups'); + +ok( + $obj = Bio::Roary::External::Mcl->new( + blast_results => 't/data/blast_results', + ), + 'initialise object with real values' +); +ok( $obj->run(), 'run the real command' ); +compare_ok('output_groups', 't/data/expected_output_groups', 'outgroups as expected'); + +unlink('output_groups'); + +1; + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/External/Prank.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,44 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Cwd; +use Test::Files; +use Bio::Roary::SortFasta; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::External::Prank'); +} + +ok( + my $obj = Bio::Roary::External::Prank->new( + input_filename => 't/data/prank_input.fa', + output_filename => 't/data/prank_input.fa.aln', + job_runner => 'Local' + ), + 'initialise prank obj' +); + +is( + $obj->_command_to_run, +'prank -d=t/data/prank_input.fa -o=t/data/prank_input.fa.aln -codon -F -quiet -once > /dev/null 2>&1 && mv t/data/prank_input.fa.aln*.fas t/data/prank_input.fa.aln', + 'Command constructed as expected' +); + +ok( $obj->run(), 'run prank' ); + +ok(-e 't/data/prank_input.fa.aln', 'output file exists'); +my $sort_fasta_after_revtrans = Bio::Roary::SortFasta->new( + input_filename => 't/data/prank_input.fa.aln', + remove_nnn_from_end => 1, +); +$sort_fasta_after_revtrans->sort_fasta->replace_input_with_output_file; + +compare_ok( 't/data/prank_input.fa.aln', 't/data/expected_prank_input.fa.aln', "output for prank matches" ); + +unlink('t/data/prank_input.fa.aln'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/ExtractCoreGenesFromSpreadsheet.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,68 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::ExtractCoreGenesFromSpreadsheet'); +} + +my $obj; + +ok( + $obj = Bio::Roary::ExtractCoreGenesFromSpreadsheet->new( + spreadsheet => 't/data/core_group_statistics.csv', + ), + 'initalise obj' +); +is_deeply( $obj->ordered_core_genes, [ 'argF', 'speH', 'group_5' ], 'Correct ordering' ); +is_deeply( + $obj->sample_names_to_genes, + { + 'query_2' => { + '2_3' => 1, + '2_7' => 1, + '2_2' => 1 + }, + 'query_1' => { + '1_6' => 1, + '1_3' => 1, + '1_2' => 1 + } + }, + 'Correct of sample names to genes is correct' +); + +ok( + $obj = Bio::Roary::ExtractCoreGenesFromSpreadsheet->new( + spreadsheet => 't/data/core_group_statistics.csv', + allow_paralogs => 1, + ), + 'initalise obj where paralogs allowed' +); +is_deeply( $obj->ordered_core_genes, [ 'argF', 'hly', 'speH', 'group_5' ], 'Correct ordering where paralogs allowed' ); + +is_deeply( + $obj->sample_names_to_genes, + { + 'query_2' => { + '2_3' => 1, + '2_7' => 1, + '2_1' => 1, + '2_2' => 1 + }, + 'query_1' => { + '1_6' => 1, + '1_3' => 1, + '1_1' => 1, + '1_2' => 1 + } + }, + 'Correct of sample names to genes is correct where paralogs allowed' +); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/ExtractProteomeFromGFFs.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,120 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use File::Basename; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::ExtractProteomeFromGFFs'); +} + +my $plot_groups_obj; + +ok( + $plot_groups_obj = Bio::Roary::ExtractProteomeFromGFFs->new( + gff_files => [ 't/data/example_annotation.gff', 't/data/example_annotation_2.gff' ], + ), + 'initialise object' +); + +my @sorted_fasta_files = map { basename($_) } sort( @{ $plot_groups_obj->fasta_files() } ); +my @sorted_expected_files = sort( ( 'example_annotation.gff.proteome.faa', 'example_annotation_2.gff.proteome.faa' ) ); + +is_deeply( \@sorted_fasta_files, \@sorted_expected_files, 'one file created' ); + +compare_ok( $plot_groups_obj->fasta_files->[0] , + 't/data/example_annotation.gff.proteome.faa.expected', + 'content of proteome 1 as expected' +); + +unlink('example_annotation.gff.proteome.faa'); +unlink('example_annotation_2.gff.proteome.faa'); + +ok( + $plot_groups_obj = Bio::Roary::ExtractProteomeFromGFFs->new( + gff_files => [ 't/data/example_annotation_no_fasta_line.gff', 't/data/example_annotation_2.gff' ], + ), + 'initialise object where one GFF has no FASTA line' +); +compare_ok( $plot_groups_obj->fasta_files->[0] , + 't/data/example_annotation.gff.proteome.faa.expected', + 'content of proteome 1 as expected' +); +unlink('example_annotation_no_fasta_line.gff.proteome.faa'); +unlink('example_annotation_2.gff.proteome.faa'); + +ok( + $plot_groups_obj = Bio::Roary::ExtractProteomeFromGFFs->new( + gff_files => [ 't/data/genbank_gbff/genbank1.gff', 't/data/genbank_gbff/genbank2.gff', 't/data/genbank_gbff/genbank3.gff' ], + ), + 'initialise object with genbank gff files' +); +@sorted_fasta_files = map { basename($_) } sort( @{ $plot_groups_obj->fasta_files() } ); +@sorted_expected_files = sort( ( 'genbank1.gff.proteome.faa', 'genbank2.gff.proteome.faa', 'genbank3.gff.proteome.faa' ) ); + +is_deeply( \@sorted_fasta_files, \@sorted_expected_files, 'GB files created output' ); + +for my $full_filename ( @{ $plot_groups_obj->fasta_files() } ) { + my $base_filename = basename($full_filename); + compare_ok($full_filename, + 't/data/genbank_gbff/' . $base_filename . '.expected', + "content of proteome $full_filename as expected" + ); +} + +unlink('genbank1.gff.proteome.faa'); +unlink('genbank2.gff.proteome.faa'); +unlink('genbank3.gff.proteome.faa'); + +ok( + $plot_groups_obj = Bio::Roary::ExtractProteomeFromGFFs->new( + gff_files => [ 't/data/locus_tag_gffs/query_1.gff', 't/data/locus_tag_gffs/query_2.gff', 't/data/locus_tag_gffs/query_3.gff' ], + ), + 'initialise object with locus tag id gff files' +); +@sorted_fasta_files = map { basename($_) } sort( @{ $plot_groups_obj->fasta_files() } ); +@sorted_expected_files = sort( ( 'query_1.gff.proteome.faa', 'query_2.gff.proteome.faa', 'query_3.gff.proteome.faa' ) ); + +is_deeply( \@sorted_fasta_files, \@sorted_expected_files, 'locus tag id files created output' ); + +for my $full_filename ( @{ $plot_groups_obj->fasta_files() } ) { + my $base_filename = basename($full_filename); + compare_ok($full_filename, 't/data/locus_tag_gffs/' . $base_filename . '.expected' , + "content of proteome $full_filename as expected" ); +} + +unlink('query_1.gff.proteome.faa'); +unlink('query_2.gff.proteome.faa'); +unlink('query_3.gff.proteome.faa'); + + + +ok( + $plot_groups_obj = Bio::Roary::ExtractProteomeFromGFFs->new( + gff_files => [ 't/data/allow_no_fasta_delimiter/annotation_1.gff', 't/data/allow_no_fasta_delimiter/annotation_2.gff' ], + ), + 'initialise object with multi contig files' +); + +@sorted_fasta_files = map { basename($_) } sort( @{ $plot_groups_obj->fasta_files() } ); +@sorted_expected_files = sort( ( 'annotation_1.gff.proteome.faa', 'annotation_2.gff.proteome.faa' ) ); + +is_deeply( \@sorted_fasta_files, \@sorted_expected_files, 'locus tag id files created output' ); + +for my $full_filename ( @{ $plot_groups_obj->fasta_files() } ) { + my $base_filename = basename($full_filename); + + compare_ok($full_filename, 't/data/allow_no_fasta_delimiter/' . $base_filename . '.expected' , + "content of proteome $full_filename as expected" ); +} +unlink('annotation_1.gff.proteome.faa'); +unlink('annotation_2.gff.proteome.faa'); + + + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/FilterFullClusters.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,36 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::FilterFullClusters'); +} + +ok(my $filter_clusters = Bio::Roary::FilterFullClusters->new( + clusters_filename => 't/data/clusters_to_inflate', + fasta_file => 't/data/clusters_input.fa', + number_of_input_files => 6, + output_file => 'output_filtered.fa', + _greater_than_or_equal => 1, + cdhit_input_fasta_file => 't/data/clusters_to_inflate_original_input.fa', + cdhit_output_fasta_file => 'filtered_original_input.fa', + output_groups_file => 'output_groups', + ),'initialise object'); +ok($filter_clusters->filter_full_clusters_from_fasta(),'filter the clusters'); +ok($filter_clusters->filter_complete_cluster_from_original_fasta(),'filter original input and save full groups'); + +compare_ok('output_filtered.fa', 't/data/expected_output_filtered.fa', 'content as expected'); +compare_ok('output_groups', 't/data/expected_output_groups_cdhit', 'content as expected'); +compare_ok('filtered_original_input.fa', 't/data/expected_filtered_original_input.fa', 'content as expected'); + +unlink('output_groups'); +unlink('filtered_original_input.fa'); +unlink('output_filtered.fa'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/GeneNamesFromGFF.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,94 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::GeneNamesFromGFF'); +} + +my $obj; + +ok( + $obj = Bio::Roary::GeneNamesFromGFF->new( + gff_file => 't/data/query_1.gff' + ), + 'initialise reading GFF file' +); +is_deeply( + $obj->ids_to_gene_name, + { + '1_3' => 'argF', + '1_1' => 'different', + '1_2' => 'speH', + 'abc_00016' => 'yfnB', + 'abc_00008' => 'arcC1' + }, + 'ids to gene names as expected' +); + +is_deeply( + $obj->ids_to_gene_size, + { + 'abc_00012' => 188, + '1_1' => 959, + 'abc_00004' => 716, + 'abc_00006' => 725, + 'abc_00008' => 935, + '1_6' => 134, + 'abc_00014' => 134, + 'abc_01705' => 1556, + 'abc_00013' => 75, + 'abc_00010' => 227, + '1_2' => 725, + 'abc_00011' => 947, + 'abc_00016' => 686, + '1_3' => 1001, + 'abc_00002' => 146, + 'abc_00003' => 197 + }, + 'ids to gene lengths as expected' +); + +ok( + $obj = Bio::Roary::GeneNamesFromGFF->new( + gff_file => 't/data/query_2.gff' + ), + 'initialise reading another GFF file' +); +is_deeply( + $obj->ids_to_gene_name, + { + '2_3' => 'argF', + '2_1' => 'hly', + '2_2' => 'speH', + 'abc_00016' => 'yfnB', + 'abc_00008' => 'arcC1' + }, + 'ids to gene names as expected again' +); + +ok( + $obj = Bio::Roary::GeneNamesFromGFF->new( + gff_file => 't/data/locus_tag_gffs/query_1.gff' + ), + 'initialise a GFF file with locus tags only' +); + +is_deeply( + $obj->ids_to_gene_name, + { + 'abc_00005' => 'speH', + 'abc_00007' => 'argF', + 'abc_00001' => 'different', + 'abc_00016' => 'yfnB', + 'abc_00008' => 'arcC1' + }, + 'ids to gene names with GFF file with locus tags only' +); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/GroupLabels.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,25 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::GroupLabels'); +} + +ok( + my $obj = Bio::Roary::GroupLabels->new( + groups_filename => 't/data/example_groups_without_labels' + ), + 'initialise with a groups file' +); +ok($obj->add_labels, 'Add labels to groups'); +compare_ok($obj->output_filename, 't/data/expected_group_labels', 'groups labeled as expected'); +unlink('labelled_groups_file'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/GroupStatistics.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,79 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::GroupStatistics'); +} + +my $annotate_groups = Bio::Roary::AnnotateGroups->new( + gff_files => ['t/data/query_1.gff','t/data/query_2.gff','t/data/query_3.gff'], + groups_filename => 't/data/query_groups', +); + +my $analyse_groups = Bio::Roary::AnalyseGroups->new( + fasta_files => ['t/data/query_1.fa','t/data/query_2.fa','t/data/query_3.fa'], + groups_filename => 't/data/query_groups' +); + +my $obj; + +ok($obj = Bio::Roary::GroupStatistics->new( + annotate_groups_obj => $annotate_groups, + analyse_groups_obj => $analyse_groups +),'Initialise group statistics object'); +ok($obj->create_spreadsheet,'Create the CSV file'); +ok(-e 'gene_presence_absence.csv', 'CSV file exists'); +compare_ok('gene_presence_absence.csv','t/data/expected_group_statitics.csv', 'Spreadsheet content as expected'); +ok($obj->create_rtab,'Create the Rtab file'); +ok(-e 'gene_presence_absence.Rtab', 'Rtab file exists'); +compare_ok('gene_presence_absence.Rtab','t/data/expected_gene_presence_and_absence.Rtab', 'Rtab matrix content as expected'); + +unlink('gene_presence_absence.csv'); +unlink('gene_presence_absence.Rtab'); + +############################ + +my $annotate_groups_2 = Bio::Roary::AnnotateGroups->new( + gff_files => ['t/data/query_1.gff','t/data/query_2.gff','t/data/query_3.gff','t/data/query_4_missing_genes.gff'], + groups_filename => 't/data/query_groups_missing_genes', +); + +my $analyse_groups_2 = Bio::Roary::AnalyseGroups->new( + fasta_files => ['t/data/query_1.fa','t/data/query_2.fa','t/data/query_3.fa','t/data/query_4_missing_genes.fa'], + groups_filename => 't/data/query_groups_missing_genes' +); + +ok($obj = Bio::Roary::GroupStatistics->new( + annotate_groups_obj => $annotate_groups_2, + analyse_groups_obj => $analyse_groups_2, + output_filename => 'missing_genes_stats.csv' +),'Initialise group statistics object where one isolate has only 1 gene'); +ok($obj->create_spreadsheet,'Create the CSV file'); +ok(-e 'missing_genes_stats.csv', 'CSV file exists'); +compare_ok('missing_genes_stats.csv','t/data/expected_group_statitics_missing_genes.csv', 'Spreadsheet content as expected with missing genes'); + +unlink('missing_genes_stats.csv'); + + +## TEST VERBOSE STATS ## + +ok($obj = Bio::Roary::GroupStatistics->new( + annotate_groups_obj => $annotate_groups, + analyse_groups_obj => $analyse_groups, + _verbose => 1, + output_filename => 'verbose_stats.csv' +),'Initialise group statistics object'); +ok($obj->create_spreadsheet,'Create the CSV file'); +ok(-e 'verbose_stats.csv', 'CSV file exists'); +compare_ok('verbose_stats.csv','t/data/expected_group_statitics_verbose.csv', 'Verbose spreadsheet content as expected'); + +unlink('verbose_stats.csv'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/InflateClusters.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,40 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::InflateClusters'); +} + +my $obj; + + +ok( $obj = Bio::Roary::InflateClusters->new( + clusters_filename => 't/data/clustersfile', + mcl_filename => 't/data/mcl_file', + output_file => 'example.output' +),'initialise object'); +ok($obj->inflate,'inflate the results'); + +compare_ok('example.output','t/data/expected_inflated_results', 'inflated results as expected'); +unlink('example.output'); + + +ok( $obj = Bio::Roary::InflateClusters->new( + clusters_filename => 't/data/clusters_to_inflate', + mcl_filename => 't/data/clusters_to_inflate.mcl', + output_file => 'example.output' +),'initialise object'); +ok($obj->inflate,'inflate the results'); + +compare_ok('example.output','t/data/expected_clusters_to_inflate', 'inflated results as expected'); +unlink('example.output'); + +done_testing(); +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/OrderGenes.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,148 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use File::Slurper 'read_text'; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::OrderGenes'); + use Bio::Roary::AnalyseGroups; +} + +my $no_accessory_100 = order_genes_obj( 't/data/accessory_graphs/no_accessory', 1 ); +my $no_accessory_50 = order_genes_obj( 't/data/accessory_graphs/no_accessory', 0.5 ); + +my $one_bubble_100 = order_genes_obj( 't/data/accessory_graphs/one_bubble', 1 ); +my $one_bubble_50 = order_genes_obj( 't/data/accessory_graphs/one_bubble', 0.5 ); + +my $one_branch_100 = order_genes_obj( 't/data/accessory_graphs/one_branch', 1 ); +my $one_branch_50 = order_genes_obj( 't/data/accessory_graphs/one_branch', 0.5 ); + +my $two_graphs_100 = order_genes_obj( 't/data/accessory_graphs/two_graphs', 1 ); +my $two_graphs_50 = order_genes_obj( 't/data/accessory_graphs/two_graphs', 0.5 ); + +my $single_gene_100 = order_genes_obj( 't/data/accessory_graphs/single_gene_contig', 1 ); +my $single_gene_50 = order_genes_obj( 't/data/accessory_graphs/single_gene_contig', 0.5 ); + +my $core_deletion_100 = order_genes_obj( 't/data/accessory_graphs/core_deletion', 1 ); +my $core_deletion_50 = order_genes_obj( 't/data/accessory_graphs/core_deletion', 0.5 ); + +my $core_island_100 = order_genes_obj( 't/data/accessory_graphs/core_island', 1 ); +my $core_island_50 = order_genes_obj( 't/data/accessory_graphs/core_island', 0.5 ); + +cleanup(); +my $analyse_groups = Bio::Roary::AnalyseGroups->new( + fasta_files => [ 't/data/accessory_graphs/file_1.fa', 't/data/accessory_graphs/file_2.fa', 't/data/accessory_graphs/file_3.fa' ], + groups_filename => 't/data/accessory_graphs/core_island' +); + +ok( + my $obj = Bio::Roary::OrderGenes->new( + analyse_groups_obj => $analyse_groups, + gff_files => [ 't/data/accessory_graphs/file_1.gff', 't/data/accessory_graphs/file_2.gff', 't/data/accessory_graphs/file_3.gff' ], + core_definition => 1, + sample_weights => { 'file_1' => 0.5, 'file_2' => 1, 'file_3' => 0.1 } + ), + "Initialise order genes object for sample weights" +); +ok( $obj->groups_to_contigs, 'build the graph for sample weights' ); +ok( -e 'core_accessory_graph.dot', 'core accessory graph created for sample weights' ); +ok( -e 'accessory_graph.dot', 'accessory graph created for sample weights' ); + +my $actual_graph = read_text('accessory_graph.dot'); +$actual_graph =~ s/group_[\w]/group_X/gi; +is_deeply( $actual_graph, read_text('t/data/expected_sample_weights_accessory_graph.dot'), 'graph weights changed' ); + +# Check how the final graphs get reordered. + +$obj = Bio::Roary::OrderGenes->new( + analyse_groups_obj => $analyse_groups, + gff_files => [ 't/data/accessory_graphs/file_1.gff', 't/data/accessory_graphs/file_2.gff', 't/data/accessory_graphs/file_3.gff' ], + core_definition => 1, + sample_weights => { 'file_1' => 0.5, 'file_2' => 1, 'file_3' => 0.1 }, + samples_to_clusters => { 's1' => 'c1', 's2' => 'c1', 's3' => 'c2', 's4' => 'c2' }, +); + +my @paths_and_weights = ( + { + path => [ 'g1', 'g2' ], + average_weight => 3, + sample_names => [ 's1', 's2' ] + }, + { + path => [ 'g5', 'g6' ], + average_weight => 2, + sample_names => [ 's3', 's4' ] + }, + { + path => [ 'g3', 'g4' ], + average_weight => 1, + sample_names => [ 's1', 's2' ] + } +); +my @expected_path_order = ( [ 'g1', 'g2' ], [ 'g3', 'g4' ], [ 'g5', 'g6' ] ); +is_deeply( $obj->_order_by_samples_and_weights( \@paths_and_weights ), \@expected_path_order, 'graphs reordered as expected' ); + +cleanup(); +done_testing(); + +sub order_genes_obj { + my ( $groups_filename, $core_definition ) = @_; + + cleanup(); + my $analyse_groups = Bio::Roary::AnalyseGroups->new( + fasta_files => [ 't/data/accessory_graphs/file_1.fa', 't/data/accessory_graphs/file_2.fa', 't/data/accessory_graphs/file_3.fa' ], + groups_filename => $groups_filename + ); + + ok( + my $obj = Bio::Roary::OrderGenes->new( + analyse_groups_obj => $analyse_groups, + gff_files => + [ 't/data/accessory_graphs/file_1.gff', 't/data/accessory_graphs/file_2.gff', 't/data/accessory_graphs/file_3.gff' ], + core_definition => $core_definition + ), + "Initialise order genes object for $groups_filename" + ); + + ok( $obj->groups_to_contigs, 'build the graph' ); + check_all_groups_in_output_graph( $groups_filename, $obj->groups_to_contigs, $core_definition ); + ok( -e 'core_accessory_graph.dot', 'core accessory graph created' ); + ok( -e 'accessory_graph.dot', 'accessory graph created' ); + + return $obj; +} + +sub check_all_groups_in_output_graph { + my ( $groups_filename, $groups_to_contigs, $core_definition ) = @_; + + open( my $groups_in, $groups_filename ); + while (<$groups_in>) { + chomp; + my $line = $_; + next if ( $line eq '' ); + my ( $group, $attributes ) = split( ':', $line ); + ok( ( $groups_to_contigs->{$group} ), "group $group found in file $groups_filename" ); + + # Check to see if the accessory groups are tagged properly + $attributes =~ s/ //gi; + my @sequence_ids = split( /\t/, $attributes ); + if ( @sequence_ids >= 3 * $core_definition ) { + ok( !defined( $groups_to_contigs->{$group}->{accessory_label} ), "group $group is core so shouldnt have any accessory labels" ); + } + else { + ok( defined( $groups_to_contigs->{$group}->{accessory_label} ), "group $group is accessory so should have accessory label" ); + } + } +} + +sub cleanup { + unlink('core_accessory_graph.dot'); + unlink('accessory_graph.dot'); +} +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/Output/CoreGeneAlignmentCoorindatesEMBL.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,42 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL'); +} + +ok( + my $core_gene_obj = Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL->new( + multifasta_files => [ + 't/data/multifasta_files/1.fa.aln', 't/data/multifasta_files/outof_order.fa.aln', + 't/data/multifasta_files/2.fa.aln', 't/data/multifasta_files/3.fa.aln' + ], + gene_lengths => { + 't/data/multifasta_files/1.fa.aln' => 1, + 't/data/multifasta_files/outof_order.fa.aln' => 10, + 't/data/multifasta_files/2.fa.aln' => 100, + 't/data/multifasta_files/3.fa.aln' => 1000 + }, + output_filename => 'output_name.embl' + ), + 'initialise core gene obj' +); + +is('efg',$core_gene_obj->_gene_name_from_filename('t/abc/efg.fa.aln'), 'Get gene name with directory'); +is('efg',$core_gene_obj->_gene_name_from_filename('efg.fa.aln'), 'Get gene name with no directory'); +is('efg',$core_gene_obj->_gene_name_from_filename('efg'), 'Get gene name where theres no extension'); +is('efg',$core_gene_obj->_gene_name_from_filename('efg.fa'), 'Get gene name with partial extension'); + +ok($core_gene_obj->create_file,'create the embl header file'); +compare_ok('output_name.embl', 't/data/multifasta_files/expected_output.embl', 'content of embl file as expected'); + +is(1112,$core_gene_obj->_current_coordinate,'next coordinate'); +unlink('output_name.embl'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/Output/DifferenceBetweenSets.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,38 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Moose; +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::Output::DifferenceBetweenSets'); +} + +my $plot_groups_obj = Bio::Roary::AnalyseGroups->new( + fasta_files => [ 't/data/query_1.fa', 't/data/query_2.fa','t/data/query_3.fa' ], + groups_filename => 't/data/query_groups' +); + +ok(my $obj = Bio::Roary::Output::DifferenceBetweenSets->new( + analyse_groups => $plot_groups_obj, + input_filenames_sets => [ ['t/data/query_1.fa'], ['t/data/query_2.fa','t/data/query_3.fa'] ] + ),'initialise set difference obj'); + +ok($obj->groups_set_one_unique,'create set one unique'); +ok($obj->groups_set_two_unique,'create set two unique'); +ok($obj->groups_in_common,'create common set unique'); + +compare_files('set_difference_unique_set_one','t/data/expected_set_difference_unique_set_one','set one file content as expected'); +compare_files('set_difference_unique_set_two','t/data/expected_set_difference_unique_set_two','set two file content as expected'); +compare_files('set_difference_common_set','t/data/expected_set_difference_common_set','common set file content as expected'); + +unlink('set_difference_unique_set_one'); +unlink('set_difference_unique_set_two'); +unlink('set_difference_common_set'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/Output/GroupsMultifastaProtein.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,26 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::Output::GroupsMultifastaProtein'); +} + +ok( + my $obj = Bio::Roary::Output::GroupsMultifastaProtein->new( + nucleotide_fasta_file => 't/data/nuc_multifasta.fa', + ), + 'initialise creating the nuc fasta obj' +); +ok($obj->convert_nucleotide_to_protein(),'perform the conversion'); + +compare_ok('t/data/nuc_multifasta.faa', 't/data/expected_nuc_multifasta.faa', 'File content as expected'); + +unlink('t/data/nuc_multifasta.faa'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/Output/GroupsMultifastas.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,45 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::Output::GroupsMultifastas'); +} + +my $plot_groups_obj = Bio::Roary::AnalyseGroups->new( + fasta_files => [ 't/data/example_1.faa', 't/data/example_2.faa' ], + groups_filename => 't/data/example_groups' +); + +ok( + my $obj = Bio::Roary::Output::GroupsMultifastas->new( + group_names => [ 'group_2', 'group_5' ], + analyse_groups => $plot_groups_obj + ), + 'initialise creating multiple fastas' +); + +ok( $obj->create_files(), 'Create multiple fasta files' ); + +# Check that the files have been created +ok( -e $obj->output_filename_base . '_group_2.fa', $obj->output_filename_base . '_group_2.fa'.' group created' ); +ok( -e $obj->output_filename_base . '_group_5.fa', $obj->output_filename_base . '_group_2.fa'.' group created' ); + +compare_ok( $obj->output_filename_base . '_group_2.fa' , + 't/data/expected_output_groups_group_2_multi.fa', + 'group 2 contect as expected' +); +compare_ok( $obj->output_filename_base . '_group_5.fa' , + 't/data/expected_output_groups_group_5_multi.fa', + 'group 5 contect as expected' +); + +unlink( $obj->output_filename_base . '_group_2.fa' ); +unlink( $obj->output_filename_base . '_group_5.fa' ); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/Output/GroupsMultifastasNucleotide.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,91 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use File::Path qw( remove_tree); +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use Test::Output; + use_ok('Bio::Roary::Output::GroupsMultifastasNucleotide'); + use Bio::Roary::AnnotateGroups; + use Bio::Roary::AnalyseGroups; + +} + +cleanup_files(); +my $gff_files = [ 't/data/query_1.gff', 't/data/query_2.gff','t/data/query_3.gff' ]; + +my $obj; + +my $annotate_groups = Bio::Roary::AnnotateGroups->new( + gff_files => $gff_files, + groups_filename => 't/data/query_groups_reference', +); + +ok($annotate_groups->reannotate); + +ok( + $obj = Bio::Roary::Output::GroupsMultifastasNucleotide->new( + group_names => [ 'group_2', 'group_5' ], + gff_files => $gff_files, + annotate_groups => $annotate_groups, + dont_delete_files => 1, + ), + 'initialise creating multiple fastas where you dont delete non core files' +); +ok( $obj->create_files(), 'Create multiple fasta files where you dont delete non core files' ); + +compare_ok('pan_genome_sequences/hly.fa', 't/data/pan_genome_sequences/hly.fa', 'Check multifasta content is correct for 3-hly.fa'); +compare_ok('pan_genome_sequences/speH.fa','t/data/pan_genome_sequences/speH.fa','Check multifasta content is correct for 2-speH.fa'); +compare_ok('pan_genome_sequences/argF.fa','t/data/pan_genome_sequences/argF.fa','Check multifasta content is correct for 2-argF.fa'); +ok(-e 'pan_genome_reference.fa','pan genome reference file created'); +compare_ok('pan_genome_reference.fa', 't/data/expected_g2_g5_pan_genome_reference.fa', 'pan genome reference as expected'); + +cleanup_files(); + + +ok( + $obj = Bio::Roary::Output::GroupsMultifastasNucleotide->new( + group_names => [ 'group_2', 'group_5' ], + gff_files => $gff_files, + annotate_groups => $annotate_groups, + dont_delete_files => 0, + ), + 'initialise creating multiple fastas where you delete non core files' +); +ok( $obj->create_files(), 'Create multiple fasta files where you delete non core files' ); + +compare_ok('pan_genome_sequences/hly.fa', 't/data/pan_genome_sequences/hly.fa' , 'Check multifasta content is correct for 3-hly.fa '); +ok(! -e 'pan_genome_sequences/speH.fa', 'Check 2-speH.fa doesnt exist since its non core'); +ok(! -e 'pan_genome_sequences/argF.fa', 'Check 2-argF.fa doesnt exist since its non core'); +cleanup_files(); + + + +# test group number limit +ok( + $obj = Bio::Roary::Output::GroupsMultifastasNucleotide->new( + group_names => [ 'group_2', 'group_5' ], + gff_files => $gff_files, + annotate_groups => $annotate_groups, + group_limit => 4 + ), + 'initialise creating multiple fastas' +); +my $exp_stderr = "Number of clusters (8) exceeds limit (4). Multifastas not created. Please check the spreadsheet for contamination from different species or increase the --group_limit parameter.\n"; +stderr_is { $obj->create_files() } $exp_stderr, 'multifasta creation fails when group limit exceeded'; + +cleanup_files(); + +done_testing(); + + +sub cleanup_files { + remove_tree('pan_genome_sequences'); + unlink('reannotated_groups_file'); + unlink('pan_genome_reference.fa'); +} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/Output/NumberOfGroups.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,71 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use Bio::Roary::AnnotateGroups; + use Bio::Roary::AnalyseGroups; + use Bio::Roary::GroupStatistics; + use_ok('Bio::Roary::Output::NumberOfGroups'); +} + +my $annotate_groups = Bio::Roary::AnnotateGroups->new( + gff_files => ['t/data/query_1.gff','t/data/query_2.gff','t/data/query_3.gff'], + groups_filename => 't/data/query_groups', +); + +my $analyse_groups = Bio::Roary::AnalyseGroups->new( + fasta_files => ['t/data/query_1.fa','t/data/query_2.fa','t/data/query_3.fa'], + groups_filename => 't/data/query_groups' +); + +my $group_statistics = Bio::Roary::GroupStatistics->new( + annotate_groups_obj => $annotate_groups, + analyse_groups_obj => $analyse_groups +); + +ok(my $obj = Bio::Roary::Output::NumberOfGroups->new( + group_statistics_obj => $group_statistics, + annotate_groups_obj => $annotate_groups + ),'initialise object'); + +ok($obj->create_output_files, 'create the raw output file'); + +ok(-e 'number_of_conserved_genes.Rtab', 'check raw output file created'); +compare_ok('t/data/expected_number_of_conserved_genes.tab', 'number_of_conserved_genes.Rtab', 'Content of total groups tab file as expected'); +unlink('number_of_conserved_genes.Rtab'); + +ok(-e 'number_of_new_genes.Rtab', 'check raw output file created'); +compare_ok('t/data/expected_number_of_new_genes.tab', 'number_of_new_genes.Rtab', ''); +unlink('number_of_new_genes.Rtab'); + +ok(-e 'number_of_genes_in_pan_genome.Rtab', 'check raw output file created'); +compare_ok('t/data/expected_number_of_genes_in_pan_genome.tab', 'number_of_genes_in_pan_genome.Rtab', 'Content of total groups tab file as expected'); +unlink('number_of_genes_in_pan_genome.Rtab'); + +ok(-e 'number_of_unique_genes.Rtab', 'check raw output file created'); +compare_ok('t/data/expected_number_of_unique_genes.tab', 'number_of_unique_genes.Rtab', 'Content of unique groups tab file as expected'); +unlink('number_of_unique_genes.Rtab'); + + +# Vary the core +ok($obj = Bio::Roary::Output::NumberOfGroups->new( + group_statistics_obj => $group_statistics, + annotate_groups_obj => $annotate_groups, + core_definition => 0.6 + ),"initialise object with 60 percent core definition"); +ok($obj->create_output_files, 'create the raw output files for 60 percent core def'); +compare_ok('t/data/expected_number_of_conserved_genes_0.6.tab','number_of_conserved_genes.Rtab', 'Content of conserved genes with 60 percent core def'); + +unlink('number_of_conserved_genes.Rtab'); +unlink('number_of_new_genes.Rtab'); +unlink('number_of_genes_in_pan_genome.Rtab'); +unlink('number_of_unique_genes.Rtab'); +unlink('group_statitics.csv'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/Output/QueryGroups.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,73 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Moose; +BEGIN { unshift( @INC, './t/lib' ) } +with 'TestHelper'; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::Output::QueryGroups'); +} + +my $plot_groups_obj = Bio::Roary::AnalyseGroups->new( + fasta_files => [ 't/data/query_1.fa', 't/data/query_2.fa','t/data/query_3.fa' ], + groups_filename => 't/data/query_groups' +); + +my $obj; +ok($obj = Bio::Roary::Output::QueryGroups->new( + analyse_groups => $plot_groups_obj, + input_filenames => [ 't/data/query_1.fa', 't/data/query_2.fa','t/data/query_3.fa' ] + ),'initialise groups query object'); + +ok($obj->groups_union(), 'create the union file'); +ok($obj->groups_intersection(), 'create the intersection file'); +ok($obj->groups_complement(), 'create the complement file'); + +compare_files('union_of_groups.gg','t/data/expected_union_of_groups.gg', 'contents of the union groups as expected'); +compare_files('intersection_of_groups.gg', 't/data/expected_intersection_of_groups.gg', 'contents of the intersection groups as expected'); +compare_files('complement_of_groups.gg', 't/data/expected_complement_of_groups.gg', 'contents of the complement groups as expected'); + +###################################### +# test varying core definition +ok($obj = Bio::Roary::Output::QueryGroups->new( + analyse_groups => $plot_groups_obj, + input_filenames => [ 't/data/query_1.fa', 't/data/query_2.fa','t/data/query_3.fa' ], + core_definition => 0.66 + ),'initialise groups query object'); + +ok($obj->groups_intersection(), 'create the intersection file'); +ok($obj->groups_complement(), 'create the complement file'); + +compare_files('intersection_of_groups.gg', 't/data/expected_intersection_of_groups_core0.66.gg', 'contents of the intersection groups as expected'); +compare_files('complement_of_groups.gg', 't/data/expected_complement_of_groups_core0.66.gg', 'contents of the complement groups as expected'); + + +unlink('union_of_groups.gg'); +unlink('intersection_of_groups.gg'); +unlink('complement_of_groups.gg'); + +###################################### + +$plot_groups_obj = Bio::Roary::AnalyseGroups->new( + fasta_files => [ 't/data/query_1.fa', 't/data/query_2.fa','t/data/query_3.fa' ], + groups_filename => 't/data/query_groups_paralogs' +); + +ok($obj = Bio::Roary::Output::QueryGroups->new( + analyse_groups => $plot_groups_obj, + input_filenames => [ 't/data/query_1.fa', 't/data/query_2.fa','t/data/query_3.fa' ] + ),'initialise groups query object with paralogs'); + +ok($obj->groups_intersection(), 'create the intersection file'); + +compare_files('intersection_of_groups.gg', 't/data/expected_intersection_of_groups_paralogs.gg', 'contents of the intersection groups with paralogs as expected'); +unlink('intersection_of_groups.gg'); + + +done_testing(); +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/ParallelAllAgainstAllBlast.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,30 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Cwd; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::ParallelAllAgainstAllBlast'); +} +my $obj; +my $cwd = getcwd(); + +ok($obj = Bio::Roary::ParallelAllAgainstAllBlast->new( + fasta_file => 't/data/example_1.faa', + blastp_exec => $cwd.'/t/bin/dummy_blastp', + makeblastdb_exec => $cwd.'/t/bin/dummy_makeblastdb', +),'initialise obj with mocked external applications'); +ok($obj->run(),'Run locally'); +ok(-e $obj->_working_directory_name.'/blast_results', 'Combined blast results'); + +unlink('output_contigs.phr'); +unlink('output_contigs.pin'); +unlink('output_contigs.psq'); +unlink('results.out'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/PrepareInputFiles.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,56 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use File::Basename; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::PrepareInputFiles'); +} + +my $obj; + +ok( + $obj = Bio::Roary::PrepareInputFiles->new( + input_files => [ + 't/data/example_annotation.gff', 't/data/example_1.faa', + 't/data/example_annotation_2.gff', 't/data/example_2.faa','t/data/sequences_with_unknowns.faa' + ], + ), + 'initalise' +); + +my @sorted_fasta_files = sort map { basename($_) } sort @{$obj->fasta_files}; +my @expected_fasta_files = sort(( + 'example_1.faa.tmp.filtered.fa', + 'example_2.faa.tmp.filtered.fa', + 'example_annotation.gff.proteome.faa', + 'example_annotation_2.gff.proteome.faa', + 'sequences_with_unknowns.faa.tmp.filtered.fa' +)); + +is_deeply( + \@sorted_fasta_files, + \@expected_fasta_files, + 'proteome extracted from gff files, input fasta files filtered' +); + +my @input_files_lookup = sort map { basename($_) } @{$obj->lookup_fasta_files_from_unknown_input_files( [ 't/data/example_annotation_2.gff', 't/data/example_1.faa' ] )}; +is_deeply( + \@input_files_lookup, + ['example_1.faa.tmp.filtered.fa','example_annotation_2.gff.proteome.faa'], + 'previously created faa file looked up from gff filename' +); + +unlink('example_annotation.gff.proteome.faa'); +unlink('example_annotation_2.gff.proteome.faa'); +unlink('sequences_with_unknowns.faa.tmp.filtered.fa'); +unlink('example_1.faa.tmp.filtered.fa'); +unlink('example_2.faa.tmp.filtered.fa'); + +done_testing(); +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/PresenceAbsenceMatrix.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,97 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::PresenceAbsenceMatrix'); + use Bio::Roary::AnnotateGroups; +} +my $obj; +my $annotate_groups = Bio::Roary::AnnotateGroups->new( + gff_files => [ 't/data/query_1.gff', 't/data/query_2.gff', 't/data/query_3.gff' ], + groups_filename => 't/data/query_groups', +); + +my $sorted_file_names = [ 't/data/query_1.fa', 't/data/query_2.fa', 't/data/query_3.fa' ]; +my $groups_to_files = { + 'group_3' => { + 't/data/query_1.fa' => [ '1_3' ], + 't/data/query_3.fa' => [ '3_3' ] + }, + 'group_5' => { + 't/data/query_3.fa' => [ '3_5' ] + }, + 'group_7' => { + 't/data/query_2.fa' => [ '2_7' ] + }, + 'group_4' => { + 't/data/query_3.fa' => [ '3_4' ], + 't/data/query_2.fa' => [ '2_4' ] + }, + 'group_1' => { + 't/data/query_1.fa' => [ '1_1' ], + 't/data/query_3.fa' => [ '3_1' ], + 't/data/query_2.fa' => [ '2_1' ] + }, + 'group_6' => { + 't/data/query_1.fa' => [ '1_6' ] + }, + 'group_2' => { + 't/data/query_1.fa' => [ '1_2' ], + 't/data/query_2.fa' => [ '2_2' ] + } +}; +my $num_files_in_groups = { + 'group_3' => 2, + 'group_5' => 1, + 'group_7' => 1, + 'group_4' => 2, + 'group_1' => 3, + 'group_6' => 1, + 'group_2' => 2 +}; +my $sample_headers = [ 'query_1.fa', 'query_2.fa', 'query_3.fa' ]; + +ok( + $obj = Bio::Roary::PresenceAbsenceMatrix->new( + annotate_groups_obj => $annotate_groups, + output_filename => 'test_gene_presence_absence.Rtab', + sorted_file_names => $sorted_file_names, + groups_to_files => $groups_to_files, + num_files_in_groups => $num_files_in_groups, + sample_headers => $sample_headers, + ), + 'initialise object' +); + +ok( $obj->create_matrix_file, 'create matrix file' ); +ok( -e 'test_gene_presence_absence.Rtab', 'matrix file exists' ); +compare_ok( 'test_gene_presence_absence.Rtab', 't/data/expected_gene_presence_and_absence.Rtab', 'Rtab matrix content as expected' ); + +# one gene one group +$groups_to_files = {'group_1' => {'t/data/query_1.fa' => [ '1_1' ]}}; +$num_files_in_groups = {'group_1' => 1}; + +ok( + $obj = Bio::Roary::PresenceAbsenceMatrix->new( + annotate_groups_obj => $annotate_groups, + output_filename => 'test_gene_presence_absence.Rtab', + sorted_file_names => $sorted_file_names, + groups_to_files => $groups_to_files, + num_files_in_groups => $num_files_in_groups, + sample_headers => $sample_headers, + ), + 'initialise object one gene one group' +); + +ok( $obj->create_matrix_file, 'create matrix file one gene one group' ); +compare_ok( 'test_gene_presence_absence.Rtab', 't/data/expected_one_gene_presence_and_absence.Rtab', 'Rtab matrix content as expected for one gene one group' ); + +unlink('test_gene_presence_absence.Rtab'); +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/QC/Report.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,100 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; +use File::Which; + +BEGIN { unshift( @INC, './lib' ) } + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::QC::Report'); +} + + + +my $kraken_data = [ + [ 'assembly1', 'Clostridium', 'Clostridium difficile' ], + [ 'assembly2', 'Escherichia', 'Escherichia coli' ], + [ 'assembly3', 'Streptococcus', 'Streptococcus pneumoniae' ] +]; + +ok( + my $qc_report_obj = Bio::Roary::QC::Report->new( + input_files => [], + outfile => "kraken_report.csv", + _kraken_data => $kraken_data, + kraken_db => 't/data/kraken_test/', + job_runner => "Local" + ), + 'QC report object created with no input gff files' +); + +ok( $qc_report_obj->report, 'report generated' ); +ok( -e 'kraken_report.csv', 'report file exists' ); + +compare_ok('kraken_report.csv',"t/data/exp_qc_report.csv", 'report file correct' ); + +unlink('kraken_report.csv'); + + +ok( + $qc_report_obj = Bio::Roary::QC::Report->new( + input_files => [ 't/data/query_1.gff', 't/data/query_2.gff' ], + outfile => "kraken_report.csv", + job_runner => "Local", + kraken_db => 't/data/kraken_test/', + verbose => 0, + ), + 'QC report object created with data' +); + +is( $qc_report_obj->_tmp_directory . '/abc.fna', $qc_report_obj->_nuc_fasta_filename('abc.gff'), 'filename of nuc from gff' ); +is( + 'sed -n \'/##FASTA/,//p\' abc.gff | grep -v \'##FASTA\' > ' . $qc_report_obj->_tmp_directory . '/abc.fna', + $qc_report_obj->_extract_nuc_fasta_cmd('abc.gff'), + 'extract nuc command' +); + +ok( my $nuc_files = $qc_report_obj->_extract_nuc_files_from_all_gffs(), 'extract nuc files from gffs' ); + +is_deeply( [ $qc_report_obj->_tmp_directory . '/query_1.fna', $qc_report_obj->_tmp_directory . '/query_2.fna' ], + $nuc_files, 'check extracted nuc files from gffs list' ); + +compare_ok( $qc_report_obj->_tmp_directory . '/query_1.fna' , + 't/data/expected_query_1.fna', + 'Check FASTA file 1 extracted as expected' +); +compare_ok( $qc_report_obj->_tmp_directory . '/query_2.fna' , + 't/data/expected_query_2.fna', + 'Check FASTA file 2 extracted as expected' +); + +SKIP: +{ + + skip "kraken not installed", 2 unless ( which('kraken') ); + skip "kraken-report not installed", 2 unless ( which('kraken-report') ); + + ok( my $kraken_files = $qc_report_obj->_run_kraken_on_nuc_files($nuc_files), 'run kraken over everything' ); + is_deeply( [ $qc_report_obj->_tmp_directory . '/query_1.kraken', $qc_report_obj->_tmp_directory . '/query_2.kraken' ], + $kraken_files, 'check kraken files are created from nuc files' ); + + ok(my $kraken_report_files = $qc_report_obj->_run_kraken_report_on_kraken_files( $kraken_files ), 'build reports'); + is_deeply( [ $qc_report_obj->_tmp_directory . '/query_1.kraken.report', $qc_report_obj->_tmp_directory . '/query_2.kraken.report' ], + $kraken_report_files, 'check kraken report files are created from kraken files' ); + + is_deeply([['query_1','Staphylococcus', 'Staphylococcus aureus'],['query_2','Staphylococcus', 'Staphylococcus aureus']],$qc_report_obj->_parse_kraken_reports($kraken_report_files),'check output report'); + + + ok( $qc_report_obj->report, 'report generated with real data' ); + ok( -e 'kraken_report.csv', 'report file exists with real data' ); + compare_ok('kraken_report.csv',"t/data/exp_qc_report_real.csv", 'report file correct' ); + unlink('kraken_report.csv'); + +} + + +done_testing(); +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/ReformatInputGFFs.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,67 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use File::Path qw(remove_tree); +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::ReformatInputGFFs'); +} + + +my $obj; +remove_tree('fixed_input_files'); +ok($obj = Bio::Roary::ReformatInputGFFs->new(gff_files => ['t/data/reformat_input_gffs/query_1.gff']), 'initialise with one input gff'); +ok($obj->fix_duplicate_gene_ids, 'fix duplicates with one input gff'); +is_deeply($obj->fixed_gff_files, ['t/data/reformat_input_gffs/query_1.gff'] ,'list of gff files with one input gff, nothing should change'); +ok(!( -d 'fixed_input_files'), 'Directory shouldnt exist because there arent any fixed input files'); + + +ok($obj = Bio::Roary::ReformatInputGFFs->new(gff_files => ['t/data/reformat_input_gffs/query_1.gff', 't/data/reformat_input_gffs/query_2.gff',]), 'initialise with 2 input gffs'); +ok(!( -d 'fixed_input_files'), 'Directory shouldnt exist before running'); +is_deeply($obj->_get_ids_for_gff_file('t/data/reformat_input_gffs/query_1.gff'),[ + '1_1', + 'abc_00002', + 'abc_00003', + 'abc_00004', + '1_2' + ],'extract ids'); +is_deeply($obj->_get_ids_for_gff_file('t/data/reformat_input_gffs/query_2.gff'),[ + '1_1', + 'abc_00002', + 'abc_00003', + 'abc_00004', + '1_2' + ],'extract ids'); +ok($obj->fix_duplicate_gene_ids, 'fix duplicates with 2 input gffs'); +ok(( -d 'fixed_input_files'), 'Directory should exist because there is one gff thats fixed'); +is_deeply($obj->fixed_gff_files, ['t/data/reformat_input_gffs/query_1.gff','fixed_input_files/query_2.gff' ] ,'list of gff files one in the fixed directory'); +ok(( -e 'fixed_input_files/query_2.gff'), 'fixed file should exist'); +compare_ok('fixed_input_files/query_2.gff', 't/data/reformat_input_gffs/expected_fixed_query_2.gff', 'fixed file should have expected changes'); +remove_tree('fixed_input_files'); + +ok($obj = Bio::Roary::ReformatInputGFFs->new(gff_files => ['t/data/reformat_input_gffs/query_1.gff', 't/data/reformat_input_gffs/query_2.gff', 't/data/reformat_input_gffs/query_3.gff']), 'initialise with 3 input gffs, 2 identical duplicates'); +ok(!( -d 'fixed_input_files'), 'Directory shouldnt exist before running'); +ok($obj->fix_duplicate_gene_ids, 'fix duplicates with 3 input gffs'); +ok(( -d 'fixed_input_files'), 'Directory should exist because there are 2 gffs thats fixed'); +is_deeply($obj->fixed_gff_files, ['t/data/reformat_input_gffs/query_1.gff','fixed_input_files/query_2.gff' ] ,'list of gff files 2 in the fixed directory'); +ok(( -e 'fixed_input_files/query_2.gff'), 'fixed file should exist'); +ok(!( -e 'fixed_input_files/query_3.gff'), 'fixed file should exist'); +compare_ok('fixed_input_files/query_2.gff','t/data/reformat_input_gffs/expected_fixed_query_2.gff', 'fixed file should have expected changes'); +remove_tree('fixed_input_files'); + + +ok($obj = Bio::Roary::ReformatInputGFFs->new(gff_files => ['t/data/reformat_input_gffs/real_1.gff']), 'initialise with 1 gff that has shown to have a bug'); +ok(my $fixed_file = $obj->_add_suffix_to_gene_ids_and_return_new_file('t/data/reformat_input_gffs/real_1.gff', 'id__'), 'fix duplicates'); +ok(( -e 'fixed_input_files/real_1.gff'), 'fixed file should exist'); +compare_ok('fixed_input_files/real_1.gff', 't/data/reformat_input_gffs/expected_real_1.gff', 'fixed file should have expected changes'); +remove_tree('fixed_input_files'); + + +done_testing(); +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/ReorderSpreadsheet.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,36 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::ReorderSpreadsheet'); +} + +ok( + my $obj = Bio::Roary::ReorderSpreadsheet->new( + tree_file => 't/data/reorder_isolates.tre', + spreadsheet => 't/data/reorder_isolates_input.csv', + output_filename => 'reorder_isolates_output.csv', + sortby => 'height' + ), + 'initialise reordering the spreadsheet' +); + +is_deeply($obj->_column_mappings,[0,1,2,3,4,5,6,7,8,9,10,11,12,13],'Column mappings with fixed in same order and end columns ordered by tree file'); +ok( $obj->reorder_spreadsheet(), 'run the reorder method' ); +ok( -e $obj->output_filename, 'check the output file exists' ); + +compare_ok('t/data/reorder_isolates_expected_output.csv', + 'reorder_isolates_output.csv', + 'content of the spreadsheet as expected' +); + +unlink('reorder_isolates_output.csv'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/SampleOrder.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,164 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::SampleOrder'); +} + +ok(my $obj = Bio::Roary::SampleOrder->new( + tree_file => 't/data/reorder_isolates.tre', + ), 'initialise sample order object'); + +is_deeply($obj->ordered_samples(),['query_1', 'query_3','query_4','query_2'],'order of sample names matches the tree'); + +ok( $obj = Bio::Roary::SampleOrder->new( + tree_file => 't/data/raxml.tre', + ), 'initialise sample order object with raxml tree'); + +is_deeply($obj->ordered_samples(),[ + 'efgh_7#3', + 'abcd_4#15', + 'abcd_3#9', + 'abcd_4#17', + 'abcd_3#20', + 'abcd_3#96', + 'abcd_3#7', + '6753_5#30', + 'abcd_3#8', + 'abcd_3#12', + 'abcd_4#13', + 'abcd_3#4', + 'abcd_3#47', + 'abcd_4#36', + 'abcd_3#90', + 'abcd_3#45', + 'abcd_3#51', + 'abcd_3#76', + 'abcd_4#22', + 'abcd_3#94', + 'abcd_3#72', + 'abcd_3#18', + 'abcd_3#82', + 'abcd_3#88', + 'abcd_3#87', + 'abcd_3#58', + 'abcd_3#85', + 'abcd_4#24', + 'abcd_3#86', + 'abcd_4#38', + 'abcd_3#70', + 'abcd_3#89', + 'abcd_3#19', + 'abcd_3#84', + 'abcd_3#60', + 'abcd_4#21', + 'abcd_3#35', + 'abcd_3#32', + 'abcd_4#20', + 'abcd_3#11', + 'abcd_4#28', + 'abcd_4#27', + 'abcd_3#54', + 'abcd_3#53', + 'abcd_3#43', + 'abcd_3#50', + 'abcd_4#12', + 'abcd_3#15', + 'abcd_3#21', + 'abcd_3#91', + 'abcd_3#73', + 'abcd_3#61', + 'abcd_4#35', + 'abcd_3#17', + 'abcd_3#67', + 'abcd_3#27', + 'abcd_3#13', + 'abcd_3#24', + 'abcd_3#95', + 'abcd_3#23', + 'abcd_3#29', + 'abcd_3#75', + 'abcd_3#25', + 'abcd_4#16', + 'abcd_4#30', + 'abcd_4#26', + 'abcd_3#36', + 'abcd_4#25', + 'abcd_3#64', + 'abcd_3#44', + 'abcd_3#68', + 'abcd_3#69', + 'efgh_7#12', + 'abcd_3#55', + 'abcd_4#1', + 'abcd_3#56', + 'abcd_3#14', + 'abcd_4#7', + 'abcd_4#8', + 'abcd_3#26', + 'abcd_4#9', + 'abcd_4#40', + 'abcd_4#10', + 'abcd_4#6', + 'abcd_4#5', + 'abcd_3#3', + 'abcd_3#33', + 'abcd_3#28', + 'abcd_3#6', + 'abcd_3#16', + 'abcd_3#79', + 'abcd_3#77', + 'abcd_4#41', + 'abcd_4#34', + 'abcd_3#5', + 'abcd_3#74', + 'abcd_3#34', + 'abcd_3#2', + 'abcd_3#22', + 'abcd_4#32', + 'abcd_3#92', + 'abcd_4#19', + 'abcd_4#23', + 'abcd_4#18', + 'abcd_3#37', + 'abcd_3#59', + 'abcd_3#30', + 'abcd_3#1', + 'abcd_4#42', + 'abcd_3#10', + 'abcd_4#37', + 'abcd_3#81', + 'abcd_3#80', + 'abcd_3#83', + 'abcd_4#33', + 'abcd_4#31', + 'abcd_3#71', + 'abcd_3#78', + 'abcd_4#39', + 'abcd_3#41', + 'abcd_4#29', + 'abcd_4#14', + 'abcd_3#31', + 'abcd_3#93', + 'abcd_3#62', + 'abcd_3#48', + 'abcd_3#42', + 'abcd_3#52', + 'abcd_3#57', + 'abcd_3#49', + 'abcd_4#3', + 'abcd_4#2', + 'abcd_3#39', + 'abcd_3#38', + 'abcd_4#11', + '5749_2#1' + ],'order of sample names matches the raxml tree'); + + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/SequenceLengths.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,34 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::SequenceLengths'); +} + +ok( + my $obj = Bio::Roary::SequenceLengths->new( + fasta_file => 't/data/example_1.faa', + ), + 'Initialise object' +); + +is_deeply( + $obj->sequence_lengths, + { + '1234#10_00006' => 211, + '1234#10_00003' => 113, + '1234#10_00001' => 145, + '1234#10_00005' => 207, + '1234#10_00002' => 246, + '1234#10_00007' => 242 + }, + 'hash with lengths of each sequence' +); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/SortFasta.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,58 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::SortFasta'); +} + +my $obj; + + +ok( $obj = Bio::Roary::SortFasta->new( + input_filename => 't/data/out_of_order_fasta.fa', +), 'initalise object'); + + +ok($obj->sort_fasta, 'sort the fasta file'); +ok(-e 't/data/out_of_order_fasta.fa.sorted.fa', 'the new file exists'); + +compare_ok('t/data/out_of_order_fasta.fa.sorted.fa', 't/data/expected_out_of_order_fasta.fa.sorted.fa', 'check order of sorted fasta'); + + +ok( $obj = Bio::Roary::SortFasta->new( + input_filename => 't/data/uneven_sequences.fa', + make_multiple_of_three => 1, +), 'initalise object with uneven sequences'); + +ok($obj->sort_fasta, 'sort the fasta file'); +compare_ok($obj->output_filename, 't/data/expected_uneven_sequences.fa', "output sequences are now divisible by three"); + +ok( $obj = Bio::Roary::SortFasta->new( + input_filename => 't/data/nnn_at_end.fa', + remove_nnn_from_end => 1, +), 'initalise object with alignment with nnn at end '); +ok($obj->sort_fasta, 'sort the fasta file and remove nnn at end'); +compare_ok($obj->output_filename, 't/data/expected_nnn_at_end.fa', "output sequences are now divisible by three"); + +ok( $obj = Bio::Roary::SortFasta->new( + input_filename => 't/data/uneven_sequences.fa', + make_multiple_of_three => 1, + remove_nnn_from_end => 1, +), 'initalise object with uneven sequences and remove nnn from end but nothing to remove'); +ok($obj->sort_fasta, 'sort the fasta file'); +compare_ok($obj->output_filename, 't/data/expected_uneven_sequences.fa', "output sequences are now divisible by three and no nnn removed"); + + +is(0,$obj->_percentage_similarity("AAA","BBB"), 'totally different'); +is(1,$obj->_percentage_similarity("AAA","AAA"), 'all the same'); +is(0.5,$obj->_percentage_similarity("AAAA","AABB"), 'half different'); +is(1,$obj->_percentage_similarity("AAAA","AAAABB"), 'first half the same'); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/SplitGroups.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,70 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Data::Dumper; +use Test::Files; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::SplitGroups'); +} + +my $obj; + +# test 1 - 100% shared CGN +ok( $obj = Bio::Roary::SplitGroups->new( + groupfile => 't/data/split_groups/paralog_clusters1', + fasta_files => [ 't/data/split_groups/paralogs1.fa', 't/data/split_groups/paralogs2.fa' ], + outfile => 'blah.out', + _do_sorting => 1 +), 'initalise object'); + +$obj->split_groups; +ok( -e 'blah.out', 'output file exists' ); +compare_ok('blah.out','t/data/split_groups/paralog_exp_clusters1', 'split group output correct for test 1'); + +# test 2 - partial sharing of CGN +ok( $obj = Bio::Roary::SplitGroups->new( + groupfile => 't/data/split_groups/paralog_clusters2', + fasta_files => [ 't/data/split_groups/paralogs1.fa', 't/data/split_groups/paralogs2.fa' ], + outfile => 'blah2.out', + _do_sorting => 1 +), 'initalise object'); + +$obj->split_groups; +ok( -e 'blah2.out', 'output file exists' ); +compare_ok('blah2.out', 't/data/split_groups/paralog_exp_clusters2', 'split group output correct for test 2'); + +# test 3 - one gene with no shared CGN +ok( $obj = Bio::Roary::SplitGroups->new( + groupfile => 't/data/split_groups/paralog_clusters3', + fasta_files => [ 't/data/split_groups/paralogs1.fa', 't/data/split_groups/paralogs2.fa' ], + outfile => 'blah3.out', + _do_sorting => 1 +), 'initalise object'); + +$obj->split_groups; +ok( -e 'blah3.out', 'output file exists' ); +compare_ok('blah3.out', 't/data/split_groups/paralog_exp_clusters3', 'split group output correct for test 3'); + +# test 4 - paralogs inside paralogs (inception paralog) +ok( $obj = Bio::Roary::SplitGroups->new( + groupfile => 't/data/split_groups/paralog_clusters4', + fasta_files => [ 't/data/split_groups/paralogs1.fa', 't/data/split_groups/paralogs2.fa', 't/data/split_groups/paralogs3.fa' ], + outfile => 'blah4.out', + _do_sorting => 1 +), 'initalise object'); + +$obj->split_groups; +ok( -e 'blah4.out', 'output file exists' ); +compare_ok('blah4.out','t/data/split_groups/paralog_exp_clusters4', 'split group output correct for test 4'); + +unlink( "blah.out" ); +unlink( "blah2.out" ); +unlink( "blah3.out" ); +unlink( "blah4.out" ); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/Bio/Roary/UniqueGenesPerSample.t Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,37 @@ +#!/usr/bin/env perl +use strict; +use warnings; +use Test::Files; +use Data::Dumper; + +BEGIN { unshift( @INC, './lib' ) } +$ENV{PATH} .= ":./bin"; + +BEGIN { + use Test::Most; + use_ok('Bio::Roary::UniqueGenesPerSample'); +} + +ok( + my $obj = Bio::Roary::UniqueGenesPerSample->new( + clustered_proteins => 't/data/unique_genes_per_sample/clustered_proteins_valid', + ), + 'Initialise object' +); + +is_deeply($obj->_sample_to_gene_freq, { + '11111_4#44' => 1, + '123_4#5' => 2, + '999_4#5' => 1, + '22222_6#21' => 1 + }, 'sample frequencies'); + + +ok($obj->write_unique_frequency, 'create output file'); +ok(-e $obj->output_filename, 'output file exists'); + +compare_ok($obj->output_filename, 't/data/unique_genes_per_sample/expected_unique_genes_per_sample.tsv', 'got expected unique gene frequency'); + +unlink($obj->output_filename); + +done_testing();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/bin/dummy_blastp Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,16 @@ +#!/usr/bin/env perl +use Moose; +use Getopt::Long; +my ($output_filename,$query,$db,$evalue,$num_threads,$outfmt,$max_target_seqs) ; +GetOptions( + 'query=s' => \$query, + 'db=s' => \$db, + 'evalue=s' => \$evalue, + 'num_threads=s' => \$num_threads, + 'outfmt=s' => \$outfmt, + 'max_target_seqs=s' => \$max_target_seqs, + +); +system("touch _blast_results"); + +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/bin/dummy_cd-hit Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,5 @@ +#!/usr/bin/env perl +system("touch output"); +system("touch output.clstr"); +system("touch output.bak.clstr"); +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/bin/dummy_makeblastdb Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,17 @@ +#!/usr/bin/env perl +use Moose; +use Getopt::Long; +my($output_filename,$dbtype,$in,$logfile,$parse_seqids,$mask_data); +GetOptions( + 'o|out=s' => \$output_filename, + 'd|dbtype=s' => \$dbtype, + 'l|logfile=s' => \$logfile, + 'i|in=s' => \$in, + 'mask_data=s' => \$mask_data, +); + +system("touch $output_filename.phr"); +system("touch $output_filename.pin"); +system("touch $output_filename.psq"); + +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/bin/dummy_mcl Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,12 @@ +#!/usr/bin/env perl +use Moose; +use Getopt::Long; +my ($output_filename,$abc_format,$inflation); +GetOptions( + 'o|output=s' => \$output_filename, + 'i|inflation=s' => \$inflation, + 'a|abc' => \$abc_format +); + +system("touch $output_filename"); +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/bin/dummy_mcxdeblast Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,2 @@ +#!/usr/bin/env perl +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/bin/dummy_segmasker Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,14 @@ +#!/usr/bin/env perl +use Moose; +use Getopt::Long; +my($output_filename,$dbtype,$in,$logfile,$parse_seqids,$mask_data,$infmt,$outfmt); +GetOptions( + 'o|out=s' => \$output_filename, + 'i|in=s' => \$in, + 'infmt=s' => \$infmt, + 'outfmt=s' => \$outfmt, + 'mask_data=s' => \$mask_data, +); + +system("touch $output_filename"); +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/core_deletion Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +group_A: 1_AA 2_AA 3_AA +group_B: 1_BB 2_BB 3_BB +group_C: 1_CC 2_CC 3_CC +group_D: 1_DD +group_E: 1_EE +group_F: 1_FF +group_G: 1_GG 2_GG 3_GG +group_H: 1_HH 2_HH 3_HH \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/core_island Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +group_A: 1_core_island_A +group_B: 1_core_island_B +group_C: 1_core_island_C +group_D: 1_core_island_D 2_core_island_D 3_core_island_D +group_E: 1_core_island_E 2_core_island_E 3_core_island_E +group_F: 1_core_island_F 2_core_island_F 3_core_island_F +group_G: 1_core_island_G +group_H: 1_core_island_H \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/file_1.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,54 @@ +>1_A +AAAA +>1_B +BBBB +>1_C +CCCC +>1_E +AAAA +>1_F +BBBB +>1_F_insertion +BBBB +>1_G +CCCC +>1_H +AAAA +>1_I +BBBB +>1_J +CCCC +>1_Z +DDDD +>1_AA +AAAA +>1_BB +AAAA +>1_CC +AAAA +>1_DD +AAAA +>1_EE +AAAA +>1_FF +AAAA +>1_GG +AAAA +>1_HH +AAAA +>1_core_island_A +AAAA +>1_core_island_B +AAAA +>1_core_island_C +AAAA +>1_core_island_D +AAAA +>1_core_island_E +AAAA +>1_core_island_F +AAAA +>1_core_island_G +AAAA +>1_core_island_H +AAAA \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/file_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,36 @@ +##gff-version 3 +##sequence-region contig01 1 1500 +contig01 abc CDS 1 90 . - 0 ID=1_A +contig01 abc CDS 100 190 . + 0 ID=1_B +contig01 abc CDS 200 290 . + 0 ID=1_C +contig01 abc CDS 300 390 . - 0 ID=1_E +contig01 abc CDS 400 490 . + 0 ID=1_F +contig01 abc CDS 500 590 . + 0 ID=1_F_insertion +contig01 abc CDS 600 690 . + 0 ID=1_G +contig01 abc CDS 700 790 . + 0 ID=1_H +contig02 abc CDS 800 890 . + 0 ID=1_Z +contig03 abc CDS 1 90 . - 0 ID=1_AA +contig03 abc CDS 100 190 . + 0 ID=1_BB +contig03 abc CDS 200 290 . + 0 ID=1_CC +contig03 abc CDS 300 390 . - 0 ID=1_DD +contig03 abc CDS 400 490 . + 0 ID=1_EE +contig03 abc CDS 500 590 . + 0 ID=1_FF +contig03 abc CDS 600 690 . + 0 ID=1_GG +contig03 abc CDS 700 790 . + 0 ID=1_HH +contig04 abc CDS 1 90 . - 0 ID=1_core_island_A +contig04 abc CDS 100 190 . + 0 ID=1_core_island_B +contig04 abc CDS 200 290 . + 0 ID=1_core_island_C +contig04 abc CDS 300 390 . - 0 ID=1_core_island_D +contig04 abc CDS 400 490 . + 0 ID=1_core_island_E +contig04 abc CDS 500 590 . + 0 ID=1_core_island_F +contig04 abc CDS 600 690 . + 0 ID=1_core_island_G +contig04 abc CDS 700 790 . + 0 ID=1_core_island_H +##FASTA +>contig01 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +>contig02 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +>contig03 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +>contig04 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/file_2.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,36 @@ +>2_A +AAAA +>2_B +BBBB +>2_C +CCCC +>2_E +AAAA +>2_F +BBBB +>2_G +CCCC +>2_H +AAAA +>2_I +BBBB +>2_J +CCCC +>2_Z +DDDD +>2_AA +AAAA +>2_BB +AAAA +>2_CC +AAAA +>2_GG +AAAA +>2_HH +AAAA +>2_core_island_D +AAAA +>2_core_island_E +AAAA +>2_core_island_F +AAAA \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/file_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,27 @@ +##gff-version 3 +##sequence-region contig01 1 1500 +contig01 abc CDS 1 90 . - 0 ID=2_A +contig01 abc CDS 100 190 . + 0 ID=2_B +contig01 abc CDS 200 290 . + 0 ID=2_C +contig01 abc CDS 300 390 . - 0 ID=2_E +contig01 abc CDS 400 490 . + 0 ID=2_F +contig01 abc CDS 600 690 . + 0 ID=2_G +contig01 abc CDS 700 790 . + 0 ID=2_H +contig02 abc CDS 800 890 . + 0 ID=2_Z +contig03 abc CDS 1 90 . - 0 ID=2_AA +contig03 abc CDS 100 190 . + 0 ID=2_BB +contig03 abc CDS 200 290 . + 0 ID=2_CC +contig03 abc CDS 600 690 . + 0 ID=2_GG +contig03 abc CDS 700 790 . + 0 ID=2_HH +contig04 abc CDS 300 390 . - 0 ID=2_core_island_D +contig04 abc CDS 400 490 . + 0 ID=2_core_island_E +contig04 abc CDS 500 590 . + 0 ID=2_core_island_F +##FASTA +>contig01 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +>contig02 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +>contig03 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +>contig04 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/file_3.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,36 @@ +>3_A +AAAA +>3_B +BBBB +>3_C +CCCC +>3_E +AAAA +>3_F +BBBB +>3_G +CCCC +>3_H +AAAA +>3_I +BBBB +>3_J +CCCC +>3_Z +DDDD +>3_AA +AAAA +>3_BB +AAAA +>3_CC +AAAA +>3_GG +AAAA +>3_HH +AAAA +>3_core_island_D +AAAA +>3_core_island_E +AAAA +>3_core_island_F +AAAA \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/file_3.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,27 @@ +##gff-version 3 +##sequence-region contig01 1 1500 +contig01 abc CDS 1 99 . - 0 ID=3_A +contig01 abc CDS 100 199 . + 0 ID=3_B +contig01 abc CDS 200 299 . + 0 ID=3_C +contig01 abc CDS 300 390 . - 0 ID=3_E +contig01 abc CDS 400 490 . + 0 ID=3_F +contig01 abc CDS 600 690 . + 0 ID=3_G +contig01 abc CDS 700 790 . + 0 ID=3_H +contig02 abc CDS 800 890 . + 0 ID=3_Z +contig03 abc CDS 1 90 . - 0 ID=3_AA +contig03 abc CDS 100 190 . + 0 ID=3_BB +contig03 abc CDS 200 290 . + 0 ID=3_CC +contig03 abc CDS 600 690 . + 0 ID=3_GG +contig03 abc CDS 700 790 . + 0 ID=3_HH +contig04 abc CDS 300 390 . - 0 ID=3_core_island_D +contig04 abc CDS 400 490 . + 0 ID=3_core_island_E +contig04 abc CDS 500 590 . + 0 ID=3_core_island_F +##FASTA +>contig01 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +>contig02 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +>contig03 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +>contig04 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/no_accessory Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,3 @@ +group_A: 1_A 2_A 3_A +group_B: 1_B 2_B 3_B +group_C: 1_C 2_C 3_C \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/one_branch Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,5 @@ +group_A: 1_A 2_A 3_A +group_B1: 1_B +group_B2: 2_B 3_B +group_C: 1_C 2_C 3_C +group_E: 1_E 2_E 3_E \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/one_bubble Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +group_C: 1_C 2_C 3_C +group_E: 1_E 2_E 3_E +group_bubble_1: 1_F +group_bubble_2: 1_F_insertion +group_F: 2_F 3_F +group_G: 1_G 2_G 3_G \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/single_gene_contig Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1 @@ +group_A: 1_Z 2_Z 3_Z
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/accessory_graphs/two_graphs Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +group_A: 1_A 2_A 3_A +group_B: 1_B 2_B 3_B +group_G: 1_G 2_G 3_G +group_H: 1_H 2_H 3_H \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/allow_no_fasta_delimiter/annotation_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,173 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 2340 +##sequence-region abc|SC|contig000002 1 2340 +##sequence-region abc|SC|contig000003 1 2340 +##sequence-region abc|SC|contig000004 1 2340 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00001;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000002 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00003;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000002 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000003 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00005;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000003 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00006;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000004 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00007;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000004 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00008;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>abc|SC|contig000002 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>abc|SC|contig000003 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>abc|SC|contig000004 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/allow_no_fasta_delimiter/annotation_1.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,36 @@ +>abc_00001 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00003 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00004 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00005 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00006 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00007 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00008 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/allow_no_fasta_delimiter/annotation_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,173 @@ +##gff-version 3 +##sequence-region efg|SC|contig000001 1 2340 +##sequence-region efg|SC|contig000002 1 2340 +##sequence-region efg|SC|contig000003 1 2340 +##sequence-region efg|SC|contig000004 1 2340 +efg|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=efg_00001;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=efg_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|efg_00001 +efg|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=efg_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=efg_00002;product=hypothetical protein;protein_id=gnl|SC|efg_00002 +efg|SC|contig000002 Prodigal:2.60 CDS 172 1131 . - 0 ID=efg_00003;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=efg_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|efg_00001 +efg|SC|contig000002 Prodigal:2.60 CDS 1804 1950 . + 0 ID=efg_00004;inference=ab initio prediction:Prodigal:2.60;locus_tag=efg_00002;product=hypothetical protein;protein_id=gnl|SC|efg_00002 +efg|SC|contig000003 Prodigal:2.60 CDS 172 1131 . - 0 ID=efg_00005;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=efg_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|efg_00001 +efg|SC|contig000003 Prodigal:2.60 CDS 1804 1950 . + 0 ID=efg_00006;inference=ab initio prediction:Prodigal:2.60;locus_tag=efg_00002;product=hypothetical protein;protein_id=gnl|SC|efg_00002 +efg|SC|contig000004 Prodigal:2.60 CDS 172 1131 . - 0 ID=efg_00007;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=efg_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|efg_00001 +efg|SC|contig000004 Prodigal:2.60 CDS 1804 1950 . + 0 ID=efg_00008;inference=ab initio prediction:Prodigal:2.60;locus_tag=efg_00002;product=hypothetical protein;protein_id=gnl|SC|efg_00002 +>efg|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>efg|SC|contig000002 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>efg|SC|contig000003 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>efg|SC|contig000004 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/allow_no_fasta_delimiter/annotation_2.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,36 @@ +>efg_00001 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>efg_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>efg_00003 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>efg_00004 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>efg_00005 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>efg_00006 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>efg_00007 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>efg_00008 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/blast_results Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,13 @@ +1234#12_01975 1234#1_01317 100.00 60 0 0 1 60 30 89 8e-38 123 +1234#1_01317 1234#1_01317 100.00 89 0 0 1 89 1 89 1e-60 182 +1234#20_01662 1234#1_01317 100.00 37 0 0 1 37 53 89 3e-20 77.4 +1234#3_01167 1234#1_01317 98.33 60 1 0 1 60 30 89 2e-37 122 +6259_6#6_02209 6259_7#20_00601 99.71 684 2 0 1 684 1427 2110 0.0 1415 +6259_7#20_00601 6259_7#20_00601 100.00 2110 0 0 1 2110 1 2110 0.0 4335 +6593_5#7_01700 6259_7#20_00601 99.72 1057 3 0 1 1057 1054 2110 0.0 2181 +6630_2#15_02136 6259_7#20_00601 100.00 1015 0 0 1 1015 1096 2110 0.0 2104 +6630_4#12_02032 6259_7#20_00601 100.00 1046 0 0 1 1046 1065 2110 0.0 2164 +6631_2#21_02147 6259_7#20_00601 99.13 578 5 0 1 578 1533 2110 0.0 1199 +6631_4#23_02060 6259_7#20_00601 100.00 1290 0 0 1 1290 821 2110 0.0 2663 +6631_7#21_02171 6259_7#20_00601 97.37 684 0 1 1 666 1427 2110 0.0 1371 +6664_1#10_02278 6259_6#6_02209 100.00 404 0 0 1 404 281 684 0.0 838 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/clustered_proteins Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,12 @@ +speH: abc_00004 abc_00004 abc_00004 abc_00006 abc_00006 abc_00006 1_2 2_2 3_2 +group_2: abc_00014 abc_00014 abc_00014 1_6 2_7 abc_00015 +yfnB: abc_00016 abc_00016 3_5 +group_5: abc_00003 abc_00003 abc_00003 +argF: 1_3 2_3 3_3 +group_8: abc_01705 abc_01705 abc_01705 +group_9: abc_00010 abc_00010 abc_00010 +hly: 1_1 2_1 3_1 +arcC1: abc_00008 abc_00008 abc_00008 +group_10: abc_00011 abc_00011 abc_00011 +group_4: abc_00002 abc_00002 abc_00002 +group_11: abc_00012 abc_00012 abc_00012
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/clustered_proteins_pan_genome Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,21 @@ +group_13: abc_00014 abc_00014 +speH: 1_2 2_2 +arcC1: abc_00008 abc_00008 +group_2: abc_00002 abc_00002 +yfnB: abc_00016 abc_00016 +group_10: abc_00010 abc_00010 +group_12: abc_00012 abc_00012 +hly: 1_1 2_1 +group_6: abc_00006 abc_00006 +group_9: abc_01705 abc_01705 +group_14: 1_6 2_7 +group_3: abc_00003 abc_00003 +argF: 1_3 2_3 +group_11: abc_00011 abc_00011 +group_4: abc_00004 abc_00004 +group_18: abc_50010 +group_20: abc_50014 +group_16: abc_50002 +group_17: 3_3 +group_21: 3_5 +group_19: abc_50012
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/clustered_proteins_post_analysis Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,13 @@ +group_12: abc_00002 abc_00002 +group_13: abc_00003 abc_00003 +group_5: 1_6 2_7 +hly: 1_1 2_1 +group_6: abc_01705 abc_01705 +group_8: abc_00011 abc_00011 +speH: 1_2 2_2 +group_2: abc_00004 abc_00004 +group_3: abc_00006 abc_00006 +group_7: abc_00010 abc_00010 +yfnB: abc_00016 abc_00016 +arcC1: abc_00008 abc_00008 +argF: 1_3 2_3
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/clusters_input.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,20 @@ +>2363_5_03666 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>4075_2#3_03437 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>4075_1#8_03461 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>2212_3_02841 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>2363_5_00947 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>2363_7_00085 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>2460_2_00826 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>4075_1#6_04091 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>4075_1#3_04238 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>3634_6_04078 +AAAAAAAAAAAAAGGGGGGGGGGGGGG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/clusters_to_inflate Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,40 @@ +>Cluster 43 +0 2184aa, >2363_5_03666... * +>Cluster 44 +0 2138aa, >4075_2#3_03437... * +>Cluster 45 +0 2130aa, >2212_1_02994... at 99.48% +1 2130aa, >2212_6_02081... at 99.01% +2 2130aa, >2363_1_00606... at 99.48% +3 2130aa, >2363_2_02124... at 99.48% +4 2130aa, >2363_3_01371... at 99.39% +5 2130aa, >2363_6_01272... at 99.15% +6 2130aa, >2363_8_00966... at 99.48% +7 2130aa, >2541_2_02425... at 99.48% +8 2130aa, >2541_3_02449... at 99.01% +9 2130aa, >2541_7_00441... at 99.48% +10 2130aa, >2541_8_00644... at 99.48% +11 2130aa, >2781_2_02909... at 99.48% +12 2130aa, >3634_6_00968... at 99.48% +13 2130aa, >3634_7_01056... at 99.39% +14 2130aa, >3634_8_02606... at 99.48% +15 2137aa, >4075_1#8_03461... * +>Cluster 46 +0 2132aa, >2212_3_02841... * +>Cluster 47 +0 2130aa, >2363_5_00947... * +>Cluster 48 +0 2130aa, >2363_7_00085... * +>Cluster 49 +0 2130aa, >2460_2_00826... * +>Cluster 50 +0 2054aa, >4075_1#6_04091... * +>Cluster 51 +0 2042aa, >4075_1#3_04238... * +>Cluster 52 +0 1994aa, >2212_1_01414... at 99.75% +1 1994aa, >2363_1_00811... at 99.95% +2 1994aa, >2541_2_00696... at 99.95% +3 1994aa, >2541_8_00920... at 99.95% +4 2005aa, >3634_6_04078... * +5 2005aa, >3634_7_00911... at 99.95% \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/clusters_to_inflate.mcl Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +2363_5_03666 4075_2#3_03437 +4075_1#8_03461 +2212_3_02841 2363_5_00947 +2363_7_00085 2460_2_00826 4075_1#6_04091 4075_1#3_04238 3634_6_04078 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/clusters_to_inflate_original_input.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,60 @@ +>2212_1_01414 +AAAGGGTTT +>4075_1#3_04238 +AAAGGGTTT +>4075_1#6_04091 +AAAGGGTTT +>2212_1_02994 +AAAGGGTTT +>2363_5_00947 +AAAGGGTTT +>2363_7_00085 +AAAGGGTTT +>2460_2_00826 +AAAGGGTTT +>2212_3_02841 +AAAGGGTTT +>4075_2#3_03437 +AAAGGGTTT +>2363_5_03666 +AAAGGGTTT +>2363_1_00811 +AAAGGGTTT +>2212_6_02081 +AAAGGGTTT +>2541_8_00644 +AAAGGGTTT +>2781_2_02909 +AAAGGGTTT +>3634_6_00968 +AAAGGGTTT +>3634_7_01056 +AAAGGGTTT +>3634_8_02606 +AAAGGGTTT +>4075_1#8_03461 +AAAGGGTTT +>2541_2_00696 +AAAGGGTTT +>2363_1_00606 +AAAGGGTTT +>2541_8_00920 +AAAGGGTTT +>2363_2_02124 +AAAGGGTTT +>3634_6_04078 +AAAGGGTTT +>2363_3_01371 +AAAGGGTTT +>3634_7_00911 +AAAGGGTTT +>2363_6_01272 +AAAGGGTTT +>2363_8_00966 +AAAGGGTTT +>2541_2_02425 +AAAGGGTTT +>2541_3_02449 +AAAGGGTTT +>2541_7_00441 +AAAGGGTTT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/clustersfile Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,33 @@ +>Cluster 1 +0 4863aa, >6259_8#9_01142... * +>Cluster 2 +0 4666aa, >6631_2#11_00851... * +>Cluster 3 +0 4516aa, >6631_4#5_01901... * +>Cluster 4 +0 4230aa, >6664_1#21_00211... * +>Cluster 5 +0 4220aa, >6259_8#13_01077... * +>Cluster 6 +0 4201aa, >6630_4#9_00008... * +1 4201aa, >6631_1#23_00379... at 100.00% +2 4201aa, >6631_2#7_00715... at 99.95% +3 4201aa, >6631_5#1_00087... at 99.95% +4 4201aa, >6649_8#10_00838... at 99.95% +5 4201aa, >6664_1#13_00087... at 99.95% +>Cluster 7 +0 4195aa, >6259_5#1_00688... * +>Cluster 8 +0 4165aa, >6259_5#8_00815... * +>Cluster 9 +0 4153aa, >6259_7#7_02078... * +1 4153aa, >6259_7#8_01884... at 100.00% +2 4153aa, >6631_2#22_01965... at 99.95% +>Cluster 10 +0 4153aa, >6631_5#24_01032... * +>Cluster 11 +0 4124aa, >6593_5#13_00457... * +1 4124aa, >6630_1#9_00031... at 100.00% +2 4124aa, >6630_3#1_00008... at 100.00% +3 4124aa, >6630_3#2_00088... at 100.00% +4 4124aa, >6631_1#4_00087... at 100.00% \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_alignment.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1","query_2" +"hly","","Alpha-toxin","2","2","1","1","7",,,"",,,,"query_1_1","query_2_1" +"speH","","hypothetical protein","2","2","1","1","11",,,"",,,,"query_1_2","query_2_2" +"argF","","Ornithine carbamoyltransferase","2","2","1","1","6",,,"",,,,"query_1_3","query_2_3"
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_alignment/argF.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +>query_1_3 +AAAAA- +>query_2_3 +CCCCC- \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_alignment/hly.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +>query_1_1 +GGGGG +>query_2_1 +TTTTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_alignment/speH.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +>query_1_2 +TTTTT +>query_2_2 +GGGGG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_alignment_core0.66.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1","query_2","query_3" +"hly","","Alpha-toxin","1","1","1","1","7",,,"",,,,"query_1_1","","" +"speH","","hypothetical protein","2","2","1","1","11",,,"",,,,"query_1_2","query_2_2","" +"argF","","Ornithine carbamoyltransferase","1","1","1","1","6",,,"",,,,"","query_2_3",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_alignment_gene_lookup/expected_core_gene_alignment.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,45 @@ +>query_1 +ATGAATCTACCTTTACCTGATAATTATGAATTTGTGTTTTTATCTGGTGGATTATCTGGG +CATGCTGCAATGATGTCATTTTTTAATGTTTGTGGCATTGGATATTTGTATCATCATATG +GATTTAATGAAAAATAGATATATAGATTATTACCATTTTTCTAGGATTGAAAATTTATAT +TCAATTATAACATATGGACAATACAGTTTAACGCAAGGAATGAATAATATAGGTAAATAT +TTGACTTTAATTAATAAAATTCCAATTCTTTTTTTGGTAAGAGATCCCATATCAAGACTA +AAAACCGGAGTAAATCATCCTATTCTAAATCCAAAAAGTATGAAGGAGATATGTTTAAAC +AATGATTATAGTGATGTGTTTAAGAATAAAATGTATGTTGGCGATATTGGAAAAAATTTT +TACTATTCAGAAAAGCCAAGCATGAAATATTTACCTAGATTGAAATATGAAAATTTGGGA +ATATTTTTAAAACCACAAGAATTTGAGCGTTTAAAGCAAGATTCTAAGCTATTTGATGTT +GCTAAAAGATATTTGAATAATTTTATTGAAGCTTTAGAAGAGAGAATAGACCTAGAAAAA +GCTAAATTATTTAAAGAAAAAGACGTGTTAAACTATTTAAAAGAAAATAAAGAATTAAGA +GTTAAGTTAAAAAACATATTAGATAAAGAACTTGTTCATATTAAACAACATCGTCCAGAT +ATAGTAGCTTCTTGGAAATACTATCAAGAATTTGAACAAATGTGCAAGGAGTTGAATGGT +AATATTTAG +>query_2 +ATGAATCTACCTTTACCTGATAATTATGAATTTGTGTTTTTATCTGGTGGATTATCTGGG +CATGCTGCAATGATGTCATTTTTTAATGTTTGTGGCATTGGATATTTGTATCATCATATG +GATTTAATGAAAAATAGATATATAGATTATTACCATTTTTCTAGGATTGAAAATTTATAT +TCAATTATAACATATGGACAATACAGTTTAACGCAAGGAATGAATAATATAGGTAAATAT +TTGACTTTAATTAATNNNNNNNNNATTCTTTTTTTGGTAAGAGATCCCATATCAAGACTA +AAAACCGGAGTAAATCATCCTATTCTAAATCCAAAAAGTATGAAGGAGATATGTTTAAAC +AATGATTATAGTGATNNNNNNNNNAATAAAATGTATGTTGGCGATATTGGAAAAAATTTT +TACTATTCAGAAAAGCCAAGCATGAAATATTTACCTAGATTGAAATATGAAAATTTGGGA +ATATTTTTAAAACCACAAGAATTTGAGCGTTTAAAGCAAGATTCTAAGCTATTTGATGTT +GCTAAAAGATATTTGAATAATTTTATTGAAGCTTTAGAAGAGAGAATAGACCTAGAAAAA +GCTAAATTATTTAAAGAAAAAGACGTGTTAAACTATTTAAAAGAAAATAAAGAATTAAGA +GTTAAGTTAAAAAACATATTAGATAAAGAACTTGTTCATATTAAACAACATCGTCCAGAT +ATAGTAGCTTCTTGGAAATACTATCAAGAATTTGAACAAATGTGCAAGGAGTTGAATGGT +AATATTTAG +>query_3 +ATGAATCTACCTTTACCTGATAATTATGAATTTGTGTTTTTATCTGGTGGATTATCTGGG +CATGCTGCAATGATGTCATTTTTTAATGTTTGTGGCATTGGATATTTGTATCATCATATG +GATTTAATGAAAAATAGATATATAGATTATTACCATTTTTCTAGGATTGAAAATTTATAT +TCAATTATAACATATGGACAATACAGTTTAACGCAAGGAATGAATAATATAGGTAAATAT +TTGACTTTAATTAATAAAATTCCAATTCTTTTTTTGGTAAGAGATCCCATATCAAGACTA +AAAACCGGAGTAAATCATCCTATTCTAAATCCAAAAAGTATGAAGGAGATATGTTTAAAC +AATGATTATAGTGATGTGTTTAAGAATAAAATGTATGTTGGCGATATTGGAAAAAATTTT +TACTATTCAGAAAAGCCAAGCATGAAATATTTACCTAGATTGAAATATGAAAATTTGGGA +ATATTTTTAAAACCACAAGAATTCGAGCGTTTAAAGCAAGATTCTAAGCTATTTGATGTT +GCTAAAAGATATTTGAATAATTTTATTGAAGCTTTAGAAGAGAGAATAGACCTAGAAAAA +GCTAAATTATTTAAAGAAAAAGACGTGTTAAACTATTTAAAAGAAAATAAAGAATTAAGA +GTTAAGTTAAAAAACATATTAGATAAAGAACTTGTTCATATTAAACAACATCGTCCAGAT +ATAGTAGCTTCTTGGAAATACTATCAAGAATTTGAACAAATGTGCAAGGAGTTGAATGGT +AATATTTAG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_alignment_gene_lookup/query_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,29 @@ +##gff-version 3 +##sequence-region gnl|IFR|Ef_ABC123_contig000001 1 1320 +gnl|IFR|Ef_ABC123_contig000001 Prodigal:2.6 CDS 52 513 . + 0 ID=Ef_ABC123_00010;Parent=Ef_ABC123_00010_gene;inference=ab initio prediction:Prodigal:2.6,similar to AA sequence:RefSeq:CJSA_1363;locus_tag=Ef_ABC123_00010;product=CJSA_1363 putative sugar transferase:1372570 reverse MW:76273;protein_id=gnl|IFR|Ef_ABC123_00010 +gnl|IFR|Ef_ABC123_contig000001 Prodigal:2.6 CDS 510 746 . + 0 ID=Ef_ABC123_00020;Parent=Ef_ABC123_00020_gene;inference=ab initio prediction:Prodigal:2.6,similar to AA sequence:RefSeq:CJSA_1363;locus_tag=Ef_ABC123_00020;product=CJSA_1363 putative sugar transferase:1372570 reverse MW:76273;protein_id=gnl|IFR|Ef_ABC123_00020 +gnl|IFR|Ef_ABC123_contig000001 Prodigal:2.6 CDS 878 1207 . + 0 ID=Ef_ABC123_00030;Parent=Ef_ABC123_00030_gene;inference=ab initio prediction:Prodigal:2.6,similar to AA sequence:RefSeq:A911_06907;locus_tag=Ef_ABC123_00030;product=A911_06907 putative sugar transferase:1355468 reverse MW:73559;protein_id=gnl|IFR|Ef_ABC123_00030 +##FASTA +>gnl|IFR|Ef_ABC123_contig000001 +GAAAAAGAAAAAATAAACTATAAAAACATATCAGCTGAACTTGCTTGGGAAATGAATCTA +CCTTTACCTGATAATTATGAATTTGTGTTTTTATCTGGTGGATTATCTGGGCATGCTGCA +ATGATGTCATTTTTTAATGTTTGTGGCATTGGATATTTGTATCATCATATGGATTTAATG +AAAAATAGATATATAGATTATTACCATTTTTCTAGGATTGAAAATTTATATTCAATTATA +ACATATGGACAATACAGTTTAACGCAAGGAATGAATAATATAGGTAAATATTTGACTTTA +ATTAATAAAATTCCAATTCTTTTTTTGGTAAGAGATCCCATATCAAGACTAAAAACCGGA +GTAAATCATCCTATTCTAAATCCAAAAAGTATGAAGGAGATATGTTTAAACAATGATTAT +AGTGATGTGTTTAAGAATAAAATGTATGTTGGCGATATTGGAAAAAATTTTTACTATTCA +GAAAAGCCAAGCATGAAATATTTACCTAGATGATTAATGAAGATACAATGTATCAGACAT +CGCTTTGCTTATTATTTTCAAATAGAGATATTACTTATATTGACATGGAAGAAATAAAAC +CAGCAAAGGCATTCGATACAATGTGTGATTTAGCTAACAAATTTGGTTTTAAGAAACCAA +CGGATAAAAAATTTTTTGAAGGAGTTATGAATGGAGATTTAGCAGGTTTTATACCTATTA +ATTTATTTATTGATAAAAAAATTTAATTTATAATAACAAAGTTATTTATAAAGATAATGA +TAGCATCCATCTTCAAATCACATCTACAAATTTAATTGAAATTTATAAACAATCTAAAGA +ATATATCAACTTTACTAAAGAATTTTTTGATAAACCTTTGAAATATGAAAATTTGGGAAT +ATTTTTAAAACCACAAGAATTTGAGCGTTTAAAGCAAGATTCTAAGCTATTTGATGTTGC +TAAAAGATATTTGAATAATTTTATTGAAGCTTTAGAAGAGAGAATAGACCTAGAAAAAGC +TAAATTATTTAAAGAAAAAGACGTGTTAAACTATTTAAAAGAAAATAAAGAATTAAGAGT +TAAGTTAAAAAACATATTAGATAAAGAACTTGTTCATATTAAACAACATCGTCCAGATAT +AGTAGCTTCTTGGAAATACTATCAAGAATTTGAACAAATGTGCAAGGAGTTGAATGGTAA +TATTTAGGAGAAAGATTTGTAAATTAATAAAAAAAAGATATAATTGTGTTTAAAATTAGA +GAAAGGAATCAATATGAAACAAGGGGATTTTACAAAAGTTGCAAAACATTATCACAATAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_alignment_gene_lookup/query_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,29 @@ +##gff-version 3 +##sequence-region gnl|IFR|Ef_EFG123_contig000001 1 1320 +gnl|IFR|Ef_EFG123_contig000001 Prodigal:2.6 CDS 52 513 . + 0 ID=Ef_EFG123_00010;Parent=Ef_EFG123_00010_gene;inference=ab initio prediction:Prodigal:2.6,similar to AA sequence:RefSeq:CJSA_1363;locus_tag=Ef_EFG123_00010;product=CJSA_1363 putative sugar transferase:1372570 reverse MW:76273;protein_id=gnl|IFR|Ef_EFG123_00010 +gnl|IFR|Ef_EFG123_contig000001 Prodigal:2.6 CDS 510 746 . + 0 ID=Ef_EFG123_00020;Parent=Ef_EFG123_00020_gene;inference=ab initio prediction:Prodigal:2.6,similar to AA sequence:RefSeq:CJSA_1363;locus_tag=Ef_EFG123_00020;product=CJSA_1363 putative sugar transferase:1372570 reverse MW:76273;protein_id=gnl|IFR|Ef_EFG123_00020 +gnl|IFR|Ef_EFG123_contig000001 Prodigal:2.6 CDS 878 1207 . + 0 ID=Ef_EFG123_00030;Parent=Ef_EFG123_00030_gene;inference=ab initio prediction:Prodigal:2.6,similar to AA sequence:RefSeq:A911_06907;locus_tag=Ef_EFG123_00030;product=A911_06907 putative sugar transferase:1355468 reverse MW:73559;protein_id=gnl|IFR|Ef_EFG123_00030 +##FASTA +>gnl|IFR|Ef_EFG123_contig000001 +GAAAAAGAAAAAATAAACTATAAAAACATATCAGCTGAACTTGCTTGGGAAATGAATCTA +CCTTTACCTGATAATTATGAATTTGTGTTTTTATCTGGTGGATTATCTGGGCATGCTGCA +ATGATGTCATTTTTTAATGTTTGTGGCATTGGATATTTGTATCATCATATGGATTTAATG +AAAAATAGATATATAGATTATTACCATTTTTCTAGGATTGAAAATTTATATTCAATTATA +ACATATGGACAATACAGTTTAACGCAAGGAATGAATAATATAGGTAAATATTTGACTTTA +ATTAATAANNNNNNNATTCTTTTTTTGGTAAGAGATCCCATATCAAGACTAAAAACCGGA +GTAAATCATCCTATTCTAAATCCAAAAAGTATGAAGGAGATATGTTTAAACAATGATTAT +AGTGATGTNNNNNNNAATAAAATGTATGTTGGCGATATTGGAAAAAATTTTTACTATTCA +GAAAAGCCAAGCATGAAATATTTACCTAGATGATTAATGAAGATACAATGTATCAGACAT +CGCTTTGCNNNNNNTTTTCAAATAGAGATATTACTTATATTGACATGGAAGAAATAAAAC +CAGCAAAGGCATTCGATACAATGTGTGATTTAGCTAACAAATTTGGTTTTAAGAAACCAA +CGGATAAAAAATTTTTTGAAGGAGTTATGAATGGAGATTTAGCAGGTTTTATACCTATTA +ATTTATTTNNNNNNNAAAAAATTTAATTTATAATAACAAAGTTATTTATAAAGATAATGA +TAGCATCCATCTTCAAATCACATCTACAAATTTAATTGAAATTTATAAACAATCTAAAGA +ATATATCAACTTTACTAAAGAATTTTTTGATAAACCTTTGAAATATGAAAATTTGGGAAT +ATTTTTAAAACCACAAGAATTTGAGCGTTTAAAGCAAGATTCTAAGCTATTTGATGTTGC +TAAAAGATATTTGAATAATTTTATTGAAGCTTTAGAAGAGAGAATAGACCTAGAAAAAGC +TAAATTATTTAAAGAAAAAGACGTGTTAAACTATTTAAAAGAAAATAAAGAATTAAGAGT +TAAGTTAAAAAACATATTAGATAAAGAACTTGTTCATATTAAACAACATCGTCCAGATAT +AGTAGCTTCTTGGAAATACTATCAAGAATTTGAACAAATGTGCAAGGAGTTGAATGGTAA +TATTTAGGAGAAAGATTTGTAAATTAATAAAAAAAAGATATAATTGTGTTTAAAATTAGA +GAAAGGAATCAATATGAAACAAGGGGATTTTACAAAAGTTGCAAAACATTATCACAATAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_alignment_gene_lookup/query_3.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,29 @@ +##gff-version 3 +##sequence-region gnl|IFR|Ef_HIJ123_contig000001 1 1320 +gnl|IFR|Ef_HIJ123_contig000001 Prodigal:2.6 CDS 52 513 . + 0 ID=Ef_HIJ123_00010;Parent=Ef_HIJ123_00010_gene;inference=ab initio prediction:Prodigal:2.6,similar to AA sequence:RefSeq:CJSA_1363;locus_tag=Ef_HIJ123_00010;product=CJSA_1363 putative sugar transferase:1372570 reverse MW:76273;protein_id=gnl|IFR|Ef_HIJ123_00010 +gnl|IFR|Ef_HIJ123_contig000001 Prodigal:2.6 CDS 510 746 . + 0 ID=Ef_HIJ123_00020;Parent=Ef_HIJ123_00020_gene;inference=ab initio prediction:Prodigal:2.6,similar to AA sequence:RefSeq:CJSA_1363;locus_tag=Ef_HIJ123_00020;product=CJSA_1363 putative sugar transferase:1372570 reverse MW:76273;protein_id=gnl|IFR|Ef_HIJ123_00020 +gnl|IFR|Ef_HIJ123_contig000001 Prodigal:2.6 CDS 878 1207 . + 0 ID=Ef_HIJ123_00030;Parent=Ef_HIJ123_00030_gene;inference=ab initio prediction:Prodigal:2.6,similar to AA sequence:RefSeq:A911_06907;locus_tag=Ef_HIJ123_00030;product=A911_06907 putative sugar transferase:1355468 reverse MW:73559;protein_id=gnl|IFR|Ef_HIJ123_00030 +##FASTA +>gnl|IFR|Ef_HIJ123_contig000001 +GAAAAAGAAAAAATAAACTATAAAAACATATCAGCTGAACTTGCTTGGGAAATGAATCTA +CCTTTACCTGATAATTATGAATTTGTGTTTTTATCTGGTGGATTATCTGGGCATGCTGCA +ATGATGTCATTTTTTAATGTTTGTGGCATTGGATATTTGTATCATCATATGGATTTAATG +AAAAATAGATATATAGATTATTACCATTTTTCTAGGATTGAAAATTTATATTCAATTATA +ACATATGGACAATACAGTTTAACGCAAGGAATGAATAATATAGGTAAATATTTGACTTTA +ATTAATAAAATTCCAATTCTTTTTTTGGTAAGAGATCCCATATCAAGACTAAAAACCGGA +GTAAATCATCCTATTCTAAATCCAAAAAGTATGAAGGAGATATGTTTAAACAATGATTAT +AGTGATGTGTTTAAGAATAAAATGTATGTTGGCGATATTGGAAAAAATTTTTACTATTCA +GAAAAGCCAAGCATGAAATATTTACCTAGATGATTAATGAAGATACAATGTATCAGACAT +CGCTTTGCTTATTATTTTCAAATAGAGATATTACTTATATTGACATGGAAGAAATAAAAC +CAGCAAAGGCATTCGATACAATGTGTGATTCAGCTAACAAATTTGGTTTTAAGAAACCAA +CGGATAAAAAATTTTTTGAAGGAGTTATGAATGGAGATTTAGCAGGTTTTATACCTATTA +ATTTATTTATTGATAAAAAAATTTAATTTATAATAACAAAGTTATTTATAAAGATAATGA +TAGCATCCATCTTCAAATCACATCTACAAATTTAATTGAAATTTATAAACAATCTAAAGA +ATATATCAACTTTACTAAAGAATTTTTTGATAAACCTTTGAAATATGAAAATTTGGGAAT +ATTTTTAAAACCACAAGAATTCGAGCGTTTAAAGCAAGATTCTAAGCTATTTGATGTTGC +TAAAAGATATTTGAATAATTTTATTGAAGCTTTAGAAGAGAGAATAGACCTAGAAAAAGC +TAAATTATTTAAAGAAAAAGACGTGTTAAACTATTTAAAAGAAAATAAAGAATTAAGAGT +TAAGTTAAAAAACATATTAGATAAAGAACTTGTTCATATTAAACAACATCGTCCAGATAT +AGTAGCTTCTTGGAAATACTATCAAGAATTTGAACAAATGTGCAAGGAGTTGAATGGTAA +TATTTAGGAGAAAGATCTGTAAATTAATAAAAAAAAGATATAACTGTGTTTAAAATTAGA +GAAAGGAATCAATATGAAACAAGGGGATTTTACAAAAGTTGCAAAACATTATCACAATAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/core_group_statistics.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,11 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1","query_2" +"group_5","","Gonococcal growth inhibitor III","2","2","1","3","2",,,"",,,,"1_6","2_7" +"hly","","Alpha-toxin","2","2","1.01","1","7",,,"",,,,"1_1","2_1" +"speH","","hypothetical protein","2","2","1","1","11",,,"",,,,"1_2","2_2" +"argF","","Ornithine carbamoyltransferase","2","2","1","1","6",,,"",,,,"1_3","2_3" +"group_12","","hypothetical protein","1","2","2","2","8",,,"",,,,"","abc_00002 abc_00002" +"group_13","","hypothetical protein","1","2","2","1","9",,,"",,,,"","abc_00003 abc_00003" +"group_6","","","1","2","1.99","","","","","",,,,"","abc_01705 abc_01705" +"group_8","","C4-dicarboxylate transporter/malic acid transport protein","1","2","2","1","3",,,"",,,,"","abc_00011 abc_00011" +"group_2","","superantigen-like protein","1","2","2","1","10",,,"",,,,"","abc_00004 abc_00004" +"arcC1","","Carbamate kinase 1","2","2","0.99","1","5",,,"",,,,"","abc_00008 abc_00008"
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/example_1.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,29 @@ +>1234#10_00001 nudix hydrolase +MSKHGFFQITQKLFLRKGDELLILRDRKSGLGDLPGGRMNENEFFEDWSLSMQREIEEEL +GSQVQIRVSTKPLFIHKHKVNEGNFPCIIIAYHADYLGGDIILSDEHDYISWEKVQTYEP +SPLFTEYMLDAVNLYLKEYAPLVH* +>1234#10_00002 intramembrane serine protease +MIIKLKIILNSYLIYYFLRGQNTLIRTLLFEFPLTTFFVFLMVATFFIVNVFLPEHLIRQ +YFLNHPGQIQPLSWIGAVFYHGNLIHLFGNMFYLFFLGRAVEYKAGKGRWLLFFFMAALI +SSLLDSFIRGVILHDPTPVVGASGAISGIAAVAALLSPFSLRFNQRNIPFPVFLVAWIMV +YSDITNVFTEDGVARWAHLGGFISVIFAAYFLKPTERKQLHSGFILNLIFIILTLILAFF +YSNRS* +>1234#10_00003 hypothetical protein +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>1234#10_00005 imidazoleglycerol-phosphate dehydratase or histidinol-phosphatase +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE* +>1234#10_00006 imidazole glycerol phosphate synthase subunit HisH +MIAILDYGMGNIHSCLKAVSLYTKDFVFTKDHSTIENSKALILPGDGHFDKAMENLNSTG +LRKTIDKHVTSGKPLFGICIGFQILFESSEEIAQGSKKEQIEGLGYIKGKIKKFHGKDFK +VPHIGWNRLQIRRKDKSVLLKGIGDQSFFYFIHSYRPTDAEGNAITGLCDYYQEKFPAVV +EKNNIFGTQFHPEKSHTHGLKLLENFIRFI* +>1234#10_00007 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase +MIVIPAIDLFDNCAVRLFKGNYEEKKIYSSEPWKLAESFAKNGATLLHLVDLNGARNQLG +VNEDSILKIRETTSLKVQLGGGIRDKEKLAYYDKIGINRFILGTAAVTNPDLLKYALDNY +GKERVVVAVDARDGIVKIAGWEKDSGIHYRDLLERLVKAGIEHIVFTDIAQDGTLAGPNL +EAYREILNSYPFQVIASGGIASLKDLMDLSSLKTKISLYGVITGKALYEGKLDLAKAISS +I*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/example_2.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,27 @@ +>1234#10_00016 hypothetical protein +MKVTHSCLEFDSIEGLIDFAREFETGSMIRFLSPIEDNSGNVLVKEEVQVKESTLARLKD +IKGQYTPKFEVKLNKELLEQIQNILAIKIVNQLKVTDMKFLKFMYENTNYNFKGIIRNSL +LSKKTTLTLLKVYNQNLNFFKYISELGLLSLGIVMIPDTMRFRLLRRYAFTAGILMDVPR +IGVDKFTKLPSDDNEKVRVAHKCSDILQKLDLIEFTYGSISNHMPLGMIEDSTSSDKAAP +GENIDETFLDDIISNDGESDSKVDGSREDAIPEKSYDIFQALLTDALKLARYIANVSHNA +VDKDYVMEELVYYIAYNTSKKYFDELLANPLVATFKEFEVNVKRLRKIAEVEMKCVYPPS +AWAYPKPKSSQVLCKNKVWDCPNIVMGWDIHVITAQEAFGWVGTSLPVDNYPKCRLEEEL +DEIMVEPEKPKKK* +>1234#10_00017 LipL45-like lipoprotein +MKRYLSIVILCTFAMLLLVCSTNKSSGSDQVKTESNATSARIVWLLGDVKILSDSGEKKA +ELGASLSSTDRVVTGPNGGAEIMVADSGIIKMSKNSDIEISSLMNPNGSDTNVQVNYGKI +VTMVKKGQKTTEFTVSTPTALAGVRGTSFLTSVESPEGSKINCAKANCTVRFAVIEGTIA +VSKKGESSEVILSKNRELRIEKNQKLTDKLIRSLQNDSLSEMKELIVLHKNETFEYGKLV +EELKSSSEELKILSQSGSVEEVKAAFQKREADRNNADEITKTAKAVNETKYVQQDVQKEK +LKLNPKETF* +>1234#10_00018 putative lipoprotein +MDFSFNLVDNNGTVMRSTFSPIRFFTFSFLWILIDCSSVQKIENFNSVLQEPTFKSLKEE +EAILGGSSDSDYKIRKTGNTIPVFVLSPIQTPEGMDSKLAAFLSDEVRLIWAKVKGKQVR +IQEMSWKNPSQLSQELKRLNVDAVIKTDIREVSGKWVVNQKITDPVKEIVYGSVDGSFQS +PKIEDELQANQAYYLKHGSGVLALDAKSSLVPIWEKSLSSGEIDSILKKSIQGYLSFSAS +SADTEVLFQGEKIGIASFRNYPLPEGLQQIQITRPGQKDISKSLQIRSGQTISIYQEWKE +DRTLGGVRILSFPEALQVALDGLKMGETPFYRSNLTPGAMQLELVRETENGPLVYYEGQL +IVDADKITEIALPYKTDNLISEPEFWKLSGEKGFQAFSGKTLDFQNVSSLPPGWYGVFSA +PFVPENMELEGIIPITAESDSGIVAISFHTSKKTISLEYEKERLSVYSFPSNGNNVGTYK +FKKEDKEDGRPFRIITDVKEGTIRLYLGYSKVLEDRLDVSGVWRISILTRGENFSKRSPL +RNLKIEYKGYK*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/example_3.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,43 @@ +>3333#10_00016 hypothetical protein +MKVTHSCLEFDSIEGLIDFAREFETGSMIRFLSPIEDNSGNVLVKEEVQVKESTLARLKD +IKGQYTPKFEVKLNKELLEQIQNILAIKIVNQLKVTDMKFLKFMYENTNYNFKGIIRNSL +LSKKTTLTLLKVYNQNLNFFKYISELGLLSLGIVMIPDTMRFRLLRRYAFTAGILMDVPR +IGVDKFTKLPSDDNEKVRVAHKCSDILQKLDLIEFTYGSISNHMPLGMIEDSTSSDKAAP +GENIDETFLDDIISNDGESDSKVDGSREDAIPEKSYDIFQALLTDALKLARYIANVSHNA +VDKDYVMEELVYYIAYNTSKKYFDELLANPLVATFKEFEVNVKRLRKIAEVEMKCVYPPS +AWAYPKPKSSQVLCKNKVWDCPNIVMGWDIHVITAQEAFGWVGTSLPVDNYPKCRLEEEL +DEIMVEPEKPKKK* +>3333#10_00018 putative lipoprotein +MDFSFNLVDNNGTVMRSTFSPIRFFTFSFLWILIDCSSVQKIENFNSVLQEPTFKSLKEE +EAILGGSSDSDYKIRKTGNTIPVFVLSPIQTPEGMDSKLAAFLSDEVRLIWAKVKGKQVR +IQEMSWKNPSQLSQELKRLNVDAVIKTDIREVSGKWVVNQKITDPVKEIVYGSVDGSFQS +PKIEDELQANQAYYLKHGSGVLALDAKSSLVPIWEKSLSSGEIDSILKKSIQGYLSFSAS +SADTEVLFQGEKIGIASFRNYPLPEGLQQIQITRPGQKDISKSLQIRSGQTISIYQEWKE +DRTLGGVRILSFPEALQVALDGLKMGETPFYRSNLTPGAMQLELVRETENGPLVYYEGQL +IVDADKITEIALPYKTDNLISEPEFWKLSGEKGFQAFSGKTLDFQNVSSLPPGWYGVFSA +PFVPENMELEGIIPITAESDSGIVAISFHTSKKTISLEYEKERLSVYSFPSNGNNVGTYK +FKKEDKEDGRPFRIITDVKEGTIRLYLGYSKVLEDRLDVSGVWRISILTRGENFSKRSPL +RNLKIEYKGYK* +>3333#10_00001 nudix hydrolase +MSKHGFFQITQKLFLRKGDELLILRDRKSGLGDLPGGRMNENEFFEDWSLSMQREIEEEL +GSQVQIRVSTKPLFIHKHKVNEGNFPCIIIAYHADYLGGDIILSDEHDYISWEKVQTYEP +SPLFTEYMLDAVNLYLKEYAPLVH* +>3333#10_00003 hypothetical protein +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>3333#10_00005 imidazoleglycerol-phosphate dehydratase or histidinol-phosphatase +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE* +>3333#10_00006 imidazole glycerol phosphate synthase subunit HisH +MIAILDYGMGNIHSCLKAVSLYTKDFVFTKDHSTIENSKALILPGDGHFDKAMENLNSTG +LRKTIDKHVTSGKPLFGICIGFQILFESSEEIAQGSKKEQIEGLGYIKGKIKKFHGKDFK +VPHIGWNRLQIRRKDKSVLLKGIGDQSFFYFIHSYRPTDAEGNAITGLCDYYQEKFPAVV +EKNNIFGTQFHPEKSHTHGLKLLENFIRFI* +>3333#10_00007 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase +MIVIPAIDLFDNCAVRLFKGNYEEKKIYSSEPWKLAESFAKNGATLLHLVDLNGARNQLG +VNEDSILKIRETTSLKVQLGGGIRDKEKLAYYDKIGINRFILGTAAVTNPDLLKYALDNY +GKERVVVAVDARDGIVKIAGWEKDSGIHYRDLLERLVKAGIEHIVFTDIAQDGTLAGPNL +EAYREILNSYPFQVIASGGIASLKDLMDLSSLKTKISLYGVITGKALYEGKLDLAKAISS +I*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/example_annotation.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00001;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=abc_00005;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 ID=abc_00006;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 ID=abc_00007;eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=abc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 ID=abc_00008;eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=abc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 ID=abc_01705;inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=abc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 ID=abc_00010;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 ID=abc_00011;inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=abc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 ID=abc_00012;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11820 . - 0 ID=abc_00013;inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=abc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 ID=abc_00014;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 ID=abc_00015;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 ID=abc_00016;eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=abc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/example_annotation.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,65 @@ +>abc_00001 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00003 +MTELNNIINSLQSLFESESGYKISKNSGVPYQTVQDLRNGKTKLEDARFRTIIKLYSYYV +SLKEH* +>abc_00004 +MSKNITKNIILTTTLLLLGTVLPQNQKPVFSFYSEAKAYSIGQDETNINELIKYYTQPHF +SFSNKWLYQYDNGNIYVELKRYSWSAHISLWGAESWGNINQLKDRYVDVFGLKDKDTDQL +WWSYRETFTGGVTPAAKPSDKTYNLFVQYKDKLQTIIGAHKIYQGNKPVLTLKEIDFRAR +EALIKNKILYTENRNKGKLKITGGGNNYTIDLSKRLHSDLANVYVKNPNKITVDVLFD* +>abc_00005 +MNNNITKKIILSTTLLLLGTAFTQFPNTPINSSSEAKAYYINQNETNVNELTKYYSQKYL +TFSNSTLWQKDNGTIHATLLQFSWYSHIQVYGPESWGNINQLRNKSVDIFGIKDQETIDS +FALSQETFTGGVTPAATSNDKHYKLNVTYKDKAETFTGGFPVYEGNKPVLTLKELDFRIR +QTLIKSKKLYNNSYNKGQIKITGTDNNYTIDLSKRLPSTDANRYVKKPQNAKIEVILEKS +N* +>abc_00006 +MKKNIMNKLVLSTALLLLGTTSTQLPKTPISFSSEAKAYNISENETNINELIKYYTQPHF +SLSGKWLWQKPNGSIHATLQTWVWYSHIQVFGSESWGNINQLRNKYVDIFGTKDEDTVEG +YWTYDETFTGGVTPAATSSDKPYRLFLKYSDKQQTIIGGHEFYKGNKPVLTLKELDFRIR +QTLIKNKKLYNGEFNKGQIKITADGNNYTIDLSKKLKLTDTNRYVKNPKNAQIEVILEKS +N* +>abc_00007 +MKNLRNRSFLTLLDFSRQEVEFLLTLSEDLKRAKYIGTEKPMLKNKNIALLFEKDSTRTR +CAFEVAAHDQGANVTYLGPTGSQMGKKETTKDTARVLGGMYDGIEYRGFSQRTVETLAEN +SGVPVWNGLTDEDHPTQVLADFLTAKEVLKKDYADINFTYVGDGRNNVANALMQGAAIMG +MNFHLVCPKELNPTDELLNRCKNIAAENGGNILITDDIDQGVKGSDVIYTDVWVSMGEPD +EVWKERLELLKPYQVNKEMMDKTGNPNVIFEHCLPSFHNADTKIGQQIFEKYGIREMEVT +DEVFESKASVVFQEAENRMHTIKAVMVATLGEF* +>abc_00008 +MMAKIVVALGGNALGKSPQEQLELVKNTAKSLVGLITKGHEIVISHGNGPQVGSINLGLN +YAAEHNQGPAFPFAECGAMSQAYIGYQLQESLQNELHSIGMDKQVVTLVTQVEVDENDPA +FNNPSKPIGLFYNKEEAEQIQKEKGFIFVEDAGRGYRRVVPSPQPISIIELESIKTLIKN +DTLVIAAGGGGIPVIREQHDGFKGIDAVIDKDKTSALLGANIQCDQLIILTAIDYVYINF +NTENQQPLKTTNVDELKRYIDENQFAKGSMLPKIEAAISFIENNPKGSVLITSLNELDAA +LEGKVGTVIKK* +>abc_00010 +MTHLTKVLDTLTGICVVLLFSKYFVAYANMVFDWNLRWYLLENIPHLPIILFILMFIFGV +PSEMIKDRQRKNNGV* +>abc_00011 +MRLQKAPLVTSGLVLGLLGLGNLLKDLSLTLNAVCGIFAFLIWIHLLCTMIKYFNNVKEQ +LNSPLVSSVFTTFFMSGFLGTTYLNTFFSNITFINSLITPIWILCLVGIMTHMIIFSIKY +LKDFSLENVYPSWTVLFIGIAIAGLTAPVSGCFFIGQLTVIYGFVATCIVLPIVFKRLKA +FPLQTSIKPNTSTICAPFSLVAAAYVIAFPKANAFIVIIFLILAQIFYFYIIIQLPKLLK +EPFSPVFSAFTFPLVISATALKNSLPVLMFPDIWKGLLFIEVLLATVIVLRVFIGYLHFF +LKKENQDKFLRNASQ* +>abc_00012 +MRNQIQKLLDSDLSSLHISKQTGVPQSTIHRMRKKERSLDNMSLKNAELLYKFANSIFSN +EN* +>abc_00014 +MEGLFNAIKDTVTAAINNDGAKLGTSIVSIVENGVGLLGKLFGF* +>abc_00015 +MTGLAEAIANTVQAAQQHDSVKLGTSIVDIVANGVGLLGKLFGF* +>abc_00016 +LGYKNILIDFDDTIVDFYDAEEWAFHYMANVFNHKATKDDFLTFKKINHQHWEAFQQNKL +TKSEVLSERFVNYFKHHQMEVDGHRADVLFRNGLAEAKVKYFDQTLETIVELSKRHDLYI +VTNGVTETQKRRLNQTPLHKYIKKIFISEETGYQKPNPEFFNYVFNDIGEDERQHSIIVG +DSLTSDILGGINAGIATCWFNFRGFDHNPGIIPDYEINSWKQLNDIVR*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/example_annotation_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00001;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=abc_00005;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 ID=abc_00006;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 ID=abc_00007;eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=abc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 ID=abc_00008;eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=abc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 ID=abc_01705;inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=abc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 ID=abc_00010;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 ID=abc_00011;inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=abc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 ID=abc_00012;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11820 . - 0 ID=abc_00013;inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=abc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 ID=abc_00014;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 ID=abc_00015;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 ID=abc_00016;eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=abc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/example_annotation_no_fasta_line.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,270 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00001;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=abc_00005;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 ID=abc_00006;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 ID=abc_00007;eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=abc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 ID=abc_00008;eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=abc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 ID=abc_01705;inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=abc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 ID=abc_00010;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 ID=abc_00011;inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=abc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 ID=abc_00012;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11878 . - 0 ID=abc_00013;inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=abc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 ID=abc_00014;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 ID=abc_00015;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 ID=abc_00016;eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=abc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/example_groups Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +group_1: 1234#10_00001 1234#10_00002 +group_2: 1234#10_00003 1234#10_00018 1234#10_00005 +group_3: 1234#10_00005 1234#10_00005 +group_4: 1234#10_00006 1234#10_00007 +group_5: 1234#10_00016 +group_6: 1234#10_00017 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/example_groups_without_labels Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +1234#10_00001 1234#10_00002 +1234#10_00003 1234#10_00018 1234#10_00005 +1234#10_00005 1234#10_00005 +1234#10_00006 1234#10_00007 +1234#10_00016 +1234#10_00017 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/exp_qc_report.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +Sample,Genus,Species +assembly1,Clostridium,Clostridium difficile +assembly2,Escherichia,Escherichia coli +assembly3,Streptococcus,Streptococcus pneumoniae
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/exp_qc_report_real.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,3 @@ +Sample,Genus,Species +query_1,Staphylococcus,Staphylococcus aureus +query_2,Staphylococcus,Staphylococcus aureus
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_0.seq Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +>1234#10_00001 nudix hydrolase +MSKHGFFQITQKLFLRKGDELLILRDRKSGLGDLPGGRMNENEFFEDWSLSMQREIEEEL +GSQVQIRVSTKPLFIHKHKVNEGNFPCIIIAYHADYLGGDIILSDEHDYISWEKVQTYEP +SPLFTEYMLDAVNLYLKEYAPLVH*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_5.seq Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +>1234#10_00007 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase +MIVIPAIDLFDNCAVRLFKGNYEEKKIYSSEPWKLAESFAKNGATLLHLVDLNGARNQLG +VNEDSILKIRETTSLKVQLGGGIRDKEKLAYYDKIGINRFILGTAAVTNPDLLKYALDNY +GKERVVVAVDARDGIVKIAGWEKDSGIHYRDLLERLVKAGIEHIVFTDIAQDGTLAGPNL +EAYREILNSYPFQVIASGGIASLKDLMDLSSLKTKISLYGVITGKALYEGKLDLAKAISS +I*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_accessory_binary_genes.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>aaa +AAAA +>bbb +CAAA +>ccc +CCAA +>ddd +CCCA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_accessory_binary_genes_bounded.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>aaa +AA +>bbb +AA +>ccc +CA +>ddd +CC
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_clustered_proteins Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,9 @@ +group_5: 1234#10_00006 3333#10_00006 +group_1: 1234#10_00001 3333#10_00001 +group_6: 1234#10_00007 3333#10_00007 +group_9: 1234#10_00018 3333#10_00018 +group_3: 1234#10_00003 3333#10_00003 +group_7: 1234#10_00016 3333#10_00016 +group_4: 1234#10_00005 3333#10_00005 +group_8: 1234#10_00017 +group_2: 1234#10_00002
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_clusters_to_inflate Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +2363_5_03666 4075_2#3_03437 +4075_1#8_03461 2212_1_02994 2212_6_02081 2363_1_00606 2363_2_02124 2363_3_01371 2363_6_01272 2363_8_00966 2541_2_02425 2541_3_02449 2541_7_00441 2541_8_00644 2781_2_02909 3634_6_00968 3634_7_01056 3634_8_02606 +2212_3_02841 2363_5_00947 +2363_7_00085 2460_2_00826 4075_1#6_04091 4075_1#3_04238 3634_6_04078 2212_1_01414 2363_1_00811 2541_2_00696 2541_8_00920 3634_7_00911
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_combined_proteome.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,56 @@ +>1234#10_00001 nudix hydrolase +MSKHGFFQITQKLFLRKGDELLILRDRKSGLGDLPGGRMNENEFFEDWSLSMQREIEEEL +GSQVQIRVSTKPLFIHKHKVNEGNFPCIIIAYHADYLGGDIILSDEHDYISWEKVQTYEP +SPLFTEYMLDAVNLYLKEYAPLVH* +>1234#10_00002 intramembrane serine protease +MIIKLKIILNSYLIYYFLRGQNTLIRTLLFEFPLTTFFVFLMVATFFIVNVFLPEHLIRQ +YFLNHPGQIQPLSWIGAVFYHGNLIHLFGNMFYLFFLGRAVEYKAGKGRWLLFFFMAALI +SSLLDSFIRGVILHDPTPVVGASGAISGIAAVAALLSPFSLRFNQRNIPFPVFLVAWIMV +YSDITNVFTEDGVARWAHLGGFISVIFAAYFLKPTERKQLHSGFILNLIFIILTLILAFF +YSNRS* +>1234#10_00003 hypothetical protein +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>1234#10_00005 imidazoleglycerol-phosphate dehydratase or histidinol-phosphatase +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE* +>1234#10_00006 imidazole glycerol phosphate synthase subunit HisH +MIAILDYGMGNIHSCLKAVSLYTKDFVFTKDHSTIENSKALILPGDGHFDKAMENLNSTG +LRKTIDKHVTSGKPLFGICIGFQILFESSEEIAQGSKKEQIEGLGYIKGKIKKFHGKDFK +VPHIGWNRLQIRRKDKSVLLKGIGDQSFFYFIHSYRPTDAEGNAITGLCDYYQEKFPAVV +EKNNIFGTQFHPEKSHTHGLKLLENFIRFI* +>1234#10_00007 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase +MIVIPAIDLFDNCAVRLFKGNYEEKKIYSSEPWKLAESFAKNGATLLHLVDLNGARNQLG +VNEDSILKIRETTSLKVQLGGGIRDKEKLAYYDKIGINRFILGTAAVTNPDLLKYALDNY +GKERVVVAVDARDGIVKIAGWEKDSGIHYRDLLERLVKAGIEHIVFTDIAQDGTLAGPNL +EAYREILNSYPFQVIASGGIASLKDLMDLSSLKTKISLYGVITGKALYEGKLDLAKAISS +I* +>1234#10_00016 hypothetical protein +MKVTHSCLEFDSIEGLIDFAREFETGSMIRFLSPIEDNSGNVLVKEEVQVKESTLARLKD +IKGQYTPKFEVKLNKELLEQIQNILAIKIVNQLKVTDMKFLKFMYENTNYNFKGIIRNSL +LSKKTTLTLLKVYNQNLNFFKYISELGLLSLGIVMIPDTMRFRLLRRYAFTAGILMDVPR +IGVDKFTKLPSDDNEKVRVAHKCSDILQKLDLIEFTYGSISNHMPLGMIEDSTSSDKAAP +GENIDETFLDDIISNDGESDSKVDGSREDAIPEKSYDIFQALLTDALKLARYIANVSHNA +VDKDYVMEELVYYIAYNTSKKYFDELLANPLVATFKEFEVNVKRLRKIAEVEMKCVYPPS +AWAYPKPKSSQVLCKNKVWDCPNIVMGWDIHVITAQEAFGWVGTSLPVDNYPKCRLEEEL +DEIMVEPEKPKKK* +>1234#10_00017 LipL45-like lipoprotein +MKRYLSIVILCTFAMLLLVCSTNKSSGSDQVKTESNATSARIVWLLGDVKILSDSGEKKA +ELGASLSSTDRVVTGPNGGAEIMVADSGIIKMSKNSDIEISSLMNPNGSDTNVQVNYGKI +VTMVKKGQKTTEFTVSTPTALAGVRGTSFLTSVESPEGSKINCAKANCTVRFAVIEGTIA +VSKKGESSEVILSKNRELRIEKNQKLTDKLIRSLQNDSLSEMKELIVLHKNETFEYGKLV +EELKSSSEELKILSQSGSVEEVKAAFQKREADRNNADEITKTAKAVNETKYVQQDVQKEK +LKLNPKETF* +>1234#10_00018 putative lipoprotein +MDFSFNLVDNNGTVMRSTFSPIRFFTFSFLWILIDCSSVQKIENFNSVLQEPTFKSLKEE +EAILGGSSDSDYKIRKTGNTIPVFVLSPIQTPEGMDSKLAAFLSDEVRLIWAKVKGKQVR +IQEMSWKNPSQLSQELKRLNVDAVIKTDIREVSGKWVVNQKITDPVKEIVYGSVDGSFQS +PKIEDELQANQAYYLKHGSGVLALDAKSSLVPIWEKSLSSGEIDSILKKSIQGYLSFSAS +SADTEVLFQGEKIGIASFRNYPLPEGLQQIQITRPGQKDISKSLQIRSGQTISIYQEWKE +DRTLGGVRILSFPEALQVALDGLKMGETPFYRSNLTPGAMQLELVRETENGPLVYYEGQL +IVDADKITEIALPYKTDNLISEPEFWKLSGEKGFQAFSGKTLDFQNVSSLPPGWYGVFSA +PFVPENMELEGIIPITAESDSGIVAISFHTSKKTISLEYEKERLSVYSFPSNGNNVGTYK +FKKEDKEDGRPFRIITDVKEGTIRLYLGYSKVLEDRLDVSGVWRISILTRGENFSKRSPL +RNLKIEYKGYK*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_combined_proteome_with_filtering.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,82 @@ +>1234#10_00001 nudix hydrolase +MSKHGFFQITQKLFLRKGDELLILRDRKSGLGDLPGGRMNENEFFEDWSLSMQREIEEEL +GSQVQIRVSTKPLFIHKHKVNEGNFPCIIIAYHADYLGGDIILSDEHDYISWEKVQTYEP +SPLFTEYMLDAVNLYLKEYAPLVH* +>1234#10_00002 intramembrane serine protease +MIIKLKIILNSYLIYYFLRGQNTLIRTLLFEFPLTTFFVFLMVATFFIVNVFLPEHLIRQ +YFLNHPGQIQPLSWIGAVFYHGNLIHLFGNMFYLFFLGRAVEYKAGKGRWLLFFFMAALI +SSLLDSFIRGVILHDPTPVVGASGAISGIAAVAALLSPFSLRFNQRNIPFPVFLVAWIMV +YSDITNVFTEDGVARWAHLGGFISVIFAAYFLKPTERKQLHSGFILNLIFIILTLILAFF +YSNRS* +>1234#10_00003 hypothetical protein +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>1234#10_00005 imidazoleglycerol-phosphate dehydratase or histidinol-phosphatase +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE* +>1234#10_00006 imidazole glycerol phosphate synthase subunit HisH +MIAILDYGMGNIHSCLKAVSLYTKDFVFTKDHSTIENSKALILPGDGHFDKAMENLNSTG +LRKTIDKHVTSGKPLFGICIGFQILFESSEEIAQGSKKEQIEGLGYIKGKIKKFHGKDFK +VPHIGWNRLQIRRKDKSVLLKGIGDQSFFYFIHSYRPTDAEGNAITGLCDYYQEKFPAVV +EKNNIFGTQFHPEKSHTHGLKLLENFIRFI* +>1234#10_00007 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase +MIVIPAIDLFDNCAVRLFKGNYEEKKIYSSEPWKLAESFAKNGATLLHLVDLNGARNQLG +VNEDSILKIRETTSLKVQLGGGIRDKEKLAYYDKIGINRFILGTAAVTNPDLLKYALDNY +GKERVVVAVDARDGIVKIAGWEKDSGIHYRDLLERLVKAGIEHIVFTDIAQDGTLAGPNL +EAYREILNSYPFQVIASGGIASLKDLMDLSSLKTKISLYGVITGKALYEGKLDLAKAISS +I* +>1234_00186 GGDEF family protein +MNFENEYDLEKLVNNSLDLLTIVDLSGNVLLVNPAFERTLGWKKEDLVGKDPFHLLHPED +KESTYKEFEKLNQGLLTLSFQNRYICADGQYRYFSWTASPDLVSGLVYVTGRDITDVIES +NRKISQLAVKLKETNDRLFEQASTDPLTKLKNRRMFNEELNNLIHACDKESHPLSLLMID +ADHFKDYNDKFGHIAGDKVLVELASILTKTFRKKDVLARYGGEEFIAALPNTSEPEANQI +AERLVQTVREFSWEKRSVTISVGITTYNFNPTSKSINSEYLLNLIEQADKALYCSKVSGR +XXXXXXXXXXXXXXXXXXXYYI* +>1234_00325 only a few unknowns so keep +MAFDPSVPQQQAQAPAGTLLFPEGSSANTLNVLHSGTVRYLTEVPGGRKLELFKLNGANL +TPGSVALFTSGRYPFHLQAEEACVISTYAMNRDTISKSVGSRVSLGLMVARTLLREITEL +FKKSNQIRKITSEIEKVNDNLSILYYQFNPSVFPDIKPGSPIPEVSADVVDPVMRLCREN +LKLFFDNGGILPDRPSPQFLEEEHESQLTRLYPEEIDFQDGEFNFIRKLVMQDPKILNVL +FTADPSMLAYVCSKLANVLDQISGILKTCLTDLDEAFRIFFIGENSLVEKFYLILDITSS +GYGTAPAEFVIPVLGAFAGKIEKYKNGHQALFGVPVANISPNTQAFQSKAVTLAKKMEET +APKVQAPVTSSATAGVDVDAIRKELDNSASVIIQFSGLGAEQIKEFSALMVKVKSLKNPL +DPEGDNRKVRRTLGRHYWDMYQECFTKYMNSNRNVPKPVELMLKYGYFDETLVDDSQIAF +MYTQKDPANFTSNVPISLGTEWLEKVFKREVPTSLDEMGQNFFEKVKLENRNIVIKKESD +IPPELDNPDTRLKFEFASLYEANVRLTSGSPATHFPILTKFHSQMAIDKSYVSKKILEEV +VHELMAVDYSIFHREVIYNNNELGITKEFIQKCVIPDFILVPSIGTKVMMWQDLSIHRGA +GSKESPGRIVLPIFAQGDLKTMVADALAAFRWELTKSILGAEWNNVGNPSITADYTDYIQ +FFKKNKDLSMEIKEKLASDFKRFRNDRDIFANDYQLWMKYEADGVQRLNKVVRGIFYRHI +PFSKQVRDKVAXXXXXXXXXXXXXLLPLQRSITDLLILEIENILK* +>1234_00377 Uncharacterized protein conserved in bacteria +MTLNEFAKNVLFGSGLEDKLFSPPVHPVDIRSFDFLNVPSLPAREKKIQISEQKSKIPRL +EQLFNEENRIITLHHFANHELMAIELFAWAILKFQDAPSSIRFGLYRTLLEEQTHLKMYL +SEMKKGGMELGDRPLNFIFWKQVPKMQTLEKFXXXXXXXXXXXXXXXXXF* +>1234#10_00016 hypothetical protein +MKVTHSCLEFDSIEGLIDFAREFETGSMIRFLSPIEDNSGNVLVKEEVQVKESTLARLKD +IKGQYTPKFEVKLNKELLEQIQNILAIKIVNQLKVTDMKFLKFMYENTNYNFKGIIRNSL +LSKKTTLTLLKVYNQNLNFFKYISELGLLSLGIVMIPDTMRFRLLRRYAFTAGILMDVPR +IGVDKFTKLPSDDNEKVRVAHKCSDILQKLDLIEFTYGSISNHMPLGMIEDSTSSDKAAP +GENIDETFLDDIISNDGESDSKVDGSREDAIPEKSYDIFQALLTDALKLARYIANVSHNA +VDKDYVMEELVYYIAYNTSKKYFDELLANPLVATFKEFEVNVKRLRKIAEVEMKCVYPPS +AWAYPKPKSSQVLCKNKVWDCPNIVMGWDIHVITAQEAFGWVGTSLPVDNYPKCRLEEEL +DEIMVEPEKPKKK* +>1234#10_00017 LipL45-like lipoprotein +MKRYLSIVILCTFAMLLLVCSTNKSSGSDQVKTESNATSARIVWLLGDVKILSDSGEKKA +ELGASLSSTDRVVTGPNGGAEIMVADSGIIKMSKNSDIEISSLMNPNGSDTNVQVNYGKI +VTMVKKGQKTTEFTVSTPTALAGVRGTSFLTSVESPEGSKINCAKANCTVRFAVIEGTIA +VSKKGESSEVILSKNRELRIEKNQKLTDKLIRSLQNDSLSEMKELIVLHKNETFEYGKLV +EELKSSSEELKILSQSGSVEEVKAAFQKREADRNNADEITKTAKAVNETKYVQQDVQKEK +LKLNPKETF* +>1234#10_00018 putative lipoprotein +MDFSFNLVDNNGTVMRSTFSPIRFFTFSFLWILIDCSSVQKIENFNSVLQEPTFKSLKEE +EAILGGSSDSDYKIRKTGNTIPVFVLSPIQTPEGMDSKLAAFLSDEVRLIWAKVKGKQVR +IQEMSWKNPSQLSQELKRLNVDAVIKTDIREVSGKWVVNQKITDPVKEIVYGSVDGSFQS +PKIEDELQANQAYYLKHGSGVLALDAKSSLVPIWEKSLSSGEIDSILKKSIQGYLSFSAS +SADTEVLFQGEKIGIASFRNYPLPEGLQQIQITRPGQKDISKSLQIRSGQTISIYQEWKE +DRTLGGVRILSFPEALQVALDGLKMGETPFYRSNLTPGAMQLELVRETENGPLVYYEGQL +IVDADKITEIALPYKTDNLISEPEFWKLSGEKGFQAFSGKTLDFQNVSSLPPGWYGVFSA +PFVPENMELEGIIPITAESDSGIVAISFHTSKKTISLEYEKERLSVYSFPSNGNNVGTYK +FKKEDKEDGRPFRIITDVKEGTIRLYLGYSKVLEDRLDVSGVWRISILTRGENFSKRSPL +RNLKIEYKGYK*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_complement_of_groups.gg Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +group_3: 1_3 3_3 +group_4: 2_4 3_4 +group_2: 1_2 2_2 +group_7: 2_7 +group_5: 3_5 +group_6: 1_6
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_complement_of_groups_core0.66.gg Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,3 @@ +group_7: 2_7 +group_5: 3_5 +group_6: 1_6
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_core_60_summary_statistics.txt Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,5 @@ +Core genes (60% <= strains <= 100%) 75 +Soft core genes (59% <= strains < 60%) 0 +Shell genes (15% <= strains < 59%) 20 +Cloud genes (0% <= strains < 15%) 0 +Total genes (0% <= strains <= 100%) 95
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_core_gene_alignment.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +>query_1 +AAAAA-GGGGGTTTTT +>query_2 +CCCCC-TTTTTGGGGG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_core_gene_alignment_core0.66.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +>query_1 +TTTTT +>query_2 +GGGGG +>query_3 +-----
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_create_pan_genome.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,56 @@ +>1234#10_00016 (null) +MKVTHSCLEFDSIEGLIDFAREFETGSMIRFLSPIEDNSGNVLVKEEVQVKESTLARLKD +IKGQYTPKFEVKLNKELLEQIQNILAIKIVNQLKVTDMKFLKFMYENTNYNFKGIIRNSL +LSKKTTLTLLKVYNQNLNFFKYISELGLLSLGIVMIPDTMRFRLLRRYAFTAGILMDVPR +IGVDKFTKLPSDDNEKVRVAHKCSDILQKLDLIEFTYGSISNHMPLGMIEDSTSSDKAAP +GENIDETFLDDIISNDGESDSKVDGSREDAIPEKSYDIFQALLTDALKLARYIANVSHNA +VDKDYVMEELVYYIAYNTSKKYFDELLANPLVATFKEFEVNVKRLRKIAEVEMKCVYPPS +AWAYPKPKSSQVLCKNKVWDCPNIVMGWDIHVITAQEAFGWVGTSLPVDNYPKCRLEEEL +DEIMVEPEKPKKK* +>1234#10_00017 (null) +MKRYLSIVILCTFAMLLLVCSTNKSSGSDQVKTESNATSARIVWLLGDVKILSDSGEKKA +ELGASLSSTDRVVTGPNGGAEIMVADSGIIKMSKNSDIEISSLMNPNGSDTNVQVNYGKI +VTMVKKGQKTTEFTVSTPTALAGVRGTSFLTSVESPEGSKINCAKANCTVRFAVIEGTIA +VSKKGESSEVILSKNRELRIEKNQKLTDKLIRSLQNDSLSEMKELIVLHKNETFEYGKLV +EELKSSSEELKILSQSGSVEEVKAAFQKREADRNNADEITKTAKAVNETKYVQQDVQKEK +LKLNPKETF* +>1234#10_00018 (null) +MDFSFNLVDNNGTVMRSTFSPIRFFTFSFLWILIDCSSVQKIENFNSVLQEPTFKSLKEE +EAILGGSSDSDYKIRKTGNTIPVFVLSPIQTPEGMDSKLAAFLSDEVRLIWAKVKGKQVR +IQEMSWKNPSQLSQELKRLNVDAVIKTDIREVSGKWVVNQKITDPVKEIVYGSVDGSFQS +PKIEDELQANQAYYLKHGSGVLALDAKSSLVPIWEKSLSSGEIDSILKKSIQGYLSFSAS +SADTEVLFQGEKIGIASFRNYPLPEGLQQIQITRPGQKDISKSLQIRSGQTISIYQEWKE +DRTLGGVRILSFPEALQVALDGLKMGETPFYRSNLTPGAMQLELVRETENGPLVYYEGQL +IVDADKITEIALPYKTDNLISEPEFWKLSGEKGFQAFSGKTLDFQNVSSLPPGWYGVFSA +PFVPENMELEGIIPITAESDSGIVAISFHTSKKTISLEYEKERLSVYSFPSNGNNVGTYK +FKKEDKEDGRPFRIITDVKEGTIRLYLGYSKVLEDRLDVSGVWRISILTRGENFSKRSPL +RNLKIEYKGYK* +>1234#10_00001 (null) +MSKHGFFQITQKLFLRKGDELLILRDRKSGLGDLPGGRMNENEFFEDWSLSMQREIEEEL +GSQVQIRVSTKPLFIHKHKVNEGNFPCIIIAYHADYLGGDIILSDEHDYISWEKVQTYEP +SPLFTEYMLDAVNLYLKEYAPLVH* +>1234#10_00002 (null) +MIIKLKIILNSYLIYYFLRGQNTLIRTLLFEFPLTTFFVFLMVATFFIVNVFLPEHLIRQ +YFLNHPGQIQPLSWIGAVFYHGNLIHLFGNMFYLFFLGRAVEYKAGKGRWLLFFFMAALI +SSLLDSFIRGVILHDPTPVVGASGAISGIAAVAALLSPFSLRFNQRNIPFPVFLVAWIMV +YSDITNVFTEDGVARWAHLGGFISVIFAAYFLKPTERKQLHSGFILNLIFIILTLILAFF +YSNRS* +>1234#10_00003 (null) +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>1234#10_00005 (null) +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE* +>1234#10_00006 (null) +MIAILDYGMGNIHSCLKAVSLYTKDFVFTKDHSTIENSKALILPGDGHFDKAMENLNSTG +LRKTIDKHVTSGKPLFGICIGFQILFESSEEIAQGSKKEQIEGLGYIKGKIKKFHGKDFK +VPHIGWNRLQIRRKDKSVLLKGIGDQSFFYFIHSYRPTDAEGNAITGLCDYYQEKFPAVV +EKNNIFGTQFHPEKSHTHGLKLLENFIRFI* +>1234#10_00007 (null) +MIVIPAIDLFDNCAVRLFKGNYEEKKIYSSEPWKLAESFAKNGATLLHLVDLNGARNQLG +VNEDSILKIRETTSLKVQLGGGIRDKEKLAYYDKIGINRFILGTAAVTNPDLLKYALDNY +GKERVVVAVDARDGIVKIAGWEKDSGIHYRDLLERLVKAGIEHIVFTDIAQDGTLAGPNL +EAYREILNSYPFQVIASGGIASLKDLMDLSSLKTKISLYGVITGKALYEGKLDLAKAISS +I*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_example_annotation_1.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,30 @@ +>abc_00001 [revcomp]:[translate(1)] +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGMHKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNEVAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFKTILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPNKASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKWTDRSSERYKIDWEKEEMTN* +>abc_00002 [translate(1)] +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00003 [translate(1)] +MTELNNIINSLQSLFESESGYKISKNSGVPYQTVQDLRNGKTKLEDARFRTIIKLYSYYVSLKEH* +>abc_00004 [revcomp]:[translate(1)] +MSKNITKNIILTTTLLLLGTVLPQNQKPVFSFYSEAKAYSIGQDETNINELIKYYTQPHFSFSNKWLYQYDNGNIYVELKRYSWSAHISLWGAESWGNINQLKDRYVDVFGLKDKDTDQLWWSYRETFTGGVTPAAKPSDKTYNLFVQYKDKLQTIIGAHKIYQGNKPVLTLKEIDFRAREALIKNKILYTENRNKGKLKITGGGNNYTIDLSKRLHSDLANVYVKNPNKITVDVLFD* +>abc_00005 [revcomp]:[translate(1)] +MNNNITKKIILSTTLLLLGTAFTQFPNTPINSSSEAKAYYINQNETNVNELTKYYSQKYLTFSNSTLWQKDNGTIHATLLQFSWYSHIQVYGPESWGNINQLRNKSVDIFGIKDQETIDSFALSQETFTGGVTPAATSNDKHYKLNVTYKDKAETFTGGFPVYEGNKPVLTLKELDFRIRQTLIKSKKLYNNSYNKGQIKITGTDNNYTIDLSKRLPSTDANRYVKKPQNAKIEVILEKSN* +>abc_00006 [revcomp]:[translate(1)] +MKKNIMNKLVLSTALLLLGTTSTQLPKTPISFSSEAKAYNISENETNINELIKYYTQPHFSLSGKWLWQKPNGSIHATLQTWVWYSHIQVFGSESWGNINQLRNKYVDIFGTKDEDTVEGYWTYDETFTGGVTPAATSSDKPYRLFLKYSDKQQTIIGGHEFYKGNKPVLTLKELDFRIRQTLIKNKKLYNGEFNKGQIKITADGNNYTIDLSKKLKLTDTNRYVKNPKNAQIEVILEKSN* +>abc_00007 [translate(1)] +MKNLRNRSFLTLLDFSRQEVEFLLTLSEDLKRAKYIGTEKPMLKNKNIALLFEKDSTRTRCAFEVAAHDQGANVTYLGPTGSQMGKKETTKDTARVLGGMYDGIEYRGFSQRTVETLAENSGVPVWNGLTDEDHPTQVLADFLTAKEVLKKDYADINFTYVGDGRNNVANALMQGAAIMGMNFHLVCPKELNPTDELLNRCKNIAAENGGNILITDDIDQGVKGSDVIYTDVWVSMGEPDEVWKERLELLKPYQVNKEMMDKTGNPNVIFEHCLPSFHNADTKIGQQIFEKYGIREMEVTDEVFESKASVVFQEAENRMHTIKAVMVATLGEF* +>abc_00008 [translate(1)] +MMAKIVVALGGNALGKSPQEQLELVKNTAKSLVGLITKGHEIVISHGNGPQVGSINLGLNYAAEHNQGPAFPFAECGAMSQAYIGYQLQESLQNELHSIGMDKQVVTLVTQVEVDENDPAFNNPSKPIGLFYNKEEAEQIQKEKGFIFVEDAGRGYRRVVPSPQPISIIELESIKTLIKNDTLVIAAGGGGIPVIREQHDGFKGIDAVIDKDKTSALLGANIQCDQLIILTAIDYVYINFNTENQQPLKTTNVDELKRYIDENQFAKGSMLPKIEAAISFIENNPKGSVLITSLNELDAALEGKVGTVIKK* +>abc_01705 [translate(1)] +VENTINESEKKKRFKLKMPGAFMILFILTVVAVIATWVIPAGAYSKLSYEPSSQELKIVNPHNQVKKVPGTQQELDKMGVKIKIEQFKSGAINKPVSIPNTYERLKQHPAGPEQITSSMVEGTIEAVDIMVFILVLGGLIGVVQASGSFESGLLALTKKTKGHEFMLIVFVSILMIIGGTLCGIEEEAVAFYPILVPIFIALGYDSIVSVGAIFLASSVGSTFSTINPFSVVIASNAAGTTFTDGLYWRIGACIVGAIFVISYLYWYCKKIKNDPKASYSYEDKDAFEQQWSVLKDDDSAHFTLRKKIILTLFVLPFPIMVWGVMTQGWWFPVMASAFLIFTIIIMFIAGTGKSGLGEKGTVDAFVNGASSLVGVSLIIGLARGINLVLNEGMISDTILHFSSSLVQHMSGPLFIIVLLFIFFCLGFIVPSSSGLAVLSMPIFAPLADTVGIPRFVIVTTYQFGQYAMLFLAPTGLVMATLQMLNMRYSHWFRFVWPVVAFVLIFGGGVLITQVLIYS* +>abc_00010 [translate(1)] +MTHLTKVLDTLTGICVVLLFSKYFVAYANMVFDWNLRWYLLENIPHLPIILFILMFIFGVPSEMIKDRQRKNNGV* +>abc_00011 [revcomp]:[translate(1)] +MRLQKAPLVTSGLVLGLLGLGNLLKDLSLTLNAVCGIFAFLIWIHLLCTMIKYFNNVKEQLNSPLVSSVFTTFFMSGFLGTTYLNTFFSNITFINSLITPIWILCLVGIMTHMIIFSIKYLKDFSLENVYPSWTVLFIGIAIAGLTAPVSGCFFIGQLTVIYGFVATCIVLPIVFKRLKAFPLQTSIKPNTSTICAPFSLVAAAYVIAFPKANAFIVIIFLILAQIFYFYIIIQLPKLLKEPFSPVFSAFTFPLVISATALKNSLPVLMFPDIWKGLLFIEVLLATVIVLRVFIGYLHFFLKKENQDKFLRNASQ* +>abc_00012 [translate(1)] +MRNQIQKLLDSDLSSLHISKQTGVPQSTIHRMRKKERSLDNMSLKNAELLYKFANSIFSNEN* +>abc_00014 [translate(1)] +MEGLFNAIKDTVTAAINNDGAKLGTSIVSIVENGVGLLGKLFGF* +>abc_00015 [translate(1)] +MTGLAEAIANTVQAAQQHDSVKLGTSIVDIVANGVGLLGKLFGF* +>abc_00016 [translate(1)] +LGYKNILIDFDDTIVDFYDAEEWAFHYMANVFNHKATKDDFLTFKKINHQHWEAFQQNKLTKSEVLSERFVNYFKHHQMEVDGHRADVLFRNGLAEAKVKYFDQTLETIVELSKRHDLYIVTNGVTETQKRRLNQTPLHKYIKKIFISEETGYQKPNPEFFNYVFNDIGEDERQHSIIVGDSLTSDILGGINAGIATCWFNFRGFDHNPGIIPDYEINSWKQLNDIVR*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_filtered_original_input.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,48 @@ +>4075_1#3_04238 +AAAGGGTTT +>4075_1#6_04091 +AAAGGGTTT +>2212_1_02994 +AAAGGGTTT +>2363_5_00947 +AAAGGGTTT +>2363_7_00085 +AAAGGGTTT +>2460_2_00826 +AAAGGGTTT +>2212_3_02841 +AAAGGGTTT +>4075_2#3_03437 +AAAGGGTTT +>2363_5_03666 +AAAGGGTTT +>2212_6_02081 +AAAGGGTTT +>2541_8_00644 +AAAGGGTTT +>2781_2_02909 +AAAGGGTTT +>3634_6_00968 +AAAGGGTTT +>3634_7_01056 +AAAGGGTTT +>3634_8_02606 +AAAGGGTTT +>4075_1#8_03461 +AAAGGGTTT +>2363_1_00606 +AAAGGGTTT +>2363_2_02124 +AAAGGGTTT +>2363_3_01371 +AAAGGGTTT +>2363_6_01272 +AAAGGGTTT +>2363_8_00966 +AAAGGGTTT +>2541_2_02425 +AAAGGGTTT +>2541_3_02449 +AAAGGGTTT +>2541_7_00441 +AAAGGGTTT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_g2_g5_pan_genome_reference.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,70 @@ +>1_1 hly +ATGAAAACACGTATAGTCAGCTCAGTAACAACAACACTATTGCTAGGTTCCATATTAATG +AATCCTGTCGCTAATGCCGCAGATTCTGATATTAATATTAAAACCGGTACTACAGATATT +GGAAGCAATACTACAGTAAAAACAGGTGATTTAGTCACTTATGATAAAGAAAATGGCATG +CACAAAAAAGTATTTTATAGTTTTATCGATGATAAAAATCACAATAAAAAACTGCTAGTT +ATTAGAACGAAAGGTACCATTGCTGGTCAATATAGAGTTTATAGCGAAGAAGGTGCTAAC +AAAAGTGGTTTAGCCTGGCCTTCAGCCTTTAAGGTACAGTTGCAACTACCTGATAATGAA +GTAGCTCAAATATCTGATTACTATCCAAGAAATTCGATTGATACAAAAGAGTATATGAGT +ACTTTAACTTATGGATTCAACGGTAATGTTACTGGTGATGATACAGGAAAAATTGGCGGC +CTTATTGGTGCAAATGTTTCGATTGGTCATACACTGAAATATGTTCAACCTGATTTCAAA +ACAATTTTAGAGAGCCCAACTGATAAAAAAGTAGGCTGGAAAGTGATATTTAACAATATG +GTGAATCAAAATTGGGGACCATATGATAGAGATTCTTGGAACCCGGTATATGGCAATCAA +CTTTTCATGAAAACTAGAAATGGTTCTATGAAAGCAGCAGAGAACTTCCTTGATCCTAAC +AAAGCAAGTTCTCTATTATCTTCAGGGTTTTCACCAGACTTCGCTACAGTTATTACTATG +GATAGAAAAGCATCCAAACAACAAACAAATATAGATGTAATATACGAACGAGTTCGTGAT +GACTACCAATTGCATTGGACTTCAACAAATTGGAAAGGTACCAATACTAAAGATAAATGG +ACAGATCGTTCTTCAGAAAGATATAAAATCGATTGGGAAAAAGAAGAAATGACAAATTAA +>1_2 speH +ATGAACAATAACATCACGAAAAAAATTATTTTATCAACAACATTGTTACTATTAGGTACA +GCATTTACACAATTTCCTAATACACCTATCAATTCTTCATCTGAAGCGAAAGCTTATTAT +ATAAATCAAAACGAAACTAACGTTAATGAGTTAACTAAATATTACTCGCAAAAATATTTA +ACCTTCTCTAACAGTACGTTATGGCAAAAAGATAACGGTACGATTCATGCAACGTTGTTA +CAGTTTTCTTGGTATAGTCATATTCAAGTTTATGGACCTGAAAGTTGGGGCAATATCAAC +CAATTAAGAAATAAAAGCGTTGATATTTTTGGCATAAAAGACCAAGAAACCATTGATTCT +TTTGCATTATCTCAAGAAACGTTTACTGGTGGTGTTACTCCTGCAGCAACATCTAACGAT +AAACACTATAAACTGAATGTAACATATAAAGATAAAGCAGAAACGTTTACTGGCGGATTT +CCAGTTTATGAAGGCAATAAGCCTGTTTTAACTTTAAAAGAATTAGATTTTCGTATTCGT +CAAACATTAATTAAAAGTAAAAAATTATATAATAATTCTTATAATAAAGGACAAATTAAA +ATAACAGGTACAGACAATAACTACACAATAGATTTAAGTAAAAGGTTGCCATCAACTGAT +GCAAATAGATATGTTAAAAAACCTCAAAATGCAAAAATTGAAGTTATCCTCGAAAAATCA +AACTAA +>1_3 argF +ATGAAAAATTTACGAAACAGAAGTTTTTTAACTTTATTAGACTTTTCACGACAAGAGGTA +GAATTCTTATTAACACTCTCCGAGGATTTAAAACGTGCTAAATATATTGGCACTGAAAAG +CCTATGTTAAAAAATAAAAATATTGCACTGTTATTTGAAAAAGATTCTACAAGAACGCGA +TGTGCATTTGAAGTTGCAGCGCATGATCAAGGTGCAAATGTAACTTATTTAGGCCCAACT +GGATCACAAATGGGTAAAAAAGAAACAACTAAAGATACTGCACGTGTGCTTGGTGGAATG +TATGATGGCATTGAATACCGTGGTTTTTCACAAAGAACAGTAGAAACTTTAGCTGAAAAT +TCAGGCGTACCAGTGTGGAATGGTTTAACTGATGAAGATCATCCTACTCAAGTTCTTGCT +GATTTCTTAACAGCAAAAGAAGTCTTAAAAAAAGATTATGCAGATATTAACTTTACATAT +GTTGGAGATGGTCGTAATAACGTTGCAAATGCATTAATGCAAGGTGCTGCCATTATGGGT +ATGAACTTCCATTTAGTTTGTCCAAAAGAATTAAATCCAACAGATGAATTATTAAATCGC +TGTAAAAATATTGCCGCTGAAAATGGTGGCAACATATTAATCACAGATGATATTGACCAA +GGTGTAAAAGGTTCGGATGTAATTTACACTGATGTTTGGGTATCAATGGGTGAACCTGAT +GAAGTATGGAAAGAACGACTTGAATTATTGAAACCATATCAAGTAAATAAAGAAATGATG +GATAAAACTGGTAATCCAAATGTTATTTTTGAGCATTGCTTACCATCTTTCCATAATGCT +GATACGAAAATTGGTCAACAAATTTTTGAAAAATATGGTATTCGAGAAATGGAAGTTACA +GATGAAGTATTCGAAAGTAAAGCTTCAGTTGTATTCCAAGAAGCTGAGAACAGAATGCAT +ACAATCAAAGCAGTCATGGTTGCTACATTGGGTGAATTTTAA +>1_6 group_6 +ATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAACAACATGATAGT +GTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTTTACTAGGTAAA +TTATTTGGATTCTAA +>2_7 group_7 +ATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAACAACATGATAGT +GTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTTTACTAGGTAAA +TTATTTGGATTCTAA +>3_5 yfnB +TTGGGATATAAAAATATTTTGATAGACTTTGATGATACAATTGTTGATTTTTATGATGCA +GAAGAATGGGCGTTTCACTATATGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGAT +TTTTTAACATTTAAAAAAATCAATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTA +ACGAAGTCTGAAGTATTATCAGAACGATTTGTGAATTACTTCAAACATCATCAAATGGAA +GTTGATGGGCATCGTGCAGATGTGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAA +TACTTTGATCAAACATTAGAAACAATTGTCGAATTATCGAAAAGACATGATTTATATATT +GTTACTAATGGTGTAACCGAAACGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAA +TATATTAAAAAGATATTTATATCTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTT +TTTAATTATGTTTTTAATGATATTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGA +GATTCTTTAACATCTGACATTCTAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTT +AATTTTAGAGGATTTGATCATAATCCAGGAATTATACCTGATTATGAAATTAATTCATGG +AAACAACTAAATGATATTGTACGTTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_gene_presence_and_absence.Rtab Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +Gene query_1.fa query_2.fa query_3.fa +hly 1 1 1 +speH 1 1 0 +argF 1 0 1 +group_4 0 1 1 +yfnB 0 0 1 +group_6 1 0 0 +group_7 0 1 0
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_gff_set_difference_common_set_statistics.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","959","959","959","1_1","2_1","3_1" +"speH","","hypothetical protein","2","2","1","","","","","","725","725","725","1_2","2_2","" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1001","1001","1001","1_3","","3_3"
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_group_labels Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +group_1: 1234#10_00001 1234#10_00002 +group_2: 1234#10_00003 1234#10_00018 1234#10_00005 +group_3: 1234#10_00005 1234#10_00005 +group_4: 1234#10_00006 1234#10_00007 +group_5: 1234#10_00016 +group_6: 1234#10_00017 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_group_statitics.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1.fa","query_2.fa","query_3.fa" +"hly","","Alpha-toxin","3","3","1","","","","","","959","959","959","1_1","2_1","3_1" +"speH","","hypothetical protein","2","2","1","","","","","","725","725","725","1_2","2_2","" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1001","1001","1001","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","","","","2_4","3_4" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","686","686","686","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","134","134","134","1_6","","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","134","134","134","","2_7",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_group_statitics_missing_genes.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1.fa","query_2.fa","query_3.fa","query_4_missing_genes.fa" +"hly","","Alpha-toxin","4","4","1","","","","","","959","959","959","1_1","2_1","3_1","4_1" +"speH","","hypothetical protein","2","2","1","","","","","","725","725","725","1_2","2_2","","" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1001","1001","1001","1_3","","3_3","" +"group_4","","","2","2","1","","","","","","","","","","2_4","3_4","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","686","686","686","","","3_5","" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","134","134","134","1_6","","","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","134","134","134","","2_7","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_group_statitics_verbose.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1.fa","query_2.fa","query_3.fa","Inference" +"hly","","Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein","3","3","1","","","","","","959","959","959","1_1","2_1","3_1","ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6" +"speH","","hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain","2","2","1","","","","","","725","725","725","1_2","2_2","","ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11" +"argF","","Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain","2","2","1","","","","","","1001","1001","1001","1_3","","3_3","ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1" +"group_4","","","2","2","1","","","","","","","","","","2_4","3_4", +"yfnB","","Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase","1","1","1","","","","","","686","686","686","","","3_5","ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1" +"group_6","","Gonococcal growth inhibitor III,Staphylococcus haemolytic protein","1","1","1","","","","","","134","134","134","1_6","","","ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5" +"group_7","","Gonococcal growth inhibitor III,Staphylococcus haemolytic protein","1","1","1","","","","","","134","134","134","","2_7","","ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5"
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_inflated_results Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,5 @@ +6259_8#9_01142 6631_2#11_00851 6631_4#5_01901 +6664_1#21_00211 +6259_8#13_01077 +6630_4#9_00008 6631_1#23_00379 6631_2#7_00715 6631_5#1_00087 6649_8#10_00838 6664_1#13_00087 6259_5#1_00688 6259_5#8_00815 +6259_7#7_02078 6259_7#8_01884 6631_2#22_01965 6631_5#24_01032 6593_5#13_00457 6630_1#9_00031 6630_3#1_00008 6630_3#2_00088 6631_1#4_00087
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_intersection_of_groups.gg Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1 @@ +group_1: 1_1 2_1 3_1
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_intersection_of_groups_core0.66.gg Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +group_1: 1_1 2_1 3_1 +group_3: 1_3 3_3 +group_4: 2_4 3_4 +group_2: 1_2 2_2
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_intersection_of_groups_paralogs.gg Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,2 @@ +group_3: 1_3 2_4 3_3 +group_1: 1_1 2_1 3_1
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_mafft_input.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,66 @@ +>1111#5_04506 +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +---------atggcaatcaccttacgggagctggatggcctgagctatgaagagatagcg +gctatcatggattgtccggtggggacggtgcgttcacgtatcttccgggcgcgggaagct +attgataataaagttcaaccgcttatcaggcgttga +>1234_8#75_04759 +atgagcgagcagttaacggaccaggtcctggttgaacgggtccagaagggagatcagaaa +gcctttaacttactggtagtgcgctaccagcataaagtggcgagtctggtttcccgctat +gtgccatcgggcgacgttcccgatgtcgtacaggaatcatttattaaggcctatcgcgcg +ctggattctttccggcgggatagtgctttttatacctggttgtatcgtattgcggtcaat +accgcgaagaactacctggttgcgcaggggcgtcgtccgccttccagtgatgtagacgcg +attgaagcagaaaactttgaaagcggcggcgcgctgaaagaaatttcgaaccctgagaac +ttaatgttgtcagaagaactgagacagatagttttccgaactattgagtccctcccggaa +gatttacgtatggcaatcaccttacgggagctggatggcctgagctatgaagagatagcg +gctatcatggattgtccggtggggacggtgcgttcacgtatcttccgggcgcgggaagct +attgataataaagttcaaccgcttatcaggcgttga +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_DT104_v1_02853 +atgagcgagcagttaacggaccaggtcctggttgaacgggtccagaagggagatcagaaa +gcctttaacttactggtagtgcgctaccagcataaagtggcgagtctggtttcccgctat +gtgccatcgggcgacgttcccgatgtcgtacaggaatcatttattaaggcctatcgcgcg +ctggattctttccggggggatagtgctttttatacctggttgtatcgtattgcggtcaat +accgcgaagaactacctggttgcgcaggggcgtcgtccgccttccagtgatgtagacgcg +attgaagcagaaaactttgaaagcggcggcgcgctgaaagaaatttcgaaccctgagaac +ttaatgttttcagaagaactgagacagatagttttccgaactattgagtccctcccggaa +gatttacgtatggcaatcaccttacgggagctggatggcctgagctatgaagagatagcg +gctatcatggattgtccggtggggacggtgcgttcacgtatcttccgggcgcgggaagct +attgataataaagttcaaccgcttatcaggcgttga +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_SL1344_v2_02736 +atgagcgagcagttaacggaccaggtcctggttgaacgggtccagaagggagatcagaaa +gcctttaacttactggtagtgcgctaccagcataaagtggcgagtctggtttcccgctat +gtgccatcgggcgacgttcccgatgtcgtacaggaatcatttattaaggcctatcgcgcg +ctggattctttccggggggatagtgctttttatacctggttgtatcgtattgcggtcaat +accgcgaagaactacctggttgcgcaggggcgtcgtccgccttccagtgatgtagacgcg +attgaagcagaaaactttgaaagcggcggcgcgctgaaagaaatttcgaaccctgagaac +ttaatgttgtcagaagaactgagacagatagttttccgaactattgagtccctcccggaa +gatttacgtatggcaatcaccttacgggagctggatggcctgagctgtgaagagatagcg +gctatcatggattgtccggtggggacggtgcgttcacgtatcttccgggcgcgggaagct +attgataataaagttcaaccgcttatcaggcgttga +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_str_D23580_v1_02783 +atgagcgagcagttaacggaccaggtcctggttgaacgggtccagaagggagatcagaaa +gcctttaacttactggtagtgcgctaccagcataaagtggcgagtctggtttcccgctat +gtgccatcgggcgacgttcccgatgtcgtacaggaatcatttattaaggcctatcgcgcg +ctggattctttccggggggatagtgctttttatacctggttgtatcgtattgcggtcaat +accgcgaagaactacctggttgcgcaggggcgtcgtccgccttccagtgatgtagacgcg +attgaagcagaaaactttgaaagcggcggcgcgctgaaagaaatttcgaaccctgagaac +ttaatgttgtcagaagaactgagacagatagttttccgaactattgagtccctcccggaa +gatttacgtatggcaatcaccttacgggagctggatggcctgagctatgaagagatagcg +gctatcatggattgtccggtggggacggtgcgttcacgtatcttccgggcgcgggaagct +attgataataaagttcaaccgcttatcaggcgttga +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_str_DT2_v1_02741 +atgagcgagcagttaacggac---gtcctggttgaacgggtccagaagggagatcagaaa +gcctttaacttactggtagtgcgctaccagcataaagtggcgagtctggtttcccgctat +gtgccatcgggcgacgttcccgatgtcgtacaggaatcatttattaaggcctatcgcgcg +ctggattctttccggggggatagtgctttttatacctggttgtatcgtattgcggtcaat +accgcgaagaactacctggttgcgcaggggcgtcgtccgccttccagtgatgtagacgcg +attgaagcagaaaactttgaaagcggcggcgcgctgaaagaaatttcgaaccctgagaac +ttaatgttgtcagaagaactgagacagatagttttccgaactattgagtccctcccggaa +gatttacgtatggcaatcaccttacgggagctggatggcctgagctatgaagagatagcg +gctatcatggattgtccggtggggacggtgcgttcacgtatcttccgggcgcgggaagct +attgataataaagttcaaccgcttatcaggcgttga
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_mafft_real_data_core_gene_alignment.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,2170 @@ +>real_data_1 +ATGAAAAAATCATTACTCGCTGTTGCTGTGGCAGGGGCTGTTTTGTTGTCATCCGCCGTA +CAGGCGCAGACAACGCCGGAAGGTTATCAATTACAACAGGTGCTGATGATGAGCCGCCAT +AATCTGCGGGCGCCGCTGGCGAATAATGGCAACGTACTGGCGCAGTCGACGCCGAACGCC +TGGCCGGCGTGGGACGTTCCCGGCGGGCAACTGACGACGAAAGGCGGCGTGCTGGAAGTC +TATATGGGACACTACACACGTGAATGGCTGGTCGCGCAGGGGCTGATACCGTCGGGAGAA +TGTCCGGCGCCCGACACGGTATATGCCTATGCGAATAGTTTGCAGCGCACCGTCGCCACC +GCGCAATTTTTCATTACCAGCGCTTTCCCCGGCTGTGATATTCCTGTTCATCATCAGGAA +AAAATGGGCACTATGGACCCTACCTTCAATCCGGTGATTACCGATGATTCCGCCGCGTTC +CGGCAACAGGCCGTACAGGCGATGGAAAAGGCGCGTAGTCAGCTACATCTTGATGAGAGT +TATAAACTGCTTGAGCAGATAACGCATTATCAGGACTCGCCGTCCTGCAAAGAGAAGCAT +CAGTGTTCGCTAATCGACGCGAAAGATACCTTCAGCGCGAACTATCAGCAAGAGCCTGGC +GTGCAGGGGCCGCTGAAAGTAGGGAACTCGCTGGTGGATGCGTTTACCCTGCAATATTAC +GAAGGCTTTCCGATGGATCAGGTCGCTTGGGGCGGGATCCACACCGATCGGCAGTGGAAG +GTGCTGTCAAAACTGAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCCACGGTGGCG +CGCAATGTCGCTGCGCCGCTGGTAAAATATATCGATAAGGTGCTGGTTGCCGAGCGCGTT +AGCGCGCCGAAGGTTACCGTGCTGGTGGGGCATGATTCCAATATCGCGTCGCTGCTGACG +GCGCTGGATTTTAAACCCTATCAGCTCCATGACCAGTATGAGAGAACGCCGATTGGTGGT +CAGCTTGTCTTCCAACGCTGGCATGACGGTAACGCTAACCGGGATTTGATGAAAATCGAG +TATGTCTACCAGAGCGCCCGGCAGTTACGTAATGCGGAAGCGTTAACGCTCAAATCGCCT +GCGCAAAGGGTAACGCTGGAACTGAAAGGATGTCCGGTGGATGCGAACGGCTTCTGTCCG +CTGGATAAGTTCGATAACGTCATGAACACTGCTGCAAAATAGATGGAAAAGAATAATGAA +GTCATTCAGACCCATCCGCTTGTAGGATGGGACATCAGCACCGTCGATAGCTATGATGCG +CTGATGCTGCGTTTACACTACCAGACCCCAAATCGTCCGGAACCGGAAGGGACTGAAGTT +GGTCAAACGCTCTGGTTAACGACAGATGTAGCCAGGCAATTTATTTCAATATTAGAAGCC +GGCATCGCCAAAATAGAATCAGGCGATTACCAGGAAAACGAGTATCGTCACCATTAGATG +GAACTTAAGGATTATTACGCCATTATGGGCGTGAAACCGACGGACGATCTCAAGACGATT +AAGACCGCCTATCGCCGACTGGCCCGCAAGTACCATCCAGATGTCAGCAAAGAACCCGAT +GCCGAAGCCCGTTTCAAAGAGGTTGCTGAAGCATGGGAAGTGCTGAGTGATGAGCAACGG +CGCGCCGAGTATGACCAGTTATGGCAACACCGTAACGATCCACAATTTAATCGCCAGTTC +CAGCAACACGAAGGCCAGCCGTATAACGCCGAAGATTTTGATGATATTTTCTCGTCTATT +TTTGGTCAGCACGGTCGTCATTCGCACCACCGCCACGCCGCACGCGGTCATGATATCGAA +ATTGAAGTGGCGGTATTCCTGGAAGAAACGCTGGAAGAGCACCAGCGTACGATTAGCTAT +TCCGTCCCCGTTTATAACGCGTTCGGCCTGGTGGAGCGGGAAATTCCCAAAACATTGAAT +GTGAAAATCCCGGCTGGCGTCAGCAACGGGCAACGAATCAGACTGAAAGGCCAGGGCACG +CCGGGGGAAAACGGCGGACCTAATGGCGATTTATGGCTCGTTATCCATATTGCCCCGCAT +CCGCTCTTTGATATCGTCAATCAGGATCTGGAAGTCGTCCTTCCGCTTGCCCCATGGGAG +GCGGCGCTCGGCGCTAAGGTGTCTGTGCCAACGCTTAAAGAGCGTATTTTGCTGACCATT +CCCCCCGGCAGCCAGGCAGGTCAGCGGCTGCGTATCAAAGGAAAAGGATTAGCCAGTAAA +AAGCACACTGGCGATCTCTATGCCATCATCAAAATCGTTATGCCGCCGAAACCTGACGAG +AAAACAGCTGCCCTGTGGCAACAACTGGCGGACGCGCAGTCGTCCTTTGACCCACGCCAG +CAATGGGGGAAAGCATAAATGGCTAACATCACTGTCACCTTTACCATCACCGAATTTTGT +TTGCACACCGGCGTGACGGAAGAGGAGCTAAACGAAATCGTCGGACTTGGCGTAATTGAG +CCTTACGAAGACGATAACGCCGACTGGCAATTCGACGATCGCGCAGCGAGCGTGGTACAA +CGCGCGCTACGCTTACGCGAGGAGCTGGCGCTCGACTGGCCAGGGATCGCGGTCGCGTTA +ACGCTGCTGGAAGAGAATTCACGGCTGCGCGAAGAAAACCGGTTACTGCTGCAACGCCTT +TCTCGCTTTATCTCGCATCCCTAAATGTCATCTTGTTGGAGATTTACGGATTCGCTAACA +AGCCTATGGCATACTGCGTTGATGAAGATTTTATTGATTGAAGATAACCAGAAAACCATT +GAGTGGGTACGTCAGGGACTCACGGAGGCAGGCTATGTGGTTGATTATGCCTGTGATGGA +CGAGACGGATTACACCTAGCCCTTCAGGAACATTATTCATTGATTATTCTTGATATTATG +CTGCCGGGGCTTGATGGATGGCAGGTTTTACGCGCGTTGCGCACTGCATATCAGCCCCCT +GTTATTTGCCTGACGGCGCGCGACTCGGTTGAGGATCGCGTCAAAGGTCTTGAGGCGGGC +GCTAATGATTACCTTGTTAAGCCTTTTTCCTTCGCCGAACTGCTGGCCCGGGTGAGAGCT +CAACTCAGACAGCATGTCCCGGTCTTTACCCGACTGACGATCAATGGTCTGGACATGGAT +GCCACAAAGCAATCGGTGTTACGAAATGGCAAACCGATTTCCCTGACCCGCAAAGAATTC +CTGCTCCTCTGGTTACTGGCGTCCCGGGCAGGGGAAATCGTGCCCCGAACCGCGATCGCC +AGCGAAGTTTGGGGAATTAACTTTGATAGTGAAACCAACACCGTTGATGTCGCGATTCGT +CGGCTGCGCGCCAAAGTAGACGATCCATTTGAAAAGAAGCTCATTATGACCGTCCAGGGG +ATGGGTTATCGATTACAGGCGGAAACGTCGCAGAATGGTTAAATGAAAAACAAATTGTTA +TTTATGATGTTGACAATACTGGGTGCGCCTGGGATTGCAACCGCGACAAATTATGATCTG +GCTCGTTCAGAGTATAATTTTGCGGTAAATGAATTAAGCAAGTCTTCATTTAATCAGGCG +GCCATTATTGGTCAAGTCGGCACGGATAATAGTGCCAGAGTACGCCAGGAAGGATCAAAA +CTATTGTCCGTTATTTCACAAGAAGGAGAAAATAATCGGGCGAAAGTCGACCAGGCAGGG +AATTATAACTTTGCGTATATTGAGCAAACGGGCAATGCCAACGATGCCAGTATATCGCAA +AGCGCTTACGGTAATAGTGCGGCTATTATCCAGAAAGGTTCTGGAAATAAGGCCAATATT +ACCCAGTACGGTACGCAGAAAACAGCAGTTGTAGTGCAGAAACAGTCGCATATGGCTATT +CGCGTCACCCAACGCTAAATGCATACTTTATTGCTCCTTGCCGCACTTTCAAATCAGATT +ACGTTTACCACGACTCAGCAAGGCGATATTTACACGGTGATCCCTCAGGTCACATTAAAC +GAACCCTGCGTCTGTCTGGTGCAAATTCTCTCTGTGCGCGACGGCGTCGGGGGACAAAGC +CATACACAGCAAAAACAAACGCTATCTTTACCTGCTAATCAACCGATTGAGTTGTCTCGT +CTTAGTGTAAATATATCTTCAGAGGACTCGGTTAAAATTATTGTTACTGTTTCGGACGGA +CAATCACTGCATTTATCACAACAATGGCCGCCTTCTGCACAGTAGATGTTTAATGAAGTC +CATAGTAGTCATGGTCACACACTATTGTTGATCACAAAGCCATCTCTGCAAGCTACGGCA +TTATTGCAACATTTAAAGCAATCGCTGGCCATAACCGGAAAACTGCATAATATTCAACGT +TCTCTGGAAGATATCTCAGCCGGTTGCATTGTTTTAATGGATATGATGGAAGCGGATAAG +AAGCTTATCCACTATTGGCAGGATAATTTAAGCCGCAAAAACAATAATATAAAAACATTA +TTGTTAAATACCCCTGACGATTATCCCTACCGTGAAATTGAAAACTGGCCTCATATTAAC +GGCGTGTTTTACGCCACTGAAGACCAGGAACACGTGGTCAGCGGATTACAGGGTATTCTG +CGGGGCGAATGCTATTTTTCACAAAAATTAGCCAGTTACCTGATTACACACTCAGGAAAT +TACCGCTACAACAGCACCGAGTCCGCATTACTCACTCATCGCGAAAAAGAGATCCTCAAT +AAGTTACGTATTGGTGCCTCTAATAATGAAATCGCCAGGTCGCTATTTATCAGCGAGAAT +ACGGTTAAGACACATCTTTATAATCTTTTCAAAAAGATAGCTGTCAAAAATCGCACCCAG +GCAGTTTCATGAATGAAACGCTATCTGACCTGGATTGTAGCAGCAGAGTTACTGTTCGCT +ACCGGAAACCTGCATGCCAATGAAGTTGAAGTCGAGGTTCCCGGATTGTTAACCGACCAT +ACCGTCTCTTCGATAGGACATGAATTCTATCGTGCATTCAGCGACAAATGGGAAAGCGAA +TACACCGGCAATCTGACCATTAATGAAAGACCCAGTGCGCGTTGGGGAAGCTGGATCACC +ATAACGGTAAATCAGGACGTTATTTTCCAGACCTTTTTATTTCCAATGAAAAGAGACTTC +GAGAAAACCGTCGTCTTCGCATTAGCGCAAACAGAGGAAGCATTAAATCGCCGACAAATA +GATCAAACGCTATTAAGTACGAGTGATTTAGCGCGTGATGAATTCTAAATGCGTGTTAAA +CATGCAGTAGTGCTGCTCATGCTTTTTTCGCCATTAACCTGGGCTGGAAATATGACGTTC +CAGTTCCGTAATCCTAACTTTGGTGGAAACCCCAATAACGGTTCCTTTTTATTGAATAGC +GCCCAGGCGCAAAATTCATATAAAGACCCCGCTTATGATAACGATTTTGGTATCGAGACC +CCCTCAGCGTTGGATAACTTTACGCAGGCTATTCAATCGCAAATTCTGGGCGGCTTGTTG +ACCAATATTAATACCGGAAAACCAGGACGTATGGTGACCAATGATTTTATTATCGATATC +GCTAATCGCGACGGACAGCTCCAGCTCAACGTCACGGACAGAAAAACGGGAAGAACCTCG +ACCATCGAAGTGTCAGGTTTACAAACTCAGTCAACCGATTTTTAAATGCCGCGCTTACTT +ATTTTGGTTGCCGTTTTATTGTTGAGCGGATGCTTAACTGCCCCGCCGAAACAAGCTGCG +AAACCGACATTAATGCCCCGCGCACAAAGTTACAAAGATTTGACGCACTTACCTGCTCCC +ACCGGTAAGATCTTTGTTTCGGTATATAACATTCAGGATGAAACGGGCCAATTTAAACCT +TACCCGGCAAGTAACTTTTCCACGGCTGTGCCGCAGAGCGCCACCGCTATGTTGGTCACC +GCGCTGAAAGATTCGCGCTGGTTTATCCCACTAGAACGACAAGGCTTACAGAATCTTTTG +AATGAACGGAAAATTATTCGCGCAGCCCAGGAAAACGGCACCGTGGCGATGAATAACCGT +ATCCCGCTTCAGTCGTTGACGGCGGCAAATATTATGGTGGAAGGTTCTATTATTGGTTAT +GAAAGTAACGTCAAATCCGGCGGGGTCGGCGCAAGATATTTCGGTATTGGCGCCGATACG +CAGTATCAGCTGGATCAGATTGCTGTCAACCTGCGCGTGGTTAACGTCAGTACGGGCGAG +ATCCTTTCTTCGGTGAACACCAGTAAAACGATCCTTTCCTATGAAGTACAGGCAGGCGTG +TTCCGTTTTATTGATTACCAGCGCTTACTGGAAGGCGAAATCGGCTATACCTCGAACGAA +CCGGTGATGCTGTGTCTGATGTCAGCCATTGAAACCGGCGTTATCTTCCTCATTAATGAT +GGTATCGATCGCGGACTGTGGGATTTGCAGAATAAAGCGGACAGGCAAAATGATATTCTG +GTGAAATACCGTGAGCTGTCAGTACCGCCAGAATCCTGAATGTCTATTGCCGTAAATATG +AATGACCCGACCAACACGGGCGTCAAAACGACGACCGGCAGCGGGTCGATGACCGGAAGC +AACGCTGCCGATCTGCAAAGCAGTTTCCTGACCTTACTGGTCGCGCAATTGAAGAACCAG +GACCCGACTAACCCATTACAAAATAATGAGTTAACGACACAGTTGGCGCAAATCAGTACC +GTGAGCGGCATTGAAAAACTGAATACGACGCTGGGGGCTATTTCCGGGCAAATCGATAAT +AGTCAGTCCCTACAGGCGACCACGCTGATTGGACATGGCGTTATGGTGCCTGGCACCACA +ATTCTGGCGGGTAAAGGCGCGGAAGAAGGGGCCGTGACGTCCACGACGCCGTTTGGCGTG +GAATTGCAACAGCCTGCGGACAAAGTGACGGCAACCATTACCGATAAAGATGGCCGGGTG +GTACGGACGCTGGAGATCGGTGAGTTGCGAGCCGGGGTACACACCTTTACCTGGGATGGT +AAGCAAACGGACGGAACAACGGTACCGAATGGTTCTTACAACATTGCGATTACCGCCAGC +AATGGCGGGACGCAACTGGTGGCGCAGCCGCTGCAATTCGCTCTGGTACAGGGCGTGACG +AAGGGCAGTAACGGCAACCTGTTGGATCTGGGTACCTACGGCACCACCACACTCGACGAA +GTTCGGCAAATAATCTAAATGTCTTTTTCTCAAGCGGTTAGCGGCCTGAACGCTGCGGCC +ACCAACCTTGATGTTATCGGTAATAACATCGCCAACTCCGCCACCTATGGCTTTAAGTCC +GGTACGGCATCATTTGCCGATATGTTCGCCGGTTCCAAAGTGGGGTTGGGCGTAAAAGTG +GCGGGGATTACCCAGGATTTTACCGACGGTACGACAACGAACACCGGGCGCGGGCTGGAT +GTCGCGATTAGCCAGAACGGTTTTTTCCGCCTGGTAGACAGCAACGGTTCCGTGTTCTAT +AGCCGCAACGGCCAGTTCAAACTGGACGAGAACCGTAACCTGGTCAATATGCAGGGGATG +CAGTTGACCGGCTATCCGGCCACCGGTACGCCGCCGACCATTCAGCAGGGGGCGAATCCT +GCGCCGATCACCATTCCGAACACGCTGATGGCGGCGAAATCGACCACCACCGCGTCAATG +CAGATCAACCTGAACTCAACGGACCCTGTACCGTCTAAAACGCCCTTTAGCGTGAGTGAT +GCGGATTCGTATAACAAAAAAGGCACCGTCACCGTTTATGACAGCCAGGGTAATGCCCAT +GACATGAACGTCTATTTTGTGAAAACCAAAGATAATGAATGGGCTGTGTACACCCATGAC +AGCAGCGATCCTGCAGCCACTGCGCCAACAACGGCGTCCACTACGCTGAAATTCAATGAA +AACGGGATTCTGGAGTCTGGCGGTACGGTGAACATCACCACCGGTACGATTAATGGCGCG +ACAGCGGCCACCTTCTCCCTCAGCTTCCTTAACTCCATGCAGCAGAACACCGGGGCTAAT +AACATCGTCGCCACCAATCAAAACGGCTATAAGCCTGGCGACCTGGTGAGCTACCAGATT +AACAATGATGGCACCGTGGTTGGCAACTACTCCAACGAGCAGGAGCAGGTGCTGGGGCAG +ATTGTGCTGGCTAACTTCGCCAACAACGAAGGTCTGGCATCCCAGGGCGATAACGTCTGG +GCGGCGACGCAGGCCTCCGGGGTAGCGCTGCTGGGGACTGCCGGTTCCGGCAACTTCGGT +AAGCTGACGAACGGCGCGCTGGAAGCCTCTAACGTGGATTTGAGTAAAGAGCTGGTGAAT +ATGATCGTCGCGCAGCGTAACTACCAGTCGAATGCGCAGACCATCAAAACCCAGGACCAG +ATCCTCAATACGCTGGTTAACCTGCGCTAAATGGATCACGCAATTTATACCGCCATGGGG +GCGGCCAGCCAGACGCTTAACCAGCAGGCGGTAACGGCCAGCAACCTGGCTAATGCCTCA +ACGCCGGGCTTTCGCGCGCAGCTTAACGCGCTACGCGCGGTGCCCGTTGATGGCCTCTCT +TTAGCGACGCGCACGTTGGTTACGGCGTCGACGCCGGGGGCGGATATGACCCAGGGTCAG +TTGGACTACACTTCCCGCCCGCTGGATGTTGCGTTACAGCAGGACGGCTGGCTGGTGGTG +CAAGCGGCGGATGGCGCTGAAGGATATACCCGTAACGGGAATATCCAGGTGGGCCCGACC +GGGCAGTTAACCATTCAGGGACATCCGGTTATCGGCGAAGGCGGCCCGATTACCGTTCCG +GAAGGGTCGGAAATCACCATTGCGGCAGACGGCACGATCTCCGCGCTCAATCCCGGCGAC +CCGCCAAACACGGTGGCGCCCGTTGGGCGGCTGAAGCTGGTCAAAGCGGAAGGCAATGAG +GTGCAGCGGAGCGATGACGGTTTATTCCGCCTTACCGCCGAGGCACAGGCTGAACGCGGG +GCGGTACTGGCCGCCGACCCGTCAATTCGCATTATGTCGGGCGTGCTGGAGGGCAGTAAC +GTCAAGCCGGTTGAAGCCATGACCGACATGATCGCCAACGCACGTCGTTTTGAAATGCAG +ATGAAGGTTATCACCAGCGTAGATGAGAACGAAGGGCGAGCTAACCAACTGCTGTCGATG +AGTTAAATGATCAGTTCATTATGGATCGCCAAAACCGGTCTGGACGCGCAGCAAACCAAT +ATGGATGTGATTGCCAATAACCTGGCAAACGTCAGCACCAATGGTTTTAAGCGTCAGCGC +GCGGTATTTGAAGATCTGTTGTATCAGACCATCCGCCAGCCGGGCGCGCAGTCGTCCGAG +CAGACGACGCTGCCTTCCGGGCTGCAAATCGGTACCGGCGTGCGTCCGGTCGCCACGGAG +CGCCTGCACAGTCAGGGGAACCTGTCGCAGACCAACAACAGTAAAGATGTGGCGATTAAA +GGGCAGGGCTTTTTCCAGGTCATGCTGCCGGACGGTACGTCTGCCTATACCCGCGACGGC +TCTTTCCAGGTGGATCAGAATGGTCAACTGGTGACGGCGGGCGGTTTTCAGGTGCAGCCG +GCAATCACCATTCCGGCCAACGCGTTAAGCATCACGATTGGCCGCGACGGCGTGGTCAGC +GTTACCCAGCAAGGGCAGGCCGCGCCGGTTCAGGTCGGGCAGCTTAACCTGACCACCTTT +ATGAACGACACCGGTCTGGAAAGCATCGGCGAGAACCTCTATATCGAAACGCAATCGTCC +GGCGCGCCGAACGAAAGCACGCCGGGGCTCAACGGCGCGGGGTTGTTGTATCAAGGGTAT +GTCGAAACGTCGAACGTTAACGTGGCGGAAGAGCTGGTGAACATGATTCAGGTTCAACGC +GCCTATGAAATTAACAGTAAAGCAGTATCGACGACCGATCAGATGCTGCAGAAACTGACG +CAACTCTAAATGGCCCTGATGGTCGCGACGCTGACAGGATGCGCCTGGATACCCGCTAAA +CCGCTCGTGCAGGGGGCGACCACGGCGCAGCCGATACCTGGCCCGGTACCGGTGGCGAAT +GGCTCCATATTTCAGTCTGCGCAGCCGATTAATTATGGCTATCAGCCGCTTTTTGAAGAT +CGTCGACCGCGTAATATCGGCGATACGCTCACGATTGTGTTACAGGAAAACGTCAGCGCC +AGTAAAAGCTCGTCGGCAAATGCCAGCCGCGACGGCAAAACCAGCTTTGGTTTTGATACG +GTACCGCGTTATCTGCAGGGATTATTCGGTAATTCCCGCGCGGATATGGAGGCCTCCGGC +GGCAACTCTTTTAATGGTAAAGGCGGCGCGAATGCCAGCAATACCTTTAGCGGCACGCTG +ACCGTGACCGTCGATCAGGTTCTGGCCAATGGCAATTTACACGTCGTGGGGGAAAAACAG +ATCGCGATTAATCAGGGAACGGAATTCATCCGCTTCTCCGGCGTGGTAAATCCACGCACC +ATCAGCGGTAGCAACTCTGTTCCCTCGACACAGGTGGCGGATGCGCGGATTGAATATGTC +GGGAACGGCTATATTAACGAAGCGCAAAATATGGGCTGGCTGCAACGTTTCTTCCTTAAT +TTGTCGCCGATGTAAGTGTTTAAAGCTCTTGCAGGAATCGTTCTGGCACTGGTTGCCACT +CTGGCGCACGCCGAGCGTATCCGGGATCTGACCAGTGTCCAGGGAGTACGGGAAAACTCG +CTGATCGGCTACGGGCTGGTGGTCGGGCTGGACGGTACGGGCGACCAGACGACCCAGACG +CCATTTACCACCCAGACGCTGAATAACATGCTGTCACAACTGGGGATTACGGTCCCCACC +GGCACCAATATGCAGTTGAAAAACGTGGCGGCGGTGATGGTGACGGCGTCGTATCCGCCT +TTTGCGCGACAGGGACAAACGATCGATGTCGTCGTTTCCTCAATGGGGAACGCTAAAAGT +CTGCGTGGCGGGACGTTATTAATGACGCCGTTAAAAGGGGTGGACAGCCAGGTGTATGCT +CTGGCGCAGGGCAATATTCTGGTCGGCGGCGCGGGCGCTTCCGCAGGCGGCAGTAGCGTG +CAGGTTAACCAGCTTAATGGCGGGCGCATCACTAATGGCGCGATTATCGAACGCGAGTTG +CCGACTCAGTTCGGCGCTGGCAACACCATTAATCTGCAATTGAACGACGAAGATTTTACG +ATGGCGCAGCAAATTACCGACGCCATCAACCGCGCCCGCGGTTACGGCAGCGCCACTGCG +CTTGATGCGCGAACGGTACAGGTACGCGTGCCCAGCGGCAACAGCTCGCAGGTGCGTTTT +CTGGCGGACATTCAAAATATGGAAGTCAACGTGACGCCGCAGGATGCAAAAGTCGTGATC +AACTCGCGTACCGGTTCGGTGGTCATGAATCGGGAAGTCACGCTGGATAGCTGCGCTGTG +GCGCAGGGCAATTTGTCAGTGACAGTCAATCGCCAACTCAACGTCAACCAGCCGAATACG +CCATTTGGCGGCGGGCAGACCGTGGTGACGCCACAGACTCAGATAGATTTGCGTCAGAGC +GGCGGATCGCTACAGAGCGTGCGTTCCAGCGCCAATCTGAACAGCGTAGTGCGCGCGCTG +AATGCGCTTGGCGCGACGCCGATGGATCTGATGTCGATTTTGCAGTCCATGCAGAGCGCG +GGCTGTCTACGCGCCAAACTGGAAATCATCTGAATGATCGGAGACGGTAAATTGCTGGCC +AGCGCGGCCTGGGATGCGCAATCTCTGAACGAACTGAAAGCGAAAGCGGGCCAGGACCCG +GCGGCGAATATCCGTCCTGTGGCCCGTCAGGTGGAAGGGATGTTTGTGCAGATGATGCTG +AAAAGTATGCGCGAGGCTTTACCCAAAGATGGTTTATTCAGCAGCGATCAGACGCGTCTG +TATACCAGCATGTATGACCAGCAGATCGCCCAGCAGATGACCGCCGGTAAGGGATTGGGG +CTGGCGGATATGATGGTTAAACAGATGACGGGCGGGCAGACGATGCCTGCAGATGATGCG +CCGCAAGTACCGCTTAAATTCTCCCTGGAGACGGTAAACAGCTATCAAAATCAGGCGCTG +ACCCAACTGGTGCGCAAAGCCATACCGAAAACGCCGGACAGCAGCGATGCGCCGCTCTCC +GGCGACAGTAAAGACTTTCTGGCCCGGCTTTCGCTCCCGGCGAGGCTGGCCAGCGAACAA +AGCGGGGTGCCGCATCATCTGATTCTGGCGCAGGCGGCGCTGGAGTCCGGCTGGGGGCAG +CGGCAAATCCTGCGGGAGAATGGCGAACCCAGCTATAACGTATTTGGCGTGAAAGCGACC +GCCAGTTGGAAAGGGCCGGTGACGGAAATCACCACCACTGAATACGAAAATGGCGAAGCG +AAAAAAGTGAAAGCGAAATTCCGCGTCTATAGCTCGTATCTGGAGGCGTTATCGGATTAT +GTCGCGCTGTTAACGCGTAACCCACGCTACGCTGCCGTGACCACTGCCGCCACGGCAGAG +CAGGGCGCAGTGGCTCTGCAAAACGCCGGATACGCCACTGACCCGAATTACGCGCGTAAA +TTGGCCAGCATGATTCAGCAGTTGAAAGCGATGAGTGAAAAGGTCAGCAAAACCTACAGC +GCGAATCTCGACAATCTCTTTTAAATGTCCAGCTTGATTAATCACGCCATGAGCGGACTT +AACGCCGCGCAGGCCGCGTTAAATACGGTCAGTAATAACATCAACAATTATAACGTTGCG +GGTTATACCCGGCAGACAACTATTCTGGCGCAGGCAAACAGTACGTTAGGGGCTGGCGGC +TGGATAGGTAATGGCGTTTACGTTTCAGGCGTACAGCGCGAATATGATGCGTTTATCACT +AATCAGCTACGCGGCGCGCAAAACCAGAGCAGCGGCTTAACCACGCGCTATGAACAAATG +TCGAAAATCGACAACCTGCTGGCCGATAAATCCAGCTCACTGTCTGGCTCGCTGCAGAGT +TTTTTTACCAGCCTGCAAACGTTAGTCAGTAATGCGGAAGATCCTGCGGCGCGTCAGGCG +CTGATTGGTAAAGCGGAAGGGCTGGTAAACCAGTTCAAAACCACCGATCAGTATCTGCGC +GATCAGGATAAACAGGTCAATATCGCGATTGGCTCCAGCGTGGCGCAAATCAACAATTAC +GCGAAGCAGATAGCTAACCTGAACGATCAAATCTCCCGTATGACGGGCGTAGGCGCGGGC +GCATCGCCGAACGACCTGCTCGATCAACGTGATCAGTTGGTTAGCGAGCTTAACAAGATC +GTTGGCGTCGAGGTGAGTGTACAGGACGGCGGCACCTATAACCTGACGATGGCCAATGGC +TATACGCTGGTGCAGGGGTCGACGGCGCGTCAGTTGGCGGCGGTTCCCTCCAGCGCCGAC +CCGACGCGAACGACTGTCGCTTATGTCGATGAGGCCGCCGGTAACATCGAAATTCCGGAA +AAGTTGCTGAACACCGGTTCGCTCGGCGGGCTACTGACGTTCCGTTCTCAGGATCTGGAT +CAGACTCGTAATACGCTGGGCCAGTTGGCGTTGGCGTTTGCCGATGCGTTTAACGCGCAG +CATACCAAAGGTTATGACGCCGACGGCAATAAAGGGAAAGACTTCTTTAGCATTGGCTCG +CCGGTGGTATATAGCAACAGTAATAATGCCGATAAAACGGTATCGCTAACCGCTAAGGTG +GTCGACAGCACGAAGGTTCAGGCGACGGATTATAAGATTGTTTTTGACGGTACAGACTGG +CAGGTTACTCGCACTGCGGATAACACCACCTTCACGGCAACAAAAGATGCTGACGGAAAA +CTGGAGATTGACGGTCTGAAAGTGACGGTAGGGACTGGCGCACAGAAAAACGACAGTTTT +CTTCTCAAGCCGGTCAGCAATGCTATCGTCGACATGAACGTTAAAGTGACAAATGAAGCC +GAGATTGCGATGGCGTCTGAGTCAAAACTCGATCCTGATGTGGATACCGGCGACAGCGAT +AACCGCAATGGTCAGGCATTGCTGGACTTACAAAACAGCAATGTAGTGGGCGGCAACAAA +ACCTTTAACGATGCTTACGCCACGTTGGTCAGCGATGTGGGTAACAAAACGTCAACGCTG +AAAACCAGCAGCACCACGCAGGCGAATGTGGTTAAACAGCTTTATAAACAGCAACAGTCG +GTTTCCGGCGTTAACCTCGACGAAGAGTACGGCAATTTGCAGCGTTATCAGCAGTATTAT +CTGGCGAATGCGCAAGTATTGCAGACCGCGAATGCGCTGTTTGATGCGTTATTGAATATT +CGCTAAATGCGTATCAGTACCCAGATGATGTACGAACAAAATATGAGCGGCATCACTAAT +TCTCAGGCCGAATGGATGAAGCTGGGCGAGCAGATGTCTACCGGTAAGCGCGTTACCAAC +CCATCTGACGATCCGATCGCCGCGTCGCAGGCGGTAGTACTCTTTCAGGCGCAGGCGCAG +AATAGCCAGTACGCCCTGGCGCGTACGTTTGCCACCCAAAAAGTGTCGCTGGAAGAAAGC +GTACTCAGTCAGGTGACGACGGCGATTCAAACCGCGCAGGAAAAAATCGTCTATGCCGGA +AACGGCACGTTAAGCGACGATGACCGCGCGTCGCTGGCGACGGATTTACAGGGGATCCGC +GATCAGCTGATGAACCTGGCAAACAGCACTGACGGCAATGGTCGCTATATCTTTGCCGGG +TATAAAACGGAAGCGGCGCCATTCGACCAGGCGACAGGTGGTTATCATGGCGGCGAGAAA +AGTGTTACCCAGCAGGTGGATTCCGCACGCACGATGGTAATTGGCCATACGGGAGCGCAA +ATTTTTAATAGCATCACCAGCAATGCGGTGCCGGAACCGGATGGCTCGGACTCCGAAAAG +AATCTGTTTGTCATGCTCGATACGGCAATTGCCGCGCTCAAGACCCCGGTGGAAGGCAAT +GACGTGGAAAAAGAAAAAGCCGCTGCCGCCATTGATAAAACCAATCGCGGCTTAAAAAAT +TCGCTTAATAACGTCCTGACCGTTCGTGCGGAACTGGGAACGCAACTGAGCGAACTCAGT +ACGCTGGATTCACTGGGAAGCGACCGTGCGCTGGGACAGAAGCTACAGATGAGCAACCTG +GTAGATGTGGACTGGAACTCGGTCATTTCCTCCTACGTCATGCAACAGGCGGCATTACAG +GCGTCCTATAAAACGTTTACCGACATGCAGGGAATGTCGCTTTTCCAGTTGAACCGGTAA +ATGGAGATAATTTTTTATCACCCGACATTTAACGCCGCCTGGTGGGTAAATGCGCTGGAG +AAGGCTCTCCCACATGCGCGCGTTCGTGAATGGAAGGTCGGTGATAACAACCCCGCAGAC +TATGCGCTTGTATGGCAGCCCCCGGTTGAAATGCTGGCCGGAAGACGCTTAAAAGCCGTC +TTTGTGCTGGGCGCGGGGGTGGATGCAATTCTGAGTAAATTAAATGCGCATCCGGAAATG +CTGGACGCCTCCATTCCTCTATTCCGTCTGGAAGATACCGGAATGGGCCTGCAAATGCAG +GAGTATGCCGCCAGCCAGGTATTACACTGGTTCCGTCGTTTCGATGATTATCAGGCGCTG +AAAAATCAGGCGCTATGGAAACCGTTGCCGGAATATACCCGCGAAGAGTTTAGCGTCGGT +ATCATAGGCGCAGGGGTACTGGGCGCAAAAGTGGCAGAAAGTCTACAGGCGTGGGGGTTC +CCGTTACGTTGCTGGAGTCGTAGCCGCAAATCCTGGCCTGGCGTGGAAAGTTATGTAGGG +CGTGAAGAACTGCGCGCTTTCCTGAACCAGACGCGGGTGCTGATTAATCTGCTGCCGAAT +ACGGCCCAAACGGTAGGAATTATTAATAGCGAATTGTTGGATCAATTGCCGGATGGCGCT +TACGTGCTGAATCTCGCGCGCGGCGTTCATGTTCAGGAGGCGGATCTGCTGGCTGCGCTT +GATAGCGGTAAGCTAAAAGGCGCGATGTTGGATGTCTTTAGCCAGGAACCGTTACCGCAG +GAAAGTCCATTATGGCGCCATCCGCGAGTCGCCATGACGCCGCACATTGCGGCAGTCACC +CGTCCGGCGGAAGCCATCGATTATATTAGCCGCACCATTACCCAGCTGGAGAAGGGAGAG +CCGGTGACGGGGCAGGTGGATCGGGCGAGAGGATATTGAATGTCCGTAATCAAGAAAAAT +ATCCCTGCCATAGGCCTGTGTATCTGCGCTTTTTTTATCCATTCTGCGGTAGGGCAACAA +ACGGTACAGGGCGGCGTTATCCATTTTCGCGGCGCGATTGTTGAGCCACTGTGCGATATT +TCTACTCACGCCGAAAATATTGATTTAACCTGCCTACGCGAAGGTAAAAAGCAAATGCAC +CGGATAGACCTTCGGCAGGCATCTGGATTACCGCAGGATATTCAGTCCATTGCGACGGTA +CGGCTGCATTATCTCGATGCGCAAAAAAGCCTGGCGGTGATGAATATTGAGTACCGTTAA +ATGGCAAACCATCGTGGCGGTTCCGGTAATTTTGCGGAAGACCGCGAAAGAGCATCAGAA +GCAGGTCGTAAAAGTGGTCAGCACAGCGGGGGCAATTTTAAGAATGACCCGCAGCGTGCA +TCCGAAGCAGGCAAAAAAGGGGGCAAAAGCAGTAACCGTAATCGCTAGATGGTAATGTCC +GCACCAGGACACATTGTTTACAGTAGTTACAACACCCTGTACGGACATTCTCTCTCCGGT +GGTGGTCTTGTCATCTTAAAAGCTCTCATCATTTCCCTTACTGTCCATACCCATGACGCC +ATATGTGGTGCGCGTAGCCGTGTGTGGCGTCGTTTCAAAAAGCAAGCTAAGGCTTACAAG +GAAGCCAACCCTCAGATGTGTGTGCGCATAATCGCGTTCAAGAGAACGCGGGTGATGTAT +ACCTACAACTCAAGGTGCTATCCATGGGAAGACAAAAAGCAGTGAATGAAACGAATTTTC +CTTACCTGCGCGGCGTTGTTGTTCAGCAGTCAGGCGTTGGCCGATGAGTGTGCCAGCGCC +AGTACGCAGCTGGAAATGAATCGCTGCGCCGCCGCGCAATACCAGGCGGCAGATAAAAAG +CTGAACGAAACCTATCAAAGCGCGATTAAGCGTGCGCAACCGCCGCAGCGTGAGCTATTG +CAAAAAGCGCAGGTGGCATGGATTGCCCTGCGCGACGCCGATTGCGCGCTGATTCGCTCA +GGTACGGAGGGCGGCAGCGTTCAACCCATGATCGCCAGCCAGTGCCTGACCGATAAAACG +AACGAACGCGAAGCGTTTTTAGCCTCGCTGCTGCAATGTGAAGAGGGTGATTTGAGCTGC +CCACTGCCGCCAGCCGGTTAAGTGCGTATATTCGCGGTGAGCATAATGGTGATTACCCTG +AGCGGCTGCGGCAGTATTATCAGCAGAACGATCCCCGGACAAGGACACGGCAACCAGTAT +TACCCTGGCGTGCAGTGGGATATGCGTGATTCCGCATGGCGCTATATCACTATCCTCGAT +CTGCCCTTCTCACTGATCTTCGATACACTGCTACTGCCGCTCGATATTCACCACGGGCCT +TATGAGTAAATGTGCCAACGTGCGATCGCCAATATTGATATCAGCAAAGAGTATGACGAA +AGCATGGGCAGTAACGATGTGCATTATCAGTCGTTTGCTCGTATGGCGGATTTCTTTGGT +CGTGATATGCAGGCGCATCGCCACGACCAGTTTTTTCAAATGCACTTTCTTGATACCGGG +CAGATTGAGCTACAGCTCGACGATCATCGCTATTCGGTGCAGGCGCCGCTATTTGTGCTA +ACGCCGCCCTCGGTGCCGCATGCTTTTATTACCGAATCGGATAGCGATGGTCATGTTCTG +ACGGTACGCGAAGAGCTGGTTTGGCCGCTGCTGGAAGTGCTTTATCCCGGCACCAGAGAG +GCCTTCGGCCTGCCGGGAATCTGCCTGTCGCTGGCGGATAAACTCAACGAGCTGGCGGCG +CTCAAACATTACTGGCAGCTAATTGAGCGGGAGTCCACGGAACAACTGGCTGGCTGCGAA +CATACCTTGGTACTACTGGCGCAGGCGGTATTTACCTTGCTGTTGCGTAATGCGAAGCTG +GACGATCATGCCGCAACCGGGATGCGCGGTGAACTGAAACTTTTTCAGCGCTTTACCCTG +TTAATTGACAACCACTTCCATCAGCACTGGACGGTGCCCGATTATGCCTGTGAGTTGCAT +ATTACCGAATCTCGTTTGACCGATATTTGCCGACGTTTTGCTAATCGCCCGCCTAAACGC +CTGATTTTTGATCGGCAATTACGCGAGGCGAAACGACTGCTGCTTTTTTCCGACAATGCT +GTCAACGAGATCGCCTGGCAATTAGGTTTTAAAGATCCGGCTTATTTCGCCCGTTTCTTT +AATCGCCTTGCTGGCTGTTCTCCTTCGCAGTTTCGCCAACGTGAAGTTCCTTCTTTTCTC +AACTAAATGGGACGCACACCGGATTACAAAGCCGCCTTTGGCTGCGCTCTGGGCGCTAAC +CCAGCCTTCTACGGCCAGTTTGAGCAGAACGCCCGTAACTGGTACACCCGTATTCAGGAG +ACCGGCCTGTACTTTAACCATGCAATCGTCAACCCGCCCATTGACCGCCACAAACCTGCC +GACGAAGTGAAAGACGTCTATATCAAGCTGGAGAAAGAGACGGACGCCGGGATTATTGTC +AGCGGGGCGAAAGTTGTCGCCACTAACTCCGCCCTGACTCACTACAACATGATTGGTTTC +GGCTCAGCCCAGGTGATGGGCGAAAACCCGGATTTTGCTCTGATGTTTGTCGCGCCAATG +GATGCCGAAGGCGTAAAACTTATTTCGCGCGCCTCGTATGAAATGGTCGCGGGCGCGACG +GGCTCGCCGTTTGATTATCCCCTCTCCAGCCGTTTTGATGAAAACGATGCCATTCTGGTG +ATGGACAAGGTGCTGATCCCGTGGGAAAACGTATTAATTTACCGTGATTTCGATCGTTGT +CGTCGCTGGACGATGGAAGGCGGCTTTGCCCGTATGTATCCACTGCAAGCCTGTGTTCGT +CTGGCGGTAAAACTTGATTTCATTACCGCGCTGCTGAAAAAATCGCTCGAATGTACGGGT +ACCGTAGAGTTCCGGGGCGTGCAGGCCGATCTCGGCGAAGTCGTGGCCTGGCGCAATATG +TTCTGGGCATTGAGCGATTCTATGTGTTCTGAAGCAACCCCGTGGGTAAACGGCGCCTGG +CTACCGGACCACGCCGCGCTGCAAACCTATCGTGTGATGGCCCCAATGGCCTACGCGAAA +ATTAAAAATATTATTGAACGTAACGTTACCAGCGGCCTGATTTACCTGCCTTCCAGCGCC +CGCGATCTGAATAATCCGCAAATCGACCAGTACCTGGCGAAATACGTACGCGGCTCTAAC +GGAATGGACCATGTTGAACGTATCAAAATTCTTAAATTGATGTGGGATGCCATCGGCAGC +GAGTTTGGCGGTCGCCATGAGCTGTACGAGATTAACTACTCGGGCAGCCAGGATGAAATT +CGTCTGCAGTGTCTGCGTCAGGCCCAGAGCTCCGGCAATATGGATAAGATGATGGCAATG +GTCGATCGCTGCCTCTCCGAATACGATCAGAATGGCTGGACGGTTTCGCATTTGCACAAT +AACGACGACATCAATCAACTGGATAAGCTGCTGAAATAAATGCAAGTAGATGAACAACGT +CTGCGTTTTCGCGATGCGATGGCAAGTCTGGCGGCAGCGGTCAACATCGTAACCACGGCG +GGTCACGCCGGACGCTGCGGTATCACCGCAACAGCGGTTTGCTCAGTCACTGATACGCCG +CCCTCCGTGATGGTATGTATTAATGCCAATAGCGCCATGAACCCCGTTTTTCAGGGCAAC +GGCAGGCTGTGCATTAATGTACTTAACCATGAGCAGGAGCTGATGGCGCGCCACTTTGCC +GGTATGACGGGGATGGCGATGGAGGAGCGTTTTCACCAGCCATGTTGGCAAAACGGGCCG +CTGGGCCAGCCGGTACTTAACGGCGCGCTGGCCAGTCTTGAAGGCGAGATCAGCGAGGTA +CAAACCATTGGCACGCATCTGGTGTATCTGGTGGCGATCAAAAATATTATTCTTAGCCAG +GAGGGGCATGGCCTGATTTATTTCAAACGCCGTTTTCATCCGGTCAGACTTGAGATGGAA +GCGCCTGTTTAAATGAAGGGTACTGTTTTCGCCGTTGCGTTAAACCATCGCAGCCAGCTT +GATGCCTGGCAAGAGGCTTTCTCTCAGCCTCCCTATAATGCGCCGCCTAAAACCGCAGTG +TGGTTCATCAAGCCGCGTAATACGGTGATTCGTCACGGCGAACCCATTCCTTATCCGCAG +GGAGAAAAGGTACTGAGCGGCGCGACAGTGGCGCTCATTGTGGGGAAAACCGCCAGCCGG +ATACGCCCTGAAGCGGCGGCGGACTATATCGCCGGGTATGCGCTGGCTAACGAGGTCAGC +CTGCCGGAAGAGAGCTTTTATCGCCCGGCGATTAAAGCGAAATGTCGCGATGGCTTTTGC +CCGCTGGGTGAAATGGCGCCGCTGAGTGATGTGGATAATCTCACCATTATCACTGAAATC +AACGGACGAGAAGCGGACCACTGGAATACTGCCGATTTACAGCGTAGCGCCGCACAACTG +CTTAGCGCGTTAAGTGAGTTCGCTACACTTAACCCTGGCGATGCGATCTTACTTGGTACG +CCGCAGAATCGCGTTGCGCTGCGTCCCGGCGATCGGGTGCGTATTCTGGCGAAAGGTTTA +CCCGCGCTGGAAAATCCGGTTGTCGCAGAAGATGAATTCGCCCGCCACCAGACGTTTACG +TGGCCGCTGTCAGCGACGGGAACGTTATTTGCGCTGGGGTTGAACTACGCCGATCACGCC +AGCGAGCTGGCATTTACGCCGCCGAAAGAGCCGCTGGTATTTATCAAAGCGCCAAACACC +TTTACCGAACATCACCAAACGTCGGTGCGCCCGAACAACGTCGAATATATGCACTACGAA +GCCGAGCTGGTCGTGGTGATTGGCAAAACGGCGCGTAAGGTGAGCGAAGCCGAAGCCATG +GAGTATGTGGCCGGTTACACCGTCTGTAACGACTACGCGATCCGCGACTATCTGGAAAAC +TACTACCGTCCGAATCTGCGGGTAAAAAGCCGCGACGGCCTGACGCCGATAGGCCCGTGG +ATTGTGGATAAAGAGGCGGTTTCTGATCCGCACAACCTGACGTTACGCACCTTTGTCAAC +GGTGAGCTGCGGCAGGAAGGGACGACCGCCGATCTGATCTTCAGCATCCCGTTCCTGATT +TCTTATCTGAGCGAATTTATGACGTTGCAACCGGGCGACATGATTGCCACCGGTACGCCG +AAAGGGCTGTCCGATGTGGTGCCGGGGGATGAAGTTGTCGTTGAAGTAGAAGGCGTGGGT +CGCCTGGTTAACCGAATCGTCAGTGAGGAGAGCGCAAAATGAATGAAAAATGCTTTCAAA +GACGCGTTAAAAGCGGGGCGCCCGCAAATCGGTTTGTGGCTGGGGCTTGCCAACAGTTAC +AGCGCTGAACTGTTAGCGGGCGCCGGCTTCGACTGGCTACTGATTGACGGTGAACACGCG +CCAAACAACGTGCAGACGGTGTTGACCCAGTTGCAGGCGATTGCGCCTTATCCCAGCCAG +CCGGTGGTGCGTCCGTCATGGAACGATCCGGTACAGATTAAGCAACTGCTCGACGTCGGC +GCGCAAACGCTGCTGATACCGATGGTGCAGAATGCCGATGAAGCGCGAAACGCCGTGGCG +GCTACGCGTTATCCGCCTGCCGGTATTCGCGGCGTGGGCAGCGCGCTGGCGCGGGCATCG +CGCTGGAATCGCATTCCGGACTATCTCCACCAGGCCAACGACGCCATGTGCGTACTGGTG +CAGATTGAAACGCGTGAGGCGATGAGCAATCTGGCGTCAATTCTCGACGTGGATGGCATT +GACGGCGTGTTTATTGGCCCGGCGGATCTCAGCGCCGATATGGGCTTTGCCGGCAATCCG +CAGCACCCGGAAGTGCAGGCGGCGATTGAGAACGCCATCGTGCAGATACGCGCGGCGGGG +AAAGCGCCGGGGATTCTGATGGCCAATGAAGCACTGGCGAAACGTTATCTGGAACTGGGG +GCGCTATTTGTCGCCGTCGGCGTTGACACCACGCTGCTGGCGCGCGGAGCGGAGGCGCTG +GCGGCGCGCTTTGGCGCAGAAAAAAAACTGTCCGGTGCGTCCGGCGTCTATTAAATGCAT +GATTCATTAACCATCGCCTTGCTTCAGGCGCGCGAAGCGGCAATGACCTATTTCCGCCCC +ATCGTTAAAAGCCACAATCTGACCGACCAGCAATGGCGCATTGTGCGAATCCTGGCCGAT +AGCCCCTCTATGGATTTTCACGAGCTGGCCTTTCGTACCTGTATTTTGCGTCCAAGTCTG +ACCGGAATATTGACGCGCATGGAGCGAGACGGACTGGTGTTGCGACTCAAGCCGGTTAAC +GATCAGCGTAAGTTATATGTCATGTTGACGGAGCAGGGACAAACGTTGTACGCCCGTGCC +CGGAGCGAGGTAGAAGAGGCTTATCGAAAAATTGAGGCCGATTTCACGCCCGAAAAAACA +CAGCAATTGATGCTGCTGCTGGACGATCTTATTGCTCTGGGGCGCCAGCATCCTGATAGC +GAAGCGGAAGCATAGATGAGCGACACATCATCTGCACTTCCGGAAAGCCCCGAGTCTGTC +GGTTCGCACAACGCGCTCAGCACGGGTCAACAAACCGTCATAAATAAACTGTTCCGCCGA +CTGATCGTATTTTTATTCGTGTTGTTTATCTTCTCGTTTTTAGACCGTATCAACATCGGT +TTTGCCGGGTTGACGATGGGGCAGGATCTGGGGTTAAGCGCCACCATGTTTGGTCTTGCC +ACGACGCTGTTTTACGCCACCTACGTCATTTTCGGCATTCCCAGCAACGTGATGTTGAGC +ATCGTCGGCGCCCGCCGCTGGATTGCGACCATTATGGTGCTATGGGGCATTGCATCTACC +GCCACGATGTTCGCGGTGGGACCGAAAAGCCTGTATGTGCTGCGAATGCTGGTGGGCATT +ACCGAAGCGGGCTTTTTGCCAGGAATATTGCTCTATTTAACCTACTGGTTCCCGGCATTT +TTCCGCGCCCGCGCCAACGCATTATTTATGATTGCCATGCCGGCCACTACCGCGTTGGGG +TCAATTGTCTCCGGCTATATTTTATCGCTGGACGGCATATTCAATCTGCATGGATGGCAG +TGGTTATTCCTGTTGGAAGGATTTCCGTCAGTTTTGTTAGGCATTATGGTCTGGTTTTAC +CTGGATGATACCCCGGCAAAAGCCAAATGGCTGACGGCAGAGGATAAAAAATGTTTGCAG +GAGATGATGGATAATGATCGCCTGACGCTGGTTCAGCCTGAGGGGGCCATCAGCCATAAC +GCCATGCAGCAGCGTAGCCTGTGGCGCGAAGTATTCACGCCAATTGTACTGATGTATACG +CTGGCCTATTTTTGCCTTACCAATACGCTTAGCGCCATTAGTATCTGGACGCCGCAAATC +CTGAAAAGTTTTAATGAAGGCAGCAGCAATATCACCATCGGCCTGCTGGCGGCGATCCCG +CAGATTTGTACTGTTCTGGGCATGATTTACTGGAGCCGCCATTCGGACAAACATCAGGAG +CGTAAACACCACACTGCGTTACCGTTCCTGTTTGCCGCCGCGGGCTGGCTGCTGGCGTCG +GCGACCGACCGTAACCTGATCCAGCTCCTGGGGATCGTGATGGCATCCACGGGTTCCTTT +AGCGCGATGGCGATCTTCTGGACCACGCCGGATCAGTCGATCAGTTTACGCGCCAGGGCG +ATAGGCATTGCGGTCATCAATGCCACCGGCAATATTGGCTCCGCGCTCAGCCCGGTTATG +ATTGGCTGGCTAAAAGATATCACTGGTAGCTTCAATAGCGGACTCTGGTTTGTCGCTTCT +CTGTTAGTCGTCGGCGCCGCCATTATCTGGCTCATTCCCATGAAAGCATCGCGTCCGCGC +GCCACCCCTTGAATGGGCAAGTTAGCGTTAGCAGCAAAAATTACCCACGTGCCGTCGATG +TATCTTTCTGAACTGCCAGGAAAAAATCACGGTTGTCGTCAGGCAGCCATTGATGGGCAT +ATTGAAATTGGCAAGCGTTGCCGCGAAATGGGCGTTGACACCATTATCGTATTCGACACC +CACTGGCTGGTGAATAGCGCTTACCACATTAATTGTGCCGACCATTTCCAGGGCGTCTAT +ACCAGCAACGAATTGCCGCACTTTATTCGCGACATGACCTATGACTATGACGGTAATCCG +GCGCTCGGCCATCTGATCGCCGACGAGGCGGTCAAACTGGGCGTGCGCGCCAAAGCGCAC +AACATCCCGAGCCTGAAGCTGGAGTATGGCACGCTGGTGCCGATGCGCTACATGAACAGC +GACAAGCACTTCAAAGTGGTCTCCATCTCGGCGTTCTGCACTGTGCATGATTTTGCCGAC +AGCCGCAAACTGGGCGAAGCCATTCTCAAGGCGATTGAGAAATATGACGGTACCGTAGCG +GTATTCGCCAGTGGTTCTCTGTCGCACCGTTTTATTGACGACCAACGGGCGGAAGAGGGG +ATGAACAGCTACACCCGCGAGTTCGATCATCAAATGGACGAGCGCGTGGTCAAGCTGTGG +CGCGAAGGCAAATTCAAGGAGTTTTGCACCATGTTGCCGGAGTACGCCGACTACTGCTAC +GGCGAAGGCAACATGCACGACACGGTCATGCTACTGGGAATGCTGGGGTGGGACAAATAC +GACGGCAAGGTGGAGTTCATCACCGACCTGTTCGCCAGCTCCGGTACCGGCCAGGTAAAC +GCTGTTTTCCCGCTGCCTGCGTAAATGAAGAAAATAAATCATTGGATTAACGGCAAAAAC +GTTGCAGGTAACGACTACTTCCAGACCACTAACCCGGCGACCGGTGATGTGCTGGCGGAA +GTAGCCTCCGGCGGTGAAGCAGAAGTGAACCAGGCTGTCGCGGCGGCAAAAGAGGCGTTC +CCGAAATGGGCCAACCTGCCGATGAAAGAGCGCGCGCGCCTGATGCGCCGCCTTGGCGAC +CTGATTGACCAGCATGTGCCGGAAATCGCGGCGATGGAAACCGCCGACACCGGCCTGCCT +ATTCACCAGACTAAAACGTGCTGAGTGCTGATCCCGCGCGCCTCGCATAACTTCGAATTC +TTCGCCGAAGTGTGCCAGCAGATGAACGGCAAGACCTATCCGGTTGACGATAAAATGCTC +AATTATACGCTGGTGCAGCCCGTCGGCGTCTGCGCGCTGGTGTCGCCGTGGAACGTGCCG +TTTATGACCGCGACTTGGAAAGTTGCGCCGTGCCTGGCGCTGGGTAACACCGCGGTGCTC +AAAATGTCCGAGCTGTCGCCGCTGACTGCCGACAGGCTGGGCGAGCTGGCACTGGAGGCA +GGAATTCCGGCAGGCGTGCTGAACGTGGTGCAGGGCTACGGCGCGACGGCGGGCGATGCG +CTGGTACGCCACCATGACGTGCGTGCGGTGTCGTTTACCGGCGGTACCGCCACCGGTCGC +AATATCATGAAAAATGCCGGGCTGAAAAAATACTCGATGGAGCTGGGCGGCAAATCGCCG +GTGCTGATTTTTGAAGACGCCGACATTGAGCGCGCGCTGGACGCCGCGCTGTTCACCATC +TTCTCGATCAACGGCGAACGCTGCACCGCTGGGTCGCGCATCTTTATCCAGCAGAGCATT +TACCCTGAGTTCGTGAAGCGCTTTGCCGAACGCGCGAATCGCCTGCGTGTCGGCGATCCG +ACCGACCCGAACACCCAGGTCGGCGCGCTGATTAGCCAACAGCACTGGGAGAAAGTCTCC +GGTTATATCCGCCTCGGCATTGAAGAGGGGGCAACGCTGCTGGCGGGCGGTGCGGAAAAA +CCCACTGACCTGCCTGCGCATCTGAAAGGCGGTAACTTCCTGCGCCCAACCGTGCTGGCC +GATGTCGACAACCGTATGCGCGTTGCGCAGGAAGAGATCTTTGGGCCGGTCGCCTGCCTG +CTGCCATTCAAAGACGAAGCGGAAGGGTTACGTTTGGCGAACGATGTGGAATACGGTCTG +GCCTCTTATATCTGGACCCAGGACGTGAGCAAAGTGTTGCGCCTGGCGCGTGGGATTGAA +GCCGGCATGGTCTTCGTCAACACCCAGAACGTCCGCGACCTGCGCCAGCCGTTCGGCGGC +GTGAAAGCCTCCGGTACCGGGCGCGAAGGCGGCGAATATAGCTTCGAAGTGTTTGCGGAA +ATGAAAAACGTCTGCATCTCAATGGGCGACCATCCTATCCCAAAATGGGGAGTTTGAATG +CCGCACTTTATTGCTGAATGTACTGAAAATATTCGCGAGCAGGCTGATTTACCAAGCCTG +TTCAGCAAGGTAAACGAGGCGCTGGCCGCCACCGGGATTTTCCCCATCGGCGGTATCCGC +AGTCGCGCCCACTGGCTGGATACCTGGCAGATGGCTGACGGTAAGCATGATTACGCGTTT +GTGCATATGACGCTGAAAATCGGCGCCGGGCGCAGCCTGGAGAGCCGTCAGGAAGTCGGC +GAAATGCTGTTTGGGCTGATTAAAGCCCACTTCGCCGACCTGATGGAGAACCGCTATCTG +GCGCTGTCGTTTGAGATTGCCGAGTTACATCCAACGCTCAATTACAAACAAAACAACGTA +CACGCGTTATTTAAATAGATGCTCGATAAACAGACCCATACCCTGATCGCTCAGCGACTT +AATCAGGCTGAAAAACAGCGTGAACAGATTCGCGCAGTGTCGCTGGATTATCCCAACATC +ACTATTGAAGATGCCTATGCCGTACAGCGTGAATGGGTCAATATCAAGATTGCCGAAGGG +CGCACGCTCAAAGGCCACAAAATCGGCCTGACCTCAAAAGCGATGCAGGCCAGCTCGCAA +ATCAGCGAACCGGATTACGGCGCGCTGCTTGACGATATGTTCTTCCATGACGGCGGAGAT +ATCCCCACCGACCGTTTTATCGTCCCGCGTATTGAAGTGGAGCTGGCGTTCGTGCTGGCG +AAACCGCTGCGCGGCCCTCACTGCACGCTGTTCGACGTCTACAACGCCACGGATTATGTG +ATTCCGGCGCTGGAACTGATTGACGCCCGCAGCCACAACATCGACCCGGAAACCCAGCGC +CCGCGCAAAGTGTTCGACACCATTTCCGACAACGCCGCCAACGCCGGGGTGATCCTCGGT +GGTCGCCCCATCAAACCAGACGAGCTGGATCTGCGCTGGATCTCCGCGCTGCTCTATCGC +AACGGCGTGATCGAAGAAACCGGCGTCGCCGCAGGCGTGCTGAATCATCCGGCCAACGGC +GTGGCGTGGCTGGCGAACAAGCTTGCCCCCTACGATGTCCAGCTTGAAGCCGGGCAGATC +ATCCTCGGCGGCTCGTTCACCCGCCCGGTGCCGGCGCGCAAGGGCGACACCTTCCATGTC +GATTACGGCAACATGGGCGCGATCAGTTGCCGGTTTGTGTAAATGAGCTCTGTACCCGCG +CCGCGTGAATATTTTCTTGACTCTATCCGCGCATGGCTGATGTTGTTAGGGATTCCCTTT +CATATCTCGTTGATCTATTCCACTCACAGTTGGCATGTCAATAGCGCCGCGCCATCGTGG +TGGCTAACCCTGTTTAACGATTTTATCCACGCTTTTCGTATGCAGGTGTTTTTTGTTATT +TCTGGTTATTTTTCGTACATGTTATTTTTACGTTATCCATTAAAACACTGGTGGAAAGTA +CGGGTAGAACGTGTGGGTATTCCCATGCTTACCGCAATCCCTTTGCTTACCTTGCCGCAA +TTTATCCTGTTGCAATATGTCAAAGAGAAAACAGAGAACTGGCCTACACTCTCTGCCTAT +GAAAAATATAATACGTTAGCGTGGGAACTCATTTCACATCTGTGGTTTTTACTGGTGCTG +GTGATATTAACCACCGTCAGCATCGGGATTTTTACCTGGTTCCAAAAAAGGCAGGAAACA +AGCAAGCCTCGTCCCGCCGCTATTTCGCTGGCCAAACTTTCGCTTATTTTTTTCCTGCTG +GGGGTGGCGTACGCTGCTATCAGGCGCATTATATTCATCGTATATCCGGCAATCCTCAGT +GACGGCATGTTCAATTTTATTGTGATGCAAACGCTATTTTATGTGCCGTTTTTTATTCTC +GGCGCGTTGGCCTTCATTCACCCCGATCTGAAAGCGCGCTTCACCACGCCCTCACGCGGA +TGCACTTTAGGCGCTGCCGTTGCTTTTATCGCGTATCTGCTGAATCAACGTTATGGGAGC +GGCGACGCCTGGATGTACGAAACCGAATCCGTGATTACGATGGTAATGGGGCTATGGATG +GTGAACGTGGTATTTTCACTGGGGCATCGCTTGTTAAACTTTCAGTCCGCGCGTGTCACC +TATTTCGTGAATGCTTCGCTGTTTATTTATCTGGTGCATCATCCCTTAACGCTTTTCTTT +GGCGCGTATATTACACCGCATATCTCCTCCAACCTGATCGGGTTCTTGTGCGGGCTGATA +TTTGTTATGGGTATTGCGTTAATTCTGTATGAAATTCATTTACGCATCCCGCTCCTGAAA +TTTCTCTTTTCAGGTAAACCGCCGGTAAAACAAGAAAGCCGCGCCGCGATCGGGTAGATG +AAACATAAACGACAAATGATGAAAATGCGTTGGTTGGGCGCAGCTATTATGTTAACGCTC +TACGCATCATCGAGCTGGGCGTTCAGTATTGATGACGTGGCAAAACAAGCTCAATCTTTA +GCCGGGAAAGGCTATGAGGCGCCTAAAAGCAACTTGCCCTCCGTTTTCCGCGACATGAAA +TATGCGGATTATCAGCAGATCCAGTTTAACAGCGATAAAGCCTACTGGAACAACTTAAAG +ACCCCTTTTAAGCTCGAATTTTACCATCAGGGGATGTACTTCGATACGCCGGTCAAGATT +AACGAAGTGACGGCGACGACGGTCAAAAGAATCAAATACAGCCCGGATTACTTCAATTTT +GGCAATGTTCAGCACGATAAAGACACGGTAAAAGATTTAGGCTTCGCCGGGTTCAAAGTC +CTGTACCCCATTAACAGTAAAGATAAGAACGACGAAATCGTCAGTATGCTTGGCGCCAGC +TATTTCCGCGTTATCGGCGCAGGCCAGGTGTATGGCTTATCTGCGCGCGGCCTGGCGATT +GATACCGCCTTACCATCTGGTGAAGAGTTTCCCCGCTTTCGCGAGTTCTGGATTGAGCGT +CCAAAACCCACCGATAAGCGTTTGACCGTCTATGCATTACTGGATTCTCCGCGCGCGACC +GGCGCTTACCGTTTTGTGATCATTCCTGGCCGCGATACCGTGGTGGACGTGCAGTCAAAA +GTCTATCTGCGCGATAAGGTGGGCAAGCTGGGCGTTGCGCCATTAACCAGTATGTTCCTG +TTTGGGCCAAACCAGCCGTCGCCGACGACCAACTATCGTCCGGAATTGCATGACTCGAAC +GGCTTATCCATTCATGCGGGTAATGGCGAGTGGATTTGGCGTCCGCTGAACAATCCAAAA +CACCTCGCTGTGAGCAGCTATGCGATGGAAAACCCTCAGGGATTCGGCCTGTTGCAGCGT +GGTCGCGAGTTCTCGCGCTTTGAAGATTTAGACGATCGCTATGACCTGCGTCCAAGCGCC +TGGATTACCCCGAAAGGCGACTGGGGCAAAGGTAAGGTTGAACTGGTTGAAATTCCGACC +AATGATGAAACCAACGATAACATCGTCGCTTACTGGACTCCGGATCAACTGCCGGAACCG +GGTAAAGAGATGAACTTCAAGTACACTCTGACCTTCAGCCGCGATGAAGATAAACTTCAT +GCGCCGGATAATGCCTGGGTGCTGCAAACACGCCGCTCAACGGGCGACGTTAAACAGTCG +AATCTGATTCGCCAGCCCGACGGCACTATTGCCTTTGTGGTGGATTTCGTTGGCGCCGAC +ATGAAAAAACTGCCGCCGGATACGCCCGTCGCTGCACAAACCAGCATTGGCGATAACGGT +GAAATCGTTGACAGTAATGTACGCTATAACCCAGTCACTAAAGGCTGGCGTTTAATGCTG +CGCGTGAAAGTCAAAGACGCGAAGAAAACCACGGAAATGCGTGCCGCATTGGTGAATGCC +GATCAGACGCTAAGTGAAACCTGGAGCTACCAGTTACCTGCCAATGAATAAATGAATAAA +ACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCATTGCCGAAA +ACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTACTCGCGAGAA +GACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCGGATTCATTG +GCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCTATGCCAAAA +GCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGCCGTTTCTGG +GATCGCCTGCGTGGGCGGGATGTAACGCCGCGCTATGTTTCTCGTCTGACAAAAGAAGAG +CAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATTTTGTTAATT +TTGACTCTGGCGCAAACCGTCGTCGCGACCTGGTATATGAAGACCATTCTGCCCTATCAG +GGATGGGCGCTCATCAATCCTATGGATATGGTGGGGCAGGATATTTGGGTCTCCTTTATG +CAGCTCCTGCCCTACATGCTGCAAACCGGTATCCTGATTTTGTTTGCCGTGCTGTTCTGC +TGGGTGTCTGCCGGATTCTGGACGGCGCTGATGGGCTTCCTGCAACTGCTTATCGGGCGC +GATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCGGAACACCAG +ACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCCGGTCTGCGC +GCGACCTGGGAGTCCGTTAAAGCCACAGGCAACGCCGCGCATTTTGACGTCTATATCCTT +AGCGATAGTTATAACCCGGATATCTGCGTGGCGGAGCAAAAGGCGTGGATGGAGCTCATC +GCGGAAGTGCAGGGCGAAGGCCAAATTTTTTACCGTCGCCGCCGCCGCCGTATGAAACGC +AAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGCTATATGGTG +GTGCTGGACGCGGACTCAGTGATGAGCGGCGAGTGTCTGAGCGGGCTGGTGCGCCTGATG +GAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGGATGGATACT +CTGTATGCCCGCTGCCAACAGTTCGCGACCCGTGTTTATGGACCGCTGTTTACCGCCGGG +CTGCACTTCTGGCAGTTGGGGGAGTCGCACTACTGGGGGCACAATGCCATTATCCGCGTG +AAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCGTTCGCCGGA +TCGATTCTTTCCCACGACTTTGTGGAGGCGGCGCTAATGCGTCGGGCAGGGTGGGGCGTC +TGGATTGCCTACGATCTCCCCGGCTCCTATGAAGAGCTGCCGCCAAACCTGCTGGATGAG +CTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTGTTCCTGGTG +AAAGGAATGCACCCGGTGCATCGCGCCGTGTTCCTGACCGGGGTAATGTCATACCTGTCC +GCGCCGTTATGGTTTATGTTCCTCGCGCTTTCTACCGCGCTGCAGGTCGTTCATGCGTTA +ACAGAGCCGCAATATTTCCTTCAGCCGCGCCAGCTTTTTCCGGTCTGGCCGCAGTGGCGT +CCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTGCCGAAGCTG +CTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTCTGGCGCGTT +ACGCTGTCGCTATTGCTGGAAGTGCTGTTCTCCGTGTTGCTGGCGCCGGTGCGTATGCTG +TTTCATACCGTGTTTGTGGTCAGCGCGTTCCTCGGCTGGGAAGTGGTCTGGAACTCACCG +CAACGCGACGATGATTCTACGCCGTGGGGAGAAGCCTTTATGCGTCACGGCTCTCAACTG +CTGCTGGGGCTGGTCTGGGCGGTGGGTATGGCGTGGCTGGATTTACGCTTTCTGTTCTGG +CTGGCGCCGATTGTCTTTTCGCTGATTCTGTCGCCATTTGTTTCGGTGATCTCCAGTCGT +TCAACGGTAGGATTACGCACCAAACGCTGGAAGCTGTTCCTGATCCCGGAAGAGTATTCG +CCGCCTCAGGTGTTGGTCGATACCGATAAATATCTGGAGATGAATCGCCGCCGTATTCTG +GACGATGGCTTTATGCATGCGGTATTTAACCCGTCGCTTAATGCGCTGGCGACCGCGATG +GCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGTCATGTGGAG +CAGGCGCTAAACGAAACGCCGGAGAAACTGAACCGCGATCGGCGTCTGGTTTTGCTCAGC +GATCCGGTGACGATGGCGCGTTTACACTATCGGGTCTGGAATGCGCCAGAGAGATACTCT +TCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAGGGACGAACA +TCGTCAGCGGGATAAatgtcgcgcgtctcgcaggcgaggaacctgggtaaatattttctt +ctcatcgataacatgttagtggtgctgggttttttcgtcgtcttcccgctcatctctatt +cgctttgtcgatcaaatggggtgggctgccgtaatggtagggatcgcgctcggcctgcgt +cagtttattcaacaaggtctgggcatttttggcggcgccatcgccgatcgctttggcgcg +aaaccgatgattgtcaccggtatgctgatgcgcgccgcaggctttgccaccatgggtatc +gcgcatgagccctggctcttgtggttttcctgctttctttccggtctcggcggtacgctt +ttcgacccgccgcgttcagcgctggtggtcaaattaattcgtccggagcaacggggccgc +ttcttctctctgttgatgatgcaggacagcgcgggcgcggtgattggcgcgctgctggga +agctggttgctacaatacgattttcgcctggtctgcgcgacgggcgctattttgttcata +ttatgcgcccttttcaacgcatggctgcttccggcctggaagctatcaacggccagaacg +ccggtgcgtgaaggaatgcgccgcgtcatgagcaataaaaggtttgtcacctacgtgctg +acgctggcgggctactatatgctggcggtacaggtcatgttaatgctgccgattatggta +aacgatatcgccggttcgcctgctgccgtgaaatggatgtacgctattgaggcgtgtctc +tcgctgacgttgctctacccgattgcccgctggagcgaaaagcgttttcggctggagcat +cggctgatggccggtttgctcgtcatgtcgctgagcatgctccccatcgggatggtgggc +aatttacagcagctttttacgcttatttgcgctttctacatcggctcggttatcgccgaa +ccggcgcgcgaaacgctcagcgcgtcgcccgcggacgcgagggcgcggggaagctatatg +ggctttagccgtctgggattagccattggcggcgcgattagttatatcggcggcggctgg +ttgtttgatatgggtaaagcgcttgcgcagcctgaactaccgtggatgatgctcggtatt +atcggctttatcacctttttggctttaggctggcaatttagtcataagcgcacgccgcgc +cggatgctggaacccggcgcctgaATGACCATGTATGCCACGCTGGAAGAAGCTATCGAT +GCAGCCCGGGAAGAATTTCTGGCTGACCATCCAGGCCTCGAACAAGACGAAGCGAATGTG +CAGCAGTTCAACGTTCAGAAATATGTACTGCAGGATGGGGACATCATGTGGCAGGTCGAA +TTTTTCGCCGATGAAGGTGAAGATGGCGAATGTCTGCCGATGCTGAGTGGTGAAGCCGCA +CAGAGCGTGTTTGACGGCGATTATGATGAGATAGAGATCCGCCAGGAATGGCAGGAAGAG +AATACTTTGCATGAATGGGATGAAGGGGAATTCCAGCTTGAACCCCCGCTTGATACCGAG +GAAGGCCGTACTGCGGCAGACGAATGGGATGAGCGTTAAATGTCACTATTAGCCAGGCTG +GAACAAAGTGTACACGAAAACGGTGGGCTGATTGTCTCATGCCAACCGGTACCAGGCAGC +CCTATGGATAAACCTGAAATTGTGGCTGCAATGGCACAGGCAGCGGCTTCGGCGGGTGCG +GTCGCTGTGCGCATTGAAGGCATTGAGAATCTGCGGACTGTTCGTCCCCATCTTTCTGTT +CCTATTATTGGGATAATTAAACGTGACCTTACAGGGTCGCCAGTCCGTATCACTCCATAT +TTACAGGATGTTGACGCCCTGGCGCAGGCAGGTGCCGATATTATCGCTTTTGATGCCTCA +TTCCGCTCTCGCCCGGTTGATATTGATAGTTTACTGACACGTATTCGCCTGCATGGATTA +CTGGCGATGGCAGACTGTTCAACCGTGAATGAAGGCATAAGTTGCCATCAGAAAGGAATC +GAATTCATTGGTACAACACTGTCTGGCTATACCGGTCCCATCACGCCGGTTGAGCCAGAT +TTGGCAATGGTGACACAACTGAGTCATGCAGGTTGTCGTGTTATTGCCGAGGGGCGCTAT +AACACGCCTGCACTGGCGGCCAATGCTATTGAGCATGGTGCCTGGGCAGTTACCGTTGGT +TCCGCTATCACCCGTATCGAGCATATCTGTCAGTGGTTCAGTCACGCAGTAAAACGCTGA +ATGAAAAATTTTAAGAAAATGATGACGCTAATGGCGCTATGTTTATCAGTTGCTATCACC +ACATCAGGATATGCAACCACGCTTCCTGATATACCAGAACCACTGAAAAATGGTACTGGC +GCTATTGATAATAATGGCGTGATTTATGTCGGCTTAGGTACCGCAGGGACATCCTGGTAT +AAAATTGATCTTAAAAAGCAACATAAAGACTGGGAGCGTATAAAGTCGTTTCCTGGTGGA +GCTCGTGAGCAATCCGTGTCGGTATTTTTAAATGATAAGCTGTATGTTTTTGGTGGCGTA +GGGAAAAAAAACAGTGAATCACCGTTGCAGGTTTATAGCGATGTGTACAAATACTCACCG +GTGAAAAATACATGGCAAAAAGTTGATACTATATCTCCAGTTGGATTAACAGGGCATACG +GGAGTAAAATTAAACGAAACGATGGTACTTATTACCGGAGGGGTTAATGAGCATATCTTT +GATAAGTATTTTATTGATATAGCGGCTGCGGATGAAAGTGAAAAAAATAAAGTCATCTAT +AATTATTTTAATAAACCTGCCAAAGATTATTTTTTTAATAAAATCGTATTTATCTACAAT +GCTAAAGAGAACACATGGAAGAATGCCGGTGAGCTGCCAGGCGCGGGGACGGCAGGATCG +TCATCGGTAATGGAAAATAATTTCTTGATGCTGATTAATGGTGAGCTCAAACCGGGTTTA +CGTACCGATGTGATTTACCGCGCCATGTGGGATAACGATAAGCTAACATGGTTGAAGAAC +AGCCAGTTACCGCCATCGCCTGGAGAACAACAGCAGGAAGGGTTGGCCGGAGCATTTTCG +GGCTATAGCCACGGTGTCCTGCTTGTCGGTGGTGGCGCGAATTTTCCGGGAGCAAAACAA +AATTATACTAATGGAAAGTTTTATTCCCACGAAGGGATAAATAAAAAATGGCGAGATGAA +GTCTATGGTTTGATTAATGGCCATTGGCAATATATGGGTAAAATGAAACAACCTCTCGGC +TATGGTGTATCAGTAAGTTATGGTGATGAAGTTTTCCTTATTGGTGGTGAAAATGCTAAA +GGGAAACCTGTTTCGTCTGTAACCTCCTTTACCATGCGTGATGGTAATTTATTAATAAAA +TAAGTGATAGCAAAATTCTTCCCGTGGTATAGCGAGATAACACGTCCACAAAAAAATGCT +TTATTTTCAGCATGGCTGGGTTACGTTTTTGATGGCTTCGACTTTATGCTGATTTTCTAC +ATTATGTATCTGATCAAGGCTGACTTAGGATTGACAGATATGGAGGGCGCATTCCTTGCC +ACAGCGGCCTTTATTGGGCGACCATTTGGCGGGGCGCTATTTGGTCTGCTGGCAGACAAA +TTTGGCCGTAAGCCGTTAATGATGTGGTCGATAGTTGCCTATTCTGTAGGTACAGGGTTA +AGTGGCCTGGCTTCCGGTGTAATTATGCTGACGCTTAGTCGTTTTATTGTCGGTATGGGG +ATGGCGGGGAAGTATGCTTGCGCTTCTACTTATGCCGTGGAAAGTTGGCCAAAGCATTTA +AAATCTAAAGCGAGCGCATTTCTGGTTTCAGGTTTCGGTATTGGTAACATCATAGCAGCC +TATTTTATGCCGTCATTTGCCGAAGCGTATGGTTGGCGTGCTGCTTTTTTTGTCGGTTTG +CTACCCGTTCTTTTAGTAATCTACATCCGGGCCAGGGCTCCTGAATCTAAAGAGTGGGAA +GAAGCCAAACTCAGTGGTCTCGGAAAGCATTCACAAAGTGCCTGGTCAGTTTTCTCTTTG +TCAATGAAAGGGCTATTTAATCGAGCTCAATTTCCACTGACATTATGTGTATTTATTGTT +CTGTTCTCTATTTTCGGCGCAAACTGGCCGATCTTTGGTCTACTGCCTACATATTTGGCG +GGAGAGGGCTTTGATACGGGCGTGGTCTCTAATTTAATGACGGCGGCGGCATTCGGCACT +GTATTGGGAAATATCGTTTGGGGTCTGTGCGCAGATAGAATTGGTTTGAAGAAAACGTTC +AGCATTGGTCTTCTCATGTCCTTTTTATTCATTTTCCCGTTATTCAGAATTCCGCAAGAT +AATTATTTACTGCTGGGCGCATGTTTATTCGGTTTAATGGCGACTAACGTAGGTGTTGGC +GGGCTGGTTCCCAAATTTCTCTACGACTACTTTCCTCTTGAGGTTCGTGGTTTGGGTACC +GGGCTTATTTATAATCTTGCTGCGACATCAGGCACATTCAATTCAATGGCGGCGACCTGG +CTTGGAATAACAATGGGGCTAGGCGCTGCGCTAACGTTCATTGTTGCTTTCTGGACCGCA +ACAATTCTACTCATTATTGGCCTATCCATTCCGGATAGACTAAAAGCACGTCGTGAAAGG +TTTCAGTCAACAAAAGAATTTTAAATGAAAAAGTATCTTGCTTTCGCCGTTACGCTGCTG +GGTATGGGTAAAGTCATCGCCTGTACTACCCTTTTGGTAGGCAATCAGGCTTCGGCTGAC +GGCTCCTTTATTATCGCGCGCAACGAGGATGGCTCGGCAAATAACGCCAAGCATAAGGTT +ATTCATCCCGTCGCGTTTCATCAACAAGGCGAGTATAAAGCACATCGCAACAATTTTAGC +TGGCCGCTTCCGGAGACAGCGATGCGCTATACGGCGATTCATGACTTTGATACTAACGAT +AACGCCATGGGTGAAGCCGGTTTCAATTCGGCGGGCGTCGGAATGAGCGCAACGGAAACC +ATTTACAACGGCAGAGCGGCGCTGGCTGCCGATCCTTACGTGACAAAAACGGGAATCACG +GAAGACGCCATTGAGTCCGTGATCCTGCCAGTGGCGCAATCGGCGCGTCAGGGCGCCAAA +TTACTGGGAGATATTATTGAACAAAAAGGCGCGGGCGAAGGTTTCGGCGTCGCGTTTATT +GATAGCAAAGAGATATGGTATCTGGAGACGGGAAGCGGACATCAATGGCTGGCAGTACGA +CTTCCGGCAGATAGCTATTTCGTTTCCGCCAATCAGGGACGTTTACGCCATTACGATCCG +AATGATAACGCGAATTATATGGCGTCACCAACGTTAGTAAGCTTTGCGAAAAAGCAGGGA +TTATATGATCCGGCCCGCGGCGAATTCGACTTTCATCAAGCCTATTCGCAGGATAACAAA +AACGATACCACCTATAATTATCCGCGCGTCTGGACGCTACAACACCAGTTTAATCCGCAT +CTGGATACGGTCGTTAGCGAAGGGGAAACATTTTCTGTTTTTTTAACGCCAATAACGAAG +ATCAGCGTGGCGGCAGTAAAAAACGCGTTACGCAATCACTATCAGGGAACGTCGCACGAC +CCTTATGCCAGTCATAATCCACAAGAACCATGGCGACCTATATCCGTTTTTCGTACCCAG +GAGTCACATATTTTACAGGTCAGACCGAAATTACCGCAGGCTATCGGCAACGTAGAATAC +ATCGCCTATGGAATGCCATCTCTTAGCGTCTATCTCCCCTATTACCAGGGGATGCGTCAT +TATCAACCCGGAGATGATAAAGGAACCGATCGGGCGAGCAACGACTCTACCTACTGGACA +TTCCGCACGCTGCAAACACTGGTTATGCAAGACTACAATACGTTTGCGCCAGATGTGCAA +CATGCCTGGAAAACATTTGAACAGCAAACAGCTAAGCAACAGTATAAGATGGAGCAGAGC +TATCTGAGATTATATGCGTCGCATCCGAAAGAAGCACAACGCTTACTGCAAAATTTTGAA +GATAAAACGATGCAAAATGCGCAGACGCTCGCCCGTCGCCTGACCAATAATATTATTACG +ACAATGACTTACCGCACAGATATGAAATATCACTTTTCAAGTACGCAGCCATAAATGGGA +AGACAAAAAGCAGTGATCAAAGCTCGTCGTGAAGCAAAGCGTGTGTTGAGACGAGATTCG +CGTAGTCATAAGCAACGTGAAGAAGAATCGGTCACGTCACTGGTACAGATGGGCGGAGTA +GAAGCCATTGGCATGGCGCGCGATAGTCGCGATACCTCTCCTGTTAAGGCGCGAAATGAA +GCACAGGCGCATTATCTGAACGCTATCGACAGTAAACAGCTTATTTTTGCGACCGGCGAA +GCCGGCTGCGGAAAAACATGGATCAGTGCGGCAAAGGCGGCAGAAGCATTGATTCATAAG +GACGTCGAGAGGATCATTGTGACGCGTCCGGTATTGCAGGCTGATGAAGATCTTGGTTTT +TTGCCCGGTGATATCGCTGAAAAATTCGCGCCTTATTTTCGTCCCGTCTACGATGTCCTG +CTTAAACGGTTGGGCGCGTCCTTTATGCAATATTGTTTGCGCCCGGAAATCGGTAAGGTA +GAAATTGCCCCGTTCGCCTATATGCGTGGGCGTACTTTTGAAAATGCGGTCGTGATCCTC +GACGAGGCGCAAAATGTGACTGCGGCGCAAATGAAAATGTTTTTGACGCGATTAGGCGAA +AATGTCACGGTCATTGTCAATGGCGATATTACGCAATGCGACCTGCCGCGCGGTGTGCGT +TCCGGGTTGAGTGATGCGTTGGAACGCTTTGAAGAAGATGAAATGGTGGGGATTGTGCAT +TTCAACAAAGACGACTGCGTGCGCTCGGCGCTTTGTCAGCGAACGCTCCACGCATACAGC +TAAATGGGAACCACCACGATGGGGGTTAAGCTGGACGACGCCACGCGCGAACGGATCAAA +ATGGCCGCGTCGCGTATCGATCGCACGCCGCACTGGTTAATAAAACAGGCAATCTTTAGC +TATCTGGACAAGCTGGAAAATAGCGATACGCTACCGGAGCTACCTGCGCTGTTTGCCGGC +GCGGCAAATGAAAGCGAGGAGCCGGTCGCGCCGCAGGATGAGCCGCATCAGCCCTTTCTG +GAGTTTGCCGAACAGATTCTTCCCCAATCCGTCTCTCGCGCCGCCATCACCGCCGCCTGG +CGCCGCCCGGAAACCGATGCGGTGTCAATGCTAATGGAACAGGCGCGCCTGTCGCCGCCT +GTCGCTGAGCAGGCGCATAAACTGGCGTATCAACTGGCGGAGAAATTGCGCAATCAAAAA +TCCGCCAGCGGTCGCGCGGGTATGGTGCAAGGCCTGTTGCAGGAGTTTTCCCTCTCTTCG +CAAGAAGGCGTAGCGCTGATGTGTCTGGCGGAAGCGCTGCTGCGTATTCCCGACAAAGCT +ACGCGCGATGCGTTAATTCGCGACAAAATCAGTAATGGCAACTGGCAGTCGCATATTGGC +CGTAGCCCGTCGCTGTTTGTAAACGCCGCCACCTGGGGGCTGCTCTTTACCGGCCGACTG +GTCTCAACGCATAACGAAGCCAATCTTTCGCGCTCGCTGAACCGCATTATCGGCAAGAGC +GGCGAACCGTTAATCCGCAAAGGCGTCGACATGGCGATGCGTTTAATGGGCGAGCAGTTC +GTGACTGGCGAAACCATTGCTCAGGCGCTGGCGAATGCCCGAAAACTGGAAGAGAAAGGG +TTCCGCTATTCTTACGATATGCTGGGCGAAGCCGCGTTAACCGCCGCCGATGCGCAGGCC +TATATGGTCTCTTACCAGCAAGCGATTCATGCCATCGGCAAAGCGTCTAACGGTCGCGGT +ATTTACGAAGGGCCAGGCATCTCGATTAAGCTGTCCGCCCTGCATCCACGCTATAGTCGC +GCGCAATACGATCGGGTAATGGAGGAGCTTTATCCGCGCCTGAAATCCCTGACGCTGCTG +GCGCGCCAGTATGATATCGGTCTCAATATCGACGCCGAAGAGGCGGATCGTCTGGAGATC +TCGCTTGATCTGCTGGAAAAACTCTGCTTCGAACCCGAACTGGCGGGCTGGAACGGCATT +GGCTTTGTGATTCAGGCTTACCAGAAACGCTGCCCGCTGGTCATTGATTATTTAGTCGAT +CTGGCCTCCCGTAGCCGCCGTCGGCTGATGATTCGTCTGGTGAAAGGCGCCTACTGGGAT +AGCGAGATCAAACGCGCGCAAATGGAAGGGCTGGAGGGCTATCCAGTTTATACCCGCAAA +GTGTATACCGATGTCTCTTATCTGGCCTGCGCGAAAAAACTGCTCGCCGTCCCTAATCTG +ATCTACCCGCAGTTCGCGACCCATAACGCTCACACACTGGCGGCGATTTATCATCTGGCC +GGGCAAAATTACTATCCGGGTCAGTACGAATTCCAGTGCCTGCACGGCATGGGAGAACCG +CTGTATGAACAGGTCACCGGTAAAGTGGGGGACGGAAAACTTAACCGTCCCTGCCGTATT +TACGCGCCGGTGGGAACACACGAAACCCTGCTGGCCTATCTGGTACGACGCCTGCTGGAA +AACGGCGCCAACACCTCTTTTGTCAACCGCATCGCCGATGCCACCCTACCGCTCGATGAA +CTGGTGGCCGACCCGGTCGAGGCCGTGGAAAAACTGGCGCAGCAGGAAGGTCAGGCTGGC +ATACCGCATCCAAAAATTCCGCTGCCGCGCGATCTGTACGGCGAAGGTCGGATAAACTCC +GCCGGACTTGATTTAGCGAATGAACATCGCCTCGCCTCGCTTTCTTCTGCCCTGTTAAGC +AACGCCATGCAGAAATGGCAGGCCAAACCTGTGCTGGAACAACCGGTGGCCGACGGTGAG +ATGACGCCGGTTATCAACCCGGCGGAACCGAAAGATATTGTTGGCTGGGGACGCGAAGCG +ACAGAAAGCGAGGTTGAACAGGCGTTGCAAAACGCGGTCAATCAGGCGCCGGTTTGGTTT +GCGACGCCGCCGCAAGAACGCGCCGCTATTTTGCAGCGGGCGGCGGTATTGATGGAAGAC +CAAATGCAGCAGTTGATTGGCCTGTTGGTGCGTGAAGCGGGGAAAACGTTCAGCAACGCC +ATTGCCGAAGTGCGCGAAGCGGTAGACTTCCTCCATTATTATGCCGGTCAAGTGCGTGAC +GATTTCGATAACGAAACGCATCGCCCGTTAGGGCCGGTGGTCTGTATCAGTCCGTGGAAC +TTTCCGCTGGCCATTTTCACTGGCCAAATCGCCGCCGCGCTGGCGGCAGGTAACAGCGTT +CTGGCGAAACCGGCAGAGCAGACATCGCTGATTGCCGCCCAGGGCATTGCCATTTTGCTG +GAAGCGGGCGTACCGCCGGGCGTCGTGCAACTGTTGCCGGGACGGGGAGAAACCGTCGGC +GCCCAGCTTACCGCCGATGCGCGTGTACGCGGCGTGATGTTTACCGGTTCCACGGAGGTC +GCGACGTTGTTGCAGCGCAACATCGCCACGCGTCTTGACGCCCAGGGGCGCCCTATTCCG +TTGATTGCGGAAACCGGCGGTATGAACGCTATGATTGTCGACTCTTCCGCGCTCACCGAG +CAGGTGGTCGTGGATGTGCTGGCTTCCGCCTTCGACAGCGCCGGACAACGCTGTTCCGCG +CTCCGCGTGCTGTGTTTGCAGGACGATATCGCCGAACATACGCTGAAAATGTTACGCGGC +GCGATGGCGGAGTGTCGGATGGGGAATCCAGGCCGTCTGACGACCGATATCGGGCCGGTG +ATCGATAGCGAGGCCAAAGCCAACATTGAACGTCATATCCAGACGATGCGCGCCAAAGGC +CGCCCGGTTTTCCAGGCCGCGCGTGAAAACAGCGATGACGCGCAGGAATGGCAGACCGGT +ACGTTTGTTATGCCCACGCTTATTGAGCTGGAAAACTTCGCAGAACTGGAAAAAGAGGTC +TTCGGGCCCGTGCTGCACGTCGTGCGTTATAACCGTAACCAACTGGCGGAGCTTATCGAA +CAGATTAACGCTTCCGGCTACGGGCTAACGCTGGGCGTACATACCCGTATTGATGAAACC +ATTGCGCAAGTCACCGGTTCCGCCCATGTCGGCAACCTGTACGTTAACCGTAATATGGTG +GGCGCGGTCGTCGGCGTCCAGCCGTTTGGCGGCGAAGGCCTGTCCGGCACCGGGCCAAAA +GCGGGAGGGCCGCTCTATCTCTACCGCCTGCTGGCACACCGCCCGCCCAATGCGCTCAAT +ACGACGCTGACTCGTCAGGATGCGCGTTACCCGGTGGATGCGCAGCTTAAAACCACGCTA +CTCGCGCCGTTGACCGCTCTGACGCAATGGGCGGCGGATCGCCCGGCGCTACAGACGCTC +TGCCGACAATTCGCCGATCTGGCGCAGGCCGGCACGCAGCGCCTGCTACCGGGGCCGACC +GGCGAGCGTAATACCTGGACGCTGTTGCCGCGTGAACGGGTGTTATGCCTGGCTGATGAT +GAACAGGACGCGTTGACGCAGCTTGCCGCCGTTCTCGCCGTCGGCAGTCAGGCGCTATGG +TCAGACGACGCCTTCCACCGCGATCTGGCGAAACGTCTCCCCGCCGCCGTCGCGGCGCGT +GTCCAGTTTGCGAAAGCGGAAACGCTGATGGCGCAGCCGTTTGACGCGGTGATTTTCCAC +GGCGACTCCGACAAGCTGCGAACCGTGTGCGAAGCCGTCGCCGCCCGCGAAGGCGCGATA +GTGTCGGTACAGGGGTTCGCCCGCGGCGAAAGCAATATGCTGCTGGAACGGCTCTATATT +GAACGTTCGCTGAGCGTAAACACTGCCGCCGCTGGCGGTAATGCCAGCCTGATGACAATT +GGCTAAATGGCTATTAGCACACCGATGTTGGTGACATTCTGTGTCTATATTTTTGGCATG +ATATTGATTGGGTTTATCGCCTGGCGCTCAACCAAAAACTTTGATGACTATATTCTTGGC +GGTCGCAGCCTGGGGCCGTTTGTTACGGCTTTATCAGCCGGCGCGTCGGATATGAGCGGC +TGGCTGTTAATGGGGCTGCCTGGCGCTATCTTTCTGTCGGGGATCTCTGAAAGCTGGATC +GCCATTGGCCTGACGTTAGGCGCATGGATTAACTGGAAGCTGGTGGCCGGGCGCCTGCGC +GTGCATACCGAATTTAACAATAACGCGCTCACGCTGCCGGACTATTTTACCGGTCGGTTT +GAGGATAAGAGCCGAGTCCTGCGTATTATTTCCGCGCTGGTCATTCTGCTGTTTTTCACT +ATCTATTGCGCATCAGGTATTGTCGCTGGGGCACGACTGTTCGAAAGCACCTTCGGTATG +AGCTATGAAACCGCACTGTGGGCGGGGGCCGCGGCAACCATTATTTATACCTTTATCGGC +GGGTTTCTTGCCGTTAGCTGGACGGATACCGTTCAGGCCAGCCTGATGATTTTTGCGTTA +ATCCTGACGCCGGTGATGGTTATTGTCGGCGTAGGCGGTTTTAGCGAGTCGCTGGAAGTG +ATCAAGCAAAAGAGCATCGAGAATGTCGACATGCTCAAGGGGCTGAATTTTGTCGCTATT +ATTTCTCTGATGGGCTGGGGGCTGGGTTACTTCGGTCAGCCGCATATCCTGGCGCGCTTT +ATGGCGGCGGATTCCCATCACAGTATTGTTCATGCGCGTCGTATCAGTATGACCTGGATG +ATTCTGTGTCTGGCGGGCGCGGTGGCGGTGGGCTTCTTTGGCATTGCGTACTTTAACAAT +AACCCCGCGCTGGCCGGGGCGGTGAACCAAAACTCAGAACGCGTATTTATTGAACTGGCG +CAGATCCTGTTTAACCCGTGGATTGCCGGTGTTCTGCTGTCTGCTATCCTGGCGGCGGTG +ATGTCGACGTTGAGCTGTCAGTTGCTGGTATGCTCCAGCGCGATTACGGAAGATTTATAT +AAGGCTTTTCTGCGTAAAAGCGCCAGCCAGCAAGAGCTGGTATGGGTAGGGCGAGTGATG +GTGCTGGTGGTAGCGCTGATCGCCATTGCGCTGGCGGCGAATCCTGATAACCGTGTGCTG +GGGCTGGTGAGCTACGCCTGGGCTGGATTCGGCGCGGCATTTGGACCTGTTGTCCTGTTT +TCTGTGATGTGGTCGCGTATGACACGTAACGGCGCGCTGGCGGGAATGATTATTGGCGCG +GTGACGGTTATCGTCTGGAAACAATATGGCTGGCTGGATCTGTATGAGATTATCCCTGGC +TTCATTTTCGGCAGCCTGGGGATCGTAATCTTTAGCCTGCTTGGCAAAGCGCCGACAGCA +ACGATGCAGGAACGCTTTGCAAAAGCGGACGCGCATTATCATTCCGCGCCGCCGTCGAAG +CTACAGGCGGAATAAATGGCGGGTAAACTGCGGCGTTGGCTGCGTGAAGCCGCGGTTTTT +CTGGCGCTCCTCATCGCGATAATGGTGGTCATGGACGTCTGGCGCGCGCCGCAGGCGCCT +CCGGCGTTTGCCGCGACACCATTACATACGCTGACGGGAGAGTCGACAACTCTGGCGACC +TTGAGCGAGGAACGCCCCGTACTGCTCTATTTTTGGGCCAGCTGGTGCGGGGTATGCCGC +TTTACCACGCCTGCGGTCGCTCACCTGGCGGCGGAAGGGGAAAACGTCATGACCGTTGCG +CTCCGCTCCGGCGGTGATGCTGAGGTTGCCCGCTGGCTGGCGCGCAAGGGCGTTGACTTC +CCGGTCGTCAATGATGCTAACGGCGCCTTATCCGCTGGCTGGGAAATCAGCGTGACGCCA +ACGCTGGTGGTGGTTTCACAAGGTCGGGTTGTGTTCACCACCAGCGGCTGGACCAGCTAT +TGGGGCATGAAGCTTCGGCTGTGGTGGGCAAAAACGTTCTGAATGATGAAAAAAAGCGTC +GCTATGCTGGCGGTTTGTATGCTGGCGCAAAGCCACCTTGCCATTGCTGCCGGTGCTCCT +GCGCCTCAAGAGATCAACATTGTTTTACTGGGCACCAAAGGCGGGCCTTCTTTGCTCAAT +ACAGCCAGACTACCGCAAGCGACGGCGCTCACTATCGGCGATAAGATATGGCTGATAGAT +GCCGGCTACGGCGCCAGTCTGCAACTGGTGAAAAATGGCATTCCACTGCGCAACATCAAT +ACTATTTTGCTCACCCATCTGCACAGCGACCACATACTGGATTATCCTTCCTTGCTGATG +AATGCCTGGGCAAGTGGCCTGAAAGACCATACCATACAGGTTTATGGCCCGCCGGGAACC +CAGGCGATGACGAAGGCTAGCTGGAAGGTCTTTGACAGGGATATCACGTTACGCATGGAA +GAAGAGGGGAAACCCGATCCGCGCAACCTGGTTAAGGCGACCGATATCGGCCAGGGCGTC +ATCTATAAAGATGAACTGGTCACAATAAGCGCGCTGAAAGTGCCTCATTCCCCTTTCCCG +GACGGTGAAGCGTTTGCTTACCGTTTTGATACTCAGGGTAAGCGAATCGTCTTCTCTGGC +GATACGTCCTGGTTTCCTCCGCTTGCAACGTTTGCCCAGGGGGCGGATATCCTGGTACAT +GAGGCGGTACATGTCCCTTCGGTAGCAAAACTGGCTAATAGTATTGGCAACGGAAAAACG +CTGGCTGAAGCGATTGCGTCGCATCACACCACGATTGAAGATGTCGGTAAGATTGCTCGC +GAGGCCCACGTGAAAAAACTGGTGTTAAGTCATCTGGTGCCTGCGACGGTTGCGGATGAC +GTCTGGCAACAGGAAGCCATGAAAAATTACCCGGGCCCTGTCATTGTCGGTCATGACAAT +ATGACGATAAGCGTACCGTAAATGTCGCAACGCACAGAGAAAAAAATCGGGAAACGTTCG +CAGGCCACCGGTGCAAAACGGCAGCTTATCTTAACCGCCGCGCTTGCCGTTTTTTCCCAG +TATGGCATTCATGGCGCGCGTCTTGAACAGGTCGCCGAGCGGGCAGGCGTCTCCAAAACC +AATCTGCTTTATTATTATCCCTCGAAAGAGGCGCTGTATGTCGCGGTAATGCGACAGATT +CTGGATGTCTGGTTGGCGCCGCTCAAGGCGTTTCGCGCAGAATTTTCCCCTCTGGAGGCC +ATCAAAGAGTATATCCGTCTCAAGCTGGAGGTTTCGCGTGATTATCCGCAGGCGTCGCGG +CTCTTCTGCATGGAGATGCTGGCGGGCGCGCCGCTCTTAATGGATGAACTGACCGGCGAT +CTAAAAGCGTTGATAGATGAAAAATCCGCGCTGATTGCCGGATGGGTGCACAGCGGGAAA +CTCGCGCCCGTTTCTCCGCATCATTTGATCTTCATGATTTGGGCCGCCACGCAACATTAC +GCCGATTTCGCCCCTCAGGTTGAAGCGGTAACCGGCGCGACGCTTCGCGATGAAGCCTTT +TTCAACCAAACGGTCGAAAGCGTTCAGCGCATTATTATTGAAGGGATTCGCGTGCGTTAA +ATGGCGAAACAACAACGGATGGGCTGGTGGTTTCTTTGCCTTGCATGTGTCGTGGTAATG +GTTTGTACCGCGCAACGCATGGCGGGCCTGCACGCCTTGCAGATGCAGGCGACGGCCTCT +GCTGCGGTGGTCAGCGCTCCCTCCTCGACAGATGACGGCTCGCCGGTCACTCCCTGCGAA +TTAAGCGCCAAGTCGCTGCTGGCGGCGCCTCCAGTACTCTTTGAAGGTGCTATCCTTGCG +CTTTATCTACTGCTTTCCTTACTGGCGCCTGTCCGGGTCATGCGCCTGCCGTTTTCGCCT +CCACGGGCTATTTCGCCGCCCACATTACGGGTACATCTACGATTTTGTGTCTTCCGTGAA +TGAATGATGATTTTATTCAGGCGGATACTGTTCTGCCTGTTATGGCTTTGGCTGCCCGTC +TCCTGGGCGGCGGAAAGCGGCTGGCTGCGTTCGCCCGATAACGACCATGCCAGCATACGG +CTACGTGCCGATACGTCCGCTAACAGTGAGACCCGGCTGTTGCTGGATGTCAAACTGGAA +AACGGCTGGAAAACCTACTGGCGCGCGCCGGGGGAAGGGGGCGTGGCACCCTCTATCGCC +TGGAAAGGCGACATGCCTGAGGTAAGCTGGTTCTGGCCAACCCCCTCGCGCTTTGATGTG +GCGAATATCACCACCCAGGGATATCACGACGAGGTGACCTTTCCGATGATCGTGCGCGGT +ACGCCGCCGGCGACCTTGCGCGGTGTGTTGACGTTATCAACCTGCAGCAATGTTTGTCTG +TTGACCGATTACCCCTTTTCCGTGACGCCCACTGTGCAGAATGCCGATTTTGCCCATGAC +TATGCGCGGGCGATGGGTAAAGTTCCGCTCCGCAGTGGGCTAACGGACTCGCTTGACGTT +GGCTATCGCCCGGGAGAACTGGTGGTCACTGCTACGCGAGCGGCGGGCTGGTCATCGCCC +GGGCTCTATCTTGACACCATAGATGACGTCGATTTTGCGAAGCCTCGCCTGCGCGTAGAG +GGCGACAGGTTACAGGCGACGGTGCCGGTGACGGACAGTTGGGGCGAAAAGGCGCCCGAT +TTGCGCGACAAATCGCTGACCCTCGTGTTAGCCGATGGCGCTATCGCCCAGGAGAGCACG +CAAACCATTGGCGCTGCGCCAGCGCAAACGCCGGACAATGCGGCGCTACCTTTCTGGCAA +GTTGTAATGATGGCGCTAATCGGCGGACTGATTCTTAATTTAATGCCCTGCGTACTGCCT +GTTCTGGGCATGAAACTTGGCTCTATTTTATTGGTAGAGGAAAAAAGCCGCTCTCACATC +AGGCGACAATTTTTGGCTTCGGTCGCCGGTATCATTGCGTCATTTATGGCGCTGGCGGCG +TTTATGACCCTCCTTCGCCTGTCAAACCATGCGCTGGCCTGGGGAGTCCAGTTCCAGAAT +GCATGGTTTATTGGTTTTATGGCGCTGGTGATGTTGTTGTTTAGCGCCAGCCTGTTCGGG +CTTTTTGAGTTCAGGCTTCCCTCATCTATGACCACGAAACTGGCCACTTACGGCGGTAAC +GGTATGTCGGGACATTTCTGGCAGGGGGCGTTCGCCACGCTGCTGGCGACGCCTTGTAGC +GCGCCGTTTCTGGGCACGGCGGTCGCGGTGGCGCTCACGGCGTCGCTGCCGACGCTGTGG +GGGCTGTTCCTTGCGCTTGGCCTGGGAATGAGCGCGCCGTGGCTACTGGTCGCGATACGA +CCAGGGCTTGCGCTACGTTTACCGCGCCCCGGGCGTTGGATGAATGTCCTGCGCAGGATC +CTCGGTCTGATGATGCTGGGGTCGGCTATCTGGCTGGCGACGTTACTCCTGCCGCATTTC +GGCTTCACTGCGTCAAAGAGCGCGCAAGACACGGTTCAGTGGCAACCGTTGAGTGAACAG +GCAATCCAGTCGGCGCTGGCGCAGCATAAGCGGGTATTTGTCGATGTCACTGCGGACTGG +TGTATTACCTGTAAAGTGAATAAATACAACGTCCTGCAAAAAGAGGATGTGCAGGCCGCC +TTGCAACAGCCGGATGTTGTGGCGCTGCGGGGAGACTGGACGCTGCCGTCCGATGCCATT +ACAGATTTTCTGAAAACGCGCGGCCAGGTCGCCGTGCCGTTTAATCAGGTATATGGCCCC +GGTTTGCCGGAAGGGGAGGCACTGCCCACTTTGCTGACCCGCGATGCGGTATTACAAACG +TTGAAAAAAGCGAAAGGAATAACCCAATGAATGAAATACATGATTGTTTTACTGCTGGCG +CTGTTTTCGACGCTGAGCATCGCGCAAGAAACCGCTCCTTTTACGCCGGATCAGGAAAAG +CAGATTAAAAATCTGATCCATGCGGCGTTGTTTAACGATCCTGCCAGCCCGCGGATAGGC +GCTAAACACCCTAAGCTGACGCTGGTGAACTTTACGGATTACAACTGCCCGTACTGCAAA +CAGCTCGATCCGATGCTGGAAAAGATTGTGCAGAAATATCCTGACGTTGCGGTCATTATT +AAACCGCTGCCATTCAAAGGAGAGAGTTCCATACTGGCGGCGCGTATTGCGCTGACCACC +TGGCGCGATCATCCGCAACAGTTCCTCGCGCTACATGAAAAACTTATGCAAAAGCGCGGT +TACCATACGGATGACAGTATTAAACAGGCCCAGCAGAAAGCAGGGGCGACGCCAGTGACG +CTGGATGAAAAAAGCATGGAAACGATACGCACTAATTTGCAGTTGGCAAGACTGGTCGAC +GTGCAAGGAACGCCAGCGACGATCATTGGCGACGAGCTGATTCCGGGCGCAGTGCCCTGG +GATACGCTGGAAGCGGTGGTGAAAGAAAAACTGGCGGCTGCCAATGGCGGGTAAATGATT +ACACATTCTTTCGGCATCGTTAATTATTTTGTATTATTTGGCTACCTCCTGGCCATGATG +TTAGTCGGTGTCTATTTTTCCAGACGGCAAAAAACAGCAGACGATTATTTTCGCGGTGGT +GGCCGGGTTCCTGGTTGGGCGGCTGGGGTCAGTGTATTTGCTACTACGTTAAGCTCAATT +ACATTTATGTCAATTCCTGCCAAAGCGTTTACTTCCGACTGGACGTTTATCATTGGTCAG +TATCTGGCTATCGCAATTTTACCGCTGGTTTTTTATTTCTATATTCCGTTTTTTCGGAAA +TTGAAAGTCACATCAGCCTATGAATATCTCGAAGCACGGTTCGATGTGCGCTGCCGTCTG +TTCGCCAGCATGTCATTTATGTTGTTTCATATTGGACGTATCGCCATTATCACTTTCCTC +ACCGTGCTGGCCTTGCGCCCCTTCATCGCTATAGACCCGGTGATTTTGGTACTGTTGATT +AGTGTGATGTGTATCATTTATACCTGGATGGGGGGGAATTGAATGGAAAGTCTATTAAAT +CGTTTATATGACGCGTTAGGCCTGGATGCGCCAGAAGATGAGCCACTGCTTATCATTGAT +GATGGGATACAGGTTTATTTTAATGAATCCGATCATACACTGGAAATGTGCTGTCCCTTT +ATGCCACTGCCTGACGACACTCTGACTTTGCAGCATTTTTTACGTCTTAACTACGCCAGC +GCCGTCACTATCGGCGCTGATGCAGACAATACTGCTTTAGTGGCGCTTTATCGCTTGCCG +CAAACCAGTACCGAAGAAGAGGCGCTCACTGGTTTTGAATTATTCATTTCAAACGTGAAG +CAATTGAAAGAGCATTATGCATAAATGAAATACGACCTTATTATTATCGGCAGCGGTTCG +GTTGGCGCCGCCGCTGGTTATTACGCCACCCGCGCCGGGCTAAAGGTCCTGATGACCGAT +GCGCATATGCCGCCTTATCAACAGGGCAGCCACCACGGCGATACCCGTCTTATCCGCCAC +GCTTATGGTGAAGGCGAAAAATATGTCCCGCTGGTGCTTCGCGCCCAGACGCTTTGGGAT +GAGCTCTCCACACACAATGAAGAGCCTATTTTTGTCCGCTCCGGCGTCGTCAACCTCGGC +CCGGCCGATTCCGCTTTCTTAGCCAACGTCGCACGAAGCGCGCAACAGTGGCAATTGAAC +GTCGAGCGCCTGGACGCGACGGCCCTCATGACGCGCTGGCCGGAAATTCGCGTGCCCGAT +AATTATATCGGGCTGTTTGAAGCTGACTCCGGTTTCCTGCGCAGCGAATTAGCCATTACC +ACATGGCTTCGTCTGGCCCGAGAGGCAGGCTGCGCACAGCTATTCAACAGCCCGGTAAGC +CATATTCACCATGATGATAACGGTGTGACGATAGAGACGAGTGAAGGCTGCTACCACGCC +AGCAAAGCGCTGATTAGCGCGGGCACCTGGGTCAAAACGCTGGTACCGGAGCTGCCCGTT +CAGCCCGTACGTAAAGTTTTTGCCTGGTTTAAGGCGGATGGACGTTACAGCACTAAAAAC +CGCTTTCCGGCCTTTACCGGCGAAATGCCCAACGGCGATCACTATTACGGTTTCCCGGCG +GAGAACGACGAGTTAAAAATCGGCAAACACAATGGCGGGCAGCGAATACAGGCACCGGAA +GAGCGCAAGCCCTTTGCCGCCGTTGCCAGCGATGGCGCGGAAGCATTTCCTTTCCTGCGT +AACGTACTGCCGGGTATCGGCGGTTGTTTACATGGGGCGGCATGTACCTATGATAATTCG +CCGGACGAGGATTTTATTATCGATACGCTGCCTGGCCATGAGAATACGCTTGTCATCACT +GGACTCAGCGGACATGGTTTTAAATTCGCCCCGGTGTTAGGAGAAATCGCTGCGGATTTT +GCGTTGGGAAAAACGCCCTCCTTTGATCTGACGCCGTTCCGGCTTTCCCGTTTTAGCCAA +TAAATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAA +AGCCTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCG +GCTAAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGG +GGGAATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTA +CAGCGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACG +TCAATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAA +GAAGAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACT +CAGCAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGA +GATGCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACG +CATAACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCA +AAAGATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAAT +ATTCATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGAT +AAAACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCG +CTTCTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTT +AGTAAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTA +TCCGTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGAT +CAAATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGC +AATAAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTG +GGTGTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAAT +GCCGAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGC +TGGGTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCG +CGCCAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTAT +AAACTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAAT +TGTAAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATT +TCTTTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAG +AAAATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACG +GGCGGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTAT +CAAAAACGAGTTGGGGATGAAAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATC +ACATCTTGAATGAAACGATATATACTGGCTACCGCGATAGCGTCTCTTGTTGCAGCCCCG +GCAATGGCGCTGGCCGCTGGCAGCAATATTCTCAGCGTACATATTCTCGATCAGCAAACA +GGCAAACCAGCGCCCGGCGTGGAGGTGGTACTGGAGCAGAAAAAGGATAACGGATGGACG +CAATTAAACACCGGGCATACCGACCAGGATGGACGAATTAAAGCACTGTGGCCCGAAAAA +GCTGCCGCGCCGGGGGATTATCGCGTTATTTTTAAAACCGGCCAGTATTTTGAAAGTAAA +AAACTGGACACGTTTTTCCCGGAGATTCCCGTCGAGTTTCATATCAGCAAAACGAATGAG +CACTATCATGTGCCGCTGTTATTAAGTCAGTATGGTTATTCAACCTATCGCGGGAGCTAA +ATGGCAAAGATTCTGGTGCTCTATTATTCCATGTACGGACACATTGAAACCATGGCGCAC +GCGGTGGCGGAAGGGGCAAAGAAAGTCGACGGCGCAGAGGTCATTATAAAGCGTGTGCCA +GAAACAATGCCGCCTGAAATCTTCGCAAAAGCTGGCGGTAAAACGCAAAACGCACCGGTT +GCCACCCCACAGGAGCTGGCGGATTACGATGCCATTATTTTTGGTACGCCAACCCGGTTT +GGCAATATGTCAGGCCAGATGCGTACCTTCCTGGACCAAACCGGCGGACTGTGGGCATCC +GGCGCGCTATACGGCAAGCTCGGCGGCGTGTTCAGTTCTACCGGAACGGGCGGCGGCCAG +GAGCAGACCATCACCTCGACCTGGACTACGCTTGCCCATCATGGGATGGTGATTGTCCCG +ATAGGCTATTCCGCACAGGAACTGTTTGACGTCTCCCAGGTTCGCGGCGGTACGCCTTAC +GGCGCAACGACTATCGCTGGAGGCGACGGTTCACGTCAACCAAGCCAGGAGGAACTCTCT +ATCGCTCGCTATCAGGGGGAATACGTCGCCGGTCTGGCAGTCAAACTCAACGGCTAAATG +GAGCCTCAACCCCCACGTCTTAAACCCGGAAAAATCCTTGACACTCTGGGTGCTATGCAA +AAAAGCCTGACACGTGCCTCCCAGCGTATTGCGCAATATATTTTAGCCTTCCCCAGACAG +GTGACACAGTCATCTATTGCCGATTTGTCGCGCGACACACAGGCCGGAGAAGCCACGGTT +ATTCGCTTTTGTCGCACCCTGGGCTATAAAGGTTTTCAGGATTTTAAAATGGACCTGGCC +ATTGAACTTGCCACTACCGAGTCTGATGACAGTAGTCCTCTACTGGATGCCGAAGTTAGC +GAATCCGACGATGCCCACGCCATTGGTTTAAAATTGCAGAACACCATTAGTAATGTATTA +TCTGAAACGCTAAATCTGCTTGATATGCAACAGGTTCTCGGTGTCGTGGACGCCCTACGT +CACTGTCACTCAGTTTATATCTTTGGTGTGGGCTCATCGGGGATCACGGCGCTGGATATG +AAACACAAGCTAATGCGTATTGGTTTACGGGGCGATGCGGTAAGCAATAACCATTTTATG +TACATGCAGGCTACGCTATTAAAAGCAGGCGATGTCGCGATGGGTGTCAGTCACTCGGGC +ACATCGCCAGAAACAGTGCATTCACTCCGATTGGCCCGACAGGCTGGCGCCACCACAGTC +GCCATTACCCATAATCTGGGTTCTCCATTATGTGAAGAGGCCGATTTTTGCCTGATCAAT +GGTAATCGGCAAGGAATGTTGCAGGGTGACTCGATCGGTACGAAAGCCGCGCAGCTTTTC +GTCTTTGACCTGCTCTATACCCTTCTTGTACAGTCCTCGCCGGAACAGGCCCGAGAAAGC +AAATTACGGACAATGAATGCCCTGGACATGACAAAATAAATGAAGAAACTGCCCGGCTTT +ACGCAAGATTACTTACTCAGCAAGGCGACGACCCTGCCTGATAAAACACGCCTGGAGCGT +GCCGTTGAACCGCTATGCGCGCGCCATCCCGGAGAGTGCGGCATTCTTGCGCTGGATAAC +AGTCTGGACGCTTTTGCCGCCCGCTACCGCCTGACCGAAATGGCGGCGCGGACGCTGGAT +GTGCAGTATTATATTTGGGAAGACGATATGTCCGGGCGGCTGCTCTTTTCGGTTCTGCTG +TCGGCGGCGAAGCGCGGCGTTCATGTTCGTCTGCTGCTGGATGATAACAATACGCCTGGT +CTGGATGATACGTTGCGCTTGCTGGATAGCCATCCTAATATCGAAGTTCGTCTGTTTAAT +CCTTTCTCTTTTCGTACGCTACGCGCGCTGGGATATTTGACGGATTTTGCGCGGCTGAAT +CGGCGGATGCACAATAAAAGTTACACTGCCGACGGCGTAGTGACGCTGGTCGGTGGGCGC +AACATCGGCGATGCCTATTTCGGCGCTGGCGAGGAGCCGCTATTTTCCGATCTGGACGTG +ATGGCCATTGGCCCGGTGGTCAATGATGTCGCCAATGATTTTGAACGTTACTGGCGCTGT +AGTTCAGTGTCGACATTGCAGCAAGTATTATCCCTTTCTGAGCAGGAACTGACGCAGCGT +ATCGAACTTCCCGAATCCTGGTATAACGATGAGATCACCCGCCGTTATCTGCATAAGCTG +GAAACCAGCCAGTTTATGGCGGATCTCGATCGCGGAACGTTGCCGCTGATTTGGGCAAAA +ACACGCTTGCTTAGCGATGACCCTTCTAAAGGCGAGGGGAAGGCGCAGCGCCATTCGCTT +CTTCCGCAGCGATTATTTGACGTGATGGGGTCGCCGACGGAGCGTATCGACATTATTTCC +GCTTACTTTGTCCCTACGCGCGCAGGCGTGGCGCAGTTGCTTAATCTGGTCAGGAAAGGT +GTGAAGATCGCCATCTTAACTAACTCTCTGGCGGCCAACGATGTGGCGGTCGTTCACGCA +GGGTACGCGCGCTGGCGCAAGAAATTACTGCGCTATGGCGTGGAGCTCTACGAACTGAAA +CCGACCCGCGAACATGAAACCGCCGTACATGATCGCGGACTCACCGGGAACTCAGGTTCC +AGCTTACATGCTAAAACGTTCAGTATTGATGGTAGTAAGGTGTTTATCGGGTCGCTTAAT +TTTGATCCCCGTTCAACGCTTTTAAATACCGAAATGGGCTTTGTCATTGAAAGTGAAACG +CTGGCGACGCTTATTCATAAGCGTTTTACGCAGAGCCAACGCGATGCGGCCTGGCAACTG +CGGCTGGATCGCTGGGGACGAATTAACTGGATCGATCGTCAGCAAGAAGAGGAAAAGGTG +TTAAAGAAAGAACCCGCTACGCGTTTCTGGCAGCGAGTTCTGGTACGGTTGGCGGCAATT +TTACCTGTGGAATGGTTGCTGTGAATGCCAACTCAAGAAGCAAAAGCGCACCGCGTCGGC +GAATGGGCAAGCCTGCGTAATACGTCGCCGGAAATTGCCGAAGCCATTTTTGAAGTCGCT +CACTATGACGAGAAACTGGCAGAAAAAATATGGGAAGAAGGTAGCGATGAGGTGCTGATC +AAAGCCTTTGAGAAAACGGACAAAGACTCGCTCTTCTGGGGCGAACAAGTCATCGAACGT +AAGAACGTATAAATGTATCCCGTTGACCTGCATATGCATACCGTCGCCAGCACTCATGCC +TACAGTACTCTGAGCGATTATATCGCGGAAGCCAAACGCAAAGGCATTAAACTTTTTGCG +ATTACCGATCATGGTCCGGACATGGAAGATGCGCCGCATCACTGGCATTTTATTAACATG +CGCATCTGGCCGCGTCTGGTTGACGGCGTGGGGATACTGCGTGGCATTGAGGCGAATATC +AAGAATATTAACGGTGAAATTGATTGTTCCGGAAAGATGTTCGACTCGCTGGATCTGATT +ATCGCAGGCTTTCATGAGCCCGTTTTTGCGCCGCATGATAAAGAAACCAATACTCAGGCG +ATGATCGCGACCATCGCCAGCGGCAAGGTGCATATAATTAGTCACCCCGGAAATCCAAAG +TATCCAGTGGAGGTTAAAGCCATCGCGCAGGCGGCGGCGAAACACCATGTAGCGCTGGAA +ATCAACAACTCTTCTTTTCTGCATTCGCGTAAAGGAAGCGAAGATAATTGCCGCGCGGTC +GCTGCCGCCGTACGCGATGCGGGAGGCTGGGTAGCGTTAGGCTCTGATTCCCATACGGCC +TTTACGCTTGGCGATTTCACCGAATGCCGGAAAATTCTGGATGCGGTGAATTTTCCGGAA +GATCGAATCCTGAACGTCTCTCCGCAGCGCTTACTGGCCTTTCTCGAATCACGCGGTATG +GCGCCTGTACCGGAATTTGCCGAACTTTAAATGAATGAGTTTTCAATCCTGTGCCGTGTG +CTGGGATCGTTGTTTTACCGCCAACCGCAAGATCCTTTACTGGTTCCGCTGTTTACGTTA +ATCCGTGAAGGTAAACTGGCGGCAAACTGGCCGCTGGAGCAGGATGACATGCTGGCGCGT +TTACAGAAAAGCTGCGATATCACGCAGATTTCCACTGATTACAATGCGTTATTTGTTGGG +GAAGAGTGCGCGGTAGCGCCATACCGCAGTGCGTGGGTCGAAGGCGCGGAAGAGTCTGAG +GTGCGCGCTTTTTTAACGTCGCGAGGGATGCCGCTGGCCGATACGCCTGCCGATCACATT +GGCACTTTATTGCTCGCGGCCTCCTGGCTGGAAGATCAGTCTGCCGAAGATGAAAGTGAA +GCGCTGGAAACCTTATTTGCCGATTATCTGCTTCCCTGGTGCAATACCTTCCTCGGTAAA +GTTGAAGCCCATGCCGTTACGCCATTCTGGCGCACTCTGGCGCCGCTAACGCGTGATGCG +ATAGGGGCCATGTGGGATGAACTTCAGGAAGAAGATGAAGAATAAATGATGCGCGCCATG +AACATACTTCTTTCTATTGCTATCACTACGGGCATCCTTTCTGGAATATGGGGATGGGTG +GCCGTCTCCCTGGGGTTACTAAGCTGGGCCGGTTTTTTAGGCTGTACGGCTTATTTCGCC +TGTCCGCAGGGCGGCTTTAAGGGATTGTTGATTTCCGCCTGTACGCTGTTAAGCGGTATG +GTGTGGGCGCTGGTCATTATTCACGGTAGCGCGTTGGCGCCGCATCTGGAAATTGTCAGT +TACGTGTTGACGGGGATCGTGGCATTCCTGATGTGTATCCAGGCAAAGCAGCTATTGCTT +TCTTTTGTTCCGGGAACATTTATCGGCGCCTGCGCGACATTTGCAGGGCAGGGTGACTGG +CGGTTGGTATTACCGTCGCTGGCGCTGGGGCTAATCTTTGGCTATGCCATGAAAAATAGT +GGGCTATGGCTGGCATCACGCCGCGAGCAACATTCAGCGAATACGGCGGTCACAAAATAA +ATGAAAAAAAACCTGCTGGGATTCACCCTCGCATCCTTGTTATTCACGACCGGTTCCGCC +GTGGCGGCGGAGTATAAAATTGATAAAGAAGGCCAACATGCGTTCGTCAATTTCCGCATC +CAGCATCTGGGCTACAGCTGGCTATACGGCACCTTTAAAGATTTCGACGGCACGTTCACT +TTTGACGAAAAAAATCCGTCAGCAGACAAAGTGAATGTGACCATTAACACCAATAGCGTC +GACACTAACCATGCCGAACGTGACAAACACCTGCGTAGCGCGGAGTTTCTTAATGTTGCG +AAATTCCCGCAGGCAACCTTCACCTCTACCAGCGTGAAAAAAGAGGGCGATGAACTGGAT +ATTACCGGCAATCTGACGCTCAATGGCGTGACTAAACCGGTGACGCTGGAAGCGAAGCTG +ATGGGCCAGGGCGACGATCCGTGGGGCGGTAAGCGCGCGGGCTTTGAGGCCGAAGGAAAA +ATTAAGCTGAAAGATTTCAATATAACTACCGATCTCGGCCCAGCCTCACAAGAGGTGGAG +CTTATCATCTCAGTAGAAGGCGTTCAGCAGAAGTAAATGTTACTGATGATGGCGCTGATC +GTGCGTATTATCTGGCGGCTTTATTCTCCGCCGCCCGTTGCGTTGACCAGCTATTCCCGT +TTAACGCGCATTGGCGCCGCCGCGGGTCATATCCTTCTGTATCTCCTGCTCTTTGCGATA +ATCATTAGCGGCTACCTGATTTCCACCGCCGACGGTAAACCGATTAGCGTCTTTGGCTGG +TTTGAGATTCCGGCCACGCTTACGGACGCGGGCGCGCAGGCTGACATCGCCGGAACACTG +CATCTGTGGTTTGCCTGGTCGCTGGTCATTATCTCGCTCTCGCATGGGGTTATGGCGCTA +AAACACCATTTCATCGATAAAGACGACACACTGAAACGTATGACAGGAATGTCGTCATCT +GACTATGGAGCTCAAAAATGAATGGTTAAGTTATCAATGACGCTGCGCCTGACAATTTCT +TTTATCGCCATACTTATCCTCGCCTGTACCGGCATTAGCTGGACGCTCTATAACGCGCTG +AGCAAAGAATTAACGTATCGGGATGATATGACGCTAATAAATCGGGCGGCGCAAATGCAG +CAACTGTTACTGGATGGCGCCAGGCCGGAAAATCTGCCGCTCTATTTCAATCGGATGGTG +GATACGAAGCAGGATATCTTATTGATCCACTCAGCAACAGGCCATAATGTTGCGATTAAT +CATAGCGGCATCCCCGACCAACGCTTTAACGAGATTCCGCTGGCTAAAAACATCACCCGC +GAAACCTTATTTCGCCAGGCGGTACAAGGCACGGAGCTGACCGCGGTACGAGTAAACGCC +AGAAGCGGCGATAACCCGCTGACCCTTACTATTGCCAGGCTGGCGACGGAAAGGCGGCAA +ATGCTGGCGCAATATCGCCGCAACAGTTTGCTGATTAGCCTTATCGCGATCCTCGTCTGT +TCGGCGCTCAGTCCATTAGTCATCAGAAACGGGCTGCGGGCCATTACGTCGCTCAGCCGA +CTCACCGCGGCGACAGATAGCGGCACACTTCGCCAGCCGCTGGCGGAACAGGCGTTACCC +GTCGAGCTCAGGCCGCTTGGGCAAGCGCTAAATACCATGCGCCAGAAGCTTTCCGACGAT +TTTGAACGCCTGAACCAATTTGCCGACGATCTGGCGCATGAGCTGCGCACGCCGGTTAAT +ATTTTACTGGGGAAGAATCAGGTTATGCTGAGTCAGGAACGCAGCGCCGAAGAGTATCAA +CAAGCCCTTGTCGATAATATTGAAGAGCTGGAGGGACTGTCGCGACTGACAGAAAATATT +CTCTTTCTGGCACGCGCGGAGCACCAGAATATAGCGGTAAAAAAACAGCCTGTTTCGCTC +AATGCGCTGGTCGAAAATATGCTGGATTATCTTAGCCCCCTTGCCGAAGAGAAGCACATC +TGTTTTATAAATCAATGTCAGGGAACGGTATGGGCTGACGAAATATTATTACAAAGAGTG +CTCTCAAACCTGCTGACGAATGCCATCCGTTATTCTGATGAAAACGCCGTGATACGTATT +GAAAGCGCTTATGATGATAACGTTGCAGAAATTCGGGTCGCTAATCCGGGCAGCCCCACC +GCCGATGCGGATAAGCTTTTCCGGCGTTTTTGGCGAGGAGATAATGCCCGCTACACTGCC +GGTTTCGGCCTGGGGTTATCGTTAGTTAACGCGATTGCCCTATTGCACGGTGGCTCGGCA +TCTTACCGCTATGCCGATGAACATAATATCTTTTCGGTTCGTCTGCCTGATAGCGGTGAT +AGCTAAGTGATATGTCTCAAAGTCCAGGGCGGCATTGGTGAAATTTTTACGGTGACGCAG +CAGGCGGATAAATTCTTTCCGGCTACGCAGTTCCACTGGAGCTGGACGGAAAGCACAGTA +CCTGTATTGATGATTGGTTTTCTGTTTGCCAATATTCAGCAATTTACTGCCAGTCAGGAT +GTGGTCCAACGCTATATCGTGACTGACTCCATAGAGGAAACGAAGAAAACATTACTTACA +AATGCCAAACTGGTTGCTGTGATCCCTGTTTTCTTTTTTGCTATCGGCTCGGCATTATTT +GTCTACTATCAGCAACATCCACAATTATTACCGGCGGGATTCAACACTGGCGGCATTTTG +CCCTTATTCGTGGTCACCGAAATGCCAGTCGGCATTGCAGGGTTGATAATCTCCGCTATT +TTCGCTGCCGCGCAGTCCAGCATCTCCAGCAGCTTAAACAGCATTTCCAGTTGTTTTAAT +TCCGATATCTATCAGCGTTTGAGTCATAAAAAAGGAACGCCAGAAAACCGTATGAAAATA +GCTAAGTTAGTTATTCTGGTCGCGGGCCTGATAAGTAGCGCGGCCTCGGTATGGCTGGTC +ATGGCCGATGAATCAGAAATCTGGGATGCATTTAATAGTCTGATAGGTCTGATGGGAGGG +CCAATGACCGGTCTGTTCATGCTGGGCATTTTCTTTAAACGAGCAAATGCCGGGAGTGCG +GTTTTAGGAATTATTATCAGCGTCATTACCGTGCTGGGCACACGCTATGCCACTGACCTT +AACTTCTTCTTTTATGGGGTCATTGGCTCGCTAAGCGTGGTGATCAGCGGCGTTATTTTC +GCCCCGTTATTTGCCCCGGCACCGCCATTGACGCTGGATGAAAAACCTGAACCAAAGGTG +ACATTATGAATGAAAATCAACAGATATCTTCTGGGTATGGTTTCGTTTATAGCATTTTCA +TCATATCTACAAGCGGCAACCCTTGATTATCGGCATGAATATGCTGATAGAACCAGAATT +AATAAAGACCGTATTGCTATAATTGAAAAGCTTCCTAACGGCATTGGTTTTTATGTCGAT +GCCAGCGTTAAATCGGGAGGAGTAGATGGTGAGCAGGATAAGCATTTAAGCGATCTCGTC +GCAAACGCTATAGAACTGGGCGTAAGTTATAATTATAAAGTTACGGACCATTTTGTTTTG +CAGCCTGGATTTATATTTGAAAGCGGTCCAGACACTTCAATTTATAAGCCTTATTTAAGG +GCGCAATATAATTTTGATTCTGGTGTTTATATGGCTGGTCGTTACCGTTATGACTATGCA +AGGAAGACAGCTAACTATAATGATGATGAGAAAACGAATAGATTTGATACTTATATAGGT +TATGTTTTTGATGAGTTGAAATTGGAATATAAATTTACCTGGATGGATAGCGATCAAATT +AAATTTGATAACAAAAAAACAAACTATGAACATAATGTGGCTTTAGCCTGGAAACTGAAT +AAGTCATTTACACCATACGTTGAGGTCGGAAATGTAGCGGTGAGAAATAATACCGATGAG +AGACAGACCCGTTATCGCGTTGGATTACAATACCACTTTTGAATGACGAAATACGGTGTT +ATAGGTACAGGTTATTTTGGCGCTGAACTGGCGCGATTTATGTCTAAGGTTGAAGGGGCG +AAAATCACTGCGATTTACGATCCGGTAAATGCGGCTCCGATAGCGAAAGAGCTGAACTGT +GTCGCCACTTCAACGATGGAGGCGCTTTGTACCCATCCTGATGTGGATTGCGTAATTATT +GCTTCACCAAATTACTTACATAAAGCGCCGGTCATTGCGGCGGCTAAAGCGGGTAAACAC +GTGTTTTGTGAAAAACCTATCGCCTTAAATTACCAGGATTGTAAGGATATGGTTGATGCC +TGCAAAGAAGCTGGTGTTACCTTTATGGCGGGTCACGTTATGAACTTTTTTCACGGGGTT +CGCCACGCTAAAGCGCTCATCAAAGCCGGTGAAATCGGTGAAGTTACACAAGTTCACACT +AAACGTAATGGTTTTGAAGACGTGCAGGATGAGATCTCATGGAAGAAGATTCGCGCAAAG +TCAGGTGGGCATCTGTACCATCACATTCACGAGCTAGATTGTACACTGTTCATCATGGAT +GAAACCCCATCCCTGGTTTCAATGGCGGCGGGGAATGTTGCGCACAAAGGTGAAAAATTT +GGTGATGAAGATGATGTTGTCCTAATCACCCTTGAGTTTGAAAGCGGTCGTTTCGCGACA +CTTCAGTGGGGATCATCGTTCCACTACCCTGAGCACTATGTATTAATTGAGGGCACGACA +GGTGCAATTCTCATTGATATGCAAAACACGGCTGGTTATCTAATAAAAGCGGGCAAAAAA +ACACACTTTCTTGTGCATGAAAGCCAGGCGGAGGATGATGATCGTCGCAACGGTAACATA +TCCAGCGAGATGGATGGCGCAATCGCTTATGGTAAACCCGGTAAACGTACGCCGATGTGG +CTCTCATCAATTATGAAACTGGAGATGCAGTACTTGCATGATGTGATAAACGGTCTGGAG +CCAGGCGAGGAGTTTGCTAAATTGCTAACGGGAGAAGCGGCGACAAATGCCATTGCTACC +GCTGATGCTGCGACGCTTTCTTCAAACGAGGGGCGCAAAGTTAAACTCACTGAAATTCTT +GGCTAAATGACATCACGTCTTCAGGTCATACAGGGTGATATCACTCAACTTAGCGTCGAT +GCGATTGTGAATGCCGCTAACGCATCATTAATGGGCGGCGGTGGCGTAGACGGCGCAATT +CATCGCGCGGCGGGGCCGGCATTGCTGGACGCCTGTAAACTCATCCGTCAGCAACAGGGC +GAATGTCAGACGGGACATGCGGTTATCACGCCTGCTGGCAAGCTTTCGGCAAAGGCGGTT +ATTCACACAGTGGGGCCCGTCTGGCGAGGCGGCGAACACCAGGAAGCTGAGCTACTCGAA +GAGGCATACCGGAATTGTTTGCTGCTTGCCGAGGCGAATCACTTTCGTTCCATCGCTTTT +CCGGCAATCAGTACCGGCGTTTATGGCTATCCACGCGCCCAGGCCGCTGAAGTCGCCGTC +AGGACGGTTTCAGATTTTATTACCCGTTACGCTCTGCCTGAACAGGTATACTTTGTCTGT +TATGATGAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAAGGCGACGACCCT +GCCTGA +>real_data_2 +ATGAAAAAATCATTACTCGCTGTTGCTGTGGCAGGGGCTGTTTTGTTGTCATCCGCCGTA +CAGGCGCAGACAACGCCGGAAGGTTATCAATTACAACAGGTGCTGATGATGAGCCGCCAT +AATCTGCGGGCGCCGCTGGCGAATAATGGCAACGTACTGGCGCAGTCGACGCCGAACGCC +TGGCCGGCGTGGGACGTTCCCGGCGGGCAACTGACGACGAAAGGCGGCGTGCTGGAAGTC +TATATGGGACACTACACACGTGAATGGCTGGTCGCGCAGGGGCTGATACCGTCGGGAGAA +TGTCCGGCGCCCGACACGGTATATGCCTATGCGAATAGTTTGCAGCGCACCGTCGCCACC +GCGCAATTTTTCATTACCAGCGCTTTCCCCGGCTGTGATATTCCTGTTCATCATCAGGAA +AAAATGGGCACTATGGACCCTACCTTCAATCCGGTGATTACCGATGATTCCGCCGCGTTC +CGGCAACAGGCCGTACAGGCGATGGAAAAGGCGCGTAGTCAGCTACATCTTGATGAGAGT +TATAAACTGCTTGAGCAGATAACGCATTATCAGGACTCGCCGTCCTGCAAAGAGAAGCAT +CAGTGTTCGCTAATCGACGCGAAAGATACCTTCAGCGCGAACTATCAGCAAGAGCCTGGC +GTGCAGGGGCCGCTGAAAGTAGGGAACTCGCTGGTGGATGCGTTTACCCTGCAATATTAC +GAAGGCTTTCCGATGGATCAGGTCGCTTGGGGCGGGATCCACACCGATCGGCAGTGGAAG +GTGCTGTCAAAACTGAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCCACGGTGGCG +CGCAATGTCGCTGCGCCGCTGGTAAAATATATCGATAAGGTGCTGGTTGCCGAGCGCGTT +AGCGCGCCGAAGGTTACCGTGCTGGTGGGGCATGATTCCAATATCGCGTCGCTGCTGACG +GCGCTGGATTTTAAACCCTATCAGCTCCATGACCAGTATGAGAGAACGCCGATTGGTGGT +CAGCTTGTCTTCCAACGCTGGCATGACGGTAACGCTAACCGGGATTTGATGAAAATCGAG +TATGTCTACCAGAGCGCCCGGCAGTTACGTAATGCGGAAGCGTTAACGCTCAAATCGCCT +GCGCAAAGGGTAACGCTGGAACTGAAAGGATGTCCGGTGGATGCGAACGGCTTCTGTCCG +CTGGATAAGTTCGATAACGTCATGAACACTGCTGCAAAATAGATGGAAAAGAATAATGAA +GTCATTCAGACCCATCCGCTTGTAGGATGGGACATCAGCACCGTCGATAGCTATGATGCG +CTGATGCTGCGTTTACACTACCAGACCCCAAATCGTCCGGAACCGGAAGGGACTGAAGTT +GGTCAAACGCTCTGGTTAACGACAGATGTAGCCAGGCAATTTATTTCAATATTAGAAGCC +GGCATCGCCAAAATAGAATCAGGCGATTACCAGGAAAACGAGTATCGTCACCATTAGATG +GAACTTAAGGATTATTACGCCATTATGGGCGTGAAACCGACGGACGATCTCAAGACGATT +AAGACCGCCTATCGCCGACTGGCCCGCAAGTACCATCCAGATGTCAGCAAAGAACCCGAT +GCCGAAGCCCGTTTCAAAGAGGTTGCTGAAGCATGGGAAGTGCTGAGTGATGAGCAACGG +CGCGCCGAGTATGACCAGTTATGGCAACACCGTAACGATCCACAATTTAATCGCCAGTTC +CAGCAACACGAAGGCCAGCCGTATAACGCCGAAGATTTTGATGATATTTTCTCGTCTATT +TTTGGTCAGCACGGTCGTCATTCGCACCACCGCCACGCCGCACGCGGTCATGATATCGAA +ATTGAAGTGGCGGTATTCCTGGAAGAAACGCTGGAAGAGCACCAGCGTACGATTAGCTAT +TCCGTCCCCGTTTATAACGCGTTCGGCCTGGTGGAGCGGGAAATTCCCAAAACATTGAAT +GTGAAAATCCCGGCTGGCGTCAGCAACGGGCAACGAATCAGACTGAAAGGCCAGGGCACG +CCGGGGGAAAACGGCGGACCTAATGGCGATTTATGGCTCGTTATCCATATTGCCCCGCAT +CCGCTCTTTGATATCGTCAATCAGGATCTGGAAGTCGTCCTTCCGCTTGCCCCATGGGAG +GCGGCGCTCGGCGCTAAGGTGTCTGTGCCAACGCTTAAAGAGCGTATTTTGCTGACCATT +CCCCCCGGCAGCCAGGCAGGTCAGCGGCTGCGTATCAAAGGAAAAGGATTAGCCAGTAAA +AAGCACACTGGCGATCTCTATGCCATCATCAAAATCGTTATGCCGCCGAAACCTGACGAG +AAAACAGCTGCCCTGTGGCAACAACTGGCGGACGCGCAGTCGTCCTTTGACCCACGCCAG +CAATGGGGGAAAGCATAAATGGCTAACATCACTGTCACCTTTACCATCACCGAATTTTGT +TTGCACACCGGCGTGACGGAAGAGGAGCTAAACGAAATCGTCGGACTTGGCGTAATTGAG +CCTTACGAAGACGATAACGCCGACTGGCAATTCGACGATCGCGCAGCGAGCGTGGTACAA +CGCGCGCTACGCTTACGCGAGGAGCTGGCGCTCGACTGGCCAGGGATCGCGGTCGCGTTA +ACGCTGCTGGAAGAGAATTCACGGCTGCGCGAAGAAAACCGGTTACTGCTGCAACGCCTT +TCTCGCTTTATCTCGCATCCCTAAATGTCATCTTGTTGGAGATTTACGGATTCGCTAACA +AGCCTATGGCATACTGCGTTGATGAAGATTTTATTGATTGAAGATAACCAGAAAACCATT +GAGTGGGTACGTCAGGGACTCACGGAGGCAGGCTATGTGGTTGATTATGCCTGTGATGGA +CGAGACGGATTACACCTAGCCCTTCAGGAACATTATTCATTGATTATTCTTGATATTATG +CTGCCGGGGCTTGATGGATGGCAGGTTTTACGCGCGTTGCGCACTGCATATCAGCCCCCT +GTTATTTGCCTGACGGCGCGCGACTCGGTTGAGGATCGCGTCAAAGGTCTTGAGGCGGGC +GCTAATGATTACCTTGTTAAGCCTTTTTCCTTCGCCGAACTGCTGGCCCGGGTGAGAGCT +CAACTCAGACAGCATGTCCCGGTCTTTACCCGACTGACGATCAATGGTCTGGACATGGAT +GCCACAAAGCAATCGGTGTTACGAAATGGCAAACCGATTTCCCTGACCCGCAAAGAATTC +CTGCTCCTCTGGTTACTGGCGTCCCGGGCAGGGGAAATCGTGCCCCGAACCGCGATCGCC +AGCGAAGTTTGGGGAATTAACTTTGATAGTGAAACCAACACCGTTGATGTCGCGATTCGT +CGGCTGCGCGCCAAAGTAGACGATCCATTTGAAAAGAAGCTCATTATGACCGTCCAGGGG +ATGGGTTATCGATTACAGGCGGAAACGTCGCAGAATGGTTAAATGAAAAACAAATTGTTA +TTTATGATGTTGGCAATACTGGGTGCGCCTGGGATTGCAACCGCGACAAATTATGATCTG +GCTCGTTCAGAGGATAATTTTGCGGTAAATGAATTAAGCAAGTCTTCATTTAATCAGGCG +GCCATTATTGGTGAAGTCGGCACGGATAATAGTGCCAGAGTACGCCAGGAAGGATCAAAA +CTATTGTCCGTTGTTTCACAAGAAGGAGAAAATAATCGGGCGAAAGTCGACCAGGCAGGG +AATTATAACTTTGCGTATATTGAGCAAACGGGCAATGCCAACGATGCCAGTATATCGCAA +AGCGCTTACGGTGATAGTGCGGCTATTATCCAGAAAGGTTCTGGAAATAAGGCCAATATT +ACCCAGTACGGTGCGCAGAAAACAGCAGTTGTAGTGCAGAAACAGTCGCATATGGCTATT +CGCGTCACCCAAGGCTAAATGCATACTTTATTGCTCCTTGCCGCACTTTCAAATGAGATT +ACGTTTACCACGACTCAGCAAGGCGATATTTACACGGTGATCCCTCAGGTCACAGTAAAC +GAACCCTGCGTCTGTCTGGTGCAAATTCTCTCTGTGCGCGACGGCGTCGGGGGAGAAAGC +CATACACAGCAAAAACAAACGCTATCTTTACCTGCTAATCAACCGATTGAGTTGGCTCGT +CTTAGTGTAAATATATCTTCAGAGGACTCGGTTAAAATTATTGTTACTGTTTCGGACGGA +CAATCACTGCATTTATCACAACAATGGCCGCCTTCTGCACAGTAGATGTTTAATGAAGTC +CATAGTAGTCATGGTCACACACTATTGTTGATCACAAAGCCATCTCTGCAAGCTACGGCA +TTATTGCAACATTTAAAGCAATCGCTGGCCATAACCGGACAACTGCATAATATTCAACGT +TCTCTGGAAGATATCTCAGCCGGTTGCATTGTTTTAATGCATATGATGGAAGCGGATAAG +AAGCTTATCCACTATTGGCAGGATAATTTAAGCCGCAAACACAATAATATAAAAACATTA +TTGTTAAATACCCCTGACGATTATCCCTACCGTGAAATTCAAAACTGGCCTCATATTAAC +GGCGTGTTTTACGCCACTGAAGACCAGGAACACGTGGTCCGCGGATTACAGGGTATTCTG +CGGGGCGAATGCTATTTTTCACAAAAATTAGCCAGTTACCTGATTACACACTCAGGAAAT +TACCGCTACAACAGCACCGAGTCCGCATTACTCACTCATCGCGAAAAAGAGATCCTCAAT +AAGTTACGTATTGGTGCCTCTAATAATGAAATCGCCAGGCCGCTATTTATCAGCGAGAAT +ACGGTTAAGACACATCTTTATAATCTTTTCAAAAAGATACCTGTCAAAAATCGCACCCAG +GCAGTTTCATGAATGAAACGCTATCTGACCTGGATTGTAGCAGCAGAGTTACTGTTCGCT +ACCGGAAACCTCCATGCCAATGAAGTTGAAGTCGAGGTTCCCGGATTGTTAACCGACCAT +ACCGTCTCTTCCATAGGACATGAATTCTATCGTGCATTCAGCGACAAATGGGAAAGCGAA +TACACCGGCAACCTGACCATTAATGAAAGACCCAGTGCGCGTTGGGGAAGCTGGATCACC +ATAACGGTAAACCAGGACGTTATTTTCCAGACCTTTTTATTTCCAATGAAAAGAGACTTC +GAGAAAACCGTCGTCTTCGCATTAGCGCAAACAGAGGAAGCATTAAATCGCCGACAAATA +GATCAAACGCTCTTAAGTACGAGTGATTTAGCGCGTGATGAATTCTAAATGCGTGTTAAA +CATGCAGTAGTGCTGCTCATGCTTTTTTCGCCATTAACCTGGGCTCGAAATATGACGTTC +CAGTTCCGTAATCCTAACTTTGGTGGAAACCCCAATAACGGTTCCCTTTTATTGAATAGC +GCCCAGGCGCAAAATTCATATAAAGACCCCGCTTATGATAACGATCTTGGTATCGAGACC +CCCTCAGCGTTGGATAACTTTACGCAGGCTATTCAATCGCAAATTCTGGGCGGCTTGTTG +ACCAATATTAATACCGGAAAACCAGGACGTATGGTGACCAATGATCTTATTATCGATATC +GCTAATCGCGACGGACAGCTCCAGCTCAACGTCACGGACAGAAAACCGGGAAGAACCTCG +ACCATCGAAGTGTCAGGTTTACAAACTCAGTCAACCGATTTTTAAATGCCGCGCTTACTT +ATTTTGGTTGCCGTTTTATCGTTGAGCGGATGCTTAACTGCCCCGCCGAAACAAGCTGCG +AAACCGACATTAATGCCCCCCGCACAAAGTTACAAAGATTTGACGCACTTACCTGCTCCC +ACCGGTAAGATCTTTGTTTCGGTATATAACATTCAGGATGAAACGGGCCAATTTAAACCT +TACCCGGCAAGTAACTTTTCCACGGCTGTGCCGCAGAGCGCCACCGCTATGTTGGTCACC +GCGCTGAAAGATTCGCGCTCGTTTATCCCACTAGAACGACAAGGCTTACAGAATCTTTTG +AATGAACGGAAAATTATTCCCGCAGCCCAGGAAAACGGCACCGTGGCGATGAATAACCGT +ATCCCGCTTCAGTCGTTGACGGCGGCAAATATTATGGTGGAAGGTTCTATTATTGGTTAT +GAAAGTAACGTCAAATCCGCCGGGGTCGGCGCAAGATATTTCGGTATTGGCGCCGATACG +CAGTATCAGCTGGATCAGACTGCTGTCAACCTGCGCGTGGTTAACGTCAGTACGGGCGAG +ATCCTTTCTTCGGTGAACACCAGTAAAACGATCCTTTCCTATGAAGTACAGGCAGGCGTG +TTCCGTTTTATTGATTACCCGCGCTTACTGGAAGGCGAAATCGGCTATACCTCGAACGAA +CCGGTGATGCTGTGTCTGACGTCAGCCATTGAAACCGGCGTTATCTTCCTCATTAATGAT +GGTATCGATCGCGGACTGTCGGATTTGCAGAATAAAGCGGACAGGCAAAATGATATTCTG +GTGAAATACCGTGAGCTGTCAGTACCGCCAGAATCCTGAATGTCTATTGCCGTAAATATG +AATGACCCGACCAACACGGGCGTCAAAACGACGACCGGCAGCGGGTCGATGACCGGAAGC +AACGCTGCCGATCTGCAAAGCAGTTTCCTGACCTTACTGGTCGCGCAATTGAAGAACCAG +GACCCGACTAACCCATTACAAAATAATGAGTTAACGACACAGTTGGCGCAAATCAGTACC +GTGAGCGGCATTGAAAAACTGAATACGACGCTGGGGGCTATTTCCGGGCAAATCGATAAT +AGTCAGTCCCTACAGGCGACCACGCTGATTGGACATGGCGTTATGGTGCCTGGCACCACA +ATTCTGGCGGGTAAAGGCGCGGAAGAAGGGGCCGTGACGTCCACGACGCCGTTTGGCGTG +GAATTGCAACAGCCTGCGGACAAAGTGACGGCAACCATTACCGATAAAGATGGCCGGGTG +GTACGGACGCTGGAGATCGGTGAGTTGCGAGCCGGGGTACACACCTTTACCTGGGATGGT +AAGCAAACGGACGGAACAACGGTACCGAATGGTTCTTACAACATTGCGATTACCGCCAGC +AATGGCGGGACGCAACTGGTGGCGCAGCCGCTGCAATTCGCTCTGGTACAGGGCGTGACG +AAGGGCAGTAACGGCAACCTGTTGGATCTGGGTACCTACGGCACCACCACACTCGACGAA +GTTCGGCAAATAATCTAAATGTCTTTTTCTCAAGCGGTTAGCGGCCTGAACGCTGCGGCC +ACCAACCTTGATGTTATCGGTAATAACATCGCCAACTCCGCCACCTATGGCTTTAAGTCC +GGTACGGCATCATTTGCCGATATGTTCGCCGGTTCCAAAGTGGGGTTGGGCGTAAAAGTG +GCGGGGATTACCCAGGATTTTACCGACGGTACGACAACGAACACCGGGCGCGGGCTGGAT +GTCGCGATTAGCCAGAACGGTTTTTTCCGCCTGGTAGACAGCAACGGTTCCGTGTTCTAT +AGCCGCAACGGCCAGTTCAAACTGGACGAGAACCGTAACCTGGTCAATATGCAGGGGATG +CAGTTGACCGGCTATCCGGCCACCGGTACGCCGCCGACCATTCAGCAGGGGGCGAATCCT +GCGCCGATCACCATTCCGAACACGCTGATGGCGGCGAAATCGACCACCACCGCGTCAATG +CAGATCAACCTGAACTCAACGGACCCTGTACCGTCTAAAACGCCCTTTAGCGTGAGTGAT +GCGGATTCGTATAACAAAAAAGGCACCGTCACCGTTTATGACAGCCAGGGTAATGCCCAT +GACATGAACGTCTATTTTGTGAAAACCAAAGATAATGAATGGGCTGTGTACACCCATGAC +AGCAGCGATCCTGCAGCCACTGCGCCAACAACGGCGTCCACTACGCTGAAATTCAATGAA +AACGGGATTCTGGAGTCTGGCGGTACGGTGAACATCACCACCGGTACGATTAATGGCGCG +ACAGCGGCCACCTTCTCCCTCAGCTTCCTTAACTCCATGCAGCAGAACACCGGGGCTAAT +AACATCGTCGCCACCAATCAAAACGGCTATAAGCCTGGCGACCTGGTGAGCTACCAGATT +AACAATGATGGCACCGTGGTTGGCAACTACTCCAACGAGCAGGAGCAGGTGCTGGGGCAG +ATTGTGCTGGCTAACTTCGCCAACAACGAAGGTCTGGCATCCCAGGGCGATAACGTCTGG +GCGGCGACGCAGGCCTCCGGGGTAGCGCTGCTGGGGACTGCCGGTTCCGGCAACTTCGGT +AAGCTGACGAACGGCGCGCTGGAAGCCTCTAACGTGGATTTGAGTAAAGAGCTGGTGAAT +ATGATCGTCGCGCAGCGTAACTACCAGTCGAATGCGCAGACCATCAAAACCCAGGACCAG +ATCCTCAATACGCTGGTTAACCTGCGCTAAATGGATCACGCAATTTATACCGCCATGGGG +GCGGCCAGCCAGACGCTTAACCAGCAGGCGGTAACGGCCAGCAACCTGGCTAATGCCTCA +ACGCCGGGCTTTCGCGCGCAGCTTAACGCGCTACGCGCGGTGCCCGTTGATGGCCTCTCT +TTAGCGACGCGCACGTTGGTTACGGCGTCGACGCCGGGGGCGGATATGACCCAGGGTCAG +TTGGACTACACTTCCCGCCCGCTGGATGTTGCGTTACAGCAGGACGGCTGGCTGGTGGTG +CAAGCGGCGGATGGCGCTGAAGGATATACCCGTAACGGGAATATCCAGGTGGGCCCGACC +GGGCAGTTAACCATTCAGGGACATCCGGTTATCGGCGAAGGCGGCCCGATTACCGTTCCG +GAAGGGTCGGAAATCACCATTGCGGCAGACGGCACGATCTCCGCGCTCAATCCCGGCGAC +CCGCCAAACACGGTGGCGCCCGTTGGGCGGCTGAAGCTGGTCAAAGCGGAAGGCAATGAG +GTGCAGCGGAGCGATGACGGTTTATTCCGCCTTACCGCCGAGGCACAGGCTGAACGCGGG +GCGGTACTGGCCGCCGACCCGTCAATTCGCATTATGTCGGGCGTGCTGGAGGGCAGTAAC +GTCAAGCCGGTTGAAGCCATGACCGACATGATCGCCAACGCACGTCGTTTTGAAATGCAG +ATGAAGGTTATCACCAGCGTAGATGAGAACGAAGGGCGAGCTAACCAACTGCTGTCGATG +AGTTAAATGATCAGTTCATTATGGATCGCCAAAACCGGTCTGGACGCGCAGCAAACCAAT +ATGGATGTGATTGCCAATAACCTGGCAAACGTCAGCACCAATGGTTTTAAGCGTCAGCGC +GCGGTATTTGAAGATCTGTTGTATCAGACCATCCGCCAGCCGGGCGCGCAGTCGTCCGAG +CAGACGACGCTGCCTTCCGGGCTGCAAATCGGTACCGGCGTGCGTCCGGTCGCCACGGAG +CGCCTGCACAGTCAGGGGAACCTGTCGCAGACCAACAACAGTAAAGATGTGGCGATTAAA +GGGCAGGGCTTTTTCCAGGTCATGCTGCCGGACGGTACGTCTGCCTATACCCGCGACGGC +TCTTTCCAGGTGGATCAGAATGGTCAACTGGTGACGGCGGGCGGTTTTCAGGTGCAGCCG +GCAATCACCATTCCGGCCAACGCGTTAAGCATCACGATTGGCCGCGACGGCGTGGTCAGC +GTTACCCAGCAAGGGCAGGCCGCGCCGGTTCAGGTCGGGCAGCTTAACCTGACCACCTTT +ATGAACGACACCGGTCTGGAAAGCATCGGCGAGAACCTCTATATCGAAACGCAATCGTCC +GGCGCGCCGAACGAAAGCACGCCGGGGCTCAACGGCGCGGGGTTGTTGTATCAAGGGTAT +GTCGAAACGTCGAACGTTAACGTGGCGGAAGAGCTGGTGAACATGATTCAGGTTCAACGC +GCCTATGAAATTAACAGTAAAGCAGTATCGACGACCGATCAGATGCTGCAGAAACTGACG +CAACTCTAAATGGCCCTGATGGTCGCGACGCTGACAGGATGCGCCTGGATACCCGCTAAA +CCGCTCGTGCAGGGGGCGACCACGGCGCAGCCGATACCTGGCCCGGTACCGGTGGCGAAT +GGCTCCATATTTCAGTCTGCGCAGCCGATTAATTATGGCTATCAGCCGCTTTTTGAAGAT +CGTCGACCGCGTAATATCGGCGATACGCTCACGATTGTGTTACAGGAAAACGTCAGCGCC +AGTAAAAGCTCGTCGGCAAATGCCAGCCGCGACGGCAAAACCAGCTTTGGTTTTGATACG +GTACCGCGTTATCTGCAGGGATTATTCGGTAATTCCCGCGCGGATATGGAGGCCTCCGGC +GGCAACTCTTTTAATGGTAAAGGCGGCGCGAATGCCAGCAATACCTTTAGCGGCACGCTG +ACCGTGACCGTCGATCAGGTTCTGGCCAATGGCAATTTACACGTCGTGGGGGAAAAACAG +ATCGCGATTAATCAGGGAACGGAATTCATCCGCTTCTCCGGCGTGGTAAATCCACGCACC +ATCAGCGGTAGCAACTCTGTTCCCTCGACACAGGTGGCGGATGCGCGGATTGAATATGTC +GGGAACGGCTATATTAACGAAGCGCAAAATATGGGCTGGCTGCAACGTTTCTTCCTTAAT +TTGTCGCCGATGTAAGTGTTTAAAGCTCTTGCAGGAATCGTTCTGGCACTGGTTGCCACT +CTGGCGCACGCCGAGCGTATCCGGGATCTGACCAGTGTCCAGGGAGTACGGGAAAACTCG +CTGATCGGCTACGGGCTGGTGGTCGGGCTGGACGGTACGGGCGACCAGACGACCCAGACG +CCATTTACCACCCAGACGCTGAATAACATGCTGTCACAACTGGGGATTACGGTCCCCACC +GGCACCAATATGCAGTTGAAAAACGTGGCGGCGGTGATGGTGACGGCGTCGTATCCGCCT +TTTGCGCGACAGGGACAAACGATCGATGTCGTCGTTTCCTCAATGGGGAACGCTAAAAGT +CTGCGTGGCGGGACGTTATTAATGACGCCGTTAAAAGGGGTGGACAGCCAGGTGTATGCT +CTGGCGCAGGGCAATATTCTGGTCGGCGGCGCGGGCGCTTCCGCAGGCGGCAGTAGCGTG +CAGGTTAACCAGCTTAATGGCGGGCGCATCACTAATGGCGCGATTATCGAACGCGAGTTG +CCGACTCAGTTCGGCGCTGGCAACACCATTAATCTGCAATTGAACGACGAAGATTTTACG +ATGGCGCAGCAAATTACCGACGCCATCAACCGCGCCCGCGGTTACGGCAGCGCCACTGCG +CTTGATGCGCGAACGGTACAGGTACGCGTGCCCAGCGGCAACAGCTCGCAGGTGCGTTTT +CTGGCGGACATTCAAAATATGGAAGTCAACGTGACGCCGCAGGATGCAAAAGTCGTGATC +AACTCGCGTACCGGTTCGGTGGTCATGAATCGGGAAGTCACGCTGGATAGCTGCGCTGTG +GCGCAGGGCAATTTGTCAGTGACAGTCAATCGCCAACTCAACGTCAACCAGCCGAATACG +CCATTTGGCGGCGGGCAGACCGTGGTGACGCCACAGACTCAGATAGATTTGCGTCAGAGC +GGCGGATCGCTACAGAGCGTGCGTTCCAGCGCCAATCTGAACAGCGTAGTGCGCGCGCTG +AATGCGCTTGGCGCGACGCCGATGGATCTGATGTCGATTTTGCAGTCCATGCAGAGCGCG +GGCTGTCTACGCGCCAAACTGGAAATCATCTGAATGATCGGAGACGGTAAATTGCTGGCC +AGCGCGGCCTGGGATGCGCAATCTCTGAACGAACTGAAAGCGAAAGCGGGCCAGGACCCG +GCGGCGAATATCCGTCCTGTGGCCCGTCAGGTGGAAGGGATGTTTGTGCAGATGATGCTG +AAAAGTATGCGCGAGGCTTTACCCAAAGATGGTTTATTCAGCAGCGATCAGACGCGTCTG +TATACCAGCATGTATGACCAGCAGATCGCCCAGCAGATGACCGCCGGTAAGGGATTGGGG +CTGGCGGATATGATGGTTAAACAGATGACGGGCGGGCAGACGATGCCTGCAGATGATGCG +CCGCAAGTACCGCTTAAATTCTCCCTGGAGACGGTAAACAGCTATCAAAATCAGGCGCTG +ACCCAACTGGTGCGCAAAGCCATACCGAAAACGCCGGACAGCAGCGATGCGCCGCTCTCC +GGCGACAGTAAAGACTTTCTGGCCCGGCTTTCGCTCCCGGCGAGGCTGGCCAGCGAACAA +AGCGGGGTGCCGCATCATCTGATTCTGGCGCAGGCGGCGCTGGAGTCCGGCTGGGGGCAG +CGGCAAATCCTGCGGGAGAATGGCGAACCCAGCTATAACGTATTTGGCGTGAAAGCGACC +GCCAGTTGGAAAGGGCCGGTGACGGAAATCACCACCACTGAATACGAAAATGGCGAAGCG +AAAAAAGTGAAAGCGAAATTCCGCGTCTATAGCTCGTATCTGGAGGCGTTATCGGATTAT +GTCGCGCTGTTAACGCGTAACCCACGCTACGCTGCCGTGACCACTGCCGCCACGGCAGAG +CAGGGCGCAGTGGCTCTGCAAAACGCCGGATACGCCACTGACCCGAATTACGCGCGTAAA +TTGGCCAGCATGATTCAGCAGTTGAAAGCGATGAGTGAAAAGGTCAGCAAAACCTACAGC +GCGAATCTCGACAATCTCTTTTAAATGTCCAGCTTGATTAATCACGCCATGAGCGGACTT +AACGCCGCGCAGGCCGCGTTAAATACGGTCAGTAATAACATCAACAATTATAACGTTGCG +GGTTATACCCGGCAGACAACTATTCTGGCGCAGGCAAACAGTACGTTAGGGGCTGGCGGC +TGGATAGGTAATGGCGTTTACGTTTCAGGCGTACAGCGCGAATATGATGCGTTTATCACT +AATCAGCTACGCGGCGCGCAAAACCAGAGCAGCGGCTTAACCACGCGCTATGAACAAATG +TCGAAAATCGACAACCTGCTGGCCGATAAATCCAGCTCACTGTCTGGCTCGCTGCAGAGT +TTTTTTACCAGCCTGCAAACGTTAGTCAGTAATGCGGAAGATCCTGCGGCGCGTCAGGCG +CTGATTGGTAAAGCGGAAGGGCTGGTAAACCAGTTCAAAACCACCGATCAGTATCTGCGC +GATCAGGATAAACAGGTCAATATCGCGATTGGCTCCAGCGTGGCGCAAATCAACAATTAC +GCGAAGCAGATAGCTAACCTGAACGATCAAATCTCCCGTATGACGGGCGTAGGCGCGGGC +GCATCGCCGAACGACCTGCTCGATCAACGTGATCAGTTGGTTAGCGAGCTTAACAAGATC +GTTGGCGTCGAGGTGAGTGTACAGGACGGCGGCACCTATAACCTGACGATGGCCAATGGC +TATACGCTGGTGCAGGGGTCGACGGCGCGTCAGTTGGCGGCGGTTCCCTCCAGCGCCGAC +CCGACGCGAACGACTGTCGCTTATGTCGATGAGGCCGCCGGTAACATCGAAATTCCGGAA +AAGTTGCTGAACACCGGTTCGCTCGGCGGGCTACTGACGTTCCGTTCTCAGGATCTGGAT +CAGACTCGTAATACGCTGGGCCAGTTGGCGTTGGCGTTTGCCGATGCGTTTAACGCGCAG +CATACCAAAGGTTATGACGCCGACGGCAATAAAGGGAAAGACTTCTTTAGCATTGGCTCG +CCGGTGGTATATAGCAACAGTAATAATGCCGATAAAACGGTATCGCTAACCGCTAAGGTG +GTCGACAGCACGAAGGTTCAGGCGACGGATTATAAGATTGTTTTTGACGGTACAGACTGG +CAGGTTACTCGCACTGCGGATAACACCACCTTCACGGCAACAAAAGATGCTGACGGAAAA +CTGGAGATTGACGGTCTGAAAGTGACGGTAGGGACTGGCGCACAGAAAAACGACAGTTTT +CTTCTCAAGCCGGTCAGCAATGCTATCGTCGACATGAACGTTAAAGTGACAAATGAAGCC +GAGATTGCGATGGCGTCTGAGTCAAAACTCGATCCTGATGTGGATACCGGCGACAGCGAT +AACCGCAATGGTCAGGCATTGCTGGACTTACAAAACAGCAATGTAGTGGGCGGCAACAAA +ACCTTTAACGATGCTTACGCCACGTTGGTCAGCGATGTGGGTAACAAAACGTCAACGCTG +AAAACCAGCAGCACCACGCAGGCGAATGTGGTTAAACAGCTTTATAAACAGCAACAGTCG +GTTTCCGGCGTTAACCTCGACGAAGAGTACGGCAATTTGCAGCGTTATCAGCAGTATTAT +CTGGCGAATGCGCAAGTATTGCAGACCGCGAATGCGCTGTTTGATGCGTTATTGAATATT +CGCTAAATGCGTATCAGTACCCAGATGATGTACGAACAAAATATGAGCGGCATCACTAAT +TCTCAGGCCGAATGGATGAAGCTGGGCGAGCAGATGTCTACCGGTAAGCGCGTTACCAAC +CCATCTGACGATCCGATCGCCGCGTCGCAGGCGGTAGTACTCTTTCAGGCGCAGGCGCAG +AATAGCCAGTACGCCCTGGCGCGTACGTTTGCCACCCAAAAAGTGTCGCTGGAAGAAAGC +GTACTCAGTCAGGTGACGACGGCGATTCAAACCGCGCAGGAAAAAATCGTCTATGCCGGA +AACGGCACGTTAAGCGACGATGACCGCGCGTCGCTGGCGACGGATTTACAGGGGATCCGC +GATCAGCTGATGAACCTGGCAAACAGCACTGACGGCAATGGTCGCTATATCTTTGCCGGG +TATAAAACGGAAGCGGCGCCATTCGACCAGGCGACAGGTGGTTATCATGGCGGCGAGAAA +AGTGTTACCCAGCAGGTGGATTCCGCACGCACGATGGTAATTGGCCATACGGGAGCGCAA +ATTTTTAATAGCATCACCAGCAATGCGGTGCCGGAACCGGATGGCTCGGACTCCGAAAAG +AATCTGTTTGTCATGCTCGATACGGCAATTGCCGCGCTCAAGACCCCGGTGGAAGGCAAT +GACGTGGAAAAAGAAAAAGCCGCTGCCGCCATTGATAAAACCAATCGCGGCTTAAAAAAT +TCGCTTAATAACGTCCTGACCGTTCGTGCGGAACTGGGAACGCAACTGAGCGAACTCAGT +ACGCTGGATTCACTGGGAAGCGACCGTGCGCTGGGACAGAAGCTACAGATGAGCAACCTG +GTAGATGTGGACTGGAACTCGGTCATTTCCTCCTACGTCATGCAACAGGCGGCATTACAG +GCGTCCTATAAAACGTTTACCGACATGCAGGGAATGTCGCTTTTCCAGTTGAACCGGTAA +ATGGAGATAATTTTTTATCACCCGACATTTAACGCCGCCTGGTGGGTAAATGCGCTGGAG +AAGGCTCTCCCACATGCGCGCGTTCGTGAATGGAAGGTCGGTGATAACAACCCCGCAGAC +TATGCGCTTGTATGGCAGCCCCCGGTTGAAATGCTGGCCGGAAGACGCTTAAAAGCCGTC +TTTGTGCTGGGCGCGGGGGTGGATGCAATTCTGAGTAAATTAAATGCGCATCCGGAAATG +CTGGACGCCTCCATTCCTCTATTCCGTCTGGAAGATACCGGAATGGGCCTGCAAATGCAG +GAGTATGCCGCCAGCCAGGTATTACACTGGTTCCGTCGTTTCGATGATTATCAGGCGCTG +AAAAATCAGGCGCTATGGAAACCGTTGCCGGAATATACCCGCGAAGAGTTTAGCGTCGGT +ATCATAGGCGCAGGGGTACTGGGCGCAAAAGTGGCAGAAAGTCTACAGGCGTGGGGGTTC +CCGTTACGTTGCTGGAGTCGTAGCCGCAAATCCTGGCCTGGCGTGGAAAGTTATGTAGGG +CGTGAAGAACTGCGCGCTTTCCTGAACCAGACGCGGGTGCTGATTAATCTGCTGCCGAAT +ACGGCCCAAACGGTAGGAATTATTAATAGCGAATTGTTGGATCAATTGCCGGATGGCGCT +TACGTGCTGAATCTCGCGCGCGGCGTTCATGTTCAGGAGGCGGATCTGCTGGCTGCGCTT +GATAGCGGTAAGCTAAAAGGCGCGATGTTGGATGTCTTTAGCCAGGAACCGTTACCGCAG +GAAAGTCCATTATGGCGCCATCCGCGAGTCGCCATGACGCCGCACATTGCGGCAGTCACC +CGTCCGGCGGAAGCCATCGATTATATTAGCCGCACCATTACCCAGCTGGAGAAGGGAGAG +CCGGTGACGGGGCAGGTGGATCGGGCGAGAGGATATTGGATGTCCGTAATCAAGAAAAAT +ATCCCTGCCATAGGCCTGTGTATCTGCGCTTTTTTTATCCATTCTGCGGTAGGGCAACAA +ACGGTACAGGGCGGCGTTATCCATTTTCGCGGCGCGATTGTTGAGCCACTGTGCGATATT +TCTACTCACGCCGAAAATATTGATTTAACCTGCCTACGCGAAGGTAAAAAGCAAATGCAC +CGGATAGACCTTCGGCAGGCATCTGGATTACCGCAGGATATTCAGTCCATTGCGACGGTA +CGGCTGCATTATCTCGATGCGCAAAAAAGCCTGGCGGTGATGAATATTGAGTACCGTTAA +ATGGCAAACCATCGTGGCGGTTCCGGTAATTTTGCGGAAGACCGCGAAAGAGCATCAGAA +GCAGGTCGTAAAAGTGGTCAGCACAGCGGGGGCAATTTTAAGAATGACCCGCAGCGTGCA +TCCGAAGCAGGCAAAAAAGGGGGCAAAAGCAGTAACCGTAATCGCTAGATGGTAATGTCC +GCACCAGGACACATTGTTTACAGTAGTTACAACACCCTGTACGGACATTCTCTCTCCGGT +GGTGGTCTTGTCATCTTAAAAGCTCTCATCATTTCCCTTACTGTCCATACCCATGACGCC +ATATGTGGTGCGCGTAGCCGTGTGTGGCGTCGTTTCAAAAAGCAAGCTAAGGCTTACAAG +GAAGCCAACCCTCAGATGTGTGTGCGCATAATCGCGTTCAAGAGAACGCGGGTGATGTAT +ACCTACAACTCAAGGTGCTATCCATGGGAAGACAAAAAGCAGTGAATGAAACGAATTTTC +CTTACCTGCGCGGCGTTGTTGTTCAGCAGTCAGGCGTTGGCCGATGAGTGTGCCAGCGCC +AGTACGCAGCTGGAAATGAATCGCTGCGCCGCCGCGCAATACCAGGCGGCAGATAAAAAG +CTGAACGAAACCTATCAAAGCGCGATTAAGCGTGCGCAACCGCCGCAGCGTGAGCTATTG +CAAAAAGCGCAGGTGGCATGGATTGCCCTGCGCGACGCCGATTGCGCGCTGATTCGCTCA +GGTACGGAGGGCGGCAGCGTTCAACCCATGATCGCCAGCCAGTGCCTGACCGATAAAACG +AACGAACGCGAAGCGTTTTTAGCCTCGCTGCTGCAATGTGAAGAGGGTGATTTGAGCTGC +CCACTGCCGCCAGCCGGTTAAGTGCGTATATTCGCGGTGAGCATAATGGTGATTACCCTG +AGCGGCTGCGGCAGTATTATCAGCAGAACGATCCCCGGACAAGGACACGGCAACCAGTAT +TACCCTGGCGTGCAGTTGGATATGCGTGATTCCGCATGGCGCTATATCACTATCCTCGAT +CTGCCCTTCTCACTGATCTTCGATACACTGCTACTGCCGCTCGATATTCACCACGGGCCT +TATGAGTAAATGTGCCAACGTGCGATCGCCAATATTGATATCAGCAAAGAGTATGACGAA +AGCATGGGCAGTAACGATGTGCATTATCAGTCGTTTGCTCGTATGGCGGATTTCTTTGGT +CGTGATATGCAGGCGCATCGCCACGACCAGTTTTTTCAAATGCACTTTCTTGATACCGGG +CAGATTGAGCTACAGCTCGACGATCATCGCTATTCGGTGCAGGCGCCGCTATTTGTGCTA +ACGCCGCCCTCGGTGCCGCATGCTTTTATTACCGAATCGGATAGCGATGGTCATGTTCTG +ACGGTACGCGAAGAGCTGGTTTGGCCGCTGCTGGAAGTGCTTTATCCCGGCACCAGAGAG +GCCTTCGGCCTGCCGGGAATCTGCCTGTCGCTGGCGGATAAACTCAACGAGCTGGCGGCG +CTCAAACATTACTGGCAGCTAATTGAGCGGGAGTCCACGGAACAACTGGCTGGCTGCGAA +CATACCTTGGTACTACTGGCGCAGGCGGTATTTACCTTGCTGTTGCGTAATGCGAAGCTG +GACGATCATGCCGCAACCGGGATGCGCGGTGAACTGAAACTTTTTCAGCGCTTTACCCTG +TTAATTGACAACCACTTCCATCAGCACTGGACGGTGCCCGATTATGCCTGTGAGTTGCAT +ATTACCGAATCTCGTTTGACCGATATTTGCCGACGTTTTGCTAATCGCCCGCCTAAACGC +CTGATTTTTGATCGGCAATTACGCGAGGCGAAACGACTGCTGCTTTTTTCCGACAATGCT +GTCAACGAGATCGCCTGGCAATTAGGTTTTAAAGATCCGGCTTATTTCGCCCGTTTCTTT +AATCGCCTTGCTGGCTGTTCTCCTTCGCAGTTTCGCCAACGTGAAGTTCCTTCTTTTCTC +AACTAAATGGGACGCACACCGGATTACAAAGCCGCCTTTGGCTGCGCTCTGGGCGCTAAC +CCAGCCTTCTACGGCCAGTTTGAGCAGAACGCCCGTAACTGGTACACCCGTATTCAGGAG +ACCGGCCTGTACTTTAACCATGCAATCGTCAACCCGCCCATTGACCGCCACAAACCTGCC +GACGAAGTGAAAGACGTCTATATCAAGCTGGAGAAAGAGACGGACGCCGGGATTATTGTC +AGCGGGGCGAAAGTTGTCGCCACTAACTCCGCCCTGACTCACTACAACATGATTGGTTTC +GGCTCAGCCCAGGTGATGGGCGAAAACCCGGATTTTGCTCTGATGTTTGTCGCGCCAATG +GATGCCGAAGGCGTAAAACTTATTTCGCGCGCCTCGTATGAAATGGTCGCGGGCGCGACG +GGCTCGCCGTTTGATTATCCCCTCTCCAGCCGTTTTGATGAAAACGATGCCATTCTGGTG +ATGGACAAGGTGCTGATCCCGTGGGAAAACGTATTAATTTACCGTGATTTCGATCGTTGT +CGTCGCTGGACGATGGAAGGCGGCTTTGCCCGTATGTATCCACTGCAAGCCTGTGTTCGT +CTGGCGGTAAAACTTGATTTCATTACCGCGCTGCTGAAAAAATCGCTCGAATGTACGGGT +ACCGTAGAGTTCCGGGGCGTGCAGGCCGATCTCGGCGAAGTCGTGGCCTGGCGCAATATG +TTCTGGGCATTGAGCGATTCTATGTGTTCTGAAGCAACCCCGTGGGTAAACGGCGCCTGG +CTACCGGACCACGCCGCGCTGCAAACCTATCGTGTGATGGCCCCAATGGCCTACGCGAAA +ATTAAAAATATTATTGAACGTAACGTTACCAGCGGCCTGATTTACCTGCCTTCCAGCGCC +CGCGATCTGAATAATCCGCAAATCGACCAGTACCTGGCGAAATACGTACGCGGCTCTAAC +GGAATGGACCATGTTGAACGTATCAAAATTCTTAAATTGATGTGGGATGCCATCGGCAGC +GAGTTTGGCGGTCGCCATGAGCTGTACGAGATTAACTACTCGGGCAGCCAGGATGAAATT +CGTCTGCAGTGTCTGCGTCAGGCCCAGAGCTCCGGCAATATGGATAAGATGATGGCAATG +GTCGATCGCTGCCTCTCCGAATACGATCAGAATGGCTGGACGGTTTCGCATTTGCACAAT +AACGACGACATCAATCAACTGGATAAGCTGCTGAAATAAATGCAAGTAGATGAACAACGT +CTGCGTTTTCGCGATGCGATGGCAAGTCTGGCGGCAGCGGTCAACATCGTAACCACGGCG +GGTCACGCCGGACGCTGCGGTATCACCGCAACAGCGGTTTGCTCAGTCACTGATACGCCG +CCCTCCGTGATGGTATGTATTAATGCCAATAGCGCCATGAACCCCGTTTTTCAGGGCAAC +GGCAGGCTGTGCATTAATGTACTTAACCATGAGCAGGAGCTGATGGCGCGCCACTTTGCC +GGTATGACGGGGATGGCGATGGAGGAGCGTTTTCACCAGCCATGTTGGCAAAACGGGCCG +CTGGGCCAGCCGGTACTTAACGGCGCGCTGGCCAGTCTTGAAGGCGAGATCAGCGAGGTA +CAAACCATTGGCACGCATCTGGTGTATCTGGTGGCGATCAAAAATATTATTCTTAGCCAG +GAGGGGCATGGCCTGATTTATTTCAAACGCCGTTTTCATCCGGTCAGACTTGAGATGGAA +GCGCCTGTTTAAATGAAGGGTACTGTTTTCGCCGTTGCGTTAAACCATCGCAGCCAGCTT +GATGCCTGGCAAGAGGCTTTCTCTCAGCCTCCCTATAATGCGCCGCCTAAAACCGCAGTG +TGGTTCATCAAGCCGCGTAATACGGTGATTCGTCACGGCGAACCCATTCCTTATCCGCAG +GGAGAAAAGGTACTGAGCGGCGCGACAGTGGCGCTCATTGTGGGGAAAACCGCCAGCCGG +ATACGCCCTGAAGCGGCGGCGGACTATATCGCCGGGTATGCGCTGGCTAACGAGGTCAGC +CTGCCGGAAGAGAGCTTTTATCGCCCGGCGATTAAAGCGAAATGTCGCGATGGCTTTTGC +CCGCTGGGTGAAATGGCGCCGCTGAGTGATGTGGATAATCTCACCATTATCACTGAAATC +AACGGACGAGAAGCGGACCACTGGAATACTGCCGATTTACAGCGTAGCGCCGCACAACTG +CTTAGCGCGTTAAGTGAGTTCGCTACACTTAACCCTGGCGATGCGATCTTACTTGGTACG +CCGCAGAATCGCGTTGCGCTGCGTCCCGGCGATCGGGTGCGTATTCTGGCGAAAGGTTTA +CCCGCGCTGGAAAATCCGGTTGTCGCAGAAGATGAATTCGCCCGCCACCAGACGTTTACG +TGGCCGCTGTCAGCGACGGGAACGTTATTTGCGCTGGGGTTGAACTACGCCGATCACGCC +AGCGAGCTGGCATTTACGCCGCCGAAAGAGCCGCTGGTATTTATCAAAGCGCCAAACACC +TTTACCGAACATCACCAAACGTCGGTGCGCCCGAACAACGTCGAATATATGCACTACGAA +GCCGAGCTGGTCGTGGTGATTGGCAAAACGGCGCGTAAGGTGAGCGAAGCCGAAGCCATG +GAGTATGTGGCCGGTTACACCGTCTGTAACGACTACGCGATCCGCGACTATCTGGAAAAC +TACTACCGTCCGAATCTGCGGGTAAAAAGCCGCGACGGCCTGACGCCGATAGGCCCGTGG +ATTGTGGATAAAGAGGCGGTTTCTGATCCGCACAACCTGACGTTACGCACCTTTGTCAAC +GGTGAGCTGCGGCAGGAAGGGACGACCGCCGATCTGATCTTCAGCATCCCGTTCCTGATT +TCTTATCTGAGCGAATTTATGACGTTGCAACCGGGCGACATGATTGCCACCGGTACGCCG +AAAGGGCTGTCCGATGTGGTGCCGGGGGATGAAGTTGTCGTTGAAGTAGAAGGCGTGGGT +CGCCTGGTTAACCGAATCGTCAGTGAGGAGAGCGCAAAATGAATGAAAAATGCTTTCAAA +GACGCGTTAAAAGCGGGGCGCCCGCAAATCGGTTTGTGGCTGGGGCTTGCCAACAGTTAC +AGCGCTGAACTGTTAGCGGGCGCCGGCTTCGACTGGCTACTGATTGACGGTGAACACGCG +CCAAACAACGTGCAGACGGTGTTGACCCAGTTGCAGGCGATTGCGCCTTATCCCAGCCAG +CCGGTGGTGCGTCCGTCATGGAACGATCCGGTACAGATTAAGCAACTGCTCGACGTCGGC +GCGCAAACGCTGCTGATACCGATGGTGCAGAATGCCGATGAAGCGCGAAACGCCGTGGCG +GCTACGCGTTATCCGCCTGCCGGTATTCGCGGCGTGGGCAGCGCGCTGGCGCGGGCATCG +CGCTGGAATCGCATTCCGGACTATCTCCACCAGGCCAACGACGCCATGTGCGTACTGGTG +CAGATTGAAACGCGTGAGGCGATGAGCAATCTGGCGTCAATTCTCGACGTGGATGGCATT +GACGGCGTGTTTATTGGCCCGGCGGATCTCAGCGCCGATATGGGCTTTGCCGGCAATCCG +CAGCACCCGGAAGTGCAGGCGGCGATTGAGAACGCCATCGTGCAGATACGCGCGGCGGGG +AAAGCGCCGGGGATTCTGATGGCCAATGAAGCACTGGCGAAACGTTATCTGGAACTGGGG +GCGCTATTTGTCGCCGTCGGCGTTGACACCACGCTGCTGGCGCGCGGAGCGGAGGCGCTG +GCGGCGCGCTTTGGCGCAGAAAAAAAACTGTCCGGTGCGTCCGGCGTCTATTAAATGCAT +GATTCATTAACCATCGCCTTGCTTCAGGCGCGCGAAGCGGCAATGACCTATTTCCGCCCC +ATCGTTAAAAGCCACAATCTGACCGACCAGCAATGGCGCATTGTGCGAATCCTGGCCGAT +AGCCCCTCTATGGATTTTCACGAGCTGGCCTTTCGTACCTGTATTTTGCGTCCAAGTCTG +ACCGGAATATTGACGCGCATGGAGCGAGACGGACTGGTGTTGCGACTCAAGCCGGTTAAC +GATCAGCGTAAGTTATATGTCATGTTGACGGAGCAGGGACAAACGTTGTACGCCCGTGCC +CGGAGCGAGGTAGAAGAGGCTTATCGAAAAATTGAGGCCGATTTCACGCCCGAAAAAACA +CAGCAATTGATGCTGCTGCTGGACGATCTTATTGCTCTGGGGCGCCAGCATCCTGATAGC +GAAGCGGAAGCATAGATGAGCGACACATCATCTGCACTTCCGGAAAGCCCCGAGTCTGTC +GGTTCGCACAACGCGCTCAGCACGGGTCAACAAACCGTCATAAATAAACTGTTCCGCCGA +CTGATCGTATTTTTATTCGTGTTGTTTATCTTCTCGTTTTTAGACCGTATCAACATCGGT +TTTGCCGGGTTGACGATGGGGCAGGATCTGGGGTTAAGCGCCACCATGTTTGGTCTTGCC +ACGACGCTGTTTTACGCCACCTACGTCATTTTCGGCATTCCCAGCAACGTGATGTTGAGC +ATCGTCGGCGCCCGCCGCTGGATTGCGACCATTATGGTGCTATGGGGCATTGCATCTACC +GCCACGATGTTCGCGGTGGGACCGAAAAGCCTGTATGTGCTGCGAATGCTGGTGGGCATT +ACCGAAGCGGGCTTTTTGCCAGGAATATTGCTCTATTTAACCTACTGGTTCCCGGCATTT +TTCCGCGCCCGCGCCAACGCATTATTTATGATTGCCATGCCGGCCACTACCGCGTTGGGG +TCAATTGTCTCCGGCTATATTTTATCGCTGGACGGCATATTCAATCTGCATGGATGGCAG +TGGTTATTCCTGTTGGAAGGATTTCCGTCAGTTTTGTTAGGCATTATGGTCTGGTTTTAC +CTGGATGATACCCCGGCAAAAGCCAAATGGCTGACGGCAGAGGATAAAAAATGTTTGCAG +GAGATGATGGATAATGATCGCCTGACGCTGGTTCAGCCTGAGGGGGCCATCAGCCATAAC +GCCATGCAGCAGCGTAGCCTGTGGCGCGAAGTATTCACGCCAATTGTACTGATGTATACG +CTGGCCTATTTTTGCCTTACCAATACGCTTAGCGCCATTAGTATCTGGACGCCGCAAATC +CTGAAAAGTTTTAATGAAGGCAGCAGCAATATCACCATCGGCCTGCTGGCGGCGATCCCG +CAGATTTGTACTGTTCTGGGCATGATTTACTGGAGCCGCCATTCGGACAAACATCAGGAG +CGTAAACACCACACTGCGTTACCGTTCCTGTTTGCCGCCGCGGGCTGGCTGCTGGCGTCG +GCGACCGACCGTAACCTGATCCAGCTCCTGGGGATCGTGATGGCATCCACGGGTTCCTTT +AGCGCGATGGCGATCTTCTGGACCACGCCGGATCAGTCGATCAGTTTACGCGCCAGGGCG +ATAGGCATTGCGGTCATCAATGCCACCGGCAATATTGGCTCCGCGCTCAGCCCGGTTATG +ATTGGCTGGCTAAAAGATATCACTGGTAGCTTCAATAGCGGACTCTGGTTTGTCGCTTCT +CTGTTAGTCGTCGGCGCCGCCATTATCTGGCTCATTCCCATGAAAGCATCGCGTCCGCGC +GCCACCCCTTGAATGGGCAAGTTAGCGTTAGCAGCAAAAATTACCCACGTGCCGTCGATG +TATCTTTCTGAACTGCCAGGAAAAAATCACGGTTGTCGTCAGGCAGCCATTGATGGGCAT +ATTGAAATTGGCAAGCGTTGCCGCGAAATGGGCGTTGACACCATTATCGTATTCGACACC +CACTGGCTGGTGAATAGCGCTTACCACATTAATTGTGCCGACCATTTCCAGGGCGTCTAT +ACCAGCAACGAATTGCCGCACTTTATTCGCGACATGACCTATGACTATGACGGTAATCCG +GCGCTCGGCCATCTGATCGCCGACGAGGCGGTCAAACTGGGCGTGCGCGCCAAAGCGCAC +AACATCCCGAGCCTGAAGCTGGAGTATGGCACGCTGGTGCCGATGCGCTACATGAACAGC +GACAAGCACTTCAAAGTGGTCTCCATCTCGGCGTTCTGCACTGTGCATGATTTTGCCGAC +AGCCGCAAACTGGGCGAAGCCATTCTCAAGGCGATTGAGAAATATGACGGTACCGTAGCG +GTATTCGCCAGTGGTTCTCTGTCGCACCGTTTTATTGACGACCAACGGGCGGAAGAGGGG +ATGAACAGCTACACCCGCGAGTTCGATCATCAAATGGACGAGCGCGTGGTCAAGCTGTGG +CGCGAAGGCAAATTCAAGGAGTTTTGCACCATGTTGCCGGAGTACGCCGACTACTGCTAC +GGCGAAGGCAACATGCACGACACGGTCATGCTACTGGGAATGCTGGGGTGGGACAAATAC +GACGGCAAGGTGGAGTTCATCACCGACCTGTTCGCCAGCTCCGGTACCGGCCAGGTAAAC +GCTGTTTTCCCGCTGCCTGCGTAAATGAAGAAAATAAATCATTGGATTAACGGCAAAAAC +GTTGCAGGTAACGACTACTTCCAGACCACTAACCCGGCGACCGGTGATGTGCTGGCGGAA +GTAGCCTCCGGCGGTGAAGCAGAAGTGAACCAGGCTGTCGCGGCGGCAAAAGAGGCGTTC +CCGAAATGGGCCAACCTGCCGATGAAAGAGCGCGCGCGCCTGATGCGCCGCCTTGGCGAC +CTGATTGACCAGCATGTGCCGGAAATCGCGGCGATGGAAACCGCCGACACCGGCCTGCCT +ATTCACCAGACTAAAACGTGCTGAGTGCTGATCCCGCGCGCCTCGCATAACTTCGAATTC +TTCGCCGAAGTGTGCCAGCAGATGAACGGCAAGACCTATCCGGTTGACGATAAAATGCTC +AATTATACGCTGGTGCAGCCCGTCGGCGTCTGCGCGCTGGTGTCGCCGTGGAACGTGCCG +TTTATGACCGCGACTTGGAAAGTTGCGCCGTGCCTGGCGCTGGGTAACACCGCGGTGCTC +AAAATGTCCGAGCTGTCGCCGCTGACTGCCGACAGGCTGGGCGAGCTGGCACTGGAGGCA +GGAATTCCGGCAGGCGTGCTGAACGTGGTGCAGGGCTACGGCGCGACGGCGGGCGATGCG +CTGGTACGCCACCATGACGTGCGTGCGGTGTCGTTTACCGGCGGTACCGCCACCGGTCGC +AATATCATGAAAAATGCCGGGCTGAAAAAATACTCGATGGAGCTGGGCGGCAAATCGCCG +GTGCTGATTTTTGAAGACGCCGACATTGAGCGCGCGCTGGACGCCGCGCTGTTCACCATC +TTCTCGATCAACGGCGAACGCTGCACCGCTGGGTCGCGCATCTTTATCCAGCAGAGCATT +TACCCTGAGTTCGTGAAGCGCTTTGCCGAACGCGCGAATCGCCTGCGTGTCGGCGATCCG +ACCGACCCGAACACCCAGGTCGGCGCGCTGATTAGCCAACAGCACTGGGAGAAAGTCTCC +GGTTATATCCGCCTCGGCATTGAAGAGGGGGCAACGCTGCTGGCGGGCGGTGCGGAAAAA +CCCACTGACCTGCCTGCGCATCTGAAAGGCGGTAACTTCCTGCGCCCAACCGTGCTGGCC +GATGTCGACAACCGTATGCGCGTTGCGCAGGAAGAGATCTTTGGGCCGGTCGCCTGCCTG +CTGCCATTCAAAGACGAAGCGGAAGGGTTACGTTTGGCGAACGATGTGGAATACGGTCTG +GCCTCTTATATCTGGACCCAGGACGTGAGCAAAGTGTTGCGCCTGGCGCGTGGGATTGAA +GCCGGCATGGTCTTCGTCAACACCCAGAACGTCCGCGACCTGCGCCAGCCGTTCGGCGGC +GTGAAAGCCTCCGGTACCGGGCGCGAAGGCGGCGAATATAGCTTCGAAGTGTTTGCGGAA +ATGAAAAACGTCTGCATCTCAATGGGCGACCATCCTATCCCAAAATGGGGAGTTTGAATG +CCGCACTTTATTGCTGAATGTACTGAAAATATTCGCGAGCAGGCTGATTTACCAAGCCTG +TTCAGCAAGGTAAACGAGGCGCTGGCCGCCACCGGGATTTTCCCCATCGGCGGTATCCGC +AGTCGCGCCCACTGGCTGGATACCTGGCAGATGGCTGACGGTAAGCATGATTACGCGTTT +GTGCATATGACGCTGAAAATCGGCGCCGGGCGCAGCCTGGAGAGCCGTCAGGAAGTCGGC +GAAATGCTGTTTGGGCTGATTAAAGCCCACTTCGCCGACCTGATGGAGAACCGCTATCTG +GCGCTGTCGTTTGAGATTGCCGAGTTACATCCAACGCTCAATTACAAACAAAACAACGTA +CACGCGTTATTTAAATAGATGCTCGATAAACAGACCCATACCCTGATCGCTCAGCGACTT +AATCAGGCTGAAAAACAGCGTGAACAGATTCGCGCAGTGTCGCTGGATTATCCCAACATC +ACTATTGAAGATGCCTATGCCGTACAGCGTGAATGGGTCAATATCAAGATTGCCGAAGGG +CGCACGCTCAAAGGCCACAAAATCGGCCTGACCTCAAAAGCGATGCAGGCCAGCTCGCAA +ATCAGCGAACCGGATTACGGCGCGCTGCTTGACGATATGTTCTTCCATGACGGCGGAGAT +ATCCCCACCGACCGTTTTATCGTCCCGCGTATTGAAGTGGAGCTGGCGTTCGTGCTGGCG +AAACCGCTGCGCGGCCCTCACTGCACGCTGTTCGACGTCTACAACGCCACGGATTATGTG +ATTCCGGCGCTGGAACTGATTGACGCCCGCAGCCACAACATCGACCCGGAAACCCAGCGC +CCGCGCAAAGTGTTCGACACCATTTCCGACAACGCCGCCAACGCCGGGGTGATCCTCGGT +GGTCGCCCCATCAAACCAGACGAGCTGGATCTGCGCTGGATCTCCGCGCTGCTCTATCGC +AACGGCGTGATCGAAGAAACCGGCGTCGCCGCAGGCGTGCTGAATCATCCGGCCAACGGC +GTGGCGTGGCTGGCGAACAAGCTTGCCCCCTACGATGTCCAGCTTGAAGCCGGGCAGATC +ATCCTCGGCGGCTCGTTCACCCGCCCGGTGCCGGCGCGCAAGGGCGACACCTTCCATGTC +GATTACGGCAACATGGGCGCGATCAGTTGCCGGTTTGTGTAAATGAGCTCTGTACCCGCG +CCGCGTGAATATTTTCTTGACTCTATCCGCGCATGGCTGATGTTGTTAGGGATTCCCTTT +CATATCTCGTTGATCTATTCCACTCACAGTTGGCATGTCAATAGCGCCGCGCCATCGTGG +TGGCTAACCCTGTTTAACGATTTTATCCACGCTTTTCGTATGCAGGTGTTTTTTGTTATT +TCTGGTTATTTTTCGTACATGTTATTTTTACGTTATCCATTAAAACACTGGTGGAAAGTA +CGGGTAGAACGTGTGGGTATTCCCATGCTTACCGCAATCCCTTTGCTTACCTTGCCGCAA +TTTATCCTGTTGCAATATGTCAAAGAGAAAACAGAGAACTGGCCTACACTCTCTGCCTAT +GAAAAATATAATACGTTAGCGTGGGAACTCATTTCACATCTGTGGTTTTTACTGGTGCTG +GTGATATTAACCACCGTCAGCATCGGGATTTTTACCTGGTTCCAAAAAAGGCAGGAAACA +AGCAAGCCTCGTCCCGCCGCTATTTCGCTGGCCAAACTTTCGCTTATTTTTTTCCTGCTG +GGGGTGGCGTACGCTGCTATCAGGCGCATTATATTCATCGTATATCCGGCAATCCTCAGT +GACGGCATGTTCAATTTTATTGTGATGCAAACGCTATTTTATGTGCCGTTTTTTATTCTC +GGCGCGTTGGCCTTCATTCACCCCGATCTGAAAGCGCGCTTCACCACGCCCTCACGCGGA +TGCACTTTAGGCGCTGCCGTTGCTTTTATCGCGTATCTGCTGAATCAACGTTATGGGAGC +GGCGACGCCTGGATGTACGAAACCGAATCCGTGATTACGATGGTAATGGGGCTATGGATG +GTGAACGTGGTATTTTCACTGGGGCATCGCTTGTTAAACTTTCAGTCCGCGCGTGTCACC +TATTTCGTGAATGCTTCGCTGTTTATTTATCTGGTGCATCATCCCTTAACGCTTTTCTTT +GGCGCGTATATTACACCGCATATCTCCTCCAACCTGATCGGGTTCTTGTGCGGGCTGATA +TTTGTTATGGGTATTGCGTTAATTCTGTATGAAATTCATTTACGCATCCCGCTCCTGAAA +TTTCTCTTTTCAGGTAAACCGCCGGTAAAACAAGAAAGCCGCGCCGCGATCGGGTAGATG +AAACATAAACGACAAATGATGAAAATGCGTTGGTTGGGCGCAGCTATTATGTTAACGCTC +TACGCATCATCGAGCTGGGCGTTCAGTATTGATGACGTGGCAAAACAAGCTCAATCTTTA +GCCGGGAAAGGCTATGAGGCGCCTAAAAGCAACTTGCCCTCCGTTTTCCGCGACATGAAA +TATGCGGATTATCAGCAGATCCAGTTTAACAGCGATAAAGCCTACTGGAACAACTTAAAG +ACCCCTTTTAAGCTCGAATTTTACCATCAGGGGATGTACTTCGATACGCCGGTCAAGATT +AACGAAGTGACGGCGACGACGGTCAAAAGAATCAAATACAGCCCGGATTACTTCAATTTT +GGCAATGTTCAGCACGATAAAGACACGGTAAAAGATTTAGGCTTCGCCGGGTTCAAAGTC +CTGTACCCCATTAACAGTAAAGATAAGAACGACGAAATCGTCAGTATGCTTGGCGCCAGC +TATTTCCGCGTTATCGGCGCAGGCCAGGTGTATGGCTTATCTGCGCGCGGCCTGGCGATT +GATACCGCCTTACCATCTGGTGAAGAGTTTCCCCGCTTTCGCGAGTTCTGGATTGAGCGT +CCAAAACCCACCGATAAGCGTTTGACCGTCTATGCATTACTGGATTCTCCGCGCGCGACC +GGCGCTTACCGTTTTGTGATCATTCCTGGCCGCGATACCGTGGTGGACGTGCAGTCAAAA +GTCTATCTGCGCGATAAGGTGGGCAAGCTGGGCGTTGCGCCATTAACCAGTATGTTCCTG +TTTGGGCCAAACCAGCCGTCGCCGACGACCAACTATCGTCCGGAATTGCATGACTCGAAC +GGCTTATCCATTCATGCGGGTAATGGCGAGTGGATTTGGCGTCCGCTGAACAATCCAAAA +CACCTCGCTGTGAGCAGCTATGCGATGGAAAACCCTCAGGGATTCGGCCTGTTGCAGCGT +GGTCGCGAGTTCTCGCGCTTTGAAGATTTAGACGATCGCTATGACCTGCGTCCAAGCGCC +TGGATTACCCCGAAAGGCGACTGGGGCAAAGGTAAGGTTGAACTGGTTGAAATTCCGACC +AATGATGAAACCAACGATAACATCGTCGCTTACTGGACTCCGGATCAACTGCCGGAACCG +GGTAAAGAGATGAACTTCAAGTACACTCTGACCTTCAGCCGCGATGAAGATAAACTTCAT +GCGCCGGATAATGCCTGGGTGCTGCAAACACGCCGCTCAACGGGCGACGTTAAACAGTCG +AATCTGATTCGCCAGCCCGACGGCACTATTGCCTTTGTGGTGGATTTCGTTGGCGCCGAC +ATGAAAAAACTGCCGCCGGATACGCCCGTCGCTGCACAAACCAGCATTGGCGATAACGGT +GAAATCGTTGACAGTAATGTACGCTATAACCCAGTCACTAAAGGCTGGCGTTTAATGCTG +CGCGTGAAAGTCAAAGACGCGAAGAAAACCACGGAAATGCGTGCCGCATTGGTGAATGCC +GATCAGACGCTAAGTGAAACCTGGAGCTACCAGTTACCTGCCAATGAATAAATGAATAAA +ACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCATTGCCGAAA +ACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTACTCGCGAGAA +GACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCGGATTCATTG +GCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCTATGCCAAAA +GCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGCCGTTTCTGG +GATCGCCTGCGTGGGCGGGATGTTACGCCGCGCTATGTTTCTCGTCTGACAAAAGAAGAG +CAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATTTTGTTAATT +TTGACTCTGGCGCAAACCGTCGTTGCGACCTGGTATATGAAGACCATTCTGCCCTATCAG +GGATGGGCGCTCATCAATCCTATTGATATGGTGGGGCAGGATATTTGGGTCTCCTTTATG +CAGCTCCTGCCCTACATGCTGCATACCGGTATCCTGATTTTGTTTGCCGTGCTGTTCTGC +TGGGTGTCTGCCGGATTCTGGACTGCGCTGATGGGCTTCCTGCAACTGCTTATCGGGCGC +GATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCGGAACACCAG +ACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCCGGTCTGCGC +GCGACCTGGGAGTCCGTTAAAGCTACAGGCAACGCCGCGCATTTTGACGTCTATATCCTT +AGCGATAGTTATAACCCGGATATTTGCGTGGCGGAGCAAAAGGCGTGGATGGAGCTCATC +GCGGAAGTGCAGGGCGAAGGCCATATTTTTTACCGTCGCCGCCGCCGCCGTATGAAACGC +AAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGCTATATGGTG +GTGCTGGACGCGGACTCAGTGATTAGCGGCGAGTGTCTGAGCGGGCTGGTGCGCCTGATG +GAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGGATGGATACT +CTGTATGCCCGCTGCCAACAGTTTGCGACCCGTGTTTATGGACCGCTGTTTACCGCCGGG +CTGCACTTCTGGCAGTTGGGGGATTCGCACTACTGGGGGCACAATGCCATTATCCGCGTG +AAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCGTTCGCCGGA +TCGATTCTTTCCCACGACTTTGTTGAGGCGGCGCTAATGCGTCGGGCAGGGTGGGGCGTC +TGGATTGCCTACGATCTCCCCGGTTCCTATGAAGAGCTGCCGCCAAACCTGCTGGATGAG +CTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTGTTCCTGGTG +AAAGGAATGCACCCGGTGCATCGTGCCGTGTTCCTGACCGGGGTAATGTCATACCTGTCC +GCGCCGTTATGGTTTATGTTCCTTGCGCTTTCTACCGCGCTGCAGGTCGTTCATGCGTTA +ACAGAGCCGCAATATTTCCTTCATCCGCGCCAGCTTTTTCCGGTCTGGCCGCAGTGGCGT +CCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTGCCGAAGCTG +CTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTCTGGCGCGTT +ACGCTGTCGCTATTGCTGGAAGTTCTGTTCTCCGTGTTGCTGGCGCCGGTGCGTATGCTG +TTTCATACCGTGTTTGTGGTCAGTGCGTTCCTCGGCTGGGAAGTGGTCTGGAACTCACCG +CAACGCGACGATGATTCTACGCCTTGGGGAGAAGCCTTTATGCGTCACGGCTCTCAACTG +CTGCTGGGGCTGGTCTGGGCGGTTGGTATGGCGTGGCTGGATTTACGCTTTCTGTTCTGG +CTGGCGCCGATTGTCTTTTCGCTTATTCTGTCGCCATTTGTTTCGGTGATCTCCAGTCGT +TCAACGGTAGGATTACGCACCAATCGCTGGAAGCTGTTCCTGATCCCGGAAGAGTATTCG +CCGCCTCAGGTGTTGGTCGATACTGATAAATATCTGGAGATGAATCGCCGCCGTATTCTG +GACGATGGCTTTATGCATGCGGTTTTTAACCCGTCGCTTAATGCGCTGGCGACCGCGATG +GCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGTCATGTGGAG +CAGGCGCTAAACGAAACGCCGGATAAACTGAACCGCGATCGGCGTCTGGTTTTGCTCAGC +GATCCGGTGACGATGGCGCGTTTTCACTATCGGGTCTGGAATGCGCCAGAGAGATACTCT +TCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAGGGACGAACA +TCGTCAGCGGGATAAatgtcgcgcgtctcgnnggcgaggaacctgggtaaatattttctt +ctcatcgataacatgttagtggtgctgggtnntttcgtcgtcttcccgctcatctctatt +cgctttgtcgatcaaatggggtgggctgccnnaatggtagggatcgcgctcggcctgcgt +cagtttattcaacaaggtctgggcatttttnncggcgccatcgccgatcgctttggcgcg +aaaccgatgattgtcaccggtatgctgatgnncgccgcaggctttgccaccatgggtatc +gcgcatgagccctggctcttgtggttttccnnctttctttccggtctcggcggtacgctt +ttcgacccgccgcgttcagcgctggtggtcnnattaattcgtccggagcaacggggccgc +ttcttctctctgttgatgatgcaggacagcnngggcgcggtgattggcgcgctgctggga +agctggttgctacaatacgattttcgcctgnnctgcgcgacgggcgctattttgttcata +ttatgcgcccttttcaacgcatggctgcttnnggcctggaagctatcaacggccagaacg +ccggtgcgtgaaggaatgcgccgcgtcatgnncaataaaaggtttgtcacctacgtgctg +acgctggcgggctactatatgctggcggtannggtcatgttaatgctgccgattatggta +aacgatatcgccggttcgcctgctgccgtgnnatggatgtacgctattgaggcgtgtctc +tcgctgacgttgctctacccgattgcccgcnngagcgaaaagcgttttcggctggagcat +cggctgatggccggtttgctcgtcatgtcgnngagcatgctccccatcgggatggtgggc +aatttacagcagctttttacgcttatttgcnntttctacatcggctcggttatcgccgaa +ccggcgcgcgaaacgctcagcgcgtcgcccnnggacgcgagggcgcggggaagctatatg +ggctttagccgtctgggattagccattggcnncgcgattagttatatcggcggcggctgg +ttgtttgatatgggtaaagcgcttgcgcagnntgaactaccgtggatgatgctcggtatt +atcggctttatcacctttttggctttaggcnngcaatttagtcataagcgcacgccgcgc +cggatgctggaacccggcgcctgaATGACCAAGTATGCCACGCTGGAAGAAGCTATCGAT +GCAGCCCGGGAAGAATTTCTGGCTGACCATCAAGGCCTCGAACAAGACGAAGCGAATGTG +CAGCAGTTCAACGTTCAGAAATATGTACTGCAGGATGGGGACATCATGTGGCAGGTCGAA +TTTTTCGCCGATGAAGGTGAAGATGGCGAATATCTGCCGATGCTGAGTGGTGAAGCCGCA +CAGAGCGTGTTTGACGGCGATTATGATGAGAAAGAGATCCGCCAGGAATGGCAGGAAGAG +AATACTTTGCATGAATGGGATGAAGGGGAATACCAGCTTGAACCCCCGCTTGATACCGAG +GAAGGCCGTACTGCGGCAGACGAATGGGATGAGCGTTAAATGTCACTATTAGCCAGGCTG +GAACAAAGTGTACACGAAAACGGTGGGCTGATTGTCTCATGCCAACCGGTACCAGGCAGC +CCTATGGATAAACCTGAAATTGTGGCTGCAATGGCACAGGCAGCGGCTTCGGCGGGTGCG +GTCGCTGTGCGCATTGAAGGCATTGAGAATCTGCGGACTGTTCGTCCCCATCTTTCTGTT +CCTATTATTGGGATAATTAAACGTGACCTTACAGGGTCGCCAGTCCGTATCACTCCATAT +TTACAGGATGTTGACGCCCTGGCGCAGGCAGGTGCCGATATTATCGCTTTTGATGCCTCA +TTCCGCTCTCGCCCGGTTGATATTGATAGTTTACTGACACGTATTCGCCTGCATGGATTA +CTGGCGATGGCAGACTGTTCAACCGTGAATGAAGGCATAAGTTGCCATCAGAAAGGAATC +GAATTCATTGGTACAACACTGTCTGGCTATACCGGTCCCATCACGCCGGTTGAGCCAGAT +TTGGCAATGGTGACACAACTGAGTCATGCAGGTTGTCGTGTTATTGCCGAGGGGCGCTAT +AACACGCCTGCACTGGCGGCCAATGCTATTGAGCATGGTGCCTGGGCAGTTACCGTTGGT +TCCGCTATCACCCGTATCGAGCATATCTGTCAGTGGTTCAGTCACGCAGTAAAACGCTGA +ATGAAAAATTTTAAGAAAATGATGACGCTAATGGCGCTATGTTTATCAGTTGCTATCACC +ACATCAGGATATGCAACCACGCTTCCTGATATACCAGAACCACTGAAAAATGGTACTGGC +GCTATTGATAATAATGGCGTGATTTATGTCGGCTTAGGTACCGCAGGGACATCCTGGTAT +AAAATTGATCTTAAAAAGCAACATAAAGACTGGGAGCGTATAAAGTCGTTTCCTGGTGGA +GCTCGTGAGCAATCCGTGTCGGTATTTTTAAATGATAAGCTGTATGTTTTTGGTGGCGTA +GGGAAAAAAAACAGTGAATCACCGTTGCAGGTTTATAGCGATGTGTACAAATACTCACCG +GTGAAAAATACATGGCAAAAAGTTGATACTATATCTCCAGTTGGATTAACAGGGCATACG +GGAGTAAAATTAAACGAAACGATGGTACTTATTACCGGAGGGGTTAATGAGCATATCTTT +GATAAGTATTTTATTGATATAGCGGCTGCGGATGAAAGTGAAAAAAATAAAGTCATCTAT +AATTATTTTAATAAACCTGCCAAAGATTATTTTTTTAATAAAATCGTATTTATCTACAAT +GCTAAAGAGAACACATGGAAGAATGCCGGTGAGCTGCCAGGCGCGGGGACGGCAGGATCG +TCATCGGTAATGGAAAATAATTTCTTGATGCTGATTAATGGTGAGCTCAAACCGGGTTTA +CGTACCGATGTGATTTACCGCGCCATGTGGGATAACGATAAGCTAACATGGTTGAAGAAC +AGCCAGTTACCGCCATCGCCTGGAGAACAACAGCAGGAAGGGTTGGCCGGAGCATTTTCG +GGCTATAGCCACGGTGTCCTGCTTGTCGGTGGTGGCGCGAATTTTCCGGGAGCAAAACAA +AATTATACTAATGGAAAGTTTTATTCCCACGAAGGGATAAATAAAAAATGGCGAGATGAA +GTCTATGGTTTGATTAATGGCCATTGGCAATATATGGGTAAAATGAAACAACCTCTCGGC +TATGGTGTATCAGTAAGTTATGGTGATGAAGTTTTCCTTATTGGTGGTGAAAATGCTAAA +GGGAAACCTGTTTCGTCTGTAACCTCCTTTACCATGCGTGATGGTAATTTATTAATAAAA +TAAGTGATAGCAAAATTCTTCCCGTGGTATAGCGAGATAACACGTCCACAAAAAAATGCT +TTATTTTCAGCATGGCTGGGTTACGTTTTTGATGGCTTCGACTTTATGCTGATTTTCTAC +ATTATGTATCTGATCAAGGCTGACTTAGGATTGACAGATATGGAGGGCGCATTCCTTGCC +ACAGCGGCCTTTATTGGGCGACCATTTGGCGGGGCGCTATTTGGTCTGCTGGCAGACAAA +TTTGGCCGTAAGCCGTTAATGATGTGGTCGATAGTTGCCTATTCTGTAGGTACAGGGTTA +AGTGGCCTGGCTTCCGGTGTAATTATGCTGACGCTTAGTCGTTTTATTGTCGGTATGGGG +ATGGCGGGGAAGTATGCTTGCGCTTCTACTTATGCCGTGGAAAGTTGGCCAAAGCATTTA +AAATCTAAAGCGAGCGCATTTCTGGTTTCAGGTTTCGGTATTGGTAACATCATAGCAGCC +TATTTTATGCCGTCATTTGCCGAAGCGTATGGTTGGCGTGCTGCTTTTTTTGTCGGTTTG +CTACCCGTTCTTTTAGTAATCTACATCCGGGCCAGGGCTCCTGAATCTAAAGAGTGGGAA +GAAGCCAAACTCAGTGGTCTCGGAAAGCATTCACAAAGTGCCTGGTCAGTTTTCTCTTTG +TCAATGAAAGGGCTATTTAATCGAGCTCAATTTCCACTGACATTATGTGTATTTATTGTT +CTGTTCTCTATTTTCGGCGCAAACTGGCCGATCTTTGGTCTACTGCCTACATATTTGGCG +GGAGAGGGCTTTGATACGGGCGTGGTCTCTAATTTAATGACGGCGGCGGCATTCGGCACT +GTATTGGGAAATATCGTTTGGGGTCTGTGCGCAGATAGAATTGGTTTGAAGAAAACGTTC +AGCATTGGTCTTCTCATGTCCTTTTTATTCATTTTCCCGTTATTCAGAATTCCGCAAGAT +AATTATTTACTGCTGGGCGCATGTTTATTCGGTTTAATGGCGACTAACGTAGGTGTTGGC +GGGCTGGTTCCCAAATTTCTCTACGACTACTTTCCTCTTGAGGTTCGTGGTTTGGGTACC +GGGCTTATTTATAATCTTGCTGCGACATCAGGCACATTCAATTCAATGGCGGCGACCTGG +CTTGGAATAACAATGGGGCTAGGCGCTGCGCTAACGTTCATTGTTGCTTTCTGGACCGCA +ACAATTCTACTCATTATTGGCCTATCCATTCCGGATAGACTAAAAGCACGTCGTGAAAGG +TTTCAGTCAACAAAAGAATTTTAAATGAAAAAGTATCTTGCTTTCGCCGTTACGCTGCTG +GGTATGGGTAAAGTCATCGCCTGTACTACCCTTTTGGTAGGCAATCAGGCTTCGGCTGAC +GGCTCCTTTATTATCGCGCGCAACGAGGATGGCTCGGCAAATAACGCCAAGCATAAGGTT +ATTCATCCCGTCGCGTTTCATCAACAAGGCGAGTATAAAGCACATCGCAACAATTTTAGC +TGGCCGCTTCCGGAGACAGCGATGCGCTATACGGCGATTCATGACTTTGATACTAACGAT +AACGCCATGGGTGAAGCCGGTTTCAATTCGGCGGGCGTCGGAATGAGCGCAACGGAAACC +ATTTACAACGGCAGAGCGGCGCTGGCTGCCGATCCTTACGTGACAAAAACGGGAATCACG +GAAGACGCCATTGAGTCCGTGATCCTGCCAGTGGCGCAATCGGCGCGTCAGGGCGCCAAA +TTACTGGGAGATATTATTGAACAAAAAGGCGCGGGCGAAGGTTTCGGCGTCGCGTTTATT +GATAGCAAAGAGATATGGTATCTGGAGACGGGAAGCGGACATCAATGGCTGGCAGTACGA +CTTCCGGCAGATAGCTATTTCGTTTCCGCCAATCAGGGACGTTTACGCCATTACGATCCG +AATGATAACGCGAATTATATGGCGTCACCAACGTTAGTAAGCTTTGCGAAAAAGCAGGGA +TTATATGATCCGGCCCGCGGCGAATTCGACTTTCATCAAGCCTATTCGCAGGATAACAAA +AACGATACCACCTATAATTATCCGCGCGTCTGGACGCTACAACACCAGTTTAATCCGCAT +CTGGATACGGTCGTTAGCGAAGGGGAAACATTTTCTGTTTTTTTAACGCCAATAACGAAG +ATCAGCGTGGCGGCAGTAAAAAACGCGTTACGCAATCACTATCAGGGAACGTCGCACGAC +CCTTATGCCAGTCATAATCCACAAGAACCATGGCGACCTATATCCGTTTTTCGTACCCAG +GAGTCACATATTTTACAGGTCAGACCGAAATTACCGCAGGCTATCGGCAACGTAGAATAC +ATCGCCTATGGAATGCCATCTCTTAGCGTCTATCTCCCCTATTACCAGGGGATGCGTCAT +TATCAACCCGGAGATGATAAAGGAACCGATCGGGCGAGCAACGACTCTACCTACTGGACA +TTCCGCACGCTGCAAACACTGGTTATGCAAGACTACAATACGTTTGCGCCAGATGTGCAA +CATGCCTGGAAAACATTTGAACAGCAAACAGCTAAGCAACAGTATAAGATGGAGCAGAGC +TATCTGAGATTATATGCGTCGCATCCGAAAGAAGCACAACGCTTACTGCAAAATTTTGAA +GATAAAACGATGCAAAATGCGCAGACGCTCGCCCGTCGCCTGACCAATAATATTATTACG +ACAATGACTTACCGCACAGATATGAAATATCACTTTTCAAGTACGCAGCCATAAATGGGA +AGACAAAAAGCAGTGATCAAAGCTCGTCGTGAAGCAAAGCGTGTGTTGAGACGAGATTCG +CGTAGTCATAAGCAACGTGAAGAAGAATCGGTCACGTCACTGGTACAGATGGGCGGAGTA +GAAGCCATTGGCATGGCGCGCGATAGTCGCGATACCTCTCCTGTTAAGGCGCGAAATGAA +GCACAGGCGCATTATCTGAACGCTATCGACAGTAAACAGCTTATTTTTGCGACCGGCGAA +GCCGGCTGCGGAAAAACATGGATCAGTGCGGCAAAGGCGGCAGAAGCATTGATTCATAAG +GACGTCGAGAGGATCATTGTGACGCGTCCGGTATTGCAGGCTGATGAAGATCTTGGTTTT +TTGCCCGGTGATATCGCTGAAAAATTCGCGCCTTATTTTCGTCCCGTCTACGATGTCCTG +CTTAAACGGTTGGGCGCGTCCTTTATGCAATATTGTTTGCGCCCGGAAATCGGTAAGGTA +GAAATTGCCCCGTTCGCCTATATGCGTGGGCGTACTTTTGAAAATGCGGTCGTGATCCTC +GACGAGGCGCAAAATGTGACTGCGGCGCAAATGAAAATGTTTTTGACGCGATTAGGCGAA +AATGTCACGGTCATTGTCAATGGCGATATTACGCAATGCGACCTGCCGCGCGGTGTGCGT +TCCGGGTTGAGTGATGCGTTGGAACGCTTTGAAGAAGATGAAATGGTGGGGATTGTGCAT +TTCAACAAAGACGACTGCGTGCGCTCGGCGCTTTGTCAGCGAACGCTCCACGCATACAGC +TAAATGGGAACCACCACGATGGGGGTTAAGCTGGACGACGCCACGCGCGAACGGATCAAA +ATGGCCGCGTCGCGTATCGATCGCACGCCGCACTGGTTAATAAAACAGGCAATCTTTAGC +TATCTGGACAAGCTGGAAAATAGCGATACGCTACCGGAGCTACCTGCGCTGTTTGCCGGC +GCGGCAAATGAAAGCGAGGAGCCGGTCGCGCCGCAGGATGAGCCGCATCAGCCCTTTCTG +GAGTTTGCCGAACAGATTCTTCCCCAATCCGTCTCTCGCGCCGCCATCACCGCCGCCTGG +CGCCGCCCGGAAACCGATGCGGTGTCAATGCTAATGGAACAGGCGCGCCTGTCGCCGCCT +GTCGCTGAGCAGGCGCATAAACTGGCGTATCAACTGGCGGAGAAATTGCGCAATCAAAAA +TCCGCCAGCGGTCGCGCGGGTATGGTGCAAGGCCTGTTGCAGGAGTTTTCCCTCTCTTCG +CAAGAAGGCGTAGCGCTGATGTGTCTGGCGGAAGCGCTGCTGCGTATTCCCGACAAAGCT +ACGCGCGATGCGTTAATTCGCGACAAAATCAGTAATGGCAACTGGCAGTCGCATATTGGC +CGTAGCCCGTCGCTGTTTGTAAACGCCGCCACCTGGGGGCTGCTCTTTACCGGCCGACTG +GTCTCAACGCATAACGAAGCCAATCTTTCGCGCTCGCTGAACCGCATTATCGGCAAGAGC +GGCGAACCGTTAATCCGCAAAGGCGTCGACATGGCGATGCGTTTAATGGGCGAGCAGTTC +GTGACTGGCGAAACCATTGCTCAGGCGCTGGCGAATGCCCGAAAACTGGAAGAGAAAGGG +TTCCGCTATTCTTACGATATGCTGGGCGAAGCCGCGTTAACCGCCGCCGATGCGCAGGCC +TATATGGTCTCTTACCAGCAAGCGATTCATGCCATCGGCAAAGCGTCTAACGGTCGCGGT +ATTTACGAAGGGCCAGGCATCTCGATTAAGCTGTCCGCCCTGCATCCACGCTATAGTCGC +GCGCAATACGATCGGGTAATGGAGGAGCTTTATCCGCGCCTGAAATCCCTGACGCTGCTG +GCGCGCCAGTATGATATCGGTCTCAATATCGACGCCGAAGAGGCGGATCGTCTGGAGATC +TCGCTTGATCTGCTGGAAAAACTCTGCTTCGAACCCGAACTGGCGGGCTGGAACGGCATT +GGCTTTGTGATTCAGGCTTACCAGAAACGCTGCCCGCTGGTCATTGATTATTTAGTCGAT +CTGGCCTCCCGTAGCCGCCGTCGGCTGATGATTCGTCTGGTGAAAGGCGCCTACTGGGAT +AGCGAGATCAAACGCGCGCAAATGGAAGGGCTGGAGGGCTATCCAGTTTATACCCGCAAA +GTGTATACCGATGTCTCTTATCTGGCCTGCGCGAAAAAACTGCTCGCCGTCCCTAATCTG +ATCTACCCGCAGTTCGCGACCCATAACGCTCACACACTGGCGGCGATTTATCATCTGGCC +GGGCAAAATTACTATCCGGGTCAGTACGAATTCCAGTGCCTGCACGGCATGGGAGAACCG +CTGTATGAACAGGTCACCGGTAAAGTGGGGGACGGAAAACTTAACCGTCCCTGCCGTATT +TACGCGCCGGTGGGAACACACGAAACCCTGCTGGCCTATCTGGTACGACGCCTGCTGGAA +AACGGCGCCAACACCTCTTTTGTCAACCGCATCGCCGATGCCACCCTACCGCTCGATGAA +CTGGTGGCCGACCCGGTCGAGGCCGTGGAAAAACTGGCGCAGCAGGAAGGTCAGGCTGGC +ATACCGCATCCAAAAATTCCGCTGCCGCGCGATCTGTACGGCGAAGGTCGGATAAACTCC +GCCGGACTTGATTTAGCGAATGAACATCGCCTCGCCTCGCTTTCTTCTGCCCTGTTAAGC +AACGCCATGCAGAAATGGCAGGCCAAACCTGTGCTGGAACAACCGGTGGCCGACGGTGAG +ATGACGCCGGTTATCAACCCGGCGGAACCGAAAGATATTGTTGGCTGGGGACGCGAAGCG +ACAGAAAGCGAGGTTGAACAGGCGTTGCAAAACGCGGTCAATCAGGCGCCGGTTTGGTTT +GCGACGCCGCCGCAAGAACGCGCCGCTATTTTGCAGCGGGCGGCGGTATTGATGGAAGAC +CAAATGCAGCAGTTGATTGGCCTGTTGGTGCGTGAAGCGGGGAAAACGTTCAGCAACGCC +ATTGCCGAAGTGCGCGAAGCGGTAGACTTCCTCCATTATTATGCCGGTCAAGTGCGTGAC +GATTTCGATAACGAAACGCATCGCCCGTTAGGGCCGGTGGTCTGTATCAGTCCGTGGAAC +TTTCCGCTGGCCATTTTCACTGGCCAAATCGCCGCCGCGCTGGCGGCAGGTAACAGCGTT +CTGGCGAAACCGGCAGAGCAGACATCGCTGATTGCCGCCCAGGGCATTGCCATTTTGCTG +GAAGCGGGCGTACCGCCGGGCGTCGTGCAACTGTTGCCGGGACGGGGAGAAACCGTCGGC +GCCCAGCTTACCGCCGATGCGCGTGTACGCGGCGTGATGTTTACCGGTTCCACGGAGGTC +GCGACGTTGTTGCAGCGCAACATCGCCACGCGTCTTGACGCCCAGGGGCGCCCTATTCCG +TTGATTGCGGAAACCGGCGGTATGAACGCTATGATTGTCGACTCTTCCGCGCTCACCGAG +CAGGTGGTCGTGGATGTGCTGGCTTCCGCCTTCGACAGCGCCGGACAACGCTGTTCCGCG +CTCCGCGTGCTGTGTTTGCAGGACGATATCGCCGAACATACGCTGAAAATGTTACGCGGC +GCGATGGCGGAGTGTCGGATGGGGAATCCAGGCCGTCTGACGACCGATATCGGGCCGGTG +ATCGATAGCGAGGCCAAAGCCAACATTGAACGTCATATCCAGACGATGCGCGCCAAAGGC +CGCCCGGTTTTCCAGGCCGCGCGTGAAAACAGCGATGACGCGCAGGAATGGCAGACCGGT +ACGTTTGTTATGCCCACGCTTATTGAGCTGGAAAACTTCGCAGAACTGGAAAAAGAGGTC +TTCGGGCCCGTGCTGCACGTCGTGCGTTATAACCGTAACCAACTGGCGGAGCTTATCGAA +CAGATTAACGCTTCCGGCTACGGGCTAACGCTGGGCGTACATACCCGTATTGATGAAACC +ATTGCGCAAGTCACCGGTTCCGCCCATGTCGGCAACCTGTACGTTAACCGTAATATGGTG +GGCGCGGTCGTCGGCGTCCAGCCGTTTGGCGGCGAAGGCCTGTCCGGCACCGGGCCAAAA +GCGGGAGGGCCGCTCTATCTCTACCGCCTGCTGGCACACCGCCCGCCCAATGCGCTCAAT +ACGACGCTGACTCGTCAGGATGCGCGTTACCCGGTGGATGCGCAGCTTAAAACCACGCTA +CTCGCGCCGTTGACCGCTCTGACGCAATGGGCGGCGGATCGCCCGGCGCTACAGACGCTC +TGCCGACAATTCGCCGATCTGGCGCAGGCCGGCACGCAGCGCCTGCTACCGGGGCCGACC +GGCGAGCGTAATACCTGGACGCTGTTGCCGCGTGAACGGGTGTTATGCCTGGCTGATGAT +GAACAGGACGCGTTGACGCAGCTTGCCGCCGTTCTCGCCGTCGGCAGTCAGGCGCTATGG +TCAGACGACGCCTTCCACCGCGATCTGGCGAAACGTCTCCCCGCCGCCGTCGCGGCGCGT +GTCCAGTTTGCGAAAGCGGAAACGCTGATGGCGCAGCCGTTTGACGCGGTGATTTTCCAC +GGCGACTCCGACAAGCTGCGAACCGTGTGCGAAGCCGTCGCCGCCCGCGAAGGCGCGATA +GTGTCGGTACAGGGGTTCGCCCGCGGCGAAAGCAATATGCTGCTGGAACGGCTCTATATT +GAACGTTCGCTGAGCGTAAACACTGCCGCCGCTGGCGGTAATGCCAGCCTGATGACAATT +GGCTAAATGGCTATTAGCACACCGATGTTGGTGACATTCTGTGTCTATATTTTTGGCATG +ATATTGATTGGGTTTATCGCCTGGCGCTCAACCAAAAACTTTGATGACTATATTCTTGGC +GGTCGCAGCCTGGGGCCGTTTGTTACGGCTTTATCAGCCGGCGCGTCGGATATGAGCGGC +TGGCTGTTAATGGGGCTGCCTGGCGCTATCTTTCTGTCGGGGATCTCTGAAAGCTGGATC +GCCATTGGCCTGACGTTAGGCGCATGGATTAACTGGAAGCTGGTGGCCGGGCGCCTGCGC +GTGCATACCGAATTTAACAATAACGCGCTCACGCTGCCGGACTATTTTACCGGTCGGTTT +GAGGATAAGAGCCGAGTCCTGCGTATTATTTCCGCGCTGGTCATTCTGCTGTTTTTCACT +ATCTATTGCGCATCAGGTATTGTCGCTGGGGCACGACTGTTCGAAAGCACCTTCGGTATG +AGCTATGAAACCGCACTGTGGGCGGGGGCCGCGGCAACCATTATTTATACCTTTATCGGC +GGGTTTCTTGCCGTTAGCTGGACGGATACCGTTCAGGCCAGCCTGATGATTTTTGCGTTA +ATCCTGACGCCGGTGATGGTTATTGTCGGCGTAGGCGGTTTTAGCGAGTCGCTGGAAGTG +ATCAAGCAAAAGAGCATCGAGAATGTCGACATGCTCAAGGGGCTGAATTTTGTCGCTATT +ATTTCTCTGATGGGCTGGGGGCTGGGTTACTTCGGTCAGCCGCATATCCTGGCGCGCTTT +ATGGCGGCGGATTCCCATCACAGTATTGTTCATGCGCGTCGTATCAGTATGACCTGGATG +ATTCTGTGTCTGGCGGGCGCGGTGGCGGTGGGCTTCTTTGGCATTGCGTACTTTAACAAT +AACCCCGCGCTGGCCGGGGCGGTGAACCAAAACTCAGAACGCGTATTTATTGAACTGGCG +CAGATCCTGTTTAACCCGTGGATTGCCGGTGTTCTGCTGTCTGCTATCCTGGCGGCGGTG +ATGTCGACGTTGAGCTGTCAGTTGCTGGTATGCTCCAGCGCGATTACGGAAGATTTATAT +AAGGCTTTTCTGCGTAAAAGCGCCAGCCAGCAAGAGCTGGTATGGGTAGGGCGAGTGATG +GTGCTGGTGGTAGCGCTGATCGCCATTGCGCTGGCGGCGAATCCTGATAACCGTGTGCTG +GGGCTGGTGAGCTACGCCTGGGCTGGATTCGGCGCGGCATTTGGACCTGTTGTCCTGTTT +TCTGTGATGTGGTCGCGTATGACACGTAACGGCGCGCTGGCGGGAATGATTATTGGCGCG +GTGACGGTTATCGTCTGGAAACAATATGGCTGGCTGGATCTGTATGAGATTATCCCTGGC +TTCATTTTCGGCAGCCTGGGGATCGTAATCTTTAGCCTGCTTGGCAAAGCGCCGACAGCA +ACGATGCAGGAACGCTTTGCAAAAGCGGACGCGCATTATCATTCCGCGCCGCCGTCGAAG +CTACAGGCGGAATAAATGGCGGGTAAACTGCGGCGTTGGCTGCGTGAAGCCGCGGTTTTT +CTGGCGCTCCTCATCGCGATAATGGTGGTCATGGACGTCTGGCGCGCGCCGCAGGCGCCT +CCGGCGTTTGCCGCGACACCATTACATACGCTGACGGGAGAGTCGACAACTCTGGCGACC +TTGAGCGAGGAACGCCCCGTACTGCTCTATTTTTGGGCCAGCTGGTGCGGGGTATGCCGC +TTTACCACGCCTGCGGTCGCTCACCTGGCGGCGGAAGGGGAAAACGTCATGACCGTTGCG +CTCCGCTCCGGCGGTGATGCTGAGGTTGCCCGCTGGCTGGCGCGCAAGGGCGTTGACTTC +CCGGTCGTCAATGATGCTAACGGCGCCTTATCCGCTGGCTGGGAAATCAGCGTGACGCCA +ACGCTGGTGGTGGTTTCACAAGGTCGGGTTGTGTTCACCACCAGCGGCTGGACCAGCTAT +TGGGGCATGAAGCTTCGGCTGTGGTGGGCAAAAACGTTCTGAATGATGAAAAAAAGCGTC +GCTATGCTGGCGGTTTGTATGCTGGCGCAAAGCCACCTTGCCATTGCTGCCGGTGCTCCT +GCGCCTCAAGAGATCAACATTGTTTTACTGGGCACCAAAGGCGGGCCTTCTTTGCTCAAT +ACAGCCAGACTACCGCAAGCGACGGCGCTCACTATCGGCGATAAGATATGGCTGATAGAT +GCCGGCTACGGCGCCAGTCTGCAACTGGTGAAAAATGGCATTCCACTGCGCAACATCAAT +ACTATTTTGCTCACCCATCTGCACAGCGACCACATACTGGATTATCCTTCCTTGCTGATG +AATGCCTGGGCAAGTGGCCTGAAAGACCATACCATACAGGTTTATGGCCCGCCGGGAACC +CAGGCGATGACGAAGGCTAGCTGGAAGGTCTTTGACAGGGATATCACGTTACGCATGGAA +GAAGAGGGGAAACCCGATCCGCGCAACCTGGTTAAGGCGACCGATATCGGCCAGGGCGTC +ATCTATAAAGATGAACTGGTCACAATAAGCGCGCTGAAAGTGCCTCATTCCCCTTTCCCG +GACGGTGAAGCGTTTGCTTACCGTTTTGATACTCAGGGTAAGCGAATCGTCTTCTCTGGC +GATACGTCCTGGTTTCCTCCGCTTGCAACGTTTGCCCAGGGGGCGGATATCCTGGTACAT +GAGGCGGTACATGTCCCTTCGGTAGCAAAACTGGCTAATAGTATTGGCAACGGAAAAACG +CTGGCTGAAGCGATTGCGTCGCATCACACCACGATTGAAGATGTCGGTAAGATTGCTCGC +GAGGCCCACGTGAAAAAACTGGTGTTAAGTCATCTGGTGCCTGCGACGGTTGCGGATGAC +GTCTGGCAACAGGAAGCCATGAAAAATTACCCGGGCCCTGTCATTGTCGGTCATGACAAT +ATGACGATAAGCGTACCGTAAATGTCGCAACGCACAGAGAAAAAAATCGGGAAACGTTCG +CAGGCCACCGGTGCAAAACGGCAGCTTATCTTAACCGCCGCGCTTGCCGTTTTTTCCCAG +TATGGCATTCATGGCGCGCGTCTTGAACAGGTCGCCGAGCGGGCAGGCGTCTCCAAAACC +AATCTGCTTTATTATTATCCCTCGAAAGAGGCGCTGTATGTCGCGGTAATGCGACAGATT +CTGGATGTCTGGTTGGCGCCGCTCAAGGCGTTTCGCGCAGAATTTTCCCCTCTGGAGGCC +ATCAAAGAGTATATCCGTCTCAAGCTGGAGGTTTCGCGTGATTATCCGCAGGCGTCGCGG +CTCTTCTGCATGGAGATGCTGGCGGGCGCGCCGCTCTTAATGGATGAACTGACCGGCGAT +CTAAAAGCGTTGATAGATGAAAAATCCGCGCTGATTGCCGGATGGGTGCACAGCGGGAAA +CTCGCGCCCGTTTCTCCGCATCATTTGATCTTCATGATTTGGGCCGCCACGCAACATTAC +GCCGATTTCGCCCCTCAGGTTGAAGCGGTAACCGGCGCGACGCTTCGCGATGAAGCCTTT +TTCAACCAAACGGTCGAAAGCGTTCAGCGCATTATTATTGAAGGGATTCGCGTGCGTTAA +ATGGCGAAACAACAACGGATGGGCTGGTGGTTTCTTTGCCTTGCATGTGTCGTGGTAATG +GTTTGTACCGCGCAACGCATGGCGGGCCTGCACGCCTTGCAGATGCAGGCGACGGCCTCT +GCTGCGGTGGTCAGCGCTCCCTCCTCGACAGATGACGGCTCGCCGGTCACTCCCTGCGAA +TTAAGCGCCAAGTCGCTGCTGGCGGCGCCTCCAGTACTCTTTGAAGGTGCTATCCTTGCG +CTTTATCTACTGCTTTCCTTACTGGCGCCTGTCCGGGTCATGCGCCTGCCGTTTTCGCCT +CCACGGGCTATTTCGCCGCCCACATTACGGGTACATCTACGATTTTGTGTCTTCCGTGAA +TGAATGATGATTTTATTCAGGCGGATACTGTTCTGCCTGTTATGGCTTTGGCTGCCCGTC +TCCTGGGCGGCGGAAAGCGGCTGGCTGCGTTCGCCCGATAACGACCATGCCAGCATACGG +CTACGTGCCGATACGTCCGCTAACAGTGAGACCCGGCTGTTGCTGGATGTCAAACTGGAA +AACGGCTGGAAAACCTACTGGCGCGCGCCGGGGGAAGGGGGCGTGGCACCCTCTATCGCC +TGGAAAGGCGACATGCCTGAGGTAAGCTGGTTCTGGCCAACCCCCTCGCGCTTTGATGTG +GCGAATATCACCACCCAGGGATATCACGACGAGGTGACCTTTCCGATGATCGTGCGCGGT +ACGCCGCCGGCGACCTTGCGCGGTGTGTTGACGTTATCAACCTGCAGCAATGTTTGTCTG +TTGACCGATTACCCCTTTTCCGTGACGCCCACTGTGCAGAATGCCGATTTTGCCCATGAC +TATGCGCGGGCGATGGGTAAAGTTCCGCTCCGCAGTGGGCTAACGGACTCGCTTGACGTT +GGCTATCGCCCGGGAGAACTGGTGGTCACTGCTACGCGAGCGGCGGGCTGGTCATCGCCC +GGGCTCTATCTTGACACCATAGATGACGTCGATTTTGCGAAGCCTCGCCTGCGCGTAGAG +GGCGACAGGTTACAGGCGACGGTGCCGGTGACGGACAGTTGGGGCGAAAAGGCGCCCGAT +TTGCGCGACAAATCGCTGACCCTCGTGTTAGCCGATGGCGCTATCGCCCAGGAGAGCACG +CAAACCATTGGCGCTGCGCCAGCGCAAACGCCGGACAATGCGGCGCTACCTTTCTGGCAA +GTTGTAATGATGGCGCTAATCGGCGGACTGATTCTTAATTTAATGCCCTGCGTACTGCCT +GTTCTGGGCATGAAACTTGGCTCTATTTTATTGGTAGAGGAAAAAAGCCGCTCTCACATC +AGGCGACAATTTTTGGCTTCGGTCGCCGGTATCATTGCGTCATTTATGGCGCTGGCGGCG +TTTATGACCCTCCTTCGCCTGTCAAACCATGCGCTGGCCTGGGGAGTCCAGTTCCAGAAT +GCATGGTTTATTGGTTTTATGGCGCTGGTGATGTTGTTGTTTAGCGCCAGCCTGTTCGGG +CTTTTTGAGTTCAGGCTTCCCTCATCTATGACCACGAAACTGGCCACTTACGGCGGTAAC +GGTATGTCGGGACATTTCTGGCAGGGGGCGTTCGCCACGCTGCTGGCGACGCCTTGTAGC +GCGCCGTTTCTGGGCACGGCGGTCGCGGTGGCGCTCACGGCGTCGCTGCCGACGCTGTGG +GGGCTGTTCCTTGCGCTTGGCCTGGGAATGAGCGCGCCGTGGCTACTGGTCGCGATACGA +CCAGGGCTTGCGCTACGTTTACCGCGCCCCGGGCGTTGGATGAATGTCCTGCGCAGGATC +CTCGGTCTGATGATGCTGGGGTCGGCTATCTGGCTGGCGACGTTACTCCTGCCGCATTTC +GGCTTCACTGCGTCAAAGAGCGCGCAAGACACGGTTCAGTGGCAACCGTTGAGTGAACAG +GCAATCCAGTCGGCGCTGGCGCAGCATAAGCGGGTATTTGTCGATGTCACTGCGGACTGG +TGTATTACCTGTAAAGTGAATAAATACAACGTCCTGCAAAAAGAGGATGTGCAGGCCGCC +TTGCAACAGCCGGATGTTGTGGCGCTGCGGGGAGACTGGACGCTGCCGTCCGATGCCATT +ACAGATTTTCTGAAAACGCGCGGCCAGGTCGCCGTGCCGTTTAATCAGGTATATGGCCCC +GGTTTGCCGGAAGGGGAGGCACTGCCCACTTTGCTGACCCGCGATGCGGTATTACAAACG +TTGAAAAAAGCGAAAGGAATAACCCAATGAATGAAATACATGATTGTTTTACTGCTGGCG +CTGTTTTCGACGCTGAGCATCGCGCAAGAAACCGCTCCTTTTACGCCGGATCAGGAAAAG +CAGATTAAAAATCTGATCCATGCGGCGTTGTTTAACGATCCTGCCAGCCCGCGGATAGGC +GCTAAACACCCTAAGCTGACGCTGGTGAACTTTACGGATTACAACTGCCCGTACTGCAAA +CAGCTCGATCCGATGCTGGAAAAGATTGTGCAGAAATATCCTGACGTTGCGGTCATTATT +AAACCGCTGCCATTCAAAGGAGAGAGTTCCATACTGGCGGCGCGTATTGCGCTGACCACC +TGGCGCGATCATCCGCAACAGTTCCTCGCGCTACATGAAAAACTTATGCAAAAGCGCGGT +TACCATACGGATGACAGTATTAAACAGGCCCAGCAGAAAGCAGGGGCGACGCCAGTGACG +CTGGATGAAAAAAGCATGGAAACGATACGCACTAATTTGCAGTTGGCAAGACTGGTCGAC +GTGCAAGGAACGCCAGCGACGATCATTGGCGACGAGCTGATTCCGGGCGCAGTGCCCTGG +GATACGCTGGAAGCGGTGGTGAAAGAAAAACTGGCGGCTGCCAATGGCGGGTAAATGATT +GCACATTCTTTCGGCATCGTTAATTATTTTGTATTATTTGGCTACCTCCTGGCCATGATG +GTAGTCGGTGTCTATTTTTCCAGACGGCAAAAAACAGCAGACGATTATTTTCGCGGTGGT +GGCCGGGTTCCTGGTTGGGCGGCTGGGGTCAGTGTATTTGCTACTACGTTAAGCTCAATT +GCATTTATGTCAATTCCTGCCAAAGCGTTTACTTCCGACTGGACGTTTATCATTGGTCAG +GATCTGGCTATCGCAATTTTACCGCTGGTTTTTTATTTCTATATTCCGTTTTTTCGGAAA +GTGAAAGTCACATCAGCCTATGAATATCTCGAAGCACGGTTCGATGTGCGCTGCCGTCTG +GTCGCCAGCATGTCATTTATGTTGTTTCATATTGGACGTATCGCCATTATCACTTTCCTC +GCCGTGCTGGCCTTGCGCCCCTTCATCGCTATAGACCCGGTGATTTTGGTACTGTTGATT +GGTGTGATGTGTATCATTTATACCTGGATGGGGGGGAATTGAATGGAAAGTCTATTAAAT +CGTTTATATGACGCGTTAGGCCTGGATGCGCCAGAAGTTGAGCCACTGCTTATCATTGAT +GATGGGATACAGGTTTATTTTAATGAATCCGATCATATACTGGAAATGTGCTGTCCCTTT +ATGCCACTGCCTGACGACACTCTGACTTTGCAGCATTTTTTACGTCTTAACTACGCCAGC +GCCGTCACTATCGGCGCTGATGCAGACAATACTGCTTTAGTGGCGCTTTATCGCTTGCCG +CAAACCAGTACCGAAGAAGAGGCGCTCACTGGTTTTGTATTATTCATTTCAAACGTGAAG +CAATTGAAAGAGCATTATGCATAAATGAAATACGACCTTATTATTATCGGCAGCGGTTCG +GTTGGCGCCGCCGCTGGTTATTACGCCACCCGCGCCGGGCTAAAGGTCCTGATGACCGAT +GCGCATATGCCGCCTTATCAACAGGGCAGCCACCACGGCGATACCCGTCTTATCCGCCAC +GCTTATGGTGAAGGCGAAAAATATGTCCCGCTGGTGCTTCGCGCCCAGACGCTTTGGGAT +GAGCTCTCCACACACAATGAAGAGCCTATTTTTGTCCGCTCCGGCGTCGTCAACCTCGGC +CCGGCCGATTCCGCTTTCTTAGCCAACGTCGCACGAAGCGCGCAACAGTGGCAATTGAAC +GTCGAGCGCCTGGACGCGACGGCCCTCATGACGCGCTGGCCGGAAATTCGCGTGCCCGAT +AATTATATCGGGCTGTTTGAAGCTGACTCCGGTTTCCTGCGCAGCGAATTAGCCATTACC +ACATGGCTTCGTCTGGCCCGAGAGGCAGGCTGCGCACAGCTATTCAACAGCCCGGTAAGC +CATATTCACCATGATGATAACGGTGTGACGATAGAGACGAGTGAAGGCTGCTACCACGCC +AGCAAAGCGCTGATTAGCGCGGGCACCTGGGTCAAAACGCTGGTACCGGAGCTGCCCGTT +CAGCCCGTACGTAAAGTTTTTGCCTGGTTTAAGGCGGATGGACGTTACAGCACTAAAAAC +CGCTTTCCGGCCTTTACCGGCGAAATGCCCAACGGCGATCACTATTACGGTTTCCCGGCG +GAGAACGACGAGTTAAAAATCGGCAAACACAATGGCGGGCAGCGAATACAGGCACCGGAA +GAGCGCAAGCCCTTTGCCGCCGTTGCCAGCGATGGCGCGGAAGCATTTCCTTTCCTGCGT +AACGTACTGCCGGGTATCGGCGGTTGTTTACATGGGGCGGCATGTACCTATGATAATTCG +CCGGACGAGGATTTTATTATCGATACGCTGCCTGGCCATGAGAATACGCTTGTCATCACT +GGACTCAGCGGACATGGTTTTAAATTCGCCCCGGTGTTAGGAGAAATCGCTGCGGATTTT +GCGTTGGGAAAAACGCCCTCCTTTGATCTGACGCCGTTCCGGCTTTCCCGTTTTAGCCAA +TAAATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAA +AGCCTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCG +GCTAAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGG +GGGAATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTA +CAGCGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACG +TCAATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAA +GAAGAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACT +CAGCAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGA +GATGCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACG +CATAACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCA +AAAGATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAAT +ATTCATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGAT +AAAACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCG +CTTCTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTT +AGTAAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTA +TCCGTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGAT +CAAATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGC +AATAAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTG +GGTGTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAAT +GCCGAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGC +TGGGTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCG +CGCCAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTAT +AAACTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAAT +TGTAAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATT +TCTTTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAG +AAAATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACG +GGCGGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTAT +CAAAAACGAGTTGGGGATGATAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATC +ACATCTTGAATGAAACGATATATACTGGCTACCGCGATAGCGTCTCTTGTTGCAGCCCCG +GCAATGGCGCTGGCCGCTGGCAGCAATATTCTCAGCGTACATATTCTCGATCAGCAAACA +GGCAAACCAGCGCCCGGCGTGGAGGTGGTACTGGAGCAGAAAAAGGATAACGGATGGACG +CAATTAAACACCGGGCATACCGACCAGGATGGACGAATTAAAGCACTGTGGCCCGAAAAA +GCTGCCGCGCCGGGGGATTATCGCGTTATTTTTAAAACCGGCCAGTATTTTGAAAGTAAA +AAACTGGACACGTTTTTCCCGGAGATTCCCGTCGAGTTTCATATCAGCAAAACGAATGAG +CACTATCATGTGCCGCTGTTATTAAGTCAGTATGGTTATTCAACCTATCGCGGGAGCTAA +ATGGCAAAGATTCTGGTGCTCTATTATTCCATGTACGGACACATTGAAACCATGGCGCAC +GCGGTGGCGGAAGGGGCAAAGAAAGTCGACGGCGCAGAGGTCATTATAAAGCGTGTGCCA +GAAACAATGCCGCCTGAAATCTTCGCAAAAGCTGGCGGTAAAACGCAAAACGCACCGGTT +GCCACCCCACAGGAGCTGGCGGATTACGATGCCATTATTTTTGGTACGCCAACCCGGTTT +GGCAATATGTCAGGCCAGATGCGTACCTTCCTGGACCAAACCGGCGGACTGTGGGCATCC +GGCGCGCTATACGGCAAGCTCGGCGGCGTGTTCAGTTCTACCGGAACGGGCGGCGGCCAG +GAGCAGACCATCACCTCGACCTGGACTACGCTTGCCCATCATGGGATGGTGATTGTCCCG +ATAGGCTATTCCGCACAGGAACTGTTTGACGTCTCCCAGGTTCGCGGCGGTACGCCTTAC +GGCGCAACGACTATCGCTGGAGGCGACGGTTCACGTCAACCAAGCCAGGAGGAACTCTCT +ATCGCTCGCTATCAGGGGGAATACGTCGCCGGTCTGGCAGTCAAACTCAACGGCTAAATG +GAGCCTCAACCCCCACGTCTGAAACCCGGAAAAATCCTTGACACTCTGGGTGCTATGCAA +AAAAGCCTGACACGTGCCTCGCAGCGTATTGCGCAATATATTTTAGCCTTCCCCAGACAG +GTGACACAGTCATCTATTGCGGATTTGTCGCGCGACACACAGGCCGGAGAAGCCACGGTT +ATTCGCTTTTGTCGCACCCTGGGCTATAAAGGTTTTCAGGATTTTAAAATGGACCTGGCC +ATTGAACTTGCCACTACCGAGTCTGATGACAGTAGTCCTCTACTGGATGCCGAAGTTAGC +GAATCCGACGATGCCCACGCGATTGGTTTAAAATTGCAGAACACCATTAGTAATGTATTA +TCTGAAACGCTAAATCTGCTGGATATGCAACAGGTTCTCGGTGTCGTGGACGCCCTACGT +CACTGTCACTCAGTTTATATGTTTGGTGTGGGCTCATCGGGGATCACGGCGCTGGATATG +AAACACAAGCTAATGCGTATGGGTTTACGGGGCGATGCGGTAAGCAATAACCATTTTATG +TACATGCAGGCTACGCTATTGAAAGCAGGCGATGTCGCGATGGGTGTCAGTCACTCGGGC +ACATCGCCAGAAACAGTGCATTCACTCCGATTGGCCCGACAGGCTGGCGCCACCACAGTC +GCCATTACCCATAATCTGGGTTCTCCATTATGTGAAGAGGCCGATTTTTGCCTGATCAAT +GGTAATCGGCAAGGAATGTTGCAGGGTGACTCGATCGGTACGAAAGCCGCGCAGCTTTTC +GTCTTTGACCTGCTCTATACCCTTCTTGTACAGTCCTCGCCGGAACAGGCCCGAGAAAGC +AAATTACGGACAATGAATGCCCTGGACATGACAAAATAAATGAAGAAACTGCCCGGCTTT +ACGCAAGATTACTTACTCAGCAAGGCGACGACCCTGCCTGATAAAACACGCCTGGAGCGT +GCCGTTGAACCGCTATGCGCGCGCCATCCCGGAGAGTGCGGCATTCTTGCGCTGGATAAC +AGTCTGGACGCTTTTGCCGCCCGCTACCGCCTGACCGAAATGGCGGCGCGGACGCTGGAT +GTGCAGTATTATATTTGGGAAGACGATATGTCCGGGCGGCTGCTCTTTTCGGTTCTGCTG +TCGGCGGCGAAGCGCGGCGTTCATGTTCGTCTGCTGCTGGATGATAACAATACGCCTGGT +CTGGATGATACGTTGCGCTTGCTGGATAGCCATCCTAATATCGAAGTTCGTCTGTTTAAT +CCTTTCTCTTTTCGTACGCTACGCGCGCTGGGATATTTGACGGATTTTGCGCGGCTGAAT +CGGCGGATGCACAATAAAAGTTACACTGCCGACGGCGTAGTGACGCTGGTCGGTGGGCGC +AACATCGGCGATGCCTATTTCGGCGCTGGCGAGGAGCCGCTATTTTCCGATCTGGACGTG +ATGGCCATTGGCCCGGTGGTCAATGATGTCGCCAATGATTTTGAACGTTACTGGCGCTGT +AGTTCAGTGTCGACATTGCAGCAAGTATTATCCCTTTCTGAGCAGGAACTGACGCAGCGT +ATCGAACTTCCCGAATCCTGGTATAACGATGAGATCACCCGCCGTTATCTGCATAAGCTG +GAAACCAGCCAGTTTATGGCGGATCTCGATCGCGGAACGTTGCCGCTGATTTGGGCAAAA +ACACGCTTGCTTAGCGATGACCCTTCTAAAGGCGAGGGGAAGGCGCAGCGCCATTCGCTT +CTTCCGCAGCGATTATTTGACGTGATGGGGTCGCCGACGGAGCGTATCGACATTATTTCC +GCTTACTTTGTCCCTACGCGCGCAGGCGTGGCGCAGTTGCTTAATCTGGTCAGGAAAGGT +GTGAAGATCGCCATCTTAACTAACTCTCTGGCGGCCAACGATGTGGCGGTCGTTCACGCA +GGGTACGCGCGCTGGCGCAAGAAATTACTGCGCTATGGCGTGGAGCTCTACGAACTGAAA +CCGACCCGCGAACATGAAACCGCCGTACATGATCGCGGACTCACCGGGAACTCAGGTTCC +AGCTTACATGCTAAAACGTTCAGTATTGATGGTAGTAAGGTGTTTATCGGGTCGCTTAAT +TTTGATCCCCGTTCAACGCTTTTAAATACCGAAATGGGCTTTGTCATTGAAAGTGAAACG +CTGGCGACGCTTATTCATAAGCGTTTTACGCAGAGCCAACGCGATGCGGCCTGGCAACTG +CGGCTGGATCGCTGGGGACGAATTAACTGGATCGATCGTCAGCAAGAAGAGGAAAAGGTG +TTAAAGAAAGAACCCGCTACGCGTTTCTGGCAGCGAGTTCTGGTACGGTTGGCGGCAATT +TTACCTGTGGAATGGTTGCTGTGAATGCCAACTCAAGAAGCAAAAGCGCACCGCGTCGGC +GAATGGGCAAGCCTGCGTAATACGTCGCCGGAAATTGCCGAAGCCATTTTTGAAGTCGCT +CACTATGACGAGAAACTGGCAGAAAAAATATGGGAAGAAGGTAGCGATGAGGTGCTGATC +AAAGCCTTTGAGAAAACGGACAAAGACTCGCTCTTCTGGGGCGAACAAGTCATCGAACGT +AAGAACGTATAAATGTATCCCGTTGACCTGCATATGCATACCGTCGCGAGCACTCATGCC +TACAGTACTCTGAGCGATTATATCGCGGAAGCCAAACGCAAAGGCATGAAACTTTTTGCG +ATTACCGATCATGGTCCGGACATGGAAGATGCGCCGCATCACTGGCAGTTTATTAACATG +CGCATCTGGCCGCGTCTGGTTGACGGCGTGGGGATACTGCGTGGCATGGAGGCGAATATC +AAGAATATTAACGGTGAAATTGATTGTTCCGGAAAGATGTTCGACTCGCTGGATCTGATT +ATCGCAGGCTTTCATGAGCCCGTTTTTGCGCCGCATGATAAAGAAACGAATACTCAGGCG +ATGATCGCGACCATCGCCAGCGGCAAGGTGCATATAATTAGTCACCCGGGAAATCCAAAG +TATCCAGTGGAGGTTAAAGCCATCGCGCAGGCGGCGGCGAAACACCAGGTAGCGCTGGAA +ATCAACAACTCTTCTTTTCTGCATTCGCGTAAAGGAAGCGAAGATAAGTGCCGCGCGGTC +GCTGCCGCCGTACGCGATGCGGGAGGCTGGGTAGCGTTAGGCTCTGAGTCCCATACGGCC +TTTACGCTTGGCGATTTCACCGAATGCCGGAAAATTCTGGATGCGGTGAATTTTCCGGAA +GATCGAATCCTGAACGTCTCTCCGCAGCGCTTACTGGCCTTTCTCGAGTCACGCGGTATG +GCGCCTGTACCGGAATTTGCCGAACTTTAAATGAATGAGTTTTCAATCCTGTGCCGTGTG +CTGGGATCGTTGTTTTACCGCCAAGCGCAAGATCCTTTACTGGTTCCGCTGTTTACGTTA +ATCCGTGAAGGTAAACTGGCGGCAGACTGGCCGCTGGAGCAGGATGACATGCTGGCGCGT +TTACAGAAAAGCTGCGATATCACGGAGATTTCCACTGATTACAATGCGTTATTTGTTGGG +GAAGAGTGCGCGGTAGCGCCATACGGCAGTGCGTGGGTCGAAGGCGCGGAAGAGTCTGAG +GTGCGCGCTTTTTTAACGTCGCGAGGGATGCCGCTGGCCGATACGCCTGCCGATCACATT +GGCACTTTATTGCTCGCGGCCTCCGGGCTGGAAGATCAGTCTGCCGAAGATGAAAGTGAA +GCGCTGGAAACCTTATTTGCCGATGATCTGCTTCCCTGGTGCAATACCTTCCTCGGTAAA +GTTGAAGCCCATGCCGTTACGCCAGTCTGGCGCACTCTGGCGCCGCTAACGCGTGATGCG +ATAGGGGCCATGTGGGATGAACTTGAGGAAGAAGATGAAGAATAAATGATGCGCGCGATG +AACATACTTCTTTCTATTGCTATCACTACGGGCATCCTTTCTGGAATATGGGGATGGGTG +GCCGTCTCCCTGGGGTTACTAAGCTGGGCCGGTTTTTTAGGCTGTACGGCTTATTTGGCC +TGTCCGCAGGGCGGCTTTAAGGGATTGTTGATTTCCGCCTGTACGCTGTTAAGCGGGATG +GTGTGGGCGCTGGTCATTATTCACGGTAGCGCGTTGGCGCCGCATCTGGAAATTGTGAGT +TACGTGTTGACGGGGATCGTGGCATTCCTGATGTGTATCCAGGCAAAGCAGCTATTGCTT +TCTTTTGTTCCGGGAACATTTATCGGCGCCTGCGCGACATTTGCAGGGCAGGGTGAGTGG +CGGTTGGTATTACCGTCGCTGGCGCTGGGGCTAATCTTTGGCTATGCCATGAAAAAGAGT +GGGCTATGGCTGGCATCACGCCGCGAGCAACATTCAGCGAATACGGCGGTCACAAAGTAA +ATGAAAAAAAACCTGCTGGGATTCACCCTCGCATCCTTGTTATTCACGACCGGTTCCGCC +GTGGCGGCGGAGTATAAAATTGATAAAGAAGGCCAACATGCGTTCGTCAATTTCCGCATC +CAGCATCTGGGCTACAGCTGGCTATACGGCACCTTTAAAGATTTCGACGGCACGTTCACT +TTTGACGAAAAAAATCCGTCAGCAGACAAAGTGAATGTGACCATTAACACCAATAGCGTC +GACACTAACCATGCCGAACGTGACAAACACCTGCGTAGCGCGGAGTTTCTTAATGTTGCG +AAATTCCCGCAGGCAACCTTCACCTCTACCAGCGTGAAAAAAGAGGGCGATGAACTGGAT +ATTACCGGCAATCTGACGCTCAATGGCGTGACTAAACCGGTGACGCTGGAAGCGAAGCTG +ATGGGCCAGGGCGACGATCCGTGGGGCGGTAAGCGCGCGGGCTTTGAGGCCGAAGGAAAA +ATTAAGCTGAAAGATTTCAATATAACTACCGATCTCGGCCCAGCCTCACAAGAGGTGGAG +CTTATCATCTCAGTAGAAGGCGTTCAGCAGAAGTAAATGTTACTGATGATGGCGCTGATC +GTGCGTATTATCTGGCGGCTTTATTCTCCGCCGCCCGTTGCGTTGACCAGCTATTCCCGT +TTAACGCGCATTGGCGCCGCCGCGGGTCATATCCTTCTGTATCTCCTGCTCTTTGCGATA +ATCATTAGCGGCTACCTGATTTCCACCGCCGACGGTAAACCGATTAGCGTCTTTGGCTGG +TTTGAGATTCCGGCCACGCTTACGGACGCGGGCGCGCAGGCTGACATCGCCGGAACACTG +CATCTGTGGTTTGCCTGGTCGCTGGTCATTATCTCGCTCTCGCATGGGGTTATGGCGCTA +AAACACCATTTCATCGATAAAGACGACACACTGAAACGTATGACAGGAATGTCGTCATCT +GACTATGGAGCTCAAAAATGAATGGTTAAGTTATCAATGACGCTGCGCCTGACAATTTCT +TTTATCGCCATACTTATCCTCGCCTGTACCGGCATTAGCTGGACGCTCTATAACGCGCTG +AGCAAAGAATTAACGTATCGGGATGATATGACGCTAATAAATCGGGCGGCGCAAATGCAG +CAACTGTTACTGGATGGCGCCAGGCCGGAAAATCTGCCGCTCTATTTCAATCGGATGGTG +GATACGAAGCAGGATATCTTATTGATCCACTCAGCAACAGGCCATAATGTTGCGATTAAT +CATAGCGGCATCCCCGACCAACGCTTTAACGAGATTCCGCTGGCTAAAAACATCACCCGC +GAAACCTTATTTCGCCAGGCGGTACAAGGCACGGAGCTGACCGCGGTACGAGTAAACGCC +AGAAGCGGCGATAACCCGCTGACCCTTACTATTGCCAGGCTGGCGACGGAAAGGCGGCAA +ATGCTGGCGCAATATCGCCGCAACAGTTTGCTGATTAGCCTTATCGCGATCCTCGTCTGT +TCGGCGCTCAGTCCATTAGTCATCAGAAACGGGCTGCGGGCCATTACGTCGCTCAGCCGA +CTCACCGCGGCGACAGATAGCGGCACACTTCGCCAGCCGCTGGCGGAACAGGCGTTACCC +GTCGAGCTCAGGCCGCTTGGGCAAGCGCTAAATACCATGCGCCAGAAGCTTTCCGACGAT +TTTGAACGCCTGAACCAATTTGCCGACGATCTGGCGCATGAGCTGCGCACGCCGGTTAAT +ATTTTACTGGGGAAGAATCAGGTTATGCTGAGTCAGGAACGCAGCGCCGAAGAGTATCAA +CAAGCCCTTGTCGATAATATTGAAGAGCTGGAGGGACTGTCGCGACTGACAGAAAATATT +CTCTTTCTGGCACGCGCGGAGCACCAGAATATAGCGGTAAAAAAACAGCCTGTTTCGCTC +AATGCGCTGGTCGAAAATATGCTGGATTATCTTAGCCCCCTTGCCGAAGAGAAGCACATC +TGTTTTATAAATCAATGTCAGGGAACGGTATGGGCTGACGAAATATTATTACAAAGAGTG +CTCTCAAACCTGCTGACGAATGCCATCCGTTATTCTGATGAAAACGCCGTGATACGTATT +GAAAGCGCTTATGATGATAACGTTGCAGAAATTCGGGTCGCTAATCCGGGCAGCCCCACC +GCCGATGCGGATAAGCTTTTCCGGCGTTTTTGGCGAGGAGATAATGCCCGCTACACTGCC +GGTTTCGGCCTGGGGTTATCGTTAGTTAACGCGATTGCCCTATTGCACGGTGGCTCGGCA +TCTTACCGCTATGCCGATGAACATAATATCTTTTCGGTTCGTCTGCCTGATAGCGGTGAT +AGCTAAGTGATATGTCTGAAAGTCCAGGGCGGCATTGGTGAAATTTTTACGGTGACGCAG +CAGGCGGATAAATTCTTGCCGGCTACGCAGTTCCACTGGAGCTGGACGGAAAGCACAGTA +CCTGTATTGATGATTGGGTTTCTGTTTGCCAATATTCAGCAATTTACTGCCAGTCAGGAT +GTGGTCCAACGCTATATGGTGACTGACTCCATAGAGGAAACGAAGAAAACATTACTTACA +AATGCCAAACTGGTTGCGGTGATCCCTGTTTTCTTTTTTGCTATCGGCTCGGCATTATTT +GTCTACTATCAGCAACAGCCACAATTATTACCGGCGGGATTCAACACTGGCGGCATTTTG +CCCTTATTCGTGGTCACGGAAATGCCAGTCGGCATTGCAGGGTTGATAATCTCCGCTATT +TTCGCTGCCGCGCAGTCGAGCATCTCCAGCAGCTTAAACAGCATTTCCAGTTGTTTTAAT +TCCGATATCTATCAGCGGTTGAGTCATAAAAAAGGAACGCCAGAAAACCGTATGAAAATA +GCTAAGTTAGTTATTCTGGTCGCGGGCCTGATAAGTAGCGCGGCCTCGGTATGGCTGGTC +ATGGCCGATGAATCAGAGATCTGGGATGCATTTAATAGTCTGATAGGTCTGATGGGAGGG +CCAATGACCGGTCTGTTGATGCTGGGCATTTTCTTTAAACGAGCAAATGCCGGGAGTGCG +GTTTTAGGAATTATTATGAGCGTCATTACCGTGCTGGGCACACGCTATGCCACTGACCTT +AACTTCTTCTTTTATGGGGTCATTGGCTCGCTAAGCGTGGTGATCAGCGGCGTTATTTTC +GCCCCGTTATTTGCCCCGGCACCGCCATTGACGCTGGATGAAAAACCTGAACCAAAGGTG +ACATTATGAATGAAAATCAACAGATATCTTCTGGGTATGGTTTCGTTTATAGCATTTTCA +TCATATCTACAAGCGGCAACCCTTGATTATCGGCATGAATATGCTGATAGAACCAGAATT +AATAAAGACCGTATTGCTATAATTGAAAAGCTTCCTAACGGCATTGGTTTTTATGTCGAT +GCCAGCGTTAAATCGGGAGGAGTAGATGGTGAGCAGGATAAGCATTTAAGCGATCTCGTC +GCAAACGCTATAGAACTGGGCGTAAGTTATAATTATAAAGTTACGGACCATTTTGTTTTG +CAGCCTGGATTTATATTTGAAAGCGGTCCAGACACTTCAATTTATAAGCCTTATTTAAGG +GCGCAATATAATTTTGATTCTGGTGTTTATATGGCTGGTCGTTACCGTTATGACTATGCA +AGGAAGACAGCTAACTATAATGATGATGAGAAAACGAATAGATTTGATACTTATATAGGT +TATGTTTTTGATGAGTTGAAATTGGAATATAAATTTACCTGGATGGATAGCGATCAAATT +AAATTTGATAACAAAAAAACAAACTATGAACATAATGTGGCTTTAGCCTGGAAACTGAAT +AAGTCATTTACACCATACGTTGAGGTCGGAAATGTAGCGGTGAGAAATAATACCGATGAG +AGACAGACCCGTTATCGCGTTGGATTACAATACCACTTTTGAATGACGAAATACGGTGTT +ATAGGTACAGGTTATTTTGGCGCTGAACTGGCGCGATTTATGTCTAAGGTTGAAGGGGCG +AAAATCACTGCGATTTACGATCCGGTAAATGCGGCTCCGATAGCGAAAGAGCTGAACTGT +GTCGCCACTTCAACGATGGAGGCGCTTTGTACCCATCCTGATGTGGATTGCGTAATTATT +GCTTCACCAAATTACTTACATAAAGCGCCGGTCATTGCGGCGGCTAAAGCGGGTAAACAC +GTGTTTTGTGAAAAACCTATCGCCTTAAATTACCAGGATTGTAAGGATATGGTTGATGCC +TGCAAAGAAGCTGGTGTTACCTTTATGGCGGGTCACGTTATGAACTTTTTTCACGGGGTT +CGCCACGCTAAAGCGCTCATCAAAGCCGGTGAAATCGGTGAAGTTACACAAGTTCACACT +AAACGTAATGGTTTTGAAGACGTGCAGGATGAGATCTCATGGAAGAAGATTCGCGCAAAG +TCAGGTGGGCATCTGTACCATCACATTCACGAGCTAGATTGTACACTGTTCATCATGGAT +GAAACCCCATCCCTGGTTTCAATGGCGGCGGGGAATGTTGCGCACAAAGGTGAAAAATTT +GGTGATGAAGATGATGTTGTCCTAATCACCCTTGAGTTTGAAAGCGGTCGTTTCGCGACA +CTTCAGTGGGGATCATCGTTCCACTACCCTGAGCACTATGTATTAATTGAGGGCACGACA +GGTGCAATTCTCATTGATATGCAAAACACGGCTGGTTATCTAATAAAAGCGGGCAAAAAA +ACACACTTTCTTGTGCATGAAAGCCAGGCGGAGGATGATGATCGTCGCAACGGTAACATA +TCCAGCGAGATGGATGGCGCAATCGCTTATGGTAAACCCGGTAAACGTACGCCGATGTGG +CTCTCATCAATTATGAAACTGGAGATGCAGTACTTGCATGATGTGATAAACGGTCTGGAG +CCAGGCGAGGAGTTTGCTAAATTGCTAACGGGAGAAGCGGCGACAAATGCCATTGCTACC +GCTGATGCTGCGACGCTTTCTTCAAACGAGGGGCGCAAAGTTAAACTCACTGAAATTCTT +GGCTAAATGACATCACGTCTTCAGGTCATACAGGGTGATATCACTCAACTTAGCGTCGAT +GCGATTGTGAATGCCGCTAACGCATCATTAATGGGCGGCGGTGGCGTAGACGGCGCAATT +CATCGCGCGGCGGGGCCGGCATTGCTGGACGCCTGTAAACTCATCCGTCAGCAACAGGGC +GAATGTCAGACGGGACATGCGGTTATCACGCCTGCTGGCAAGCTTTCGGCAAAGGCGGTT +ATTCACACAGTGGGGCCCGTCTGGCGAGGCGGCGAACACCAGGAAGCTGAGCTACTCGAA +GAGGCATACCGGAATTGTTTGCTGCTTGCCGAGGCGAATCACTTTCGTTCCATCGCTTTT +CCGGCAATCAGTACCGGCGTTTATGGCTATCCACGCGCCCAGGCCGCTGAAGTCGCCGTC +AGGACGGTTTCAGATTTTATTACCCGTTACGCTCTGCCTGAACAGGTATACTTTGTCTGT +TATGATGAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAAGGCGACGACCCT +GCCTGA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_nnn_at_end.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>1 +AAA +>2 +AAACCC +>3 +AAACCCGGG +>4 +AAACCCGGGTTT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_nuc_multifasta.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,90 @@ +>1 +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTGCATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGAAAATATTTGGCGTCAG------NNNAATATTTCTTCATTAATC +ACATCT +>2 +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCT---GCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGGTGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGAAAATATTTGG---CAGTCAGTAAAAGGTATTTCTTCATTAATC +ACATCT +>3 +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAGGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGAAAATATTTGG---CAGTCAGTAAAAGGTATTTCTTCATTAATC +ACATCT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_nuc_multifasta.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,48 @@ +>AAAA#74_01075 +CQYHLF*PYWRALPPLLARFLAFLAKNRLTACWLFRWASPQGSCCSSR*WRCCPPR*IPR +GCRLYWATGCLLSACWATSGWIVCFLTLIRRIWCKKGSSRFPAR*NALRFY*RSALACTT +FRKESPPLSLPAAILNWVSASHWRWRCTIFLKGWRLPARFMPRRAQNVPRFFGPVSPAWR +KFLAACWRG*FWAAWFHRSLWRLSWQQSPALWWRSPSMN*CRWQKRSILTITPAMVCFAV +CPSWGSVSSFCRR*VSV +>BBBB#75_01314 +MSVPLILTLLAGAATFIGAFLGVLGQKPSNRVLAFSLGFAAGIMLLISLMDAARRVRYRG +DVACTGLRDVYYRPVGLLRAGSSASSRSSAGSGAKKAAAASRLDKTHCDFIDARH*PAQL +SGRNRHLCHCQQQS*TGFRHRTGGGVAQYS*RAGGCRPGLCRDGLKTYRDFLGRYLRHGG +NSWRRAGVADFGQPGFTDRYGGYHGSSRRHYGGALRR*TDAVGKRDRS*Q*PQLWCALRY +VHHGAQSRHFADDRYRL +>CCCC#76_00877 +MSVPLILTLLAGAATFIGAFLGVLGQKPSNRVLAFSLGFAAGIMLLISLMEMLPAALDTE +GMSPVLGYGSLLSACWATSGWIVCFLTLIRRIWCKKGSSRFPAR*NALRFY*RSALACTT +FRKESPLSLPAAILNWVSASHWRWRCTIFLKGWRLPARFMPRRAQNVPRFFGPVSPAWRK +FLAACWRG*FWAAWFHRSLWRLSWQQSPALWWRSPSMN*CRWQKRSILTITPAMVCFAVC +PSWGSVSSFCRR*VSV +>DDDD#77_01105 +MSVPLILTLLAGAATFIGAFLGVLGQKPSNRVLAFSLGFAAGIMLLISLMEMLPAALDTE +GMSPVLGYGMFIIGLLGYFGLDRLLPHAHPQDLVQKRQQPLPGSIKRTAILLTLGISLHN +FPEGIATFVTASSNLELGFGIALAVALHNIPEGLAVAGPVYAATGSKRTAIFWAGISGMA +EILGGVLAWLILGSLVSPIVMAAIMAAVAGIMVALSVDELMPLAKEIDPNNNPSYGVLCG +MSIMGLSLVILQTIGIG* +>EEEE +MSVPLILTLLAGAATFIGAFLGVLGQKPSNRVLAFSLGFAAGIMLLISLMEMLPAALDTE +GMSPVLGYGMFIIGLLGYFGLDRLLPHAHPQDLVQKRQQPLPGSIKRTAILLTLGISLHN +FPEGIATFVTASSNLELGFGIALAVALHNIPEGLAVAGPVYAATGSKRTAIFWAGISGMA +EILGVLAWLILGSLVSPIVMAAIMAAVAGIMVALSVDELMPLAKEIDPNNNPSYGVLCGM +SIMGLSLVILQTIGIG* +>FFFF +MSVPLILTLLAGAATFIGAFLGVLGQKPSNRVLAFSLGFAAGIMLLISLMEMLPAALDTE +GMSPVLGYGMFIIGLLGYFGLDRLLPHAHPQDLVQKRQQPLPGSIKRTAILLTLGISLHN +FPEGIATFVTASSNLELGFGIALAVALHNIPEGLAVAGPVYAATGSKRTAIFWAGISGMA +EILGGVLAWLILGSLAPIVMAAIMAAVAGIMVALSVDELMPLAKEIDPNNNPSYGVLCGM +SIMGLSLVILQTIGIG* +>GGGG +MSVPLILTLLAGAATFIGAFLGVLGQKPSNRVLAFSLGFAAGIMLLISLMEMLPAALDTE +GMSPVLGYGMFIIGLLGYFGLDRLLPHAHPQDLVQKRQQPLPGSIKRTAILLTLGISLHN +FPEGIATFVTASSNLELGFGIALGWRCTIFLKGWRLPARFMPRRAQNVPRFFGPVSPAWR +KFLAACWRG*FWAAWFHRSLWRLSWQQSPALWWRSPMN*CRWQKRSILTITPAMVCFAVC +PSWGSVSSFCRR*VSV +>HHHH +MSVPLILTLLAGAATFIGAFLGVLGQKPSNRVLAFSLGFAAGIMLLISLMEMLPAALDTE +GMSPVLGYGMFIIGLLGYFGLDRLLPHASAGSGAKKAAAASRLDKTHCDFIDARH*PAQL +SGRNRHLCHCQQQS*TGFRHRTGGGVAQYS*RAGGCRPGLCRDGLKTYRDFLGRYLRHGG +NSWRRAGVADFGQPGFTDRYGGYHGSSRRHYGGALRR*TDAVGKRDRS*Q*PQLWCALRY +VHHGAQSRHFADDRYRL
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_nuc_multifasta_mafft.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,90 @@ +>1 +atgcaaatacagagcttctatcactcagcttcactaaaaacccaggaggcttttaaaagc +ctacaaaaaaccttatacaacggaatgcagattctctcaggccagggcaaagcgccggct +aaagcgcccgacgctcgcccggaaattattgtcctgcgagaacctggcgcgacatggggg +aattatctacagcatcagaagacgtctaaccactcgctgcataacctctataacttacag +cgcgatcttcttaccgtcgcggcaaccgttctgggtaaacaagacccggttctaacgtca +atggcaaaccaaatggagttagccaaagttaaagcggaccggccagcaacaaaacaagaa +gaagctgcggcaaaagcattgaagaaaaatcttatcgaacttattgcagcacgcactcag +cagcaaaatggcttacctgcaaaagaagctcatcgctttgcggcagtagcgtttagagat +gctcaggtcaagcagctcaataaccagccctggcaaaccataaaaaatacactcacgcat +aacgggcatcactataccaacacgcagctccctgccgcagagatgaaaatcggcgcaaaa +gatatctttcccagtgcttatgagggaaagggcgtatgcagttgggataccaagaatatt +catcacgccaataatttgtggatgtccacggtgagtgtgcatgaggacggtaaagataaa +acgcttttttgcgggatacgtcatggtgtgctttccccctatcatgaaaaagatccgctt +ctgcgtcaggccggcgctgaaaacaaagccaaagaagtattagctgcggcactttttagt +aaacctgagttgcttaacagagccttagagggcgaagcggtaagcctgaaactggtatcc +gtcgggttactcaccgcgtcgaatattttcggcaaagagggaactatggtcgaggatcaa +atgcgcgcatggcaatcgttgacccagccgggaaaaatgattcatttaaaaatccgcaat +aaagatggcgatctacagacggtaaaaataaaaccggacgtcgccgcatttaatgtgggt +gttaatgagctggcgctcaagctcggctttggccttaaagcatcagatagctataatgcc +gaagcgctgcatcagttattaggcaatgatttacgccctgaagccagaccaggtggctgg +gttggcgaatggctggcgcaatacccggataattatgaggtcgtcaatacattagcgcgc +cagattaaggatatctggaaaaataaccaacatcataaagatggcggcgaaccctataaa +ctcgcacaacgccttgccatgttagcccatgaaattgacgcggtgcccgcctggaattgt +aaaagcggcaaagatcgtacagggatgatggattcagaaatcaagcgagagctcatttct +ttccatcagacccatatgttaagtgcgcctggtagtcttccggatagcggtggacagaaa +attttccaaaaagtattactgaatagcggtaacctggagattcagaaacaaaatacgggc +ggggcgggaaacaaagtaatgaaaaatttatcgccagaggtgctcaatctttcctatcaa +aaacgagttggggatgaaaatatttggc-gtcagtaaaa--tatttcttcattaatcaca +tct +>2 +atgcaaatacagagcttctatcactcagcttcactaaaaacccaggaggcttttaaaagc +ctacaaaaaaccttatacaacggaatgcagattctctcaggccagggcaaagcgccggct +aaagcgcccgacgctcgcccggaaattattgtcctgcgagaacctggcgcgacatggggg +aattatctacagcatcagaagacgtctaaccactcgctgcataacctctataacttacag +cgcgatcttcttaccgtcgcggcaaccgttctgggtaaacaagacccggttctaacgtca +atggcaaaccaaatggagttagccaaagttaaagcggaccggccagcaacaaaacaagaa +gaagctgcggcaaaagcattgaagaaaaatcttatcgaacttattgcagcacgcactcag +cagcaaaatggcttacctgcaaaagaagctcatcgctttgcggcagtagcgtttagagat +gctcaggtcaagcagctcaataaccagccctggcaaaccataaaaaatacactcacgcat +aacgggcatcactataccaacacgcagctccct---gcagagatgaaaatcggcgcaaaa +gatatctttcccagtgcttatgagggaaagggcgtatgcagttgggataccaagaatatt +catcacgccaataatttgtgggtgtccacggtgagtgtgcatgaggacggtaaagataaa +acgcttttttgcgggatacgtcatggtgtgctttccccctatcatgaaaaagatccgctt +ctgcgtcaggccggcgctgaaaacaaagccaaagaagtattagctgcggcactttttagt +aaacctgagttgcttaacagagccttagagggcgaagcggtaagcctgaaactggtatcc +gtcgggttactcaccgcgtcgaatattttcggcaaagagggaactatggtcgaggatcaa +atgcgcgcatggcaatcgttgacccagccgggaaaaatgattcatttaaaaatccgcaat +aaagatggcgatctacagacggtaaaaataaaaccggacgtcgccgcatttaatgtgggt +gttaatgagctggcgctcaagctcggctttggccttaaagcatcagatagctataatgcc +gaagcgctacatcagttattaggcaatgatttacgccctgaagccagaccaggtggctgg +gttggcgaatggctggcgcaatacccggataattatgaggtcgtcaatacattagcgcgc +cagattaaggatatctggaaaaataaccaacatcataaagatggcggcgaaccctataaa +ctcgcacaacgccttgccatgttagcccatgaaattgacgcggtgcccgcctggaattgt +aaaagcggcaaagatcgtacagggatgatggattcagaaatcaagcgagagctcatttct +ttccatcagacccatatgttaagtgcgcctggtagtcttccggatagcggtggacagaaa +attttccaaaaagtattactgaatagcggtaacctggagattcagaaacaaaatacgggc +ggggcgggaaacaaagtaatgaaaaatttatcgccagaggtgctcaatctttcctatcaa +aaacgagttggggatgaaaatatttggcagtcagtaaaaggtatttcttcattaatcaca +tct +>3 +atgcaaatacagagcttctatcactcagcttcactaaaaacccaggaggcttttaaaagc +ctacaaaaaaccttatacaacggaatgcagattctctcaggccagggcaaagcgccggct +aaagcgcccgacgctcgcccggaaattattgtcctgcgagaacctggcgcgacatggggg +aattatctacagcatcagaagacgtctaaccactcgctgcataacctctataacttacag +cgcgatcttcttaccgtcgcggcaaccgttctgggtaaacaagacccggttctaacgtca +atggcaaaccaaatggagttagccaaggttaaagcggaccggccagcaacaaaacaagaa +gaagctgcggcaaaagcattgaagaaaaatcttatcgaacttattgcagcacgcactcag +cagcaaaatggcttacctgcaaaagaagctcatcgctttgcggcagtagcgtttagagat +gctcaggtcaagcagctcaataaccagccctggcaaaccataaaaaatacactcacgcat +aacgggcatcactataccaacacgcagctccctgccgcagagatgaaaatcggcgcaaaa +gatatctttcccagtgcttatgagggaaagggcgtatgcagttgggataccaagaatatt +catcacgccaataatttgtggatgtccacggtgagtgtgcatgaggacggtaaagataaa +acgcttttttgcgggatacgtcatggtgtgctttccccctatcatgaaaaagatccgctt +ctgcgtcaggccggcgctgaaaacaaagccaaagaagtattagctgcggcactttttagt +aaacctgagttgcttaacagagccttagagggcgaagcggtaagcctgaaactggtatcc +gtcgggttactcaccgcgtcgaatattttcggcaaagagggaactatggtcgaggatcaa +atgcgcgcatggcaatcgttgacccagccgggaaaaatgattcatttaaaaatccgcaat +aaagatggcgatctacagacggtaaaaataaaaccggacgtcgccgcatttaatgtgggt +gttaatgagctggcgctcaagctcggctttggccttaaagcatcagatagctataatgcc +gaagcgctacatcagttattaggcaatgatttacgccctgaagccagaccaggtggctgg +gttggcgaatggctggcgcaatacccggataattatgaggtcgtcaatacattagcgcgc +cagattaaggatatctggaaaaataaccaacatcataaagatggcggcgaaccctataaa +ctcgcacaacgccttgccatgttagcccatgaaattgacgcggtgcccgcctggaattgt +aaaagcggcaaagatcgtacagggatgatggattcagaaatcaagcgagagctcatttct +ttccatcagacccatatgttaagtgcgcctggtagtcttccggatagcggtggacagaaa +attttccaaaaagtattactgaatagcggtaacctggagattcagaaacaaaatacgggc +ggggcgggaaacaaagtaatgaaaaatttatcgccagaggtgctcaatctttcctatcaa +aaacgagttggggatgaaaatatttggcagtcagtaaaaggtatttcttcattaatcaca +tct
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_number_of_conserved_genes.tab Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_number_of_conserved_genes_0.6.tab Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +4 2 4 +4 2 4 +4 2 4 +4 2 4 +4 2 4 +4 2 4 +4 2 4 +4 2 4 +4 2 4 +4 2 4
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_number_of_genes_in_pan_genome.tab Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +4 6 7 +4 6 7 +4 6 7 +4 6 7 +4 6 7 +4 6 7 +4 6 7 +4 6 7 +4 6 7 +4 6 7
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_number_of_new_genes.tab Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1 +4 2 1
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_number_of_unique_genes.tab Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +4 4 3 +4 4 3 +4 4 3 +4 4 3 +4 4 3 +4 4 3 +4 4 3 +4 4 3 +4 4 3 +4 4 3
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_one_gene_presence_and_absence.Rtab Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,2 @@ +Gene Gene query_1.fa query_2.fa query_3.fa +hly 1 0 0
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_out_of_order_fasta.fa.sorted.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +>1111 +AAAAAAA +>2222 +TTTTTTT +>3333 +GGGGGGG +>4444 +CCCCCCC +>5555 +AAAAAAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_core_missing_genes.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +>111 +AAAANNNNNNNGGNNNNNXXXXXXX +>222 +AAAACCCCCCCGGTTTTTXXXXXXX +>333 +AAAACCCCCCCGGNNNNNXXXXXXX +>444 +AAAACCCCCCCGGTTTTTXXXXXXX +>555 +AAAACCCCCCCNNNNNNNXXXXXXX
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_filtered.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,18 @@ +>2363_5_03666 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>4075_2#3_03437 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>4075_1#8_03461 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>2212_3_02841 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>2363_5_00947 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>2363_7_00085 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>2460_2_00826 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>4075_1#6_04091 +AAAAAAAAAAAAAGGGGGGGGGGGGGG +>4075_1#3_04238 +AAAAAAAAAAAAAGGGGGGGGGGGGGG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_groups Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,2 @@ +6259_6#6_02209 6259_7#20_00601 6593_5#7_01700 6630_2#15_02136 6630_4#12_02032 6631_2#21_02147 6631_4#23_02060 6631_7#21_02171 6664_1#10_02278 +1234#12_01975 1234#1_01317 1234#20_01662 1234#3_01167
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_groups_cdhit Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1 @@ +3634_6_04078 2212_1_01414 2363_1_00811 2541_2_00696 2541_8_00920 3634_7_00911
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_groups_group_2.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +>1234#10_00003 +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>1234#10_00018 +MDFSFNLVDNNGTVMRSTFSPIRFFTFSFLWILIDCSSVQKIENFNSVLQEPTFKSLKEE +EAILGGSSDSDYKIRKTGNTIPVFVLSPIQTPEGMDSKLAAFLSDEVRLIWAKVKGKQVR +IQEMSWKNPSQLSQELKRLNVDAVIKTDIREVSGKWVVNQKITDPVKEIVYGSVDGSFQS +PKIEDELQANQAYYLKHGSGVLALDAKSSLVPIWEKSLSSGEIDSILKKSIQGYLSFSAS +SADTEVLFQGEKIGIASFRNYPLPEGLQQIQITRPGQKDISKSLQIRSGQTISIYQEWKE +DRTLGGVRILSFPEALQVALDGLKMGETPFYRSNLTPGAMQLELVRETENGPLVYYEGQL +IVDADKITEIALPYKTDNLISEPEFWKLSGEKGFQAFSGKTLDFQNVSSLPPGWYGVFSA +PFVPENMELEGIIPITAESDSGIVAISFHTSKKTISLEYEKERLSVYSFPSNGNNVGTYK +FKKEDKEDGRPFRIITDVKEGTIRLYLGYSKVLEDRLDVSGVWRISILTRGENFSKRSPL +RNLKIEYKGYK* +>1234#10_00005 +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_groups_group_2_multi.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +>1234#10_00003 hypothetical protein +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>1234#10_00018 putative lipoprotein +MDFSFNLVDNNGTVMRSTFSPIRFFTFSFLWILIDCSSVQKIENFNSVLQEPTFKSLKEE +EAILGGSSDSDYKIRKTGNTIPVFVLSPIQTPEGMDSKLAAFLSDEVRLIWAKVKGKQVR +IQEMSWKNPSQLSQELKRLNVDAVIKTDIREVSGKWVVNQKITDPVKEIVYGSVDGSFQS +PKIEDELQANQAYYLKHGSGVLALDAKSSLVPIWEKSLSSGEIDSILKKSIQGYLSFSAS +SADTEVLFQGEKIGIASFRNYPLPEGLQQIQITRPGQKDISKSLQIRSGQTISIYQEWKE +DRTLGGVRILSFPEALQVALDGLKMGETPFYRSNLTPGAMQLELVRETENGPLVYYEGQL +IVDADKITEIALPYKTDNLISEPEFWKLSGEKGFQAFSGKTLDFQNVSSLPPGWYGVFSA +PFVPENMELEGIIPITAESDSGIVAISFHTSKKTISLEYEKERLSVYSFPSNGNNVGTYK +FKKEDKEDGRPFRIITDVKEGTIRLYLGYSKVLEDRLDVSGVWRISILTRGENFSKRSPL +RNLKIEYKGYK* +>1234#10_00005 imidazoleglycerol-phosphate dehydratase or histidinol-phosphatase +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_groups_group_5.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,9 @@ +>1234#10_00016 +MKVTHSCLEFDSIEGLIDFAREFETGSMIRFLSPIEDNSGNVLVKEEVQVKESTLARLKD +IKGQYTPKFEVKLNKELLEQIQNILAIKIVNQLKVTDMKFLKFMYENTNYNFKGIIRNSL +LSKKTTLTLLKVYNQNLNFFKYISELGLLSLGIVMIPDTMRFRLLRRYAFTAGILMDVPR +IGVDKFTKLPSDDNEKVRVAHKCSDILQKLDLIEFTYGSISNHMPLGMIEDSTSSDKAAP +GENIDETFLDDIISNDGESDSKVDGSREDAIPEKSYDIFQALLTDALKLARYIANVSHNA +VDKDYVMEELVYYIAYNTSKKYFDELLANPLVATFKEFEVNVKRLRKIAEVEMKCVYPPS +AWAYPKPKSSQVLCKNKVWDCPNIVMGWDIHVITAQEAFGWVGTSLPVDNYPKCRLEEEL +DEIMVEPEKPKKK*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_groups_group_5_multi.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,9 @@ +>1234#10_00016 hypothetical protein +MKVTHSCLEFDSIEGLIDFAREFETGSMIRFLSPIEDNSGNVLVKEEVQVKESTLARLKD +IKGQYTPKFEVKLNKELLEQIQNILAIKIVNQLKVTDMKFLKFMYENTNYNFKGIIRNSL +LSKKTTLTLLKVYNQNLNFFKYISELGLLSLGIVMIPDTMRFRLLRRYAFTAGILMDVPR +IGVDKFTKLPSDDNEKVRVAHKCSDILQKLDLIEFTYGSISNHMPLGMIEDSTSSDKAAP +GENIDETFLDDIISNDGESDSKVDGSREDAIPEKSYDIFQALLTDALKLARYIANVSHNA +VDKDYVMEELVYYIAYNTSKKYFDELLANPLVATFKEFEVNVKRLRKIAEVEMKCVYPPS +AWAYPKPKSSQVLCKNKVWDCPNIVMGWDIHVITAQEAFGWVGTSLPVDNYPKCRLEEEL +DEIMVEPEKPKKK*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_merged.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>1111_1#1 +AAAAA-CCCC----TTTTTTTTTTTTTTT +>2222_2#2 +CCCCC-AAAA----AAAAAAAAAAAAAAA +>3333_3#3 +TTTTT-GGGG----CCCCCCCCCCCCCCC +>4444_4#4 +GGGGG-TTTT----GGGGGGGGGGGGGGG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_output_merged_sparse.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>1111_1#1 +CCCC-----AAAA-AAAAA--AAAA- +>2222_2#2 +AAAA-----TTTT-CCCCC--TTTT- +>3333_3#3 +GGGG----NNNNNNTTTTT-NNNNNN +>4444_4#4 +TTTT-----CCCC-GGGGG--CCCC-
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_pan_genome.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,33 @@ +>1234#10_00016 +MKVTHSCLEFDSIEGLIDFAREFETGSMIRFLSPIEDNSGNVLVKEEVQVKESTLARLKD +IKGQYTPKFEVKLNKELLEQIQNILAIKIVNQLKVTDMKFLKFMYENTNYNFKGIIRNSL +LSKKTTLTLLKVYNQNLNFFKYISELGLLSLGIVMIPDTMRFRLLRRYAFTAGILMDVPR +IGVDKFTKLPSDDNEKVRVAHKCSDILQKLDLIEFTYGSISNHMPLGMIEDSTSSDKAAP +GENIDETFLDDIISNDGESDSKVDGSREDAIPEKSYDIFQALLTDALKLARYIANVSHNA +VDKDYVMEELVYYIAYNTSKKYFDELLANPLVATFKEFEVNVKRLRKIAEVEMKCVYPPS +AWAYPKPKSSQVLCKNKVWDCPNIVMGWDIHVITAQEAFGWVGTSLPVDNYPKCRLEEEL +DEIMVEPEKPKKK* +>1234#10_00017 +MKRYLSIVILCTFAMLLLVCSTNKSSGSDQVKTESNATSARIVWLLGDVKILSDSGEKKA +ELGASLSSTDRVVTGPNGGAEIMVADSGIIKMSKNSDIEISSLMNPNGSDTNVQVNYGKI +VTMVKKGQKTTEFTVSTPTALAGVRGTSFLTSVESPEGSKINCAKANCTVRFAVIEGTIA +VSKKGESSEVILSKNRELRIEKNQKLTDKLIRSLQNDSLSEMKELIVLHKNETFEYGKLV +EELKSSSEELKILSQSGSVEEVKAAFQKREADRNNADEITKTAKAVNETKYVQQDVQKEK +LKLNPKETF* +>1234#10_00001 +MSKHGFFQITQKLFLRKGDELLILRDRKSGLGDLPGGRMNENEFFEDWSLSMQREIEEEL +GSQVQIRVSTKPLFIHKHKVNEGNFPCIIIAYHADYLGGDIILSDEHDYISWEKVQTYEP +SPLFTEYMLDAVNLYLKEYAPLVH* +>1234#10_00003 +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>1234#10_00005 +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE* +>1234#10_00006 +MIAILDYGMGNIHSCLKAVSLYTKDFVFTKDHSTIENSKALILPGDGHFDKAMENLNSTG +LRKTIDKHVTSGKPLFGICIGFQILFESSEEIAQGSKKEQIEGLGYIKGKIKKFHGKDFK +VPHIGWNRLQIRRKDKSVLLKGIGDQSFFYFIHSYRPTDAEGNAITGLCDYYQEKFPAVV +EKNNIFGTQFHPEKSHTHGLKLLENFIRFI*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_pan_genome_one_gene_per_fasta.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,33 @@ +>1234#10_00001 nudix hydrolase +MSKHGFFQITQKLFLRKGDELLILRDRKSGLGDLPGGRMNENEFFEDWSLSMQREIEEEL +GSQVQIRVSTKPLFIHKHKVNEGNFPCIIIAYHADYLGGDIILSDEHDYISWEKVQTYEP +SPLFTEYMLDAVNLYLKEYAPLVH* +>1234#10_00003 hypothetical protein +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>1234#10_00005 imidazoleglycerol-phosphate dehydratase or histidinol-phosphatase +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE* +>1234#10_00006 imidazole glycerol phosphate synthase subunit HisH +MIAILDYGMGNIHSCLKAVSLYTKDFVFTKDHSTIENSKALILPGDGHFDKAMENLNSTG +LRKTIDKHVTSGKPLFGICIGFQILFESSEEIAQGSKKEQIEGLGYIKGKIKKFHGKDFK +VPHIGWNRLQIRRKDKSVLLKGIGDQSFFYFIHSYRPTDAEGNAITGLCDYYQEKFPAVV +EKNNIFGTQFHPEKSHTHGLKLLENFIRFI* +>1234#10_00016 hypothetical protein +MKVTHSCLEFDSIEGLIDFAREFETGSMIRFLSPIEDNSGNVLVKEEVQVKESTLARLKD +IKGQYTPKFEVKLNKELLEQIQNILAIKIVNQLKVTDMKFLKFMYENTNYNFKGIIRNSL +LSKKTTLTLLKVYNQNLNFFKYISELGLLSLGIVMIPDTMRFRLLRRYAFTAGILMDVPR +IGVDKFTKLPSDDNEKVRVAHKCSDILQKLDLIEFTYGSISNHMPLGMIEDSTSSDKAAP +GENIDETFLDDIISNDGESDSKVDGSREDAIPEKSYDIFQALLTDALKLARYIANVSHNA +VDKDYVMEELVYYIAYNTSKKYFDELLANPLVATFKEFEVNVKRLRKIAEVEMKCVYPPS +AWAYPKPKSSQVLCKNKVWDCPNIVMGWDIHVITAQEAFGWVGTSLPVDNYPKCRLEEEL +DEIMVEPEKPKKK* +>1234#10_00017 LipL45-like lipoprotein +MKRYLSIVILCTFAMLLLVCSTNKSSGSDQVKTESNATSARIVWLLGDVKILSDSGEKKA +ELGASLSSTDRVVTGPNGGAEIMVADSGIIKMSKNSDIEISSLMNPNGSDTNVQVNYGKI +VTMVKKGQKTTEFTVSTPTALAGVRGTSFLTSVESPEGSKINCAKANCTVRFAVIEGTIA +VSKKGESSEVILSKNRELRIEKNQKLTDKLIRSLQNDSLSEMKELIVLHKNETFEYGKLV +EELKSSSEELKILSQSGSVEEVKAAFQKREADRNNADEITKTAKAVNETKYVQQDVQKEK +LKLNPKETF*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_pan_genome_reference.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1466 @@ +>11111_1#11_04055 +ATGCTTCCGGTCACCTACAGATTAATACCTCAAAGCGGAGTATCCACATATGGATTAAAT +ACCGCAGATACACCTGTTTTCCCCGATATTCCCGAACATGCACCAAACCCCTCACGGCTA +CGCCTTGCTCATGACAGCCTTGCCATAAACAGTGAATTCCGTCTGGAGCCAGAGTGTGTG +GTGGAGTACCTTATCTCAGGCGCGGGTGGAATAGACCCTGATACAGAAATTGATGACGAC +ACTTATGACGAATGCTACGATGAACTATCCTCCGTACTTCAAAATGCGTATACCCAAAGC +GAAACATTCCGCAGACTGATGAATTACGCATATGAAAAAGAACTACATGATGTGGAGCAG +CGCTGGCTACCGGGGGCAGGCGAAGCCTTTGAAACTACCGTGGCTCAGGAACACTTCAAA +CTTTCAGAAGGCAGGAAAGTTATTTGTCTCAATCTGGACGATTCTGATGATTCATATACC +GAACATTATGAAAGTAACGAAGGAAGACAACTTTTTGACACAAAACGTTCATTTACTCAT +GAAGTTGTACATGCACTGACCCATCTTCAGGATAAAGAAGAAAATCATCCAAGAGGCCCT +GTTGTCGAATATACCAACATTATTCTGAAAGAGATGGGGCATCCTTCACCTCCCAGAATG +GTCTACATCTTCAATAAATAG +>11111_1#11_04056 +ATGCCAATAACTAACGCGTCCCCAGAAAATATATTAAGATATTTGCATGCGGCCGGTACC +GGTACGAAAGAAGCAATGAAAAGTGCAACTTCACCACGCGGTATACTGGAATGGTTTGTC +AATTTTTTTACCTGTGGTGGAGTAAGAAGAAGCAATGAAAGATGCTTTTGGGAGGTAATT +GGAAAACTGACCACATCATTATTATATGTAAATAAAGATGCTTTCTTCGATGGTAATAAA +ATATTTCTGGAGGATGTCAACGGGTGTACTATATGTCTGTCATGTGGAGCAGCATCCGAA +AATACGGATCCCATGGTCACTATTGAAGTGAACAAAAATGGAAAAACTGTAACGGATAAA +GTTGATAGTGAGAGATTTTGGAATGTATGTCGAATGTTAAAACTGATGAGTAAACATAAT +ATACAACAGCCTGATTCACTTATAACCGAGGATGGTTTTCTGAACCTGCGCGGAGTAAAC +CTAGCTCATAAAGATTTCCAGGGAGAAGATTTGTCAGACATAGATGCTTCTAATGCAGAT +TTCCGTGAAACAAATCTATCTAATGTAAATTTAGTCGGTGCAAATTTGTGTTGTGCAAAT +CTACACGCTGTAAATCTAATGGGTTCAAACATGACTAAAGCAAACCTGACTCACGCAGAC +CTGACTTGCGCTAACATGTCCGGTGTAAACTTAACCGCTGCAATTCTATTCGGCTCAGAC +TTAACTGACACCAAACTAAATGGTGCAAAATTAGATAAGATAGCTCTAACTTTAGCGAAA +GCATTAACAGGAGCCGATCTGACAGGTAGTCAACATACCCCTACTCCACTCCCGGATTAC +AATGATAAAACGCTTTTCCCCCATCCAATATTTTAG +>11111_1#11_04058 +ATGGAAAGTCTATTAAATCGTTTATATGACGCGTTAGGCCTGGATGCGCCAGAAGATGAG +CCACTGCTTATCATTGATGATGGGATACAGGTTTATTTTAATGAATCCGATCATACACTG +GAAATGTGCTGTCCCTTTATGCCACTGCCTGACGACACTCTGACTTTGCAGCATTTTTTA +CGTCTTAACTACGCCAGCGCCGTCACTATCGGCGCTGATGCAGACAATACTGCTTTAGTG +GCGCTTTATCGCTTGCCGCAAACCAGTACCGAAGAAGAGGCGCTCACTGGTTTTGAATTA +TTCATTTCAAACGTGAAGCAATTGAAAGAGCATTATGCATAA +>11111_1#11_04059 +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGAAAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATCACA +TCTTGA +>11111_1#11_04060 +ATGAAAAAGTATCTTGCTTTCGCCGTTACGCTGCTGGGTATGGGTAAAGTCATCGCCTGT +ACTACCCTTTTGGTAGGCAATCAGGCTTCGGCTGACGGCTCCTTTATTATCGCGCGCAAC +GAGGATGGCTCGGCAAATAACGCCAAGCATAAGGTTATTCATCCCGTCGCGTTTCATCAA +CAAGGCGAGTATAAAGCACATCGCAACAATTTTAGCTGGCCGCTTCCGGAGACAGCGATG +CGCTATACGGCGATTCATGACTTTGATACTAACGATAACGCCATGGGTGAAGCCGGTTTC +AATTCGGCGGGCGTCGGAATGAGCGCAACGGAAACCATTTACAACGGCAGAGCGGCGCTG +GCTGCCGATCCTTACGTGACAAAAACGGGAATCACGGAAGACGCCATTGAGTCCGTGATC +CTGCCAGTGGCGCAATCGGCGCGTCAGGGCGCCAAATTACTGGGAGATATTATTGAACAA +AAAGGCGCGGGCGAAGGTTTCGGCGTCGCGTTTATTGATAGCAAAGAGATATGGTATCTG +GAGACGGGAAGCGGACATCAATGGCTGGCAGTACGACTTCCGGCAGATAGCTATTTCGTT +TCCGCCAATCAGGGACGTTTACGCCATTACGATCCGAATGATAACGCGAATTATATGGCG +TCACCAACGTTAGTAAGCTTTGCGAAAAAGCAGGGATTATATGATCCGGCCCGCGGCGAA +TTCGACTTTCATCAAGCCTATTCGCAGGATAACAAAAACGATACCACCTATAATTATCCG +CGCGTCTGGACGCTACAACACCAGTTTAATCCGCATCTGGATACGGTCGTTAGCGAAGGG +GAAACATTTTCTGTTTTTTTAACGCCAATAACGAAGATCAGCGTGGCGGCAGTAAAAAAC +GCGTTACGCAATCACTATCAGGGAACGTCGCACGACCCTTATGCCAGTCATAATCCACAA +GAACCATGGCGACCTATATCCGTTTTTCGTACCCAGGAGTCACATATTTTACAGGTCAGA +CCGAAATTACCGCAGGCTATCGGCAACGTAGAATACATCGCCTATGGAATGCCATCTCTT +AGCGTCTATCTCCCCTATTACCAGGGGATGCGTCATTATCAACCCGGAGATGATAAAGGA +ACCGATCGGGCGAGCAACGACTCTACCTACTGGACATTCCGCACGCTGCAAACACTGGTT +ATGCAAGACTACAATACGTTTGCGCCAGATGTGCAACATGCCTGGAAAACATTTGAACAG +CAAACAGCTAAGCAACAGTATAAGATGGAGCAGAGCTATCTGAGATTATATGCGTCGCAT +CCGAAAGAAGCACAACGCTTACTGCAAAATTTTGAAGATAAAACGATGCAAAATGCGCAG +ACGCTCGCCCGTCGCCTGACCAATAATATTATTACGACAATGACTTACCGCACAGATATG +AAATATCACTTTTCAAGTACGCAGCCATAA +>11111_1#11_04061 +ATGGTTAAGTTATCAATGACGCTGCGCCTGACAATTTCTTTTATCGCCATACTTATCCTC +GCCTGTACCGGCATTAGCTGGACGCTCTATAACGCGCTGAGCAAAGAATTAACGTATCGG +GATGATATGACGCTAATAAATCGGGCGGCGCAAATGCAGCAACTGTTACTGGATGGCGCC +AGGCCGGAAAATCTGCCGCTCTATTTCAATCGGATGGTGGATACGAAGCAGGATATCTTA +TTGATCCACTCAGCAACAGGCCATAATGTTGCGATTAATCATAGCGGCATCCCCGACCAA +CGCTTTAACGAGATTCCGCTGGCTAAAAACATCACCCGCGAAACCTTATTTCGCCAGGCG +GTACAAGGCACGGAGCTGACCGCGGTACGAGTAAACGCCAGAAGCGGCGATAACCCGCTG +ACCCTTACTATTGCCAGGCTGGCGACGGAAAGGCGGCAAATGCTGGCGCAATATCGCCGC +AACAGTTTGCTGATTAGCCTTATCGCGATCCTCGTCTGTTCGGCGCTCAGTCCATTAGTC +ATCAGAAACGGGCTGCGGGCCATTACGTCGCTCAGCCGACTCACCGCGGCGACAGATAGC +GGCACACTTCGCCAGCCGCTGGCGGAACAGGCGTTACCCGTCGAGCTCAGGCCGCTTGGG +CAAGCGCTAAATACCATGCGCCAGAAGCTTTCCGACGATTTTGAACGCCTGAACCAATTT +GCCGACGATCTGGCGCATGAGCTGCGCACGCCGGTTAATATTTTACTGGGGAAGAATCAG +GTTATGCTGAGTCAGGAACGCAGCGCCGAAGAGTATCAACAAGCCCTTGTCGATAATATT +GAAGAGCTGGAGGGACTGTCGCGACTGACAGAAAATATTCTCTTTCTGGCACGCGCGGAG +CACCAGAATATAGCGGTAAAAAAACAGCCTGTTTCGCTCAATGCGCTGGTCGAAAATATG +CTGGATTATCTTAGCCCCCTTGCCGAAGAGAAGCACATCTGTTTTATAAATCAATGTCAG +GGAACGGTATGGGCTGACGAAATATTATTACAAAGAGTGCTCTCAAACCTGCTGACGAAT +GCCATCCGTTATTCTGATGAAAACGCCGTGATACGTATTGAAAGCGCTTATGATGATAAC +GTTGCAGAAATTCGGGTCGCTAATCCGGGCAGCCCCACCGCCGATGCGGATAAGCTTTTC +CGGCGTTTTTGGCGAGGAGATAATGCCCGCTACACTGCCGGTTTCGGCCTGGGGTTATCG +TTAGTTAACGCGATTGCCCTATTGCACGGTGGCTCGGCATCTTACCGCTATGCCGATGAA +CATAATATCTTTTCGGTTCGTCTGCCTGATAGCGGTGATAGCTAA +>11111_1#11_04062 +ATGTCATCTTGTTGGAGATTTACGGATTCGCTAACAAGCCTATGGCATACTGCGTTGATG +AAGATTTTATTGATTGAAGATAACCAGAAAACCATTGAGTGGGTACGTCAGGGACTCACG +GAGGCAGGCTATGTGGTTGATTATGCCTGTGATGGACGAGACGGATTACACCTAGCCCTT +CAGGAACATTATTCATTGATTATTCTTGATATTATGCTGCCGGGGCTTGATGGATGGCAG +GTTTTACGCGCGTTGCGCACTGCATATCAGCCCCCTGTTATTTGCCTGACGGCGCGCGAC +TCGGTTGAGGATCGCGTCAAAGGTCTTGAGGCGGGCGCTAATGATTACCTTGTTAAGCCT +TTTTCCTTCGCCGAACTGCTGGCCCGGGTGAGAGCTCAACTCAGACAGCATGTCCCGGTC +TTTACCCGACTGACGATCAATGGTCTGGACATGGATGCCACAAAGCAATCGGTGTTACGA +AATGGCAAACCGATTTCCCTGACCCGCAAAGAATTCCTGCTCCTCTGGTTACTGGCGTCC +CGGGCAGGGGAAATCGTGCCCCGAACCGCGATCGCCAGCGAAGTTTGGGGAATTAACTTT +GATAGTGAAACCAACACCGTTGATGTCGCGATTCGTCGGCTGCGCGCCAAAGTAGACGAT +CCATTTGAAAAGAAGCTCATTATGACCGTCCAGGGGATGGGTTATCGATTACAGGCGGAA +ACGTCGCAGAATGGTTAA +>11111_1#11_04063 +ATGAAACGATATATACTGGCTACCGCGATAGCGTCTCTTGTTGCAGCCCCGGCAATGGCG +CTGGCCGCTGGCAGCAATATTCTCAGCGTACATATTCTCGATCAGCAAACAGGCAAACCA +GCGCCCGGCGTGGAGGTGGTACTGGAGCAGAAAAAGGATAACGGATGGACGCAATTAAAC +ACCGGGCATACCGACCAGGATGGACGAATTAAAGCACTGTGGCCCGAAAAAGCTGCCGCG +CCGGGGGATTATCGCGTTATTTTTAAAACCGGCCAGTATTTTGAAAGTAAAAAACTGGAC +ACGTTTTTCCCGGAGATTCCCGTCGAGTTTCATATCAGCAAAACGAATGAGCACTATCAT +GTGCCGCTGTTATTAAGTCAGTATGGTTATTCAACCTATCGCGGGAGCTAA +>11111_1#11_04064 +ATGCAAGTAGATGAACAACGTCTGCGTTTTCGCGATGCGATGGCAAGTCTGGCGGCAGCG +GTCAACATCGTAACCACGGCGGGTCACGCCGGACGCTGCGGTATCACCGCAACAGCGGTT +TGCTCAGTCACTGATACGCCGCCCTCCGTGATGGTATGTATTAATGCCAATAGCGCCATG +AACCCCGTTTTTCAGGGCAACGGCAGGCTGTGCATTAATGTACTTAACCATGAGCAGGAG +CTGATGGCGCGCCACTTTGCCGGTATGACGGGGATGGCGATGGAGGAGCGTTTTCACCAG +CCATGTTGGCAAAACGGGCCGCTGGGCCAGCCGGTACTTAACGGCGCGCTGGCCAGTCTT +GAAGGCGAGATCAGCGAGGTACAAACCATTGGCACGCATCTGGTGTATCTGGTGGCGATC +AAAAATATTATTCTTAGCCAGGAGGGGCATGGCCTGATTTATTTCAAACGCCGTTTTCAT +CCGGTCAGACTTGAGATGGAAGCGCCTGTTTAA +>11111_1#11_04065 +ATGGGACGCACACCGGATTACAAAGCCGCCTTTGGCTGCGCTCTGGGCGCTAACCCAGCC +TTCTACGGCCAGTTTGAGCAGAACGCCCGTAACTGGTACACCCGTATTCAGGAGACCGGC +CTGTACTTTAACCATGCAATCGTCAACCCGCCCATTGACCGCCACAAACCTGCCGACGAA +GTGAAAGACGTCTATATCAAGCTGGAGAAAGAGACGGACGCCGGGATTATTGTCAGCGGG +GCGAAAGTTGTCGCCACTAACTCCGCCCTGACTCACTACAACATGATTGGTTTCGGCTCA +GCCCAGGTGATGGGCGAAAACCCGGATTTTGCTCTGATGTTTGTCGCGCCAATGGATGCC +GAAGGCGTAAAACTTATTTCGCGCGCCTCGTATGAAATGGTCGCGGGCGCGACGGGCTCG +CCGTTTGATTATCCCCTCTCCAGCCGTTTTGATGAAAACGATGCCATTCTGGTGATGGAC +AAGGTGCTGATCCCGTGGGAAAACGTATTAATTTACCGTGATTTCGATCGTTGTCGTCGC +TGGACGATGGAAGGCGGCTTTGCCCGTATGTATCCACTGCAAGCCTGTGTTCGTCTGGCG +GTAAAACTTGATTTCATTACCGCGCTGCTGAAAAAATCGCTCGAATGTACGGGTACCGTA +GAGTTCCGGGGCGTGCAGGCCGATCTCGGCGAAGTCGTGGCCTGGCGCAATATGTTCTGG +GCATTGAGCGATTCTATGTGTTCTGAAGCAACCCCGTGGGTAAACGGCGCCTGGCTACCG +GACCACGCCGCGCTGCAAACCTATCGTGTGATGGCCCCAATGGCCTACGCGAAAATTAAA +AATATTATTGAACGTAACGTTACCAGCGGCCTGATTTACCTGCCTTCCAGCGCCCGCGAT +CTGAATAATCCGCAAATCGACCAGTACCTGGCGAAATACGTACGCGGCTCTAACGGAATG +GACCATGTTGAACGTATCAAAATTCTTAAATTGATGTGGGATGCCATCGGCAGCGAGTTT +GGCGGTCGCCATGAGCTGTACGAGATTAACTACTCGGGCAGCCAGGATGAAATTCGTCTG +CAGTGTCTGCGTCAGGCCCAGAGCTCCGGCAATATGGATAAGATGATGGCAATGGTCGAT +CGCTGCCTCTCCGAATACGATCAGAATGGCTGGACGGTTTCGCATTTGCACAATAACGAC +GACATCAATCAACTGGATAAGCTGCTGAAATAA +>11111_1#11_04066 +ATGCATGATTCATTAACCATCGCCTTGCTTCAGGCGCGCGAAGCGGCAATGACCTATTTC +CGCCCCATCGTTAAAAGCCACAATCTGACCGACCAGCAATGGCGCATTGTGCGAATCCTG +GCCGATAGCCCCTCTATGGATTTTCACGAGCTGGCCTTTCGTACCTGTATTTTGCGTCCA +AGTCTGACCGGAATATTGACGCGCATGGAGCGAGACGGACTGGTGTTGCGACTCAAGCCG +GTTAACGATCAGCGTAAGTTATATGTCATGTTGACGGAGCAGGGACAAACGTTGTACGCC +CGTGCCCGGAGCGAGGTAGAAGAGGCTTATCGAAAAATTGAGGCCGATTTCACGCCCGAA +AAAACACAGCAATTGATGCTGCTGCTGGACGATCTTATTGCTCTGGGGCGCCAGCATCCT +GATAGCGAAGCGGAAGCATAG +>11111_1#11_04067 +ATGAAGGGTACTGTTTTCGCCGTTGCGTTAAACCATCGCAGCCAGCTTGATGCCTGGCAA +GAGGCTTTCTCTCAGCCTCCCTATAATGCGCCGCCTAAAACCGCAGTGTGGTTCATCAAG +CCGCGTAATACGGTGATTCGTCACGGCGAACCCATTCCTTATCCGCAGGGAGAAAAGGTA +CTGAGCGGCGCGACAGTGGCGCTCATTGTGGGGAAAACCGCCAGCCGGATACGCCCTGAA +GCGGCGGCGGACTATATCGCCGGGTATGCGCTGGCTAACGAGGTCAGCCTGCCGGAAGAG +AGCTTTTATCGCCCGGCGATTAAAGCGAAATGTCGCGATGGCTTTTGCCCGCTGGGTGAA +ATGGCGCCGCTGAGTGATGTGGATAATCTCACCATTATCACTGAAATCAACGGACGAGAA +GCGGACCACTGGAATACTGCCGATTTACAGCGTAGCGCCGCACAACTGCTTAGCGCGTTA +AGTGAGTTCGCTACACTTAACCCTGGCGATGCGATCTTACTTGGTACGCCGCAGAATCGC +GTTGCGCTGCGTCCCGGCGATCGGGTGCGTATTCTGGCGAAAGGTTTACCCGCGCTGGAA +AATCCGGTTGTCGCAGAAGATGAATTCGCCCGCCACCAGACGTTTACGTGGCCGCTGTCA +GCGACGGGAACGTTATTTGCGCTGGGGTTGAACTACGCCGATCACGCCAGCGAGCTGGCA +TTTACGCCGCCGAAAGAGCCGCTGGTATTTATCAAAGCGCCAAACACCTTTACCGAACAT +CACCAAACGTCGGTGCGCCCGAACAACGTCGAATATATGCACTACGAAGCCGAGCTGGTC +GTGGTGATTGGCAAAACGGCGCGTAAGGTGAGCGAAGCCGAAGCCATGGAGTATGTGGCC +GGTTACACCGTCTGTAACGACTACGCGATCCGCGACTATCTGGAAAACTACTACCGTCCG +AATCTGCGGGTAAAAAGCCGCGACGGCCTGACGCCGATAGGCCCGTGGATTGTGGATAAA +GAGGCGGTTTCTGATCCGCACAACCTGACGTTACGCACCTTTGTCAACGGTGAGCTGCGG +CAGGAAGGGACGACCGCCGATCTGATCTTCAGCATCCCGTTCCTGATTTCTTATCTGAGC +GAATTTATGACGTTGCAACCGGGCGACATGATTGCCACCGGTACGCCGAAAGGGCTGTCC +GATGTGGTGCCGGGGGATGAAGTTGTCGTTGAAGTAGAAGGCGTGGGTCGCCTGGTTAAC +CGAATCGTCAGTGAGGAGAGCGCAAAATGA +>11111_1#11_04068 +ATGAAGAAAATAAATCATTGGATTAACGGCAAAAACGTTGCAGGTAACGACTACTTCCAG +ACCACTAACCCGGCGACCGGTGATGTGCTGGCGGAAGTAGCCTCCGGCGGTGAAGCAGAA +GTGAACCAGGCTGTCGCGGCGGCAAAAGAGGCGTTCCCGAAATGGGCCAACCTGCCGATG +AAAGAGCGCGCGCGCCTGATGCGCCGCCTTGGCGACCTGATTGACCAGCATGTGCCGGAA +ATCGCGGCGATGGAAACCGCCGACACCGGCCTGCCTATTCACCAGACTAAAACGTGCTGA +>11111_1#11_04069 +GTGCTGATCCCGCGCGCCTCGCATAACTTCGAATTCTTCGCCGAAGTGTGCCAGCAGATG +AACGGCAAGACCTATCCGGTTGACGATAAAATGCTCAATTATACGCTGGTGCAGCCCGTC +GGCGTCTGCGCGCTGGTGTCGCCGTGGAACGTGCCGTTTATGACCGCGACTTGGAAAGTT +GCGCCGTGCCTGGCGCTGGGTAACACCGCGGTGCTCAAAATGTCCGAGCTGTCGCCGCTG +ACTGCCGACAGGCTGGGCGAGCTGGCACTGGAGGCAGGAATTCCGGCAGGCGTGCTGAAC +GTGGTGCAGGGCTACGGCGCGACGGCGGGCGATGCGCTGGTACGCCACCATGACGTGCGT +GCGGTGTCGTTTACCGGCGGTACCGCCACCGGTCGCAATATCATGAAAAATGCCGGGCTG +AAAAAATACTCGATGGAGCTGGGCGGCAAATCGCCGGTGCTGATTTTTGAAGACGCCGAC +ATTGAGCGCGCGCTGGACGCCGCGCTGTTCACCATCTTCTCGATCAACGGCGAACGCTGC +ACCGCTGGGTCGCGCATCTTTATCCAGCAGAGCATTTACCCTGAGTTCGTGAAGCGCTTT +GCCGAACGCGCGAATCGCCTGCGTGTCGGCGATCCGACCGACCCGAACACCCAGGTCGGC +GCGCTGATTAGCCAACAGCACTGGGAGAAAGTCTCCGGTTATATCCGCCTCGGCATTGAA +GAGGGGGCAACGCTGCTGGCGGGCGGTGCGGAAAAACCCACTGACCTGCCTGCGCATCTG +AAAGGCGGTAACTTCCTGCGCCCAACCGTGCTGGCCGATGTCGACAACCGTATGCGCGTT +GCGCAGGAAGAGATCTTTGGGCCGGTCGCCTGCCTGCTGCCATTCAAAGACGAAGCGGAA +GGGTTACGTTTGGCGAACGATGTGGAATACGGTCTGGCCTCTTATATCTGGACCCAGGAC +GTGAGCAAAGTGTTGCGCCTGGCGCGTGGGATTGAAGCCGGCATGGTCTTCGTCAACACC +CAGAACGTCCGCGACCTGCGCCAGCCGTTCGGCGGCGTGAAAGCCTCCGGTACCGGGCGC +GAAGGCGGCGAATATAGCTTCGAAGTGTTTGCGGAAATGAAAAACGTCTGCATCTCAATG +GGCGACCATCCTATCCCAAAATGGGGAGTTTGA +>11111_1#11_04070 +ATGGGCAAGTTAGCGTTAGCAGCAAAAATTACCCACGTGCCGTCGATGTATCTTTCTGAA +CTGCCAGGAAAAAATCACGGTTGTCGTCAGGCAGCCATTGATGGGCATATTGAAATTGGC +AAGCGTTGCCGCGAAATGGGCGTTGACACCATTATCGTATTCGACACCCACTGGCTGGTG +AATAGCGCTTACCACATTAATTGTGCCGACCATTTCCAGGGCGTCTATACCAGCAACGAA +TTGCCGCACTTTATTCGCGACATGACCTATGACTATGACGGTAATCCGGCGCTCGGCCAT +CTGATCGCCGACGAGGCGGTCAAACTGGGCGTGCGCGCCAAAGCGCACAACATCCCGAGC +CTGAAGCTGGAGTATGGCACGCTGGTGCCGATGCGCTACATGAACAGCGACAAGCACTTC +AAAGTGGTCTCCATCTCGGCGTTCTGCACTGTGCATGATTTTGCCGACAGCCGCAAACTG +GGCGAAGCCATTCTCAAGGCGATTGAGAAATATGACGGTACCGTAGCGGTATTCGCCAGT +GGTTCTCTGTCGCACCGTTTTATTGACGACCAACGGGCGGAAGAGGGGATGAACAGCTAC +ACCCGCGAGTTCGATCATCAAATGGACGAGCGCGTGGTCAAGCTGTGGCGCGAAGGCAAA +TTCAAGGAGTTTTGCACCATGTTGCCGGAGTACGCCGACTACTGCTACGGCGAAGGCAAC +ATGCACGACACGGTCATGCTACTGGGAATGCTGGGGTGGGACAAATACGACGGCAAGGTG +GAGTTCATCACCGACCTGTTCGCCAGCTCCGGTACCGGCCAGGTAAACGCTGTTTTCCCG +CTGCCTGCGTAA +>11111_1#11_04071 +ATGCCGCACTTTATTGCTGAATGTACTGAAAATATTCGCGAGCAGGCTGATTTACCAAGC +CTGTTCAGCAAGGTAAACGAGGCGCTGGCCGCCACCGGGATTTTCCCCATCGGCGGTATC +CGCAGTCGCGCCCACTGGCTGGATACCTGGCAGATGGCTGACGGTAAGCATGATTACGCG +TTTGTGCATATGACGCTGAAAATCGGCGCCGGGCGCAGCCTGGAGAGCCGTCAGGAAGTC +GGCGAAATGCTGTTTGGGCTGATTAAAGCCCACTTCGCCGACCTGATGGAGAACCGCTAT +CTGGCGCTGTCGTTTGAGATTGCCGAGTTACATCCAACGCTCAATTACAAACAAAACAAC +GTACACGCGTTATTTAAATAG +>11111_1#11_04072 +ATGCTCGATAAACAGACCCATACCCTGATCGCTCAGCGACTTAATCAGGCTGAAAAACAG +CGTGAACAGATTCGCGCAGTGTCGCTGGATTATCCCAACATCACTATTGAAGATGCCTAT +GCCGTACAGCGTGAATGGGTCAATATCAAGATTGCCGAAGGGCGCACGCTCAAAGGCCAC +AAAATCGGCCTGACCTCAAAAGCGATGCAGGCCAGCTCGCAAATCAGCGAACCGGATTAC +GGCGCGCTGCTTGACGATATGTTCTTCCATGACGGCGGAGATATCCCCACCGACCGTTTT +ATCGTCCCGCGTATTGAAGTGGAGCTGGCGTTCGTGCTGGCGAAACCGCTGCGCGGCCCT +CACTGCACGCTGTTCGACGTCTACAACGCCACGGATTATGTGATTCCGGCGCTGGAACTG +ATTGACGCCCGCAGCCACAACATCGACCCGGAAACCCAGCGCCCGCGCAAAGTGTTCGAC +ACCATTTCCGACAACGCCGCCAACGCCGGGGTGATCCTCGGTGGTCGCCCCATCAAACCA +GACGAGCTGGATCTGCGCTGGATCTCCGCGCTGCTCTATCGCAACGGCGTGATCGAAGAA +ACCGGCGTCGCCGCAGGCGTGCTGAATCATCCGGCCAACGGCGTGGCGTGGCTGGCGAAC +AAGCTTGCCCCCTACGATGTCCAGCTTGAAGCCGGGCAGATCATCCTCGGCGGCTCGTTC +ACCCGCCCGGTGCCGGCGCGCAAGGGCGACACCTTCCATGTCGATTACGGCAACATGGGC +GCGATCAGTTGCCGGTTTGTGTAA +>11111_1#11_04073 +ATGAAAAATGCTTTCAAAGACGCGTTAAAAGCGGGGCGCCCGCAAATCGGTTTGTGGCTG +GGGCTTGCCAACAGTTACAGCGCTGAACTGTTAGCGGGCGCCGGCTTCGACTGGCTACTG +ATTGACGGTGAACACGCGCCAAACAACGTGCAGACGGTGTTGACCCAGTTGCAGGCGATT +GCGCCTTATCCCAGCCAGCCGGTGGTGCGTCCGTCATGGAACGATCCGGTACAGATTAAG +CAACTGCTCGACGTCGGCGCGCAAACGCTGCTGATACCGATGGTGCAGAATGCCGATGAA +GCGCGAAACGCCGTGGCGGCTACGCGTTATCCGCCTGCCGGTATTCGCGGCGTGGGCAGC +GCGCTGGCGCGGGCATCGCGCTGGAATCGCATTCCGGACTATCTCCACCAGGCCAACGAC +GCCATGTGCGTACTGGTGCAGATTGAAACGCGTGAGGCGATGAGCAATCTGGCGTCAATT +CTCGACGTGGATGGCATTGACGGCGTGTTTATTGGCCCGGCGGATCTCAGCGCCGATATG +GGCTTTGCCGGCAATCCGCAGCACCCGGAAGTGCAGGCGGCGATTGAGAACGCCATCGTG +CAGATACGCGCGGCGGGGAAAGCGCCGGGGATTCTGATGGCCAATGAAGCACTGGCGAAA +CGTTATCTGGAACTGGGGGCGCTATTTGTCGCCGTCGGCGTTGACACCACGCTGCTGGCG +CGCGGAGCGGAGGCGCTGGCGGCGCGCTTTGGCGCAGAAAAAAAACTGTCCGGTGCGTCC +GGCGTCTATTAA +>11111_1#11_04074 +ATGAGCGACACATCATCTGCACTTCCGGAAAGCCCCGAGTCTGTCGGTTCGCACAACGCG +CTCAGCACGGGTCAACAAACCGTCATAAATAAACTGTTCCGCCGACTGATCGTATTTTTA +TTCGTGTTGTTTATCTTCTCGTTTTTAGACCGTATCAACATCGGTTTTGCCGGGTTGACG +ATGGGGCAGGATCTGGGGTTAAGCGCCACCATGTTTGGTCTTGCCACGACGCTGTTTTAC +GCCACCTACGTCATTTTCGGCATTCCCAGCAACGTGATGTTGAGCATCGTCGGCGCCCGC +CGCTGGATTGCGACCATTATGGTGCTATGGGGCATTGCATCTACCGCCACGATGTTCGCG +GTGGGACCGAAAAGCCTGTATGTGCTGCGAATGCTGGTGGGCATTACCGAAGCGGGCTTT +TTGCCAGGAATATTGCTCTATTTAACCTACTGGTTCCCGGCATTTTTCCGCGCCCGCGCC +AACGCATTATTTATGATTGCCATGCCGGCCACTACCGCGTTGGGGTCAATTGTCTCCGGC +TATATTTTATCGCTGGACGGCATATTCAATCTGCATGGATGGCAGTGGTTATTCCTGTTG +GAAGGATTTCCGTCAGTTTTGTTAGGCATTATGGTCTGGTTTTACCTGGATGATACCCCG +GCAAAAGCCAAATGGCTGACGGCAGAGGATAAAAAATGTTTGCAGGAGATGATGGATAAT +GATCGCCTGACGCTGGTTCAGCCTGAGGGGGCCATCAGCCATAACGCCATGCAGCAGCGT +AGCCTGTGGCGCGAAGTATTCACGCCAATTGTACTGATGTATACGCTGGCCTATTTTTGC +CTTACCAATACGCTTAGCGCCATTAGTATCTGGACGCCGCAAATCCTGAAAAGTTTTAAT +GAAGGCAGCAGCAATATCACCATCGGCCTGCTGGCGGCGATCCCGCAGATTTGTACTGTT +CTGGGCATGATTTACTGGAGCCGCCATTCGGACAAACATCAGGAGCGTAAACACCACACT +GCGTTACCGTTCCTGTTTGCCGCCGCGGGCTGGCTGCTGGCGTCGGCGACCGACCGTAAC +CTGATCCAGCTCCTGGGGATCGTGATGGCATCCACGGGTTCCTTTAGCGCGATGGCGATC +TTCTGGACCACGCCGGATCAGTCGATCAGTTTACGCGCCAGGGCGATAGGCATTGCGGTC +ATCAATGCCACCGGCAATATTGGCTCCGCGCTCAGCCCGGTTATGATTGGCTGGCTAAAA +GATATCACTGGTAGCTTCAATAGCGGACTCTGGTTTGTCGCTTCTCTGTTAGTCGTCGGC +GCCGCCATTATCTGGCTCATTCCCATGAAAGCATCGCGTCCGCGCGCCACCCCTTGA +>11111_1#11_04075 +ATGTGCCAACGTGCGATCGCCAATATTGATATCAGCAAAGAGTATGACGAAAGCATGGGC +AGTAACGATGTGCATTATCAGTCGTTTGCTCGTATGGCGGATTTCTTTGGTCGTGATATG +CAGGCGCATCGCCACGACCAGTTTTTTCAAATGCACTTTCTTGATACCGGGCAGATTGAG +CTACAGCTCGACGATCATCGCTATTCGGTGCAGGCGCCGCTATTTGTGCTAACGCCGCCC +TCGGTGCCGCATGCTTTTATTACCGAATCGGATAGCGATGGTCATGTTCTGACGGTACGC +GAAGAGCTGGTTTGGCCGCTGCTGGAAGTGCTTTATCCCGGCACCAGAGAGGCCTTCGGC +CTGCCGGGAATCTGCCTGTCGCTGGCGGATAAACTCAACGAGCTGGCGGCGCTCAAACAT +TACTGGCAGCTAATTGAGCGGGAGTCCACGGAACAACTGGCTGGCTGCGAACATACCTTG +GTACTACTGGCGCAGGCGGTATTTACCTTGCTGTTGCGTAATGCGAAGCTGGACGATCAT +GCCGCAACCGGGATGCGCGGTGAACTGAAACTTTTTCAGCGCTTTACCCTGTTAATTGAC +AACCACTTCCATCAGCACTGGACGGTGCCCGATTATGCCTGTGAGTTGCATATTACCGAA +TCTCGTTTGACCGATATTTGCCGACGTTTTGCTAATCGCCCGCCTAAACGCCTGATTTTT +GATCGGCAATTACGCGAGGCGAAACGACTGCTGCTTTTTTCCGACAATGCTGTCAACGAG +ATCGCCTGGCAATTAGGTTTTAAAGATCCGGCTTATTTCGCCCGTTTCTTTAATCGCCTT +GCTGGCTGTTCTCCTTCGCAGTTTCGCCAACGTGAAGTTCCTTCTTTTCTCAACTAA +>11111_1#11_04076 +ATGATGAAAAAAAGCGTCGCTATGCTGGCGGTTTGTATGCTGGCGCAAAGCCACCTTGCC +ATTGCTGCCGGTGCTCCTGCGCCTCAAGAGATCAACATTGTTTTACTGGGCACCAAAGGC +GGGCCTTCTTTGCTCAATACAGCCAGACTACCGCAAGCGACGGCGCTCACTATCGGCGAT +AAGATATGGCTGATAGATGCCGGCTACGGCGCCAGTCTGCAACTGGTGAAAAATGGCATT +CCACTGCGCAACATCAATACTATTTTGCTCACCCATCTGCACAGCGACCACATACTGGAT +TATCCTTCCTTGCTGATGAATGCCTGGGCAAGTGGCCTGAAAGACCATACCATACAGGTT +TATGGCCCGCCGGGAACCCAGGCGATGACGAAGGCTAGCTGGAAGGTCTTTGACAGGGAT +ATCACGTTACGCATGGAAGAAGAGGGGAAACCCGATCCGCGCAACCTGGTTAAGGCGACC +GATATCGGCCAGGGCGTCATCTATAAAGATGAACTGGTCACAATAAGCGCGCTGAAAGTG +CCTCATTCCCCTTTCCCGGACGGTGAAGCGTTTGCTTACCGTTTTGATACTCAGGGTAAG +CGAATCGTCTTCTCTGGCGATACGTCCTGGTTTCCTCCGCTTGCAACGTTTGCCCAGGGG +GCGGATATCCTGGTACATGAGGCGGTACATGTCCCTTCGGTAGCAAAACTGGCTAATAGT +ATTGGCAACGGAAAAACGCTGGCTGAAGCGATTGCGTCGCATCACACCACGATTGAAGAT +GTCGGTAAGATTGCTCGCGAGGCCCACGTGAAAAAACTGGTGTTAAGTCATCTGGTGCCT +GCGACGGTTGCGGATGACGTCTGGCAACAGGAAGCCATGAAAAATTACCCGGGCCCTGTC +ATTGTCGGTCATGACAATATGACGATAAGCGTACCGTAA +>11111_1#11_04077 +ATGGCTAACATCACTGTCACCTTTACCATCACCGAATTTTGTTTGCACACCGGCGTGACG +GAAGAGGAGCTAAACGAAATCGTCGGACTTGGCGTAATTGAGCCTTACGAAGACGATAAC +GCCGACTGGCAATTCGACGATCGCGCAGCGAGCGTGGTACAACGCGCGCTACGCTTACGC +GAGGAGCTGGCGCTCGACTGGCCAGGGATCGCGGTCGCGTTAACGCTGCTGGAAGAGAAT +TCACGGCTGCGCGAAGAAAACCGGTTACTGCTGCAACGCCTTTCTCGCTTTATCTCGCAT +CCCTAA +>11111_1#11_04078 +ATGGAACTTAAGGATTATTACGCCATTATGGGCGTGAAACCGACGGACGATCTCAAGACG +ATTAAGACCGCCTATCGCCGACTGGCCCGCAAGTACCATCCAGATGTCAGCAAAGAACCC +GATGCCGAAGCCCGTTTCAAAGAGGTTGCTGAAGCATGGGAAGTGCTGAGTGATGAGCAA +CGGCGCGCCGAGTATGACCAGTTATGGCAACACCGTAACGATCCACAATTTAATCGCCAG +TTCCAGCAACACGAAGGCCAGCCGTATAACGCCGAAGATTTTGATGATATTTTCTCGTCT +ATTTTTGGTCAGCACGGTCGTCATTCGCACCACCGCCACGCCGCACGCGGTCATGATATC +GAAATTGAAGTGGCGGTATTCCTGGAAGAAACGCTGGAAGAGCACCAGCGTACGATTAGC +TATTCCGTCCCCGTTTATAACGCGTTCGGCCTGGTGGAGCGGGAAATTCCCAAAACATTG +AATGTGAAAATCCCGGCTGGCGTCAGCAACGGGCAACGAATCAGACTGAAAGGCCAGGGC +ACGCCGGGGGAAAACGGCGGACCTAATGGCGATTTATGGCTCGTTATCCATATTGCCCCG +CATCCGCTCTTTGATATCGTCAATCAGGATCTGGAAGTCGTCCTTCCGCTTGCCCCATGG +GAGGCGGCGCTCGGCGCTAAGGTGTCTGTGCCAACGCTTAAAGAGCGTATTTTGCTGACC +ATTCCCCCCGGCAGCCAGGCAGGTCAGCGGCTGCGTATCAAAGGAAAAGGATTAGCCAGT +AAAAAGCACACTGGCGATCTCTATGCCATCATCAAAATCGTTATGCCGCCGAAACCTGAC +GAGAAAACAGCTGCCCTGTGGCAACAACTGGCGGACGCGCAGTCGTCCTTTGACCCACGC +CAGCAATGGGGGAAAGCATAA +>11111_1#11_04079 +ATGGCGAAACAACAACGGATGGGCTGGTGGTTTCTTTGCCTTGCATGTGTCGTGGTAATG +GTTTGTACCGCGCAACGCATGGCGGGCCTGCACGCCTTGCAGATGCAGGCGACGGCCTCT +GCTGCGGTGGTCAGCGCTCCCTCCTCGACAGATGACGGCTCGCCGGTCACTCCCTGCGAA +TTAAGCGCCAAGTCGCTGCTGGCGGCGCCTCCAGTACTCTTTGAAGGTGCTATCCTTGCG +CTTTATCTACTGCTTTCCTTACTGGCGCCTGTCCGGGTCATGCGCCTGCCGTTTTCGCCT +CCACGGGCTATTTCGCCGCCCACATTACGGGTACATCTACGATTTTGTGTCTTCCGTGAA +TGA +>11111_1#11_04080 +ATGATGATTTTATTCAGGCGGATACTGTTCTGCCTGTTATGGCTTTGGCTGCCCGTCTCC +TGGGCGGCGGAAAGCGGCTGGCTGCGTTCGCCCGATAACGACCATGCCAGCATACGGCTA +CGTGCCGATACGTCCGCTAACAGTGAGACCCGGCTGTTGCTGGATGTCAAACTGGAAAAC +GGCTGGAAAACCTACTGGCGCGCGCCGGGGGAAGGGGGCGTGGCACCCTCTATCGCCTGG +AAAGGCGACATGCCTGAGGTAAGCTGGTTCTGGCCAACCCCCTCGCGCTTTGATGTGGCG +AATATCACCACCCAGGGATATCACGACGAGGTGACCTTTCCGATGATCGTGCGCGGTACG +CCGCCGGCGACCTTGCGCGGTGTGTTGACGTTATCAACCTGCAGCAATGTTTGTCTGTTG +ACCGATTACCCCTTTTCCGTGACGCCCACTGTGCAGAATGCCGATTTTGCCCATGACTAT +GCGCGGGCGATGGGTAAAGTTCCGCTCCGCAGTGGGCTAACGGACTCGCTTGACGTTGGC +TATCGCCCGGGAGAACTGGTGGTCACTGCTACGCGAGCGGCGGGCTGGTCATCGCCCGGG +CTCTATCTTGACACCATAGATGACGTCGATTTTGCGAAGCCTCGCCTGCGCGTAGAGGGC +GACAGGTTACAGGCGACGGTGCCGGTGACGGACAGTTGGGGCGAAAAGGCGCCCGATTTG +CGCGACAAATCGCTGACCCTCGTGTTAGCCGATGGCGCTATCGCCCAGGAGAGCACGCAA +ACCATTGGCGCTGCGCCAGCGCAAACGCCGGACAATGCGGCGCTACCTTTCTGGCAAGTT +GTAATGATGGCGCTAATCGGCGGACTGATTCTTAATTTAATGCCCTGCGTACTGCCTGTT +CTGGGCATGAAACTTGGCTCTATTTTATTGGTAGAGGAAAAAAGCCGCTCTCACATCAGG +CGACAATTTTTGGCTTCGGTCGCCGGTATCATTGCGTCATTTATGGCGCTGGCGGCGTTT +ATGACCCTCCTTCGCCTGTCAAACCATGCGCTGGCCTGGGGAGTCCAGTTCCAGAATGCA +TGGTTTATTGGTTTTATGGCGCTGGTGATGTTGTTGTTTAGCGCCAGCCTGTTCGGGCTT +TTTGAGTTCAGGCTTCCCTCATCTATGACCACGAAACTGGCCACTTACGGCGGTAACGGT +ATGTCGGGACATTTCTGGCAGGGGGCGTTCGCCACGCTGCTGGCGACGCCTTGTAGCGCG +CCGTTTCTGGGCACGGCGGTCGCGGTGGCGCTCACGGCGTCGCTGCCGACGCTGTGGGGG +CTGTTCCTTGCGCTTGGCCTGGGAATGAGCGCGCCGTGGCTACTGGTCGCGATACGACCA +GGGCTTGCGCTACGTTTACCGCGCCCCGGGCGTTGGATGAATGTCCTGCGCAGGATCCTC +GGTCTGATGATGCTGGGGTCGGCTATCTGGCTGGCGACGTTACTCCTGCCGCATTTCGGC +TTCACTGCGTCAAAGAGCGCGCAAGACACGGTTCAGTGGCAACCGTTGAGTGAACAGGCA +ATCCAGTCGGCGCTGGCGCAGCATAAGCGGGTATTTGTCGATGTCACTGCGGACTGGTGT +ATTACCTGTAAAGTGAATAAATACAACGTCCTGCAAAAAGAGGATGTGCAGGCCGCCTTG +CAACAGCCGGATGTTGTGGCGCTGCGGGGAGACTGGACGCTGCCGTCCGATGCCATTACA +GATTTTCTGAAAACGCGCGGCCAGGTCGCCGTGCCGTTTAATCAGGTATATGGCCCCGGT +TTGCCGGAAGGGGAGGCACTGCCCACTTTGCTGACCCGCGATGCGGTATTACAAACGTTG +AAAAAAGCGAAAGGAATAACCCAATGA +>11111_1#11_04081 +ATGAAATACATGATTGTTTTACTGCTGGCGCTGTTTTCGACGCTGAGCATCGCGCAAGAA +ACCGCTCCTTTTACGCCGGATCAGGAAAAGCAGATTAAAAATCTGATCCATGCGGCGTTG +TTTAACGATCCTGCCAGCCCGCGGATAGGCGCTAAACACCCTAAGCTGACGCTGGTGAAC +TTTACGGATTACAACTGCCCGTACTGCAAACAGCTCGATCCGATGCTGGAAAAGATTGTG +CAGAAATATCCTGACGTTGCGGTCATTATTAAACCGCTGCCATTCAAAGGAGAGAGTTCC +ATACTGGCGGCGCGTATTGCGCTGACCACCTGGCGCGATCATCCGCAACAGTTCCTCGCG +CTACATGAAAAACTTATGCAAAAGCGCGGTTACCATACGGATGACAGTATTAAACAGGCC +CAGCAGAAAGCAGGGGCGACGCCAGTGACGCTGGATGAAAAAAGCATGGAAACGATACGC +ACTAATTTGCAGTTGGCAAGACTGGTCGACGTGCAAGGAACGCCAGCGACGATCATTGGC +GACGAGCTGATTCCGGGCGCAGTGCCCTGGGATACGCTGGAAGCGGTGGTGAAAGAAAAA +CTGGCGGCTGCCAATGGCGGGTAA +>11111_1#11_04082 +ATGGCGGGTAAACTGCGGCGTTGGCTGCGTGAAGCCGCGGTTTTTCTGGCGCTCCTCATC +GCGATAATGGTGGTCATGGACGTCTGGCGCGCGCCGCAGGCGCCTCCGGCGTTTGCCGCG +ACACCATTACATACGCTGACGGGAGAGTCGACAACTCTGGCGACCTTGAGCGAGGAACGC +CCCGTACTGCTCTATTTTTGGGCCAGCTGGTGCGGGGTATGCCGCTTTACCACGCCTGCG +GTCGCTCACCTGGCGGCGGAAGGGGAAAACGTCATGACCGTTGCGCTCCGCTCCGGCGGT +GATGCTGAGGTTGCCCGCTGGCTGGCGCGCAAGGGCGTTGACTTCCCGGTCGTCAATGAT +GCTAACGGCGCCTTATCCGCTGGCTGGGAAATCAGCGTGACGCCAACGCTGGTGGTGGTT +TCACAAGGTCGGGTTGTGTTCACCACCAGCGGCTGGACCAGCTATTGGGGCATGAAGCTT +CGGCTGTGGTGGGCAAAAACGTTCTGA +>11111_1#11_04083 +ATGAAAAAATCATTACTCGCTGTTGCTGTGGCAGGGGCTGTTTTGTTGTCATCCGCCGTA +CAGGCGCAGACAACGCCGGAAGGTTATCAATTACAACAGGTGCTGATGATGAGCCGCCAT +AATCTGCGGGCGCCGCTGGCGAATAATGGCAACGTACTGGCGCAGTCGACGCCGAACGCC +TGGCCGGCGTGGGACGTTCCCGGCGGGCAACTGACGACGAAAGGCGGCGTGCTGGAAGTC +TATATGGGACACTACACACGTGAATGGCTGGTCGCGCAGGGGCTGATACCGTCGGGAGAA +TGTCCGGCGCCCGACACGGTATATGCCTATGCGAATAGTTTGCAGCGCACCGTCGCCACC +GCGCAATTTTTCATTACCAGCGCTTTCCCCGGCTGTGATATTCCTGTTCATCATCAGGAA +AAAATGGGCACTATGGACCCTACCTTCAATCCGGTGATTACCGATGATTCCGCCGCGTTC +CGGCAACAGGCCGTACAGGCGATGGAAAAGGCGCGTAGTCAGCTACATCTTGATGAGAGT +TATAAACTGCTTGAGCAGATAACGCATTATCAGGACTCGCCGTCCTGCAAAGAGAAGCAT +CAGTGTTCGCTAATCGACGCGAAAGATACCTTCAGCGCGAACTATCAGCAAGAGCCTGGC +GTGCAGGGGCCGCTGAAAGTAGGGAACTCGCTGGTGGATGCGTTTACCCTGCAATATTAC +GAAGGCTTTCCGATGGATCAGGTCGCTTGGGGCGGGATCCACACCGATCGGCAGTGGAAG +GTGCTGTCAAAACTGAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCCACGGTGGCG +CGCAATGTCGCTGCGCCGCTGGTAAAATATATCGATAAGGTGCTGGTTGCCGAGCGCGTT +AGCGCGCCGAAGGTTACCGTGCTGGTGGGGCATGATTCCAATATCGCGTCGCTGCTGACG +GCGCTGGATTTTAAACCCTATCAGCTCCATGACCAGTATGAGAGAACGCCGATTGGTGGT +CAGCTTGTCTTCCAACGCTGGCATGACGGTAACGCTAACCGGGATTTGATGAAAATCGAG +TATGTCTACCAGAGCGCCCGGCAGTTACGTAATGCGGAAGCGTTAACGCTCAAATCGCCT +GCGCAAAGGGTAACGCTGGAACTGAAAGGATGTCCGGTGGATGCGAACGGCTTCTGTCCG +CTGGATAAGTTCGATAACGTCATGAACACTGCTGCAAAATAG +>11111_1#11_04084 +ATGCCAACTCAAGAAGCAAAAGCGCACCGCGTCGGCGAATGGGCAAGCCTGCGTAATACG +TCGCCGGAAATTGCCGAAGCCATTTTTGAAGTCGCTCACTATGACGAGAAACTGGCAGAA +AAAATATGGGAAGAAGGTAGCGATGAGGTGCTGATCAAAGCCTTTGAGAAAACGGACAAA +GACTCGCTCTTCTGGGGCGAACAAGTCATCGAACGTAAGAACGTATAA +>11111_1#11_04085 +ATGGCAAAGATTCTGGTGCTCTATTATTCCATGTACGGACACATTGAAACCATGGCGCAC +GCGGTGGCGGAAGGGGCAAAGAAAGTCGACGGCGCAGAGGTCATTATAAAGCGTGTGCCA +GAAACAATGCCGCCTGAAATCTTCGCAAAAGCTGGCGGTAAAACGCAAAACGCACCGGTT +GCCACCCCACAGGAGCTGGCGGATTACGATGCCATTATTTTTGGTACGCCAACCCGGTTT +GGCAATATGTCAGGCCAGATGCGTACCTTCCTGGACCAAACCGGCGGACTGTGGGCATCC +GGCGCGCTATACGGCAAGCTCGGCGGCGTGTTCAGTTCTACCGGAACGGGCGGCGGCCAG +GAGCAGACCATCACCTCGACCTGGACTACGCTTGCCCATCATGGGATGGTGATTGTCCCG +ATAGGCTATTCCGCACAGGAACTGTTTGACGTCTCCCAGGTTCGCGGCGGTACGCCTTAC +GGCGCAACGACTATCGCTGGAGGCGACGGTTCACGTCAACCAAGCCAGGAGGAACTCTCT +ATCGCTCGCTATCAGGGGGAATACGTCGCCGGTCTGGCAGTCAAACTCAACGGCTAA +>11111_1#11_04086 +ATGGCAAACCATCGTGGCGGTTCCGGTAATTTTGCGGAAGACCGCGAAAGAGCATCAGAA +GCAGGTCGTAAAAGTGGTCAGCACAGCGGGGGCAATTTTAAGAATGACCCGCAGCGTGCA +TCCGAAGCAGGCAAAAAAGGGGGCAAAAGCAGTAACCGTAATCGCTAG +>11111_1#11_04087 +ATGTCGCAACGCACAGAGAAAAAAATCGGGAAACGTTCGCAGGCCACCGGTGCAAAACGG +CAGCTTATCTTAACCGCCGCGCTTGCCGTTTTTTCCCAGTATGGCATTCATGGCGCGCGT +CTTGAACAGGTCGCCGAGCGGGCAGGCGTCTCCAAAACCAATCTGCTTTATTATTATCCC +TCGAAAGAGGCGCTGTATGTCGCGGTAATGCGACAGATTCTGGATGTCTGGTTGGCGCCG +CTCAAGGCGTTTCGCGCAGAATTTTCCCCTCTGGAGGCCATCAAAGAGTATATCCGTCTC +AAGCTGGAGGTTTCGCGTGATTATCCGCAGGCGTCGCGGCTCTTCTGCATGGAGATGCTG +GCGGGCGCGCCGCTCTTAATGGATGAACTGACCGGCGATCTAAAAGCGTTGATAGATGAA +AAATCCGCGCTGATTGCCGGATGGGTGCACAGCGGGAAACTCGCGCCCGTTTCTCCGCAT +CATTTGATCTTCATGATTTGGGCCGCCACGCAACATTACGCCGATTTCGCCCCTCAGGTT +GAAGCGGTAACCGGCGCGACGCTTCGCGATGAAGCCTTTTTCAACCAAACGGTCGAAAGC +GTTCAGCGCATTATTATTGAAGGGATTCGCGTGCGTTAA +>11111_1#11_04088 +ATGAAACGAATTTTCCTTACCTGCGCGGCGTTGTTGTTCAGCAGTCAGGCGTTGGCCGAT +GAGTGTGCCAGCGCCAGTACGCAGCTGGAAATGAATCGCTGCGCCGCCGCGCAATACCAG +GCGGCAGATAAAAAGCTGAACGAAACCTATCAAAGCGCGATTAAGCGTGCGCAACCGCCG +CAGCGTGAGCTATTGCAAAAAGCGCAGGTGGCATGGATTGCCCTGCGCGACGCCGATTGC +GCGCTGATTCGCTCAGGTACGGAGGGCGGCAGCGTTCAACCCATGATCGCCAGCCAGTGC +CTGACCGATAAAACGAACGAACGCGAAGCGTTTTTAGCCTCGCTGCTGCAATGTGAAGAG +GGTGATTTGAGCTGCCCACTGCCGCCAGCCGGTTAA +>11111_1#11_04089 +ATGGGAACCACCACGATGGGGGTTAAGCTGGACGACGCCACGCGCGAACGGATCAAAATG +GCCGCGTCGCGTATCGATCGCACGCCGCACTGGTTAATAAAACAGGCAATCTTTAGCTAT +CTGGACAAGCTGGAAAATAGCGATACGCTACCGGAGCTACCTGCGCTGTTTGCCGGCGCG +GCAAATGAAAGCGAGGAGCCGGTCGCGCCGCAGGATGAGCCGCATCAGCCCTTTCTGGAG +TTTGCCGAACAGATTCTTCCCCAATCCGTCTCTCGCGCCGCCATCACCGCCGCCTGGCGC +CGCCCGGAAACCGATGCGGTGTCAATGCTAATGGAACAGGCGCGCCTGTCGCCGCCTGTC +GCTGAGCAGGCGCATAAACTGGCGTATCAACTGGCGGAGAAATTGCGCAATCAAAAATCC +GCCAGCGGTCGCGCGGGTATGGTGCAAGGCCTGTTGCAGGAGTTTTCCCTCTCTTCGCAA +GAAGGCGTAGCGCTGATGTGTCTGGCGGAAGCGCTGCTGCGTATTCCCGACAAAGCTACG +CGCGATGCGTTAATTCGCGACAAAATCAGTAATGGCAACTGGCAGTCGCATATTGGCCGT +AGCCCGTCGCTGTTTGTAAACGCCGCCACCTGGGGGCTGCTCTTTACCGGCCGACTGGTC +TCAACGCATAACGAAGCCAATCTTTCGCGCTCGCTGAACCGCATTATCGGCAAGAGCGGC +GAACCGTTAATCCGCAAAGGCGTCGACATGGCGATGCGTTTAATGGGCGAGCAGTTCGTG +ACTGGCGAAACCATTGCTCAGGCGCTGGCGAATGCCCGAAAACTGGAAGAGAAAGGGTTC +CGCTATTCTTACGATATGCTGGGCGAAGCCGCGTTAACCGCCGCCGATGCGCAGGCCTAT +ATGGTCTCTTACCAGCAAGCGATTCATGCCATCGGCAAAGCGTCTAACGGTCGCGGTATT +TACGAAGGGCCAGGCATCTCGATTAAGCTGTCCGCCCTGCATCCACGCTATAGTCGCGCG +CAATACGATCGGGTAATGGAGGAGCTTTATCCGCGCCTGAAATCCCTGACGCTGCTGGCG +CGCCAGTATGATATCGGTCTCAATATCGACGCCGAAGAGGCGGATCGTCTGGAGATCTCG +CTTGATCTGCTGGAAAAACTCTGCTTCGAACCCGAACTGGCGGGCTGGAACGGCATTGGC +TTTGTGATTCAGGCTTACCAGAAACGCTGCCCGCTGGTCATTGATTATTTAGTCGATCTG +GCCTCCCGTAGCCGCCGTCGGCTGATGATTCGTCTGGTGAAAGGCGCCTACTGGGATAGC +GAGATCAAACGCGCGCAAATGGAAGGGCTGGAGGGCTATCCAGTTTATACCCGCAAAGTG +TATACCGATGTCTCTTATCTGGCCTGCGCGAAAAAACTGCTCGCCGTCCCTAATCTGATC +TACCCGCAGTTCGCGACCCATAACGCTCACACACTGGCGGCGATTTATCATCTGGCCGGG +CAAAATTACTATCCGGGTCAGTACGAATTCCAGTGCCTGCACGGCATGGGAGAACCGCTG +TATGAACAGGTCACCGGTAAAGTGGGGGACGGAAAACTTAACCGTCCCTGCCGTATTTAC +GCGCCGGTGGGAACACACGAAACCCTGCTGGCCTATCTGGTACGACGCCTGCTGGAAAAC +GGCGCCAACACCTCTTTTGTCAACCGCATCGCCGATGCCACCCTACCGCTCGATGAACTG +GTGGCCGACCCGGTCGAGGCCGTGGAAAAACTGGCGCAGCAGGAAGGTCAGGCTGGCATA +CCGCATCCAAAAATTCCGCTGCCGCGCGATCTGTACGGCGAAGGTCGGATAAACTCCGCC +GGACTTGATTTAGCGAATGAACATCGCCTCGCCTCGCTTTCTTCTGCCCTGTTAAGCAAC +GCCATGCAGAAATGGCAGGCCAAACCTGTGCTGGAACAACCGGTGGCCGACGGTGAGATG +ACGCCGGTTATCAACCCGGCGGAACCGAAAGATATTGTTGGCTGGGGACGCGAAGCGACA +GAAAGCGAGGTTGAACAGGCGTTGCAAAACGCGGTCAATCAGGCGCCGGTTTGGTTTGCG +ACGCCGCCGCAAGAACGCGCCGCTATTTTGCAGCGGGCGGCGGTATTGATGGAAGACCAA +ATGCAGCAGTTGATTGGCCTGTTGGTGCGTGAAGCGGGGAAAACGTTCAGCAACGCCATT +GCCGAAGTGCGCGAAGCGGTAGACTTCCTCCATTATTATGCCGGTCAAGTGCGTGACGAT +TTCGATAACGAAACGCATCGCCCGTTAGGGCCGGTGGTCTGTATCAGTCCGTGGAACTTT +CCGCTGGCCATTTTCACTGGCCAAATCGCCGCCGCGCTGGCGGCAGGTAACAGCGTTCTG +GCGAAACCGGCAGAGCAGACATCGCTGATTGCCGCCCAGGGCATTGCCATTTTGCTGGAA +GCGGGCGTACCGCCGGGCGTCGTGCAACTGTTGCCGGGACGGGGAGAAACCGTCGGCGCC +CAGCTTACCGCCGATGCGCGTGTACGCGGCGTGATGTTTACCGGTTCCACGGAGGTCGCG +ACGTTGTTGCAGCGCAACATCGCCACGCGTCTTGACGCCCAGGGGCGCCCTATTCCGTTG +ATTGCGGAAACCGGCGGTATGAACGCTATGATTGTCGACTCTTCCGCGCTCACCGAGCAG +GTGGTCGTGGATGTGCTGGCTTCCGCCTTCGACAGCGCCGGACAACGCTGTTCCGCGCTC +CGCGTGCTGTGTTTGCAGGACGATATCGCCGAACATACGCTGAAAATGTTACGCGGCGCG +ATGGCGGAGTGTCGGATGGGGAATCCAGGCCGTCTGACGACCGATATCGGGCCGGTGATC +GATAGCGAGGCCAAAGCCAACATTGAACGTCATATCCAGACGATGCGCGCCAAAGGCCGC +CCGGTTTTCCAGGCCGCGCGTGAAAACAGCGATGACGCGCAGGAATGGCAGACCGGTACG +TTTGTTATGCCCACGCTTATTGAGCTGGAAAACTTCGCAGAACTGGAAAAAGAGGTCTTC +GGGCCCGTGCTGCACGTCGTGCGTTATAACCGTAACCAACTGGCGGAGCTTATCGAACAG +ATTAACGCTTCCGGCTACGGGCTAACGCTGGGCGTACATACCCGTATTGATGAAACCATT +GCGCAAGTCACCGGTTCCGCCCATGTCGGCAACCTGTACGTTAACCGTAATATGGTGGGC +GCGGTCGTCGGCGTCCAGCCGTTTGGCGGCGAAGGCCTGTCCGGCACCGGGCCAAAAGCG +GGAGGGCCGCTCTATCTCTACCGCCTGCTGGCACACCGCCCGCCCAATGCGCTCAATACG +ACGCTGACTCGTCAGGATGCGCGTTACCCGGTGGATGCGCAGCTTAAAACCACGCTACTC +GCGCCGTTGACCGCTCTGACGCAATGGGCGGCGGATCGCCCGGCGCTACAGACGCTCTGC +CGACAATTCGCCGATCTGGCGCAGGCCGGCACGCAGCGCCTGCTACCGGGGCCGACCGGC +GAGCGTAATACCTGGACGCTGTTGCCGCGTGAACGGGTGTTATGCCTGGCTGATGATGAA +CAGGACGCGTTGACGCAGCTTGCCGCCGTTCTCGCCGTCGGCAGTCAGGCGCTATGGTCA +GACGACGCCTTCCACCGCGATCTGGCGAAACGTCTCCCCGCCGCCGTCGCGGCGCGTGTC +CAGTTTGCGAAAGCGGAAACGCTGATGGCGCAGCCGTTTGACGCGGTGATTTTCCACGGC +GACTCCGACAAGCTGCGAACCGTGTGCGAAGCCGTCGCCGCCCGCGAAGGCGCGATAGTG +TCGGTACAGGGGTTCGCCCGCGGCGAAAGCAATATGCTGCTGGAACGGCTCTATATTGAA +CGTTCGCTGAGCGTAAACACTGCCGCCGCTGGCGGTAATGCCAGCCTGATGACAATTGGC +TAA +>11111_1#11_04090 +ATGGCTATTAGCACACCGATGTTGGTGACATTCTGTGTCTATATTTTTGGCATGATATTG +ATTGGGTTTATCGCCTGGCGCTCAACCAAAAACTTTGATGACTATATTCTTGGCGGTCGC +AGCCTGGGGCCGTTTGTTACGGCTTTATCAGCCGGCGCGTCGGATATGAGCGGCTGGCTG +TTAATGGGGCTGCCTGGCGCTATCTTTCTGTCGGGGATCTCTGAAAGCTGGATCGCCATT +GGCCTGACGTTAGGCGCATGGATTAACTGGAAGCTGGTGGCCGGGCGCCTGCGCGTGCAT +ACCGAATTTAACAATAACGCGCTCACGCTGCCGGACTATTTTACCGGTCGGTTTGAGGAT +AAGAGCCGAGTCCTGCGTATTATTTCCGCGCTGGTCATTCTGCTGTTTTTCACTATCTAT +TGCGCATCAGGTATTGTCGCTGGGGCACGACTGTTCGAAAGCACCTTCGGTATGAGCTAT +GAAACCGCACTGTGGGCGGGGGCCGCGGCAACCATTATTTATACCTTTATCGGCGGGTTT +CTTGCCGTTAGCTGGACGGATACCGTTCAGGCCAGCCTGATGATTTTTGCGTTAATCCTG +ACGCCGGTGATGGTTATTGTCGGCGTAGGCGGTTTTAGCGAGTCGCTGGAAGTGATCAAG +CAAAAGAGCATCGAGAATGTCGACATGCTCAAGGGGCTGAATTTTGTCGCTATTATTTCT +CTGATGGGCTGGGGGCTGGGTTACTTCGGTCAGCCGCATATCCTGGCGCGCTTTATGGCG +GCGGATTCCCATCACAGTATTGTTCATGCGCGTCGTATCAGTATGACCTGGATGATTCTG +TGTCTGGCGGGCGCGGTGGCGGTGGGCTTCTTTGGCATTGCGTACTTTAACAATAACCCC +GCGCTGGCCGGGGCGGTGAACCAAAACTCAGAACGCGTATTTATTGAACTGGCGCAGATC +CTGTTTAACCCGTGGATTGCCGGTGTTCTGCTGTCTGCTATCCTGGCGGCGGTGATGTCG +ACGTTGAGCTGTCAGTTGCTGGTATGCTCCAGCGCGATTACGGAAGATTTATATAAGGCT +TTTCTGCGTAAAAGCGCCAGCCAGCAAGAGCTGGTATGGGTAGGGCGAGTGATGGTGCTG +GTGGTAGCGCTGATCGCCATTGCGCTGGCGGCGAATCCTGATAACCGTGTGCTGGGGCTG +GTGAGCTACGCCTGGGCTGGATTCGGCGCGGCATTTGGACCTGTTGTCCTGTTTTCTGTG +ATGTGGTCGCGTATGACACGTAACGGCGCGCTGGCGGGAATGATTATTGGCGCGGTGACG +GTTATCGTCTGGAAACAATATGGCTGGCTGGATCTGTATGAGATTATCCCTGGCTTCATT +TTCGGCAGCCTGGGGATCGTAATCTTTAGCCTGCTTGGCAAAGCGCCGACAGCAACGATG +CAGGAACGCTTTGCAAAAGCGGACGCGCATTATCATTCCGCGCCGCCGTCGAAGCTACAG +GCGGAATAA +>11111_1#11_04091 +ATGGTAATGTCCGCACCAGGACACATTGTTTACAGTAGTTACAACACCCTGTACGGACAT +TCTCTCTCCGGTGGTGGTCTTGTCATCTTAAAAGCTCTCATCATTTCCCTTACTGTCCAT +ACCCATGACGCCATATGTGGTGCGCGTAGCCGTGTGTGGCGTCGTTTCAAAAAGCAAGCT +AAGGCTTACAAGGAAGCCAACCCTCAGATGTGTGTGCGCATAATCGCGTTCAAGAGAACG +CGGGTGATGTATACCTACAACTCAAGGTGCTATCCATGGGAAGACAAAAAGCAGTGA +>11111_1#11_04092 +ATGGGAAGACAAAAAGCAGTGATCAAAGCTCGTCGTGAAGCAAAGCGTGTGTTGAGACGA +GATTCGCGTAGTCATAAGCAACGTGAAGAAGAATCGGTCACGTCACTGGTACAGATGGGC +GGAGTAGAAGCCATTGGCATGGCGCGCGATAGTCGCGATACCTCTCCTGTTAAGGCGCGA +AATGAAGCACAGGCGCATTATCTGAACGCTATCGACAGTAAACAGCTTATTTTTGCGACC +GGCGAAGCCGGCTGCGGAAAAACATGGATCAGTGCGGCAAAGGCGGCAGAAGCATTGATT +CATAAGGACGTCGAGAGGATCATTGTGACGCGTCCGGTATTGCAGGCTGATGAAGATCTT +GGTTTTTTGCCCGGTGATATCGCTGAAAAATTCGCGCCTTATTTTCGTCCCGTCTACGAT +GTCCTGCTTAAACGGTTGGGCGCGTCCTTTATGCAATATTGTTTGCGCCCGGAAATCGGT +AAGGTAGAAATTGCCCCGTTCGCCTATATGCGTGGGCGTACTTTTGAAAATGCGGTCGTG +ATCCTCGACGAGGCGCAAAATGTGACTGCGGCGCAAATGAAAATGTTTTTGACGCGATTA +GGCGAAAATGTCACGGTCATTGTCAATGGCGATATTACGCAATGCGACCTGCCGCGCGGT +GTGCGTTCCGGGTTGAGTGATGCGTTGGAACGCTTTGAAGAAGATGAAATGGTGGGGATT +GTGCATTTCAACAAAGACGACTGCGTGCGCTCGGCGCTTTGTCAGCGAACGCTCCACGCA +TACAGCTAA +>11111_1#11_04093 +ATGGAGCCTCAACCCCCACGTCTTAAACCCGGAAAAATCCTTGACACTCTGGGTGCTATG +CAAAAAAGCCTGACACGTGCCTCCCAGCGTATTGCGCAATATATTTTAGCCTTCCCCAGA +CAGGTGACACAGTCATCTATTGCCGATTTGTCGCGCGACACACAGGCCGGAGAAGCCACG +GTTATTCGCTTTTGTCGCACCCTGGGCTATAAAGGTTTTCAGGATTTTAAAATGGACCTG +GCCATTGAACTTGCCACTACCGAGTCTGATGACAGTAGTCCTCTACTGGATGCCGAAGTT +AGCGAATCCGACGATGCCCACGCCATTGGTTTAAAATTGCAGAACACCATTAGTAATGTA +TTATCTGAAACGCTAAATCTGCTTGATATGCAACAGGTTCTCGGTGTCGTGGACGCCCTA +CGTCACTGTCACTCAGTTTATATCTTTGGTGTGGGCTCATCGGGGATCACGGCGCTGGAT +ATGAAACACAAGCTAATGCGTATTGGTTTACGGGGCGATGCGGTAAGCAATAACCATTTT +ATGTACATGCAGGCTACGCTATTAAAAGCAGGCGATGTCGCGATGGGTGTCAGTCACTCG +GGCACATCGCCAGAAACAGTGCATTCACTCCGATTGGCCCGACAGGCTGGCGCCACCACA +GTCGCCATTACCCATAATCTGGGTTCTCCATTATGTGAAGAGGCCGATTTTTGCCTGATC +AATGGTAATCGGCAAGGAATGTTGCAGGGTGACTCGATCGGTACGAAAGCCGCGCAGCTT +TTCGTCTTTGACCTGCTCTATACCCTTCTTGTACAGTCCTCGCCGGAACAGGCCCGAGAA +AGCAAATTACGGACAATGAATGCCCTGGACATGACAAAATAA +>11111_1#11_04095 +GTGATATGTCTCAAAGTCCAGGGCGGCATTGGTGAAATTTTTACGGTGACGCAGCAGGCG +GATAAATTCTTTCCGGCTACGCAGTTCCACTGGAGCTGGACGGAAAGCACAGTACCTGTA +TTGATGATTGGTTTTCTGTTTGCCAATATTCAGCAATTTACTGCCAGTCAGGATGTGGTC +CAACGCTATATCGTGACTGACTCCATAGAGGAAACGAAGAAAACATTACTTACAAATGCC +AAACTGGTTGCTGTGATCCCTGTTTTCTTTTTTGCTATCGGCTCGGCATTATTTGTCTAC +TATCAGCAACATCCACAATTATTACCGGCGGGATTCAACACTGGCGGCATTTTGCCCTTA +TTCGTGGTCACCGAAATGCCAGTCGGCATTGCAGGGTTGATAATCTCCGCTATTTTCGCT +GCCGCGCAGTCCAGCATCTCCAGCAGCTTAAACAGCATTTCCAGTTGTTTTAATTCCGAT +ATCTATCAGCGTTTGAGTCATAAAAAAGGAACGCCAGAAAACCGTATGAAAATAGCTAAG +TTAGTTATTCTGGTCGCGGGCCTGATAAGTAGCGCGGCCTCGGTATGGCTGGTCATGGCC +GATGAATCAGAAATCTGGGATGCATTTAATAGTCTGATAGGTCTGATGGGAGGGCCAATG +ACCGGTCTGTTCATGCTGGGCATTTTCTTTAAACGAGCAAATGCCGGGAGTGCGGTTTTA +GGAATTATTATCAGCGTCATTACCGTGCTGGGCACACGCTATGCCACTGACCTTAACTTC +TTCTTTTATGGGGTCATTGGCTCGCTAAGCGTGGTGATCAGCGGCGTTATTTTCGCCCCG +TTATTTGCCCCGGCACCGCCATTGACGCTGGATGAAAAACCTGAACCAAAGGTGACATTA +TGA +>11111_1#11_04096 +ATGATTACACATTCTTTCGGCATCGTTAATTATTTTGTATTATTTGGCTACCTCCTGGCC +ATGATGTTAGTCGGTGTCTATTTTTCCAGACGGCAAAAAACAGCAGACGATTATTTTCGC +GGTGGTGGCCGGGTTCCTGGTTGGGCGGCTGGGGTCAGTGTATTTGCTACTACGTTAAGC +TCAATTACATTTATGTCAATTCCTGCCAAAGCGTTTACTTCCGACTGGACGTTTATCATT +GGTCAGTATCTGGCTATCGCAATTTTACCGCTGGTTTTTTATTTCTATATTCCGTTTTTT +CGGAAATTGAAAGTCACATCAGCCTATGAATATCTCGAAGCACGGTTCGATGTGCGCTGC +CGTCTGTTCGCCAGCATGTCATTTATGTTGTTTCATATTGGACGTATCGCCATTATCACT +TTCCTCACCGTGCTGGCCTTGCGCCCCTTCATCGCTATAGACCCGGTGATTTTGGTACTG +TTGATTAGTGTGATGTGTATCATTTATACCTGGATGGGGGGGAATTGA +>11111_1#11_04097 +ATGTCACTATTAGCCAGGCTGGAACAAAGTGTACACGAAAACGGTGGGCTGATTGTCTCA +TGCCAACCGGTACCAGGCAGCCCTATGGATAAACCTGAAATTGTGGCTGCAATGGCACAG +GCAGCGGCTTCGGCGGGTGCGGTCGCTGTGCGCATTGAAGGCATTGAGAATCTGCGGACT +GTTCGTCCCCATCTTTCTGTTCCTATTATTGGGATAATTAAACGTGACCTTACAGGGTCG +CCAGTCCGTATCACTCCATATTTACAGGATGTTGACGCCCTGGCGCAGGCAGGTGCCGAT +ATTATCGCTTTTGATGCCTCATTCCGCTCTCGCCCGGTTGATATTGATAGTTTACTGACA +CGTATTCGCCTGCATGGATTACTGGCGATGGCAGACTGTTCAACCGTGAATGAAGGCATA +AGTTGCCATCAGAAAGGAATCGAATTCATTGGTACAACACTGTCTGGCTATACCGGTCCC +ATCACGCCGGTTGAGCCAGATTTGGCAATGGTGACACAACTGAGTCATGCAGGTTGTCGT +GTTATTGCCGAGGGGCGCTATAACACGCCTGCACTGGCGGCCAATGCTATTGAGCATGGT +GCCTGGGCAGTTACCGTTGGTTCCGCTATCACCCGTATCGAGCATATCTGTCAGTGGTTC +AGTCACGCAGTAAAACGCTGA +>11111_1#11_04098 +ATGAAAAATTTTAAGAAAATGATGACGCTAATGGCGCTATGTTTATCAGTTGCTATCACC +ACATCAGGATATGCAACCACGCTTCCTGATATACCAGAACCACTGAAAAATGGTACTGGC +GCTATTGATAATAATGGCGTGATTTATGTCGGCTTAGGTACCGCAGGGACATCCTGGTAT +AAAATTGATCTTAAAAAGCAACATAAAGACTGGGAGCGTATAAAGTCGTTTCCTGGTGGA +GCTCGTGAGCAATCCGTGTCGGTATTTTTAAATGATAAGCTGTATGTTTTTGGTGGCGTA +GGGAAAAAAAACAGTGAATCACCGTTGCAGGTTTATAGCGATGTGTACAAATACTCACCG +GTGAAAAATACATGGCAAAAAGTTGATACTATATCTCCAGTTGGATTAACAGGGCATACG +GGAGTAAAATTAAACGAAACGATGGTACTTATTACCGGAGGGGTTAATGAGCATATCTTT +GATAAGTATTTTATTGATATAGCGGCTGCGGATGAAAGTGAAAAAAATAAAGTCATCTAT +AATTATTTTAATAAACCTGCCAAAGATTATTTTTTTAATAAAATCGTATTTATCTACAAT +GCTAAAGAGAACACATGGAAGAATGCCGGTGAGCTGCCAGGCGCGGGGACGGCAGGATCG +TCATCGGTAATGGAAAATAATTTCTTGATGCTGATTAATGGTGAGCTCAAACCGGGTTTA +CGTACCGATGTGATTTACCGCGCCATGTGGGATAACGATAAGCTAACATGGTTGAAGAAC +AGCCAGTTACCGCCATCGCCTGGAGAACAACAGCAGGAAGGGTTGGCCGGAGCATTTTCG +GGCTATAGCCACGGTGTCCTGCTTGTCGGTGGTGGCGCGAATTTTCCGGGAGCAAAACAA +AATTATACTAATGGAAAGTTTTATTCCCACGAAGGGATAAATAAAAAATGGCGAGATGAA +GTCTATGGTTTGATTAATGGCCATTGGCAATATATGGGTAAAATGAAACAACCTCTCGGC +TATGGTGTATCAGTAAGTTATGGTGATGAAGTTTTCCTTATTGGTGGTGAAAATGCTAAA +GGGAAACCTGTTTCGTCTGTAACCTCCTTTACCATGCGTGATGGTAATTTATTAATAAAA +TAA +>11111_1#11_04099 +ATGAAAATCAACAGATATCTTCTGGGTATGGTTTCGTTTATAGCATTTTCATCATATCTA +CAAGCGGCAACCCTTGATTATCGGCATGAATATGCTGATAGAACCAGAATTAATAAAGAC +CGTATTGCTATAATTGAAAAGCTTCCTAACGGCATTGGTTTTTATGTCGATGCCAGCGTT +AAATCGGGAGGAGTAGATGGTGAGCAGGATAAGCATTTAAGCGATCTCGTCGCAAACGCT +ATAGAACTGGGCGTAAGTTATAATTATAAAGTTACGGACCATTTTGTTTTGCAGCCTGGA +TTTATATTTGAAAGCGGTCCAGACACTTCAATTTATAAGCCTTATTTAAGGGCGCAATAT +AATTTTGATTCTGGTGTTTATATGGCTGGTCGTTACCGTTATGACTATGCAAGGAAGACA +GCTAACTATAATGATGATGAGAAAACGAATAGATTTGATACTTATATAGGTTATGTTTTT +GATGAGTTGAAATTGGAATATAAATTTACCTGGATGGATAGCGATCAAATTAAATTTGAT +AACAAAAAAACAAACTATGAACATAATGTGGCTTTAGCCTGGAAACTGAATAAGTCATTT +ACACCATACGTTGAGGTCGGAAATGTAGCGGTGAGAAATAATACCGATGAGAGACAGACC +CGTTATCGCGTTGGATTACAATACCACTTTTGA +>11111_1#11_04100 +GTGATAGCAAAATTCTTCCCGTGGTATAGCGAGATAACACGTCCACAAAAAAATGCTTTA +TTTTCAGCATGGCTGGGTTACGTTTTTGATGGCTTCGACTTTATGCTGATTTTCTACATT +ATGTATCTGATCAAGGCTGACTTAGGATTGACAGATATGGAGGGCGCATTCCTTGCCACA +GCGGCCTTTATTGGGCGACCATTTGGCGGGGCGCTATTTGGTCTGCTGGCAGACAAATTT +GGCCGTAAGCCGTTAATGATGTGGTCGATAGTTGCCTATTCTGTAGGTACAGGGTTAAGT +GGCCTGGCTTCCGGTGTAATTATGCTGACGCTTAGTCGTTTTATTGTCGGTATGGGGATG +GCGGGGAAGTATGCTTGCGCTTCTACTTATGCCGTGGAAAGTTGGCCAAAGCATTTAAAA +TCTAAAGCGAGCGCATTTCTGGTTTCAGGTTTCGGTATTGGTAACATCATAGCAGCCTAT +TTTATGCCGTCATTTGCCGAAGCGTATGGTTGGCGTGCTGCTTTTTTTGTCGGTTTGCTA +CCCGTTCTTTTAGTAATCTACATCCGGGCCAGGGCTCCTGAATCTAAAGAGTGGGAAGAA +GCCAAACTCAGTGGTCTCGGAAAGCATTCACAAAGTGCCTGGTCAGTTTTCTCTTTGTCA +ATGAAAGGGCTATTTAATCGAGCTCAATTTCCACTGACATTATGTGTATTTATTGTTCTG +TTCTCTATTTTCGGCGCAAACTGGCCGATCTTTGGTCTACTGCCTACATATTTGGCGGGA +GAGGGCTTTGATACGGGCGTGGTCTCTAATTTAATGACGGCGGCGGCATTCGGCACTGTA +TTGGGAAATATCGTTTGGGGTCTGTGCGCAGATAGAATTGGTTTGAAGAAAACGTTCAGC +ATTGGTCTTCTCATGTCCTTTTTATTCATTTTCCCGTTATTCAGAATTCCGCAAGATAAT +TATTTACTGCTGGGCGCATGTTTATTCGGTTTAATGGCGACTAACGTAGGTGTTGGCGGG +CTGGTTCCCAAATTTCTCTACGACTACTTTCCTCTTGAGGTTCGTGGTTTGGGTACCGGG +CTTATTTATAATCTTGCTGCGACATCAGGCACATTCAATTCAATGGCGGCGACCTGGCTT +GGAATAACAATGGGGCTAGGCGCTGCGCTAACGTTCATTGTTGCTTTCTGGACCGCAACA +ATTCTACTCATTATTGGCCTATCCATTCCGGATAGACTAAAAGCACGTCGTGAAAGGTTT +CAGTCAACAAAAGAATTTTAA +>11111_1#11_04101 +ATGACGAAATACGGTGTTATAGGTACAGGTTATTTTGGCGCTGAACTGGCGCGATTTATG +TCTAAGGTTGAAGGGGCGAAAATCACTGCGATTTACGATCCGGTAAATGCGGCTCCGATA +GCGAAAGAGCTGAACTGTGTCGCCACTTCAACGATGGAGGCGCTTTGTACCCATCCTGAT +GTGGATTGCGTAATTATTGCTTCACCAAATTACTTACATAAAGCGCCGGTCATTGCGGCG +GCTAAAGCGGGTAAACACGTGTTTTGTGAAAAACCTATCGCCTTAAATTACCAGGATTGT +AAGGATATGGTTGATGCCTGCAAAGAAGCTGGTGTTACCTTTATGGCGGGTCACGTTATG +AACTTTTTTCACGGGGTTCGCCACGCTAAAGCGCTCATCAAAGCCGGTGAAATCGGTGAA +GTTACACAAGTTCACACTAAACGTAATGGTTTTGAAGACGTGCAGGATGAGATCTCATGG +AAGAAGATTCGCGCAAAGTCAGGTGGGCATCTGTACCATCACATTCACGAGCTAGATTGT +ACACTGTTCATCATGGATGAAACCCCATCCCTGGTTTCAATGGCGGCGGGGAATGTTGCG +CACAAAGGTGAAAAATTTGGTGATGAAGATGATGTTGTCCTAATCACCCTTGAGTTTGAA +AGCGGTCGTTTCGCGACACTTCAGTGGGGATCATCGTTCCACTACCCTGAGCACTATGTA +TTAATTGAGGGCACGACAGGTGCAATTCTCATTGATATGCAAAACACGGCTGGTTATCTA +ATAAAAGCGGGCAAAAAAACACACTTTCTTGTGCATGAAAGCCAGGCGGAGGATGATGAT +CGTCGCAACGGTAACATATCCAGCGAGATGGATGGCGCAATCGCTTATGGTAAACCCGGT +AAACGTACGCCGATGTGGCTCTCATCAATTATGAAACTGGAGATGCAGTACTTGCATGAT +GTGATAAACGGTCTGGAGCCAGGCGAGGAGTTTGCTAAATTGCTAACGGGAGAAGCGGCG +ACAAATGCCATTGCTACCGCTGATGCTGCGACGCTTTCTTCAAACGAGGGGCGCAAAGTT +AAACTCACTGAAATTCTTGGCTAA +>11111_1#11_04103 +ATGGAGATAATTTTTTATCACCCGACATTTAACGCCGCCTGGTGGGTAAATGCGCTGGAG +AAGGCTCTCCCACATGCGCGCGTTCGTGAATGGAAGGTCGGTGATAACAACCCCGCAGAC +TATGCGCTTGTATGGCAGCCCCCGGTTGAAATGCTGGCCGGAAGACGCTTAAAAGCCGTC +TTTGTGCTGGGCGCGGGGGTGGATGCAATTCTGAGTAAATTAAATGCGCATCCGGAAATG +CTGGACGCCTCCATTCCTCTATTCCGTCTGGAAGATACCGGAATGGGCCTGCAAATGCAG +GAGTATGCCGCCAGCCAGGTATTACACTGGTTCCGTCGTTTCGATGATTATCAGGCGCTG +AAAAATCAGGCGCTATGGAAACCGTTGCCGGAATATACCCGCGAAGAGTTTAGCGTCGGT +ATCATAGGCGCAGGGGTACTGGGCGCAAAAGTGGCAGAAAGTCTACAGGCGTGGGGGTTC +CCGTTACGTTGCTGGAGTCGTAGCCGCAAATCCTGGCCTGGCGTGGAAAGTTATGTAGGG +CGTGAAGAACTGCGCGCTTTCCTGAACCAGACGCGGGTGCTGATTAATCTGCTGCCGAAT +ACGGCCCAAACGGTAGGAATTATTAATAGCGAATTGTTGGATCAATTGCCGGATGGCGCT +TACGTGCTGAATCTCGCGCGCGGCGTTCATGTTCAGGAGGCGGATCTGCTGGCTGCGCTT +GATAGCGGTAAGCTAAAAGGCGCGATGTTGGATGTCTTTAGCCAGGAACCGTTACCGCAG +GAAAGTCCATTATGGCGCCATCCGCGAGTCGCCATGACGCCGCACATTGCGGCAGTCACC +CGTCCGGCGGAAGCCATCGATTATATTAGCCGCACCATTACCCAGCTGGAGAAGGGAGAG +CCGGTGACGGGGCAGGTGGATCGGGCGAGAGGATATTGA +>11111_1#11_04104 +ATGTATCCCGTTGACCTGCATATGCATACCGTCGCCAGCACTCATGCCTACAGTACTCTG +AGCGATTATATCGCGGAAGCCAAACGCAAAGGCATTAAACTTTTTGCGATTACCGATCAT +GGTCCGGACATGGAAGATGCGCCGCATCACTGGCATTTTATTAACATGCGCATCTGGCCG +CGTCTGGTTGACGGCGTGGGGATACTGCGTGGCATTGAGGCGAATATCAAGAATATTAAC +GGTGAAATTGATTGTTCCGGAAAGATGTTCGACTCGCTGGATCTGATTATCGCAGGCTTT +CATGAGCCCGTTTTTGCGCCGCATGATAAAGAAACCAATACTCAGGCGATGATCGCGACC +ATCGCCAGCGGCAAGGTGCATATAATTAGTCACCCCGGAAATCCAAAGTATCCAGTGGAG +GTTAAAGCCATCGCGCAGGCGGCGGCGAAACACCATGTAGCGCTGGAAATCAACAACTCT +TCTTTTCTGCATTCGCGTAAAGGAAGCGAAGATAATTGCCGCGCGGTCGCTGCCGCCGTA +CGCGATGCGGGAGGCTGGGTAGCGTTAGGCTCTGATTCCCATACGGCCTTTACGCTTGGC +GATTTCACCGAATGCCGGAAAATTCTGGATGCGGTGAATTTTCCGGAAGATCGAATCCTG +AACGTCTCTCCGCAGCGCTTACTGGCCTTTCTCGAATCACGCGGTATGGCGCCTGTACCG +GAATTTGCCGAACTTTAA +>11111_1#11_04105 +ATGAATGAGTTTTCAATCCTGTGCCGTGTGCTGGGATCGTTGTTTTACCGCCAACCGCAA +GATCCTTTACTGGTTCCGCTGTTTACGTTAATCCGTGAAGGTAAACTGGCGGCAAACTGG +CCGCTGGAGCAGGATGACATGCTGGCGCGTTTACAGAAAAGCTGCGATATCACGCAGATT +TCCACTGATTACAATGCGTTATTTGTTGGGGAAGAGTGCGCGGTAGCGCCATACCGCAGT +GCGTGGGTCGAAGGCGCGGAAGAGTCTGAGGTGCGCGCTTTTTTAACGTCGCGAGGGATG +CCGCTGGCCGATACGCCTGCCGATCACATTGGCACTTTATTGCTCGCGGCCTCCTGGCTG +GAAGATCAGTCTGCCGAAGATGAAAGTGAAGCGCTGGAAACCTTATTTGCCGATTATCTG +CTTCCCTGGTGCAATACCTTCCTCGGTAAAGTTGAAGCCCATGCCGTTACGCCATTCTGG +CGCACTCTGGCGCCGCTAACGCGTGATGCGATAGGGGCCATGTGGGATGAACTTCAGGAA +GAAGATGAAGAATAA +>11111_1#11_04106 +ATGATGCGCGCCATGAACATACTTCTTTCTATTGCTATCACTACGGGCATCCTTTCTGGA +ATATGGGGATGGGTGGCCGTCTCCCTGGGGTTACTAAGCTGGGCCGGTTTTTTAGGCTGT +ACGGCTTATTTCGCCTGTCCGCAGGGCGGCTTTAAGGGATTGTTGATTTCCGCCTGTACG +CTGTTAAGCGGTATGGTGTGGGCGCTGGTCATTATTCACGGTAGCGCGTTGGCGCCGCAT +CTGGAAATTGTCAGTTACGTGTTGACGGGGATCGTGGCATTCCTGATGTGTATCCAGGCA +AAGCAGCTATTGCTTTCTTTTGTTCCGGGAACATTTATCGGCGCCTGCGCGACATTTGCA +GGGCAGGGTGACTGGCGGTTGGTATTACCGTCGCTGGCGCTGGGGCTAATCTTTGGCTAT +GCCATGAAAAATAGTGGGCTATGGCTGGCATCACGCCGCGAGCAACATTCAGCGAATACG +GCGGTCACAAAATAA +>11111_1#11_04107 +ATGCCGCGCTTACTTATTTTGGTTGCCGTTTTATTGTTGAGCGGATGCTTAACTGCCCCG +CCGAAACAAGCTGCGAAACCGACATTAATGCCCCGCGCACAAAGTTACAAAGATTTGACG +CACTTACCTGCTCCCACCGGTAAGATCTTTGTTTCGGTATATAACATTCAGGATGAAACG +GGCCAATTTAAACCTTACCCGGCAAGTAACTTTTCCACGGCTGTGCCGCAGAGCGCCACC +GCTATGTTGGTCACCGCGCTGAAAGATTCGCGCTGGTTTATCCCACTAGAACGACAAGGC +TTACAGAATCTTTTGAATGAACGGAAAATTATTCGCGCAGCCCAGGAAAACGGCACCGTG +GCGATGAATAACCGTATCCCGCTTCAGTCGTTGACGGCGGCAAATATTATGGTGGAAGGT +TCTATTATTGGTTATGAAAGTAACGTCAAATCCGGCGGGGTCGGCGCAAGATATTTCGGT +ATTGGCGCCGATACGCAGTATCAGCTGGATCAGATTGCTGTCAACCTGCGCGTGGTTAAC +GTCAGTACGGGCGAGATCCTTTCTTCGGTGAACACCAGTAAAACGATCCTTTCCTATGAA +GTACAGGCAGGCGTGTTCCGTTTTATTGATTACCAGCGCTTACTGGAAGGCGAAATCGGC +TATACCTCGAACGAACCGGTGATGCTGTGTCTGATGTCAGCCATTGAAACCGGCGTTATC +TTCCTCATTAATGATGGTATCGATCGCGGACTGTGGGATTTGCAGAATAAAGCGGACAGG +CAAAATGATATTCTGGTGAAATACCGTGAGCTGTCAGTACCGCCAGAATCCTGA +>11111_1#11_04108 +ATGCGTGTTAAACATGCAGTAGTGCTGCTCATGCTTTTTTCGCCATTAACCTGGGCTGGA +AATATGACGTTCCAGTTCCGTAATCCTAACTTTGGTGGAAACCCCAATAACGGTTCCTTT +TTATTGAATAGCGCCCAGGCGCAAAATTCATATAAAGACCCCGCTTATGATAACGATTTT +GGTATCGAGACCCCCTCAGCGTTGGATAACTTTACGCAGGCTATTCAATCGCAAATTCTG +GGCGGCTTGTTGACCAATATTAATACCGGAAAACCAGGACGTATGGTGACCAATGATTTT +ATTATCGATATCGCTAATCGCGACGGACAGCTCCAGCTCAACGTCACGGACAGAAAAACG +GGAAGAACCTCGACCATCGAAGTGTCAGGTTTACAAACTCAGTCAACCGATTTTTAA +>11111_1#11_04109 +ATGAAACGCTATCTGACCTGGATTGTAGCAGCAGAGTTACTGTTCGCTACCGGAAACCTG +CATGCCAATGAAGTTGAAGTCGAGGTTCCCGGATTGTTAACCGACCATACCGTCTCTTCG +ATAGGACATGAATTCTATCGTGCATTCAGCGACAAATGGGAAAGCGAATACACCGGCAAT +CTGACCATTAATGAAAGACCCAGTGCGCGTTGGGGAAGCTGGATCACCATAACGGTAAAT +CAGGACGTTATTTTCCAGACCTTTTTATTTCCAATGAAAAGAGACTTCGAGAAAACCGTC +GTCTTCGCATTAGCGCAAACAGAGGAAGCATTAAATCGCCGACAAATAGATCAAACGCTA +TTAAGTACGAGTGATTTAGCGCGTGATGAATTCTAA +>11111_1#11_04110 +ATGTTTAATGAAGTCCATAGTAGTCATGGTCACACACTATTGTTGATCACAAAGCCATCT +CTGCAAGCTACGGCATTATTGCAACATTTAAAGCAATCGCTGGCCATAACCGGAAAACTG +CATAATATTCAACGTTCTCTGGAAGATATCTCAGCCGGTTGCATTGTTTTAATGGATATG +ATGGAAGCGGATAAGAAGCTTATCCACTATTGGCAGGATAATTTAAGCCGCAAAAACAAT +AATATAAAAACATTATTGTTAAATACCCCTGACGATTATCCCTACCGTGAAATTGAAAAC +TGGCCTCATATTAACGGCGTGTTTTACGCCACTGAAGACCAGGAACACGTGGTCAGCGGA +TTACAGGGTATTCTGCGGGGCGAATGCTATTTTTCACAAAAATTAGCCAGTTACCTGATT +ACACACTCAGGAAATTACCGCTACAACAGCACCGAGTCCGCATTACTCACTCATCGCGAA +AAAGAGATCCTCAATAAGTTACGTATTGGTGCCTCTAATAATGAAATCGCCAGGTCGCTA +TTTATCAGCGAGAATACGGTTAAGACACATCTTTATAATCTTTTCAAAAAGATAGCTGTC +AAAAATCGCACCCAGGCAGTTTCATGA +>11111_1#11_04111 +ATGAAAAACAAATTGTTATTTATGATGTTGACAATACTGGGTGCGCCTGGGATTGCAACC +GCGACAAATTATGATCTGGCTCGTTCAGAGTATAATTTTGCGGTAAATGAATTAAGCAAG +TCTTCATTTAATCAGGCGGCCATTATTGGTCAAGTCGGCACGGATAATAGTGCCAGAGTA +CGCCAGGAAGGATCAAAACTATTGTCCGTTATTTCACAAGAAGGAGAAAATAATCGGGCG +AAAGTCGACCAGGCAGGGAATTATAACTTTGCGTATATTGAGCAAACGGGCAATGCCAAC +GATGCCAGTATATCGCAAAGCGCTTACGGTAATAGTGCGGCTATTATCCAGAAAGGTTCT +GGAAATAAGGCCAATATTACCCAGTACGGTACGCAGAAAACAGCAGTTGTAGTGCAGAAA +CAGTCGCATATGGCTATTCGCGTCACCCAACGCTAA +>11111_1#11_04112 +ATGAAACTTTTAAAAGTGGCAGCATTCGCAGCAATCGTAGTTTCTGGCAGTGCTCTGGCT +GGCGTCGTTCCACAATGGGGCGGCGGCGGTAATCATAACGGCGGCGGCAATAGTTCCGGG +CCGGATTCCACGTTGAGCATTTATCAGTACGGTTCCGCTAACGCTGCGCTTGCTCTGCAA +AGCGATGCCCGTAAATCTGAAACGACCATTACCCAGAGCGGTTATGGTAACGGCGCCGAT +GTAGGCCAGGGTGCGGATAACAGTACTATTGAACTGACTCAGAATGGTTTCAGAAACAAT +GCCACCATCGACCAGTGGAACGCTAAAAACTCCGATATTACTGTCGGTCAATACGGCGGT +AATAACGCCGCGCTGGTTAATCAGACCGCATCTGATTCCAGCGTAATGGTGCGTCAGGTT +GGTTTTGGCAACAACGCCACGGCTAACCAGTATTAA +>11111_1#11_04113 +ATGCATACTTTATTGCTCCTTGCCGCACTTTCAAATCAGATTACGTTTACCACGACTCAG +CAAGGCGATATTTACACGGTGATCCCTCAGGTCACATTAAACGAACCCTGCGTCTGTCTG +GTGCAAATTCTCTCTGTGCGCGACGGCGTCGGGGGACAAAGCCATACACAGCAAAAACAA +ACGCTATCTTTACCTGCTAATCAACCGATTGAGTTGTCTCGTCTTAGTGTAAATATATCT +TCAGAGGACTCGGTTAAAATTATTGTTACTGTTTCGGACGGACAATCACTGCATTTATCA +CAACAATGGCCGCCTTCTGCACAGTAG +>11111_1#11_04114 +ATGTCCGTAATCAAGAAAAATATCCCTGCCATAGGCCTGTGTATCTGCGCTTTTTTTATC +CATTCTGCGGTAGGGCAACAAACGGTACAGGGCGGCGTTATCCATTTTCGCGGCGCGATT +GTTGAGCCACTGTGCGATATTTCTACTCACGCCGAAAATATTGATTTAACCTGCCTACGC +GAAGGTAAAAAGCAAATGCACCGGATAGACCTTCGGCAGGCATCTGGATTACCGCAGGAT +ATTCAGTCCATTGCGACGGTACGGCTGCATTATCTCGATGCGCAAAAAAGCCTGGCGGTG +ATGAATATTGAGTACCGTTAA +>11111_1#11_04115 +ATGACATCACGTCTTCAGGTCATACAGGGTGATATCACTCAACTTAGCGTCGATGCGATT +GTGAATGCCGCTAACGCATCATTAATGGGCGGCGGTGGCGTAGACGGCGCAATTCATCGC +GCGGCGGGGCCGGCATTGCTGGACGCCTGTAAACTCATCCGTCAGCAACAGGGCGAATGT +CAGACGGGACATGCGGTTATCACGCCTGCTGGCAAGCTTTCGGCAAAGGCGGTTATTCAC +ACAGTGGGGCCCGTCTGGCGAGGCGGCGAACACCAGGAAGCTGAGCTACTCGAAGAGGCA +TACCGGAATTGTTTGCTGCTTGCCGAGGCGAATCACTTTCGTTCCATCGCTTTTCCGGCA +ATCAGTACCGGCGTTTATGGCTATCCACGCGCCCAGGCCGCTGAAGTCGCCGTCAGGACG +GTTTCAGATTTTATTACCCGTTACGCTCTGCCTGAACAGGTATACTTTGTCTGTTATGAT +GAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAAGGCGACGACCCTGCCTGA +>11111_1#11_04116 +ATGAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAAGGCGACGACCCTGCCT +GATAAAACACGCCTGGAGCGTGCCGTTGAACCGCTATGCGCGCGCCATCCCGGAGAGTGC +GGCATTCTTGCGCTGGATAACAGTCTGGACGCTTTTGCCGCCCGCTACCGCCTGACCGAA +ATGGCGGCGCGGACGCTGGATGTGCAGTATTATATTTGGGAAGACGATATGTCCGGGCGG +CTGCTCTTTTCGGTTCTGCTGTCGGCGGCGAAGCGCGGCGTTCATGTTCGTCTGCTGCTG +GATGATAACAATACGCCTGGTCTGGATGATACGTTGCGCTTGCTGGATAGCCATCCTAAT +ATCGAAGTTCGTCTGTTTAATCCTTTCTCTTTTCGTACGCTACGCGCGCTGGGATATTTG +ACGGATTTTGCGCGGCTGAATCGGCGGATGCACAATAAAAGTTACACTGCCGACGGCGTA +GTGACGCTGGTCGGTGGGCGCAACATCGGCGATGCCTATTTCGGCGCTGGCGAGGAGCCG +CTATTTTCCGATCTGGACGTGATGGCCATTGGCCCGGTGGTCAATGATGTCGCCAATGAT +TTTGAACGTTACTGGCGCTGTAGTTCAGTGTCGACATTGCAGCAAGTATTATCCCTTTCT +GAGCAGGAACTGACGCAGCGTATCGAACTTCCCGAATCCTGGTATAACGATGAGATCACC +CGCCGTTATCTGCATAAGCTGGAAACCAGCCAGTTTATGGCGGATCTCGATCGCGGAACG +TTGCCGCTGATTTGGGCAAAAACACGCTTGCTTAGCGATGACCCTTCTAAAGGCGAGGGG +AAGGCGCAGCGCCATTCGCTTCTTCCGCAGCGATTATTTGACGTGATGGGGTCGCCGACG +GAGCGTATCGACATTATTTCCGCTTACTTTGTCCCTACGCGCGCAGGCGTGGCGCAGTTG +CTTAATCTGGTCAGGAAAGGTGTGAAGATCGCCATCTTAACTAACTCTCTGGCGGCCAAC +GATGTGGCGGTCGTTCACGCAGGGTACGCGCGCTGGCGCAAGAAATTACTGCGCTATGGC +GTGGAGCTCTACGAACTGAAACCGACCCGCGAACATGAAACCGCCGTACATGATCGCGGA +CTCACCGGGAACTCAGGTTCCAGCTTACATGCTAAAACGTTCAGTATTGATGGTAGTAAG +GTGTTTATCGGGTCGCTTAATTTTGATCCCCGTTCAACGCTTTTAAATACCGAAATGGGC +TTTGTCATTGAAAGTGAAACGCTGGCGACGCTTATTCATAAGCGTTTTACGCAGAGCCAA +CGCGATGCGGCCTGGCAACTGCGGCTGGATCGCTGGGGACGAATTAACTGGATCGATCGT +CAGCAAGAAGAGGAAAAGGTGTTAAAGAAAGAACCCGCTACGCGTTTCTGGCAGCGAGTT +CTGGTACGGTTGGCGGCAATTTTACCTGTGGAATGGTTGCTGTGA +>11111_1#11_04117 +ATGAGCTCTGTACCCGCGCCGCGTGAATATTTTCTTGACTCTATCCGCGCATGGCTGATG +TTGTTAGGGATTCCCTTTCATATCTCGTTGATCTATTCCACTCACAGTTGGCATGTCAAT +AGCGCCGCGCCATCGTGGTGGCTAACCCTGTTTAACGATTTTATCCACGCTTTTCGTATG +CAGGTGTTTTTTGTTATTTCTGGTTATTTTTCGTACATGTTATTTTTACGTTATCCATTA +AAACACTGGTGGAAAGTACGGGTAGAACGTGTGGGTATTCCCATGCTTACCGCAATCCCT +TTGCTTACCTTGCCGCAATTTATCCTGTTGCAATATGTCAAAGAGAAAACAGAGAACTGG +CCTACACTCTCTGCCTATGAAAAATATAATACGTTAGCGTGGGAACTCATTTCACATCTG +TGGTTTTTACTGGTGCTGGTGATATTAACCACCGTCAGCATCGGGATTTTTACCTGGTTC +CAAAAAAGGCAGGAAACAAGCAAGCCTCGTCCCGCCGCTATTTCGCTGGCCAAACTTTCG +CTTATTTTTTTCCTGCTGGGGGTGGCGTACGCTGCTATCAGGCGCATTATATTCATCGTA +TATCCGGCAATCCTCAGTGACGGCATGTTCAATTTTATTGTGATGCAAACGCTATTTTAT +GTGCCGTTTTTTATTCTCGGCGCGTTGGCCTTCATTCACCCCGATCTGAAAGCGCGCTTC +ACCACGCCCTCACGCGGATGCACTTTAGGCGCTGCCGTTGCTTTTATCGCGTATCTGCTG +AATCAACGTTATGGGAGCGGCGACGCCTGGATGTACGAAACCGAATCCGTGATTACGATG +GTAATGGGGCTATGGATGGTGAACGTGGTATTTTCACTGGGGCATCGCTTGTTAAACTTT +CAGTCCGCGCGTGTCACCTATTTCGTGAATGCTTCGCTGTTTATTTATCTGGTGCATCAT +CCCTTAACGCTTTTCTTTGGCGCGTATATTACACCGCATATCTCCTCCAACCTGATCGGG +TTCTTGTGCGGGCTGATATTTGTTATGGGTATTGCGTTAATTCTGTATGAAATTCATTTA +CGCATCCCGCTCCTGAAATTTCTCTTTTCAGGTAAACCGCCGGTAAAACAAGAAAGCCGC +GCCGCGATCGGGTAG +>11111_1#11_04118 +ATGAAACATAAACGACAAATGATGAAAATGCGTTGGTTGGGCGCAGCTATTATGTTAACG +CTCTACGCATCATCGAGCTGGGCGTTCAGTATTGATGACGTGGCAAAACAAGCTCAATCT +TTAGCCGGGAAAGGCTATGAGGCGCCTAAAAGCAACTTGCCCTCCGTTTTCCGCGACATG +AAATATGCGGATTATCAGCAGATCCAGTTTAACAGCGATAAAGCCTACTGGAACAACTTA +AAGACCCCTTTTAAGCTCGAATTTTACCATCAGGGGATGTACTTCGATACGCCGGTCAAG +ATTAACGAAGTGACGGCGACGACGGTCAAAAGAATCAAATACAGCCCGGATTACTTCAAT +TTTGGCAATGTTCAGCACGATAAAGACACGGTAAAAGATTTAGGCTTCGCCGGGTTCAAA +GTCCTGTACCCCATTAACAGTAAAGATAAGAACGACGAAATCGTCAGTATGCTTGGCGCC +AGCTATTTCCGCGTTATCGGCGCAGGCCAGGTGTATGGCTTATCTGCGCGCGGCCTGGCG +ATTGATACCGCCTTACCATCTGGTGAAGAGTTTCCCCGCTTTCGCGAGTTCTGGATTGAG +CGTCCAAAACCCACCGATAAGCGTTTGACCGTCTATGCATTACTGGATTCTCCGCGCGCG +ACCGGCGCTTACCGTTTTGTGATCATTCCTGGCCGCGATACCGTGGTGGACGTGCAGTCA +AAAGTCTATCTGCGCGATAAGGTGGGCAAGCTGGGCGTTGCGCCATTAACCAGTATGTTC +CTGTTTGGGCCAAACCAGCCGTCGCCGACGACCAACTATCGTCCGGAATTGCATGACTCG +AACGGCTTATCCATTCATGCGGGTAATGGCGAGTGGATTTGGCGTCCGCTGAACAATCCA +AAACACCTCGCTGTGAGCAGCTATGCGATGGAAAACCCTCAGGGATTCGGCCTGTTGCAG +CGTGGTCGCGAGTTCTCGCGCTTTGAAGATTTAGACGATCGCTATGACCTGCGTCCAAGC +GCCTGGATTACCCCGAAAGGCGACTGGGGCAAAGGTAAGGTTGAACTGGTTGAAATTCCG +ACCAATGATGAAACCAACGATAACATCGTCGCTTACTGGACTCCGGATCAACTGCCGGAA +CCGGGTAAAGAGATGAACTTCAAGTACACTCTGACCTTCAGCCGCGATGAAGATAAACTT +CATGCGCCGGATAATGCCTGGGTGCTGCAAACACGCCGCTCAACGGGCGACGTTAAACAG +TCGAATCTGATTCGCCAGCCCGACGGCACTATTGCCTTTGTGGTGGATTTCGTTGGCGCC +GACATGAAAAAACTGCCGCCGGATACGCCCGTCGCTGCACAAACCAGCATTGGCGATAAC +GGTGAAATCGTTGACAGTAATGTACGCTATAACCCAGTCACTAAAGGCTGGCGTTTAATG +CTGCGCGTGAAAGTCAAAGACGCGAAGAAAACCACGGAAATGCGTGCCGCATTGGTGAAT +GCCGATCAGACGCTAAGTGAAACCTGGAGCTACCAGTTACCTGCCAATGAATAA +>11111_1#11_04119 +ATGAATAAAACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCA +TTGCCGAAAACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTAC +TCGCGAGAAGACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCG +GATTCATTGGCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCT +ATGCCAAAAGCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGC +CGTTTCTGGGATCGCCTGCGTGGGCGGGATGTAACGCCGCGCTATGTTTCTCGTCTGACA +AAAGAAGAGCAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATT +TTGTTAATTTTGACTCTGGCGCAAACCGTCGTCGCGACCTGGTATATGAAGACCATTCTG +CCCTATCAGGGATGGGCGCTCATCAATCCTATGGATATGGTGGGGCAGGATATTTGGGTC +TCCTTTATGCAGCTCCTGCCCTACATGCTGCAAACCGGTATCCTGATTTTGTTTGCCGTG +CTGTTCTGCTGGGTGTCTGCCGGATTCTGGACGGCGCTGATGGGCTTCCTGCAACTGCTT +ATCGGGCGCGATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCG +GAACACCAGACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCC +GGTCTGCGCGCGACCTGGGAGTCCGTTAAAGCCACAGGCAACGCCGCGCATTTTGACGTC +TATATCCTTAGCGATAGTTATAACCCGGATATCTGCGTGGCGGAGCAAAAGGCGTGGATG +GAGCTCATCGCGGAAGTGCAGGGCGAAGGCCAAATTTTTTACCGTCGCCGCCGCCGCCGT +ATGAAACGCAAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGC +TATATGGTGGTGCTGGACGCGGACTCAGTGATGAGCGGCGAGTGTCTGAGCGGGCTGGTG +CGCCTGATGGAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGG +ATGGATACTCTGTATGCCCGCTGCCAACAGTTCGCGACCCGTGTTTATGGACCGCTGTTT +ACCGCCGGGCTGCACTTCTGGCAGTTGGGGGAGTCGCACTACTGGGGGCACAATGCCATT +ATCCGCGTGAAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCG +TTCGCCGGATCGATTCTTTCCCACGACTTTGTGGAGGCGGCGCTAATGCGTCGGGCAGGG +TGGGGCGTCTGGATTGCCTACGATCTCCCCGGCTCCTATGAAGAGCTGCCGCCAAACCTG +CTGGATGAGCTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTG +TTCCTGGTGAAAGGAATGCACCCGGTGCATCGCGCCGTGTTCCTGACCGGGGTAATGTCA +TACCTGTCCGCGCCGTTATGGTTTATGTTCCTCGCGCTTTCTACCGCGCTGCAGGTCGTT +CATGCGTTAACAGAGCCGCAATATTTCCTTCAGCCGCGCCAGCTTTTTCCGGTCTGGCCG +CAGTGGCGTCCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTG +CCGAAGCTGCTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTC +TGGCGCGTTACGCTGTCGCTATTGCTGGAAGTGCTGTTCTCCGTGTTGCTGGCGCCGGTG +CGTATGCTGTTTCATACCGTGTTTGTGGTCAGCGCGTTCCTCGGCTGGGAAGTGGTCTGG +AACTCACCGCAACGCGACGATGATTCTACGCCGTGGGGAGAAGCCTTTATGCGTCACGGC +TCTCAACTGCTGCTGGGGCTGGTCTGGGCGGTGGGTATGGCGTGGCTGGATTTACGCTTT +CTGTTCTGGCTGGCGCCGATTGTCTTTTCGCTGATTCTGTCGCCATTTGTTTCGGTGATC +TCCAGTCGTTCAACGGTAGGATTACGCACCAAACGCTGGAAGCTGTTCCTGATCCCGGAA +GAGTATTCGCCGCCTCAGGTGTTGGTCGATACCGATAAATATCTGGAGATGAATCGCCGC +CGTATTCTGGACGATGGCTTTATGCATGCGGTATTTAACCCGTCGCTTAATGCGCTGGCG +ACCGCGATGGCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGT +CATGTGGAGCAGGCGCTAAACGAAACGCCGGAGAAACTGAACCGCGATCGGCGTCTGGTT +TTGCTCAGCGATCCGGTGACGATGGCGCGTTTACACTATCGGGTCTGGAATGCGCCAGAG +AGATACTCTTCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAG +GGACGAACATCGTCAGCGGGATAA +>11111_1#11_04120 +GTGCGTATATTCGCGGTGAGCATAATGGTGATTACCCTGAGCGGCTGCGGCAGTATTATC +AGCAGAACGATCCCCGGACAAGGACACGGCAACCAGTATTACCCTGGCGTGCAGTGGGAT +ATGCGTGATTCCGCATGGCGCTATATCACTATCCTCGATCTGCCCTTCTCACTGATCTTC +GATACACTGCTACTGCCGCTCGATATTCACCACGGGCCTTATGAGTAA +>11111_1#11_04121 +ATGACCATGTATGCCACGCTGGAAGAAGCTATCGATGCAGCCCGGGAAGAATTTCTGGCT +GACCATCCAGGCCTCGAACAAGACGAAGCGAATGTGCAGCAGTTCAACGTTCAGAAATAT +GTACTGCAGGATGGGGACATCATGTGGCAGGTCGAATTTTTCGCCGATGAAGGTGAAGAT +GGCGAATGTCTGCCGATGCTGAGTGGTGAAGCCGCACAGAGCGTGTTTGACGGCGATTAT +GATGAGATAGAGATCCGCCAGGAATGGCAGGAAGAGAATACTTTGCATGAATGGGATGAA +GGGGAATTCCAGCTTGAACCCCCGCTTGATACCGAGGAAGGCCGTACTGCGGCAGACGAA +TGGGATGAGCGTTAA +>11111_1#11_04122 +ATGTCACCCTCTGATGTCCCCATAAACTGGAAACGCAATCTAACCGTTACCTGGCTGGGC +TGTTTTTTAACCGGCGCGGCATTCAGTCTGGTCATGCCTTTTCTCCCTCTCTACGTTGAG +CAACTCGGCGTAACAGGCCATAGCGCGCTCAACATGTGGTCCGGGCTGGTCTTTAGTATT +ACGTTCCTCTTTTCAGCTATCGCTTCCCCTTTTTGGGGCGGTCTGGCGGATCGTAAAGGG +CGTAAGATCATACTGTTGCGTTCCGCTCTCGGCATGGCCATTGTGATGCTGTTAATGGGC +ATGGCGCAAAATATCTGGCAATTTCTGATCCTCCGCGCGTTATTAGGCCTGCTGGGCGGA +TTTATTCCCAACGCCAATGCGCTCATCGCCACTCAGGTGCCGCGCCACAAAAGCGGCTGG +GCGTTAGGGACGCTCTCTACTGGCGGCGTCAGCGGCGCTCTGCTTGGCCCACTTGCGGGC +GGTCTGCTCGCCGACCATTACGGCCTTCGCCCGGTCTTTTTTATTACCGCCAGCGTTTTG +TTTATCTGTTTTCTGCTCACCTTCTTTTTTATTCGCGAGAATTTCCTGCCGGTGAGCAAA +AAAGAGATGCTTCACGTTCGGGAAGTGGTCGCCTCGTTAAAAAATCCCCGCCTGGTGTTA +AGCCTGTTTGTCACCACGCTGATTATTCAGGTGGCGACGGGGTCTATTGCGCCCATCCTG +ACGCTCTATGTGCGCGAACTCGCGGGAAATGTCAGTAATATTGCGTTCATTAGCGGGATG +ATAGCGTCCGTTCCCGGCGTGGCGGCATTACTTAGCGCCCCCCGGCTCGGCAAGCTCGGC +GACAGAATTGGCCCGGAAAAGATCCTTATCGTCGCGCTGATTATTTCCGTACTGCTGCTG +ATTCCAATGTCTTTTGTGCAAACGCCGTGGCAGCTCGCGCTATTGCGGTTTCTGCTTGGC +GCGGCGGATGGCGCGCTGCTGCCAGCCGTTCAAACTCTGCTGGTTTACAACTCTACCAAC +CAGATAGCCGGGCGCATATTCAGTTACAACCAATCTTTCCGCGATATCGGCAACGTCACC +GGCCCTCTCATGGGTGCCGCAATTTCCGCGAGCTATGGCTTCCGCGCCGTATTCTGCGTC +ACGGCAGGCGTGGTGTTGTTCAATGCTATCTATTCATGGAACAGCTTACGACGGCGCAGA +CTGGCAATAGAATGA +>11111_1#11_04123 +ATGACGAAGTTGCCTAAGTTCTCCGTGGCCTTACTGCACCCGCGCTATTGGTTAACCTGG +TTGGGTATAGGCGCGCTTTGGTTGGTCGTGCAACTCCCCTACCCGGTCATCTATAAATTG +GGTTGCGCATTGGGCCACCTGGCGCGACGCGTAATGAAACGCCGCGCGAAAATCGCCTAT +CGCAACCTTGAATTATGCTTTCCGGAAATGAGCGCGCAGGAACGCCACACCATGGTGGTC +AAAAACTTTGAATCCGTCGGTATGGGCGTGATGGAAACCGGCATGGCCTGGTTCTGGCCC +GATCGGCGAGTGAACCGCTGGATGGAAGCGAGCGGTCTGGAGCATATCCGTGAAGTTAAG +GCGCAGGGGCTGGGGTTCATTCTGGTAGGAATACATTTCCTTACCCTTGAGTTTGGCGCC +CGCATGTTTGGTATGCATAACCCGGGTATCGGCGTTTATCGCCCGAATGATAATCCGTTG +CTCGACTGGTTACAGACCTGGGGGCGCTTACGCTCCAATAAATCGATGTTGGATCGCAAA +GATCTGAAAGGTATGGTTAAGGCATTGAAAAGCGGCGAATTGATCTGGTATGCGCCGGAT +CACGATTATGGCCCGCGCGCCAGCGTCTTTGTACCGTTATTCGCCGTCGACCAGGCCGCT +ACGACCTCCGGTACCTGGATGCTCGCGCGCATGTCTAAAGCCTGTATTATCCCCTCCGTG +CCTCGCCGTAAACCCGACGGGAAAGGCTACGAACTGATCATCCTTCCTGCGGAATATTCG +CCTCCGCTGGAGAGCGCAGAAGCGACTGCCGCATGGATGAATAAGATTGTTGAGCAGTGC +ATTATGATGGCGCCAGAGCAGTATATGTGGCTGCATCGCCGCTTTAAAACTCGCCCTGAA +GGCGTACCGTCGCGCTATTGA +>11111_1#11_04124 +ATGCCAGTGTTACACAACCGCATCTCTAATGACGAGCTGAAAGCCAAAATGCTGGCGGAA +AGCGAGCCGCGTACGACAATTTCTTTTTATAAATATTTCACTATCGCCTCGCCGCAACAG +ACGCGGGACGCGTTGTATCAGGTGTTTACGGCGTTGGACGTTTTTGGTCGCGTTTACCTG +GCGCATGAGGGCATCAATGCGCAAATCAGCGTGCCGCAAAGCAAGGTTGAGACCTTTCGT +CAACAGCTTTATACGTTCGACCCCGCGCTGGACGGGGTGCGTTTAAATATCGCGCTGGAG +GATGACGGAAAGTCATTTTGGGTGCTGCGTATGAAAGTTCGCGACCGTATCGTCGCTGAC +GGTATTGACGATCCGAGTTTTGACGCCAGTAATGTCGGCGATTATCTGAAGGCGGCAGAT +GTGAATGCGATGCTGGACGATCCTGACGCGGTCTTTATTGATATGCGCAACCACTATGAG +TATGAAGTCGGCCATTTCGAAAATGCTCTGGAAATCCCGGCGGATACGTTTCGTGAACAG +TTGCCAAAAGCGGTTGAAATGCTGCGGGAACATGCAGATAAAAAGATAGTGATGTACTGT +ACCGGCGGTATTCGTTGTGAGAAAGCCAGCGCCTGGATGAAACACAACGGTTTCAATAAA +GTCTGGCATATTGAGGGTGGCATCATTGAGTACGCCCGTCGCGCGCGCGAGCAGGGGCTT +CCCGTTCGCTTTATCGGCAAAAACTTTGTATTTGATGAGCGAATGGGCGAGCGCATCTCG +GATGAGGTTATCGCGCATTGCCATCAGTGCGGCGTGTCCTGCGATAGCCATACCAACTGC +AAAAACGACGGTTGCCATCTGCTGTTTATCCAGTGTCCGCAGTGCGCCAGTAAATTTAAC +GGCTGCTGTAGTGAACAATGCTGTGAAGAGTTGGCCTTGCCGGAGGAAGAACAGCGCCGA +CGTCGCGCGGGTCGTGAGAACGGCAACAAAATTTTTAATAAATCGCGGGGTCGGCTTAAT +AGCAAACTGAGCATTCCCGATCCGGCTGAGTAA +>11111_1#11_04125 +ATGAAAAAAAACCTGCTGGGATTCACCCTCGCATCCTTGTTATTCACGACCGGTTCCGCC +GTGGCGGCGGAGTATAAAATTGATAAAGAAGGCCAACATGCGTTCGTCAATTTCCGCATC +CAGCATCTGGGCTACAGCTGGCTATACGGCACCTTTAAAGATTTCGACGGCACGTTCACT +TTTGACGAAAAAAATCCGTCAGCAGACAAAGTGAATGTGACCATTAACACCAATAGCGTC +GACACTAACCATGCCGAACGTGACAAACACCTGCGTAGCGCGGAGTTTCTTAATGTTGCG +AAATTCCCGCAGGCAACCTTCACCTCTACCAGCGTGAAAAAAGAGGGCGATGAACTGGAT +ATTACCGGCAATCTGACGCTCAATGGCGTGACTAAACCGGTGACGCTGGAAGCGAAGCTG +ATGGGCCAGGGCGACGATCCGTGGGGCGGTAAGCGCGCGGGCTTTGAGGCCGAAGGAAAA +ATTAAGCTGAAAGATTTCAATATAACTACCGATCTCGGCCCAGCCTCACAAGAGGTGGAG +CTTATCATCTCAGTAGAAGGCGTTCAGCAGAAGTAA +>11111_1#11_04126 +ATGTTACTGATGATGGCGCTGATCGTGCGTATTATCTGGCGGCTTTATTCTCCGCCGCCC +GTTGCGTTGACCAGCTATTCCCGTTTAACGCGCATTGGCGCCGCCGCGGGTCATATCCTT +CTGTATCTCCTGCTCTTTGCGATAATCATTAGCGGCTACCTGATTTCCACCGCCGACGGT +AAACCGATTAGCGTCTTTGGCTGGTTTGAGATTCCGGCCACGCTTACGGACGCGGGCGCG +CAGGCTGACATCGCCGGAACACTGCATCTGTGGTTTGCCTGGTCGCTGGTCATTATCTCG +CTCTCGCATGGGGTTATGGCGCTAAAACACCATTTCATCGATAAAGACGACACACTGAAA +CGTATGACAGGAATGTCGTCATCTGACTATGGAGCTCAAAAATGA +>11111_1#11_04128 +ATGAAATACGACCTTATTATTATCGGCAGCGGTTCGGTTGGCGCCGCCGCTGGTTATTAC +GCCACCCGCGCCGGGCTAAAGGTCCTGATGACCGATGCGCATATGCCGCCTTATCAACAG +GGCAGCCACCACGGCGATACCCGTCTTATCCGCCACGCTTATGGTGAAGGCGAAAAATAT +GTCCCGCTGGTGCTTCGCGCCCAGACGCTTTGGGATGAGCTCTCCACACACAATGAAGAG +CCTATTTTTGTCCGCTCCGGCGTCGTCAACCTCGGCCCGGCCGATTCCGCTTTCTTAGCC +AACGTCGCACGAAGCGCGCAACAGTGGCAATTGAACGTCGAGCGCCTGGACGCGACGGCC +CTCATGACGCGCTGGCCGGAAATTCGCGTGCCCGATAATTATATCGGGCTGTTTGAAGCT +GACTCCGGTTTCCTGCGCAGCGAATTAGCCATTACCACATGGCTTCGTCTGGCCCGAGAG +GCAGGCTGCGCACAGCTATTCAACAGCCCGGTAAGCCATATTCACCATGATGATAACGGT +GTGACGATAGAGACGAGTGAAGGCTGCTACCACGCCAGCAAAGCGCTGATTAGCGCGGGC +ACCTGGGTCAAAACGCTGGTACCGGAGCTGCCCGTTCAGCCCGTACGTAAAGTTTTTGCC +TGGTTTAAGGCGGATGGACGTTACAGCACTAAAAACCGCTTTCCGGCCTTTACCGGCGAA +ATGCCCAACGGCGATCACTATTACGGTTTCCCGGCGGAGAACGACGAGTTAAAAATCGGC +AAACACAATGGCGGGCAGCGAATACAGGCACCGGAAGAGCGCAAGCCCTTTGCCGCCGTT +GCCAGCGATGGCGCGGAAGCATTTCCTTTCCTGCGTAACGTACTGCCGGGTATCGGCGGT +TGTTTACATGGGGCGGCATGTACCTATGATAATTCGCCGGACGAGGATTTTATTATCGAT +ACGCTGCCTGGCCATGAGAATACGCTTGTCATCACTGGACTCAGCGGACATGGTTTTAAA +TTCGCCCCGGTGTTAGGAGAAATCGCTGCGGATTTTGCGTTGGGAAAAACGCCCTCCTTT +GATCTGACGCCGTTCCGGCTTTCCCGTTTTAGCCAATAA +>11111_1#11_04129 +ATGGAAAAGAATAATGAAGTCATTCAGACCCATCCGCTTGTAGGATGGGACATCAGCACC +GTCGATAGCTATGATGCGCTGATGCTGCGTTTACACTACCAGACCCCAAATCGTCCGGAA +CCGGAAGGGACTGAAGTTGGTCAAACGCTCTGGTTAACGACAGATGTAGCCAGGCAATTT +ATTTCAATATTAGAAGCCGGCATCGCCAAAATAGAATCAGGCGATTACCAGGAAAACGAG +TATCGTCACCATTAG +>11111_1#11_04131 +ATGACTGCACCATCCCAGGTTTTAAAGATCCGCCGCCCGGACGACTGGCACGTTCACCTT +CGCGATGGCGACATGTTAAAAACGGTCGTACCCTATACCAGCGAAATTTATGGTCGCGCT +ATCGTGATGCCGAACCTGGCGTCCCCCATTACGACCGTTGATGCAGCGATCGCCTACCGC +CAGCGTATTCTCGATGCGGTGCCCGCCGGGCATGATTTCACGCCGTTAATGACCTGCTAT +TTAACGGATTCGCTCGATGCCGATGAACTGGAGCGTGGTTTCCATGAAGGCGTGTTTACT +GCGGCCAAGCTTTACCCGGCCAATGCCACCACTAACTCCAGTCATGGCGTAACGTCAGTC +GACGCTATCATGCCGGTACTGGAGCGGATGGAAAAACTCGGAATGCCATTGCTGGTCCAC +GGTGAGGTGACCCATGCGGATGTTGATATCTTCGATCGCGAAGCGCGTTTTATCGACACC +GTAATGGAACCGCTACGCCAGCGTCTGACCGCGCTTAAAGTGGTCTTTGAACACATCACA +ACCAAAGATGCCGCGCAGTATGTACGTGACGGCAGCTACAACCTGGCGGCGACCATTACG +CCTCAACATTTAATGTTTAACCGTAATGATATGCTGGTTGGCGGCATTCGTCCTCACCTG +TACTGTCTGCCGATTCTGAAACGCAATATTCACCAGCAGGCGTTACGCGACCTGGTCGCC +AGTGGTTTTACGCGCGCCTTCCTGGGGACGGATTCAGCGCCGCATTCACGTCATCGTAAA +GAGACCCGTTGCGGCTGCGCCGGTTGTTTCAACGCCCCCTCCGCTCTTGGCAGTTATGCC +GCCGTGTTTGAGGAAATGAACGCGCTGGCGCACTTTGAAGCGTTCTGTTCACTGAATGGC +CCGCAATTCTATGGCCTGCCGGTGAATACGGGGTGGGTGGAACTGGTTCGCGATGAACAA +CAGATACCGGAAAATATCGCGCTGGCTGATGATTCGCTGGTGCCTTTTTTAGCGGGTGAA +ACAGTACGCTGGTCAGTAAAAAAATAA +>11111_1#11_04132 +ATGTCCGCTGGCGCGACATGCTGCTTTGTGTCAAGATTAGGGCACAGGCAACATGCTAAG +GAACGCCATGAAAAAGTTTTTTTTGCCGCTGCGCTGGTAGTTAGCGGCCTGTTAGTGGGT +TGTAATCAACTTACGCAATACACCATTAGCGAACAAGAAATCAATCAAGCGCTTGAAAAA +CGGAATAATTTCTCAAAAGATATTGGTCTGCCTGGCATTGCCGACGCGCATATCGTATTG +ACTAACCTTGCCAGCCAGATTGGTCGGGAAGAGCCTAATAAAGTCACCCTTACTGGCGAT +GCCAGGCTGGATATGAATTCCCTGTTTGGCAGTCAAAAAGCGACGATGAAACTCAAGCTA +AAAGCCCTGCCGGTCTTTGATAAAGAAAAAGGCGCCATCTATCTTCAGGAGATGGAAGTA +GTAGACGCCACCGTGACGCCGGAGAAAATGCAATCAGTGCTACAAACGCTCCTGCCCTAT +TTAAATCAGTCTTTACGTAGCTACTTTAACCAGCGGCCCGCTTACGTGTTGCGTGAGGAC +AGTAGTAAAGGCGAAGCGTTAGCGAAGAAACTCGCGAAAGGCATTGAAGTTAAACCTGGT +GAAATCGTTATTCCTTTCACCAATTGA +>11111_1#11_04133 +GTGAAGCTTTATATTTACGATCATTGCCCTTTCTGCGTTAAAGCCCGCATGATTTTCGGC +CTGAAGAACATCCCCGTTGAACTTAACGTGTTACAAAATGACGACGAGGCGACGCCCACC +CGGATGATTGGTCAAAAGATGGTGCCCATCCTGCAAAAAGATGATAGTCGCTACCTTCCT +GAAAGTATGGATATTGTACATTATGTCGACAACCTCGACGGCAAACCGCTGTTAACCGGG +AAACGTAATCCAGCCATTGAAGAGTGGTTGCGCAAAGTTAACGGTTACGTTAATCAGCTA +CTGCTGCCGCGATTTGCAAAATCCGCTTTCGATGAATTTTCTACCCCTGCGGCGCGCCAG +TATTTTATCCGCAAAAAAGAGGCCTCATCTGGCAGTTTTGACAACCATCTTGCGCACTCT +GCCGGACTGATTAAAAAGATCGGCGATGATTTACGTTTGCTGGATAAACTCATCGTACAG +CCTAACGCCGTTAACGGCGAATTATCGGAAGATGATATTCATCTGTTTCCGCTTCTGCGT +AATCTGACGCTGGTCGCCGGTATTCACTGGCCGACAAAAGTCGCGGACTATCGCGATAAT +ATGGCTAAGCAGACGCAAATTAATTTACTCTCCTCAATGGCTATCTAA +>11111_1#11_04134 +ATGTCGCGCGTCTCGCAGGCGAGGAACCTGGGTAAATATTTTCTTCTCATCGATAACATG +TTAGTGGTGCTGGGTTTTTTCGTCGTCTTCCCGCTCATCTCTATTCGCTTTGTCGATCAA +ATGGGGTGGGCTGCCGTAATGGTAGGGATCGCGCTCGGCCTGCGTCAGTTTATTCAACAA +GGTCTGGGCATTTTTGGCGGCGCCATCGCCGATCGCTTTGGCGCGAAACCGATGATTGTC +ACCGGTATGCTGATGCGCGCCGCAGGCTTTGCCACCATGGGTATCGCGCATGAGCCCTGG +CTCTTGTGGTTTTCCTGCTTTCTTTCCGGTCTCGGCGGTACGCTTTTCGACCCGCCGCGT +TCAGCGCTGGTGGTCAAATTAATTCGTCCGGAGCAACGGGGCCGCTTCTTCTCTCTGTTG +ATGATGCAGGACAGCGCGGGCGCGGTGATTGGCGCGCTGCTGGGAAGCTGGTTGCTACAA +TACGATTTTCGCCTGGTCTGCGCGACGGGCGCTATTTTGTTCATATTATGCGCCCTTTTC +AACGCATGGCTGCTTCCGGCCTGGAAGCTATCAACGGCCAGAACGCCGGTGCGTGAAGGA +ATGCGCCGCGTCATGAGCAATAAAAGGTTTGTCACCTACGTGCTGACGCTGGCGGGCTAC +TATATGCTGGCGGTACAGGTCATGTTAATGCTGCCGATTATGGTAAACGATATCGCCGGT +TCGCCTGCTGCCGTGAAATGGATGTACGCTATTGAGGCGTGTCTCTCGCTGACGTTGCTC +TACCCGATTGCCCGCTGGAGCGAAAAGCGTTTTCGGCTGGAGCATCGGCTGATGGCCGGT +TTGCTCGTCATGTCGCTGAGCATGCTCCCCATCGGGATGGTGGGCAATTTACAGCAGCTT +TTTACGCTTATTTGCGCTTTCTACATCGGCTCGGTTATCGCCGAACCGGCGCGCGAAACG +CTCAGCGCGTCGCCCGCGGACGCGAGGGCGCGGGGAAGCTATATGGGCTTTAGCCGTCTG +GGATTAGCCATTGGCGGCGCGATTAGTTATATCGGCGGCGGCTGGTTGTTTGATATGGGT +AAAGCGCTTGCGCAGCCTGAACTACCGTGGATGATGCTCGGTATTATCGGCTTTATCACC +TTTTTGGCTTTAGGCTGGCAATTTAGTCATAAGCGCACGCCGCGCCGGATGCTGGAACCC +GGCGCCTGA +>11111_1#11_04135 +ATGTTTGGCTATCGCAGTAACGTGCCAAAAGTGCGCTTAACCACCGATCGTCTGGTGGTA +CGTTTAGTGCATGAGCGTGATGCCTGGCGTCTGGCCGATTATTACGCGGAAAATCGTCAT +TTTTTAAAACCCTGGGAACCGGTCCGTGATGAAAGTCATTGTTATCCTTCAGGATGGCAG +GCGCGTCTGGGAATGATCGGTGAATTTCACAAACAGGGCTCCGCCTTCTATTTCGCGCTA +CTTGATCCGGAAGAAAAAGAAATTATCGGCGTGGCGAATTTTTCCAATGTGGTGCGCGGT +TCTTTTCATGCCTGTTATCTGGGCTATTCCATTGCGCAAGAGTGGCAGGGGCAAGGGCTG +ATGTTTGAAGCCTTAACCGCTGCGATTCGCTATATGCAGCGCACTCAGCATATCCACCGT +ATCATGGCGAACTATATGCCGCACAACAAACGTAGCGGCGCGTTGCTGGCGCGGCTTGGC +TTTGAAAAAGAAGGCTATGCGAAAGATTACCTGTTGATTGATGGACAATGGCGCGACCAT +GTCCTGACGGCGTTAACCACGCCGTTATGGACGCCGGGGCGTTGA +>11111_1#11_04136 +ATGAAATATGAATTAACCGCCACTGAAGCGCGAGTGATTGGCTGTCTGCTGGAAAAGCAG +GTGACAACGCCGGAACAGTATCCGCTTTCCGTCAACGGGGTGGTGACAGCCTGTAATCAG +AAAACCAACCGTGAACCGGTGATGAACCTGACGGAACAAGAGGTACAAGAACAGCTCGAT +AACCTGGTGAAACGCCACTTTTTGCGTACGGTCAGCGGGTTTGGCAACCGCGTCACCAAA +TATGAACAGCGCTTCTGTAATTCCGAATTTGGCGATCTGAAACTTAGCGCGGCGGAAGTG +GCGCTCGTCACTACGTTGCTGCTGCGCGGCGCGCAAACGCCCGGCGAGTTGCGTAGCCGG +GCGTCGCGGATGCATGAATTCAGCGATATGGCGGAAGTTGAATCCACGCTGGAACGGCTT +GCCAGTCGTGAGGACGGCCCGTATGTCGTCCGTCTGGCGCGTGAACCGGGTAAGCGCGAA +AGCCGCTATATGCACCTTTTTTGCGGCGACGTCGATGAACTGTCTCTCCAGACGTCTGCG +CCGGAAAGTGCGTCGGGCGATCTTCAGTCGCGCGTCGAAGCGCTGGAAAGCGAAGTGGCG +GAGTTAAAGCAGCGGCTGGATTCTTTGTTAGCTCACCTGGGAGAGTAA +>11111_1#11_04137 +GTGAGAACATTACGGATTGGCATTGTCGTGTTAGGTGGTATTGCGCAGAAGGCCTGGCTG +CCGGTATTAACCAACACCGCCGGATGGACGTTACAGGGCGCCTGGTCTCCTTCGCGGGAT +AAAGCCTTACGTATTTGCGAAAGCTGGCGCATACCGTATGTGGATTCGCTGGCGAATTTA +GCGTCCGGCTGCGATGCGGTCTTCGTCCACTCCAGTACCGCAAGCCATTATGCCGTGGTC +AGCGAACTTCTCAACGCTGGCGTCCATGTCTGCGTGGATAAACCGCTGGCGGAAAATCTA +CGTGATGCCGAACGGCTGGTGGCGCTGGCGGCGCAAAAAAAATTGACGCTGATGGTTGGC +TTTAATCGCCGTTTCGCGCCGCTGTACCGCGAACTGAAGACGCGCCTCGGCACTGCGGCG +TCACTGCGTATGGATAAACATCGTACCGATAGCATCGGGCCGCATGACTTACGTTTTACT +TTGCTCGATGACTATCTGCATGTCGTGGATACCGTTCTGTGGCTGGCGGGCGGCGAGGCG +CGCCTTGCCAGCGGCACGTTGCTCACCAGCGAGTCCGGCGAAATGTGCTATGCGGAACAT +CATTTTTCCGCCGACAAATTACAAATTACCACCAGTATGCACCGGCGCGCCGGAAGTCAG +CGTGAATCGGTCCAGGCCGTCACCGATGGCGGGCTGTATGACGTGACGGATATGCGTGAA +TGGCGCGAAGAGCGCGGGCAGGGTATTCTCATCAAACCCATTCCGGGTTGGCAAACAACG +CTTGAGCAGCGTGGTTTTGTCGGATGCGCGCGGCATTTCATTGACTGCGTACAAAATCAG +ACGGTTCCGGAAACGGCGGGGGAGCAGGCGATTTTGGCCCAGCGCGTCGTGGAGGCGCTG +TGGCGGGACGCCATCAGCGAATAA +>11111_1#11_04138 +ATGCAGGAGTTTTACGCCAGGGTCTGGAATACAAAAGAAATGAATTTATTGAAATCGCTG +GCTGCCGTCAGCTCGATGACTATGTTTTCACGCGTGTTGGGCTTTGCCCGTGATGCGATT +GTCGCCAGAATTTTTGGCGCAGGGATGGCGACCGACGCCTTTTTTGTGGCGTTTAAACTT +CCCAATCTACTACGCCGGATCTTTGCCGAAGGCGCTTTTTCTCAGGCCTTTGTGCCTATC +CTGGCGGAATATAAGAGCAAGCAGGGTGAAGAAGCGACGCGGATCTTTGTCGCTTACGTT +TCCGGCCTGTTGACGCTGGCATTGGCCGTCGTGACGGTGGCCGGTATGCTGGCCGCCCCG +TGGGTGATTATGGTAACCGCGCCGGGTTTTGCCGATACTGCGGATAAATTTGCGCTGACG +ACGCAACTGCTGCGGATTACGTTTCCCTATATTCTGCTGATCTCGCTGGCTTCACTGGTT +GGCGCCATTCTCAACACCTGGAATCGCTTCTCTATTCCCGCTTTTGCGCCGACATTTCTT +AATATCAGTATGATCGGTTTTGCATTATTCGCCGCGCCATACTTTAATCCGCCGGTGCTG +GCGTTAGCCTGGGCAGTCACCGTCGGCGGCGTGCTGCAACTGGTGTATCAACTTCCGTAT +TTGAAAAAGATCGGTATGCTGGTGCTGCCGCGCATTAACTTTCACGACACCGGGGCGATG +CGGGTGGTCAAACAGATGGGGCCGGCGATTTTGGGCGTTTCCGTCAGTCAGATCTCCCTT +ATCATCAATACCATTTTCGCCTCGTTTCTGGCCTCCGGCTCGGTCTCATGGTTGTACTAT +GCCGATCGGTTGATGGAGTTCCCGTCCGGCGTGCTGGGCGTGGCGTTGGGGACCATCCTG +TTGCCGTCATTGTCGAAAAGCTTTGCCAGCGGCAATCATGATGAGTACTGCCGCCTGATG +GACTGGGGGCTGCGTTTGTGCTTTTTACTGGCGTTGCCGAGCGCGGTAGCGCTAGGCATT +CTGGCGAAGCCGCTGACGGTCTCGCTGTTTCAGTACGGTAAATTCACCGCCTTTGATGCG +GCGATGACGCAGCGGGCGTTAATCGCCTATTCGGTGGGGCTGATTGGCTTGATCGTCGTA +AAAGTGCTGGCCCCGGGCTTCTATTCTCGCCAGGATATTAAAACGCCGGTGAAAATCGCC +ATCGTGACGTTAATCATGACGCAGTTAATGAACCTGGCGTTTATTGGACCGCTGAAACAC +GCCGGGCTGTCGCTCTCTATTGGTCTGGCGGCATGTCTCAATGCGTCGCTGCTGTACTGG +CAACTGCGCAAACAGAATATCTTTACGCCACAACCGGGGTGGATGTGGTTCCTGATGCGT +CTGATCATTTCCGTACTGGTAATGGCCGCCGTGTTGTTCGGCGTGTTGCATATTATGCCG +GAGTGGTCGCAAGGGTCGATGCTATGGCGTTTGCTGCGTTTGATGGCGGTAGTGATCGCG +GGTATCGCGGCCTATTTCGCCGCGCTTGCCGTGCTGGGCTTTAAAGTGAAAGAGTTTGTT +CGCCGGACGGCGTAA +>11111_1#11_04139 +ATGACTCGTTTGTCAGAAATACTTGACCAGATGACCACCGTCCTGAATGACCTGAAGACG +GTGATGGACGCCGAGCAACAACAGCTTTCCGTAGGCCAGATTAACGGCAGCCAGCTACAG +CGTATTACAGAAGAAAAAAGCTCGTTGCTGGCGACGCTGGATTATCTGGAACAACAGCGC +CGTCTGGAGCAGAACGCGCAGCGTAGCGCAAACGATGACATTGCAGAGCGCTGGCAGGCG +ATTACCGAAAAAACGCAGCATCTGCGCGACCTCAACCAGCACAACGGCTGGCTGCTGGAA +GGGCAAATCGAGCGTAATCAACAGGCGCTGGAGGTGCTGAAACCTCACCAGGAGCCGACC +TTGTACGGGGCTGACGGTCAGACTTCCGTCTCTCACCGCGGCGGTAAAAAAATATCTATC +TAA +>11111_1#11_04140 +ATGAGCATTGACCGTACCTCACCTTTGAAACCCGTTAGCACTGTCCAGACGCGCGAAACC +AGCGACACGCCGGTACAAAAAACGCGTCAGGAAAAAACGTCCGCCGCGACGAGCGCCAGC +GTAACGTTAAGCGACGCGCAAGCGAAGCTTATGCAGCCAGGCGTCAGCGACATTAATATG +GAACGCGTCGAAGCATTAAAAACGGCTATCCGTAACGGTGAGTTAAAAATGGATACGGGA +AAAATAGCAGACTCGCTCATTCGCGAGGCGCAGAGCTACTTACAGAATAAATAA +>11111_1#11_04141 +ATGCAAACGTTAAAACGAGGATTCGCCGTGGCGGCTTTGCTGTTCAGCCCCCTGACAATG +GCGCAGGACATCAACGCCCAGCTGACCACGTGGTTTTCCCAGCGTCTGGCTGGCTTCAGC +GACGAGGTGGTTGTCACGCTCCGTTCACCGCCCAATCTGCTACCGAGCTGCGAGCAGCCA +GCCTTCAGCATGACGGGCAGCGCGAAGCTGTGGGGCAACGTCAATGTGGTGGCGCGCTGC +GCCAATGAAAAACGTTATTTGCAGGTGAATGTGCAAGCGACCGGCAATTATGTCGCCGTA +GCCGCGCCCGTCGCGCGCGGCGGAAAATTGACGCCGGCCAACGTCACGCTAAAACGTGGC +AGACTGGATCAGTTACCGCCGCGGACGGTACTGGATATCCGTCAGATTCAGGATGCCGTC +AGTTTGCGCGATCTCGCTCCCGGGCAGCCGGTACAGCTTACGATGATACGTCAGGCCTGG +CGTGTCAAAGCGGGTCAACGAGTACAGGTCATCGCCAATGGCGAGGGGTTTAGCGTCAAT +GCGGAAGGTCAGGCGATGAATAATGCCGCCGTCGCGCAAAATGCGCGCGTGCGCATGACA +TCGGGTCAAATCGTGAGTGGAACCGTCGATTCTGATGGGAATATTCTTATTAACCTATAA +>11111_1#11_04142 +ATGCTCGACAGGCTCGATGCCGCCTTACGATTTCAGCAGGAAGCGCTAAATCTGCGCGCG +CAACGTCAGGAAATATTAGCGGCGAATATCGCCAATGCCGATACGCCGGGGTATCAGGCG +CGCGATATTGATTTTGCCAGTGAGTTAAAAAAAGTGATGGTGCGCGGACGGGAAGAAACC +GGCGGCGTCGCGTTGTCGTTGACTTCTTCTCGCCATATTCCCGCCCAGGCGGTCTCTTCT +CCCGCAGTGGATCTGCTTTACCGCGTACCCGATCAGCCTTCTTTGGATGGTAACACCGTA +GATATGGACAGGGAACGTACGCAGTTTGCGGATAACAGTCTCAAATATCAGATGGGGCTT +ACCGTTCTGGGTAGCCAACTCAAAGGCATGATGAATGTGCTACAGGGAGGAAACTAA +>11111_1#11_04143 +GTGGCGCTGTTAAACATTTTTGATATTGCCGGATCGGCGCTTGCCGCACAGTCCAAGCGG +TTGAACGTTGCGGCCAGTAACCTTGCGAATGCGGATAGCGTCACCGGCCCGGACGGACAG +CCTTATCGCGCCAAACAGGTGGTTTTTCAGGTGGACGCCGCGCCGGGTCAAGCCACTGGC +GGGGTAAAGGTCGCCAGCGTGATTGAAAGTCAGGCACCGGAAAAGCTGGTTTATGAGCCA +GGCAATCCGCTGGCGGACGCTAATGGTTACGTCAAAATGCCCAACGTCGATGTGGTCGGC +GAAATGGTCAACACGATGTCAGCCTCGCGCAGCTATCAGGCAAATATCGAAGTCCTGAAT +ACCGTAAAAAGCATGATGCTTAAAACGCTGACATTAGGCCAGTAA +>11111_1#11_04144 +ATGTCTATTGCCGTAAATATGAATGACCCGACCAACACGGGCGTCAAAACGACGACCGGC +AGCGGGTCGATGACCGGAAGCAACGCTGCCGATCTGCAAAGCAGTTTCCTGACCTTACTG +GTCGCGCAATTGAAGAACCAGGACCCGACTAACCCATTACAAAATAATGAGTTAACGACA +CAGTTGGCGCAAATCAGTACCGTGAGCGGCATTGAAAAACTGAATACGACGCTGGGGGCT +ATTTCCGGGCAAATCGATAATAGTCAGTCCCTACAGGCGACCACGCTGATTGGACATGGC +GTTATGGTGCCTGGCACCACAATTCTGGCGGGTAAAGGCGCGGAAGAAGGGGCCGTGACG +TCCACGACGCCGTTTGGCGTGGAATTGCAACAGCCTGCGGACAAAGTGACGGCAACCATT +ACCGATAAAGATGGCCGGGTGGTACGGACGCTGGAGATCGGTGAGTTGCGAGCCGGGGTA +CACACCTTTACCTGGGATGGTAAGCAAACGGACGGAACAACGGTACCGAATGGTTCTTAC +AACATTGCGATTACCGCCAGCAATGGCGGGACGCAACTGGTGGCGCAGCCGCTGCAATTC +GCTCTGGTACAGGGCGTGACGAAGGGCAGTAACGGCAACCTGTTGGATCTGGGTACCTAC +GGCACCACCACACTCGACGAAGTTCGGCAAATAATCTAA +>11111_1#11_04145 +ATGTCTTTTTCTCAAGCGGTTAGCGGCCTGAACGCTGCGGCCACCAACCTTGATGTTATC +GGTAATAACATCGCCAACTCCGCCACCTATGGCTTTAAGTCCGGTACGGCATCATTTGCC +GATATGTTCGCCGGTTCCAAAGTGGGGTTGGGCGTAAAAGTGGCGGGGATTACCCAGGAT +TTTACCGACGGTACGACAACGAACACCGGGCGCGGGCTGGATGTCGCGATTAGCCAGAAC +GGTTTTTTCCGCCTGGTAGACAGCAACGGTTCCGTGTTCTATAGCCGCAACGGCCAGTTC +AAACTGGACGAGAACCGTAACCTGGTCAATATGCAGGGGATGCAGTTGACCGGCTATCCG +GCCACCGGTACGCCGCCGACCATTCAGCAGGGGGCGAATCCTGCGCCGATCACCATTCCG +AACACGCTGATGGCGGCGAAATCGACCACCACCGCGTCAATGCAGATCAACCTGAACTCA +ACGGACCCTGTACCGTCTAAAACGCCCTTTAGCGTGAGTGATGCGGATTCGTATAACAAA +AAAGGCACCGTCACCGTTTATGACAGCCAGGGTAATGCCCATGACATGAACGTCTATTTT +GTGAAAACCAAAGATAATGAATGGGCTGTGTACACCCATGACAGCAGCGATCCTGCAGCC +ACTGCGCCAACAACGGCGTCCACTACGCTGAAATTCAATGAAAACGGGATTCTGGAGTCT +GGCGGTACGGTGAACATCACCACCGGTACGATTAATGGCGCGACAGCGGCCACCTTCTCC +CTCAGCTTCCTTAACTCCATGCAGCAGAACACCGGGGCTAATAACATCGTCGCCACCAAT +CAAAACGGCTATAAGCCTGGCGACCTGGTGAGCTACCAGATTAACAATGATGGCACCGTG +GTTGGCAACTACTCCAACGAGCAGGAGCAGGTGCTGGGGCAGATTGTGCTGGCTAACTTC +GCCAACAACGAAGGTCTGGCATCCCAGGGCGATAACGTCTGGGCGGCGACGCAGGCCTCC +GGGGTAGCGCTGCTGGGGACTGCCGGTTCCGGCAACTTCGGTAAGCTGACGAACGGCGCG +CTGGAAGCCTCTAACGTGGATTTGAGTAAAGAGCTGGTGAATATGATCGTCGCGCAGCGT +AACTACCAGTCGAATGCGCAGACCATCAAAACCCAGGACCAGATCCTCAATACGCTGGTT +AACCTGCGCTAA +>11111_1#11_04146 +ATGGATCACGCAATTTATACCGCCATGGGGGCGGCCAGCCAGACGCTTAACCAGCAGGCG +GTAACGGCCAGCAACCTGGCTAATGCCTCAACGCCGGGCTTTCGCGCGCAGCTTAACGCG +CTACGCGCGGTGCCCGTTGATGGCCTCTCTTTAGCGACGCGCACGTTGGTTACGGCGTCG +ACGCCGGGGGCGGATATGACCCAGGGTCAGTTGGACTACACTTCCCGCCCGCTGGATGTT +GCGTTACAGCAGGACGGCTGGCTGGTGGTGCAAGCGGCGGATGGCGCTGAAGGATATACC +CGTAACGGGAATATCCAGGTGGGCCCGACCGGGCAGTTAACCATTCAGGGACATCCGGTT +ATCGGCGAAGGCGGCCCGATTACCGTTCCGGAAGGGTCGGAAATCACCATTGCGGCAGAC +GGCACGATCTCCGCGCTCAATCCCGGCGACCCGCCAAACACGGTGGCGCCCGTTGGGCGG +CTGAAGCTGGTCAAAGCGGAAGGCAATGAGGTGCAGCGGAGCGATGACGGTTTATTCCGC +CTTACCGCCGAGGCACAGGCTGAACGCGGGGCGGTACTGGCCGCCGACCCGTCAATTCGC +ATTATGTCGGGCGTGCTGGAGGGCAGTAACGTCAAGCCGGTTGAAGCCATGACCGACATG +ATCGCCAACGCACGTCGTTTTGAAATGCAGATGAAGGTTATCACCAGCGTAGATGAGAAC +GAAGGGCGAGCTAACCAACTGCTGTCGATGAGTTAA +>11111_1#11_04147 +ATGATCAGTTCATTATGGATCGCCAAAACCGGTCTGGACGCGCAGCAAACCAATATGGAT +GTGATTGCCAATAACCTGGCAAACGTCAGCACCAATGGTTTTAAGCGTCAGCGCGCGGTA +TTTGAAGATCTGTTGTATCAGACCATCCGCCAGCCGGGCGCGCAGTCGTCCGAGCAGACG +ACGCTGCCTTCCGGGCTGCAAATCGGTACCGGCGTGCGTCCGGTCGCCACGGAGCGCCTG +CACAGTCAGGGGAACCTGTCGCAGACCAACAACAGTAAAGATGTGGCGATTAAAGGGCAG +GGCTTTTTCCAGGTCATGCTGCCGGACGGTACGTCTGCCTATACCCGCGACGGCTCTTTC +CAGGTGGATCAGAATGGTCAACTGGTGACGGCGGGCGGTTTTCAGGTGCAGCCGGCAATC +ACCATTCCGGCCAACGCGTTAAGCATCACGATTGGCCGCGACGGCGTGGTCAGCGTTACC +CAGCAAGGGCAGGCCGCGCCGGTTCAGGTCGGGCAGCTTAACCTGACCACCTTTATGAAC +GACACCGGTCTGGAAAGCATCGGCGAGAACCTCTATATCGAAACGCAATCGTCCGGCGCG +CCGAACGAAAGCACGCCGGGGCTCAACGGCGCGGGGTTGTTGTATCAAGGGTATGTCGAA +ACGTCGAACGTTAACGTGGCGGAAGAGCTGGTGAACATGATTCAGGTTCAACGCGCCTAT +GAAATTAACAGTAAAGCAGTATCGACGACCGATCAGATGCTGCAGAAACTGACGCAACTC +TAA +>11111_1#11_04148 +ATGGCCCTGATGGTCGCGACGCTGACAGGATGCGCCTGGATACCCGCTAAACCGCTCGTG +CAGGGGGCGACCACGGCGCAGCCGATACCTGGCCCGGTACCGGTGGCGAATGGCTCCATA +TTTCAGTCTGCGCAGCCGATTAATTATGGCTATCAGCCGCTTTTTGAAGATCGTCGACCG +CGTAATATCGGCGATACGCTCACGATTGTGTTACAGGAAAACGTCAGCGCCAGTAAAAGC +TCGTCGGCAAATGCCAGCCGCGACGGCAAAACCAGCTTTGGTTTTGATACGGTACCGCGT +TATCTGCAGGGATTATTCGGTAATTCCCGCGCGGATATGGAGGCCTCCGGCGGCAACTCT +TTTAATGGTAAAGGCGGCGCGAATGCCAGCAATACCTTTAGCGGCACGCTGACCGTGACC +GTCGATCAGGTTCTGGCCAATGGCAATTTACACGTCGTGGGGGAAAAACAGATCGCGATT +AATCAGGGAACGGAATTCATCCGCTTCTCCGGCGTGGTAAATCCACGCACCATCAGCGGT +AGCAACTCTGTTCCCTCGACACAGGTGGCGGATGCGCGGATTGAATATGTCGGGAACGGC +TATATTAACGAAGCGCAAAATATGGGCTGGCTGCAACGTTTCTTCCTTAATTTGTCGCCG +ATGTAA +>11111_1#11_04149 +GTGTTTAAAGCTCTTGCAGGAATCGTTCTGGCACTGGTTGCCACTCTGGCGCACGCCGAG +CGTATCCGGGATCTGACCAGTGTCCAGGGAGTACGGGAAAACTCGCTGATCGGCTACGGG +CTGGTGGTCGGGCTGGACGGTACGGGCGACCAGACGACCCAGACGCCATTTACCACCCAG +ACGCTGAATAACATGCTGTCACAACTGGGGATTACGGTCCCCACCGGCACCAATATGCAG +TTGAAAAACGTGGCGGCGGTGATGGTGACGGCGTCGTATCCGCCTTTTGCGCGACAGGGA +CAAACGATCGATGTCGTCGTTTCCTCAATGGGGAACGCTAAAAGTCTGCGTGGCGGGACG +TTATTAATGACGCCGTTAAAAGGGGTGGACAGCCAGGTGTATGCTCTGGCGCAGGGCAAT +ATTCTGGTCGGCGGCGCGGGCGCTTCCGCAGGCGGCAGTAGCGTGCAGGTTAACCAGCTT +AATGGCGGGCGCATCACTAATGGCGCGATTATCGAACGCGAGTTGCCGACTCAGTTCGGC +GCTGGCAACACCATTAATCTGCAATTGAACGACGAAGATTTTACGATGGCGCAGCAAATT +ACCGACGCCATCAACCGCGCCCGCGGTTACGGCAGCGCCACTGCGCTTGATGCGCGAACG +GTACAGGTACGCGTGCCCAGCGGCAACAGCTCGCAGGTGCGTTTTCTGGCGGACATTCAA +AATATGGAAGTCAACGTGACGCCGCAGGATGCAAAAGTCGTGATCAACTCGCGTACCGGT +TCGGTGGTCATGAATCGGGAAGTCACGCTGGATAGCTGCGCTGTGGCGCAGGGCAATTTG +TCAGTGACAGTCAATCGCCAACTCAACGTCAACCAGCCGAATACGCCATTTGGCGGCGGG +CAGACCGTGGTGACGCCACAGACTCAGATAGATTTGCGTCAGAGCGGCGGATCGCTACAG +AGCGTGCGTTCCAGCGCCAATCTGAACAGCGTAGTGCGCGCGCTGAATGCGCTTGGCGCG +ACGCCGATGGATCTGATGTCGATTTTGCAGTCCATGCAGAGCGCGGGCTGTCTACGCGCC +AAACTGGAAATCATCTGA +>11111_1#11_04150 +ATGATCGGAGACGGTAAATTGCTGGCCAGCGCGGCCTGGGATGCGCAATCTCTGAACGAA +CTGAAAGCGAAAGCGGGCCAGGACCCGGCGGCGAATATCCGTCCTGTGGCCCGTCAGGTG +GAAGGGATGTTTGTGCAGATGATGCTGAAAAGTATGCGCGAGGCTTTACCCAAAGATGGT +TTATTCAGCAGCGATCAGACGCGTCTGTATACCAGCATGTATGACCAGCAGATCGCCCAG +CAGATGACCGCCGGTAAGGGATTGGGGCTGGCGGATATGATGGTTAAACAGATGACGGGC +GGGCAGACGATGCCTGCAGATGATGCGCCGCAAGTACCGCTTAAATTCTCCCTGGAGACG +GTAAACAGCTATCAAAATCAGGCGCTGACCCAACTGGTGCGCAAAGCCATACCGAAAACG +CCGGACAGCAGCGATGCGCCGCTCTCCGGCGACAGTAAAGACTTTCTGGCCCGGCTTTCG +CTCCCGGCGAGGCTGGCCAGCGAACAAAGCGGGGTGCCGCATCATCTGATTCTGGCGCAG +GCGGCGCTGGAGTCCGGCTGGGGGCAGCGGCAAATCCTGCGGGAGAATGGCGAACCCAGC +TATAACGTATTTGGCGTGAAAGCGACCGCCAGTTGGAAAGGGCCGGTGACGGAAATCACC +ACCACTGAATACGAAAATGGCGAAGCGAAAAAAGTGAAAGCGAAATTCCGCGTCTATAGC +TCGTATCTGGAGGCGTTATCGGATTATGTCGCGCTGTTAACGCGTAACCCACGCTACGCT +GCCGTGACCACTGCCGCCACGGCAGAGCAGGGCGCAGTGGCTCTGCAAAACGCCGGATAC +GCCACTGACCCGAATTACGCGCGTAAATTGGCCAGCATGATTCAGCAGTTGAAAGCGATG +AGTGAAAAGGTCAGCAAAACCTACAGCGCGAATCTCGACAATCTCTTTTAA +>11111_1#11_04151 +ATGTCCAGCTTGATTAATCACGCCATGAGCGGACTTAACGCCGCGCAGGCCGCGTTAAAT +ACGGTCAGTAATAACATCAACAATTATAACGTTGCGGGTTATACCCGGCAGACAACTATT +CTGGCGCAGGCAAACAGTACGTTAGGGGCTGGCGGCTGGATAGGTAATGGCGTTTACGTT +TCAGGCGTACAGCGCGAATATGATGCGTTTATCACTAATCAGCTACGCGGCGCGCAAAAC +CAGAGCAGCGGCTTAACCACGCGCTATGAACAAATGTCGAAAATCGACAACCTGCTGGCC +GATAAATCCAGCTCACTGTCTGGCTCGCTGCAGAGTTTTTTTACCAGCCTGCAAACGTTA +GTCAGTAATGCGGAAGATCCTGCGGCGCGTCAGGCGCTGATTGGTAAAGCGGAAGGGCTG +GTAAACCAGTTCAAAACCACCGATCAGTATCTGCGCGATCAGGATAAACAGGTCAATATC +GCGATTGGCTCCAGCGTGGCGCAAATCAACAATTACGCGAAGCAGATAGCTAACCTGAAC +GATCAAATCTCCCGTATGACGGGCGTAGGCGCGGGCGCATCGCCGAACGACCTGCTCGAT +CAACGTGATCAGTTGGTTAGCGAGCTTAACAAGATCGTTGGCGTCGAGGTGAGTGTACAG +GACGGCGGCACCTATAACCTGACGATGGCCAATGGCTATACGCTGGTGCAGGGGTCGACG +GCGCGTCAGTTGGCGGCGGTTCCCTCCAGCGCCGACCCGACGCGAACGACTGTCGCTTAT +GTCGATGAGGCCGCCGGTAACATCGAAATTCCGGAAAAGTTGCTGAACACCGGTTCGCTC +GGCGGGCTACTGACGTTCCGTTCTCAGGATCTGGATCAGACTCGTAATACGCTGGGCCAG +TTGGCGTTGGCGTTTGCCGATGCGTTTAACGCGCAGCATACCAAAGGTTATGACGCCGAC +GGCAATAAAGGGAAAGACTTCTTTAGCATTGGCTCGCCGGTGGTATATAGCAACAGTAAT +AATGCCGATAAAACGGTATCGCTAACCGCTAAGGTGGTCGACAGCACGAAGGTTCAGGCG +ACGGATTATAAGATTGTTTTTGACGGTACAGACTGGCAGGTTACTCGCACTGCGGATAAC +ACCACCTTCACGGCAACAAAAGATGCTGACGGAAAACTGGAGATTGACGGTCTGAAAGTG +ACGGTAGGGACTGGCGCACAGAAAAACGACAGTTTTCTTCTCAAGCCGGTCAGCAATGCT +ATCGTCGACATGAACGTTAAAGTGACAAATGAAGCCGAGATTGCGATGGCGTCTGAGTCA +AAACTCGATCCTGATGTGGATACCGGCGACAGCGATAACCGCAATGGTCAGGCATTGCTG +GACTTACAAAACAGCAATGTAGTGGGCGGCAACAAAACCTTTAACGATGCTTACGCCACG +TTGGTCAGCGATGTGGGTAACAAAACGTCAACGCTGAAAACCAGCAGCACCACGCAGGCG +AATGTGGTTAAACAGCTTTATAAACAGCAACAGTCGGTTTCCGGCGTTAACCTCGACGAA +GAGTACGGCAATTTGCAGCGTTATCAGCAGTATTATCTGGCGAATGCGCAAGTATTGCAG +ACCGCGAATGCGCTGTTTGATGCGTTATTGAATATTCGCTAA +>11111_1#11_04152 +ATGCGTATCAGTACCCAGATGATGTACGAACAAAATATGAGCGGCATCACTAATTCTCAG +GCCGAATGGATGAAGCTGGGCGAGCAGATGTCTACCGGTAAGCGCGTTACCAACCCATCT +GACGATCCGATCGCCGCGTCGCAGGCGGTAGTACTCTTTCAGGCGCAGGCGCAGAATAGC +CAGTACGCCCTGGCGCGTACGTTTGCCACCCAAAAAGTGTCGCTGGAAGAAAGCGTACTC +AGTCAGGTGACGACGGCGATTCAAACCGCGCAGGAAAAAATCGTCTATGCCGGAAACGGC +ACGTTAAGCGACGATGACCGCGCGTCGCTGGCGACGGATTTACAGGGGATCCGCGATCAG +CTGATGAACCTGGCAAACAGCACTGACGGCAATGGTCGCTATATCTTTGCCGGGTATAAA +ACGGAAGCGGCGCCATTCGACCAGGCGACAGGTGGTTATCATGGCGGCGAGAAAAGTGTT +ACCCAGCAGGTGGATTCCGCACGCACGATGGTAATTGGCCATACGGGAGCGCAAATTTTT +AATAGCATCACCAGCAATGCGGTGCCGGAACCGGATGGCTCGGACTCCGAAAAGAATCTG +TTTGTCATGCTCGATACGGCAATTGCCGCGCTCAAGACCCCGGTGGAAGGCAATGACGTG +GAAAAAGAAAAAGCCGCTGCCGCCATTGATAAAACCAATCGCGGCTTAAAAAATTCGCTT +AATAACGTCCTGACCGTTCGTGCGGAACTGGGAACGCAACTGAGCGAACTCAGTACGCTG +GATTCACTGGGAAGCGACCGTGCGCTGGGACAGAAGCTACAGATGAGCAACCTGGTAGAT +GTGGACTGGAACTCGGTCATTTCCTCCTACGTCATGCAACAGGCGGCATTACAGGCGTCC +TATAAAACGTTTACCGACATGCAGGGAATGTCGCTTTTCCAGTTGAACCGGTAA +>22222_2#22_04112 +ATGAAACTTTTAAGAGTGGCAGCATTCGCAGCAATCGTAGTTTCTGGCAGTGCTCTGGCT +GGCGTCGTTCCACGATGGGGCGGCGGCGGTAATCATAACGGCGGCGGCAATAGTTCCGGG +CCGGATTCCACGTGGAGCATTTATCAGTACGGTTCCGCTAACGCTGCGCTTGCTCTGCAA +AGCGATGCCCGTAGATCTGAAACGACCATTACCCAGAGCGGTTATGGTAACGGCGCCGAT +GTAGGCCAGGGTGGGGATAACAGTACTATTGAACTGACTCAGAATGGTTTCAGAAACAAT +GCCACCATCGACCGGTGGAACGCTAAAAACTCCGATATTACTGTCGGTCAATACGGCGGT +AATAACGCCGCGCGGGTTAATCAGACCGCATCTGATTCCAGCGTAATGGTGCGTCAGGTT +GGTTTTGGCAACAGCGCCACGGCTAACCAGTATTAA +>22222_2#22_04141 +ATGCAAACGTTAAAACNNGGATTCGCCGTGGCGGCTTTGCTGTTCAGCCCCCTGACAATG +GCGCAGGACATCAACGNNCAGCTGACCACGTGGTTTTCCCAGCGTCTGGCTGGCTTCAGC +GACGAGGTGGTTGTCANNCTCCGTTCACCGCCCAATCTGCTACCGAGCTGCGAGCAGCCA +GCCTTCAGCATGACGGNNAGCGCGAAGCTGTGGGGCAACGTCAATGTGGTGGCGCGCTGC +GCCAATGAAAAACGTTNNTTGCAGGTGAATGTGCAAGCGACCGGCAATTATGTCGCCGTA +GCCGCGCCCGTCGCGCNNGGCGGAAAATTGACGCCGGCCAACGTCACGCTAAAACGTGGC +AGACTGGATCAGTTACNNCCGCGGACGGTACTGGATATCCGTCAGATTCAGGATGCCGTC +AGTTTGCGCGATCTCGNNCCCGGGCAGCCGGTACAGCTTACGATGATACGTCAGGCCTGG +CGTGTCAAAGCGGGTCNNCGAGTACAGGTCATCGCCAATGGCGAGGGGTTTAGCGTCAAT +GCGGAAGGTCAGGCGANNAATAATGCCGCCGTCGCGCAAAATGCGCGCGTGCGCATGACA +TCGGGTCAAATCGTGANNGGAACCGTCGATTCTGATGGGAATATTCTTATTAACCTATAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_prank_input.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,66 @@ +>1111#5_04506 +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +------------------------------------------------------------ +---------ATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGT +>1234_8#75_04759 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGCGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGT +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_DT104_v1_02853 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTTTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGT +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_SL1344_v2_02736 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTGTGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGT +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_str_D23580_v1_02783 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGT +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_str_DT2_v1_02741 +ATGAGCGAGCAGTTAACGGAC---GTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_query_1.fna Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,252 @@ +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_query_2.fna Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,252 @@ +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_real_data_core_gene_alignment.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,2170 @@ +>real_data_1 +ATGAAAAAATCATTACTCGCTGTTGCTGTGGCAGGGGCTGTTTTGTTGTCATCCGCCGTA +CAGGCGCAGACAACGCCGGAAGGTTATCAATTACAACAGGTGCTGATGATGAGCCGCCAT +AATCTGCGGGCGCCGCTGGCGAATAATGGCAACGTACTGGCGCAGTCGACGCCGAACGCC +TGGCCGGCGTGGGACGTTCCCGGCGGGCAACTGACGACGAAAGGCGGCGTGCTGGAAGTC +TATATGGGACACTACACACGTGAATGGCTGGTCGCGCAGGGGCTGATACCGTCGGGAGAA +TGTCCGGCGCCCGACACGGTATATGCCTATGCGAATAGTTTGCAGCGCACCGTCGCCACC +GCGCAATTTTTCATTACCAGCGCTTTCCCCGGCTGTGATATTCCTGTTCATCATCAGGAA +AAAATGGGCACTATGGACCCTACCTTCAATCCGGTGATTACCGATGATTCCGCCGCGTTC +CGGCAACAGGCCGTACAGGCGATGGAAAAGGCGCGTAGTCAGCTACATCTTGATGAGAGT +TATAAACTGCTTGAGCAGATAACGCATTATCAGGACTCGCCGTCCTGCAAAGAGAAGCAT +CAGTGTTCGCTAATCGACGCGAAAGATACCTTCAGCGCGAACTATCAGCAAGAGCCTGGC +GTGCAGGGGCCGCTGAAAGTAGGGAACTCGCTGGTGGATGCGTTTACCCTGCAATATTAC +GAAGGCTTTCCGATGGATCAGGTCGCTTGGGGCGGGATCCACACCGATCGGCAGTGGAAG +GTGCTGTCAAAACTGAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCCACGGTGGCG +CGCAATGTCGCTGCGCCGCTGGTAAAATATATCGATAAGGTGCTGGTTGCCGAGCGCGTT +AGCGCGCCGAAGGTTACCGTGCTGGTGGGGCATGATTCCAATATCGCGTCGCTGCTGACG +GCGCTGGATTTTAAACCCTATCAGCTCCATGACCAGTATGAGAGAACGCCGATTGGTGGT +CAGCTTGTCTTCCAACGCTGGCATGACGGTAACGCTAACCGGGATTTGATGAAAATCGAG +TATGTCTACCAGAGCGCCCGGCAGTTACGTAATGCGGAAGCGTTAACGCTCAAATCGCCT +GCGCAAAGGGTAACGCTGGAACTGAAAGGATGTCCGGTGGATGCGAACGGCTTCTGTCCG +CTGGATAAGTTCGATAACGTCATGAACACTGCTGCAAAATAGATGGAAAAGAATAATGAA +GTCATTCAGACCCATCCGCTTGTAGGATGGGACATCAGCACCGTCGATAGCTATGATGCG +CTGATGCTGCGTTTACACTACCAGACCCCAAATCGTCCGGAACCGGAAGGGACTGAAGTT +GGTCAAACGCTCTGGTTAACGACAGATGTAGCCAGGCAATTTATTTCAATATTAGAAGCC +GGCATCGCCAAAATAGAATCAGGCGATTACCAGGAAAACGAGTATCGTCACCATTAGATG +GAACTTAAGGATTATTACGCCATTATGGGCGTGAAACCGACGGACGATCTCAAGACGATT +AAGACCGCCTATCGCCGACTGGCCCGCAAGTACCATCCAGATGTCAGCAAAGAACCCGAT +GCCGAAGCCCGTTTCAAAGAGGTTGCTGAAGCATGGGAAGTGCTGAGTGATGAGCAACGG +CGCGCCGAGTATGACCAGTTATGGCAACACCGTAACGATCCACAATTTAATCGCCAGTTC +CAGCAACACGAAGGCCAGCCGTATAACGCCGAAGATTTTGATGATATTTTCTCGTCTATT +TTTGGTCAGCACGGTCGTCATTCGCACCACCGCCACGCCGCACGCGGTCATGATATCGAA +ATTGAAGTGGCGGTATTCCTGGAAGAAACGCTGGAAGAGCACCAGCGTACGATTAGCTAT +TCCGTCCCCGTTTATAACGCGTTCGGCCTGGTGGAGCGGGAAATTCCCAAAACATTGAAT +GTGAAAATCCCGGCTGGCGTCAGCAACGGGCAACGAATCAGACTGAAAGGCCAGGGCACG +CCGGGGGAAAACGGCGGACCTAATGGCGATTTATGGCTCGTTATCCATATTGCCCCGCAT +CCGCTCTTTGATATCGTCAATCAGGATCTGGAAGTCGTCCTTCCGCTTGCCCCATGGGAG +GCGGCGCTCGGCGCTAAGGTGTCTGTGCCAACGCTTAAAGAGCGTATTTTGCTGACCATT +CCCCCCGGCAGCCAGGCAGGTCAGCGGCTGCGTATCAAAGGAAAAGGATTAGCCAGTAAA +AAGCACACTGGCGATCTCTATGCCATCATCAAAATCGTTATGCCGCCGAAACCTGACGAG +AAAACAGCTGCCCTGTGGCAACAACTGGCGGACGCGCAGTCGTCCTTTGACCCACGCCAG +CAATGGGGGAAAGCATAAATGGCTAACATCACTGTCACCTTTACCATCACCGAATTTTGT +TTGCACACCGGCGTGACGGAAGAGGAGCTAAACGAAATCGTCGGACTTGGCGTAATTGAG +CCTTACGAAGACGATAACGCCGACTGGCAATTCGACGATCGCGCAGCGAGCGTGGTACAA +CGCGCGCTACGCTTACGCGAGGAGCTGGCGCTCGACTGGCCAGGGATCGCGGTCGCGTTA +ACGCTGCTGGAAGAGAATTCACGGCTGCGCGAAGAAAACCGGTTACTGCTGCAACGCCTT +TCTCGCTTTATCTCGCATCCCTAAATGTCATCTTGTTGGAGATTTACGGATTCGCTAACA +AGCCTATGGCATACTGCGTTGATGAAGATTTTATTGATTGAAGATAACCAGAAAACCATT +GAGTGGGTACGTCAGGGACTCACGGAGGCAGGCTATGTGGTTGATTATGCCTGTGATGGA +CGAGACGGATTACACCTAGCCCTTCAGGAACATTATTCATTGATTATTCTTGATATTATG +CTGCCGGGGCTTGATGGATGGCAGGTTTTACGCGCGTTGCGCACTGCATATCAGCCCCCT +GTTATTTGCCTGACGGCGCGCGACTCGGTTGAGGATCGCGTCAAAGGTCTTGAGGCGGGC +GCTAATGATTACCTTGTTAAGCCTTTTTCCTTCGCCGAACTGCTGGCCCGGGTGAGAGCT +CAACTCAGACAGCATGTCCCGGTCTTTACCCGACTGACGATCAATGGTCTGGACATGGAT +GCCACAAAGCAATCGGTGTTACGAAATGGCAAACCGATTTCCCTGACCCGCAAAGAATTC +CTGCTCCTCTGGTTACTGGCGTCCCGGGCAGGGGAAATCGTGCCCCGAACCGCGATCGCC +AGCGAAGTTTGGGGAATTAACTTTGATAGTGAAACCAACACCGTTGATGTCGCGATTCGT +CGGCTGCGCGCCAAAGTAGACGATCCATTTGAAAAGAAGCTCATTATGACCGTCCAGGGG +ATGGGTTATCGATTACAGGCGGAAACGTCGCAGAATGGTTAAATGAAAAACAAATTGTTA +TTTATGATGTTGACAATACTGGGTGCGCCTGGGATTGCAACCGCGACAAATTATGATCTG +GCTCGTTCAGAGTATAATTTTGCGGTAAATGAATTAAGCAAGTCTTCATTTAATCAGGCG +GCCATTATTGGTCAAGTCGGCACGGATAATAGTGCCAGAGTACGCCAGGAAGGATCAAAA +CTATTGTCCGTTATTTCACAAGAAGGAGAAAATAATCGGGCGAAAGTCGACCAGGCAGGG +AATTATAACTTTGCGTATATTGAGCAAACGGGCAATGCCAACGATGCCAGTATATCGCAA +AGCGCTTACGGTAATAGTGCGGCTATTATCCAGAAAGGTTCTGGAAATAAGGCCAATATT +ACCCAGTACGGTACGCAGAAAACAGCAGTTGTAGTGCAGAAACAGTCGCATATGGCTATT +CGCGTCACCCAACGCTAAATGCATACTTTATTGCTCCTTGCCGCACTTTCAAATCAGATT +ACGTTTACCACGACTCAGCAAGGCGATATTTACACGGTGATCCCTCAGGTCACATTAAAC +GAACCCTGCGTCTGTCTGGTGCAAATTCTCTCTGTGCGCGACGGCGTCGGGGGACAAAGC +CATACACAGCAAAAACAAACGCTATCTTTACCTGCTAATCAACCGATTGAGTTGTCTCGT +CTTAGTGTAAATATATCTTCAGAGGACTCGGTTAAAATTATTGTTACTGTTTCGGACGGA +CAATCACTGCATTTATCACAACAATGGCCGCCTTCTGCACAGTAGATGTTTAATGAAGTC +CATAGTAGTCATGGTCACACACTATTGTTGATCACAAAGCCATCTCTGCAAGCTACGGCA +TTATTGCAACATTTAAAGCAATCGCTGGCCATAACCGGAAAACTGCATAATATTCAACGT +TCTCTGGAAGATATCTCAGCCGGTTGCATTGTTTTAATGGATATGATGGAAGCGGATAAG +AAGCTTATCCACTATTGGCAGGATAATTTAAGCCGCAAAAACAATAATATAAAAACATTA +TTGTTAAATACCCCTGACGATTATCCCTACCGTGAAATTGAAAACTGGCCTCATATTAAC +GGCGTGTTTTACGCCACTGAAGACCAGGAACACGTGGTCAGCGGATTACAGGGTATTCTG +CGGGGCGAATGCTATTTTTCACAAAAATTAGCCAGTTACCTGATTACACACTCAGGAAAT +TACCGCTACAACAGCACCGAGTCCGCATTACTCACTCATCGCGAAAAAGAGATCCTCAAT +AAGTTACGTATTGGTGCCTCTAATAATGAAATCGCCAGGTCGCTATTTATCAGCGAGAAT +ACGGTTAAGACACATCTTTATAATCTTTTCAAAAAGATAGCTGTCAAAAATCGCACCCAG +GCAGTTTCATGAATGAAACGCTATCTGACCTGGATTGTAGCAGCAGAGTTACTGTTCGCT +ACCGGAAACCTGCATGCCAATGAAGTTGAAGTCGAGGTTCCCGGATTGTTAACCGACCAT +ACCGTCTCTTCGATAGGACATGAATTCTATCGTGCATTCAGCGACAAATGGGAAAGCGAA +TACACCGGCAATCTGACCATTAATGAAAGACCCAGTGCGCGTTGGGGAAGCTGGATCACC +ATAACGGTAAATCAGGACGTTATTTTCCAGACCTTTTTATTTCCAATGAAAAGAGACTTC +GAGAAAACCGTCGTCTTCGCATTAGCGCAAACAGAGGAAGCATTAAATCGCCGACAAATA +GATCAAACGCTATTAAGTACGAGTGATTTAGCGCGTGATGAATTCTAAATGCGTGTTAAA +CATGCAGTAGTGCTGCTCATGCTTTTTTCGCCATTAACCTGGGCTGGAAATATGACGTTC +CAGTTCCGTAATCCTAACTTTGGTGGAAACCCCAATAACGGTTCCTTTTTATTGAATAGC +GCCCAGGCGCAAAATTCATATAAAGACCCCGCTTATGATAACGATTTTGGTATCGAGACC +CCCTCAGCGTTGGATAACTTTACGCAGGCTATTCAATCGCAAATTCTGGGCGGCTTGTTG +ACCAATATTAATACCGGAAAACCAGGACGTATGGTGACCAATGATTTTATTATCGATATC +GCTAATCGCGACGGACAGCTCCAGCTCAACGTCACGGACAGAAAAACGGGAAGAACCTCG +ACCATCGAAGTGTCAGGTTTACAAACTCAGTCAACCGATTTTTAAATGCCGCGCTTACTT +ATTTTGGTTGCCGTTTTATTGTTGAGCGGATGCTTAACTGCCCCGCCGAAACAAGCTGCG +AAACCGACATTAATGCCCCGCGCACAAAGTTACAAAGATTTGACGCACTTACCTGCTCCC +ACCGGTAAGATCTTTGTTTCGGTATATAACATTCAGGATGAAACGGGCCAATTTAAACCT +TACCCGGCAAGTAACTTTTCCACGGCTGTGCCGCAGAGCGCCACCGCTATGTTGGTCACC +GCGCTGAAAGATTCGCGCTGGTTTATCCCACTAGAACGACAAGGCTTACAGAATCTTTTG +AATGAACGGAAAATTATTCGCGCAGCCCAGGAAAACGGCACCGTGGCGATGAATAACCGT +ATCCCGCTTCAGTCGTTGACGGCGGCAAATATTATGGTGGAAGGTTCTATTATTGGTTAT +GAAAGTAACGTCAAATCCGGCGGGGTCGGCGCAAGATATTTCGGTATTGGCGCCGATACG +CAGTATCAGCTGGATCAGATTGCTGTCAACCTGCGCGTGGTTAACGTCAGTACGGGCGAG +ATCCTTTCTTCGGTGAACACCAGTAAAACGATCCTTTCCTATGAAGTACAGGCAGGCGTG +TTCCGTTTTATTGATTACCAGCGCTTACTGGAAGGCGAAATCGGCTATACCTCGAACGAA +CCGGTGATGCTGTGTCTGATGTCAGCCATTGAAACCGGCGTTATCTTCCTCATTAATGAT +GGTATCGATCGCGGACTGTGGGATTTGCAGAATAAAGCGGACAGGCAAAATGATATTCTG +GTGAAATACCGTGAGCTGTCAGTACCGCCAGAATCCTGAATGTCTATTGCCGTAAATATG +AATGACCCGACCAACACGGGCGTCAAAACGACGACCGGCAGCGGGTCGATGACCGGAAGC +AACGCTGCCGATCTGCAAAGCAGTTTCCTGACCTTACTGGTCGCGCAATTGAAGAACCAG +GACCCGACTAACCCATTACAAAATAATGAGTTAACGACACAGTTGGCGCAAATCAGTACC +GTGAGCGGCATTGAAAAACTGAATACGACGCTGGGGGCTATTTCCGGGCAAATCGATAAT +AGTCAGTCCCTACAGGCGACCACGCTGATTGGACATGGCGTTATGGTGCCTGGCACCACA +ATTCTGGCGGGTAAAGGCGCGGAAGAAGGGGCCGTGACGTCCACGACGCCGTTTGGCGTG +GAATTGCAACAGCCTGCGGACAAAGTGACGGCAACCATTACCGATAAAGATGGCCGGGTG +GTACGGACGCTGGAGATCGGTGAGTTGCGAGCCGGGGTACACACCTTTACCTGGGATGGT +AAGCAAACGGACGGAACAACGGTACCGAATGGTTCTTACAACATTGCGATTACCGCCAGC +AATGGCGGGACGCAACTGGTGGCGCAGCCGCTGCAATTCGCTCTGGTACAGGGCGTGACG +AAGGGCAGTAACGGCAACCTGTTGGATCTGGGTACCTACGGCACCACCACACTCGACGAA +GTTCGGCAAATAATCTAAATGTCTTTTTCTCAAGCGGTTAGCGGCCTGAACGCTGCGGCC +ACCAACCTTGATGTTATCGGTAATAACATCGCCAACTCCGCCACCTATGGCTTTAAGTCC +GGTACGGCATCATTTGCCGATATGTTCGCCGGTTCCAAAGTGGGGTTGGGCGTAAAAGTG +GCGGGGATTACCCAGGATTTTACCGACGGTACGACAACGAACACCGGGCGCGGGCTGGAT +GTCGCGATTAGCCAGAACGGTTTTTTCCGCCTGGTAGACAGCAACGGTTCCGTGTTCTAT +AGCCGCAACGGCCAGTTCAAACTGGACGAGAACCGTAACCTGGTCAATATGCAGGGGATG +CAGTTGACCGGCTATCCGGCCACCGGTACGCCGCCGACCATTCAGCAGGGGGCGAATCCT +GCGCCGATCACCATTCCGAACACGCTGATGGCGGCGAAATCGACCACCACCGCGTCAATG +CAGATCAACCTGAACTCAACGGACCCTGTACCGTCTAAAACGCCCTTTAGCGTGAGTGAT +GCGGATTCGTATAACAAAAAAGGCACCGTCACCGTTTATGACAGCCAGGGTAATGCCCAT +GACATGAACGTCTATTTTGTGAAAACCAAAGATAATGAATGGGCTGTGTACACCCATGAC +AGCAGCGATCCTGCAGCCACTGCGCCAACAACGGCGTCCACTACGCTGAAATTCAATGAA +AACGGGATTCTGGAGTCTGGCGGTACGGTGAACATCACCACCGGTACGATTAATGGCGCG +ACAGCGGCCACCTTCTCCCTCAGCTTCCTTAACTCCATGCAGCAGAACACCGGGGCTAAT +AACATCGTCGCCACCAATCAAAACGGCTATAAGCCTGGCGACCTGGTGAGCTACCAGATT +AACAATGATGGCACCGTGGTTGGCAACTACTCCAACGAGCAGGAGCAGGTGCTGGGGCAG +ATTGTGCTGGCTAACTTCGCCAACAACGAAGGTCTGGCATCCCAGGGCGATAACGTCTGG +GCGGCGACGCAGGCCTCCGGGGTAGCGCTGCTGGGGACTGCCGGTTCCGGCAACTTCGGT +AAGCTGACGAACGGCGCGCTGGAAGCCTCTAACGTGGATTTGAGTAAAGAGCTGGTGAAT +ATGATCGTCGCGCAGCGTAACTACCAGTCGAATGCGCAGACCATCAAAACCCAGGACCAG +ATCCTCAATACGCTGGTTAACCTGCGCTAAATGGATCACGCAATTTATACCGCCATGGGG +GCGGCCAGCCAGACGCTTAACCAGCAGGCGGTAACGGCCAGCAACCTGGCTAATGCCTCA +ACGCCGGGCTTTCGCGCGCAGCTTAACGCGCTACGCGCGGTGCCCGTTGATGGCCTCTCT +TTAGCGACGCGCACGTTGGTTACGGCGTCGACGCCGGGGGCGGATATGACCCAGGGTCAG +TTGGACTACACTTCCCGCCCGCTGGATGTTGCGTTACAGCAGGACGGCTGGCTGGTGGTG +CAAGCGGCGGATGGCGCTGAAGGATATACCCGTAACGGGAATATCCAGGTGGGCCCGACC +GGGCAGTTAACCATTCAGGGACATCCGGTTATCGGCGAAGGCGGCCCGATTACCGTTCCG +GAAGGGTCGGAAATCACCATTGCGGCAGACGGCACGATCTCCGCGCTCAATCCCGGCGAC +CCGCCAAACACGGTGGCGCCCGTTGGGCGGCTGAAGCTGGTCAAAGCGGAAGGCAATGAG +GTGCAGCGGAGCGATGACGGTTTATTCCGCCTTACCGCCGAGGCACAGGCTGAACGCGGG +GCGGTACTGGCCGCCGACCCGTCAATTCGCATTATGTCGGGCGTGCTGGAGGGCAGTAAC +GTCAAGCCGGTTGAAGCCATGACCGACATGATCGCCAACGCACGTCGTTTTGAAATGCAG +ATGAAGGTTATCACCAGCGTAGATGAGAACGAAGGGCGAGCTAACCAACTGCTGTCGATG +AGTTAAATGATCAGTTCATTATGGATCGCCAAAACCGGTCTGGACGCGCAGCAAACCAAT +ATGGATGTGATTGCCAATAACCTGGCAAACGTCAGCACCAATGGTTTTAAGCGTCAGCGC +GCGGTATTTGAAGATCTGTTGTATCAGACCATCCGCCAGCCGGGCGCGCAGTCGTCCGAG +CAGACGACGCTGCCTTCCGGGCTGCAAATCGGTACCGGCGTGCGTCCGGTCGCCACGGAG +CGCCTGCACAGTCAGGGGAACCTGTCGCAGACCAACAACAGTAAAGATGTGGCGATTAAA +GGGCAGGGCTTTTTCCAGGTCATGCTGCCGGACGGTACGTCTGCCTATACCCGCGACGGC +TCTTTCCAGGTGGATCAGAATGGTCAACTGGTGACGGCGGGCGGTTTTCAGGTGCAGCCG +GCAATCACCATTCCGGCCAACGCGTTAAGCATCACGATTGGCCGCGACGGCGTGGTCAGC +GTTACCCAGCAAGGGCAGGCCGCGCCGGTTCAGGTCGGGCAGCTTAACCTGACCACCTTT +ATGAACGACACCGGTCTGGAAAGCATCGGCGAGAACCTCTATATCGAAACGCAATCGTCC +GGCGCGCCGAACGAAAGCACGCCGGGGCTCAACGGCGCGGGGTTGTTGTATCAAGGGTAT +GTCGAAACGTCGAACGTTAACGTGGCGGAAGAGCTGGTGAACATGATTCAGGTTCAACGC +GCCTATGAAATTAACAGTAAAGCAGTATCGACGACCGATCAGATGCTGCAGAAACTGACG +CAACTCTAAATGGCCCTGATGGTCGCGACGCTGACAGGATGCGCCTGGATACCCGCTAAA +CCGCTCGTGCAGGGGGCGACCACGGCGCAGCCGATACCTGGCCCGGTACCGGTGGCGAAT +GGCTCCATATTTCAGTCTGCGCAGCCGATTAATTATGGCTATCAGCCGCTTTTTGAAGAT +CGTCGACCGCGTAATATCGGCGATACGCTCACGATTGTGTTACAGGAAAACGTCAGCGCC +AGTAAAAGCTCGTCGGCAAATGCCAGCCGCGACGGCAAAACCAGCTTTGGTTTTGATACG +GTACCGCGTTATCTGCAGGGATTATTCGGTAATTCCCGCGCGGATATGGAGGCCTCCGGC +GGCAACTCTTTTAATGGTAAAGGCGGCGCGAATGCCAGCAATACCTTTAGCGGCACGCTG +ACCGTGACCGTCGATCAGGTTCTGGCCAATGGCAATTTACACGTCGTGGGGGAAAAACAG +ATCGCGATTAATCAGGGAACGGAATTCATCCGCTTCTCCGGCGTGGTAAATCCACGCACC +ATCAGCGGTAGCAACTCTGTTCCCTCGACACAGGTGGCGGATGCGCGGATTGAATATGTC +GGGAACGGCTATATTAACGAAGCGCAAAATATGGGCTGGCTGCAACGTTTCTTCCTTAAT +TTGTCGCCGATGTAAGTGTTTAAAGCTCTTGCAGGAATCGTTCTGGCACTGGTTGCCACT +CTGGCGCACGCCGAGCGTATCCGGGATCTGACCAGTGTCCAGGGAGTACGGGAAAACTCG +CTGATCGGCTACGGGCTGGTGGTCGGGCTGGACGGTACGGGCGACCAGACGACCCAGACG +CCATTTACCACCCAGACGCTGAATAACATGCTGTCACAACTGGGGATTACGGTCCCCACC +GGCACCAATATGCAGTTGAAAAACGTGGCGGCGGTGATGGTGACGGCGTCGTATCCGCCT +TTTGCGCGACAGGGACAAACGATCGATGTCGTCGTTTCCTCAATGGGGAACGCTAAAAGT +CTGCGTGGCGGGACGTTATTAATGACGCCGTTAAAAGGGGTGGACAGCCAGGTGTATGCT +CTGGCGCAGGGCAATATTCTGGTCGGCGGCGCGGGCGCTTCCGCAGGCGGCAGTAGCGTG +CAGGTTAACCAGCTTAATGGCGGGCGCATCACTAATGGCGCGATTATCGAACGCGAGTTG +CCGACTCAGTTCGGCGCTGGCAACACCATTAATCTGCAATTGAACGACGAAGATTTTACG +ATGGCGCAGCAAATTACCGACGCCATCAACCGCGCCCGCGGTTACGGCAGCGCCACTGCG +CTTGATGCGCGAACGGTACAGGTACGCGTGCCCAGCGGCAACAGCTCGCAGGTGCGTTTT +CTGGCGGACATTCAAAATATGGAAGTCAACGTGACGCCGCAGGATGCAAAAGTCGTGATC +AACTCGCGTACCGGTTCGGTGGTCATGAATCGGGAAGTCACGCTGGATAGCTGCGCTGTG +GCGCAGGGCAATTTGTCAGTGACAGTCAATCGCCAACTCAACGTCAACCAGCCGAATACG +CCATTTGGCGGCGGGCAGACCGTGGTGACGCCACAGACTCAGATAGATTTGCGTCAGAGC +GGCGGATCGCTACAGAGCGTGCGTTCCAGCGCCAATCTGAACAGCGTAGTGCGCGCGCTG +AATGCGCTTGGCGCGACGCCGATGGATCTGATGTCGATTTTGCAGTCCATGCAGAGCGCG +GGCTGTCTACGCGCCAAACTGGAAATCATCTGAATGATCGGAGACGGTAAATTGCTGGCC +AGCGCGGCCTGGGATGCGCAATCTCTGAACGAACTGAAAGCGAAAGCGGGCCAGGACCCG +GCGGCGAATATCCGTCCTGTGGCCCGTCAGGTGGAAGGGATGTTTGTGCAGATGATGCTG +AAAAGTATGCGCGAGGCTTTACCCAAAGATGGTTTATTCAGCAGCGATCAGACGCGTCTG +TATACCAGCATGTATGACCAGCAGATCGCCCAGCAGATGACCGCCGGTAAGGGATTGGGG +CTGGCGGATATGATGGTTAAACAGATGACGGGCGGGCAGACGATGCCTGCAGATGATGCG +CCGCAAGTACCGCTTAAATTCTCCCTGGAGACGGTAAACAGCTATCAAAATCAGGCGCTG +ACCCAACTGGTGCGCAAAGCCATACCGAAAACGCCGGACAGCAGCGATGCGCCGCTCTCC +GGCGACAGTAAAGACTTTCTGGCCCGGCTTTCGCTCCCGGCGAGGCTGGCCAGCGAACAA +AGCGGGGTGCCGCATCATCTGATTCTGGCGCAGGCGGCGCTGGAGTCCGGCTGGGGGCAG +CGGCAAATCCTGCGGGAGAATGGCGAACCCAGCTATAACGTATTTGGCGTGAAAGCGACC +GCCAGTTGGAAAGGGCCGGTGACGGAAATCACCACCACTGAATACGAAAATGGCGAAGCG +AAAAAAGTGAAAGCGAAATTCCGCGTCTATAGCTCGTATCTGGAGGCGTTATCGGATTAT +GTCGCGCTGTTAACGCGTAACCCACGCTACGCTGCCGTGACCACTGCCGCCACGGCAGAG +CAGGGCGCAGTGGCTCTGCAAAACGCCGGATACGCCACTGACCCGAATTACGCGCGTAAA +TTGGCCAGCATGATTCAGCAGTTGAAAGCGATGAGTGAAAAGGTCAGCAAAACCTACAGC +GCGAATCTCGACAATCTCTTTTAAATGTCCAGCTTGATTAATCACGCCATGAGCGGACTT +AACGCCGCGCAGGCCGCGTTAAATACGGTCAGTAATAACATCAACAATTATAACGTTGCG +GGTTATACCCGGCAGACAACTATTCTGGCGCAGGCAAACAGTACGTTAGGGGCTGGCGGC +TGGATAGGTAATGGCGTTTACGTTTCAGGCGTACAGCGCGAATATGATGCGTTTATCACT +AATCAGCTACGCGGCGCGCAAAACCAGAGCAGCGGCTTAACCACGCGCTATGAACAAATG +TCGAAAATCGACAACCTGCTGGCCGATAAATCCAGCTCACTGTCTGGCTCGCTGCAGAGT +TTTTTTACCAGCCTGCAAACGTTAGTCAGTAATGCGGAAGATCCTGCGGCGCGTCAGGCG +CTGATTGGTAAAGCGGAAGGGCTGGTAAACCAGTTCAAAACCACCGATCAGTATCTGCGC +GATCAGGATAAACAGGTCAATATCGCGATTGGCTCCAGCGTGGCGCAAATCAACAATTAC +GCGAAGCAGATAGCTAACCTGAACGATCAAATCTCCCGTATGACGGGCGTAGGCGCGGGC +GCATCGCCGAACGACCTGCTCGATCAACGTGATCAGTTGGTTAGCGAGCTTAACAAGATC +GTTGGCGTCGAGGTGAGTGTACAGGACGGCGGCACCTATAACCTGACGATGGCCAATGGC +TATACGCTGGTGCAGGGGTCGACGGCGCGTCAGTTGGCGGCGGTTCCCTCCAGCGCCGAC +CCGACGCGAACGACTGTCGCTTATGTCGATGAGGCCGCCGGTAACATCGAAATTCCGGAA +AAGTTGCTGAACACCGGTTCGCTCGGCGGGCTACTGACGTTCCGTTCTCAGGATCTGGAT +CAGACTCGTAATACGCTGGGCCAGTTGGCGTTGGCGTTTGCCGATGCGTTTAACGCGCAG +CATACCAAAGGTTATGACGCCGACGGCAATAAAGGGAAAGACTTCTTTAGCATTGGCTCG +CCGGTGGTATATAGCAACAGTAATAATGCCGATAAAACGGTATCGCTAACCGCTAAGGTG +GTCGACAGCACGAAGGTTCAGGCGACGGATTATAAGATTGTTTTTGACGGTACAGACTGG +CAGGTTACTCGCACTGCGGATAACACCACCTTCACGGCAACAAAAGATGCTGACGGAAAA +CTGGAGATTGACGGTCTGAAAGTGACGGTAGGGACTGGCGCACAGAAAAACGACAGTTTT +CTTCTCAAGCCGGTCAGCAATGCTATCGTCGACATGAACGTTAAAGTGACAAATGAAGCC +GAGATTGCGATGGCGTCTGAGTCAAAACTCGATCCTGATGTGGATACCGGCGACAGCGAT +AACCGCAATGGTCAGGCATTGCTGGACTTACAAAACAGCAATGTAGTGGGCGGCAACAAA +ACCTTTAACGATGCTTACGCCACGTTGGTCAGCGATGTGGGTAACAAAACGTCAACGCTG +AAAACCAGCAGCACCACGCAGGCGAATGTGGTTAAACAGCTTTATAAACAGCAACAGTCG +GTTTCCGGCGTTAACCTCGACGAAGAGTACGGCAATTTGCAGCGTTATCAGCAGTATTAT +CTGGCGAATGCGCAAGTATTGCAGACCGCGAATGCGCTGTTTGATGCGTTATTGAATATT +CGCTAAATGCGTATCAGTACCCAGATGATGTACGAACAAAATATGAGCGGCATCACTAAT +TCTCAGGCCGAATGGATGAAGCTGGGCGAGCAGATGTCTACCGGTAAGCGCGTTACCAAC +CCATCTGACGATCCGATCGCCGCGTCGCAGGCGGTAGTACTCTTTCAGGCGCAGGCGCAG +AATAGCCAGTACGCCCTGGCGCGTACGTTTGCCACCCAAAAAGTGTCGCTGGAAGAAAGC +GTACTCAGTCAGGTGACGACGGCGATTCAAACCGCGCAGGAAAAAATCGTCTATGCCGGA +AACGGCACGTTAAGCGACGATGACCGCGCGTCGCTGGCGACGGATTTACAGGGGATCCGC +GATCAGCTGATGAACCTGGCAAACAGCACTGACGGCAATGGTCGCTATATCTTTGCCGGG +TATAAAACGGAAGCGGCGCCATTCGACCAGGCGACAGGTGGTTATCATGGCGGCGAGAAA +AGTGTTACCCAGCAGGTGGATTCCGCACGCACGATGGTAATTGGCCATACGGGAGCGCAA +ATTTTTAATAGCATCACCAGCAATGCGGTGCCGGAACCGGATGGCTCGGACTCCGAAAAG +AATCTGTTTGTCATGCTCGATACGGCAATTGCCGCGCTCAAGACCCCGGTGGAAGGCAAT +GACGTGGAAAAAGAAAAAGCCGCTGCCGCCATTGATAAAACCAATCGCGGCTTAAAAAAT +TCGCTTAATAACGTCCTGACCGTTCGTGCGGAACTGGGAACGCAACTGAGCGAACTCAGT +ACGCTGGATTCACTGGGAAGCGACCGTGCGCTGGGACAGAAGCTACAGATGAGCAACCTG +GTAGATGTGGACTGGAACTCGGTCATTTCCTCCTACGTCATGCAACAGGCGGCATTACAG +GCGTCCTATAAAACGTTTACCGACATGCAGGGAATGTCGCTTTTCCAGTTGAACCGGTAA +ATGGAGATAATTTTTTATCACCCGACATTTAACGCCGCCTGGTGGGTAAATGCGCTGGAG +AAGGCTCTCCCACATGCGCGCGTTCGTGAATGGAAGGTCGGTGATAACAACCCCGCAGAC +TATGCGCTTGTATGGCAGCCCCCGGTTGAAATGCTGGCCGGAAGACGCTTAAAAGCCGTC +TTTGTGCTGGGCGCGGGGGTGGATGCAATTCTGAGTAAATTAAATGCGCATCCGGAAATG +CTGGACGCCTCCATTCCTCTATTCCGTCTGGAAGATACCGGAATGGGCCTGCAAATGCAG +GAGTATGCCGCCAGCCAGGTATTACACTGGTTCCGTCGTTTCGATGATTATCAGGCGCTG +AAAAATCAGGCGCTATGGAAACCGTTGCCGGAATATACCCGCGAAGAGTTTAGCGTCGGT +ATCATAGGCGCAGGGGTACTGGGCGCAAAAGTGGCAGAAAGTCTACAGGCGTGGGGGTTC +CCGTTACGTTGCTGGAGTCGTAGCCGCAAATCCTGGCCTGGCGTGGAAAGTTATGTAGGG +CGTGAAGAACTGCGCGCTTTCCTGAACCAGACGCGGGTGCTGATTAATCTGCTGCCGAAT +ACGGCCCAAACGGTAGGAATTATTAATAGCGAATTGTTGGATCAATTGCCGGATGGCGCT +TACGTGCTGAATCTCGCGCGCGGCGTTCATGTTCAGGAGGCGGATCTGCTGGCTGCGCTT +GATAGCGGTAAGCTAAAAGGCGCGATGTTGGATGTCTTTAGCCAGGAACCGTTACCGCAG +GAAAGTCCATTATGGCGCCATCCGCGAGTCGCCATGACGCCGCACATTGCGGCAGTCACC +CGTCCGGCGGAAGCCATCGATTATATTAGCCGCACCATTACCCAGCTGGAGAAGGGAGAG +CCGGTGACGGGGCAGGTGGATCGGGCGAGAGGATATTGAATGTCCGTAATCAAGAAAAAT +ATCCCTGCCATAGGCCTGTGTATCTGCGCTTTTTTTATCCATTCTGCGGTAGGGCAACAA +ACGGTACAGGGCGGCGTTATCCATTTTCGCGGCGCGATTGTTGAGCCACTGTGCGATATT +TCTACTCACGCCGAAAATATTGATTTAACCTGCCTACGCGAAGGTAAAAAGCAAATGCAC +CGGATAGACCTTCGGCAGGCATCTGGATTACCGCAGGATATTCAGTCCATTGCGACGGTA +CGGCTGCATTATCTCGATGCGCAAAAAAGCCTGGCGGTGATGAATATTGAGTACCGTTAA +ATGGCAAACCATCGTGGCGGTTCCGGTAATTTTGCGGAAGACCGCGAAAGAGCATCAGAA +GCAGGTCGTAAAAGTGGTCAGCACAGCGGGGGCAATTTTAAGAATGACCCGCAGCGTGCA +TCCGAAGCAGGCAAAAAAGGGGGCAAAAGCAGTAACCGTAATCGCTAGATGGTAATGTCC +GCACCAGGACACATTGTTTACAGTAGTTACAACACCCTGTACGGACATTCTCTCTCCGGT +GGTGGTCTTGTCATCTTAAAAGCTCTCATCATTTCCCTTACTGTCCATACCCATGACGCC +ATATGTGGTGCGCGTAGCCGTGTGTGGCGTCGTTTCAAAAAGCAAGCTAAGGCTTACAAG +GAAGCCAACCCTCAGATGTGTGTGCGCATAATCGCGTTCAAGAGAACGCGGGTGATGTAT +ACCTACAACTCAAGGTGCTATCCATGGGAAGACAAAAAGCAGTGAATGAAACGAATTTTC +CTTACCTGCGCGGCGTTGTTGTTCAGCAGTCAGGCGTTGGCCGATGAGTGTGCCAGCGCC +AGTACGCAGCTGGAAATGAATCGCTGCGCCGCCGCGCAATACCAGGCGGCAGATAAAAAG +CTGAACGAAACCTATCAAAGCGCGATTAAGCGTGCGCAACCGCCGCAGCGTGAGCTATTG +CAAAAAGCGCAGGTGGCATGGATTGCCCTGCGCGACGCCGATTGCGCGCTGATTCGCTCA +GGTACGGAGGGCGGCAGCGTTCAACCCATGATCGCCAGCCAGTGCCTGACCGATAAAACG +AACGAACGCGAAGCGTTTTTAGCCTCGCTGCTGCAATGTGAAGAGGGTGATTTGAGCTGC +CCACTGCCGCCAGCCGGTTAAGTGCGTATATTCGCGGTGAGCATAATGGTGATTACCCTG +AGCGGCTGCGGCAGTATTATCAGCAGAACGATCCCCGGACAAGGACACGGCAACCAGTAT +TACCCTGGCGTGCAGTGGGATATGCGTGATTCCGCATGGCGCTATATCACTATCCTCGAT +CTGCCCTTCTCACTGATCTTCGATACACTGCTACTGCCGCTCGATATTCACCACGGGCCT +TATGAGTAAATGTGCCAACGTGCGATCGCCAATATTGATATCAGCAAAGAGTATGACGAA +AGCATGGGCAGTAACGATGTGCATTATCAGTCGTTTGCTCGTATGGCGGATTTCTTTGGT +CGTGATATGCAGGCGCATCGCCACGACCAGTTTTTTCAAATGCACTTTCTTGATACCGGG +CAGATTGAGCTACAGCTCGACGATCATCGCTATTCGGTGCAGGCGCCGCTATTTGTGCTA +ACGCCGCCCTCGGTGCCGCATGCTTTTATTACCGAATCGGATAGCGATGGTCATGTTCTG +ACGGTACGCGAAGAGCTGGTTTGGCCGCTGCTGGAAGTGCTTTATCCCGGCACCAGAGAG +GCCTTCGGCCTGCCGGGAATCTGCCTGTCGCTGGCGGATAAACTCAACGAGCTGGCGGCG +CTCAAACATTACTGGCAGCTAATTGAGCGGGAGTCCACGGAACAACTGGCTGGCTGCGAA +CATACCTTGGTACTACTGGCGCAGGCGGTATTTACCTTGCTGTTGCGTAATGCGAAGCTG +GACGATCATGCCGCAACCGGGATGCGCGGTGAACTGAAACTTTTTCAGCGCTTTACCCTG +TTAATTGACAACCACTTCCATCAGCACTGGACGGTGCCCGATTATGCCTGTGAGTTGCAT +ATTACCGAATCTCGTTTGACCGATATTTGCCGACGTTTTGCTAATCGCCCGCCTAAACGC +CTGATTTTTGATCGGCAATTACGCGAGGCGAAACGACTGCTGCTTTTTTCCGACAATGCT +GTCAACGAGATCGCCTGGCAATTAGGTTTTAAAGATCCGGCTTATTTCGCCCGTTTCTTT +AATCGCCTTGCTGGCTGTTCTCCTTCGCAGTTTCGCCAACGTGAAGTTCCTTCTTTTCTC +AACTAAATGGGACGCACACCGGATTACAAAGCCGCCTTTGGCTGCGCTCTGGGCGCTAAC +CCAGCCTTCTACGGCCAGTTTGAGCAGAACGCCCGTAACTGGTACACCCGTATTCAGGAG +ACCGGCCTGTACTTTAACCATGCAATCGTCAACCCGCCCATTGACCGCCACAAACCTGCC +GACGAAGTGAAAGACGTCTATATCAAGCTGGAGAAAGAGACGGACGCCGGGATTATTGTC +AGCGGGGCGAAAGTTGTCGCCACTAACTCCGCCCTGACTCACTACAACATGATTGGTTTC +GGCTCAGCCCAGGTGATGGGCGAAAACCCGGATTTTGCTCTGATGTTTGTCGCGCCAATG +GATGCCGAAGGCGTAAAACTTATTTCGCGCGCCTCGTATGAAATGGTCGCGGGCGCGACG +GGCTCGCCGTTTGATTATCCCCTCTCCAGCCGTTTTGATGAAAACGATGCCATTCTGGTG +ATGGACAAGGTGCTGATCCCGTGGGAAAACGTATTAATTTACCGTGATTTCGATCGTTGT +CGTCGCTGGACGATGGAAGGCGGCTTTGCCCGTATGTATCCACTGCAAGCCTGTGTTCGT +CTGGCGGTAAAACTTGATTTCATTACCGCGCTGCTGAAAAAATCGCTCGAATGTACGGGT +ACCGTAGAGTTCCGGGGCGTGCAGGCCGATCTCGGCGAAGTCGTGGCCTGGCGCAATATG +TTCTGGGCATTGAGCGATTCTATGTGTTCTGAAGCAACCCCGTGGGTAAACGGCGCCTGG +CTACCGGACCACGCCGCGCTGCAAACCTATCGTGTGATGGCCCCAATGGCCTACGCGAAA +ATTAAAAATATTATTGAACGTAACGTTACCAGCGGCCTGATTTACCTGCCTTCCAGCGCC +CGCGATCTGAATAATCCGCAAATCGACCAGTACCTGGCGAAATACGTACGCGGCTCTAAC +GGAATGGACCATGTTGAACGTATCAAAATTCTTAAATTGATGTGGGATGCCATCGGCAGC +GAGTTTGGCGGTCGCCATGAGCTGTACGAGATTAACTACTCGGGCAGCCAGGATGAAATT +CGTCTGCAGTGTCTGCGTCAGGCCCAGAGCTCCGGCAATATGGATAAGATGATGGCAATG +GTCGATCGCTGCCTCTCCGAATACGATCAGAATGGCTGGACGGTTTCGCATTTGCACAAT +AACGACGACATCAATCAACTGGATAAGCTGCTGAAATAAATGCAAGTAGATGAACAACGT +CTGCGTTTTCGCGATGCGATGGCAAGTCTGGCGGCAGCGGTCAACATCGTAACCACGGCG +GGTCACGCCGGACGCTGCGGTATCACCGCAACAGCGGTTTGCTCAGTCACTGATACGCCG +CCCTCCGTGATGGTATGTATTAATGCCAATAGCGCCATGAACCCCGTTTTTCAGGGCAAC +GGCAGGCTGTGCATTAATGTACTTAACCATGAGCAGGAGCTGATGGCGCGCCACTTTGCC +GGTATGACGGGGATGGCGATGGAGGAGCGTTTTCACCAGCCATGTTGGCAAAACGGGCCG +CTGGGCCAGCCGGTACTTAACGGCGCGCTGGCCAGTCTTGAAGGCGAGATCAGCGAGGTA +CAAACCATTGGCACGCATCTGGTGTATCTGGTGGCGATCAAAAATATTATTCTTAGCCAG +GAGGGGCATGGCCTGATTTATTTCAAACGCCGTTTTCATCCGGTCAGACTTGAGATGGAA +GCGCCTGTTTAAATGAAGGGTACTGTTTTCGCCGTTGCGTTAAACCATCGCAGCCAGCTT +GATGCCTGGCAAGAGGCTTTCTCTCAGCCTCCCTATAATGCGCCGCCTAAAACCGCAGTG +TGGTTCATCAAGCCGCGTAATACGGTGATTCGTCACGGCGAACCCATTCCTTATCCGCAG +GGAGAAAAGGTACTGAGCGGCGCGACAGTGGCGCTCATTGTGGGGAAAACCGCCAGCCGG +ATACGCCCTGAAGCGGCGGCGGACTATATCGCCGGGTATGCGCTGGCTAACGAGGTCAGC +CTGCCGGAAGAGAGCTTTTATCGCCCGGCGATTAAAGCGAAATGTCGCGATGGCTTTTGC +CCGCTGGGTGAAATGGCGCCGCTGAGTGATGTGGATAATCTCACCATTATCACTGAAATC +AACGGACGAGAAGCGGACCACTGGAATACTGCCGATTTACAGCGTAGCGCCGCACAACTG +CTTAGCGCGTTAAGTGAGTTCGCTACACTTAACCCTGGCGATGCGATCTTACTTGGTACG +CCGCAGAATCGCGTTGCGCTGCGTCCCGGCGATCGGGTGCGTATTCTGGCGAAAGGTTTA +CCCGCGCTGGAAAATCCGGTTGTCGCAGAAGATGAATTCGCCCGCCACCAGACGTTTACG +TGGCCGCTGTCAGCGACGGGAACGTTATTTGCGCTGGGGTTGAACTACGCCGATCACGCC +AGCGAGCTGGCATTTACGCCGCCGAAAGAGCCGCTGGTATTTATCAAAGCGCCAAACACC +TTTACCGAACATCACCAAACGTCGGTGCGCCCGAACAACGTCGAATATATGCACTACGAA +GCCGAGCTGGTCGTGGTGATTGGCAAAACGGCGCGTAAGGTGAGCGAAGCCGAAGCCATG +GAGTATGTGGCCGGTTACACCGTCTGTAACGACTACGCGATCCGCGACTATCTGGAAAAC +TACTACCGTCCGAATCTGCGGGTAAAAAGCCGCGACGGCCTGACGCCGATAGGCCCGTGG +ATTGTGGATAAAGAGGCGGTTTCTGATCCGCACAACCTGACGTTACGCACCTTTGTCAAC +GGTGAGCTGCGGCAGGAAGGGACGACCGCCGATCTGATCTTCAGCATCCCGTTCCTGATT +TCTTATCTGAGCGAATTTATGACGTTGCAACCGGGCGACATGATTGCCACCGGTACGCCG +AAAGGGCTGTCCGATGTGGTGCCGGGGGATGAAGTTGTCGTTGAAGTAGAAGGCGTGGGT +CGCCTGGTTAACCGAATCGTCAGTGAGGAGAGCGCAAAATGAATGAAAAATGCTTTCAAA +GACGCGTTAAAAGCGGGGCGCCCGCAAATCGGTTTGTGGCTGGGGCTTGCCAACAGTTAC +AGCGCTGAACTGTTAGCGGGCGCCGGCTTCGACTGGCTACTGATTGACGGTGAACACGCG +CCAAACAACGTGCAGACGGTGTTGACCCAGTTGCAGGCGATTGCGCCTTATCCCAGCCAG +CCGGTGGTGCGTCCGTCATGGAACGATCCGGTACAGATTAAGCAACTGCTCGACGTCGGC +GCGCAAACGCTGCTGATACCGATGGTGCAGAATGCCGATGAAGCGCGAAACGCCGTGGCG +GCTACGCGTTATCCGCCTGCCGGTATTCGCGGCGTGGGCAGCGCGCTGGCGCGGGCATCG +CGCTGGAATCGCATTCCGGACTATCTCCACCAGGCCAACGACGCCATGTGCGTACTGGTG +CAGATTGAAACGCGTGAGGCGATGAGCAATCTGGCGTCAATTCTCGACGTGGATGGCATT +GACGGCGTGTTTATTGGCCCGGCGGATCTCAGCGCCGATATGGGCTTTGCCGGCAATCCG +CAGCACCCGGAAGTGCAGGCGGCGATTGAGAACGCCATCGTGCAGATACGCGCGGCGGGG +AAAGCGCCGGGGATTCTGATGGCCAATGAAGCACTGGCGAAACGTTATCTGGAACTGGGG +GCGCTATTTGTCGCCGTCGGCGTTGACACCACGCTGCTGGCGCGCGGAGCGGAGGCGCTG +GCGGCGCGCTTTGGCGCAGAAAAAAAACTGTCCGGTGCGTCCGGCGTCTATTAAATGCAT +GATTCATTAACCATCGCCTTGCTTCAGGCGCGCGAAGCGGCAATGACCTATTTCCGCCCC +ATCGTTAAAAGCCACAATCTGACCGACCAGCAATGGCGCATTGTGCGAATCCTGGCCGAT +AGCCCCTCTATGGATTTTCACGAGCTGGCCTTTCGTACCTGTATTTTGCGTCCAAGTCTG +ACCGGAATATTGACGCGCATGGAGCGAGACGGACTGGTGTTGCGACTCAAGCCGGTTAAC +GATCAGCGTAAGTTATATGTCATGTTGACGGAGCAGGGACAAACGTTGTACGCCCGTGCC +CGGAGCGAGGTAGAAGAGGCTTATCGAAAAATTGAGGCCGATTTCACGCCCGAAAAAACA +CAGCAATTGATGCTGCTGCTGGACGATCTTATTGCTCTGGGGCGCCAGCATCCTGATAGC +GAAGCGGAAGCATAGATGAGCGACACATCATCTGCACTTCCGGAAAGCCCCGAGTCTGTC +GGTTCGCACAACGCGCTCAGCACGGGTCAACAAACCGTCATAAATAAACTGTTCCGCCGA +CTGATCGTATTTTTATTCGTGTTGTTTATCTTCTCGTTTTTAGACCGTATCAACATCGGT +TTTGCCGGGTTGACGATGGGGCAGGATCTGGGGTTAAGCGCCACCATGTTTGGTCTTGCC +ACGACGCTGTTTTACGCCACCTACGTCATTTTCGGCATTCCCAGCAACGTGATGTTGAGC +ATCGTCGGCGCCCGCCGCTGGATTGCGACCATTATGGTGCTATGGGGCATTGCATCTACC +GCCACGATGTTCGCGGTGGGACCGAAAAGCCTGTATGTGCTGCGAATGCTGGTGGGCATT +ACCGAAGCGGGCTTTTTGCCAGGAATATTGCTCTATTTAACCTACTGGTTCCCGGCATTT +TTCCGCGCCCGCGCCAACGCATTATTTATGATTGCCATGCCGGCCACTACCGCGTTGGGG +TCAATTGTCTCCGGCTATATTTTATCGCTGGACGGCATATTCAATCTGCATGGATGGCAG +TGGTTATTCCTGTTGGAAGGATTTCCGTCAGTTTTGTTAGGCATTATGGTCTGGTTTTAC +CTGGATGATACCCCGGCAAAAGCCAAATGGCTGACGGCAGAGGATAAAAAATGTTTGCAG +GAGATGATGGATAATGATCGCCTGACGCTGGTTCAGCCTGAGGGGGCCATCAGCCATAAC +GCCATGCAGCAGCGTAGCCTGTGGCGCGAAGTATTCACGCCAATTGTACTGATGTATACG +CTGGCCTATTTTTGCCTTACCAATACGCTTAGCGCCATTAGTATCTGGACGCCGCAAATC +CTGAAAAGTTTTAATGAAGGCAGCAGCAATATCACCATCGGCCTGCTGGCGGCGATCCCG +CAGATTTGTACTGTTCTGGGCATGATTTACTGGAGCCGCCATTCGGACAAACATCAGGAG +CGTAAACACCACACTGCGTTACCGTTCCTGTTTGCCGCCGCGGGCTGGCTGCTGGCGTCG +GCGACCGACCGTAACCTGATCCAGCTCCTGGGGATCGTGATGGCATCCACGGGTTCCTTT +AGCGCGATGGCGATCTTCTGGACCACGCCGGATCAGTCGATCAGTTTACGCGCCAGGGCG +ATAGGCATTGCGGTCATCAATGCCACCGGCAATATTGGCTCCGCGCTCAGCCCGGTTATG +ATTGGCTGGCTAAAAGATATCACTGGTAGCTTCAATAGCGGACTCTGGTTTGTCGCTTCT +CTGTTAGTCGTCGGCGCCGCCATTATCTGGCTCATTCCCATGAAAGCATCGCGTCCGCGC +GCCACCCCTTGAATGGGCAAGTTAGCGTTAGCAGCAAAAATTACCCACGTGCCGTCGATG +TATCTTTCTGAACTGCCAGGAAAAAATCACGGTTGTCGTCAGGCAGCCATTGATGGGCAT +ATTGAAATTGGCAAGCGTTGCCGCGAAATGGGCGTTGACACCATTATCGTATTCGACACC +CACTGGCTGGTGAATAGCGCTTACCACATTAATTGTGCCGACCATTTCCAGGGCGTCTAT +ACCAGCAACGAATTGCCGCACTTTATTCGCGACATGACCTATGACTATGACGGTAATCCG +GCGCTCGGCCATCTGATCGCCGACGAGGCGGTCAAACTGGGCGTGCGCGCCAAAGCGCAC +AACATCCCGAGCCTGAAGCTGGAGTATGGCACGCTGGTGCCGATGCGCTACATGAACAGC +GACAAGCACTTCAAAGTGGTCTCCATCTCGGCGTTCTGCACTGTGCATGATTTTGCCGAC +AGCCGCAAACTGGGCGAAGCCATTCTCAAGGCGATTGAGAAATATGACGGTACCGTAGCG +GTATTCGCCAGTGGTTCTCTGTCGCACCGTTTTATTGACGACCAACGGGCGGAAGAGGGG +ATGAACAGCTACACCCGCGAGTTCGATCATCAAATGGACGAGCGCGTGGTCAAGCTGTGG +CGCGAAGGCAAATTCAAGGAGTTTTGCACCATGTTGCCGGAGTACGCCGACTACTGCTAC +GGCGAAGGCAACATGCACGACACGGTCATGCTACTGGGAATGCTGGGGTGGGACAAATAC +GACGGCAAGGTGGAGTTCATCACCGACCTGTTCGCCAGCTCCGGTACCGGCCAGGTAAAC +GCTGTTTTCCCGCTGCCTGCGTAAATGAAGAAAATAAATCATTGGATTAACGGCAAAAAC +GTTGCAGGTAACGACTACTTCCAGACCACTAACCCGGCGACCGGTGATGTGCTGGCGGAA +GTAGCCTCCGGCGGTGAAGCAGAAGTGAACCAGGCTGTCGCGGCGGCAAAAGAGGCGTTC +CCGAAATGGGCCAACCTGCCGATGAAAGAGCGCGCGCGCCTGATGCGCCGCCTTGGCGAC +CTGATTGACCAGCATGTGCCGGAAATCGCGGCGATGGAAACCGCCGACACCGGCCTGCCT +ATTCACCAGACTAAAACGTGCTGAGTGCTGATCCCGCGCGCCTCGCATAACTTCGAATTC +TTCGCCGAAGTGTGCCAGCAGATGAACGGCAAGACCTATCCGGTTGACGATAAAATGCTC +AATTATACGCTGGTGCAGCCCGTCGGCGTCTGCGCGCTGGTGTCGCCGTGGAACGTGCCG +TTTATGACCGCGACTTGGAAAGTTGCGCCGTGCCTGGCGCTGGGTAACACCGCGGTGCTC +AAAATGTCCGAGCTGTCGCCGCTGACTGCCGACAGGCTGGGCGAGCTGGCACTGGAGGCA +GGAATTCCGGCAGGCGTGCTGAACGTGGTGCAGGGCTACGGCGCGACGGCGGGCGATGCG +CTGGTACGCCACCATGACGTGCGTGCGGTGTCGTTTACCGGCGGTACCGCCACCGGTCGC +AATATCATGAAAAATGCCGGGCTGAAAAAATACTCGATGGAGCTGGGCGGCAAATCGCCG +GTGCTGATTTTTGAAGACGCCGACATTGAGCGCGCGCTGGACGCCGCGCTGTTCACCATC +TTCTCGATCAACGGCGAACGCTGCACCGCTGGGTCGCGCATCTTTATCCAGCAGAGCATT +TACCCTGAGTTCGTGAAGCGCTTTGCCGAACGCGCGAATCGCCTGCGTGTCGGCGATCCG +ACCGACCCGAACACCCAGGTCGGCGCGCTGATTAGCCAACAGCACTGGGAGAAAGTCTCC +GGTTATATCCGCCTCGGCATTGAAGAGGGGGCAACGCTGCTGGCGGGCGGTGCGGAAAAA +CCCACTGACCTGCCTGCGCATCTGAAAGGCGGTAACTTCCTGCGCCCAACCGTGCTGGCC +GATGTCGACAACCGTATGCGCGTTGCGCAGGAAGAGATCTTTGGGCCGGTCGCCTGCCTG +CTGCCATTCAAAGACGAAGCGGAAGGGTTACGTTTGGCGAACGATGTGGAATACGGTCTG +GCCTCTTATATCTGGACCCAGGACGTGAGCAAAGTGTTGCGCCTGGCGCGTGGGATTGAA +GCCGGCATGGTCTTCGTCAACACCCAGAACGTCCGCGACCTGCGCCAGCCGTTCGGCGGC +GTGAAAGCCTCCGGTACCGGGCGCGAAGGCGGCGAATATAGCTTCGAAGTGTTTGCGGAA +ATGAAAAACGTCTGCATCTCAATGGGCGACCATCCTATCCCAAAATGGGGAGTTTGAATG +CCGCACTTTATTGCTGAATGTACTGAAAATATTCGCGAGCAGGCTGATTTACCAAGCCTG +TTCAGCAAGGTAAACGAGGCGCTGGCCGCCACCGGGATTTTCCCCATCGGCGGTATCCGC +AGTCGCGCCCACTGGCTGGATACCTGGCAGATGGCTGACGGTAAGCATGATTACGCGTTT +GTGCATATGACGCTGAAAATCGGCGCCGGGCGCAGCCTGGAGAGCCGTCAGGAAGTCGGC +GAAATGCTGTTTGGGCTGATTAAAGCCCACTTCGCCGACCTGATGGAGAACCGCTATCTG +GCGCTGTCGTTTGAGATTGCCGAGTTACATCCAACGCTCAATTACAAACAAAACAACGTA +CACGCGTTATTTAAATAGATGCTCGATAAACAGACCCATACCCTGATCGCTCAGCGACTT +AATCAGGCTGAAAAACAGCGTGAACAGATTCGCGCAGTGTCGCTGGATTATCCCAACATC +ACTATTGAAGATGCCTATGCCGTACAGCGTGAATGGGTCAATATCAAGATTGCCGAAGGG +CGCACGCTCAAAGGCCACAAAATCGGCCTGACCTCAAAAGCGATGCAGGCCAGCTCGCAA +ATCAGCGAACCGGATTACGGCGCGCTGCTTGACGATATGTTCTTCCATGACGGCGGAGAT +ATCCCCACCGACCGTTTTATCGTCCCGCGTATTGAAGTGGAGCTGGCGTTCGTGCTGGCG +AAACCGCTGCGCGGCCCTCACTGCACGCTGTTCGACGTCTACAACGCCACGGATTATGTG +ATTCCGGCGCTGGAACTGATTGACGCCCGCAGCCACAACATCGACCCGGAAACCCAGCGC +CCGCGCAAAGTGTTCGACACCATTTCCGACAACGCCGCCAACGCCGGGGTGATCCTCGGT +GGTCGCCCCATCAAACCAGACGAGCTGGATCTGCGCTGGATCTCCGCGCTGCTCTATCGC +AACGGCGTGATCGAAGAAACCGGCGTCGCCGCAGGCGTGCTGAATCATCCGGCCAACGGC +GTGGCGTGGCTGGCGAACAAGCTTGCCCCCTACGATGTCCAGCTTGAAGCCGGGCAGATC +ATCCTCGGCGGCTCGTTCACCCGCCCGGTGCCGGCGCGCAAGGGCGACACCTTCCATGTC +GATTACGGCAACATGGGCGCGATCAGTTGCCGGTTTGTGTAAATGAGCTCTGTACCCGCG +CCGCGTGAATATTTTCTTGACTCTATCCGCGCATGGCTGATGTTGTTAGGGATTCCCTTT +CATATCTCGTTGATCTATTCCACTCACAGTTGGCATGTCAATAGCGCCGCGCCATCGTGG +TGGCTAACCCTGTTTAACGATTTTATCCACGCTTTTCGTATGCAGGTGTTTTTTGTTATT +TCTGGTTATTTTTCGTACATGTTATTTTTACGTTATCCATTAAAACACTGGTGGAAAGTA +CGGGTAGAACGTGTGGGTATTCCCATGCTTACCGCAATCCCTTTGCTTACCTTGCCGCAA +TTTATCCTGTTGCAATATGTCAAAGAGAAAACAGAGAACTGGCCTACACTCTCTGCCTAT +GAAAAATATAATACGTTAGCGTGGGAACTCATTTCACATCTGTGGTTTTTACTGGTGCTG +GTGATATTAACCACCGTCAGCATCGGGATTTTTACCTGGTTCCAAAAAAGGCAGGAAACA +AGCAAGCCTCGTCCCGCCGCTATTTCGCTGGCCAAACTTTCGCTTATTTTTTTCCTGCTG +GGGGTGGCGTACGCTGCTATCAGGCGCATTATATTCATCGTATATCCGGCAATCCTCAGT +GACGGCATGTTCAATTTTATTGTGATGCAAACGCTATTTTATGTGCCGTTTTTTATTCTC +GGCGCGTTGGCCTTCATTCACCCCGATCTGAAAGCGCGCTTCACCACGCCCTCACGCGGA +TGCACTTTAGGCGCTGCCGTTGCTTTTATCGCGTATCTGCTGAATCAACGTTATGGGAGC +GGCGACGCCTGGATGTACGAAACCGAATCCGTGATTACGATGGTAATGGGGCTATGGATG +GTGAACGTGGTATTTTCACTGGGGCATCGCTTGTTAAACTTTCAGTCCGCGCGTGTCACC +TATTTCGTGAATGCTTCGCTGTTTATTTATCTGGTGCATCATCCCTTAACGCTTTTCTTT +GGCGCGTATATTACACCGCATATCTCCTCCAACCTGATCGGGTTCTTGTGCGGGCTGATA +TTTGTTATGGGTATTGCGTTAATTCTGTATGAAATTCATTTACGCATCCCGCTCCTGAAA +TTTCTCTTTTCAGGTAAACCGCCGGTAAAACAAGAAAGCCGCGCCGCGATCGGGTAGATG +AAACATAAACGACAAATGATGAAAATGCGTTGGTTGGGCGCAGCTATTATGTTAACGCTC +TACGCATCATCGAGCTGGGCGTTCAGTATTGATGACGTGGCAAAACAAGCTCAATCTTTA +GCCGGGAAAGGCTATGAGGCGCCTAAAAGCAACTTGCCCTCCGTTTTCCGCGACATGAAA +TATGCGGATTATCAGCAGATCCAGTTTAACAGCGATAAAGCCTACTGGAACAACTTAAAG +ACCCCTTTTAAGCTCGAATTTTACCATCAGGGGATGTACTTCGATACGCCGGTCAAGATT +AACGAAGTGACGGCGACGACGGTCAAAAGAATCAAATACAGCCCGGATTACTTCAATTTT +GGCAATGTTCAGCACGATAAAGACACGGTAAAAGATTTAGGCTTCGCCGGGTTCAAAGTC +CTGTACCCCATTAACAGTAAAGATAAGAACGACGAAATCGTCAGTATGCTTGGCGCCAGC +TATTTCCGCGTTATCGGCGCAGGCCAGGTGTATGGCTTATCTGCGCGCGGCCTGGCGATT +GATACCGCCTTACCATCTGGTGAAGAGTTTCCCCGCTTTCGCGAGTTCTGGATTGAGCGT +CCAAAACCCACCGATAAGCGTTTGACCGTCTATGCATTACTGGATTCTCCGCGCGCGACC +GGCGCTTACCGTTTTGTGATCATTCCTGGCCGCGATACCGTGGTGGACGTGCAGTCAAAA +GTCTATCTGCGCGATAAGGTGGGCAAGCTGGGCGTTGCGCCATTAACCAGTATGTTCCTG +TTTGGGCCAAACCAGCCGTCGCCGACGACCAACTATCGTCCGGAATTGCATGACTCGAAC +GGCTTATCCATTCATGCGGGTAATGGCGAGTGGATTTGGCGTCCGCTGAACAATCCAAAA +CACCTCGCTGTGAGCAGCTATGCGATGGAAAACCCTCAGGGATTCGGCCTGTTGCAGCGT +GGTCGCGAGTTCTCGCGCTTTGAAGATTTAGACGATCGCTATGACCTGCGTCCAAGCGCC +TGGATTACCCCGAAAGGCGACTGGGGCAAAGGTAAGGTTGAACTGGTTGAAATTCCGACC +AATGATGAAACCAACGATAACATCGTCGCTTACTGGACTCCGGATCAACTGCCGGAACCG +GGTAAAGAGATGAACTTCAAGTACACTCTGACCTTCAGCCGCGATGAAGATAAACTTCAT +GCGCCGGATAATGCCTGGGTGCTGCAAACACGCCGCTCAACGGGCGACGTTAAACAGTCG +AATCTGATTCGCCAGCCCGACGGCACTATTGCCTTTGTGGTGGATTTCGTTGGCGCCGAC +ATGAAAAAACTGCCGCCGGATACGCCCGTCGCTGCACAAACCAGCATTGGCGATAACGGT +GAAATCGTTGACAGTAATGTACGCTATAACCCAGTCACTAAAGGCTGGCGTTTAATGCTG +CGCGTGAAAGTCAAAGACGCGAAGAAAACCACGGAAATGCGTGCCGCATTGGTGAATGCC +GATCAGACGCTAAGTGAAACCTGGAGCTACCAGTTACCTGCCAATGAATAAATGAATAAA +ACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCATTGCCGAAA +ACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTACTCGCGAGAA +GACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCGGATTCATTG +GCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCTATGCCAAAA +GCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGCCGTTTCTGG +GATCGCCTGCGTGGGCGGGATGTAACGCCGCGCTATGTTTCTCGTCTGACAAAAGAAGAG +CAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATTTTGTTAATT +TTGACTCTGGCGCAAACCGTCGTCGCGACCTGGTATATGAAGACCATTCTGCCCTATCAG +GGATGGGCGCTCATCAATCCTATGGATATGGTGGGGCAGGATATTTGGGTCTCCTTTATG +CAGCTCCTGCCCTACATGCTGCAAACCGGTATCCTGATTTTGTTTGCCGTGCTGTTCTGC +TGGGTGTCTGCCGGATTCTGGACGGCGCTGATGGGCTTCCTGCAACTGCTTATCGGGCGC +GATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCGGAACACCAG +ACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCCGGTCTGCGC +GCGACCTGGGAGTCCGTTAAAGCCACAGGCAACGCCGCGCATTTTGACGTCTATATCCTT +AGCGATAGTTATAACCCGGATATCTGCGTGGCGGAGCAAAAGGCGTGGATGGAGCTCATC +GCGGAAGTGCAGGGCGAAGGCCAAATTTTTTACCGTCGCCGCCGCCGCCGTATGAAACGC +AAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGCTATATGGTG +GTGCTGGACGCGGACTCAGTGATGAGCGGCGAGTGTCTGAGCGGGCTGGTGCGCCTGATG +GAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGGATGGATACT +CTGTATGCCCGCTGCCAACAGTTCGCGACCCGTGTTTATGGACCGCTGTTTACCGCCGGG +CTGCACTTCTGGCAGTTGGGGGAGTCGCACTACTGGGGGCACAATGCCATTATCCGCGTG +AAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCGTTCGCCGGA +TCGATTCTTTCCCACGACTTTGTGGAGGCGGCGCTAATGCGTCGGGCAGGGTGGGGCGTC +TGGATTGCCTACGATCTCCCCGGCTCCTATGAAGAGCTGCCGCCAAACCTGCTGGATGAG +CTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTGTTCCTGGTG +AAAGGAATGCACCCGGTGCATCGCGCCGTGTTCCTGACCGGGGTAATGTCATACCTGTCC +GCGCCGTTATGGTTTATGTTCCTCGCGCTTTCTACCGCGCTGCAGGTCGTTCATGCGTTA +ACAGAGCCGCAATATTTCCTTCAGCCGCGCCAGCTTTTTCCGGTCTGGCCGCAGTGGCGT +CCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTGCCGAAGCTG +CTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTCTGGCGCGTT +ACGCTGTCGCTATTGCTGGAAGTGCTGTTCTCCGTGTTGCTGGCGCCGGTGCGTATGCTG +TTTCATACCGTGTTTGTGGTCAGCGCGTTCCTCGGCTGGGAAGTGGTCTGGAACTCACCG +CAACGCGACGATGATTCTACGCCGTGGGGAGAAGCCTTTATGCGTCACGGCTCTCAACTG +CTGCTGGGGCTGGTCTGGGCGGTGGGTATGGCGTGGCTGGATTTACGCTTTCTGTTCTGG +CTGGCGCCGATTGTCTTTTCGCTGATTCTGTCGCCATTTGTTTCGGTGATCTCCAGTCGT +TCAACGGTAGGATTACGCACCAAACGCTGGAAGCTGTTCCTGATCCCGGAAGAGTATTCG +CCGCCTCAGGTGTTGGTCGATACCGATAAATATCTGGAGATGAATCGCCGCCGTATTCTG +GACGATGGCTTTATGCATGCGGTATTTAACCCGTCGCTTAATGCGCTGGCGACCGCGATG +GCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGTCATGTGGAG +CAGGCGCTAAACGAAACGCCGGAGAAACTGAACCGCGATCGGCGTCTGGTTTTGCTCAGC +GATCCGGTGACGATGGCGCGTTTACACTATCGGGTCTGGAATGCGCCAGAGAGATACTCT +TCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAGGGACGAACA +TCGTCAGCGGGATAAATGTCGCGCGTCTCGCAGGCGAGGAACCTGGGTAAATATTTTCTT +CTCATCGATAACATGTTAGTGGTGCTGGGTTTTTTCGTCGTCTTCCCGCTCATCTCTATT +CGCTTTGTCGATCAAATGGGGTGGGCTGCCGTAATGGTAGGGATCGCGCTCGGCCTGCGT +CAGTTTATTCAACAAGGTCTGGGCATTTTTGGCGGCGCCATCGCCGATCGCTTTGGCGCG +AAACCGATGATTGTCACCGGTATGCTGATGCGCGCCGCAGGCTTTGCCACCATGGGTATC +GCGCATGAGCCCTGGCTCTTGTGGTTTTCCTGCTTTCTTTCCGGTCTCGGCGGTACGCTT +TTCGACCCGCCGCGTTCAGCGCTGGTGGTCAAATTAATTCGTCCGGAGCAACGGGGCCGC +TTCTTCTCTCTGTTGATGATGCAGGACAGCGCGGGCGCGGTGATTGGCGCGCTGCTGGGA +AGCTGGTTGCTACAATACGATTTTCGCCTGGTCTGCGCGACGGGCGCTATTTTGTTCATA +TTATGCGCCCTTTTCAACGCATGGCTGCTTCCGGCCTGGAAGCTATCAACGGCCAGAACG +CCGGTGCGTGAAGGAATGCGCCGCGTCATGAGCAATAAAAGGTTTGTCACCTACGTGCTG +ACGCTGGCGGGCTACTATATGCTGGCGGTACAGGTCATGTTAATGCTGCCGATTATGGTA +AACGATATCGCCGGTTCGCCTGCTGCCGTGAAATGGATGTACGCTATTGAGGCGTGTCTC +TCGCTGACGTTGCTCTACCCGATTGCCCGCTGGAGCGAAAAGCGTTTTCGGCTGGAGCAT +CGGCTGATGGCCGGTTTGCTCGTCATGTCGCTGAGCATGCTCCCCATCGGGATGGTGGGC +AATTTACAGCAGCTTTTTACGCTTATTTGCGCTTTCTACATCGGCTCGGTTATCGCCGAA +CCGGCGCGCGAAACGCTCAGCGCGTCGCCCGCGGACGCGAGGGCGCGGGGAAGCTATATG +GGCTTTAGCCGTCTGGGATTAGCCATTGGCGGCGCGATTAGTTATATCGGCGGCGGCTGG +TTGTTTGATATGGGTAAAGCGCTTGCGCAGCCTGAACTACCGTGGATGATGCTCGGTATT +ATCGGCTTTATCACCTTTTTGGCTTTAGGCTGGCAATTTAGTCATAAGCGCACGCCGCGC +CGGATGCTGGAACCCGGCGCCATGACCATGTATGCCACGCTGGAAGAAGCTATCGATGCA +GCCCGGGAAGAATTTCTGGCTGACCATCCAGGCCTCGAACAAGACGAAGCGAATGTGCAG +CAGTTCAACGTTCAGAAATATGTACTGCAGGATGGGGACATCATGTGGCAGGTCGAATTT +TTCGCCGATGAAGGTGAAGATGGCGAATGTCTGCCGATGCTGAGTGGTGAAGCCGCACAG +AGCGTGTTTGACGGCGATTATGATGAGATAGAGATCCGCCAGGAATGGCAGGAAGAGAAT +ACTTTGCATGAATGGGATGAAGGGGAATTCCAGCTTGAACCCCCGCTTGATACCGAGGAA +GGCCGTACTGCGGCAGACGAATGGGATGAGCGTTAAATGTCACTATTAGCCAGGCTGGAA +CAAAGTGTACACGAAAACGGTGGGCTGATTGTCTCATGCCAACCGGTACCAGGCAGCCCT +ATGGATAAACCTGAAATTGTGGCTGCAATGGCACAGGCAGCGGCTTCGGCGGGTGCGGTC +GCTGTGCGCATTGAAGGCATTGAGAATCTGCGGACTGTTCGTCCCCATCTTTCTGTTCCT +ATTATTGGGATAATTAAACGTGACCTTACAGGGTCGCCAGTCCGTATCACTCCATATTTA +CAGGATGTTGACGCCCTGGCGCAGGCAGGTGCCGATATTATCGCTTTTGATGCCTCATTC +CGCTCTCGCCCGGTTGATATTGATAGTTTACTGACACGTATTCGCCTGCATGGATTACTG +GCGATGGCAGACTGTTCAACCGTGAATGAAGGCATAAGTTGCCATCAGAAAGGAATCGAA +TTCATTGGTACAACACTGTCTGGCTATACCGGTCCCATCACGCCGGTTGAGCCAGATTTG +GCAATGGTGACACAACTGAGTCATGCAGGTTGTCGTGTTATTGCCGAGGGGCGCTATAAC +ACGCCTGCACTGGCGGCCAATGCTATTGAGCATGGTGCCTGGGCAGTTACCGTTGGTTCC +GCTATCACCCGTATCGAGCATATCTGTCAGTGGTTCAGTCACGCAGTAAAACGCTGAATG +AAAAATTTTAAGAAAATGATGACGCTAATGGCGCTATGTTTATCAGTTGCTATCACCACA +TCAGGATATGCAACCACGCTTCCTGATATACCAGAACCACTGAAAAATGGTACTGGCGCT +ATTGATAATAATGGCGTGATTTATGTCGGCTTAGGTACCGCAGGGACATCCTGGTATAAA +ATTGATCTTAAAAAGCAACATAAAGACTGGGAGCGTATAAAGTCGTTTCCTGGTGGAGCT +CGTGAGCAATCCGTGTCGGTATTTTTAAATGATAAGCTGTATGTTTTTGGTGGCGTAGGG +AAAAAAAACAGTGAATCACCGTTGCAGGTTTATAGCGATGTGTACAAATACTCACCGGTG +AAAAATACATGGCAAAAAGTTGATACTATATCTCCAGTTGGATTAACAGGGCATACGGGA +GTAAAATTAAACGAAACGATGGTACTTATTACCGGAGGGGTTAATGAGCATATCTTTGAT +AAGTATTTTATTGATATAGCGGCTGCGGATGAAAGTGAAAAAAATAAAGTCATCTATAAT +TATTTTAATAAACCTGCCAAAGATTATTTTTTTAATAAAATCGTATTTATCTACAATGCT +AAAGAGAACACATGGAAGAATGCCGGTGAGCTGCCAGGCGCGGGGACGGCAGGATCGTCA +TCGGTAATGGAAAATAATTTCTTGATGCTGATTAATGGTGAGCTCAAACCGGGTTTACGT +ACCGATGTGATTTACCGCGCCATGTGGGATAACGATAAGCTAACATGGTTGAAGAACAGC +CAGTTACCGCCATCGCCTGGAGAACAACAGCAGGAAGGGTTGGCCGGAGCATTTTCGGGC +TATAGCCACGGTGTCCTGCTTGTCGGTGGTGGCGCGAATTTTCCGGGAGCAAAACAAAAT +TATACTAATGGAAAGTTTTATTCCCACGAAGGGATAAATAAAAAATGGCGAGATGAAGTC +TATGGTTTGATTAATGGCCATTGGCAATATATGGGTAAAATGAAACAACCTCTCGGCTAT +GGTGTATCAGTAAGTTATGGTGATGAAGTTTTCCTTATTGGTGGTGAAAATGCTAAAGGG +AAACCTGTTTCGTCTGTAACCTCCTTTACCATGCGTGATGGTAATTTATTAATAAAATAA +GTGATAGCAAAATTCTTCCCGTGGTATAGCGAGATAACACGTCCACAAAAAAATGCTTTA +TTTTCAGCATGGCTGGGTTACGTTTTTGATGGCTTCGACTTTATGCTGATTTTCTACATT +ATGTATCTGATCAAGGCTGACTTAGGATTGACAGATATGGAGGGCGCATTCCTTGCCACA +GCGGCCTTTATTGGGCGACCATTTGGCGGGGCGCTATTTGGTCTGCTGGCAGACAAATTT +GGCCGTAAGCCGTTAATGATGTGGTCGATAGTTGCCTATTCTGTAGGTACAGGGTTAAGT +GGCCTGGCTTCCGGTGTAATTATGCTGACGCTTAGTCGTTTTATTGTCGGTATGGGGATG +GCGGGGAAGTATGCTTGCGCTTCTACTTATGCCGTGGAAAGTTGGCCAAAGCATTTAAAA +TCTAAAGCGAGCGCATTTCTGGTTTCAGGTTTCGGTATTGGTAACATCATAGCAGCCTAT +TTTATGCCGTCATTTGCCGAAGCGTATGGTTGGCGTGCTGCTTTTTTTGTCGGTTTGCTA +CCCGTTCTTTTAGTAATCTACATCCGGGCCAGGGCTCCTGAATCTAAAGAGTGGGAAGAA +GCCAAACTCAGTGGTCTCGGAAAGCATTCACAAAGTGCCTGGTCAGTTTTCTCTTTGTCA +ATGAAAGGGCTATTTAATCGAGCTCAATTTCCACTGACATTATGTGTATTTATTGTTCTG +TTCTCTATTTTCGGCGCAAACTGGCCGATCTTTGGTCTACTGCCTACATATTTGGCGGGA +GAGGGCTTTGATACGGGCGTGGTCTCTAATTTAATGACGGCGGCGGCATTCGGCACTGTA +TTGGGAAATATCGTTTGGGGTCTGTGCGCAGATAGAATTGGTTTGAAGAAAACGTTCAGC +ATTGGTCTTCTCATGTCCTTTTTATTCATTTTCCCGTTATTCAGAATTCCGCAAGATAAT +TATTTACTGCTGGGCGCATGTTTATTCGGTTTAATGGCGACTAACGTAGGTGTTGGCGGG +CTGGTTCCCAAATTTCTCTACGACTACTTTCCTCTTGAGGTTCGTGGTTTGGGTACCGGG +CTTATTTATAATCTTGCTGCGACATCAGGCACATTCAATTCAATGGCGGCGACCTGGCTT +GGAATAACAATGGGGCTAGGCGCTGCGCTAACGTTCATTGTTGCTTTCTGGACCGCAACA +ATTCTACTCATTATTGGCCTATCCATTCCGGATAGACTAAAAGCACGTCGTGAAAGGTTT +CAGTCAACAAAAGAATTTTAAATGAAAAAGTATCTTGCTTTCGCCGTTACGCTGCTGGGT +ATGGGTAAAGTCATCGCCTGTACTACCCTTTTGGTAGGCAATCAGGCTTCGGCTGACGGC +TCCTTTATTATCGCGCGCAACGAGGATGGCTCGGCAAATAACGCCAAGCATAAGGTTATT +CATCCCGTCGCGTTTCATCAACAAGGCGAGTATAAAGCACATCGCAACAATTTTAGCTGG +CCGCTTCCGGAGACAGCGATGCGCTATACGGCGATTCATGACTTTGATACTAACGATAAC +GCCATGGGTGAAGCCGGTTTCAATTCGGCGGGCGTCGGAATGAGCGCAACGGAAACCATT +TACAACGGCAGAGCGGCGCTGGCTGCCGATCCTTACGTGACAAAAACGGGAATCACGGAA +GACGCCATTGAGTCCGTGATCCTGCCAGTGGCGCAATCGGCGCGTCAGGGCGCCAAATTA +CTGGGAGATATTATTGAACAAAAAGGCGCGGGCGAAGGTTTCGGCGTCGCGTTTATTGAT +AGCAAAGAGATATGGTATCTGGAGACGGGAAGCGGACATCAATGGCTGGCAGTACGACTT +CCGGCAGATAGCTATTTCGTTTCCGCCAATCAGGGACGTTTACGCCATTACGATCCGAAT +GATAACGCGAATTATATGGCGTCACCAACGTTAGTAAGCTTTGCGAAAAAGCAGGGATTA +TATGATCCGGCCCGCGGCGAATTCGACTTTCATCAAGCCTATTCGCAGGATAACAAAAAC +GATACCACCTATAATTATCCGCGCGTCTGGACGCTACAACACCAGTTTAATCCGCATCTG +GATACGGTCGTTAGCGAAGGGGAAACATTTTCTGTTTTTTTAACGCCAATAACGAAGATC +AGCGTGGCGGCAGTAAAAAACGCGTTACGCAATCACTATCAGGGAACGTCGCACGACCCT +TATGCCAGTCATAATCCACAAGAACCATGGCGACCTATATCCGTTTTTCGTACCCAGGAG +TCACATATTTTACAGGTCAGACCGAAATTACCGCAGGCTATCGGCAACGTAGAATACATC +GCCTATGGAATGCCATCTCTTAGCGTCTATCTCCCCTATTACCAGGGGATGCGTCATTAT +CAACCCGGAGATGATAAAGGAACCGATCGGGCGAGCAACGACTCTACCTACTGGACATTC +CGCACGCTGCAAACACTGGTTATGCAAGACTACAATACGTTTGCGCCAGATGTGCAACAT +GCCTGGAAAACATTTGAACAGCAAACAGCTAAGCAACAGTATAAGATGGAGCAGAGCTAT +CTGAGATTATATGCGTCGCATCCGAAAGAAGCACAACGCTTACTGCAAAATTTTGAAGAT +AAAACGATGCAAAATGCGCAGACGCTCGCCCGTCGCCTGACCAATAATATTATTACGACA +ATGACTTACCGCACAGATATGAAATATCACTTTTCAAGTACGCAGCCATAAATGGGAAGA +CAAAAAGCAGTGATCAAAGCTCGTCGTGAAGCAAAGCGTGTGTTGAGACGAGATTCGCGT +AGTCATAAGCAACGTGAAGAAGAATCGGTCACGTCACTGGTACAGATGGGCGGAGTAGAA +GCCATTGGCATGGCGCGCGATAGTCGCGATACCTCTCCTGTTAAGGCGCGAAATGAAGCA +CAGGCGCATTATCTGAACGCTATCGACAGTAAACAGCTTATTTTTGCGACCGGCGAAGCC +GGCTGCGGAAAAACATGGATCAGTGCGGCAAAGGCGGCAGAAGCATTGATTCATAAGGAC +GTCGAGAGGATCATTGTGACGCGTCCGGTATTGCAGGCTGATGAAGATCTTGGTTTTTTG +CCCGGTGATATCGCTGAAAAATTCGCGCCTTATTTTCGTCCCGTCTACGATGTCCTGCTT +AAACGGTTGGGCGCGTCCTTTATGCAATATTGTTTGCGCCCGGAAATCGGTAAGGTAGAA +ATTGCCCCGTTCGCCTATATGCGTGGGCGTACTTTTGAAAATGCGGTCGTGATCCTCGAC +GAGGCGCAAAATGTGACTGCGGCGCAAATGAAAATGTTTTTGACGCGATTAGGCGAAAAT +GTCACGGTCATTGTCAATGGCGATATTACGCAATGCGACCTGCCGCGCGGTGTGCGTTCC +GGGTTGAGTGATGCGTTGGAACGCTTTGAAGAAGATGAAATGGTGGGGATTGTGCATTTC +AACAAAGACGACTGCGTGCGCTCGGCGCTTTGTCAGCGAACGCTCCACGCATACAGCTAA +ATGGGAACCACCACGATGGGGGTTAAGCTGGACGACGCCACGCGCGAACGGATCAAAATG +GCCGCGTCGCGTATCGATCGCACGCCGCACTGGTTAATAAAACAGGCAATCTTTAGCTAT +CTGGACAAGCTGGAAAATAGCGATACGCTACCGGAGCTACCTGCGCTGTTTGCCGGCGCG +GCAAATGAAAGCGAGGAGCCGGTCGCGCCGCAGGATGAGCCGCATCAGCCCTTTCTGGAG +TTTGCCGAACAGATTCTTCCCCAATCCGTCTCTCGCGCCGCCATCACCGCCGCCTGGCGC +CGCCCGGAAACCGATGCGGTGTCAATGCTAATGGAACAGGCGCGCCTGTCGCCGCCTGTC +GCTGAGCAGGCGCATAAACTGGCGTATCAACTGGCGGAGAAATTGCGCAATCAAAAATCC +GCCAGCGGTCGCGCGGGTATGGTGCAAGGCCTGTTGCAGGAGTTTTCCCTCTCTTCGCAA +GAAGGCGTAGCGCTGATGTGTCTGGCGGAAGCGCTGCTGCGTATTCCCGACAAAGCTACG +CGCGATGCGTTAATTCGCGACAAAATCAGTAATGGCAACTGGCAGTCGCATATTGGCCGT +AGCCCGTCGCTGTTTGTAAACGCCGCCACCTGGGGGCTGCTCTTTACCGGCCGACTGGTC +TCAACGCATAACGAAGCCAATCTTTCGCGCTCGCTGAACCGCATTATCGGCAAGAGCGGC +GAACCGTTAATCCGCAAAGGCGTCGACATGGCGATGCGTTTAATGGGCGAGCAGTTCGTG +ACTGGCGAAACCATTGCTCAGGCGCTGGCGAATGCCCGAAAACTGGAAGAGAAAGGGTTC +CGCTATTCTTACGATATGCTGGGCGAAGCCGCGTTAACCGCCGCCGATGCGCAGGCCTAT +ATGGTCTCTTACCAGCAAGCGATTCATGCCATCGGCAAAGCGTCTAACGGTCGCGGTATT +TACGAAGGGCCAGGCATCTCGATTAAGCTGTCCGCCCTGCATCCACGCTATAGTCGCGCG +CAATACGATCGGGTAATGGAGGAGCTTTATCCGCGCCTGAAATCCCTGACGCTGCTGGCG +CGCCAGTATGATATCGGTCTCAATATCGACGCCGAAGAGGCGGATCGTCTGGAGATCTCG +CTTGATCTGCTGGAAAAACTCTGCTTCGAACCCGAACTGGCGGGCTGGAACGGCATTGGC +TTTGTGATTCAGGCTTACCAGAAACGCTGCCCGCTGGTCATTGATTATTTAGTCGATCTG +GCCTCCCGTAGCCGCCGTCGGCTGATGATTCGTCTGGTGAAAGGCGCCTACTGGGATAGC +GAGATCAAACGCGCGCAAATGGAAGGGCTGGAGGGCTATCCAGTTTATACCCGCAAAGTG +TATACCGATGTCTCTTATCTGGCCTGCGCGAAAAAACTGCTCGCCGTCCCTAATCTGATC +TACCCGCAGTTCGCGACCCATAACGCTCACACACTGGCGGCGATTTATCATCTGGCCGGG +CAAAATTACTATCCGGGTCAGTACGAATTCCAGTGCCTGCACGGCATGGGAGAACCGCTG +TATGAACAGGTCACCGGTAAAGTGGGGGACGGAAAACTTAACCGTCCCTGCCGTATTTAC +GCGCCGGTGGGAACACACGAAACCCTGCTGGCCTATCTGGTACGACGCCTGCTGGAAAAC +GGCGCCAACACCTCTTTTGTCAACCGCATCGCCGATGCCACCCTACCGCTCGATGAACTG +GTGGCCGACCCGGTCGAGGCCGTGGAAAAACTGGCGCAGCAGGAAGGTCAGGCTGGCATA +CCGCATCCAAAAATTCCGCTGCCGCGCGATCTGTACGGCGAAGGTCGGATAAACTCCGCC +GGACTTGATTTAGCGAATGAACATCGCCTCGCCTCGCTTTCTTCTGCCCTGTTAAGCAAC +GCCATGCAGAAATGGCAGGCCAAACCTGTGCTGGAACAACCGGTGGCCGACGGTGAGATG +ACGCCGGTTATCAACCCGGCGGAACCGAAAGATATTGTTGGCTGGGGACGCGAAGCGACA +GAAAGCGAGGTTGAACAGGCGTTGCAAAACGCGGTCAATCAGGCGCCGGTTTGGTTTGCG +ACGCCGCCGCAAGAACGCGCCGCTATTTTGCAGCGGGCGGCGGTATTGATGGAAGACCAA +ATGCAGCAGTTGATTGGCCTGTTGGTGCGTGAAGCGGGGAAAACGTTCAGCAACGCCATT +GCCGAAGTGCGCGAAGCGGTAGACTTCCTCCATTATTATGCCGGTCAAGTGCGTGACGAT +TTCGATAACGAAACGCATCGCCCGTTAGGGCCGGTGGTCTGTATCAGTCCGTGGAACTTT +CCGCTGGCCATTTTCACTGGCCAAATCGCCGCCGCGCTGGCGGCAGGTAACAGCGTTCTG +GCGAAACCGGCAGAGCAGACATCGCTGATTGCCGCCCAGGGCATTGCCATTTTGCTGGAA +GCGGGCGTACCGCCGGGCGTCGTGCAACTGTTGCCGGGACGGGGAGAAACCGTCGGCGCC +CAGCTTACCGCCGATGCGCGTGTACGCGGCGTGATGTTTACCGGTTCCACGGAGGTCGCG +ACGTTGTTGCAGCGCAACATCGCCACGCGTCTTGACGCCCAGGGGCGCCCTATTCCGTTG +ATTGCGGAAACCGGCGGTATGAACGCTATGATTGTCGACTCTTCCGCGCTCACCGAGCAG +GTGGTCGTGGATGTGCTGGCTTCCGCCTTCGACAGCGCCGGACAACGCTGTTCCGCGCTC +CGCGTGCTGTGTTTGCAGGACGATATCGCCGAACATACGCTGAAAATGTTACGCGGCGCG +ATGGCGGAGTGTCGGATGGGGAATCCAGGCCGTCTGACGACCGATATCGGGCCGGTGATC +GATAGCGAGGCCAAAGCCAACATTGAACGTCATATCCAGACGATGCGCGCCAAAGGCCGC +CCGGTTTTCCAGGCCGCGCGTGAAAACAGCGATGACGCGCAGGAATGGCAGACCGGTACG +TTTGTTATGCCCACGCTTATTGAGCTGGAAAACTTCGCAGAACTGGAAAAAGAGGTCTTC +GGGCCCGTGCTGCACGTCGTGCGTTATAACCGTAACCAACTGGCGGAGCTTATCGAACAG +ATTAACGCTTCCGGCTACGGGCTAACGCTGGGCGTACATACCCGTATTGATGAAACCATT +GCGCAAGTCACCGGTTCCGCCCATGTCGGCAACCTGTACGTTAACCGTAATATGGTGGGC +GCGGTCGTCGGCGTCCAGCCGTTTGGCGGCGAAGGCCTGTCCGGCACCGGGCCAAAAGCG +GGAGGGCCGCTCTATCTCTACCGCCTGCTGGCACACCGCCCGCCCAATGCGCTCAATACG +ACGCTGACTCGTCAGGATGCGCGTTACCCGGTGGATGCGCAGCTTAAAACCACGCTACTC +GCGCCGTTGACCGCTCTGACGCAATGGGCGGCGGATCGCCCGGCGCTACAGACGCTCTGC +CGACAATTCGCCGATCTGGCGCAGGCCGGCACGCAGCGCCTGCTACCGGGGCCGACCGGC +GAGCGTAATACCTGGACGCTGTTGCCGCGTGAACGGGTGTTATGCCTGGCTGATGATGAA +CAGGACGCGTTGACGCAGCTTGCCGCCGTTCTCGCCGTCGGCAGTCAGGCGCTATGGTCA +GACGACGCCTTCCACCGCGATCTGGCGAAACGTCTCCCCGCCGCCGTCGCGGCGCGTGTC +CAGTTTGCGAAAGCGGAAACGCTGATGGCGCAGCCGTTTGACGCGGTGATTTTCCACGGC +GACTCCGACAAGCTGCGAACCGTGTGCGAAGCCGTCGCCGCCCGCGAAGGCGCGATAGTG +TCGGTACAGGGGTTCGCCCGCGGCGAAAGCAATATGCTGCTGGAACGGCTCTATATTGAA +CGTTCGCTGAGCGTAAACACTGCCGCCGCTGGCGGTAATGCCAGCCTGATGACAATTGGC +TAAATGGCTATTAGCACACCGATGTTGGTGACATTCTGTGTCTATATTTTTGGCATGATA +TTGATTGGGTTTATCGCCTGGCGCTCAACCAAAAACTTTGATGACTATATTCTTGGCGGT +CGCAGCCTGGGGCCGTTTGTTACGGCTTTATCAGCCGGCGCGTCGGATATGAGCGGCTGG +CTGTTAATGGGGCTGCCTGGCGCTATCTTTCTGTCGGGGATCTCTGAAAGCTGGATCGCC +ATTGGCCTGACGTTAGGCGCATGGATTAACTGGAAGCTGGTGGCCGGGCGCCTGCGCGTG +CATACCGAATTTAACAATAACGCGCTCACGCTGCCGGACTATTTTACCGGTCGGTTTGAG +GATAAGAGCCGAGTCCTGCGTATTATTTCCGCGCTGGTCATTCTGCTGTTTTTCACTATC +TATTGCGCATCAGGTATTGTCGCTGGGGCACGACTGTTCGAAAGCACCTTCGGTATGAGC +TATGAAACCGCACTGTGGGCGGGGGCCGCGGCAACCATTATTTATACCTTTATCGGCGGG +TTTCTTGCCGTTAGCTGGACGGATACCGTTCAGGCCAGCCTGATGATTTTTGCGTTAATC +CTGACGCCGGTGATGGTTATTGTCGGCGTAGGCGGTTTTAGCGAGTCGCTGGAAGTGATC +AAGCAAAAGAGCATCGAGAATGTCGACATGCTCAAGGGGCTGAATTTTGTCGCTATTATT +TCTCTGATGGGCTGGGGGCTGGGTTACTTCGGTCAGCCGCATATCCTGGCGCGCTTTATG +GCGGCGGATTCCCATCACAGTATTGTTCATGCGCGTCGTATCAGTATGACCTGGATGATT +CTGTGTCTGGCGGGCGCGGTGGCGGTGGGCTTCTTTGGCATTGCGTACTTTAACAATAAC +CCCGCGCTGGCCGGGGCGGTGAACCAAAACTCAGAACGCGTATTTATTGAACTGGCGCAG +ATCCTGTTTAACCCGTGGATTGCCGGTGTTCTGCTGTCTGCTATCCTGGCGGCGGTGATG +TCGACGTTGAGCTGTCAGTTGCTGGTATGCTCCAGCGCGATTACGGAAGATTTATATAAG +GCTTTTCTGCGTAAAAGCGCCAGCCAGCAAGAGCTGGTATGGGTAGGGCGAGTGATGGTG +CTGGTGGTAGCGCTGATCGCCATTGCGCTGGCGGCGAATCCTGATAACCGTGTGCTGGGG +CTGGTGAGCTACGCCTGGGCTGGATTCGGCGCGGCATTTGGACCTGTTGTCCTGTTTTCT +GTGATGTGGTCGCGTATGACACGTAACGGCGCGCTGGCGGGAATGATTATTGGCGCGGTG +ACGGTTATCGTCTGGAAACAATATGGCTGGCTGGATCTGTATGAGATTATCCCTGGCTTC +ATTTTCGGCAGCCTGGGGATCGTAATCTTTAGCCTGCTTGGCAAAGCGCCGACAGCAACG +ATGCAGGAACGCTTTGCAAAAGCGGACGCGCATTATCATTCCGCGCCGCCGTCGAAGCTA +CAGGCGGAATAAATGGCGGGTAAACTGCGGCGTTGGCTGCGTGAAGCCGCGGTTTTTCTG +GCGCTCCTCATCGCGATAATGGTGGTCATGGACGTCTGGCGCGCGCCGCAGGCGCCTCCG +GCGTTTGCCGCGACACCATTACATACGCTGACGGGAGAGTCGACAACTCTGGCGACCTTG +AGCGAGGAACGCCCCGTACTGCTCTATTTTTGGGCCAGCTGGTGCGGGGTATGCCGCTTT +ACCACGCCTGCGGTCGCTCACCTGGCGGCGGAAGGGGAAAACGTCATGACCGTTGCGCTC +CGCTCCGGCGGTGATGCTGAGGTTGCCCGCTGGCTGGCGCGCAAGGGCGTTGACTTCCCG +GTCGTCAATGATGCTAACGGCGCCTTATCCGCTGGCTGGGAAATCAGCGTGACGCCAACG +CTGGTGGTGGTTTCACAAGGTCGGGTTGTGTTCACCACCAGCGGCTGGACCAGCTATTGG +GGCATGAAGCTTCGGCTGTGGTGGGCAAAAACGTTCTGAATGATGAAAAAAAGCGTCGCT +ATGCTGGCGGTTTGTATGCTGGCGCAAAGCCACCTTGCCATTGCTGCCGGTGCTCCTGCG +CCTCAAGAGATCAACATTGTTTTACTGGGCACCAAAGGCGGGCCTTCTTTGCTCAATACA +GCCAGACTACCGCAAGCGACGGCGCTCACTATCGGCGATAAGATATGGCTGATAGATGCC +GGCTACGGCGCCAGTCTGCAACTGGTGAAAAATGGCATTCCACTGCGCAACATCAATACT +ATTTTGCTCACCCATCTGCACAGCGACCACATACTGGATTATCCTTCCTTGCTGATGAAT +GCCTGGGCAAGTGGCCTGAAAGACCATACCATACAGGTTTATGGCCCGCCGGGAACCCAG +GCGATGACGAAGGCTAGCTGGAAGGTCTTTGACAGGGATATCACGTTACGCATGGAAGAA +GAGGGGAAACCCGATCCGCGCAACCTGGTTAAGGCGACCGATATCGGCCAGGGCGTCATC +TATAAAGATGAACTGGTCACAATAAGCGCGCTGAAAGTGCCTCATTCCCCTTTCCCGGAC +GGTGAAGCGTTTGCTTACCGTTTTGATACTCAGGGTAAGCGAATCGTCTTCTCTGGCGAT +ACGTCCTGGTTTCCTCCGCTTGCAACGTTTGCCCAGGGGGCGGATATCCTGGTACATGAG +GCGGTACATGTCCCTTCGGTAGCAAAACTGGCTAATAGTATTGGCAACGGAAAAACGCTG +GCTGAAGCGATTGCGTCGCATCACACCACGATTGAAGATGTCGGTAAGATTGCTCGCGAG +GCCCACGTGAAAAAACTGGTGTTAAGTCATCTGGTGCCTGCGACGGTTGCGGATGACGTC +TGGCAACAGGAAGCCATGAAAAATTACCCGGGCCCTGTCATTGTCGGTCATGACAATATG +ACGATAAGCGTACCGTAAATGTCGCAACGCACAGAGAAAAAAATCGGGAAACGTTCGCAG +GCCACCGGTGCAAAACGGCAGCTTATCTTAACCGCCGCGCTTGCCGTTTTTTCCCAGTAT +GGCATTCATGGCGCGCGTCTTGAACAGGTCGCCGAGCGGGCAGGCGTCTCCAAAACCAAT +CTGCTTTATTATTATCCCTCGAAAGAGGCGCTGTATGTCGCGGTAATGCGACAGATTCTG +GATGTCTGGTTGGCGCCGCTCAAGGCGTTTCGCGCAGAATTTTCCCCTCTGGAGGCCATC +AAAGAGTATATCCGTCTCAAGCTGGAGGTTTCGCGTGATTATCCGCAGGCGTCGCGGCTC +TTCTGCATGGAGATGCTGGCGGGCGCGCCGCTCTTAATGGATGAACTGACCGGCGATCTA +AAAGCGTTGATAGATGAAAAATCCGCGCTGATTGCCGGATGGGTGCACAGCGGGAAACTC +GCGCCCGTTTCTCCGCATCATTTGATCTTCATGATTTGGGCCGCCACGCAACATTACGCC +GATTTCGCCCCTCAGGTTGAAGCGGTAACCGGCGCGACGCTTCGCGATGAAGCCTTTTTC +AACCAAACGGTCGAAAGCGTTCAGCGCATTATTATTGAAGGGATTCGCGTGCGTTAAATG +GCGAAACAACAACGGATGGGCTGGTGGTTTCTTTGCCTTGCATGTGTCGTGGTAATGGTT +TGTACCGCGCAACGCATGGCGGGCCTGCACGCCTTGCAGATGCAGGCGACGGCCTCTGCT +GCGGTGGTCAGCGCTCCCTCCTCGACAGATGACGGCTCGCCGGTCACTCCCTGCGAATTA +AGCGCCAAGTCGCTGCTGGCGGCGCCTCCAGTACTCTTTGAAGGTGCTATCCTTGCGCTT +TATCTACTGCTTTCCTTACTGGCGCCTGTCCGGGTCATGCGCCTGCCGTTTTCGCCTCCA +CGGGCTATTTCGCCGCCCACATTACGGGTACATCTACGATTTTGTGTCTTCCGTGAATGA +ATGATGATTTTATTCAGGCGGATACTGTTCTGCCTGTTATGGCTTTGGCTGCCCGTCTCC +TGGGCGGCGGAAAGCGGCTGGCTGCGTTCGCCCGATAACGACCATGCCAGCATACGGCTA +CGTGCCGATACGTCCGCTAACAGTGAGACCCGGCTGTTGCTGGATGTCAAACTGGAAAAC +GGCTGGAAAACCTACTGGCGCGCGCCGGGGGAAGGGGGCGTGGCACCCTCTATCGCCTGG +AAAGGCGACATGCCTGAGGTAAGCTGGTTCTGGCCAACCCCCTCGCGCTTTGATGTGGCG +AATATCACCACCCAGGGATATCACGACGAGGTGACCTTTCCGATGATCGTGCGCGGTACG +CCGCCGGCGACCTTGCGCGGTGTGTTGACGTTATCAACCTGCAGCAATGTTTGTCTGTTG +ACCGATTACCCCTTTTCCGTGACGCCCACTGTGCAGAATGCCGATTTTGCCCATGACTAT +GCGCGGGCGATGGGTAAAGTTCCGCTCCGCAGTGGGCTAACGGACTCGCTTGACGTTGGC +TATCGCCCGGGAGAACTGGTGGTCACTGCTACGCGAGCGGCGGGCTGGTCATCGCCCGGG +CTCTATCTTGACACCATAGATGACGTCGATTTTGCGAAGCCTCGCCTGCGCGTAGAGGGC +GACAGGTTACAGGCGACGGTGCCGGTGACGGACAGTTGGGGCGAAAAGGCGCCCGATTTG +CGCGACAAATCGCTGACCCTCGTGTTAGCCGATGGCGCTATCGCCCAGGAGAGCACGCAA +ACCATTGGCGCTGCGCCAGCGCAAACGCCGGACAATGCGGCGCTACCTTTCTGGCAAGTT +GTAATGATGGCGCTAATCGGCGGACTGATTCTTAATTTAATGCCCTGCGTACTGCCTGTT +CTGGGCATGAAACTTGGCTCTATTTTATTGGTAGAGGAAAAAAGCCGCTCTCACATCAGG +CGACAATTTTTGGCTTCGGTCGCCGGTATCATTGCGTCATTTATGGCGCTGGCGGCGTTT +ATGACCCTCCTTCGCCTGTCAAACCATGCGCTGGCCTGGGGAGTCCAGTTCCAGAATGCA +TGGTTTATTGGTTTTATGGCGCTGGTGATGTTGTTGTTTAGCGCCAGCCTGTTCGGGCTT +TTTGAGTTCAGGCTTCCCTCATCTATGACCACGAAACTGGCCACTTACGGCGGTAACGGT +ATGTCGGGACATTTCTGGCAGGGGGCGTTCGCCACGCTGCTGGCGACGCCTTGTAGCGCG +CCGTTTCTGGGCACGGCGGTCGCGGTGGCGCTCACGGCGTCGCTGCCGACGCTGTGGGGG +CTGTTCCTTGCGCTTGGCCTGGGAATGAGCGCGCCGTGGCTACTGGTCGCGATACGACCA +GGGCTTGCGCTACGTTTACCGCGCCCCGGGCGTTGGATGAATGTCCTGCGCAGGATCCTC +GGTCTGATGATGCTGGGGTCGGCTATCTGGCTGGCGACGTTACTCCTGCCGCATTTCGGC +TTCACTGCGTCAAAGAGCGCGCAAGACACGGTTCAGTGGCAACCGTTGAGTGAACAGGCA +ATCCAGTCGGCGCTGGCGCAGCATAAGCGGGTATTTGTCGATGTCACTGCGGACTGGTGT +ATTACCTGTAAAGTGAATAAATACAACGTCCTGCAAAAAGAGGATGTGCAGGCCGCCTTG +CAACAGCCGGATGTTGTGGCGCTGCGGGGAGACTGGACGCTGCCGTCCGATGCCATTACA +GATTTTCTGAAAACGCGCGGCCAGGTCGCCGTGCCGTTTAATCAGGTATATGGCCCCGGT +TTGCCGGAAGGGGAGGCACTGCCCACTTTGCTGACCCGCGATGCGGTATTACAAACGTTG +AAAAAAGCGAAAGGAATAACCCAATGAATGAAATACATGATTGTTTTACTGCTGGCGCTG +TTTTCGACGCTGAGCATCGCGCAAGAAACCGCTCCTTTTACGCCGGATCAGGAAAAGCAG +ATTAAAAATCTGATCCATGCGGCGTTGTTTAACGATCCTGCCAGCCCGCGGATAGGCGCT +AAACACCCTAAGCTGACGCTGGTGAACTTTACGGATTACAACTGCCCGTACTGCAAACAG +CTCGATCCGATGCTGGAAAAGATTGTGCAGAAATATCCTGACGTTGCGGTCATTATTAAA +CCGCTGCCATTCAAAGGAGAGAGTTCCATACTGGCGGCGCGTATTGCGCTGACCACCTGG +CGCGATCATCCGCAACAGTTCCTCGCGCTACATGAAAAACTTATGCAAAAGCGCGGTTAC +CATACGGATGACAGTATTAAACAGGCCCAGCAGAAAGCAGGGGCGACGCCAGTGACGCTG +GATGAAAAAAGCATGGAAACGATACGCACTAATTTGCAGTTGGCAAGACTGGTCGACGTG +CAAGGAACGCCAGCGACGATCATTGGCGACGAGCTGATTCCGGGCGCAGTGCCCTGGGAT +ACGCTGGAAGCGGTGGTGAAAGAAAAACTGGCGGCTGCCAATGGCGGGTAAATGATTACA +CATTCTTTCGGCATCGTTAATTATTTTGTATTATTTGGCTACCTCCTGGCCATGATGTTA +GTCGGTGTCTATTTTTCCAGACGGCAAAAAACAGCAGACGATTATTTTCGCGGTGGTGGC +CGGGTTCCTGGTTGGGCGGCTGGGGTCAGTGTATTTGCTACTACGTTAAGCTCAATTACA +TTTATGTCAATTCCTGCCAAAGCGTTTACTTCCGACTGGACGTTTATCATTGGTCAGTAT +CTGGCTATCGCAATTTTACCGCTGGTTTTTTATTTCTATATTCCGTTTTTTCGGAAATTG +AAAGTCACATCAGCCTATGAATATCTCGAAGCACGGTTCGATGTGCGCTGCCGTCTGTTC +GCCAGCATGTCATTTATGTTGTTTCATATTGGACGTATCGCCATTATCACTTTCCTCACC +GTGCTGGCCTTGCGCCCCTTCATCGCTATAGACCCGGTGATTTTGGTACTGTTGATTAGT +GTGATGTGTATCATTTATACCTGGATGGGGGGGAATTGAATGGAAAGTCTATTAAATCGT +TTATATGACGCGTTAGGCCTGGATGCGCCAGAAGATGAGCCACTGCTTATCATTGATGAT +GGGATACAGGTTTATTTTAATGAATCCGATCATACACTGGAAATGTGCTGTCCCTTTATG +CCACTGCCTGACGACACTCTGACTTTGCAGCATTTTTTACGTCTTAACTACGCCAGCGCC +GTCACTATCGGCGCTGATGCAGACAATACTGCTTTAGTGGCGCTTTATCGCTTGCCGCAA +ACCAGTACCGAAGAAGAGGCGCTCACTGGTTTTGAATTATTCATTTCAAACGTGAAGCAA +TTGAAAGAGCATTATGCATAAATGAAATACGACCTTATTATTATCGGCAGCGGTTCGGTT +GGCGCCGCCGCTGGTTATTACGCCACCCGCGCCGGGCTAAAGGTCCTGATGACCGATGCG +CATATGCCGCCTTATCAACAGGGCAGCCACCACGGCGATACCCGTCTTATCCGCCACGCT +TATGGTGAAGGCGAAAAATATGTCCCGCTGGTGCTTCGCGCCCAGACGCTTTGGGATGAG +CTCTCCACACACAATGAAGAGCCTATTTTTGTCCGCTCCGGCGTCGTCAACCTCGGCCCG +GCCGATTCCGCTTTCTTAGCCAACGTCGCACGAAGCGCGCAACAGTGGCAATTGAACGTC +GAGCGCCTGGACGCGACGGCCCTCATGACGCGCTGGCCGGAAATTCGCGTGCCCGATAAT +TATATCGGGCTGTTTGAAGCTGACTCCGGTTTCCTGCGCAGCGAATTAGCCATTACCACA +TGGCTTCGTCTGGCCCGAGAGGCAGGCTGCGCACAGCTATTCAACAGCCCGGTAAGCCAT +ATTCACCATGATGATAACGGTGTGACGATAGAGACGAGTGAAGGCTGCTACCACGCCAGC +AAAGCGCTGATTAGCGCGGGCACCTGGGTCAAAACGCTGGTACCGGAGCTGCCCGTTCAG +CCCGTACGTAAAGTTTTTGCCTGGTTTAAGGCGGATGGACGTTACAGCACTAAAAACCGC +TTTCCGGCCTTTACCGGCGAAATGCCCAACGGCGATCACTATTACGGTTTCCCGGCGGAG +AACGACGAGTTAAAAATCGGCAAACACAATGGCGGGCAGCGAATACAGGCACCGGAAGAG +CGCAAGCCCTTTGCCGCCGTTGCCAGCGATGGCGCGGAAGCATTTCCTTTCCTGCGTAAC +GTACTGCCGGGTATCGGCGGTTGTTTACATGGGGCGGCATGTACCTATGATAATTCGCCG +GACGAGGATTTTATTATCGATACGCTGCCTGGCCATGAGAATACGCTTGTCATCACTGGA +CTCAGCGGACATGGTTTTAAATTCGCCCCGGTGTTAGGAGAAATCGCTGCGGATTTTGCG +TTGGGAAAAACGCCCTCCTTTGATCTGACGCCGTTCCGGCTTTCCCGTTTTAGCCAATAA +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGAAAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATCACA +TCTTGAATGAAACGATATATACTGGCTACCGCGATAGCGTCTCTTGTTGCAGCCCCGGCA +ATGGCGCTGGCCGCTGGCAGCAATATTCTCAGCGTACATATTCTCGATCAGCAAACAGGC +AAACCAGCGCCCGGCGTGGAGGTGGTACTGGAGCAGAAAAAGGATAACGGATGGACGCAA +TTAAACACCGGGCATACCGACCAGGATGGACGAATTAAAGCACTGTGGCCCGAAAAAGCT +GCCGCGCCGGGGGATTATCGCGTTATTTTTAAAACCGGCCAGTATTTTGAAAGTAAAAAA +CTGGACACGTTTTTCCCGGAGATTCCCGTCGAGTTTCATATCAGCAAAACGAATGAGCAC +TATCATGTGCCGCTGTTATTAAGTCAGTATGGTTATTCAACCTATCGCGGGAGCTAAATG +GCAAAGATTCTGGTGCTCTATTATTCCATGTACGGACACATTGAAACCATGGCGCACGCG +GTGGCGGAAGGGGCAAAGAAAGTCGACGGCGCAGAGGTCATTATAAAGCGTGTGCCAGAA +ACAATGCCGCCTGAAATCTTCGCAAAAGCTGGCGGTAAAACGCAAAACGCACCGGTTGCC +ACCCCACAGGAGCTGGCGGATTACGATGCCATTATTTTTGGTACGCCAACCCGGTTTGGC +AATATGTCAGGCCAGATGCGTACCTTCCTGGACCAAACCGGCGGACTGTGGGCATCCGGC +GCGCTATACGGCAAGCTCGGCGGCGTGTTCAGTTCTACCGGAACGGGCGGCGGCCAGGAG +CAGACCATCACCTCGACCTGGACTACGCTTGCCCATCATGGGATGGTGATTGTCCCGATA +GGCTATTCCGCACAGGAACTGTTTGACGTCTCCCAGGTTCGCGGCGGTACGCCTTACGGC +GCAACGACTATCGCTGGAGGCGACGGTTCACGTCAACCAAGCCAGGAGGAACTCTCTATC +GCTCGCTATCAGGGGGAATACGTCGCCGGTCTGGCAGTCAAACTCAACGGCTAAATGGAG +CCTCAACCCCCACGTCTTAAACCCGGAAAAATCCTTGACACTCTGGGTGCTATGCAAAAA +AGCCTGACACGTGCCTCCCAGCGTATTGCGCAATATATTTTAGCCTTCCCCAGACAGGTG +ACACAGTCATCTATTGCCGATTTGTCGCGCGACACACAGGCCGGAGAAGCCACGGTTATT +CGCTTTTGTCGCACCCTGGGCTATAAAGGTTTTCAGGATTTTAAAATGGACCTGGCCATT +GAACTTGCCACTACCGAGTCTGATGACAGTAGTCCTCTACTGGATGCCGAAGTTAGCGAA +TCCGACGATGCCCACGCCATTGGTTTAAAATTGCAGAACACCATTAGTAATGTATTATCT +GAAACGCTAAATCTGCTTGATATGCAACAGGTTCTCGGTGTCGTGGACGCCCTACGTCAC +TGTCACTCAGTTTATATCTTTGGTGTGGGCTCATCGGGGATCACGGCGCTGGATATGAAA +CACAAGCTAATGCGTATTGGTTTACGGGGCGATGCGGTAAGCAATAACCATTTTATGTAC +ATGCAGGCTACGCTATTAAAAGCAGGCGATGTCGCGATGGGTGTCAGTCACTCGGGCACA +TCGCCAGAAACAGTGCATTCACTCCGATTGGCCCGACAGGCTGGCGCCACCACAGTCGCC +ATTACCCATAATCTGGGTTCTCCATTATGTGAAGAGGCCGATTTTTGCCTGATCAATGGT +AATCGGCAAGGAATGTTGCAGGGTGACTCGATCGGTACGAAAGCCGCGCAGCTTTTCGTC +TTTGACCTGCTCTATACCCTTCTTGTACAGTCCTCGCCGGAACAGGCCCGAGAAAGCAAA +TTACGGACAATGAATGCCCTGGACATGACAAAATAAATGAAGAAACTGCCCGGCTTTACG +CAAGATTACTTACTCAGCAAGGCGACGACCCTGCCTGATAAAACACGCCTGGAGCGTGCC +GTTGAACCGCTATGCGCGCGCCATCCCGGAGAGTGCGGCATTCTTGCGCTGGATAACAGT +CTGGACGCTTTTGCCGCCCGCTACCGCCTGACCGAAATGGCGGCGCGGACGCTGGATGTG +CAGTATTATATTTGGGAAGACGATATGTCCGGGCGGCTGCTCTTTTCGGTTCTGCTGTCG +GCGGCGAAGCGCGGCGTTCATGTTCGTCTGCTGCTGGATGATAACAATACGCCTGGTCTG +GATGATACGTTGCGCTTGCTGGATAGCCATCCTAATATCGAAGTTCGTCTGTTTAATCCT +TTCTCTTTTCGTACGCTACGCGCGCTGGGATATTTGACGGATTTTGCGCGGCTGAATCGG +CGGATGCACAATAAAAGTTACACTGCCGACGGCGTAGTGACGCTGGTCGGTGGGCGCAAC +ATCGGCGATGCCTATTTCGGCGCTGGCGAGGAGCCGCTATTTTCCGATCTGGACGTGATG +GCCATTGGCCCGGTGGTCAATGATGTCGCCAATGATTTTGAACGTTACTGGCGCTGTAGT +TCAGTGTCGACATTGCAGCAAGTATTATCCCTTTCTGAGCAGGAACTGACGCAGCGTATC +GAACTTCCCGAATCCTGGTATAACGATGAGATCACCCGCCGTTATCTGCATAAGCTGGAA +ACCAGCCAGTTTATGGCGGATCTCGATCGCGGAACGTTGCCGCTGATTTGGGCAAAAACA +CGCTTGCTTAGCGATGACCCTTCTAAAGGCGAGGGGAAGGCGCAGCGCCATTCGCTTCTT +CCGCAGCGATTATTTGACGTGATGGGGTCGCCGACGGAGCGTATCGACATTATTTCCGCT +TACTTTGTCCCTACGCGCGCAGGCGTGGCGCAGTTGCTTAATCTGGTCAGGAAAGGTGTG +AAGATCGCCATCTTAACTAACTCTCTGGCGGCCAACGATGTGGCGGTCGTTCACGCAGGG +TACGCGCGCTGGCGCAAGAAATTACTGCGCTATGGCGTGGAGCTCTACGAACTGAAACCG +ACCCGCGAACATGAAACCGCCGTACATGATCGCGGACTCACCGGGAACTCAGGTTCCAGC +TTACATGCTAAAACGTTCAGTATTGATGGTAGTAAGGTGTTTATCGGGTCGCTTAATTTT +GATCCCCGTTCAACGCTTTTAAATACCGAAATGGGCTTTGTCATTGAAAGTGAAACGCTG +GCGACGCTTATTCATAAGCGTTTTACGCAGAGCCAACGCGATGCGGCCTGGCAACTGCGG +CTGGATCGCTGGGGACGAATTAACTGGATCGATCGTCAGCAAGAAGAGGAAAAGGTGTTA +AAGAAAGAACCCGCTACGCGTTTCTGGCAGCGAGTTCTGGTACGGTTGGCGGCAATTTTA +CCTGTGGAATGGTTGCTGTGAATGCCAACTCAAGAAGCAAAAGCGCACCGCGTCGGCGAA +TGGGCAAGCCTGCGTAATACGTCGCCGGAAATTGCCGAAGCCATTTTTGAAGTCGCTCAC +TATGACGAGAAACTGGCAGAAAAAATATGGGAAGAAGGTAGCGATGAGGTGCTGATCAAA +GCCTTTGAGAAAACGGACAAAGACTCGCTCTTCTGGGGCGAACAAGTCATCGAACGTAAG +AACGTATAAATGTATCCCGTTGACCTGCATATGCATACCGTCGCCAGCACTCATGCCTAC +AGTACTCTGAGCGATTATATCGCGGAAGCCAAACGCAAAGGCATTAAACTTTTTGCGATT +ACCGATCATGGTCCGGACATGGAAGATGCGCCGCATCACTGGCATTTTATTAACATGCGC +ATCTGGCCGCGTCTGGTTGACGGCGTGGGGATACTGCGTGGCATTGAGGCGAATATCAAG +AATATTAACGGTGAAATTGATTGTTCCGGAAAGATGTTCGACTCGCTGGATCTGATTATC +GCAGGCTTTCATGAGCCCGTTTTTGCGCCGCATGATAAAGAAACCAATACTCAGGCGATG +ATCGCGACCATCGCCAGCGGCAAGGTGCATATAATTAGTCACCCCGGAAATCCAAAGTAT +CCAGTGGAGGTTAAAGCCATCGCGCAGGCGGCGGCGAAACACCATGTAGCGCTGGAAATC +AACAACTCTTCTTTTCTGCATTCGCGTAAAGGAAGCGAAGATAATTGCCGCGCGGTCGCT +GCCGCCGTACGCGATGCGGGAGGCTGGGTAGCGTTAGGCTCTGATTCCCATACGGCCTTT +ACGCTTGGCGATTTCACCGAATGCCGGAAAATTCTGGATGCGGTGAATTTTCCGGAAGAT +CGAATCCTGAACGTCTCTCCGCAGCGCTTACTGGCCTTTCTCGAATCACGCGGTATGGCG +CCTGTACCGGAATTTGCCGAACTTTAAATGAATGAGTTTTCAATCCTGTGCCGTGTGCTG +GGATCGTTGTTTTACCGCCAACCGCAAGATCCTTTACTGGTTCCGCTGTTTACGTTAATC +CGTGAAGGTAAACTGGCGGCAAACTGGCCGCTGGAGCAGGATGACATGCTGGCGCGTTTA +CAGAAAAGCTGCGATATCACGCAGATTTCCACTGATTACAATGCGTTATTTGTTGGGGAA +GAGTGCGCGGTAGCGCCATACCGCAGTGCGTGGGTCGAAGGCGCGGAAGAGTCTGAGGTG +CGCGCTTTTTTAACGTCGCGAGGGATGCCGCTGGCCGATACGCCTGCCGATCACATTGGC +ACTTTATTGCTCGCGGCCTCCTGGCTGGAAGATCAGTCTGCCGAAGATGAAAGTGAAGCG +CTGGAAACCTTATTTGCCGATTATCTGCTTCCCTGGTGCAATACCTTCCTCGGTAAAGTT +GAAGCCCATGCCGTTACGCCATTCTGGCGCACTCTGGCGCCGCTAACGCGTGATGCGATA +GGGGCCATGTGGGATGAACTTCAGGAAGAAGATGAAGAATAAATGATGCGCGCCATGAAC +ATACTTCTTTCTATTGCTATCACTACGGGCATCCTTTCTGGAATATGGGGATGGGTGGCC +GTCTCCCTGGGGTTACTAAGCTGGGCCGGTTTTTTAGGCTGTACGGCTTATTTCGCCTGT +CCGCAGGGCGGCTTTAAGGGATTGTTGATTTCCGCCTGTACGCTGTTAAGCGGTATGGTG +TGGGCGCTGGTCATTATTCACGGTAGCGCGTTGGCGCCGCATCTGGAAATTGTCAGTTAC +GTGTTGACGGGGATCGTGGCATTCCTGATGTGTATCCAGGCAAAGCAGCTATTGCTTTCT +TTTGTTCCGGGAACATTTATCGGCGCCTGCGCGACATTTGCAGGGCAGGGTGACTGGCGG +TTGGTATTACCGTCGCTGGCGCTGGGGCTAATCTTTGGCTATGCCATGAAAAATAGTGGG +CTATGGCTGGCATCACGCCGCGAGCAACATTCAGCGAATACGGCGGTCACAAAATAAATG +AAAAAAAACCTGCTGGGATTCACCCTCGCATCCTTGTTATTCACGACCGGTTCCGCCGTG +GCGGCGGAGTATAAAATTGATAAAGAAGGCCAACATGCGTTCGTCAATTTCCGCATCCAG +CATCTGGGCTACAGCTGGCTATACGGCACCTTTAAAGATTTCGACGGCACGTTCACTTTT +GACGAAAAAAATCCGTCAGCAGACAAAGTGAATGTGACCATTAACACCAATAGCGTCGAC +ACTAACCATGCCGAACGTGACAAACACCTGCGTAGCGCGGAGTTTCTTAATGTTGCGAAA +TTCCCGCAGGCAACCTTCACCTCTACCAGCGTGAAAAAAGAGGGCGATGAACTGGATATT +ACCGGCAATCTGACGCTCAATGGCGTGACTAAACCGGTGACGCTGGAAGCGAAGCTGATG +GGCCAGGGCGACGATCCGTGGGGCGGTAAGCGCGCGGGCTTTGAGGCCGAAGGAAAAATT +AAGCTGAAAGATTTCAATATAACTACCGATCTCGGCCCAGCCTCACAAGAGGTGGAGCTT +ATCATCTCAGTAGAAGGCGTTCAGCAGAAGTAAATGTTACTGATGATGGCGCTGATCGTG +CGTATTATCTGGCGGCTTTATTCTCCGCCGCCCGTTGCGTTGACCAGCTATTCCCGTTTA +ACGCGCATTGGCGCCGCCGCGGGTCATATCCTTCTGTATCTCCTGCTCTTTGCGATAATC +ATTAGCGGCTACCTGATTTCCACCGCCGACGGTAAACCGATTAGCGTCTTTGGCTGGTTT +GAGATTCCGGCCACGCTTACGGACGCGGGCGCGCAGGCTGACATCGCCGGAACACTGCAT +CTGTGGTTTGCCTGGTCGCTGGTCATTATCTCGCTCTCGCATGGGGTTATGGCGCTAAAA +CACCATTTCATCGATAAAGACGACACACTGAAACGTATGACAGGAATGTCGTCATCTGAC +TATGGAGCTCAAAAATGAATGGTTAAGTTATCAATGACGCTGCGCCTGACAATTTCTTTT +ATCGCCATACTTATCCTCGCCTGTACCGGCATTAGCTGGACGCTCTATAACGCGCTGAGC +AAAGAATTAACGTATCGGGATGATATGACGCTAATAAATCGGGCGGCGCAAATGCAGCAA +CTGTTACTGGATGGCGCCAGGCCGGAAAATCTGCCGCTCTATTTCAATCGGATGGTGGAT +ACGAAGCAGGATATCTTATTGATCCACTCAGCAACAGGCCATAATGTTGCGATTAATCAT +AGCGGCATCCCCGACCAACGCTTTAACGAGATTCCGCTGGCTAAAAACATCACCCGCGAA +ACCTTATTTCGCCAGGCGGTACAAGGCACGGAGCTGACCGCGGTACGAGTAAACGCCAGA +AGCGGCGATAACCCGCTGACCCTTACTATTGCCAGGCTGGCGACGGAAAGGCGGCAAATG +CTGGCGCAATATCGCCGCAACAGTTTGCTGATTAGCCTTATCGCGATCCTCGTCTGTTCG +GCGCTCAGTCCATTAGTCATCAGAAACGGGCTGCGGGCCATTACGTCGCTCAGCCGACTC +ACCGCGGCGACAGATAGCGGCACACTTCGCCAGCCGCTGGCGGAACAGGCGTTACCCGTC +GAGCTCAGGCCGCTTGGGCAAGCGCTAAATACCATGCGCCAGAAGCTTTCCGACGATTTT +GAACGCCTGAACCAATTTGCCGACGATCTGGCGCATGAGCTGCGCACGCCGGTTAATATT +TTACTGGGGAAGAATCAGGTTATGCTGAGTCAGGAACGCAGCGCCGAAGAGTATCAACAA +GCCCTTGTCGATAATATTGAAGAGCTGGAGGGACTGTCGCGACTGACAGAAAATATTCTC +TTTCTGGCACGCGCGGAGCACCAGAATATAGCGGTAAAAAAACAGCCTGTTTCGCTCAAT +GCGCTGGTCGAAAATATGCTGGATTATCTTAGCCCCCTTGCCGAAGAGAAGCACATCTGT +TTTATAAATCAATGTCAGGGAACGGTATGGGCTGACGAAATATTATTACAAAGAGTGCTC +TCAAACCTGCTGACGAATGCCATCCGTTATTCTGATGAAAACGCCGTGATACGTATTGAA +AGCGCTTATGATGATAACGTTGCAGAAATTCGGGTCGCTAATCCGGGCAGCCCCACCGCC +GATGCGGATAAGCTTTTCCGGCGTTTTTGGCGAGGAGATAATGCCCGCTACACTGCCGGT +TTCGGCCTGGGGTTATCGTTAGTTAACGCGATTGCCCTATTGCACGGTGGCTCGGCATCT +TACCGCTATGCCGATGAACATAATATCTTTTCGGTTCGTCTGCCTGATAGCGGTGATAGC +TAAGTGATATGTCTCAAAGTCCAGGGCGGCATTGGTGAAATTTTTACGGTGACGCAGCAG +GCGGATAAATTCTTTCCGGCTACGCAGTTCCACTGGAGCTGGACGGAAAGCACAGTACCT +GTATTGATGATTGGTTTTCTGTTTGCCAATATTCAGCAATTTACTGCCAGTCAGGATGTG +GTCCAACGCTATATCGTGACTGACTCCATAGAGGAAACGAAGAAAACATTACTTACAAAT +GCCAAACTGGTTGCTGTGATCCCTGTTTTCTTTTTTGCTATCGGCTCGGCATTATTTGTC +TACTATCAGCAACATCCACAATTATTACCGGCGGGATTCAACACTGGCGGCATTTTGCCC +TTATTCGTGGTCACCGAAATGCCAGTCGGCATTGCAGGGTTGATAATCTCCGCTATTTTC +GCTGCCGCGCAGTCCAGCATCTCCAGCAGCTTAAACAGCATTTCCAGTTGTTTTAATTCC +GATATCTATCAGCGTTTGAGTCATAAAAAAGGAACGCCAGAAAACCGTATGAAAATAGCT +AAGTTAGTTATTCTGGTCGCGGGCCTGATAAGTAGCGCGGCCTCGGTATGGCTGGTCATG +GCCGATGAATCAGAAATCTGGGATGCATTTAATAGTCTGATAGGTCTGATGGGAGGGCCA +ATGACCGGTCTGTTCATGCTGGGCATTTTCTTTAAACGAGCAAATGCCGGGAGTGCGGTT +TTAGGAATTATTATCAGCGTCATTACCGTGCTGGGCACACGCTATGCCACTGACCTTAAC +TTCTTCTTTTATGGGGTCATTGGCTCGCTAAGCGTGGTGATCAGCGGCGTTATTTTCGCC +CCGTTATTTGCCCCGGCACCGCCATTGACGCTGGATGAAAAACCTGAACCAAAGGTGACA +TTATGAATGAAAATCAACAGATATCTTCTGGGTATGGTTTCGTTTATAGCATTTTCATCA +TATCTACAAGCGGCAACCCTTGATTATCGGCATGAATATGCTGATAGAACCAGAATTAAT +AAAGACCGTATTGCTATAATTGAAAAGCTTCCTAACGGCATTGGTTTTTATGTCGATGCC +AGCGTTAAATCGGGAGGAGTAGATGGTGAGCAGGATAAGCATTTAAGCGATCTCGTCGCA +AACGCTATAGAACTGGGCGTAAGTTATAATTATAAAGTTACGGACCATTTTGTTTTGCAG +CCTGGATTTATATTTGAAAGCGGTCCAGACACTTCAATTTATAAGCCTTATTTAAGGGCG +CAATATAATTTTGATTCTGGTGTTTATATGGCTGGTCGTTACCGTTATGACTATGCAAGG +AAGACAGCTAACTATAATGATGATGAGAAAACGAATAGATTTGATACTTATATAGGTTAT +GTTTTTGATGAGTTGAAATTGGAATATAAATTTACCTGGATGGATAGCGATCAAATTAAA +TTTGATAACAAAAAAACAAACTATGAACATAATGTGGCTTTAGCCTGGAAACTGAATAAG +TCATTTACACCATACGTTGAGGTCGGAAATGTAGCGGTGAGAAATAATACCGATGAGAGA +CAGACCCGTTATCGCGTTGGATTACAATACCACTTTTGAATGACGAAATACGGTGTTATA +GGTACAGGTTATTTTGGCGCTGAACTGGCGCGATTTATGTCTAAGGTTGAAGGGGCGAAA +ATCACTGCGATTTACGATCCGGTAAATGCGGCTCCGATAGCGAAAGAGCTGAACTGTGTC +GCCACTTCAACGATGGAGGCGCTTTGTACCCATCCTGATGTGGATTGCGTAATTATTGCT +TCACCAAATTACTTACATAAAGCGCCGGTCATTGCGGCGGCTAAAGCGGGTAAACACGTG +TTTTGTGAAAAACCTATCGCCTTAAATTACCAGGATTGTAAGGATATGGTTGATGCCTGC +AAAGAAGCTGGTGTTACCTTTATGGCGGGTCACGTTATGAACTTTTTTCACGGGGTTCGC +CACGCTAAAGCGCTCATCAAAGCCGGTGAAATCGGTGAAGTTACACAAGTTCACACTAAA +CGTAATGGTTTTGAAGACGTGCAGGATGAGATCTCATGGAAGAAGATTCGCGCAAAGTCA +GGTGGGCATCTGTACCATCACATTCACGAGCTAGATTGTACACTGTTCATCATGGATGAA +ACCCCATCCCTGGTTTCAATGGCGGCGGGGAATGTTGCGCACAAAGGTGAAAAATTTGGT +GATGAAGATGATGTTGTCCTAATCACCCTTGAGTTTGAAAGCGGTCGTTTCGCGACACTT +CAGTGGGGATCATCGTTCCACTACCCTGAGCACTATGTATTAATTGAGGGCACGACAGGT +GCAATTCTCATTGATATGCAAAACACGGCTGGTTATCTAATAAAAGCGGGCAAAAAAACA +CACTTTCTTGTGCATGAAAGCCAGGCGGAGGATGATGATCGTCGCAACGGTAACATATCC +AGCGAGATGGATGGCGCAATCGCTTATGGTAAACCCGGTAAACGTACGCCGATGTGGCTC +TCATCAATTATGAAACTGGAGATGCAGTACTTGCATGATGTGATAAACGGTCTGGAGCCA +GGCGAGGAGTTTGCTAAATTGCTAACGGGAGAAGCGGCGACAAATGCCATTGCTACCGCT +GATGCTGCGACGCTTTCTTCAAACGAGGGGCGCAAAGTTAAACTCACTGAAATTCTTGGC +TAAATGACATCACGTCTTCAGGTCATACAGGGTGATATCACTCAACTTAGCGTCGATGCG +ATTGTGAATGCCGCTAACGCATCATTAATGGGCGGCGGTGGCGTAGACGGCGCAATTCAT +CGCGCGGCGGGGCCGGCATTGCTGGACGCCTGTAAACTCATCCGTCAGCAACAGGGCGAA +TGTCAGACGGGACATGCGGTTATCACGCCTGCTGGCAAGCTTTCGGCAAAGGCGGTTATT +CACACAGTGGGGCCCGTCTGGCGAGGCGGCGAACACCAGGAAGCTGAGCTACTCGAAGAG +GCATACCGGAATTGTTTGCTGCTTGCCGAGGCGAATCACTTTCGTTCCATCGCTTTTCCG +GCAATCAGTACCGGCGTTTATGGCTATCCACGCGCCCAGGCCGCTGAAGTCGCCGTCAGG +ACGGTTTCAGATTTTATTACCCGTTACGCTCTGCCTGAACAGGTATACTTTGTCTGTTAT +GATGAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAAGGCGACGACCCTGCC +TGA +>real_data_2 +ATGAAAAAATCATTACTCGCTGTTGCTGTGGCAGGGGCTGTTTTGTTGTCATCCGCCGTA +CAGGCGCAGACAACGCCGGAAGGTTATCAATTACAACAGGTGCTGATGATGAGCCGCCAT +AATCTGCGGGCGCCGCTGGCGAATAATGGCAACGTACTGGCGCAGTCGACGCCGAACGCC +TGGCCGGCGTGGGACGTTCCCGGCGGGCAACTGACGACGAAAGGCGGCGTGCTGGAAGTC +TATATGGGACACTACACACGTGAATGGCTGGTCGCGCAGGGGCTGATACCGTCGGGAGAA +TGTCCGGCGCCCGACACGGTATATGCCTATGCGAATAGTTTGCAGCGCACCGTCGCCACC +GCGCAATTTTTCATTACCAGCGCTTTCCCCGGCTGTGATATTCCTGTTCATCATCAGGAA +AAAATGGGCACTATGGACCCTACCTTCAATCCGGTGATTACCGATGATTCCGCCGCGTTC +CGGCAACAGGCCGTACAGGCGATGGAAAAGGCGCGTAGTCAGCTACATCTTGATGAGAGT +TATAAACTGCTTGAGCAGATAACGCATTATCAGGACTCGCCGTCCTGCAAAGAGAAGCAT +CAGTGTTCGCTAATCGACGCGAAAGATACCTTCAGCGCGAACTATCAGCAAGAGCCTGGC +GTGCAGGGGCCGCTGAAAGTAGGGAACTCGCTGGTGGATGCGTTTACCCTGCAATATTAC +GAAGGCTTTCCGATGGATCAGGTCGCTTGGGGCGGGATCCACACCGATCGGCAGTGGAAG +GTGCTGTCAAAACTGAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCCACGGTGGCG +CGCAATGTCGCTGCGCCGCTGGTAAAATATATCGATAAGGTGCTGGTTGCCGAGCGCGTT +AGCGCGCCGAAGGTTACCGTGCTGGTGGGGCATGATTCCAATATCGCGTCGCTGCTGACG +GCGCTGGATTTTAAACCCTATCAGCTCCATGACCAGTATGAGAGAACGCCGATTGGTGGT +CAGCTTGTCTTCCAACGCTGGCATGACGGTAACGCTAACCGGGATTTGATGAAAATCGAG +TATGTCTACCAGAGCGCCCGGCAGTTACGTAATGCGGAAGCGTTAACGCTCAAATCGCCT +GCGCAAAGGGTAACGCTGGAACTGAAAGGATGTCCGGTGGATGCGAACGGCTTCTGTCCG +CTGGATAAGTTCGATAACGTCATGAACACTGCTGCAAAATAGATGGAAAAGAATAATGAA +GTCATTCAGACCCATCCGCTTGTAGGATGGGACATCAGCACCGTCGATAGCTATGATGCG +CTGATGCTGCGTTTACACTACCAGACCCCAAATCGTCCGGAACCGGAAGGGACTGAAGTT +GGTCAAACGCTCTGGTTAACGACAGATGTAGCCAGGCAATTTATTTCAATATTAGAAGCC +GGCATCGCCAAAATAGAATCAGGCGATTACCAGGAAAACGAGTATCGTCACCATTAGATG +GAACTTAAGGATTATTACGCCATTATGGGCGTGAAACCGACGGACGATCTCAAGACGATT +AAGACCGCCTATCGCCGACTGGCCCGCAAGTACCATCCAGATGTCAGCAAAGAACCCGAT +GCCGAAGCCCGTTTCAAAGAGGTTGCTGAAGCATGGGAAGTGCTGAGTGATGAGCAACGG +CGCGCCGAGTATGACCAGTTATGGCAACACCGTAACGATCCACAATTTAATCGCCAGTTC +CAGCAACACGAAGGCCAGCCGTATAACGCCGAAGATTTTGATGATATTTTCTCGTCTATT +TTTGGTCAGCACGGTCGTCATTCGCACCACCGCCACGCCGCACGCGGTCATGATATCGAA +ATTGAAGTGGCGGTATTCCTGGAAGAAACGCTGGAAGAGCACCAGCGTACGATTAGCTAT +TCCGTCCCCGTTTATAACGCGTTCGGCCTGGTGGAGCGGGAAATTCCCAAAACATTGAAT +GTGAAAATCCCGGCTGGCGTCAGCAACGGGCAACGAATCAGACTGAAAGGCCAGGGCACG +CCGGGGGAAAACGGCGGACCTAATGGCGATTTATGGCTCGTTATCCATATTGCCCCGCAT +CCGCTCTTTGATATCGTCAATCAGGATCTGGAAGTCGTCCTTCCGCTTGCCCCATGGGAG +GCGGCGCTCGGCGCTAAGGTGTCTGTGCCAACGCTTAAAGAGCGTATTTTGCTGACCATT +CCCCCCGGCAGCCAGGCAGGTCAGCGGCTGCGTATCAAAGGAAAAGGATTAGCCAGTAAA +AAGCACACTGGCGATCTCTATGCCATCATCAAAATCGTTATGCCGCCGAAACCTGACGAG +AAAACAGCTGCCCTGTGGCAACAACTGGCGGACGCGCAGTCGTCCTTTGACCCACGCCAG +CAATGGGGGAAAGCATAAATGGCTAACATCACTGTCACCTTTACCATCACCGAATTTTGT +TTGCACACCGGCGTGACGGAAGAGGAGCTAAACGAAATCGTCGGACTTGGCGTAATTGAG +CCTTACGAAGACGATAACGCCGACTGGCAATTCGACGATCGCGCAGCGAGCGTGGTACAA +CGCGCGCTACGCTTACGCGAGGAGCTGGCGCTCGACTGGCCAGGGATCGCGGTCGCGTTA +ACGCTGCTGGAAGAGAATTCACGGCTGCGCGAAGAAAACCGGTTACTGCTGCAACGCCTT +TCTCGCTTTATCTCGCATCCCTAAATGTCATCTTGTTGGAGATTTACGGATTCGCTAACA +AGCCTATGGCATACTGCGTTGATGAAGATTTTATTGATTGAAGATAACCAGAAAACCATT +GAGTGGGTACGTCAGGGACTCACGGAGGCAGGCTATGTGGTTGATTATGCCTGTGATGGA +CGAGACGGATTACACCTAGCCCTTCAGGAACATTATTCATTGATTATTCTTGATATTATG +CTGCCGGGGCTTGATGGATGGCAGGTTTTACGCGCGTTGCGCACTGCATATCAGCCCCCT +GTTATTTGCCTGACGGCGCGCGACTCGGTTGAGGATCGCGTCAAAGGTCTTGAGGCGGGC +GCTAATGATTACCTTGTTAAGCCTTTTTCCTTCGCCGAACTGCTGGCCCGGGTGAGAGCT +CAACTCAGACAGCATGTCCCGGTCTTTACCCGACTGACGATCAATGGTCTGGACATGGAT +GCCACAAAGCAATCGGTGTTACGAAATGGCAAACCGATTTCCCTGACCCGCAAAGAATTC +CTGCTCCTCTGGTTACTGGCGTCCCGGGCAGGGGAAATCGTGCCCCGAACCGCGATCGCC +AGCGAAGTTTGGGGAATTAACTTTGATAGTGAAACCAACACCGTTGATGTCGCGATTCGT +CGGCTGCGCGCCAAAGTAGACGATCCATTTGAAAAGAAGCTCATTATGACCGTCCAGGGG +ATGGGTTATCGATTACAGGCGGAAACGTCGCAGAATGGTTAAATGAAAAACAAATTGTTA +TTTATGATGTTGGCAATACTGGGTGCGCCTGGGATTGCAACCGCGACAAATTATGATCTG +GCTCGTTCAGAGGATAATTTTGCGGTAAATGAATTAAGCAAGTCTTCATTTAATCAGGCG +GCCATTATTGGTGAAGTCGGCACGGATAATAGTGCCAGAGTACGCCAGGAAGGATCAAAA +CTATTGTCCGTTGTTTCACAAGAAGGAGAAAATAATCGGGCGAAAGTCGACCAGGCAGGG +AATTATAACTTTGCGTATATTGAGCAAACGGGCAATGCCAACGATGCCAGTATATCGCAA +AGCGCTTACGGTGATAGTGCGGCTATTATCCAGAAAGGTTCTGGAAATAAGGCCAATATT +ACCCAGTACGGTGCGCAGAAAACAGCAGTTGTAGTGCAGAAACAGTCGCATATGGCTATT +CGCGTCACCCAAGGCTAAATGCATACTTTATTGCTCCTTGCCGCACTTTCAAATGAGATT +ACGTTTACCACGACTCAGCAAGGCGATATTTACACGGTGATCCCTCAGGTCACAGTAAAC +GAACCCTGCGTCTGTCTGGTGCAAATTCTCTCTGTGCGCGACGGCGTCGGGGGAGAAAGC +CATACACAGCAAAAACAAACGCTATCTTTACCTGCTAATCAACCGATTGAGTTGGCTCGT +CTTAGTGTAAATATATCTTCAGAGGACTCGGTTAAAATTATTGTTACTGTTTCGGACGGA +CAATCACTGCATTTATCACAACAATGGCCGCCTTCTGCACAGTAGATGTTTAATGAAGTC +CATAGTAGTCATGGTCACACACTATTGTTGATCACAAAGCCATCTCTGCAAGCTACGGCA +TTATTGCAACATTTAAAGCAATCGCTGGCCATAACCGGACAACTGCATAATATTCAACGT +TCTCTGGAAGATATCTCAGCCGGTTGCATTGTTTTAATGCATATGATGGAAGCGGATAAG +AAGCTTATCCACTATTGGCAGGATAATTTAAGCCGCAAACACAATAATATAAAAACATTA +TTGTTAAATACCCCTGACGATTATCCCTACCGTGAAATTCAAAACTGGCCTCATATTAAC +GGCGTGTTTTACGCCACTGAAGACCAGGAACACGTGGTCCGCGGATTACAGGGTATTCTG +CGGGGCGAATGCTATTTTTCACAAAAATTAGCCAGTTACCTGATTACACACTCAGGAAAT +TACCGCTACAACAGCACCGAGTCCGCATTACTCACTCATCGCGAAAAAGAGATCCTCAAT +AAGTTACGTATTGGTGCCTCTAATAATGAAATCGCCAGGCCGCTATTTATCAGCGAGAAT +ACGGTTAAGACACATCTTTATAATCTTTTCAAAAAGATACCTGTCAAAAATCGCACCCAG +GCAGTTTCATGAATGAAACGCTATCTGACCTGGATTGTAGCAGCAGAGTTACTGTTCGCT +ACCGGAAACCTCCATGCCAATGAAGTTGAAGTCGAGGTTCCCGGATTGTTAACCGACCAT +ACCGTCTCTTCCATAGGACATGAATTCTATCGTGCATTCAGCGACAAATGGGAAAGCGAA +TACACCGGCAACCTGACCATTAATGAAAGACCCAGTGCGCGTTGGGGAAGCTGGATCACC +ATAACGGTAAACCAGGACGTTATTTTCCAGACCTTTTTATTTCCAATGAAAAGAGACTTC +GAGAAAACCGTCGTCTTCGCATTAGCGCAAACAGAGGAAGCATTAAATCGCCGACAAATA +GATCAAACGCTCTTAAGTACGAGTGATTTAGCGCGTGATGAATTCTAAATGCGTGTTAAA +CATGCAGTAGTGCTGCTCATGCTTTTTTCGCCATTAACCTGGGCTCGAAATATGACGTTC +CAGTTCCGTAATCCTAACTTTGGTGGAAACCCCAATAACGGTTCCCTTTTATTGAATAGC +GCCCAGGCGCAAAATTCATATAAAGACCCCGCTTATGATAACGATCTTGGTATCGAGACC +CCCTCAGCGTTGGATAACTTTACGCAGGCTATTCAATCGCAAATTCTGGGCGGCTTGTTG +ACCAATATTAATACCGGAAAACCAGGACGTATGGTGACCAATGATCTTATTATCGATATC +GCTAATCGCGACGGACAGCTCCAGCTCAACGTCACGGACAGAAAACCGGGAAGAACCTCG +ACCATCGAAGTGTCAGGTTTACAAACTCAGTCAACCGATTTTTAAATGCCGCGCTTACTT +ATTTTGGTTGCCGTTTTATCGTTGAGCGGATGCTTAACTGCCCCGCCGAAACAAGCTGCG +AAACCGACATTAATGCCCCCCGCACAAAGTTACAAAGATTTGACGCACTTACCTGCTCCC +ACCGGTAAGATCTTTGTTTCGGTATATAACATTCAGGATGAAACGGGCCAATTTAAACCT +TACCCGGCAAGTAACTTTTCCACGGCTGTGCCGCAGAGCGCCACCGCTATGTTGGTCACC +GCGCTGAAAGATTCGCGCTCGTTTATCCCACTAGAACGACAAGGCTTACAGAATCTTTTG +AATGAACGGAAAATTATTCCCGCAGCCCAGGAAAACGGCACCGTGGCGATGAATAACCGT +ATCCCGCTTCAGTCGTTGACGGCGGCAAATATTATGGTGGAAGGTTCTATTATTGGTTAT +GAAAGTAACGTCAAATCCGCCGGGGTCGGCGCAAGATATTTCGGTATTGGCGCCGATACG +CAGTATCAGCTGGATCAGACTGCTGTCAACCTGCGCGTGGTTAACGTCAGTACGGGCGAG +ATCCTTTCTTCGGTGAACACCAGTAAAACGATCCTTTCCTATGAAGTACAGGCAGGCGTG +TTCCGTTTTATTGATTACCCGCGCTTACTGGAAGGCGAAATCGGCTATACCTCGAACGAA +CCGGTGATGCTGTGTCTGACGTCAGCCATTGAAACCGGCGTTATCTTCCTCATTAATGAT +GGTATCGATCGCGGACTGTCGGATTTGCAGAATAAAGCGGACAGGCAAAATGATATTCTG +GTGAAATACCGTGAGCTGTCAGTACCGCCAGAATCCTGAATGTCTATTGCCGTAAATATG +AATGACCCGACCAACACGGGCGTCAAAACGACGACCGGCAGCGGGTCGATGACCGGAAGC +AACGCTGCCGATCTGCAAAGCAGTTTCCTGACCTTACTGGTCGCGCAATTGAAGAACCAG +GACCCGACTAACCCATTACAAAATAATGAGTTAACGACACAGTTGGCGCAAATCAGTACC +GTGAGCGGCATTGAAAAACTGAATACGACGCTGGGGGCTATTTCCGGGCAAATCGATAAT +AGTCAGTCCCTACAGGCGACCACGCTGATTGGACATGGCGTTATGGTGCCTGGCACCACA +ATTCTGGCGGGTAAAGGCGCGGAAGAAGGGGCCGTGACGTCCACGACGCCGTTTGGCGTG +GAATTGCAACAGCCTGCGGACAAAGTGACGGCAACCATTACCGATAAAGATGGCCGGGTG +GTACGGACGCTGGAGATCGGTGAGTTGCGAGCCGGGGTACACACCTTTACCTGGGATGGT +AAGCAAACGGACGGAACAACGGTACCGAATGGTTCTTACAACATTGCGATTACCGCCAGC +AATGGCGGGACGCAACTGGTGGCGCAGCCGCTGCAATTCGCTCTGGTACAGGGCGTGACG +AAGGGCAGTAACGGCAACCTGTTGGATCTGGGTACCTACGGCACCACCACACTCGACGAA +GTTCGGCAAATAATCTAAATGTCTTTTTCTCAAGCGGTTAGCGGCCTGAACGCTGCGGCC +ACCAACCTTGATGTTATCGGTAATAACATCGCCAACTCCGCCACCTATGGCTTTAAGTCC +GGTACGGCATCATTTGCCGATATGTTCGCCGGTTCCAAAGTGGGGTTGGGCGTAAAAGTG +GCGGGGATTACCCAGGATTTTACCGACGGTACGACAACGAACACCGGGCGCGGGCTGGAT +GTCGCGATTAGCCAGAACGGTTTTTTCCGCCTGGTAGACAGCAACGGTTCCGTGTTCTAT +AGCCGCAACGGCCAGTTCAAACTGGACGAGAACCGTAACCTGGTCAATATGCAGGGGATG +CAGTTGACCGGCTATCCGGCCACCGGTACGCCGCCGACCATTCAGCAGGGGGCGAATCCT +GCGCCGATCACCATTCCGAACACGCTGATGGCGGCGAAATCGACCACCACCGCGTCAATG +CAGATCAACCTGAACTCAACGGACCCTGTACCGTCTAAAACGCCCTTTAGCGTGAGTGAT +GCGGATTCGTATAACAAAAAAGGCACCGTCACCGTTTATGACAGCCAGGGTAATGCCCAT +GACATGAACGTCTATTTTGTGAAAACCAAAGATAATGAATGGGCTGTGTACACCCATGAC +AGCAGCGATCCTGCAGCCACTGCGCCAACAACGGCGTCCACTACGCTGAAATTCAATGAA +AACGGGATTCTGGAGTCTGGCGGTACGGTGAACATCACCACCGGTACGATTAATGGCGCG +ACAGCGGCCACCTTCTCCCTCAGCTTCCTTAACTCCATGCAGCAGAACACCGGGGCTAAT +AACATCGTCGCCACCAATCAAAACGGCTATAAGCCTGGCGACCTGGTGAGCTACCAGATT +AACAATGATGGCACCGTGGTTGGCAACTACTCCAACGAGCAGGAGCAGGTGCTGGGGCAG +ATTGTGCTGGCTAACTTCGCCAACAACGAAGGTCTGGCATCCCAGGGCGATAACGTCTGG +GCGGCGACGCAGGCCTCCGGGGTAGCGCTGCTGGGGACTGCCGGTTCCGGCAACTTCGGT +AAGCTGACGAACGGCGCGCTGGAAGCCTCTAACGTGGATTTGAGTAAAGAGCTGGTGAAT +ATGATCGTCGCGCAGCGTAACTACCAGTCGAATGCGCAGACCATCAAAACCCAGGACCAG +ATCCTCAATACGCTGGTTAACCTGCGCTAAATGGATCACGCAATTTATACCGCCATGGGG +GCGGCCAGCCAGACGCTTAACCAGCAGGCGGTAACGGCCAGCAACCTGGCTAATGCCTCA +ACGCCGGGCTTTCGCGCGCAGCTTAACGCGCTACGCGCGGTGCCCGTTGATGGCCTCTCT +TTAGCGACGCGCACGTTGGTTACGGCGTCGACGCCGGGGGCGGATATGACCCAGGGTCAG +TTGGACTACACTTCCCGCCCGCTGGATGTTGCGTTACAGCAGGACGGCTGGCTGGTGGTG +CAAGCGGCGGATGGCGCTGAAGGATATACCCGTAACGGGAATATCCAGGTGGGCCCGACC +GGGCAGTTAACCATTCAGGGACATCCGGTTATCGGCGAAGGCGGCCCGATTACCGTTCCG +GAAGGGTCGGAAATCACCATTGCGGCAGACGGCACGATCTCCGCGCTCAATCCCGGCGAC +CCGCCAAACACGGTGGCGCCCGTTGGGCGGCTGAAGCTGGTCAAAGCGGAAGGCAATGAG +GTGCAGCGGAGCGATGACGGTTTATTCCGCCTTACCGCCGAGGCACAGGCTGAACGCGGG +GCGGTACTGGCCGCCGACCCGTCAATTCGCATTATGTCGGGCGTGCTGGAGGGCAGTAAC +GTCAAGCCGGTTGAAGCCATGACCGACATGATCGCCAACGCACGTCGTTTTGAAATGCAG +ATGAAGGTTATCACCAGCGTAGATGAGAACGAAGGGCGAGCTAACCAACTGCTGTCGATG +AGTTAAATGATCAGTTCATTATGGATCGCCAAAACCGGTCTGGACGCGCAGCAAACCAAT +ATGGATGTGATTGCCAATAACCTGGCAAACGTCAGCACCAATGGTTTTAAGCGTCAGCGC +GCGGTATTTGAAGATCTGTTGTATCAGACCATCCGCCAGCCGGGCGCGCAGTCGTCCGAG +CAGACGACGCTGCCTTCCGGGCTGCAAATCGGTACCGGCGTGCGTCCGGTCGCCACGGAG +CGCCTGCACAGTCAGGGGAACCTGTCGCAGACCAACAACAGTAAAGATGTGGCGATTAAA +GGGCAGGGCTTTTTCCAGGTCATGCTGCCGGACGGTACGTCTGCCTATACCCGCGACGGC +TCTTTCCAGGTGGATCAGAATGGTCAACTGGTGACGGCGGGCGGTTTTCAGGTGCAGCCG +GCAATCACCATTCCGGCCAACGCGTTAAGCATCACGATTGGCCGCGACGGCGTGGTCAGC +GTTACCCAGCAAGGGCAGGCCGCGCCGGTTCAGGTCGGGCAGCTTAACCTGACCACCTTT +ATGAACGACACCGGTCTGGAAAGCATCGGCGAGAACCTCTATATCGAAACGCAATCGTCC +GGCGCGCCGAACGAAAGCACGCCGGGGCTCAACGGCGCGGGGTTGTTGTATCAAGGGTAT +GTCGAAACGTCGAACGTTAACGTGGCGGAAGAGCTGGTGAACATGATTCAGGTTCAACGC +GCCTATGAAATTAACAGTAAAGCAGTATCGACGACCGATCAGATGCTGCAGAAACTGACG +CAACTCTAAATGGCCCTGATGGTCGCGACGCTGACAGGATGCGCCTGGATACCCGCTAAA +CCGCTCGTGCAGGGGGCGACCACGGCGCAGCCGATACCTGGCCCGGTACCGGTGGCGAAT +GGCTCCATATTTCAGTCTGCGCAGCCGATTAATTATGGCTATCAGCCGCTTTTTGAAGAT +CGTCGACCGCGTAATATCGGCGATACGCTCACGATTGTGTTACAGGAAAACGTCAGCGCC +AGTAAAAGCTCGTCGGCAAATGCCAGCCGCGACGGCAAAACCAGCTTTGGTTTTGATACG +GTACCGCGTTATCTGCAGGGATTATTCGGTAATTCCCGCGCGGATATGGAGGCCTCCGGC +GGCAACTCTTTTAATGGTAAAGGCGGCGCGAATGCCAGCAATACCTTTAGCGGCACGCTG +ACCGTGACCGTCGATCAGGTTCTGGCCAATGGCAATTTACACGTCGTGGGGGAAAAACAG +ATCGCGATTAATCAGGGAACGGAATTCATCCGCTTCTCCGGCGTGGTAAATCCACGCACC +ATCAGCGGTAGCAACTCTGTTCCCTCGACACAGGTGGCGGATGCGCGGATTGAATATGTC +GGGAACGGCTATATTAACGAAGCGCAAAATATGGGCTGGCTGCAACGTTTCTTCCTTAAT +TTGTCGCCGATGTAAGTGTTTAAAGCTCTTGCAGGAATCGTTCTGGCACTGGTTGCCACT +CTGGCGCACGCCGAGCGTATCCGGGATCTGACCAGTGTCCAGGGAGTACGGGAAAACTCG +CTGATCGGCTACGGGCTGGTGGTCGGGCTGGACGGTACGGGCGACCAGACGACCCAGACG +CCATTTACCACCCAGACGCTGAATAACATGCTGTCACAACTGGGGATTACGGTCCCCACC +GGCACCAATATGCAGTTGAAAAACGTGGCGGCGGTGATGGTGACGGCGTCGTATCCGCCT +TTTGCGCGACAGGGACAAACGATCGATGTCGTCGTTTCCTCAATGGGGAACGCTAAAAGT +CTGCGTGGCGGGACGTTATTAATGACGCCGTTAAAAGGGGTGGACAGCCAGGTGTATGCT +CTGGCGCAGGGCAATATTCTGGTCGGCGGCGCGGGCGCTTCCGCAGGCGGCAGTAGCGTG +CAGGTTAACCAGCTTAATGGCGGGCGCATCACTAATGGCGCGATTATCGAACGCGAGTTG +CCGACTCAGTTCGGCGCTGGCAACACCATTAATCTGCAATTGAACGACGAAGATTTTACG +ATGGCGCAGCAAATTACCGACGCCATCAACCGCGCCCGCGGTTACGGCAGCGCCACTGCG +CTTGATGCGCGAACGGTACAGGTACGCGTGCCCAGCGGCAACAGCTCGCAGGTGCGTTTT +CTGGCGGACATTCAAAATATGGAAGTCAACGTGACGCCGCAGGATGCAAAAGTCGTGATC +AACTCGCGTACCGGTTCGGTGGTCATGAATCGGGAAGTCACGCTGGATAGCTGCGCTGTG +GCGCAGGGCAATTTGTCAGTGACAGTCAATCGCCAACTCAACGTCAACCAGCCGAATACG +CCATTTGGCGGCGGGCAGACCGTGGTGACGCCACAGACTCAGATAGATTTGCGTCAGAGC +GGCGGATCGCTACAGAGCGTGCGTTCCAGCGCCAATCTGAACAGCGTAGTGCGCGCGCTG +AATGCGCTTGGCGCGACGCCGATGGATCTGATGTCGATTTTGCAGTCCATGCAGAGCGCG +GGCTGTCTACGCGCCAAACTGGAAATCATCTGAATGATCGGAGACGGTAAATTGCTGGCC +AGCGCGGCCTGGGATGCGCAATCTCTGAACGAACTGAAAGCGAAAGCGGGCCAGGACCCG +GCGGCGAATATCCGTCCTGTGGCCCGTCAGGTGGAAGGGATGTTTGTGCAGATGATGCTG +AAAAGTATGCGCGAGGCTTTACCCAAAGATGGTTTATTCAGCAGCGATCAGACGCGTCTG +TATACCAGCATGTATGACCAGCAGATCGCCCAGCAGATGACCGCCGGTAAGGGATTGGGG +CTGGCGGATATGATGGTTAAACAGATGACGGGCGGGCAGACGATGCCTGCAGATGATGCG +CCGCAAGTACCGCTTAAATTCTCCCTGGAGACGGTAAACAGCTATCAAAATCAGGCGCTG +ACCCAACTGGTGCGCAAAGCCATACCGAAAACGCCGGACAGCAGCGATGCGCCGCTCTCC +GGCGACAGTAAAGACTTTCTGGCCCGGCTTTCGCTCCCGGCGAGGCTGGCCAGCGAACAA +AGCGGGGTGCCGCATCATCTGATTCTGGCGCAGGCGGCGCTGGAGTCCGGCTGGGGGCAG +CGGCAAATCCTGCGGGAGAATGGCGAACCCAGCTATAACGTATTTGGCGTGAAAGCGACC +GCCAGTTGGAAAGGGCCGGTGACGGAAATCACCACCACTGAATACGAAAATGGCGAAGCG +AAAAAAGTGAAAGCGAAATTCCGCGTCTATAGCTCGTATCTGGAGGCGTTATCGGATTAT +GTCGCGCTGTTAACGCGTAACCCACGCTACGCTGCCGTGACCACTGCCGCCACGGCAGAG +CAGGGCGCAGTGGCTCTGCAAAACGCCGGATACGCCACTGACCCGAATTACGCGCGTAAA +TTGGCCAGCATGATTCAGCAGTTGAAAGCGATGAGTGAAAAGGTCAGCAAAACCTACAGC +GCGAATCTCGACAATCTCTTTTAAATGTCCAGCTTGATTAATCACGCCATGAGCGGACTT +AACGCCGCGCAGGCCGCGTTAAATACGGTCAGTAATAACATCAACAATTATAACGTTGCG +GGTTATACCCGGCAGACAACTATTCTGGCGCAGGCAAACAGTACGTTAGGGGCTGGCGGC +TGGATAGGTAATGGCGTTTACGTTTCAGGCGTACAGCGCGAATATGATGCGTTTATCACT +AATCAGCTACGCGGCGCGCAAAACCAGAGCAGCGGCTTAACCACGCGCTATGAACAAATG +TCGAAAATCGACAACCTGCTGGCCGATAAATCCAGCTCACTGTCTGGCTCGCTGCAGAGT +TTTTTTACCAGCCTGCAAACGTTAGTCAGTAATGCGGAAGATCCTGCGGCGCGTCAGGCG +CTGATTGGTAAAGCGGAAGGGCTGGTAAACCAGTTCAAAACCACCGATCAGTATCTGCGC +GATCAGGATAAACAGGTCAATATCGCGATTGGCTCCAGCGTGGCGCAAATCAACAATTAC +GCGAAGCAGATAGCTAACCTGAACGATCAAATCTCCCGTATGACGGGCGTAGGCGCGGGC +GCATCGCCGAACGACCTGCTCGATCAACGTGATCAGTTGGTTAGCGAGCTTAACAAGATC +GTTGGCGTCGAGGTGAGTGTACAGGACGGCGGCACCTATAACCTGACGATGGCCAATGGC +TATACGCTGGTGCAGGGGTCGACGGCGCGTCAGTTGGCGGCGGTTCCCTCCAGCGCCGAC +CCGACGCGAACGACTGTCGCTTATGTCGATGAGGCCGCCGGTAACATCGAAATTCCGGAA +AAGTTGCTGAACACCGGTTCGCTCGGCGGGCTACTGACGTTCCGTTCTCAGGATCTGGAT +CAGACTCGTAATACGCTGGGCCAGTTGGCGTTGGCGTTTGCCGATGCGTTTAACGCGCAG +CATACCAAAGGTTATGACGCCGACGGCAATAAAGGGAAAGACTTCTTTAGCATTGGCTCG +CCGGTGGTATATAGCAACAGTAATAATGCCGATAAAACGGTATCGCTAACCGCTAAGGTG +GTCGACAGCACGAAGGTTCAGGCGACGGATTATAAGATTGTTTTTGACGGTACAGACTGG +CAGGTTACTCGCACTGCGGATAACACCACCTTCACGGCAACAAAAGATGCTGACGGAAAA +CTGGAGATTGACGGTCTGAAAGTGACGGTAGGGACTGGCGCACAGAAAAACGACAGTTTT +CTTCTCAAGCCGGTCAGCAATGCTATCGTCGACATGAACGTTAAAGTGACAAATGAAGCC +GAGATTGCGATGGCGTCTGAGTCAAAACTCGATCCTGATGTGGATACCGGCGACAGCGAT +AACCGCAATGGTCAGGCATTGCTGGACTTACAAAACAGCAATGTAGTGGGCGGCAACAAA +ACCTTTAACGATGCTTACGCCACGTTGGTCAGCGATGTGGGTAACAAAACGTCAACGCTG +AAAACCAGCAGCACCACGCAGGCGAATGTGGTTAAACAGCTTTATAAACAGCAACAGTCG +GTTTCCGGCGTTAACCTCGACGAAGAGTACGGCAATTTGCAGCGTTATCAGCAGTATTAT +CTGGCGAATGCGCAAGTATTGCAGACCGCGAATGCGCTGTTTGATGCGTTATTGAATATT +CGCTAAATGCGTATCAGTACCCAGATGATGTACGAACAAAATATGAGCGGCATCACTAAT +TCTCAGGCCGAATGGATGAAGCTGGGCGAGCAGATGTCTACCGGTAAGCGCGTTACCAAC +CCATCTGACGATCCGATCGCCGCGTCGCAGGCGGTAGTACTCTTTCAGGCGCAGGCGCAG +AATAGCCAGTACGCCCTGGCGCGTACGTTTGCCACCCAAAAAGTGTCGCTGGAAGAAAGC +GTACTCAGTCAGGTGACGACGGCGATTCAAACCGCGCAGGAAAAAATCGTCTATGCCGGA +AACGGCACGTTAAGCGACGATGACCGCGCGTCGCTGGCGACGGATTTACAGGGGATCCGC +GATCAGCTGATGAACCTGGCAAACAGCACTGACGGCAATGGTCGCTATATCTTTGCCGGG +TATAAAACGGAAGCGGCGCCATTCGACCAGGCGACAGGTGGTTATCATGGCGGCGAGAAA +AGTGTTACCCAGCAGGTGGATTCCGCACGCACGATGGTAATTGGCCATACGGGAGCGCAA +ATTTTTAATAGCATCACCAGCAATGCGGTGCCGGAACCGGATGGCTCGGACTCCGAAAAG +AATCTGTTTGTCATGCTCGATACGGCAATTGCCGCGCTCAAGACCCCGGTGGAAGGCAAT +GACGTGGAAAAAGAAAAAGCCGCTGCCGCCATTGATAAAACCAATCGCGGCTTAAAAAAT +TCGCTTAATAACGTCCTGACCGTTCGTGCGGAACTGGGAACGCAACTGAGCGAACTCAGT +ACGCTGGATTCACTGGGAAGCGACCGTGCGCTGGGACAGAAGCTACAGATGAGCAACCTG +GTAGATGTGGACTGGAACTCGGTCATTTCCTCCTACGTCATGCAACAGGCGGCATTACAG +GCGTCCTATAAAACGTTTACCGACATGCAGGGAATGTCGCTTTTCCAGTTGAACCGGTAA +ATGGAGATAATTTTTTATCACCCGACATTTAACGCCGCCTGGTGGGTAAATGCGCTGGAG +AAGGCTCTCCCACATGCGCGCGTTCGTGAATGGAAGGTCGGTGATAACAACCCCGCAGAC +TATGCGCTTGTATGGCAGCCCCCGGTTGAAATGCTGGCCGGAAGACGCTTAAAAGCCGTC +TTTGTGCTGGGCGCGGGGGTGGATGCAATTCTGAGTAAATTAAATGCGCATCCGGAAATG +CTGGACGCCTCCATTCCTCTATTCCGTCTGGAAGATACCGGAATGGGCCTGCAAATGCAG +GAGTATGCCGCCAGCCAGGTATTACACTGGTTCCGTCGTTTCGATGATTATCAGGCGCTG +AAAAATCAGGCGCTATGGAAACCGTTGCCGGAATATACCCGCGAAGAGTTTAGCGTCGGT +ATCATAGGCGCAGGGGTACTGGGCGCAAAAGTGGCAGAAAGTCTACAGGCGTGGGGGTTC +CCGTTACGTTGCTGGAGTCGTAGCCGCAAATCCTGGCCTGGCGTGGAAAGTTATGTAGGG +CGTGAAGAACTGCGCGCTTTCCTGAACCAGACGCGGGTGCTGATTAATCTGCTGCCGAAT +ACGGCCCAAACGGTAGGAATTATTAATAGCGAATTGTTGGATCAATTGCCGGATGGCGCT +TACGTGCTGAATCTCGCGCGCGGCGTTCATGTTCAGGAGGCGGATCTGCTGGCTGCGCTT +GATAGCGGTAAGCTAAAAGGCGCGATGTTGGATGTCTTTAGCCAGGAACCGTTACCGCAG +GAAAGTCCATTATGGCGCCATCCGCGAGTCGCCATGACGCCGCACATTGCGGCAGTCACC +CGTCCGGCGGAAGCCATCGATTATATTAGCCGCACCATTACCCAGCTGGAGAAGGGAGAG +CCGGTGACGGGGCAGGTGGATCGGGCGAGAGGATATTGGATGTCCGTAATCAAGAAAAAT +ATCCCTGCCATAGGCCTGTGTATCTGCGCTTTTTTTATCCATTCTGCGGTAGGGCAACAA +ACGGTACAGGGCGGCGTTATCCATTTTCGCGGCGCGATTGTTGAGCCACTGTGCGATATT +TCTACTCACGCCGAAAATATTGATTTAACCTGCCTACGCGAAGGTAAAAAGCAAATGCAC +CGGATAGACCTTCGGCAGGCATCTGGATTACCGCAGGATATTCAGTCCATTGCGACGGTA +CGGCTGCATTATCTCGATGCGCAAAAAAGCCTGGCGGTGATGAATATTGAGTACCGTTAA +ATGGCAAACCATCGTGGCGGTTCCGGTAATTTTGCGGAAGACCGCGAAAGAGCATCAGAA +GCAGGTCGTAAAAGTGGTCAGCACAGCGGGGGCAATTTTAAGAATGACCCGCAGCGTGCA +TCCGAAGCAGGCAAAAAAGGGGGCAAAAGCAGTAACCGTAATCGCTAGATGGTAATGTCC +GCACCAGGACACATTGTTTACAGTAGTTACAACACCCTGTACGGACATTCTCTCTCCGGT +GGTGGTCTTGTCATCTTAAAAGCTCTCATCATTTCCCTTACTGTCCATACCCATGACGCC +ATATGTGGTGCGCGTAGCCGTGTGTGGCGTCGTTTCAAAAAGCAAGCTAAGGCTTACAAG +GAAGCCAACCCTCAGATGTGTGTGCGCATAATCGCGTTCAAGAGAACGCGGGTGATGTAT +ACCTACAACTCAAGGTGCTATCCATGGGAAGACAAAAAGCAGTGAATGAAACGAATTTTC +CTTACCTGCGCGGCGTTGTTGTTCAGCAGTCAGGCGTTGGCCGATGAGTGTGCCAGCGCC +AGTACGCAGCTGGAAATGAATCGCTGCGCCGCCGCGCAATACCAGGCGGCAGATAAAAAG +CTGAACGAAACCTATCAAAGCGCGATTAAGCGTGCGCAACCGCCGCAGCGTGAGCTATTG +CAAAAAGCGCAGGTGGCATGGATTGCCCTGCGCGACGCCGATTGCGCGCTGATTCGCTCA +GGTACGGAGGGCGGCAGCGTTCAACCCATGATCGCCAGCCAGTGCCTGACCGATAAAACG +AACGAACGCGAAGCGTTTTTAGCCTCGCTGCTGCAATGTGAAGAGGGTGATTTGAGCTGC +CCACTGCCGCCAGCCGGTTAAGTGCGTATATTCGCGGTGAGCATAATGGTGATTACCCTG +AGCGGCTGCGGCAGTATTATCAGCAGAACGATCCCCGGACAAGGACACGGCAACCAGTAT +TACCCTGGCGTGCAGTTGGATATGCGTGATTCCGCATGGCGCTATATCACTATCCTCGAT +CTGCCCTTCTCACTGATCTTCGATACACTGCTACTGCCGCTCGATATTCACCACGGGCCT +TATGAGTAAATGTGCCAACGTGCGATCGCCAATATTGATATCAGCAAAGAGTATGACGAA +AGCATGGGCAGTAACGATGTGCATTATCAGTCGTTTGCTCGTATGGCGGATTTCTTTGGT +CGTGATATGCAGGCGCATCGCCACGACCAGTTTTTTCAAATGCACTTTCTTGATACCGGG +CAGATTGAGCTACAGCTCGACGATCATCGCTATTCGGTGCAGGCGCCGCTATTTGTGCTA +ACGCCGCCCTCGGTGCCGCATGCTTTTATTACCGAATCGGATAGCGATGGTCATGTTCTG +ACGGTACGCGAAGAGCTGGTTTGGCCGCTGCTGGAAGTGCTTTATCCCGGCACCAGAGAG +GCCTTCGGCCTGCCGGGAATCTGCCTGTCGCTGGCGGATAAACTCAACGAGCTGGCGGCG +CTCAAACATTACTGGCAGCTAATTGAGCGGGAGTCCACGGAACAACTGGCTGGCTGCGAA +CATACCTTGGTACTACTGGCGCAGGCGGTATTTACCTTGCTGTTGCGTAATGCGAAGCTG +GACGATCATGCCGCAACCGGGATGCGCGGTGAACTGAAACTTTTTCAGCGCTTTACCCTG +TTAATTGACAACCACTTCCATCAGCACTGGACGGTGCCCGATTATGCCTGTGAGTTGCAT +ATTACCGAATCTCGTTTGACCGATATTTGCCGACGTTTTGCTAATCGCCCGCCTAAACGC +CTGATTTTTGATCGGCAATTACGCGAGGCGAAACGACTGCTGCTTTTTTCCGACAATGCT +GTCAACGAGATCGCCTGGCAATTAGGTTTTAAAGATCCGGCTTATTTCGCCCGTTTCTTT +AATCGCCTTGCTGGCTGTTCTCCTTCGCAGTTTCGCCAACGTGAAGTTCCTTCTTTTCTC +AACTAAATGGGACGCACACCGGATTACAAAGCCGCCTTTGGCTGCGCTCTGGGCGCTAAC +CCAGCCTTCTACGGCCAGTTTGAGCAGAACGCCCGTAACTGGTACACCCGTATTCAGGAG +ACCGGCCTGTACTTTAACCATGCAATCGTCAACCCGCCCATTGACCGCCACAAACCTGCC +GACGAAGTGAAAGACGTCTATATCAAGCTGGAGAAAGAGACGGACGCCGGGATTATTGTC +AGCGGGGCGAAAGTTGTCGCCACTAACTCCGCCCTGACTCACTACAACATGATTGGTTTC +GGCTCAGCCCAGGTGATGGGCGAAAACCCGGATTTTGCTCTGATGTTTGTCGCGCCAATG +GATGCCGAAGGCGTAAAACTTATTTCGCGCGCCTCGTATGAAATGGTCGCGGGCGCGACG +GGCTCGCCGTTTGATTATCCCCTCTCCAGCCGTTTTGATGAAAACGATGCCATTCTGGTG +ATGGACAAGGTGCTGATCCCGTGGGAAAACGTATTAATTTACCGTGATTTCGATCGTTGT +CGTCGCTGGACGATGGAAGGCGGCTTTGCCCGTATGTATCCACTGCAAGCCTGTGTTCGT +CTGGCGGTAAAACTTGATTTCATTACCGCGCTGCTGAAAAAATCGCTCGAATGTACGGGT +ACCGTAGAGTTCCGGGGCGTGCAGGCCGATCTCGGCGAAGTCGTGGCCTGGCGCAATATG +TTCTGGGCATTGAGCGATTCTATGTGTTCTGAAGCAACCCCGTGGGTAAACGGCGCCTGG +CTACCGGACCACGCCGCGCTGCAAACCTATCGTGTGATGGCCCCAATGGCCTACGCGAAA +ATTAAAAATATTATTGAACGTAACGTTACCAGCGGCCTGATTTACCTGCCTTCCAGCGCC +CGCGATCTGAATAATCCGCAAATCGACCAGTACCTGGCGAAATACGTACGCGGCTCTAAC +GGAATGGACCATGTTGAACGTATCAAAATTCTTAAATTGATGTGGGATGCCATCGGCAGC +GAGTTTGGCGGTCGCCATGAGCTGTACGAGATTAACTACTCGGGCAGCCAGGATGAAATT +CGTCTGCAGTGTCTGCGTCAGGCCCAGAGCTCCGGCAATATGGATAAGATGATGGCAATG +GTCGATCGCTGCCTCTCCGAATACGATCAGAATGGCTGGACGGTTTCGCATTTGCACAAT +AACGACGACATCAATCAACTGGATAAGCTGCTGAAATAAATGCAAGTAGATGAACAACGT +CTGCGTTTTCGCGATGCGATGGCAAGTCTGGCGGCAGCGGTCAACATCGTAACCACGGCG +GGTCACGCCGGACGCTGCGGTATCACCGCAACAGCGGTTTGCTCAGTCACTGATACGCCG +CCCTCCGTGATGGTATGTATTAATGCCAATAGCGCCATGAACCCCGTTTTTCAGGGCAAC +GGCAGGCTGTGCATTAATGTACTTAACCATGAGCAGGAGCTGATGGCGCGCCACTTTGCC +GGTATGACGGGGATGGCGATGGAGGAGCGTTTTCACCAGCCATGTTGGCAAAACGGGCCG +CTGGGCCAGCCGGTACTTAACGGCGCGCTGGCCAGTCTTGAAGGCGAGATCAGCGAGGTA +CAAACCATTGGCACGCATCTGGTGTATCTGGTGGCGATCAAAAATATTATTCTTAGCCAG +GAGGGGCATGGCCTGATTTATTTCAAACGCCGTTTTCATCCGGTCAGACTTGAGATGGAA +GCGCCTGTTTAAATGAAGGGTACTGTTTTCGCCGTTGCGTTAAACCATCGCAGCCAGCTT +GATGCCTGGCAAGAGGCTTTCTCTCAGCCTCCCTATAATGCGCCGCCTAAAACCGCAGTG +TGGTTCATCAAGCCGCGTAATACGGTGATTCGTCACGGCGAACCCATTCCTTATCCGCAG +GGAGAAAAGGTACTGAGCGGCGCGACAGTGGCGCTCATTGTGGGGAAAACCGCCAGCCGG +ATACGCCCTGAAGCGGCGGCGGACTATATCGCCGGGTATGCGCTGGCTAACGAGGTCAGC +CTGCCGGAAGAGAGCTTTTATCGCCCGGCGATTAAAGCGAAATGTCGCGATGGCTTTTGC +CCGCTGGGTGAAATGGCGCCGCTGAGTGATGTGGATAATCTCACCATTATCACTGAAATC +AACGGACGAGAAGCGGACCACTGGAATACTGCCGATTTACAGCGTAGCGCCGCACAACTG +CTTAGCGCGTTAAGTGAGTTCGCTACACTTAACCCTGGCGATGCGATCTTACTTGGTACG +CCGCAGAATCGCGTTGCGCTGCGTCCCGGCGATCGGGTGCGTATTCTGGCGAAAGGTTTA +CCCGCGCTGGAAAATCCGGTTGTCGCAGAAGATGAATTCGCCCGCCACCAGACGTTTACG +TGGCCGCTGTCAGCGACGGGAACGTTATTTGCGCTGGGGTTGAACTACGCCGATCACGCC +AGCGAGCTGGCATTTACGCCGCCGAAAGAGCCGCTGGTATTTATCAAAGCGCCAAACACC +TTTACCGAACATCACCAAACGTCGGTGCGCCCGAACAACGTCGAATATATGCACTACGAA +GCCGAGCTGGTCGTGGTGATTGGCAAAACGGCGCGTAAGGTGAGCGAAGCCGAAGCCATG +GAGTATGTGGCCGGTTACACCGTCTGTAACGACTACGCGATCCGCGACTATCTGGAAAAC +TACTACCGTCCGAATCTGCGGGTAAAAAGCCGCGACGGCCTGACGCCGATAGGCCCGTGG +ATTGTGGATAAAGAGGCGGTTTCTGATCCGCACAACCTGACGTTACGCACCTTTGTCAAC +GGTGAGCTGCGGCAGGAAGGGACGACCGCCGATCTGATCTTCAGCATCCCGTTCCTGATT +TCTTATCTGAGCGAATTTATGACGTTGCAACCGGGCGACATGATTGCCACCGGTACGCCG +AAAGGGCTGTCCGATGTGGTGCCGGGGGATGAAGTTGTCGTTGAAGTAGAAGGCGTGGGT +CGCCTGGTTAACCGAATCGTCAGTGAGGAGAGCGCAAAATGAATGAAAAATGCTTTCAAA +GACGCGTTAAAAGCGGGGCGCCCGCAAATCGGTTTGTGGCTGGGGCTTGCCAACAGTTAC +AGCGCTGAACTGTTAGCGGGCGCCGGCTTCGACTGGCTACTGATTGACGGTGAACACGCG +CCAAACAACGTGCAGACGGTGTTGACCCAGTTGCAGGCGATTGCGCCTTATCCCAGCCAG +CCGGTGGTGCGTCCGTCATGGAACGATCCGGTACAGATTAAGCAACTGCTCGACGTCGGC +GCGCAAACGCTGCTGATACCGATGGTGCAGAATGCCGATGAAGCGCGAAACGCCGTGGCG +GCTACGCGTTATCCGCCTGCCGGTATTCGCGGCGTGGGCAGCGCGCTGGCGCGGGCATCG +CGCTGGAATCGCATTCCGGACTATCTCCACCAGGCCAACGACGCCATGTGCGTACTGGTG +CAGATTGAAACGCGTGAGGCGATGAGCAATCTGGCGTCAATTCTCGACGTGGATGGCATT +GACGGCGTGTTTATTGGCCCGGCGGATCTCAGCGCCGATATGGGCTTTGCCGGCAATCCG +CAGCACCCGGAAGTGCAGGCGGCGATTGAGAACGCCATCGTGCAGATACGCGCGGCGGGG +AAAGCGCCGGGGATTCTGATGGCCAATGAAGCACTGGCGAAACGTTATCTGGAACTGGGG +GCGCTATTTGTCGCCGTCGGCGTTGACACCACGCTGCTGGCGCGCGGAGCGGAGGCGCTG +GCGGCGCGCTTTGGCGCAGAAAAAAAACTGTCCGGTGCGTCCGGCGTCTATTAAATGCAT +GATTCATTAACCATCGCCTTGCTTCAGGCGCGCGAAGCGGCAATGACCTATTTCCGCCCC +ATCGTTAAAAGCCACAATCTGACCGACCAGCAATGGCGCATTGTGCGAATCCTGGCCGAT +AGCCCCTCTATGGATTTTCACGAGCTGGCCTTTCGTACCTGTATTTTGCGTCCAAGTCTG +ACCGGAATATTGACGCGCATGGAGCGAGACGGACTGGTGTTGCGACTCAAGCCGGTTAAC +GATCAGCGTAAGTTATATGTCATGTTGACGGAGCAGGGACAAACGTTGTACGCCCGTGCC +CGGAGCGAGGTAGAAGAGGCTTATCGAAAAATTGAGGCCGATTTCACGCCCGAAAAAACA +CAGCAATTGATGCTGCTGCTGGACGATCTTATTGCTCTGGGGCGCCAGCATCCTGATAGC +GAAGCGGAAGCATAGATGAGCGACACATCATCTGCACTTCCGGAAAGCCCCGAGTCTGTC +GGTTCGCACAACGCGCTCAGCACGGGTCAACAAACCGTCATAAATAAACTGTTCCGCCGA +CTGATCGTATTTTTATTCGTGTTGTTTATCTTCTCGTTTTTAGACCGTATCAACATCGGT +TTTGCCGGGTTGACGATGGGGCAGGATCTGGGGTTAAGCGCCACCATGTTTGGTCTTGCC +ACGACGCTGTTTTACGCCACCTACGTCATTTTCGGCATTCCCAGCAACGTGATGTTGAGC +ATCGTCGGCGCCCGCCGCTGGATTGCGACCATTATGGTGCTATGGGGCATTGCATCTACC +GCCACGATGTTCGCGGTGGGACCGAAAAGCCTGTATGTGCTGCGAATGCTGGTGGGCATT +ACCGAAGCGGGCTTTTTGCCAGGAATATTGCTCTATTTAACCTACTGGTTCCCGGCATTT +TTCCGCGCCCGCGCCAACGCATTATTTATGATTGCCATGCCGGCCACTACCGCGTTGGGG +TCAATTGTCTCCGGCTATATTTTATCGCTGGACGGCATATTCAATCTGCATGGATGGCAG +TGGTTATTCCTGTTGGAAGGATTTCCGTCAGTTTTGTTAGGCATTATGGTCTGGTTTTAC +CTGGATGATACCCCGGCAAAAGCCAAATGGCTGACGGCAGAGGATAAAAAATGTTTGCAG +GAGATGATGGATAATGATCGCCTGACGCTGGTTCAGCCTGAGGGGGCCATCAGCCATAAC +GCCATGCAGCAGCGTAGCCTGTGGCGCGAAGTATTCACGCCAATTGTACTGATGTATACG +CTGGCCTATTTTTGCCTTACCAATACGCTTAGCGCCATTAGTATCTGGACGCCGCAAATC +CTGAAAAGTTTTAATGAAGGCAGCAGCAATATCACCATCGGCCTGCTGGCGGCGATCCCG +CAGATTTGTACTGTTCTGGGCATGATTTACTGGAGCCGCCATTCGGACAAACATCAGGAG +CGTAAACACCACACTGCGTTACCGTTCCTGTTTGCCGCCGCGGGCTGGCTGCTGGCGTCG +GCGACCGACCGTAACCTGATCCAGCTCCTGGGGATCGTGATGGCATCCACGGGTTCCTTT +AGCGCGATGGCGATCTTCTGGACCACGCCGGATCAGTCGATCAGTTTACGCGCCAGGGCG +ATAGGCATTGCGGTCATCAATGCCACCGGCAATATTGGCTCCGCGCTCAGCCCGGTTATG +ATTGGCTGGCTAAAAGATATCACTGGTAGCTTCAATAGCGGACTCTGGTTTGTCGCTTCT +CTGTTAGTCGTCGGCGCCGCCATTATCTGGCTCATTCCCATGAAAGCATCGCGTCCGCGC +GCCACCCCTTGAATGGGCAAGTTAGCGTTAGCAGCAAAAATTACCCACGTGCCGTCGATG +TATCTTTCTGAACTGCCAGGAAAAAATCACGGTTGTCGTCAGGCAGCCATTGATGGGCAT +ATTGAAATTGGCAAGCGTTGCCGCGAAATGGGCGTTGACACCATTATCGTATTCGACACC +CACTGGCTGGTGAATAGCGCTTACCACATTAATTGTGCCGACCATTTCCAGGGCGTCTAT +ACCAGCAACGAATTGCCGCACTTTATTCGCGACATGACCTATGACTATGACGGTAATCCG +GCGCTCGGCCATCTGATCGCCGACGAGGCGGTCAAACTGGGCGTGCGCGCCAAAGCGCAC +AACATCCCGAGCCTGAAGCTGGAGTATGGCACGCTGGTGCCGATGCGCTACATGAACAGC +GACAAGCACTTCAAAGTGGTCTCCATCTCGGCGTTCTGCACTGTGCATGATTTTGCCGAC +AGCCGCAAACTGGGCGAAGCCATTCTCAAGGCGATTGAGAAATATGACGGTACCGTAGCG +GTATTCGCCAGTGGTTCTCTGTCGCACCGTTTTATTGACGACCAACGGGCGGAAGAGGGG +ATGAACAGCTACACCCGCGAGTTCGATCATCAAATGGACGAGCGCGTGGTCAAGCTGTGG +CGCGAAGGCAAATTCAAGGAGTTTTGCACCATGTTGCCGGAGTACGCCGACTACTGCTAC +GGCGAAGGCAACATGCACGACACGGTCATGCTACTGGGAATGCTGGGGTGGGACAAATAC +GACGGCAAGGTGGAGTTCATCACCGACCTGTTCGCCAGCTCCGGTACCGGCCAGGTAAAC +GCTGTTTTCCCGCTGCCTGCGTAAATGAAGAAAATAAATCATTGGATTAACGGCAAAAAC +GTTGCAGGTAACGACTACTTCCAGACCACTAACCCGGCGACCGGTGATGTGCTGGCGGAA +GTAGCCTCCGGCGGTGAAGCAGAAGTGAACCAGGCTGTCGCGGCGGCAAAAGAGGCGTTC +CCGAAATGGGCCAACCTGCCGATGAAAGAGCGCGCGCGCCTGATGCGCCGCCTTGGCGAC +CTGATTGACCAGCATGTGCCGGAAATCGCGGCGATGGAAACCGCCGACACCGGCCTGCCT +ATTCACCAGACTAAAACGTGCTGAGTGCTGATCCCGCGCGCCTCGCATAACTTCGAATTC +TTCGCCGAAGTGTGCCAGCAGATGAACGGCAAGACCTATCCGGTTGACGATAAAATGCTC +AATTATACGCTGGTGCAGCCCGTCGGCGTCTGCGCGCTGGTGTCGCCGTGGAACGTGCCG +TTTATGACCGCGACTTGGAAAGTTGCGCCGTGCCTGGCGCTGGGTAACACCGCGGTGCTC +AAAATGTCCGAGCTGTCGCCGCTGACTGCCGACAGGCTGGGCGAGCTGGCACTGGAGGCA +GGAATTCCGGCAGGCGTGCTGAACGTGGTGCAGGGCTACGGCGCGACGGCGGGCGATGCG +CTGGTACGCCACCATGACGTGCGTGCGGTGTCGTTTACCGGCGGTACCGCCACCGGTCGC +AATATCATGAAAAATGCCGGGCTGAAAAAATACTCGATGGAGCTGGGCGGCAAATCGCCG +GTGCTGATTTTTGAAGACGCCGACATTGAGCGCGCGCTGGACGCCGCGCTGTTCACCATC +TTCTCGATCAACGGCGAACGCTGCACCGCTGGGTCGCGCATCTTTATCCAGCAGAGCATT +TACCCTGAGTTCGTGAAGCGCTTTGCCGAACGCGCGAATCGCCTGCGTGTCGGCGATCCG +ACCGACCCGAACACCCAGGTCGGCGCGCTGATTAGCCAACAGCACTGGGAGAAAGTCTCC +GGTTATATCCGCCTCGGCATTGAAGAGGGGGCAACGCTGCTGGCGGGCGGTGCGGAAAAA +CCCACTGACCTGCCTGCGCATCTGAAAGGCGGTAACTTCCTGCGCCCAACCGTGCTGGCC +GATGTCGACAACCGTATGCGCGTTGCGCAGGAAGAGATCTTTGGGCCGGTCGCCTGCCTG +CTGCCATTCAAAGACGAAGCGGAAGGGTTACGTTTGGCGAACGATGTGGAATACGGTCTG +GCCTCTTATATCTGGACCCAGGACGTGAGCAAAGTGTTGCGCCTGGCGCGTGGGATTGAA +GCCGGCATGGTCTTCGTCAACACCCAGAACGTCCGCGACCTGCGCCAGCCGTTCGGCGGC +GTGAAAGCCTCCGGTACCGGGCGCGAAGGCGGCGAATATAGCTTCGAAGTGTTTGCGGAA +ATGAAAAACGTCTGCATCTCAATGGGCGACCATCCTATCCCAAAATGGGGAGTTTGAATG +CCGCACTTTATTGCTGAATGTACTGAAAATATTCGCGAGCAGGCTGATTTACCAAGCCTG +TTCAGCAAGGTAAACGAGGCGCTGGCCGCCACCGGGATTTTCCCCATCGGCGGTATCCGC +AGTCGCGCCCACTGGCTGGATACCTGGCAGATGGCTGACGGTAAGCATGATTACGCGTTT +GTGCATATGACGCTGAAAATCGGCGCCGGGCGCAGCCTGGAGAGCCGTCAGGAAGTCGGC +GAAATGCTGTTTGGGCTGATTAAAGCCCACTTCGCCGACCTGATGGAGAACCGCTATCTG +GCGCTGTCGTTTGAGATTGCCGAGTTACATCCAACGCTCAATTACAAACAAAACAACGTA +CACGCGTTATTTAAATAGATGCTCGATAAACAGACCCATACCCTGATCGCTCAGCGACTT +AATCAGGCTGAAAAACAGCGTGAACAGATTCGCGCAGTGTCGCTGGATTATCCCAACATC +ACTATTGAAGATGCCTATGCCGTACAGCGTGAATGGGTCAATATCAAGATTGCCGAAGGG +CGCACGCTCAAAGGCCACAAAATCGGCCTGACCTCAAAAGCGATGCAGGCCAGCTCGCAA +ATCAGCGAACCGGATTACGGCGCGCTGCTTGACGATATGTTCTTCCATGACGGCGGAGAT +ATCCCCACCGACCGTTTTATCGTCCCGCGTATTGAAGTGGAGCTGGCGTTCGTGCTGGCG +AAACCGCTGCGCGGCCCTCACTGCACGCTGTTCGACGTCTACAACGCCACGGATTATGTG +ATTCCGGCGCTGGAACTGATTGACGCCCGCAGCCACAACATCGACCCGGAAACCCAGCGC +CCGCGCAAAGTGTTCGACACCATTTCCGACAACGCCGCCAACGCCGGGGTGATCCTCGGT +GGTCGCCCCATCAAACCAGACGAGCTGGATCTGCGCTGGATCTCCGCGCTGCTCTATCGC +AACGGCGTGATCGAAGAAACCGGCGTCGCCGCAGGCGTGCTGAATCATCCGGCCAACGGC +GTGGCGTGGCTGGCGAACAAGCTTGCCCCCTACGATGTCCAGCTTGAAGCCGGGCAGATC +ATCCTCGGCGGCTCGTTCACCCGCCCGGTGCCGGCGCGCAAGGGCGACACCTTCCATGTC +GATTACGGCAACATGGGCGCGATCAGTTGCCGGTTTGTGTAAATGAGCTCTGTACCCGCG +CCGCGTGAATATTTTCTTGACTCTATCCGCGCATGGCTGATGTTGTTAGGGATTCCCTTT +CATATCTCGTTGATCTATTCCACTCACAGTTGGCATGTCAATAGCGCCGCGCCATCGTGG +TGGCTAACCCTGTTTAACGATTTTATCCACGCTTTTCGTATGCAGGTGTTTTTTGTTATT +TCTGGTTATTTTTCGTACATGTTATTTTTACGTTATCCATTAAAACACTGGTGGAAAGTA +CGGGTAGAACGTGTGGGTATTCCCATGCTTACCGCAATCCCTTTGCTTACCTTGCCGCAA +TTTATCCTGTTGCAATATGTCAAAGAGAAAACAGAGAACTGGCCTACACTCTCTGCCTAT +GAAAAATATAATACGTTAGCGTGGGAACTCATTTCACATCTGTGGTTTTTACTGGTGCTG +GTGATATTAACCACCGTCAGCATCGGGATTTTTACCTGGTTCCAAAAAAGGCAGGAAACA +AGCAAGCCTCGTCCCGCCGCTATTTCGCTGGCCAAACTTTCGCTTATTTTTTTCCTGCTG +GGGGTGGCGTACGCTGCTATCAGGCGCATTATATTCATCGTATATCCGGCAATCCTCAGT +GACGGCATGTTCAATTTTATTGTGATGCAAACGCTATTTTATGTGCCGTTTTTTATTCTC +GGCGCGTTGGCCTTCATTCACCCCGATCTGAAAGCGCGCTTCACCACGCCCTCACGCGGA +TGCACTTTAGGCGCTGCCGTTGCTTTTATCGCGTATCTGCTGAATCAACGTTATGGGAGC +GGCGACGCCTGGATGTACGAAACCGAATCCGTGATTACGATGGTAATGGGGCTATGGATG +GTGAACGTGGTATTTTCACTGGGGCATCGCTTGTTAAACTTTCAGTCCGCGCGTGTCACC +TATTTCGTGAATGCTTCGCTGTTTATTTATCTGGTGCATCATCCCTTAACGCTTTTCTTT +GGCGCGTATATTACACCGCATATCTCCTCCAACCTGATCGGGTTCTTGTGCGGGCTGATA +TTTGTTATGGGTATTGCGTTAATTCTGTATGAAATTCATTTACGCATCCCGCTCCTGAAA +TTTCTCTTTTCAGGTAAACCGCCGGTAAAACAAGAAAGCCGCGCCGCGATCGGGTAGATG +AAACATAAACGACAAATGATGAAAATGCGTTGGTTGGGCGCAGCTATTATGTTAACGCTC +TACGCATCATCGAGCTGGGCGTTCAGTATTGATGACGTGGCAAAACAAGCTCAATCTTTA +GCCGGGAAAGGCTATGAGGCGCCTAAAAGCAACTTGCCCTCCGTTTTCCGCGACATGAAA +TATGCGGATTATCAGCAGATCCAGTTTAACAGCGATAAAGCCTACTGGAACAACTTAAAG +ACCCCTTTTAAGCTCGAATTTTACCATCAGGGGATGTACTTCGATACGCCGGTCAAGATT +AACGAAGTGACGGCGACGACGGTCAAAAGAATCAAATACAGCCCGGATTACTTCAATTTT +GGCAATGTTCAGCACGATAAAGACACGGTAAAAGATTTAGGCTTCGCCGGGTTCAAAGTC +CTGTACCCCATTAACAGTAAAGATAAGAACGACGAAATCGTCAGTATGCTTGGCGCCAGC +TATTTCCGCGTTATCGGCGCAGGCCAGGTGTATGGCTTATCTGCGCGCGGCCTGGCGATT +GATACCGCCTTACCATCTGGTGAAGAGTTTCCCCGCTTTCGCGAGTTCTGGATTGAGCGT +CCAAAACCCACCGATAAGCGTTTGACCGTCTATGCATTACTGGATTCTCCGCGCGCGACC +GGCGCTTACCGTTTTGTGATCATTCCTGGCCGCGATACCGTGGTGGACGTGCAGTCAAAA +GTCTATCTGCGCGATAAGGTGGGCAAGCTGGGCGTTGCGCCATTAACCAGTATGTTCCTG +TTTGGGCCAAACCAGCCGTCGCCGACGACCAACTATCGTCCGGAATTGCATGACTCGAAC +GGCTTATCCATTCATGCGGGTAATGGCGAGTGGATTTGGCGTCCGCTGAACAATCCAAAA +CACCTCGCTGTGAGCAGCTATGCGATGGAAAACCCTCAGGGATTCGGCCTGTTGCAGCGT +GGTCGCGAGTTCTCGCGCTTTGAAGATTTAGACGATCGCTATGACCTGCGTCCAAGCGCC +TGGATTACCCCGAAAGGCGACTGGGGCAAAGGTAAGGTTGAACTGGTTGAAATTCCGACC +AATGATGAAACCAACGATAACATCGTCGCTTACTGGACTCCGGATCAACTGCCGGAACCG +GGTAAAGAGATGAACTTCAAGTACACTCTGACCTTCAGCCGCGATGAAGATAAACTTCAT +GCGCCGGATAATGCCTGGGTGCTGCAAACACGCCGCTCAACGGGCGACGTTAAACAGTCG +AATCTGATTCGCCAGCCCGACGGCACTATTGCCTTTGTGGTGGATTTCGTTGGCGCCGAC +ATGAAAAAACTGCCGCCGGATACGCCCGTCGCTGCACAAACCAGCATTGGCGATAACGGT +GAAATCGTTGACAGTAATGTACGCTATAACCCAGTCACTAAAGGCTGGCGTTTAATGCTG +CGCGTGAAAGTCAAAGACGCGAAGAAAACCACGGAAATGCGTGCCGCATTGGTGAATGCC +GATCAGACGCTAAGTGAAACCTGGAGCTACCAGTTACCTGCCAATGAATAAATGAATAAA +ACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCATTGCCGAAA +ACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTACTCGCGAGAA +GACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCGGATTCATTG +GCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCTATGCCAAAA +GCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGCCGTTTCTGG +GATCGCCTGCGTGGGCGGGATGTTACGCCGCGCTATGTTTCTCGTCTGACAAAAGAAGAG +CAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATTTTGTTAATT +TTGACTCTGGCGCAAACCGTCGTTGCGACCTGGTATATGAAGACCATTCTGCCCTATCAG +GGATGGGCGCTCATCAATCCTATTGATATGGTGGGGCAGGATATTTGGGTCTCCTTTATG +CAGCTCCTGCCCTACATGCTGCATACCGGTATCCTGATTTTGTTTGCCGTGCTGTTCTGC +TGGGTGTCTGCCGGATTCTGGACTGCGCTGATGGGCTTCCTGCAACTGCTTATCGGGCGC +GATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCGGAACACCAG +ACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCCGGTCTGCGC +GCGACCTGGGAGTCCGTTAAAGCTACAGGCAACGCCGCGCATTTTGACGTCTATATCCTT +AGCGATAGTTATAACCCGGATATTTGCGTGGCGGAGCAAAAGGCGTGGATGGAGCTCATC +GCGGAAGTGCAGGGCGAAGGCCATATTTTTTACCGTCGCCGCCGCCGCCGTATGAAACGC +AAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGCTATATGGTG +GTGCTGGACGCGGACTCAGTGATTAGCGGCGAGTGTCTGAGCGGGCTGGTGCGCCTGATG +GAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGGATGGATACT +CTGTATGCCCGCTGCCAACAGTTTGCGACCCGTGTTTATGGACCGCTGTTTACCGCCGGG +CTGCACTTCTGGCAGTTGGGGGATTCGCACTACTGGGGGCACAATGCCATTATCCGCGTG +AAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCGTTCGCCGGA +TCGATTCTTTCCCACGACTTTGTTGAGGCGGCGCTAATGCGTCGGGCAGGGTGGGGCGTC +TGGATTGCCTACGATCTCCCCGGTTCCTATGAAGAGCTGCCGCCAAACCTGCTGGATGAG +CTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTGTTCCTGGTG +AAAGGAATGCACCCGGTGCATCGTGCCGTGTTCCTGACCGGGGTAATGTCATACCTGTCC +GCGCCGTTATGGTTTATGTTCCTTGCGCTTTCTACCGCGCTGCAGGTCGTTCATGCGTTA +ACAGAGCCGCAATATTTCCTTCATCCGCGCCAGCTTTTTCCGGTCTGGCCGCAGTGGCGT +CCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTGCCGAAGCTG +CTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTCTGGCGCGTT +ACGCTGTCGCTATTGCTGGAAGTTCTGTTCTCCGTGTTGCTGGCGCCGGTGCGTATGCTG +TTTCATACCGTGTTTGTGGTCAGTGCGTTCCTCGGCTGGGAAGTGGTCTGGAACTCACCG +CAACGCGACGATGATTCTACGCCTTGGGGAGAAGCCTTTATGCGTCACGGCTCTCAACTG +CTGCTGGGGCTGGTCTGGGCGGTTGGTATGGCGTGGCTGGATTTACGCTTTCTGTTCTGG +CTGGCGCCGATTGTCTTTTCGCTTATTCTGTCGCCATTTGTTTCGGTGATCTCCAGTCGT +TCAACGGTAGGATTACGCACCAATCGCTGGAAGCTGTTCCTGATCCCGGAAGAGTATTCG +CCGCCTCAGGTGTTGGTCGATACTGATAAATATCTGGAGATGAATCGCCGCCGTATTCTG +GACGATGGCTTTATGCATGCGGTTTTTAACCCGTCGCTTAATGCGCTGGCGACCGCGATG +GCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGTCATGTGGAG +CAGGCGCTAAACGAAACGCCGGATAAACTGAACCGCGATCGGCGTCTGGTTTTGCTCAGC +GATCCGGTGACGATGGCGCGTTTTCACTATCGGGTCTGGAATGCGCCAGAGAGATACTCT +TCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAGGGACGAACA +TCGTCAGCGGGATAAATGTCGCGCGTCTCGNNNGCGAGGAACCTGGGTAAATATTTTCTT +CTCATCGATAACATGTTAGTGGTGCTGGGTNNNTTCGTCGTCTTCCCGCTCATCTCTATT +CGCTTTGTCGATCAAATGGGGTGGGCTGCCNNNATGGTAGGGATCGCGCTCGGCCTGCGT +CAGTTTATTCAACAAGGTCTGGGCATTTTTNNNGGCGCCATCGCCGATCGCTTTGGCGCG +AAACCGATGATTGTCACCGGTATGCTGATGNNNGCCGCAGGCTTTGCCACCATGGGTATC +GCGCATGAGCCCTGGCTCTTGTGGTTTTCCNNNTTTCTTTCCGGTCTCGGCGGTACGCTT +TTCGACCCGCCGCGTTCAGCGCTGGTGGTCNNNTTAATTCGTCCGGAGCAACGGGGCCGC +TTCTTCTCTCTGTTGATGATGCAGGACAGCNNNGGCGCGGTGATTGGCGCGCTGCTGGGA +AGCTGGTTGCTACAATACGATTTTCGCCTGNNNTGCGCGACGGGCGCTATTTTGTTCATA +TTATGCGCCCTTTTCAACGCATGGCTGCTTNNNGCCTGGAAGCTATCAACGGCCAGAACG +CCGGTGCGTGAAGGAATGCGCCGCGTCATGNNNAATAAAAGGTTTGTCACCTACGTGCTG +ACGCTGGCGGGCTACTATATGCTGGCGGTANNNGTCATGTTAATGCTGCCGATTATGGTA +AACGATATCGCCGGTTCGCCTGCTGCCGTGNNNTGGATGTACGCTATTGAGGCGTGTCTC +TCGCTGACGTTGCTCTACCCGATTGCCCGCNNNAGCGAAAAGCGTTTTCGGCTGGAGCAT +CGGCTGATGGCCGGTTTGCTCGTCATGTCGNNNAGCATGCTCCCCATCGGGATGGTGGGC +AATTTACAGCAGCTTTTTACGCTTATTTGCNNNTTCTACATCGGCTCGGTTATCGCCGAA +CCGGCGCGCGAAACGCTCAGCGCGTCGCCCNNNGACGCGAGGGCGCGGGGAAGCTATATG +GGCTTTAGCCGTCTGGGATTAGCCATTGGCNNNGCGATTAGTTATATCGGCGGCGGCTGG +TTGTTTGATATGGGTAAAGCGCTTGCGCAGNNNGAACTACCGTGGATGATGCTCGGTATT +ATCGGCTTTATCACCTTTTTGGCTTTAGGCNNNCAATTTAGTCATAAGCGCACGCCGCGC +CGGATGCTGGAACCCGGCGCCATGACCAAGTATGCCACGCTGGAAGAAGCTATCGATGCA +GCCCGGGAAGAATTTCTGGCTGACCATCAAGGCCTCGAACAAGACGAAGCGAATGTGCAG +CAGTTCAACGTTCAGAAATATGTACTGCAGGATGGGGACATCATGTGGCAGGTCGAATTT +TTCGCCGATGAAGGTGAAGATGGCGAATATCTGCCGATGCTGAGTGGTGAAGCCGCACAG +AGCGTGTTTGACGGCGATTATGATGAGAAAGAGATCCGCCAGGAATGGCAGGAAGAGAAT +ACTTTGCATGAATGGGATGAAGGGGAATACCAGCTTGAACCCCCGCTTGATACCGAGGAA +GGCCGTACTGCGGCAGACGAATGGGATGAGCGTTAAATGTCACTATTAGCCAGGCTGGAA +CAAAGTGTACACGAAAACGGTGGGCTGATTGTCTCATGCCAACCGGTACCAGGCAGCCCT +ATGGATAAACCTGAAATTGTGGCTGCAATGGCACAGGCAGCGGCTTCGGCGGGTGCGGTC +GCTGTGCGCATTGAAGGCATTGAGAATCTGCGGACTGTTCGTCCCCATCTTTCTGTTCCT +ATTATTGGGATAATTAAACGTGACCTTACAGGGTCGCCAGTCCGTATCACTCCATATTTA +CAGGATGTTGACGCCCTGGCGCAGGCAGGTGCCGATATTATCGCTTTTGATGCCTCATTC +CGCTCTCGCCCGGTTGATATTGATAGTTTACTGACACGTATTCGCCTGCATGGATTACTG +GCGATGGCAGACTGTTCAACCGTGAATGAAGGCATAAGTTGCCATCAGAAAGGAATCGAA +TTCATTGGTACAACACTGTCTGGCTATACCGGTCCCATCACGCCGGTTGAGCCAGATTTG +GCAATGGTGACACAACTGAGTCATGCAGGTTGTCGTGTTATTGCCGAGGGGCGCTATAAC +ACGCCTGCACTGGCGGCCAATGCTATTGAGCATGGTGCCTGGGCAGTTACCGTTGGTTCC +GCTATCACCCGTATCGAGCATATCTGTCAGTGGTTCAGTCACGCAGTAAAACGCTGAATG +AAAAATTTTAAGAAAATGATGACGCTAATGGCGCTATGTTTATCAGTTGCTATCACCACA +TCAGGATATGCAACCACGCTTCCTGATATACCAGAACCACTGAAAAATGGTACTGGCGCT +ATTGATAATAATGGCGTGATTTATGTCGGCTTAGGTACCGCAGGGACATCCTGGTATAAA +ATTGATCTTAAAAAGCAACATAAAGACTGGGAGCGTATAAAGTCGTTTCCTGGTGGAGCT +CGTGAGCAATCCGTGTCGGTATTTTTAAATGATAAGCTGTATGTTTTTGGTGGCGTAGGG +AAAAAAAACAGTGAATCACCGTTGCAGGTTTATAGCGATGTGTACAAATACTCACCGGTG +AAAAATACATGGCAAAAAGTTGATACTATATCTCCAGTTGGATTAACAGGGCATACGGGA +GTAAAATTAAACGAAACGATGGTACTTATTACCGGAGGGGTTAATGAGCATATCTTTGAT +AAGTATTTTATTGATATAGCGGCTGCGGATGAAAGTGAAAAAAATAAAGTCATCTATAAT +TATTTTAATAAACCTGCCAAAGATTATTTTTTTAATAAAATCGTATTTATCTACAATGCT +AAAGAGAACACATGGAAGAATGCCGGTGAGCTGCCAGGCGCGGGGACGGCAGGATCGTCA +TCGGTAATGGAAAATAATTTCTTGATGCTGATTAATGGTGAGCTCAAACCGGGTTTACGT +ACCGATGTGATTTACCGCGCCATGTGGGATAACGATAAGCTAACATGGTTGAAGAACAGC +CAGTTACCGCCATCGCCTGGAGAACAACAGCAGGAAGGGTTGGCCGGAGCATTTTCGGGC +TATAGCCACGGTGTCCTGCTTGTCGGTGGTGGCGCGAATTTTCCGGGAGCAAAACAAAAT +TATACTAATGGAAAGTTTTATTCCCACGAAGGGATAAATAAAAAATGGCGAGATGAAGTC +TATGGTTTGATTAATGGCCATTGGCAATATATGGGTAAAATGAAACAACCTCTCGGCTAT +GGTGTATCAGTAAGTTATGGTGATGAAGTTTTCCTTATTGGTGGTGAAAATGCTAAAGGG +AAACCTGTTTCGTCTGTAACCTCCTTTACCATGCGTGATGGTAATTTATTAATAAAATAA +GTGATAGCAAAATTCTTCCCGTGGTATAGCGAGATAACACGTCCACAAAAAAATGCTTTA +TTTTCAGCATGGCTGGGTTACGTTTTTGATGGCTTCGACTTTATGCTGATTTTCTACATT +ATGTATCTGATCAAGGCTGACTTAGGATTGACAGATATGGAGGGCGCATTCCTTGCCACA +GCGGCCTTTATTGGGCGACCATTTGGCGGGGCGCTATTTGGTCTGCTGGCAGACAAATTT +GGCCGTAAGCCGTTAATGATGTGGTCGATAGTTGCCTATTCTGTAGGTACAGGGTTAAGT +GGCCTGGCTTCCGGTGTAATTATGCTGACGCTTAGTCGTTTTATTGTCGGTATGGGGATG +GCGGGGAAGTATGCTTGCGCTTCTACTTATGCCGTGGAAAGTTGGCCAAAGCATTTAAAA +TCTAAAGCGAGCGCATTTCTGGTTTCAGGTTTCGGTATTGGTAACATCATAGCAGCCTAT +TTTATGCCGTCATTTGCCGAAGCGTATGGTTGGCGTGCTGCTTTTTTTGTCGGTTTGCTA +CCCGTTCTTTTAGTAATCTACATCCGGGCCAGGGCTCCTGAATCTAAAGAGTGGGAAGAA +GCCAAACTCAGTGGTCTCGGAAAGCATTCACAAAGTGCCTGGTCAGTTTTCTCTTTGTCA +ATGAAAGGGCTATTTAATCGAGCTCAATTTCCACTGACATTATGTGTATTTATTGTTCTG +TTCTCTATTTTCGGCGCAAACTGGCCGATCTTTGGTCTACTGCCTACATATTTGGCGGGA +GAGGGCTTTGATACGGGCGTGGTCTCTAATTTAATGACGGCGGCGGCATTCGGCACTGTA +TTGGGAAATATCGTTTGGGGTCTGTGCGCAGATAGAATTGGTTTGAAGAAAACGTTCAGC +ATTGGTCTTCTCATGTCCTTTTTATTCATTTTCCCGTTATTCAGAATTCCGCAAGATAAT +TATTTACTGCTGGGCGCATGTTTATTCGGTTTAATGGCGACTAACGTAGGTGTTGGCGGG +CTGGTTCCCAAATTTCTCTACGACTACTTTCCTCTTGAGGTTCGTGGTTTGGGTACCGGG +CTTATTTATAATCTTGCTGCGACATCAGGCACATTCAATTCAATGGCGGCGACCTGGCTT +GGAATAACAATGGGGCTAGGCGCTGCGCTAACGTTCATTGTTGCTTTCTGGACCGCAACA +ATTCTACTCATTATTGGCCTATCCATTCCGGATAGACTAAAAGCACGTCGTGAAAGGTTT +CAGTCAACAAAAGAATTTTAAATGAAAAAGTATCTTGCTTTCGCCGTTACGCTGCTGGGT +ATGGGTAAAGTCATCGCCTGTACTACCCTTTTGGTAGGCAATCAGGCTTCGGCTGACGGC +TCCTTTATTATCGCGCGCAACGAGGATGGCTCGGCAAATAACGCCAAGCATAAGGTTATT +CATCCCGTCGCGTTTCATCAACAAGGCGAGTATAAAGCACATCGCAACAATTTTAGCTGG +CCGCTTCCGGAGACAGCGATGCGCTATACGGCGATTCATGACTTTGATACTAACGATAAC +GCCATGGGTGAAGCCGGTTTCAATTCGGCGGGCGTCGGAATGAGCGCAACGGAAACCATT +TACAACGGCAGAGCGGCGCTGGCTGCCGATCCTTACGTGACAAAAACGGGAATCACGGAA +GACGCCATTGAGTCCGTGATCCTGCCAGTGGCGCAATCGGCGCGTCAGGGCGCCAAATTA +CTGGGAGATATTATTGAACAAAAAGGCGCGGGCGAAGGTTTCGGCGTCGCGTTTATTGAT +AGCAAAGAGATATGGTATCTGGAGACGGGAAGCGGACATCAATGGCTGGCAGTACGACTT +CCGGCAGATAGCTATTTCGTTTCCGCCAATCAGGGACGTTTACGCCATTACGATCCGAAT +GATAACGCGAATTATATGGCGTCACCAACGTTAGTAAGCTTTGCGAAAAAGCAGGGATTA +TATGATCCGGCCCGCGGCGAATTCGACTTTCATCAAGCCTATTCGCAGGATAACAAAAAC +GATACCACCTATAATTATCCGCGCGTCTGGACGCTACAACACCAGTTTAATCCGCATCTG +GATACGGTCGTTAGCGAAGGGGAAACATTTTCTGTTTTTTTAACGCCAATAACGAAGATC +AGCGTGGCGGCAGTAAAAAACGCGTTACGCAATCACTATCAGGGAACGTCGCACGACCCT +TATGCCAGTCATAATCCACAAGAACCATGGCGACCTATATCCGTTTTTCGTACCCAGGAG +TCACATATTTTACAGGTCAGACCGAAATTACCGCAGGCTATCGGCAACGTAGAATACATC +GCCTATGGAATGCCATCTCTTAGCGTCTATCTCCCCTATTACCAGGGGATGCGTCATTAT +CAACCCGGAGATGATAAAGGAACCGATCGGGCGAGCAACGACTCTACCTACTGGACATTC +CGCACGCTGCAAACACTGGTTATGCAAGACTACAATACGTTTGCGCCAGATGTGCAACAT +GCCTGGAAAACATTTGAACAGCAAACAGCTAAGCAACAGTATAAGATGGAGCAGAGCTAT +CTGAGATTATATGCGTCGCATCCGAAAGAAGCACAACGCTTACTGCAAAATTTTGAAGAT +AAAACGATGCAAAATGCGCAGACGCTCGCCCGTCGCCTGACCAATAATATTATTACGACA +ATGACTTACCGCACAGATATGAAATATCACTTTTCAAGTACGCAGCCATAAATGGGAAGA +CAAAAAGCAGTGATCAAAGCTCGTCGTGAAGCAAAGCGTGTGTTGAGACGAGATTCGCGT +AGTCATAAGCAACGTGAAGAAGAATCGGTCACGTCACTGGTACAGATGGGCGGAGTAGAA +GCCATTGGCATGGCGCGCGATAGTCGCGATACCTCTCCTGTTAAGGCGCGAAATGAAGCA +CAGGCGCATTATCTGAACGCTATCGACAGTAAACAGCTTATTTTTGCGACCGGCGAAGCC +GGCTGCGGAAAAACATGGATCAGTGCGGCAAAGGCGGCAGAAGCATTGATTCATAAGGAC +GTCGAGAGGATCATTGTGACGCGTCCGGTATTGCAGGCTGATGAAGATCTTGGTTTTTTG +CCCGGTGATATCGCTGAAAAATTCGCGCCTTATTTTCGTCCCGTCTACGATGTCCTGCTT +AAACGGTTGGGCGCGTCCTTTATGCAATATTGTTTGCGCCCGGAAATCGGTAAGGTAGAA +ATTGCCCCGTTCGCCTATATGCGTGGGCGTACTTTTGAAAATGCGGTCGTGATCCTCGAC +GAGGCGCAAAATGTGACTGCGGCGCAAATGAAAATGTTTTTGACGCGATTAGGCGAAAAT +GTCACGGTCATTGTCAATGGCGATATTACGCAATGCGACCTGCCGCGCGGTGTGCGTTCC +GGGTTGAGTGATGCGTTGGAACGCTTTGAAGAAGATGAAATGGTGGGGATTGTGCATTTC +AACAAAGACGACTGCGTGCGCTCGGCGCTTTGTCAGCGAACGCTCCACGCATACAGCTAA +ATGGGAACCACCACGATGGGGGTTAAGCTGGACGACGCCACGCGCGAACGGATCAAAATG +GCCGCGTCGCGTATCGATCGCACGCCGCACTGGTTAATAAAACAGGCAATCTTTAGCTAT +CTGGACAAGCTGGAAAATAGCGATACGCTACCGGAGCTACCTGCGCTGTTTGCCGGCGCG +GCAAATGAAAGCGAGGAGCCGGTCGCGCCGCAGGATGAGCCGCATCAGCCCTTTCTGGAG +TTTGCCGAACAGATTCTTCCCCAATCCGTCTCTCGCGCCGCCATCACCGCCGCCTGGCGC +CGCCCGGAAACCGATGCGGTGTCAATGCTAATGGAACAGGCGCGCCTGTCGCCGCCTGTC +GCTGAGCAGGCGCATAAACTGGCGTATCAACTGGCGGAGAAATTGCGCAATCAAAAATCC +GCCAGCGGTCGCGCGGGTATGGTGCAAGGCCTGTTGCAGGAGTTTTCCCTCTCTTCGCAA +GAAGGCGTAGCGCTGATGTGTCTGGCGGAAGCGCTGCTGCGTATTCCCGACAAAGCTACG +CGCGATGCGTTAATTCGCGACAAAATCAGTAATGGCAACTGGCAGTCGCATATTGGCCGT +AGCCCGTCGCTGTTTGTAAACGCCGCCACCTGGGGGCTGCTCTTTACCGGCCGACTGGTC +TCAACGCATAACGAAGCCAATCTTTCGCGCTCGCTGAACCGCATTATCGGCAAGAGCGGC +GAACCGTTAATCCGCAAAGGCGTCGACATGGCGATGCGTTTAATGGGCGAGCAGTTCGTG +ACTGGCGAAACCATTGCTCAGGCGCTGGCGAATGCCCGAAAACTGGAAGAGAAAGGGTTC +CGCTATTCTTACGATATGCTGGGCGAAGCCGCGTTAACCGCCGCCGATGCGCAGGCCTAT +ATGGTCTCTTACCAGCAAGCGATTCATGCCATCGGCAAAGCGTCTAACGGTCGCGGTATT +TACGAAGGGCCAGGCATCTCGATTAAGCTGTCCGCCCTGCATCCACGCTATAGTCGCGCG +CAATACGATCGGGTAATGGAGGAGCTTTATCCGCGCCTGAAATCCCTGACGCTGCTGGCG +CGCCAGTATGATATCGGTCTCAATATCGACGCCGAAGAGGCGGATCGTCTGGAGATCTCG +CTTGATCTGCTGGAAAAACTCTGCTTCGAACCCGAACTGGCGGGCTGGAACGGCATTGGC +TTTGTGATTCAGGCTTACCAGAAACGCTGCCCGCTGGTCATTGATTATTTAGTCGATCTG +GCCTCCCGTAGCCGCCGTCGGCTGATGATTCGTCTGGTGAAAGGCGCCTACTGGGATAGC +GAGATCAAACGCGCGCAAATGGAAGGGCTGGAGGGCTATCCAGTTTATACCCGCAAAGTG +TATACCGATGTCTCTTATCTGGCCTGCGCGAAAAAACTGCTCGCCGTCCCTAATCTGATC +TACCCGCAGTTCGCGACCCATAACGCTCACACACTGGCGGCGATTTATCATCTGGCCGGG +CAAAATTACTATCCGGGTCAGTACGAATTCCAGTGCCTGCACGGCATGGGAGAACCGCTG +TATGAACAGGTCACCGGTAAAGTGGGGGACGGAAAACTTAACCGTCCCTGCCGTATTTAC +GCGCCGGTGGGAACACACGAAACCCTGCTGGCCTATCTGGTACGACGCCTGCTGGAAAAC +GGCGCCAACACCTCTTTTGTCAACCGCATCGCCGATGCCACCCTACCGCTCGATGAACTG +GTGGCCGACCCGGTCGAGGCCGTGGAAAAACTGGCGCAGCAGGAAGGTCAGGCTGGCATA +CCGCATCCAAAAATTCCGCTGCCGCGCGATCTGTACGGCGAAGGTCGGATAAACTCCGCC +GGACTTGATTTAGCGAATGAACATCGCCTCGCCTCGCTTTCTTCTGCCCTGTTAAGCAAC +GCCATGCAGAAATGGCAGGCCAAACCTGTGCTGGAACAACCGGTGGCCGACGGTGAGATG +ACGCCGGTTATCAACCCGGCGGAACCGAAAGATATTGTTGGCTGGGGACGCGAAGCGACA +GAAAGCGAGGTTGAACAGGCGTTGCAAAACGCGGTCAATCAGGCGCCGGTTTGGTTTGCG +ACGCCGCCGCAAGAACGCGCCGCTATTTTGCAGCGGGCGGCGGTATTGATGGAAGACCAA +ATGCAGCAGTTGATTGGCCTGTTGGTGCGTGAAGCGGGGAAAACGTTCAGCAACGCCATT +GCCGAAGTGCGCGAAGCGGTAGACTTCCTCCATTATTATGCCGGTCAAGTGCGTGACGAT +TTCGATAACGAAACGCATCGCCCGTTAGGGCCGGTGGTCTGTATCAGTCCGTGGAACTTT +CCGCTGGCCATTTTCACTGGCCAAATCGCCGCCGCGCTGGCGGCAGGTAACAGCGTTCTG +GCGAAACCGGCAGAGCAGACATCGCTGATTGCCGCCCAGGGCATTGCCATTTTGCTGGAA +GCGGGCGTACCGCCGGGCGTCGTGCAACTGTTGCCGGGACGGGGAGAAACCGTCGGCGCC +CAGCTTACCGCCGATGCGCGTGTACGCGGCGTGATGTTTACCGGTTCCACGGAGGTCGCG +ACGTTGTTGCAGCGCAACATCGCCACGCGTCTTGACGCCCAGGGGCGCCCTATTCCGTTG +ATTGCGGAAACCGGCGGTATGAACGCTATGATTGTCGACTCTTCCGCGCTCACCGAGCAG +GTGGTCGTGGATGTGCTGGCTTCCGCCTTCGACAGCGCCGGACAACGCTGTTCCGCGCTC +CGCGTGCTGTGTTTGCAGGACGATATCGCCGAACATACGCTGAAAATGTTACGCGGCGCG +ATGGCGGAGTGTCGGATGGGGAATCCAGGCCGTCTGACGACCGATATCGGGCCGGTGATC +GATAGCGAGGCCAAAGCCAACATTGAACGTCATATCCAGACGATGCGCGCCAAAGGCCGC +CCGGTTTTCCAGGCCGCGCGTGAAAACAGCGATGACGCGCAGGAATGGCAGACCGGTACG +TTTGTTATGCCCACGCTTATTGAGCTGGAAAACTTCGCAGAACTGGAAAAAGAGGTCTTC +GGGCCCGTGCTGCACGTCGTGCGTTATAACCGTAACCAACTGGCGGAGCTTATCGAACAG +ATTAACGCTTCCGGCTACGGGCTAACGCTGGGCGTACATACCCGTATTGATGAAACCATT +GCGCAAGTCACCGGTTCCGCCCATGTCGGCAACCTGTACGTTAACCGTAATATGGTGGGC +GCGGTCGTCGGCGTCCAGCCGTTTGGCGGCGAAGGCCTGTCCGGCACCGGGCCAAAAGCG +GGAGGGCCGCTCTATCTCTACCGCCTGCTGGCACACCGCCCGCCCAATGCGCTCAATACG +ACGCTGACTCGTCAGGATGCGCGTTACCCGGTGGATGCGCAGCTTAAAACCACGCTACTC +GCGCCGTTGACCGCTCTGACGCAATGGGCGGCGGATCGCCCGGCGCTACAGACGCTCTGC +CGACAATTCGCCGATCTGGCGCAGGCCGGCACGCAGCGCCTGCTACCGGGGCCGACCGGC +GAGCGTAATACCTGGACGCTGTTGCCGCGTGAACGGGTGTTATGCCTGGCTGATGATGAA +CAGGACGCGTTGACGCAGCTTGCCGCCGTTCTCGCCGTCGGCAGTCAGGCGCTATGGTCA +GACGACGCCTTCCACCGCGATCTGGCGAAACGTCTCCCCGCCGCCGTCGCGGCGCGTGTC +CAGTTTGCGAAAGCGGAAACGCTGATGGCGCAGCCGTTTGACGCGGTGATTTTCCACGGC +GACTCCGACAAGCTGCGAACCGTGTGCGAAGCCGTCGCCGCCCGCGAAGGCGCGATAGTG +TCGGTACAGGGGTTCGCCCGCGGCGAAAGCAATATGCTGCTGGAACGGCTCTATATTGAA +CGTTCGCTGAGCGTAAACACTGCCGCCGCTGGCGGTAATGCCAGCCTGATGACAATTGGC +TAAATGGCTATTAGCACACCGATGTTGGTGACATTCTGTGTCTATATTTTTGGCATGATA +TTGATTGGGTTTATCGCCTGGCGCTCAACCAAAAACTTTGATGACTATATTCTTGGCGGT +CGCAGCCTGGGGCCGTTTGTTACGGCTTTATCAGCCGGCGCGTCGGATATGAGCGGCTGG +CTGTTAATGGGGCTGCCTGGCGCTATCTTTCTGTCGGGGATCTCTGAAAGCTGGATCGCC +ATTGGCCTGACGTTAGGCGCATGGATTAACTGGAAGCTGGTGGCCGGGCGCCTGCGCGTG +CATACCGAATTTAACAATAACGCGCTCACGCTGCCGGACTATTTTACCGGTCGGTTTGAG +GATAAGAGCCGAGTCCTGCGTATTATTTCCGCGCTGGTCATTCTGCTGTTTTTCACTATC +TATTGCGCATCAGGTATTGTCGCTGGGGCACGACTGTTCGAAAGCACCTTCGGTATGAGC +TATGAAACCGCACTGTGGGCGGGGGCCGCGGCAACCATTATTTATACCTTTATCGGCGGG +TTTCTTGCCGTTAGCTGGACGGATACCGTTCAGGCCAGCCTGATGATTTTTGCGTTAATC +CTGACGCCGGTGATGGTTATTGTCGGCGTAGGCGGTTTTAGCGAGTCGCTGGAAGTGATC +AAGCAAAAGAGCATCGAGAATGTCGACATGCTCAAGGGGCTGAATTTTGTCGCTATTATT +TCTCTGATGGGCTGGGGGCTGGGTTACTTCGGTCAGCCGCATATCCTGGCGCGCTTTATG +GCGGCGGATTCCCATCACAGTATTGTTCATGCGCGTCGTATCAGTATGACCTGGATGATT +CTGTGTCTGGCGGGCGCGGTGGCGGTGGGCTTCTTTGGCATTGCGTACTTTAACAATAAC +CCCGCGCTGGCCGGGGCGGTGAACCAAAACTCAGAACGCGTATTTATTGAACTGGCGCAG +ATCCTGTTTAACCCGTGGATTGCCGGTGTTCTGCTGTCTGCTATCCTGGCGGCGGTGATG +TCGACGTTGAGCTGTCAGTTGCTGGTATGCTCCAGCGCGATTACGGAAGATTTATATAAG +GCTTTTCTGCGTAAAAGCGCCAGCCAGCAAGAGCTGGTATGGGTAGGGCGAGTGATGGTG +CTGGTGGTAGCGCTGATCGCCATTGCGCTGGCGGCGAATCCTGATAACCGTGTGCTGGGG +CTGGTGAGCTACGCCTGGGCTGGATTCGGCGCGGCATTTGGACCTGTTGTCCTGTTTTCT +GTGATGTGGTCGCGTATGACACGTAACGGCGCGCTGGCGGGAATGATTATTGGCGCGGTG +ACGGTTATCGTCTGGAAACAATATGGCTGGCTGGATCTGTATGAGATTATCCCTGGCTTC +ATTTTCGGCAGCCTGGGGATCGTAATCTTTAGCCTGCTTGGCAAAGCGCCGACAGCAACG +ATGCAGGAACGCTTTGCAAAAGCGGACGCGCATTATCATTCCGCGCCGCCGTCGAAGCTA +CAGGCGGAATAAATGGCGGGTAAACTGCGGCGTTGGCTGCGTGAAGCCGCGGTTTTTCTG +GCGCTCCTCATCGCGATAATGGTGGTCATGGACGTCTGGCGCGCGCCGCAGGCGCCTCCG +GCGTTTGCCGCGACACCATTACATACGCTGACGGGAGAGTCGACAACTCTGGCGACCTTG +AGCGAGGAACGCCCCGTACTGCTCTATTTTTGGGCCAGCTGGTGCGGGGTATGCCGCTTT +ACCACGCCTGCGGTCGCTCACCTGGCGGCGGAAGGGGAAAACGTCATGACCGTTGCGCTC +CGCTCCGGCGGTGATGCTGAGGTTGCCCGCTGGCTGGCGCGCAAGGGCGTTGACTTCCCG +GTCGTCAATGATGCTAACGGCGCCTTATCCGCTGGCTGGGAAATCAGCGTGACGCCAACG +CTGGTGGTGGTTTCACAAGGTCGGGTTGTGTTCACCACCAGCGGCTGGACCAGCTATTGG +GGCATGAAGCTTCGGCTGTGGTGGGCAAAAACGTTCTGAATGATGAAAAAAAGCGTCGCT +ATGCTGGCGGTTTGTATGCTGGCGCAAAGCCACCTTGCCATTGCTGCCGGTGCTCCTGCG +CCTCAAGAGATCAACATTGTTTTACTGGGCACCAAAGGCGGGCCTTCTTTGCTCAATACA +GCCAGACTACCGCAAGCGACGGCGCTCACTATCGGCGATAAGATATGGCTGATAGATGCC +GGCTACGGCGCCAGTCTGCAACTGGTGAAAAATGGCATTCCACTGCGCAACATCAATACT +ATTTTGCTCACCCATCTGCACAGCGACCACATACTGGATTATCCTTCCTTGCTGATGAAT +GCCTGGGCAAGTGGCCTGAAAGACCATACCATACAGGTTTATGGCCCGCCGGGAACCCAG +GCGATGACGAAGGCTAGCTGGAAGGTCTTTGACAGGGATATCACGTTACGCATGGAAGAA +GAGGGGAAACCCGATCCGCGCAACCTGGTTAAGGCGACCGATATCGGCCAGGGCGTCATC +TATAAAGATGAACTGGTCACAATAAGCGCGCTGAAAGTGCCTCATTCCCCTTTCCCGGAC +GGTGAAGCGTTTGCTTACCGTTTTGATACTCAGGGTAAGCGAATCGTCTTCTCTGGCGAT +ACGTCCTGGTTTCCTCCGCTTGCAACGTTTGCCCAGGGGGCGGATATCCTGGTACATGAG +GCGGTACATGTCCCTTCGGTAGCAAAACTGGCTAATAGTATTGGCAACGGAAAAACGCTG +GCTGAAGCGATTGCGTCGCATCACACCACGATTGAAGATGTCGGTAAGATTGCTCGCGAG +GCCCACGTGAAAAAACTGGTGTTAAGTCATCTGGTGCCTGCGACGGTTGCGGATGACGTC +TGGCAACAGGAAGCCATGAAAAATTACCCGGGCCCTGTCATTGTCGGTCATGACAATATG +ACGATAAGCGTACCGTAAATGTCGCAACGCACAGAGAAAAAAATCGGGAAACGTTCGCAG +GCCACCGGTGCAAAACGGCAGCTTATCTTAACCGCCGCGCTTGCCGTTTTTTCCCAGTAT +GGCATTCATGGCGCGCGTCTTGAACAGGTCGCCGAGCGGGCAGGCGTCTCCAAAACCAAT +CTGCTTTATTATTATCCCTCGAAAGAGGCGCTGTATGTCGCGGTAATGCGACAGATTCTG +GATGTCTGGTTGGCGCCGCTCAAGGCGTTTCGCGCAGAATTTTCCCCTCTGGAGGCCATC +AAAGAGTATATCCGTCTCAAGCTGGAGGTTTCGCGTGATTATCCGCAGGCGTCGCGGCTC +TTCTGCATGGAGATGCTGGCGGGCGCGCCGCTCTTAATGGATGAACTGACCGGCGATCTA +AAAGCGTTGATAGATGAAAAATCCGCGCTGATTGCCGGATGGGTGCACAGCGGGAAACTC +GCGCCCGTTTCTCCGCATCATTTGATCTTCATGATTTGGGCCGCCACGCAACATTACGCC +GATTTCGCCCCTCAGGTTGAAGCGGTAACCGGCGCGACGCTTCGCGATGAAGCCTTTTTC +AACCAAACGGTCGAAAGCGTTCAGCGCATTATTATTGAAGGGATTCGCGTGCGTTAAATG +GCGAAACAACAACGGATGGGCTGGTGGTTTCTTTGCCTTGCATGTGTCGTGGTAATGGTT +TGTACCGCGCAACGCATGGCGGGCCTGCACGCCTTGCAGATGCAGGCGACGGCCTCTGCT +GCGGTGGTCAGCGCTCCCTCCTCGACAGATGACGGCTCGCCGGTCACTCCCTGCGAATTA +AGCGCCAAGTCGCTGCTGGCGGCGCCTCCAGTACTCTTTGAAGGTGCTATCCTTGCGCTT +TATCTACTGCTTTCCTTACTGGCGCCTGTCCGGGTCATGCGCCTGCCGTTTTCGCCTCCA +CGGGCTATTTCGCCGCCCACATTACGGGTACATCTACGATTTTGTGTCTTCCGTGAATGA +ATGATGATTTTATTCAGGCGGATACTGTTCTGCCTGTTATGGCTTTGGCTGCCCGTCTCC +TGGGCGGCGGAAAGCGGCTGGCTGCGTTCGCCCGATAACGACCATGCCAGCATACGGCTA +CGTGCCGATACGTCCGCTAACAGTGAGACCCGGCTGTTGCTGGATGTCAAACTGGAAAAC +GGCTGGAAAACCTACTGGCGCGCGCCGGGGGAAGGGGGCGTGGCACCCTCTATCGCCTGG +AAAGGCGACATGCCTGAGGTAAGCTGGTTCTGGCCAACCCCCTCGCGCTTTGATGTGGCG +AATATCACCACCCAGGGATATCACGACGAGGTGACCTTTCCGATGATCGTGCGCGGTACG +CCGCCGGCGACCTTGCGCGGTGTGTTGACGTTATCAACCTGCAGCAATGTTTGTCTGTTG +ACCGATTACCCCTTTTCCGTGACGCCCACTGTGCAGAATGCCGATTTTGCCCATGACTAT +GCGCGGGCGATGGGTAAAGTTCCGCTCCGCAGTGGGCTAACGGACTCGCTTGACGTTGGC +TATCGCCCGGGAGAACTGGTGGTCACTGCTACGCGAGCGGCGGGCTGGTCATCGCCCGGG +CTCTATCTTGACACCATAGATGACGTCGATTTTGCGAAGCCTCGCCTGCGCGTAGAGGGC +GACAGGTTACAGGCGACGGTGCCGGTGACGGACAGTTGGGGCGAAAAGGCGCCCGATTTG +CGCGACAAATCGCTGACCCTCGTGTTAGCCGATGGCGCTATCGCCCAGGAGAGCACGCAA +ACCATTGGCGCTGCGCCAGCGCAAACGCCGGACAATGCGGCGCTACCTTTCTGGCAAGTT +GTAATGATGGCGCTAATCGGCGGACTGATTCTTAATTTAATGCCCTGCGTACTGCCTGTT +CTGGGCATGAAACTTGGCTCTATTTTATTGGTAGAGGAAAAAAGCCGCTCTCACATCAGG +CGACAATTTTTGGCTTCGGTCGCCGGTATCATTGCGTCATTTATGGCGCTGGCGGCGTTT +ATGACCCTCCTTCGCCTGTCAAACCATGCGCTGGCCTGGGGAGTCCAGTTCCAGAATGCA +TGGTTTATTGGTTTTATGGCGCTGGTGATGTTGTTGTTTAGCGCCAGCCTGTTCGGGCTT +TTTGAGTTCAGGCTTCCCTCATCTATGACCACGAAACTGGCCACTTACGGCGGTAACGGT +ATGTCGGGACATTTCTGGCAGGGGGCGTTCGCCACGCTGCTGGCGACGCCTTGTAGCGCG +CCGTTTCTGGGCACGGCGGTCGCGGTGGCGCTCACGGCGTCGCTGCCGACGCTGTGGGGG +CTGTTCCTTGCGCTTGGCCTGGGAATGAGCGCGCCGTGGCTACTGGTCGCGATACGACCA +GGGCTTGCGCTACGTTTACCGCGCCCCGGGCGTTGGATGAATGTCCTGCGCAGGATCCTC +GGTCTGATGATGCTGGGGTCGGCTATCTGGCTGGCGACGTTACTCCTGCCGCATTTCGGC +TTCACTGCGTCAAAGAGCGCGCAAGACACGGTTCAGTGGCAACCGTTGAGTGAACAGGCA +ATCCAGTCGGCGCTGGCGCAGCATAAGCGGGTATTTGTCGATGTCACTGCGGACTGGTGT +ATTACCTGTAAAGTGAATAAATACAACGTCCTGCAAAAAGAGGATGTGCAGGCCGCCTTG +CAACAGCCGGATGTTGTGGCGCTGCGGGGAGACTGGACGCTGCCGTCCGATGCCATTACA +GATTTTCTGAAAACGCGCGGCCAGGTCGCCGTGCCGTTTAATCAGGTATATGGCCCCGGT +TTGCCGGAAGGGGAGGCACTGCCCACTTTGCTGACCCGCGATGCGGTATTACAAACGTTG +AAAAAAGCGAAAGGAATAACCCAATGAATGAAATACATGATTGTTTTACTGCTGGCGCTG +TTTTCGACGCTGAGCATCGCGCAAGAAACCGCTCCTTTTACGCCGGATCAGGAAAAGCAG +ATTAAAAATCTGATCCATGCGGCGTTGTTTAACGATCCTGCCAGCCCGCGGATAGGCGCT +AAACACCCTAAGCTGACGCTGGTGAACTTTACGGATTACAACTGCCCGTACTGCAAACAG +CTCGATCCGATGCTGGAAAAGATTGTGCAGAAATATCCTGACGTTGCGGTCATTATTAAA +CCGCTGCCATTCAAAGGAGAGAGTTCCATACTGGCGGCGCGTATTGCGCTGACCACCTGG +CGCGATCATCCGCAACAGTTCCTCGCGCTACATGAAAAACTTATGCAAAAGCGCGGTTAC +CATACGGATGACAGTATTAAACAGGCCCAGCAGAAAGCAGGGGCGACGCCAGTGACGCTG +GATGAAAAAAGCATGGAAACGATACGCACTAATTTGCAGTTGGCAAGACTGGTCGACGTG +CAAGGAACGCCAGCGACGATCATTGGCGACGAGCTGATTCCGGGCGCAGTGCCCTGGGAT +ACGCTGGAAGCGGTGGTGAAAGAAAAACTGGCGGCTGCCAATGGCGGGTAAATGATTGCA +CATTCTTTCGGCATCGTTAATTATTTTGTATTATTTGGCTACCTCCTGGCCATGATGGTA +GTCGGTGTCTATTTTTCCAGACGGCAAAAAACAGCAGACGATTATTTTCGCGGTGGTGGC +CGGGTTCCTGGTTGGGCGGCTGGGGTCAGTGTATTTGCTACTACGTTAAGCTCAATTGCA +TTTATGTCAATTCCTGCCAAAGCGTTTACTTCCGACTGGACGTTTATCATTGGTCAGGAT +CTGGCTATCGCAATTTTACCGCTGGTTTTTTATTTCTATATTCCGTTTTTTCGGAAAGTG +AAAGTCACATCAGCCTATGAATATCTCGAAGCACGGTTCGATGTGCGCTGCCGTCTGGTC +GCCAGCATGTCATTTATGTTGTTTCATATTGGACGTATCGCCATTATCACTTTCCTCGCC +GTGCTGGCCTTGCGCCCCTTCATCGCTATAGACCCGGTGATTTTGGTACTGTTGATTGGT +GTGATGTGTATCATTTATACCTGGATGGGGGGGAATTGAATGGAAAGTCTATTAAATCGT +TTATATGACGCGTTAGGCCTGGATGCGCCAGAAGTTGAGCCACTGCTTATCATTGATGAT +GGGATACAGGTTTATTTTAATGAATCCGATCATATACTGGAAATGTGCTGTCCCTTTATG +CCACTGCCTGACGACACTCTGACTTTGCAGCATTTTTTACGTCTTAACTACGCCAGCGCC +GTCACTATCGGCGCTGATGCAGACAATACTGCTTTAGTGGCGCTTTATCGCTTGCCGCAA +ACCAGTACCGAAGAAGAGGCGCTCACTGGTTTTGTATTATTCATTTCAAACGTGAAGCAA +TTGAAAGAGCATTATGCATAAATGAAATACGACCTTATTATTATCGGCAGCGGTTCGGTT +GGCGCCGCCGCTGGTTATTACGCCACCCGCGCCGGGCTAAAGGTCCTGATGACCGATGCG +CATATGCCGCCTTATCAACAGGGCAGCCACCACGGCGATACCCGTCTTATCCGCCACGCT +TATGGTGAAGGCGAAAAATATGTCCCGCTGGTGCTTCGCGCCCAGACGCTTTGGGATGAG +CTCTCCACACACAATGAAGAGCCTATTTTTGTCCGCTCCGGCGTCGTCAACCTCGGCCCG +GCCGATTCCGCTTTCTTAGCCAACGTCGCACGAAGCGCGCAACAGTGGCAATTGAACGTC +GAGCGCCTGGACGCGACGGCCCTCATGACGCGCTGGCCGGAAATTCGCGTGCCCGATAAT +TATATCGGGCTGTTTGAAGCTGACTCCGGTTTCCTGCGCAGCGAATTAGCCATTACCACA +TGGCTTCGTCTGGCCCGAGAGGCAGGCTGCGCACAGCTATTCAACAGCCCGGTAAGCCAT +ATTCACCATGATGATAACGGTGTGACGATAGAGACGAGTGAAGGCTGCTACCACGCCAGC +AAAGCGCTGATTAGCGCGGGCACCTGGGTCAAAACGCTGGTACCGGAGCTGCCCGTTCAG +CCCGTACGTAAAGTTTTTGCCTGGTTTAAGGCGGATGGACGTTACAGCACTAAAAACCGC +TTTCCGGCCTTTACCGGCGAAATGCCCAACGGCGATCACTATTACGGTTTCCCGGCGGAG +AACGACGAGTTAAAAATCGGCAAACACAATGGCGGGCAGCGAATACAGGCACCGGAAGAG +CGCAAGCCCTTTGCCGCCGTTGCCAGCGATGGCGCGGAAGCATTTCCTTTCCTGCGTAAC +GTACTGCCGGGTATCGGCGGTTGTTTACATGGGGCGGCATGTACCTATGATAATTCGCCG +GACGAGGATTTTATTATCGATACGCTGCCTGGCCATGAGAATACGCTTGTCATCACTGGA +CTCAGCGGACATGGTTTTAAATTCGCCCCGGTGTTAGGAGAAATCGCTGCGGATTTTGCG +TTGGGAAAAACGCCCTCCTTTGATCTGACGCCGTTCCGGCTTTCCCGTTTTAGCCAATAA +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGATAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATCACA +TCTTGAATGAAACGATATATACTGGCTACCGCGATAGCGTCTCTTGTTGCAGCCCCGGCA +ATGGCGCTGGCCGCTGGCAGCAATATTCTCAGCGTACATATTCTCGATCAGCAAACAGGC +AAACCAGCGCCCGGCGTGGAGGTGGTACTGGAGCAGAAAAAGGATAACGGATGGACGCAA +TTAAACACCGGGCATACCGACCAGGATGGACGAATTAAAGCACTGTGGCCCGAAAAAGCT +GCCGCGCCGGGGGATTATCGCGTTATTTTTAAAACCGGCCAGTATTTTGAAAGTAAAAAA +CTGGACACGTTTTTCCCGGAGATTCCCGTCGAGTTTCATATCAGCAAAACGAATGAGCAC +TATCATGTGCCGCTGTTATTAAGTCAGTATGGTTATTCAACCTATCGCGGGAGCTAAATG +GCAAAGATTCTGGTGCTCTATTATTCCATGTACGGACACATTGAAACCATGGCGCACGCG +GTGGCGGAAGGGGCAAAGAAAGTCGACGGCGCAGAGGTCATTATAAAGCGTGTGCCAGAA +ACAATGCCGCCTGAAATCTTCGCAAAAGCTGGCGGTAAAACGCAAAACGCACCGGTTGCC +ACCCCACAGGAGCTGGCGGATTACGATGCCATTATTTTTGGTACGCCAACCCGGTTTGGC +AATATGTCAGGCCAGATGCGTACCTTCCTGGACCAAACCGGCGGACTGTGGGCATCCGGC +GCGCTATACGGCAAGCTCGGCGGCGTGTTCAGTTCTACCGGAACGGGCGGCGGCCAGGAG +CAGACCATCACCTCGACCTGGACTACGCTTGCCCATCATGGGATGGTGATTGTCCCGATA +GGCTATTCCGCACAGGAACTGTTTGACGTCTCCCAGGTTCGCGGCGGTACGCCTTACGGC +GCAACGACTATCGCTGGAGGCGACGGTTCACGTCAACCAAGCCAGGAGGAACTCTCTATC +GCTCGCTATCAGGGGGAATACGTCGCCGGTCTGGCAGTCAAACTCAACGGCTAAATGGAG +CCTCAACCCCCACGTCTGAAACCCGGAAAAATCCTTGACACTCTGGGTGCTATGCAAAAA +AGCCTGACACGTGCCTCGCAGCGTATTGCGCAATATATTTTAGCCTTCCCCAGACAGGTG +ACACAGTCATCTATTGCGGATTTGTCGCGCGACACACAGGCCGGAGAAGCCACGGTTATT +CGCTTTTGTCGCACCCTGGGCTATAAAGGTTTTCAGGATTTTAAAATGGACCTGGCCATT +GAACTTGCCACTACCGAGTCTGATGACAGTAGTCCTCTACTGGATGCCGAAGTTAGCGAA +TCCGACGATGCCCACGCGATTGGTTTAAAATTGCAGAACACCATTAGTAATGTATTATCT +GAAACGCTAAATCTGCTGGATATGCAACAGGTTCTCGGTGTCGTGGACGCCCTACGTCAC +TGTCACTCAGTTTATATGTTTGGTGTGGGCTCATCGGGGATCACGGCGCTGGATATGAAA +CACAAGCTAATGCGTATGGGTTTACGGGGCGATGCGGTAAGCAATAACCATTTTATGTAC +ATGCAGGCTACGCTATTGAAAGCAGGCGATGTCGCGATGGGTGTCAGTCACTCGGGCACA +TCGCCAGAAACAGTGCATTCACTCCGATTGGCCCGACAGGCTGGCGCCACCACAGTCGCC +ATTACCCATAATCTGGGTTCTCCATTATGTGAAGAGGCCGATTTTTGCCTGATCAATGGT +AATCGGCAAGGAATGTTGCAGGGTGACTCGATCGGTACGAAAGCCGCGCAGCTTTTCGTC +TTTGACCTGCTCTATACCCTTCTTGTACAGTCCTCGCCGGAACAGGCCCGAGAAAGCAAA +TTACGGACAATGAATGCCCTGGACATGACAAAATAAATGAAGAAACTGCCCGGCTTTACG +CAAGATTACTTACTCAGCAAGGCGACGACCCTGCCTGATAAAACACGCCTGGAGCGTGCC +GTTGAACCGCTATGCGCGCGCCATCCCGGAGAGTGCGGCATTCTTGCGCTGGATAACAGT +CTGGACGCTTTTGCCGCCCGCTACCGCCTGACCGAAATGGCGGCGCGGACGCTGGATGTG +CAGTATTATATTTGGGAAGACGATATGTCCGGGCGGCTGCTCTTTTCGGTTCTGCTGTCG +GCGGCGAAGCGCGGCGTTCATGTTCGTCTGCTGCTGGATGATAACAATACGCCTGGTCTG +GATGATACGTTGCGCTTGCTGGATAGCCATCCTAATATCGAAGTTCGTCTGTTTAATCCT +TTCTCTTTTCGTACGCTACGCGCGCTGGGATATTTGACGGATTTTGCGCGGCTGAATCGG +CGGATGCACAATAAAAGTTACACTGCCGACGGCGTAGTGACGCTGGTCGGTGGGCGCAAC +ATCGGCGATGCCTATTTCGGCGCTGGCGAGGAGCCGCTATTTTCCGATCTGGACGTGATG +GCCATTGGCCCGGTGGTCAATGATGTCGCCAATGATTTTGAACGTTACTGGCGCTGTAGT +TCAGTGTCGACATTGCAGCAAGTATTATCCCTTTCTGAGCAGGAACTGACGCAGCGTATC +GAACTTCCCGAATCCTGGTATAACGATGAGATCACCCGCCGTTATCTGCATAAGCTGGAA +ACCAGCCAGTTTATGGCGGATCTCGATCGCGGAACGTTGCCGCTGATTTGGGCAAAAACA +CGCTTGCTTAGCGATGACCCTTCTAAAGGCGAGGGGAAGGCGCAGCGCCATTCGCTTCTT +CCGCAGCGATTATTTGACGTGATGGGGTCGCCGACGGAGCGTATCGACATTATTTCCGCT +TACTTTGTCCCTACGCGCGCAGGCGTGGCGCAGTTGCTTAATCTGGTCAGGAAAGGTGTG +AAGATCGCCATCTTAACTAACTCTCTGGCGGCCAACGATGTGGCGGTCGTTCACGCAGGG +TACGCGCGCTGGCGCAAGAAATTACTGCGCTATGGCGTGGAGCTCTACGAACTGAAACCG +ACCCGCGAACATGAAACCGCCGTACATGATCGCGGACTCACCGGGAACTCAGGTTCCAGC +TTACATGCTAAAACGTTCAGTATTGATGGTAGTAAGGTGTTTATCGGGTCGCTTAATTTT +GATCCCCGTTCAACGCTTTTAAATACCGAAATGGGCTTTGTCATTGAAAGTGAAACGCTG +GCGACGCTTATTCATAAGCGTTTTACGCAGAGCCAACGCGATGCGGCCTGGCAACTGCGG +CTGGATCGCTGGGGACGAATTAACTGGATCGATCGTCAGCAAGAAGAGGAAAAGGTGTTA +AAGAAAGAACCCGCTACGCGTTTCTGGCAGCGAGTTCTGGTACGGTTGGCGGCAATTTTA +CCTGTGGAATGGTTGCTGTGAATGCCAACTCAAGAAGCAAAAGCGCACCGCGTCGGCGAA +TGGGCAAGCCTGCGTAATACGTCGCCGGAAATTGCCGAAGCCATTTTTGAAGTCGCTCAC +TATGACGAGAAACTGGCAGAAAAAATATGGGAAGAAGGTAGCGATGAGGTGCTGATCAAA +GCCTTTGAGAAAACGGACAAAGACTCGCTCTTCTGGGGCGAACAAGTCATCGAACGTAAG +AACGTATAAATGTATCCCGTTGACCTGCATATGCATACCGTCGCGAGCACTCATGCCTAC +AGTACTCTGAGCGATTATATCGCGGAAGCCAAACGCAAAGGCATGAAACTTTTTGCGATT +ACCGATCATGGTCCGGACATGGAAGATGCGCCGCATCACTGGCAGTTTATTAACATGCGC +ATCTGGCCGCGTCTGGTTGACGGCGTGGGGATACTGCGTGGCATGGAGGCGAATATCAAG +AATATTAACGGTGAAATTGATTGTTCCGGAAAGATGTTCGACTCGCTGGATCTGATTATC +GCAGGCTTTCATGAGCCCGTTTTTGCGCCGCATGATAAAGAAACGAATACTCAGGCGATG +ATCGCGACCATCGCCAGCGGCAAGGTGCATATAATTAGTCACCCGGGAAATCCAAAGTAT +CCAGTGGAGGTTAAAGCCATCGCGCAGGCGGCGGCGAAACACCAGGTAGCGCTGGAAATC +AACAACTCTTCTTTTCTGCATTCGCGTAAAGGAAGCGAAGATAAGTGCCGCGCGGTCGCT +GCCGCCGTACGCGATGCGGGAGGCTGGGTAGCGTTAGGCTCTGAGTCCCATACGGCCTTT +ACGCTTGGCGATTTCACCGAATGCCGGAAAATTCTGGATGCGGTGAATTTTCCGGAAGAT +CGAATCCTGAACGTCTCTCCGCAGCGCTTACTGGCCTTTCTCGAGTCACGCGGTATGGCG +CCTGTACCGGAATTTGCCGAACTTTAAATGAATGAGTTTTCAATCCTGTGCCGTGTGCTG +GGATCGTTGTTTTACCGCCAAGCGCAAGATCCTTTACTGGTTCCGCTGTTTACGTTAATC +CGTGAAGGTAAACTGGCGGCAGACTGGCCGCTGGAGCAGGATGACATGCTGGCGCGTTTA +CAGAAAAGCTGCGATATCACGGAGATTTCCACTGATTACAATGCGTTATTTGTTGGGGAA +GAGTGCGCGGTAGCGCCATACGGCAGTGCGTGGGTCGAAGGCGCGGAAGAGTCTGAGGTG +CGCGCTTTTTTAACGTCGCGAGGGATGCCGCTGGCCGATACGCCTGCCGATCACATTGGC +ACTTTATTGCTCGCGGCCTCCGGGCTGGAAGATCAGTCTGCCGAAGATGAAAGTGAAGCG +CTGGAAACCTTATTTGCCGATGATCTGCTTCCCTGGTGCAATACCTTCCTCGGTAAAGTT +GAAGCCCATGCCGTTACGCCAGTCTGGCGCACTCTGGCGCCGCTAACGCGTGATGCGATA +GGGGCCATGTGGGATGAACTTGAGGAAGAAGATGAAGAATAAATGATGCGCGCGATGAAC +ATACTTCTTTCTATTGCTATCACTACGGGCATCCTTTCTGGAATATGGGGATGGGTGGCC +GTCTCCCTGGGGTTACTAAGCTGGGCCGGTTTTTTAGGCTGTACGGCTTATTTGGCCTGT +CCGCAGGGCGGCTTTAAGGGATTGTTGATTTCCGCCTGTACGCTGTTAAGCGGGATGGTG +TGGGCGCTGGTCATTATTCACGGTAGCGCGTTGGCGCCGCATCTGGAAATTGTGAGTTAC +GTGTTGACGGGGATCGTGGCATTCCTGATGTGTATCCAGGCAAAGCAGCTATTGCTTTCT +TTTGTTCCGGGAACATTTATCGGCGCCTGCGCGACATTTGCAGGGCAGGGTGAGTGGCGG +TTGGTATTACCGTCGCTGGCGCTGGGGCTAATCTTTGGCTATGCCATGAAAAAGAGTGGG +CTATGGCTGGCATCACGCCGCGAGCAACATTCAGCGAATACGGCGGTCACAAAGTAAATG +AAAAAAAACCTGCTGGGATTCACCCTCGCATCCTTGTTATTCACGACCGGTTCCGCCGTG +GCGGCGGAGTATAAAATTGATAAAGAAGGCCAACATGCGTTCGTCAATTTCCGCATCCAG +CATCTGGGCTACAGCTGGCTATACGGCACCTTTAAAGATTTCGACGGCACGTTCACTTTT +GACGAAAAAAATCCGTCAGCAGACAAAGTGAATGTGACCATTAACACCAATAGCGTCGAC +ACTAACCATGCCGAACGTGACAAACACCTGCGTAGCGCGGAGTTTCTTAATGTTGCGAAA +TTCCCGCAGGCAACCTTCACCTCTACCAGCGTGAAAAAAGAGGGCGATGAACTGGATATT +ACCGGCAATCTGACGCTCAATGGCGTGACTAAACCGGTGACGCTGGAAGCGAAGCTGATG +GGCCAGGGCGACGATCCGTGGGGCGGTAAGCGCGCGGGCTTTGAGGCCGAAGGAAAAATT +AAGCTGAAAGATTTCAATATAACTACCGATCTCGGCCCAGCCTCACAAGAGGTGGAGCTT +ATCATCTCAGTAGAAGGCGTTCAGCAGAAGTAAATGTTACTGATGATGGCGCTGATCGTG +CGTATTATCTGGCGGCTTTATTCTCCGCCGCCCGTTGCGTTGACCAGCTATTCCCGTTTA +ACGCGCATTGGCGCCGCCGCGGGTCATATCCTTCTGTATCTCCTGCTCTTTGCGATAATC +ATTAGCGGCTACCTGATTTCCACCGCCGACGGTAAACCGATTAGCGTCTTTGGCTGGTTT +GAGATTCCGGCCACGCTTACGGACGCGGGCGCGCAGGCTGACATCGCCGGAACACTGCAT +CTGTGGTTTGCCTGGTCGCTGGTCATTATCTCGCTCTCGCATGGGGTTATGGCGCTAAAA +CACCATTTCATCGATAAAGACGACACACTGAAACGTATGACAGGAATGTCGTCATCTGAC +TATGGAGCTCAAAAATGAATGGTTAAGTTATCAATGACGCTGCGCCTGACAATTTCTTTT +ATCGCCATACTTATCCTCGCCTGTACCGGCATTAGCTGGACGCTCTATAACGCGCTGAGC +AAAGAATTAACGTATCGGGATGATATGACGCTAATAAATCGGGCGGCGCAAATGCAGCAA +CTGTTACTGGATGGCGCCAGGCCGGAAAATCTGCCGCTCTATTTCAATCGGATGGTGGAT +ACGAAGCAGGATATCTTATTGATCCACTCAGCAACAGGCCATAATGTTGCGATTAATCAT +AGCGGCATCCCCGACCAACGCTTTAACGAGATTCCGCTGGCTAAAAACATCACCCGCGAA +ACCTTATTTCGCCAGGCGGTACAAGGCACGGAGCTGACCGCGGTACGAGTAAACGCCAGA +AGCGGCGATAACCCGCTGACCCTTACTATTGCCAGGCTGGCGACGGAAAGGCGGCAAATG +CTGGCGCAATATCGCCGCAACAGTTTGCTGATTAGCCTTATCGCGATCCTCGTCTGTTCG +GCGCTCAGTCCATTAGTCATCAGAAACGGGCTGCGGGCCATTACGTCGCTCAGCCGACTC +ACCGCGGCGACAGATAGCGGCACACTTCGCCAGCCGCTGGCGGAACAGGCGTTACCCGTC +GAGCTCAGGCCGCTTGGGCAAGCGCTAAATACCATGCGCCAGAAGCTTTCCGACGATTTT +GAACGCCTGAACCAATTTGCCGACGATCTGGCGCATGAGCTGCGCACGCCGGTTAATATT +TTACTGGGGAAGAATCAGGTTATGCTGAGTCAGGAACGCAGCGCCGAAGAGTATCAACAA +GCCCTTGTCGATAATATTGAAGAGCTGGAGGGACTGTCGCGACTGACAGAAAATATTCTC +TTTCTGGCACGCGCGGAGCACCAGAATATAGCGGTAAAAAAACAGCCTGTTTCGCTCAAT +GCGCTGGTCGAAAATATGCTGGATTATCTTAGCCCCCTTGCCGAAGAGAAGCACATCTGT +TTTATAAATCAATGTCAGGGAACGGTATGGGCTGACGAAATATTATTACAAAGAGTGCTC +TCAAACCTGCTGACGAATGCCATCCGTTATTCTGATGAAAACGCCGTGATACGTATTGAA +AGCGCTTATGATGATAACGTTGCAGAAATTCGGGTCGCTAATCCGGGCAGCCCCACCGCC +GATGCGGATAAGCTTTTCCGGCGTTTTTGGCGAGGAGATAATGCCCGCTACACTGCCGGT +TTCGGCCTGGGGTTATCGTTAGTTAACGCGATTGCCCTATTGCACGGTGGCTCGGCATCT +TACCGCTATGCCGATGAACATAATATCTTTTCGGTTCGTCTGCCTGATAGCGGTGATAGC +TAAGTGATATGTCTGAAAGTCCAGGGCGGCATTGGTGAAATTTTTACGGTGACGCAGCAG +GCGGATAAATTCTTGCCGGCTACGCAGTTCCACTGGAGCTGGACGGAAAGCACAGTACCT +GTATTGATGATTGGGTTTCTGTTTGCCAATATTCAGCAATTTACTGCCAGTCAGGATGTG +GTCCAACGCTATATGGTGACTGACTCCATAGAGGAAACGAAGAAAACATTACTTACAAAT +GCCAAACTGGTTGCGGTGATCCCTGTTTTCTTTTTTGCTATCGGCTCGGCATTATTTGTC +TACTATCAGCAACAGCCACAATTATTACCGGCGGGATTCAACACTGGCGGCATTTTGCCC +TTATTCGTGGTCACGGAAATGCCAGTCGGCATTGCAGGGTTGATAATCTCCGCTATTTTC +GCTGCCGCGCAGTCGAGCATCTCCAGCAGCTTAAACAGCATTTCCAGTTGTTTTAATTCC +GATATCTATCAGCGGTTGAGTCATAAAAAAGGAACGCCAGAAAACCGTATGAAAATAGCT +AAGTTAGTTATTCTGGTCGCGGGCCTGATAAGTAGCGCGGCCTCGGTATGGCTGGTCATG +GCCGATGAATCAGAGATCTGGGATGCATTTAATAGTCTGATAGGTCTGATGGGAGGGCCA +ATGACCGGTCTGTTGATGCTGGGCATTTTCTTTAAACGAGCAAATGCCGGGAGTGCGGTT +TTAGGAATTATTATGAGCGTCATTACCGTGCTGGGCACACGCTATGCCACTGACCTTAAC +TTCTTCTTTTATGGGGTCATTGGCTCGCTAAGCGTGGTGATCAGCGGCGTTATTTTCGCC +CCGTTATTTGCCCCGGCACCGCCATTGACGCTGGATGAAAAACCTGAACCAAAGGTGACA +TTATGAATGAAAATCAACAGATATCTTCTGGGTATGGTTTCGTTTATAGCATTTTCATCA +TATCTACAAGCGGCAACCCTTGATTATCGGCATGAATATGCTGATAGAACCAGAATTAAT +AAAGACCGTATTGCTATAATTGAAAAGCTTCCTAACGGCATTGGTTTTTATGTCGATGCC +AGCGTTAAATCGGGAGGAGTAGATGGTGAGCAGGATAAGCATTTAAGCGATCTCGTCGCA +AACGCTATAGAACTGGGCGTAAGTTATAATTATAAAGTTACGGACCATTTTGTTTTGCAG +CCTGGATTTATATTTGAAAGCGGTCCAGACACTTCAATTTATAAGCCTTATTTAAGGGCG +CAATATAATTTTGATTCTGGTGTTTATATGGCTGGTCGTTACCGTTATGACTATGCAAGG +AAGACAGCTAACTATAATGATGATGAGAAAACGAATAGATTTGATACTTATATAGGTTAT +GTTTTTGATGAGTTGAAATTGGAATATAAATTTACCTGGATGGATAGCGATCAAATTAAA +TTTGATAACAAAAAAACAAACTATGAACATAATGTGGCTTTAGCCTGGAAACTGAATAAG +TCATTTACACCATACGTTGAGGTCGGAAATGTAGCGGTGAGAAATAATACCGATGAGAGA +CAGACCCGTTATCGCGTTGGATTACAATACCACTTTTGAATGACGAAATACGGTGTTATA +GGTACAGGTTATTTTGGCGCTGAACTGGCGCGATTTATGTCTAAGGTTGAAGGGGCGAAA +ATCACTGCGATTTACGATCCGGTAAATGCGGCTCCGATAGCGAAAGAGCTGAACTGTGTC +GCCACTTCAACGATGGAGGCGCTTTGTACCCATCCTGATGTGGATTGCGTAATTATTGCT +TCACCAAATTACTTACATAAAGCGCCGGTCATTGCGGCGGCTAAAGCGGGTAAACACGTG +TTTTGTGAAAAACCTATCGCCTTAAATTACCAGGATTGTAAGGATATGGTTGATGCCTGC +AAAGAAGCTGGTGTTACCTTTATGGCGGGTCACGTTATGAACTTTTTTCACGGGGTTCGC +CACGCTAAAGCGCTCATCAAAGCCGGTGAAATCGGTGAAGTTACACAAGTTCACACTAAA +CGTAATGGTTTTGAAGACGTGCAGGATGAGATCTCATGGAAGAAGATTCGCGCAAAGTCA +GGTGGGCATCTGTACCATCACATTCACGAGCTAGATTGTACACTGTTCATCATGGATGAA +ACCCCATCCCTGGTTTCAATGGCGGCGGGGAATGTTGCGCACAAAGGTGAAAAATTTGGT +GATGAAGATGATGTTGTCCTAATCACCCTTGAGTTTGAAAGCGGTCGTTTCGCGACACTT +CAGTGGGGATCATCGTTCCACTACCCTGAGCACTATGTATTAATTGAGGGCACGACAGGT +GCAATTCTCATTGATATGCAAAACACGGCTGGTTATCTAATAAAAGCGGGCAAAAAAACA +CACTTTCTTGTGCATGAAAGCCAGGCGGAGGATGATGATCGTCGCAACGGTAACATATCC +AGCGAGATGGATGGCGCAATCGCTTATGGTAAACCCGGTAAACGTACGCCGATGTGGCTC +TCATCAATTATGAAACTGGAGATGCAGTACTTGCATGATGTGATAAACGGTCTGGAGCCA +GGCGAGGAGTTTGCTAAATTGCTAACGGGAGAAGCGGCGACAAATGCCATTGCTACCGCT +GATGCTGCGACGCTTTCTTCAAACGAGGGGCGCAAAGTTAAACTCACTGAAATTCTTGGC +TAAATGACATCACGTCTTCAGGTCATACAGGGTGATATCACTCAACTTAGCGTCGATGCG +ATTGTGAATGCCGCTAACGCATCATTAATGGGCGGCGGTGGCGTAGACGGCGCAATTCAT +CGCGCGGCGGGGCCGGCATTGCTGGACGCCTGTAAACTCATCCGTCAGCAACAGGGCGAA +TGTCAGACGGGACATGCGGTTATCACGCCTGCTGGCAAGCTTTCGGCAAAGGCGGTTATT +CACACAGTGGGGCCCGTCTGGCGAGGCGGCGAACACCAGGAAGCTGAGCTACTCGAAGAG +GCATACCGGAATTGTTTGCTGCTTGCCGAGGCGAATCACTTTCGTTCCATCGCTTTTCCG +GCAATCAGTACCGGCGTTTATGGCTATCCACGCGCCCAGGCCGCTGAAGTCGCCGTCAGG +ACGGTTTCAGATTTTATTACCCGTTACGCTCTGCCTGAACAGGTATACTTTGTCTGTTAT +GATGAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAAGGCGACGACCCTGCC +TGA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_reannotated_groups_file Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,7 @@ +hly: 1_1 2_1 3_1 +argF: 1_3 3_3 +group_4: 2_4 3_4 +speH: 1_2 2_2 +yfnB: 3_5 +group_7: 2_7 +group_6: 1_6
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_sample_weights_accessory_graph.dot Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,15 @@ +digraph g +{ + + /* list of nodes */ + "group_X"; + "group_X"; + "group_X"; + "group_X"; + "group_X"; + + /* list of edges */ + "group_X" -> "group_X" [weight = "2"]; + "group_X" -> "group_X" [weight = "2"]; + "group_X" -> "group_X" [weight = "2"]; +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_sample_weights_core_accessory_graph.dot Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,22 @@ +digraph g +{ + + /* list of nodes */ + "group_A"; + "group_B"; + "group_C"; + "group_D"; + "group_E"; + "group_F"; + "group_G"; + "group_H"; + + /* list of edges */ + "group_A" -> "group_B" [weight = "2"]; + "group_C" -> "group_B" [weight = "2"]; + "group_C" -> "group_D" [weight = "2"]; + "group_E" -> "group_D" [weight = "0.625"]; + "group_E" -> "group_F" [weight = "0.625"]; + "group_F" -> "group_G" [weight = "2"]; + "group_G" -> "group_H" [weight = "2"]; +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_set_difference_common_set Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,3 @@ +group_1: 1_1 2_1 3_1 +group_3: 1_3 3_3 +group_2: 1_2 2_2
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_set_difference_common_set_statistics.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1.fa.tmp.filtered.fa","query_2.fa.tmp.filtered.fa","query_3.fa.tmp.filtered.fa" +"group_1","","","3","3","1","","","","","","","","","1_1","2_1","3_1" +"group_2","","","2","2","1","","","","","","","","","1_2","2_2","" +"group_3","","","2","2","1","","","","","","","","","1_3","","3_3"
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_set_difference_unique_set_one Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1 @@ +group_6: 1_6
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_set_difference_unique_set_one_statistics.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,2 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1.fa.tmp.filtered.fa","query_2.fa.tmp.filtered.fa","query_3.fa.tmp.filtered.fa" +"group_6","","","1","1","1","","","","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_set_difference_unique_set_two Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,3 @@ +group_4: 2_4 3_4 +group_7: 2_7 +group_5: 3_5
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_set_difference_unique_set_two_statistics.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1.fa.tmp.filtered.fa","query_2.fa.tmp.filtered.fa","query_3.fa.tmp.filtered.fa" +"group_4","","","2","2","1","","","","","","","","","","2_4","3_4" +"group_5","","","1","1","1","","","","","","","","","","","3_5" +"group_7","","","1","1","1","","","","","","","","","","2_7",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_some_different_output Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,95 @@ +csgE: 11111_1#11_04109 22222_2#22_04109 +flgJ: 11111_1#11_04150 22222_2#22_04150 +hpaA: 11111_1#11_04075 22222_2#22_04075 +sopB: 11111_1#11_04059 22222_2#22_04059 +csgG: 11111_1#11_04107 22222_2#22_04107 +hpcB: 11111_1#11_04070 22222_2#22_04070 +ycdZ: 11111_1#11_04106 22222_2#22_04106 +uraH: 11111_1#11_04063 22222_2#22_04063 +yceJ: 11111_1#11_04126 22222_2#22_04126 +flgL: 11111_1#11_04152 22222_2#22_04152 +ybhO_2: 11111_1#11_04116 22222_2#22_04116 +msyB: 11111_1#11_04121 22222_2#22_04121 +hpaI: 11111_1#11_04073 22222_2#22_04073 +yedV: 11111_1#11_04061 22222_2#22_04061 +mdoC: 11111_1#11_04117 22222_2#22_04117 +nanE: 11111_1#11_04097 22222_2#22_04097 +csgF: 11111_1#11_04108 22222_2#22_04108 +sigE: 11111_1#11_04058 22222_2#22_04058 +flgE: 11111_1#11_04145 22222_2#22_04145 +hpcD: 11111_1#11_04071 22222_2#22_04071 +hpaX: 11111_1#11_04074 22222_2#22_04074 +mdtH: 11111_1#11_04134 22222_2#22_04134 +yccJ: 11111_1#11_04084 22222_2#22_04084 +yjhC: 11111_1#11_04101 22222_2#22_04101 +ghrA: 22222_2#22_04103 11111_1#11_04103 +csgB: 11111_1#11_04111 22222_2#22_04111 +wrbA: 11111_1#11_04085 22222_2#22_04085 +sglT: 11111_1#11_04096 22222_2#22_04096 +cbpM: 11111_1#11_04077 22222_2#22_04077 +flgI: 11111_1#11_04149 22222_2#22_04149 +hpaR: 11111_1#11_04066 22222_2#22_04066 +hpcC_1: 11111_1#11_04068 22222_2#22_04068 +copR: 11111_1#11_04062 22222_2#22_04062 +agp: 11111_1#11_04083 22222_2#22_04083 +hpaB: 11111_1#11_04065 22222_2#22_04065 +group_33: 11111_1#11_04114 22222_2#22_04114 +mdoH: 11111_1#11_04119 22222_2#22_04119 +flgD: 11111_1#11_04144 22222_2#22_04144 +cbpA: 11111_1#11_04078 22222_2#22_04078 +putA: 11111_1#11_04089 22222_2#22_04089 +hpaC: 11111_1#11_04064 22222_2#22_04064 +flgG: 11111_1#11_04147 22222_2#22_04147 +rutR: 11111_1#11_04087 22222_2#22_04087 +flgK: 11111_1#11_04151 22222_2#22_04151 +group_56: 11111_1#11_04088 22222_2#22_04088 +pepD_2: 11111_1#11_04060 22222_2#22_04060 +csgC: 11111_1#11_04113 22222_2#22_04113 +csgD: 11111_1#11_04110 22222_2#22_04110 +hpcG: 11111_1#11_04072 22222_2#22_04072 +ycdY: 11111_1#11_04105 22222_2#22_04105 +scsC: 11111_1#11_04081 22222_2#22_04081 +flgF: 11111_1#11_04146 22222_2#22_04146 +phoH: 11111_1#11_04092 22222_2#22_04092 +flgH: 11111_1#11_04148 22222_2#22_04148 +group_52: 11111_1#11_04091 22222_2#22_04091 +resA: 11111_1#11_04082 22222_2#22_04082 +yceI_2: 11111_1#11_04125 22222_2#22_04125 +bssS: 11111_1#11_04129 22222_2#22_04129 +yidK: 11111_1#11_04095 22222_2#22_04095 +group_47: 11111_1#11_04086 22222_2#22_04086 +mdoG: 11111_1#11_04118 22222_2#22_04118 +yiiy: 11111_1#11_04099 22222_2#22_04099 +solA: 11111_1#11_04128 22222_2#22_04128 +group_93: 11111_1#11_04120 22222_2#22_04120 +scsB: 11111_1#11_04080 22222_2#22_04080 +ymdB: 11111_1#11_04115 22222_2#22_04115 +ybbH_2: 11111_1#11_04093 22222_2#22_04093 +putP: 11111_1#11_04090 22222_2#22_04090 +hpaG: 11111_1#11_04067 22222_2#22_04067 +nanM: 11111_1#11_04098 22222_2#22_04098 +scsA: 11111_1#11_04079 22222_2#22_04079 +rnz: 11111_1#11_04076 22222_2#22_04076 +ycdX: 11111_1#11_04104 22222_2#22_04104 +nanT_3: 11111_1#11_04100 22222_2#22_04100 +hpcC_2: 11111_1#11_04069 22222_2#22_04069 +flgA: 11111_1#11_04141 +grxB: 11111_1#11_04133 +mviN: 11111_1#11_04138 +group_12: 11111_1#11_04055 +yceH: 11111_1#11_04136 +pipB2_2: 11111_1#11_04056 +flgC: 11111_1#11_04143 +yceE: 11111_1#11_04122 +htrB_2: 11111_1#11_04123 +mviM: 11111_1#11_04137 +csgA: 22222_2#22_04112 +flgN: 11111_1#11_04139 +rimJ: 11111_1#11_04135 +flgB: 11111_1#11_04142 +group_31: 22222_2#22_04141 +group_14: 11111_1#11_04112 +yceB: 11111_1#11_04132 +pyrC: 11111_1#11_04131 +flgM: 11111_1#11_04140 +group_17: 11111_1#11_04124
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_summary_statistics.txt Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,5 @@ +Core genes (99% <= strains <= 100%) 1 +Soft core genes (95% <= strains < 99%) 1 +Shell genes (15% <= strains < 95%) 24 +Cloud genes (0% <= strains < 15%) 4 +Total genes (0% <= strains <= 100%) 30
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_uneven_sequences.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,18 @@ +>1 +aNN +>2 +aaN +>3 +aaa +>4 +aaaaNN +>5 +aaaaaN +>6 +aaaaaa +>7 +aaaaaaaNN +>8 +aaaaaaaaN +>9 +aaaaaaaaa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/expected_union_of_groups.gg Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,7 @@ +group_1: 1_1 2_1 3_1 +group_3: 1_3 3_3 +group_4: 2_4 3_4 +group_2: 1_2 2_2 +group_7: 2_7 +group_5: 3_5 +group_6: 1_6
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/genbank_gbff/genbank1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,195 @@ +##gff-version 3 +##sequence-region CVAX01000001 1 489098 +# conversion-by bp_genbank2gff3.pl +# organism Salmonella enterica subsp. enterica serovar Typhi +# Note Salmonella enterica subsp. enterica serovar Typhi genome assembly 10426_1#28, scaffold ERS325254SCcontig000001, whole genome shotgun sequence. +# date 02-APR-2015 +CVAX01000001 GenBank region 1 489098 . + 1 ID=CVAX01000001;Dbxref=BioProject:PRJEB3215,taxon:90370;Name=CVAX01000001;Note=Salmonella enterica subsp. enterica serovar Typhi genome assembly 10426_1#28%2C scaffold ERS325254SCcontig000001%2C whole genome shotgun sequence.;collection_date=1994;country=Viet Nam;date=02-APR-2015;isolation_source=Not known;mol_type=genomic DNA;organism=Salmonella enterica subsp. enterica serovar Typhi;serovar=H58;strain=dtc71 +CVAX01000001 GenBank gene 358 1212 . - 1 ID=ERS325254_00002;Name=kdsA;locus_tag=ERS325254_00002 +CVAX01000001 GenBank mRNA 358 1212 . - 1 ID=ERS325254_00002.t01;Parent=ERS325254_00002 +CVAX01000001 GenBank CDS 358 1212 . - 1 ID=ERS325254_00002.p01;Parent=ERS325254_00002.t01;Dbxref=GI:804224942;eC_number=2.5.1.55;Name=kdsA;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004730486.1;locus_tag=ERS325254_00002;product=2-dehydro-3-deoxyphosphooctonate aldolase;protein_id=CQU24961.1;transl_table=11;translation=length.284 +CVAX01000001 GenBank exon 358 1212 . - 1 Parent=ERS325254_00002.t01 +CVAX01000001 GenBank gene 1250 2059 . - 1 ID=ERS325254_00003;Name=ERS325254_00003 +CVAX01000001 GenBank mRNA 1250 2059 . - 1 ID=ERS325254_00003.t01;Parent=ERS325254_00003 +CVAX01000001 GenBank CDS 1250 2059 . - 1 ID=ERS325254_00003.p01;Parent=ERS325254_00003.t01;Dbxref=GI:804224943;Name=ERS325254_00003;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004730487.1;product=regulator;protein_id=CQU25012.1;transl_table=11;translation=length.269 +CVAX01000001 GenBank exon 1250 2059 . - 1 Parent=ERS325254_00003.t01 +CVAX01000001 GenBank gene 2063 2452 . - 1 ID=ERS325254_00004;Name=sirB2;locus_tag=ERS325254_00004 +CVAX01000001 GenBank mRNA 2063 2452 . - 1 ID=ERS325254_00004.t01;Parent=ERS325254_00004 +CVAX01000001 GenBank CDS 2063 2452 . - 1 ID=ERS325254_00004.p01;Parent=ERS325254_00004.t01;Dbxref=GI:804224944;Name=sirB2;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004730488.1;locus_tag=ERS325254_00004;product=regulator;protein_id=CQU25030.1;transl_table=11;translation=length.129 +CVAX01000001 GenBank exon 2063 2452 . - 1 Parent=ERS325254_00004.t01 +CVAX01000001 GenBank gene 2449 3282 . - 1 ID=ERS325254_00005;Name=prmC;locus_tag=ERS325254_00005 +CVAX01000001 GenBank mRNA 2449 3282 . - 1 ID=ERS325254_00005.t01;Parent=ERS325254_00005 +CVAX01000001 GenBank CDS 2449 3282 . - 1 ID=ERS325254_00005.p01;Parent=ERS325254_00005.t01;Dbxref=GI:804224945;eC_number=2.1.1.-;Name=prmC;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570225.1;locus_tag=ERS325254_00005;product=N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase;protein_id=CQU25049.1;transl_table=11;translation=length.277 +CVAX01000001 GenBank exon 2449 3282 . - 1 Parent=ERS325254_00005.t01 +CVAX01000001 GenBank gene 3282 4364 . - 1 ID=ERS325254_00006;Name=prfA;locus_tag=ERS325254_00006 +CVAX01000001 GenBank mRNA 3282 4364 . - 1 ID=ERS325254_00006.t01;Parent=ERS325254_00006 +CVAX01000001 GenBank CDS 3282 4364 . - 1 ID=ERS325254_00006.p01;Parent=ERS325254_00006.t01;Dbxref=GI:804224946;Name=prfA;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004730490.1;locus_tag=ERS325254_00006;product=peptide chain release factor 1 (RF-1);protein_id=CQU25068.1;transl_table=11;translation=length.360 +CVAX01000001 GenBank exon 3282 4364 . - 1 Parent=ERS325254_00006.t01 +CVAX01000001 GenBank gene 4405 5661 . - 1 ID=ERS325254_00007;Name=hemA;locus_tag=ERS325254_00007 +CVAX01000001 GenBank mRNA 4405 5661 . - 1 ID=ERS325254_00007.t01;Parent=ERS325254_00007 +CVAX01000001 GenBank CDS 4405 5661 . - 1 ID=ERS325254_00007.p01;Parent=ERS325254_00007.t01;Dbxref=GI:804224947;eC_number=1.2.1.70;Name=hemA;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004730491.1;locus_tag=ERS325254_00007;product=glutamyl-tRNA reductase;protein_id=CQU25084.1;transl_table=11;translation=length.418 +CVAX01000001 GenBank exon 4405 5661 . - 1 Parent=ERS325254_00007.t01 +CVAX01000001 GenBank gene 5975 6598 . + 1 ID=ERS325254_00008;Name=hemM;locus_tag=ERS325254_00008 +CVAX01000001 GenBank mRNA 5975 6598 . + 1 ID=ERS325254_00008.t01;Parent=ERS325254_00008 +CVAX01000001 GenBank CDS 5975 6598 . + 1 ID=ERS325254_00008.p01;Parent=ERS325254_00008.t01;Dbxref=GI:804224948;Name=hemM;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004730492.1;locus_tag=ERS325254_00008;product=outer membrane lipoprotein;protein_id=CQU25103.1;transl_table=11;translation=length.207 +CVAX01000001 GenBank exon 5975 6598 . + 1 Parent=ERS325254_00008.t01 +CVAX01000001 GenBank gene 6595 7446 . + 1 ID=ERS325254_00009;Name=ipk;locus_tag=ERS325254_00009 +CVAX01000001 GenBank mRNA 6595 7446 . + 1 ID=ERS325254_00009.t01;Parent=ERS325254_00009 +CVAX01000001 GenBank CDS 6595 7446 . + 1 ID=ERS325254_00009.p01;Parent=ERS325254_00009.t01;Dbxref=GI:804224949;eC_number=2.7.1.-,2.7.1.148;Name=ipk;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004730493.1;locus_tag=ERS325254_00009;product=isopentenyl monophosphate kinase;protein_id=CQU25122.1;transl_table=11;translation=length.283 +CVAX01000001 GenBank exon 6595 7446 . + 1 Parent=ERS325254_00009.t01 +##FASTA +>CVAX01000001 +GCTTCCAGAATTCGTACGTTTTTCCATTCACACAATTTTCTTAATATGCTGCCTACTGCC +CTACGCTTCTCTCCATAGAACGCTTGTCTTCGGTATTTGGGCGCGAAAACTATGTGATAT +TTACAGTTCCATCGGGTGTGCGCTAAGCTCTTTTCGTCCCCCATTGGGACCCCCTTTTGA +TTTCTTGTTGAACTTTTGCAGTCGCCAGACCGCAAGATGTTTTAACAAATCAAAAGGGGT +TTTAATAACTGGCTTAAAGCTGAAAGCTTTCCGGAACCCCCAGCCTAGCTGGGGGTTTTC +CATAGACAAAAAAGCCGGATAGTATCTTATCCGGCCTACACAAGCTAAAAACCGCAATCA +GTTCTCGGTATCCAGCTCGTCGAAGCTTTTCACCAAATCATCAATCGCTTTTATCTGGGT +CAGGAACTGCTCCAGTTTCGCCAGCGGCAGCGCGGAAGGACCGTCGCACTTCGCGTTAGC +CGGGTCCGGATGCGACTCCAGGAACAGGCCCGCCAGACCGACAGCCATACCGGCGCGCGC +CAGCTCGGTCACCTGACCACGACGACCGCCCGAGGCAGCGCCAAATGGGTCGCGGCATTG +CAGCGCATGGGTAACGTCGAAAATCACCGGCGAGTTGCCGGAGACCTTTTTCATCACGCT +AAAGCCCAGCATATCCACCACCAGGTTGTCATAACCGAAGTTCGCGCCGCGATCGCACAG +AATCACCTTATCGTTACCGCCCTCATGGAACTTATCCACGATATTGCCCATCTGACCCGG +GCTTACAAACTGCGGCTTTTTCACGTTAATCACAGCGCCGGTTTTCGCCATCGCTTCCAC +CAGGTCGGTCTGGCGCGCCAAAAACGCCGGGAGCTGAATCACGTCAACCACATCAGCCAC +AGGCTGCGCCTGGCTGGCTTCATGGACGTCAGTGATCACTTTTACGCCAAATGTCTGTTT +GAGTTCCTGGAAGATTTTCATCCCTTCTTCCAGACCCGGCCCACGGTAAGAGTGAATAGA +GGAACGGTTGGCTTTATCAAAAGAGGCCTTGAACACGTAAGGAATACCCAGCTTCTGGGT +AACGGTTACGTAGTGCTCACAAATGCGCATTGCCAGATCGCGTGACTCCAGCACGTTCAT +ACCGCCAAACAGCACAAACGGCAGGTCATTTGCCACCTTAATGTCGCCAATGTTAACCAC +TTTTTGTTTCATAGGATCGCCTTACACTTATAGGTAAAATGTCGGTTAATTAATGTAGAA +CAATTTGCTTGTGCGCAATGGTGTTGATCTGCGCACGAATCATTTCGCTGATCGGGTCTT +CCGGACACTGTTCAACGAAGTAGCTTAAATCAGTCAGCGCAACGTGTTCACACTCAAGCT +GCGCGTAGATCAACCCGCGGTCACGGATTTCGTAAGGATCTTCCGGGTTAAATTGCAACA +ATGCTTCGCTAACGCGCAGCGCCAGCTCCATTTGCCGTTCCTCCATCAGCGAGGATTTCA +GCGTATCCAGTAGCTTACGAATCACTTCGGCGTTATCCGCTTCGTCCAAATCTTCGTTAA +ACAACTCGGCGACCGGACTAATATTGCCTTTTAACCAGACTTCGAGGGTATGTTCATCAA +GCGTTTCACCGTTGAACGGGTTAATCAGCCACATTTCTCCTTCCAGCGATTCAATACGCA +AAATCAGCTGCGTTGGGAAGATAACGGGCACCAACGGCAAATCAAGACGGTTTGCTATCC +ATAATAAAATAGCGCCCAACGATACAGCGCTCCCCTGGCGTTTTTTCAGGACTTTATCGA +GCCATAAAGCATCAGAAAGACGGTAGACGCCGCGGGAATCCGTGAACCCCCACTCGCCGT +AAAAAAGTGCCAGCAATTTTTCCAGTTGCTCATCCTGAGACAGGAGCTGGCTAATTTCTT +CCTGCGCCAGACTGACCAGACGTTCCAGTTCGTCGTAGACAAACTGCGTGGGAAAATCCA +GGCGAATCATCTCTGATGCCAGGATCATGCCATCACACAGCGGCGCATTGTTAAATTCGA +AATCAGCTAACGACCTCATGACTTACCCCAGTAACGGTATTTTTGTGGTGGCGAGTTTAA +TGATGATGTACAGCACCACCAGCGCCAGCGGGAAAGCGATAAAACGCGCCTGCTGGCTGC +GCGCCTGACGATAATCAAGCGCAATAAAACCCAAAACGATGTAGATGATAACGCCAAACA +GTTTTTCAGTCAGCCATGAGCCCGACTCCGTGAATGGCAGGATGTGCGTTTTAACGATTA +ACCCAATACCGCTAAGCAGTAACAGGGTATCTATGACGGGAGGCACGATTCGTGTCCAGC +GCGCGGCGGCCAACGCATGGCCGCAATAGCGCCACCAGTAACGAGCGACAAACAAACTGA +CGGAGAGCGCAACACAAATAAGATGAAGCGTGAGCAACATTGCAATTGTCATGGCGTAAA +ACGCCCGCAGGCCACGCGTTCATTGCCACCATAATCACGACACGTTTCTACATCCGTGTA +ACCAGACCGCCTGAAAGCCGCTCTTACCGCTTCGCCCTGCCGCCAACCGTGTTCCAGCAG +CAGGAAGCCGCCGGGCGTTAACATCTGGCGGGCATTATCGATAATATGCGTAAGATCCGC +CATACCGTTTTCGTCCGCCACCAACGCTGAGCGCGGTTCAAAGCGTACATCGCCTTCGCT +AAGGTGCGGGTCCTGCGCGTCAATGTAGGGCGGATTGCTGACAATCATGTCGAACTGCTG +CCCCGATAGTGCGCTGAACCAACAACTTTGCAGTATACGCACATTCCGGATAGCCAAATG +TTCCGCGTTGCGTATCGCCAGCGCAACCGCATCAGGCATACGATCGACCGCAGTCACCTC +GCAATCCGGTCGCTCGCAGGCCAGCGCCAGCGCAATCGCGCCGGTTCCGGTGCCTAAATC +CAGAATACGACAGGTTTTGACCGGCAATCGCGCCAACGCCTGTTCAACCAGACATTCGGT +ATCCGGGCGCGGGATTAGCGTGGCGGGAGAAACGAAGAGCGGCAGCGACCAAAATTCGCG +TAAGCCCGTCAGGTACGCAATGGGTTCGCCCTGTTTACGCCGCTGCAGCAGCTCCGCGAG +CTGTTGTTGCTGGACATCGGTAAGCGGCGTTTCGCCAAAGGCCATGATATACGTCCGCCT +CTTGCCCGTAACGTACTCAAGCAGGATCTCGGCGTCGCGCCGGGGGCTGTCGCTGTCCCG +GAGCTGGTTTACCGCCTCATGTAGCCAGTGCTGAAAATCCATTATTCCTGCTCGGACAAC +GCGGCTAACAGGTCAGCCTGGTGTTCCTGAACAATCGGCTCAATCAGCATATCCAGCTTA +CCTTCCATCGTTTCATCAAGGCGATATAACGTCAGATTAATACGATGATCGGTCACGCGC +CCCTGCGGGAAATTATAGGTCCGGTTACGATCGCTGCGATCGCCGCTGCCAAGCAGGTTG +CGGCGCGTTGACGCCTCGGCCTGCTGGCGTTTTGCCGTTTCGGCGGCGTGAATGCGCGCC +CCGAGCACCGAGAGCGCTTTCGCTTTGTTTTTATGCTGCGAACGCTCGTCCTGGCATTCC +ACCACGATGCCGGTCGGCAAGTGGGTAATACGGATAGCGGAGTCGGTGGTGTTAACGTGC +TGACCGCCCGCGCCGGAAGAACGAAACGTATCAATGCGCAGATCCGCCGGGTTAATATCC +GGCAGCTCGGCTTCCGGCAGCTCCGGCATCACGGCGACGGTACAGGCGGAGGTATGGATA +CGCCCCTGCGACTCGGTCGCCGGAACACGCTGTACGCGGTGTCCGCCGGACTCAAATTTC +AGTCGGCCATACACGCCGTCGCCGCTGATTTTGGCGATGATCTCTTTATAACCGCCATGC +TCGCCTTCGCTCATGCTCATGATCTCCACGCGCCAGCGGCGCGCTTCGGCATAACGGCTG +TACATGCGGAACAGATCGCCGGCAAACAGCGCGGCTTCGTCGCCGCCAGTGCCGGCGCGA +ACCTCAAGGAACGCGTTTCGTTCATCGTCCGGATCTTTCGGCAGCAGCAGTACCTGTAAC +TGTTGCTCCAGTTGTTCGCTTTTTTCTTTCGCTTCGCGCAGTTCTTCCTGCGCCATTTCC +CGCATTTCAGGATCGTCGAGCATCATCTGAGCCGTCTCGATATCGTCCTGAACCTGTTGC +CAGTCCGTAAAACAGCGAGAAACGTCGCTTAATTGCGCATATTCGCGCGACAATGCGCGA +AAGCGGTCCTGGTCGGCGATAATTCCCGCATCGCCCAGCAACGCCTGAACTTCCTCATGG +CGTTCGTGCAGGGCTTCCAGTTTGGCAACGATAGAAGGCTTCATAGGCGTAAATTCACCC +TGTAAAAAAGTGTGGTGTGTGCTGCTACTCCAGCCCGAGGCTGTCGCGCAGAATATTCAG +GCGTTCGTCATCCCCGTCACGGGCAGCCTGTTGAAGTGATTTCGTTGGCGCATGAATCAG +GCGGTTGGTCAGTTTCCATGCCAGATCCTGCAAGATGGCTTGCGCATCACCGCCCTGTTG +AAGGGCCGACAGCGCTTTGGTAGTCAGTTCGTCACGAATCTGCTCCGACTGACTACGGTA +TTCCCGAATGGTCTCGCTGGCCCCCTGGGCGCGTAGCCAGGCCATAAACTCGCTGGCTTC +CTGCTCAACAATCGTTTCCGCTTCCACCGCCGCAGCCTGACGCTGCGCCAGATTATGCGA +AATGATGCTCTGTAAATCATCGACGCTATAAAGATAAGCGTTCGCCAGTTTGCCGACTTC +CGGCTCAACGTCGCGCGGTACGGCGATATCCACCAGCAGCATCGGCTGGTTGCGACGGCT +TTTTAATGCGCGCTCCACCATGCCTTTACCGATAATCGGCAGCGGGCTGGCGGTCGAACT +GATGATAATATCGGCATCCTGCAAGCGGGCGTCGATATCGCTGAGCGAGATAACCTCAGC +GCCAACCTCATCCGCCAGGGCTTGCGCGCGCTCGCGGGTTCGGTTGGCGATAATCATCTT +TTGTACTTTATGCTCGCGCAGGTGACGCGCCACCAGTTCAATAGTTTCGCCCGCGCCAAC +TAACAGTACAGTGACCGTCGAGAGCGATTCAAAGATTTGGCGGGCGAGCGTACAGGCGGC +AAACGCGACGGAGACGGCGCTGGCGCCGATATCGGTTTCAGTCCGCACTCGCTTGGCGAC +GGAAAAAGACTTCTGAAACATTCGCTCCAGCGCGCTGGCGTTAAGGTGGCCTTTTTGCGA +ATCCGCAAACGCTTTTTTCACCTGACCGAGGATTTGCGGTTCGCCCAGCACCAGTGAATC +CAGACCGCTGGCGACGCGCATCAGGTGGCTGACGGCGTCATTGTCCTGATGCCAGTACAG +ACTGTTGCGCAGATCGTCCTCGTTCAGGTTATGGTAATCGCATAACCAGCGGATCAGCGC +TTCTTGCAGGTTATCCTGCTCTTCCACGCTCAAATACAGCTCTGTACGGTTACAGGTTGA +CAGCACGACCCCGCCCTGCACCATTGGCTGCGCAAGCAGGCTGTCCAGCGCCTGATCAAG +CGTGTCCGGCGAAAACGTTACGCGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTAAT +ACCGAGTGCTAAAAGGGTCATGTCTGCGGGAGTAGTACCAGCGTTGATATGGTTAGTCTG +CTTGCATCATACAGGATGCGCGTGGTCAATAAAAGAGAGAGCCCCCTTTTGGAGTAATTG +GCAGCGCTCGCTAATTTGATGATTTAAGACAACTTGAAAGTAGACGATGTCACCAGGCGG +CGCTAGCATTAAAGGCTATAACTGTAACCGATAGCAAAAATTTGCCGAATCGCGGCGCGA +ACGTTTTTACAGCTTGCCGGTTCAGTTTTCAGGCCTGATAAGCGTAACGCCTTCAGGCAA +TTATTGCACCGTATCACAAGGATTCGTCATCACTATGACCCTGCCCGATTTTCGCCTGAT +TCGTCTACTGCCGTTAGCAAGCCTGGTTCTCACCGCCTGTACGCTTCCTGGGCATAAAGG +CCCGGGCAAGAGCCCGGATTCCCCTCAGTGGCGCCAGCATCAGCAAGAGGTGCGTCATCT +GAATCAATACCAGACGCGCGGCGCCTTTGCTTACATCTCAGATGATCAGAAAGTCTATGC +GCGCTTCTTCTGGCAACAGACCGGACAGGATCGCTACCGCCTGCTGCTTACCAACCCGCT +GGGCAGCACCGAGCTGGAGCTTAACGCCCAGCCGGGCAACGTCCAGTTGGTGGATAACAA +AGGCCAGCGTTATACCGCCGATGACGCCGAAGAGATGATCGGCAAACTCACCGGGATGCC +GATTCCGTTAAACAGCCTGCGGCAGTGGATCCTCGGTCTGCCTGGCGATGCCACCGACTA +CAAACTGGACGACCAGTACCGCCTGAGCGAAGTGAACTACCACCAGGATGGTAAAAACTG +GAAAGTGGTTTACGGTGGCTATGACAGCAAAACGCAGCCTGCCATGCCAGCCAATATGGA +GCTTTCAGATGGCAGTCAGCGCATTAAGCTGAAAATGGATAACTGGATTGTGAAATGATG +ACCCATTGGCCTTCTCCGGCAAAATTAAATCTGTTTTTATATATCACCGGACAGCGTGCA +GACGGCTACCACACGCTGCAGACGCTGTTTCAGTTTCTGGATTATGGCGACACACTCCAC +ATCGAACCGCGTCACGATGGCGAAATCCATTTATTAACGCCGGTAACCGGCGTTGAAAAT +GAAGACAATCTGATCGTCCGCGCCGCGCGGCTGTTGATGAAAGTCGCCTCGGAGAGTGGA +CGCCTGCCCGCCGGAAGCGGCGCGGATATCAGCATTGAGAAGCGCCTTCCCATGGGCGGC +GGTCTGGGTGGCGGCTCGTCTAACGCCGCGACCGTTCTGGTGGCGCTCAATCATCTTTGG +CAATGCGGGCTTTCCATTGATGAACTGGCGACGCTCGGCCTGACGCTCGGCGCCGACGTC +CCGGTCTTTGTTCGTGGCCACGCCGCGTTTGCCGAAGGCGTAGGCGAAATATTAACGCCG +GTGAATCCGCCGGAAAAATGGTATCTGGTCGCGCACCCTGGCGTAAGCATTCCGACGCCA +GTTATCTTTAAAGATCCTCAATTGCCGCGTAATACGCCAAAAAGGTCAATAGATACGTTA +CTAAAATGTGAATTCAGCAATGATTGCGAGGTTATCGCAAGAAAACGTTTTCGCGAGGTT +GATGCGGCGCTTTCCTGGCTGTTAGAATACGCGCCGTCGCGCCTGACTGGGACAGGGGCC +TGTGTCTTTGCTGAATTCGATACAGAGTCTTGTGCTCGCCAGGTGCTTGAGCAAGCCCCG +GAATGGCTCAATGCTTTTGTGGCGAAGGGTGTTAACCTTTCCCCATTGCATCGAGAGTTA +CTCTAACGCATTCGGGTTTCAGGAAGATGGCGAAATGACGAGTCGCCGGTCATATATGCC +GTATTTGACCGGTGTGAGGCATTGATACCAGCGCACATGAAACGTGAATGAAGACGAGTA +AGCCGGGCAAGCTGAGCTTCGGTGACAACGTCACCTTGTTCCAGACGTTGCATCGCGCTC +TTTAATACACCGCCTGGATAGGATTTTGCCTGGCCCGCACAGTTTTCGGCAGATTCTTTC +CACCAATGGACGCATGCCTGAGGTTCTTCTCGTGCCTGATATGAAGCTTTTTGCTGGTAA +CGCCACCCCGGAACTAGCACAACGTATTGCCAACCGCCTGTACACTTCTCTCGGCGACGC +CGCCGTAGGTCGCTTTAGCGACGGCGAAGTCAGCGTACAAATCAACGAAAATGTACGCGG +TGGTGATATTTTCATCATCCAGTCCACTTGTGCCCCAACCAACGACAACCTGATGGAATT +GGTCGTTATGGTTGATGCCCTGCGTCGTGCTTCCGCAGGTCGTATCACCGCCGTTATCCC +CTACTTTGGCTATGCACGTCAGGACCGTCGCGTACGTTCCGCCCGTGTGCCGATTACCGC +AAAAGTTGTCGCTGACTTCCTGTCCAGCGTCGGCGTTGACCGCGTTCTCACCGTAGATCT +GCATGCTGAACAGATCCAGGGCTTCTTTGACGTTCCGGTTGATAACGTGTTCGGTAGCCC +AATCCTGCTCGAAGATATGCTGCAACTGAATCTGGATAACCCAATCGTGGTTTCCCCGGA +TATTGGCGGCGTGGTTCGTGCCCGCGCTATCGCTAAGCTGCTGAACGATACCGATATGGC +TATCATTGATAAACGTCGTCCGCGCGCGAACGTTTCTCAGGTGATGCACATCATCGGCGA +CGTCGCTGGCCGTGACTGCGTGCTGGTTGATGATATGATCGATACCGGCGGTACTCTGTG +CAAAGCAGCAGAAGCATTGAAAGAACGTGGCGCTAAACGCGTGTTTGCCTACGCGACGCA +CCCGATCTTCTCAGGCAATGCGGCAAACAACCTGCGCAACTCCGTTATTGACGAAGTCGT +TGTCTGTGACACCATTCCGCTGACCGACGAAATCAAAGCGCTGCCGAACGTGCGTACTTT +GACCCTGTCAGGTATGCTGGCCGAAGCGATTCGCCGTATCAGCAACGAAGAATCGATTTC +CGCCATGTTCGAGCATTGATCGAACCCGGATCTGAAACCCGCTGCGGCGGGTTTTTTTGT +CTGTAACACCCTTTTATATGACTTATGCCTCCTTCACCTGCCATTTAGTTGACAGATGAT +GCGCTCATGGATGAAACATTATTGTGAACAAATTATTTTCCTCACATGTGATGCCTTTCC +GCGCTCTCATCGATGCTTGCTGGAAAGAAAAATATACCGCCTCCCGGTTCACCCGTGATG +TGATAGCCGGGATCACCGTCGGGATTATTGCTATCCCGCTGGCGATGGCGCTGGCAATTG +GCAGTGGCGTTGCGCCGCAGTATGGCCTCTATACCTCCGCTGTCGCCGGGATCGTGATCG +CGCTAACCGGCGGCTCGCGCTTTAGCGTTTCCGGCCCTACCGCCGCGTTTGTGGTGATTT +TGTATCCGGTGTCGCAACAGTTTGGTCTGGCGGGCCTACTGGTCGCCACGCTGATGTCGG +GCTTCTTCCTGATCCTTTTCGGCCTGGCGAGACTGGGGCGATTGATTGAATATATCCCGG +TGTCGGTCACGTTGGGTTTTACCTCAGGGATTGGTATTACCATCGGTACCATGCAGATTA \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/genbank_gbff/genbank1.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,49 @@ +>ERS325254_00002.p01 +MKQKVVNIGDIKVANDLPFVLFGGMNVLESRDLAMRICEHYVTVTQKLGIPYVFKASFDK +ANRSSIHSYRGPGLEEGMKIFQELKQTFGVKVITDVHEASQAQPVADVVDVIQLPAFLAR +QTDLVEAMAKTGAVINVKKPQFVSPGQMGNIVDKFHEGGNDKVILCDRGANFGYDNLVVD +MLGFSVMKKVSGNSPVIFDVTHALQCRDPFGAASGGRRGQVTELARAGMAVGLAGLFLES +HPDPANAKCDGPSALPLAKLEQFLTQIKAIDDLVKSFDELDTEN* +>ERS325254_00003.p01 +MRSLADFEFNNAPLCDGMILASEMIRLDFPTQFVYDELERLVSLAQEEISQLLSQDEQLE +KLLALFYGEWGFTDSRGVYRLSDALWLDKVLKKRQGSAVSLGAILLWIANRLDLPLVPVI +FPTQLILRIESLEGEMWLINPFNGETLDEHTLEVWLKGNISPVAELFNEDLDEADNAEVI +RKLLDTLKSSLMEERQMELALRVSEALLQFNPEDPYEIRDRGLIYAQLECEHVALTDLSY +FVEQCPEDPISEMIRAQINTIAHKQIVLH* +>ERS325254_00004.p01 +MTIAMLLTLHLICVALSVSLFVARYWWRYCGHALAAARWTRIVPPVIDTLLLLSGIGLIV +KTHILPFTESGSWLTEKLFGVIIYIVLGFIALDYRQARSQQARFIAFPLALVVLYIIIKL +ATTKIPLLG* +>ERS325254_00005.p01 +MDFQHWLHEAVNQLRDSDSPRRDAEILLEYVTGKRRTYIMAFGETPLTDVQQQQLAELLQ +RRKQGEPIAYLTGLREFWSLPLFVSPATLIPRPDTECLVEQALARLPVKTCRILDLGTGT +GAIALALACERPDCEVTAVDRMPDAVALAIRNAEHLAIRNVRILQSCWFSALSGQQFDMI +VSNPPYIDAQDPHLSEGDVRFEPRSALVADENGMADLTHIIDNARQMLTPGGFLLLEHGW +RQGEAVRAAFRRSGYTDVETCRDYGGNERVACGRFTP* +>ERS325254_00006.p01 +MKPSIVAKLEALHERHEEVQALLGDAGIIADQDRFRALSREYAQLSDVSRCFTDWQQVQD +DIETAQMMLDDPEMREMAQEELREAKEKSEQLEQQLQVLLLPKDPDDERNAFLEVRAGTG +GDEAALFAGDLFRMYSRYAEARRWRVEIMSMSEGEHGGYKEIIAKISGDGVYGRLKFESG +GHRVQRVPATESQGRIHTSACTVAVMPELPEAELPDINPADLRIDTFRSSGAGGQHVNTT +DSAIRITHLPTGIVVECQDERSQHKNKAKALSVLGARIHAAETAKRQQAEASTRRNLLGS +GDRSDRNRTYNFPQGRVTDHRINLTLYRLDETMEGKLDMLIEPIVQEHQADLLAALSEQE +* +>ERS325254_00007.p01 +MTLLALGINHKTAPVSLRERVTFSPDTLDQALDSLLAQPMVQGGVVLSTCNRTELYLSVE +EQDNLQEALIRWLCDYHNLNEDDLRNSLYWHQDNDAVSHLMRVASGLDSLVLGEPQILGQ +VKKAFADSQKGHLNASALERMFQKSFSVAKRVRTETDIGASAVSVAFAACTLARQIFESL +STVTVLLVGAGETIELVARHLREHKVQKMIIANRTRERAQALADEVGAEVISLSDIDARL +QDADIIISSTASPLPIIGKGMVERALKSRRNQPMLLVDIAVPRDVEPEVGKLANAYLYSV +DDLQSIISHNLAQRQAAAVEAETIVEQEASEFMAWLRAQGASETIREYRSQSEQIRDELT +TKALSALQQGGDAQAILQDLAWKLTNRLIHAPTKSLQQAARDGDDERLNILRDSLGLE* +>ERS325254_00008.p01 +MTLPDFRLIRLLPLASLVLTACTLPGHKGPGKSPDSPQWRQHQQEVRHLNQYQTRGAFAY +ISDDQKVYARFFWQQTGQDRYRLLLTNPLGSTELELNAQPGNVQLVDNKGQRYTADDAEE +MIGKLTGMPIPLNSLRQWILGLPGDATDYKLDDQYRLSEVNYHQDGKNWKVVYGGYDSKT +QPAMPANMELSDGSQRIKLKMDNWIVK* +>ERS325254_00009.p01 +MMTHWPSPAKLNLFLYITGQRADGYHTLQTLFQFLDYGDTLHIEPRHDGEIHLLTPVTGV +ENEDNLIVRAARLLMKVASESGRLPAGSGADISIEKRLPMGGGLGGGSSNAATVLVALNH +LWQCGLSIDELATLGLTLGADVPVFVRGHAAFAEGVGEILTPVNPPEKWYLVAHPGVSIP +TPVIFKDPQLPRNTPKRSIDTLLKCEFSNDCEVIARKRFREVDAALSWLLEYAPSRLTGT +GACVFAEFDTESCARQVLEQAPEWLNAFVAKGVNLSPLHRELL*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/genbank_gbff/genbank2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,282 @@ +##gff-version 3 +##sequence-region CVBR01000001 1 488985 +# conversion-by bp_genbank2gff3.pl +# organism Salmonella enterica subsp. enterica serovar Typhi +# Note Salmonella enterica subsp. enterica serovar Typhi genome assembly 10426_1#57, scaffold ERS325340SCcontig000001, whole genome shotgun sequence. +# date 02-APR-2015 +CVBR01000001 GenBank region 1 488985 . + 1 ID=CVBR01000001;Dbxref=BioProject:PRJEB3215,taxon:90370;Name=CVBR01000001;Note=Salmonella enterica subsp. enterica serovar Typhi genome assembly 10426_1#57%2C scaffold ERS325340SCcontig000001%2C whole genome shotgun sequence.;collection_date=1994;country=Viet Nam;date=02-APR-2015;isolation_source=Not known;mol_type=genomic DNA;organism=Salmonella enterica subsp. enterica serovar Typhi;serovar=H58;strain=ct1-65 +CVBR01000001 GenBank gene 79 726 . - 1 ID=ERS325340_00001;Name=narL_1;locus_tag=ERS325340_00001 +CVBR01000001 GenBank mRNA 79 726 . - 1 ID=ERS325340_00001.t01;Parent=ERS325340_00001 +CVBR01000001 GenBank CDS 79 726 . - 1 ID=ERS325340_00001.p01;Parent=ERS325340_00001.t01;Dbxref=GI:804333227;Name=narL_1;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002147204.1;locus_tag=ERS325340_00001;product=transcriptional regulator NarP;protein_id=CQU31315.1;transl_table=11;translation=length.215 +CVBR01000001 GenBank exon 79 726 . - 1 Parent=ERS325340_00001.t01 +CVBR01000001 GenBank gene 2716 3507 . + 1 ID=ERS325340_00003;Name=ERS325340_00003 +CVBR01000001 GenBank mRNA 2716 3507 . + 1 ID=ERS325340_00003.t01;Parent=ERS325340_00003 +CVBR01000001 GenBank CDS 2716 3507 . + 1 ID=ERS325340_00003.p01;Parent=ERS325340_00003.t01;Dbxref=GI:804333228;Name=ERS325340_00003;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002041506.1;product=side tail fiber protein;protein_id=CQU31351.1;transl_table=11;translation=length.263 +CVBR01000001 GenBank exon 2716 3507 . + 1 Parent=ERS325340_00003.t01 +CVBR01000001 GenBank gene 4176 6542 . + 1 ID=ERS325340_00004;Name=sspH2;locus_tag=ERS325340_00004 +CVBR01000001 GenBank mRNA 4176 6542 . + 1 ID=ERS325340_00004.t01;Parent=ERS325340_00004 +CVBR01000001 GenBank CDS 4176 6542 . + 1 ID=ERS325340_00004.p01;Parent=ERS325340_00004.t01;Dbxref=GI:804333229;eC_number=6.3.2.-;Name=sspH2;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002244314.1;locus_tag=ERS325340_00004;product=secreted effector protein;protein_id=CQU31395.1;transl_table=11;translation=length.788 +CVBR01000001 GenBank exon 4176 6542 . + 1 Parent=ERS325340_00004.t01 +CVBR01000001 GenBank gene 7163 7180 . - 1 ID=ERS325340_00005;Name=ERS325340_00005 +CVBR01000001 GenBank tRNA 7163 7180 . - 1 ID=ERS325340_00005.r01;Parent=ERS325340_00005;Name=ERS325340_00005;inference=COORDINATES: profile:Aragorn:1.2.36;product=tRNA-Pro +CVBR01000001 GenBank exon 7163 7180 . - 1 Parent=ERS325340_00005.r01;Name=ERS325340_00005 +##FASTA +>CVBR01000001 +TAGAGCGCAGTATCCGGCTGGCGCAGGAGAAATAAGACCCTGACGGCCCGGTGGCGTGGC +GCCACCGGGCCTGGCTTGTTACTGCATTCCGCGTGTTTGTAAAAATAGAATGGTCGCCGC +GACGCGCGAGCGCACGTTTAGCTTGCGAAGTAGATTACGAATGTGCACCTTAACCGTCTG +CTCAGAAATATTCAGTACTGACGCAATCTGTTTGTTAGAAAGCCCCTGCGCCAGCTCATG +CAAGACATCTAACTCTCGTTCGGTCAGGATACTAAAGGGATCTTCCTGCGCGCCAAACCG +TTCACGCTCACGCAGATATTCATTGACCCGATCGCTAAAGACTTTACCGCCGTTAGCGCC +TTTGCGAATGGCCTCCAGCAGCACTTCCGGATCGCTATCTTTGAGCAGATAACCGTCGGC +GCCGGCGTCGATCAGCGCGTAGATGTCGCTGGCGGAATCCGAGACGGTAAGAATAATAAT +TTGCGCCGTCACACCATCCCGGCGTAGCGCGTTCAGGGTATCTAACCCGCTCAGACCTTT +CATATTCAGATCCAGCAGGATCAGATCGGGCTCAATGCGATTCGCCAGATCGATCGCACT +CGCCCCGTCACCCGCTTCGGCAACGACATAAAAAGCCGGGTCCAGTTCCAGTAATTGACG +AATACCTCGCCGCATAAGTGGATGGTCGTCCACAATAAGCACCTGAAAAGGTGTTACTTC +AGGCATGCTATATCTCCTGAGTTTTATTAGAATGATTATTGTTTTCAGCGCGGAAATCGT +CCAGATTTGCCACATTGTCAAGCGCGTAAATTTTACCTTAATTAGTGCATGGGTAAGTAG +TAAAACCTGTGACAGGCGAGTCATTAGCTGAACGATAGAAAGGATAAAACAACCTGTTGT +GAGAGAAAACAGAATACTCCCTGAAGTTGAATACTGGTCTGGACGCTTTTTTCGGACAAT +GTGACATAACAGAAGTGTGGCATATGTAGCTGCGCCCTTGCGTCCGTAAGTCCAGACTAT +CTTTACTGGCAGGAAATTCCTTATTAAAAGTCATAGCGTCTAAAGATTTTCATTATTAAC +AAATTATTTTAATTGAATTTATTTATGGTTTTATTAATGCCAATGAAATACATCTGAGCA +GAACGAATAAACCGCGACATCTGTTAAATTAAATATTAAGTCAATAGCAGAGGTATTTTT +ATGCGATAAAGAGATTCTGACGATATTCTTATCATAAATGAAAATGTGGTCAGGAATGAG +CGTCATTCACTTATAACTTATCCTGGATGTGCCTGAACAACACTCGCGGCGTTTTGAGCA +CCCGTTGGGGCGACTCAAGGGGAGAACGTAGTGTGGATGCTATATCAGCCGTTTCTGTGA +GCGTAAGCGTGGCGTAGAAAATTTTAAATATGTTAGCCGGTTAAAAATAACTATTGACAT +TGAAATGGTGGTGGAGTGTATATGAAGAGAATATTTATATATCTATTATTACCTTGTGCA +TTCGCATGTTCTGCTAATGATAATGTTTTTTTGGCAAGGGCAACAAGCATCAGATCTCTT +TTGCTGCGGGAGAAAGTATAAGAAGAGGAGGGGTTGAGCACTTATATACGGCTTTTCTGA +CATACAGTGAACCCAGCGATTTTTTCTTTTTACAGGCAAGAAATAATCTGGAGTTAGGAG +GATTTAAGGCTAAGGGTAGCGATGATTGCAGTAAACATTCTGGCAGCGTTCCCTGTAATA +AATATAACCAGGGCGTATTGGGTATCTCGAAGGATGTGGCGCTGGTTCATTTCGCTGGTA +TCTATACCGGTATTGGTCTGGGGGCTTATATAAAATCTAAGTCGCGAGATGATATGCGTG +TCAATTCTGCATTTACCTTTGGAGAAAAAGCGTTTCTTGGCTGGAACTTTGGGGCTTTTT +CTACAGAAGCTTATATCCGGCATTTCTCGAATGGATCACTTACGGATAAAAATTCAGGGC +ATAATTTTGTAGGTGCTTCAATTAGTTATAATTTCTGAAGTTGAATAACAATTAGCGAGT +TGCTGGCTGAAGGAGTAATTAATCACCGTACGTTGTCTACAAAACGTGTTGTGAATAGCC +GATCGTTATCGACCCTATGGCGACAGGGAGGCTAATTGTTAGCGACAAAGGCGTGGTAGG +CCGTTTACCTTACCAGAACGTTTTATTATTGCTGCGACAGATTGCTTACTCATTTACCTG +CCACTGCAAACATTTTTTCCAGTATAGGGTGTAGATGCGCTTTTTCTGTTTTAGTACAAA +CATGGTTTACGTTAGTTGCCTGCATTGACTTTACTGTGACCACTGCACAGGAAAGATGTC +CAATCAGTTCATGCAAAATCAGTTCATGCAAAATAACGTCTCTGGCATCAGCTAACTTTT +TAATTGTAGGCATAAAAAAACCAGCCCTGACAGGCTGGTTTTCAAGGGGAATTTTGGTCG +GCAGCTTCATCCGCAGCATCTGCGGAGAGCAGCGCAGGTACGGCGACCACAAAAGCCGGG +GAGGCATCAGCCAGCGCGGCGTCGGCTGACACAGCCAGAACGGCGGCAGCCGCCTCGTCA +TCAGCATCGTAGGCATCCACCCACGCCGCCGCATCTGATACCAGCGCATCACTGGCAGCG +CAAAGCAGAGCTGCAGCCGGAGAATCGGCAACCAGAGCCGAAGAGGCCGCGAAACGGGCC +GAGGATATCGCAGACGTGATTTCCCTGGAAGATGCAAGCCTGACGAAAAAAGGTATCGTT +AAATTAAGCAGTGCCACGGACAGTGACAGCGAAGCGCTGGCGGCCACACCAAAGGCGGTA +AAAACCGTTATGGGTGAGGTACGGACCAAAGCGCCGCTGGACAGCCCGGCATTCACTGGA +ACGCCGACCACACCGACGCCGCCAGGCGATGCTAAAGGGCTTCAGACAACAAACGCGGAG +TTTGTCCGCAAACTGATTGCCGCGCTGGTTGGTTCCGTACTGGAGCCACTGGACACCCTG +CAGGAACTGGCTGACGCGTTGGGAAATGATCCGAACTTTGCCACCACGGTACTGAATAAA +CTGGCGGGCAAGCAGCCGCTGGACGAAACCCTGACGGCGCTGTCAGGAAAAAGCGTTGAC +GGTCTTATCGAATACGTTGGTTTGCGAGAAACCATAAGTCGTGCCGCCGATGCATTACAA +AAATCACAGAATGGCGGCGATATTCCGGACAAGGATTTGTTTGTGCGTCGTATCGGTGCC +GCGCGAGCGTTTGATGGCGCAGTTATTATCGGCTGTGATGATAATCCGTGGACGACGGCG +GAGTTTATCGTCTGGCTGGAGTCTCAGGGCGCATTCAATCACCCTTACTGGATGTGTCGT +GGCTCCTGGTCTTACGCTTATAACAAAATCATCACGGATACTGGCTGCGGTAATATCTGT +CTCGCTGGCGCAGTGATTGAGGTAATGGGAGTGCGTGGCGCGATGACTATTCGGGTGACA +ACGTCCCATTCAGTATCTGGTTGGTGATACGTGGGTGACAGCCCCAAGTGTATAAGAAGG +AATAATTATGACAGCGGAAAAAAAATAAAAAGAACAAACAGTTTTTAAATATTAAAAATT +TCATTCCGTATGCACCGGAACCAGATGACACATTATTCGCCGATGCGGCGTATCTTAAAT +CAGAGGATGGTCAGGACTGGTATGGGTGCCAGCAATTATTTTCAGCAGACACGCTGAAAA +TTACCTACGACGATAACGATGTTATTACGTGTATTACGCGTGATGTTTCCGGGCTGTGGC +CTGCTGGCCAGAGCGTTGCAGAGTTGCCTGATACGGATGAAAACCGTCGCGCTGATATTC +ATGCTGCTGGCAGTTTAAAGACGGTAAAGTCGTTCAAAGGGTTTATTCGCCGGAAGAGCT +GCGCAGGCAGGCAGAATCGAAAATTGAACGCCCGGGCGTTGATACCGGATGATCTGGTCA +TCGTGGAAAGCGACCCTGAAAAAATCGACACTTTAGCTGTAAAATGACAGTCCCGCCATC +CGGTCATCATAACGGATTTTTCTTCTGCACCTTCTGAAGCCCGCCATGTCAGGACGACCA +TGAATCCGCCGATAACCTTATTGTGAAATTAAGACCAGGAAGAGATGATGTCTGCCGGAC +AGATACTATATGTAAATTTATAAAGGTTTTTTGTTATGCCCTTTCATATTGGAAGCGGAT +GTCTTCCCGCCACCATCAGTAATCGCCGCATTTATCGTATTGCCTGGTCTGATACCCCCC +CTGAAATGAGTTCCTGGGAAAAAATGAAGGAATTTTTTTGCTCAACGCACCAGACTGAAG +CGCTGGAGTGCATCTGGACGATTTGTCACCCGCCGGCCGGAACGACGCGGGAGGATGTGA +TCAACAGATTTGAACTGCTCAGGACGCTCGCGTATGCCGGATGGGAGGAAAGCATTCATT +CCGGCCAGCACGGGGAAAATTACTTCTGTATTCTGGATGAAGACAGTCAGGAGATATTGT +CAGTCACCCTTGATGATGCCGGGAACTATACCGTAAATTGCCAGGGGTACAGTGAAACAC +ATCGCCTCACCCTGGACACAGCACAGGGTGAGGAGGGCACAGGACACGCGGAAGGGGCAT +CCGGGACATTCAGGACATCCTTCCTCCCTGCCACAACGGCTCCACAGACGCCAGCAGAGT +ATGATGCTGTCTGGTCAGCGTGGAGAAGGGCTGCACCCGCAGAAGAGTCACGCGGCCGTG +CAGCAGCGGTACAGAAAATGCGTGCCTGCCTGAATAATGGCAATGCAGTGCTTAACGTGG +GAGAATCAGGTCTTACCACCTTGCCAGACTGTTTACCCGCGCATATTACCACACTGGTTA +TTCCTGATAATAATCTGACCAGCCTGCCGGCGCTGCCGCCAGAACTGCGGACGCTGGAGG +TCTCTGGTAACCAGCTGACTAGCCTGCCGGTGCTGCCGCCAGGACTACTGGAACTGTCGA +TCTTTAGTAACCCGCTGACCCACCTGCCGGCGCTGCCGTCAGGACTATGTAAGCTGTGGA +TCTTTGGTAATCAACTGACCAGCCTGCCGGTGTTGCCGCCAGGGCTACAGGAGCTGTCGG +TATCTGATAACCAACTGGCCAGCCTGCCGGCGCTGCCGTCAGAATTATGTAAGCTGTGGG +CCTATAATAACCAGCTGACCAGCCTGCCGACGTTGCCGTCAGGGCTACAGGAGCTGTCGG +TATCTGATAACCAACTGGCCAGCTTGCCGACGCTGCCGTCAGAATTATATAAGCTGTGGG +CCTATAATAATCGGCTGACCAGCCTGCCGGCGTTGCCGTCAGGACTGAAGGAGCTGATTG +TATCTGGTAACCGGCTGACCAGTCTGCCGGTGCTGCCGTCAGAACTGAAGGAGCTGATGG +TATCTGGTAACCGGCTGACCAGCCTGCCGATGCTGCCGTCAGGACTACTGTCGCTGTCGG +TCTATCGTAACCAGCTGACCCGCCTGCCGGAAAGTCTCATTCATCTGTCTTCAGAGACAA +CCGTAAATCTGGAAGGGAACCCACTGTCTGAACGTACTTTGCAGGCGCTGCGGGAGATCA +CCAGCGCGCCTGGCTATTCAGGCCCCATAATACGATTCGATATGGCGGGAGCCTCCGCCC +CCCGGGAAACTCGGGCACTGCACCTGGCGGCCGCTGACTGGCTGGTGCCTGCCCGGGAGG +GGGAACCGGCTCCTGCAGACAGATGGCATATGTTCGGACAGGAAGATAACGCCGACGCCT +TCAGCCTCTTCCTGGACAGACTGAGTGAGACGGAAAACTTCATAAAGGACGCGGGGTTTA +AGGCACAGATATCGTCCTGGCTGGCACAACTGGCTGAAGATGAGGCGTTGAGAGCAAACA +CCTTTGCTATGGCAACAGAGGCAACCTCAAGCTGCGAGGACCGGGTCACATTTTTTTTGC +ACCAGATGAAGAACGTACAGCTGGTACATAATGCAGAAAAAGGGCAATACGATAACGATC +TCGCGGCGCTGGTTGCCACGGGGCGTGAGATGTTCCGTCTGGGAAAACTGGAACAGATTG +CCCGGGAAAAGGTCAGAACGCTGGCTCTCGTTGATGAAATTGAGGTCTGGCTGGCGTATC +AGAATAAGCTGAAGAAATCACTCGGGCTGACCAGCGTGACGTCAGAAATGCGTTTCTTTG +ACGTATCCGGCGTGACGGTTACAGACCTTCAGGACGCGGAGCTTCAGGTGAAAGCCGCTG +AAAAAAGCGAGTTCAGGGAGTGGATACTGCAGTGGGGGCCGTTACACAGAGTGCTGGAGC +GCAAAGCGCCGAAACGCGTTAACGCGCTTCGTGAAAAGCAAATATCGGATTATGAGGAAA +CGTACCGGATGCTGTCTGACACAGAGCTGAGACCGTCTGGGCTGGTCGGTAATACCGATG +CAGAGCGCACTATCGGAGCAAGAGCGATGGAGAGCGCGAAAAAGACATTTTTGGATGGCC +TGCGACCTCTTGTGGAGGAGATGCTGGGGAGCTATCTGAACGTTCAGTGGCGTCGTAACT +GATGCACCAGGTGAATGAGGTGCGGTGCGACAAAGATATTCCCGGACGAACAACATCAGA +CAGTACGGATGATGTACAGGTGAAATAGGGGAGACTTCTTCAGTCAGGGCGCGGCGCAAC +TTTTTCGATGATAACGCGCCGCGCGCCGGTAGCGAGAAGCCGATGGAAGTACTGGATCAC +CTGAATGCAAAGAAGGGCAGGGGAAAGCTGTACTTTGCCGGGGAGGGTATCCAGCAACAG +TGGGCTATGAAGAGAAACATACTGTCATCCCGATATACCACCCGCTATGAAGACCTGCTT +CAGGTTAAGTGACAGGTTTACCCTGATTTTCAAATTTCTGATGTGATGGTGTGCCGCAGC +CACATTGTATGCAAGAACGGGCTGCGGCAAACTGGCGATCGTTCGATAGTGCGTGTATTG +AATAGTTACCAGTCGTGGCGGATTCTACTGGTTAAGGATGACTAATCAATGTATTTAAGT +CATCTGTTCAACTTTTCGCGTTGGAGGGAGCTTGAAGTCAATTTGCAGTGACCTTCGATA +GCTATTTCACCATCATTTCACCATTTGCAAATTGGATATATAAAAAAACCAGCCCTGGCA +GGCTGGCTTTTAAGGGGAATTTTGGTCGGCACGAGAGGATTTGAACCTCCGACCCCCGAC +ACCCCATGACGGTGCGCTACCAGGCTGCGCTACGTGCCGACTTGTGGGTGCTAATACTAC +CTCTTTCCAACGCGAATGCAAGGGGAAACGGTGCTAACTGATTTATAATTAATCAGTTAG +CGATAAAACGTTTCTCTTCTGTTAGCACTTGCAGCAGCAGACTGAGCTGCGGCTTCTGAT +CTTTGATCTTCTCGCCGTGTAAGTCATAGGTCTGATAATGACCGTTATTATTGAGCACCA +GGGTCATTTGCGGCGTCGTGATTGCCAGCGTACTGCCGTCTGCCGCCGTTACCCAGTTAT +GACGACGTGGAACGGTAAAGATGTCCTGGCCCTGTGAATATTCGTTCGCTGGCGTGCTGA +CATGTAACAGGCGTTGCATCAACGTGGTCATCACATCGGTATGATCGGTAAGCACATTAA +TACGCTGCGCAGGCGTCCCCGGCCAGTGGATCACCAGCGGTACTTGCAGATGACCTTGCG +ACCAGTCGAAGCGATTTTCTTCCGGCGTCAACGGTATGCCGCGTCCTGCGGTAATGATCA +CGACAGTATTGTCGAATTTACCGGCCTCTCGCAGCGCGTTCAGAACCCGATTGATTTGCG +CATCCACGTCGCTGGCGGCACTGGCGTAACGCTTAACAAAATTTTTCTGGTTACTGTCAT +CAATGTTAGTACCGTTAAACGATATCCATGAGAACCAGCGGTTATCTTCCTGTGCGTAGC +GCCCAAGCCAGTCTATCCACTGGCTGGCCGTTTGCGCATCAGACTGCGTTTGCGCTGCCG +GCATCGAGAAATCGGACAGTAATGCCTGACGATAAAGCGGGCTGGCGAAGCCATCCGAAG +AAAACAGTCCCAGTTGGTAGCCTTGCTGATTCAACGCGGTAATGAGCGCCGCAGGCGTTC +TGGTGGATAACACGCCATCCATATAGCCTGGCGATATGCCATAGAACAGGCCGAAAATAC +CGTTATCAGTGGTATTCCCTGAACTCATATGACGGGTGAAGTCGATGTTTTGCTCGGCAA +ATGTAGCCAGCTCCGGCATCTGCTTCTCAAAGCGAGAATAGTTCAGGCCGTCTACGGTAA +TGAGCAGCACATTCTGACCGGTGCCCATATCGCGATAGTGCAAATTGCTGAGCGGGTACT +GAACGGAGACCGCTTCCGGATTGCCTTGCTCTACCAGACGGCGCTGATATTCCTGCGCAT +CCAGCAGACCGTGTTTTTCAAGAAAACGTCGCGCCGTCATCGGATAAGAGAGCGGCAGGT +TTGCCCGCTGCATGGTAATCGGCCGGTAAAAATTAGCGTCTGCCCAGATGTAGATAAGAT +GCGATGCGATAAAGGAGACGAAAAAGAATGCCGCAAGCGGCCTTGCGAAATGGCGGCGGC +GCGTGAGACTGCGCAGCTTTTGCCAACTCCATGTCGCAAATAGCATCTCAATCAATAAGA +TAACTGGCACGCTAATAAACATAAGCTGCCAGTCGCGCGCCATTTCGTTCTGGTCAGGGT +TGATGACCAGTTCCCAGACAATGGGGTTAAGATGCAGGTGAAAACGGGTAAAGACTTCGC +TGTCGATAAGCAACAACGTCATACCCGCGGTCGCCAGAATGGCTGATAAAAACCGCATCA +GCCGCTGGGACATCACGATAAACGTGAGCGGAAAAAGAATAAGCAAATAGGTGGCGAACA +CCAGAAAGCTAAAGTGCCCGACAATGCTCAGGTAGGAGTATATGCGACCCGCAAGCGTTG +TCGGCCAGTCGGCGACAAACAGGTAACGGCTGCCGAGCAACGTAGCCAACAGTATATTGA +ACAGAGCGAACCAGTGCCCCCAGCTAACCATCTGGGAGACTTTTTCACGGTAGCGCTGAC +GATGAGTTACCATACCTGTCGCTTGTTTCTCCGGAGTCGGCTTTTTAGTGCGCGTTGTCT +TCGCTAATCGAAGACTGCAAGGCGCGGGCAAAAGAGTTCGCAATCGCCTGGCGTTGAGCC +GGCGCCACGCTGGTGTTGATAAGGTTGGTGACCATATTTCCCAGTACCATCAGGGAAAGA +TCGGTCGGCGCCTTATGTTTTTCCAGTACACTGAGCAGTTCGCTCAGCAGTTGTTCAACA +TGTTCATCACTATAGCGGGAGAGTTGTGGCATAAATCAAAATCTGTTTGTTCATGAAAGG +GCAACATATTACCGTAGCAACAGTTTTTTTTCTGCATTTTTATCCCCTAAATCATTCGCG +TTACGGATAACGCCTGAAATGACAGGGCGATTGCTTGCGTCTTCCGGCAGGCGGTGGTTG +AATACCGCCCGGTCTTAAAGGAGAGTTTATCATGAGTCTGGATATCAACCAGATTGCCCT +GCACCAGCTTATCAAGCGCGATGAGCAAAATCTTGAGCTGGTCTTGCGCGATTCATTGCT +GGAGCCGACAACCACCGTTGTCGAGATGGTGGCTGAACTGCATCGGGTCTATAGCGCCAA +GAATAAGGCGTATGGCCTGTTTAATGAAGAGAGTGAACTGGCGCAAGCGCTGCGGTTGCA +ACGTCAGGGGGAAGAAGATTTTCTTGCCTTTAGCCGGGCGGCGACCGGACGCCTGCGTGA +CGAACTGGCGAAATATCCCTTTGCGGACGGCGGCATTGTATTGTTCTGCCATTATCGTTA +CCTGGCGGTGGAGTATCTGCTGGTTACGGTACTGAACAACCTGAGCAGTATGCGGGTCAA +TGAAAATCTGGACATTAACCCGACGCATTATCTTGATATCAACCATGCGGATATCGTGGC +GCGTATCGATCTTACCGAGTGGGAAACTAATCCGCAATCGACCCGCTACCTGACGTTCCT +GAAAGGTCGGGTAGGGCGCAAGGTCGCTGACTTCTTTATGGATTTCCTCGGCGCCAGCGA +AGGGTTGAACGCCAAAGCGCAGAATCGCGGCCTGTTGCAGGCAGTGGATGATTTCACCGC +AGAAGCGCAGTTGGATAAAGCAGAACGTCAGAACGTGCGTCAGCAGGTGTACAGCTACTG +CAACGAGCAGTTACAAGCCGGGGAAGAGATTGAGCTGGAATCGCTGTCTAAAGAGCTTTC +CGGCGTCAGTGAAGTCAGCTTCAGCGAATTTACCGCCGAAAAAGGCTATGAGCTGGAAGA +GAGCTTCCCGGCAGATCGCAGTACGCTACGCCAGTTAACCAAATATGCCGGCAGCGGCGG +CGGGTTAACGATTAACTTTGATGCGATGCTACTGGGCGAGCGGATTTTCTGGGACCCGGC +GACCGATACCCTGACTATCAAAGGGACGCCGCCGAATTTGCGCGATCAGTTGCAGCGACG +CACGTCGGGCGGGAAATAAAGGCATACGACATAAAAGGACGCCGTAGTGAGTAAAGGAAT +ACGTCAGAGGCCGCCTGTTAATTTCAGTTTATTTCGGCAGGTTTTGTATGCGCACATTGT +CGCATTTTTGATGATGTTGATGCTCGGCATGGTGTTCACCGTTCTCTCGTTGGTACTGTT +TTATACTTATGGCGCCAACTGGTTACTGAGCTTGTTCATATGCCCGCTGTTCTTGTTAAG +TGGTTTATTCATTACTGGATTTGCTTTTAAATCAACCTGGTCCAGCATACGTTACTATTA +CGACAAGGGGCAGTTGAAACGGTATGGACTCAATCTTGATGCAACTTTGACGCATAAAGA +GAAGGTGGAAATACGCATCGATAATGCAAAGCGTCAAGTGCGTGTAGATGAACTGGAACT +CCATGTCTTATTTGATTTTCAGTTTGATAGCAAGACATGGAGCTGCGGCGACTTACTGAC +CAATGAAAAGGTATTTGATGCGTTGAATGATGGGCAAACGATACCAATACGAATTTTGCC +ATGGAAACCGGAAAGTGCCAGCGTTCGTCAACGGGCATTATTCAATCGGCTTAAAGGTAT +GAATACCGCGGCGGAAACTACAGATCCTCGATTAGGGGAGGCGCTAATTGAATGTGGCGA +GGTGTAAGAAAGCAGAAAAGCAAAGTGGGTTCTCGTTGCTCTGCATGTCGTCAAATTCAA +TTAAACGCATAAAAAAACCCCGCCGGGGCGGGGTTTTTCTTCAACTTCCAGGCGATTACG +CGCGAACGAAGTCGATGTGAGTCAGCTTCGGTTTGTAAGCGTGACGCTGTACAGCCTGAG +CTTTAACTTTTACTTCTTTACCGTCAACAACGAGGGTCAGAACTTCGCTGTAGAATTCAG +CTTTAGCTTGCATGTTCATCACCTGGTCGTGGTCCAGTTCGATAGCAATCGGGGCTTCAG +AACCGCCGTAGATGATTGCCGGGAACTTGTTAGCGGCGCGCAGGCGGCGGCTCGCACCCT +TACCCTGCTCTTTACGTACTTCTGCGTTGATAGTAAACATTTAAATCTCTCTTTAATAAT +TCCTGCTACAGGCGACCCAGCAACAGGTAAGTGATCTGCTTTGCGTATGCAAAGGCGGGC +GGGATTCTATACTCAAATCGCCGTTACATCAATGAAAAGTACAATTAACCACGTAATTCG +TGCGCCCGGCGGAAGCGGCCTTCATAGTCGAACACTTTTTCACGCACCTGCCAGTACTGG +CCTTTCATCCGCGCGACCACAAAATCGGGATGCCGCAACAGCGCCTGCTGCGCGACAATA +TCCGCCGCCGTGATCCAGCGTAAAGGAACGCCGGGCGTGCGCGTATGCGGGCGAATAAAT +AGCTGTTCGAAAGCGGTACGCTGGGCGGGCGTGTGCAAGCGGAAGCGCTCACTGACATCC +GCGCCGTCCTCGTCATAGTAAGTGATTTTCAGCCATTCGCCTTTCTCATCCTGCCCATGC +TGCATCGTCATTCCGCTACAGCGCAGGACTAACGCATCCTTGAGCCTGAGCGCCGCTTTT +AACATATCGTCCGGGTCGACCAGAATGGCGTCACATTCCCGGCAGCGTCGGGCGGCAATA +TCGTTTTCGGCATTACACTGCGGGCAGTTTTTGAAGCGAAAGCGAAAATCGCACTGCTCG +CGATGGCCGTCGTCATCCTCAAACCAGCCCTGGCAGCGACGGCCAAAGTGTTCAATCAGC +GTGCCGTCGGCAGTGGTTTTCCCCCAGAAGGTGTTGGCAAAGCCGCAGGCCGGGCAAAAT +ACCTGGACAGGGACGTTATCGCTTTTTCCCTTCGGGCTACCGACCTCCGGGGCATACAGG +TCGTGCGGGTTGCCTGCGTAATCAAGAATCAGGCAATCGGTCTTTCCCGGCGCAAGGCGC +AGACCACGCCCGACAATTTGTTGGTAAAGACTAACTGACTCCGTGGGACGTAGAATCGCG +ATGAGATCAACGTGTGGGGCGTCAAAGCCGGTGGTCAGTACCGAGACGTTAACCAGATAG +CGAAAACGCTGCGCCTTGAAATTATCAATCAGCGCGTCGCGCTCGGGCCCTGGCGTATCG +CCGGTAATCAGCGCCGCGTCGTCCGCCGGAAGCAGACCGACAATCTCTTTCGCATGTTCG +ACCGTGGCGGCGAAAATCATCACGCCTTTGCGCGTTTGCGCAAATTCCATAATCTGGCTG +ATGATGTGCGGCGTAATCCGCTGCTGCTTTTTCAGCTCGCGGTTCAGGTCGGCTTCGCTG +AACAGCCCATTGCTTTGGGCCTGCAGGCGGCTGAAATCGTATTGGACCACTGGCATATCA +AGCCGCTCAGGCGGCGTCAGATAGCCGTGTTTAATCATATAGCGCAGCGGCAGTTCATAA +ATACAGTCGCGAAACAGAGCGTTGTCGTTGCCGCGCACCATACCGTGATAATGAAATTGA +TAAATCCAGCCTTTTCCGAGGCGAAAAGGCGTGGCGGTGAGTCCAAGCAGACGTAAGTGA +GGATTAACTTTACTCAGGTGAGTGAGGATTTGCTGATACTGACTGTCTTCATCGTCACCG +ATGCGGTGGCATTCATCGACAATCAACAGCGAAAACTCCTCCTGGAAGGCGTCAAGATTA +CGCGCCACCGACTGTACGCTGCCGAACACGACTTTGCCCTGACTCTCTTTACGTTTGAGT +CCGGCGGCGAAAATATCCGCTTCCAGCCCCAGCGCGCAATATTTGGCGTGGTTCTGCGCG +ACCAGCTCTTTCACATGCGCCAGCACCAGTACCCGTCCGCGGGCGACGCGCGCCAGTTCG +GCGATCACCAGGCTTTTACCTGCGCCGGTCGGCAGAACAATCACGGCGGGCGTACGGTGG +CGGCGAAAGTGGCTGAGCGTGGCGTCTACGGCTTCTTGCTGGTAGGGGCGGAGTGTAAAA +ATCATGGTCTCACTACGTTAAACGGTTCCGGGAATAGTATGCCATGAATCATTTCCCTTG +AGGGATATAGTTAGCCCGCTATACTGAGCGGATAGCAATTCCCTTTTTTCGGGTAGAATG +CCCGATTTCCGTATTATTACAGGCTAAATCACACACATGCGACTTGATAAATTTATCGCT +CAGCAGCTTGGCGTCAGCCGCGCTATTGCCGGGCGTGAAATTCGTGGTAACCGCGTTACC +GTCGATGGCGACATCATTAAAAATGCGGCCTTCAAACTGCTCCCGGAACATGCGGTTGCG +TATGACGGCAATCCCTTAGCGCAGCAACACGGGCCACGCTATTTTATGCTTAACAAGCCG +CAGGGATACGTTTGTTCAACCGATGATCCCGATCATCCAACGGTGCTGTATTTCCTGGAT +GAGCCGGTGGCGTATAAGCTGCATGCCGCAGGACGTCTGGATATCGATACTACCGGTCTG +GTGTTAATGACAGATGACGGTCAGTGGTCGCACCGCATTACGTCGCCGCGCCATCACTGT +GAAAAAACCTATCTGGTGACCCTGGAGTCGCCGGTGGCCGACGATACGGCAGCGCAATTT +GCGAAAGGCGTGCAGTTGCATAATGAAAAAGATCTCACTAAACCCGCTACGCTGGAGGTG +ATAACACCTGTGCAGGTCCGTCTGACCATCAGCGAAGGCCGTTATCATCAGGTGAAGCGG +ATGTTTGCCGCAGTAGGCAATCGCGTTGTGGAACTGCACCGCGAACGGATTGGCGCCATT +ACGCTGGATGAGAATCTGGCTCCCGGCGAGTACCGCCCGTTGACTGAAGAAGAAATCGCC +AGCGTCGGCTAACTATCTCGTTAAATTCAGGAGTTCGATGTGACCACCCGGCAGCACTCT +TCCTTTGCCATTGTCTTTATTCTTGGCCTGTTGGCCATGTTAATGCCGCTGTCGATTGAT +ATGTATCTTCCAGCGCTGCCGGTGATTTCTGCGCAATTCGGCGTGCCTGCCGGTAGCGCG +CAGATGACGCTCAGCACCTATATTCTGGGGTTTGCGCTGGGTCAGCTTATCTATGGACCG +ATGGCGGATAGCCTCGGGCGTAAGCCGGTCATCCTGGGCGGGACGCTGGTATTTGCCGCT +GCGGCGGTCGCCTGTGCGTTGGCGCAGACTATCGATCAACTGATCGTGATGCGTTTCTTT +CACGGTTTGGTGGCTGCGGCGGCAAGCGTCGTCATCAATGCGCTGATGCGGGATATTTAT +CCAAAGGAAGAGTTTTCGCGCATGATGTCATTTGTCATGCTGGTCACTACGATAGCGCCG +TTAATGGCGCCCATTGTTGGCGGCTGGGTGTTGGTATGGTTAAGCTGGCACTATATCTTC +TGGATACTGGCTATTGCGGCGATTCTGGCGTCAGTCATGATCTTTGCTTTGATTAAAGAG +ACGCTGCCCGTTGAGCGGCGTCAGCCTTTTCATATTCGTACCACAATAGGTAACTTTGCC +GCGTTGTTTCGCCACAAACGCGTACTGAGCTATATGCTGGCGAGCGGGTTCAGTTTTGCC +GGTATGTTCTCTTTTTTGAGCGCGGGGCCGTTTGTCTATATCGAAATTAATCATGTTCCG +CCGCAGGATTTCGGCTACTACTTCGCGTTGAACATCGTATTTCTGTTTGTGATGACGATT +ATCAACAGCCGTTTTGTCAGACGGGTAGGGGCGCTAAACATGTTTCGGGCCGGGCTATGG +ATTCAGTTTGCGATGGCGGTGTGGATGGTTTTCAGCGCGCTGATGGGCATTGGATTCTGG +GCGCTGGTGGTTGGCGTTGCGGCGTTTGTCGGCTGTGTGTCGATGGTTTCGTCCAATGCG +ATGGCGGTCATTTTGGATGAGTTTCCGCATATGGCCGGAACGGCGTCTTCGTTGGCGGGC +ACTTTCCGCTTTGGTATTGGCGCTATCGTCGGCGCGTTGCTGTCGCTGGCTACCTTTAAC +AGTGCGTGGCCGATGATCTGGTCGATTGCGCTTTGCGCCGCCTGTTCCATTCTGTTTTAT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/genbank_gbff/genbank2.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,26 @@ +>ERS325340_00001.p01 +MPEVTPFQVLIVDDHPLMRRGIRQLLELDPAFYVVAEAGDGASAIDLANRIEPDLILLDL +NMKGLSGLDTLNALRRDGVTAQIIILTVSDSASDIYALIDAGADGYLLKDSDPEVLLEAI +RKGANGGKVFSDRVNEYLRERERFGAQEDPFSILTERELDVLHELAQGLSNKQIASVLNI +SEQTVKVHIRNLLRKLNVRSRVAATILFLQTRGMQ* +>ERS325340_00003.p01 +VISLEDASLTKKGIVKLSSATDSDSEALAATPKAVKTVMGEVRTKAPLDSPAFTGTPTTP +TPPGDAKGLQTTNAEFVRKLIAALVGSVLEPLDTLQELADALGNDPNFATTVLNKLAGKQ +PLDETLTALSGKSVDGLIEYVGLRETISRAADALQKSQNGGDIPDKDLFVRRIGAARAFD +GAVIIGCDDNPWTTAEFIVWLESQGAFNHPYWMCRGSWSYAYNKIITDTGCGNICLAGAV +IEVMGVRGAMTIRVTTSHSVSGW* +>ERS325340_00004.p01 +MPFHIGSGCLPATISNRRIYRIAWSDTPPEMSSWEKMKEFFCSTHQTEALECIWTICHPP +AGTTREDVINRFELLRTLAYAGWEESIHSGQHGENYFCILDEDSQEILSVTLDDAGNYTV +NCQGYSETHRLTLDTAQGEEGTGHAEGASGTFRTSFLPATTAPQTPAEYDAVWSAWRRAA +PAEESRGRAAAVQKMRACLNNGNAVLNVGESGLTTLPDCLPAHITTLVIPDNNLTSLPAL +PPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVL +PPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSGLQELSVSDNQLASLPTL +PSELYKLWAYNNRLTSLPALPSGLKELIVSGNRLTSLPVLPSELKELMVSGNRLTSLPML +PSGLLSLSVYRNQLTRLPESLIHLSSETTVNLEGNPLSERTLQALREITSAPGYSGPIIR +FDMAGASAPRETRALHLAAADWLVPAREGEPAPADRWHMFGQEDNADAFSLFLDRLSETE +NFIKDAGFKAQISSWLAQLAEDEALRANTFAMATEATSSCEDRVTFFLHQMKNVQLVHNA +EKGQYDNDLAALVATGREMFRLGKLEQIAREKVRTLALVDEIEVWLAYQNKLKKSLGLTS +VTSEMRFFDVSGVTVTDLQDAELQVKAAEKSEFREWILQWGPLHRVLERKAPKRVNALRE +KQISDYEETYRMLSDTELRPSGLVGNTDAERTIGARAMESAKKTFLDGLRPLVEEMLGSY +LNVQWRRN*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/genbank_gbff/genbank3.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,282 @@ +##gff-version 3 +##sequence-region CVBT01000001 1 489157 +# conversion-by bp_genbank2gff3.pl +# organism Salmonella enterica subsp. enterica serovar Typhi +# Note Salmonella enterica subsp. enterica serovar Typhi genome assembly 10426_1#50, scaffold ERS325326SCcontig000001, whole genome shotgun sequence. +# date 02-APR-2015 +CVBT01000001 GenBank region 1 489157 . + 1 ID=CVBT01000001;Dbxref=BioProject:PRJEB3215,taxon:90370;Name=CVBT01000001;Note=Salmonella enterica subsp. enterica serovar Typhi genome assembly 10426_1#50%2C scaffold ERS325326SCcontig000001%2C whole genome shotgun sequence.;collection_date=1997;country=Viet Nam;date=02-APR-2015;isolation_source=Not known;mol_type=genomic DNA;organism=Salmonella enterica subsp. enterica serovar Typhi;serovar=H58;strain=ipt76 +CVBT01000001 GenBank gene 83 730 . - 1 ID=ERS325326_00001;Name=narL_1;locus_tag=ERS325326_00001 +CVBT01000001 GenBank mRNA 83 730 . - 1 ID=ERS325326_00001.t01;Parent=ERS325326_00001 +CVBT01000001 GenBank CDS 83 730 . - 1 ID=ERS325326_00001.p01;Parent=ERS325326_00001.t01;Dbxref=GI:804342840;Name=narL_1;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002147204.1;locus_tag=ERS325326_00001;product=transcriptional regulator NarP;protein_id=CQU32483.1;transl_table=11;translation=length.215 +CVBT01000001 GenBank exon 83 730 . - 1 Parent=ERS325326_00001.t01 +CVBT01000001 GenBank gene 2720 3511 . + 1 ID=ERS325326_00003;Name=ERS325326_00003 +CVBT01000001 GenBank mRNA 2720 3511 . + 1 ID=ERS325326_00003.t01;Parent=ERS325326_00003 +CVBT01000001 GenBank CDS 2720 3511 . + 1 ID=ERS325326_00003.p01;Parent=ERS325326_00003.t01;Dbxref=GI:804342841;Name=ERS325326_00003;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002041506.1;product=side tail fiber protein;protein_id=CQU32522.1;transl_table=11;translation=length.263 +CVBT01000001 GenBank exon 2720 3511 . + 1 Parent=ERS325326_00003.t01 +CVBT01000001 GenBank gene 4180 6546 . + 1 ID=ERS325326_00004;Name=sspH2;locus_tag=ERS325326_00004 +CVBT01000001 GenBank mRNA 4180 6546 . + 1 ID=ERS325326_00004.t01;Parent=ERS325326_00004 +CVBT01000001 GenBank CDS 4180 6546 . + 1 ID=ERS325326_00004.p01;Parent=ERS325326_00004.t01;Dbxref=GI:804342842;eC_number=6.3.2.-;Name=sspH2;codon_start=1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002244314.1;locus_tag=ERS325326_00004;product=secreted effector protein;protein_id=CQU32561.1;transl_table=11;translation=length.788 +CVBT01000001 GenBank exon 4180 6546 . + 1 Parent=ERS325326_00004.t01 +CVBT01000001 GenBank gene 7167 7184 . - 1 ID=ERS325326_00005;Name=ERS325326_00005 +CVBT01000001 GenBank tRNA 7167 7184 . - 1 ID=ERS325326_00005.r01;Parent=ERS325326_00005;Name=ERS325326_00005;inference=COORDINATES: profile:Aragorn:1.2.36;product=tRNA-Pro +CVBT01000001 GenBank exon 7167 7184 . - 1 Parent=ERS325326_00005.r01;Name=ERS325326_00005 +##FASTA +>CVBT01000001 +GTGATAGAGCGCAGTATCCGGCTGGCGCAGGAGAAATAAGACCCTGACGGCCCGGTGGCG +TGGCGCCACCGGGCCTGGCTTGTTACTGCATTCCGCGTGTTTGTAAAAATAGAATGGTCG +CCGCGACGCGCGAGCGCACGTTTAGCTTGCGAAGTAGATTACGAATGTGCACCTTAACCG +TCTGCTCAGAAATATTCAGTACTGACGCAATCTGTTTGTTAGAAAGCCCCTGCGCCAGCT +CATGCAAGACATCTAACTCTCGTTCGGTCAGGATACTAAAGGGATCTTCCTGCGCGCCAA +ACCGTTCACGCTCACGCAGATATTCATTGACCCGATCGCTAAAGACTTTACCGCCGTTAG +CGCCTTTGCGAATGGCCTCCAGCAGCACTTCCGGATCGCTATCTTTGAGCAGATAACCGT +CGGCGCCGGCGTCGATCAGCGCGTAGATGTCGCTGGCGGAATCCGAGACGGTAAGAATAA +TAATTTGCGCCGTCACACCATCCCGGCGTAGCGCGTTCAGGGTATCTAACCCGCTCAGAC +CTTTCATATTCAGATCCAGCAGGATCAGATCGGGCTCAATGCGATTCGCCAGATCGATCG +CACTCGCCCCGTCACCCGCTTCGGCAACGACATAAAAAGCCGGGTCCAGTTCCAGTAATT +GACGAATACCTCGCCGCATAAGTGGATGGTCGTCCACAATAAGCACCTGAAAAGGTGTTA +CTTCAGGCATGCTATATCTCCTGAGTTTTATTAGAATGATTATTGTTTTCAGCGCGGAAA +TCGTCCAGATTTGCCACATTGTCAAGCGCGTAAATTTTACCTTAATTAGTGCATGGGTAA +GTAGTAAAACCTGTGACAGGCGAGTCATTAGCTGAACGATAGAAAGGATAAAACAACCTG +TTGTGAGAGAAAACAGAATACTCCCTGAAGTTGAATACTGGTCTGGACGCTTTTTTCGGA +CAATGTGACATAACAGAAGTGTGGCATATGTAGCTGCGCCCTTGCGTCCGTAAGTCCAGA +CTATCTTTACTGGCAGGAAATTCCTTATTAAAAGTCATAGCGTCTAAAGATTTTCATTAT +TAACAAATTATTTTAATTGAATTTATTTATGGTTTTATTAATGCCAATGAAATACATCTG +AGCAGAACGAATAAACCGCGACATCTGTTAAATTAAATATTAAGTCAATAGCAGAGGTAT +TTTTATGCGATAAAGAGATTCTGACGATATTCTTATCATAAATGAAAATGTGGTCAGGAA +TGAGCGTCATTCACTTATAACTTATCCTGGATGTGCCTGAACAACACTCGCGGCGTTTTG +AGCACCCGTTGGGGCGACTCAAGGGGAGAACGTAGTGTGGATGCTATATCAGCCGTTTCT +GTGAGCGTAAGCGTGGCGTAGAAAATTTTAAATATGTTAGCCGGTTAAAAATAACTATTG +ACATTGAAATGGTGGTGGAGTGTATATGAAGAGAATATTTATATATCTATTATTACCTTG +TGCATTCGCATGTTCTGCTAATGATAATGTTTTTTTGGCAAGGGCAACAAGCATCAGATC +TCTTTTGCTGCGGGAGAAAGTATAAGAAGAGGAGGGGTTGAGCACTTATATACGGCTTTT +CTGACATACAGTGAACCCAGCGATTTTTTCTTTTTACAGGCAAGAAATAATCTGGAGTTA +GGAGGATTTAAGGCTAAGGGTAGCGATGATTGCAGTAAACATTCTGGCAGCGTTCCCTGT +AATAAATATAACCAGGGCGTATTGGGTATCTCGAAGGATGTGGCGCTGGTTCATTTCGCT +GGTATCTATACCGGTATTGGTCTGGGGGCTTATATAAAATCTAAGTCGCGAGATGATATG +CGTGTCAATTCTGCATTTACCTTTGGAGAAAAAGCGTTTCTTGGCTGGAACTTTGGGGCT +TTTTCTACAGAAGCTTATATCCGGCATTTCTCGAATGGATCACTTACGGATAAAAATTCA +GGGCATAATTTTGTAGGTGCTTCAATTAGTTATAATTTCTGAAGTTGAATAACAATTAGC +GAGTTGCTGGCTGAAGGAGTAATTAATCACCGTACGTTGTCTACAAAACGTGTTGTGAAT +AGCCGATCGTTATCGACCCTATGGCGACAGGGAGGCTAATTGTTAGCGACAAAGGCGTGG +TAGGCCGTTTACCTTACCAGAACGTTTTATTATTGCTGCGACAGATTGCTTACTCATTTA +CCTGCCACTGCAAACATTTTTTCCAGTATAGGGTGTAGATGCGCTTTTTCTGTTTTAGTA +CAAACATGGTTTACGTTAGTTGCCTGCATTGACTTTACTGTGACCACTGCACAGGAAAGA +TGTCCAATCAGTTCATGCAAAATCAGTTCATGCAAAATAACGTCTCTGGCATCAGCTAAC +TTTTTAATTGTAGGCATAAAAAAACCAGCCCTGACAGGCTGGTTTTCAAGGGGAATTTTG +GTCGGCAGCTTCATCCGCAGCATCTGCGGAGAGCAGCGCAGGTACGGCGACCACAAAAGC +CGGGGAGGCATCAGCCAGCGCGGCGTCGGCTGACACAGCCAGAACGGCGGCAGCCGCCTC +GTCATCAGCATCGTAGGCATCCACCCACGCCGCCGCATCTGATACCAGCGCATCACTGGC +AGCGCAAAGCAGAGCTGCAGCCGGAGAATCGGCAACCAGAGCCGAAGAGGCCGCGAAACG +GGCCGAGGATATCGCAGACGTGATTTCCCTGGAAGATGCAAGCCTGACGAAAAAAGGTAT +CGTTAAATTAAGCAGTGCCACGGACAGTGACAGCGAAGCGCTGGCGGCCACACCAAAGGC +GGTAAAAACCGTTATGGGTGAGGTACGGACCAAAGCGCCGCTGGACAGCCCGGCATTCAC +TGGAACGCCGACCACACCGACGCCGCCAGGCGATGCTAAAGGGCTTCAGACAACAAACGC +GGAGTTTGTCCGCAAACTGATTGCCGCGCTGGTTGGTTCCGTACTGGAGCCACTGGACAC +CCTGCAGGAACTGGCTGACGCGTTGGGAAATGATCCGAACTTTGCCACCACGGTACTGAA +TAAACTGGCGGGCAAGCAGCCGCTGGACGAAACCCTGACGGCGCTGTCAGGAAAAAGCGT +TGACGGTCTTATCGAATACGTTGGTTTGCGAGAAACCATAAGTCGTGCCGCCGATGCATT +ACAAAAATCACAGAATGGCGGCGATATTCCGGACAAGGATTTGTTTGTGCGTCGTATCGG +TGCCGCGCGAGCGTTTGATGGCGCAGTTATTATCGGCTGTGATGATAATCCGTGGACGAC +GGCGGAGTTTATCGTCTGGCTGGAGTCTCAGGGCGCATTCAATCACCCTTACTGGATGTG +TCGTGGCTCCTGGTCTTACGCTTATAACAAAATCATCACGGATACTGGCTGCGGTAATAT +CTGTCTCGCTGGCGCAGTGATTGAGGTAATGGGAGTGCGTGGCGCGATGACTATTCGGGT +GACAACGTCCCATTCAGTATCTGGTTGGTGATACGTGGGTGACAGCCCCAAGTGTATAAG +AAGGAATAATTATGACAGCGGAAAAAAAATAAAAAGAACAAACAGTTTTTAAATATTAAA +AATTTCATTCCGTATGCACCGGAACCAGATGACACATTATTCGCCGATGCGGCGTATCTT +AAATCAGAGGATGGTCAGGACTGGTATGGGTGCCAGCAATTATTTTCAGCAGACACGCTG +AAAATTACCTACGACGATAACGATGTTATTACGTGTATTACGCGTGATGTTTCCGGGCTG +TGGCCTGCTGGCCAGAGCGTTGCAGAGTTGCCTGATACGGATGAAAACCGTCGCGCTGAT +ATTCATGCTGCTGGCAGTTTAAAGACGGTAAAGTCGTTCAAAGGGTTTATTCGCCGGAAG +AGCTGCGCAGGCAGGCAGAATCGAAAATTGAACGCCCGGGCGTTGATACCGGATGATCTG +GTCATCGTGGAAAGCGACCCTGAAAAAATCGACACTTTAGCTGTAAAATGACAGTCCCGC +CATCCGGTCATCATAACGGATTTTTCTTCTGCACCTTCTGAAGCCCGCCATGTCAGGACG +ACCATGAATCCGCCGATAACCTTATTGTGAAATTAAGACCAGGAAGAGATGATGTCTGCC +GGACAGATACTATATGTAAATTTATAAAGGTTTTTTGTTATGCCCTTTCATATTGGAAGC +GGATGTCTTCCCGCCACCATCAGTAATCGCCGCATTTATCGTATTGCCTGGTCTGATACC +CCCCCTGAAATGAGTTCCTGGGAAAAAATGAAGGAATTTTTTTGCTCAACGCACCAGACT +GAAGCGCTGGAGTGCATCTGGACGATTTGTCACCCGCCGGCCGGAACGACGCGGGAGGAT +GTGATCAACAGATTTGAACTGCTCAGGACGCTCGCGTATGCCGGATGGGAGGAAAGCATT +CATTCCGGCCAGCACGGGGAAAATTACTTCTGTATTCTGGATGAAGACAGTCAGGAGATA +TTGTCAGTCACCCTTGATGATGCCGGGAACTATACCGTAAATTGCCAGGGGTACAGTGAA +ACACATCGCCTCACCCTGGACACAGCACAGGGTGAGGAGGGCACAGGACACGCGGAAGGG +GCATCCGGGACATTCAGGACATCCTTCCTCCCTGCCACAACGGCTCCACAGACGCCAGCA +GAGTATGATGCTGTCTGGTCAGCGTGGAGAAGGGCTGCACCCGCAGAAGAGTCACGCGGC +CGTGCAGCAGCGGTACAGAAAATGCGTGCCTGCCTGAATAATGGCAATGCAGTGCTTAAC +GTGGGAGAATCAGGTCTTACCACCTTGCCAGACTGTTTACCCGCGCATATTACCACACTG +GTTATTCCTGATAATAATCTGACCAGCCTGCCGGCGCTGCCGCCAGAACTGCGGACGCTG +GAGGTCTCTGGTAACCAGCTGACTAGCCTGCCGGTGCTGCCGCCAGGACTACTGGAACTG +TCGATCTTTAGTAACCCGCTGACCCACCTGCCGGCGCTGCCGTCAGGACTATGTAAGCTG +TGGATCTTTGGTAATCAACTGACCAGCCTGCCGGTGTTGCCGCCAGGGCTACAGGAGCTG +TCGGTATCTGATAACCAACTGGCCAGCCTGCCGGCGCTGCCGTCAGAATTATGTAAGCTG +TGGGCCTATAATAACCAGCTGACCAGCCTGCCGACGTTGCCGTCAGGGCTACAGGAGCTG +TCGGTATCTGATAACCAACTGGCCAGCTTGCCGACGCTGCCGTCAGAATTATATAAGCTG +TGGGCCTATAATAATCGGCTGACCAGCCTGCCGGCGTTGCCGTCAGGACTGAAGGAGCTG +ATTGTATCTGGTAACCGGCTGACCAGTCTGCCGGTGCTGCCGTCAGAACTGAAGGAGCTG +ATGGTATCTGGTAACCGGCTGACCAGCCTGCCGATGCTGCCGTCAGGACTACTGTCGCTG +TCGGTCTATCGTAACCAGCTGACCCGCCTGCCGGAAAGTCTCATTCATCTGTCTTCAGAG +ACAACCGTAAATCTGGAAGGGAACCCACTGTCTGAACGTACTTTGCAGGCGCTGCGGGAG +ATCACCAGCGCGCCTGGCTATTCAGGCCCCATAATACGATTCGATATGGCGGGAGCCTCC +GCCCCCCGGGAAACTCGGGCACTGCACCTGGCGGCCGCTGACTGGCTGGTGCCTGCCCGG +GAGGGGGAACCGGCTCCTGCAGACAGATGGCATATGTTCGGACAGGAAGATAACGCCGAC +GCCTTCAGCCTCTTCCTGGACAGACTGAGTGAGACGGAAAACTTCATAAAGGACGCGGGG +TTTAAGGCACAGATATCGTCCTGGCTGGCACAACTGGCTGAAGATGAGGCGTTGAGAGCA +AACACCTTTGCTATGGCAACAGAGGCAACCTCAAGCTGCGAGGACCGGGTCACATTTTTT +TTGCACCAGATGAAGAACGTACAGCTGGTACATAATGCAGAAAAAGGGCAATACGATAAC +GATCTCGCGGCGCTGGTTGCCACGGGGCGTGAGATGTTCCGTCTGGGAAAACTGGAACAG +ATTGCCCGGGAAAAGGTCAGAACGCTGGCTCTCGTTGATGAAATTGAGGTCTGGCTGGCG +TATCAGAATAAGCTGAAGAAATCACTCGGGCTGACCAGCGTGACGTCAGAAATGCGTTTC +TTTGACGTATCCGGCGTGACGGTTACAGACCTTCAGGACGCGGAGCTTCAGGTGAAAGCC +GCTGAAAAAAGCGAGTTCAGGGAGTGGATACTGCAGTGGGGGCCGTTACACAGAGTGCTG +GAGCGCAAAGCGCCGAAACGCGTTAACGCGCTTCGTGAAAAGCAAATATCGGATTATGAG +GAAACGTACCGGATGCTGTCTGACACAGAGCTGAGACCGTCTGGGCTGGTCGGTAATACC +GATGCAGAGCGCACTATCGGAGCAAGAGCGATGGAGAGCGCGAAAAAGACATTTTTGGAT +GGCCTGCGACCTCTTGTGGAGGAGATGCTGGGGAGCTATCTGAACGTTCAGTGGCGTCGT +AACTGATGCACCAGGTGAATGAGGTGCGGTGCGACAAAGATATTCCCGGACGAACAACAT +CAGACAGTACGGATGATGTACAGGTGAAATAGGGGAGACTTCTTCAGTCAGGGCGCGGCG +CAACTTTTTCGATGATAACGCGCCGCGCGCCGGTAGCGAGAAGCCGATGGAAGTACTGGA +TCACCTGAATGCAAAGAAGGGCAGGGGAAAGCTGTACTTTGCCGGGGAGGGTATCCAGCA +ACAGTGGGCTATGAAGAGAAACATACTGTCATCCCGATATACCACCCGCTATGAAGACCT +GCTTCAGGTTAAGTGACAGGTTTACCCTGATTTTCAAATTTCTGATGTGATGGTGTGCCG +CAGCCACATTGTATGCAAGAACGGGCTGCGGCAAACTGGCGATCGTTCGATAGTGCGTGT +ATTGAATAGTTACCAGTCGTGGCGGATTCTACTGGTTAAGGATGACTAATCAATGTATTT +AAGTCATCTGTTCAACTTTTCGCGTTGGAGGGAGCTTGAAGTCAATTTGCAGTGACCTTC +GATAGCTATTTCACCATCATTTCACCATTTGCAAATTGGATATATAAAAAAACCAGCCCT +GGCAGGCTGGCTTTTAAGGGGAATTTTGGTCGGCACGAGAGGATTTGAACCTCCGACCCC +CGACACCCCATGACGGTGCGCTACCAGGCTGCGCTACGTGCCGACTTGTGGGTGCTAATA +CTACCTCTTTCCAACGCGAATGCAAGGGGAAACGGTGCTAACTGATTTATAATTAATCAG +TTAGCGATAAAACGTTTCTCTTCTGTTAGCACTTGCAGCAGCAGACTGAGCTGCGGCTTC +TGATCTTTGATCTTCTCGCCGTGTAAGTCATAGGTCTGATAATGACCGTTATTATTGAGC +ACCAGGGTCATTTGCGGCGTCGTGATTGCCAGCGTACTGCCGTCTGCCGCCGTTACCCAG +TTATGACGACGTGGAACGGTAAAGATGTCCTGGCCCTGTGAATATTCGTTCGCTGGCGTG +CTGACATGTAACAGGCGTTGCATCAACGTGGTCATCACATCGGTATGATCGGTAAGCACA +TTAATACGCTGCGCAGGCGTCCCCGGCCAGTGGATCACCAGCGGTACTTGCAGATGACCT +TGCGACCAGTCGAAGCGATTTTCTTCCGGCGTCAACGGTATGCCGCGTCCTGCGGTAATG +ATCACGACAGTATTGTCGAATTTACCGGCCTCTCGCAGCGCGTTCAGAACCCGATTGATT +TGCGCATCCACGTCGCTGGCGGCACTGGCGTAACGCTTAACAAAATTTTTCTGGTTACTG +TCATCAATGTTAGTACCGTTAAACGATATCCATGAGAACCAGCGGTTATCTTCCTGTGCG +TAGCGCCCAAGCCAGTCTATCCACTGGCTGGCCGTTTGCGCATCAGACTGCGTTTGCGCT +GCCGGCATCGAGAAATCGGACAGTAATGCCTGACGATAAAGCGGGCTGGCGAAGCCATCC +GAAGAAAACAGTCCCAGTTGGTAGCCTTGCTGATTCAACGCGGTAATGAGCGCCGCAGGC +GTTCTGGTGGATAACACGCCATCCATATAGCCTGGCGATATGCCATAGAACAGGCCGAAA +ATACCGTTATCAGTGGTATTCCCTGAACTCATATGACGGGTGAAGTCGATGTTTTGCTCG +GCAAATGTAGCCAGCTCCGGCATCTGCTTCTCAAAGCGAGAATAGTTCAGGCCGTCTACG +GTAATGAGCAGCACATTCTGACCGGTGCCCATATCGCGATAGTGCAAATTGCTGAGCGGG +TACTGAACGGAGACCGCTTCCGGATTGCCTTGCTCTACCAGACGGCGCTGATATTCCTGC +GCATCCAGCAGACCGTGTTTTTCAAGAAAACGTCGCGCCGTCATCGGATAAGAGAGCGGC +AGGTTTGCCCGCTGCATGGTAATCGGCCGGTAAAAATTAGCGTCTGCCCAGATGTAGATA +AGATGCGATGCGATAAAGGAGACGAAAAAGAATGCCGCAAGCGGCCTTGCGAAATGGCGG +CGGCGCGTGAGACTGCGCAGCTTTTGCCAACTCCATGTCGCAAATAGCATCTCAATCAAT +AAGATAACTGGCACGCTAATAAACATAAGCTGCCAGTCGCGCGCCATTTCGTTCTGGTCA +GGGTTGATGACCAGTTCCCAGACAATGGGGTTAAGATGCAGGTGAAAACGGGTAAAGACT +TCGCTGTCGATAAGCAACAACGTCATACCCGCGGTCGCCAGAATGGCTGATAAAAACCGC +ATCAGCCGCTGGGACATCACGATAAACGTGAGCGGAAAAAGAATAAGCAAATAGGTGGCG +AACACCAGAAAGCTAAAGTGCCCGACAATGCTCAGGTAGGAGTATATGCGACCCGCAAGC +GTTGTCGGCCAGTCGGCGACAAACAGGTAACGGCTGCCGAGCAACGTAGCCAACAGTATA +TTGAACAGAGCGAACCAGTGCCCCCAGCTAACCATCTGGGAGACTTTTTCACGGTAGCGC +TGACGATGAGTTACCATACCTGTCGCTTGTTTCTCCGGAGTCGGCTTTTTAGTGCGCGTT +GTCTTCGCTAATCGAAGACTGCAAGGCGCGGGCAAAAGAGTTCGCAATCGCCTGGCGTTG +AGCCGGCGCCACGCTGGTGTTGATAAGGTTGGTGACCATATTTCCCAGTACCATCAGGGA +AAGATCGGTCGGCGCCTTATGTTTTTCCAGTACACTGAGCAGTTCGCTCAGCAGTTGTTC +AACATGTTCATCACTATAGCGGGAGAGTTGTGGCATAAATCAAAATCTGTTTGTTCATGA +AAGGGCAACATATTACCGTAGCAACAGTTTTTTTTCTGCATTTTTATCCCCTAAATCATT +CGCGTTACGGATAACGCCTGAAATGACAGGGCGATTGCTTGCGTCTTCCGGCAGGCGGTG +GTTGAATACCGCCCGGTCTTAAAGGAGAGTTTATCATGAGTCTGGATATCAACCAGATTG +CCCTGCACCAGCTTATCAAGCGCGATGAGCAAAATCTTGAGCTGGTCTTGCGCGATTCAT +TGCTGGAGCCGACAACCACCGTTGTCGAGATGGTGGCTGAACTGCATCGGGTCTATAGCG +CCAAGAATAAGGCGTATGGCCTGTTTAATGAAGAGAGTGAACTGGCGCAAGCGCTGCGGT +TGCAACGTCAGGGGGAAGAAGATTTTCTTGCCTTTAGCCGGGCGGCGACCGGACGCCTGC +GTGACGAACTGGCGAAATATCCCTTTGCGGACGGCGGCATTGTATTGTTCTGCCATTATC +GTTACCTGGCGGTGGAGTATCTGCTGGTTACGGTACTGAACAACCTGAGCAGTATGCGGG +TCAATGAAAATCTGGACATTAACCCGACGCATTATCTTGATATCAACCATGCGGATATCG +TGGCGCGTATCGATCTTACCGAGTGGGAAACTAATCCGCAATCGACCCGCTACCTGACGT +TCCTGAAAGGTCGGGTAGGGCGCAAGGTCGCTGACTTCTTTATGGATTTCCTCGGCGCCA +GCGAAGGGTTGAACGCCAAAGCGCAGAATCGCGGCCTGTTGCAGGCAGTGGATGATTTCA +CCGCAGAAGCGCAGTTGGATAAAGCAGAACGTCAGAACGTGCGTCAGCAGGTGTACAGCT +ACTGCAACGAGCAGTTACAAGCCGGGGAAGAGATTGAGCTGGAATCGCTGTCTAAAGAGC +TTTCCGGCGTCAGTGAAGTCAGCTTCAGCGAATTTACCGCCGAAAAAGGCTATGAGCTGG +AAGAGAGCTTCCCGGCAGATCGCAGTACGCTACGCCAGTTAACCAAATATGCCGGCAGCG +GCGGCGGGTTAACGATTAACTTTGATGCGATGCTACTGGGCGAGCGGATTTTCTGGGACC +CGGCGACCGATACCCTGACTATCAAAGGGACGCCGCCGAATTTGCGCGATCAGTTGCAGC +GACGCACGTCGGGCGGGAAATAAAGGCATACGACATAAAAGGACGCCGTAGTGAGTAAAG +GAATACGTCAGAGGCCGCCTGTTAATTTCAGTTTATTTCGGCAGGTTTTGTATGCGCACA +TTGTCGCATTTTTGATGATGTTGATGCTCGGCATGGTGTTCACCGTTCTCTCGTTGGTAC +TGTTTTATACTTATGGCGCCAACTGGTTACTGAGCTTGTTCATATGCCCGCTGTTCTTGT +TAAGTGGTTTATTCATTACTGGATTTGCTTTTAAATCAACCTGGTCCAGCATACGTTACT +ATTACGACAAGGGGCAGTTGAAACGGTATGGACTCAATCTTGATGCAACTTTGACGCATA +AAGAGAAGGTGGAAATACGCATCGATAATGCAAAGCGTCAAGTGCGTGTAGATGAACTGG +AACTCCATGTCTTATTTGATTTTCAGTTTGATAGCAAGACATGGAGCTGCGGCGACTTAC +TGACCAATGAAAAGGTATTTGATGCGTTGAATGATGGGCAAACGATACCAATACGAATTT +TGCCATGGAAACCGGAAAGTGCCAGCGTTCGTCAACGGGCATTATTCAATCGGCTTAAAG +GTATGAATACCGCGGCGGAAACTACAGATCCTCGATTAGGGGAGGCGCTAATTGAATGTG +GCGAGGTGTAAGAAAGCAGAAAAGCAAAGTGGGTTCTCGTTGCTCTGCATGTCGTCAAAT +TCAATTAAACGCATAAAAAAACCCCGCCGGGGCGGGGTTTTTCTTCAACTTCCAGGCGAT +TACGCGCGAACGAAGTCGATGTGAGTCAGCTTCGGTTTGTAAGCGTGACGCTGTACAGCC +TGAGCTTTAACTTTTACTTCTTTACCGTCAACAACGAGGGTCAGAACTTCGCTGTAGAAT +TCAGCTTTAGCTTGCATGTTCATCACCTGGTCGTGGTCCAGTTCGATAGCAATCGGGGCT +TCAGAACCGCCGTAGATGATTGCCGGGAACTTGTTAGCGGCGCGCAGGCGGCGGCTCGCA +CCCTTACCCTGCTCTTTACGTACTTCTGCGTTGATAGTAAACATTTAAATCTCTCTTTAA +TAATTCCTGCTACAGGCGACCCAGCAACAGGTAAGTGATCTGCTTTGCGTATGCAAAGGC +GGGCGGGATTCTATACTCAAATCGCCGTTACATCAATGAAAAGTACAATTAACCACGTAA +TTCGTGCGCCCGGCGGAAGCGGCCTTCATAGTCGAACACTTTTTCACGCACCTGCCAGTA +CTGGCCTTTCATCCGCGCGACCACAAAATCGGGATGCCGCAACAGCGCCTGCTGCGCGAC +AATATCCGCCGCCGTGATCCAGCGTAAAGGAACGCCGGGCGTGCGCGTATGCGGGCGAAT +AAATAGCTGTTCGAAAGCGGTACGCTGGGCGGGCGTGTGCAAGCGGAAGCGCTCACTGAC +ATCCGCGCCGTCCTCGTCATAGTAAGTGATTTTCAGCCATTCGCCTTTCTCATCCTGCCC +ATGCTGCATCGTCATTCCGCTACAGCGCAGGACTAACGCATCCTTGAGCCTGAGCGCCGC +TTTTAACATATCGTCCGGGTCGACCAGAATGGCGTCACATTCCCGGCAGCGTCGGGCGGC +AATATCGTTTTCGGCATTACACTGCGGGCAGTTTTTGAAGCGAAAGCGAAAATCGCACTG +CTCGCGATGGCCGTCGTCATCCTCAAACCAGCCCTGGCAGCGACGGCCAAAGTGTTCAAT +CAGCGTGCCGTCGGCAGTGGTTTTCCCCCAGAAGGTGTTGGCAAAGCCGCAGGCCGGGCA +AAATACCTGGACAGGGACGTTATCGCTTTTTCCCTTCGGGCTACCGACCTCCGGGGCATA +CAGGTCGTGCGGGTTGCCTGCGTAATCAAGAATCAGGCAATCGGTCTTTCCCGGCGCAAG +GCGCAGACCACGCCCGACAATTTGTTGGTAAAGACTAACTGACTCCGTGGGACGTAGAAT +CGCGATGAGATCAACGTGTGGGGCGTCAAAGCCGGTGGTCAGTACCGAGACGTTAACCAG +ATAGCGAAAACGCTGCGCCTTGAAATTATCAATCAGCGCGTCGCGCTCGGGCCCTGGCGT +ATCGCCGGTAATCAGCGCCGCGTCGTCCGCCGGAAGCAGACCGACAATCTCTTTCGCATG +TTCGACCGTGGCGGCGAAAATCATCACGCCTTTGCGCGTTTGCGCAAATTCCATAATCTG +GCTGATGATGTGCGGCGTAATCCGCTGCTGCTTTTTCAGCTCGCGGTTCAGGTCGGCTTC +GCTGAACAGCCCATTGCTTTGGGCCTGCAGGCGGCTGAAATCGTATTGGACCACTGGCAT +ATCAAGCCGCTCAGGCGGCGTCAGATAGCCGTGTTTAATCATATAGCGCAGCGGCAGTTC +ATAAATACAGTCGCGAAACAGAGCGTTGTCGTTGCCGCGCACCATACCGTGATAATGAAA +TTGATAAATCCAGCCTTTTCCGAGGCGAAAAGGCGTGGCGGTGAGTCCAAGCAGACGTAA +GTGAGGATTAACTTTACTCAGGTGAGTGAGGATTTGCTGATACTGACTGTCTTCATCGTC +ACCGATGCGGTGGCATTCATCGACAATCAACAGCGAAAACTCCTCCTGGAAGGCGTCAAG +ATTACGCGCCACCGACTGTACGCTGCCGAACACGACTTTGCCCTGACTCTCTTTACGTTT +GAGTCCGGCGGCGAAAATATCCGCTTCCAGCCCCAGCGCGCAATATTTGGCGTGGTTCTG +CGCGACCAGCTCTTTCACATGCGCCAGCACCAGTACCCGTCCGCGGGCGACGCGCGCCAG +TTCGGCGATCACCAGGCTTTTACCTGCGCCGGTCGGCAGAACAATCACGGCGGGCGTACG +GTGGCGGCGAAAGTGGCTGAGCGTGGCGTCTACGGCTTCTTGCTGGTAGGGGCGGAGTGT +AAAAATCATGGTCTCACTACGTTAAACGGTTCCGGGAATAGTATGCCATGAATCATTTCC +CTTGAGGGATATAGTTAGCCCGCTATACTGAGCGGATAGCAATTCCCTTTTTTCGGGTAG +AATGCCCGATTTCCGTATTATTACAGGCTAAATCACACACATGCGACTTGATAAATTTAT +CGCTCAGCAGCTTGGCGTCAGCCGCGCTATTGCCGGGCGTGAAATTCGTGGTAACCGCGT +TACCGTCGATGGCGACATCATTAAAAATGCGGCCTTCAAACTGCTCCCGGAACATGCGGT +TGCGTATGACGGCAATCCCTTAGCGCAGCAACACGGGCCACGCTATTTTATGCTTAACAA +GCCGCAGGGATACGTTTGTTCAACCGATGATCCCGATCATCCAACGGTGCTGTATTTCCT +GGATGAGCCGGTGGCGTATAAGCTGCATGCCGCAGGACGTCTGGATATCGATACTACCGG +TCTGGTGTTAATGACAGATGACGGTCAGTGGTCGCACCGCATTACGTCGCCGCGCCATCA +CTGTGAAAAAACCTATCTGGTGACCCTGGAGTCGCCGGTGGCCGACGATACGGCAGCGCA +ATTTGCGAAAGGCGTGCAGTTGCATAATGAAAAAGATCTCACTAAACCCGCTACGCTGGA +GGTGATAACACCTGTGCAGGTCCGTCTGACCATCAGCGAAGGCCGTTATCATCAGGTGAA +GCGGATGTTTGCCGCAGTAGGCAATCGCGTTGTGGAACTGCACCGCGAACGGATTGGCGC +CATTACGCTGGATGAGAATCTGGCTCCCGGCGAGTACCGCCCGTTGACTGAAGAAGAAAT +CGCCAGCGTCGGCTAACTATCTCGTTAAATTCAGGAGTTCGATGTGACCACCCGGCAGCA +CTCTTCCTTTGCCATTGTCTTTATTCTTGGCCTGTTGGCCATGTTAATGCCGCTGTCGAT +TGATATGTATCTTCCAGCGCTGCCGGTGATTTCTGCGCAATTCGGCGTGCCTGCCGGTAG +CGCGCAGATGACGCTCAGCACCTATATTCTGGGGTTTGCGCTGGGTCAGCTTATCTATGG +ACCGATGGCGGATAGCCTCGGGCGTAAGCCGGTCATCCTGGGCGGGACGCTGGTATTTGC +CGCTGCGGCGGTCGCCTGTGCGTTGGCGCAGACTATCGATCAACTGATCGTGATGCGTTT +CTTTCACGGTTTGGTGGCTGCGGCGGCAAGCGTCGTCATCAATGCGCTGATGCGGGATAT +TTATCCAAAGGAAGAGTTTTCGCGCATGATGTCATTTGTCATGCTGGTCACTACGATAGC +GCCGTTAATGGCGCCCATTGTTGGCGGCTGGGTGTTGGTATGGTTAAGCTGGCACTATAT +CTTCTGGATACTGGCTATTGCGGCGATTCTGGCGTCAGTCATGATCTTTGCTTTGATTAA +AGAGACGCTGCCCGTTGAGCGGCGTCAGCCTTTTCATATTCGTACCACAATAGGTAACTT +TGCCGCGTTGTTTCGCCACAAACGCGTACTGAGCTATATGCTGGCGAGCGGGTTCAGTTT +TGCCGGTATGTTCTCTTTTTTGAGCGCGGGGCCGTTTGTCTATATCGAAATTAATCATGT +TCCGCCGCAGGATTTCGGCTACTACTTCGCGTTGAACATCGTATTTCTGTTTGTGATGAC +GATTATCAACAGCCGTTTTGTCAGACGGGTAGGGGCGCTAAACATGTTTCGGGCCGGGCT +ATGGATTCAGTTTGCGATGGCGGTGTGGATGGTTTTCAGCGCGCTGATGGGCATTGGATT +CTGGGCGCTGGTGGTTGGCGTTGCGGCGTTTGTCGGCTGTGTGTCGATGGTTTCGTCCAA +TGCGATGGCGGTCATTTTGGATGAGTTTCCGCATATGGCCGGAACGGCGTCTTCGTTGGC +GGGCACTTTCCGCTTTGGTATTGGCGCTATCGTCGGCGCGTTGCTGTCGCTGGCTACCTT +TAACAGTGCGTGGCCGATGATCTGGTCGATTGCGCTTTGCGCCGCCTGTTCCATTCTGTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/genbank_gbff/genbank3.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,26 @@ +>ERS325326_00001.p01 +MPEVTPFQVLIVDDHPLMRRGIRQLLELDPAFYVVAEAGDGASAIDLANRIEPDLILLDL +NMKGLSGLDTLNALRRDGVTAQIIILTVSDSASDIYALIDAGADGYLLKDSDPEVLLEAI +RKGANGGKVFSDRVNEYLRERERFGAQEDPFSILTERELDVLHELAQGLSNKQIASVLNI +SEQTVKVHIRNLLRKLNVRSRVAATILFLQTRGMQ* +>ERS325326_00003.p01 +VISLEDASLTKKGIVKLSSATDSDSEALAATPKAVKTVMGEVRTKAPLDSPAFTGTPTTP +TPPGDAKGLQTTNAEFVRKLIAALVGSVLEPLDTLQELADALGNDPNFATTVLNKLAGKQ +PLDETLTALSGKSVDGLIEYVGLRETISRAADALQKSQNGGDIPDKDLFVRRIGAARAFD +GAVIIGCDDNPWTTAEFIVWLESQGAFNHPYWMCRGSWSYAYNKIITDTGCGNICLAGAV +IEVMGVRGAMTIRVTTSHSVSGW* +>ERS325326_00004.p01 +MPFHIGSGCLPATISNRRIYRIAWSDTPPEMSSWEKMKEFFCSTHQTEALECIWTICHPP +AGTTREDVINRFELLRTLAYAGWEESIHSGQHGENYFCILDEDSQEILSVTLDDAGNYTV +NCQGYSETHRLTLDTAQGEEGTGHAEGASGTFRTSFLPATTAPQTPAEYDAVWSAWRRAA +PAEESRGRAAAVQKMRACLNNGNAVLNVGESGLTTLPDCLPAHITTLVIPDNNLTSLPAL +PPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVL +PPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSGLQELSVSDNQLASLPTL +PSELYKLWAYNNRLTSLPALPSGLKELIVSGNRLTSLPVLPSELKELMVSGNRLTSLPML +PSGLLSLSVYRNQLTRLPESLIHLSSETTVNLEGNPLSERTLQALREITSAPGYSGPIIR +FDMAGASAPRETRALHLAAADWLVPAREGEPAPADRWHMFGQEDNADAFSLFLDRLSETE +NFIKDAGFKAQISSWLAQLAEDEALRANTFAMATEATSSCEDRVTFFLHQMKNVQLVHNA +EKGQYDNDLAALVATGREMFRLGKLEQIAREKVRTLALVDEIEVWLAYQNKLKKSLGLTS +VTSEMRFFDVSGVTVTDLQDAELQVKAAEKSEFREWILQWGPLHRVLERKAPKRVNALRE +KQISDYEETYRMLSDTELRPSGLVGNTDAERTIGARAMESAKKTFLDGLRPLVEEMLGSY +LNVQWRRN*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/genbank_gbff/genbank_gene_presence_absence.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,12 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","genbank1","genbank2","genbank3" +"group_10","","side tail fiber protein","2","2","1","2","3","2","2","","791","791","791","","ERS325340_00003.p01","ERS325326_00003.p01" +"group_11","","secreted effector protein","2","2","1","2","1","2","1","","2366","2366","2366","","ERS325340_00004.p01","ERS325326_00004.p01" +"group_9","","transcriptional regulator NarP","2","2","1","2","2","2","3","","647","647","647","","ERS325340_00001.p01","ERS325326_00001.p01" +"group_1","","2-dehydro-3-deoxyphosphooctonate aldolase","1","1","1","1","1","1","1","","854","854","854","ERS325254_00002.p01","","" +"group_2","","regulator","1","1","1","1","2","1","8","","809","809","809","ERS325254_00003.p01","","" +"group_3","","regulator","1","1","1","1","8","1","7","","389","389","389","ERS325254_00004.p01","","" +"group_4","","N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase","1","1","1","1","7","1","6","","833","833","833","ERS325254_00005.p01","","" +"group_5","","peptide chain release factor 1 (RF-1)","1","1","1","1","6","1","5","","1082","1082","1082","ERS325254_00006.p01","","" +"group_6","","glutamyl-tRNA reductase","1","1","1","1","5","1","4","","1256","1256","1256","ERS325254_00007.p01","","" +"group_7","","outer membrane lipoprotein","1","1","1","1","4","1","3","","623","623","623","ERS325254_00008.p01","","" +"group_8","","isopentenyl monophosphate kinase","1","1","1","1","3","1","2","","851","851","851","ERS325254_00009.p01","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/gene_category_count.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1 @@ +Gene,Non-unique Gene name,Annotation,No. isolates,No. sequences,Avg sequences per isolate,Genome Fragment,Order within Fragment,Accessory Fragment,Accessory Order with Fragment,QC,"Min group size nuc","Max group size nuc","Avg group size nuc",sample1,sample2,sample3,sample4,sample5,sample6,sample7,sample8,sample9,sample10,sample11,sample12,sample13,sample14,sample15,sample16,sample17,sample18,sample19,sample20,sample21,sample22,sample23,sample24,sample25,sample26,sample27,sample28,sample29,sample30 bcsC_1,,cellulose synthase subunit BcsC,9,9,1,11,5692,,,,,,,sample1_001,sample2_001,sample3_001,sample4_001,sample5_001,sample6_001,sample7_001,sample8_001,sample9_001,sample10_001,sample11_001,sample12_001,sample13_001,sample14_001,sample15_001,sample16_001,sample17_001,sample18_001,sample19_001,sample20_001,sample21_001,sample22_001,sample23_001,sample24_001,sample25_001,sample26_001,sample27_001,sample28_001,sample29_001,sample30_001 betC_2,,sulfatase,9,9,1,11,1876,,,,,,,,sample2_002,sample3_002,sample4_002,sample5_002,sample6_002,sample7_002,sample8_002,sample9_002,sample10_002,sample11_002,sample12_002,sample13_002,sample14_002,sample15_002,sample16_002,sample17_002,sample18_002,sample19_002,sample20_002,sample21_002,sample22_002,sample23_002,sample24_002,sample25_002,sample26_002,sample27_002,sample28_002,sample29_002,sample30_002 comM_2,,putative ATP-dependent protease,9,9,1,11,6422,,,,,,,,,sample3_003,sample4_003,sample5_003,sample6_003,sample7_003,sample8_003,sample9_003,sample10_003,sample11_003,sample12_003,sample13_003,sample14_003,sample15_003,sample16_003,sample17_003,sample18_003,sample19_003,sample20_003,sample21_003,sample22_003,sample23_003,sample24_003,sample25_003,sample26_003,sample27_003,sample28_003,sample29_003,sample30_003 dmsA4_1,,anaerobic dimethyl sulfoxide reductase subunit A,9,9,1,11,540,,,,,,,,,,sample4_004,sample5_004,sample6_004,sample7_004,sample8_004,sample9_004,sample10_004,sample11_004,sample12_004,sample13_004,sample14_004,sample15_004,sample16_004,sample17_004,sample18_004,sample19_004,sample20_004,sample21_004,sample22_004,sample23_004,sample24_004,sample25_004,sample26_004,sample27_004,sample28_004,sample29_004,sample30_004 dosC,,diguanylate cylase,9,9,1,11,909,,,,,,,,,,,sample5_005,sample6_005,sample7_005,sample8_005,sample9_005,sample10_005,sample11_005,sample12_005,sample13_005,sample14_005,sample15_005,sample16_005,sample17_005,sample18_005,sample19_005,sample20_005,sample21_005,sample22_005,sample23_005,sample24_005,sample25_005,sample26_005,sample27_005,sample28_005,sample29_005,sample30_005 dsbA_3,,Thiol:disulfide interchange protein,9,9,1,11,1676,,,,,,,,,,,,sample6_006,sample7_006,sample8_006,sample9_006,sample10_006,sample11_006,sample12_006,sample13_006,sample14_006,sample15_006,sample16_006,sample17_006,sample18_006,sample19_006,sample20_006,sample21_006,sample22_006,sample23_006,sample24_006,sample25_006,sample26_006,sample27_006,sample28_006,sample29_006,sample30_006 fadH_1,,2 4-dienoyl-CoA reductase,9,9,1,11,5287,,,,,,,,,,,,,sample7_007,sample8_007,sample9_007,sample10_007,sample11_007,sample12_007,sample13_007,sample14_007,sample15_007,sample16_007,sample17_007,sample18_007,sample19_007,sample20_007,sample21_007,sample22_007,sample23_007,sample24_007,sample25_007,sample26_007,sample27_007,sample28_007,sample29_007,sample30_007 fimD_3,,outer membrane usher protein FimD,9,9,1,11,1813,,,,,,,,,,,,,,sample8_008,sample9_008,sample10_008,sample11_008,sample12_008,sample13_008,sample14_008,sample15_008,sample16_008,sample17_008,sample18_008,sample19_008,sample20_008,sample21_008,sample22_008,sample23_008,sample24_008,sample25_008,sample26_008,sample27_008,sample28_008,sample29_008,sample30_008 fliB_2,,lysine-N-methylase,9,9,1,11,1159,,,,,,,,,,,,,,,sample9_009,sample10_009,sample11_009,sample12_009,sample13_009,sample14_009,sample15_009,sample16_009,sample17_009,sample18_009,sample19_009,sample20_009,sample21_009,sample22_009,sample23_009,sample24_009,sample25_009,sample26_009,sample27_009,sample28_009,sample29_009,sample30_009 fliF,,flagellar MS-ring protein,9,9,1,11,1176,,,,,,,,,,,,,,,,sample10_010,sample11_010,sample12_010,sample13_010,sample14_010,sample15_010,sample16_010,sample17_010,sample18_010,sample19_010,sample20_010,sample21_010,sample22_010,sample23_010,sample24_010,sample25_010,sample26_010,sample27_010,sample28_010,sample29_010,sample30_010 ftsN,,cell division protein FtsN,9,9,1,11,6144,,,,,,,,,,,,,,,,,sample11_011,sample12_011,sample13_011,sample14_011,sample15_011,sample16_011,sample17_011,sample18_011,sample19_011,sample20_011,sample21_011,sample22_011,sample23_011,sample24_011,sample25_011,sample26_011,sample27_011,sample28_011,sample29_011,sample30_011 gatY_1,,fructose-bisphosphate aldolase,9,9,1,11,5872,,,,,,,,,,,,,,,,,,sample12_012,sample13_012,sample14_012,sample15_012,sample16_012,sample17_012,sample18_012,sample19_012,sample20_012,sample21_012,sample22_012,sample23_012,sample24_012,sample25_012,sample26_012,sample27_012,sample28_012,sample29_012,sample30_012 glfT2,,glycosyltransferase cell wall biogenesis,9,9,1,11,4176,,,,,,,,,,,,,,,,,,,sample13_013,sample14_013,sample15_013,sample16_013,sample17_013,sample18_013,sample19_013,sample20_013,sample21_013,sample22_013,sample23_013,sample24_013,sample25_013,sample26_013,sample27_013,sample28_013,sample29_013,sample30_013 group_1000,,membrane protein,9,9,1,11,593,,,,,,,,,,,,,,,,,,,,sample14_014,sample15_014,sample16_014,sample17_014,sample18_014,sample19_014,sample20_014,sample21_014,sample22_014,sample23_014,sample24_014,sample25_014,sample26_014,sample27_014,sample28_014,sample29_014,sample30_014 group_1001,,lipoprotein,9,9,1,11,597,,,,,,,,,,,,,,,,,,,,,sample15_015,sample16_015,sample17_015,sample18_015,sample19_015,sample20_015,sample21_015,sample22_015,sample23_015,sample24_015,sample25_015,sample26_015,sample27_015,sample28_015,sample29_015,sample30_015 group_1004,,arylsulfate sulfotransferase,9,9,1,11,2834,,,,,,,,,,,,,,,,,,,,,,sample16_016,sample17_016,sample18_016,sample19_016,sample20_016,sample21_016,sample22_016,sample23_016,sample24_016,sample25_016,sample26_016,sample27_016,sample28_016,sample29_016,sample30_016 group_1006,,putative inner membrane protein,9,9,1,11,2791,,,,,,,,,,,,,,,,,,,,,,,sample17_017,sample18_017,sample19_017,sample20_017,sample21_017,sample22_017,sample23_017,sample24_017,sample25_017,sample26_017,sample27_017,sample28_017,sample29_017,sample30_017 group_1009,,Phage-like protein,9,9,1,11,6416,,,,,,,,,,,,,,,,,,,,,,,,sample18_018,sample19_018,sample20_018,sample21_018,sample22_018,sample23_018,sample24_018,sample25_018,sample26_018,sample27_018,sample28_018,sample29_018,sample30_018 group_220,,putative glycosyl transferase,9,9,1,11,4174,,,,,,,,,,,,,,,,,,,,,,,,,sample19_019,sample20_019,sample21_019,sample22_019,sample23_019,sample24_019,sample25_019,sample26_019,sample27_019,sample28_019,sample29_019,sample30_019 group_277,,arylsulfate sulfotransferase,9,9,1,11,6149,,,,,,,,,,,,,,,,,,,,,,,,,,sample20_020,sample21_020,sample22_020,sample23_020,sample24_020,sample25_020,sample26_020,sample27_020,sample28_020,sample29_020,sample30_020 group_281,,transport system periplasmic binding protein,9,9,1,11,6046,,,,,,,,,,,,,,,,,,,,,,,,,,,sample21_021,sample22_021,sample23_021,sample24_021,sample25_021,sample26_021,sample27_021,sample28_021,sample29_021,sample30_021 group_283,,periplasmic protein,9,9,1,11,6091,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample22_022,sample23_022,sample24_022,sample25_022,sample26_022,sample27_022,sample28_022,sample29_022,sample30_022 group_284,hemN_2,coproporphyrinogen III oxidase,9,9,1,11,6093,,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample23_023,sample24_023,sample25_023,sample26_023,sample27_023,sample28_023,sample29_023,sample30_023 group_288,,permease,9,9,1,11,5969,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample24_024,sample25_024,sample26_024,sample27_024,sample28_024,sample29_024,sample30_024 hemD,,uroporphyrinogen III synthase,9,9,1,11,2788,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample25_025,sample26_025,sample27_025,sample28_025,sample29_025,sample30_025 hsrA_2,,Inner membrane transport protein YieO,9,9,1,11,5993,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample26_026,sample27_026,sample28_026,sample29_026,sample30_026 icsA,,autotransporter MisL,9,9,1,11,5845,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample27_027,sample28_027,sample29_027,sample30_027 kdpD,,sensor protein KdpD,9,9,1,11,4196,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample28_028,sample29_028,sample30_028 ligB_1,,NAD-dependent DNA ligase LigB,9,9,1,11,5819,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample29_029,sample30_029 marT_1,,putative transcriptional regulator MarT,9,9,1,11,5849,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample30_030 ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/gene_name_field/annotation_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,173 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 2340 +##sequence-region abc|SC|contig000002 1 2340 +##sequence-region abc|SC|contig000003 1 2340 +##sequence-region abc|SC|contig000004 1 2340 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00001;Name=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000002 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00003;Name=AAA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000002 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000003 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00005;Name=BBB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000003 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00006;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000004 Prodigal:2.60 CDS 172 1131 . - 0 ID=abc_00007;Name=CCC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000004 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00008;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>abc|SC|contig000002 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>abc|SC|contig000003 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>abc|SC|contig000004 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/gene_name_field/annotation_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,173 @@ +##gff-version 3 +##sequence-region efg|SC|contig000001 1 2340 +##sequence-region efg|SC|contig000002 1 2340 +##sequence-region efg|SC|contig000003 1 2340 +##sequence-region efg|SC|contig000004 1 2340 +efg|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=efg_00001;Name=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=efg_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|efg_00001 +efg|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=efg_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=efg_00002;product=hypothetical protein;protein_id=gnl|SC|efg_00002 +efg|SC|contig000002 Prodigal:2.60 CDS 172 1131 . - 0 ID=efg_00003;Name=AAA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=efg_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|efg_00001 +efg|SC|contig000002 Prodigal:2.60 CDS 1804 1950 . + 0 ID=efg_00004;inference=ab initio prediction:Prodigal:2.60;locus_tag=efg_00002;product=hypothetical protein;protein_id=gnl|SC|efg_00002 +efg|SC|contig000003 Prodigal:2.60 CDS 172 1131 . - 0 ID=efg_00005;Name=BBB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=efg_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|efg_00001 +efg|SC|contig000003 Prodigal:2.60 CDS 1804 1950 . + 0 ID=efg_00006;inference=ab initio prediction:Prodigal:2.60;locus_tag=efg_00002;product=hypothetical protein;protein_id=gnl|SC|efg_00002 +efg|SC|contig000004 Prodigal:2.60 CDS 172 1131 . - 0 ID=efg_00007;Name=CCC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=efg_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|efg_00001 +efg|SC|contig000004 Prodigal:2.60 CDS 1804 1950 . + 0 ID=efg_00008;inference=ab initio prediction:Prodigal:2.60;locus_tag=efg_00002;product=hypothetical protein;protein_id=gnl|SC|efg_00002 +>efg|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>efg|SC|contig000002 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>efg|SC|contig000003 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +>efg|SC|contig000004 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/gene_name_field/expected_reannotated_groups_file Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +AAA: abc_00003 efg_00003 +BBB: abc_00005 efg_00005 +CCC: abc_00007 efg_00007 +group_4: abc_00004 efg_00004 +hly: abc_00001 efg_00001 +group_6: abc_00006 efg_00006 +group_8: abc_00008 efg_00008 +group_2: abc_00002 efg_00002
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/gene_name_field/groups Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +group_1: abc_00001 efg_00001 +group_2: abc_00002 efg_00002 +group_3: abc_00003 efg_00003 +group_4: abc_00004 efg_00004 +group_5: abc_00005 efg_00005 +group_6: abc_00006 efg_00006 +group_7: abc_00007 efg_00007 +group_8: abc_00008 efg_00008 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/group_1.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,84 @@ +>abc_00004 +ATGAGTAAGAACATCACGAAAAATATAATTTTAACGACAACATTATTACTATTAGGTACT +GTATTACCTCAAAATCAAAAACCAGTATTTAGTTTTTACTCTGAAGCTAAAGCTTATAGC +ATTGGTCAAGATGAAACTAACATCAATGAATTAATTAAATATTACACACAGCCTCATTTT +TCATTTTCAAATAAATGGCTATATCAATATGATAATGGAAACATTTATGTTGAACTTAAG +AGATATTCATGGTCAGCACATATATCTTTATGGGGCGCTGAAAGTTGGGGAAATATTAAT +CAGTTAAAAGATCGTTACGTAGATGTGTTTGGACTAAAAGACAAAGATACTGATCAGTTA +TGGTGGTCTTATAGAGAGACATTTACAGGTGGCGTTACACCAGCCGCAAAACCTTCTGAT +AAAACTTATAATCTTTTTGTGCAATACAAAGATAAACTACAAACGATTATTGGTGCGCAT +AAAATATACCAAGGCAATAAACCAGTATTAACATTGAAAGAAATCGATTTCCGTGCACGA +GAAGCGTTAATAAAAAATAAAATATTATATACCGAAAATCGTAATAAAGGTAAGCTTAAG +ATCACCGGTGGCGGTAATAACTACACTATTGATTTAAGCAAAAGATTACATTCAGATCTA +GCAAATGTTTATGTTAAAAATCCTAATAAAATAACTGTTGACGTC---CTC------TTT +GATTAG +>abc_00004 +ATGAGTAAGAACATCACGAAAAATATAATTTTAACGACAACATTATTACTATTAGGTACT +GTATTACCTCAAAATCAAAAACCAGTATTTAGTTTTTACTCTGAAGCTAAAGCTTATAGC +ATTGGTCAAGATGAAACTAACATCAATGAATTAATTAAATATTACACACAGCCTCATTTT +TCATTTTCAAATAAATGGCTATATCAATATGATAATGGAAACATTTATGTTGAACTTAAG +AGATATTCATGGTCAGCACATATATCTTTATGGGGCGCTGAAAGTTGGGGAAATATTAAT +CAGTTAAAAGATCGTTACGTAGATGTGTTTGGACTAAAAGACAAAGATACTGATCAGTTA +TGGTGGTCTTATAGAGAGACATTTACAGGTGGCGTTACACCAGCCGCAAAACCTTCTGAT +AAAACTTATAATCTTTTTGTGCAATACAAAGATAAACTACAAACGATTATTGGTGCGCAT +AAAATATACCAAGGCAATAAACCAGTATTAACATTGAAAGAAATCGATTTCCGTGCACGA +GAAGCGTTAATAAAAAATAAAATATTATATACCGAAAATCGTAATAAAGGTAAGCTTAAG +ATCACCGGTGGCGGTAATAACTACACTATTGATTTAAGCAAAAGATTACATTCAGATCTA +GCAAATGTTTATGTTAAAAATCCTAATAAAATAACTGTTGACGTC---CTC------TTT +GATTAG +>abc_00004 +ATGAGTAAGAACATCACGAAAAATATAATTTTAACGACAACATTATTACTATTAGGTACT +GTATTACCTCAAAATCAAAAACCAGTATTTAGTTTTTACTCTGAAGCTAAAGCTTATAGC +ATTGGTCAAGATGAAACTAACATCAATGAATTAATTAAATATTACACACAGCCTCATTTT +TCATTTTCAAATAAATGGCTATATCAATATGATAATGGAAACATTTATGTTGAACTTAAG +AGATATTCATGGTCAGCACATATATCTTTATGGGGCGCTGAAAGTTGGGGAAATATTAAT +CAGTTAAAAGATCGTTACGTAGATGTGTTTGGACTAAAAGACAAAGATACTGATCAGTTA +TGGTGGTCTTATAGAGAGACATTTACAGGTGGCGTTACACCAGCCGCAAAACCTTCTGAT +AAAACTTATAATCTTTTTGTGCAATACAAAGATAAACTACAAACGATTATTGGTGCGCAT +AAAATATACCAAGGCAATAAACCAGTATTAACATTGAAAGAAATCGATTTCCGTGCACGA +GAAGCGTTAATAAAAAATAAAATATTATATACCGAAAATCGTAATAAAGGTAAGCTTAAG +ATCACCGGTGGCGGTAATAACTACACTATTGATTTAAGCAAAAGATTACATTCAGATCTA +GCAAATGTTTATGTTAAAAATCCTAATAAAATAACTGTTGACGTC---CTC------TTT +GATTAG +>abc_00006 +ATGAAAAAGAACATCATGAATAAATTAGTTTTATCAACAGCATTGTTACTTTTAGGAACC +ACATCAACACAACTTCCTAAAACACCAATCAGTTTTTCATCTGAAGCAAAAGCCTATAAT +ATCAGTGAAAACGAGACTAATATCAATGAGTTAATCAAATATTACACTCAGCCGCATTTT +TCATTATCTGGAAAATGGCTATGGCAAAAGCCCAATGGTAGCATTCATGCAACATTGCAA +ACGTGGGTTTGGTATAGTCATATTCAAGTGTTTGGATCCGAGAGTTGGGGAAACATTAAT +CAGTTAAGAAATAAATACGTTGATATATTTGGAACTAAAGATGAGGACACAGTTGAAGGT +TACTGGACTTATGATGAAACATTTACTGGTGGTGTTACGCCAGCAGCTACTTCATCTGAT +AAACCTTATAGACTATTTTTAAAATATAGTGATAAACAACAAACTATCATCGGTGGACAT +GAATTTTACAAAGGAAATAAACCAGTATTAACTTTAAAAGAATTAGATTTCCGTATTCGT +CAAACATTAATAAAGAATAAAAAGTTATATAACGGAGAATTTAATAAAGGTCAAATTAAG +ATAACTGCTGATGGAAATAATTACACGATTGATTTAAGTAAAAAGTTAAAATTAACTGAC +ACAAACCGTTATGTTAAAAATCCTAAAAATGCACAAATTGAAGTCATACTCGAAAAATCT +AACTAA +>abc_00006 +ATGAAAAAGAACATCATGAATAAATTAGTTTTATCAACAGCATTGTTACTTTTAGGAACC +ACATCAACACAACTTCCTAAAACACCAATCAGTTTTTCATCTGAAGCAAAAGCCTATAAT +ATCAGTGAAAACGAGACTAATATCAATGAGTTAATCAAATATTACACTCAGCCGCATTTT +TCATTATCTGGAAAATGGCTATGGCAAAAGCCCAATGGTAGCATTCATGCAACATTGCAA +ACGTGGGTTTGGTATAGTCATATTCAAGTGTTTGGATCCGAGAGTTGGGGAAACATTAAT +CAGTTAAGAAATAAATACGTTGATATATTTGGAACTAAAGATGAGGACACAGTTGAAGGT +TACTGGACTTATGATGAAACATTTACTGGTGGTGTTACGCCAGCAGCTACTTCATCTGAT +AAACCTTATAGACTATTTTTAAAATATAGTGATAAACAACAAACTATCATCGGTGGACAT +GAATTTTACAAAGGAAATAAACCAGTATTAACTTTAAAAGAATTAGATTTCCGTATTCGT +CAAACATTAATAAAGAATAAAAAGTTATATAACGGAGAATTTAATAAAGGTCAAATTAAG +ATAACTGCTGATGGAAATAATTACACGATTGATTTAAGTAAAAAGTTAAAATTAACTGAC +ACAAACCGTTATGTTAAAAATCCTAAAAATGCACAAATTGAAGTCATACTCGAAAAATCT +AACTAA +>abc_00006 +ATGAAAAAGAACATCATGAATAAATTAGTTTTATCAACAGCATTGTTACTTTTAGGAACC +ACATCAACACAACTTCCTAAAACACCAATCAGTTTTTCATCTGAAGCAAAAGCCTATAAT +ATCAGTGAAAACGAGACTAATATCAATGAGTTAATCAAATATTACACTCAGCCGCATTTT +TCATTATCTGGAAAATGGCTATGGCAAAAGCCCAATGGTAGCATTCATGCAACATTGCAA +ACGTGGGTTTGGTATAGTCATATTCAAGTGTTTGGATCCGAGAGTTGGGGAAACATTAAT +CAGTTAAGAAATAAATACGTTGATATATTTGGAACTAAAGATGAGGACACAGTTGAAGGT +TACTGGACTTATGATGAAACATTTACTGGTGGTGTTACGCCAGCAGCTACTTCATCTGAT +AAACCTTATAGACTATTTTTAAAATATAGTGATAAACAACAAACTATCATCGGTGGACAT +GAATTTTACAAAGGAAATAAACCAGTATTAACTTTAAAAGAATTAGATTTCCGTATTCGT +CAAACATTAATAAAGAATAAAAAGTTATATAACGGAGAATTTAATAAAGGTCAAATTAAG +ATAACTGCTGATGGAAATAATTACACGATTGATTTAAGTAAAAAGTTAAAATTAACTGAC +ACAAACCGTTATGTTAAAAATCCTAAAAATGCACAAATTGAAGTCATACTCGAAAAATCT +AACTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/group_9.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,15 @@ +>abc_00010 +ATGACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTT +AGTAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTG +CTAGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTA +CCTTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAA +>abc_00010 +ATGACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTT +AGTAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTG +CTAGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTA +CCTTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAA +>abc_00010 +ATGACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTT +AGTAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTG +CTAGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTA +CCTTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/input_accessory_binary.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,20 @@ +>seq1 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA +>seq2 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAC +>seq3 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACC +>seq4 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCC +>seq5 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCC +>seq6 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCCC +>seq7 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCCCC +>seq8 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCCCCC +>seq9 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCCCCCC +>seq10 +AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCCCCCCC
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/input_block_spreadsheet.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,52 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","oneblock","oneblockrev","contigwithgaps","nocontigs","threeblocks","threeblocksinversion" +"bcsC_1","","cellulose synthase subunit BcsC","9","9","1","11","5692","","","",,,,"oneblock_0031","oneblockrev_0020","contigwithgaps_0121","nocontigs_0331","threeblocks_0131","threeblocksinversion_0031" +"betC_2","","sulfatase","9","9","1","11","1876","","","",,,,"oneblock_0012","oneblockrev_0039","contigwithgaps_0045","nocontigs_0122","threeblocks_0112","threeblocksinversion_0029" +"comM_2","","putative ATP-dependent protease","9","9","1","11","6422","","","",,,,"oneblock_0050","oneblockrev_0001","contigwithgaps_0197","nocontigs_0540","threeblocks_0250","threeblocksinversion_0050" +"dmsA4_1","","anaerobic dimethyl sulfoxide reductase subunit A","9","9","1","11","540","","","",,,,"oneblock_0001","oneblockrev_0050","contigwithgaps_0001","nocontigs_0001","threeblocks_0001","threeblocksinversion_0001" +"dosC","","diguanylate cylase","9","9","1","11","909","","","",,,,"oneblock_0005","oneblockrev_0046","contigwithgaps_0017","nocontigs_0045","threeblocks_0005","threeblocksinversion_0005" +"dsbA_3","","Thiol:disulfide interchange protein","9","9","1","11","1676","","","",,,,"oneblock_0009","oneblockrev_0042","contigwithgaps_0033","nocontigs_0089","threeblocks_0009","threeblocksinversion_0009" +"fadH_1","","2 4-dienoyl-CoA reductase","9","9","1","11","5287","","","",,,,"oneblock_0029","oneblockrev_0022","contigwithgaps_0113","nocontigs_0309","threeblocks_0129","threeblocksinversion_0012" +"fimD_3","","outer membrane usher protein FimD","9","9","1","11","1813","","","",,,,"oneblock_0011","oneblockrev_0040","contigwithgaps_0041","nocontigs_0111","threeblocks_0111","threeblocksinversion_0030" +"fliB_2","","lysine-N-methylase","9","9","1","11","1159","","","",,,,"oneblock_0007","oneblockrev_0044","contigwithgaps_0025","nocontigs_0067","threeblocks_0007","threeblocksinversion_0007" +"fliF","","flagellar MS-ring protein","9","9","1","11","1176","","","",,,,"oneblock_0008","oneblockrev_0043","contigwithgaps_0029","nocontigs_0078","threeblocks_0008","threeblocksinversion_0008" +"ftsN","","cell division protein FtsN","9","9","1","11","6144","","","",,,,"oneblock_0047","oneblockrev_0004","contigwithgaps_0185","nocontigs_0507","threeblocks_0247","threeblocksinversion_0047" +"gatY_1","","fructose-bisphosphate aldolase","9","9","1","11","5872","","","",,,,"oneblock_0039","oneblockrev_0012","contigwithgaps_0153","nocontigs_0419","threeblocks_0239","threeblocksinversion_0039" +"glfT2","","glycosyltransferase cell wall biogenesis","9","9","1","11","4176","","","",,,,"oneblock_0022","oneblockrev_0029","contigwithgaps_0085","nocontigs_0232","threeblocks_0122","threeblocksinversion_0019" +"group_1000","","membrane protein","9","9","1","11","593","","","",,,,"oneblock_0002","oneblockrev_0049","contigwithgaps_0005","nocontigs_0012","threeblocks_0002","threeblocksinversion_0002" +"group_1001","","lipoprotein","9","9","1","11","597","","","",,,,"oneblock_0003","oneblockrev_0048","contigwithgaps_0009","nocontigs_0023","threeblocks_0003","threeblocksinversion_0003" +"group_1004","","arylsulfate sulfotransferase","9","9","1","11","2834","","","",,,,"oneblock_0019","oneblockrev_0032","contigwithgaps_0073","nocontigs_0199","threeblocks_0119","threeblocksinversion_0022" +"group_1006","","putative inner membrane protein","9","9","1","11","2791","","","",,,,"oneblock_0017","oneblockrev_0034","contigwithgaps_0065","nocontigs_0177","threeblocks_0117","threeblocksinversion_0024" +"group_1009","","Phage-like protein","9","9","1","11","6416","","","",,,,"oneblock_0049","oneblockrev_0002","contigwithgaps_0193","nocontigs_0529","threeblocks_0249","threeblocksinversion_0049" +"group_220","","putative glycosyl transferase","9","9","1","11","4174","","","",,,,"oneblock_0021","oneblockrev_0030","contigwithgaps_0081","nocontigs_0221","threeblocks_0121","threeblocksinversion_0020" +"group_277","","arylsulfate sulfotransferase","9","9","1","11","6149","","","",,,,"oneblock_0048","oneblockrev_0003","contigwithgaps_0189","nocontigs_0518","threeblocks_0248","threeblocksinversion_0048" +"group_281","","transport system periplasmic binding protein","9","9","1","11","6046","","","",,,,"oneblock_0043","oneblockrev_0008","contigwithgaps_0169","nocontigs_0463","threeblocks_0243","threeblocksinversion_0043" +"group_283","","periplasmic protein","9","9","1","11","6091","","","",,,,"oneblock_0044","oneblockrev_0007","contigwithgaps_0173","nocontigs_0474","threeblocks_0244","threeblocksinversion_0044" +"group_284","hemN_2","coproporphyrinogen III oxidase","9","9","1","11","6093","","","",,,,"oneblock_0045","oneblockrev_0006","contigwithgaps_0177","nocontigs_0485","threeblocks_0245","threeblocksinversion_0045" +"group_288","","permease","9","9","1","11","5969","","","",,,,"oneblock_0041","oneblockrev_0010","contigwithgaps_0161","nocontigs_0441","threeblocks_0241","threeblocksinversion_0041" +"hemD","","uroporphyrinogen III synthase","9","9","1","11","2788","","","",,,,"oneblock_0016","oneblockrev_0035","contigwithgaps_0061","nocontigs_0166","threeblocks_0116","threeblocksinversion_0025" +"hsrA_2","","Inner membrane transport protein YieO","9","9","1","11","5993","","","",,,,"oneblock_0042","oneblockrev_0009","contigwithgaps_0165","nocontigs_0452","threeblocks_0242","threeblocksinversion_0042" +"icsA","","autotransporter MisL","9","9","1","11","5845","","","",,,,"oneblock_0035","oneblockrev_0016","contigwithgaps_0137","nocontigs_0375","threeblocks_0235","threeblocksinversion_0035" +"kdpD","","sensor protein KdpD","9","9","1","11","4196","","","",,,,"oneblock_0023","oneblockrev_0028","contigwithgaps_0089","nocontigs_0243","threeblocks_0123","threeblocksinversion_0018" +"ligB_1","","NAD-dependent DNA ligase LigB","9","9","1","11","5819","","","",,,,"oneblock_0034","oneblockrev_0017","contigwithgaps_0133","nocontigs_0364","threeblocks_0234","threeblocksinversion_0034" +"marT_1","","putative transcriptional regulator MarT","9","9","1","11","5849","","","",,,,"oneblock_0036","oneblockrev_0015","contigwithgaps_0141","nocontigs_0386","threeblocks_0236","threeblocksinversion_0036" +"nepI","","inner membrane transport protein","9","9","1","11","5866","","","",,,,"oneblock_0038","oneblockrev_0013","contigwithgaps_0149","nocontigs_0408","threeblocks_0238","threeblocksinversion_0038" +"rffH","","glucose-1-phosphate thymidylyltransferase","9","9","1","11","2778","","","",,,,"oneblock_0015","oneblockrev_0036","contigwithgaps_0057","nocontigs_0155","threeblocks_0115","threeblocksinversion_0026" +"rpoS","","RNA polymerase sigma factor RpoS","9","9","1","11","4905","","","",,,,"oneblock_0028","oneblockrev_0023","contigwithgaps_0109","nocontigs_0298","threeblocks_0128","threeblocksinversion_0013" +"SBOV29371","","putative cytoplasmic protein","9","9","1","11","4890","","","",,,,"oneblock_0027","oneblockrev_0024","contigwithgaps_0105","nocontigs_0287","threeblocks_0127","threeblocksinversion_0014" +"SBOV38871","","integral membrane protein","9","9","1","11","5890","","","",,,,"oneblock_0040","oneblockrev_0011","contigwithgaps_0157","nocontigs_0430","threeblocks_0240","threeblocksinversion_0040" +"SBOV43201","","putative cytoplasmic protein","9","9","1","11","611","","","",,,,"oneblock_0004","oneblockrev_0047","contigwithgaps_0013","nocontigs_0034","threeblocks_0004","threeblocksinversion_0004" +"selA_1","","transferase","9","9","1","11","5858","","","",,,,"oneblock_0037","oneblockrev_0014","contigwithgaps_0145","nocontigs_0397","threeblocks_0237","threeblocksinversion_0037" +"speC_3","","Ornithine decarboxylase inducible","9","9","1","11","4201","","","",,,,"oneblock_0024","oneblockrev_0027","contigwithgaps_0093","nocontigs_0254","threeblocks_0124","threeblocksinversion_0017" +"sptP","sptx","pathogenicity island 1 effector protein StpP","9","9","1","11","4859","","","",,,,"oneblock_0026","oneblockrev_0025","contigwithgaps_0101","nocontigs_0276","threeblocks_0126","threeblocksinversion_0015" +"srgB","","putative outer membrane protein","9","9","1","11","1678","","","",,,,"oneblock_0010","oneblockrev_0041","contigwithgaps_0037","nocontigs_0100","threeblocks_0010","threeblocksinversion_0010" +"stp","","export protein","9","9","1","11","1037","","","",,,,"oneblock_0006","oneblockrev_0045","contigwithgaps_0021","nocontigs_0056","threeblocks_0006","threeblocksinversion_0006" +"STY3593","","putative regulatory protein","9","9","1","11","2820","","","",,,,"oneblock_0018","oneblockrev_0033","contigwithgaps_0069","nocontigs_0188","threeblocks_0118","threeblocksinversion_0023" +"STY4162","","putative membrane protein","9","9","1","11","5712","","","",,,,"oneblock_0032","oneblockrev_0019","contigwithgaps_0125","nocontigs_0342","threeblocks_0232","threeblocksinversion_0032" +"tmcA","","methionine tRNA cytidine acetyltransferase","9","9","1","11","2199","","","",,,,"oneblock_0013","oneblockrev_0038","contigwithgaps_0049","nocontigs_0133","threeblocks_0113","threeblocksinversion_0028" +"tub","","permease","9","9","1","11","2418","","","",,,,"oneblock_0014","oneblockrev_0037","contigwithgaps_0053","nocontigs_0144","threeblocks_0114","threeblocksinversion_0027" +"yadA","","membrane protein","9","9","1","11","5768","","","",,,,"oneblock_0033","oneblockrev_0018","contigwithgaps_0129","nocontigs_0353","threeblocks_0233","threeblocksinversion_0033" +"ybbW_1","","allantoin permease","9","9","1","11","4372","","","",,,,"oneblock_0025","oneblockrev_0026","contigwithgaps_0097","nocontigs_0265","threeblocks_0125","threeblocksinversion_0016" +"yhaO_2","","membrane protein","9","9","1","11","5310","","","",,,,"oneblock_0030","oneblockrev_0021","contigwithgaps_0117","nocontigs_0320","threeblocks_0130","threeblocksinversion_0011" +"yicJ_1","","sodium:galactoside symporter","9","9","1","11","6117","","","",,,,"oneblock_0046","oneblockrev_0005","contigwithgaps_0181","nocontigs_0496","threeblocks_0246","threeblocksinversion_0046" +"yigZ","","protein co-occurring with transport systems","9","9","1","11","2838","","","",,,,"oneblock_0020","oneblockrev_0031","contigwithgaps_0077","nocontigs_0210","threeblocks_0120","threeblocksinversion_0021" +, \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/kraken_report.txt Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ + 0.39 86 86 U 0 unclassified + 99.61 21911 0 - 1 root + 99.61 21911 0 - 131567 cellular organisms + 99.61 21911 3 D 2 Bacteria + 99.60 21908 1 P 1224 Proteobacteria + 99.59 21907 9 C 28211 Alphaproteobacteria + 99.55 21898 11 O 356 Rhizobiales + 99.50 21887 25 F 118882 Brucellaceae + 99.39 21862 20467 G 234 Brucella + 6.28 1381 1349 S 120577 Brucella ceti + 0.10 21 21 - 1423891 Brucella ceti TE10759-12 + 0.05 11 11 - 1407053 Brucella ceti TE28753-12 + 0.04 9 0 S 120576 Brucella pinnipedialis + 0.04 9 9 - 520461 Brucella pinnipedialis B2/94 + 0.01 3 0 S 444163 Brucella microti + 0.01 3 3 - 568815 Brucella microti CCM 4915 + 0.00 1 0 S 236 Brucella ovis + 0.00 1 1 - 444178 Brucella ovis ATCC 25840 + 0.00 1 1 S 29461 Brucella suis \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/kraken_test/taxonomy/names.dmp Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,77 @@ +1 | all | | synonym | +1 | root | | scientific name | +2 | Bacteria | Bacteria <prokaryote> | scientific name | +2 | Monera | Monera <Bacteria> | in-part | +2 | Procaryotae | Procaryotae <Bacteria> | in-part | +2 | Prokaryota | Prokaryota <Bacteria> | in-part | +2 | Prokaryotae | Prokaryotae <Bacteria> | in-part | +2 | bacteria | bacteria <blast2> | blast name | +2 | eubacteria | | genbank common name | +2 | not Bacteria Haeckel 1894 | | synonym | +2 | prokaryote | prokaryote <Bacteria> | in-part | +2 | prokaryotes | prokaryotes <Bacteria> | in-part | +1239 | Bacillus/Clostridium group | | synonym | +1239 | Clostridium group firmicutes | | synonym | +1239 | Firmacutes | | synonym | +1239 | Firmicutes | | scientific name | +1239 | Firmicutes corrig. Gibbons and Murray 1978 | | authority | +1239 | Gram positive bacteria | | misspelling | +1239 | Gram-positive bacteria | | genbank common name | +1239 | Low G+C firmicutes | | synonym | +1239 | clostridial firmicutes | | synonym | +1239 | firmicutes | firmicutes <blast1239> | blast name | +1239 | low G+C Gram-positive bacteria | | common name | +1239 | low GC Gram+ | low GC gram-positives<blast31968> | common name | +1279 | "Aurococcus" Winslow and Rogers 1906 | | authority | +1279 | Aurococcus | | synonym | +1279 | Staphylococcus | | scientific name | +1279 | Staphylococcus Rosenbach 1884 | | authority | +1280 | "Micrococcus aureus" (Rosenbach 1884) Zopf 1885 | | authority | +1280 | "Micrococcus pyogenes" Lehmann and Neumann 1896 | | authority | +1280 | "Staphlococcus pyogenes citreus" Passet 1885 | | authority | +1280 | "Staphylococcus pyogenes aureus" Rosenbach 1884 | | authority | +1280 | ATCC 12600 | | type material | +1280 | ATCC 12600-U | | type material | +1280 | CCM 885 | | type material | +1280 | CCUG 1800 | | type material | +1280 | CIP 65.8 | | type material | +1280 | DSM 20231 | | type material | +1280 | HAMBI 66 | | type material | +1280 | JCM 20624 | | type material | +1280 | Micrococcus aureus | | synonym | +1280 | Micrococcus pyogenes | | synonym | +1280 | NBRC 100910 | | type material | +1280 | NCAIM B.01065 | | type material | +1280 | NCCB 72047 | | type material | +1280 | NCTC 8532 | | type material | +1280 | Staphilococcus aureus | | misspelling | +1280 | Staphlococcus pyogenes citreus | | synonym | +1280 | Staphylococcus aureus | | scientific name | +1280 | Staphylococcus aureus Rosenbach 1884 | | authority | +1280 | Staphylococcus pyogenes aureus | | synonym | +1280 | Staphylococus aureus | | misspelling | +1280 | Streptococcus aureus | | misnomer | +1385 | Bacillales | | scientific name | +1385 | Bacillales Prevot 1953 | | authority | +1385 | Bacillus/Staphylococcus group | | synonym | +46170 | Staphylococcus aureus aureus | | equivalent name | +46170 | Staphylococcus aureus subsp. aureus | | scientific name | +46170 | Staphylococcus aureus subsp. aureus Rosenbach 1884 | | authority | +90964 | Staphylococcaceae | | scientific name | +90964 | Staphylococcaceae Schleifer and Bell 2010 | | authority | +90964 | Staphylococceae | | includes | +90964 | Staphylococceae Prevot 1940 | | includes | +90964 | Staphylococcus group | | synonym | +91061 | Bacilli | | scientific name | +91061 | Bacilli Ludwig et al. 2010 | | authority | +91061 | Bacillus/Lactobacillus/Streptococcus group | | synonym | +91061 | Firmibacteria | | synonym | +91061 | Firmibacteria Murray 1988 | | authority | +131567 | biota | | synonym | +131567 | cellular organisms | | scientific name | +663951 | Staphylococcus aureus subsp. aureus 0528 | | misspelling | +663951 | Staphylococcus aureus subsp. aureus 0582 | | synonym | +663951 | Staphylococcus aureus subsp. aureus TW20 | | scientific name | +663951 | Staphylococcus aureus subsp. aureus str. TW20 | | equivalent name | +663951 | Staphylococcus aureus subsp. aureus strain TW20 | | equivalent name | +2000000000 | Staphylococcus aureus | | scientific name |
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/kraken_test/taxonomy/nodes.dmp Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,12 @@ +1 | 1 | no rank | | 8 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | | +2 | 131567 | superkingdom | | 0 | 0 | 11 | 0 | 0 | 0 | 0 | 0 | | +1239 | 2 | phylum | | 0 | 1 | 11 | 1 | 0 | 1 | 0 | 0 | | +1279 | 90964 | genus | | 0 | 1 | 11 | 1 | 0 | 1 | 0 | 0 | | +1280 | 1279 | species | SA | 0 | 1 | 11 | 1 | 0 | 1 | 1 | 0 | | +1385 | 91061 | order | | 0 | 1 | 11 | 1 | 0 | 1 | 0 | 0 | | +46170 | 1280 | subspecies | SA | 0 | 1 | 11 | 1 | 0 | 1 | 1 | 0 | | +90964 | 1385 | family | | 0 | 1 | 11 | 1 | 0 | 1 | 1 | 0 | | +91061 | 1239 | class | | 0 | 1 | 11 | 1 | 0 | 1 | 0 | 0 | | +131567 | 1 | no rank | | 8 | 1 | 1 | 1 | 0 | 1 | 1 | 0 | | +663951 | 46170 | no rank | | 0 | 1 | 11 | 1 | 0 | 1 | 1 | 0 | | +2000000000 | 663951 | no rank | HI | 9 | 1 | 1 | 1 | 0 | 1 | 1 | 0 | |
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/large_accessory_binary_genes.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,94 @@ +>4976_2#9 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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/locus_tag_gffs/query_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 gene=different;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=abc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=abc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=abc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=abc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11820 . - 0 inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=abc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=abc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/locus_tag_gffs/query_1.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,65 @@ +>abc_00001 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00003 +MTELNNIINSLQSLFESESGYKISKNSGVPYQTVQDLRNGKTKLEDARFRTIIKLYSYYV +SLKEH* +>abc_00004 +MSKNITKNIILTTTLLLLGTVLPQNQKPVFSFYSEAKAYSIGQDETNINELIKYYTQPHF +SFSNKWLYQYDNGNIYVELKRYSWSAHISLWGAESWGNINQLKDRYVDVFGLKDKDTDQL +WWSYRETFTGGVTPAAKPSDKTYNLFVQYKDKLQTIIGAHKIYQGNKPVLTLKEIDFRAR +EALIKNKILYTENRNKGKLKITGGGNNYTIDLSKRLHSDLANVYVKNPNKITVDVLFD* +>abc_00005 +MNNNITKKIILSTTLLLLGTAFTQFPNTPINSSSEAKAYYINQNETNVNELTKYYSQKYL +TFSNSTLWQKDNGTIHATLLQFSWYSHIQVYGPESWGNINQLRNKSVDIFGIKDQETIDS +FALSQETFTGGVTPAATSNDKHYKLNVTYKDKAETFTGGFPVYEGNKPVLTLKELDFRIR +QTLIKSKKLYNNSYNKGQIKITGTDNNYTIDLSKRLPSTDANRYVKKPQNAKIEVILEKS +N* +>abc_00006 +MKKNIMNKLVLSTALLLLGTTSTQLPKTPISFSSEAKAYNISENETNINELIKYYTQPHF +SLSGKWLWQKPNGSIHATLQTWVWYSHIQVFGSESWGNINQLRNKYVDIFGTKDEDTVEG +YWTYDETFTGGVTPAATSSDKPYRLFLKYSDKQQTIIGGHEFYKGNKPVLTLKELDFRIR +QTLIKNKKLYNGEFNKGQIKITADGNNYTIDLSKKLKLTDTNRYVKNPKNAQIEVILEKS +N* +>abc_00007 +MKNLRNRSFLTLLDFSRQEVEFLLTLSEDLKRAKYIGTEKPMLKNKNIALLFEKDSTRTR +CAFEVAAHDQGANVTYLGPTGSQMGKKETTKDTARVLGGMYDGIEYRGFSQRTVETLAEN +SGVPVWNGLTDEDHPTQVLADFLTAKEVLKKDYADINFTYVGDGRNNVANALMQGAAIMG +MNFHLVCPKELNPTDELLNRCKNIAAENGGNILITDDIDQGVKGSDVIYTDVWVSMGEPD +EVWKERLELLKPYQVNKEMMDKTGNPNVIFEHCLPSFHNADTKIGQQIFEKYGIREMEVT +DEVFESKASVVFQEAENRMHTIKAVMVATLGEF* +>abc_00008 +MMAKIVVALGGNALGKSPQEQLELVKNTAKSLVGLITKGHEIVISHGNGPQVGSINLGLN +YAAEHNQGPAFPFAECGAMSQAYIGYQLQESLQNELHSIGMDKQVVTLVTQVEVDENDPA +FNNPSKPIGLFYNKEEAEQIQKEKGFIFVEDAGRGYRRVVPSPQPISIIELESIKTLIKN +DTLVIAAGGGGIPVIREQHDGFKGIDAVIDKDKTSALLGANIQCDQLIILTAIDYVYINF +NTENQQPLKTTNVDELKRYIDENQFAKGSMLPKIEAAISFIENNPKGSVLITSLNELDAA +LEGKVGTVIKK* +>abc_00010 +MTHLTKVLDTLTGICVVLLFSKYFVAYANMVFDWNLRWYLLENIPHLPIILFILMFIFGV +PSEMIKDRQRKNNGV* +>abc_00011 +MRLQKAPLVTSGLVLGLLGLGNLLKDLSLTLNAVCGIFAFLIWIHLLCTMIKYFNNVKEQ +LNSPLVSSVFTTFFMSGFLGTTYLNTFFSNITFINSLITPIWILCLVGIMTHMIIFSIKY +LKDFSLENVYPSWTVLFIGIAIAGLTAPVSGCFFIGQLTVIYGFVATCIVLPIVFKRLKA +FPLQTSIKPNTSTICAPFSLVAAAYVIAFPKANAFIVIIFLILAQIFYFYIIIQLPKLLK +EPFSPVFSAFTFPLVISATALKNSLPVLMFPDIWKGLLFIEVLLATVIVLRVFIGYLHFF +LKKENQDKFLRNASQ* +>abc_00012 +MRNQIQKLLDSDLSSLHISKQTGVPQSTIHRMRKKERSLDNMSLKNAELLYKFANSIFSN +EN* +>abc_00014 +MEGLFNAIKDTVTAAINNDGAKLGTSIVSIVENGVGLLGKLFGF* +>abc_00015 +MTGLAEAIANTVQAAQQHDSVKLGTSIVDIVANGVGLLGKLFGF* +>abc_00016 +LGYKNILIDFDDTIVDFYDAEEWAFHYMANVFNHKATKDDFLTFKKINHQHWEAFQQNKL +TKSEVLSERFVNYFKHHQMEVDGHRADVLFRNGLAEAKVKYFDQTLETIVELSKRHDLYI +VTNGVTETQKRRLNQTPLHKYIKKIFISEETGYQKPNPEFFNYVFNDIGEDERQHSIIVG +DSLTSDILGGINAGIATCWFNFRGFDHNPGIIPDYEINSWKQLNDIVR*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/locus_tag_gffs/query_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag="zzz_00001";product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag="zzz_00002";product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag="zzz_00003";product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag="zzz_00004";product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=zzz_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag="zzz_00006"";product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=zzz_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=zzz_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 inference=COORDINATES:profile:RNAmmer:1.2;locus_tag="zzz_01705";product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag="zzz_00010";product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag="zzz_00011";product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag="zzz_00012";product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11820 . - 0 inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag="zzz_00013";product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag="zzz_00014";product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag="zzz_00015";product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag="zzz_00016";product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/locus_tag_gffs/query_2.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,65 @@ +>zzz_00001 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>zzz_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>zzz_00003 +MTELNNIINSLQSLFESESGYKISKNSGVPYQTVQDLRNGKTKLEDARFRTIIKLYSYYV +SLKEH* +>zzz_00004 +MSKNITKNIILTTTLLLLGTVLPQNQKPVFSFYSEAKAYSIGQDETNINELIKYYTQPHF +SFSNKWLYQYDNGNIYVELKRYSWSAHISLWGAESWGNINQLKDRYVDVFGLKDKDTDQL +WWSYRETFTGGVTPAAKPSDKTYNLFVQYKDKLQTIIGAHKIYQGNKPVLTLKEIDFRAR +EALIKNKILYTENRNKGKLKITGGGNNYTIDLSKRLHSDLANVYVKNPNKITVDVLFD* +>zzz_00005 +MNNNITKKIILSTTLLLLGTAFTQFPNTPINSSSEAKAYYINQNETNVNELTKYYSQKYL +TFSNSTLWQKDNGTIHATLLQFSWYSHIQVYGPESWGNINQLRNKSVDIFGIKDQETIDS +FALSQETFTGGVTPAATSNDKHYKLNVTYKDKAETFTGGFPVYEGNKPVLTLKELDFRIR +QTLIKSKKLYNNSYNKGQIKITGTDNNYTIDLSKRLPSTDANRYVKKPQNAKIEVILEKS +N* +>zzz_00006 +MKKNIMNKLVLSTALLLLGTTSTQLPKTPISFSSEAKAYNISENETNINELIKYYTQPHF +SLSGKWLWQKPNGSIHATLQTWVWYSHIQVFGSESWGNINQLRNKYVDIFGTKDEDTVEG +YWTYDETFTGGVTPAATSSDKPYRLFLKYSDKQQTIIGGHEFYKGNKPVLTLKELDFRIR +QTLIKNKKLYNGEFNKGQIKITADGNNYTIDLSKKLKLTDTNRYVKNPKNAQIEVILEKS +N* +>zzz_00007 +MKNLRNRSFLTLLDFSRQEVEFLLTLSEDLKRAKYIGTEKPMLKNKNIALLFEKDSTRTR +CAFEVAAHDQGANVTYLGPTGSQMGKKETTKDTARVLGGMYDGIEYRGFSQRTVETLAEN +SGVPVWNGLTDEDHPTQVLADFLTAKEVLKKDYADINFTYVGDGRNNVANALMQGAAIMG +MNFHLVCPKELNPTDELLNRCKNIAAENGGNILITDDIDQGVKGSDVIYTDVWVSMGEPD +EVWKERLELLKPYQVNKEMMDKTGNPNVIFEHCLPSFHNADTKIGQQIFEKYGIREMEVT +DEVFESKASVVFQEAENRMHTIKAVMVATLGEF* +>zzz_00008 +MMAKIVVALGGNALGKSPQEQLELVKNTAKSLVGLITKGHEIVISHGNGPQVGSINLGLN +YAAEHNQGPAFPFAECGAMSQAYIGYQLQESLQNELHSIGMDKQVVTLVTQVEVDENDPA +FNNPSKPIGLFYNKEEAEQIQKEKGFIFVEDAGRGYRRVVPSPQPISIIELESIKTLIKN +DTLVIAAGGGGIPVIREQHDGFKGIDAVIDKDKTSALLGANIQCDQLIILTAIDYVYINF +NTENQQPLKTTNVDELKRYIDENQFAKGSMLPKIEAAISFIENNPKGSVLITSLNELDAA +LEGKVGTVIKK* +>zzz_00010 +MTHLTKVLDTLTGICVVLLFSKYFVAYANMVFDWNLRWYLLENIPHLPIILFILMFIFGV +PSEMIKDRQRKNNGV* +>zzz_00011 +MRLQKAPLVTSGLVLGLLGLGNLLKDLSLTLNAVCGIFAFLIWIHLLCTMIKYFNNVKEQ +LNSPLVSSVFTTFFMSGFLGTTYLNTFFSNITFINSLITPIWILCLVGIMTHMIIFSIKY +LKDFSLENVYPSWTVLFIGIAIAGLTAPVSGCFFIGQLTVIYGFVATCIVLPIVFKRLKA +FPLQTSIKPNTSTICAPFSLVAAAYVIAFPKANAFIVIIFLILAQIFYFYIIIQLPKLLK +EPFSPVFSAFTFPLVISATALKNSLPVLMFPDIWKGLLFIEVLLATVIVLRVFIGYLHFF +LKKENQDKFLRNASQ* +>zzz_00012 +MRNQIQKLLDSDLSSLHISKQTGVPQSTIHRMRKKERSLDNMSLKNAELLYKFANSIFSN +EN* +>zzz_00014 +MEGLFNAIKDTVTAAINNDGAKLGTSIVSIVENGVGLLGKLFGF* +>zzz_00015 +MTGLAEAIANTVQAAQQHDSVKLGTSIVDIVANGVGLLGKLFGF* +>zzz_00016 +LGYKNILIDFDDTIVDFYDAEEWAFHYMANVFNHKATKDDFLTFKKINHQHWEAFQQNKL +TKSEVLSERFVNYFKHHQMEVDGHRADVLFRNGLAEAKVKYFDQTLETIVELSKRHDLYI +VTNGVTETQKRRLNQTPLHKYIKKIFISEETGYQKPNPEFFNYVFNDIGEDERQHSIIVG +DSLTSDILGGINAGIATCWFNFRGFDHNPGIIPDYEINSWKQLNDIVR*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/locus_tag_gffs/query_3.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=xxx_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=xxx_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=xxx_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=xxx_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=xxx_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=xxx_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=xxx_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=xxx_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=xxx_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=xxx_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=xxx_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=xxx_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11820 . - 0 inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=xxx_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=xxx_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=xxx_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=xxx_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/locus_tag_gffs/query_3.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,65 @@ +>xxx_00001 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>xxx_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>xxx_00003 +MTELNNIINSLQSLFESESGYKISKNSGVPYQTVQDLRNGKTKLEDARFRTIIKLYSYYV +SLKEH* +>xxx_00004 +MSKNITKNIILTTTLLLLGTVLPQNQKPVFSFYSEAKAYSIGQDETNINELIKYYTQPHF +SFSNKWLYQYDNGNIYVELKRYSWSAHISLWGAESWGNINQLKDRYVDVFGLKDKDTDQL +WWSYRETFTGGVTPAAKPSDKTYNLFVQYKDKLQTIIGAHKIYQGNKPVLTLKEIDFRAR +EALIKNKILYTENRNKGKLKITGGGNNYTIDLSKRLHSDLANVYVKNPNKITVDVLFD* +>xxx_00005 +MNNNITKKIILSTTLLLLGTAFTQFPNTPINSSSEAKAYYINQNETNVNELTKYYSQKYL +TFSNSTLWQKDNGTIHATLLQFSWYSHIQVYGPESWGNINQLRNKSVDIFGIKDQETIDS +FALSQETFTGGVTPAATSNDKHYKLNVTYKDKAETFTGGFPVYEGNKPVLTLKELDFRIR +QTLIKSKKLYNNSYNKGQIKITGTDNNYTIDLSKRLPSTDANRYVKKPQNAKIEVILEKS +N* +>xxx_00006 +MKKNIMNKLVLSTALLLLGTTSTQLPKTPISFSSEAKAYNISENETNINELIKYYTQPHF +SLSGKWLWQKPNGSIHATLQTWVWYSHIQVFGSESWGNINQLRNKYVDIFGTKDEDTVEG +YWTYDETFTGGVTPAATSSDKPYRLFLKYSDKQQTIIGGHEFYKGNKPVLTLKELDFRIR +QTLIKNKKLYNGEFNKGQIKITADGNNYTIDLSKKLKLTDTNRYVKNPKNAQIEVILEKS +N* +>xxx_00007 +MKNLRNRSFLTLLDFSRQEVEFLLTLSEDLKRAKYIGTEKPMLKNKNIALLFEKDSTRTR +CAFEVAAHDQGANVTYLGPTGSQMGKKETTKDTARVLGGMYDGIEYRGFSQRTVETLAEN +SGVPVWNGLTDEDHPTQVLADFLTAKEVLKKDYADINFTYVGDGRNNVANALMQGAAIMG +MNFHLVCPKELNPTDELLNRCKNIAAENGGNILITDDIDQGVKGSDVIYTDVWVSMGEPD +EVWKERLELLKPYQVNKEMMDKTGNPNVIFEHCLPSFHNADTKIGQQIFEKYGIREMEVT +DEVFESKASVVFQEAENRMHTIKAVMVATLGEF* +>xxx_00008 +MMAKIVVALGGNALGKSPQEQLELVKNTAKSLVGLITKGHEIVISHGNGPQVGSINLGLN +YAAEHNQGPAFPFAECGAMSQAYIGYQLQESLQNELHSIGMDKQVVTLVTQVEVDENDPA +FNNPSKPIGLFYNKEEAEQIQKEKGFIFVEDAGRGYRRVVPSPQPISIIELESIKTLIKN +DTLVIAAGGGGIPVIREQHDGFKGIDAVIDKDKTSALLGANIQCDQLIILTAIDYVYINF +NTENQQPLKTTNVDELKRYIDENQFAKGSMLPKIEAAISFIENNPKGSVLITSLNELDAA +LEGKVGTVIKK* +>xxx_00010 +MTHLTKVLDTLTGICVVLLFSKYFVAYANMVFDWNLRWYLLENIPHLPIILFILMFIFGV +PSEMIKDRQRKNNGV* +>xxx_00011 +MRLQKAPLVTSGLVLGLLGLGNLLKDLSLTLNAVCGIFAFLIWIHLLCTMIKYFNNVKEQ +LNSPLVSSVFTTFFMSGFLGTTYLNTFFSNITFINSLITPIWILCLVGIMTHMIIFSIKY +LKDFSLENVYPSWTVLFIGIAIAGLTAPVSGCFFIGQLTVIYGFVATCIVLPIVFKRLKA +FPLQTSIKPNTSTICAPFSLVAAAYVIAFPKANAFIVIIFLILAQIFYFYIIIQLPKLLK +EPFSPVFSAFTFPLVISATALKNSLPVLMFPDIWKGLLFIEVLLATVIVLRVFIGYLHFF +LKKENQDKFLRNASQ* +>xxx_00012 +MRNQIQKLLDSDLSSLHISKQTGVPQSTIHRMRKKERSLDNMSLKNAELLYKFANSIFSN +EN* +>xxx_00014 +MEGLFNAIKDTVTAAINNDGAKLGTSIVSIVENGVGLLGKLFGF* +>xxx_00015 +MTGLAEAIANTVQAAQQHDSVKLGTSIVDIVANGVGLLGKLFGF* +>xxx_00016 +LGYKNILIDFDDTIVDFYDAEEWAFHYMANVFNHKATKDDFLTFKKINHQHWEAFQQNKL +TKSEVLSERFVNYFKHHQMEVDGHRADVLFRNGLAEAKVKYFDQTLETIVELSKRHDLYI +VTNGVTETQKRRLNQTPLHKYIKKIFISEETGYQKPNPEFFNYVFNDIGEDERQHSIIVG +DSLTSDILGGINAGIATCWFNFRGFDHNPGIIPDYEINSWKQLNDIVR*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/locus_tag_gffs/query_5.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=3_1;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=ccc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|ccc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID="ccc_50002";inference=ab initio prediction:Prodigal:2.60;locus_tag=ccc_00002;product=hypothetical protein;protein_id=gnl|SC|ccc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=ccc_50003;inference=ab initio prediction:Prodigal:2.60;locus_tag=ccc_00003;product=hypothetical protein;protein_id=gnl|SC|ccc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=ccc_50004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=ccc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|ccc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=3_2;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=ccc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|ccc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 ID="ccc_50006";inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=ccc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|ccc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 ID=3_3;eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=ccc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|ccc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 ID=ccc_50008;eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=ccc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|ccc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 ID=ccc_51705;inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=ccc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 ID=ccc_50010;inference=ab initio prediction:Prodigal:2.60;locus_tag=ccc_00010;product=hypothetical protein;protein_id=gnl|SC|ccc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 ID=ccc_50011;inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=ccc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|ccc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 ID=ccc_50012;inference=ab initio prediction:Prodigal:2.60;locus_tag=ccc_00012;product=hypothetical protein;protein_id=gnl|SC|ccc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11878 . - 0 ID=ccc_50013;inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=ccc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 ID=ccc_50014;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=ccc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|ccc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 ID="ccc_50015";inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=ccc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|ccc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 ID=3_5;eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=ccc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|ccc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATTTTAAAAACTCCCCAAGCTGTAATTTAAGGGGGTTCTTTAAATTAT +ATACCCACCACATTTTTTGGAGAACCCCAAACTAGCCGAAAAGGGGCATTTCTGAAGTTA +ACGGCTAAAGTTATTTTTTATATTTCCCTGTCCATGAACAAAGGGGTTACATTAATTTGT +AATTTCTTCTTTTTTTTAATCGATTCCCTATCTTTCTGAAGAGGGGTCTGTCCATTTATC +ATTAGTATTGGTACTTTTCCAATTTCCCGAACTCCAATGCAAGGGGTAGTCATCACGAAC +ACGTTCGTATATTATTTCTATATTTCCCTGTCGTTTGGATGCGGGGCTATCCATAGTAAT +AACTGTAGCGAAGTTTTGTGAAAACCCCGAACATAATAGAGAGGGGGCTTTGTTAGGATC +AAGGAAGTTCTCTGTTTCTTTCATACCCCCACTTCTAGTTTTGGGGAAAAGTTGATTGCC +ATATACCGGGTTCCTTTAATCTCTACCCTATCGTCCCCAATTGGGGTTCACCATATTGTT +AAATATCACTTTCCTTTCTACTTTTCCCTCACTTGGGCTCTCGGGGATTGTTTTGAAATC +AGGTTGAACATATTTTTGTGTATGACCCATCCAAACATTTGCGGGGATAAGGCCGCCAAT +ATTTCCTGTATCATTTTCAGTAACACCCCCGCTGAATCCATAGGGGAAAGTACTCATATA +ATCTTTTGTATCAATTTAATTTCTTCCCTAGCAATCAGATATGGGGGCTACTTCATTATC +AGGTAGTTGCAACTTTTCCTTAAAGCCCGAACGCCAGGCTAAGGGGCTTTTGTTAGCACC +ATCTTCGCTATAAATTTTATATTGACCCGCACTGGTACCTTTGGGGCTAATAACTAGCAG +ATTTTTATTGTGATTTTTATCATCGCCCAAACTATAAAATACGGGGTTGTGCATGCCATT +ATCTTTATCATAAGTTTCTAAATCACCCGTTCTTACTGTAGTGGGGCTTCCAATATCTGT +AGTACCGGTTTTAATTTTAATATCACCCTCTCCGGCATTAGCGGGGGGATTCATTAATAT +AGAACCTAGCAATATTTTTGTTGTTCCCGAGCTGACTATACGGGGGTTCATTTTCATCAT +ACTTCTATTTTTTTTTTCGATTTGACCCAACCATAATCAATAGGGGAATTTAGAATATTG +AAGTTGAGACATATTTTATATTTATCCCCGTCTATATTAGTAGGGGTAATGTAGCAACTG +ATAAATTACTGAGTTTTGATGAGTGCCCATTCTAAGAATATGGGGGTAACTTTTATTTAA +AATTTGAAAGGAAGTTTTTCAATTTCCCGGGCTAGTCAAAGTGGGGTAAATTCTTTATGA +AACAAGGAAAAGACTTTGCTAATTTCCCTGACTAATTTCTTTGGGGCTAATGATTTGTTT +AATTTAAAAATGTATTTGATTACAACCCAAACATACAAATATGGGGGAATTAAATCAATT +AATTAACTATTAAATTTAAATTAAACCCATACTAACTACTGTGGGGTAATAAATAGAAAT +AGAGAAAAAGGGTATTTATTATGTTCCCAATCTCGTCGGGAAGGGGTTTTGCCATTACAT +AGAAATATCTAATATTTAATGAAAACCCATCCTATGTATTTTGGGGATAGTGTAAAATAT +AATATGTAAAATAATTTGTAGATTTCCCGTTCGAGGCATTATGGGGAAATTTTGAGTATA +AGTTAGCTTTTAATTTTGAATCTTACCCAAACTTGATTAATAGGGGTATGATAGGGGATT +AAAATGAAACTATTTTTTATCGTATCCCTTACTATTATATGGGGGGATATATTTTTAGGA +AATGAAATTATCCATTTACTGACTGCCCTAACAACAACATTGGGGGTTGTTAATTCAAGA +AAGGGGATTAAAAATTTCAGAGTTGCCCAATCTTATAAACTCGGGGCAATCTTTGTTTGA +ATCTGAATCAGGCTTTTAAATTTCGCCCAATCCAGGAGTTCCGGGGCAAACAGTACAAGA +ATTAAGAAATGGGATTTCCAAACTACCCGATCCTAGATTTAGGGGGATTATTAAACTTTA +AAGTTACTATGTCTTTTTAAAAGAACCCTAACCATGGGACAAGGGGGTATTGCTATAATA +ATTGAATCATTAAATTTAGGAATAGCCCCTACGACATAATAAGGGGATGTCTTAGGCTCT +ACAATATTATATTGTTTGTAGTTGACCCAATCAAAATGACCAGGGGACAAGCATTTTTGG +AGCCCCAACACAGATTTTGACGAAACCCCAGCTTACAATAATGGGGAAGTTGGGGATGGG +ACCCAACACAGAGATTTTCAAAAAGCCCTTCCACAGACAATGGGGGTTGGCGGGGCCCCA +ACATAGAGAAATTCTTTAAGAAATTCCCCAGCCAATGCAAGTGGGGGAGTGACAACGAAA +AAAATTTTATAAAATTTCATTTCTGCCCCATCCCTACTCCCAGGGGCATTTAAATATATA +AAAAATTTCACCTATTTTATACATCCCCCACCTTAAAAATTAGGGGTTAAATAATCTGAT +ATGGAATTAAAGTGTTTGAAGTATACCCCACCTTCATATACTGGGGAAAGAGGACGTCAA +AAGTTATTTTATTATTTTTTTTAACCCCAACCTTTGCTAGATGGGGATGTAATCTTTTGC +ATAAATCAATAGTGTTTTTATTACCCCCACCCGTGATCTTAAGGGGACCTTTATTACGAT +ATTCGGTATATAATTTTTTATTTTTCCCTAACGCTTCTCGTGGGGGGAAATCGATTTCTT +ACAATGTTAATACTTTTTTATTGCCCCCGTACATTTTATGCGGGGGAATAATCGTTTGTA +ATTTATCTTTGTATTTTACAAAAAGCCCATACGTTTTATCAGGGGGTTTTGCGGCTGGTG +AAACGCCACCTGTATTTGTCTCTCTCCCAGACCACCATAACTGGGGAGTATCTTTGTCTT +ATAGTCCAAACACATTTACGTAACGCCCTTTCAACTGATTAAGGGGTCCCCAACTTTCAG +AGCCCCATAAAGATTTTTGTGCTGACCCTGACTATCTCTTAAGGGGAACATAAATGTTTC +AATTATCATATTGATTTAGCCATTTCCCTGACAATGAAAAATGGGGCTGTGTGTAATATT +AAATTAATTCATTGTTTTTAGTTTCCCCTTGCCCAATGCTATGGGGTTTAGCTTCAGAGT +AAAAACTAAATACTTTTTTTTGATTCCCAGGCAATACAGTACGGGGTAGTAATAATGTTG +ACGTTAAAATTATATTTTTCGTGATCCCCTTCCTCATTAGAAGGGGTCCTTTCAGAGGAA +ACATGATACGAGGATTTAGAAATTTCCCTGTCAGCGAAGTCAGGGGAGTATTTGCGATTA +ATTTTATTAACTCCTTTATTATTGTCCCTTTCATTTTTCGAGGGGGACTTCAATTTTTGC +ATTTTGAGGTTTTTTTTCATATCTACCCGCACCAGTTGATGGGGGGCTTTTACTTAAATC +AATTGTGTAGTTATTTTCTGTACCTCCCATTCTAATTTGTCCGGGGTTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATCCCTGACGAATACGAAAGGGGAATTCTTTTAAAGT +AAAAACAGGCTTATTTTCTTCATAACCCGGACATCCGCCAGTGGGGGTTTCTGCTTTATC +ATTATATGTTACATTTTGTTTATAGCCCTTACCGTTAGATGTGGGGGCAGGAGTAACACC +ACCAGTAAACGTTTTTTGAGATAATCCCAAACAATCAATGGTGGGGTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTCCCTGGCTGATATTGCCGGGGCTTTCAGGTCCATA +AACTTGAATATGACTTTACCAAGAACCCTGTCACAACGTTGCGGGGATCGTACCGTTATC +ATTTTGCCATAACGTTTTGTTAGAGCCCGTTCAATATTTTTGGGGGTAATATTTAGTTAA +ATCATTAACGTTAGTTTCGTTTTGACCCATACAATAAGCTTTGGGGTCAGATGAAGAATT +AATAGGTGTATTAGTTTATTGTGTACCCGCTCTACCTAATAGGGGGAATGTTGTTGATAA +AATAATTTTTTTCGTTTTGTTATTGCCCATTCGAATTTCTCCGGGGAGTATTGTTGGAAT +ATTTAATTATAAAATTTGGTTAATTCCCTAACTGAAATTATCGGGGTTTACAAAAGGTAA +AAGGTTAGTTAGATTTTTCGAGTATCCCTTCCATTTGTGCATGGGGAGGATTTTTAACAT +AACGGTTTGTGTCATTTAATTTTAACCCTTTCCTTAAATCAAGGGGGTAATTATTTCCAT +AAGCAGTTATCTTATTTTGACCTTTCCCAAACTCTCCGTTATGGGGCTTTTTATTCTTTA +ATAATGTTTGACGATTTCGGAAATCCCCTTCCTTTAAAGTTAGGGGTGGTTTATTTCCTT +AGTAAAATTCATGTTTTCCGATGATCCCTTGCTGTTTATCACGGGGTTTTAAAAATAGTC +AATAAGGTTTATCATTTGAAGTAGCCCCTGGCGTAACACCACGGGGAAATGTTTCATCAT +AAGTCCAGTAACCTTTTACTGTGTCCCCATCCTTAGTTCCAAGGGGATCAACGTATTTAT +ATCTTAACTGATTATTTTTTCCCCACCCCTCCGATCCAAACAGGGGAATATGACTATACC +AAACCCACGTTTGCTTTGTTGCATGCCCGCTCCCATTGGGCTGGGGCCATAGCCATTTTC +AAGATAATGAAAAATTTGGCTGAGTCCCATACTTGATTAACTGGGGGATATTAGTCTCGT +ATTCACTGATATTATTTGCTTTTGCCCCAGACGAAAAACTGAGGGGTGTTTTAGGAAGTT +ATGTTGATGTGGTTTTTAAAAGTAACCCTGCCGTTGATAAAAGGGGTTTATTCATGATGT +ACTTTTTCATATGATTTTCTCCTTTCCCTGACTTACCCAAAGGGGGTAAGCTATTACACC +AATTCGGAATTAAATTTAAGCTAAACCCATGCTAAATAAACTGGGGCAGTTAGTAGTGTT +ATTTAAGCAAAACTTTTCATTTTTACCCTTTCGACAGAAACAGGGGTTAATAAAGTAGGC +AGGAGTTATATATTTTTAACGACACCCCACACTTATTCTCTAGGGGATTGCATTAAATTG +ATTGATAATTGAATTTTCTAACTACCCCAAACATAGTTATACGGGGAATGTAGTACTTAT +ATTAATTATTTCCTTTTACTTAAATCCCATACTAATAAAATGGGGGTTTAATTATTGATA +AAATATTACAAATTTTTATAGTAGGCCCTGTCTATTTTGTATGGGGTTACAATTTAGGTG +AAACTAAAATAAAATTTGTTGTTATCCCTGACAAATTTACGAGGGGGAAGTTTTTTAACT +ATATTAGACTTTTCTTTACAAGAGGCCCAATCCTTATTAACAGGGGCCGAGGATTTAAAA +AGTGCTAAATATATTTTCACTGAAACCCCTACGTTAAAAAATGGGGATATTGCACTGTTA +ATTGAAAAAGATTCTTTAAGAACGCCCCGTGCATTTGAAGTTGGGGCGCATGATCAAGGT +ACAAATGTAACTTATTTAGGCCCAACCCGATCACAAATGGGTGGGGAAGAAACAACTAAA +AATACTGCACGTGTTTTTGGTGGAACCCATGCTGGCATTGAAGGGGGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAACCCCAGCCGTACCAGTGGGGGATGGTTTAACTGAT +AAAGATCATCCTACTTTAGTTCTTGCCCATTCCTTAACAGCAGGGGAAGTCTTAAAAAAA +AATTATGCAGATATTTTCTTTACATCCCTTGCAGATGGTCGTGGGGACGTTGCAAATGCA +ATAATGCAAGGTGCTTTCATTATGGCCCTGACCTTCCATTTAGGGGGTCCAAAAGAATTA +AATCCAACAGATGATTTATTAAATCCCCGTACAAATATTGCCGGGGAAAATGGTGGCAAC +ATATTAATCACAGATTTTATTGACCCCCGTGCAAAAGGTTCGGGGGTAATTTACACTGAT +ATTTGGGTATCAATTTTTGAACCTGCCCAAGCATGGAAAGAAGGGGTTGAATTATTGAAA +ACATATCAAGTAAATTTAGAAATGACCCATACAACTGGTAATGGGGATGTTATTTTTGAG +AATTGCTTACCATCTTTCCATAATGCCCATACGAAAATTGGTGGGGAAATTTTTGAAAAA +AATGGTATTCGAGATTTGGAAGTTACCCATGCAGTATTCGAAGGGGAAGCTTCAGTTGTA +ATCCAAGAAGCTGATTTCAGAATGCCCCCAACCAAAGCAGTCGGGGTTGCTACATTGGGT +AAATTTTAAATGATTTTAGGAAGTGCCCATGCTGGCGAAAATGGGGGTAGCATTAGGTGG +AAATGCTTTAGGAATTTCACCTCAACCCCAACTCGAGCTTGTGGGGAATACTGCGAAATC +ATTAGTAGGATTAATTTCAAAAGGACCCGAGCTTGTTATTAGGGGGGGTAATGGACCACA +AGTTGGAAGCATTATTTTGGGACTTCCCTATCCTGCAGAACAGGGGCAAGGTCCGGCATT +ACCATTTGCTGAATTTTGCGCAATGCCCCAACCTTACATCGGGGGGCAATTACAAGAAAG +ATTACAAAATGAATTTTATTCTATTCCCATGCATAAACAAGTGGGGACACTAGTGACACA +AGTTGAAGTTGATGTTTATGATCCGCCCTTTCACAATCCTTCGGGGCCAATTGGGTTATT +ATACAACAAAGAAGTTTCTGAACAACCCCAACAAGAAAAAGGGGGGATATTTGTTGAAGA +AGCTGGAAGAGGATTTTGACGCGTTCCCCCTCCACCACAACCGGGGTCTATTATTGAATT +AGAGAGTATTAAAATTTTTATTAAACCCGATCCACTCGTTATGGGGGCTGGTGGTGGAGG +AATACCAGTAATTATTTAGCAACATCCCGGTCTTAAAGGTATGGGGGCAGTTATAGACAA +AGATAAAACAAGTGTTTTGTTGGGTCCCAATCTTCAATGCGAGGGGTTGATTATTTTAAC +AGCAATTGATTATGTTTATATTAATCCCAACCCTGAAAACCAGGGGCCTTTGAAAACAAC +AAATGTTGATGAATTTTAACGATATCCCGACCAAAATCAATTGGGGAAAGGAAGTATGTT +ACCAAAAATTGAAGTTTCCATATCACCCATTCAAAACAATCCGGGGGGAAGTGTGCTTAT +AACATCATTAAATGTTTTAGATGCTCCCTTACAGGGTAAAGTGGGGACTGTGATTAAAAA +ATAATTGAATTGAATTTCTTTTCAACCCCTACATGTCAAATGGGGGATTTTTATTATTTA +AGTGCACCCCCTGATTTTAATGCCTCCCTTTCGATGCGGGGTGGGGTTTCTTAATTTATA +ATTATAAAATCTTTTTTGTAGAAATCCCAGGCTAAATGTCGAGGGGGATGAAACCGTGGA +AAATACAATTAATGTTTGTGAAAAGCCCAAACGATTTAAATTGGGGATGCCAGGTGCATT +AATGATTTTATTCATTTTAACGGTTCCCGCACTTATAGCAACGGGGGTTATTCCTGCTGG +AGCATATTCTAAACTTTCTTACGAACCCTCACCCCAAGAACTGGGGATAGTTAACCCTCA +AAACCAAGTGAAAATTTTTCCGGGTCCCCAACAGGAACTAGAGGGGATGGGGGTTAAAAT +AAAGATTGAACAATTTTAATCAGGTCCCATTCATAAGCCAGTGGGGATTCCGAATACTTA +AGAAAGATTAAAGCTTTATCCAGCTCCCCCACAACAAATAACGGGGAGCATGGTTGAAGG +AACGATAGAAGCGGTTTATATCATGCCCTTCCTTCTTGTACTGGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGTTTCTTTTGAACCCGGACTGTTAGCTTTGGGGAAGAAAACAAAAGG +ACATGAATTTATGCTTTTTGTGTTTCCCTCACTACTAATGATGGGGGGCGGGACGTTATG +AGGTATTGAAGAAGTTTCTGTAGCACCCTATCCGATTTTAGTGGGGATATTTATAGCGTT +AGGATACGATTCTATTTTTTCAGTTCCCGCCCTATTCCTTGCGGGGTCTGTCGGTAGTAC +ATTTTCAACTATTATTTCGTTCTCGCCCGTACTTGCCTCTAAGGGGGCTGGTACAACTTT +AACGGATGGCTTGTTTTGGAGAATACCCGCTCGTATTGTCGGGGGGATTTTTGTTATTAG +ATATTTATATTGGTTTTGTAAAAAACCCAAACACGATCCTAAGGGGTCATATTCTTATGA +AGACAAAGATGCTTTTTAACAGCAACCCTCTCTATTAAAAGAGGGGGATAGTGCCCATTT +AACTTTGCGTAAGATTTTAATCCTTCCCTTACTTGTACTACCGGGGCCAATTATGGTATG +AGGAGTTATGACGCTTTGTTGGTGGCCCCCACTTATGGCTTCGGGGTTTTTAATATTTAC +AATTATAATAATGTTTTTTGCTGGGCCCGGTCAATCTGGATTGGGGGAAAAAGGAACTGT +AGATGCATTTGTCATTTGTGCATCACCCTTACTAGGTGTATCGGGGATTATTGGTTTAGC +ACGAGGTATTAATTTTTTGTTGAATCCCGGTCTGATTTCAGAGGGGATCTTACACTTTTC +ATCATCTTTAGTTCTTTATATGAGTCCCCCACTATTTATCATGGGGTTACTATTTATTTT +ATTCTGTTTAGGTTTTTTCGTGCCACCCTCTCCTGGATTAGCGGGGTTATCAATGCCTAT +ATTTGCACCACTAGTTTATACAGTACCCATACCAAGATTCGTGGGGGTTACGACATATCA +ATTTGGTCAATATGTTTTGTTATTCCCCGCGCCGACTGGACTGGGGATGGCCACACTACA +AATGTTAAACATGCTTTATTCACATCCCTTCCGATTTGTATGGGGGGTAGTTGCTTTTGT +ATTGATTTTCGGTGTTTGAGTACTACCCACGCAAGTACTAATGGGGTCATAATTTGAAAT +ACTATATTATAAAATTTCTAATTGGCCCTTACGCATCTCGTAGGGGTGTAGAAATACTAA +ACTAAGCGAGGTGCTTTATTATTTTCCCTTACGAAAATAATGGGGGTAATGATAACACTA +ATAAGTAATTGATATTTTGCTCTATCCCATACTGATATTTTTGGGGTTTGTTTTTAATGT +AATGTTAGATCTATTTTATATTATACCCATCCTGGTAAATATGGGGTTGCTGTAAACAGT +ATTTGTAACACATGTTTCATATGGTCCCGAACATAGCATATAGGGGGGATGGCTATAAAT +AACACATTTGACAATTTTTTTAGATCCCCTACCTGGAATATGGGGGGTATTATTATTTAG +AAAATATTTTGTGGTTTATGCAAATCCCGTGCTTGATTGGAAGGGGAGATGGTATTTGCT +AGAAAACATACCACTTTTGCCAATTCCCTTACTTATTCTGATGGGGATTTTCGGAGTACC +ATCTGAAATGATAATTTATAGGCAACCCAAACATAACGGTGTGGGGTTTATCGATATTTA +AAGGTGATAAAATTTTTCAACTATTCCCAAGCCTAAAATAAAGGGGTTTATTAATTATTT +AATTGGTATATTAGTTTTGGCGTTTCCCGCTCATATATTATTGGGGTAAAGGTTAGAGTG +AAACGTGTTTATGATTTAGACGTTCCCCTATCGTTACTACAGGGGGAGTCAGAAGGTATC +ATTGATAAGATCATTTTAAATCAAACCCGCACTGATATACACGGGGAAGAGGCAAGATTA +ACTGCCTCTTTTTTTTTTATTAAATCCCCGTCTTAATTCTTGGGGGTAGTGTTACTGAGA +AGCATTACGAAGAATTTTATCTTGACCCTCCCTTTTTAAAAAGGGGTGAAGATATCCTAT +AAAGACTCTAAGTATTTTTACAGTGCCCAATCACACTTCGATGGGGAAAAGACCTTTCCA +AATATCTGGAAACATTTGTACAGGCCCCCTGCTCTTTAAAGCGGGGGCTGAGATTACTAA +AGGGAATGTGAAAGTTTAAAATACGCCCGAACAAGGTTCTTTGGGGAATTTAGGCAATTG +AATAATGATATAAATTTAAAATATTCCCGCTCATATTAAAAAGGGGATTACGATAAAAGC +ATTCGCCTTAGGAATTTCTATAACACCCGCTCCAGCGACTAAGGGGAATGGTGCACAAAT +AGTCGATGTGTTCGTTTTGATTGACCCCTGCCATGGAAATGCGGGGAATCGCTTGAAAAC +AATAGGTAAGACAATTTAAGTAGCTCCCAAGCCATATATTACGGGGAATTGACCTATGAA +AAAACATCCGCTAATTTGTGCCGTCCCCCCTCCGATAGCAATGGGGATAAAAAGTACAGT +ACACGAAGGATAAATTTTTTCAAGTCCCAAACCTTTTAAATAGGGGATTGAAAAAATAAT +AATATGCGTCATAATTTCCACAAGGCCCAAACTCCAAATAGGGGGGATTAAGCTATTGAT +AAAAGTTATGTTACTTTAAAATGTACCCAAACAAGTAGTACCGGGGAAGCCAGACATGAA +AAATGTTGTGAACATTTATGAAACTCCCGGACTGTTTAATTGGGGGTTCACATTATTAAA +ATATTTGATCATAGTTTATAAAAGGCCCATCCAAATCAAGAAGGGGAAGATTCCGCAAAC +AGCGTTTAAAGTAATTTATAAGTCTCCCAATCGATTACCCAGGGGGAATAATCCTAAGAC +AAGTCCTGACGTTATTTGAGGTGCTCCCTGACGTCTCATGATGGGGAACCTTTCTTATGT +AATTTTCTTCACTATTTATATCATGCCCGCTCTGGCCAATTAGGGGGAAGAGTGTGTACT +ATTACGTTATTAGATTTTGTATATTCCCTTGCTAGACACATAGGGGACATTTAAATCTCA +AAATTAATGATATTTTTGGTATGCTCCCCAACCTAAATATTGGGGGATGTGGAAAAGTAA +ATATTTAATTTAAATTTTGATTGAACCCTTACAAGGGGGTGTGGGGAATGAGAAATCAAA +ATCAAAAACTATTATTTAGTGATTTCCCCAGCTTACATATATGGGGACAAACAGGAGTTC +AACAAAGCACAATATTTAGAATGAGCCCAAACGAAAGATCATGGGGCAATATGTCATTGA +AAAACGCTGAACTATTTTATAAATTCCCCAACAGTATATTTAGGGGTGAAAATTAAGAAG +AATAATTAGTGAGTTTTATAATTAACCCACCCCGTCTCGATGGGGGTGGTTATTTTTTTA +AATGTATTTAATTATTTGATTTCGGCCCCCTCAAAAGTCCCTGGGGTTTTGAATAGTATC +AAAATCTATAGGAATTTTATAATAACCCAAACCTCTACGCATGGGGATGGTGAGTGTTAA +AAATCTTGGTGTAGTTTTGGTGTAGCCCAGGCGCAGTATAGAGGGGATTTGAGCACAAAA +ATACTTAATTAAAATTTTATAAACACCCGTCCGACGCGTGTCGGGGGTGTGTCAAAAAAT +ACTATGACGAATAATTTTGCTTGTTCCCATTCCTGTATTTTCGGGGCTTATGCGGGGGAC +ATTTTGGTGACGCATTTTACTATATCCCTGACATTCAAAACAGGGGGAGCCCCGTAATCA +AGGAACTCTTTTGTTTTGTAATGCGCCCAAACATACCTATAAGGGGCCTGGGAGGGATTC +AAACCCCCGACCGATTTCTTAGAAGCCCATTCCTCTATCCAGGGGGGCTACCAGGACACG +ATTAACAACACAAGTTTTATTATATCCCAATCAACTTAAATTGGGGATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTCCCGAGCTATTTATCTAGGGGGGTTCAATAAGACT +AAAATGCGAATTCATTTAACTTAATCCCGTTCAATACAGTTTGGGGTGCCTAACTGTATT +ACTTTTCTCTTTAATTTACAGTTAACCCCATCATAAGATGTTGGGGGGATAAACAAACTA +ATTGCATCAAATTTTTTTTAAAATACCCACACCAAAACGTTAGGGGAATAACATTTCGGT +AATTTAAAAGCTACTTTCGTTTTTGCCCTCTCCAAATTTAAAGGGGAAGGAGTGTTTTCA +ATGGAAGGTTTATTTTTCGCAATTACCCATACCGTAACTGCAGGGGTTAATAATGATGGC +ACAAAATTAGGCACTTTCATTGTGACCCTCGCTGAAAATGGCGGGGGTTTATTAGGTAAA +ATATTCGGATTCTATTTTCAATATGCCCTGTCAGTAATCAGTGGGGTTTCAAAGGTGAGG +AAGAGATTTAAATGTTTGGACTAGCCCCAGCCATCGCAAATAGGGGGCAAGCTGCACAAC +AACATGATAGTGTGTTTTTAGGCACCCCTATCGTAGACATCGGGGGTAACGGTGTGGGTT +AACTAGGTAAATTATTTGGATTCTACCCTAACAACTAATATTGGGGAAAATAAACTGGGT +AAGCATACTTTAATTTTATGCACTCCCCTTACTTTATTTGCAGGGGTTTGAGCCTCTGTT +AAGATTTAGATACATTTACAATATACCCGATCGGGAAATTGGGGGGTAAAAATATTTTGA +AAGACTTTGATGATTTTATTGTTGACCCTTACGATGCAGAAGGGGGGGCGTTTCACTATA +AGGCGAATGTTTTTTTTCATAAAGCCCCAAACGATGATTTTTGGGGATTTAAAAAAATCA +ATCACCAACATTGGTTTGCTTTTCACCCAAACAAATTAACGAGGGGTGAAGTATTATCAG +AACGATTTGTGAATTTTTTCAAACACCCTCACATGGAAGTTGGGGGGCATCGTGCAGATG +AGTTATTTAGAAATTTTTTAGCAGACCCTAACGTTAAATACTGGGGTCAAACATTAGAAA +AAATTGTCGAATTATTTAAAAGACACCCTTTCTATATTGTTAGGGGTGGTGTAACCGAAA +AGCAAAAGAGAAGGTTTAATCAGACCCCGTTCCATAAATATAGGGGAAAGATATTTATAT +ATGAGGAAACAGGATTTCAAAAACCCCCTCCCGAATTTTTTAGGGGTGTTTTTAATGATA +ATGGTGAGGATGAATTTCAGCACTCCCCTATCGTTGGAGATTGGGGAACATCTGACATTC +AAGGTGGAATCAATTTTGGTATAGCCCCTTGCTGGTTTAATTGGGGAGGATTTGATCATA +ATCCAGGAATTATATTTGATTATGACCCTAACTCATGGAAACGGGGAAATGATATTGTAC +ATTAAGACAAATAATTTGAAAATGACCCATACTAGCTTAAGAGGGGAATTGTAAAAACGA +AACTACGAAAAGATTTTTTTTCATGCCCGTACTGTCGAATATGGGGATCTTATGGTTTCC +ACAATAAGACATCATTTCCCTCTATCCCTTTCGCTTCCACATGGGGAAATCCATGATGTA +AAAAGAAATCCTTATTTTCATTTCTCCCAATCGCTTTAATTGGGGGATTGAAACTCTTTG +AAAAATCAATCAATTTTGAAGCGTACCCTCTCTTTTGATATTGGGGTAATACTTCTAACT +ACCATAATAATATATTTTCTTCAAACCCTGGCAAGTAGATTTGGGGGACATCACCTTTTT +ATAGTAATGCCATTTTTGCTCCTAACCCATCCCCGACAAATAGGGGATAAAATGGTGAAT +ATGAACTTGCATCATTTATTTGACCCCCTAACTCATTGACCAGGGGTAAGTCTTTGTTGC +AAAACGCTCTAAAGTTTTCGAATAACCCGTCCGTTTTGTAATGGGGTTCAAGACGTTTGA +ATTCACTCATATTTTTTTACCCCTTCCCTGTCTACTACTATTGGGGTACATTAAACCACT +AGTGTTTTTCATTGTTTTGAAAATGCCCAACCATGAACATTAGGGGTTTTCCATGATTAA +ATTGATTTTCAAGCTTTAAAATTGTCCCTCACCGGTATAGACGGGGTACTATAGTTTGTA +ATCGCGTACTTAAGTTTAAAAAACACCCACTCTAAAGTAGTTGGGGTAAATGAAAAAGAT +AAGTTTATACCAAATTTAAAGAGCACCCACCCTGTAATAACAGGGGTATTTCAATATGAT +ACAGCTCAACAAACTTTTTTTGAAACCCGGACGTCTAAAGAAGGGGATGGAAGAGAAGCG +ACATTAGCGAATGTTTTTCGTGAATCCCTGACTGATTTAAAGGGGGCAAATGAACAAGAA +ATAAACATACAACATTTAGCTAATGCCCCAACAGTTGTGATTGGGGGACAACAAGCAGGG +ATTTTCGGGGGACCTTTGTATACATCCCATACAATATTTTCAGGGGTTACTTTATCTAAG +AAATTAACGGATACTTTTAAGCAACCCCTAGCACCAGTTTTTGGGGTTGCAGGAGAAGAT +AATGATTTCGATGATTTGAATCATACCCTTGCTTATAACGAAGGGGATGGGTCGCTGCAT +AAGGTTAAATATCATTTAATGGAGACCCCAGCGACGACAGTCGGGGGATATTATCCTGAT +AAGGCTGAGTTGAATTTAACTTTAACCCCGACGTTCATTCATGGGGAAGAAACTGTTCAT +ACACAAGGTCTACTTTTGATTTGTGCCCGAACTATTGACCAAGGGGACTCGTGGACTGAT +ATGTTTAAAGCACTTTTGCATGAAACCCTTACAGCATATGGCGGGGTATTTATAGATGCG +AAGTTTGAGCCGTTTTTAAAAATGGCCCCGCCTATGTTTAAAGGGGTTTTGAAAAAACAT +AAGTTGCTTGATGATTTTTTTAGAGCCCCACCACAACGTACTGGGGATCAAGGCTTGAAT +ACGATGATACAAACTTTTACAAATGCCCATTCATTCTTACATGGGGAAAATATGCGCCAA +ATAGTTTCGTATGATTTTAAGCATTCCCAATCAAATAAAACAGGGGAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/locus_tag_gffs/query_5.gff.proteome.faa.expected Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,75 @@ +>3_1 +MNPRIVSSGTTKILLGSILMNPPANAGEGDIKIKTGTTDIGSPTTVRTGDLETYDKDNGM +HNPVFYSLGDDKNHNKNLLVISPKGTSAGQYKIYSEDGANKSPLAWRSGFKEKLQLPDNE +VAPISDC*GRN*IDTKDYMSTFPYGFSGGVTENDTGNIGGLIPANVWMGHTQKYVQPDFK +TIPESPSEGKVERKVIFNNMVNPNWGR*GRD*RNPVYGNQLFPKTRSGGMKETENFLDPN +KAPSLLCSGFSQNFATVITMDSPASKRQGNIEIIYERVRDDYPLHWSSGNWKSTNTNDKW +TDPSSER*GID*KKEEITN* +>ccc_50002 +MKLFFIVSLTIIWGDIFLGNEIIHLLTALTTTLGVVNSRKGIKNFRVAQ +>ccc_50003 +ISELPNLINSGQSLFESESGF*ISPNPGVPGQTVQELRNGISKLPDPRFRGIIKL*SYYV +FLKEP* +>ccc_50004 +MRKGITKNIILTSTLLLPRTVLPGNQKKVFSFYSEAKPHSIGQGETKNNELI*YYTQPHF +SLSGKWLNQYDN*NIYVPLKR*SGSAQKSLWGSESWGPLNQLKGRYVNVFGL*DKDTPQL +WWSGRETNTGGVSPAAKPPDKTYGLFVKYKDKLQTIIPPHKMYGGNKKVLTL*EIDFPPR +EALGKNKKLYTEYRNKGPLKITGGGNKNTIDLCKRLHPHLAKVGVKKNNKITFDVLFPQ +>3_2 +MGNNKTKKIILSTTFPLLGRAGTQ*TNTPINSSSDPKAYCMGQNETNVNDLTKYYPQKY* +TGSNKTLWQNDNGTIPATL*QGSW*SHIQVYGPESPGNISQGRNKSVDIFGIKDHPTIDC +LGLSQKTFTGGVTPAPTSNGKGYKQNVTYNDKAETPTGGCPGYEENKPVFTLKEFPFRIR +QGLIKSKKLYNNSYNPGQIRMGGTENNYTIDLSKSPPSTGAGRYEKKPQNAKIEVPLEK* +KG +>ccc_50006 +MKKYIMNKPLLSTAGLLLKTTST*LPKTPLSFSSGAKANNISEYETNIPQLIKYGTQPNF +SLS*KWLWPQPNGSGHATKQTWVWYSHIPLFGSEGWGKNNQLRYKYVDPLGTKDGDTVKG +YWTYDETFPRGVTPGATSNDKPY*LFLKPRDKQQGIIGKHEFY*GNKPPLTLKEGDFRNR +QTLLKNKKPHNGEFGKGQNKITAYGNNYPLDLRKGLKLNDTNRYVKNPPHAQMEGILEKS +N* +>3_3 +LTNLRGGSFLTILDFSLQEAQSLLTGAEDLKSAKYIFTETPTLKNGDIALLIEKDSLRTP +RAFEVGAHDQGTNVTYLGPTRSQMGGEETTKNTARVFGGTHAGIEGGGFSQRTVETLAET +PAVPVGDGLTDKDHPTLVLAHSLTAGEVLKKNYADIFFTSLADGRGDVANAIMQGAFIMA +LTFHLGGPKELNPTDDLLNPRTNIAGENGGNILITDFIDPRAKGSGVIYTDIWVSIFEPA +QAWKEGVELLKTYQVNLEMTHTTGNGDVIFENCLPSFHNAHTKIGGEIFEKNGIRDLEVT +HAVFEGEASVVIQEADFRMPPTKAVGVATLGKF* +>ccc_50008 +MLAKMGVALGGNALGISPQPQLELVGNTAKSLVGLISKGPELVIRGGNGPQVGSIILGLP +YPAEQGQGPALPFAEFCAMPQPYIGGQLQERLQNEFYSIPMHKQVGTLVTQVEVDVYDPP +FHNPSGPIGLLYNKEVSEQPQQEKGGIFVEEAGRGF*RVPPPPQPGSIIELESIKIFIKP +DPLVMGAGGGGIPVII*QHPGLKGMGAVIDKDKTSVLLGPNLQCEGLIILTAIDYVYINP +NPENQGPLKTTNVDEF*RYPDQNQLGKGSMLPKIEVSISPIQNNPGGSVLITSLNVLDAP +LQGKVGTVIKK* +>ccc_51705 +VENTINVCEKPKRFKLGMPGALMILFILTVPALIATGVIPAGAYSKLSYEPSPQELGIVN +PQNQVKIFPGPQQELEGMGVKIKIEQF*SGPIHKPVGIPNT*ERLKLYPAPPQQITGSMV +EGTIEAVYIMPFLLVLGGLIGVVQASVSFEPGLLALGKKTKGHEFMLFVFPSLLMMGGGT +L*GIEEVSVAPYPILVGIFIALGYDSIFSVPALFLAGSVGSTFSTIISFSPVLASKGAGT +TLTDGLFWRIPARIVGGIFVIRYLYWFCKKPKHDPKGSYSYEDKDAF*QQPSLLKEGDSA +HLTLRKILILPLLVLPGPIMV*GVMTLCWWPPLMASGFLIFTIIIMFFAGPGQSGLGEKG +TVDAFVICASPLLGVSGIIGLARGINFLLNPGLISEGILHFSSSLVLYMSPPLFIMGLLF +ILFCLGFFVPPSPGLAGLSMPIFAPLVYTVPIPRFVGVTTYQFGQYVLLFPAPTGLGMAT +LQMLNMLYSHPFRFVWGVVAFVLIFGV*VLPTQVLMGS* +>ccc_50010 +ITHLTIFLDPLPGIWGVLLFRKYFVVYANPVLDWKGRWYLLENIPLLPIPLLILMGIFGV +PSEMIIYRQPKHNGVG +>ccc_50011 +MRRQGAPQITSGLVLGLFPLGNRLGDL*ITLNAVCGIFPFLIWMGLL*TMIKYFNNVNPQ +LNSPGVS*MFTTFFMSGFPGTTCLGTF*SNITFINSLIPPIWSLGLVEIMTHIIIFSIPY +LKGLGLEKIYPSCTVLFIPIAIGGGTAQISGCFFIGQFPVIYGLGAT*IVLPIVFKRFPA +FPWQGSIKTNTSTICAPFPLVAGAGVIEIPKANAFIVIPFLI*AGIF*IYIIIQLPKFPK +EPCSGVF*TFTFPLVISAPALKSRGPVQMFPDIWKGLFPIEV*LGTVKILRVFIGYLHPF +LKREGQDKILRNASQ* +>ccc_50012 +MRNQNQKLLFSDFPSLHIWGQTGVQQSTIFRMSPNERSWGNMSLKNAELFYKFPNSIFRG +EN* +>ccc_50014 +MEGLFFAITHTVTAGVNNDGTKLGTFIVTLAENGGGLLGKIFGFY +>ccc_50015 +MFGLAPAIANRGQAAQQHDSVFLGTPIVDIGGNGVG*LGKLFGFY +>3_5 +LGGKNILKDFDDFIVDPYDAEGGAFHYKANVFFHKAPNDDFWGFKKINHQHWFAFHPNKL +TRGEVLSERFVNFFKHPHMEVGGHRADELFRNFLADPNVKYWGQTLEKIVELFKRHPFYI +VRGGVTEKQKRRFNQTPFHKYRGKIFIYEETGFQKPPPEFFRGVFNDNGEDEFQHSPIVG +DWGTSDIQGGINFGIAPCWFNWGGFDHNPGIIFDYDPNSWKRGNDIVH*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/mafft_input.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,59 @@ +>1234_8#75_04759 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGCGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA +>1111#5_04506 +ATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCGGCTATCATG +GATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCTATTGATAAT +AAAGTTCAACCGCTTATCAGGCGTTGA +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_DT104_v1_02853 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTTTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_SL1344_v2_02736 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTGTGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_str_D23580_v1_02783 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_str_DT2_v1_02741 +ATGAGCGAGCAGTTAACGGACGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/mcl_file Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,5 @@ +6259_8#9_01142 6631_2#11_00851 6631_4#5_01901 +6664_1#21_00211 +6259_8#13_01077 +6630_4#9_00008 6259_5#1_00688 6259_5#8_00815 +6259_7#7_02078 6631_5#24_01032 6593_5#13_00457 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/mdoH.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,88 @@ +>11111_1#11_04119 +ATGAATAAAACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCA +TTGCCGAAAACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTAC +TCGCGAGAAGACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCG +GATTCATTGGCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCT +ATGCCAAAAGCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGC +CGTTTCTGGGATCGCCTGCGTGGGCGGGATGTAACGCCGCGCTATGTTTCTCGTCTGACA +AAAGAAGAGCAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATT +TTGTTAATTTTGACTCTGGCGCAAACCGTCGTCGCGACCTGGTATATGAAGACCATTCTG +CCCTATCAGGGATGGGCGCTCATCAATCCTATGGATATGGTGGGGCAGGATATTTGGGTC +TCCTTTATGCAGCTCCTGCCCTACATGCTGCAAACCGGTATCCTGATTTTGTTTGCCGTG +CTGTTCTGCTGGGTGTCTGCCGGATTCTGGACGGCGCTGATGGGCTTCCTGCAACTGCTT +ATCGGGCGCGATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCG +GAACACCAGACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCC +GGTCTGCGCGCGACCTGGGAGTCCGTTAAAGCCACAGGCAACGCCGCGCATTTTGACGTC +TATATCCTTAGCGATAGTTATAACCCGGATATCTGCGTGGCGGAGCAAAAGGCGTGGATG +GAGCTCATCGCGGAAGTGCAGGGCGAAGGCCAAATTTTTTACCGTCGCCGCCGCCGCCGT +ATGAAACGCAAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGC +TATATGGTGGTGCTGGACGCGGACTCAGTGATGAGCGGCGAGTGTCTGAGCGGGCTGGTG +CGCCTGATGGAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGG +ATGGATACTCTGTATGCCCGCTGCCAACAGTTCGCGACCCGTGTTTATGGACCGCTGTTT +ACCGCCGGGCTGCACTTCTGGCAGTTGGGGGAGTCGCACTACTGGGGGCACAATGCCATT +ATCCGCGTGAAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCG +TTCGCCGGATCGATTCTTTCCCACGACTTTGTGGAGGCGGCGCTAATGCGTCGGGCAGGG +TGGGGCGTCTGGATTGCCTACGATCTCCCCGGCTCCTATGAAGAGCTGCCGCCAAACCTG +CTGGATGAGCTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTG +TTCCTGGTGAAAGGAATGCACCCGGTGCATCGCGCCGTGTTCCTGACCGGGGTAATGTCA +TACCTGTCCGCGCCGTTATGGTTTATGTTCCTCGCGCTTTCTACCGCGCTGCAGGTCGTT +CATGCGTTAACAGAGCCGCAATATTTCCTTCAGCCGCGCCAGCTTTTTCCGGTCTGGCCG +CAGTGGCGTCCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTG +CCGAAGCTGCTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTC +TGGCGCGTTACGCTGTCGCTATTGCTGGAAGTGCTGTTCTCCGTGTTGCTGGCGCCGGTG +CGTATGCTGTTTCATACCGTGTTTGTGGTCAGCGCGTTCCTCGGCTGGGAAGTGGTCTGG +AACTCACCGCAACGCGACGATGATTCTACGCCGTGGGGAGAAGCCTTTATGCGTCACGGC +TCTCAACTGCTGCTGGGGCTGGTCTGGGCGGTGGGTATGGCGTGGCTGGATTTACGCTTT +CTGTTCTGGCTGGCGCCGATTGTCTTTTCGCTGATTCTGTCGCCATTTGTTTCGGTGATC +TCCAGTCGTTCAACGGTAGGATTACGCACCAAACGCTGGAAGCTGTTCCTGATCCCGGAA +GAGTATTCGCCGCCTCAGGTGTTGGTCGATACCGATAAATATCTGGAGATGAATCGCCGC +CGTATTCTGGACGATGGCTTTATGCATGCGGTATTTAACCCGTCGCTTAATGCGCTGGCG +ACCGCGATGGCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGT +CATGTGGAGCAGGCGCTAAACGAAACGCCGGAGAAACTGAACCGCGATCGGCGTCTGGTT +TTGCTCAGCGATCCGGTGACGATGGCGCGTTTACACTATCGGGTCTGGAATGCGCCAGAG +AGATACTCTTCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAG +GGACGAACATCGTCAGCGGGATAA +>22222_2#22_04119 +ATGAATAAAACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCA +TTGCCGAAAACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTAC +TCGCGAGAAGACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCG +GATTCATTGGCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCT +ATGCCAAAAGCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGC +CGTTTCTGGGATCGCCTGCGTGGGCGGGATGTTACGCCGCGCTATGTTTCTCGTCTGACA +AAAGAAGAGCAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATT +TTGTTAATTTTGACTCTGGCGCAAACCGTCGTTGCGACCTGGTATATGAAGACCATTCTG +CCCTATCAGGGATGGGCGCTCATCAATCCTATTGATATGGTGGGGCAGGATATTTGGGTC +TCCTTTATGCAGCTCCTGCCCTACATGCTGCATACCGGTATCCTGATTTTGTTTGCCGTG +CTGTTCTGCTGGGTGTCTGCCGGATTCTGGACTGCGCTGATGGGCTTCCTGCAACTGCTT +ATCGGGCGCGATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCG +GAACACCAGACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCC +GGTCTGCGCGCGACCTGGGAGTCCGTTAAAGCTACAGGCAACGCCGCGCATTTTGACGTC +TATATCCTTAGCGATAGTTATAACCCGGATATTTGCGTGGCGGAGCAAAAGGCGTGGATG +GAGCTCATCGCGGAAGTGCAGGGCGAAGGCCATATTTTTTACCGTCGCCGCCGCCGCCGT +ATGAAACGCAAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGC +TATATGGTGGTGCTGGACGCGGACTCAGTGATTAGCGGCGAGTGTCTGAGCGGGCTGGTG +CGCCTGATGGAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGG +ATGGATACTCTGTATGCCCGCTGCCAACAGTTTGCGACCCGTGTTTATGGACCGCTGTTT +ACCGCCGGGCTGCACTTCTGGCAGTTGGGGGATTCGCACTACTGGGGGCACAATGCCATT +ATCCGCGTGAAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCG +TTCGCCGGATCGATTCTTTCCCACGACTTTGTTGAGGCGGCGCTAATGCGTCGGGCAGGG +TGGGGCGTCTGGATTGCCTACGATCTCCCCGGTTCCTATGAAGAGCTGCCGCCAAACCTG +CTGGATGAGCTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTG +TTCCTGGTGAAAGGAATGCACCCGGTGCATCGTGCCGTGTTCCTGACCGGGGTAATGTCA +TACCTGTCCGCGCCGTTATGGTTTATGTTCCTTGCGCTTTCTACCGCGCTGCAGGTCGTT +CATGCGTTAACAGAGCCGCAATATTTCCTTCATCCGCGCCAGCTTTTTCCGGTCTGGCCG +CAGTGGCGTCCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTG +CCGAAGCTGCTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTC +TGGCGCGTTACGCTGTCGCTATTGCTGGAAGTTCTGTTCTCCGTGTTGCTGGCGCCGGTG +CGTATGCTGTTTCATACCGTGTTTGTGGTCAGTGCGTTCCTCGGCTGGGAAGTGGTCTGG +AACTCACCGCAACGCGACGATGATTCTACGCCTTGGGGAGAAGCCTTTATGCGTCACGGC +TCTCAACTGCTGCTGGGGCTGGTCTGGGCGGTTGGTATGGCGTGGCTGGATTTACGCTTT +CTGTTCTGGCTGGCGCCGATTGTCTTTTCGCTTATTCTGTCGCCATTTGTTTCGGTGATC +TCCAGTCGTTCAACGGTAGGATTACGCACCAATCGCTGGAAGCTGTTCCTGATCCCGGAA +GAGTATTCGCCGCCTCAGGTGTTGGTCGATACTGATAAATATCTGGAGATGAATCGCCGC +CGTATTCTGGACGATGGCTTTATGCATGCGGTTTTTAACCCGTCGCTTAATGCGCTGGCG +ACCGCGATGGCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGT +CATGTGGAGCAGGCGCTAAACGAAACGCCGGATAAACTGAACCGCGATCGGCGTCTGGTT +TTGCTCAGCGATCCGGTGACGATGGCGCGTTTTCACTATCGGGTCTGGAATGCGCCAGAG +AGATACTCTTCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAG +GGACGAACATCGTCAGCGGGATAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/mdoH_mafft.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,88 @@ +>11111_1#11_04119 +ATGAATAAAACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCA +TTGCCGAAAACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTAC +TCGCGAGAAGACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCG +GATTCATTGGCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCT +ATGCCAAAAGCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGC +CGTTTCTGGGATCGCCTGCGTGGGCGGGATGTAACGCCGCGCTATGTTTCTCGTCTGACA +AAAGAAGAGCAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATT +TTGTTAATTTTGACTCTGGCGCAAACCGTCGTCGCGACCTGGTATATGAAGACCATTCTG +CCCTATCAGGGATGGGCGCTCATCAATCCTATGGATATGGTGGGGCAGGATATTTGGGTC +TCCTTTATGCAGCTCCTGCCCTACATGCTGCAAACCGGTATCCTGATTTTGTTTGCCGTG +CTGTTCTGCTGGGTGTCTGCCGGATTCTGGACGGCGCTGATGGGCTTCCTGCAACTGCTT +ATCGGGCGCGATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCG +GAACACCAGACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCC +GGTCTGCGCGCGACCTGGGAGTCCGTTAAAGCCACAGGCAACGCCGCGCATTTTGACGTC +TATATCCTTAGCGATAGTTATAACCCGGATATCTGCGTGGCGGAGCAAAAGGCGTGGATG +GAGCTCATCGCGGAAGTGCAGGGCGAAGGCCAAATTTTTTACCGTCGCCGCCGCCGCCGT +ATGAAACGCAAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGC +TATATGGTGGTGCTGGACGCGGACTCAGTGATGAGCGGCGAGTGTCTGAGCGGGCTGGTG +CGCCTGATGGAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGG +ATGGATACTCTGTATGCCCGCTGCCAACAGTTCGCGACCCGTGTTTATGGACCGCTGTTT +ACCGCCGGGCTGCACTTCTGGCAGTTGGGGGAGTCGCACTACTGGGGGCACAATGCCATT +ATCCGCGTGAAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCG +TTCGCCGGATCGATTCTTTCCCACGACTTTGTGGAGGCGGCGCTAATGCGTCGGGCAGGG +TGGGGCGTCTGGATTGCCTACGATCTCCCCGGCTCCTATGAAGAGCTGCCGCCAAACCTG +CTGGATGAGCTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTG +TTCCTGGTGAAAGGAATGCACCCGGTGCATCGCGCCGTGTTCCTGACCGGGGTAATGTCA +TACCTGTCCGCGCCGTTATGGTTTATGTTCCTCGCGCTTTCTACCGCGCTGCAGGTCGTT +CATGCGTTAACAGAGCCGCAATATTTCCTTCAGCCGCGCCAGCTTTTTCCGGTCTGGCCG +CAGTGGCGTCCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTG +CCGAAGCTGCTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTC +TGGCGCGTTACGCTGTCGCTATTGCTGGAAGTGCTGTTCTCCGTGTTGCTGGCGCCGGTG +CGTATGCTGTTTCATACCGTGTTTGTGGTCAGCGCGTTCCTCGGCTGGGAAGTGGTCTGG +AACTCACCGCAACGCGACGATGATTCTACGCCGTGGGGAGAAGCCTTTATGCGTCACGGC +TCTCAACTGCTGCTGGGGCTGGTCTGGGCGGTGGGTATGGCGTGGCTGGATTTACGCTTT +CTGTTCTGGCTGGCGCCGATTGTCTTTTCGCTGATTCTGTCGCCATTTGTTTCGGTGATC +TCCAGTCGTTCAACGGTAGGATTACGCACCAAACGCTGGAAGCTGTTCCTGATCCCGGAA +GAGTATTCGCCGCCTCAGGTGTTGGTCGATACCGATAAATATCTGGAGATGAATCGCCGC +CGTATTCTGGACGATGGCTTTATGCATGCGGTATTTAACCCGTCGCTTAATGCGCTGGCG +ACCGCGATGGCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGT +CATGTGGAGCAGGCGCTAAACGAAACGCCGGAGAAACTGAACCGCGATCGGCGTCTGGTT +TTGCTCAGCGATCCGGTGACGATGGCGCGTTTACACTATCGGGTCTGGAATGCGCCAGAG +AGATACTCTTCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAG +GGACGAACATCGTCAGCGGGATAA +>22222_2#22_04119 +ATGAATAAAACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCA +TTGCCGAAAACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTAC +TCGCGAGAAGACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCG +GATTCATTGGCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCT +ATGCCAAAAGCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGC +CGTTTCTGGGATCGCCTGCGTGGGCGGGATGTTACGCCGCGCTATGTTTCTCGTCTGACA +AAAGAAGAGCAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATT +TTGTTAATTTTGACTCTGGCGCAAACCGTCGTTGCGACCTGGTATATGAAGACCATTCTG +CCCTATCAGGGATGGGCGCTCATCAATCCTATTGATATGGTGGGGCAGGATATTTGGGTC +TCCTTTATGCAGCTCCTGCCCTACATGCTGCATACCGGTATCCTGATTTTGTTTGCCGTG +CTGTTCTGCTGGGTGTCTGCCGGATTCTGGACTGCGCTGATGGGCTTCCTGCAACTGCTT +ATCGGGCGCGATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCG +GAACACCAGACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCC +GGTCTGCGCGCGACCTGGGAGTCCGTTAAAGCTACAGGCAACGCCGCGCATTTTGACGTC +TATATCCTTAGCGATAGTTATAACCCGGATATTTGCGTGGCGGAGCAAAAGGCGTGGATG +GAGCTCATCGCGGAAGTGCAGGGCGAAGGCCATATTTTTTACCGTCGCCGCCGCCGCCGT +ATGAAACGCAAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGC +TATATGGTGGTGCTGGACGCGGACTCAGTGATTAGCGGCGAGTGTCTGAGCGGGCTGGTG +CGCCTGATGGAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGG +ATGGATACTCTGTATGCCCGCTGCCAACAGTTTGCGACCCGTGTTTATGGACCGCTGTTT +ACCGCCGGGCTGCACTTCTGGCAGTTGGGGGATTCGCACTACTGGGGGCACAATGCCATT +ATCCGCGTGAAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCG +TTCGCCGGATCGATTCTTTCCCACGACTTTGTTGAGGCGGCGCTAATGCGTCGGGCAGGG +TGGGGCGTCTGGATTGCCTACGATCTCCCCGGTTCCTATGAAGAGCTGCCGCCAAACCTG +CTGGATGAGCTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTG +TTCCTGGTGAAAGGAATGCACCCGGTGCATCGTGCCGTGTTCCTGACCGGGGTAATGTCA +TACCTGTCCGCGCCGTTATGGTTTATGTTCCTTGCGCTTTCTACCGCGCTGCAGGTCGTT +CATGCGTTAACAGAGCCGCAATATTTCCTTCATCCGCGCCAGCTTTTTCCGGTCTGGCCG +CAGTGGCGTCCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTG +CCGAAGCTGCTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTC +TGGCGCGTTACGCTGTCGCTATTGCTGGAAGTTCTGTTCTCCGTGTTGCTGGCGCCGGTG +CGTATGCTGTTTCATACCGTGTTTGTGGTCAGTGCGTTCCTCGGCTGGGAAGTGGTCTGG +AACTCACCGCAACGCGACGATGATTCTACGCCTTGGGGAGAAGCCTTTATGCGTCACGGC +TCTCAACTGCTGCTGGGGCTGGTCTGGGCGGTTGGTATGGCGTGGCTGGATTTACGCTTT +CTGTTCTGGCTGGCGCCGATTGTCTTTTCGCTTATTCTGTCGCCATTTGTTTCGGTGATC +TCCAGTCGTTCAACGGTAGGATTACGCACCAATCGCTGGAAGCTGTTCCTGATCCCGGAA +GAGTATTCGCCGCCTCAGGTGTTGGTCGATACTGATAAATATCTGGAGATGAATCGCCGC +CGTATTCTGGACGATGGCTTTATGCATGCGGTTTTTAACCCGTCGCTTAATGCGCTGGCG +ACCGCGATGGCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGT +CATGTGGAGCAGGCGCTAAACGAAACGCCGGATAAACTGAACCGCGATCGGCGTCTGGTT +TTGCTCAGCGATCCGGTGACGATGGCGCGTTTTCACTATCGGGTCTGGAATGCGCCAGAG +AGATACTCTTCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAG +GGACGAACATCGTCAGCGGGATAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/multfasta1.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>1111_1#1_00123 +AAAAA- +>2222_2#2_00456 +CCCCC- +>3333_3#3_00789 +TTTTT- +>4444_4#4_00123 +GGGGG-
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/multfasta2.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>1111_1#1_01123 +CCCC---- +>2222_2#2_01456 +AAAA---- +>3333_3#3_01789 +GGGG---- +>4444_4#4_01123 +TTTT----
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/multfasta3.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>1111_1#1_02123 +TTTTTTTTTTTTTTT +>2222_2#2_02456 +AAAAAAAAAAAAAAA +>3333_3#3_02789 +CCCCCCCCCCCCCCC +>4444_4#4_02123 +GGGGGGGGGGGGGGG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/multfasta4.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,7 @@ +>1111_1#1_0001 +-AAAA- +>2222_2#2_0001 +-TTTT- +>4444_4#4_0001 +-CCCC- +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/multfasta5.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,7 @@ +>1111_1#1_0004 +-AAAA- +>2222_2#2_0004 +-TTTT- +>4444_4#4_0004 +-CCCC- +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/multifasta_files/expected_output.embl Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +ID Genome standard; DNA; PRO; 1234 BP. +XX +FH Key Location/Qualifiers +FH +FT feature 1..1 +FT /label=1 +FT /locus_tag=1 +FT feature 2..11 +FT /label=outof_order +FT /locus_tag=outof_order +FT feature 12..111 +FT /label=2 +FT /locus_tag=2 +FT feature 112..1111 +FT /label=3 +FT /locus_tag=3 +XX +SQ Sequence 1234 BP; 789 A; 1717 C; 1693 G; 691 T; 0 other; +//
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/nnn_at_end.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>1 +AAANNN +>2 +AAACCCnNn +>3 +AAACCCGGGnnn +>4 +AAACCCGGGTTTNNN \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/nnn_at_end.fa.sorted.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>1 +AAA +>2 +AAACCC +>3 +AAACCCGGG +>4 +AAACCCGGGTTT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/nuc_multifasta.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,112 @@ +>AAAA#74_01075 +TGTCAGTACCACTTATTCTGACCTTACTGGCGGGCGCTGCCACCTTTATTGGCGCGTTTC +TTGGCGTTCTTGGCCAAAAACCGTCTAACCGCGTGCTGGCTTTTTCGCTGGGCTTCGCCG +CAGGGATCATGCTGCTCATCTCGCTGATGGAGATGCTGCCCGCCGCGTTAGATACCGAGG +GGATGTCGCCTGTACTGGGCTACGGGATGTTTATTATCGGCCTGTTGGGCTACTTCGGGC +TGGATCGTCTGCTTCCTCACGCTCATCCGCAGGATCTGGTGCAAAAAAGGCAGCAGCCGC +TTCCCGGCTCGATAAAACGCACTGCGATTTTATTGACGCTCGGCATTAGCCTGCACAACT +TTCCGGAAGGAATCGCCACCTTTGTCACTGCCAGCAGCAATCTTGAACTGGGTTTCGGCA +TCGCACTGGCGGTGGCGTTGCACAATATTCCTGAAGGGCTGGCGGTTGCCGGCCCGGTTT +ATGCCGCGACGGGCTCAAAACGTACCGCGATTTTTTGGGCCGGTATCTCCGGCATGGCGG +AAATTCTTGGCGGCGTGCTGGCGTGGCTGATTTTGGGCAGCCTGGTTTCACCGATCGTTA +TGGCGGCTATCATGGCAGCAGTCGCCGGCATTATGGTGGCGCTCTCCGTCGATGAACTGA +TGCCGTTGGCAAAAGAGATCGATCCTAACAATAACCCCAGCTATGGTGTGCTTTGCGGTA +TGTCCATCATGGGGCTCAGTCTCGTCATTTTGCAGACGATAGGTATCGGTTAA +>BBBB#75_01314 +ATGTCAGTACCACTTATTCTGACCTTACTGGCGGGCGCTGCCACCTTTATTGGCGCGTTT +CTTGGCGTTCTTGGCCAAAAACCGTCTAACCGCGTGCTGGCTTTTTCGCTGGGCTTCGCC +GCAGGGATCATGCTGCTCATCTCGCTGATGGATGCTGCCCGCCGCGTTAGATACCGAGGG +GATGTCGCCTGTACTGGGCTACGGGATGTTTATTATCGGCCTGTTGGGCTACTTCGGGCT +GGATCGTCTGCTTCCTCACGCTCATCCGCAGGATCTGGTGCAAAAAAGGCAGCAGCCGCT +TCCCGGCTCGATAAAACGCACTGCGATTTTATTGACGCTCGGCATTAGCCTGCACAACTT +TCCGGAAGGAATCGCCACCTTTGTCACTGCCAGCAGCAATCTTGAACTGGGTTTCGGCAT +CGCACTGGCGGTGGCGTTGCACAATATTCCTGAAGGGCTGGCGGTTGCCGGCCCGGTTTA +TGCCGCGACGGGCTCAAAACGTACCGCGATTTTTTGGGCCGGTATCTCCGGCATGGCGGA +AATTCTTGGCGGCGTGCTGGCGTGGCTGATTTTGGGCAGCCTGGTTTCACCGATCGTTAT +GGCGGCTATCATGGCAGCAGTCGCCGGCATTATGGTGGCGCTCTCCGTCGATGAACTGAT +GCCGTTGGCAAAAGAGATCGATCCTAACAATAACCCCAGCTATGGTGTGCTTTGCGGTAT +GTCCATCATGGGGCTCAGTCTCGTCATTTTGCAGACGATAGGTATCGGTTAA +>CCCC#76_00877 +ATGTCAGTACCACTTATTCTGACCTTACTGGCGGGCGCTGCCACCTTTATTGGCGCGTTT +CTTGGCGTTCTTGGCCAAAAACCGTCTAACCGCGTGCTGGCTTTTTCGCTGGGCTTCGCC +GCAGGGATCATGCTGCTCATCTCGCTGATGGAGATGCTGCCCGCCGCGTTAGATACCGAG +GGGATGTCGCCTGTACTGGGCTACGGGAGTTTATTATCGGCCTGTTGGGCTACTTCGGGC +TGGATCGTCTGCTTCCTCACGCTCATCCGCAGGATCTGGTGCAAAAAAGGCAGCAGCCGC +TTCCCGGCTCGATAAAACGCACTGCGATTTTATTGACGCTCGGCATTAGCCTGCACAACT +TTCCGGAAGGAATCACCTTTGTCACTGCCAGCAGCAATCTTGAACTGGGTTTCGGCATCG +CACTGGCGGTGGCGTTGCACAATATTCCTGAAGGGCTGGCGGTTGCCGGCCCGGTTTATG +CCGCGACGGGCTCAAAACGTACCGCGATTTTTTGGGCCGGTATCTCCGGCATGGCGGAAA +TTCTTGGCGGCGTGCTGGCGTGGCTGATTTTGGGCAGCCTGGTTTCACCGATCGTTATGG +CGGCTATCATGGCAGCAGTCGCCGGCATTATGGTGGCGCTCTCCGTCGATGAACTGATGC +CGTTGGCAAAAGAGATCGATCCTAACAATAACCCCAGCTATGGTGTGCTTTGCGGTATGT +CCATCATGGGGCTCAGTCTCGTCATTTTGCAGACGATAGGTATCGGTTAA +>DDDD#77_01105 +ATGTCAGTACCACTTATTCTGACCTTACTGGCGGGCGCTGCCACCTTTATTGGCGCGTTT +CTTGGCGTTCTTGGCCAAAAACCGTCTAACCGCGTGCTGGCTTTTTCGCTGGGCTTCGCC +GCAGGGATCATGCTGCTCATCTCGCTGATGGAGATGCTGCCCGCCGCGTTAGATACCGAG +GGGATGTCGCCTGTACTGGGCTACGGGATGTTTATTATCGGCCTGTTGGGCTACTTCGGG +CTGGATCGTCTGCTTCCTCACGCTCATCCGCAGGATCTGGTGCAAAAAAGGCAGCAGCCG +CTTCCCGGCTCGATAAAACGCACTGCGATTTTATTGACGCTCGGCATTAGCCTGCACAAC +TTTCCGGAAGGAATCGCCACCTTTGTCACTGCCAGCAGCAATCTTGAACTGGGTTTCGGC +ATCGCACTGGCGGTGGCGTTGCACAATATTCCTGAAGGGCTGGCGGTTGCCGGCCCGGTT +TATGCCGCGACGGGCTCAAAACGTACCGCGATTTTTTGGGCCGGTATCTCCGGCATGGCG +GAAATTCTTGGCGGCGTGCTGGCGTGGCTGATTTTGGGCAGCCTGGTTTCACCGATCGTT +ATGGCGGCTATCATGGCAGCAGTCGCCGGCATTATGGTGGCGCTCTCCGTCGATGAACTG +ATGCCGTTGGCAAAAGAGATCGATCCTAACAATAACCCCAGCTATGGTGTGCTTTGCGGT +ATGTCCATCATGGGGCTCAGTCTCGTCATTTTGCAGACGATAGGTATCGGTTAA +>EEEE +ATGTCAGTACCACTTATTCTGACCTTACTGGCGGGCGCTGCCACCTTTATTGGCGCGTTT +CTTGGCGTTCTTGGCCAAAAACCGTCTAACCGCGTGCTGGCTTTTTCGCTGGGCTTCGCC +GCAGGGATCATGCTGCTCATCTCGCTGATGGAGATGCTGCCCGCCGCGTTAGATACCGAG +GGGATGTCGCCTGTACTGGGCTACGGGATGTTTATTATCGGCCTGTTGGGCTACTTCGGG +CTGGATCGTCTGCTTCCTCACGCTCATCCGCAGGATCTGGTGCAAAAAAGGCAGCAGCCG +CTTCCCGGCTCGATAAAACGCACTGCGATTTTATTGACGCTCGGCATTAGCCTGCACAAC +TTTCCGGAAGGAATCGCCACCTTTGTCACTGCCAGCAGCAATCTTGAACTGGGTTTCGGC +ATCGCACTGGCGGTGGCGTTGCACAATATTCCTGAAGGGCTGGCGGTTGCCGGCCCGGTT +TATGCCGCGACGGGCTCAAAACGTACCGCGATTTTTTGGGCCGGTATCTCCGGCATGGCG +GAAATTCTCGGCGTGCTGGCGTGGCTGATTTTGGGCAGCCTGGTTTCACCGATCGTTATG +GCGGCTATCATGGCAGCAGTCGCCGGCATTATGGTGGCGCTCTCCGTCGATGAACTGATG +CCGTTGGCAAAAGAGATCGATCCTAACAATAACCCCAGCTATGGTGTGCTTTGCGGTATG +TCCATCATGGGGCTCAGTCTCGTCATTTTGCAGACGATAGGTATCGGTTAA +>FFFF +ATGTCAGTACCACTTATTCTGACCTTACTGGCGGGCGCTGCCACCTTTATTGGCGCGTTT +CTTGGCGTTCTTGGCCAAAAACCGTCTAACCGCGTGCTGGCTTTTTCGCTGGGCTTCGCC +GCAGGGATCATGCTGCTCATCTCGCTGATGGAGATGCTGCCCGCCGCGTTAGATACCGAG +GGGATGTCGCCTGTACTGGGCTACGGGATGTTTATTATCGGCCTGTTGGGCTACTTCGGG +CTGGATCGTCTGCTTCCTCACGCTCATCCGCAGGATCTGGTGCAAAAAAGGCAGCAGCCG +CTTCCCGGCTCGATAAAACGCACTGCGATTTTATTGACGCTCGGCATTAGCCTGCACAAC +TTTCCGGAAGGAATCGCCACCTTTGTCACTGCCAGCAGCAATCTTGAACTGGGTTTCGGC +ATCGCACTGGCGGTGGCGTTGCACAATATTCCTGAAGGGCTGGCGGTTGCCGGCCCGGTT +TATGCCGCGACGGGCTCAAAACGTACCGCGATTTTTTGGGCCGGTATCTCCGGCATGGCG +GAAATTCTTGGCGGCGTGCTGGCGTGGCTGATTTTGGGCAGCCTGGCACCGATCGTTATG +GCGGCTATCATGGCAGCAGTCGCCGGCATTATGGTGGCGCTCTCCGTCGATGAACTGATG +CCGTTGGCAAAAGAGATCGATCCTAACAATAACCCCAGCTATGGTGTGCTTTGCGGTATG +TCCATCATGGGGCTCAGTCTCGTCATTTTGCAGACGATAGGTATCGGTTAA +>GGGG +ATGTCAGTACCACTTATTCTGACCTTACTGGCGGGCGCTGCCACCTTTATTGGCGCGTTT +CTTGGCGTTCTTGGCCAAAAACCGTCTAACCGCGTGCTGGCTTTTTCGCTGGGCTTCGCC +GCAGGGATCATGCTGCTCATCTCGCTGATGGAGATGCTGCCCGCCGCGTTAGATACCGAG +GGGATGTCGCCTGTACTGGGCTACGGGATGTTTATTATCGGCCTGTTGGGCTACTTCGGG +CTGGATCGTCTGCTTCCTCACGCTCATCCGCAGGATCTGGTGCAAAAAAGGCAGCAGCCG +CTTCCCGGCTCGATAAAACGCACTGCGATTTTATTGACGCTCGGCATTAGCCTGCACAAC +TTTCCGGAAGGAATCGCCACCTTTGTCACTGCCAGCAGCAATCTTGAACTGGGTTTCGGC +ATCGCACTGGGGTGGCGTTGCACAATATTCCTGAAGGGCTGGCGGTTGCCGGCCCGGTTT +ATGCCGCGACGGGCTCAAAACGTACCGCGATTTTTTGGGCCGGTATCTCCGGCATGGCGG +AAATTCTTGGCGGCGTGCTGGCGTGGCTGATTTTGGGCAGCCTGGTTTCACCGATCGTTA +TGGCGGCTATCATGGCAGCAGTCGCCGGCATTATGGTGGCGCTCTCCGATGAACTGATGC +CGTTGGCAAAAGAGATCGATCCTAACAATAACCCCAGCTATGGTGTGCTTTGCGGTATGT +CCATCATGGGGCTCAGTCTCGTCATTTTGCAGACGATAGGTATCGGTTAA +>HHHH +ATGTCAGTACCACTTATTCTGACCTTACTGGCGGGCGCTGCCACCTTTATTGGCGCGTTT +CTTGGCGTTCTTGGCCAAAAACCGTCTAACCGCGTGCTGGCTTTTTCGCTGGGCTTCGCC +GCAGGGATCATGCTGCTCATCTCGCTGATGGAGATGCTGCCCGCCGCGTTAGATACCGAG +GGGATGTCGCCTGTACTGGGCTACGGGATGTTTATTATCGGCCTGTTGGGCTACTTCGGG +CTGGATCGTCTGCTTCCTCACGCTTCCGCAGGATCTGGTGCAAAAAAGGCAGCAGCCGCT +TCCCGGCTCGATAAAACGCACTGCGATTTTATTGACGCTCGGCATTAGCCTGCACAACTT +TCCGGAAGGAATCGCCACCTTTGTCACTGCCAGCAGCAATCTTGAACTGGGTTTCGGCAT +CGCACTGGCGGTGGCGTTGCACAATATTCCTGAAGGGCTGGCGGTTGCCGGCCCGGTTTA +TGCCGCGACGGGCTCAAAACGTACCGCGATTTTTTGGGCCGGTATCTCCGGCATGGCGGA +AATTCTTGGCGGCGTGCTGGCGTGGCTGATTTTGGGCAGCCTGGTTTCACCGATCGTTAT +GGCGGCTATCATGGCAGCAGTCGCCGGCATTATGGTGGCGCTCTCCGTCGATGAACTGAT +GCCGTTGGCAAAAGAGATCGATCCTAACAATAACCCCAGCTATGGTGTGCTTTGCGGTAT +GTCCATCATGGGGCTCAGTCTCGTCATTTTGCAGACGATAGGTATCGGTTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/nuc_to_be_aligned.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,90 @@ +>1 +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTGCATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGAAAATATTTGGCGTCAGTAAAATATTTCTTCATTAATCACA +TCT +>2 +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGGTGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGAAAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATCACA +TCT +>3 +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAGGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGAAAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATCACA +TCT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/out_of_order_fasta.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +>5555 +AAAAAAA +>3333 +GGGGGGG +>4444 +CCCCCCC +>2222 +TTTTTTT +>1111 +AAAAAAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/out_of_order_fasta.fa.sorted.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +>1111 +AAAAAAA +>2222 +TTTTTTT +>3333 +GGGGGGG +>4444 +CCCCCCC +>5555 +AAAAAAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/overall_gene_presence_absence.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,21 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","Min group size nuc","Max group size nuc","Avg group size nuc","query_1","query_2","query_5" +"hly","","Alpha-toxin","2","2","1","1","14","1","1","","959","959","959","1_1","05a85fcc1cbac7027ac3689992006154_1","" +"group_10","","hypothetical protein","2","2","1","1","6","1","11","","227","227","227","abc_00010","05a85fcc1cbac7027ac3689992006154_10","" +"group_11","","C4-dicarboxylate transporter/malic acid transport protein","2","2","1","1","5","1","10","","947","947","947","abc_00011","05a85fcc1cbac7027ac3689992006154_11","" +"group_12","","hypothetical protein","2","2","1","1","4","1","9","","188","188","188","abc_00012","05a85fcc1cbac7027ac3689992006154_12","" +"group_13","","Gonococcal growth inhibitor III","2","2","1","1","3","1","8","","134","134","134","abc_00014","05a85fcc1cbac7027ac3689992006154_14","" +"group_14","","Gonococcal growth inhibitor III","2","2","1","1","2","1","7","","134","134","134","1_6","05a85fcc1cbac7027ac3689992006154_15","" +"yfnB","","Putative HAD-hydrolase yfnB","2","2","1","1","1","1","6","","686","686","686","abc_00016","05a85fcc1cbac7027ac3689992006154_16","" +"group_2","","hypothetical protein","2","2","1","1","15","1","2","","146","146","146","abc_00002","05a85fcc1cbac7027ac3689992006154_2","" +"group_3","","hypothetical protein","2","2","1","1","13","1","3","","197","197","197","abc_00003","05a85fcc1cbac7027ac3689992006154_3","" +"group_4","","superantigen-like protein","2","2","1","1","12","1","4","","716","716","716","abc_00004","05a85fcc1cbac7027ac3689992006154_4","" +"speH","","hypothetical protein","2","2","1","1","11","1","5","","725","725","725","1_2","05a85fcc1cbac7027ac3689992006154_5","" +"group_6","","superantigen-like protein","2","2","1","1","10","1","15","","725","725","725","abc_00006","05a85fcc1cbac7027ac3689992006154_6","" +"argF","","Ornithine carbamoyltransferase","2","2","1","1","9","1","14","","1001","1001","1001","1_3","05a85fcc1cbac7027ac3689992006154_7","" +"arcC1","","Carbamate kinase 1","2","2","1","1","8","1","13","","935","935","935","abc_00008","05a85fcc1cbac7027ac3689992006154_8","" +"group_16","","hypothetical protein","1","1","1","2","6","2","3","","146","146","146","","","abc_50002" +"group_17","argF","Ornithine carbamoyltransferase","1","1","1","2","5","2","4","","1001","1001","1001","","","3_3" +"group_18","","hypothetical protein","1","1","1","2","4","2","5","","227","227","227","","","abc_50010" +"group_19","","hypothetical protein","1","1","1","2","3","2","6","","188","188","188","","","abc_50012" +"group_20","","Gonococcal growth inhibitor III","1","1","1","2","2","2","2","","134","134","134","","","abc_50014" +"group_21","yfnB","Putative HAD-hydrolase yfnB","1","1","1","2","1","2","1","","686","686","686","","","3_5"
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/pan_genome_sequences/argF.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,36 @@ +>1_3 +ATGAAAAATTTACGAAACAGAAGTTTTTTAACTTTATTAGACTTTTCACGACAAGAGGTA +GAATTCTTATTAACACTCTCCGAGGATTTAAAACGTGCTAAATATATTGGCACTGAAAAG +CCTATGTTAAAAAATAAAAATATTGCACTGTTATTTGAAAAAGATTCTACAAGAACGCGA +TGTGCATTTGAAGTTGCAGCGCATGATCAAGGTGCAAATGTAACTTATTTAGGCCCAACT +GGATCACAAATGGGTAAAAAAGAAACAACTAAAGATACTGCACGTGTGCTTGGTGGAATG +TATGATGGCATTGAATACCGTGGTTTTTCACAAAGAACAGTAGAAACTTTAGCTGAAAAT +TCAGGCGTACCAGTGTGGAATGGTTTAACTGATGAAGATCATCCTACTCAAGTTCTTGCT +GATTTCTTAACAGCAAAAGAAGTCTTAAAAAAAGATTATGCAGATATTAACTTTACATAT +GTTGGAGATGGTCGTAATAACGTTGCAAATGCATTAATGCAAGGTGCTGCCATTATGGGT +ATGAACTTCCATTTAGTTTGTCCAAAAGAATTAAATCCAACAGATGAATTATTAAATCGC +TGTAAAAATATTGCCGCTGAAAATGGTGGCAACATATTAATCACAGATGATATTGACCAA +GGTGTAAAAGGTTCGGATGTAATTTACACTGATGTTTGGGTATCAATGGGTGAACCTGAT +GAAGTATGGAAAGAACGACTTGAATTATTGAAACCATATCAAGTAAATAAAGAAATGATG +GATAAAACTGGTAATCCAAATGTTATTTTTGAGCATTGCTTACCATCTTTCCATAATGCT +GATACGAAAATTGGTCAACAAATTTTTGAAAAATATGGTATTCGAGAAATGGAAGTTACA +GATGAAGTATTCGAAAGTAAAGCTTCAGTTGTATTCCAAGAAGCTGAGAACAGAATGCAT +ACAATCAAAGCAGTCATGGTTGCTACATTGGGTGAATTTTAA +>3_3 +ATGAAAAATTTACGAAACAGAAGTTTTTTAACTTTATTAGACTTTTCACGACAAGAGGTA +GAATTCTTATTAACACTCTCCGAGGATTTAAAACGTGCTAAATATATTGGCACTGAAAAG +CCTATGTTAAAAAATAAAAATATTGCACTGTTATTTGAAAAAGATTCTACAAGAACGCGA +TGTGCATTTGAAGTTGCAGCGCATGATCAAGGTGCAAATGTAACTTATTTAGGCCCAACT +GGATCACAAATGGGTAAAAAAGAAACAACTAAAGATACTGCACGTGTGCTTGGTGGAATG +TATGATGGCATTGAATACCGTGGTTTTTCACAAAGAACAGTAGAAACTTTAGCTGAAAAT +TCAGGCGTACCAGTGTGGAATGGTTTAACTGATGAAGATCATCCTACTCAAGTTCTTGCT +GATTTCTTAACAGCAAAAGAAGTCTTAAAAAAAGATTATGCAGATATTAACTTTACATAT +GTTGGAGATGGTCGTAATAACGTTGCAAATGCATTAATGCAAGGTGCTGCCATTATGGGT +ATGAACTTCCATTTAGTTTGTCCAAAAGAATTAAATCCAACAGATGAATTATTAAATCGC +TGTAAAAATATTGCCGCTGAAAATGGTGGCAACATATTAATCACAGATGATATTGACCAA +GGTGTAAAAGGTTCGGATGTAATTTACACTGATGTTTGGGTATCAATGGGTGAACCTGAT +GAAGTATGGAAAGAACGACTTGAATTATTGAAACCATATCAAGTAAATAAAGAAATGATG +GATAAAACTGGTAATCCAAATGTTATTTTTGAGCATTGCTTACCATCTTTCCATAATGCT +GATACGAAAATTGGTCAACAAATTTTTGAAAAATATGGTATTCGAGAAATGGAAGTTACA +GATGAAGTATTCGAAAGTAAAGCTTCAGTTGTATTCCAAGAAGCTGAGAACAGAATGCAT +ACAATCAAAGCAGTCATGGTTGCTACATTGGGTGAATTTTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/pan_genome_sequences/hly.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,51 @@ +>1_1 +ATGAAAACACGTATAGTCAGCTCAGTAACAACAACACTATTGCTAGGTTCCATATTAATG +AATCCTGTCGCTAATGCCGCAGATTCTGATATTAATATTAAAACCGGTACTACAGATATT +GGAAGCAATACTACAGTAAAAACAGGTGATTTAGTCACTTATGATAAAGAAAATGGCATG +CACAAAAAAGTATTTTATAGTTTTATCGATGATAAAAATCACAATAAAAAACTGCTAGTT +ATTAGAACGAAAGGTACCATTGCTGGTCAATATAGAGTTTATAGCGAAGAAGGTGCTAAC +AAAAGTGGTTTAGCCTGGCCTTCAGCCTTTAAGGTACAGTTGCAACTACCTGATAATGAA +GTAGCTCAAATATCTGATTACTATCCAAGAAATTCGATTGATACAAAAGAGTATATGAGT +ACTTTAACTTATGGATTCAACGGTAATGTTACTGGTGATGATACAGGAAAAATTGGCGGC +CTTATTGGTGCAAATGTTTCGATTGGTCATACACTGAAATATGTTCAACCTGATTTCAAA +ACAATTTTAGAGAGCCCAACTGATAAAAAAGTAGGCTGGAAAGTGATATTTAACAATATG +GTGAATCAAAATTGGGGACCATATGATAGAGATTCTTGGAACCCGGTATATGGCAATCAA +CTTTTCATGAAAACTAGAAATGGTTCTATGAAAGCAGCAGAGAACTTCCTTGATCCTAAC +AAAGCAAGTTCTCTATTATCTTCAGGGTTTTCACCAGACTTCGCTACAGTTATTACTATG +GATAGAAAAGCATCCAAACAACAAACAAATATAGATGTAATATACGAACGAGTTCGTGAT +GACTACCAATTGCATTGGACTTCAACAAATTGGAAAGGTACCAATACTAAAGATAAATGG +ACAGATCGTTCTTCAGAAAGATATAAAATCGATTGGGAAAAAGAAGAAATGACAAATTAA +>2_1 +ATGAAAACACGTATAGTCAGCTCAGTAACAACAACACTATTGCTAGGTTCCATATTAATG +AATCCTGTCGCTAATGCCGCAGATTCTGATATTAATATTAAAACCGGTACTACAGATATT +GGAAGCAATACTACAGTAAAAACAGGTGATTTAGTCACTTATGATAAAGAAAATGGCATG +CACAAAAAAGTATTTTATAGTTTTATCGATGATAAAAATCACAATAAAAAACTGCTAGTT +ATTAGAACGAAAGGTACCATTGCTGGTCAATATAGAGTTTATAGCGAAGAAGGTGCTAAC +AAAAGTGGTTTAGCCTGGCCTTCAGCCTTTAAGGTACAGTTGCAACTACCTGATAATGAA +GTAGCTCAAATATCTGATTACTATCCAAGAAATTCGATTGATACAAAAGAGTATATGAGT +ACTTTAACTTATGGATTCAACGGTAATGTTACTGGTGATGATACAGGAAAAATTGGCGGC +CTTATTGGTGCAAATGTTTCGATTGGTCATACACTGAAATATGTTCAACCTGATTTCAAA +ACAATTTTAGAGAGCCCAACTGATAAAAAAGTAGGCTGGAAAGTGATATTTAACAATATG +GTGAATCAAAATTGGGGACCATATGATAGAGATTCTTGGAACCCGGTATATGGCAATCAA +CTTTTCATGAAAACTAGAAATGGTTCTATGAAAGCAGCAGAGAACTTCCTTGATCCTAAC +AAAGCAAGTTCTCTATTATCTTCAGGGTTTTCACCAGACTTCGCTACAGTTATTACTATG +GATAGAAAAGCATCCAAACAACAAACAAATATAGATGTAATATACGAACGAGTTCGTGAT +GACTACCAATTGCATTGGACTTCAACAAATTGGAAAGGTACCAATACTAAAGATAAATGG +ACAGATCGTTCTTCAGAAAGATATAAAATCGATTGGGAAAAAGAAGAAATGACAAATTAA +>3_1 +ATGAAAACACGTATAGTCAGCTCAGTAACAACAACACTATTGCTAGGTTCCATATTAATG +AATCCTGTCGCTAATGCCGCAGATTCTGATATTAATATTAAAACCGGTACTACAGATATT +GGAAGCAATACTACAGTAAAAACAGGTGATTTAGTCACTTATGATAAAGAAAATGGCATG +CACAAAAAAGTATTTTATAGTTTTATCGATGATAAAAATCACAATAAAAAACTGCTAGTT +ATTAGAACGAAAGGTACCATTGCTGGTCAATATAGAGTTTATAGCGAAGAAGGTGCTAAC +AAAAGTGGTTTAGCCTGGCCTTCAGCCTTTAAGGTACAGTTGCAACTACCTGATAATGAA +GTAGCTCAAATATCTGATTACTATCCAAGAAATTCGATTGATACAAAAGAGTATATGAGT +ACTTTAACTTATGGATTCAACGGTAATGTTACTGGTGATGATACAGGAAAAATTGGCGGC +CTTATTGGTGCAAATGTTTCGATTGGTCATACACTGAAATATGTTCAACCTGATTTCAAA +ACAATTTTAGAGAGCCCAACTGATAAAAAAGTAGGCTGGAAAGTGATATTTAACAATATG +GTGAATCAAAATTGGGGACCATATGATAGAGATTCTTGGAACCCGGTATATGGCAATCAA +CTTTTCATGAAAACTAGAAATGGTTCTATGAAAGCAGCAGAGAACTTCCTTGATCCTAAC +AAAGCAAGTTCTCTATTATCTTCAGGGTTTTCACCAGACTTCGCTACAGTTATTACTATG +GATAGAAAAGCATCCAAACAACAAACAAATATAGATGTAATATACGAACGAGTTCGTGAT +GACTACCAATTGCATTGGACTTCAACAAATTGGAAAGGTACCAATACTAAAGATAAATGG +ACAGATCGTTCTTCAGAAAGATATAAAATCGATTGGGAAAAAGAAGAAATGACAAATTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/pan_genome_sequences/speH.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,28 @@ +>1_2 +ATGAACAATAACATCACGAAAAAAATTATTTTATCAACAACATTGTTACTATTAGGTACA +GCATTTACACAATTTCCTAATACACCTATCAATTCTTCATCTGAAGCGAAAGCTTATTAT +ATAAATCAAAACGAAACTAACGTTAATGAGTTAACTAAATATTACTCGCAAAAATATTTA +ACCTTCTCTAACAGTACGTTATGGCAAAAAGATAACGGTACGATTCATGCAACGTTGTTA +CAGTTTTCTTGGTATAGTCATATTCAAGTTTATGGACCTGAAAGTTGGGGCAATATCAAC +CAATTAAGAAATAAAAGCGTTGATATTTTTGGCATAAAAGACCAAGAAACCATTGATTCT +TTTGCATTATCTCAAGAAACGTTTACTGGTGGTGTTACTCCTGCAGCAACATCTAACGAT +AAACACTATAAACTGAATGTAACATATAAAGATAAAGCAGAAACGTTTACTGGCGGATTT +CCAGTTTATGAAGGCAATAAGCCTGTTTTAACTTTAAAAGAATTAGATTTTCGTATTCGT +CAAACATTAATTAAAAGTAAAAAATTATATAATAATTCTTATAATAAAGGACAAATTAAA +ATAACAGGTACAGACAATAACTACACAATAGATTTAAGTAAAAGGTTGCCATCAACTGAT +GCAAATAGATATGTTAAAAAACCTCAAAATGCAAAAATTGAAGTTATCCTCGAAAAATCA +AACTAA +>2_2 +ATGAACAATAACATCACGAAAAAAATTATTTTATCAACAACATTGTTACTATTAGGTACA +GCATTTACACAATTTCCTAATACACCTATCAATTCTTCATCTGAAGCGAAAGCTTATTAT +ATAAATCAAAACGAAACTAACGTTAATGAGTTAACTAAATATTACTCGCAAAAATATTTA +ACCTTCTCTAACAGTACGTTATGGCAAAAAGATAACGGTACGATTCATGCAACGTTGTTA +CAGTTTTCTTGGTATAGTCATATTCAAGTTTATGGACCTGAAAGTTGGGGCAATATCAAC +CAATTAAGAAATAAAAGCGTTGATATTTTTGGCATAAAAGACCAAGAAACCATTGATTCT +TTTGCATTATCTCAAGAAACGTTTACTGGTGGTGTTACTCCTGCAGCAACATCTAACGAT +AAACACTATAAACTGAATGTAACATATAAAGATAAAGCAGAAACGTTTACTGGCGGATTT +CCAGTTTATGAAGGCAATAAGCCTGTTTTAACTTTAAAAGAATTAGATTTTCGTATTCGT +CAAACATTAATTAAAAGTAAAAAATTATATAATAATTCTTATAATAAAGGACAAATTAAA +ATAACAGGTACAGACAATAACTACACAATAGATTTAAGTAAAAGGTTGCCATCAACTGAT +GCAAATAGATATGTTAAAAAACCTCAAAATGCAAAAATTGAAGTTATCCTCGAAAAATCA +AACTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis/_clustered.clstr Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,55 @@ +>Cluster 0 +0 518aa, >abc_01705... * +1 518aa, >abc_01705... at 100.00% +>Cluster 1 +0 333aa, >1_3... * +1 333aa, >2_3... at 100.00% +>Cluster 2 +0 333aa, >3_3... * +>Cluster 3 +0 319aa, >1_1... * +1 319aa, >2_1... at 100.00% +>Cluster 4 +0 315aa, >abc_00011... * +1 315aa, >abc_00011... at 100.00% +>Cluster 5 +0 311aa, >abc_00008... * +1 311aa, >abc_00008... at 100.00% +>Cluster 6 +0 241aa, >1_2... * +1 241aa, >2_2... at 100.00% +>Cluster 7 +0 241aa, >abc_00006... * +1 241aa, >abc_00006... at 100.00% +>Cluster 8 +0 238aa, >abc_00004... * +1 238aa, >abc_00004... at 100.00% +>Cluster 9 +0 228aa, >abc_00016... * +1 228aa, >abc_00016... at 100.00% +>Cluster 10 +0 228aa, >3_5... * +>Cluster 11 +0 75aa, >abc_00010... * +1 75aa, >abc_00010... at 100.00% +>Cluster 12 +0 65aa, >abc_00003... * +1 65aa, >abc_00003... at 100.00% +>Cluster 13 +0 62aa, >abc_00012... * +1 62aa, >abc_00012... at 100.00% +>Cluster 14 +0 62aa, >abc_00012... * +>Cluster 15 +0 49aa, >abc_00002... * +>Cluster 16 +0 48aa, >abc_00002... * +1 48aa, >abc_00002... at 100.00% +>Cluster 17 +0 45aa, >abc_00014... * +>Cluster 18 +0 44aa, >abc_00014... * +1 44aa, >abc_00014... at 100.00% +>Cluster 19 +0 44aa, >1_6... * +1 44aa, >2_7... at 100.00%
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis/_combined_files Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,169 @@ +>1_1 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00003 +MTELNNIINSLQSLFESESGYKISKNSGVPYQTVQDLRNGKTKLEDARFRTIIKLYSYYV +SLKEH* +>abc_00004 +MSKNITKNIILTTTLLLLGTVLPQNQKPVFSFYSEAKAYSIGQDETNINELIKYYTQPHF +SFSNKWLYQYDNGNIYVELKRYSWSAHISLWGAESWGNINQLKDRYVDVFGLKDKDTDQL +WWSYRETFTGGVTPAAKPSDKTYNLFVQYKDKLQTIIGAHKIYQGNKPVLTLKEIDFRAR +EALIKNKILYTENRNKGKLKITGGGNNYTIDLSKRLHSDLANVYVKNPNKITVDVLFD* +>1_2 +MNNNITKKIILSTTLLLLGTAFTQFPNTPINSSSEAKAYYINQNETNVNELTKYYSQKYL +TFSNSTLWQKDNGTIHATLLQFSWYSHIQVYGPESWGNINQLRNKSVDIFGIKDQETIDS +FALSQETFTGGVTPAATSNDKHYKLNVTYKDKAETFTGGFPVYEGNKPVLTLKELDFRIR +QTLIKSKKLYNNSYNKGQIKITGTDNNYTIDLSKRLPSTDANRYVKKPQNAKIEVILEKS +N* +>abc_00006 +MKKNIMNKLVLSTALLLLGTTSTQLPKTPISFSSEAKAYNISENETNINELIKYYTQPHF +SLSGKWLWQKPNGSIHATLQTWVWYSHIQVFGSESWGNINQLRNKYVDIFGTKDEDTVEG +YWTYDETFTGGVTPAATSSDKPYRLFLKYSDKQQTIIGGHEFYKGNKPVLTLKELDFRIR +QTLIKNKKLYNGEFNKGQIKITADGNNYTIDLSKKLKLTDTNRYVKNPKNAQIEVILEKS +N* +>1_3 +MKNLRNRSFLTLLDFSRQEVEFLLTLSEDLKRAKYIGTEKPMLKNKNIALLFEKDSTRTR +CAFEVAAHDQGANVTYLGPTGSQMGKKETTKDTARVLGGMYDGIEYRGFSQRTVETLAEN +SGVPVWNGLTDEDHPTQVLADFLTAKEVLKKDYADINFTYVGDGRNNVANALMQGAAIMG +MNFHLVCPKELNPTDELLNRCKNIAAENGGNILITDDIDQGVKGSDVIYTDVWVSMGEPD +EVWKERLELLKPYQVNKEMMDKTGNPNVIFEHCLPSFHNADTKIGQQIFEKYGIREMEVT +DEVFESKASVVFQEAENRMHTIKAVMVATLGEF* +>abc_00008 +MMAKIVVALGGNALGKSPQEQLELVKNTAKSLVGLITKGHEIVISHGNGPQVGSINLGLN +YAAEHNQGPAFPFAECGAMSQAYIGYQLQESLQNELHSIGMDKQVVTLVTQVEVDENDPA +FNNPSKPIGLFYNKEEAEQIQKEKGFIFVEDAGRGYRRVVPSPQPISIIELESIKTLIKN +DTLVIAAGGGGIPVIREQHDGFKGIDAVIDKDKTSALLGANIQCDQLIILTAIDYVYINF +NTENQQPLKTTNVDELKRYIDENQFAKGSMLPKIEAAISFIENNPKGSVLITSLNELDAA +LEGKVGTVIKK* +>abc_01705 +VENTINESEKKKRFKLKMPGAFMILFILTVVAVIATWVIPAGAYSKLSYEPSSQELKIVN +PHNQVKKVPGTQQELDKMGVKIKIEQFKSGAINKPVSIPNTYERLKQHPAGPEQITSSMV +EGTIEAVDIMVFILVLGGLIGVVQASGSFESGLLALTKKTKGHEFMLIVFVSILMIIGGT +LCGIEEEAVAFYPILVPIFIALGYDSIVSVGAIFLASSVGSTFSTINPFSVVIASNAAGT +TFTDGLYWRIGACIVGAIFVISYLYWYCKKIKNDPKASYSYEDKDAFEQQWSVLKDDDSA +HFTLRKKIILTLFVLPFPIMVWGVMTQGWWFPVMASAFLIFTIIIMFIAGTGKSGLGEKG +TVDAFVNGASSLVGVSLIIGLARGINLVLNEGMISDTILHFSSSLVQHMSGPLFIIVLLF +IFFCLGFIVPSSSGLAVLSMPIFAPLADTVGIPRFVIVTTYQFGQYAMLFLAPTGLVMAT +LQMLNMRYSHWFRFVWPVVAFVLIFGGGVLITQVLIYS* +>abc_00010 +MTHLTKVLDTLTGICVVLLFSKYFVAYANMVFDWNLRWYLLENIPHLPIILFILMFIFGV +PSEMIKDRQRKNNGV* +>abc_00011 +MRLQKAPLVTSGLVLGLLGLGNLLKDLSLTLNAVCGIFAFLIWIHLLCTMIKYFNNVKEQ +LNSPLVSSVFTTFFMSGFLGTTYLNTFFSNITFINSLITPIWILCLVGIMTHMIIFSIKY +LKDFSLENVYPSWTVLFIGIAIAGLTAPVSGCFFIGQLTVIYGFVATCIVLPIVFKRLKA +FPLQTSIKPNTSTICAPFSLVAAAYVIAFPKANAFIVIIFLILAQIFYFYIIIQLPKLLK +EPFSPVFSAFTFPLVISATALKNSLPVLMFPDIWKGLLFIEVLLATVIVLRVFIGYLHFF +LKKENQDKFLRNASQ* +>abc_00012 +MRNQIQKLLDSDLSSLHISKQTGVPQSTIHRMRKKERSLDNMSLKNAELLYKFANSIFSN +EN* +>abc_00014 +MEGLFNAIKDTVTAAINNDGAKLGTSIVSIVENGVGLLGKLFGF* +>1_6 +MTGLAEAIANTVQAAQQHDSVKLGTSIVDIVANGVGLLGKLFGF* +>abc_00016 +LGYKNILIDFDDTIVDFYDAEEWAFHYMANVFNHKATKDDFLTFKKINHQHWEAFQQNKL +TKSEVLSERFVNYFKHHQMEVDGHRADVLFRNGLAEAKVKYFDQTLETIVELSKRHDLYI +VTNGVTETQKRRLNQTPLHKYIKKIFISEETGYQKPNPEFFNYVFNDIGEDERQHSIIVG +DSLTSDILGGINAGIATCWFNFRGFDHNPGIIPDYEINSWKQLNDIVR* +>2_1 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00003 +MTELNNIINSLQSLFESESGYKISKNSGVPYQTVQDLRNGKTKLEDARFRTIIKLYSYYV +SLKEH* +>abc_00004 +MSKNITKNIILTTTLLLLGTVLPQNQKPVFSFYSEAKAYSIGQDETNINELIKYYTQPHF +SFSNKWLYQYDNGNIYVELKRYSWSAHISLWGAESWGNINQLKDRYVDVFGLKDKDTDQL +WWSYRETFTGGVTPAAKPSDKTYNLFVQYKDKLQTIIGAHKIYQGNKPVLTLKEIDFRAR +EALIKNKILYTENRNKGKLKITGGGNNYTIDLSKRLHSDLANVYVKNPNKITVDVLFD* +>2_2 +MNNNITKKIILSTTLLLLGTAFTQFPNTPINSSSEAKAYYINQNETNVNELTKYYSQKYL +TFSNSTLWQKDNGTIHATLLQFSWYSHIQVYGPESWGNINQLRNKSVDIFGIKDQETIDS +FALSQETFTGGVTPAATSNDKHYKLNVTYKDKAETFTGGFPVYEGNKPVLTLKELDFRIR +QTLIKSKKLYNNSYNKGQIKITGTDNNYTIDLSKRLPSTDANRYVKKPQNAKIEVILEKS +N* +>abc_00006 +MKKNIMNKLVLSTALLLLGTTSTQLPKTPISFSSEAKAYNISENETNINELIKYYTQPHF +SLSGKWLWQKPNGSIHATLQTWVWYSHIQVFGSESWGNINQLRNKYVDIFGTKDEDTVEG +YWTYDETFTGGVTPAATSSDKPYRLFLKYSDKQQTIIGGHEFYKGNKPVLTLKELDFRIR +QTLIKNKKLYNGEFNKGQIKITADGNNYTIDLSKKLKLTDTNRYVKNPKNAQIEVILEKS +N* +>2_3 +MKNLRNRSFLTLLDFSRQEVEFLLTLSEDLKRAKYIGTEKPMLKNKNIALLFEKDSTRTR +CAFEVAAHDQGANVTYLGPTGSQMGKKETTKDTARVLGGMYDGIEYRGFSQRTVETLAEN +SGVPVWNGLTDEDHPTQVLADFLTAKEVLKKDYADINFTYVGDGRNNVANALMQGAAIMG +MNFHLVCPKELNPTDELLNRCKNIAAENGGNILITDDIDQGVKGSDVIYTDVWVSMGEPD +EVWKERLELLKPYQVNKEMMDKTGNPNVIFEHCLPSFHNADTKIGQQIFEKYGIREMEVT +DEVFESKASVVFQEAENRMHTIKAVMVATLGEF* +>abc_00008 +MMAKIVVALGGNALGKSPQEQLELVKNTAKSLVGLITKGHEIVISHGNGPQVGSINLGLN +YAAEHNQGPAFPFAECGAMSQAYIGYQLQESLQNELHSIGMDKQVVTLVTQVEVDENDPA +FNNPSKPIGLFYNKEEAEQIQKEKGFIFVEDAGRGYRRVVPSPQPISIIELESIKTLIKN +DTLVIAAGGGGIPVIREQHDGFKGIDAVIDKDKTSALLGANIQCDQLIILTAIDYVYINF +NTENQQPLKTTNVDELKRYIDENQFAKGSMLPKIEAAISFIENNPKGSVLITSLNELDAA +LEGKVGTVIKK* +>abc_01705 +VENTINESEKKKRFKLKMPGAFMILFILTVVAVIATWVIPAGAYSKLSYEPSSQELKIVN +PHNQVKKVPGTQQELDKMGVKIKIEQFKSGAINKPVSIPNTYERLKQHPAGPEQITSSMV +EGTIEAVDIMVFILVLGGLIGVVQASGSFESGLLALTKKTKGHEFMLIVFVSILMIIGGT +LCGIEEEAVAFYPILVPIFIALGYDSIVSVGAIFLASSVGSTFSTINPFSVVIASNAAGT +TFTDGLYWRIGACIVGAIFVISYLYWYCKKIKNDPKASYSYEDKDAFEQQWSVLKDDDSA +HFTLRKKIILTLFVLPFPIMVWGVMTQGWWFPVMASAFLIFTIIIMFIAGTGKSGLGEKG +TVDAFVNGASSLVGVSLIIGLARGINLVLNEGMISDTILHFSSSLVQHMSGPLFIIVLLF +IFFCLGFIVPSSSGLAVLSMPIFAPLADTVGIPRFVIVTTYQFGQYAMLFLAPTGLVMAT +LQMLNMRYSHWFRFVWPVVAFVLIFGGGVLITQVLIYS* +>abc_00010 +MTHLTKVLDTLTGICVVLLFSKYFVAYANMVFDWNLRWYLLENIPHLPIILFILMFIFGV +PSEMIKDRQRKNNGV* +>abc_00011 +MRLQKAPLVTSGLVLGLLGLGNLLKDLSLTLNAVCGIFAFLIWIHLLCTMIKYFNNVKEQ +LNSPLVSSVFTTFFMSGFLGTTYLNTFFSNITFINSLITPIWILCLVGIMTHMIIFSIKY +LKDFSLENVYPSWTVLFIGIAIAGLTAPVSGCFFIGQLTVIYGFVATCIVLPIVFKRLKA +FPLQTSIKPNTSTICAPFSLVAAAYVIAFPKANAFIVIIFLILAQIFYFYIIIQLPKLLK +EPFSPVFSAFTFPLVISATALKNSLPVLMFPDIWKGLLFIEVLLATVIVLRVFIGYLHFF +LKKENQDKFLRNASQ* +>abc_00012 +MRNQIQKLLDSDLSSLHISKQTGVPQSTIHRMRKKERSLDNMSLKNAELLYKFANSIFSN +EN* +>abc_00014 +MEGLFNAIKDTVTAAINNDGAKLGTSIVSIVENGVGLLGKLFGF* +>2_7 +MTGLAEAIANTVQAAQQHDSVKLGTSIVDIVANGVGLLGKLFGF* +>abc_00016 +LGYKNILIDFDDTIVDFYDAEEWAFHYMANVFNHKATKDDFLTFKKINHQHWEAFQQNKL +TKSEVLSERFVNYFKHHQMEVDGHRADVLFRNGLAEAKVKYFDQTLETIVELSKRHDLYI +VTNGVTETQKRRLNQTPLHKYIKKIFISEETGYQKPNPEFFNYVFNDIGEDERQHSIIVG +DSLTSDILGGINAGIATCWFNFRGFDHNPGIIPDYEINSWKQLNDIVR* +>abc_00002 +MKLFFIVSLTIIWGDIFLGNEIIHLLTALTTTLGVVNSRKGIKNFRVAQ +>3_3 +LTNLRGGSFLTILDFSLQEAQSLLTGAEDLKSAKYIFTETPTLKNGDIALLIEKDSLRTP +RAFEVGAHDQGTNVTYLGPTRSQMGGEETTKNTARVFGGTHAGIEGGGFSQRTVETLAET +PAVPVGDGLTDKDHPTLVLAHSLTAGEVLKKNYADIFFTSLADGRGDVANAIMQGAFIMA +LTFHLGGPKELNPTDDLLNPRTNIAGENGGNILITDFIDPRAKGSGVIYTDIWVSIFEPA +QAWKEGVELLKTYQVNLEMTHTTGNGDVIFENCLPSFHNAHTKIGGEIFEKNGIRDLEVT +HAVFEGEASVVIQEADFRMPPTKAVGVATLGKF* +>abc_00012 +MRNQNQKLLFSDFPSLHIWGQTGVQQSTIFRMSPNERSWGNMSLKNAELFYKFPNSIFRG +EN* +>abc_00014 +MEGLFFAITHTVTAGVNNDGTKLGTFIVTLAENGGGLLGKIFGFY +>3_5 +LGGKNILKDFDDFIVDPYDAEGGAFHYKANVFFHKAPNDDFWGFKKINHQHWFAFHPNKL +TRGEVLSERFVNFFKHPHMEVGGHRADELFRNFLADPNVKYWGQTLEKIVELFKRHPFYI +VRGGVTEKQKRRFNQTPFHKYRGKIFIYEETGFQKPPPEFFRGVFNDNGEDEFQHSPIVG +DWGTSDIQGGINFGIAPCWFNWGGFDHNPGIIFDYDPNSWKRGNDIVH*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis/_fasta_files Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,3 @@ +query_1.gff.proteome.faa +query_2.gff.proteome.faa +query_6.gff.proteome.faa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis/_gff_files Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,3 @@ +t/data/query_1.gff +t/data/query_2.gff +t/data/query_6.gff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis/query_1.gff.proteome.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,75 @@ +>1_1 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00003 +MTELNNIINSLQSLFESESGYKISKNSGVPYQTVQDLRNGKTKLEDARFRTIIKLYSYYV +SLKEH* +>abc_00004 +MSKNITKNIILTTTLLLLGTVLPQNQKPVFSFYSEAKAYSIGQDETNINELIKYYTQPHF +SFSNKWLYQYDNGNIYVELKRYSWSAHISLWGAESWGNINQLKDRYVDVFGLKDKDTDQL +WWSYRETFTGGVTPAAKPSDKTYNLFVQYKDKLQTIIGAHKIYQGNKPVLTLKEIDFRAR +EALIKNKILYTENRNKGKLKITGGGNNYTIDLSKRLHSDLANVYVKNPNKITVDVLFD* +>1_2 +MNNNITKKIILSTTLLLLGTAFTQFPNTPINSSSEAKAYYINQNETNVNELTKYYSQKYL +TFSNSTLWQKDNGTIHATLLQFSWYSHIQVYGPESWGNINQLRNKSVDIFGIKDQETIDS +FALSQETFTGGVTPAATSNDKHYKLNVTYKDKAETFTGGFPVYEGNKPVLTLKELDFRIR +QTLIKSKKLYNNSYNKGQIKITGTDNNYTIDLSKRLPSTDANRYVKKPQNAKIEVILEKS +N* +>abc_00006 +MKKNIMNKLVLSTALLLLGTTSTQLPKTPISFSSEAKAYNISENETNINELIKYYTQPHF +SLSGKWLWQKPNGSIHATLQTWVWYSHIQVFGSESWGNINQLRNKYVDIFGTKDEDTVEG +YWTYDETFTGGVTPAATSSDKPYRLFLKYSDKQQTIIGGHEFYKGNKPVLTLKELDFRIR +QTLIKNKKLYNGEFNKGQIKITADGNNYTIDLSKKLKLTDTNRYVKNPKNAQIEVILEKS +N* +>1_3 +MKNLRNRSFLTLLDFSRQEVEFLLTLSEDLKRAKYIGTEKPMLKNKNIALLFEKDSTRTR +CAFEVAAHDQGANVTYLGPTGSQMGKKETTKDTARVLGGMYDGIEYRGFSQRTVETLAEN +SGVPVWNGLTDEDHPTQVLADFLTAKEVLKKDYADINFTYVGDGRNNVANALMQGAAIMG +MNFHLVCPKELNPTDELLNRCKNIAAENGGNILITDDIDQGVKGSDVIYTDVWVSMGEPD +EVWKERLELLKPYQVNKEMMDKTGNPNVIFEHCLPSFHNADTKIGQQIFEKYGIREMEVT +DEVFESKASVVFQEAENRMHTIKAVMVATLGEF* +>abc_00008 +MMAKIVVALGGNALGKSPQEQLELVKNTAKSLVGLITKGHEIVISHGNGPQVGSINLGLN +YAAEHNQGPAFPFAECGAMSQAYIGYQLQESLQNELHSIGMDKQVVTLVTQVEVDENDPA +FNNPSKPIGLFYNKEEAEQIQKEKGFIFVEDAGRGYRRVVPSPQPISIIELESIKTLIKN +DTLVIAAGGGGIPVIREQHDGFKGIDAVIDKDKTSALLGANIQCDQLIILTAIDYVYINF +NTENQQPLKTTNVDELKRYIDENQFAKGSMLPKIEAAISFIENNPKGSVLITSLNELDAA +LEGKVGTVIKK* +>abc_01705 +VENTINESEKKKRFKLKMPGAFMILFILTVVAVIATWVIPAGAYSKLSYEPSSQELKIVN +PHNQVKKVPGTQQELDKMGVKIKIEQFKSGAINKPVSIPNTYERLKQHPAGPEQITSSMV +EGTIEAVDIMVFILVLGGLIGVVQASGSFESGLLALTKKTKGHEFMLIVFVSILMIIGGT +LCGIEEEAVAFYPILVPIFIALGYDSIVSVGAIFLASSVGSTFSTINPFSVVIASNAAGT +TFTDGLYWRIGACIVGAIFVISYLYWYCKKIKNDPKASYSYEDKDAFEQQWSVLKDDDSA +HFTLRKKIILTLFVLPFPIMVWGVMTQGWWFPVMASAFLIFTIIIMFIAGTGKSGLGEKG +TVDAFVNGASSLVGVSLIIGLARGINLVLNEGMISDTILHFSSSLVQHMSGPLFIIVLLF +IFFCLGFIVPSSSGLAVLSMPIFAPLADTVGIPRFVIVTTYQFGQYAMLFLAPTGLVMAT +LQMLNMRYSHWFRFVWPVVAFVLIFGGGVLITQVLIYS* +>abc_00010 +MTHLTKVLDTLTGICVVLLFSKYFVAYANMVFDWNLRWYLLENIPHLPIILFILMFIFGV +PSEMIKDRQRKNNGV* +>abc_00011 +MRLQKAPLVTSGLVLGLLGLGNLLKDLSLTLNAVCGIFAFLIWIHLLCTMIKYFNNVKEQ +LNSPLVSSVFTTFFMSGFLGTTYLNTFFSNITFINSLITPIWILCLVGIMTHMIIFSIKY +LKDFSLENVYPSWTVLFIGIAIAGLTAPVSGCFFIGQLTVIYGFVATCIVLPIVFKRLKA +FPLQTSIKPNTSTICAPFSLVAAAYVIAFPKANAFIVIIFLILAQIFYFYIIIQLPKLLK +EPFSPVFSAFTFPLVISATALKNSLPVLMFPDIWKGLLFIEVLLATVIVLRVFIGYLHFF +LKKENQDKFLRNASQ* +>abc_00012 +MRNQIQKLLDSDLSSLHISKQTGVPQSTIHRMRKKERSLDNMSLKNAELLYKFANSIFSN +EN* +>abc_00014 +MEGLFNAIKDTVTAAINNDGAKLGTSIVSIVENGVGLLGKLFGF* +>1_6 +MTGLAEAIANTVQAAQQHDSVKLGTSIVDIVANGVGLLGKLFGF* +>abc_00016 +LGYKNILIDFDDTIVDFYDAEEWAFHYMANVFNHKATKDDFLTFKKINHQHWEAFQQNKL +TKSEVLSERFVNYFKHHQMEVDGHRADVLFRNGLAEAKVKYFDQTLETIVELSKRHDLYI +VTNGVTETQKRRLNQTPLHKYIKKIFISEETGYQKPNPEFFNYVFNDIGEDERQHSIIVG +DSLTSDILGGINAGIATCWFNFRGFDHNPGIIPDYEINSWKQLNDIVR*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis/query_2.gff.proteome.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,75 @@ +>2_1 +MKTRIVSSVTTTLLLGSILMNPVANAADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGM +HKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNE +VAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFK +TILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAAENFLDPN +KASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKW +TDRSSERYKIDWEKEEMTN* +>abc_00002 +MKLFYIVFLIIIWLNIFLGNEIIHTLTVLITTLYIVNSRKGIKNDRVE* +>abc_00003 +MTELNNIINSLQSLFESESGYKISKNSGVPYQTVQDLRNGKTKLEDARFRTIIKLYSYYV +SLKEH* +>abc_00004 +MSKNITKNIILTTTLLLLGTVLPQNQKPVFSFYSEAKAYSIGQDETNINELIKYYTQPHF +SFSNKWLYQYDNGNIYVELKRYSWSAHISLWGAESWGNINQLKDRYVDVFGLKDKDTDQL +WWSYRETFTGGVTPAAKPSDKTYNLFVQYKDKLQTIIGAHKIYQGNKPVLTLKEIDFRAR +EALIKNKILYTENRNKGKLKITGGGNNYTIDLSKRLHSDLANVYVKNPNKITVDVLFD* +>2_2 +MNNNITKKIILSTTLLLLGTAFTQFPNTPINSSSEAKAYYINQNETNVNELTKYYSQKYL +TFSNSTLWQKDNGTIHATLLQFSWYSHIQVYGPESWGNINQLRNKSVDIFGIKDQETIDS +FALSQETFTGGVTPAATSNDKHYKLNVTYKDKAETFTGGFPVYEGNKPVLTLKELDFRIR +QTLIKSKKLYNNSYNKGQIKITGTDNNYTIDLSKRLPSTDANRYVKKPQNAKIEVILEKS +N* +>abc_00006 +MKKNIMNKLVLSTALLLLGTTSTQLPKTPISFSSEAKAYNISENETNINELIKYYTQPHF +SLSGKWLWQKPNGSIHATLQTWVWYSHIQVFGSESWGNINQLRNKYVDIFGTKDEDTVEG +YWTYDETFTGGVTPAATSSDKPYRLFLKYSDKQQTIIGGHEFYKGNKPVLTLKELDFRIR +QTLIKNKKLYNGEFNKGQIKITADGNNYTIDLSKKLKLTDTNRYVKNPKNAQIEVILEKS +N* +>2_3 +MKNLRNRSFLTLLDFSRQEVEFLLTLSEDLKRAKYIGTEKPMLKNKNIALLFEKDSTRTR +CAFEVAAHDQGANVTYLGPTGSQMGKKETTKDTARVLGGMYDGIEYRGFSQRTVETLAEN +SGVPVWNGLTDEDHPTQVLADFLTAKEVLKKDYADINFTYVGDGRNNVANALMQGAAIMG +MNFHLVCPKELNPTDELLNRCKNIAAENGGNILITDDIDQGVKGSDVIYTDVWVSMGEPD +EVWKERLELLKPYQVNKEMMDKTGNPNVIFEHCLPSFHNADTKIGQQIFEKYGIREMEVT +DEVFESKASVVFQEAENRMHTIKAVMVATLGEF* +>abc_00008 +MMAKIVVALGGNALGKSPQEQLELVKNTAKSLVGLITKGHEIVISHGNGPQVGSINLGLN +YAAEHNQGPAFPFAECGAMSQAYIGYQLQESLQNELHSIGMDKQVVTLVTQVEVDENDPA +FNNPSKPIGLFYNKEEAEQIQKEKGFIFVEDAGRGYRRVVPSPQPISIIELESIKTLIKN +DTLVIAAGGGGIPVIREQHDGFKGIDAVIDKDKTSALLGANIQCDQLIILTAIDYVYINF +NTENQQPLKTTNVDELKRYIDENQFAKGSMLPKIEAAISFIENNPKGSVLITSLNELDAA +LEGKVGTVIKK* +>abc_01705 +VENTINESEKKKRFKLKMPGAFMILFILTVVAVIATWVIPAGAYSKLSYEPSSQELKIVN +PHNQVKKVPGTQQELDKMGVKIKIEQFKSGAINKPVSIPNTYERLKQHPAGPEQITSSMV +EGTIEAVDIMVFILVLGGLIGVVQASGSFESGLLALTKKTKGHEFMLIVFVSILMIIGGT +LCGIEEEAVAFYPILVPIFIALGYDSIVSVGAIFLASSVGSTFSTINPFSVVIASNAAGT +TFTDGLYWRIGACIVGAIFVISYLYWYCKKIKNDPKASYSYEDKDAFEQQWSVLKDDDSA +HFTLRKKIILTLFVLPFPIMVWGVMTQGWWFPVMASAFLIFTIIIMFIAGTGKSGLGEKG +TVDAFVNGASSLVGVSLIIGLARGINLVLNEGMISDTILHFSSSLVQHMSGPLFIIVLLF +IFFCLGFIVPSSSGLAVLSMPIFAPLADTVGIPRFVIVTTYQFGQYAMLFLAPTGLVMAT +LQMLNMRYSHWFRFVWPVVAFVLIFGGGVLITQVLIYS* +>abc_00010 +MTHLTKVLDTLTGICVVLLFSKYFVAYANMVFDWNLRWYLLENIPHLPIILFILMFIFGV +PSEMIKDRQRKNNGV* +>abc_00011 +MRLQKAPLVTSGLVLGLLGLGNLLKDLSLTLNAVCGIFAFLIWIHLLCTMIKYFNNVKEQ +LNSPLVSSVFTTFFMSGFLGTTYLNTFFSNITFINSLITPIWILCLVGIMTHMIIFSIKY +LKDFSLENVYPSWTVLFIGIAIAGLTAPVSGCFFIGQLTVIYGFVATCIVLPIVFKRLKA +FPLQTSIKPNTSTICAPFSLVAAAYVIAFPKANAFIVIIFLILAQIFYFYIIIQLPKLLK +EPFSPVFSAFTFPLVISATALKNSLPVLMFPDIWKGLLFIEVLLATVIVLRVFIGYLHFF +LKKENQDKFLRNASQ* +>abc_00012 +MRNQIQKLLDSDLSSLHISKQTGVPQSTIHRMRKKERSLDNMSLKNAELLYKFANSIFSN +EN* +>abc_00014 +MEGLFNAIKDTVTAAINNDGAKLGTSIVSIVENGVGLLGKLFGF* +>2_7 +MTGLAEAIANTVQAAQQHDSVKLGTSIVDIVANGVGLLGKLFGF* +>abc_00016 +LGYKNILIDFDDTIVDFYDAEEWAFHYMANVFNHKATKDDFLTFKKINHQHWEAFQQNKL +TKSEVLSERFVNYFKHHQMEVDGHRADVLFRNGLAEAKVKYFDQTLETIVELSKRHDLYI +VTNGVTETQKRRLNQTPLHKYIKKIFISEETGYQKPNPEFFNYVFNDIGEDERQHSIIVG +DSLTSDILGGINAGIATCWFNFRGFDHNPGIIPDYEINSWKQLNDIVR*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis/query_6.gff.proteome.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,19 @@ +>abc_00002 +MKLFFIVSLTIIWGDIFLGNEIIHLLTALTTTLGVVNSRKGIKNFRVAQ +>3_3 +LTNLRGGSFLTILDFSLQEAQSLLTGAEDLKSAKYIFTETPTLKNGDIALLIEKDSLRTP +RAFEVGAHDQGTNVTYLGPTRSQMGGEETTKNTARVFGGTHAGIEGGGFSQRTVETLAET +PAVPVGDGLTDKDHPTLVLAHSLTAGEVLKKNYADIFFTSLADGRGDVANAIMQGAFIMA +LTFHLGGPKELNPTDDLLNPRTNIAGENGGNILITDFIDPRAKGSGVIYTDIWVSIFEPA +QAWKEGVELLKTYQVNLEMTHTTGNGDVIFENCLPSFHNAHTKIGGEIFEKNGIRDLEVT +HAVFEGEASVVIQEADFRMPPTKAVGVATLGKF* +>abc_00012 +MRNQNQKLLFSDFPSLHIWGQTGVQQSTIFRMSPNERSWGNMSLKNAELFYKFPNSIFRG +EN* +>abc_00014 +MEGLFFAITHTVTAGVNNDGTKLGTFIVTLAENGGGLLGKIFGFY +>3_5 +LGGKNILKDFDDFIVDPYDAEGGAFHYKANVFFHKAPNDDFWGFKKINHQHWFAFHPNKL +TRGEVLSERFVNFFKHPHMEVGGHRADELFRNFLADPNVKYWGQTLEKIVELFKRHPFYI +VRGGVTEKQKRRFNQTPFHKYRGKIFIYEETGFQKPPPEFFRGVFNDNGEDEFQHSPIVG +DWGTSDIQGGINFGIAPCWFNWGGFDHNPGIIFDYDPNSWKRGNDIVH*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis_expected/accessory.header.embl Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,7 @@ +ID Genome standard; DNA; PRO; 1234 BP. +XX +FH Key Location/Qualifiers +FH +XX +SQ Sequence 1234 BP; 789 A; 1717 C; 1693 G; 691 T; 0 other; +//
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis_expected/core_accessory.header.embl Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,55 @@ +ID Genome standard; DNA; PRO; 1234 BP. +XX +FH Key Location/Qualifiers +FH +FT misc_feature 11 +FT /label=group_12 +FT /locus_tag=group_12 +FT /colour=2 +FT misc_feature 10 +FT /label=group_13 +FT /locus_tag=group_13 +FT /colour=2 +FT misc_feature 2 +FT /label=group_5 +FT /locus_tag=group_5 +FT /colour=2 +FT feature 12 +FT /label=hly +FT /locus_tag=hly +FT /colour=2 +FT feature 8 +FT /label=speH +FT /locus_tag=speH +FT /colour=2 +FT misc_feature 3 +FT /label=group_8 +FT /locus_tag=group_8 +FT /colour=2 +FT misc_feature 9 +FT /label=group_2 +FT /locus_tag=group_2 +FT /colour=2 +FT misc_feature 7 +FT /label=group_3 +FT /locus_tag=group_3 +FT /colour=2 +FT feature 1 +FT /label=yfnB +FT /locus_tag=yfnB +FT /colour=2 +FT misc_feature 4 +FT /label=group_7 +FT /locus_tag=group_7 +FT /colour=2 +FT feature 6 +FT /label=argF +FT /locus_tag=argF +FT /colour=2 +FT feature 5 +FT /label=arcC1 +FT /locus_tag=arcC1 +FT /colour=2 +XX +SQ Sequence 1234 BP; 789 A; 1717 C; 1693 G; 691 T; 0 other; +//
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis_expected/core_accessory.tab Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,48 @@ +FT variation 11 +FT /colour=4 +FT /gene=group_12 +FT /taxa="query_6" +FT variation 10 +FT /colour=4 +FT /gene=group_13 +FT /taxa="query_2" +FT variation 2 +FT /colour=4 +FT /gene=group_5 +FT /taxa="query_1 query_2" +FT variation 12 +FT /colour=4 +FT /gene=hly +FT /taxa="query_1 query_2" +FT variation 8 +FT /colour=4 +FT /gene=speH +FT /taxa="query_1 query_2" +FT variation 3 +FT /colour=4 +FT /gene=group_8 +FT /taxa="query_2" +FT variation 9 +FT /colour=4 +FT /gene=group_2 +FT /taxa="query_2" +FT variation 7 +FT /colour=4 +FT /gene=group_3 +FT /taxa="query_2" +FT variation 1 +FT /colour=4 +FT /gene=yfnB +FT /taxa="query_2" +FT variation 4 +FT /colour=4 +FT /gene=group_7 +FT /taxa="query_2" +FT variation 6 +FT /colour=4 +FT /gene=argF +FT /taxa="query_1 query_2" +FT variation 5 +FT /colour=4 +FT /gene=arcC1 +FT /taxa="query_2"
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/post_analysis_expected/gene_presence_absence.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,14 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_6" +"group_5","","Gonococcal growth inhibitor III","2","2","1","1","2",,,"","1_6","2_7","" +"hly","","Alpha-toxin","2","2","1","1","12",,,"","1_1","2_1","" +"speH","","hypothetical protein","2","2","1","1","8",,,"","1_2","2_2","" +"argF","","Ornithine carbamoyltransferase","2","2","1","1","6",,,"","1_3","2_3","" +"group_12","","hypothetical protein","1","2","2","1","11",,,"","","","abc_00002 abc_00002" +"group_13","","hypothetical protein","1","2","2","1","10",,,"","","abc_00003 abc_00003","" +"group_6","","","1","2","2","","","","","","","abc_01705 abc_01705","" +"group_8","","C4-dicarboxylate transporter/malic acid transport protein","1","2","2","1","3",,,"","","abc_00011 abc_00011","" +"group_2","","superantigen-like protein","1","2","2","1","9",,,"","","abc_00004 abc_00004","" +"group_3","","superantigen-like protein","1","2","2","1","7",,,"","","abc_00006 abc_00006","" +"yfnB","","Putative HAD-hydrolase yfnB","1","2","2","1","1",,,"","","abc_00016 abc_00016","" +"group_7","","hypothetical protein","1","2","2","1","4",,,"","","abc_00010 abc_00010","" +"arcC1","","Carbamate kinase 1","1","2","2","1","5",,,"","","abc_00008 abc_00008",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/prank_input.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,59 @@ +>1234_8#75_04759 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGCGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA +>1111#5_04506 +ATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCGGCTATCATG +GATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCTATTGATAAT +AAAGTTCAACCGCTTATCAGGCGTTGA +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_DT104_v1_02853 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTTTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_SL1344_v2_02736 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTGTGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_str_D23580_v1_02783 +ATGAGCGAGCAGTTAACGGACCAGGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA +>Salmonella_enterica_subsp_enterica_serovar_Typhimurium_str_DT2_v1_02741 +ATGAGCGAGCAGTTAACGGACGTCCTGGTTGAACGGGTCCAGAAGGGAGATCAGAAA +GCCTTTAACTTACTGGTAGTGCGCTACCAGCATAAAGTGGCGAGTCTGGTTTCCCGCTAT +GTGCCATCGGGCGACGTTCCCGATGTCGTACAGGAATCATTTATTAAGGCCTATCGCGCG +CTGGATTCTTTCCGGGGGGATAGTGCTTTTTATACCTGGTTGTATCGTATTGCGGTCAAT +ACCGCGAAGAACTACCTGGTTGCGCAGGGGCGTCGTCCGCCTTCCAGTGATGTAGACGCG +ATTGAAGCAGAAAACTTTGAAAGCGGCGGCGCGCTGAAAGAAATTTCGAACCCTGAGAAC +TTAATGTTGTCAGAAGAACTGAGACAGATAGTTTTCCGAACTATTGAGTCCCTCCCGGAA +GATTTACGTATGGCAATCACCTTACGGGAGCTGGATGGCCTGAGCTATGAAGAGATAGCG +GCTATCATGGATTGTCCGGTGGGGACGGTGCGTTCACGTATCTTCCGGGCGCGGGAAGCT +ATTGATAATAAAGTTCAACCGCTTATCAGGCGTTGA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/proteome_with_and_without_descriptions.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,29 @@ +>1234#10_00001 +MSKHGFFQITQKLFLRKGDELLILRDRKSGLGDLPGGRMNENEFFEDWSLSMQREIEEEL +GSQVQIRVSTKPLFIHKHKVNEGNFPCIIIAYHADYLGGDIILSDEHDYISWEKVQTYEP +SPLFTEYMLDAVNLYLKEYAPLVH* +>1234#10_00002 +MIIKLKIILNSYLIYYFLRGQNTLIRTLLFEFPLTTFFVFLMVATFFIVNVFLPEHLIRQ +YFLNHPGQIQPLSWIGAVFYHGNLIHLFGNMFYLFFLGRAVEYKAGKGRWLLFFFMAALI +SSLLDSFIRGVILHDPTPVVGASGAISGIAAVAALLSPFSLRFNQRNIPFPVFLVAWIMV +YSDITNVFTEDGVARWAHLGGFISVIFAAYFLKPTERKQLHSGFILNLIFIILTLILAFF +YSNRS* +>1234#10_00003 +VKTTLSGEIEKLRYEVAVKIVNLQGEVLDLRAEMKINFSEVNSKILKLQFEFEMAKIRKE +LKTEIADLRAETKTDFLELQKSIVDIYKTISTQTRWILGVATLFAAIGKVIN* +>1234#10_00005 imidazoleglycerol-phosphate dehydratase or histidinol-phosphatase +LTDKLIGFYDPVRMKAERKTSETEIKLEMNLRGTGQYQFDTEIPFFEHMLSHISKHGLID +LNLWLRGDIEIDCHHSVEDTAILMGATIHKQLGDKAGIFRYGHFTLTMDEVLTTVAVDLG +GRYFFKYTGPELTGKFGIYDAELSLEFLQKLALNAKMNLHVVVHYGDNKHHVHESIFKAL +GKALRMAIAQDSAAAGAIPSTKGVLE* +>1234#10_00006 +MIAILDYGMGNIHSCLKAVSLYTKDFVFTKDHSTIENSKALILPGDGHFDKAMENLNSTG +LRKTIDKHVTSGKPLFGICIGFQILFESSEEIAQGSKKEQIEGLGYIKGKIKKFHGKDFK +VPHIGWNRLQIRRKDKSVLLKGIGDQSFFYFIHSYRPTDAEGNAITGLCDYYQEKFPAVV +EKNNIFGTQFHPEKSHTHGLKLLENFIRFI* +>1234#10_00007 imidazole glycerol phosphate synthase subunit HisH +MIVIPAIDLFDNCAVRLFKGNYEEKKIYSSEPWKLAESFAKNGATLLHLVDLNGARNQLG +VNEDSILKIRETTSLKVQLGGGIRDKEKLAYYDKIGINRFILGTAAVTNPDLLKYALDNY +GKERVVVAVDARDGIVKIAGWEKDSGIHYRDLLERLVKAGIEHIVFTDIAQDGTLAGPNL +EAYREILNSYPFQVIASGGIASLKDLMDLSSLKTKISLYGVITGKALYEGKLDLAKAISS +I* \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_1.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>1_1 +AAA +>1_2 +BBB +>1_3 +CCC +>1_6 +FFF \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=1_1;gene=different;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=1_2;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 ID=abc_00006;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 ID=1_3;eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=abc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 ID=abc_00008;eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=abc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 ID=abc_01705;inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=abc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 ID=abc_00010;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 ID=abc_00011;inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=abc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 ID=abc_00012;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11878 . - 0 ID=abc_00013;inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=abc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 ID=abc_00014;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 ID=1_6;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 ID=abc_00016;eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=abc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_1_alternative_patterns.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,262 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=1_1 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002; +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID="abc_00004";inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID='1_2';gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product='hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain';protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 id=abc_00006;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product="superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain";protein_id=gnl|SC|abc_00006 + +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_2.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>2_1 +AAA +>2_2 +BBB +>2_4 +DDD +>2_7 +GGG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=2_1;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=2_2;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 ID=abc_00006;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 ID=2_3;eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=abc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 ID=abc_00008;eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=abc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 ID=abc_01705;inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=abc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 ID=abc_00010;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 ID=abc_00011;inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=abc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 ID=abc_00012;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11878 . - 0 ID=abc_00013;inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=abc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 ID=abc_00014;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 ID=2_7;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 ID=abc_00016;eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=abc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_3.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>3_1 +AAA +>3_3 +CCC +>3_4 +DDD +>3_5 +EEE \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_3.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=3_1;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=3_2;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 ID=abc_00006;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 ID=3_3;eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=abc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 ID=abc_00008;eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=abc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 ID=abc_01705;inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=abc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 ID=abc_00010;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 ID=abc_00011;inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=abc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 ID=abc_00012;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11878 . - 0 ID=abc_00013;inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=abc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 ID=abc_00014;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 ID=abc_00015;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 ID=3_5;eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=abc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_4_missing_genes.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,2 @@ +>4_1 +AAA \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_4_missing_genes.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,256 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=4_1;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT +AAGATTTAGATACATAGACAATATAGGAGATGGGGAAATTGGGATATAAAAATATTTTGA +TAGACTTTGATGATACAATTGTTGATTTTTATGATGCAGAAGAATGGGCGTTTCACTATA +TGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGATTTTTTAACATTTAAAAAAATCA +ATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTAACGAAGTCTGAAGTATTATCAG +AACGATTTGTGAATTACTTCAAACATCATCAAATGGAAGTTGATGGGCATCGTGCAGATG +TGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAATACTTTGATCAAACATTAGAAA +CAATTGTCGAATTATCGAAAAGACATGATTTATATATTGTTACTAATGGTGTAACCGAAA +CGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAATATATTAAAAAGATATTTATAT +CTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTTTTTAATTATGTTTTTAATGATA +TTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGAGATTCTTTAACATCTGACATTC +TAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTTAATTTTAGAGGATTTGATCATA +ATCCAGGAATTATACCTGATTATGAAATTAATTCATGGAAACAACTAAATGATATTGTAC +GTTAAGACAAATAATTTGAAAATGATTTATATTAGCTTAAGAAAGTAATTGTAAAAACGA +CACTACGAAAAGATGCATTTTCATGCTCGTAGTGTCGAATATTATTATCTTATGGTTTCC +ACAATAAGACATCATGTCCCTCTATATTTTTAGCTTCCACATCTGTAAATCCATGATGTA +AAAAGAAATCCTTAGAATCATTTCTGCCAATGGCTTTAATTGGCATATTGAAACTCTTTG +CAAAATCAATCAATTCTGAAGCGTACCCTCTGTTTTGATATTTTGGTAATACTTCTAACT +TCCATAATAATATATAATCTTCAAAATCTGGGAAGTAGATTTCTTCGACATCACCTTTTT +TTAGTAATGCCATTCTAGCTCCTAATTGATCTCCGACAAATATGCCATAAAATGGTGAAT +CTGAACTTGCATCAATCATTTGACCGTTTAACTCATTGACCATGTATAAGTCTTTGTTGC +CAAACGCTCTAAAGTTTTCGAATAATTCGTCAGTTTTGTAATTAATTTCAAGACGTTTGA +TTTCACTCATATTTATCTACCCCTTATTTGTTTACTACTATTATTATACATTAAACCACT +TGTGTTTTTCATTGATTTGAAAATGTAAAACAATGAACATTATAAATTTTCCATGATTAA +ATTGATTTTCAAGCCGTAAAATTGTCAATCACCGGTATAGACTTTATACTATAGTTTGTA +ATCGCGTACTTAAGGAGAAAAAACATGGACTGTAAAGTAGTTAGTTTAAATGAAAAAGAT +CAGTTTATACCAAAAATAAAGAGCAGTGACCCTGTAATAACAGGATTATTTCAATATGAT +GCAGCTCAACAAACTAGTTTTGAAAAAAGGATGTCTAAAGAAAATAATGGAAGAGAAGCG +GCATTAGCGAATGTTATTCGTGAATATATGAGTGATTTAAAGCTTTCAAATGAACAAGAA +TTAAACATACAACATTTAGCTAATGGTTCAAAAGTTGTGATTGGTGGACAACAAGCAGGG +CTTTTCGGGGGACCATTGTATACATTCCATAAAATATTTTCAATCATTACTTTATCTAAG +GAATTAACGGATACACATAAGCAACAAGTAGTACCAGTTTTTTGGATTGCAGGAGAAGAT +CATGATTTCGATGAAGTGAATCATACATTTGTTTATAACGAAAATCATGGGTCGCTGCAT +AAGGTTAAATATCATACAATGGAGATGCCAGAGACGACAGTCTCTAGATATTATCCTGAT +AAGGCTGAGTTGAAACAAACTTTAAAAACGATGTTCATTCATATGAAAGAAACTGTTCAT +ACACAAGGTCTACTGGAGATTTGTGACAGAATTATTGACCAATATGACTCGTGGACTGAT +ATGTTTAAAGCACTACTGCATGAAACATTTAAAGCATATGGCGTTCTATTTATAGATGCG +CAGTTTGAGCCGTTAAGAAAAATGGAAGCGCCTATGTTTAAAAAGATTTTGAAAAAACAT +CAGTTGCTTGATGATGCTTTTAGAGCAACACAACAACGTACTCAAAATCAAGGCTTGAAT +GCGATGATACAAACAGATACAAATGTTCATTTATTCTTACATGATGAAAATATGCGCCAA +TTAGTTTCGTATGATGGTAAGCATTTTAAATTAAATAAAACAGATAAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_5.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=3_1;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_50002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_50003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_50004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=3_2;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 ID=abc_50006;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 ID=3_3;eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=abc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 ID=abc_50008;eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=abc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 ID=abc_51705;inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=abc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 ID=abc_50010;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 ID=abc_50011;inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=abc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 ID=abc_50012;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11878 . - 0 ID=abc_50013;inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=abc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 ID=abc_50014;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 ID=abc_50015;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 ID=3_5;eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=abc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATTTTAAAAACTCCCCAAGCTGTAATTTAAGGGGGTTCTTTAAATTAT +ATACCCACCACATTTTTTGGAGAACCCCAAACTAGCCGAAAAGGGGCATTTCTGAAGTTA +ACGGCTAAAGTTATTTTTTATATTTCCCTGTCCATGAACAAAGGGGTTACATTAATTTGT +AATTTCTTCTTTTTTTTAATCGATTCCCTATCTTTCTGAAGAGGGGTCTGTCCATTTATC +ATTAGTATTGGTACTTTTCCAATTTCCCGAACTCCAATGCAAGGGGTAGTCATCACGAAC +ACGTTCGTATATTATTTCTATATTTCCCTGTCGTTTGGATGCGGGGCTATCCATAGTAAT +AACTGTAGCGAAGTTTTGTGAAAACCCCGAACATAATAGAGAGGGGGCTTTGTTAGGATC +AAGGAAGTTCTCTGTTTCTTTCATACCCCCACTTCTAGTTTTGGGGAAAAGTTGATTGCC +ATATACCGGGTTCCTTTAATCTCTACCCTATCGTCCCCAATTGGGGTTCACCATATTGTT +AAATATCACTTTCCTTTCTACTTTTCCCTCACTTGGGCTCTCGGGGATTGTTTTGAAATC +AGGTTGAACATATTTTTGTGTATGACCCATCCAAACATTTGCGGGGATAAGGCCGCCAAT +ATTTCCTGTATCATTTTCAGTAACACCCCCGCTGAATCCATAGGGGAAAGTACTCATATA +ATCTTTTGTATCAATTTAATTTCTTCCCTAGCAATCAGATATGGGGGCTACTTCATTATC +AGGTAGTTGCAACTTTTCCTTAAAGCCCGAACGCCAGGCTAAGGGGCTTTTGTTAGCACC +ATCTTCGCTATAAATTTTATATTGACCCGCACTGGTACCTTTGGGGCTAATAACTAGCAG +ATTTTTATTGTGATTTTTATCATCGCCCAAACTATAAAATACGGGGTTGTGCATGCCATT +ATCTTTATCATAAGTTTCTAAATCACCCGTTCTTACTGTAGTGGGGCTTCCAATATCTGT +AGTACCGGTTTTAATTTTAATATCACCCTCTCCGGCATTAGCGGGGGGATTCATTAATAT +AGAACCTAGCAATATTTTTGTTGTTCCCGAGCTGACTATACGGGGGTTCATTTTCATCAT +ACTTCTATTTTTTTTTTCGATTTGACCCAACCATAATCAATAGGGGAATTTAGAATATTG +AAGTTGAGACATATTTTATATTTATCCCCGTCTATATTAGTAGGGGTAATGTAGCAACTG +ATAAATTACTGAGTTTTGATGAGTGCCCATTCTAAGAATATGGGGGTAACTTTTATTTAA +AATTTGAAAGGAAGTTTTTCAATTTCCCGGGCTAGTCAAAGTGGGGTAAATTCTTTATGA +AACAAGGAAAAGACTTTGCTAATTTCCCTGACTAATTTCTTTGGGGCTAATGATTTGTTT +AATTTAAAAATGTATTTGATTACAACCCAAACATACAAATATGGGGGAATTAAATCAATT +AATTAACTATTAAATTTAAATTAAACCCATACTAACTACTGTGGGGTAATAAATAGAAAT +AGAGAAAAAGGGTATTTATTATGTTCCCAATCTCGTCGGGAAGGGGTTTTGCCATTACAT +AGAAATATCTAATATTTAATGAAAACCCATCCTATGTATTTTGGGGATAGTGTAAAATAT +AATATGTAAAATAATTTGTAGATTTCCCGTTCGAGGCATTATGGGGAAATTTTGAGTATA +AGTTAGCTTTTAATTTTGAATCTTACCCAAACTTGATTAATAGGGGTATGATAGGGGATT +AAAATGAAACTATTTTTTATCGTATCCCTTACTATTATATGGGGGGATATATTTTTAGGA +AATGAAATTATCCATTTACTGACTGCCCTAACAACAACATTGGGGGTTGTTAATTCAAGA +AAGGGGATTAAAAATTTCAGAGTTGCCCAATCTTATAAACTCGGGGCAATCTTTGTTTGA +ATCTGAATCAGGCTTTTAAATTTCGCCCAATCCAGGAGTTCCGGGGCAAACAGTACAAGA +ATTAAGAAATGGGATTTCCAAACTACCCGATCCTAGATTTAGGGGGATTATTAAACTTTA +AAGTTACTATGTCTTTTTAAAAGAACCCTAACCATGGGACAAGGGGGTATTGCTATAATA +ATTGAATCATTAAATTTAGGAATAGCCCCTACGACATAATAAGGGGATGTCTTAGGCTCT +ACAATATTATATTGTTTGTAGTTGACCCAATCAAAATGACCAGGGGACAAGCATTTTTGG +AGCCCCAACACAGATTTTGACGAAACCCCAGCTTACAATAATGGGGAAGTTGGGGATGGG +ACCCAACACAGAGATTTTCAAAAAGCCCTTCCACAGACAATGGGGGTTGGCGGGGCCCCA +ACATAGAGAAATTCTTTAAGAAATTCCCCAGCCAATGCAAGTGGGGGAGTGACAACGAAA +AAAATTTTATAAAATTTCATTTCTGCCCCATCCCTACTCCCAGGGGCATTTAAATATATA +AAAAATTTCACCTATTTTATACATCCCCCACCTTAAAAATTAGGGGTTAAATAATCTGAT +ATGGAATTAAAGTGTTTGAAGTATACCCCACCTTCATATACTGGGGAAAGAGGACGTCAA +AAGTTATTTTATTATTTTTTTTAACCCCAACCTTTGCTAGATGGGGATGTAATCTTTTGC +ATAAATCAATAGTGTTTTTATTACCCCCACCCGTGATCTTAAGGGGACCTTTATTACGAT +ATTCGGTATATAATTTTTTATTTTTCCCTAACGCTTCTCGTGGGGGGAAATCGATTTCTT +ACAATGTTAATACTTTTTTATTGCCCCCGTACATTTTATGCGGGGGAATAATCGTTTGTA +ATTTATCTTTGTATTTTACAAAAAGCCCATACGTTTTATCAGGGGGTTTTGCGGCTGGTG +AAACGCCACCTGTATTTGTCTCTCTCCCAGACCACCATAACTGGGGAGTATCTTTGTCTT +ATAGTCCAAACACATTTACGTAACGCCCTTTCAACTGATTAAGGGGTCCCCAACTTTCAG +AGCCCCATAAAGATTTTTGTGCTGACCCTGACTATCTCTTAAGGGGAACATAAATGTTTC +AATTATCATATTGATTTAGCCATTTCCCTGACAATGAAAAATGGGGCTGTGTGTAATATT +AAATTAATTCATTGTTTTTAGTTTCCCCTTGCCCAATGCTATGGGGTTTAGCTTCAGAGT +AAAAACTAAATACTTTTTTTTGATTCCCAGGCAATACAGTACGGGGTAGTAATAATGTTG +ACGTTAAAATTATATTTTTCGTGATCCCCTTCCTCATTAGAAGGGGTCCTTTCAGAGGAA +ACATGATACGAGGATTTAGAAATTTCCCTGTCAGCGAAGTCAGGGGAGTATTTGCGATTA +ATTTTATTAACTCCTTTATTATTGTCCCTTTCATTTTTCGAGGGGGACTTCAATTTTTGC +ATTTTGAGGTTTTTTTTCATATCTACCCGCACCAGTTGATGGGGGGCTTTTACTTAAATC +AATTGTGTAGTTATTTTCTGTACCTCCCATTCTAATTTGTCCGGGGTTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATCCCTGACGAATACGAAAGGGGAATTCTTTTAAAGT +AAAAACAGGCTTATTTTCTTCATAACCCGGACATCCGCCAGTGGGGGTTTCTGCTTTATC +ATTATATGTTACATTTTGTTTATAGCCCTTACCGTTAGATGTGGGGGCAGGAGTAACACC +ACCAGTAAACGTTTTTTGAGATAATCCCAAACAATCAATGGTGGGGTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTCCCTGGCTGATATTGCCGGGGCTTTCAGGTCCATA +AACTTGAATATGACTTTACCAAGAACCCTGTCACAACGTTGCGGGGATCGTACCGTTATC +ATTTTGCCATAACGTTTTGTTAGAGCCCGTTCAATATTTTTGGGGGTAATATTTAGTTAA +ATCATTAACGTTAGTTTCGTTTTGACCCATACAATAAGCTTTGGGGTCAGATGAAGAATT +AATAGGTGTATTAGTTTATTGTGTACCCGCTCTACCTAATAGGGGGAATGTTGTTGATAA +AATAATTTTTTTCGTTTTGTTATTGCCCATTCGAATTTCTCCGGGGAGTATTGTTGGAAT +ATTTAATTATAAAATTTGGTTAATTCCCTAACTGAAATTATCGGGGTTTACAAAAGGTAA +AAGGTTAGTTAGATTTTTCGAGTATCCCTTCCATTTGTGCATGGGGAGGATTTTTAACAT +AACGGTTTGTGTCATTTAATTTTAACCCTTTCCTTAAATCAAGGGGGTAATTATTTCCAT +AAGCAGTTATCTTATTTTGACCTTTCCCAAACTCTCCGTTATGGGGCTTTTTATTCTTTA +ATAATGTTTGACGATTTCGGAAATCCCCTTCCTTTAAAGTTAGGGGTGGTTTATTTCCTT +AGTAAAATTCATGTTTTCCGATGATCCCTTGCTGTTTATCACGGGGTTTTAAAAATAGTC +AATAAGGTTTATCATTTGAAGTAGCCCCTGGCGTAACACCACGGGGAAATGTTTCATCAT +AAGTCCAGTAACCTTTTACTGTGTCCCCATCCTTAGTTCCAAGGGGATCAACGTATTTAT +ATCTTAACTGATTATTTTTTCCCCACCCCTCCGATCCAAACAGGGGAATATGACTATACC +AAACCCACGTTTGCTTTGTTGCATGCCCGCTCCCATTGGGCTGGGGCCATAGCCATTTTC +AAGATAATGAAAAATTTGGCTGAGTCCCATACTTGATTAACTGGGGGATATTAGTCTCGT +ATTCACTGATATTATTTGCTTTTGCCCCAGACGAAAAACTGAGGGGTGTTTTAGGAAGTT +ATGTTGATGTGGTTTTTAAAAGTAACCCTGCCGTTGATAAAAGGGGTTTATTCATGATGT +ACTTTTTCATATGATTTTCTCCTTTCCCTGACTTACCCAAAGGGGGTAAGCTATTACACC +AATTCGGAATTAAATTTAAGCTAAACCCATGCTAAATAAACTGGGGCAGTTAGTAGTGTT +ATTTAAGCAAAACTTTTCATTTTTACCCTTTCGACAGAAACAGGGGTTAATAAAGTAGGC +AGGAGTTATATATTTTTAACGACACCCCACACTTATTCTCTAGGGGATTGCATTAAATTG +ATTGATAATTGAATTTTCTAACTACCCCAAACATAGTTATACGGGGAATGTAGTACTTAT +ATTAATTATTTCCTTTTACTTAAATCCCATACTAATAAAATGGGGGTTTAATTATTGATA +AAATATTACAAATTTTTATAGTAGGCCCTGTCTATTTTGTATGGGGTTACAATTTAGGTG +AAACTAAAATAAAATTTGTTGTTATCCCTGACAAATTTACGAGGGGGAAGTTTTTTAACT +ATATTAGACTTTTCTTTACAAGAGGCCCAATCCTTATTAACAGGGGCCGAGGATTTAAAA +AGTGCTAAATATATTTTCACTGAAACCCCTACGTTAAAAAATGGGGATATTGCACTGTTA +ATTGAAAAAGATTCTTTAAGAACGCCCCGTGCATTTGAAGTTGGGGCGCATGATCAAGGT +ACAAATGTAACTTATTTAGGCCCAACCCGATCACAAATGGGTGGGGAAGAAACAACTAAA +AATACTGCACGTGTTTTTGGTGGAACCCATGCTGGCATTGAAGGGGGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAACCCCAGCCGTACCAGTGGGGGATGGTTTAACTGAT +AAAGATCATCCTACTTTAGTTCTTGCCCATTCCTTAACAGCAGGGGAAGTCTTAAAAAAA +AATTATGCAGATATTTTCTTTACATCCCTTGCAGATGGTCGTGGGGACGTTGCAAATGCA +ATAATGCAAGGTGCTTTCATTATGGCCCTGACCTTCCATTTAGGGGGTCCAAAAGAATTA +AATCCAACAGATGATTTATTAAATCCCCGTACAAATATTGCCGGGGAAAATGGTGGCAAC +ATATTAATCACAGATTTTATTGACCCCCGTGCAAAAGGTTCGGGGGTAATTTACACTGAT +ATTTGGGTATCAATTTTTGAACCTGCCCAAGCATGGAAAGAAGGGGTTGAATTATTGAAA +ACATATCAAGTAAATTTAGAAATGACCCATACAACTGGTAATGGGGATGTTATTTTTGAG +AATTGCTTACCATCTTTCCATAATGCCCATACGAAAATTGGTGGGGAAATTTTTGAAAAA +AATGGTATTCGAGATTTGGAAGTTACCCATGCAGTATTCGAAGGGGAAGCTTCAGTTGTA +ATCCAAGAAGCTGATTTCAGAATGCCCCCAACCAAAGCAGTCGGGGTTGCTACATTGGGT +AAATTTTAAATGATTTTAGGAAGTGCCCATGCTGGCGAAAATGGGGGTAGCATTAGGTGG +AAATGCTTTAGGAATTTCACCTCAACCCCAACTCGAGCTTGTGGGGAATACTGCGAAATC +ATTAGTAGGATTAATTTCAAAAGGACCCGAGCTTGTTATTAGGGGGGGTAATGGACCACA +AGTTGGAAGCATTATTTTGGGACTTCCCTATCCTGCAGAACAGGGGCAAGGTCCGGCATT +ACCATTTGCTGAATTTTGCGCAATGCCCCAACCTTACATCGGGGGGCAATTACAAGAAAG +ATTACAAAATGAATTTTATTCTATTCCCATGCATAAACAAGTGGGGACACTAGTGACACA +AGTTGAAGTTGATGTTTATGATCCGCCCTTTCACAATCCTTCGGGGCCAATTGGGTTATT +ATACAACAAAGAAGTTTCTGAACAACCCCAACAAGAAAAAGGGGGGATATTTGTTGAAGA +AGCTGGAAGAGGATTTTGACGCGTTCCCCCTCCACCACAACCGGGGTCTATTATTGAATT +AGAGAGTATTAAAATTTTTATTAAACCCGATCCACTCGTTATGGGGGCTGGTGGTGGAGG +AATACCAGTAATTATTTAGCAACATCCCGGTCTTAAAGGTATGGGGGCAGTTATAGACAA +AGATAAAACAAGTGTTTTGTTGGGTCCCAATCTTCAATGCGAGGGGTTGATTATTTTAAC +AGCAATTGATTATGTTTATATTAATCCCAACCCTGAAAACCAGGGGCCTTTGAAAACAAC +AAATGTTGATGAATTTTAACGATATCCCGACCAAAATCAATTGGGGAAAGGAAGTATGTT +ACCAAAAATTGAAGTTTCCATATCACCCATTCAAAACAATCCGGGGGGAAGTGTGCTTAT +AACATCATTAAATGTTTTAGATGCTCCCTTACAGGGTAAAGTGGGGACTGTGATTAAAAA +ATAATTGAATTGAATTTCTTTTCAACCCCTACATGTCAAATGGGGGATTTTTATTATTTA +AGTGCACCCCCTGATTTTAATGCCTCCCTTTCGATGCGGGGTGGGGTTTCTTAATTTATA +ATTATAAAATCTTTTTTGTAGAAATCCCAGGCTAAATGTCGAGGGGGATGAAACCGTGGA +AAATACAATTAATGTTTGTGAAAAGCCCAAACGATTTAAATTGGGGATGCCAGGTGCATT +AATGATTTTATTCATTTTAACGGTTCCCGCACTTATAGCAACGGGGGTTATTCCTGCTGG +AGCATATTCTAAACTTTCTTACGAACCCTCACCCCAAGAACTGGGGATAGTTAACCCTCA +AAACCAAGTGAAAATTTTTCCGGGTCCCCAACAGGAACTAGAGGGGATGGGGGTTAAAAT +AAAGATTGAACAATTTTAATCAGGTCCCATTCATAAGCCAGTGGGGATTCCGAATACTTA +AGAAAGATTAAAGCTTTATCCAGCTCCCCCACAACAAATAACGGGGAGCATGGTTGAAGG +AACGATAGAAGCGGTTTATATCATGCCCTTCCTTCTTGTACTGGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGTTTCTTTTGAACCCGGACTGTTAGCTTTGGGGAAGAAAACAAAAGG +ACATGAATTTATGCTTTTTGTGTTTCCCTCACTACTAATGATGGGGGGCGGGACGTTATG +AGGTATTGAAGAAGTTTCTGTAGCACCCTATCCGATTTTAGTGGGGATATTTATAGCGTT +AGGATACGATTCTATTTTTTCAGTTCCCGCCCTATTCCTTGCGGGGTCTGTCGGTAGTAC +ATTTTCAACTATTATTTCGTTCTCGCCCGTACTTGCCTCTAAGGGGGCTGGTACAACTTT +AACGGATGGCTTGTTTTGGAGAATACCCGCTCGTATTGTCGGGGGGATTTTTGTTATTAG +ATATTTATATTGGTTTTGTAAAAAACCCAAACACGATCCTAAGGGGTCATATTCTTATGA +AGACAAAGATGCTTTTTAACAGCAACCCTCTCTATTAAAAGAGGGGGATAGTGCCCATTT +AACTTTGCGTAAGATTTTAATCCTTCCCTTACTTGTACTACCGGGGCCAATTATGGTATG +AGGAGTTATGACGCTTTGTTGGTGGCCCCCACTTATGGCTTCGGGGTTTTTAATATTTAC +AATTATAATAATGTTTTTTGCTGGGCCCGGTCAATCTGGATTGGGGGAAAAAGGAACTGT +AGATGCATTTGTCATTTGTGCATCACCCTTACTAGGTGTATCGGGGATTATTGGTTTAGC +ACGAGGTATTAATTTTTTGTTGAATCCCGGTCTGATTTCAGAGGGGATCTTACACTTTTC +ATCATCTTTAGTTCTTTATATGAGTCCCCCACTATTTATCATGGGGTTACTATTTATTTT +ATTCTGTTTAGGTTTTTTCGTGCCACCCTCTCCTGGATTAGCGGGGTTATCAATGCCTAT +ATTTGCACCACTAGTTTATACAGTACCCATACCAAGATTCGTGGGGGTTACGACATATCA +ATTTGGTCAATATGTTTTGTTATTCCCCGCGCCGACTGGACTGGGGATGGCCACACTACA +AATGTTAAACATGCTTTATTCACATCCCTTCCGATTTGTATGGGGGGTAGTTGCTTTTGT +ATTGATTTTCGGTGTTTGAGTACTACCCACGCAAGTACTAATGGGGTCATAATTTGAAAT +ACTATATTATAAAATTTCTAATTGGCCCTTACGCATCTCGTAGGGGTGTAGAAATACTAA +ACTAAGCGAGGTGCTTTATTATTTTCCCTTACGAAAATAATGGGGGTAATGATAACACTA +ATAAGTAATTGATATTTTGCTCTATCCCATACTGATATTTTTGGGGTTTGTTTTTAATGT +AATGTTAGATCTATTTTATATTATACCCATCCTGGTAAATATGGGGTTGCTGTAAACAGT +ATTTGTAACACATGTTTCATATGGTCCCGAACATAGCATATAGGGGGGATGGCTATAAAT +AACACATTTGACAATTTTTTTAGATCCCCTACCTGGAATATGGGGGGTATTATTATTTAG +AAAATATTTTGTGGTTTATGCAAATCCCGTGCTTGATTGGAAGGGGAGATGGTATTTGCT +AGAAAACATACCACTTTTGCCAATTCCCTTACTTATTCTGATGGGGATTTTCGGAGTACC +ATCTGAAATGATAATTTATAGGCAACCCAAACATAACGGTGTGGGGTTTATCGATATTTA +AAGGTGATAAAATTTTTCAACTATTCCCAAGCCTAAAATAAAGGGGTTTATTAATTATTT +AATTGGTATATTAGTTTTGGCGTTTCCCGCTCATATATTATTGGGGTAAAGGTTAGAGTG +AAACGTGTTTATGATTTAGACGTTCCCCTATCGTTACTACAGGGGGAGTCAGAAGGTATC +ATTGATAAGATCATTTTAAATCAAACCCGCACTGATATACACGGGGAAGAGGCAAGATTA +ACTGCCTCTTTTTTTTTTATTAAATCCCCGTCTTAATTCTTGGGGGTAGTGTTACTGAGA +AGCATTACGAAGAATTTTATCTTGACCCTCCCTTTTTAAAAAGGGGTGAAGATATCCTAT +AAAGACTCTAAGTATTTTTACAGTGCCCAATCACACTTCGATGGGGAAAAGACCTTTCCA +AATATCTGGAAACATTTGTACAGGCCCCCTGCTCTTTAAAGCGGGGGCTGAGATTACTAA +AGGGAATGTGAAAGTTTAAAATACGCCCGAACAAGGTTCTTTGGGGAATTTAGGCAATTG +AATAATGATATAAATTTAAAATATTCCCGCTCATATTAAAAAGGGGATTACGATAAAAGC +ATTCGCCTTAGGAATTTCTATAACACCCGCTCCAGCGACTAAGGGGAATGGTGCACAAAT +AGTCGATGTGTTCGTTTTGATTGACCCCTGCCATGGAAATGCGGGGAATCGCTTGAAAAC +AATAGGTAAGACAATTTAAGTAGCTCCCAAGCCATATATTACGGGGAATTGACCTATGAA +AAAACATCCGCTAATTTGTGCCGTCCCCCCTCCGATAGCAATGGGGATAAAAAGTACAGT +ACACGAAGGATAAATTTTTTCAAGTCCCAAACCTTTTAAATAGGGGATTGAAAAAATAAT +AATATGCGTCATAATTTCCACAAGGCCCAAACTCCAAATAGGGGGGATTAAGCTATTGAT +AAAAGTTATGTTACTTTAAAATGTACCCAAACAAGTAGTACCGGGGAAGCCAGACATGAA +AAATGTTGTGAACATTTATGAAACTCCCGGACTGTTTAATTGGGGGTTCACATTATTAAA +ATATTTGATCATAGTTTATAAAAGGCCCATCCAAATCAAGAAGGGGAAGATTCCGCAAAC +AGCGTTTAAAGTAATTTATAAGTCTCCCAATCGATTACCCAGGGGGAATAATCCTAAGAC +AAGTCCTGACGTTATTTGAGGTGCTCCCTGACGTCTCATGATGGGGAACCTTTCTTATGT +AATTTTCTTCACTATTTATATCATGCCCGCTCTGGCCAATTAGGGGGAAGAGTGTGTACT +ATTACGTTATTAGATTTTGTATATTCCCTTGCTAGACACATAGGGGACATTTAAATCTCA +AAATTAATGATATTTTTGGTATGCTCCCCAACCTAAATATTGGGGGATGTGGAAAAGTAA +ATATTTAATTTAAATTTTGATTGAACCCTTACAAGGGGGTGTGGGGAATGAGAAATCAAA +ATCAAAAACTATTATTTAGTGATTTCCCCAGCTTACATATATGGGGACAAACAGGAGTTC +AACAAAGCACAATATTTAGAATGAGCCCAAACGAAAGATCATGGGGCAATATGTCATTGA +AAAACGCTGAACTATTTTATAAATTCCCCAACAGTATATTTAGGGGTGAAAATTAAGAAG +AATAATTAGTGAGTTTTATAATTAACCCACCCCGTCTCGATGGGGGTGGTTATTTTTTTA +AATGTATTTAATTATTTGATTTCGGCCCCCTCAAAAGTCCCTGGGGTTTTGAATAGTATC +AAAATCTATAGGAATTTTATAATAACCCAAACCTCTACGCATGGGGATGGTGAGTGTTAA +AAATCTTGGTGTAGTTTTGGTGTAGCCCAGGCGCAGTATAGAGGGGATTTGAGCACAAAA +ATACTTAATTAAAATTTTATAAACACCCGTCCGACGCGTGTCGGGGGTGTGTCAAAAAAT +ACTATGACGAATAATTTTGCTTGTTCCCATTCCTGTATTTTCGGGGCTTATGCGGGGGAC +ATTTTGGTGACGCATTTTACTATATCCCTGACATTCAAAACAGGGGGAGCCCCGTAATCA +AGGAACTCTTTTGTTTTGTAATGCGCCCAAACATACCTATAAGGGGCCTGGGAGGGATTC +AAACCCCCGACCGATTTCTTAGAAGCCCATTCCTCTATCCAGGGGGGCTACCAGGACACG +ATTAACAACACAAGTTTTATTATATCCCAATCAACTTAAATTGGGGATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTCCCGAGCTATTTATCTAGGGGGGTTCAATAAGACT +AAAATGCGAATTCATTTAACTTAATCCCGTTCAATACAGTTTGGGGTGCCTAACTGTATT +ACTTTTCTCTTTAATTTACAGTTAACCCCATCATAAGATGTTGGGGGGATAAACAAACTA +ATTGCATCAAATTTTTTTTAAAATACCCACACCAAAACGTTAGGGGAATAACATTTCGGT +AATTTAAAAGCTACTTTCGTTTTTGCCCTCTCCAAATTTAAAGGGGAAGGAGTGTTTTCA +ATGGAAGGTTTATTTTTCGCAATTACCCATACCGTAACTGCAGGGGTTAATAATGATGGC +ACAAAATTAGGCACTTTCATTGTGACCCTCGCTGAAAATGGCGGGGGTTTATTAGGTAAA +ATATTCGGATTCTATTTTCAATATGCCCTGTCAGTAATCAGTGGGGTTTCAAAGGTGAGG +AAGAGATTTAAATGTTTGGACTAGCCCCAGCCATCGCAAATAGGGGGCAAGCTGCACAAC +AACATGATAGTGTGTTTTTAGGCACCCCTATCGTAGACATCGGGGGTAACGGTGTGGGTT +AACTAGGTAAATTATTTGGATTCTACCCTAACAACTAATATTGGGGAAAATAAACTGGGT +AAGCATACTTTAATTTTATGCACTCCCCTTACTTTATTTGCAGGGGTTTGAGCCTCTGTT +AAGATTTAGATACATTTACAATATACCCGATCGGGAAATTGGGGGGTAAAAATATTTTGA +AAGACTTTGATGATTTTATTGTTGACCCTTACGATGCAGAAGGGGGGGCGTTTCACTATA +AGGCGAATGTTTTTTTTCATAAAGCCCCAAACGATGATTTTTGGGGATTTAAAAAAATCA +ATCACCAACATTGGTTTGCTTTTCACCCAAACAAATTAACGAGGGGTGAAGTATTATCAG +AACGATTTGTGAATTTTTTCAAACACCCTCACATGGAAGTTGGGGGGCATCGTGCAGATG +AGTTATTTAGAAATTTTTTAGCAGACCCTAACGTTAAATACTGGGGTCAAACATTAGAAA +AAATTGTCGAATTATTTAAAAGACACCCTTTCTATATTGTTAGGGGTGGTGTAACCGAAA +AGCAAAAGAGAAGGTTTAATCAGACCCCGTTCCATAAATATAGGGGAAAGATATTTATAT +ATGAGGAAACAGGATTTCAAAAACCCCCTCCCGAATTTTTTAGGGGTGTTTTTAATGATA +ATGGTGAGGATGAATTTCAGCACTCCCCTATCGTTGGAGATTGGGGAACATCTGACATTC +AAGGTGGAATCAATTTTGGTATAGCCCCTTGCTGGTTTAATTGGGGAGGATTTGATCATA +ATCCAGGAATTATATTTGATTATGACCCTAACTCATGGAAACGGGGAAATGATATTGTAC +ATTAAGACAAATAATTTGAAAATGACCCATACTAGCTTAAGAGGGGAATTGTAAAAACGA +AACTACGAAAAGATTTTTTTTCATGCCCGTACTGTCGAATATGGGGATCTTATGGTTTCC +ACAATAAGACATCATTTCCCTCTATCCCTTTCGCTTCCACATGGGGAAATCCATGATGTA +AAAAGAAATCCTTATTTTCATTTCTCCCAATCGCTTTAATTGGGGGATTGAAACTCTTTG +AAAAATCAATCAATTTTGAAGCGTACCCTCTCTTTTGATATTGGGGTAATACTTCTAACT +ACCATAATAATATATTTTCTTCAAACCCTGGCAAGTAGATTTGGGGGACATCACCTTTTT +ATAGTAATGCCATTTTTGCTCCTAACCCATCCCCGACAAATAGGGGATAAAATGGTGAAT +ATGAACTTGCATCATTTATTTGACCCCCTAACTCATTGACCAGGGGTAAGTCTTTGTTGC +AAAACGCTCTAAAGTTTTCGAATAACCCGTCCGTTTTGTAATGGGGTTCAAGACGTTTGA +ATTCACTCATATTTTTTTACCCCTTCCCTGTCTACTACTATTGGGGTACATTAAACCACT +AGTGTTTTTCATTGTTTTGAAAATGCCCAACCATGAACATTAGGGGTTTTCCATGATTAA +ATTGATTTTCAAGCTTTAAAATTGTCCCTCACCGGTATAGACGGGGTACTATAGTTTGTA +ATCGCGTACTTAAGTTTAAAAAACACCCACTCTAAAGTAGTTGGGGTAAATGAAAAAGAT +AAGTTTATACCAAATTTAAAGAGCACCCACCCTGTAATAACAGGGGTATTTCAATATGAT +ACAGCTCAACAAACTTTTTTTGAAACCCGGACGTCTAAAGAAGGGGATGGAAGAGAAGCG +ACATTAGCGAATGTTTTTCGTGAATCCCTGACTGATTTAAAGGGGGCAAATGAACAAGAA +ATAAACATACAACATTTAGCTAATGCCCCAACAGTTGTGATTGGGGGACAACAAGCAGGG +ATTTTCGGGGGACCTTTGTATACATCCCATACAATATTTTCAGGGGTTACTTTATCTAAG +AAATTAACGGATACTTTTAAGCAACCCCTAGCACCAGTTTTTGGGGTTGCAGGAGAAGAT +AATGATTTCGATGATTTGAATCATACCCTTGCTTATAACGAAGGGGATGGGTCGCTGCAT +AAGGTTAAATATCATTTAATGGAGACCCCAGCGACGACAGTCGGGGGATATTATCCTGAT +AAGGCTGAGTTGAATTTAACTTTAACCCCGACGTTCATTCATGGGGAAGAAACTGTTCAT +ACACAAGGTCTACTTTTGATTTGTGCCCGAACTATTGACCAAGGGGACTCGTGGACTGAT +ATGTTTAAAGCACTTTTGCATGAAACCCTTACAGCATATGGCGGGGTATTTATAGATGCG +AAGTTTGAGCCGTTTTTAAAAATGGCCCCGCCTATGTTTAAAGGGGTTTTGAAAAAACAT +AAGTTGCTTGATGATTTTTTTAGAGCCCCACCACAACGTACTGGGGATCAAGGCTTGAAT +ACGATGATACAAACTTTTACAAATGCCCATTCATTCTTACATGGGGAAAATATGCGCCAA +ATAGTTTCGTATGATTTTAAGCATTCCCAATCAAATAAAACAGGGGAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_6.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,271 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=3_1;gene=hly;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=3_2;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +abc|SC|contig000001 Prodigal:2.60 CDS 4265 4990 . - 0 ID=abc_00006;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13043,protein motif:Pfam:PF02876.11;locus_tag=abc_00006;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00006 +abc|SC|contig000001 Prodigal:2.60 CDS 5428 6429 . + 0 ID=3_3;eC_number=2.1.3.3;gene=argF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P99073,protein motif:CLUSTERS:PRK04284,protein motif:Cdd:COG0078,protein motif:TIGRFAMs:TIGR00658,protein motif:Pfam:PF00185.1;locus_tag=abc_00007;product=Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Ornithine carbamoyltransferase,ornithine carbamoyltransferase,Aspartate/ornithine carbamoyltransferase%2C Asp/Orn binding domain;protein_id=gnl|SC|abc_00007 +abc|SC|contig000001 Prodigal:2.60 CDS 6449 7384 . + 0 ID=abc_00008;eC_number=2.7.2.2;gene=arcC1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q7A627,protein motif:CLUSTERS:PRK12353,protein motif:TIGRFAMs:TIGR00746,protein motif:Pfam:PF00696.22;locus_tag=abc_00008;product=Carbamate kinase 1,putative amino acid kinase,carbamate kinase,Amino acid kinase family protein;protein_id=gnl|SC|abc_00008 +abc|SC|contig000001 RNAmmer:1.2 rRNA 7556 9112 . + 0 ID=abc_01705;inference=COORDINATES:profile:RNAmmer:1.2;locus_tag=abc_01705;product=16S ribosomal RNA +abc|SC|contig000001 Prodigal:2.60 CDS 9419 9646 . + 0 ID=abc_00010;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00010;product=hypothetical protein;protein_id=gnl|SC|abc_00010 +abc|SC|contig000001 Prodigal:2.60 CDS 9952 10899 . - 0 ID=abc_00011;inference=ab initio prediction:Prodigal:2.60,protein motif:Pfam:PF03595.11;locus_tag=abc_00011;product=C4-dicarboxylate transporter/malic acid transport protein;protein_id=gnl|SC|abc_00011 +abc|SC|contig000001 Prodigal:2.60 CDS 11148 11336 . + 0 ID=abc_00012;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00012;product=hypothetical protein;protein_id=gnl|SC|abc_00012 +abc|SC|contig000001 Aragorn:1.2.34 tRNA 11803 11878 . - 0 ID=abc_00013;inference=COORDINATES:profile:Aragorn:1.2.34;locus_tag=abc_00013;product=tRNA-Arg(tct) +abc|SC|contig000001 Prodigal:2.60 CDS 12241 12375 . + 0 ID=abc_00014;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00014;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00014 +abc|SC|contig000001 Prodigal:2.60 CDS 12432 12566 . + 0 ID=abc_00015;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P11699,protein motif:Pfam:PF05480.5;locus_tag=abc_00015;product=Gonococcal growth inhibitor III,Staphylococcus haemolytic protein;protein_id=gnl|SC|abc_00015 +abc|SC|contig000001 Prodigal:2.60 CDS 12699 13385 . + 0 ID=3_5;eC_number=3.-.-.-;gene=yfnB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:O06480,protein motif:CLUSTERS:PRK09449,protein motif:TIGRFAMs:TIGR02254,protein motif:Pfam:PF00702.1;locus_tag=abc_00016;product=Putative HAD-hydrolase yfnB,dUMP phosphatase,HAD hydrolase,haloacid dehalogenase-like hydrolase;protein_id=gnl|SC|abc_00016 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATTTTAAAAACTCCCCAAGCTGTAATTTAAGGGGGTTCTTTAAATTAT +ATACCCACCACATTTTTTGGAGAACCCCAAACTAGCCGAAAAGGGGCATTTCTGAAGTTA +ACGGCTAAAGTTATTTTTTATATTTCCCTGTCCATGAACAAAGGGGTTACATTAATTTGT +AATTTCTTCTTTTTTTTAATCGATTCCCTATCTTTCTGAAGAGGGGTCTGTCCATTTATC +ATTAGTATTGGTACTTTTCCAATTTCCCGAACTCCAATGCAAGGGGTAGTCATCACGAAC +ACGTTCGTATATTATTTCTATATTTCCCTGTCGTTTGGATGCGGGGCTATCCATAGTAAT +AACTGTAGCGAAGTTTTGTGAAAACCCCGAACATAATAGAGAGGGGGCTTTGTTAGGATC +AAGGAAGTTCTCTGTTTCTTTCATACCCCCACTTCTAGTTTTGGGGAAAAGTTGATTGCC +ATATACCGGGTTCCTTTAATCTCTACCCTATCGTCCCCAATTGGGGTTCACCATATTGTT +AAATATCACTTTCCTTTCTACTTTTCCCTCACTTGGGCTCTCGGGGATTGTTTTGAAATC +AGGTTGAACATATTTTTGTGTATGACCCATCCAAACATTTGCGGGGATAAGGCCGCCAAT +ATTTCCTGTATCATTTTCAGTAACACCCCCGCTGAATCCATAGGGGAAAGTACTCATATA +ATCTTTTGTATCAATTTAATTTCTTCCCTAGCAATCAGATATGGGGGCTACTTCATTATC +AGGTAGTTGCAACTTTTCCTTAAAGCCCGAACGCCAGGCTAAGGGGCTTTTGTTAGCACC +ATCTTCGCTATAAATTTTATATTGACCCGCACTGGTACCTTTGGGGCTAATAACTAGCAG +ATTTTTATTGTGATTTTTATCATCGCCCAAACTATAAAATACGGGGTTGTGCATGCCATT +ATCTTTATCATAAGTTTCTAAATCACCCGTTCTTACTGTAGTGGGGCTTCCAATATCTGT +AGTACCGGTTTTAATTTTAATATCACCCTCTCCGGCATTAGCGGGGGGATTCATTAATAT +AGAACCTAGCAATATTTTTGTTGTTCCCGAGCTGACTATACGGGGGTTCATTTTCATCAT +ACTTCTATTTTTTTTTTCGATTTGACCCAACCATAATCAATAGGGGAATTTAGAATATTG +AAGTTGAGACATATTTTATATTTATCCCCGTCTATATTAGTAGGGGTAATGTAGCAACTG +ATAAATTACTGAGTTTTGATGAGTGCCCATTCTAAGAATATGGGGGTAACTTTTATTTAA +AATTTGAAAGGAAGTTTTTCAATTTCCCGGGCTAGTCAAAGTGGGGTAAATTCTTTATGA +AACAAGGAAAAGACTTTGCTAATTTCCCTGACTAATTTCTTTGGGGCTAATGATTTGTTT +AATTTAAAAATGTATTTGATTACAACCCAAACATACAAATATGGGGGAATTAAATCAATT +AATTAACTATTAAATTTAAATTAAACCCATACTAACTACTGTGGGGTAATAAATAGAAAT +AGAGAAAAAGGGTATTTATTATGTTCCCAATCTCGTCGGGAAGGGGTTTTGCCATTACAT +AGAAATATCTAATATTTAATGAAAACCCATCCTATGTATTTTGGGGATAGTGTAAAATAT +AATATGTAAAATAATTTGTAGATTTCCCGTTCGAGGCATTATGGGGAAATTTTGAGTATA +AGTTAGCTTTTAATTTTGAATCTTACCCAAACTTGATTAATAGGGGTATGATAGGGGATT +AAAATGAAACTATTTTTTATCGTATCCCTTACTATTATATGGGGGGATATATTTTTAGGA +AATGAAATTATCCATTTACTGACTGCCCTAACAACAACATTGGGGGTTGTTAATTCAAGA +AAGGGGATTAAAAATTTCAGAGTTGCCCAATCTTATAAACTCGGGGCAATCTTTGTTTGA +ATCTGAATCAGGCTTTTAAATTTCGCCCAATCCAGGAGTTCCGGGGCAAACAGTACAAGA +ATTAAGAAATGGGATTTCCAAACTACCCGATCCTAGATTTAGGGGGATTATTAAACTTTA +AAGTTACTATGTCTTTTTAAAAGAACCCTAACCATGGGACAAGGGGGTATTGCTATAATA +ATTGAATCATTAAATTTAGGAATAGCCCCTACGACATAATAAGGGGATGTCTTAGGCTCT +ACAATATTATATTGTTTGTAGTTGACCCAATCAAAATGACCAGGGGACAAGCATTTTTGG +AGCCCCAACACAGATTTTGACGAAACCCCAGCTTACAATAATGGGGAAGTTGGGGATGGG +ACCCAACACAGAGATTTTCAAAAAGCCCTTCCACAGACAATGGGGGTTGGCGGGGCCCCA +ACATAGAGAAATTCTTTAAGAAATTCCCCAGCCAATGCAAGTGGGGGAGTGACAACGAAA +AAAATTTTATAAAATTTCATTTCTGCCCCATCCCTACTCCCAGGGGCATTTAAATATATA +AAAAATTTCACCTATTTTATACATCCCCCACCTTAAAAATTAGGGGTTAAATAATCTGAT +ATGGAATTAAAGTGTTTGAAGTATACCCCACCTTCATATACTGGGGAAAGAGGACGTCAA +AAGTTATTTTATTATTTTTTTTAACCCCAACCTTTGCTAGATGGGGATGTAATCTTTTGC +ATAAATCAATAGTGTTTTTATTACCCCCACCCGTGATCTTAAGGGGACCTTTATTACGAT +ATTCGGTATATAATTTTTTATTTTTCCCTAACGCTTCTCGTGGGGGGAAATCGATTTCTT +ACAATGTTAATACTTTTTTATTGCCCCCGTACATTTTATGCGGGGGAATAATCGTTTGTA +ATTTATCTTTGTATTTTACAAAAAGCCCATACGTTTTATCAGGGGGTTTTGCGGCTGGTG +AAACGCCACCTGTATTTGTCTCTCTCCCAGACCACCATAACTGGGGAGTATCTTTGTCTT +ATAGTCCAAACACATTTACGTAACGCCCTTTCAACTGATTAAGGGGTCCCCAACTTTCAG +AGCCCCATAAAGATTTTTGTGCTGACCCTGACTATCTCTTAAGGGGAACATAAATGTTTC +AATTATCATATTGATTTAGCCATTTCCCTGACAATGAAAAATGGGGCTGTGTGTAATATT +AAATTAATTCATTGTTTTTAGTTTCCCCTTGCCCAATGCTATGGGGTTTAGCTTCAGAGT +AAAAACTAAATACTTTTTTTTGATTCCCAGGCAATACAGTACGGGGTAGTAATAATGTTG +ACGTTAAAATTATATTTTTCGTGATCCCCTTCCTCATTAGAAGGGGTCCTTTCAGAGGAA +ACATGATACGAGGATTTAGAAATTTCCCTGTCAGCGAAGTCAGGGGAGTATTTGCGATTA +ATTTTATTAACTCCTTTATTATTGTCCCTTTCATTTTTCGAGGGGGACTTCAATTTTTGC +ATTTTGAGGTTTTTTTTCATATCTACCCGCACCAGTTGATGGGGGGCTTTTACTTAAATC +AATTGTGTAGTTATTTTCTGTACCTCCCATTCTAATTTGTCCGGGGTTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATCCCTGACGAATACGAAAGGGGAATTCTTTTAAAGT +AAAAACAGGCTTATTTTCTTCATAACCCGGACATCCGCCAGTGGGGGTTTCTGCTTTATC +ATTATATGTTACATTTTGTTTATAGCCCTTACCGTTAGATGTGGGGGCAGGAGTAACACC +ACCAGTAAACGTTTTTTGAGATAATCCCAAACAATCAATGGTGGGGTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTCCCTGGCTGATATTGCCGGGGCTTTCAGGTCCATA +AACTTGAATATGACTTTACCAAGAACCCTGTCACAACGTTGCGGGGATCGTACCGTTATC +ATTTTGCCATAACGTTTTGTTAGAGCCCGTTCAATATTTTTGGGGGTAATATTTAGTTAA +ATCATTAACGTTAGTTTCGTTTTGACCCATACAATAAGCTTTGGGGTCAGATGAAGAATT +AATAGGTGTATTAGTTTATTGTGTACCCGCTCTACCTAATAGGGGGAATGTTGTTGATAA +AATAATTTTTTTCGTTTTGTTATTGCCCATTCGAATTTCTCCGGGGAGTATTGTTGGAAT +ATTTAATTATAAAATTTGGTTAATTCCCTAACTGAAATTATCGGGGTTTACAAAAGGTAA +AAGGTTAGTTAGATTTTTCGAGTATCCCTTCCATTTGTGCATGGGGAGGATTTTTAACAT +AACGGTTTGTGTCATTTAATTTTAACCCTTTCCTTAAATCAAGGGGGTAATTATTTCCAT +AAGCAGTTATCTTATTTTGACCTTTCCCAAACTCTCCGTTATGGGGCTTTTTATTCTTTA +ATAATGTTTGACGATTTCGGAAATCCCCTTCCTTTAAAGTTAGGGGTGGTTTATTTCCTT +AGTAAAATTCATGTTTTCCGATGATCCCTTGCTGTTTATCACGGGGTTTTAAAAATAGTC +AATAAGGTTTATCATTTGAAGTAGCCCCTGGCGTAACACCACGGGGAAATGTTTCATCAT +AAGTCCAGTAACCTTTTACTGTGTCCCCATCCTTAGTTCCAAGGGGATCAACGTATTTAT +ATCTTAACTGATTATTTTTTCCCCACCCCTCCGATCCAAACAGGGGAATATGACTATACC +AAACCCACGTTTGCTTTGTTGCATGCCCGCTCCCATTGGGCTGGGGCCATAGCCATTTTC +AAGATAATGAAAAATTTGGCTGAGTCCCATACTTGATTAACTGGGGGATATTAGTCTCGT +ATTCACTGATATTATTTGCTTTTGCCCCAGACGAAAAACTGAGGGGTGTTTTAGGAAGTT +ATGTTGATGTGGTTTTTAAAAGTAACCCTGCCGTTGATAAAAGGGGTTTATTCATGATGT +ACTTTTTCATATGATTTTCTCCTTTCCCTGACTTACCCAAAGGGGGTAAGCTATTACACC +AATTCGGAATTAAATTTAAGCTAAACCCATGCTAAATAAACTGGGGCAGTTAGTAGTGTT +ATTTAAGCAAAACTTTTCATTTTTACCCTTTCGACAGAAACAGGGGTTAATAAAGTAGGC +AGGAGTTATATATTTTTAACGACACCCCACACTTATTCTCTAGGGGATTGCATTAAATTG +ATTGATAATTGAATTTTCTAACTACCCCAAACATAGTTATACGGGGAATGTAGTACTTAT +ATTAATTATTTCCTTTTACTTAAATCCCATACTAATAAAATGGGGGTTTAATTATTGATA +AAATATTACAAATTTTTATAGTAGGCCCTGTCTATTTTGTATGGGGTTACAATTTAGGTG +AAACTAAAATAAAATTTGTTGTTATCCCTGACAAATTTACGAGGGGGAAGTTTTTTAACT +ATATTAGACTTTTCTTTACAAGAGGCCCAATCCTTATTAACAGGGGCCGAGGATTTAAAA +AGTGCTAAATATATTTTCACTGAAACCCCTACGTTAAAAAATGGGGATATTGCACTGTTA +ATTGAAAAAGATTCTTTAAGAACGCCCCGTGCATTTGAAGTTGGGGCGCATGATCAAGGT +ACAAATGTAACTTATTTAGGCCCAACCCGATCACAAATGGGTGGGGAAGAAACAACTAAA +AATACTGCACGTGTTTTTGGTGGAACCCATGCTGGCATTGAAGGGGGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAACCCCAGCCGTACCAGTGGGGGATGGTTTAACTGAT +AAAGATCATCCTACTTTAGTTCTTGCCCATTCCTTAACAGCAGGGGAAGTCTTAAAAAAA +AATTATGCAGATATTTTCTTTACATCCCTTGCAGATGGTCGTGGGGACGTTGCAAATGCA +ATAATGCAAGGTGCTTTCATTATGGCCCTGACCTTCCATTTAGGGGGTCCAAAAGAATTA +AATCCAACAGATGATTTATTAAATCCCCGTACAAATATTGCCGGGGAAAATGGTGGCAAC +ATATTAATCACAGATTTTATTGACCCCCGTGCAAAAGGTTCGGGGGTAATTTACACTGAT +ATTTGGGTATCAATTTTTGAACCTGCCCAAGCATGGAAAGAAGGGGTTGAATTATTGAAA +ACATATCAAGTAAATTTAGAAATGACCCATACAACTGGTAATGGGGATGTTATTTTTGAG +AATTGCTTACCATCTTTCCATAATGCCCATACGAAAATTGGTGGGGAAATTTTTGAAAAA +AATGGTATTCGAGATTTGGAAGTTACCCATGCAGTATTCGAAGGGGAAGCTTCAGTTGTA +ATCCAAGAAGCTGATTTCAGAATGCCCCCAACCAAAGCAGTCGGGGTTGCTACATTGGGT +AAATTTTAAATGATTTTAGGAAGTGCCCATGCTGGCGAAAATGGGGGTAGCATTAGGTGG +AAATGCTTTAGGAATTTCACCTCAACCCCAACTCGAGCTTGTGGGGAATACTGCGAAATC +ATTAGTAGGATTAATTTCAAAAGGACCCGAGCTTGTTATTAGGGGGGGTAATGGACCACA +AGTTGGAAGCATTATTTTGGGACTTCCCTATCCTGCAGAACAGGGGCAAGGTCCGGCATT +ACCATTTGCTGAATTTTGCGCAATGCCCCAACCTTACATCGGGGGGCAATTACAAGAAAG +ATTACAAAATGAATTTTATTCTATTCCCATGCATAAACAAGTGGGGACACTAGTGACACA +AGTTGAAGTTGATGTTTATGATCCGCCCTTTCACAATCCTTCGGGGCCAATTGGGTTATT +ATACAACAAAGAAGTTTCTGAACAACCCCAACAAGAAAAAGGGGGGATATTTGTTGAAGA +AGCTGGAAGAGGATTTTGACGCGTTCCCCCTCCACCACAACCGGGGTCTATTATTGAATT +AGAGAGTATTAAAATTTTTATTAAACCCGATCCACTCGTTATGGGGGCTGGTGGTGGAGG +AATACCAGTAATTATTTAGCAACATCCCGGTCTTAAAGGTATGGGGGCAGTTATAGACAA +AGATAAAACAAGTGTTTTGTTGGGTCCCAATCTTCAATGCGAGGGGTTGATTATTTTAAC +AGCAATTGATTATGTTTATATTAATCCCAACCCTGAAAACCAGGGGCCTTTGAAAACAAC +AAATGTTGATGAATTTTAACGATATCCCGACCAAAATCAATTGGGGAAAGGAAGTATGTT +ACCAAAAATTGAAGTTTCCATATCACCCATTCAAAACAATCCGGGGGGAAGTGTGCTTAT +AACATCATTAAATGTTTTAGATGCTCCCTTACAGGGTAAAGTGGGGACTGTGATTAAAAA +ATAATTGAATTGAATTTCTTTTCAACCCCTACATGTCAAATGGGGGATTTTTATTATTTA +AGTGCACCCCCTGATTTTAATGCCTCCCTTTCGATGCGGGGTGGGGTTTCTTAATTTATA +ATTATAAAATCTTTTTTGTAGAAATCCCAGGCTAAATGTCGAGGGGGATGAAACCGTGGA +AAATACAATTAATGTTTGTGAAAAGCCCAAACGATTTAAATTGGGGATGCCAGGTGCATT +AATGATTTTATTCATTTTAACGGTTCCCGCACTTATAGCAACGGGGGTTATTCCTGCTGG +AGCATATTCTAAACTTTCTTACGAACCCTCACCCCAAGAACTGGGGATAGTTAACCCTCA +AAACCAAGTGAAAATTTTTCCGGGTCCCCAACAGGAACTAGAGGGGATGGGGGTTAAAAT +AAAGATTGAACAATTTTAATCAGGTCCCATTCATAAGCCAGTGGGGATTCCGAATACTTA +AGAAAGATTAAAGCTTTATCCAGCTCCCCCACAACAAATAACGGGGAGCATGGTTGAAGG +AACGATAGAAGCGGTTTATATCATGCCCTTCCTTCTTGTACTGGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGTTTCTTTTGAACCCGGACTGTTAGCTTTGGGGAAGAAAACAAAAGG +ACATGAATTTATGCTTTTTGTGTTTCCCTCACTACTAATGATGGGGGGCGGGACGTTATG +AGGTATTGAAGAAGTTTCTGTAGCACCCTATCCGATTTTAGTGGGGATATTTATAGCGTT +AGGATACGATTCTATTTTTTCAGTTCCCGCCCTATTCCTTGCGGGGTCTGTCGGTAGTAC +ATTTTCAACTATTATTTCGTTCTCGCCCGTACTTGCCTCTAAGGGGGCTGGTACAACTTT +AACGGATGGCTTGTTTTGGAGAATACCCGCTCGTATTGTCGGGGGGATTTTTGTTATTAG +ATATTTATATTGGTTTTGTAAAAAACCCAAACACGATCCTAAGGGGTCATATTCTTATGA +AGACAAAGATGCTTTTTAACAGCAACCCTCTCTATTAAAAGAGGGGGATAGTGCCCATTT +AACTTTGCGTAAGATTTTAATCCTTCCCTTACTTGTACTACCGGGGCCAATTATGGTATG +AGGAGTTATGACGCTTTGTTGGTGGCCCCCACTTATGGCTTCGGGGTTTTTAATATTTAC +AATTATAATAATGTTTTTTGCTGGGCCCGGTCAATCTGGATTGGGGGAAAAAGGAACTGT +AGATGCATTTGTCATTTGTGCATCACCCTTACTAGGTGTATCGGGGATTATTGGTTTAGC +ACGAGGTATTAATTTTTTGTTGAATCCCGGTCTGATTTCAGAGGGGATCTTACACTTTTC +ATCATCTTTAGTTCTTTATATGAGTCCCCCACTATTTATCATGGGGTTACTATTTATTTT +ATTCTGTTTAGGTTTTTTCGTGCCACCCTCTCCTGGATTAGCGGGGTTATCAATGCCTAT +ATTTGCACCACTAGTTTATACAGTACCCATACCAAGATTCGTGGGGGTTACGACATATCA +ATTTGGTCAATATGTTTTGTTATTCCCCGCGCCGACTGGACTGGGGATGGCCACACTACA +AATGTTAAACATGCTTTATTCACATCCCTTCCGATTTGTATGGGGGGTAGTTGCTTTTGT +ATTGATTTTCGGTGTTTGAGTACTACCCACGCAAGTACTAATGGGGTCATAATTTGAAAT +ACTATATTATAAAATTTCTAATTGGCCCTTACGCATCTCGTAGGGGTGTAGAAATACTAA +ACTAAGCGAGGTGCTTTATTATTTTCCCTTACGAAAATAATGGGGGTAATGATAACACTA +ATAAGTAATTGATATTTTGCTCTATCCCATACTGATATTTTTGGGGTTTGTTTTTAATGT +AATGTTAGATCTATTTTATATTATACCCATCCTGGTAAATATGGGGTTGCTGTAAACAGT +ATTTGTAACACATGTTTCATATGGTCCCGAACATAGCATATAGGGGGGATGGCTATAAAT +AACACATTTGACAATTTTTTTAGATCCCCTACCTGGAATATGGGGGGTATTATTATTTAG +AAAATATTTTGTGGTTTATGCAAATCCCGTGCTTGATTGGAAGGGGAGATGGTATTTGCT +AGAAAACATACCACTTTTGCCAATTCCCTTACTTATTCTGATGGGGATTTTCGGAGTACC +ATCTGAAATGATAATTTATAGGCAACCCAAACATAACGGTGTGGGGTTTATCGATATTTA +AAGGTGATAAAATTTTTCAACTATTCCCAAGCCTAAAATAAAGGGGTTTATTAATTATTT +AATTGGTATATTAGTTTTGGCGTTTCCCGCTCATATATTATTGGGGTAAAGGTTAGAGTG +AAACGTGTTTATGATTTAGACGTTCCCCTATCGTTACTACAGGGGGAGTCAGAAGGTATC +ATTGATAAGATCATTTTAAATCAAACCCGCACTGATATACACGGGGAAGAGGCAAGATTA +ACTGCCTCTTTTTTTTTTATTAAATCCCCGTCTTAATTCTTGGGGGTAGTGTTACTGAGA +AGCATTACGAAGAATTTTATCTTGACCCTCCCTTTTTAAAAAGGGGTGAAGATATCCTAT +AAAGACTCTAAGTATTTTTACAGTGCCCAATCACACTTCGATGGGGAAAAGACCTTTCCA +AATATCTGGAAACATTTGTACAGGCCCCCTGCTCTTTAAAGCGGGGGCTGAGATTACTAA +AGGGAATGTGAAAGTTTAAAATACGCCCGAACAAGGTTCTTTGGGGAATTTAGGCAATTG +AATAATGATATAAATTTAAAATATTCCCGCTCATATTAAAAAGGGGATTACGATAAAAGC +ATTCGCCTTAGGAATTTCTATAACACCCGCTCCAGCGACTAAGGGGAATGGTGCACAAAT +AGTCGATGTGTTCGTTTTGATTGACCCCTGCCATGGAAATGCGGGGAATCGCTTGAAAAC +AATAGGTAAGACAATTTAAGTAGCTCCCAAGCCATATATTACGGGGAATTGACCTATGAA +AAAACATCCGCTAATTTGTGCCGTCCCCCCTCCGATAGCAATGGGGATAAAAAGTACAGT +ACACGAAGGATAAATTTTTTCAAGTCCCAAACCTTTTAAATAGGGGATTGAAAAAATAAT +AATATGCGTCATAATTTCCACAAGGCCCAAACTCCAAATAGGGGGGATTAAGCTATTGAT +AAAAGTTATGTTACTTTAAAATGTACCCAAACAAGTAGTACCGGGGAAGCCAGACATGAA +AAATGTTGTGAACATTTATGAAACTCCCGGACTGTTTAATTGGGGGTTCACATTATTAAA +ATATTTGATCATAGTTTATAAAAGGCCCATCCAAATCAAGAAGGGGAAGATTCCGCAAAC +AGCGTTTAAAGTAATTTATAAGTCTCCCAATCGATTACCCAGGGGGAATAATCCTAAGAC +AAGTCCTGACGTTATTTGAGGTGCTCCCTGACGTCTCATGATGGGGAACCTTTCTTATGT +AATTTTCTTCACTATTTATATCATGCCCGCTCTGGCCAATTAGGGGGAAGAGTGTGTACT +ATTACGTTATTAGATTTTGTATATTCCCTTGCTAGACACATAGGGGACATTTAAATCTCA +AAATTAATGATATTTTTGGTATGCTCCCCAACCTAAATATTGGGGGATGTGGAAAAGTAA +ATATTTAATTTAAATTTTGATTGAACCCTTACAAGGGGGTGTGGGGAATGAGAAATCAAA +ATCAAAAACTATTATTTAGTGATTTCCCCAGCTTACATATATGGGGACAAACAGGAGTTC +AACAAAGCACAATATTTAGAATGAGCCCAAACGAAAGATCATGGGGCAATATGTCATTGA +AAAACGCTGAACTATTTTATAAATTCCCCAACAGTATATTTAGGGGTGAAAATTAAGAAG +AATAATTAGTGAGTTTTATAATTAACCCACCCCGTCTCGATGGGGGTGGTTATTTTTTTA +AATGTATTTAATTATTTGATTTCGGCCCCCTCAAAAGTCCCTGGGGTTTTGAATAGTATC +AAAATCTATAGGAATTTTATAATAACCCAAACCTCTACGCATGGGGATGGTGAGTGTTAA +AAATCTTGGTGTAGTTTTGGTGTAGCCCAGGCGCAGTATAGAGGGGATTTGAGCACAAAA +ATACTTAATTAAAATTTTATAAACACCCGTCCGACGCGTGTCGGGGGTGTGTCAAAAAAT +ACTATGACGAATAATTTTGCTTGTTCCCATTCCTGTATTTTCGGGGCTTATGCGGGGGAC +ATTTTGGTGACGCATTTTACTATATCCCTGACATTCAAAACAGGGGGAGCCCCGTAATCA +AGGAACTCTTTTGTTTTGTAATGCGCCCAAACATACCTATAAGGGGCCTGGGAGGGATTC +AAACCCCCGACCGATTTCTTAGAAGCCCATTCCTCTATCCAGGGGGGCTACCAGGACACG +ATTAACAACACAAGTTTTATTATATCCCAATCAACTTAAATTGGGGATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTCCCGAGCTATTTATCTAGGGGGGTTCAATAAGACT +AAAATGCGAATTCATTTAACTTAATCCCGTTCAATACAGTTTGGGGTGCCTAACTGTATT +ACTTTTCTCTTTAATTTACAGTTAACCCCATCATAAGATGTTGGGGGGATAAACAAACTA +ATTGCATCAAATTTTTTTTAAAATACCCACACCAAAACGTTAGGGGAATAACATTTCGGT +AATTTAAAAGCTACTTTCGTTTTTGCCCTCTCCAAATTTAAAGGGGAAGGAGTGTTTTCA +ATGGAAGGTTTATTTTTCGCAATTACCCATACCGTAACTGCAGGGGTTAATAATGATGGC +ACAAAATTAGGCACTTTCATTGTGACCCTCGCTGAAAATGGCGGGGGTTTATTAGGTAAA +ATATTCGGATTCTATTTTCAATATGCCCTGTCAGTAATCAGTGGGGTTTCAAAGGTGAGG +AAGAGATTTAAATGTTTGGACTAGCCCCAGCCATCGCAAATAGGGGGCAAGCTGCACAAC +AACATGATAGTGTGTTTTTAGGCACCCCTATCGTAGACATCGGGGGTAACGGTGTGGGTT +AACTAGGTAAATTATTTGGATTCTACCCTAACAACTAATATTGGGGAAAATAAACTGGGT +AAGCATACTTTAATTTTATGCACTCCCCTTACTTTATTTGCAGGGGTTTGAGCCTCTGTT +AAGATTTAGATACATTTACAATATACCCGATCGGGAAATTGGGGGGTAAAAATATTTTGA +AAGACTTTGATGATTTTATTGTTGACCCTTACGATGCAGAAGGGGGGGCGTTTCACTATA +AGGCGAATGTTTTTTTTCATAAAGCCCCAAACGATGATTTTTGGGGATTTAAAAAAATCA +ATCACCAACATTGGTTTGCTTTTCACCCAAACAAATTAACGAGGGGTGAAGTATTATCAG +AACGATTTGTGAATTTTTTCAAACACCCTCACATGGAAGTTGGGGGGCATCGTGCAGATG +AGTTATTTAGAAATTTTTTAGCAGACCCTAACGTTAAATACTGGGGTCAAACATTAGAAA +AAATTGTCGAATTATTTAAAAGACACCCTTTCTATATTGTTAGGGGTGGTGTAACCGAAA +AGCAAAAGAGAAGGTTTAATCAGACCCCGTTCCATAAATATAGGGGAAAGATATTTATAT +ATGAGGAAACAGGATTTCAAAAACCCCCTCCCGAATTTTTTAGGGGTGTTTTTAATGATA +ATGGTGAGGATGAATTTCAGCACTCCCCTATCGTTGGAGATTGGGGAACATCTGACATTC +AAGGTGGAATCAATTTTGGTATAGCCCCTTGCTGGTTTAATTGGGGAGGATTTGATCATA +ATCCAGGAATTATATTTGATTATGACCCTAACTCATGGAAACGGGGAAATGATATTGTAC +ATTAAGACAAATAATTTGAAAATGACCCATACTAGCTTAAGAGGGGAATTGTAAAAACGA +AACTACGAAAAGATTTTTTTTCATGCCCGTACTGTCGAATATGGGGATCTTATGGTTTCC +ACAATAAGACATCATTTCCCTCTATCCCTTTCGCTTCCACATGGGGAAATCCATGATGTA +AAAAGAAATCCTTATTTTCATTTCTCCCAATCGCTTTAATTGGGGGATTGAAACTCTTTG +AAAAATCAATCAATTTTGAAGCGTACCCTCTCTTTTGATATTGGGGTAATACTTCTAACT +ACCATAATAATATATTTTCTTCAAACCCTGGCAAGTAGATTTGGGGGACATCACCTTTTT +ATAGTAATGCCATTTTTGCTCCTAACCCATCCCCGACAAATAGGGGATAAAATGGTGAAT +ATGAACTTGCATCATTTATTTGACCCCCTAACTCATTGACCAGGGGTAAGTCTTTGTTGC +AAAACGCTCTAAAGTTTTCGAATAACCCGTCCGTTTTGTAATGGGGTTCAAGACGTTTGA +ATTCACTCATATTTTTTTACCCCTTCCCTGTCTACTACTATTGGGGTACATTAAACCACT +AGTGTTTTTCATTGTTTTGAAAATGCCCAACCATGAACATTAGGGGTTTTCCATGATTAA +ATTGATTTTCAAGCTTTAAAATTGTCCCTCACCGGTATAGACGGGGTACTATAGTTTGTA +ATCGCGTACTTAAGTTTAAAAAACACCCACTCTAAAGTAGTTGGGGTAAATGAAAAAGAT +AAGTTTATACCAAATTTAAAGAGCACCCACCCTGTAATAACAGGGGTATTTCAATATGAT +ACAGCTCAACAAACTTTTTTTGAAACCCGGACGTCTAAAGAAGGGGATGGAAGAGAAGCG +ACATTAGCGAATGTTTTTCGTGAATCCCTGACTGATTTAAAGGGGGCAAATGAACAAGAA +ATAAACATACAACATTTAGCTAATGCCCCAACAGTTGTGATTGGGGGACAACAAGCAGGG +ATTTTCGGGGGACCTTTGTATACATCCCATACAATATTTTCAGGGGTTACTTTATCTAAG +AAATTAACGGATACTTTTAAGCAACCCCTAGCACCAGTTTTTGGGGTTGCAGGAGAAGAT +AATGATTTCGATGATTTGAATCATACCCTTGCTTATAACGAAGGGGATGGGTCGCTGCAT +AAGGTTAAATATCATTTAATGGAGACCCCAGCGACGACAGTCGGGGGATATTATCCTGAT +AAGGCTGAGTTGAATTTAACTTTAACCCCGACGTTCATTCATGGGGAAGAAACTGTTCAT +ACACAAGGTCTACTTTTGATTTGTGCCCGAACTATTGACCAAGGGGACTCGTGGACTGAT +ATGTTTAAAGCACTTTTGCATGAAACCCTTACAGCATATGGCGGGGTATTTATAGATGCG +AAGTTTGAGCCGTTTTTAAAAATGGCCCCGCCTATGTTTAAAGGGGTTTTGAAAAAACAT +AAGTTGCTTGATGATTTTTTTAGAGCCCCACCACAACGTACTGGGGATCAAGGCTTGAAT +ACGATGATACAAACTTTTACAAATGCCCATTCATTCTTACATGGGGAAAATATGCGCCAA +ATAGTTTCGTATGATTTTAAGCATTCCCAATCAAATAAAACAGGGGAGACATATATAAAG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_groups Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,7 @@ +group_1: 1_1 2_1 3_1 +group_2: 1_2 2_2 +group_3: 1_3 3_3 +group_4: 2_4 3_4 +group_5: 3_5 +group_6: 1_6 +group_7: 2_7 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_groups_all_merged Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1 @@ +group_1: 1_1 2_1 3_1 1_2 2_2 1_3 3_3 2_4 3_4 3_5 1_6 2_7 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_groups_missing_genes Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,7 @@ +group_1: 1_1 2_1 3_1 4_1 +group_2: 1_2 2_2 +group_3: 1_3 3_3 +group_4: 2_4 3_4 +group_5: 3_5 +group_6: 1_6 +group_7: 2_7 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_groups_paralogs Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +group_1: 1_1 2_1 3_1 +group_2: 1_2 2_2 2_7 +group_3: 1_3 3_3 2_4 +group_4: 3_4 +group_5: 3_5 +group_6: 1_6
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/query_groups_reference Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +group_1: 1_1 2_1 3_1 +group_2: 1_2 2_2 +group_3: 1_3 3_3 +group_5: 3_5 +group_6: 1_6 +group_7: 2_7
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/raxml.tre Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1 @@ +((efgh_7#3:0.02316815548247504186,(((((abcd_4#15:0.00000132226186997362,((abcd_3#9:0.00077142536151366802,abcd_4#17:0.00231509323793084891)66:0.00000132226186997362,abcd_3#20:0.00000132226186997362)69:0.00000132226186997362)100:0.00465923394294907780,abcd_3#96:0.00855943508912884905)97:0.00305706239572176106,abcd_3#7:0.00702776231555758951)100:0.01189241259037208259,((6753_5#30:0.00077274606169234225,((abcd_3#8:0.00232303086183083740,abcd_3#12:0.00000132226186997362)15:0.00000132226186997362,abcd_4#13:0.00077458209519013735)34:0.00000132226186997362)100:0.00543005878845978333,abcd_3#4:0.00627124124511847011)100:0.02250612800623742402)94:0.00229388045702955557,(abcd_3#47:0.01341623695325115141,((abcd_4#36:0.00000132226186997362,abcd_3#90:0.00000132226186997362)100:0.01406707131121531958,(((abcd_3#45:0.00000132226186997362,abcd_3#51:0.00645148529478506948)88:0.00213347922463543761,((abcd_3#76:0.00623728515995487526,(abcd_4#22:0.00627252597618067984,((abcd_3#94:0.00000132226186997362,abcd_3#72:0.00000132226186997362)98:0.00310391698506840095,abcd_3#18:0.00000132226186997362)100:0.00866004226368127794)83:0.00074194767764187573)62:0.00078073745490957029,((abcd_3#82:0.00622652688081153961,(abcd_3#88:0.00000132226186997362,abcd_3#87:0.00000132226186997362)100:0.00857673644197349747)57:0.00072923797818549103,(abcd_3#58:0.00000132226186997362,(abcd_3#85:0.00000132226186997362,(abcd_4#24:0.00076942622569081123,abcd_3#86:0.00154436764242521811)67:0.00000132226186997362)95:0.00153994529775838417)100:0.00622988517781090934)99:0.00391098343731804791)56:0.00000132226186997362)84:0.00155245684874360406,(abcd_4#38:0.00000132226186997362,(((abcd_3#70:0.00000132226186997362,abcd_3#89:0.00077092094232594885)67:0.00077141909097768792,abcd_3#19:0.00000132226186997362)64:0.00077185290304121294,abcd_3#84:0.00077268682225444766)46:0.00000132226186997362)100:0.01884135086335945314)84:0.00000132226186997362)98:0.00231665969313109722)100:0.00869061762598819128)100:0.00712310831326986617)100:0.00000132226186997362,(((((((((abcd_3#60:0.00000132226186997362,(abcd_4#21:0.00000132226186997362,abcd_3#35:0.00000132226186997362)63:0.00077435429455191866)100:0.00067951772289146634,abcd_3#32:0.00631217588430617402)100:0.02994628172895110949,(abcd_4#20:0.00156522339577581807,(abcd_3#11:0.00000132226186997362,(abcd_4#28:0.00000132226186997362,abcd_4#27:0.00000132226186997362)99:0.00233669665377406015)91:0.00077239513539845042)100:0.01606095283607060151)100:0.00462461859626085801,(((abcd_3#54:0.01180235074075351893,abcd_3#53:0.00857612881135592746)67:0.00089112701883803304,abcd_3#43:0.00393186422217672599)100:0.00538409429284307343,(abcd_3#50:0.00622392842077187317,((abcd_4#12:0.00076758051025639250,(abcd_3#15:0.00000132226186997362,abcd_3#21:0.00385987594678770642)83:0.00000132226186997362)100:0.01960407345618833327,((abcd_3#91:0.00000132226186997362,abcd_3#73:0.00000132226186997362)100:0.00620531368446218968,(((abcd_3#61:0.00388805278349425333,(abcd_4#35:0.00778153754178156389,abcd_3#17:0.01089247524165314410)65:0.00000132226186997362)64:0.00077356760974459440,(abcd_3#67:0.00312895358465437121,(abcd_3#27:0.00000132226186997362,(abcd_3#13:0.00077547546351081618,((((abcd_3#24:0.00000132226186997362,abcd_3#95:0.00000132226186997362)50:0.00000132226186997362,(abcd_3#23:0.00000132226186997362,(abcd_3#29:0.00000132226186997362,(abcd_3#75:0.00000132226186997362,abcd_3#25:0.00000132226186997362)8:0.00000132226186997362)4:0.00000132226186997362)3:0.00000132226186997362)14:0.00000132226186997362,abcd_4#16:0.00077326015058246165)18:0.00000132226186997362,(abcd_4#30:0.00000132226186997362,(abcd_4#26:0.00000132226186997362,(abcd_3#36:0.00000132226186997362,abcd_4#25:0.00000132226186997362)32:0.00000132226186997362)29:0.00000132226186997362)83:0.00154603891415671085)42:0.00000132226186997362)65:0.00077376150782699756)100:0.00702342907247293334)64:0.00075456473366204040)12:0.00000132226186997362,((abcd_3#64:0.00000132226186997362,abcd_3#44:0.00000132226186997362)65:0.00077365659659393512,(abcd_3#68:0.00000132226186997362,abcd_3#69:0.00000132226186997362)100:0.00932174039768971646)15:0.00000132226186997362)23:0.00000132226186997362)56:0.00077344029318351904)61:0.00000132226186997362)100:0.00465345295130407000)100:0.01111214870825547735)99:0.00374408351410862681,(efgh_7#12:0.01833223611065578143,(abcd_3#55:0.02324957283752214152,((abcd_4#1:0.00469566203917269956,(abcd_3#56:0.00546936779545076270,abcd_3#14:0.00622833716792515427)100:0.00151084301588890889)100:0.00789157197361813056,(abcd_4#7:0.00233293316007452626,(abcd_4#8:0.00077311598970405320,((abcd_3#26:0.00077550158683622301,abcd_4#9:0.00000132226186997362)39:0.00000132226186997362,(abcd_4#40:0.00231679829332564514,abcd_4#10:0.00000132226186997362)89:0.00154601555763803750)40:0.00000132226186997362)100:0.00780916089311263408)97:0.00307287638606677186)100:0.00953794433170505190)100:0.00869196764035643291)100:0.00977872108322918980)80:0.00156873804149701489,(abcd_4#6:0.00000132226186997362,abcd_4#5:0.00000132226186997362)100:0.02610847709952213158)100:0.00115877341875185490,((abcd_3#3:0.01670319394504033925,(abcd_3#33:0.00000132226186997362,abcd_3#28:0.00000132226186997362)100:0.02055825834093799945)100:0.00631193742166692457,((abcd_3#6:0.00000132226186997362,abcd_3#16:0.00000132226186997362)100:0.01660913514998323473,(((abcd_3#79:0.00000132226186997362,abcd_3#77:0.00000132226186997362)100:0.00854956715195766097,((abcd_4#41:0.00154085601563807195,(abcd_4#34:0.00000132226186997362,((abcd_3#5:0.00000132226186997362,(((abcd_3#74:0.00076882224000264889,abcd_3#34:0.00154339011642515137)3:0.00000132226186997362,(abcd_3#2:0.00076882393169920289,abcd_3#22:0.00076882393169920289)2:0.00000132226186997362)0:0.00000132226186997362,(((abcd_4#32:0.00000132226186997362,abcd_3#92:0.00076869510795057395)60:0.00076875756629854659,abcd_4#19:0.00076905889272679622)6:0.00000132226186997362,(abcd_4#23:0.00153888458435903590,(abcd_4#18:0.00230933031152180277,abcd_3#37:0.00154338804217775882)9:0.00000132226186997362)3:0.00000132226186997362)0:0.00000132226186997362)1:0.00000132226186997362)3:0.00000132226186997362,abcd_3#59:0.00000132226186997362)2:0.00000132226186997362)54:0.00076857718755298703)65:0.00077555059848881977,(abcd_3#30:0.00000132226186997362,abcd_3#1:0.00000132226186997362)99:0.00153650731415773379)100:0.00621766977560912586)89:0.00151241128294433351,((abcd_4#42:0.00000132226186997362,abcd_3#10:0.00000132226186997362)91:0.00154222559231584149,((abcd_4#37:0.00000132226186997362,((abcd_3#81:0.00000132226186997362,(abcd_3#80:0.00000132226186997362,abcd_3#83:0.00000132226186997362)62:0.00000132226186997362)70:0.00077071378050518611,(abcd_4#33:0.00154280535353011465,(abcd_4#31:0.00076943370157726051,((abcd_3#71:0.00000132226186997362,abcd_3#78:0.00000132226186997362)49:0.00000132226186997362,((abcd_4#39:0.00076989789528285400,(abcd_3#41:0.00000132226186997362,(abcd_4#29:0.00000132226186997362,abcd_4#14:0.00000132226186997362)81:0.00000132226186997362)78:0.00076966766619406121)82:0.00154202631463747943,abcd_3#31:0.00153982188992232857)52:0.00000132226186997362)46:0.00000132226186997362)87:0.00154081390428061960)46:0.00000132226186997362)15:0.00000132226186997362)20:0.00000132226186997362,abcd_3#93:0.00154841596303632542)70:0.00000132226186997362)95:0.00234308767561589113)100:0.01268000193507385319)70:0.00000132226186997362)100:0.01948160300069467707)100:0.03080643698088052218,abcd_3#62:0.05958621335563133586)100:0.00000132226186997362,(abcd_3#48:0.01495824524344147380,(abcd_3#42:0.00466602633570538643,(abcd_3#52:0.00390697663604849376,(abcd_3#57:0.00701624022983718919,(abcd_3#49:0.00000132226186997362,(abcd_4#3:0.00077677169701956478,(abcd_4#2:0.00000132226186997362,(abcd_3#39:0.00000132226186997362,(abcd_3#38:0.00077936967227037839,abcd_4#11:0.00077652476200712472)44:0.00000132226186997362)98:0.00233380194325215166)82:0.00155750275978298273)87:0.00077833329157559123)100:0.00389755574822029088)100:0.00000132226186997362)100:0.00552477386573709244)100:0.00983188219808936101)100:0.13376681553139949110)100:0.03578419742883675453,5749_2#1:0.02465538922215411086);
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/real_data_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1641 @@ +##gff-version 3 +##sequence-region ERS111111|SC|contig000020 1 92255 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 241 921 . - 0 ID=11111_1#11_04055;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145956.2,protein motif:Pfam:PF07108.5;locus_tag=11111_1#11_04055;product=pathogenicity island-encoded protein A,PipA protein;protein_id=gnl|SC|11111_1#11_04055 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 1144 2019 . - 0 ID=11111_1#11_04056;gene=pipB2_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145957.1,similar to AA sequence:UniProtKB:Q8ZMM8,protein motif:CLUSTERS:PRK15197,protein motif:Cdd:COG5351,protein motif:Pfam:PF00805.16;locus_tag=11111_1#11_04056;product=secreted effector protein,Type III effector pipB2,secreted effector protein PipB,Uncharacterized protein conserved in bacteria,Pentapeptide repeats (8 copies);protein_id=gnl|SC|11111_1#11_04056 +ERS111111|SC|contig000020 Infernal:1.1 ncRNA 2139 2156 . + 0 ID=11111_1#11_04057;inference=COORDINATES:profile:Infernal:1.1;locus_tag=11111_1#11_04057;product=isrI +ERS111111|SC|contig000020 Prodigal:2.60 CDS 2567 2908 . - 0 ID=11111_1#11_04058;gene=sigE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145959.1,similar to AA sequence:UniProtKB:O30917,protein motif:CLUSTERS:PRK15202,protein motif:Pfam:PF07824.6;locus_tag=11111_1#11_04058;product=chaperone protein SigE,Chaperone protein sigE,type III secretion chaperone protein SigE,Type III secretion chaperone domain;protein_id=gnl|SC|11111_1#11_04058 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 2925 4610 . - 0 ID=11111_1#11_04059;eC_number=3.1.3.-,3.1.3.-;gene=sopB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145960.1,similar to AA sequence:UniProtKB:O30916,protein motif:CLUSTERS:PRK15378,protein motif:Pfam:PF05925.6;locus_tag=11111_1#11_04059;product=inositol phosphate phosphatase SopB,Inositol phosphate phosphatase sopB,inositol phosphate phosphatase SopB,Enterobacterial virulence protein IpgD;protein_id=gnl|SC|11111_1#11_04059 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 5332 6801 . - 0 ID=11111_1#11_04060;eC_number=3.4.-.-;gene=pepD_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002215025.1,similar to AA sequence:UniProtKB:Q8G6Z9,protein motif:Pfam:PF03577.9;locus_tag=11111_1#11_04060;product=peptidase family C69,Dipeptidase,Peptidase family C69;protein_id=gnl|SC|11111_1#11_04060 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 6974 8338 . - 0 ID=11111_1#11_04061;eC_number=2.7.13.3;gene=yedV;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145964.1,similar to AA sequence:UniProtKB:P76339,protein motif:CLUSTERS:PRK09835,protein motif:Cdd:COG5278,protein motif:TIGRFAMs:TIGR01386,protein motif:Pfam:PF02518.20;locus_tag=11111_1#11_04061;product=heavy metal sensor kinase subfamily,Probable sensor-like histidine kinase YedV,sensor kinase CusS,Predicted periplasmic ligand-binding sensor domain,heavy metal sensor kinase,Histidine kinase-%2C DNA gyrase B-%2C and HSP90-like ATPase;protein_id=gnl|SC|11111_1#11_04061 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 8331 9068 . - 0 ID=11111_1#11_04062;gene=copR;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002243090.1,similar to AA sequence:UniProtKB:P76340,protein motif:CLUSTERS:PRK11517,protein motif:Cdd:COG4565,protein motif:TIGRFAMs:TIGR01387,protein motif:Pfam:PF00072.18;locus_tag=11111_1#11_04062;product=transcriptional regulatory protein YedW,Probable transcriptional regulatory protein YedW,transcriptional regulatory protein YedW,Response regulator of citrate/malate metabolism,heavy metal response regulator,Response regulator receiver domain;protein_id=gnl|SC|11111_1#11_04062 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 9147 9557 . + 0 ID=11111_1#11_04063;eC_number=3.5.2.17,3.5.2.17;gene=uraH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145966.1,similar to AA sequence:UniProtKB:Q4VYA5,protein motif:CLUSTERS:PRK15036,protein motif:TIGRFAMs:TIGR02962,protein motif:Pfam:PF00576.15;locus_tag=11111_1#11_04063;product=hydroxyisourate hydrolase,5-hydroxyisourate hydrolase precursor,hydroxyisourate hydrolase,hydroxyisourate hydrolase,HIUase/Transthyretin family;protein_id=gnl|SC|11111_1#11_04063 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 9890 10402 . - 0 ID=11111_1#11_04064;eC_number=1.5.1.36;gene=hpaC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729827.1,similar to AA sequence:UniProtKB:Q57501,protein motif:CLUSTERS:PRK15486,protein motif:TIGRFAMs:TIGR02296,protein motif:Pfam:PF01613.12;locus_tag=11111_1#11_04064;product=4-hydroxyphenylacetate 3-monooxygenase coupling protein,4-hydroxyphenylacetate 3-monooxygenase reductase component,4-hydroxyphenylacetate 3-monooxygenase reductase subunit,4-hydroxyphenylacetate 3-monooxygenase%2C reductase component,Flavin reductase like domain;protein_id=gnl|SC|11111_1#11_04064 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 10420 11652 . - 0 ID=11111_1#11_04065;eC_number=1.14.14.9;gene=hpaB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145968.1,similar to AA sequence:UniProtKB:Q57160,protein motif:TIGRFAMs:TIGR02310,protein motif:Pfam:PF03241.7;locus_tag=11111_1#11_04065;product=4-hydroxyphenylacetate 3-monooxygenase%2C oxygenase component,4-hydroxyphenylacetate 3-monooxygenase oxygenase component,4-hydroxyphenylacetate 3-monooxygenase%2C oxygenase component,4-hydroxyphenylacetate 3-hydroxylase C terminal;protein_id=gnl|SC|11111_1#11_04065 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 11833 12273 . - 0 ID=11111_1#11_04066;gene=hpaR;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145969.1,similar to AA sequence:UniProtKB:O07458,protein motif:TIGRFAMs:TIGR02337,protein motif:Pfam:PF01047.16;locus_tag=11111_1#11_04066;product=homoprotocatechuate degradation operon regulator%2C HpaR,Benzoate anaerobic degradation regulator,homoprotocatechuate degradation operon regulator%2C HpaR,MarR family;protein_id=gnl|SC|11111_1#11_04066 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 12548 13837 . + 0 ID=11111_1#11_04067;eC_number=5.3.3.-;gene=hpaG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729830.1,similar to AA sequence:UniProtKB:P37352,protein motif:CLUSTERS:PRK15203,protein motif:Cdd:COG0179,protein motif:TIGRFAMs:TIGR02303,protein motif:Pfam:PF01557.12;locus_tag=11111_1#11_04067;product=4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase,Homoprotocatechuate catabolism bifunctional isomerase/decarboxylase,4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase,2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1%2C7-dioic acid hydratase (catechol pathway),4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase%2C C-terminal subunit,Fumarylacetoacetate (FAA) hydrolase family;protein_id=gnl|SC|11111_1#11_04067 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 13834 14133 . + 0 ID=11111_1#11_04068;eC_number=1.2.1.8;gene=hpcC_1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729831.1,similar to AA sequence:UniProtKB:Q9HTJ1,protein motif:CLUSTERS:PRK13252,protein motif:Cdd:COG3191,protein motif:TIGRFAMs:TIGR02299,protein motif:Pfam:PF00171.1;locus_tag=11111_1#11_04068;product=5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase,Betaine aldehyde dehydrogenase,betaine aldehyde dehydrogenase,L-aminopeptidase/D-esterase,5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase,Aldehyde dehydrogenase family;protein_id=gnl|SC|11111_1#11_04068 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 14127 15299 . + 0 ID=11111_1#11_04069;eC_number=1.2.1.-;gene=hpcC_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729831.1,similar to AA sequence:UniProtKB:P23105,protein motif:CLUSTERS:PRK13252,protein motif:Cdd:COG4230,protein motif:TIGRFAMs:TIGR02299,protein motif:Pfam:PF00171.1;locus_tag=11111_1#11_04069;product=5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase,2-hydroxymuconic semialdehyde dehydrogenase,betaine aldehyde dehydrogenase,Delta 1-pyrroline-5-carboxylate dehydrogenase,5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase,Aldehyde dehydrogenase family;protein_id=gnl|SC|11111_1#11_04069 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 15301 16152 . + 0 ID=11111_1#11_04070;eC_number=1.13.11.15,1.13.11.15;gene=hpcB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729832.1,similar to AA sequence:UniProtKB:Q05353,protein motif:CLUSTERS:PRK03881,protein motif:Cdd:COG0179,protein motif:TIGRFAMs:TIGR02298,protein motif:Pfam:PF02900.1;locus_tag=11111_1#11_04070;product=3%2C4-dihydroxyphenylacetate 2%2C3-dioxygenase,3%2C4-dihydroxyphenylacetate 2%2C3-dioxygenase,hypothetical protein,2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1%2C7-dioic acid hydratase (catechol pathway),3%2C4-dihydroxyphenylacetate 2%2C3-dioxygenase,Catalytic LigB subunit of aromatic ring-opening dioxygenase;protein_id=gnl|SC|11111_1#11_04070 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 16162 16542 . + 0 ID=11111_1#11_04071;eC_number=5.3.3.10,5.3.3.10;gene=hpcD;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729833.1,similar to AA sequence:UniProtKB:Q05354,protein motif:CLUSTERS:PRK15031,protein motif:Cdd:COG3232,protein motif:Pfam:PF02962.1;locus_tag=11111_1#11_04071;product=5-carboxymethyl-2-hydroxymuconate delta-isomerase,5-carboxymethyl-2-hydroxymuconate Delta-isomerase,5-carboxymethyl-2-hydroxymuconate delta-isomerase,5-carboxymethyl-2-hydroxymuconate isomerase,5-carboxymethyl-2-hydroxymuconate isomerase;protein_id=gnl|SC|11111_1#11_04071 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 16686 17489 . + 0 ID=11111_1#11_04072;eC_number=4.2.-.-,4.2.1.80;gene=hpcG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729834.1,similar to AA sequence:UniProtKB:Q9S156,protein motif:CLUSTERS:PRK11342,protein motif:Cdd:COG3971,protein motif:TIGRFAMs:TIGR02312,protein motif:Pfam:PF01557.12;locus_tag=11111_1#11_04072;product=2-oxo-hepta-3-ene-1%2C7-dioic acid hydratase,2-keto-4-pentenoate hydratase,2-keto-4-pentenoate hydratase,2-keto-4-pentenoate hydratase,2-oxo-hepta-3-ene-1%2C7-dioic acid hydratase,Fumarylacetoacetate (FAA) hydrolase family;protein_id=gnl|SC|11111_1#11_04072 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 17500 18291 . + 0 ID=11111_1#11_04073;eC_number=4.1.2.-;gene=hpaI;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216043.1,similar to AA sequence:UniProtKB:Q47098,protein motif:CLUSTERS:PRK10128,protein motif:Cdd:COG2301,protein motif:TIGRFAMs:TIGR02311,protein motif:Pfam:PF03328.8;locus_tag=11111_1#11_04073;product=4-hydroxyphenylacetate catabolism,4-hydroxy-2-oxo-heptane-1%2C7-dioate aldolase,2-keto-3-deoxy-L-rhamnonate aldolase,Citrate lyase beta subunit,2%2C4-dihydroxyhept-2-ene-1%2C7-dioic acid aldolase,HpcH/HpaI aldolase/citrate lyase family;protein_id=gnl|SC|11111_1#11_04073 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 18363 19739 . + 0 ID=11111_1#11_04074;gene=hpaX;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729836.1,similar to AA sequence:UniProtKB:P76470,protein motif:CLUSTERS:PRK11551,protein motif:Cdd:COG2814,protein motif:TIGRFAMs:TIGR02332,protein motif:Pfam:PF07690.10;locus_tag=11111_1#11_04074;product=4-hydroxyphenylacetate permease,Inner membrane transport protein RhmT,putative 3-hydroxyphenylpropionic transporter MhpT,Arabinose efflux permease,4-hydroxyphenylacetate permease,Major Facilitator Superfamily;protein_id=gnl|SC|11111_1#11_04074 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 19749 20645 . + 0 ID=11111_1#11_04075;gene=hpaA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729837.1,similar to AA sequence:UniProtKB:P40408,protein motif:CLUSTERS:PRK10572,protein motif:Cdd:COG2169,protein motif:TIGRFAMs:TIGR02297,protein motif:Pfam:PF12833.1;locus_tag=11111_1#11_04075;product=4-hydroxyphenylacetate 3-monooxygenase operon regulatory protein,Bacillibactin transport regulator,DNA-binding transcriptional regulator AraC,Adenosine deaminase,4-hydroxyphenylacetate catabolism regulatory protein HpaA,Helix-turn-helix domain;protein_id=gnl|SC|11111_1#11_04075 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 20659 21597 . + 0 ID=11111_1#11_04076;eC_number=3.1.26.11,3.1.26.11;gene=rnz;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087376.1,similar to AA sequence:UniProtKB:P54548,protein motif:CLUSTERS:PRK00055,protein motif:Cdd:COG5212,protein motif:TIGRFAMs:TIGR02651,protein motif:Pfam:PF12706.1;locus_tag=11111_1#11_04076;product=Ribonuclease Z,Ribonuclease Z,ribonuclease Z,Low-affinity cAMP phosphodiesterase,ribonuclease Z,Beta-lactamase superfamily domain;protein_id=gnl|SC|11111_1#11_04076 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 23021 23326 . - 0 ID=11111_1#11_04077;gene=cbpM;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570915.1,similar to AA sequence:UniProtKB:P63264,protein motif:CLUSTERS:PRK10265;locus_tag=11111_1#11_04077;product=chaperone-modulator protein CbpM,Chaperone modulatory protein CbpM,chaperone-modulator protein CbpM;protein_id=gnl|SC|11111_1#11_04077 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 23326 24246 . - 0 ID=11111_1#11_04078;gene=cbpA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729840.1,similar to AA sequence:UniProtKB:P36659,protein motif:CLUSTERS:PRK10266,protein motif:Cdd:COG5407,protein motif:TIGRFAMs:TIGR02349,protein motif:Pfam:PF01556.12;locus_tag=11111_1#11_04078;product=curved DNA-binding protein,Curved DNA-binding protein,curved DNA-binding protein CbpA,Preprotein translocase subunit Sec63,chaperone protein DnaJ,DnaJ C terminal domain;protein_id=gnl|SC|11111_1#11_04078 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 24482 24844 . + 0 ID=11111_1#11_04079;gene=scsA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729841.1;locus_tag=11111_1#11_04079;product=copper-sensitivity suppressor membrane protein A;protein_id=gnl|SC|11111_1#11_04079 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 24893 26779 . + 0 ID=11111_1#11_04080;eC_number=1.8.1.8;gene=scsB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729842.1,similar to AA sequence:UniProtKB:P36655,protein motif:CLUSTERS:PRK00293,protein motif:Cdd:COG4233,protein motif:Pfam:PF02683.9;locus_tag=11111_1#11_04080;product=copper-sensitivity suppressor membrane protein B,Thiol:disulfide interchange protein DsbD precursor,thiol:disulfide interchange protein precursor,Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis,Cytochrome C biogenesis protein transmembrane region;protein_id=gnl|SC|11111_1#11_04080 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 26776 27399 . + 0 ID=11111_1#11_04081;gene=scsC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729843.1,similar to AA sequence:UniProtKB:O32218,protein motif:Cdd:COG1651,protein motif:Pfam:PF01323.14;locus_tag=11111_1#11_04081;product=copper-sensitivity secreted suppressor protein C,Thiol-disulfide oxidoreductase D,Protein-disulfide isomerase,DSBA-like thioredoxin domain;protein_id=gnl|SC|11111_1#11_04081 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 27389 27895 . + 0 ID=11111_1#11_04082;gene=resA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145985.1,similar to AA sequence:UniProtKB:P35160,protein motif:CLUSTERS:PRK03147,protein motif:TIGRFAMs:TIGR00385,protein motif:Pfam:PF08534.4;locus_tag=11111_1#11_04082;product=suppressor for copper-sensitivity D,Thiol-disulfide oxidoreductase resA,thiol-disulfide oxidoreductase,periplasmic protein thiol:disulfide oxidoreductases%2C DsbE subfamily,Redoxin;protein_id=gnl|SC|11111_1#11_04082 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 28028 29269 . + 0 ID=11111_1#11_04083;eC_number=3.1.3.10;gene=agp;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570908.1,similar to AA sequence:UniProtKB:P19926,protein motif:CLUSTERS:PRK10173,protein motif:Pfam:PF00328.1;locus_tag=11111_1#11_04083;product=glucose-1-phosphatase/inositol phosphatase,Glucose-1-phosphatase precursor,glucose-1-phosphatase/inositol phosphatase,Histidine phosphatase superfamily (branch 2);protein_id=gnl|SC|11111_1#11_04083 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 29303 29530 . - 0 ID=11111_1#11_04084;gene=yccJ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087385.1,similar to AA sequence:UniProtKB:P0AB14,protein motif:CLUSTERS:PRK10174;locus_tag=11111_1#11_04084;product=YccJ-like protein,hypothetical protein,hypothetical protein;protein_id=gnl|SC|11111_1#11_04084 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 29551 30147 . - 0 ID=11111_1#11_04085;gene=wrbA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729847.1,similar to AA sequence:UniProtKB:P0A8G6,protein motif:CLUSTERS:PRK03767,protein motif:TIGRFAMs:TIGR01755,protein motif:Pfam:PF03358.9;locus_tag=11111_1#11_04085;product=trp repressor binding protein,Trp repressor-binding protein,NAD(P)H:quinone oxidoreductase,NAD(P)H:quinone oxidoreductase%2C type IV,NADPH-dependent FMN reductase;protein_id=gnl|SC|11111_1#11_04085 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 30532 30699 . + 0 ID=11111_1#11_04086;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087756.1,protein motif:Pfam:PF10685.3;locus_tag=11111_1#11_04086;product=Conidiation-specific protein 10,Stress-induced bacterial acidophilic repeat motif;protein_id=gnl|SC|11111_1#11_04086 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 30836 31474 . + 0 ID=11111_1#11_04087;gene=rutR;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729849.1,similar to AA sequence:UniProtKB:P0ACU2,protein motif:CLUSTERS:PRK15008,protein motif:TIGRFAMs:TIGR03613,protein motif:Pfam:PF08362.5;locus_tag=11111_1#11_04087;product=transcriptional regulator,Rut operon repressor,HTH-type transcriptional regulator RutR,pyrimidine utilization regulatory protein R,YcdC-like protein%2C C-terminal region;protein_id=gnl|SC|11111_1#11_04087 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 31471 31866 . - 0 ID=11111_1#11_04088;inference=ab initio prediction:Prodigal:2.60,protein motif:Cdd:COG3755,protein motif:Pfam:PF07007.6;locus_tag=11111_1#11_04088;product=Uncharacterized protein conserved in bacteria,Protein of unknown function (DUF1311);protein_id=gnl|SC|11111_1#11_04088 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 31925 35887 . - 0 ID=11111_1#11_04089;gene=putA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002243116.1,similar to AA sequence:UniProtKB:P09546,protein motif:CLUSTERS:PRK11809,protein motif:Cdd:COG4230,protein motif:TIGRFAMs:TIGR01238,protein motif:Pfam:PF01619.12;locus_tag=11111_1#11_04089;product=trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase,Bifunctional protein putA,trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase,Delta 1-pyrroline-5-carboxylate dehydrogenase,delta-1-pyrroline-5-carboxylate dehydrogenase,Proline dehydrogenase;protein_id=gnl|SC|11111_1#11_04089 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 36309 37817 . + 0 ID=11111_1#11_04090;gene=putP;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145994.1,similar to AA sequence:UniProtKB:P07117,protein motif:CLUSTERS:PRK15419,protein motif:Cdd:COG4145,protein motif:TIGRFAMs:TIGR02121,protein motif:Pfam:PF00474.11;locus_tag=11111_1#11_04090;product=sodium/proline symporter,Propionate transporter,proline:sodium symporter PutP,Na+/panthothenate symporter,sodium/proline symporter,Sodium:solute symporter family;protein_id=gnl|SC|11111_1#11_04090 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 38435 38731 . + 0 ID=11111_1#11_04091;inference=ab initio prediction:Prodigal:2.60;locus_tag=11111_1#11_04091;product=hypothetical protein;protein_id=gnl|SC|11111_1#11_04091 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 38710 39498 . + 0 ID=11111_1#11_04092;gene=phoH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729855.1,similar to AA sequence:UniProtKB:P0A9K1,protein motif:CLUSTERS:PRK10536,protein motif:Cdd:COG1875,protein motif:Pfam:PF02562.10;locus_tag=11111_1#11_04092;product=phosphate starvation-inducible protein PsiH,Phosphate starvation-inducible protein psiH,hypothetical protein,Predicted ATPase related to phosphate starvation-inducible protein PhoH,PhoH-like protein;protein_id=gnl|SC|11111_1#11_04092 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 39604 40485 . - 0 ID=11111_1#11_04093;gene=ybbH_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570898.1,similar to AA sequence:UniProtKB:Q45581,protein motif:CLUSTERS:PRK11337,protein motif:Cdd:COG2222,protein motif:TIGRFAMs:TIGR03127,protein motif:Pfam:PF01418.11;locus_tag=11111_1#11_04093;product=putative transcriptional regulator,Uncharacterized HTH-type transcriptional regulator ybbH,DNA-binding transcriptional repressor RpiR,Predicted phosphosugar isomerases,6-phospho 3-hexuloisomerase,Helix-turn-helix domain%2C rpiR family;protein_id=gnl|SC|11111_1#11_04093 +ERS111111|SC|contig000020 Infernal:1.1 ncRNA 40486 40770 . + 0 ID=11111_1#11_04094;inference=COORDINATES:profile:Infernal:1.1;locus_tag=11111_1#11_04094;product=STnc500 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 40771 41673 . - 0 ID=11111_1#11_04095;gene=yidK;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002215057.1,similar to AA sequence:UniProtKB:P31448,protein motif:CLUSTERS:PRK10484,protein motif:Cdd:COG4146,protein motif:TIGRFAMs:TIGR00813,protein motif:Pfam:PF00474.11;locus_tag=11111_1#11_04095;product=sodium-glucose/galactose cotransporter,Uncharacterized symporter yidK,putative transporter,Predicted symporter,transporter%2C solute:sodium symporter (SSS) family,Sodium:solute symporter family;protein_id=gnl|SC|11111_1#11_04095 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 41741 42268 . - 0 ID=11111_1#11_04096;gene=sglT;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002215057.1,similar to AA sequence:UniProtKB:P96169,protein motif:CLUSTERS:PRK10484,protein motif:Cdd:COG4146,protein motif:TIGRFAMs:TIGR00813,protein motif:Pfam:PF00474.11;locus_tag=11111_1#11_04096;product=sodium-glucose/galactose cotransporter,Na(+)/glucose symporter,putative transporter,Predicted symporter,transporter%2C solute:sodium symporter (SSS) family,Sodium:solute symporter family;protein_id=gnl|SC|11111_1#11_04096 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 42605 43285 . - 0 ID=11111_1#11_04097;eC_number=5.1.3.9;gene=nanE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570896.2,similar to AA sequence:UniProtKB:P60668,protein motif:CLUSTERS:PRK01130,protein motif:Pfam:PF04131.8;locus_tag=11111_1#11_04097;product=N-acetylmannosamine-6-phosphate 2-epimerase,Putative N-acetylmannosamine-6-phosphate 2-epimerase,N-acetylmannosamine-6-phosphate 2-epimerase,Putative N-acetylmannosamine-6-phosphate epimerase;protein_id=gnl|SC|11111_1#11_04097 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 43804 44946 . + 0 ID=11111_1#11_04098;eC_number=5.1.3.24;gene=nanM;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570895.1,similar to AA sequence:UniProtKB:P44544,protein motif:CLUSTERS:PRK14131,protein motif:TIGRFAMs:TIGR03547,protein motif:Pfam:PF01344.19;locus_tag=11111_1#11_04098;product=N-acetylneuraminic acid mutarotase,N-acetylneuraminate epimerase precursor,N-acetylneuraminic acid mutarotase,mutatrotase%2C YjhT family,Kelch motif;protein_id=gnl|SC|11111_1#11_04098 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 44992 45684 . + 0 ID=11111_1#11_04099;gene=yiiy;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216068.1,similar to AA sequence:UniProtKB:Q934G3,protein motif:CLUSTERS:PRK09980,protein motif:Cdd:COG3203,protein motif:Pfam:PF06178.7;locus_tag=11111_1#11_04099;product=outer membrane protein,Oligogalacturonate-specific porin kdgM precursor,outer membrane porin L,Outer membrane protein (porin),Oligogalacturonate-specific porin protein (KdgM);protein_id=gnl|SC|11111_1#11_04099 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 45967 47247 . + 0 ID=11111_1#11_04100;gene=nanT_3;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570893.1,similar to AA sequence:UniProtKB:P41036,protein motif:CLUSTERS:PRK12307,protein motif:Cdd:COG2814,protein motif:TIGRFAMs:TIGR00891,protein motif:Pfam:PF00083.18;locus_tag=11111_1#11_04100;product=putative sialic acid transporter,Sialic acid permease,putative sialic acid transporter,Arabinose efflux permease,MFS transporter%2C sialate:H+ symporter (SHS) family,Sugar (and other) transporter;protein_id=gnl|SC|11111_1#11_04100 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 47261 48364 . + 0 ID=11111_1#11_04101;eC_number=1.1.1.292;gene=yjhC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216069.1,similar to AA sequence:UniProtKB:Q2I8V6,protein motif:CLUSTERS:PRK11579,protein motif:Pfam:PF01408.16;locus_tag=11111_1#11_04101;product=dehydrogenase-like protein,1%2C5-anhydro-D-fructose reductase,putative oxidoreductase,Oxidoreductase family%2C NAD-binding Rossmann fold;protein_id=gnl|SC|11111_1#11_04101 +ERS111111|SC|contig000020 Aragorn:1.2.36 tRNA 48701 48718 . - 0 ID=11111_1#11_04102;inference=COORDINATES:profile:Aragorn:1.2.36;locus_tag=11111_1#11_04102;product=tRNA-Ser(gga) +ERS111111|SC|contig000020 Prodigal:2.60 CDS 49024 49962 . + 0 ID=11111_1#11_04103;eC_number=1.1.1.79;gene=ghrA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729856.1,similar to AA sequence:UniProtKB:Q8ZQ30,protein motif:CLUSTERS:PRK15469,protein motif:Cdd:COG1932,protein motif:TIGRFAMs:TIGR01327,protein motif:Pfam:PF02826.13;locus_tag=11111_1#11_04103;product=2-hydroxyacid dehydrogenase,Glyoxylate/hydroxypyruvate reductase A,bifunctional glyoxylate/hydroxypyruvate reductase A,Phosphoserine aminotransferase,phosphoglycerate dehydrogenase,D-isomer specific 2-hydroxyacid dehydrogenase%2C NAD binding domain;protein_id=gnl|SC|11111_1#11_04103 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 50047 50784 . + 0 ID=11111_1#11_04104;eC_number=3.1.3.-;gene=ycdX;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570887.1,similar to AA sequence:UniProtKB:P75914,protein motif:CLUSTERS:PRK09248,protein motif:Cdd:COG1387,protein motif:TIGRFAMs:TIGR01856,protein motif:Pfam:PF02811.13;locus_tag=11111_1#11_04104;product=putative hydrolase,Probable phosphatase YcdX,putative hydrolase,Histidinol phosphatase and related hydrolases of the PHP family,histidinol phosphate phosphatase%2C HisJ family,PHP domain;protein_id=gnl|SC|11111_1#11_04104 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 50808 51362 . + 0 ID=11111_1#11_04105;gene=ycdY;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002146908.1,similar to AA sequence:UniProtKB:P75915,protein motif:CLUSTERS:PRK11621,protein motif:Cdd:COG3381,protein motif:Pfam:PF02613.9;locus_tag=11111_1#11_04105;product=chaperone%2C TorD family,Chaperone protein YcdY,twin-argninine leader-binding protein DmsD,Uncharacterized component of anaerobic dehydrogenases,Nitrate reductase delta subunit;protein_id=gnl|SC|11111_1#11_04105 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 51451 51945 . + 0 ID=11111_1#11_04106;gene=ycdZ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P75916,protein motif:Pfam:PF06496.5;locus_tag=11111_1#11_04106;product=Inner membrane protein ycdZ,Protein of unknown function (DUF1097);protein_id=gnl|SC|11111_1#11_04106 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 51983 52816 . - 0 ID=11111_1#11_04107;gene=csgG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729860.1,protein motif:CLUSTERS:PRK15184,protein motif:Pfam:PF03783.8;locus_tag=11111_1#11_04107;product=assembly/transport component in curli production,curli production assembly/transport protein CsgG,Curli production assembly/transport component CsgG;protein_id=gnl|SC|11111_1#11_04107 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 52843 53259 . - 0 ID=11111_1#11_04108;gene=csgF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729861.1,protein motif:CLUSTERS:PRK10050,protein motif:Pfam:PF10614.3;locus_tag=11111_1#11_04108;product=assembly/transport component in curli production,curli assembly protein CsgF,Curli production assembly/transport component CsgF;protein_id=gnl|SC|11111_1#11_04108 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 53286 53681 . - 0 ID=11111_1#11_04109;gene=csgE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729862.1,protein motif:CLUSTERS:PRK10386,protein motif:Pfam:PF10627.3;locus_tag=11111_1#11_04109;product=assembly/transport component in curli production,curli assembly protein CsgE,Curli assembly protein CsgE;protein_id=gnl|SC|11111_1#11_04109 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 53710 54336 . - 0 ID=11111_1#11_04110;gene=csgD;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729863.1,similar to AA sequence:UniProtKB:P52106,protein motif:CLUSTERS:PRK10100,protein motif:Cdd:COG2909,protein motif:TIGRFAMs:TIGR03020,protein motif:Pfam:PF00196.13;locus_tag=11111_1#11_04110;product=regulatory protein,CsgBAC operon transcriptional regulatory protein,DNA-binding transcriptional regulator CsgD,ATP-dependent transcriptional regulator,transcriptional regulator EpsA,Bacterial regulatory proteins%2C luxR family;protein_id=gnl|SC|11111_1#11_04110 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 55092 55547 . + 0 ID=11111_1#11_04111;gene=csgB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729864.1,similar to AA sequence:UniProtKB:P0A1E9,protein motif:CLUSTERS:PRK10101,protein motif:Pfam:PF07012.6;locus_tag=11111_1#11_04111;product=nucleation component of curlin monomers,Fimbrin SEF17 minor subunit,curlin minor subunit CsgB,Curlin associated repeat;protein_id=gnl|SC|11111_1#11_04111 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 55589 56044 . + 0 ID=11111_1#11_04112;gene=csgA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729865.1,similar to AA sequence:UniProtKB:P0A1E7,protein motif:CLUSTERS:PRK10051,protein motif:Pfam:PF07012.6;locus_tag=11111_1#11_04112;product=major curlin subunit,Fimbrin SEF17,major curlin subunit,Curlin associated repeat;protein_id=gnl|SC|11111_1#11_04112 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 56106 56432 . + 0 ID=11111_1#11_04113;gene=csgC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_007470940.1,similar to AA sequence:UniProtKB:P0A1Z9,protein motif:CLUSTERS:PRK10102,protein motif:Pfam:PF10610.3;locus_tag=11111_1#11_04113;product=curli assembly protein CsgC,Curli assembly protein CsgC precursor,curli assembly protein CsgC,Thin aggregative fimbriae synthesis protein;protein_id=gnl|SC|11111_1#11_04113 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 56564 56884 . + 0 ID=11111_1#11_04114;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087410.1;locus_tag=11111_1#11_04114;product=Fimbrial protein;protein_id=gnl|SC|11111_1#11_04114 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 56972 57511 . + 0 ID=11111_1#11_04115;eC_number=3.5.1.-;gene=ymdB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087411.1,similar to AA sequence:UniProtKB:P0A8D6,protein motif:CLUSTERS:PRK00431,protein motif:Pfam:PF01661.15;locus_tag=11111_1#11_04115;product=Macro domain%2C possibly ADP-ribose binding module,O-acetyl-ADP-ribose deacetylase,RNase III inhibitor,Macro domain;protein_id=gnl|SC|11111_1#11_04115 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 57450 58934 . + 0 ID=11111_1#11_04116;eC_number=2.7.8.-;gene=ybhO_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570877.2,similar to AA sequence:UniProtKB:P0AA84,protein motif:CLUSTERS:PRK01642,protein motif:TIGRFAMs:TIGR04265;locus_tag=11111_1#11_04116;product=phospholipase,Putative cardiolipin synthase YbhO,cardiolipin synthetase,cardiolipin synthase;protein_id=gnl|SC|11111_1#11_04116 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 58951 60105 . - 0 ID=11111_1#11_04117;eC_number=2.1.-.-;gene=mdoC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570876.1,similar to AA sequence:UniProtKB:P75920,protein motif:CLUSTERS:PRK03854,protein motif:Cdd:COG3274,protein motif:Pfam:PF01757.16;locus_tag=11111_1#11_04117;product=glucans biosynthesis protein,Glucans biosynthesis protein C,glucans biosynthesis protein,Uncharacterized protein conserved in bacteria,Acyltransferase family;protein_id=gnl|SC|11111_1#11_04117 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 60359 61912 . + 0 ID=11111_1#11_04118;gene=mdoG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570875.1,similar to AA sequence:UniProtKB:P33136,protein motif:CLUSTERS:PRK13274,protein motif:Cdd:COG3131,protein motif:Pfam:PF04349.6;locus_tag=11111_1#11_04118;product=glucan biosynthesis protein G,Glucans biosynthesis protein G precursor,glucan biosynthesis protein G,Periplasmic glucans biosynthesis protein,Periplasmic glucan biosynthesis protein%2C MdoG;protein_id=gnl|SC|11111_1#11_04118 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 61905 64448 . + 0 ID=11111_1#11_04119;eC_number=2.4.1.-;gene=mdoH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216085.1,similar to AA sequence:UniProtKB:P62517,protein motif:CLUSTERS:PRK05454,protein motif:Pfam:PF00535.20;locus_tag=11111_1#11_04119;product=glucosyltransferase MdoH,Glucans biosynthesis glucosyltransferase H,glucosyltransferase MdoH,Glycosyl transferase family 2;protein_id=gnl|SC|11111_1#11_04119 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 64522 64749 . + 0 ID=11111_1#11_04120;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729872.1,protein motif:CLUSTERS:PRK10175,protein motif:Cdd:COG5645,protein motif:Pfam:PF07119.6;locus_tag=11111_1#11_04120;product=lipoprotein,lipoprotein,Predicted periplasmic lipoprotein,Protein of unknown function (DUF1375);protein_id=gnl|SC|11111_1#11_04120 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 64750 65124 . - 0 ID=11111_1#11_04121;gene=msyB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729873.1,protein motif:CLUSTERS:PRK11467;locus_tag=11111_1#11_04121;product=acidic protein MsyB,secY/secA suppressor protein;protein_id=gnl|SC|11111_1#11_04121 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 65206 66420 . - 0 ID=11111_1#11_04122;gene=yceE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729874.1,similar to AA sequence:UniProtKB:O31762,protein motif:CLUSTERS:PRK09874,protein motif:Cdd:COG2814,protein motif:TIGRFAMs:TIGR00880,protein motif:Pfam:PF07690.10;locus_tag=11111_1#11_04122;product=membrane transport protein,Bacillibactin exporter,drug efflux system protein MdtG,Arabinose efflux permease,multidrug resistance protein,Major Facilitator Superfamily;protein_id=gnl|SC|11111_1#11_04122 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 66575 67495 . - 0 ID=11111_1#11_04123;eC_number=2.3.1.-;gene=htrB_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729875.1,similar to AA sequence:UniProtKB:P0ACV0,protein motif:CLUSTERS:PRK06860,protein motif:Cdd:COG1560,protein motif:TIGRFAMs:TIGR02207,protein motif:Pfam:PF03279.7;locus_tag=11111_1#11_04123;product=lipid A biosynthesis lauroyl acyltransferase,Lipid A biosynthesis lauroyl acyltransferase,lipid A biosynthesis lauroyl acyltransferase,Lauroyl/myristoyl acyltransferase,lipid A biosynthesis lauroyl (or palmitoleoyl) acyltransferase,Bacterial lipid A biosynthesis acyltransferase;protein_id=gnl|SC|11111_1#11_04123 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 67715 68767 . + 0 ID=11111_1#11_04124;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087420.1,protein motif:CLUSTERS:PRK00142,protein motif:Cdd:COG2210,protein motif:Pfam:PF00581.14;locus_tag=11111_1#11_04124;product=Rhodanese-like sulfurtransferase,putative rhodanese-related sulfurtransferase,Uncharacterized conserved protein,Rhodanese-like domain;protein_id=gnl|SC|11111_1#11_04124 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 68819 69394 . - 0 ID=11111_1#11_04125;gene=yceI_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087865.1,similar to AA sequence:UniProtKB:P0A8X2,protein motif:CLUSTERS:PRK03757,protein motif:Cdd:COG2353,protein motif:Pfam:PF04264.7;locus_tag=11111_1#11_04125;product=YceI protein,hypothetical protein,hypothetical protein,Uncharacterized conserved protein,YceI-like domain;protein_id=gnl|SC|11111_1#11_04125 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 69391 69795 . - 0 ID=11111_1#11_04126;gene=yceJ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_005212184.1,similar to AA sequence:UniProtKB:P75925,protein motif:CLUSTERS:PRK11513,protein motif:Pfam:PF00033.13;locus_tag=11111_1#11_04126;product=cytochrome b561-like protein 2,Cytochrome b561 homolog 2,cytochrome b561,Cytochrome b(N-terminal)/b6/petB;protein_id=gnl|SC|11111_1#11_04126 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 70226 70243 . - 0 ID=11111_1#11_04127;gene=yceO;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216094.1,similar to AA sequence:UniProtKB:P64442,protein motif:Pfam:PF10968.2;locus_tag=11111_1#11_04127;product=inner membrane protein,hypothetical protein,Protein of unknown function (DUF2770);protein_id=gnl|SC|11111_1#11_04127 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 70380 71498 . - 0 ID=11111_1#11_04128;eC_number=1.5.3.1,1.5.3.-;gene=solA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729880.1,similar to AA sequence:UniProtKB:P40874,protein motif:CLUSTERS:PRK11259,protein motif:Cdd:COG4121,protein motif:TIGRFAMs:TIGR01377,protein motif:Pfam:PF01266.18;locus_tag=11111_1#11_04128;product=sarcosine oxidase,N-methyl-L-tryptophan oxidase,N-methyltryptophan oxidase,Uncharacterized conserved protein,sarcosine oxidase%2C monomeric form,FAD dependent oxidoreductase;protein_id=gnl|SC|11111_1#11_04128 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 71611 71865 . - 0 ID=11111_1#11_04129;gene=bssS;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570863.1,protein motif:CLUSTERS:PRK12301;locus_tag=11111_1#11_04129;product=biofilm formation regulatory protein BssS,biofilm formation regulatory protein BssS;protein_id=gnl|SC|11111_1#11_04129 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 72155 72418 . - 0 ID=11111_1#11_04130;gene=dinI_3;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729882.1,similar to AA sequence:UniProtKB:P0ABR1,protein motif:CLUSTERS:PRK10597,protein motif:Pfam:PF06183.7;locus_tag=11111_1#11_04130;product=damage-inducible protein,DNA-damage-inducible protein I,DNA damage-inducible protein I,DinI-like family;protein_id=gnl|SC|11111_1#11_04130 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 72492 73538 . - 0 ID=11111_1#11_04131;eC_number=3.5.2.3,3.5.2.3;gene=pyrC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729883.1,similar to AA sequence:UniProtKB:P06204,protein motif:CLUSTERS:PRK05451,protein motif:Cdd:COG0418,protein motif:TIGRFAMs:TIGR00856,protein motif:Pfam:PF01979.14;locus_tag=11111_1#11_04131;product=dihydroorotase,Dihydroorotase,dihydroorotase,Dihydroorotase,dihydroorotase%2C homodimeric type,Amidohydrolase family;protein_id=gnl|SC|11111_1#11_04131 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 73642 74268 . - 0 ID=11111_1#11_04132;gene=yceB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_007470922.1,similar to AA sequence:UniProtKB:P0AB26,protein motif:CLUSTERS:PRK10598,protein motif:Pfam:PF07273.6;locus_tag=11111_1#11_04132;product=lipoprotein,Uncharacterized lipoprotein yceB precursor,lipoprotein,Protein of unknown function (DUF1439);protein_id=gnl|SC|11111_1#11_04132 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 74326 74973 . - 0 ID=11111_1#11_04133;gene=grxB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729885.1,similar to AA sequence:UniProtKB:P0AC59,protein motif:CLUSTERS:PRK10387,protein motif:TIGRFAMs:TIGR02182,protein motif:Pfam:PF04399.7;locus_tag=11111_1#11_04133;product=glutaredoxin,Glutaredoxin-2,glutaredoxin 2,glutaredoxin%2C GrxB family,Glutaredoxin 2%2C C terminal domain;protein_id=gnl|SC|11111_1#11_04133 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 75037 76245 . - 0 ID=11111_1#11_04134;gene=mdtH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570858.1,similar to AA sequence:UniProtKB:P69367,protein motif:CLUSTERS:PRK11646,protein motif:Cdd:COG2814,protein motif:TIGRFAMs:TIGR00880,protein motif:Pfam:PF07690.10;locus_tag=11111_1#11_04134;product=multidrug resistance protein MdtH,Multidrug resistance protein MdtH,multidrug resistance protein MdtH,Arabinose efflux permease,multidrug resistance protein,Major Facilitator Superfamily;protein_id=gnl|SC|11111_1#11_04134 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 76482 77066 . + 0 ID=11111_1#11_04135;eC_number=2.3.1.-;gene=rimJ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729887.1,similar to AA sequence:UniProtKB:P96579,protein motif:CLUSTERS:PRK10809,protein motif:TIGRFAMs:TIGR03585,protein motif:Pfam:PF00583.18;locus_tag=11111_1#11_04135;product=ribosomal-protein-alanine acetyltransferase,Putative ribosomal N-acetyltransferase YdaF,ribosomal-protein-S5-alanine N-acetyltransferase,pseudaminic acid biosynthesis N-acetyl transferase,Acetyltransferase (GNAT) family;protein_id=gnl|SC|11111_1#11_04135 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 77102 77749 . + 0 ID=11111_1#11_04136;gene=yceH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P29217,protein motif:CLUSTERS:PRK11239,protein motif:Cdd:COG3132,protein motif:Pfam:PF04337.6;locus_tag=11111_1#11_04136;product=G20.3,hypothetical protein,Uncharacterized protein conserved in bacteria,Protein of unknown function%2C DUF480;protein_id=gnl|SC|11111_1#11_04136 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 77751 78674 . + 0 ID=11111_1#11_04137;gene=mviM;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729889.1,similar to AA sequence:UniProtKB:P75931,protein motif:CLUSTERS:PRK11579,protein motif:Cdd:COG3132,protein motif:Pfam:PF01408.16;locus_tag=11111_1#11_04137;product=virulence factor MviM,Virulence factor mviM homolog,putative oxidoreductase,Uncharacterized protein conserved in bacteria,Oxidoreductase family%2C NAD-binding Rossmann fold;protein_id=gnl|SC|11111_1#11_04137 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 78939 80513 . + 0 ID=11111_1#11_04138;gene=mviN;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002146873.1,similar to AA sequence:UniProtKB:P37169,protein motif:TIGRFAMs:TIGR01695,protein motif:Pfam:PF03023.8;locus_tag=11111_1#11_04138;product=integral membrane protein MviN,hypothetical protein,integral membrane protein MviN,MviN-like protein;protein_id=gnl|SC|11111_1#11_04138 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 80595 81017 . - 0 ID=11111_1#11_04139;gene=flgN;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729891.1,protein motif:CLUSTERS:PRK15459,protein motif:Pfam:PF05130.6;locus_tag=11111_1#11_04139;product=flagella synthesis protein FlgN,flagella synthesis chaperone protein FlgN,FlgN protein;protein_id=gnl|SC|11111_1#11_04139 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 81022 81315 . - 0 ID=11111_1#11_04140;gene=flgM;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729892.1,similar to AA sequence:UniProtKB:P26477,protein motif:CLUSTERS:PRK10810,protein motif:TIGRFAMs:TIGR03824,protein motif:Pfam:PF04316.7;locus_tag=11111_1#11_04140;product=negative regulator of flagellin synthesis (anti-sigma factor),Anti-sigma-28 factor,anti-sigma28 factor FlgM,flagellar biosynthesis anti-sigma factor FlgM,Anti-sigma-28 factor%2C FlgM;protein_id=gnl|SC|11111_1#11_04140 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 81407 82066 . - 0 ID=11111_1#11_04141;gene=flgA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729893.1,protein motif:CLUSTERS:PRK07018,protein motif:TIGRFAMs:TIGR03170,protein motif:Pfam:PF08666.6;locus_tag=11111_1#11_04141;product=flagellar basal body P-ring protein FlgA,flagellar basal body P-ring biosynthesis protein FlgA,flagella basal body P-ring formation protein FlgA,SAF domain;protein_id=gnl|SC|11111_1#11_04141 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 82223 82639 . + 0 ID=11111_1#11_04142;gene=flgB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729894.1,similar to AA sequence:UniProtKB:P16437,protein motif:CLUSTERS:PRK05680,protein motif:Cdd:COG1815,protein motif:TIGRFAMs:TIGR01396,protein motif:Pfam:PF00460.14;locus_tag=11111_1#11_04142;product=flagellar basal-body rod protein FlgB,Putative proximal rod protein,flagellar basal body rod protein FlgB,Flagellar basal body protein,flagellar basal-body rod protein FlgB,Flagella basal body rod protein;protein_id=gnl|SC|11111_1#11_04142 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 82643 83047 . + 0 ID=11111_1#11_04143;gene=flgC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729895.1,similar to AA sequence:UniProtKB:P0A1I7,protein motif:CLUSTERS:PRK05681,protein motif:Cdd:COG4786,protein motif:TIGRFAMs:TIGR01395,protein motif:Pfam:PF06429.7;locus_tag=11111_1#11_04143;product=flagellar basal-body rod protein FlgC,Putative proximal rod protein,flagellar basal body rod protein FlgC,Flagellar basal body rod protein,flagellar basal-body rod protein FlgC,Domain of unknown function (DUF1078);protein_id=gnl|SC|11111_1#11_04143 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 83059 83757 . + 0 ID=11111_1#11_04144;gene=flgD;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729896.1,similar to AA sequence:UniProtKB:P0A1I9,protein motif:CLUSTERS:PRK06655,protein motif:Cdd:COG1843,protein motif:Pfam:PF03963.8;locus_tag=11111_1#11_04144;product=flagellar hook formation protein FlgD,Basal-body rod modification protein flgD,flagellar basal body rod modification protein,Flagellar hook capping protein,Flagellar hook capping protein;protein_id=gnl|SC|11111_1#11_04144 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 83784 84995 . + 0 ID=11111_1#11_04145;gene=flgE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002146866.1,similar to AA sequence:UniProtKB:P0A1J1,protein motif:CLUSTERS:PRK05682,protein motif:Cdd:COG1749,protein motif:TIGRFAMs:TIGR03506,protein motif:Pfam:PF07559.8;locus_tag=11111_1#11_04145;product=flagellar hook protein FlgE,Flagellar hook protein flgE,flagellar hook protein FlgE,Flagellar hook protein FlgE,flagellar hook-basal body protein,Flagellar basal body protein FlaE;protein_id=gnl|SC|11111_1#11_04145 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 85016 85771 . + 0 ID=11111_1#11_04146;gene=flgF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729898.1,similar to AA sequence:UniProtKB:P16323,protein motif:CLUSTERS:PRK12640,protein motif:Cdd:COG4787,protein motif:TIGRFAMs:TIGR03506,protein motif:Pfam:PF06429.7;locus_tag=11111_1#11_04146;product=flagellar basal-body rod protein FlgF,Putative proximal rod protein,flagellar basal body rod protein FlgF,Flagellar basal body rod protein,flagellar hook-basal body protein,Domain of unknown function (DUF1078);protein_id=gnl|SC|11111_1#11_04146 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 85785 86567 . + 0 ID=11111_1#11_04147;gene=flgG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729899.1,similar to AA sequence:UniProtKB:P0A1J3,protein motif:CLUSTERS:PRK12694,protein motif:Cdd:COG4786,protein motif:TIGRFAMs:TIGR02488,protein motif:Pfam:PF06429.7;locus_tag=11111_1#11_04147;product=flagellar basal-body rod protein FlgG (distal rod protein),Distal rod protein,flagellar basal body rod protein FlgG,Flagellar basal body rod protein,flagellar basal-body rod protein FlgG,Domain of unknown function (DUF1078);protein_id=gnl|SC|11111_1#11_04147 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 86655 87320 . + 0 ID=11111_1#11_04148;gene=flgH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729900.1,similar to AA sequence:UniProtKB:Q9PPM0,protein motif:CLUSTERS:PRK00249,protein motif:Pfam:PF02107.10;locus_tag=11111_1#11_04148;product=flagellar L-ring protein,Basal body L-ring protein,flagellar basal body L-ring protein,Flagellar L-ring protein;protein_id=gnl|SC|11111_1#11_04148 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 87332 88429 . + 0 ID=11111_1#11_04149;gene=flgI;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729901.1,similar to AA sequence:UniProtKB:Q9PMJ8,protein motif:CLUSTERS:PRK05303,protein motif:Cdd:COG1706,protein motif:Pfam:PF02119.10;locus_tag=11111_1#11_04149;product=flagellar P-ring protein,Basal body P-ring protein,flagellar basal body P-ring protein,Flagellar basal-body P-ring protein,Flagellar P-ring protein;protein_id=gnl|SC|11111_1#11_04149 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 88429 89379 . + 0 ID=11111_1#11_04150;eC_number=3.2.1.-;gene=flgJ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729902.1,similar to AA sequence:UniProtKB:P15931,protein motif:CLUSTERS:PRK05684,protein motif:Cdd:COG3951,protein motif:TIGRFAMs:TIGR02541,protein motif:Pfam:PF01832.14;locus_tag=11111_1#11_04150;product=flagellar protein FlgJ,Peptidoglycan hydrolase flgJ,flagellar rod assembly protein/muramidase FlgJ,Rod binding protein,flagellar rod assembly protein/muramidase FlgJ,Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase;protein_id=gnl|SC|11111_1#11_04150 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 89444 91105 . + 0 ID=11111_1#11_04151;gene=flgK;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729903.1,similar to AA sequence:UniProtKB:P0A1J5,protein motif:CLUSTERS:PRK08147,protein motif:Cdd:COG1749,protein motif:TIGRFAMs:TIGR02492,protein motif:Pfam:PF06429.7;locus_tag=11111_1#11_04151;product=flagellar hook-associated protein 1,Flagellar hook-associated protein 1,flagellar hook-associated protein FlgK,Flagellar hook protein FlgE,flagellar hook-associated protein FlgK,Domain of unknown function (DUF1078);protein_id=gnl|SC|11111_1#11_04151 +ERS111111|SC|contig000020 Prodigal:2.60 CDS 91120 92073 . + 0 ID=11111_1#11_04152;gene=flgL;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729904.1,similar to AA sequence:UniProtKB:P16326,protein motif:CLUSTERS:PRK08027,protein motif:Cdd:COG3951,protein motif:TIGRFAMs:TIGR02550,protein motif:Pfam:PF00669.14;locus_tag=11111_1#11_04152;product=flagellar hook-associated protein 3,Hook-filament junction protein,flagellar hook-associated protein FlgL,Rod binding protein,flagellar hook-associated protein 3,Bacterial flagellin N-terminal helical region;protein_id=gnl|SC|11111_1#11_04152 +ERS111111|SC|contig000020 Infernal:1.1 ncRNA 92162 92179 . + 0 ID=11111_1#11_04153;inference=COORDINATES:profile:Infernal:1.1;locus_tag=11111_1#11_04153;product=STnc490k +##FASTA +>ERS111111|SC|contig000020 +TATCCGGGCAGCCCGTTTACGGGCCGTAAGTAACGAAGTTTGATGCAAATGTCAGATCGT +ATGCGCCTGTTAGGGCGCGGCTGGTAAGAGAGCCTTACAGGCGCATCAGAAAAACCTCCG +GCTATGCCGGAGGATATTTATTTTTTGGGCGCTTAGAATATAGTTAGAAAATACTGCTAG +AACATTTCCCGAAAAAACGGACTACGTGGGTTTTTAGTTTCTTTTCGTTTCTTGATGTGT +CTATTTATTGAAGATGTAGACCATTCTGGGAGGTGAAGGATGCCCCATCTCTTTCAGAAT +AATGTTGGTATATTCGACAACAGGGCCTCTTGGATGATTTTCTTCTTTATCCTGAAGATG +GGTCAGTGCATGTACAACTTCATGAGTAAATGAACGTTTTGTGTCAAAAAGTTGTCTTCC +TTCGTTACTTTCATAATGTTCGGTATATGAATCATCAGAATCGTCCAGATTGAGACAAAT +AACTTTCCTGCCTTCTGAAAGTTTGAAGTGTTCCTGAGCCACGGTAGTTTCAAAGGCTTC +GCCTGCCCCCGGTAGCCAGCGCTGCTCCACATCATGTAGTTCTTTTTCATATGCGTAATT +CATCAGTCTGCGGAATGTTTCGCTTTGGGTATACGCATTTTGAAGTACGGAGGATAGTTC +ATCGTAGCATTCGTCATAAGTGTCGTCATCAATTTCTGTATCAGGGTCTATTCCACCCGC +GCCTGAGATAAGGTACTCCACCACACACTCTGGCTCCAGACGGAATTCACTGTTTATGGC +AAGGCTGTCATGAGCAAGGCGTAGCCGTGAGGGGTTTGGTGCATGTTCGGGAATATCGGG +GAAAACAGGTGTATCTGCGGTATTTAATCCATATGTGGATACTCCGCTTTGAGGTATTAA +TCTGTAGGTGACCGGAAGCATAATTTCTTATTCCCTGACTGCAATTATGAATTATTTAAA +TTAAACAATAATAGTGTTTTTAGTTAATGTGCCACATACAGATAACGCTATGATTCAGGC +AAAACCAACAAGTAATACGCTGAAAATGTTATTTATAATGAAGCTTAGGGGCGGGGTTTG +TTTAATAAAACAAGGAGGGCTTCTGTTTGAATACTTCTTGTTTATAAAATCCCTTTATCT +CGACTAAAATATTGGATGGGGGAAAAGCGTTTTATCATTGTAATCCGGGAGTGGAGTAGG +GGTATGTTGACTACCTGTCAGATCGGCTCCTGTTAATGCTTTCGCTAAAGTTAGAGCTAT +CTTATCTAATTTTGCACCATTTAGTTTGGTGTCAGTTAAGTCTGAGCCGAATAGAATTGC +AGCGGTTAAGTTTACACCGGACATGTTAGCGCAAGTCAGGTCTGCGTGAGTCAGGTTTGC +TTTAGTCATGTTTGAACCCATTAGATTTACAGCGTGTAGATTTGCACAACACAAATTTGC +ACCGACTAAATTTACATTAGATAGATTTGTTTCACGGAAATCTGCATTAGAAGCATCTAT +GTCTGACAAATCTTCTCCCTGGAAATCTTTATGAGCTAGGTTTACTCCGCGCAGGTTCAG +AAAACCATCCTCGGTTATAAGTGAATCAGGCTGTTGTATATTATGTTTACTCATCAGTTT +TAACATTCGACATACATTCCAAAATCTCTCACTATCAACTTTATCCGTTACAGTTTTTCC +ATTTTTGTTCACTTCAATAGTGACCATGGGATCCGTATTTTCGGATGCTGCTCCACATGA +CAGACATATAGTACACCCGTTGACATCCTCCAGAAATATTTTATTACCATCGAAGAAAGC +ATCTTTATTTACATATAATAATGATGTGGTCAGTTTTCCAATTACCTCCCAAAAGCATCT +TTCATTGCTTCTTCTTACTCCACCACAGGTAAAAAAATTGACAAACCATTCCAGTATACC +GCGTGGTGAAGTTGCACTTTTCATTGCTTCTTTCGTACCGGTACCGGCCGCATGCAAATA +TCTTAATATATTTTCTGGGGACGCGTTAGTTATTGGCATTTTGATTCCTTCTTATGGAAG +TGAGTCGATTCCTTATAGGTGTGAGTCAAGTCACATTTATACAAGGAATAATAAAAAAAG +ATATAAGGTGATTTTTGTATTTAGAGCTTTGGTTGAGTATGAGTAGGTGTCTGGCATCTG +ACAAGAGGCGATGATATCTGCCATAACGGTGAAGCAGAAGTAATATCACCCGTGAATAAT +AAGATTATCCTTGCTATTGACTTCCTTCATTTCCAGCATAGCTTACGCCTCATCATCATT +GAATAAACAATTAAGTTTGTTGAGCGAAAATTTACTTAAAGAAAAAATAATAAGCTTTAA +TATTTTTTGCAGCATTTCAACTTATAGCAGAATAAATGTGCGTAGATGGCGTAAAAACCT +GATGAGCAGGAATACTTACACACTAAAAATGCTCCCGCAAACAGAGCAAAATGAGAAAGA +GGAACGTTTGCCCTTTACATTTCCACCAAAGATTCTGGTTTTGTCTCTTGTAAAGGGCAT +ACGTATCGCGTTTTATCTCATTAAGAAAGTATGTTGACGTATTAAATTATGCATAATGCT +CTTTCAATTGCTTCACGTTTGAAATGAATAATTCAAAACCAGTGAGCGCCTCTTCTTCGG +TACTGGTTTGCGGCAAGCGATAAAGCGCCACTAAAGCAGTATTGTCTGCATCAGCGCCGA +TAGTGACGGCGCTGGCGTAGTTAAGACGTAAAAAATGCTGCAAAGTCAGAGTGTCGTCAG +GCAGTGGCATAAAGGGACAGCACATTTCCAGTGTATGATCGGATTCATTAAAATAAACCT +GTATCCCATCATCAATGATAAGCAGTGGCTCATCTTCTGGCGCATCCAGGCCTAACGCGT +CATATAAACGATTTAATAGACTTTCCATATAGTTACCTCAAGACTCAAGATGTGATTAAT +GAAGAAATACCTTTTACTGACTGCCAAATATTTTCATCCCCAACTCGTTTTTGATAGGAA +AGATTGAGCACCTCTGGCGATAAATTTTTCATTACTTTGTTTCCCGCCCCGCCCGTATTT +TGTTTCTGAATCTCCAGGTTACCGCTATTCAGTAATACTTTTTGGAAAATTTTCTGTCCA +CCGCTATCCGGAAGACTACCAGGCGCACTTAACATATGGGTCTGATGGAAAGAAATGAGC +TCTCGCTTGATTTCTGAATCCATCATCCCTGTACGATCTTTGCCGCTTTTACAATTCCAG +GCGGGCACCGCGTCAATTTCATGGGCTAACATGGCAAGGCGTTGTGCGAGTTTATAGGGT +TCGCCGCCATCTTTATGATGTTGGTTATTTTTCCAGATATCCTTAATCTGGCGCGCTAAT +GTATTGACGACCTCATAATTATCCGGGTATTGCGCCAGCCATTCGCCAACCCAGCCACCT +GGTCTGGCTTCAGGGCGTAAATCATTGCCTAATAACTGATGTAGCGCTTCGGCATTATAG +CTATCTGATGCTTTAAGGCCAAAGCCGAGCTTGAGCGCCAGCTCATTAACACCCACATTA +AATGCGGCGACGTCCGGTTTTATTTTTACCGTCTGTAGATCGCCATCTTTATTGCGGATT +TTTAAATGAATCATTTTTCCCGGCTGGGTCAACGATTGCCATGCGCGCATTTGATCCTCG +ACCATAGTTCCCTCTTTGCCGAAAATATTCGACGCGGTGAGTAACCCGACGGATACCAGT +TTCAGGCTTACCGCTTCGCCCTCTAAGGCTCTGTTAAGCAACTCAGGTTTACTAAAAAGT +GCCGCAGCTAATACTTCTTTGGCTTTGTTTTCAGCGCCGGCCTGACGCAGAAGCGGATCT +TTTTCATGATAGGGGGAAAGCACACCATGACGTATCCCGCAAAAAAGCGTTTTATCTTTA +CCGTCCTCATGCACACTCACCGTGGACATCCACAAATTATTGGCGTGATGAATATTCTTG +GTATCCCAACTGCATACGCCCTTTCCCTCATAAGCACTGGGAAAGATATCTTTTGCGCCG +ATTTTCATCTCTGCGGCAGGGAGCTGCGTGTTGGTATAGTGATGCCCGTTATGCGTGAGT +GTATTTTTTATGGTTTGCCAGGGCTGGTTATTGAGCTGCTTGACCTGAGCATCTCTAAAC +GCTACTGCCGCAAAGCGATGAGCTTCTTTTGCAGGTAAGCCATTTTGCTGCTGAGTGCGT +GCTGCAATAAGTTCGATAAGATTTTTCTTCAATGCTTTTGCCGCAGCTTCTTCTTGTTTT +GTTGCTGGCCGGTCCGCTTTAACTTTGGCTAACTCCATTTGGTTTGCCATTGACGTTAGA +ACCGGGTCTTGTTTACCCAGAACGGTTGCCGCGACGGTAAGAAGATCGCGCTGTAAGTTA +TAGAGGTTATGCAGCGAGTGGTTAGACGTCTTCTGATGCTGTAGATAATTCCCCCATGTC +GCGCCAGGTTCTCGCAGGACAATAATTTCCGGGCGAGCGTCGGGCGCTTTAGCCGGCGCT +TTGCCCTGGCCTGAGAGAATCTGCATTCCGTTGTATAAGGTTTTTTGTAGGCTTTTAAAA +GCCTCCTGGGTTTTTAGTGAAGCTGAGTGATAGAAGCTCTGTATTTGCATAGCGTTTTTA +ATATTCCTGAATAGGGGAGTGGGAACATTCAACAGGGTTAACAATCTTTTAAAAGGATGT +GACTTTTATGCACCAGGAACTTTAAAAAAATGTCCTTTTTAATGAGGAAACGCTTCTGAT +CAGGCGGGGAGGCATCCTGACGTCCATACGTAGTGGCGATCATGGGGGAGATCGGTACAT +CAAATGTTCATAAAATCTACAAACTTCACAATTTAGGGCACAACTTTTATTGAAAACCCA +CCTTCTTGATTCAGATCAAATTCACCGATTTACTCCTGCGTAAAGTAACGGCGTTACATC +AAATGTTATACAGGTGTGTGTATGCCAGCAAAGCCCCGGACGAGTAAGACCGTGACGAAG +AATATTCGTTTTTCCTATTCCATGCTTGAACAGATAGAATTCGCGTTGAAATCTGAAAAG +ACGCGGAATTTTTCAGCATGGGTAAAAGAGGCCTGTCGGGAAAAGTTATGTAACACGGGA +CATAAGCTGTAGTTATCGTCTTATGTAAGAGGGGGCGGCCATTTTGAAAAGAACAACGTG +CTTATATACCTCCTGGGTCTTTGCCGCTTTTGTCTCTCTGCTGATATTTGTCTGGAGTGT +CATAAACTATCCTCTCTATGAATCCATAATAATTATTGTCTTTTATATCTGGCTAATTCT +GGTACCGCTTTATCTTATTGTGTATGAGTGGCTAATAGATTGTCATTAAATTTATGGCTG +CGTACTTGAAAAGTGATATTTCATATCTGTGCGGTAAGTCATTGTCGTAATAATATTATT +GGTCAGGCGACGGGCGAGCGTCTGCGCATTTTGCATCGTTTTATCTTCAAAATTTTGCAG +TAAGCGTTGTGCTTCTTTCGGATGCGACGCATATAATCTCAGATAGCTCTGCTCCATCTT +ATACTGTTGCTTAGCTGTTTGCTGTTCAAATGTTTTCCAGGCATGTTGCACATCTGGCGC +AAACGTATTGTAGTCTTGCATAACCAGTGTTTGCAGCGTGCGGAATGTCCAGTAGGTAGA +GTCGTTGCTCGCCCGATCGGTTCCTTTATCATCTCCGGGTTGATAATGACGCATCCCCTG +GTAATAGGGGAGATAGACGCTAAGAGATGGCATTCCATAGGCGATGTATTCTACGTTGCC +GATAGCCTGCGGTAATTTCGGTCTGACCTGTAAAATATGTGACTCCTGGGTACGAAAAAC +GGATATAGGTCGCCATGGTTCTTGTGGATTATGACTGGCATAAGGGTCGTGCGACGTTCC +CTGATAGTGATTGCGTAACGCGTTTTTTACTGCCGCCACGCTGATCTTCGTTATTGGCGT +TAAAAAAACAGAAAATGTTTCCCCTTCGCTAACGACCGTATCCAGATGCGGATTAAACTG +GTGTTGTAGCGTCCAGACGCGCGGATAATTATAGGTGGTATCGTTTTTGTTATCCTGCGA +ATAGGCTTGATGAAAGTCGAATTCGCCGCGGGCCGGATCATATAATCCCTGCTTTTTCGC +AAAGCTTACTAACGTTGGTGACGCCATATAATTCGCGTTATCATTCGGATCGTAATGGCG +TAAACGTCCCTGATTGGCGGAAACGAAATAGCTATCTGCCGGAAGTCGTACTGCCAGCCA +TTGATGTCCGCTTCCCGTCTCCAGATACCATATCTCTTTGCTATCAATAAACGCGACGCC +GAAACCTTCGCCCGCGCCTTTTTGTTCAATAATATCTCCCAGTAATTTGGCGCCCTGACG +CGCCGATTGCGCCACTGGCAGGATCACGGACTCAATGGCGTCTTCCGTGATTCCCGTTTT +TGTCACGTAAGGATCGGCAGCCAGCGCCGCTCTGCCGTTGTAAATGGTTTCCGTTGCGCT +CATTCCGACGCCCGCCGAATTGAAACCGGCTTCACCCATGGCGTTATCGTTAGTATCAAA +GTCATGAATCGCCGTATAGCGCATCGCTGTCTCCGGAAGCGGCCAGCTAAAATTGTTGCG +ATGTGCTTTATACTCGCCTTGTTGATGAAACGCGACGGGATGAATAACCTTATGCTTGGC +GTTATTTGCCGAGCCATCCTCGTTGCGCGCGATAATAAAGGAGCCGTCAGCCGAAGCCTG +ATTGCCTACCAAAAGGGTAGTACAGGCGATGACTTTACCCATACCCAGCAGCGTAACGGC +GAAAGCAAGATACTTTTTCATAAAGGTTCCCACTGAATAACGCGTTATGGGATGAATTGA +CCCTGGATTGGAAACCGAGAAAGTGATCGAGCCAGCAATATTCTTTACCGGCATCCTTTA +TTTTCTTTTTATTGAGGTTGTATTGATAACCACAGCCCTGTGGCAGGGAAGGGGAACAGA +ACCTGTACTGACCTTAGCTATCACCGCTATCAGGCAGACGAACCGAAAAGATATTATGTT +CATCGGCATAGCGGTAAGATGCCGAGCCACCGTGCAATAGGGCAATCGCGTTAACTAACG +ATAACCCCAGGCCGAAACCGGCAGTGTAGCGGGCATTATCTCCTCGCCAAAAACGCCGGA +AAAGCTTATCCGCATCGGCGGTGGGGCTGCCCGGATTAGCGACCCGAATTTCTGCAACGT +TATCATCATAAGCGCTTTCAATACGTATCACGGCGTTTTCATCAGAATAACGGATGGCAT +TCGTCAGCAGGTTTGAGAGCACTCTTTGTAATAATATTTCGTCAGCCCATACCGTTCCCT +GACATTGATTTATAAAACAGATGTGCTTCTCTTCGGCAAGGGGGCTAAGATAATCCAGCA +TATTTTCGACCAGCGCATTGAGCGAAACAGGCTGTTTTTTTACCGCTATATTCTGGTGCT +CCGCGCGTGCCAGAAAGAGAATATTTTCTGTCAGTCGCGACAGTCCCTCCAGCTCTTCAA +TATTATCGACAAGGGCTTGTTGATACTCTTCGGCGCTGCGTTCCTGACTCAGCATAACCT +GATTCTTCCCCAGTAAAATATTAACCGGCGTGCGCAGCTCATGCGCCAGATCGTCGGCAA +ATTGGTTCAGGCGTTCAAAATCGTCGGAAAGCTTCTGGCGCATGGTATTTAGCGCTTGCC +CAAGCGGCCTGAGCTCGACGGGTAACGCCTGTTCCGCCAGCGGCTGGCGAAGTGTGCCGC +TATCTGTCGCCGCGGTGAGTCGGCTGAGCGACGTAATGGCCCGCAGCCCGTTTCTGATGA +CTAATGGACTGAGCGCCGAACAGACGAGGATCGCGATAAGGCTAATCAGCAAACTGTTGC +GGCGATATTGCGCCAGCATTTGCCGCCTTTCCGTCGCCAGCCTGGCAATAGTAAGGGTCA +GCGGGTTATCGCCGCTTCTGGCGTTTACTCGTACCGCGGTCAGCTCCGTGCCTTGTACCG +CCTGGCGAAATAAGGTTTCGCGGGTGATGTTTTTAGCCAGCGGAATCTCGTTAAAGCGTT +GGTCGGGGATGCCGCTATGATTAATCGCAACATTATGGCCTGTTGCTGAGTGGATCAATA +AGATATCCTGCTTCGTATCCACCATCCGATTGAAATAGAGCGGCAGATTTTCCGGCCTGG +CGCCATCCAGTAACAGTTGCTGCATTTGCGCCGCCCGATTTATTAGCGTCATATCATCCC +GATACGTTAATTCTTTGCTCAGCGCGTTATAGAGCGTCCAGCTAATGCCGGTACAGGCGA +GGATAAGTATGGCGATAAAAGAAATTGTCAGGCGCAGCGTCATTGATAACTTAACCATTC +TGCGACGTTTCCGCCTGTAATCGATAACCCATCCCCTGGACGGTCATAATGAGCTTCTTT +TCAAATGGATCGTCTACTTTGGCGCGCAGCCGACGAATCGCGACATCAACGGTGTTGGTT +TCACTATCAAAGTTAATTCCCCAAACTTCGCTGGCGATCGCGGTTCGGGGCACGATTTCC +CCTGCCCGGGACGCCAGTAACCAGAGGAGCAGGAATTCTTTGCGGGTCAGGGAAATCGGT +TTGCCATTTCGTAACACCGATTGCTTTGTGGCATCCATGTCCAGACCATTGATCGTCAGT +CGGGTAAAGACCGGGACATGCTGTCTGAGTTGAGCTCTCACCCGGGCCAGCAGTTCGGCG +AAGGAAAAAGGCTTAACAAGGTAATCATTAGCGCCCGCCTCAAGACCTTTGACGCGATCC +TCAACCGAGTCGCGCGCCGTCAGGCAAATAACAGGGGGCTGATATGCAGTGCGCAACGCG +CGTAAAACCTGCCATCCATCAAGCCCCGGCAGCATAATATCAAGAATAATCAATGAATAA +TGTTCCTGAAGGGCTAGGTGTAATCCGTCTCGTCCATCACAGGCATAATCAACCACATAG +CCTGCCTCCGTGAGTCCCTGACGTACCCACTCAATGGTTTTCTGGTTATCTTCAATCAAT +AAAATCTTCATCAACGCAGTATGCCATAGGCTTGTTAGCGAATCCGTAAATCTCCAACAA +GATGACATAATTGTCATGTCCGTGTAAGGTTAATCCTGGACGCGCCAGATATATTTTCCT +GCATCAATACCGTAAAGGAGTGAAGCATGAAACGATATATACTGGCTACCGCGATAGCGT +CTCTTGTTGCAGCCCCGGCAATGGCGCTGGCCGCTGGCAGCAATATTCTCAGCGTACATA +TTCTCGATCAGCAAACAGGCAAACCAGCGCCCGGCGTGGAGGTGGTACTGGAGCAGAAAA +AGGATAACGGATGGACGCAATTAAACACCGGGCATACCGACCAGGATGGACGAATTAAAG +CACTGTGGCCCGAAAAAGCTGCCGCGCCGGGGGATTATCGCGTTATTTTTAAAACCGGCC +AGTATTTTGAAAGTAAAAAACTGGACACGTTTTTCCCGGAGATTCCCGTCGAGTTTCATA +TCAGCAAAACGAATGAGCACTATCATGTGCCGCTGTTATTAAGTCAGTATGGTTATTCAA +CCTATCGCGGGAGCTAATTTAGAGCCTATCCTATTAGGGCTATTTTACTTGCCATTTTGG +TCCTGGGCAGTGCTCGCCAAAACGCGTTAGCGTTTTGAACGCCGCTTGCGGCGGCCCGAA +GGGCGAGCGTAGCGAGTCAAACCTCACGTACAACGTGTACGCTCCGGTTTTTGCGCGCTG +TCCGTGTCCAAACAGGCTGCGCCAATAACGCCTGGTGGGACAGGCTCTTAGATTTTATTA +ATCGCCGGGATTTATGGCGAGCAAACATCGCGGCGGGAATAAAAATCTTCAGCGTATCGA +CTCTCCTCCCACAAGCGGTGGTTATCCCGCTTGTGGGTATGAGTGACGGTTAAACAGGCG +CTTCCATCTCAAGTCTGACCGGATGAAAACGGCGTTTGAAATAAATCAGGCCATGCCCCT +CCTGGCTAAGAATAATATTTTTGATCGCCACCAGATACACCAGATGCGTGCCAATGGTTT +GTACCTCGCTGATCTCGCCTTCAAGACTGGCCAGCGCGCCGTTAAGTACCGGCTGGCCCA +GCGGCCCGTTTTGCCAACATGGCTGGTGAAAACGCTCCTCCATCGCCATCCCCGTCATAC +CGGCAAAGTGGCGCGCCATCAGCTCCTGCTCATGGTTAAGTACATTAATGCACAGCCTGC +CGTTGCCCTGAAAAACGGGGTTCATGGCGCTATTGGCATTAATACATACCATCACGGAGG +GCGGCGTATCAGTGACTGAGCAAACCGCTGTTGCGGTGATACCGCAGCGTCCGGCGTGAC +CCGCCGTGGTTACGATGTTGACCGCTGCCGCCAGACTTGCCATCGCATCGCGAAAACGCA +GACGTTGTTCATCTACTTGCATGAGAACCTCCTGCCGCGTTATTTCAGCAGCTTATCCAG +TTGATTGATGTCGTCGTTATTGTGCAAATGCGAAACCGTCCAGCCATTCTGATCGTATTC +GGAGAGGCAGCGATCGACCATTGCCATCATCTTATCCATATTGCCGGAGCTCTGGGCCTG +ACGCAGACACTGCAGACGAATTTCATCCTGGCTGCCCGAGTAGTTAATCTCGTACAGCTC +ATGGCGACCGCCAAACTCGCTGCCGATGGCATCCCACATCAATTTAAGAATTTTGATACG +TTCAACATGGTCCATTCCGTTAGAGCCGCGTACGTATTTCGCCAGGTACTGGTCGATTTG +CGGATTATTCAGATCGCGGGCGCTGGAAGGCAGGTAAATCAGGCCGCTGGTAACGTTACG +TTCAATAATATTTTTAATTTTCGCGTAGGCCATTGGGGCCATCACACGATAGGTTTGCAG +CGCGGCGTGGTCCGGTAGCCAGGCGCCGTTTACCCACGGGGTTGCTTCAGAACACATAGA +ATCGCTCAATGCCCAGAACATATTGCGCCAGGCCACGACTTCGCCGAGATCGGCCTGCAC +GCCCCGGAACTCTACGGTACCCGTACATTCGAGCGATTTTTTCAGCAGCGCGGTAATGAA +ATCAAGTTTTACCGCCAGACGAACACAGGCTTGCAGTGGATACATACGGGCAAAGCCGCC +TTCCATCGTCCAGCGACGACAACGATCGAAATCACGGTAAATTAATACGTTTTCCCACGG +GATCAGCACCTTGTCCATCACCAGAATGGCATCGTTTTCATCAAAACGGCTGGAGAGGGG +ATAATCAAACGGCGAGCCCGTCGCGCCCGCGACCATTTCATACGAGGCGCGCGAAATAAG +TTTTACGCCTTCGGCATCCATTGGCGCGACAAACATCAGAGCAAAATCCGGGTTTTCGCC +CATCACCTGGGCTGAGCCGAAACCAATCATGTTGTAGTGAGTCAGGGCGGAGTTAGTGGC +GACAACTTTCGCCCCGCTGACAATAATCCCGGCGTCCGTCTCTTTCTCCAGCTTGATATA +GACGTCTTTCACTTCGTCGGCAGGTTTGTGGCGGTCAATGGGCGGGTTGACGATTGCATG +GTTAAAGTACAGGCCGGTCTCCTGAATACGGGTGTACCAGTTACGGGCGTTCTGCTCAAA +CTGGCCGTAGAAGGCTGGGTTAGCGCCCAGAGCGCAGCCAAAGGCGGCTTTGTAATCCGG +TGTGCGTCCCATCCAGCCGTAACTCAGGCGTGACCACTCGGCGATAGCATCACGCTGTTG +GCGCAGATCGTCTGCGCTTTTCGCCACGCGGAAAAATTTATGCGTATAACCGCCGCTGCC +GGTATCGGTATTCCAGCACAGGGTGTAAGCGGGAGGGGATTCCCGTGTCGGCGGCGTGGG +AAGGTAAGAATACTATGCTTCCGCTTCGCTATCAGGATGCTGGCGCCCCAGAGCAATAAG +ATCGTCCAGCAGCAGCATCAATTGCTGTGTTTTTTCGGGCGTGAAATCGGCCTCAATTTT +TCGATAAGCCTCTTCTACCTCGCTCCGGGCACGGGCGTACAACGTTTGTCCCTGCTCCGT +CAACATGACATATAACTTACGCTGATCGTTAACCGGCTTGAGTCGCAACACCAGTCCGTC +TCGCTCCATGCGCGTCAATATTCCGGTCAGACTTGGACGCAAAATACAGGTACGAAAGGC +CAGCTCGTGAAAATCCATAGAGGGGCTATCGGCCAGGATTCGCACAATGCGCCATTGCTG +GTCGGTCAGATTGTGGCTTTTAACGATGGGGCGGAAATAGGTCATTGCCGCTTCGCGCGC +CTGAAGCAAGGCGATGGTTAATGAATCATGCATAAGCGTTTCTCTTTTGCAGAATTATTA +ATACCTGAATAATCGTGTTTACCGATGTGAGCTATGACATCTGTTTTATGTCCAAAGTTT +AATAGAAACAAGGGGTTTTATTTAACTATTTGATATATATGTATTTAATAATAAATTTGT +GAAAATATTGTTAATCACATCATAAATACTTTACTTAAGCTTGCTAAATGTACAGCGAAA +GCATAAATCTAATCATTAATATGTTAATGAAATCACAGCCCGTTAAATCGGCCTGAGGAG +TTTATGTATGAAGGGTACTGTTTTCGCCGTTGCGTTAAACCATCGCAGCCAGCTTGATGC +CTGGCAAGAGGCTTTCTCTCAGCCTCCCTATAATGCGCCGCCTAAAACCGCAGTGTGGTT +CATCAAGCCGCGTAATACGGTGATTCGTCACGGCGAACCCATTCCTTATCCGCAGGGAGA +AAAGGTACTGAGCGGCGCGACAGTGGCGCTCATTGTGGGGAAAACCGCCAGCCGGATACG +CCCTGAAGCGGCGGCGGACTATATCGCCGGGTATGCGCTGGCTAACGAGGTCAGCCTGCC +GGAAGAGAGCTTTTATCGCCCGGCGATTAAAGCGAAATGTCGCGATGGCTTTTGCCCGCT +GGGTGAAATGGCGCCGCTGAGTGATGTGGATAATCTCACCATTATCACTGAAATCAACGG +ACGAGAAGCGGACCACTGGAATACTGCCGATTTACAGCGTAGCGCCGCACAACTGCTTAG +CGCGTTAAGTGAGTTCGCTACACTTAACCCTGGCGATGCGATCTTACTTGGTACGCCGCA +GAATCGCGTTGCGCTGCGTCCCGGCGATCGGGTGCGTATTCTGGCGAAAGGTTTACCCGC +GCTGGAAAATCCGGTTGTCGCAGAAGATGAATTCGCCCGCCACCAGACGTTTACGTGGCC +GCTGTCAGCGACGGGAACGTTATTTGCGCTGGGGTTGAACTACGCCGATCACGCCAGCGA +GCTGGCATTTACGCCGCCGAAAGAGCCGCTGGTATTTATCAAAGCGCCAAACACCTTTAC +CGAACATCACCAAACGTCGGTGCGCCCGAACAACGTCGAATATATGCACTACGAAGCCGA +GCTGGTCGTGGTGATTGGCAAAACGGCGCGTAAGGTGAGCGAAGCCGAAGCCATGGAGTA +TGTGGCCGGTTACACCGTCTGTAACGACTACGCGATCCGCGACTATCTGGAAAACTACTA +CCGTCCGAATCTGCGGGTAAAAAGCCGCGACGGCCTGACGCCGATAGGCCCGTGGATTGT +GGATAAAGAGGCGGTTTCTGATCCGCACAACCTGACGTTACGCACCTTTGTCAACGGTGA +GCTGCGGCAGGAAGGGACGACCGCCGATCTGATCTTCAGCATCCCGTTCCTGATTTCTTA +TCTGAGCGAATTTATGACGTTGCAACCGGGCGACATGATTGCCACCGGTACGCCGAAAGG +GCTGTCCGATGTGGTGCCGGGGGATGAAGTTGTCGTTGAAGTAGAAGGCGTGGGTCGCCT +GGTTAACCGAATCGTCAGTGAGGAGAGCGCAAAATGAAGAAAATAAATCATTGGATTAAC +GGCAAAAACGTTGCAGGTAACGACTACTTCCAGACCACTAACCCGGCGACCGGTGATGTG +CTGGCGGAAGTAGCCTCCGGCGGTGAAGCAGAAGTGAACCAGGCTGTCGCGGCGGCAAAA +GAGGCGTTCCCGAAATGGGCCAACCTGCCGATGAAAGAGCGCGCGCGCCTGATGCGCCGC +CTTGGCGACCTGATTGACCAGCATGTGCCGGAAATCGCGGCGATGGAAACCGCCGACACC +GGCCTGCCTATTCACCAGACTAAAACGTGCTGATCCCGCGCGCCTCGCATAACTTCGAAT +TCTTCGCCGAAGTGTGCCAGCAGATGAACGGCAAGACCTATCCGGTTGACGATAAAATGC +TCAATTATACGCTGGTGCAGCCCGTCGGCGTCTGCGCGCTGGTGTCGCCGTGGAACGTGC +CGTTTATGACCGCGACTTGGAAAGTTGCGCCGTGCCTGGCGCTGGGTAACACCGCGGTGC +TCAAAATGTCCGAGCTGTCGCCGCTGACTGCCGACAGGCTGGGCGAGCTGGCACTGGAGG +CAGGAATTCCGGCAGGCGTGCTGAACGTGGTGCAGGGCTACGGCGCGACGGCGGGCGATG +CGCTGGTACGCCACCATGACGTGCGTGCGGTGTCGTTTACCGGCGGTACCGCCACCGGTC +GCAATATCATGAAAAATGCCGGGCTGAAAAAATACTCGATGGAGCTGGGCGGCAAATCGC +CGGTGCTGATTTTTGAAGACGCCGACATTGAGCGCGCGCTGGACGCCGCGCTGTTCACCA +TCTTCTCGATCAACGGCGAACGCTGCACCGCTGGGTCGCGCATCTTTATCCAGCAGAGCA +TTTACCCTGAGTTCGTGAAGCGCTTTGCCGAACGCGCGAATCGCCTGCGTGTCGGCGATC +CGACCGACCCGAACACCCAGGTCGGCGCGCTGATTAGCCAACAGCACTGGGAGAAAGTCT +CCGGTTATATCCGCCTCGGCATTGAAGAGGGGGCAACGCTGCTGGCGGGCGGTGCGGAAA +AACCCACTGACCTGCCTGCGCATCTGAAAGGCGGTAACTTCCTGCGCCCAACCGTGCTGG +CCGATGTCGACAACCGTATGCGCGTTGCGCAGGAAGAGATCTTTGGGCCGGTCGCCTGCC +TGCTGCCATTCAAAGACGAAGCGGAAGGGTTACGTTTGGCGAACGATGTGGAATACGGTC +TGGCCTCTTATATCTGGACCCAGGACGTGAGCAAAGTGTTGCGCCTGGCGCGTGGGATTG +AAGCCGGCATGGTCTTCGTCAACACCCAGAACGTCCGCGACCTGCGCCAGCCGTTCGGCG +GCGTGAAAGCCTCCGGTACCGGGCGCGAAGGCGGCGAATATAGCTTCGAAGTGTTTGCGG +AAATGAAAAACGTCTGCATCTCAATGGGCGACCATCCTATCCCAAAATGGGGAGTTTGAT +ATGGGCAAGTTAGCGTTAGCAGCAAAAATTACCCACGTGCCGTCGATGTATCTTTCTGAA +CTGCCAGGAAAAAATCACGGTTGTCGTCAGGCAGCCATTGATGGGCATATTGAAATTGGC +AAGCGTTGCCGCGAAATGGGCGTTGACACCATTATCGTATTCGACACCCACTGGCTGGTG +AATAGCGCTTACCACATTAATTGTGCCGACCATTTCCAGGGCGTCTATACCAGCAACGAA +TTGCCGCACTTTATTCGCGACATGACCTATGACTATGACGGTAATCCGGCGCTCGGCCAT +CTGATCGCCGACGAGGCGGTCAAACTGGGCGTGCGCGCCAAAGCGCACAACATCCCGAGC +CTGAAGCTGGAGTATGGCACGCTGGTGCCGATGCGCTACATGAACAGCGACAAGCACTTC +AAAGTGGTCTCCATCTCGGCGTTCTGCACTGTGCATGATTTTGCCGACAGCCGCAAACTG +GGCGAAGCCATTCTCAAGGCGATTGAGAAATATGACGGTACCGTAGCGGTATTCGCCAGT +GGTTCTCTGTCGCACCGTTTTATTGACGACCAACGGGCGGAAGAGGGGATGAACAGCTAC +ACCCGCGAGTTCGATCATCAAATGGACGAGCGCGTGGTCAAGCTGTGGCGCGAAGGCAAA +TTCAAGGAGTTTTGCACCATGTTGCCGGAGTACGCCGACTACTGCTACGGCGAAGGCAAC +ATGCACGACACGGTCATGCTACTGGGAATGCTGGGGTGGGACAAATACGACGGCAAGGTG +GAGTTCATCACCGACCTGTTCGCCAGCTCCGGTACCGGCCAGGTAAACGCTGTTTTCCCG +CTGCCTGCGTAAGGGGGGTTTATGCCGCACTTTATTGCTGAATGTACTGAAAATATTCGC +GAGCAGGCTGATTTACCAAGCCTGTTCAGCAAGGTAAACGAGGCGCTGGCCGCCACCGGG +ATTTTCCCCATCGGCGGTATCCGCAGTCGCGCCCACTGGCTGGATACCTGGCAGATGGCT +GACGGTAAGCATGATTACGCGTTTGTGCATATGACGCTGAAAATCGGCGCCGGGCGCAGC +CTGGAGAGCCGTCAGGAAGTCGGCGAAATGCTGTTTGGGCTGATTAAAGCCCACTTCGCC +GACCTGATGGAGAACCGCTATCTGGCGCTGTCGTTTGAGATTGCCGAGTTACATCCAACG +CTCAATTACAAACAAAACAACGTACACGCGTTATTTAAATAGCACACTCTTTCGCCCGGT +GGCGCTGCGCTGACCGGGCCTACAAAAAAACGATGCACGAAGCAGTACCGAACCGTAGGC +CGGGTAAGACGCACCCGCGTCGCCACCCGGCGCAGCAGCACCGAATGAGGTAACAGGAAG +CAACTATGCTCGATAAACAGACCCATACCCTGATCGCTCAGCGACTTAATCAGGCTGAAA +AACAGCGTGAACAGATTCGCGCAGTGTCGCTGGATTATCCCAACATCACTATTGAAGATG +CCTATGCCGTACAGCGTGAATGGGTCAATATCAAGATTGCCGAAGGGCGCACGCTCAAAG +GCCACAAAATCGGCCTGACCTCAAAAGCGATGCAGGCCAGCTCGCAAATCAGCGAACCGG +ATTACGGCGCGCTGCTTGACGATATGTTCTTCCATGACGGCGGAGATATCCCCACCGACC +GTTTTATCGTCCCGCGTATTGAAGTGGAGCTGGCGTTCGTGCTGGCGAAACCGCTGCGCG +GCCCTCACTGCACGCTGTTCGACGTCTACAACGCCACGGATTATGTGATTCCGGCGCTGG +AACTGATTGACGCCCGCAGCCACAACATCGACCCGGAAACCCAGCGCCCGCGCAAAGTGT +TCGACACCATTTCCGACAACGCCGCCAACGCCGGGGTGATCCTCGGTGGTCGCCCCATCA +AACCAGACGAGCTGGATCTGCGCTGGATCTCCGCGCTGCTCTATCGCAACGGCGTGATCG +AAGAAACCGGCGTCGCCGCAGGCGTGCTGAATCATCCGGCCAACGGCGTGGCGTGGCTGG +CGAACAAGCTTGCCCCCTACGATGTCCAGCTTGAAGCCGGGCAGATCATCCTCGGCGGCT +CGTTCACCCGCCCGGTGCCGGCGCGCAAGGGCGACACCTTCCATGTCGATTACGGCAACA +TGGGCGCGATCAGTTGCCGGTTTGTGTAAGGAAAAAACGATGAAAAATGCTTTCAAAGAC +GCGTTAAAAGCGGGGCGCCCGCAAATCGGTTTGTGGCTGGGGCTTGCCAACAGTTACAGC +GCTGAACTGTTAGCGGGCGCCGGCTTCGACTGGCTACTGATTGACGGTGAACACGCGCCA +AACAACGTGCAGACGGTGTTGACCCAGTTGCAGGCGATTGCGCCTTATCCCAGCCAGCCG +GTGGTGCGTCCGTCATGGAACGATCCGGTACAGATTAAGCAACTGCTCGACGTCGGCGCG +CAAACGCTGCTGATACCGATGGTGCAGAATGCCGATGAAGCGCGAAACGCCGTGGCGGCT +ACGCGTTATCCGCCTGCCGGTATTCGCGGCGTGGGCAGCGCGCTGGCGCGGGCATCGCGC +TGGAATCGCATTCCGGACTATCTCCACCAGGCCAACGACGCCATGTGCGTACTGGTGCAG +ATTGAAACGCGTGAGGCGATGAGCAATCTGGCGTCAATTCTCGACGTGGATGGCATTGAC +GGCGTGTTTATTGGCCCGGCGGATCTCAGCGCCGATATGGGCTTTGCCGGCAATCCGCAG +CACCCGGAAGTGCAGGCGGCGATTGAGAACGCCATCGTGCAGATACGCGCGGCGGGGAAA +GCGCCGGGGATTCTGATGGCCAATGAAGCACTGGCGAAACGTTATCTGGAACTGGGGGCG +CTATTTGTCGCCGTCGGCGTTGACACCACGCTGCTGGCGCGCGGAGCGGAGGCGCTGGCG +GCGCGCTTTGGCGCAGAAAAAAAACTGTCCGGTGCGTCCGGCGTCTATTAAGCCTGGGCC +GGTAAGCGCAGCGCTACCGGGCAACCGTAGTACCCTACAAAATTCCCATCAGAGGAAAAA +AAATGAGCGACACATCATCTGCACTTCCGGAAAGCCCCGAGTCTGTCGGTTCGCACAACG +CGCTCAGCACGGGTCAACAAACCGTCATAAATAAACTGTTCCGCCGACTGATCGTATTTT +TATTCGTGTTGTTTATCTTCTCGTTTTTAGACCGTATCAACATCGGTTTTGCCGGGTTGA +CGATGGGGCAGGATCTGGGGTTAAGCGCCACCATGTTTGGTCTTGCCACGACGCTGTTTT +ACGCCACCTACGTCATTTTCGGCATTCCCAGCAACGTGATGTTGAGCATCGTCGGCGCCC +GCCGCTGGATTGCGACCATTATGGTGCTATGGGGCATTGCATCTACCGCCACGATGTTCG +CGGTGGGACCGAAAAGCCTGTATGTGCTGCGAATGCTGGTGGGCATTACCGAAGCGGGCT +TTTTGCCAGGAATATTGCTCTATTTAACCTACTGGTTCCCGGCATTTTTCCGCGCCCGCG +CCAACGCATTATTTATGATTGCCATGCCGGCCACTACCGCGTTGGGGTCAATTGTCTCCG +GCTATATTTTATCGCTGGACGGCATATTCAATCTGCATGGATGGCAGTGGTTATTCCTGT +TGGAAGGATTTCCGTCAGTTTTGTTAGGCATTATGGTCTGGTTTTACCTGGATGATACCC +CGGCAAAAGCCAAATGGCTGACGGCAGAGGATAAAAAATGTTTGCAGGAGATGATGGATA +ATGATCGCCTGACGCTGGTTCAGCCTGAGGGGGCCATCAGCCATAACGCCATGCAGCAGC +GTAGCCTGTGGCGCGAAGTATTCACGCCAATTGTACTGATGTATACGCTGGCCTATTTTT +GCCTTACCAATACGCTTAGCGCCATTAGTATCTGGACGCCGCAAATCCTGAAAAGTTTTA +ATGAAGGCAGCAGCAATATCACCATCGGCCTGCTGGCGGCGATCCCGCAGATTTGTACTG +TTCTGGGCATGATTTACTGGAGCCGCCATTCGGACAAACATCAGGAGCGTAAACACCACA +CTGCGTTACCGTTCCTGTTTGCCGCCGCGGGCTGGCTGCTGGCGTCGGCGACCGACCGTA +ACCTGATCCAGCTCCTGGGGATCGTGATGGCATCCACGGGTTCCTTTAGCGCGATGGCGA +TCTTCTGGACCACGCCGGATCAGTCGATCAGTTTACGCGCCAGGGCGATAGGCATTGCGG +TCATCAATGCCACCGGCAATATTGGCTCCGCGCTCAGCCCGGTTATGATTGGCTGGCTAA +AAGATATCACTGGTAGCTTCAATAGCGGACTCTGGTTTGTCGCTTCTCTGTTAGTCGTCG +GCGCCGCCATTATCTGGCTCATTCCCATGAAAGCATCGCGTCCGCGCGCCACCCCTTGAG +GAGAAACTATGTGCCAACGTGCGATCGCCAATATTGATATCAGCAAAGAGTATGACGAAA +GCATGGGCAGTAACGATGTGCATTATCAGTCGTTTGCTCGTATGGCGGATTTCTTTGGTC +GTGATATGCAGGCGCATCGCCACGACCAGTTTTTTCAAATGCACTTTCTTGATACCGGGC +AGATTGAGCTACAGCTCGACGATCATCGCTATTCGGTGCAGGCGCCGCTATTTGTGCTAA +CGCCGCCCTCGGTGCCGCATGCTTTTATTACCGAATCGGATAGCGATGGTCATGTTCTGA +CGGTACGCGAAGAGCTGGTTTGGCCGCTGCTGGAAGTGCTTTATCCCGGCACCAGAGAGG +CCTTCGGCCTGCCGGGAATCTGCCTGTCGCTGGCGGATAAACTCAACGAGCTGGCGGCGC +TCAAACATTACTGGCAGCTAATTGAGCGGGAGTCCACGGAACAACTGGCTGGCTGCGAAC +ATACCTTGGTACTACTGGCGCAGGCGGTATTTACCTTGCTGTTGCGTAATGCGAAGCTGG +ACGATCATGCCGCAACCGGGATGCGCGGTGAACTGAAACTTTTTCAGCGCTTTACCCTGT +TAATTGACAACCACTTCCATCAGCACTGGACGGTGCCCGATTATGCCTGTGAGTTGCATA +TTACCGAATCTCGTTTGACCGATATTTGCCGACGTTTTGCTAATCGCCCGCCTAAACGCC +TGATTTTTGATCGGCAATTACGCGAGGCGAAACGACTGCTGCTTTTTTCCGACAATGCTG +TCAACGAGATCGCCTGGCAATTAGGTTTTAAAGATCCGGCTTATTTCGCCCGTTTCTTTA +ATCGCCTTGCTGGCTGTTCTCCTTCGCAGTTTCGCCAACGTGAAGTTCCTTCTTTTCTCA +ACTAAGAAGAGTAAAAACATGATGAAAAAAAGCGTCGCTATGCTGGCGGTTTGTATGCTG +GCGCAAAGCCACCTTGCCATTGCTGCCGGTGCTCCTGCGCCTCAAGAGATCAACATTGTT +TTACTGGGCACCAAAGGCGGGCCTTCTTTGCTCAATACAGCCAGACTACCGCAAGCGACG +GCGCTCACTATCGGCGATAAGATATGGCTGATAGATGCCGGCTACGGCGCCAGTCTGCAA +CTGGTGAAAAATGGCATTCCACTGCGCAACATCAATACTATTTTGCTCACCCATCTGCAC +AGCGACCACATACTGGATTATCCTTCCTTGCTGATGAATGCCTGGGCAAGTGGCCTGAAA +GACCATACCATACAGGTTTATGGCCCGCCGGGAACCCAGGCGATGACGAAGGCTAGCTGG +AAGGTCTTTGACAGGGATATCACGTTACGCATGGAAGAAGAGGGGAAACCCGATCCGCGC +AACCTGGTTAAGGCGACCGATATCGGCCAGGGCGTCATCTATAAAGATGAACTGGTCACA +ATAAGCGCGCTGAAAGTGCCTCATTCCCCTTTCCCGGACGGTGAAGCGTTTGCTTACCGT +TTTGATACTCAGGGTAAGCGAATCGTCTTCTCTGGCGATACGTCCTGGTTTCCTCCGCTT +GCAACGTTTGCCCAGGGGGCGGATATCCTGGTACATGAGGCGGTACATGTCCCTTCGGTA +GCAAAACTGGCTAATAGTATTGGCAACGGAAAAACGCTGGCTGAAGCGATTGCGTCGCAT +CACACCACGATTGAAGATGTCGGTAAGATTGCTCGCGAGGCCCACGTGAAAAAACTGGTG +TTAAGTCATCTGGTGCCTGCGACGGTTGCGGATGACGTCTGGCAACAGGAAGCCATGAAA +AATTACCCGGGCCCTGTCATTGTCGGTCATGACAATATGACGATAAGCGTACCGTAAGCA +TCAGGGCAGGGGTAAACCAACGGGCTGACATCATGTCAGCCCGTTATGCTTTTGGCGATC +AGCATGACGCGCAGAGCTTTTGTCTAAAACATTATTTTTTCTAAACACTACTTGCTGATT +TTTATGCACAATAAAGGTAAGATGATTGCTCTGGTGAAATATCACTAAATAAGAATGTCA +CGGATGGAATTTATACAGTGTTAAAAGCAATGCGTTTCTTTGTCTGCCGGCCATCAGTAA +TATCCTCTGTACCGGCTCCTCGTTGCCAAAGTGAAGGTTAGATTAAACGAATCAAAAAAT +ATCCGAACTGTACAATTTTTATATCAAACATATTTAACTGCAAAATACTGCAAACGTGCG +CGAATACACTTAATCAGTAGTATGGCTAATGCATACTTTATTTCCTAAACTTTCTTATTA +TCTATTTGAATATTTCTGGTTAAACCAAATGGACAAACGGATACCAGACACTCGAAAGGA +TAACTGCAAGCTTCTGGTTTAGGATTGCAGTTACCAGGACAGTGGCTATTTTCTTTAAGC +GATTTCCATAGAACAGGATTAAACCTGGTAACGTTGTAAACAGTAACGGGATAAAGTTTA +TCGTTTATTAAGACCCCCTTATTAAAGGGGATGATAATGCTACCTGGAGGCATGTAAACA +TCTGCTTGATACCATAAGGTCAATCTAAGATTTTTTAGGCTATGTATGCATGAGAACGAC +ACTCCGGTAGAGGGACTTATAACTGTATCAACGACCTTCCATTCCATTACAGAAACCTTT +TAAGTGAAATAGTCAATGGTGTAAATTACATTTTCCGCAAGCCTATTCAGGATAGATGAA +AATCTGAGAAACATAACTCGTTGAAAACGATCGTTTTTTATTGACCACTCTATTTATATT +GATTTTTTAATAAGTTATTTATTTTATGCTCTTATTTTGTTTACATTCTATTACATTTTT +GTATTTTATACGTGGTGTAAATATTGGGCGGTAGTGGATGTTATAACGCTCAATTATTAA +ACTGTAAGTGACTGTTGTATTTCTTATTTATAAATACCGCAACCTGTAAGCGCAGCGGTA +CATTTTACCCGGCATTGACAGGGAGAAGATACGTATCAACCAGAGAGTACAAAACAGTGA +AAGAATATATTCTTCAGGCAATAAATGATCGCTAACGTGTAAAAATAACCGACGAATCTA +AAAAATGTGAGCGTGTGGCTGGTCTTTATTTAAACGATGATCTTCGCAATGGCGCATTAA +TGGCTGACATTGGCGGTTCGTTGATCGGCTTGTGCGCGGTGAAAGGCTATATTTCTTCCG +TTGCGGGAAGTATGTCAGAGGCATTCTGGTATTATACCGGGTGTATGTAAATCCGGGGTG +GGCAGAAAGCCCACCCTCGGTTTATTGCCTTTATCGTGGATTAGGGATGCGAGATAAAGC +GAGAAAGGCGTTGCAGCAGTAACCGGTTTTCTTCGCGCAGCCGTGAATTCTCTTCCAGCA +GCGTTAACGCGACCGCGATCCCTGGCCAGTCGAGCGCCAGCTCCTCGCGTAAGCGTAGCG +CGCGTTGTACCACGCTCGCTGCGCGATCGTCGAATTGCCAGTCGGCGTTATCGTCTTCGT +AAGGCTCAATTACGCCAAGTCCGACGATTTCGTTTAGCTCCTCTTCCGTCACGCCGGTGT +GCAAACAAAATTCGGTGATGGTAAAGGTGACAGTGATGTTAGCCATTATGCTTTCCCCCA +TTGCTGGCGTGGGTCAAAGGACGACTGCGCGTCCGCCAGTTGTTGCCACAGGGCAGCTGT +TTTCTCGTCAGGTTTCGGCGGCATAACGATTTTGATGATGGCATAGAGATCGCCAGTGTG +CTTTTTACTGGCTAATCCTTTTCCTTTGATACGCAGCCGCTGACCTGCCTGGCTGCCGGG +GGGAATGGTCAGCAAAATACGCTCTTTAAGCGTTGGCACAGACACCTTAGCGCCGAGCGC +CGCCTCCCATGGGGCAAGCGGAAGGACGACTTCCAGATCCTGATTGACGATATCAAAGAG +CGGATGCGGGGCAATATGGATAACGAGCCATAAATCGCCATTAGGTCCGCCGTTTTCCCC +CGGCGTGCCCTGGCCTTTCAGTCTGATTCGTTGCCCGTTGCTGACGCCAGCCGGGATTTT +CACATTCAATGTTTTGGGAATTTCCCGCTCCACCAGGCCGAACGCGTTATAAACGGGGAC +GGAATAGCTAATCGTACGCTGGTGCTCTTCCAGCGTTTCTTCCAGGAATACCGCCACTTC +AATTTCGATATCATGACCGCGTGCGGCGTGGCGGTGGTGCGAATGACGACCGTGCTGACC +AAAAATAGACGAGAAAATATCATCAAAATCTTCGGCGTTATACGGCTGGCCTTCGTGTTG +CTGGAACTGGCGATTAAATTGTGGATCGTTACGGTGTTGCCATAACTGGTCATACTCGGC +GCGCCGTTGCTCATCACTCAGCACTTCCCATGCTTCAGCAACCTCTTTGAAACGGGCTTC +GGCATCGGGTTCTTTGCTGACATCTGGATGGTACTTGCGGGCCAGTCGGCGATAGGCGGT +CTTAATCGTCTTGAGATCGTCCGTCGGTTTCACGCCCATAATGGCGTAATAATCCTTAAG +TTCCATAGCATCATCTCGCTAAATCAATACATACAGAAGGGACCCCAAAAAGGTTTCTCC +ACTAAGTGTAGGGTAAACCTGAAAAGTGCGTATGAAAACACCAGTTATATCATTAGTAAG +AATAAATTACGTTGTTCGACTATCAGAAGGTTGCGCAGCGCGCCGACATAACTTTACAGG +GGAAAGGTTGCCAAAACCGCGCCAGTGGCTAAGATAACTCGCGTTAAACAGTGAGGGCGC +AATGGCGAAACAACAACGGATGGGCTGGTGGTTTCTTTGCCTTGCATGTGTCGTGGTAAT +GGTTTGTACCGCGCAACGCATGGCGGGCCTGCACGCCTTGCAGATGCAGGCGACGGCCTC +TGCTGCGGTGGTCAGCGCTCCCTCCTCGACAGATGACGGCTCGCCGGTCACTCCCTGCGA +ATTAAGCGCCAAGTCGCTGCTGGCGGCGCCTCCAGTACTCTTTGAAGGTGCTATCCTTGC +GCTTTATCTACTGCTTTCCTTACTGGCGCCTGTCCGGGTCATGCGCCTGCCGTTTTCGCC +TCCACGGGCTATTTCGCCGCCCACATTACGGGTACATCTACGATTTTGTGTCTTCCGTGA +ATGACAGACCGGTTATTACTAACGGTTAATTACTCATTCACGGAGAAAAAATATGATGAT +TTTATTCAGGCGGATACTGTTCTGCCTGTTATGGCTTTGGCTGCCCGTCTCCTGGGCGGC +GGAAAGCGGCTGGCTGCGTTCGCCCGATAACGACCATGCCAGCATACGGCTACGTGCCGA +TACGTCCGCTAACAGTGAGACCCGGCTGTTGCTGGATGTCAAACTGGAAAACGGCTGGAA +AACCTACTGGCGCGCGCCGGGGGAAGGGGGCGTGGCACCCTCTATCGCCTGGAAAGGCGA +CATGCCTGAGGTAAGCTGGTTCTGGCCAACCCCCTCGCGCTTTGATGTGGCGAATATCAC +CACCCAGGGATATCACGACGAGGTGACCTTTCCGATGATCGTGCGCGGTACGCCGCCGGC +GACCTTGCGCGGTGTGTTGACGTTATCAACCTGCAGCAATGTTTGTCTGTTGACCGATTA +CCCCTTTTCCGTGACGCCCACTGTGCAGAATGCCGATTTTGCCCATGACTATGCGCGGGC +GATGGGTAAAGTTCCGCTCCGCAGTGGGCTAACGGACTCGCTTGACGTTGGCTATCGCCC +GGGAGAACTGGTGGTCACTGCTACGCGAGCGGCGGGCTGGTCATCGCCCGGGCTCTATCT +TGACACCATAGATGACGTCGATTTTGCGAAGCCTCGCCTGCGCGTAGAGGGCGACAGGTT +ACAGGCGACGGTGCCGGTGACGGACAGTTGGGGCGAAAAGGCGCCCGATTTGCGCGACAA +ATCGCTGACCCTCGTGTTAGCCGATGGCGCTATCGCCCAGGAGAGCACGCAAACCATTGG +CGCTGCGCCAGCGCAAACGCCGGACAATGCGGCGCTACCTTTCTGGCAAGTTGTAATGAT +GGCGCTAATCGGCGGACTGATTCTTAATTTAATGCCCTGCGTACTGCCTGTTCTGGGCAT +GAAACTTGGCTCTATTTTATTGGTAGAGGAAAAAAGCCGCTCTCACATCAGGCGACAATT +TTTGGCTTCGGTCGCCGGTATCATTGCGTCATTTATGGCGCTGGCGGCGTTTATGACCCT +CCTTCGCCTGTCAAACCATGCGCTGGCCTGGGGAGTCCAGTTCCAGAATGCATGGTTTAT +TGGTTTTATGGCGCTGGTGATGTTGTTGTTTAGCGCCAGCCTGTTCGGGCTTTTTGAGTT +CAGGCTTCCCTCATCTATGACCACGAAACTGGCCACTTACGGCGGTAACGGTATGTCGGG +ACATTTCTGGCAGGGGGCGTTCGCCACGCTGCTGGCGACGCCTTGTAGCGCGCCGTTTCT +GGGCACGGCGGTCGCGGTGGCGCTCACGGCGTCGCTGCCGACGCTGTGGGGGCTGTTCCT +TGCGCTTGGCCTGGGAATGAGCGCGCCGTGGCTACTGGTCGCGATACGACCAGGGCTTGC +GCTACGTTTACCGCGCCCCGGGCGTTGGATGAATGTCCTGCGCAGGATCCTCGGTCTGAT +GATGCTGGGGTCGGCTATCTGGCTGGCGACGTTACTCCTGCCGCATTTCGGCTTCACTGC +GTCAAAGAGCGCGCAAGACACGGTTCAGTGGCAACCGTTGAGTGAACAGGCAATCCAGTC +GGCGCTGGCGCAGCATAAGCGGGTATTTGTCGATGTCACTGCGGACTGGTGTATTACCTG +TAAAGTGAATAAATACAACGTCCTGCAAAAAGAGGATGTGCAGGCCGCCTTGCAACAGCC +GGATGTTGTGGCGCTGCGGGGAGACTGGACGCTGCCGTCCGATGCCATTACAGATTTTCT +GAAAACGCGCGGCCAGGTCGCCGTGCCGTTTAATCAGGTATATGGCCCCGGTTTGCCGGA +AGGGGAGGCACTGCCCACTTTGCTGACCCGCGATGCGGTATTACAAACGTTGAAAAAAGC +GAAAGGAATAACCCAATGAAATACATGATTGTTTTACTGCTGGCGCTGTTTTCGACGCTG +AGCATCGCGCAAGAAACCGCTCCTTTTACGCCGGATCAGGAAAAGCAGATTAAAAATCTG +ATCCATGCGGCGTTGTTTAACGATCCTGCCAGCCCGCGGATAGGCGCTAAACACCCTAAG +CTGACGCTGGTGAACTTTACGGATTACAACTGCCCGTACTGCAAACAGCTCGATCCGATG +CTGGAAAAGATTGTGCAGAAATATCCTGACGTTGCGGTCATTATTAAACCGCTGCCATTC +AAAGGAGAGAGTTCCATACTGGCGGCGCGTATTGCGCTGACCACCTGGCGCGATCATCCG +CAACAGTTCCTCGCGCTACATGAAAAACTTATGCAAAAGCGCGGTTACCATACGGATGAC +AGTATTAAACAGGCCCAGCAGAAAGCAGGGGCGACGCCAGTGACGCTGGATGAAAAAAGC +ATGGAAACGATACGCACTAATTTGCAGTTGGCAAGACTGGTCGACGTGCAAGGAACGCCA +GCGACGATCATTGGCGACGAGCTGATTCCGGGCGCAGTGCCCTGGGATACGCTGGAAGCG +GTGGTGAAAGAAAAACTGGCGGCTGCCAATGGCGGGTAAACTGCGGCGTTGGCTGCGTGA +AGCCGCGGTTTTTCTGGCGCTCCTCATCGCGATAATGGTGGTCATGGACGTCTGGCGCGC +GCCGCAGGCGCCTCCGGCGTTTGCCGCGACACCATTACATACGCTGACGGGAGAGTCGAC +AACTCTGGCGACCTTGAGCGAGGAACGCCCCGTACTGCTCTATTTTTGGGCCAGCTGGTG +CGGGGTATGCCGCTTTACCACGCCTGCGGTCGCTCACCTGGCGGCGGAAGGGGAAAACGT +CATGACCGTTGCGCTCCGCTCCGGCGGTGATGCTGAGGTTGCCCGCTGGCTGGCGCGCAA +GGGCGTTGACTTCCCGGTCGTCAATGATGCTAACGGCGCCTTATCCGCTGGCTGGGAAAT +CAGCGTGACGCCAACGCTGGTGGTGGTTTCACAAGGTCGGGTTGTGTTCACCACCAGCGG +CTGGACCAGCTATTGGGGCATGAAGCTTCGGCTGTGGTGGGCAAAAACGTTCTGAATATG +CGCCGGGGTTTCCCGGCGCTAACGCGTTTACTGTAAGAAAAACCTCCGTTTTGCGAAATC +GTTCCCGGAAAAATGATCCATTTCTGTCACACTCAGAACGATTTGATAACAACAAGAGGT +CATAGGGATGAAAAAATCATTACTCGCTGTTGCTGTGGCAGGGGCTGTTTTGTTGTCATC +CGCCGTACAGGCGCAGACAACGCCGGAAGGTTATCAATTACAACAGGTGCTGATGATGAG +CCGCCATAATCTGCGGGCGCCGCTGGCGAATAATGGCAACGTACTGGCGCAGTCGACGCC +GAACGCCTGGCCGGCGTGGGACGTTCCCGGCGGGCAACTGACGACGAAAGGCGGCGTGCT +GGAAGTCTATATGGGACACTACACACGTGAATGGCTGGTCGCGCAGGGGCTGATACCGTC +GGGAGAATGTCCGGCGCCCGACACGGTATATGCCTATGCGAATAGTTTGCAGCGCACCGT +CGCCACCGCGCAATTTTTCATTACCAGCGCTTTCCCCGGCTGTGATATTCCTGTTCATCA +TCAGGAAAAAATGGGCACTATGGACCCTACCTTCAATCCGGTGATTACCGATGATTCCGC +CGCGTTCCGGCAACAGGCCGTACAGGCGATGGAAAAGGCGCGTAGTCAGCTACATCTTGA +TGAGAGTTATAAACTGCTTGAGCAGATAACGCATTATCAGGACTCGCCGTCCTGCAAAGA +GAAGCATCAGTGTTCGCTAATCGACGCGAAAGATACCTTCAGCGCGAACTATCAGCAAGA +GCCTGGCGTGCAGGGGCCGCTGAAAGTAGGGAACTCGCTGGTGGATGCGTTTACCCTGCA +ATATTACGAAGGCTTTCCGATGGATCAGGTCGCTTGGGGCGGGATCCACACCGATCGGCA +GTGGAAGGTGCTGTCAAAACTGAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCCAC +GGTGGCGCGCAATGTCGCTGCGCCGCTGGTAAAATATATCGATAAGGTGCTGGTTGCCGA +GCGCGTTAGCGCGCCGAAGGTTACCGTGCTGGTGGGGCATGATTCCAATATCGCGTCGCT +GCTGACGGCGCTGGATTTTAAACCCTATCAGCTCCATGACCAGTATGAGAGAACGCCGAT +TGGTGGTCAGCTTGTCTTCCAACGCTGGCATGACGGTAACGCTAACCGGGATTTGATGAA +AATCGAGTATGTCTACCAGAGCGCCCGGCAGTTACGTAATGCGGAAGCGTTAACGCTCAA +ATCGCCTGCGCAAAGGGTAACGCTGGAACTGAAAGGATGTCCGGTGGATGCGAACGGCTT +CTGTCCGCTGGATAAGTTCGATAACGTCATGAACACTGCTGCAAAATAGCCGTATGCCCC +CGCGCAGGCGGGGGCGTTTGTGTTATACGTTCTTACGTTCGATGACTTGTTCGCCCCAGA +AGAGCGAGTCTTTGTCCGTTTTCTCAAAGGCTTTGATCAGCACCTCATCGCTACCTTCTT +CCCATATTTTTTCTGCCAGTTTCTCGTCATAGTGAGCGACTTCAAAAATGGCTTCGGCAA +TTTCCGGCGACGTATTACGCAGGCTTGCCCATTCGCCGACGCGGTGCGCTTTTGCTTCTT +GAGTTGGCATTCGAATCCTCCTGTTGAAGATTAGCCGTTGAGTTTGACTGCCAGACCGGC +GACGTATTCCCCCTGATAGCGAGCGATAGAGAGTTCCTCCTGGCTTGGTTGACGTGAACC +GTCGCCTCCAGCGATAGTCGTTGCGCCGTAAGGCGTACCGCCGCGAACCTGGGAGACGTC +AAACAGTTCCTGTGCGGAATAGCCTATCGGGACAATCACCATCCCATGATGGGCAAGCGT +AGTCCAGGTCGAGGTGATGGTCTGCTCCTGGCCGCCGCCCGTTCCGGTAGAACTGAACAC +GCCGCCGAGCTTGCCGTATAGCGCGCCGGATGCCCACAGTCCGCCGGTTTGGTCCAGGAA +GGTACGCATCTGGCCTGACATATTGCCAAACCGGGTTGGCGTACCAAAAATAATGGCATC +GTAATCCGCCAGCTCCTGTGGGGTGGCAACCGGTGCGTTTTGCGTTTTACCGCCAGCTTT +TGCGAAGATTTCAGGCGGCATTGTTTCTGGCACACGCTTTATAATGACCTCTGCGCCGTC +GACTTTCTTTGCCCCTTCCGCCACCGCGTGCGCCATGGTTTCAATGTGTCCGTACATGGA +ATAATAGAGCACCAGAATCTTTGCCATTTGTACTACTCCTCAGATTAATCAGGTGTGTAG +CGATTCGCTACGTCTATTTAAAGATATGCCCTCCTGTGAAGAGTGCAAATTTCAGCGCCA +TTTCTTTGATTTATAACAATAATTAATTTGGCGACCTTTGTTGCAAAATGATACATTTTT +AAGCGCTTTGATTTTTCCAAGTATAAGAATAACTTATTTATTTCTCATGGTTATTATTCT +GCATATTCGGCTTCTGATGTTGCAGAATATTTCGGTAAGCGGCCTACCACGGCGTTTTTC +ACTATGCTTAATTTTACGCGGCGTTACTGATGATATCGTTCATACGCGGCGCGAGGAGAT +ACTCCTCATTACCTATGCAATATGATGTCTAATCTATGACGGAGGTCAGTAATGGCAAAC +CATCGTGGCGGTTCCGGTAATTTTGCGGAAGACCGCGAAAGAGCATCAGAAGCAGGTCGT +AAAAGTGGTCAGCACAGCGGGGGCAATTTTAAGAATGACCCGCAGCGTGCATCCGAAGCA +GGCAAAAAAGGGGGCAAAAGCAGTAACCGTAATCGCTAGCCTGCGTCACAACAGCAAGAC +GCTGAGCGTTTCGCGCTAAAAAGCGTCATGCGCCACCGCCGCCGGATTTCCGGCGGTTTT +TTTGTTTATAAGCCGGATTTGGTATGCTTGCGTCCTGACGAAAAGGAGAGGGCGCATGTC +GCAACGCACAGAGAAAAAAATCGGGAAACGTTCGCAGGCCACCGGTGCAAAACGGCAGCT +TATCTTAACCGCCGCGCTTGCCGTTTTTTCCCAGTATGGCATTCATGGCGCGCGTCTTGA +ACAGGTCGCCGAGCGGGCAGGCGTCTCCAAAACCAATCTGCTTTATTATTATCCCTCGAA +AGAGGCGCTGTATGTCGCGGTAATGCGACAGATTCTGGATGTCTGGTTGGCGCCGCTCAA +GGCGTTTCGCGCAGAATTTTCCCCTCTGGAGGCCATCAAAGAGTATATCCGTCTCAAGCT +GGAGGTTTCGCGTGATTATCCGCAGGCGTCGCGGCTCTTCTGCATGGAGATGCTGGCGGG +CGCGCCGCTCTTAATGGATGAACTGACCGGCGATCTAAAAGCGTTGATAGATGAAAAATC +CGCGCTGATTGCCGGATGGGTGCACAGCGGGAAACTCGCGCCCGTTTCTCCGCATCATTT +GATCTTCATGATTTGGGCCGCCACGCAACATTACGCCGATTTCGCCCCTCAGGTTGAAGC +GGTAACCGGCGCGACGCTTCGCGATGAAGCCTTTTTCAACCAAACGGTCGAAAGCGTTCA +GCGCATTATTATTGAAGGGATTCGCGTGCGTTAACCGGCTGGCGGCAGTGGGCAGCTCAA +ATCACCCTCTTCACATTGCAGCAGCGAGGCTAAAAACGCTTCGCGTTCGTTCGTTTTATC +GGTCAGGCACTGGCTGGCGATCATGGGTTGAACGCTGCCGCCCTCCGTACCTGAGCGAAT +CAGCGCGCAATCGGCGTCGCGCAGGGCAATCCATGCCACCTGCGCTTTTTGCAATAGCTC +ACGCTGCGGCGGTTGCGCACGCTTAATCGCGCTTTGATAGGTTTCGTTCAGCTTTTTATC +TGCCGCCTGGTATTGCGCGGCGGCGCAGCGATTCATTTCCAGCTGCGTACTGGCGCTGGC +ACACTCATCGGCCAACGCCTGACTGCTGAACAACAACGCCGCGCAGGTAAGGAAAATTCG +TTTCATACGGTCCTCTGACGCGAGTAAAAAGGCTCCATTGACGGAGCCTTAATTAACCAC +AGTATTAGCCAATTGTCATCAGGCTGGCATTACCGCCAGCGGCGGCAGTGTTTACGCTCA +GCGAACGTTCAATATAGAGCCGTTCCAGCAGCATATTGCTTTCGCCGCGGGCGAACCCCT +GTACCGACACTATCGCGCCTTCGCGGGCGGCGACGGCTTCGCACACGGTTCGCAGCTTGT +CGGAGTCGCCGTGGAAAATCACCGCGTCAAACGGCTGCGCCATCAGCGTTTCCGCTTTCG +CAAACTGGACACGCGCCGCGACGGCGGCGGGGAGACGTTTCGCCAGATCGCGGTGGAAGG +CGTCGTCTGACCATAGCGCCTGACTGCCGACGGCGAGAACGGCGGCAAGCTGCGTCAACG +CGTCCTGTTCATCATCAGCCAGGCATAACACCCGTTCACGCGGCAACAGCGTCCAGGTAT +TACGCTCGCCGGTCGGCCCCGGTAGCAGGCGCTGCGTGCCGGCCTGCGCCAGATCGGCGA +ATTGTCGGCAGAGCGTCTGTAGCGCCGGGCGATCCGCCGCCCATTGCGTCAGAGCGGTCA +ACGGCGCGAGTAGCGTGGTTTTAAGCTGCGCATCCACCGGGTAACGCGCATCCTGACGAG +TCAGCGTCGTATTGAGCGCATTGGGCGGGCGGTGTGCCAGCAGGCGGTAGAGATAGAGCG +GCCCTCCCGCTTTTGGCCCGGTGCCGGACAGGCCTTCGCCGCCAAACGGCTGGACGCCGA +CGACCGCGCCCACCATATTACGGTTAACGTACAGGTTGCCGACATGGGCGGAACCGGTGA +CTTGCGCAATGGTTTCATCAATACGGGTATGTACGCCCAGCGTTAGCCCGTAGCCGGAAG +CGTTAATCTGTTCGATAAGCTCCGCCAGTTGGTTACGGTTATAACGCACGACGTGCAGCA +CGGGCCCGAAGACCTCTTTTTCCAGTTCTGCGAAGTTTTCCAGCTCAATAAGCGTGGGCA +TAACAAACGTACCGGTCTGCCATTCCTGCGCGTCATCGCTGTTTTCACGCGCGGCCTGGA +AAACCGGGCGGCCTTTGGCGCGCATCGTCTGGATATGACGTTCAATGTTGGCTTTGGCCT +CGCTATCGATCACCGGCCCGATATCGGTCGTCAGACGGCCTGGATTCCCCATCCGACACT +CCGCCATCGCGCCGCGTAACATTTTCAGCGTATGTTCGGCGATATCGTCCTGCAAACACA +GCACGCGGAGCGCGGAACAGCGTTGTCCGGCGCTGTCGAAGGCGGAAGCCAGCACATCCA +CGACCACCTGCTCGGTGAGCGCGGAAGAGTCGACAATCATAGCGTTCATACCGCCGGTTT +CCGCAATCAACGGAATAGGGCGCCCCTGGGCGTCAAGACGCGTGGCGATGTTGCGCTGCA +ACAACGTCGCGACCTCCGTGGAACCGGTAAACATCACGCCGCGTACACGCGCATCGGCGG +TAAGCTGGGCGCCGACGGTTTCTCCCCGTCCCGGCAACAGTTGCACGACGCCCGGCGGTA +CGCCCGCTTCCAGCAAAATGGCAATGCCCTGGGCGGCAATCAGCGATGTCTGCTCTGCCG +GTTTCGCCAGAACGCTGTTACCTGCCGCCAGCGCGGCGGCGATTTGGCCAGTGAAAATGG +CCAGCGGAAAGTTCCACGGACTGATACAGACCACCGGCCCTAACGGGCGATGCGTTTCGT +TATCGAAATCGTCACGCACTTGACCGGCATAATAATGGAGGAAGTCTACCGCTTCGCGCA +CTTCGGCAATGGCGTTGCTGAACGTTTTCCCCGCTTCACGCACCAACAGGCCAATCAACT +GCTGCATTTGGTCTTCCATCAATACCGCCGCCCGCTGCAAAATAGCGGCGCGTTCTTGCG +GCGGCGTCGCAAACCAAACCGGCGCCTGATTGACCGCGTTTTGCAACGCCTGTTCAACCT +CGCTTTCTGTCGCTTCGCGTCCCCAGCCAACAATATCTTTCGGTTCCGCCGGGTTGATAA +CCGGCGTCATCTCACCGTCGGCCACCGGTTGTTCCAGCACAGGTTTGGCCTGCCATTTCT +GCATGGCGTTGCTTAACAGGGCAGAAGAAAGCGAGGCGAGGCGATGTTCATTCGCTAAAT +CAAGTCCGGCGGAGTTTATCCGACCTTCGCCGTACAGATCGCGCGGCAGCGGAATTTTTG +GATGCGGTATGCCAGCCTGACCTTCCTGCTGCGCCAGTTTTTCCACGGCCTCGACCGGGT +CGGCCACCAGTTCATCGAGCGGTAGGGTGGCATCGGCGATGCGGTTGACAAAAGAGGTGT +TGGCGCCGTTTTCCAGCAGGCGTCGTACCAGATAGGCCAGCAGGGTTTCGTGTGTTCCCA +CCGGCGCGTAAATACGGCAGGGACGGTTAAGTTTTCCGTCCCCCACTTTACCGGTGACCT +GTTCATACAGCGGTTCTCCCATGCCGTGCAGGCACTGGAATTCGTACTGACCCGGATAGT +AATTTTGCCCGGCCAGATGATAAATCGCCGCCAGTGTGTGAGCGTTATGGGTCGCGAACT +GCGGGTAGATCAGATTAGGGACGGCGAGCAGTTTTTTCGCGCAGGCCAGATAAGAGACAT +CGGTATACACTTTGCGGGTATAAACTGGATAGCCCTCCAGCCCTTCCATTTGCGCGCGTT +TGATCTCGCTATCCCAGTAGGCGCCTTTCACCAGACGAATCATCAGCCGACGGCGGCTAC +GGGAGGCCAGATCGACTAAATAATCAATGACCAGCGGGCAGCGTTTCTGGTAAGCCTGAA +TCACAAAGCCAATGCCGTTCCAGCCCGCCAGTTCGGGTTCGAAGCAGAGTTTTTCCAGCA +GATCAAGCGAGATCTCCAGACGATCCGCCTCTTCGGCGTCGATATTGAGACCGATATCAT +ACTGGCGCGCCAGCAGCGTCAGGGATTTCAGGCGCGGATAAAGCTCCTCCATTACCCGAT +CGTATTGCGCGCGACTATAGCGTGGATGCAGGGCGGACAGCTTAATCGAGATGCCTGGCC +CTTCGTAAATACCGCGACCGTTAGACGCTTTGCCGATGGCATGAATCGCTTGCTGGTAAG +AGACCATATAGGCCTGCGCATCGGCGGCGGTTAACGCGGCTTCGCCCAGCATATCGTAAG +AATAGCGGAACCCTTTCTCTTCCAGTTTTCGGGCATTCGCCAGCGCCTGAGCAATGGTTT +CGCCAGTCACGAACTGCTCGCCCATTAAACGCATCGCCATGTCGACGCCTTTGCGGATTA +ACGGTTCGCCGCTCTTGCCGATAATGCGGTTCAGCGAGCGCGAAAGATTGGCTTCGTTAT +GCGTTGAGACCAGTCGGCCGGTAAAGAGCAGCCCCCAGGTGGCGGCGTTTACAAACAGCG +ACGGGCTACGGCCAATATGCGACTGCCAGTTGCCATTACTGATTTTGTCGCGAATTAACG +CATCGCGCGTAGCTTTGTCGGGAATACGCAGCAGCGCTTCCGCCAGACACATCAGCGCTA +CGCCTTCTTGCGAAGAGAGGGAAAACTCCTGCAACAGGCCTTGCACCATACCCGCGCGAC +CGCTGGCGGATTTTTGATTGCGCAATTTCTCCGCCAGTTGATACGCCAGTTTATGCGCCT +GCTCAGCGACAGGCGGCGACAGGCGCGCCTGTTCCATTAGCATTGACACCGCATCGGTTT +CCGGGCGGCGCCAGGCGGCGGTGATGGCGGCGCGAGAGACGGATTGGGGAAGAATCTGTT +CGGCAAACTCCAGAAAGGGCTGATGCGGCTCATCCTGCGGCGCGACCGGCTCCTCGCTTT +CATTTGCCGCGCCGGCAAACAGCGCAGGTAGCTCCGGTAGCGTATCGCTATTTTCCAGCT +TGTCCAGATAGCTAAAGATTGCCTGTTTTATTAACCAGTGCGGCGTGCGATCGATACGCG +ACGCGGCCATTTTGATCCGTTCGCGCGTGGCGTCGTCCAGCTTAACCCCCATCGTGGTGG +TTCCCATACCCTCTACTCCTGTTATTCGCTCTATCTGCTAACCAATAGTTAGCGGAAAAT +ATCCACTATATTGCAACTTTGTGCAACCGCGTTAAATGTGACCTGCGTTGCAAGCTTAAA +AATGAATAAATTGTTAAAAAAAGAAAGTGGGAGTCTGACGGGGAAAACCATCTGGATTTA +TTTTCTCTGCGGTAGTTAACACTTTTAAAAGGTGCAACCGCAAAAAATGTGAGAGAGTGC +AACCTGGAGAAAAATAGTATCCCTCTGCAATCAAATTTGATGTAAATGGTGTGTTAAATC +GATTGTGAATAACCACCGATTCCGGCAGGATACGGTCGCCCTGGTAAACATAACACCCTT +GCCACGTTCCGGCAGGGTACAAAACGGCACGCTACGGTAGTGCCAATAAATAAATTTGGA +GAACCTTGATGGCTATTAGCACACCGATGTTGGTGACATTCTGTGTCTATATTTTTGGCA +TGATATTGATTGGGTTTATCGCCTGGCGCTCAACCAAAAACTTTGATGACTATATTCTTG +GCGGTCGCAGCCTGGGGCCGTTTGTTACGGCTTTATCAGCCGGCGCGTCGGATATGAGCG +GCTGGCTGTTAATGGGGCTGCCTGGCGCTATCTTTCTGTCGGGGATCTCTGAAAGCTGGA +TCGCCATTGGCCTGACGTTAGGCGCATGGATTAACTGGAAGCTGGTGGCCGGGCGCCTGC +GCGTGCATACCGAATTTAACAATAACGCGCTCACGCTGCCGGACTATTTTACCGGTCGGT +TTGAGGATAAGAGCCGAGTCCTGCGTATTATTTCCGCGCTGGTCATTCTGCTGTTTTTCA +CTATCTATTGCGCATCAGGTATTGTCGCTGGGGCACGACTGTTCGAAAGCACCTTCGGTA +TGAGCTATGAAACCGCACTGTGGGCGGGGGCCGCGGCAACCATTATTTATACCTTTATCG +GCGGGTTTCTTGCCGTTAGCTGGACGGATACCGTTCAGGCCAGCCTGATGATTTTTGCGT +TAATCCTGACGCCGGTGATGGTTATTGTCGGCGTAGGCGGTTTTAGCGAGTCGCTGGAAG +TGATCAAGCAAAAGAGCATCGAGAATGTCGACATGCTCAAGGGGCTGAATTTTGTCGCTA +TTATTTCTCTGATGGGCTGGGGGCTGGGTTACTTCGGTCAGCCGCATATCCTGGCGCGCT +TTATGGCGGCGGATTCCCATCACAGTATTGTTCATGCGCGTCGTATCAGTATGACCTGGA +TGATTCTGTGTCTGGCGGGCGCGGTGGCGGTGGGCTTCTTTGGCATTGCGTACTTTAACA +ATAACCCCGCGCTGGCCGGGGCGGTGAACCAAAACTCAGAACGCGTATTTATTGAACTGG +CGCAGATCCTGTTTAACCCGTGGATTGCCGGTGTTCTGCTGTCTGCTATCCTGGCGGCGG +TGATGTCGACGTTGAGCTGTCAGTTGCTGGTATGCTCCAGCGCGATTACGGAAGATTTAT +ATAAGGCTTTTCTGCGTAAAAGCGCCAGCCAGCAAGAGCTGGTATGGGTAGGGCGAGTGA +TGGTGCTGGTGGTAGCGCTGATCGCCATTGCGCTGGCGGCGAATCCTGATAACCGTGTGC +TGGGGCTGGTGAGCTACGCCTGGGCTGGATTCGGCGCGGCATTTGGACCTGTTGTCCTGT +TTTCTGTGATGTGGTCGCGTATGACACGTAACGGCGCGCTGGCGGGAATGATTATTGGCG +CGGTGACGGTTATCGTCTGGAAACAATATGGCTGGCTGGATCTGTATGAGATTATCCCTG +GCTTCATTTTCGGCAGCCTGGGGATCGTAATCTTTAGCCTGCTTGGCAAAGCGCCGACAG +CAACGATGCAGGAACGCTTTGCAAAAGCGGACGCGCATTATCATTCCGCGCCGCCGTCGA +AGCTACAGGCGGAATAACCGACATGTCCGATAGCATTATTGCCATCGGATATATTTTACC +AGGCGGCGTTATACGCCTGCCTGGTCCTCTGATAAGTCCCGGACCGATTGACTGAAGGTG +TTCAGGTAAATGAGGACGCTCTCTCAAACTATTTTTAGCCCTTGAGCGCCGTTAACGCGG +CCGTAATACGTCTCGAGTAATCACTAACTGACCATATATGAAATCGCCTGTTAATGGTAC +CAATAGCCTTGACGCAATAGAGTAATGACAAAAATTAAAACGAGTCAGCGTTACTGGCGT +AAGTATGCCGCACAAAATTTTGCATAAATAATGCCGTTTTAGCGATGGGAGAGAGGACAC +GTTAATTACTCCGTTTTAATCTTTTATATGTTGAATATTCAATGGGTTATGGGTGTTTTC +ACCATTAATACCCATAGTAGCTAATGATTATCTTTTTTAGTCTCCTGCCAATGAAATAAT +TGTGTAATCTTTCTGTAAGAGACTGACAATGACGCAATAATGTTTGGTTAATGTTTGGTG +AATATATTGTTGCATTATTGATGTTTTGTGTTGTACTTAGTAGTAATAGCGGTAGTTCCC +CGGCAGTGATGGTCACTCACTATGGAGATCGCGAATGGTAATGTCCGCACCAGGACACAT +TGTTTACAGTAGTTACAACACCCTGTACGGACATTCTCTCTCCGGTGGTGGTCTTGTCAT +CTTAAAAGCTCTCATCATTTCCCTTACTGTCCATACCCATGACGCCATATGTGGTGCGCG +TAGCCGTGTGTGGCGTCGTTTCAAAAAGCAAGCTAAGGCTTACAAGGAAGCCAACCCTCA +GATGTGTGTGCGCATAATCGCGTTCAAGAGAACGCGGGTGATGTATACCTACAACTCAAG +GTGCTATCCATGGGAAGACAAAAAGCAGTGATCAAAGCTCGTCGTGAAGCAAAGCGTGTG +TTGAGACGAGATTCGCGTAGTCATAAGCAACGTGAAGAAGAATCGGTCACGTCACTGGTA +CAGATGGGCGGAGTAGAAGCCATTGGCATGGCGCGCGATAGTCGCGATACCTCTCCTGTT +AAGGCGCGAAATGAAGCACAGGCGCATTATCTGAACGCTATCGACAGTAAACAGCTTATT +TTTGCGACCGGCGAAGCCGGCTGCGGAAAAACATGGATCAGTGCGGCAAAGGCGGCAGAA +GCATTGATTCATAAGGACGTCGAGAGGATCATTGTGACGCGTCCGGTATTGCAGGCTGAT +GAAGATCTTGGTTTTTTGCCCGGTGATATCGCTGAAAAATTCGCGCCTTATTTTCGTCCC +GTCTACGATGTCCTGCTTAAACGGTTGGGCGCGTCCTTTATGCAATATTGTTTGCGCCCG +GAAATCGGTAAGGTAGAAATTGCCCCGTTCGCCTATATGCGTGGGCGTACTTTTGAAAAT +GCGGTCGTGATCCTCGACGAGGCGCAAAATGTGACTGCGGCGCAAATGAAAATGTTTTTG +ACGCGATTAGGCGAAAATGTCACGGTCATTGTCAATGGCGATATTACGCAATGCGACCTG +CCGCGCGGTGTGCGTTCCGGGTTGAGTGATGCGTTGGAACGCTTTGAAGAAGATGAAATG +GTGGGGATTGTGCATTTCAACAAAGACGACTGCGTGCGCTCGGCGCTTTGTCAGCGAACG +CTCCACGCATACAGCTAATATAGCATTGACTTTCAGAGCCCGGGAGACCGGGCTTTGTTG +TCTATAAAGCGTCCAGCAGACTCATGGACAAAAAAGGAAAATGACGCCTGTACGTGAAGG +GAATTATTTTGTCATGTCCAGGGCATTCATTGTCCGTAATTTGCTTTCTCGGGCCTGTTC +CGGCGAGGACTGTACAAGAAGGGTATAGAGCAGGTCAAAGACGAAAAGCTGCGCGGCTTT +CGTACCGATCGAGTCACCCTGCAACATTCCTTGCCGATTACCATTGATCAGGCAAAAATC +GGCCTCTTCACATAATGGAGAACCCAGATTATGGGTAATGGCGACTGTGGTGGCGCCAGC +CTGTCGGGCCAATCGGAGTGAATGCACTGTTTCTGGCGATGTGCCCGAGTGACTGACACC +CATCGCGACATCGCCTGCTTTTAATAGCGTAGCCTGCATGTACATAAAATGGTTATTGCT +TACCGCATCGCCCCGTAAACCAATACGCATTAGCTTGTGTTTCATATCCAGCGCCGTGAT +CCCCGATGAGCCCACACCAAAGATATAAACTGAGTGACAGTGACGTAGGGCGTCCACGAC +ACCGAGAACCTGTTGCATATCAAGCAGATTTAGCGTTTCAGATAATACATTACTAATGGT +GTTCTGCAATTTTAAACCAATGGCGTGGGCATCGTCGGATTCGCTAACTTCGGCATCCAG +TAGAGGACTACTGTCATCAGACTCGGTAGTGGCAAGTTCAATGGCCAGGTCCATTTTAAA +ATCCTGAAAACCTTTATAGCCCAGGGTGCGACAAAAGCGAATAACCGTGGCTTCTCCGGC +CTGTGTGTCGCGCGACAAATCGGCAATAGATGACTGTGTCACCTGTCTGGGGAAGGCTAA +AATATATTGCGCAATACGCTGGGAGGCACGTGTCAGGCTTTTTTGCATAGCACCCAGAGT +GTCAAGGATTTTTCCGGGTTTAAGACGTGGGGGTTGAGGCTCCATATAGTTCCTGCTCTT +GAGGGCTGATTGCGGCACAAAGCCTGCAATATCGAACAGAGCAGAGCCTATCAAGTCTGC +GGCATGAAAAAAAGCGCGATGTAAGTAAAGGAGGGGGAATATTTACATCGCGTTGCCAAC +TTATGACAGAACATCACTGGAGAGTAATCTGTTTGCTCTTACGGTGTTTATAGCGCGCCA +TCTGTCGGATGGTTTATATCTGGCCCGGTATTGTCGCCCCGCGCGTTGGCGTCACCGTGT +GCTGTGTCGGTATAGCGTGGTATCATGAAATCATAATGTCACCTTTGGTTCAGGTTTTTC +ATCCAGCGTCAATGGCGGTGCCGGGGCAAATAACGGGGCGAAAATAACGCCGCTGATCAC +CACGCTTAGCGAGCCAATGACCCCATAAAAGAAGAAGTTAAGGTCAGTGGCATAGCGTGT +GCCCAGCACGGTAATGACGCTGATAATAATTCCTAAAACCGCACTCCCGGCATTTGCTCG +TTTAAAGAAAATGCCCAGCATGAACAGACCGGTCATTGGCCCTCCCATCAGACCTATCAG +ACTATTAAATGCATCCCAGATTTCTGATTCATCGGCCATGACCAGCCATACCGAGGCCGC +GCTACTTATCAGGCCCGCGACCAGAATAACTAACTTAGCTATTTTCATACGGTTTTCTGG +CGTTCCTTTTTTATGACTCAAACGCTGATAGATATCGGAATTAAAACAACTGGAAATGCT +GTTTAAGCTGCTGGAGATGCTGGACTGCGCGGCAGCGAAAATAGCGGAGATTATCAACCC +TGCAATGCCGACTGGCATTTCGGTGACCACGAATAAGGGCAAAATGCCGCCAGTGTTGAA +TCCCGCCGGTAATAATTGTGGATGTTGCTGATAGTAGACAAATAATGCCGAGCCGATAGC +AAAAAAGAAAACAGGGATCACAGCAACCAGTTTGGCATTTGTAAGTAATGTTTTCTTCGT +TTCCTCTATGGAGTCAGTCACGATATAGCGTTGGACCACATCCTGACTGGCAGTAAATTG +CTGAATATTGGCAAACAGAAAACCAATCATCAATACAGGTACTGTGCTTTCCGTCCAGCT +CCAGTGGAACTGCGTAGCCGGAAAGAATTTATCCGCCTGCTGCGTCACCGTAAAAATTTC +ACCAATGCCGCCCTGGACTTTGAGACATATCACTATAAAAATCAGTATCGCGCTGCCAGA +AAGTAAGAGACCTTGAATAACATCAGTCCATATTACTCCTTCAATTCCCCCCCATCCAGG +TATAAATGATACACATCACACTAATCAACAGTACCAAAATCACCGGGTCTATAGCGATGA +AGGGGCGCAAGGCCAGCACGGTGAGGAAAGTGATAATGGCGATACGTCCAATATGAAACA +ACATAAATGACATGCTGGCGAACAGACGGCAGCGCACATCGAACCGTGCTTCGAGATATT +CATAGGCTGATGTGACTTTCAATTTCCGAAAAAACGGAATATAGAAATAAAAAACCAGCG +GTAAAATTGCGATAGCCAGATACTGACCAATGATAAACGTCCAGTCGGAAGTAAACGCTT +TGGCAGGAATTGACATAAATGTAATTGAGCTTAACGTAGTAGCAAATACACTGACCCCAG +CCGCCCAACCAGGAACCCGGCCACCACCGCGAAAATAATCGTCTGCTGTTTTTTGCCGTC +TGGAAAAATAGACACCGACTAACATCATGGCCAGGAGGTAGCCAAATAATACAAAATAAT +TAACGATGCCGAAAGAATGTGTAATCATAGTTCTTTCCTGCTTATGGTTTTGAGTAGCGT +TGCGGTCATCGTCTGTGTATTTTTATCTTCCCATCATTCAGACGATACGATATTCAGATC +AAGCAATAGTTTTTGTTAATCTCAATGACGCTAATCATGAGATGTAAAAGGCAGAGCATT +TATGCTCCACCAATGGTGATGCCCAGACGTATGTCCTGCCGGATACCTGAAATAGCAGCT +ATCCGATATTGCGTTCAAACAGGCTTCAGGCCTGGGTATCGTATTTGCCGATAGCATTCT +TAACGTCGGATTATTCTCTGAGACATAAATATCAATAGTAAGCGTGTTCATTTTCTTTTC +CTGTTCAGCGTTTTACTGCGTGACTGAACCACTGACAGATATGCTCGATACGGGTGATAG +CGGAACCAACGGTAACTGCCCAGGCACCATGCTCAATAGCATTGGCCGCCAGTGCAGGCG +TGTTATAGCGCCCCTCGGCAATAACACGACAACCTGCATGACTCAGTTGTGTCACCATTG +CCAAATCTGGCTCAACCGGCGTGATGGGACCGGTATAGCCAGACAGTGTTGTACCAATGA +ATTCGATTCCTTTCTGATGGCAACTTATGCCTTCATTCACGGTTGAACAGTCTGCCATCG +CCAGTAATCCATGCAGGCGAATACGTGTCAGTAAACTATCAATATCAACCGGGCGAGAGC +GGAATGAGGCATCAAAAGCGATAATATCGGCACCTGCCTGCGCCAGGGCGTCAACATCCT +GTAAATATGGAGTGATACGGACTGGCGACCCTGTAAGGTCACGTTTAATTATCCCAATAA +TAGGAACAGAAAGATGGGGACGAACAGTCCGCAGATTCTCAATGCCTTCAATGCGCACAG +CGACCGCACCCGCCGAAGCCGCTGCCTGTGCCATTGCAGCCACAATTTCAGGTTTATCCA +TAGGGCTGCCTGGTACCGGTTGGCATGAGACAATCAGCCCACCGTTTTCGTGTACACTTT +GTTCCAGCCTGGCTAATAGTGACATCCAGTTCCGCCTTATATATTTTGAAGTTTTACTCC +GTTTTATATTATGTTGTGGAGTGTTGCTGCATCAAGCAAAAAGATAGAAAAATGTGAACA +CAGTCATAAGGTATGTTTGTCATTCAATTACTGCGCCAGCGGATTTGAGGCTATAACCTG +AAGCTACAAGACAAATACAATTCATTCTGACGGCAGCATGCTGTATTTTATTAACTGCTT +CCGGCATAAAGATAAAATGCTCAGAAGGAGCTTATACGCCACGGGATAGCCAGTATGAAA +TGCATCACATAATTCTTGTTGTATTTATTCAGAATGCAATCACTAATGAGTTTGCCCATA +ACAGGTCACCCATAATCACTTCTAACATCACCATAGTGTGCTTTTACCTCGCACATGGTA +ACCCCATGTAATTATTTTTAGCGCTTGGTCACATTTTGTCATTTTCATTGTTGAAATTAT +GCACCATAAGATCACTAATGATGAAGCTTTACTCCAGTTGTATTTCTTCGCATGGGGATG +CAGATGAAAAATTTTAAGAAAATGATGACGCTAATGGCGCTATGTTTATCAGTTGCTATC +ACCACATCAGGATATGCAACCACGCTTCCTGATATACCAGAACCACTGAAAAATGGTACT +GGCGCTATTGATAATAATGGCGTGATTTATGTCGGCTTAGGTACCGCAGGGACATCCTGG +TATAAAATTGATCTTAAAAAGCAACATAAAGACTGGGAGCGTATAAAGTCGTTTCCTGGT +GGAGCTCGTGAGCAATCCGTGTCGGTATTTTTAAATGATAAGCTGTATGTTTTTGGTGGC +GTAGGGAAAAAAAACAGTGAATCACCGTTGCAGGTTTATAGCGATGTGTACAAATACTCA +CCGGTGAAAAATACATGGCAAAAAGTTGATACTATATCTCCAGTTGGATTAACAGGGCAT +ACGGGAGTAAAATTAAACGAAACGATGGTACTTATTACCGGAGGGGTTAATGAGCATATC +TTTGATAAGTATTTTATTGATATAGCGGCTGCGGATGAAAGTGAAAAAAATAAAGTCATC +TATAATTATTTTAATAAACCTGCCAAAGATTATTTTTTTAATAAAATCGTATTTATCTAC +AATGCTAAAGAGAACACATGGAAGAATGCCGGTGAGCTGCCAGGCGCGGGGACGGCAGGA +TCGTCATCGGTAATGGAAAATAATTTCTTGATGCTGATTAATGGTGAGCTCAAACCGGGT +TTACGTACCGATGTGATTTACCGCGCCATGTGGGATAACGATAAGCTAACATGGTTGAAG +AACAGCCAGTTACCGCCATCGCCTGGAGAACAACAGCAGGAAGGGTTGGCCGGAGCATTT +TCGGGCTATAGCCACGGTGTCCTGCTTGTCGGTGGTGGCGCGAATTTTCCGGGAGCAAAA +CAAAATTATACTAATGGAAAGTTTTATTCCCACGAAGGGATAAATAAAAAATGGCGAGAT +GAAGTCTATGGTTTGATTAATGGCCATTGGCAATATATGGGTAAAATGAAACAACCTCTC +GGCTATGGTGTATCAGTAAGTTATGGTGATGAAGTTTTCCTTATTGGTGGTGAAAATGCT +AAAGGGAAACCTGTTTCGTCTGTAACCTCCTTTACCATGCGTGATGGTAATTTATTAATA +AAATAATTTTTTAAATACAAAAATAAAGTTAATTGATAAGCGGAGTATTTTATGAAAATC +AACAGATATCTTCTGGGTATGGTTTCGTTTATAGCATTTTCATCATATCTACAAGCGGCA +ACCCTTGATTATCGGCATGAATATGCTGATAGAACCAGAATTAATAAAGACCGTATTGCT +ATAATTGAAAAGCTTCCTAACGGCATTGGTTTTTATGTCGATGCCAGCGTTAAATCGGGA +GGAGTAGATGGTGAGCAGGATAAGCATTTAAGCGATCTCGTCGCAAACGCTATAGAACTG +GGCGTAAGTTATAATTATAAAGTTACGGACCATTTTGTTTTGCAGCCTGGATTTATATTT +GAAAGCGGTCCAGACACTTCAATTTATAAGCCTTATTTAAGGGCGCAATATAATTTTGAT +TCTGGTGTTTATATGGCTGGTCGTTACCGTTATGACTATGCAAGGAAGACAGCTAACTAT +AATGATGATGAGAAAACGAATAGATTTGATACTTATATAGGTTATGTTTTTGATGAGTTG +AAATTGGAATATAAATTTACCTGGATGGATAGCGATCAAATTAAATTTGATAACAAAAAA +ACAAACTATGAACATAATGTGGCTTTAGCCTGGAAACTGAATAAGTCATTTACACCATAC +GTTGAGGTCGGAAATGTAGCGGTGAGAAATAATACCGATGAGAGACAGACCCGTTATCGC +GTTGGATTACAATACCACTTTTGAGAAAGGTTAAAGAGTTACTGTACTAATCTTTGCTTA +GTATTCATATCGATAATCTTATAGCCCGTAGCTACGTTACAGAACGTTAGACTTTGTCTT +GAGTATTCACGTCCTTAACGTAGCTACGAACAAGGATGATAAACAATGAATATACGCCTT +ACATAGCTACGATCTCAGGCGGTTGTCGGAAAGTGCCGGTTGATAGTGTCTTATTCGGCA +ATTGATATGACTTAAAAATTAATTCCGTAAGCATTTCAGACGGTAACAGCAAATAAGGGT +TTTATTGTGATAGCAAAATTCTTCCCGTGGTATAGCGAGATAACACGTCCACAAAAAAAT +GCTTTATTTTCAGCATGGCTGGGTTACGTTTTTGATGGCTTCGACTTTATGCTGATTTTC +TACATTATGTATCTGATCAAGGCTGACTTAGGATTGACAGATATGGAGGGCGCATTCCTT +GCCACAGCGGCCTTTATTGGGCGACCATTTGGCGGGGCGCTATTTGGTCTGCTGGCAGAC +AAATTTGGCCGTAAGCCGTTAATGATGTGGTCGATAGTTGCCTATTCTGTAGGTACAGGG +TTAAGTGGCCTGGCTTCCGGTGTAATTATGCTGACGCTTAGTCGTTTTATTGTCGGTATG +GGGATGGCGGGGAAGTATGCTTGCGCTTCTACTTATGCCGTGGAAAGTTGGCCAAAGCAT +TTAAAATCTAAAGCGAGCGCATTTCTGGTTTCAGGTTTCGGTATTGGTAACATCATAGCA +GCCTATTTTATGCCGTCATTTGCCGAAGCGTATGGTTGGCGTGCTGCTTTTTTTGTCGGT +TTGCTACCCGTTCTTTTAGTAATCTACATCCGGGCCAGGGCTCCTGAATCTAAAGAGTGG +GAAGAAGCCAAACTCAGTGGTCTCGGAAAGCATTCACAAAGTGCCTGGTCAGTTTTCTCT +TTGTCAATGAAAGGGCTATTTAATCGAGCTCAATTTCCACTGACATTATGTGTATTTATT +GTTCTGTTCTCTATTTTCGGCGCAAACTGGCCGATCTTTGGTCTACTGCCTACATATTTG +GCGGGAGAGGGCTTTGATACGGGCGTGGTCTCTAATTTAATGACGGCGGCGGCATTCGGC +ACTGTATTGGGAAATATCGTTTGGGGTCTGTGCGCAGATAGAATTGGTTTGAAGAAAACG +TTCAGCATTGGTCTTCTCATGTCCTTTTTATTCATTTTCCCGTTATTCAGAATTCCGCAA +GATAATTATTTACTGCTGGGCGCATGTTTATTCGGTTTAATGGCGACTAACGTAGGTGTT +GGCGGGCTGGTTCCCAAATTTCTCTACGACTACTTTCCTCTTGAGGTTCGTGGTTTGGGT +ACCGGGCTTATTTATAATCTTGCTGCGACATCAGGCACATTCAATTCAATGGCGGCGACC +TGGCTTGGAATAACAATGGGGCTAGGCGCTGCGCTAACGTTCATTGTTGCTTTCTGGACC +GCAACAATTCTACTCATTATTGGCCTATCCATTCCGGATAGACTAAAAGCACGTCGTGAA +AGGTTTCAGTCAACAAAAGAATTTTAATAGAGGATAAATGATGACGAAATACGGTGTTAT +AGGTACAGGTTATTTTGGCGCTGAACTGGCGCGATTTATGTCTAAGGTTGAAGGGGCGAA +AATCACTGCGATTTACGATCCGGTAAATGCGGCTCCGATAGCGAAAGAGCTGAACTGTGT +CGCCACTTCAACGATGGAGGCGCTTTGTACCCATCCTGATGTGGATTGCGTAATTATTGC +TTCACCAAATTACTTACATAAAGCGCCGGTCATTGCGGCGGCTAAAGCGGGTAAACACGT +GTTTTGTGAAAAACCTATCGCCTTAAATTACCAGGATTGTAAGGATATGGTTGATGCCTG +CAAAGAAGCTGGTGTTACCTTTATGGCGGGTCACGTTATGAACTTTTTTCACGGGGTTCG +CCACGCTAAAGCGCTCATCAAAGCCGGTGAAATCGGTGAAGTTACACAAGTTCACACTAA +ACGTAATGGTTTTGAAGACGTGCAGGATGAGATCTCATGGAAGAAGATTCGCGCAAAGTC +AGGTGGGCATCTGTACCATCACATTCACGAGCTAGATTGTACACTGTTCATCATGGATGA +AACCCCATCCCTGGTTTCAATGGCGGCGGGGAATGTTGCGCACAAAGGTGAAAAATTTGG +TGATGAAGATGATGTTGTCCTAATCACCCTTGAGTTTGAAAGCGGTCGTTTCGCGACACT +TCAGTGGGGATCATCGTTCCACTACCCTGAGCACTATGTATTAATTGAGGGCACGACAGG +TGCAATTCTCATTGATATGCAAAACACGGCTGGTTATCTAATAAAAGCGGGCAAAAAAAC +ACACTTTCTTGTGCATGAAAGCCAGGCGGAGGATGATGATCGTCGCAACGGTAACATATC +CAGCGAGATGGATGGCGCAATCGCTTATGGTAAACCCGGTAAACGTACGCCGATGTGGCT +CTCATCAATTATGAAACTGGAGATGCAGTACTTGCATGATGTGATAAACGGTCTGGAGCC +AGGCGAGGAGTTTGCTAAATTGCTAACGGGAGAAGCGGCGACAAATGCCATTGCTACCGC +TGATGCTGCGACGCTTTCTTCAAACGAGGGGCGCAAAGTTAAACTCACTGAAATTCTTGG +CTAAAATTTAAAGCCGGATGGTGGTGTTATTGGCCGGTGGCGCTGCGCTTATGTAGACTG +GATAAGGCGCCCGTGAACTGTGCCGCCATCCGGCAATGGACGGGGGCTTAATGCGAAAAA +AAGCCCGTACATTCGTACGAGCTCTTTCTTAAATATGGCGGTGAGGGGGGGATTGACTCG +CTGCGCTCGCCCTTCGGGCAGCCCGTTCGCTGCGCGCCCGGTCTGTCCAACTGGCTGCGC +CAGTTGTCGAACCCCGGTCGGTGGTTCTCATCCCCCCTTGGTTTGGGGGATACATATAAG +CAAAAAGCCTGTACTTCTGTACAGGCTCTCAACTTGAAGATGGCGGTGAGGGGGGGATTC +GAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGAC +ACCTCACCAAATTGTCGCTCCAGCATTACTGGAACGGGCGCTAATGTAGGGAAATATCCT +TTCTACGTCAATCAACTTTTTTAAAAAAAAGCGCTTTTATACAAACTTCCATCAATCTGT +GGCTTTAATAAGCGAAAACTGCTTTTTTTGCCCGCGCCGGGAAATTTGCTATGCTGCACA +TCCCGTTGAAAACGCTGATAACAGGCGCAATCACATTCCGCACAATACTGCTCAGGAGAT +AACATGGAGATAATTTTTTATCACCCGACATTTAACGCCGCCTGGTGGGTAAATGCGCTG +GAGAAGGCTCTCCCACATGCGCGCGTTCGTGAATGGAAGGTCGGTGATAACAACCCCGCA +GACTATGCGCTTGTATGGCAGCCCCCGGTTGAAATGCTGGCCGGAAGACGCTTAAAAGCC +GTCTTTGTGCTGGGCGCGGGGGTGGATGCAATTCTGAGTAAATTAAATGCGCATCCGGAA +ATGCTGGACGCCTCCATTCCTCTATTCCGTCTGGAAGATACCGGAATGGGCCTGCAAATG +CAGGAGTATGCCGCCAGCCAGGTATTACACTGGTTCCGTCGTTTCGATGATTATCAGGCG +CTGAAAAATCAGGCGCTATGGAAACCGTTGCCGGAATATACCCGCGAAGAGTTTAGCGTC +GGTATCATAGGCGCAGGGGTACTGGGCGCAAAAGTGGCAGAAAGTCTACAGGCGTGGGGG +TTCCCGTTACGTTGCTGGAGTCGTAGCCGCAAATCCTGGCCTGGCGTGGAAAGTTATGTA +GGGCGTGAAGAACTGCGCGCTTTCCTGAACCAGACGCGGGTGCTGATTAATCTGCTGCCG +AATACGGCCCAAACGGTAGGAATTATTAATAGCGAATTGTTGGATCAATTGCCGGATGGC +GCTTACGTGCTGAATCTCGCGCGCGGCGTTCATGTTCAGGAGGCGGATCTGCTGGCTGCG +CTTGATAGCGGTAAGCTAAAAGGCGCGATGTTGGATGTCTTTAGCCAGGAACCGTTACCG +CAGGAAAGTCCATTATGGCGCCATCCGCGAGTCGCCATGACGCCGCACATTGCGGCAGTC +ACCCGTCCGGCGGAAGCCATCGATTATATTAGCCGCACCATTACCCAGCTGGAGAAGGGA +GAGCCGGTGACGGGGCAGGTGGATCGGGCGAGAGGATATTGATATCAACCCGGCGCGGGC +CGGGTTTCGCTAAAAAACGCTGGCGATACCTGCTATCCTTGTCGGAAATGACTACAGGAG +AGAGCAATGTATCCCGTTGACCTGCATATGCATACCGTCGCCAGCACTCATGCCTACAGT +ACTCTGAGCGATTATATCGCGGAAGCCAAACGCAAAGGCATTAAACTTTTTGCGATTACC +GATCATGGTCCGGACATGGAAGATGCGCCGCATCACTGGCATTTTATTAACATGCGCATC +TGGCCGCGTCTGGTTGACGGCGTGGGGATACTGCGTGGCATTGAGGCGAATATCAAGAAT +ATTAACGGTGAAATTGATTGTTCCGGAAAGATGTTCGACTCGCTGGATCTGATTATCGCA +GGCTTTCATGAGCCCGTTTTTGCGCCGCATGATAAAGAAACCAATACTCAGGCGATGATC +GCGACCATCGCCAGCGGCAAGGTGCATATAATTAGTCACCCCGGAAATCCAAAGTATCCA +GTGGAGGTTAAAGCCATCGCGCAGGCGGCGGCGAAACACCATGTAGCGCTGGAAATCAAC +AACTCTTCTTTTCTGCATTCGCGTAAAGGAAGCGAAGATAATTGCCGCGCGGTCGCTGCC +GCCGTACGCGATGCGGGAGGCTGGGTAGCGTTAGGCTCTGATTCCCATACGGCCTTTACG +CTTGGCGATTTCACCGAATGCCGGAAAATTCTGGATGCGGTGAATTTTCCGGAAGATCGA +ATCCTGAACGTCTCTCCGCAGCGCTTACTGGCCTTTCTCGAATCACGCGGTATGGCGCCT +GTACCGGAATTTGCCGAACTTTAATCGTTATTTACGGGAAGATATCAATGAATGAGTTTT +CAATCCTGTGCCGTGTGCTGGGATCGTTGTTTTACCGCCAACCGCAAGATCCTTTACTGG +TTCCGCTGTTTACGTTAATCCGTGAAGGTAAACTGGCGGCAAACTGGCCGCTGGAGCAGG +ATGACATGCTGGCGCGTTTACAGAAAAGCTGCGATATCACGCAGATTTCCACTGATTACA +ATGCGTTATTTGTTGGGGAAGAGTGCGCGGTAGCGCCATACCGCAGTGCGTGGGTCGAAG +GCGCGGAAGAGTCTGAGGTGCGCGCTTTTTTAACGTCGCGAGGGATGCCGCTGGCCGATA +CGCCTGCCGATCACATTGGCACTTTATTGCTCGCGGCCTCCTGGCTGGAAGATCAGTCTG +CCGAAGATGAAAGTGAAGCGCTGGAAACCTTATTTGCCGATTATCTGCTTCCCTGGTGCA +ATACCTTCCTCGGTAAAGTTGAAGCCCATGCCGTTACGCCATTCTGGCGCACTCTGGCGC +CGCTAACGCGTGATGCGATAGGGGCCATGTGGGATGAACTTCAGGAAGAAGATGAAGAAT +AATGTGATGTAAATCACCATTAACTGCAACGGGTTTTGCATCATTGCATAAAATGTGTGC +GTGATCTCATTAATGTGCCGCTTTTCTGTTATGATGCGCGCCATGAACATACTTCTTTCT +ATTGCTATCACTACGGGCATCCTTTCTGGAATATGGGGATGGGTGGCCGTCTCCCTGGGG +TTACTAAGCTGGGCCGGTTTTTTAGGCTGTACGGCTTATTTCGCCTGTCCGCAGGGCGGC +TTTAAGGGATTGTTGATTTCCGCCTGTACGCTGTTAAGCGGTATGGTGTGGGCGCTGGTC +ATTATTCACGGTAGCGCGTTGGCGCCGCATCTGGAAATTGTCAGTTACGTGTTGACGGGG +ATCGTGGCATTCCTGATGTGTATCCAGGCAAAGCAGCTATTGCTTTCTTTTGTTCCGGGA +ACATTTATCGGCGCCTGCGCGACATTTGCAGGGCAGGGTGACTGGCGGTTGGTATTACCG +TCGCTGGCGCTGGGGCTAATCTTTGGCTATGCCATGAAAAATAGTGGGCTATGGCTGGCA +TCACGCCGCGAGCAACATTCAGCGAATACGGCGGTCACAAAATAAAAAAGCGTGGGGTTT +TCCCCACGCTTTGTCGTATTCATCAGGATTCTGGCGGTACTGACAGCTCACGGTATTTCA +CCAGAATATCATTTTGCCTGTCCGCTTTATTCTGCAAATCCCACAGTCCGCGATCGATAC +CATCATTAATGAGGAAGATAACGCCGGTTTCAATGGCTGACATCAGACACAGCATCACCG +GTTCGTTCGAGGTATAGCCGATTTCGCCTTCCAGTAAGCGCTGGTAATCAATAAAACGGA +ACACGCCTGCCTGTACTTCATAGGAAAGGATCGTTTTACTGGTGTTCACCGAAGAAAGGA +TCTCGCCCGTACTGACGTTAACCACGCGCAGGTTGACAGCAATCTGATCCAGCTGATACT +GCGTATCGGCGCCAATACCGAAATATCTTGCGCCGACCCCGCCGGATTTGACGTTACTTT +CATAACCAATAATAGAACCTTCCACCATAATATTTGCCGCCGTCAACGACTGAAGCGGGA +TACGGTTATTCATCGCCACGGTGCCGTTTTCCTGGGCTGCGCGAATAATTTTCCGTTCAT +TCAAAAGATTCTGTAAGCCTTGTCGTTCTAGTGGGATAAACCAGCGCGAATCTTTCAGCG +CGGTGACCAACATAGCGGTGGCGCTCTGCGGCACAGCCGTGGAAAAGTTACTTGCCGGGT +AAGGTTTAAATTGGCCCGTTTCATCCTGAATGTTATATACCGAAACAAAGATCTTACCGG +TGGGAGCAGGTAAGTGCGTCAAATCTTTGTAACTTTGTGCGCGGGGCATTAATGTCGGTT +TCGCAGCTTGTTTCGGCGGGGCAGTTAAGCATCCGCTCAACAATAAAACGGCAACCAAAA +TAAGTAAGCGCGGCATGATTTATATCCTTTAGTGACTGTAGCTTAAAAATCGGTTGACTG +AGTTTGTAAACCTGACACTTCGATGGTCGAGGTTCTTCCCGTTTTTCTGTCCGTGACGTT +GAGCTGGAGCTGTCCGTCGCGATTAGCGATATCGATAATAAAATCATTGGTCACCATACG +TCCTGGTTTTCCGGTATTAATATTGGTCAACAAGCCGCCCAGAATTTGCGATTGAATAGC +CTGCGTAAAGTTATCCAACGCTGAGGGGGTCTCGATACCAAAATCGTTATCATAAGCGGG +GTCTTTATATGAATTTTGCGCCTGGGCGCTATTCAATAAAAAGGAACCGTTATTGGGGTT +TCCACCAAAGTTAGGATTACGGAACTGGAACGTCATATTTCCAGCCCAGGTTAATGGCGA +AAAAAGCATGAGCAGCACTACTGCATGTTTAACACGCATGACAGCCTCCGGATAAAAATC +ATGTTTTAGAATTCATCACGCGCTAAATCACTCGTACTTAATAGCGTTTGATCTATTTGT +CGGCGATTTAATGCTTCCTCTGTTTGCGCTAATGCGAAGACGACGGTTTTCTCGAAGTCT +CTTTTCATTGGAAATAAAAAGGTCTGGAAAATAACGTCCTGATTTACCGTTATGGTGATC +CAGCTTCCCCAACGCGCACTGGGTCTTTCATTAATGGTCAGATTGCCGGTGTATTCGCTT +TCCCATTTGTCGCTGAATGCACGATAGAATTCATGTCCTATCGAAGAGACGGTATGGTCG +GTTAACAATCCGGGAACCTCGACTTCAACTTCATTGGCATGCAGGTTTCCGGTAGCGAAC +AGTAACTCTGCTGCTACAATCCAGGTCAGATAGCGTTTCATGGCCTTACCGCCTGAGATT +ATCGTTTGCTCATGAAACTGCCTGGGTGCGATTTTTGACAGCTATCTTTTTGAAAAGATT +ATAAAGATGTGTCTTAACCGTATTCTCGCTGATAAATAGCGACCTGGCGATTTCATTATT +AGAGGCACCAATACGTAACTTATTGAGGATCTCTTTTTCGCGATGAGTGAGTAATGCGGA +CTCGGTGCTGTTGTAGCGGTAATTTCCTGAGTGTGTAATCAGGTAACTGGCTAATTTTTG +TGAAAAATAGCATTCGCCCCGCAGAATACCCTGTAATCCGCTGACCACGTGTTCCTGGTC +TTCAGTGGCGTAAAACACGCCGTTAATATGAGGCCAGTTTTCAATTTCACGGTAGGGATA +ATCGTCAGGGGTATTTAACAATAATGTTTTTATATTATTGTTTTTGCGGCTTAAATTATC +CTGCCAATAGTGGATAAGCTTCTTATCCGCTTCCATCATATCCATTAAAACAATGCAACC +GGCTGAGATATCTTCCAGAGAACGTTGAATATTATGCAGTTTTCCGGTTATGGCCAGCGA +TTGCTTTAAATGTTGCAATAATGCCGTAGCTTGCAGAGATGGCTTTGTGATCAACAATAG +TGTGTGACCATGACTACTATGGACTTCATTAAACATGATGAAACTCCACTTTTTTTAATC +GCACATCTGACAGCTGCCCCCATAAAATAAAGGCACCAGAAGTACTGACAGATGTTGCAC +TGCTGTGGGTTGAAATAGCCCATTATCCAGAAAGAGAAAAATATTTACGAAAATACTTTT +AACTGTTTTCAATCTAGCCATTACAAATCTTAAAGCAAGTGTTAAACTTGTAACAAGATG +TAAAAATATATATTAAAATGTTGTTTTTGGGTTTTTTTGAAGTTTAGATTTGATAGTAAA +GTTGTACATTTCGCTGTTATTGCATAGATTTAAAAAATCATACAAATTATAATAATTCAT +TGATTTTTAATCATTTTAATTATTGTATGTCATGTTTTGATTTTATTTTTTCTTAAAATT +TGAGACGTGGCATTAACCTGGACAGCACAAAGACAAAAAAAAACGAAGTGTGTCACGTCT +TGTGCGTATTGCCCCCCATGGGAAGCATAAGAACATCCCCATGGCGGCATAACACACACC +AACACTTCATTTTTTAGGTGCGCGATACACTATCTTCTGTGGCCAAAAATCAATTATAAA +AAATCACATGGCTATCGTTTTATTAGCACTTTGGTATGAGCTTAAATAACAAAATACCAC +GCGTGGGTGAGTTATTAAAAATGTTTCCACGGACATACTCTTCATCGTAACGACGCGTTA +ACAAAAAACGCATGTCGCTAACAAGGTAATAGATAATTTTCGCTATGTACGACCAGGTCC +AGGGTGACAGCATGAAAAACAAATTGTTATTTATGATGTTGACAATACTGGGTGCGCCTG +GGATTGCAACCGCGACAAATTATGATCTGGCTCGTTCAGAGTATAATTTTGCGGTAAATG +AATTAAGCAAGTCTTCATTTAATCAGGCGGCCATTATTGGTCAAGTCGGCACGGATAATA +GTGCCAGAGTACGCCAGGAAGGATCAAAACTATTGTCCGTTATTTCACAAGAAGGAGAAA +ATAATCGGGCGAAAGTCGACCAGGCAGGGAATTATAACTTTGCGTATATTGAGCAAACGG +GCAATGCCAACGATGCCAGTATATCGCAAAGCGCTTACGGTAATAGTGCGGCTATTATCC +AGAAAGGTTCTGGAAATAAGGCCAATATTACCCAGTACGGTACGCAGAAAACAGCAGTTG +TAGTGCAGAAACAGTCGCATATGGCTATTCGCGTCACCCAACGCTAATACCGTTACGACT +TTTAAATCAATCCGATGGGGGTTTTACCATGAAACTTTTAAAAGTGGCAGCATTCGCAGC +AATCGTAGTTTCTGGCAGTGCTCTGGCTGGCGTCGTTCCACAATGGGGCGGCGGCGGTAA +TCATAACGGCGGCGGCAATAGTTCCGGGCCGGATTCCACGTTGAGCATTTATCAGTACGG +TTCCGCTAACGCTGCGCTTGCTCTGCAAAGCGATGCCCGTAAATCTGAAACGACCATTAC +CCAGAGCGGTTATGGTAACGGCGCCGATGTAGGCCAGGGTGCGGATAACAGTACTATTGA +ACTGACTCAGAATGGTTTCAGAAACAATGCCACCATCGACCAGTGGAACGCTAAAAACTC +CGATATTACTGTCGGTCAATACGGCGGTAATAACGCCGCGCTGGTTAATCAGACCGCATC +TGATTCCAGCGTAATGGTGCGTCAGGTTGGTTTTGGCAACAACGCCACGGCTAACCAGTA +TTAATTTAGCGTCTGCGCTAATAAAAAAACAGGGCGTAAGCCCTGTTTTTTTTCGGGAGG +AAATTATGCATACTTTATTGCTCCTTGCCGCACTTTCAAATCAGATTACGTTTACCACGA +CTCAGCAAGGCGATATTTACACGGTGATCCCTCAGGTCACATTAAACGAACCCTGCGTCT +GTCTGGTGCAAATTCTCTCTGTGCGCGACGGCGTCGGGGGACAAAGCCATACACAGCAAA +AACAAACGCTATCTTTACCTGCTAATCAACCGATTGAGTTGTCTCGTCTTAGTGTAAATA +TATCTTCAGAGGACTCGGTTAAAATTATTGTTACTGTTTCGGACGGACAATCACTGCATT +TATCACAACAATGGCCGCCTTCTGCACAGTAGTTTTTGATGGTGGCGGAAATGGATTGGC +TGACCTGGGTATTAAAGAGGCGATAAAAGCGTCTCATCGTCTCGGCATGTCGCTAAAAGG +TAACGCCGAACCCTCGAGGATGACTAATCATTGAGGAGTTAACATGTCCGTAATCAAGAA +AAATATCCCTGCCATAGGCCTGTGTATCTGCGCTTTTTTTATCCATTCTGCGGTAGGGCA +ACAAACGGTACAGGGCGGCGTTATCCATTTTCGCGGCGCGATTGTTGAGCCACTGTGCGA +TATTTCTACTCACGCCGAAAATATTGATTTAACCTGCCTACGCGAAGGTAAAAAGCAAAT +GCACCGGATAGACCTTCGGCAGGCATCTGGATTACCGCAGGATATTCAGTCCATTGCGAC +GGTACGGCTGCATTATCTCGATGCGCAAAAAAGCCTGGCGGTGATGAATATTGAGTACCG +TTAACGGCGGTGTCATAGATATAAAAAGAGCGACTCTGTTGAAAGCCCTGCTGTACACTT +TGCAGATAAGGTGAGACAAAAGGGGGGGGTTATGACATCACGTCTTCAGGTCATACAGGG +TGATATCACTCAACTTAGCGTCGATGCGATTGTGAATGCCGCTAACGCATCATTAATGGG +CGGCGGTGGCGTAGACGGCGCAATTCATCGCGCGGCGGGGCCGGCATTGCTGGACGCCTG +TAAACTCATCCGTCAGCAACAGGGCGAATGTCAGACGGGACATGCGGTTATCACGCCTGC +TGGCAAGCTTTCGGCAAAGGCGGTTATTCACACAGTGGGGCCCGTCTGGCGAGGCGGCGA +ACACCAGGAAGCTGAGCTACTCGAAGAGGCATACCGGAATTGTTTGCTGCTTGCCGAGGC +GAATCACTTTCGTTCCATCGCTTTTCCGGCAATCAGTACCGGCGTTTATGGCTATCCACG +CGCCCAGGCCGCTGAAGTCGCCGTCAGGACGGTTTCAGATTTTATTACCCGTTACGCTCT +GCCTGAACAGGTATACTTTGTCTGTTATGATGAAGAAACTGCCCGGCTTTACGCAAGATT +ACTTACTCAGCAAGGCGACGACCCTGCCTGATAAAACACGCCTGGAGCGTGCCGTTGAAC +CGCTATGCGCGCGCCATCCCGGAGAGTGCGGCATTCTTGCGCTGGATAACAGTCTGGACG +CTTTTGCCGCCCGCTACCGCCTGACCGAAATGGCGGCGCGGACGCTGGATGTGCAGTATT +ATATTTGGGAAGACGATATGTCCGGGCGGCTGCTCTTTTCGGTTCTGCTGTCGGCGGCGA +AGCGCGGCGTTCATGTTCGTCTGCTGCTGGATGATAACAATACGCCTGGTCTGGATGATA +CGTTGCGCTTGCTGGATAGCCATCCTAATATCGAAGTTCGTCTGTTTAATCCTTTCTCTT +TTCGTACGCTACGCGCGCTGGGATATTTGACGGATTTTGCGCGGCTGAATCGGCGGATGC +ACAATAAAAGTTACACTGCCGACGGCGTAGTGACGCTGGTCGGTGGGCGCAACATCGGCG +ATGCCTATTTCGGCGCTGGCGAGGAGCCGCTATTTTCCGATCTGGACGTGATGGCCATTG +GCCCGGTGGTCAATGATGTCGCCAATGATTTTGAACGTTACTGGCGCTGTAGTTCAGTGT +CGACATTGCAGCAAGTATTATCCCTTTCTGAGCAGGAACTGACGCAGCGTATCGAACTTC +CCGAATCCTGGTATAACGATGAGATCACCCGCCGTTATCTGCATAAGCTGGAAACCAGCC +AGTTTATGGCGGATCTCGATCGCGGAACGTTGCCGCTGATTTGGGCAAAAACACGCTTGC +TTAGCGATGACCCTTCTAAAGGCGAGGGGAAGGCGCAGCGCCATTCGCTTCTTCCGCAGC +GATTATTTGACGTGATGGGGTCGCCGACGGAGCGTATCGACATTATTTCCGCTTACTTTG +TCCCTACGCGCGCAGGCGTGGCGCAGTTGCTTAATCTGGTCAGGAAAGGTGTGAAGATCG +CCATCTTAACTAACTCTCTGGCGGCCAACGATGTGGCGGTCGTTCACGCAGGGTACGCGC +GCTGGCGCAAGAAATTACTGCGCTATGGCGTGGAGCTCTACGAACTGAAACCGACCCGCG +AACATGAAACCGCCGTACATGATCGCGGACTCACCGGGAACTCAGGTTCCAGCTTACATG +CTAAAACGTTCAGTATTGATGGTAGTAAGGTGTTTATCGGGTCGCTTAATTTTGATCCCC +GTTCAACGCTTTTAAATACCGAAATGGGCTTTGTCATTGAAAGTGAAACGCTGGCGACGC +TTATTCATAAGCGTTTTACGCAGAGCCAACGCGATGCGGCCTGGCAACTGCGGCTGGATC +GCTGGGGACGAATTAACTGGATCGATCGTCAGCAAGAAGAGGAAAAGGTGTTAAAGAAAG +AACCCGCTACGCGTTTCTGGCAGCGAGTTCTGGTACGGTTGGCGGCAATTTTACCTGTGG +AATGGTTGCTGTGAACCCGCGCGCGGAAAACTACCCGATCGCGGCGCGGCTTTCTTGTTT +TACCGGCGGTTTACCTGAAAAGAGAAATTTCAGGAGCGGGATGCGTAAATGAATTTCATA +CAGAATTAACGCAATACCCATAACAAATATCAGCCCGCACAAGAACCCGATCAGGTTGGA +GGAGATATGCGGTGTAATATACGCGCCAAAGAAAAGCGTTAAGGGATGATGCACCAGATA +AATAAACAGCGAAGCATTCACGAAATAGGTGACACGCGCGGACTGAAAGTTTAACAAGCG +ATGCCCCAGTGAAAATACCACGTTCACCATCCATAGCCCCATTACCATCGTAATCACGGA +TTCGGTTTCGTACATCCAGGCGTCGCCGCTCCCATAACGTTGATTCAGCAGATACGCGAT +AAAAGCAACGGCAGCGCCTAAAGTGCATCCGCGTGAGGGCGTGGTGAAGCGCGCTTTCAG +ATCGGGGTGAATGAAGGCCAACGCGCCGAGAATAAAAAACGGCACATAAAATAGCGTTTG +CATCACAATAAAATTGAACATGCCGTCACTGAGGATTGCCGGATATACGATGAATATAAT +GCGCCTGATAGCAGCGTACGCCACCCCCAGCAGGAAAAAAATAAGCGAAAGTTTGGCCAG +CGAAATAGCGGCGGGACGAGGCTTGCTTGTTTCCTGCCTTTTTTGGAACCAGGTAAAAAT +CCCGATGCTGACGGTGGTTAATATCACCAGCACCAGTAAAAACCACAGATGTGAAATGAG +TTCCCACGCTAACGTATTATATTTTTCATAGGCAGAGAGTGTAGGCCAGTTCTCTGTTTT +CTCTTTGACATATTGCAACAGGATAAATTGCGGCAAGGTAAGCAAAGGGATTGCGGTAAG +CATGGGAATACCCACACGTTCTACCCGTACTTTCCACCAGTGTTTTAATGGATAACGTAA +AAATAACATGTACGAAAAATAACCAGAAATAACAAAAAACACCTGCATACGAAAAGCGTG +GATAAAATCGTTAAACAGGGTTAGCCACCACGATGGCGCGGCGCTATTGACATGCCAACT +GTGAGTGGAATAGATCAACGAGATATGAAAGGGAATCCCTAACAACATCAGCCATGCGCG +GATAGAGTCAAGAAAATATTCACGCGGCGCGGGTACAGAGCTCATATAAGGTCACGTATT +CTCAGATTTTTCACCTTATCCATAAGGCGAATTATAGTTACATTCGGTAGCAACCCTACA +CCAACTCCGACAACCTGTCTCCAGGATAAGCACGCAAAGTGAAAACAGGCGCGGGAGGTG +CTTAATCCATGAGCCAGCGCGCTGAACAAAGCCTGGATTCAGTTGTCGTAATGCCTGATT +ATCCATTAAAATGGATCGGATCGATATAAGCACACAAAGGGGGAAGTGCTTACTTATTAT +GAAACATAAACGACAAATGATGAAAATGCGTTGGTTGGGCGCAGCTATTATGTTAACGCT +CTACGCATCATCGAGCTGGGCGTTCAGTATTGATGACGTGGCAAAACAAGCTCAATCTTT +AGCCGGGAAAGGCTATGAGGCGCCTAAAAGCAACTTGCCCTCCGTTTTCCGCGACATGAA +ATATGCGGATTATCAGCAGATCCAGTTTAACAGCGATAAAGCCTACTGGAACAACTTAAA +GACCCCTTTTAAGCTCGAATTTTACCATCAGGGGATGTACTTCGATACGCCGGTCAAGAT +TAACGAAGTGACGGCGACGACGGTCAAAAGAATCAAATACAGCCCGGATTACTTCAATTT +TGGCAATGTTCAGCACGATAAAGACACGGTAAAAGATTTAGGCTTCGCCGGGTTCAAAGT +CCTGTACCCCATTAACAGTAAAGATAAGAACGACGAAATCGTCAGTATGCTTGGCGCCAG +CTATTTCCGCGTTATCGGCGCAGGCCAGGTGTATGGCTTATCTGCGCGCGGCCTGGCGAT +TGATACCGCCTTACCATCTGGTGAAGAGTTTCCCCGCTTTCGCGAGTTCTGGATTGAGCG +TCCAAAACCCACCGATAAGCGTTTGACCGTCTATGCATTACTGGATTCTCCGCGCGCGAC +CGGCGCTTACCGTTTTGTGATCATTCCTGGCCGCGATACCGTGGTGGACGTGCAGTCAAA +AGTCTATCTGCGCGATAAGGTGGGCAAGCTGGGCGTTGCGCCATTAACCAGTATGTTCCT +GTTTGGGCCAAACCAGCCGTCGCCGACGACCAACTATCGTCCGGAATTGCATGACTCGAA +CGGCTTATCCATTCATGCGGGTAATGGCGAGTGGATTTGGCGTCCGCTGAACAATCCAAA +ACACCTCGCTGTGAGCAGCTATGCGATGGAAAACCCTCAGGGATTCGGCCTGTTGCAGCG +TGGTCGCGAGTTCTCGCGCTTTGAAGATTTAGACGATCGCTATGACCTGCGTCCAAGCGC +CTGGATTACCCCGAAAGGCGACTGGGGCAAAGGTAAGGTTGAACTGGTTGAAATTCCGAC +CAATGATGAAACCAACGATAACATCGTCGCTTACTGGACTCCGGATCAACTGCCGGAACC +GGGTAAAGAGATGAACTTCAAGTACACTCTGACCTTCAGCCGCGATGAAGATAAACTTCA +TGCGCCGGATAATGCCTGGGTGCTGCAAACACGCCGCTCAACGGGCGACGTTAAACAGTC +GAATCTGATTCGCCAGCCCGACGGCACTATTGCCTTTGTGGTGGATTTCGTTGGCGCCGA +CATGAAAAAACTGCCGCCGGATACGCCCGTCGCTGCACAAACCAGCATTGGCGATAACGG +TGAAATCGTTGACAGTAATGTACGCTATAACCCAGTCACTAAAGGCTGGCGTTTAATGCT +GCGCGTGAAAGTCAAAGACGCGAAGAAAACCACGGAAATGCGTGCCGCATTGGTGAATGC +CGATCAGACGCTAAGTGAAACCTGGAGCTACCAGTTACCTGCCAATGAATAAAACAACTG +AGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCATTGCCGAAAACTGACA +TCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTACTCGCGAGAAGACGATT +CACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCGGATTCATTGGCGAAGG +GGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCTATGCCAAAAGCGACGC +GCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGCCGTTTCTGGGATCGCC +TGCGTGGGCGGGATGTAACGCCGCGCTATGTTTCTCGTCTGACAAAAGAAGAGCAGGCGA +GTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATTTTGTTAATTTTGACTC +TGGCGCAAACCGTCGTCGCGACCTGGTATATGAAGACCATTCTGCCCTATCAGGGATGGG +CGCTCATCAATCCTATGGATATGGTGGGGCAGGATATTTGGGTCTCCTTTATGCAGCTCC +TGCCCTACATGCTGCAAACCGGTATCCTGATTTTGTTTGCCGTGCTGTTCTGCTGGGTGT +CTGCCGGATTCTGGACGGCGCTGATGGGCTTCCTGCAACTGCTTATCGGGCGCGATAAGT +ACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCGGAACACCAGACGGCGC +TGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCCGGTCTGCGCGCGACCT +GGGAGTCCGTTAAAGCCACAGGCAACGCCGCGCATTTTGACGTCTATATCCTTAGCGATA +GTTATAACCCGGATATCTGCGTGGCGGAGCAAAAGGCGTGGATGGAGCTCATCGCGGAAG +TGCAGGGCGAAGGCCAAATTTTTTACCGTCGCCGCCGCCGCCGTATGAAACGCAAAAGCG +GCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGCTATATGGTGGTGCTGG +ACGCGGACTCAGTGATGAGCGGCGAGTGTCTGAGCGGGCTGGTGCGCCTGATGGAAGCGA +ACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGGATGGATACTCTGTATG +CCCGCTGCCAACAGTTCGCGACCCGTGTTTATGGACCGCTGTTTACCGCCGGGCTGCACT +TCTGGCAGTTGGGGGAGTCGCACTACTGGGGGCACAATGCCATTATCCGCGTGAAGCCGT +TTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCGTTCGCCGGATCGATTC +TTTCCCACGACTTTGTGGAGGCGGCGCTAATGCGTCGGGCAGGGTGGGGCGTCTGGATTG +CCTACGATCTCCCCGGCTCCTATGAAGAGCTGCCGCCAAACCTGCTGGATGAGCTTAAAC +GCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTGTTCCTGGTGAAAGGAA +TGCACCCGGTGCATCGCGCCGTGTTCCTGACCGGGGTAATGTCATACCTGTCCGCGCCGT +TATGGTTTATGTTCCTCGCGCTTTCTACCGCGCTGCAGGTCGTTCATGCGTTAACAGAGC +CGCAATATTTCCTTCAGCCGCGCCAGCTTTTTCCGGTCTGGCCGCAGTGGCGTCCGGAAC +TGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTGCCGAAGCTGCTCAGTA +TTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTCTGGCGCGTTACGCTGT +CGCTATTGCTGGAAGTGCTGTTCTCCGTGTTGCTGGCGCCGGTGCGTATGCTGTTTCATA +CCGTGTTTGTGGTCAGCGCGTTCCTCGGCTGGGAAGTGGTCTGGAACTCACCGCAACGCG +ACGATGATTCTACGCCGTGGGGAGAAGCCTTTATGCGTCACGGCTCTCAACTGCTGCTGG +GGCTGGTCTGGGCGGTGGGTATGGCGTGGCTGGATTTACGCTTTCTGTTCTGGCTGGCGC +CGATTGTCTTTTCGCTGATTCTGTCGCCATTTGTTTCGGTGATCTCCAGTCGTTCAACGG +TAGGATTACGCACCAAACGCTGGAAGCTGTTCCTGATCCCGGAAGAGTATTCGCCGCCTC +AGGTGTTGGTCGATACCGATAAATATCTGGAGATGAATCGCCGCCGTATTCTGGACGATG +GCTTTATGCATGCGGTATTTAACCCGTCGCTTAATGCGCTGGCGACCGCGATGGCCACCG +CGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGTCATGTGGAGCAGGCGC +TAAACGAAACGCCGGAGAAACTGAACCGCGATCGGCGTCTGGTTTTGCTCAGCGATCCGG +TGACGATGGCGCGTTTACACTATCGGGTCTGGAATGCGCCAGAGAGATACTCTTCCTGGG +TAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAGGGACGAACATCGTCAG +CGGGATAAGGTCTTCAGGTCTGGAGTGAGGTGAAAAATACCGGCGTGATGCCGGTATTTT +TATAGTGAAATGAGGTATCAGGTGCGTATATTCGCGGTGAGCATAATGGTGATTACCCTG +AGCGGCTGCGGCAGTATTATCAGCAGAACGATCCCCGGACAAGGACACGGCAACCAGTAT +TACCCTGGCGTGCAGTGGGATATGCGTGATTCCGCATGGCGCTATATCACTATCCTCGAT +CTGCCCTTCTCACTGATCTTCGATACACTGCTACTGCCGCTCGATATTCACCACGGGCCT +TATGAGTAATTAACGCTCATCCCATTCGTCTGCCGCAGTACGGCCTTCCTCGGTATCAAG +CGGGGGTTCAAGCTGGAATTCCCCTTCATCCCATTCATGCAAAGTATTCTCTTCCTGCCA +TTCCTGGCGGATCTCTATCTCATCATAATCGCCGTCAAACACGCTCTGTGCGGCTTCACC +ACTCAGCATCGGCAGACATTCGCCATCTTCACCTTCATCGGCGAAAAATTCGACCTGCCA +CATGATGTCCCCATCCTGCAGTACATATTTCTGAACGTTGAACTGCTGCACATTCGCTTC +GTCTTGTTCGAGGCCTGGATGGTCAGCCAGAAATTCTTCCCGGGCTGCATCGATAGCTTC +TTCCAGCGTGGCATACATGGTCATCAGTGTCTCCCTTTGATTTGACGAGGTATTTAGGGA +AAGAATAGCTGATTCTGTGATATTGCAAGTATGAAAGCGCAAAAATCATTCTATTGCCAG +TCTGCGCCGTCGTAAGCTGTTCCATGAATAGATAGCATTGAACAACACCACGCCTGCCGT +GACGCAGAATACGGCGCGGAAGCCATAGCTCGCGGAAATTGCGGCACCCATGAGAGGGCC +GGTGACGTTGCCGATATCGCGGAAAGATTGGTTGTAACTGAATATGCGCCCGGCTATCTG +GTTGGTAGAGTTGTAAACCAGCAGAGTTTGAACGGCTGGCAGCAGCGCGCCATCCGCCGC +GCCAAGCAGAAACCGCAATAGCGCGAGCTGCCACGGCGTTTGCACAAAAGACATTGGAAT +CAGCAGCAGTACGGAAATAATCAGCGCGACGATAAGGATCTTTTCCGGGCCAATTCTGTC +GCCGAGCTTGCCGAGCCGGGGGGCGCTAAGTAATGCCGCCACGCCGGGAACGGACGCTAT +CATCCCGCTAATGAACGCAATATTACTGACATTTCCCGCGAGTTCGCGCACATAGAGCGT +CAGGATGGGCGCAATAGACCCCGTCGCCACCTGAATAATCAGCGTGGTGACAAACAGGCT +TAACACCAGGCGGGGATTTTTTAACGAGGCGACCACTTCCCGAACGTGAAGCATCTCTTT +TTTGCTCACCGGCAGGAAATTCTCGCGAATAAAAAAGAAGGTGAGCAGAAAACAGATAAA +CAAAACGCTGGCGGTAATAAAAAAGACCGGGCGAAGGCCGTAATGGTCGGCGAGCAGACC +GCCCGCAAGTGGGCCAAGCAGAGCGCCGCTGACGCCGCCAGTAGAGAGCGTCCCTAACGC +CCAGCCGCTTTTGTGGCGCGGCACCTGAGTGGCGATGAGCGCATTGGCGTTGGGAATAAA +TCCGCCCAGCAGGCCTAATAACGCGCGGAGGATCAGAAATTGCCAGATATTTTGCGCCAT +GCCCATTAACAGCATCACAATGGCCATGCCGAGAGCGGAACGCAACAGTATGATCTTACG +CCCTTTACGATCCGCCAGACCGCCCCAAAAAGGGGAAGCGATAGCTGAAAAGAGGAACGT +AATACTAAAGACCAGCCCGGACCACATGTTGAGCGCGCTATGGCCTGTTACGCCGAGTTG +CTCAACGTAGAGAGGGAGAAAAGGCATGACCAGACTGAATGCCGCGCCGGTTAAAAAACA +GCCCAGCCAGGTAACGGTTAGATTGCGTTTCCAGTTTATGGGGACATCAGAGGGTGACAT +AGTGTTCCACAGTATGATGCGCGTTTTGCGCTATCATCAATTTAATTATGAGCGTACTAA +TTATAATTATGCGCCGACCTTACCAGCCTCGCAATGTGGGGAGCTTTTAAAGCTAAAAGA +GGGGAAAAATTGCAGCCTGACGGCTGCAATCCTGTCAATAGCGCGACGGTACGCCTTCAG +GGCGAGTTTTAAAGCGGCGATGCAGCCACATATACTGCTCTGGCGCCATCATAATGCACT +GCTCAACAATCTTATTCATCCATGCGGCAGTCGCTTCTGCGCTCTCCAGCGGAGGCGAAT +ATTCCGCAGGAAGGATGATCAGTTCGTAGCCTTTCCCGTCGGGTTTACGGCGAGGCACGG +AGGGGATAATACAGGCTTTAGACATGCGCGCGAGCATCCAGGTACCGGAGGTCGTAGCGG +CCTGGTCGACGGCGAATAACGGTACAAAGACGCTGGCGCGCGGGCCATAATCGTGATCCG +GCGCATACCAGATCAATTCGCCGCTTTTCAATGCCTTAACCATACCTTTCAGATCTTTGC +GATCCAACATCGATTTATTGGAGCGTAAGCGCCCCCAGGTCTGTAACCAGTCGAGCAACG +GATTATCATTCGGGCGATAAACGCCGATACCCGGGTTATGCATACCAAACATGCGGGCGC +CAAACTCAAGGGTAAGGAAATGTATTCCTACCAGAATGAACCCCAGCCCCTGCGCCTTAA +CTTCACGGATATGCTCCAGACCGCTCGCTTCCATCCAGCGGTTCACTCGCCGATCGGGCC +AGAACCAGGCCATGCCGGTTTCCATCACGCCCATACCGACGGATTCAAAGTTTTTGACCA +CCATGGTGTGGCGTTCCTGCGCGCTCATTTCCGGAAAGCATAATTCAAGGTTGCGATAGG +CGATTTTCGCGCGGCGTTTCATTACGCGTCGCGCCAGGTGGCCCAATGCGCAACCCAATT +TATAGATGACCGGGTAGGGGAGTTGCACGACCAACCAAAGCGCGCCTATACCCAACCAGG +TTAACCAATAGCGCGGGTGCAGTAAGGCCACGGAGAACTTAGGCAACTTCGTCATTTCTA +TCCTGTCTTTCAACGAACAATTCTCCGTATTCTCGCATCTTTTTGCGTTGAGCAAAAATA +TGTAGCAGGAGAGTGGCGATTAAATCGACAATTGTTGTTAATTATTTAGCGTAAAGCAGG +AAATGTAGCGCAAAATGTGTGGATGTAAATTGGCGAGACTTGCCTTATCATGCCTGCCCA +CTTTATTTTTTGCTGATTGCAGGATACGTACACCATGCCAGTGTTACACAACCGCATCTC +TAATGACGAGCTGAAAGCCAAAATGCTGGCGGAAAGCGAGCCGCGTACGACAATTTCTTT +TTATAAATATTTCACTATCGCCTCGCCGCAACAGACGCGGGACGCGTTGTATCAGGTGTT +TACGGCGTTGGACGTTTTTGGTCGCGTTTACCTGGCGCATGAGGGCATCAATGCGCAAAT +CAGCGTGCCGCAAAGCAAGGTTGAGACCTTTCGTCAACAGCTTTATACGTTCGACCCCGC +GCTGGACGGGGTGCGTTTAAATATCGCGCTGGAGGATGACGGAAAGTCATTTTGGGTGCT +GCGTATGAAAGTTCGCGACCGTATCGTCGCTGACGGTATTGACGATCCGAGTTTTGACGC +CAGTAATGTCGGCGATTATCTGAAGGCGGCAGATGTGAATGCGATGCTGGACGATCCTGA +CGCGGTCTTTATTGATATGCGCAACCACTATGAGTATGAAGTCGGCCATTTCGAAAATGC +TCTGGAAATCCCGGCGGATACGTTTCGTGAACAGTTGCCAAAAGCGGTTGAAATGCTGCG +GGAACATGCAGATAAAAAGATAGTGATGTACTGTACCGGCGGTATTCGTTGTGAGAAAGC +CAGCGCCTGGATGAAACACAACGGTTTCAATAAAGTCTGGCATATTGAGGGTGGCATCAT +TGAGTACGCCCGTCGCGCGCGCGAGCAGGGGCTTCCCGTTCGCTTTATCGGCAAAAACTT +TGTATTTGATGAGCGAATGGGCGAGCGCATCTCGGATGAGGTTATCGCGCATTGCCATCA +GTGCGGCGTGTCCTGCGATAGCCATACCAACTGCAAAAACGACGGTTGCCATCTGCTGTT +TATCCAGTGTCCGCAGTGCGCCAGTAAATTTAACGGCTGCTGTAGTGAACAATGCTGTGA +AGAGTTGGCCTTGCCGGAGGAAGAACAGCGCCGACGTCGCGCGGGTCGTGAGAACGGCAA +CAAAATTTTTAATAAATCGCGGGGTCGGCTTAATAGCAAACTGAGCATTCCCGATCCGGC +TGAGTAATATTTTGCCGGATAGCGGCGTAAAGGCTGCTATCCGGCATTTCGCCAGGCGTT +ACTTCTGCTGAACGCCTTCTACTGAGATGATAAGCTCCACCTCTTGTGAGGCTGGGCCGA +GATCGGTAGTTATATTGAAATCTTTCAGCTTAATTTTTCCTTCGGCCTCAAAGCCCGCGC +GCTTACCGCCCCACGGATCGTCGCCCTGGCCCATCAGCTTCGCTTCCAGCGTCACCGGTT +TAGTCACGCCATTGAGCGTCAGATTGCCGGTAATATCCAGTTCATCGCCCTCTTTTTTCA +CGCTGGTAGAGGTGAAGGTTGCCTGCGGGAATTTCGCAACATTAAGAAACTCCGCGCTAC +GCAGGTGTTTGTCACGTTCGGCATGGTTAGTGTCGACGCTATTGGTGTTAATGGTCACAT +TCACTTTGTCTGCTGACGGATTTTTTTCGTCAAAAGTGAACGTGCCGTCGAAATCTTTAA +AGGTGCCGTATAGCCAGCTGTAGCCCAGATGCTGGATGCGGAAATTGACGAACGCATGTT +GGCCTTCTTTATCAATTTTATACTCCGCCGCCACGGCGGAACCGGTCGTGAATAACAAGG +ATGCGAGGGTGAATCCCAGCAGGTTTTTTTTCATTTTTGAGCTCCATAGTCAGATGACGA +CATTCCTGTCATACGTTTCAGTGTGTCGTCTTTATCGATGAAATGGTGTTTTAGCGCCAT +AACCCCATGCGAGAGCGAGATAATGACCAGCGACCAGGCAAACCACAGATGCAGTGTTCC +GGCGATGTCAGCCTGCGCGCCCGCGTCCGTAAGCGTGGCCGGAATCTCAAACCAGCCAAA +GACGCTAATCGGTTTACCGTCGGCGGTGGAAATCAGGTAGCCGCTAATGATTATCGCAAA +GAGCAGGAGATACAGAAGGATATGACCCGCGGCGGCGCCAATGCGCGTTAAACGGGAATA +GCTGGTCAACGCAACGGGCGGCGGAGAATAAAGCCGCCAGATAATACGCACGATCAGCGC +CATCATCAGTAACATGCCAATACTTTTATGTATTTCCGGCGCCTAGTGATACCAGCCGTC +GTAATAACTGAGCGTGACCATCCATAAACCCAACGCAAACATGCCATAGACCACTAGGGC +GGTCAGCCAGTGGAGGGCGGCGGAAACTACGCCATAACGTTGTGGAGTATTTTTAAATTG +CATAAACACACCAATGAATATTTCACGAGAGAATGAAAATGGCGTGGAAAAGCGCCGAAT +GCAACTTATAAATAAGAATTTGAATGATATTTATTTTTATTTCAATAATTTTGATGTTGT +TTGCGATTCAGCTTCAGAAGTTTCGAGATATTTCACTCCTGTAACCGCACAACGGCAGGA +GTTGGCATTATTGCCGTGCTTCAACATTATGAAATAAAAAGTGAGGAACTTTCAGGAAGT +GTTAGTTAACGTCAATGAAAAGCAATCAGAAGAAAAGGAGATAAACAATATCCATCACCG +CCAGCAGCGACCAAAGAATAACGTAAAGCATGAAATGTTCGCGAATATTATTCATCAGAA +AATGAAAGAGACGACGCATAGCTTACCTTAATAAACAGCCCCTTTACGGGGCCGACAAAT +TATTGGCTAAAACGGGAAAGCCGGAACGGCGTCAGATCAAAGGAGGGCGTTTTTCCCAAC +GCAAAATCCGCAGCGATTTCTCCTAACACCGGGGCGAATTTAAAACCATGTCCGCTGAGT +CCAGTGATGACAAGCGTATTCTCATGGCCAGGCAGCGTATCGATAATAAAATCCTCGTCC +GGCGAATTATCATAGGTACATGCCGCCCCATGTAAACAACCGCCGATACCCGGCAGTACG +TTACGCAGGAAAGGAAATGCTTCCGCGCCATCGCTGGCAACGGCGGCAAAGGGCTTGCGC +TCTTCCGGTGCCTGTATTCGCTGCCCGCCATTGTGTTTGCCGATTTTTAACTCGTCGTTC +TCCGCCGGGAAACCGTAATAGTGATCGCCGTTGGGCATTTCGCCGGTAAAGGCCGGAAAG +CGGTTTTTAGTGCTGTAACGTCCATCCGCCTTAAACCAGGCAAAAACTTTACGTACGGGC +TGAACGGGCAGCTCCGGTACCAGCGTTTTGACCCAGGTGCCCGCGCTAATCAGCGCTTTG +CTGGCGTGGTAGCAGCCTTCACTCGTCTCTATCGTCACACCGTTATCATCATGGTGAATA +TGGCTTACCGGGCTGTTGAATAGCTGTGCGCAGCCTGCCTCTCGGGCCAGACGAAGCCAT +GTGGTAATGGCTAATTCGCTGCGCAGGAAACCGGAGTCAGCTTCAAACAGCCCGATATAA +TTATCGGGCACGCGAATTTCCGGCCAGCGCGTCATGAGGGCCGTCGCGTCCAGGCGCTCG +ACGTTCAATTGCCACTGTTGCGCGCTTCGTGCGACGTTGGCTAAGAAAGCGGAATCGGCC +GGGCCGAGGTTGACGACGCCGGAGCGGACAAAAATAGGCTCTTCATTGTGTGTGGAGAGC +TCATCCCAAAGCGTCTGGGCGCGAAGCACCAGCGGGACATATTTTTCGCCTTCACCATAA +GCGTGGCGGATAAGACGGGTATCGCCGTGGTGGCTGCCCTGTTGATAAGGCGGCATATGC +GCATCGGTCATCAGGACCTTTAGCCCGGCGCGGGTGGCGTAATAACCAGCGGCGGCGCCA +ACCGAACCGCTGCCGATAATAATAAGGTCGTATTTCATCAGCTTCTCTCTGCTATCGCGA +TGATTTCAAGGTAAATAACTGCGCTGAGATATACAAGCCAGAAATAAGTGAGGCACCTTA +CGGTGCCTGAGAGAGGGGGAGCGCGTCACGCTAATGGTGACGATACTCGTTTTCCTGGTA +ATCGCCTGATTCTATTTTGGCGATGCCGGCTTCTAATATTGAAATAAATTGCCTGGCTAC +ATCTGTCGTTAACCAGAGCGTTTGACCAACTTCAGTCCCTTCCGGTTCCGGACGATTTGG +GGTCTGGTAGTGTAAACGCAGCATCAGCGCATCATAGCTATCGACGGTGCTGATGTCCCA +TCCTACAAGCGGATGGGTCTGAATGACTTCATTATTCTTTTCCATCATGCCCCCCTGGTA +CGTGTTATAAGACAACGGTTCTCGAGGTTCAATGCGTGTTTTTCTTCTGAAGCAACTTCA +GTATACCAATTAATAAGGCTATTCACTGCGTTTTTAAAGAGACCGGAGGATAAATTTCTC +TTTTTAAGAATTATATGAACAATAAAGCGGCAGTTCATTCATATTTTTTTAGGATGTTGT +GCAATTATTTTGACGGTCAGGCGAAATATTCATCAGTTGCGCAAATAAAAAAGCCGGGGC +GACCCGGCAAACATACATCACTGCATATCATTTTTTATTCATTGATGAACCAGTCATCAG +CGCTCTCCCAGGTCTCCTGGAGAATCTCGCTAATGCGTTCTTTATCCTCTTTTGACGCGC +CAATGACGGACAAGTTGTTGGCGGTAGCGTAACGCACGGTGACGTTACCCAAATTCTCAG +GAAAATGATGGCTAATACGGCGGGNNNNNNNNNNNNNNNNNNNNNNNNNNCCCGCCAGCG +CACCAATCGCACCGGCAGGCAGAGGTGACGTTTTGGCTATAGTGACTTCAATACGCATAA +TGGCCCCCTGTTGAATATACTGGATATATATACAGTTAAATCCAATATATAGCAACAGGT +AAGCGCATTTTTTATTTTTTTACTGACCAGCGTACTGTTTCACCCGCTAAAAAAGGCACC +AGCGAATCATCAGCCAGCGCGATATTTTCCGGTATCTGTTGTTCATCGCGAACCAGTTCC +ACCCACCCCGTATTCACCGGCAGGCCATAGAATTGCGGGCCATTCAGTGAACAGAACGCT +TCAAAGTGCGCCAGCGCGTTCATTTCCTCAAACACGGCGGCATAACTGCCAAGAGCGGAG +GGGGCGTTGAAACAACCGGCGCAGCCGCAACGGGTCTCTTTACGATGACGTGAATGCGGC +GCTGAATCCGTCCCCAGGAAGGCGCGCGTAAAACCACTGGCGACCAGGTCGCGTAACGCC +TGCTGGTGAATATTGCGTTTCAGAATCGGCAGACAGTACAGGTGAGGACGAATGCCGCCA +ACCAGCATATCATTACGGTTAAACATTAAATGTTGAGGCGTAATGGTCGCCGCCAGGTTG +TAGCTGCCGTCACGTACATACTGCGCGGCATCTTTGGTTGTGATGTGTTCAAAGACCACT +TTAAGCGCGGTCAGACGCTGGCGTAGCGGTTCCATTACGGTGTCGATAAAACGCGCTTCG +CGATCGAAGATATCAACATCCGCATGGGTCACCTCACCGTGGACCAGCAATGGCATTCCG +AGTTTTTCCATCCGCTCCAGTACCGGCATGATAGCGTCGACTGACGTTACGCCATGACTG +GAGTTAGTGGTGGCATTGGCCGGGTAAAGCTTGGCCGCAGTAAACACGCCTTCATGGAAA +CCACGCTCCAGTTCATCGGCATCGAGCGAATCCGTTAAATAGCAGGTCATTAACGGCGTG +AAATCATGCCCGGCGGGCACCGCATCGAGAATACGCTGGCGGTAGGCGATCGCTGCATCA +ACGGTCGTAATGGGGGACGCCAGGTTCGGCATCACGATAGCGCGACCATAAATTTCGCTG +GTATAGGGTACGACCGTTTTTAACATGTCGCCATCGCGAAGGTGAACGTGCCAGTCGTCC +GGGCGGCGGATCTTTAAAACCTGGGATGGTGCAGTCATTAATAAGCTCCGGCTGAGGAAT +AGTCTTTTTGCCGGAAACAAAGGATAAGCGGAAACGTTTTCGTTTGCACGTAAAAAAAGG +GCGCGAGCGCGCCCTCCGAAATCAATTGGTGAAAGGAATAACGATTTCACCAGGTTTAAC +TTCAATGCCTTTCGCGAGTTTCTTCGCTAACGCTTCGCCTTTACTACTGTCCTCACGCAA +CACGTAAGCGGGCCGCTGGTTAAAGTAGCTACGTAAAGACTGATTTAAATAGGGCAGGAG +CGTTTGTAGCACTGATTGCATTTTCTCCGGCGTCACGGTGGCGTCTACTACTTCCATCTC +CTGAAGATAGATGGCGCCTTTTTCTTTATCAAAGACCGGCAGGGCTTTTAGCTTGAGTTT +CATCGTCGCTTTTTGACTGCCAAACAGGGAATTCATATCCAGCCTGGCATCGCCAGTAAG +GGTGACTTTATTAGGCTCTTCCCGACCAATCTGGCTGGCAAGGTTAGTCAATACGATATG +CGCGTCGGCAATGCCAGGCAGACCAATATCTTTTGAGAAATTATTCCGTTTTTCAAGCGC +TTGATTGATTTCTTGTTCGCTAATGGTGTATTGCGTAAGTTGATTACAACCCACTAACAG +GCCGCTAACTACCAGCGCAGCGGCAAAAAAAACTTTTTCATGGCGTTCCTTAGCATGTTG +CCTGTGCCCTAATCTTGACACAAAGCAGCATGTCGCGCCAGCGGACATGGCGCCACTAAA +AAAAGCTGAAAAAGGCGGCAAGAAAGGGTTGCCGCCTGGCGGGCGTTAGATAGCCATTGA +GGAGAGTAAATTAATTTGCGTCTGCTTAGCCATATTATCGCGATAGTCCGCGACTTTTGT +CGGCCAGTGAATACCGGCGACCAGCGTCAGATTACGCAGAAGCGGAAACAGATGAATATC +ATCTTCCGATAATTCGCCGTTAACGGCGTTAGGCTGTACGATGAGTTTATCCAGCAAACG +TAAATCATCGCCGATCTTTTTAATCAGTCCGGCAGAGTGCGCAAGATGGTTGTCAAAACT +GCCAGATGAGGCCTCTTTTTTGCGGATAAAATACTGGCGCGCCGCAGGGGTAGAAAATTC +ATCGAAAGCGGATTTTGCAAATCGCGGCAGCAGTAGCTGATTAACGTAACCGTTAACTTT +GCGCAACCACTCTTCAATGGCTGGATTACGTTTCCCGGTTAACAGCGGTTTGCCGTCGAG +GTTGTCGACATAATGTACAATATCCATACTTTCAGGAAGGTAGCGACTATCATCTTTTTG +CAGGATGGGCACCATCTTTTGACCAATCATCCGGGTGGGCGTCGCCTCGTCGTCATTTTG +TAACACGTTAAGTTCAACGGGGATGTTCTTCAGGCCGAAAATCATGCGGGCTTTAACGCA +GAAAGGGCAATGATCGTAAATATAAAGCTTCACGTTTCTCCTCCATTTGACTGTCGGTTC +CTGACCAGTATGGAGGAGATAGCGACAGGTATCAAATCAGGCGCCGGGTTCCAGCATCCG +GCGCGGCGTGCGCTTATGACTAAATTGCCAGCCTAAAGCCAAAAAGGTGATAAAGCCGAT +AATACCGAGCATCATCCACGGTAGTTCAGGCTGCGCAAGCGCTTTACCCATATCAAACAA +CCAGCCGCCGCCGATATAACTAATCGCGCCGCCAATGGCTAATCCCAGACGGCTAAAGCC +CATATAGCTTCCCCGCGCCCTCGCGTCCGCGGGCGACGCGCTGAGCGTTTCGCGCGCCGG +TTCGGCGATAACCGAGCCGATGTAGAAAGCGCAAATAAGCGTAAAAAGCTGCTGTAAATT +GCCCACCATCCCGATGGGGAGCATGCTCAGCGACATGACGAGCAAACCGGCCATCAGCCG +ATGCTCCAGCCGAAAACGCTTTTCGCTCCAGCGGGCAATCGGGTAGAGCAACGTCAGCGA +GAGACACGCCTCAATAGCGTACATCCATTTCACGGCAGCAGGCGAACCGGCGATATCGTT +TACCATAATCGGCAGCATTAACATGACCTGTACCGCCAGCATATAGTAGCCCGCCAGCGT +CAGCACGTAGGTGACAAACCTTTTATTGCTCATGACGCGGCGCATTCCTTCACGCACCGG +CGTTCTGGCCGTTGATAGCTTCCAGGCCGGAAGCAGCCATGCGTTGAAAAGGGCGCATAA +TATGAACAAAATAGCGCCCGTCGCGCAGACCAGGCGAAAATCGTATTGTAGCAACCAGCT +TCCCAGCAGCGCGCCAATCACCGCGCCCGCGCTGTCCTGCATCATCAACAGAGAGAAGAA +GCGGCCCCGTTGCTCCGGACGAATTAATTTGACCACCAGCGCTGAACGCGGCGGGTCGAA +AAGCGTACCGCCGAGACCGGAAAGAAAGCAGGAAAACCACAAGAGCCAGGGCTCATGCGC +GATACCCATGGTGGCAAAGCCTGCGGCGCGCATCAGCATACCGGTGACAATCATCGGTTT +CGCGCCAAAGCGATCGGCGATGGCGCCGCCAAAAATGCCCAGACCTTGTTGAATAAACTG +ACGCAGGCCGAGCGCGATCCCTACCATTACGGCAGCCCACCCCATTTGATCGACAAAGCG +AATAGAGATGAGCGGGAAGACGACGAAAAAACCCAGCACCACTAACATGTTATCGATGAG +AAGAAAATATTTACCCAGGTTCCTCGCCTGCGAGACGCGCGACATTTCCCCTCCCGGGAA +ATAAAAGATGAGCGTCTTCTATTCTGCGGCGGCGTTTCGTTTTTTCCTACCGTTAGCGGG +ACAATATTTTTTTATCAAAAGTCCTTTTTAATCGAGAGTTTTCATCAAAATGTGGCAGCA +ATTCAAAAAATGACGATTTGCGCTTTTCACAGGGCCTGGTTGCGCAGGTATAGTAATGTT +ACTGGCGTGCTGAAGACGTTACAGGAAGGAGTAGGTATAGAATGTTTGGCTATCGCAGTA +ACGTGCCAAAAGTGCGCTTAACCACCGATCGTCTGGTGGTACGTTTAGTGCATGAGCGTG +ATGCCTGGCGTCTGGCCGATTATTACGCGGAAAATCGTCATTTTTTAAAACCCTGGGAAC +CGGTCCGTGATGAAAGTCATTGTTATCCTTCAGGATGGCAGGCGCGTCTGGGAATGATCG +GTGAATTTCACAAACAGGGCTCCGCCTTCTATTTCGCGCTACTTGATCCGGAAGAAAAAG +AAATTATCGGCGTGGCGAATTTTTCCAATGTGGTGCGCGGTTCTTTTCATGCCTGTTATC +TGGGCTATTCCATTGCGCAAGAGTGGCAGGGGCAAGGGCTGATGTTTGAAGCCTTAACCG +CTGCGATTCGCTATATGCAGCGCACTCAGCATATCCACCGTATCATGGCGAACTATATGC +CGCACAACAAACGTAGCGGCGCGTTGCTGGCGCGGCTTGGCTTTGAAAAAGAAGGCTATG +CGAAAGATTACCTGTTGATTGATGGACAATGGCGCGACCATGTCCTGACGGCGTTAACCA +CGCCGTTATGGACGCCGGGGCGTTGAGCGGCTTACGGAATGAGAGGCAAAGGGAGAAAAC +GATGAAATATGAATTAACCGCCACTGAAGCGCGAGTGATTGGCTGTCTGCTGGAAAAGCA +GGTGACAACGCCGGAACAGTATCCGCTTTCCGTCAACGGGGTGGTGACAGCCTGTAATCA +GAAAACCAACCGTGAACCGGTGATGAACCTGACGGAACAAGAGGTACAAGAACAGCTCGA +TAACCTGGTGAAACGCCACTTTTTGCGTACGGTCAGCGGGTTTGGCAACCGCGTCACCAA +ATATGAACAGCGCTTCTGTAATTCCGAATTTGGCGATCTGAAACTTAGCGCGGCGGAAGT +GGCGCTCGTCACTACGTTGCTGCTGCGCGGCGCGCAAACGCCCGGCGAGTTGCGTAGCCG +GGCGTCGCGGATGCATGAATTCAGCGATATGGCGGAAGTTGAATCCACGCTGGAACGGCT +TGCCAGTCGTGAGGACGGCCCGTATGTCGTCCGTCTGGCGCGTGAACCGGGTAAGCGCGA +AAGCCGCTATATGCACCTTTTTTGCGGCGACGTCGATGAACTGTCTCTCCAGACGTCTGC +GCCGGAAAGTGCGTCGGGCGATCTTCAGTCGCGCGTCGAAGCGCTGGAAAGCGAAGTGGC +GGAGTTAAAGCAGCGGCTGGATTCTTTGTTAGCTCACCTGGGAGAGTAATGTGAGAACAT +TACGGATTGGCATTGTCGTGTTAGGTGGTATTGCGCAGAAGGCCTGGCTGCCGGTATTAA +CCAACACCGCCGGATGGACGTTACAGGGCGCCTGGTCTCCTTCGCGGGATAAAGCCTTAC +GTATTTGCGAAAGCTGGCGCATACCGTATGTGGATTCGCTGGCGAATTTAGCGTCCGGCT +GCGATGCGGTCTTCGTCCACTCCAGTACCGCAAGCCATTATGCCGTGGTCAGCGAACTTC +TCAACGCTGGCGTCCATGTCTGCGTGGATAAACCGCTGGCGGAAAATCTACGTGATGCCG +AACGGCTGGTGGCGCTGGCGGCGCAAAAAAAATTGACGCTGATGGTTGGCTTTAATCGCC +GTTTCGCGCCGCTGTACCGCGAACTGAAGACGCGCCTCGGCACTGCGGCGTCACTGCGTA +TGGATAAACATCGTACCGATAGCATCGGGCCGCATGACTTACGTTTTACTTTGCTCGATG +ACTATCTGCATGTCGTGGATACCGTTCTGTGGCTGGCGGGCGGCGAGGCGCGCCTTGCCA +GCGGCACGTTGCTCACCAGCGAGTCCGGCGAAATGTGCTATGCGGAACATCATTTTTCCG +CCGACAAATTACAAATTACCACCAGTATGCACCGGCGCGCCGGAAGTCAGCGTGAATCGG +TCCAGGCCGTCACCGATGGCGGGCTGTATGACGTGACGGATATGCGTGAATGGCGCGAAG +AGCGCGGGCAGGGTATTCTCATCAAACCCATTCCGGGTTGGCAAACAACGCTTGAGCAGC +GTGGTTTTGTCGGATGCGCGCGGCATTTCATTGACTGCGTACAAAATCAGACGGTTCCGG +AAACGGCGGGGGAGCAGGCGATTTTGGCCCAGCGCGTCGTGGAGGCGCTGTGGCGGGACG +CCATCAGCGAATAATCCTCTGTAACATCTGGCGGTAGTAATTCATCGTAATCCAGGTACT +ATACCCTCAATAATTCGAGTTGCAGAAAAGCTAACGCACATGCAGCTCGAAGTATGGCGG +GTATATATGCCCACTCTACATAATACCTCTTTTCACAGTGAATAATGGCAAACCGTGGGG +AGTCTGTAAGGCCTGATAAGACGTTTTGACGTCGCCGTCAGGCGCAGTGATACAGCCGGA +TACGGCAGAAGTTGCGTTATCCGGTCGATGGATCAGCCATGCAGGAGTTTTACGCCAGGG +TCTGGAATACAAAAGAAATGAATTTATTGAAATCGCTGGCTGCCGTCAGCTCGATGACTA +TGTTTTCACGCGTGTTGGGCTTTGCCCGTGATGCGATTGTCGCCAGAATTTTTGGCGCAG +GGATGGCGACCGACGCCTTTTTTGTGGCGTTTAAACTTCCCAATCTACTACGCCGGATCT +TTGCCGAAGGCGCTTTTTCTCAGGCCTTTGTGCCTATCCTGGCGGAATATAAGAGCAAGC +AGGGTGAAGAAGCGACGCGGATCTTTGTCGCTTACGTTTCCGGCCTGTTGACGCTGGCAT +TGGCCGTCGTGACGGTGGCCGGTATGCTGGCCGCCCCGTGGGTGATTATGGTAACCGCGC +CGGGTTTTGCCGATACTGCGGATAAATTTGCGCTGACGACGCAACTGCTGCGGATTACGT +TTCCCTATATTCTGCTGATCTCGCTGGCTTCACTGGTTGGCGCCATTCTCAACACCTGGA +ATCGCTTCTCTATTCCCGCTTTTGCGCCGACATTTCTTAATATCAGTATGATCGGTTTTG +CATTATTCGCCGCGCCATACTTTAATCCGCCGGTGCTGGCGTTAGCCTGGGCAGTCACCG +TCGGCGGCGTGCTGCAACTGGTGTATCAACTTCCGTATTTGAAAAAGATCGGTATGCTGG +TGCTGCCGCGCATTAACTTTCACGACACCGGGGCGATGCGGGTGGTCAAACAGATGGGGC +CGGCGATTTTGGGCGTTTCCGTCAGTCAGATCTCCCTTATCATCAATACCATTTTCGCCT +CGTTTCTGGCCTCCGGCTCGGTCTCATGGTTGTACTATGCCGATCGGTTGATGGAGTTCC +CGTCCGGCGTGCTGGGCGTGGCGTTGGGGACCATCCTGTTGCCGTCATTGTCGAAAAGCT +TTGCCAGCGGCAATCATGATGAGTACTGCCGCCTGATGGACTGGGGGCTGCGTTTGTGCT +TTTTACTGGCGTTGCCGAGCGCGGTAGCGCTAGGCATTCTGGCGAAGCCGCTGACGGTCT +CGCTGTTTCAGTACGGTAAATTCACCGCCTTTGATGCGGCGATGACGCAGCGGGCGTTAA +TCGCCTATTCGGTGGGGCTGATTGGCTTGATCGTCGTAAAAGTGCTGGCCCCGGGCTTCT +ATTCTCGCCAGGATATTAAAACGCCGGTGAAAATCGCCATCGTGACGTTAATCATGACGC +AGTTAATGAACCTGGCGTTTATTGGACCGCTGAAACACGCCGGGCTGTCGCTCTCTATTG +GTCTGGCGGCATGTCTCAATGCGTCGCTGCTGTACTGGCAACTGCGCAAACAGAATATCT +TTACGCCACAACCGGGGTGGATGTGGTTCCTGATGCGTCTGATCATTTCCGTACTGGTAA +TGGCCGCCGTGTTGTTCGGCGTGTTGCATATTATGCCGGAGTGGTCGCAAGGGTCGATGC +TATGGCGTTTGCTGCGTTTGATGGCGGTAGTGATCGCGGGTATCGCGGCCTATTTCGCCG +CGCTTGCCGTGCTGGGCTTTAAAGTGAAAGAGTTTGTTCGCCGGACGGCGTAAATTCAGT +GCCTGATAGCGCTGTGCTATCAGGCCTACAAGGCATTCAGGCCGGAAAGGCGCAACGTCG +CCATCCGGCAATGATTAGATAGATATTTTTTTACCGCCGCGGTGAGAGACGGAAGTCTGA +CCGTCAGCCCCGTACAAGGTCGGCTCCTGGTGAGGTTTCAGCACCTCCAGCGCCTGTTGA +TTACGCTCGATTTGCCCTTCCAGCAGCCAGCCGTTGTGCTGGTTGAGGTCGCGCAGATGC +TGCGTTTTTTCGGTAATCGCCTGCCAGCGCTCTGCAATGTCATCGTTTGCGCTACGCTGC +GCGTTCTGCTCCAGACGGCGCTGTTGTTCCAGATAATCCAGCGTCGCCAGCAACGAGCTT +TTTTCTTCTGTAATACGCTGTAGCTGGCTGCCGTTAATCTGGCCTACGGAAAGCTGTTGT +TGCTCGGCGTCCATCACCGTCTTCAGGTCATTCAGGACGGTGGTCATCTGGTCAAGTATT +TCTGACAAACGAGTCATACGCTTATTTATTCTGTAAGTAGCTCTGCGCCTCGCGAATGAG +CGAGTCTGCTATTTTTCCCGTATCCATTTTTAACTCACCGTTACGGATAGCCGTTTTTAA +TGCTTCGACGCGTTCCATATTAATGTCGCTGACGCCTGGCTGCATAAGCTTCGCTTGCGC +GTCGCTTAACGTTACGCTGGCGCTCGTCGCGGCGGACGTTTTTTCCTGACGCGTTTTTTG +TACCGGCGTGTCGCTGGTTTCGCGCGTCTGGACAGTGCTAACGGGTTTCAAAGGTGAGGT +ACGGTCAATGCTCATTTATTTATCCTCATCGAGGGTTACGTTGTAGCGGCCAGCTACCAT +CATGGTTGAATATCTCATCGGCAGCCGCGACAAAATCTTTACACAATTATAGGTTAATAA +GAATATTCCCATCAGAATCGACGGTTCCACTCACGATTTGACCCGATGTCATGCGCACGC +GCGCATTTTGCGCGACGGCGGCATTATTCATCGCCTGACCTTCCGCATTGACGCTAAACC +CCTCGCCATTGGCGATGACCTGTACTCGTTGACCCGCTTTGACACGCCAGGCCTGACGTA +TCATCGTAAGCTGTACCGGCTGCCCGGGAGCGAGATCGCGCAAACTGACGGCATCCTGAA +TCTGACGGATATCCAGTACCGTCCGCGGCGGTAACTGATCCAGTCTGCCACGTTTTAGCG +TGACGTTGGCCGGCGTCAATTTTCCGCCGCGCGCGACGGGCGCGGCTACGGCGACATAAT +TGCCGGTCGCTTGCACATTCACCTGCAAATAACGTTTTTCATTGGCGCAGCGCGCCACCA +CATTGACGTTGCCCCACAGCTTCGCGCTGCCCGTCATGCTGAAGGCTGGCTGCTCGCAGC +TCGGTAGCAGATTGGGCGGTGAACGGAGCGTGACAACCACCTCGTCGCTGAAGCCAGCCA +GACGCTGGGAAAACCACGTGGTCAGCTGGGCGTTGATGTCCTGCGCCATTGTCAGGGGGC +TGAACAGCAAAGCCGCCACGGCGAATCCTCGTTTTAACGTTTGCATGGTACTTCCCCCTG +GTTGATGTCATGACAGGATTCTACCCGTGTGAAGCAAGCATCAACGCAATAAATAGCGAC +GCATTTTGCGTTTATTCCGGCGATAACGCGCGCGTGAAGGCATTTAAGCTGTCGGCTGAA +TTTTGCCATTTGCGGAGGAGATATGCTCGACAGGCTCGATGCCGCCTTACGATTTCAGCA +GGAAGCGCTAAATCTGCGCGCGCAACGTCAGGAAATATTAGCGGCGAATATCGCCAATGC +CGATACGCCGGGGTATCAGGCGCGCGATATTGATTTTGCCAGTGAGTTAAAAAAAGTGAT +GGTGCGCGGACGGGAAGAAACCGGCGGCGTCGCGTTGTCGTTGACTTCTTCTCGCCATAT +TCCCGCCCAGGCGGTCTCTTCTCCCGCAGTGGATCTGCTTTACCGCGTACCCGATCAGCC +TTCTTTGGATGGTAACACCGTAGATATGGACAGGGAACGTACGCAGTTTGCGGATAACAG +TCTCAAATATCAGATGGGGCTTACCGTTCTGGGTAGCCAACTCAAAGGCATGATGAATGT +GCTACAGGGAGGAAACTAATTCGTGGCGCTGTTAAACATTTTTGATATTGCCGGATCGGC +GCTTGCCGCACAGTCCAAGCGGTTGAACGTTGCGGCCAGTAACCTTGCGAATGCGGATAG +CGTCACCGGCCCGGACGGACAGCCTTATCGCGCCAAACAGGTGGTTTTTCAGGTGGACGC +CGCGCCGGGTCAAGCCACTGGCGGGGTAAAGGTCGCCAGCGTGATTGAAAGTCAGGCACC +GGAAAAGCTGGTTTATGAGCCAGGCAATCCGCTGGCGGACGCTAATGGTTACGTCAAAAT +GCCCAACGTCGATGTGGTCGGCGAAATGGTCAACACGATGTCAGCCTCGCGCAGCTATCA +GGCAAATATCGAAGTCCTGAATACCGTAAAAAGCATGATGCTTAAAACGCTGACATTAGG +CCAGTAAAGGAGGCGCGTATGTCTATTGCCGTAAATATGAATGACCCGACCAACACGGGC +GTCAAAACGACGACCGGCAGCGGGTCGATGACCGGAAGCAACGCTGCCGATCTGCAAAGC +AGTTTCCTGACCTTACTGGTCGCGCAATTGAAGAACCAGGACCCGACTAACCCATTACAA +AATAATGAGTTAACGACACAGTTGGCGCAAATCAGTACCGTGAGCGGCATTGAAAAACTG +AATACGACGCTGGGGGCTATTTCCGGGCAAATCGATAATAGTCAGTCCCTACAGGCGACC +ACGCTGATTGGACATGGCGTTATGGTGCCTGGCACCACAATTCTGGCGGGTAAAGGCGCG +GAAGAAGGGGCCGTGACGTCCACGACGCCGTTTGGCGTGGAATTGCAACAGCCTGCGGAC +AAAGTGACGGCAACCATTACCGATAAAGATGGCCGGGTGGTACGGACGCTGGAGATCGGT +GAGTTGCGAGCCGGGGTACACACCTTTACCTGGGATGGTAAGCAAACGGACGGAACAACG +GTACCGAATGGTTCTTACAACATTGCGATTACCGCCAGCAATGGCGGGACGCAACTGGTG +GCGCAGCCGCTGCAATTCGCTCTGGTACAGGGCGTGACGAAGGGCAGTAACGGCAACCTG +TTGGATCTGGGTACCTACGGCACCACCACACTCGACGAAGTTCGGCAAATAATCTAAGCC +CTTACACTTATCAGGAGTCAGTCATGTCTTTTTCTCAAGCGGTTAGCGGCCTGAACGCTG +CGGCCACCAACCTTGATGTTATCGGTAATAACATCGCCAACTCCGCCACCTATGGCTTTA +AGTCCGGTACGGCATCATTTGCCGATATGTTCGCCGGTTCCAAAGTGGGGTTGGGCGTAA +AAGTGGCGGGGATTACCCAGGATTTTACCGACGGTACGACAACGAACACCGGGCGCGGGC +TGGATGTCGCGATTAGCCAGAACGGTTTTTTCCGCCTGGTAGACAGCAACGGTTCCGTGT +TCTATAGCCGCAACGGCCAGTTCAAACTGGACGAGAACCGTAACCTGGTCAATATGCAGG +GGATGCAGTTGACCGGCTATCCGGCCACCGGTACGCCGCCGACCATTCAGCAGGGGGCGA +ATCCTGCGCCGATCACCATTCCGAACACGCTGATGGCGGCGAAATCGACCACCACCGCGT +CAATGCAGATCAACCTGAACTCAACGGACCCTGTACCGTCTAAAACGCCCTTTAGCGTGA +GTGATGCGGATTCGTATAACAAAAAAGGCACCGTCACCGTTTATGACAGCCAGGGTAATG +CCCATGACATGAACGTCTATTTTGTGAAAACCAAAGATAATGAATGGGCTGTGTACACCC +ATGACAGCAGCGATCCTGCAGCCACTGCGCCAACAACGGCGTCCACTACGCTGAAATTCA +ATGAAAACGGGATTCTGGAGTCTGGCGGTACGGTGAACATCACCACCGGTACGATTAATG +GCGCGACAGCGGCCACCTTCTCCCTCAGCTTCCTTAACTCCATGCAGCAGAACACCGGGG +CTAATAACATCGTCGCCACCAATCAAAACGGCTATAAGCCTGGCGACCTGGTGAGCTACC +AGATTAACAATGATGGCACCGTGGTTGGCAACTACTCCAACGAGCAGGAGCAGGTGCTGG +GGCAGATTGTGCTGGCTAACTTCGCCAACAACGAAGGTCTGGCATCCCAGGGCGATAACG +TCTGGGCGGCGACGCAGGCCTCCGGGGTAGCGCTGCTGGGGACTGCCGGTTCCGGCAACT +TCGGTAAGCTGACGAACGGCGCGCTGGAAGCCTCTAACGTGGATTTGAGTAAAGAGCTGG +TGAATATGATCGTCGCGCAGCGTAACTACCAGTCGAATGCGCAGACCATCAAAACCCAGG +ACCAGATCCTCAATACGCTGGTTAACCTGCGCTAAGCGCCTGACGGGATAGCTTAATGGA +TCACGCAATTTATACCGCCATGGGGGCGGCCAGCCAGACGCTTAACCAGCAGGCGGTAAC +GGCCAGCAACCTGGCTAATGCCTCAACGCCGGGCTTTCGCGCGCAGCTTAACGCGCTACG +CGCGGTGCCCGTTGATGGCCTCTCTTTAGCGACGCGCACGTTGGTTACGGCGTCGACGCC +GGGGGCGGATATGACCCAGGGTCAGTTGGACTACACTTCCCGCCCGCTGGATGTTGCGTT +ACAGCAGGACGGCTGGCTGGTGGTGCAAGCGGCGGATGGCGCTGAAGGATATACCCGTAA +CGGGAATATCCAGGTGGGCCCGACCGGGCAGTTAACCATTCAGGGACATCCGGTTATCGG +CGAAGGCGGCCCGATTACCGTTCCGGAAGGGTCGGAAATCACCATTGCGGCAGACGGCAC +GATCTCCGCGCTCAATCCCGGCGACCCGCCAAACACGGTGGCGCCCGTTGGGCGGCTGAA +GCTGGTCAAAGCGGAAGGCAATGAGGTGCAGCGGAGCGATGACGGTTTATTCCGCCTTAC +CGCCGAGGCACAGGCTGAACGCGGGGCGGTACTGGCCGCCGACCCGTCAATTCGCATTAT +GTCGGGCGTGCTGGAGGGCAGTAACGTCAAGCCGGTTGAAGCCATGACCGACATGATCGC +CAACGCACGTCGTTTTGAAATGCAGATGAAGGTTATCACCAGCGTAGATGAGAACGAAGG +GCGAGCTAACCAACTGCTGTCGATGAGTTAATACAGGACATTTTATGATCAGTTCATTAT +GGATCGCCAAAACCGGTCTGGACGCGCAGCAAACCAATATGGATGTGATTGCCAATAACC +TGGCAAACGTCAGCACCAATGGTTTTAAGCGTCAGCGCGCGGTATTTGAAGATCTGTTGT +ATCAGACCATCCGCCAGCCGGGCGCGCAGTCGTCCGAGCAGACGACGCTGCCTTCCGGGC +TGCAAATCGGTACCGGCGTGCGTCCGGTCGCCACGGAGCGCCTGCACAGTCAGGGGAACC +TGTCGCAGACCAACAACAGTAAAGATGTGGCGATTAAAGGGCAGGGCTTTTTCCAGGTCA +TGCTGCCGGACGGTACGTCTGCCTATACCCGCGACGGCTCTTTCCAGGTGGATCAGAATG +GTCAACTGGTGACGGCGGGCGGTTTTCAGGTGCAGCCGGCAATCACCATTCCGGCCAACG +CGTTAAGCATCACGATTGGCCGCGACGGCGTGGTCAGCGTTACCCAGCAAGGGCAGGCCG +CGCCGGTTCAGGTCGGGCAGCTTAACCTGACCACCTTTATGAACGACACCGGTCTGGAAA +GCATCGGCGAGAACCTCTATATCGAAACGCAATCGTCCGGCGCGCCGAACGAAAGCACGC +CGGGGCTCAACGGCGCGGGGTTGTTGTATCAAGGGTATGTCGAAACGTCGAACGTTAACG +TGGCGGAAGAGCTGGTGAACATGATTCAGGTTCAACGCGCCTATGAAATTAACAGTAAAG +CAGTATCGACGACCGATCAGATGCTGCAGAAACTGACGCAACTCTAAGGGGCCGCCGGTG +GGGGATACGCCACCGGCTCCCTGATTTTGAAGATGAAGGTAATGCAAAAATACGCGCTTC +ACGCTTACCCAGTTATGGCCCTGATGGTCGCGACGCTGACAGGATGCGCCTGGATACCCG +CTAAACCGCTCGTGCAGGGGGCGACCACGGCGCAGCCGATACCTGGCCCGGTACCGGTGG +CGAATGGCTCCATATTTCAGTCTGCGCAGCCGATTAATTATGGCTATCAGCCGCTTTTTG +AAGATCGTCGACCGCGTAATATCGGCGATACGCTCACGATTGTGTTACAGGAAAACGTCA +GCGCCAGTAAAAGCTCGTCGGCAAATGCCAGCCGCGACGGCAAAACCAGCTTTGGTTTTG +ATACGGTACCGCGTTATCTGCAGGGATTATTCGGTAATTCCCGCGCGGATATGGAGGCCT +CCGGCGGCAACTCTTTTAATGGTAAAGGCGGCGCGAATGCCAGCAATACCTTTAGCGGCA +CGCTGACCGTGACCGTCGATCAGGTTCTGGCCAATGGCAATTTACACGTCGTGGGGGAAA +AACAGATCGCGATTAATCAGGGAACGGAATTCATCCGCTTCTCCGGCGTGGTAAATCCAC +GCACCATCAGCGGTAGCAACTCTGTTCCCTCGACACAGGTGGCGGATGCGCGGATTGAAT +ATGTCGGGAACGGCTATATTAACGAAGCGCAAAATATGGGCTGGCTGCAACGTTTCTTCC +TTAATTTGTCGCCGATGTAAGCGAGGTGTATGTGTTTAAAGCTCTTGCAGGAATCGTTCT +GGCACTGGTTGCCACTCTGGCGCACGCCGAGCGTATCCGGGATCTGACCAGTGTCCAGGG +AGTACGGGAAAACTCGCTGATCGGCTACGGGCTGGTGGTCGGGCTGGACGGTACGGGCGA +CCAGACGACCCAGACGCCATTTACCACCCAGACGCTGAATAACATGCTGTCACAACTGGG +GATTACGGTCCCCACCGGCACCAATATGCAGTTGAAAAACGTGGCGGCGGTGATGGTGAC +GGCGTCGTATCCGCCTTTTGCGCGACAGGGACAAACGATCGATGTCGTCGTTTCCTCAAT +GGGGAACGCTAAAAGTCTGCGTGGCGGGACGTTATTAATGACGCCGTTAAAAGGGGTGGA +CAGCCAGGTGTATGCTCTGGCGCAGGGCAATATTCTGGTCGGCGGCGCGGGCGCTTCCGC +AGGCGGCAGTAGCGTGCAGGTTAACCAGCTTAATGGCGGGCGCATCACTAATGGCGCGAT +TATCGAACGCGAGTTGCCGACTCAGTTCGGCGCTGGCAACACCATTAATCTGCAATTGAA +CGACGAAGATTTTACGATGGCGCAGCAAATTACCGACGCCATCAACCGCGCCCGCGGTTA +CGGCAGCGCCACTGCGCTTGATGCGCGAACGGTACAGGTACGCGTGCCCAGCGGCAACAG +CTCGCAGGTGCGTTTTCTGGCGGACATTCAAAATATGGAAGTCAACGTGACGCCGCAGGA +TGCAAAAGTCGTGATCAACTCGCGTACCGGTTCGGTGGTCATGAATCGGGAAGTCACGCT +GGATAGCTGCGCTGTGGCGCAGGGCAATTTGTCAGTGACAGTCAATCGCCAACTCAACGT +CAACCAGCCGAATACGCCATTTGGCGGCGGGCAGACCGTGGTGACGCCACAGACTCAGAT +AGATTTGCGTCAGAGCGGCGGATCGCTACAGAGCGTGCGTTCCAGCGCCAATCTGAACAG +CGTAGTGCGCGCGCTGAATGCGCTTGGCGCGACGCCGATGGATCTGATGTCGATTTTGCA +GTCCATGCAGAGCGCGGGCTGTCTACGCGCCAAACTGGAAATCATCTGATGATCGGAGAC +GGTAAATTGCTGGCCAGCGCGGCCTGGGATGCGCAATCTCTGAACGAACTGAAAGCGAAA +GCGGGCCAGGACCCGGCGGCGAATATCCGTCCTGTGGCCCGTCAGGTGGAAGGGATGTTT +GTGCAGATGATGCTGAAAAGTATGCGCGAGGCTTTACCCAAAGATGGTTTATTCAGCAGC +GATCAGACGCGTCTGTATACCAGCATGTATGACCAGCAGATCGCCCAGCAGATGACCGCC +GGTAAGGGATTGGGGCTGGCGGATATGATGGTTAAACAGATGACGGGCGGGCAGACGATG +CCTGCAGATGATGCGCCGCAAGTACCGCTTAAATTCTCCCTGGAGACGGTAAACAGCTAT +CAAAATCAGGCGCTGACCCAACTGGTGCGCAAAGCCATACCGAAAACGCCGGACAGCAGC +GATGCGCCGCTCTCCGGCGACAGTAAAGACTTTCTGGCCCGGCTTTCGCTCCCGGCGAGG +CTGGCCAGCGAACAAAGCGGGGTGCCGCATCATCTGATTCTGGCGCAGGCGGCGCTGGAG +TCCGGCTGGGGGCAGCGGCAAATCCTGCGGGAGAATGGCGAACCCAGCTATAACGTATTT +GGCGTGAAAGCGACCGCCAGTTGGAAAGGGCCGGTGACGGAAATCACCACCACTGAATAC +GAAAATGGCGAAGCGAAAAAAGTGAAAGCGAAATTCCGCGTCTATAGCTCGTATCTGGAG +GCGTTATCGGATTATGTCGCGCTGTTAACGCGTAACCCACGCTACGCTGCCGTGACCACT +GCCGCCACGGCAGAGCAGGGCGCAGTGGCTCTGCAAAACGCCGGATACGCCACTGACCCG +AATTACGCGCGTAAATTGGCCAGCATGATTCAGCAGTTGAAAGCGATGAGTGAAAAGGTC +AGCAAAACCTACAGCGCGAATCTCGACAATCTCTTTTAAATTGCTCAAGTCCACGTAGTC +GCTGCCGATAACAACGAGTATTGAAGGATTAAAAGGAACCATCATGTCCAGCTTGATTAA +TCACGCCATGAGCGGACTTAACGCCGCGCAGGCCGCGTTAAATACGGTCAGTAATAACAT +CAACAATTATAACGTTGCGGGTTATACCCGGCAGACAACTATTCTGGCGCAGGCAAACAG +TACGTTAGGGGCTGGCGGCTGGATAGGTAATGGCGTTTACGTTTCAGGCGTACAGCGCGA +ATATGATGCGTTTATCACTAATCAGCTACGCGGCGCGCAAAACCAGAGCAGCGGCTTAAC +CACGCGCTATGAACAAATGTCGAAAATCGACAACCTGCTGGCCGATAAATCCAGCTCACT +GTCTGGCTCGCTGCAGAGTTTTTTTACCAGCCTGCAAACGTTAGTCAGTAATGCGGAAGA +TCCTGCGGCGCGTCAGGCGCTGATTGGTAAAGCGGAAGGGCTGGTAAACCAGTTCAAAAC +CACCGATCAGTATCTGCGCGATCAGGATAAACAGGTCAATATCGCGATTGGCTCCAGCGT +GGCGCAAATCAACAATTACGCGAAGCAGATAGCTAACCTGAACGATCAAATCTCCCGTAT +GACGGGCGTAGGCGCGGGCGCATCGCCGAACGACCTGCTCGATCAACGTGATCAGTTGGT +TAGCGAGCTTAACAAGATCGTTGGCGTCGAGGTGAGTGTACAGGACGGCGGCACCTATAA +CCTGACGATGGCCAATGGCTATACGCTGGTGCAGGGGTCGACGGCGCGTCAGTTGGCGGC +GGTTCCCTCCAGCGCCGACCCGACGCGAACGACTGTCGCTTATGTCGATGAGGCCGCCGG +TAACATCGAAATTCCGGAAAAGTTGCTGAACACCGGTTCGCTCGGCGGGCTACTGACGTT +CCGTTCTCAGGATCTGGATCAGACTCGTAATACGCTGGGCCAGTTGGCGTTGGCGTTTGC +CGATGCGTTTAACGCGCAGCATACCAAAGGTTATGACGCCGACGGCAATAAAGGGAAAGA +CTTCTTTAGCATTGGCTCGCCGGTGGTATATAGCAACAGTAATAATGCCGATAAAACGGT +ATCGCTAACCGCTAAGGTGGTCGACAGCACGAAGGTTCAGGCGACGGATTATAAGATTGT +TTTTGACGGTACAGACTGGCAGGTTACTCGCACTGCGGATAACACCACCTTCACGGCAAC +AAAAGATGCTGACGGAAAACTGGAGATTGACGGTCTGAAAGTGACGGTAGGGACTGGCGC +ACAGAAAAACGACAGTTTTCTTCTCAAGCCGGTCAGCAATGCTATCGTCGACATGAACGT +TAAAGTGACAAATGAAGCCGAGATTGCGATGGCGTCTGAGTCAAAACTCGATCCTGATGT +GGATACCGGCGACAGCGATAACCGCAATGGTCAGGCATTGCTGGACTTACAAAACAGCAA +TGTAGTGGGCGGCAACAAAACCTTTAACGATGCTTACGCCACGTTGGTCAGCGATGTGGG +TAACAAAACGTCAACGCTGAAAACCAGCAGCACCACGCAGGCGAATGTGGTTAAACAGCT +TTATAAACAGCAACAGTCGGTTTCCGGCGTTAACCTCGACGAAGAGTACGGCAATTTGCA +GCGTTATCAGCAGTATTATCTGGCGAATGCGCAAGTATTGCAGACCGCGAATGCGCTGTT +TGATGCGTTATTGAATATTCGCTAAAGGAGAAGGATGACATGCGTATCAGTACCCAGATG +ATGTACGAACAAAATATGAGCGGCATCACTAATTCTCAGGCCGAATGGATGAAGCTGGGC +GAGCAGATGTCTACCGGTAAGCGCGTTACCAACCCATCTGACGATCCGATCGCCGCGTCG +CAGGCGGTAGTACTCTTTCAGGCGCAGGCGCAGAATAGCCAGTACGCCCTGGCGCGTACG +TTTGCCACCCAAAAAGTGTCGCTGGAAGAAAGCGTACTCAGTCAGGTGACGACGGCGATT +CAAACCGCGCAGGAAAAAATCGTCTATGCCGGAAACGGCACGTTAAGCGACGATGACCGC +GCGTCGCTGGCGACGGATTTACAGGGGATCCGCGATCAGCTGATGAACCTGGCAAACAGC +ACTGACGGCAATGGTCGCTATATCTTTGCCGGGTATAAAACGGAAGCGGCGCCATTCGAC +CAGGCGACAGGTGGTTATCATGGCGGCGAGAAAAGTGTTACCCAGCAGGTGGATTCCGCA +CGCACGATGGTAATTGGCCATACGGGAGCGCAAATTTTTAATAGCATCACCAGCAATGCG +GTGCCGGAACCGGATGGCTCGGACTCCGAAAAGAATCTGTTTGTCATGCTCGATACGGCA +ATTGCCGCGCTCAAGACCCCGGTGGAAGGCAATGACGTGGAAAAAGAAAAAGCCGCTGCC +GCCATTGATAAAACCAATCGCGGCTTAAAAAATTCGCTTAATAACGTCCTGACCGTTCGT +GCGGAACTGGGAACGCAACTGAGCGAACTCAGTACGCTGGATTCACTGGGAAGCGACCGT +GCGCTGGGACAGAAGCTACAGATGAGCAACCTGGTAGATGTGGACTGGAACTCGGTCATT +TCCTCCTACGTCATGCAACAGGCGGCATTACAGGCGTCCTATAAAACGTTTACCGACATG +CAGGGAATGTCGCTTTTCCAGTTGAACCGGTAACGCCTCTTTTTGAAACATATCACGAAA +CTGGATATGTTTTGTCTGCCCGCGCCATCCACCCCGGCGCGGGCATTTTTTGTCTATGGA +AAACCCCCAGCTAGGCTGGGGGTTCCGGAAAGCTTTCAGCTTTAAGCCAGTTATTAAAAC +CCCTTTTGATTTGTTAAAACATCTTGCGGTCTGGC \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/real_data_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1641 @@ +##gff-version 3 +##sequence-region ERS222222|SC|contig000020 1 92255 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 241 921 . - 0 ID=22222_2#22_04055;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145956.2,protein motif:Pfam:PF07108.5;locus_tag=22222_2#22_04055;product=pathogenicity island-encoded protein A,PipA protein;protein_id=gnl|SC|22222_2#22_04055 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 1144 2019 . - 0 ID=22222_2#22_04056;gene=pipB2_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145957.1,similar to AA sequence:UniProtKB:Q8ZMM8,protein motif:CLUSTERS:PRK15197,protein motif:Cdd:COG5351,protein motif:Pfam:PF00805.16;locus_tag=22222_2#22_04056;product=secreted effector protein,Type III effector pipB2,secreted effector protein PipB,Uncharacterized protein conserved in bacteria,Pentapeptide repeats (8 copies);protein_id=gnl|SC|22222_2#22_04056 +ERS222222|SC|contig000020 Infernal:1.1 ncRNA 2139 2156 . + 0 ID=22222_2#22_04057;inference=COORDINATES:profile:Infernal:1.1;locus_tag=22222_2#22_04057;product=isrI +ERS222222|SC|contig000020 Prodigal:2.60 CDS 2567 2908 . - 0 ID=22222_2#22_04058;gene=sigE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145959.1,similar to AA sequence:UniProtKB:O30917,protein motif:CLUSTERS:PRK15202,protein motif:Pfam:PF07824.6;locus_tag=22222_2#22_04058;product=chaperone protein SigE,Chaperone protein sigE,type III secretion chaperone protein SigE,Type III secretion chaperone domain;protein_id=gnl|SC|22222_2#22_04058 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 2925 4610 . - 0 ID=22222_2#22_04059;eC_number=3.1.3.-,3.1.3.-;gene=sopB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145960.1,similar to AA sequence:UniProtKB:O30916,protein motif:CLUSTERS:PRK15378,protein motif:Pfam:PF05925.6;locus_tag=22222_2#22_04059;product=inositol phosphate phosphatase SopB,Inositol phosphate phosphatase sopB,inositol phosphate phosphatase SopB,Enterobacterial virulence protein IpgD;protein_id=gnl|SC|22222_2#22_04059 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 5332 6801 . - 0 ID=22222_2#22_04060;eC_number=3.4.-.-;gene=pepD_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002215025.1,similar to AA sequence:UniProtKB:Q8G6Z9,protein motif:Pfam:PF03577.9;locus_tag=22222_2#22_04060;product=peptidase family C69,Dipeptidase,Peptidase family C69;protein_id=gnl|SC|22222_2#22_04060 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 6974 8338 . - 0 ID=22222_2#22_04061;eC_number=2.7.13.3;gene=yedV;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145964.1,similar to AA sequence:UniProtKB:P76339,protein motif:CLUSTERS:PRK09835,protein motif:Cdd:COG5278,protein motif:TIGRFAMs:TIGR01386,protein motif:Pfam:PF02518.20;locus_tag=22222_2#22_04061;product=heavy metal sensor kinase subfamily,Probable sensor-like histidine kinase YedV,sensor kinase CusS,Predicted periplasmic ligand-binding sensor domain,heavy metal sensor kinase,Histidine kinase-%2C DNA gyrase B-%2C and HSP90-like ATPase;protein_id=gnl|SC|22222_2#22_04061 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 8331 9068 . - 0 ID=22222_2#22_04062;gene=copR;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002243090.1,similar to AA sequence:UniProtKB:P76340,protein motif:CLUSTERS:PRK11517,protein motif:Cdd:COG4565,protein motif:TIGRFAMs:TIGR01387,protein motif:Pfam:PF00072.18;locus_tag=22222_2#22_04062;product=transcriptional regulatory protein YedW,Probable transcriptional regulatory protein YedW,transcriptional regulatory protein YedW,Response regulator of citrate/malate metabolism,heavy metal response regulator,Response regulator receiver domain;protein_id=gnl|SC|22222_2#22_04062 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 9147 9557 . + 0 ID=22222_2#22_04063;eC_number=3.5.2.17,3.5.2.17;gene=uraH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145966.1,similar to AA sequence:UniProtKB:Q4VYA5,protein motif:CLUSTERS:PRK15036,protein motif:TIGRFAMs:TIGR02962,protein motif:Pfam:PF00576.15;locus_tag=22222_2#22_04063;product=hydroxyisourate hydrolase,5-hydroxyisourate hydrolase precursor,hydroxyisourate hydrolase,hydroxyisourate hydrolase,HIUase/Transthyretin family;protein_id=gnl|SC|22222_2#22_04063 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 9890 10402 . - 0 ID=22222_2#22_04064;eC_number=1.5.1.36;gene=hpaC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729827.1,similar to AA sequence:UniProtKB:Q57501,protein motif:CLUSTERS:PRK15486,protein motif:TIGRFAMs:TIGR02296,protein motif:Pfam:PF01613.12;locus_tag=22222_2#22_04064;product=4-hydroxyphenylacetate 3-monooxygenase coupling protein,4-hydroxyphenylacetate 3-monooxygenase reductase component,4-hydroxyphenylacetate 3-monooxygenase reductase subunit,4-hydroxyphenylacetate 3-monooxygenase%2C reductase component,Flavin reductase like domain;protein_id=gnl|SC|22222_2#22_04064 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 10420 11652 . - 0 ID=22222_2#22_04065;eC_number=1.14.14.9;gene=hpaB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145968.1,similar to AA sequence:UniProtKB:Q57160,protein motif:TIGRFAMs:TIGR02310,protein motif:Pfam:PF03241.7;locus_tag=22222_2#22_04065;product=4-hydroxyphenylacetate 3-monooxygenase%2C oxygenase component,4-hydroxyphenylacetate 3-monooxygenase oxygenase component,4-hydroxyphenylacetate 3-monooxygenase%2C oxygenase component,4-hydroxyphenylacetate 3-hydroxylase C terminal;protein_id=gnl|SC|22222_2#22_04065 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 11833 12273 . - 0 ID=22222_2#22_04066;gene=hpaR;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145969.1,similar to AA sequence:UniProtKB:O07458,protein motif:TIGRFAMs:TIGR02337,protein motif:Pfam:PF01047.16;locus_tag=22222_2#22_04066;product=homoprotocatechuate degradation operon regulator%2C HpaR,Benzoate anaerobic degradation regulator,homoprotocatechuate degradation operon regulator%2C HpaR,MarR family;protein_id=gnl|SC|22222_2#22_04066 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 12548 13837 . + 0 ID=22222_2#22_04067;eC_number=5.3.3.-;gene=hpaG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729830.1,similar to AA sequence:UniProtKB:P37352,protein motif:CLUSTERS:PRK15203,protein motif:Cdd:COG0179,protein motif:TIGRFAMs:TIGR02303,protein motif:Pfam:PF01557.12;locus_tag=22222_2#22_04067;product=4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase,Homoprotocatechuate catabolism bifunctional isomerase/decarboxylase,4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase,2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1%2C7-dioic acid hydratase (catechol pathway),4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase%2C C-terminal subunit,Fumarylacetoacetate (FAA) hydrolase family;protein_id=gnl|SC|22222_2#22_04067 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 13834 14133 . + 0 ID=22222_2#22_04068;eC_number=1.2.1.8;gene=hpcC_1;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729831.1,similar to AA sequence:UniProtKB:Q9HTJ1,protein motif:CLUSTERS:PRK13252,protein motif:Cdd:COG3191,protein motif:TIGRFAMs:TIGR02299,protein motif:Pfam:PF00171.1;locus_tag=22222_2#22_04068;product=5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase,Betaine aldehyde dehydrogenase,betaine aldehyde dehydrogenase,L-aminopeptidase/D-esterase,5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase,Aldehyde dehydrogenase family;protein_id=gnl|SC|22222_2#22_04068 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 14127 15299 . + 0 ID=22222_2#22_04069;eC_number=1.2.1.-;gene=hpcC_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729831.1,similar to AA sequence:UniProtKB:P23105,protein motif:CLUSTERS:PRK13252,protein motif:Cdd:COG4230,protein motif:TIGRFAMs:TIGR02299,protein motif:Pfam:PF00171.1;locus_tag=22222_2#22_04069;product=5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase,2-hydroxymuconic semialdehyde dehydrogenase,betaine aldehyde dehydrogenase,Delta 1-pyrroline-5-carboxylate dehydrogenase,5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase,Aldehyde dehydrogenase family;protein_id=gnl|SC|22222_2#22_04069 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 15301 16152 . + 0 ID=22222_2#22_04070;eC_number=1.13.11.15,1.13.11.15;gene=hpcB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729832.1,similar to AA sequence:UniProtKB:Q05353,protein motif:CLUSTERS:PRK03881,protein motif:Cdd:COG0179,protein motif:TIGRFAMs:TIGR02298,protein motif:Pfam:PF02900.1;locus_tag=22222_2#22_04070;product=3%2C4-dihydroxyphenylacetate 2%2C3-dioxygenase,3%2C4-dihydroxyphenylacetate 2%2C3-dioxygenase,hypothetical protein,2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1%2C7-dioic acid hydratase (catechol pathway),3%2C4-dihydroxyphenylacetate 2%2C3-dioxygenase,Catalytic LigB subunit of aromatic ring-opening dioxygenase;protein_id=gnl|SC|22222_2#22_04070 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 16162 16542 . + 0 ID=22222_2#22_04071;eC_number=5.3.3.10,5.3.3.10;gene=hpcD;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729833.1,similar to AA sequence:UniProtKB:Q05354,protein motif:CLUSTERS:PRK15031,protein motif:Cdd:COG3232,protein motif:Pfam:PF02962.1;locus_tag=22222_2#22_04071;product=5-carboxymethyl-2-hydroxymuconate delta-isomerase,5-carboxymethyl-2-hydroxymuconate Delta-isomerase,5-carboxymethyl-2-hydroxymuconate delta-isomerase,5-carboxymethyl-2-hydroxymuconate isomerase,5-carboxymethyl-2-hydroxymuconate isomerase;protein_id=gnl|SC|22222_2#22_04071 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 16686 17489 . + 0 ID=22222_2#22_04072;eC_number=4.2.-.-,4.2.1.80;gene=hpcG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729834.1,similar to AA sequence:UniProtKB:Q9S156,protein motif:CLUSTERS:PRK11342,protein motif:Cdd:COG3971,protein motif:TIGRFAMs:TIGR02312,protein motif:Pfam:PF01557.12;locus_tag=22222_2#22_04072;product=2-oxo-hepta-3-ene-1%2C7-dioic acid hydratase,2-keto-4-pentenoate hydratase,2-keto-4-pentenoate hydratase,2-keto-4-pentenoate hydratase,2-oxo-hepta-3-ene-1%2C7-dioic acid hydratase,Fumarylacetoacetate (FAA) hydrolase family;protein_id=gnl|SC|22222_2#22_04072 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 17500 18291 . + 0 ID=22222_2#22_04073;eC_number=4.1.2.-;gene=hpaI;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216043.1,similar to AA sequence:UniProtKB:Q47098,protein motif:CLUSTERS:PRK10128,protein motif:Cdd:COG2301,protein motif:TIGRFAMs:TIGR02311,protein motif:Pfam:PF03328.8;locus_tag=22222_2#22_04073;product=4-hydroxyphenylacetate catabolism,4-hydroxy-2-oxo-heptane-1%2C7-dioate aldolase,2-keto-3-deoxy-L-rhamnonate aldolase,Citrate lyase beta subunit,2%2C4-dihydroxyhept-2-ene-1%2C7-dioic acid aldolase,HpcH/HpaI aldolase/citrate lyase family;protein_id=gnl|SC|22222_2#22_04073 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 18363 19739 . + 0 ID=22222_2#22_04074;gene=hpaX;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729836.1,similar to AA sequence:UniProtKB:P76470,protein motif:CLUSTERS:PRK11551,protein motif:Cdd:COG2814,protein motif:TIGRFAMs:TIGR02332,protein motif:Pfam:PF07690.10;locus_tag=22222_2#22_04074;product=4-hydroxyphenylacetate permease,Inner membrane transport protein RhmT,putative 3-hydroxyphenylpropionic transporter MhpT,Arabinose efflux permease,4-hydroxyphenylacetate permease,Major Facilitator Superfamily;protein_id=gnl|SC|22222_2#22_04074 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 19749 20645 . + 0 ID=22222_2#22_04075;gene=hpaA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729837.1,similar to AA sequence:UniProtKB:P40408,protein motif:CLUSTERS:PRK10572,protein motif:Cdd:COG2169,protein motif:TIGRFAMs:TIGR02297,protein motif:Pfam:PF12833.1;locus_tag=22222_2#22_04075;product=4-hydroxyphenylacetate 3-monooxygenase operon regulatory protein,Bacillibactin transport regulator,DNA-binding transcriptional regulator AraC,Adenosine deaminase,4-hydroxyphenylacetate catabolism regulatory protein HpaA,Helix-turn-helix domain;protein_id=gnl|SC|22222_2#22_04075 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 20659 21597 . + 0 ID=22222_2#22_04076;eC_number=3.1.26.11,3.1.26.11;gene=rnz;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087376.1,similar to AA sequence:UniProtKB:P54548,protein motif:CLUSTERS:PRK00055,protein motif:Cdd:COG5212,protein motif:TIGRFAMs:TIGR02651,protein motif:Pfam:PF12706.1;locus_tag=22222_2#22_04076;product=Ribonuclease Z,Ribonuclease Z,ribonuclease Z,Low-affinity cAMP phosphodiesterase,ribonuclease Z,Beta-lactamase superfamily domain;protein_id=gnl|SC|22222_2#22_04076 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 23021 23326 . - 0 ID=22222_2#22_04077;gene=cbpM;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570915.1,similar to AA sequence:UniProtKB:P63264,protein motif:CLUSTERS:PRK10265;locus_tag=22222_2#22_04077;product=chaperone-modulator protein CbpM,Chaperone modulatory protein CbpM,chaperone-modulator protein CbpM;protein_id=gnl|SC|22222_2#22_04077 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 23326 24246 . - 0 ID=22222_2#22_04078;gene=cbpA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729840.1,similar to AA sequence:UniProtKB:P36659,protein motif:CLUSTERS:PRK10266,protein motif:Cdd:COG5407,protein motif:TIGRFAMs:TIGR02349,protein motif:Pfam:PF01556.12;locus_tag=22222_2#22_04078;product=curved DNA-binding protein,Curved DNA-binding protein,curved DNA-binding protein CbpA,Preprotein translocase subunit Sec63,chaperone protein DnaJ,DnaJ C terminal domain;protein_id=gnl|SC|22222_2#22_04078 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 24482 24844 . + 0 ID=22222_2#22_04079;gene=scsA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729841.1;locus_tag=22222_2#22_04079;product=copper-sensitivity suppressor membrane protein A;protein_id=gnl|SC|22222_2#22_04079 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 24893 26779 . + 0 ID=22222_2#22_04080;eC_number=1.8.1.8;gene=scsB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729842.1,similar to AA sequence:UniProtKB:P36655,protein motif:CLUSTERS:PRK00293,protein motif:Cdd:COG4233,protein motif:Pfam:PF02683.9;locus_tag=22222_2#22_04080;product=copper-sensitivity suppressor membrane protein B,Thiol:disulfide interchange protein DsbD precursor,thiol:disulfide interchange protein precursor,Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis,Cytochrome C biogenesis protein transmembrane region;protein_id=gnl|SC|22222_2#22_04080 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 26776 27399 . + 0 ID=22222_2#22_04081;gene=scsC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729843.1,similar to AA sequence:UniProtKB:O32218,protein motif:Cdd:COG1651,protein motif:Pfam:PF01323.14;locus_tag=22222_2#22_04081;product=copper-sensitivity secreted suppressor protein C,Thiol-disulfide oxidoreductase D,Protein-disulfide isomerase,DSBA-like thioredoxin domain;protein_id=gnl|SC|22222_2#22_04081 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 27389 27895 . + 0 ID=22222_2#22_04082;gene=resA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145985.1,similar to AA sequence:UniProtKB:P35160,protein motif:CLUSTERS:PRK03147,protein motif:TIGRFAMs:TIGR00385,protein motif:Pfam:PF08534.4;locus_tag=22222_2#22_04082;product=suppressor for copper-sensitivity D,Thiol-disulfide oxidoreductase resA,thiol-disulfide oxidoreductase,periplasmic protein thiol:disulfide oxidoreductases%2C DsbE subfamily,Redoxin;protein_id=gnl|SC|22222_2#22_04082 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 28028 29269 . + 0 ID=22222_2#22_04083;eC_number=3.1.3.10;gene=agp;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570908.1,similar to AA sequence:UniProtKB:P19926,protein motif:CLUSTERS:PRK10173,protein motif:Pfam:PF00328.1;locus_tag=22222_2#22_04083;product=glucose-1-phosphatase/inositol phosphatase,Glucose-1-phosphatase precursor,glucose-1-phosphatase/inositol phosphatase,Histidine phosphatase superfamily (branch 2);protein_id=gnl|SC|22222_2#22_04083 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 29303 29530 . - 0 ID=22222_2#22_04084;gene=yccJ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087385.1,similar to AA sequence:UniProtKB:P0AB14,protein motif:CLUSTERS:PRK10174;locus_tag=22222_2#22_04084;product=YccJ-like protein,hypothetical protein,hypothetical protein;protein_id=gnl|SC|22222_2#22_04084 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 29551 30147 . - 0 ID=22222_2#22_04085;gene=wrbA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729847.1,similar to AA sequence:UniProtKB:P0A8G6,protein motif:CLUSTERS:PRK03767,protein motif:TIGRFAMs:TIGR01755,protein motif:Pfam:PF03358.9;locus_tag=22222_2#22_04085;product=trp repressor binding protein,Trp repressor-binding protein,NAD(P)H:quinone oxidoreductase,NAD(P)H:quinone oxidoreductase%2C type IV,NADPH-dependent FMN reductase;protein_id=gnl|SC|22222_2#22_04085 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 30532 30699 . + 0 ID=22222_2#22_04086;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087756.1,protein motif:Pfam:PF10685.3;locus_tag=22222_2#22_04086;product=Conidiation-specific protein 10,Stress-induced bacterial acidophilic repeat motif;protein_id=gnl|SC|22222_2#22_04086 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 30836 31474 . + 0 ID=22222_2#22_04087;gene=rutR;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729849.1,similar to AA sequence:UniProtKB:P0ACU2,protein motif:CLUSTERS:PRK15008,protein motif:TIGRFAMs:TIGR03613,protein motif:Pfam:PF08362.5;locus_tag=22222_2#22_04087;product=transcriptional regulator,Rut operon repressor,HTH-type transcriptional regulator RutR,pyrimidine utilization regulatory protein R,YcdC-like protein%2C C-terminal region;protein_id=gnl|SC|22222_2#22_04087 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 31471 31866 . - 0 ID=22222_2#22_04088;inference=ab initio prediction:Prodigal:2.60,protein motif:Cdd:COG3755,protein motif:Pfam:PF07007.6;locus_tag=22222_2#22_04088;product=Uncharacterized protein conserved in bacteria,Protein of unknown function (DUF1311);protein_id=gnl|SC|22222_2#22_04088 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 31925 35887 . - 0 ID=22222_2#22_04089;gene=putA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002243116.1,similar to AA sequence:UniProtKB:P09546,protein motif:CLUSTERS:PRK11809,protein motif:Cdd:COG4230,protein motif:TIGRFAMs:TIGR01238,protein motif:Pfam:PF01619.12;locus_tag=22222_2#22_04089;product=trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase,Bifunctional protein putA,trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase,Delta 1-pyrroline-5-carboxylate dehydrogenase,delta-1-pyrroline-5-carboxylate dehydrogenase,Proline dehydrogenase;protein_id=gnl|SC|22222_2#22_04089 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 36309 37817 . + 0 ID=22222_2#22_04090;gene=putP;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002145994.1,similar to AA sequence:UniProtKB:P07117,protein motif:CLUSTERS:PRK15419,protein motif:Cdd:COG4145,protein motif:TIGRFAMs:TIGR02121,protein motif:Pfam:PF00474.11;locus_tag=22222_2#22_04090;product=sodium/proline symporter,Propionate transporter,proline:sodium symporter PutP,Na+/panthothenate symporter,sodium/proline symporter,Sodium:solute symporter family;protein_id=gnl|SC|22222_2#22_04090 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 38435 38731 . + 0 ID=22222_2#22_04091;inference=ab initio prediction:Prodigal:2.60;locus_tag=22222_2#22_04091;product=hypothetical protein;protein_id=gnl|SC|22222_2#22_04091 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 38710 39498 . + 0 ID=22222_2#22_04092;gene=phoH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729855.1,similar to AA sequence:UniProtKB:P0A9K1,protein motif:CLUSTERS:PRK10536,protein motif:Cdd:COG1875,protein motif:Pfam:PF02562.10;locus_tag=22222_2#22_04092;product=phosphate starvation-inducible protein PsiH,Phosphate starvation-inducible protein psiH,hypothetical protein,Predicted ATPase related to phosphate starvation-inducible protein PhoH,PhoH-like protein;protein_id=gnl|SC|22222_2#22_04092 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 39604 40485 . - 0 ID=22222_2#22_04093;gene=ybbH_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570898.1,similar to AA sequence:UniProtKB:Q45581,protein motif:CLUSTERS:PRK11337,protein motif:Cdd:COG2222,protein motif:TIGRFAMs:TIGR03127,protein motif:Pfam:PF01418.11;locus_tag=22222_2#22_04093;product=putative transcriptional regulator,Uncharacterized HTH-type transcriptional regulator ybbH,DNA-binding transcriptional repressor RpiR,Predicted phosphosugar isomerases,6-phospho 3-hexuloisomerase,Helix-turn-helix domain%2C rpiR family;protein_id=gnl|SC|22222_2#22_04093 +ERS222222|SC|contig000020 Infernal:1.1 ncRNA 40486 40770 . + 0 ID=22222_2#22_04094;inference=COORDINATES:profile:Infernal:1.1;locus_tag=22222_2#22_04094;product=STnc500 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 40771 41673 . - 0 ID=22222_2#22_04095;gene=yidK;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002215057.1,similar to AA sequence:UniProtKB:P31448,protein motif:CLUSTERS:PRK10484,protein motif:Cdd:COG4146,protein motif:TIGRFAMs:TIGR00813,protein motif:Pfam:PF00474.11;locus_tag=22222_2#22_04095;product=sodium-glucose/galactose cotransporter,Uncharacterized symporter yidK,putative transporter,Predicted symporter,transporter%2C solute:sodium symporter (SSS) family,Sodium:solute symporter family;protein_id=gnl|SC|22222_2#22_04095 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 41741 42268 . - 0 ID=22222_2#22_04096;gene=sglT;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002215057.1,similar to AA sequence:UniProtKB:P96169,protein motif:CLUSTERS:PRK10484,protein motif:Cdd:COG4146,protein motif:TIGRFAMs:TIGR00813,protein motif:Pfam:PF00474.11;locus_tag=22222_2#22_04096;product=sodium-glucose/galactose cotransporter,Na(+)/glucose symporter,putative transporter,Predicted symporter,transporter%2C solute:sodium symporter (SSS) family,Sodium:solute symporter family;protein_id=gnl|SC|22222_2#22_04096 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 42605 43285 . - 0 ID=22222_2#22_04097;eC_number=5.1.3.9;gene=nanE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570896.2,similar to AA sequence:UniProtKB:P60668,protein motif:CLUSTERS:PRK01130,protein motif:Pfam:PF04131.8;locus_tag=22222_2#22_04097;product=N-acetylmannosamine-6-phosphate 2-epimerase,Putative N-acetylmannosamine-6-phosphate 2-epimerase,N-acetylmannosamine-6-phosphate 2-epimerase,Putative N-acetylmannosamine-6-phosphate epimerase;protein_id=gnl|SC|22222_2#22_04097 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 43804 44946 . + 0 ID=22222_2#22_04098;eC_number=5.1.3.24;gene=nanM;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570895.1,similar to AA sequence:UniProtKB:P44544,protein motif:CLUSTERS:PRK14131,protein motif:TIGRFAMs:TIGR03547,protein motif:Pfam:PF01344.19;locus_tag=22222_2#22_04098;product=N-acetylneuraminic acid mutarotase,N-acetylneuraminate epimerase precursor,N-acetylneuraminic acid mutarotase,mutatrotase%2C YjhT family,Kelch motif;protein_id=gnl|SC|22222_2#22_04098 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 44992 45684 . + 0 ID=22222_2#22_04099;gene=yiiy;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216068.1,similar to AA sequence:UniProtKB:Q934G3,protein motif:CLUSTERS:PRK09980,protein motif:Cdd:COG3203,protein motif:Pfam:PF06178.7;locus_tag=22222_2#22_04099;product=outer membrane protein,Oligogalacturonate-specific porin kdgM precursor,outer membrane porin L,Outer membrane protein (porin),Oligogalacturonate-specific porin protein (KdgM);protein_id=gnl|SC|22222_2#22_04099 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 45967 47247 . + 0 ID=22222_2#22_04100;gene=nanT_3;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570893.1,similar to AA sequence:UniProtKB:P41036,protein motif:CLUSTERS:PRK12307,protein motif:Cdd:COG2814,protein motif:TIGRFAMs:TIGR00891,protein motif:Pfam:PF00083.18;locus_tag=22222_2#22_04100;product=putative sialic acid transporter,Sialic acid permease,putative sialic acid transporter,Arabinose efflux permease,MFS transporter%2C sialate:H+ symporter (SHS) family,Sugar (and other) transporter;protein_id=gnl|SC|22222_2#22_04100 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 47261 48364 . + 0 ID=22222_2#22_04101;eC_number=1.1.1.292;gene=yjhC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216069.1,similar to AA sequence:UniProtKB:Q2I8V6,protein motif:CLUSTERS:PRK11579,protein motif:Pfam:PF01408.16;locus_tag=22222_2#22_04101;product=dehydrogenase-like protein,1%2C5-anhydro-D-fructose reductase,putative oxidoreductase,Oxidoreductase family%2C NAD-binding Rossmann fold;protein_id=gnl|SC|22222_2#22_04101 +ERS222222|SC|contig000020 Aragorn:1.2.36 tRNA 48701 48718 . - 0 ID=22222_2#22_04102;inference=COORDINATES:profile:Aragorn:1.2.36;locus_tag=22222_2#22_04102;product=tRNA-Ser(gga) +ERS222222|SC|contig000020 Prodigal:2.60 CDS 49024 49962 . + 0 ID=22222_2#22_04103;eC_number=1.1.1.79;gene=ghrA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729856.1,similar to AA sequence:UniProtKB:Q8ZQ30,protein motif:CLUSTERS:PRK15469,protein motif:Cdd:COG1932,protein motif:TIGRFAMs:TIGR01327,protein motif:Pfam:PF02826.13;locus_tag=22222_2#22_04103;product=2-hydroxyacid dehydrogenase,Glyoxylate/hydroxypyruvate reductase A,bifunctional glyoxylate/hydroxypyruvate reductase A,Phosphoserine aminotransferase,phosphoglycerate dehydrogenase,D-isomer specific 2-hydroxyacid dehydrogenase%2C NAD binding domain;protein_id=gnl|SC|22222_2#22_04103 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 50047 50784 . + 0 ID=22222_2#22_04104;eC_number=3.1.3.-;gene=ycdX;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570887.1,similar to AA sequence:UniProtKB:P75914,protein motif:CLUSTERS:PRK09248,protein motif:Cdd:COG1387,protein motif:TIGRFAMs:TIGR01856,protein motif:Pfam:PF02811.13;locus_tag=22222_2#22_04104;product=putative hydrolase,Probable phosphatase YcdX,putative hydrolase,Histidinol phosphatase and related hydrolases of the PHP family,histidinol phosphate phosphatase%2C HisJ family,PHP domain;protein_id=gnl|SC|22222_2#22_04104 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 50808 51362 . + 0 ID=22222_2#22_04105;gene=ycdY;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002146908.1,similar to AA sequence:UniProtKB:P75915,protein motif:CLUSTERS:PRK11621,protein motif:Cdd:COG3381,protein motif:Pfam:PF02613.9;locus_tag=22222_2#22_04105;product=chaperone%2C TorD family,Chaperone protein YcdY,twin-argninine leader-binding protein DmsD,Uncharacterized component of anaerobic dehydrogenases,Nitrate reductase delta subunit;protein_id=gnl|SC|22222_2#22_04105 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 51451 51945 . + 0 ID=22222_2#22_04106;gene=ycdZ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P75916,protein motif:Pfam:PF06496.5;locus_tag=22222_2#22_04106;product=Inner membrane protein ycdZ,Protein of unknown function (DUF1097);protein_id=gnl|SC|22222_2#22_04106 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 51983 52816 . - 0 ID=22222_2#22_04107;gene=csgG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729860.1,protein motif:CLUSTERS:PRK15184,protein motif:Pfam:PF03783.8;locus_tag=22222_2#22_04107;product=assembly/transport component in curli production,curli production assembly/transport protein CsgG,Curli production assembly/transport component CsgG;protein_id=gnl|SC|22222_2#22_04107 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 52843 53259 . - 0 ID=22222_2#22_04108;gene=csgF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729861.1,protein motif:CLUSTERS:PRK10050,protein motif:Pfam:PF10614.3;locus_tag=22222_2#22_04108;product=assembly/transport component in curli production,curli assembly protein CsgF,Curli production assembly/transport component CsgF;protein_id=gnl|SC|22222_2#22_04108 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 53286 53681 . - 0 ID=22222_2#22_04109;gene=csgE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729862.1,protein motif:CLUSTERS:PRK10386,protein motif:Pfam:PF10627.3;locus_tag=22222_2#22_04109;product=assembly/transport component in curli production,curli assembly protein CsgE,Curli assembly protein CsgE;protein_id=gnl|SC|22222_2#22_04109 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 53710 54336 . - 0 ID=22222_2#22_04110;gene=csgD;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729863.1,similar to AA sequence:UniProtKB:P52106,protein motif:CLUSTERS:PRK10100,protein motif:Cdd:COG2909,protein motif:TIGRFAMs:TIGR03020,protein motif:Pfam:PF00196.13;locus_tag=22222_2#22_04110;product=regulatory protein,CsgBAC operon transcriptional regulatory protein,DNA-binding transcriptional regulator CsgD,ATP-dependent transcriptional regulator,transcriptional regulator EpsA,Bacterial regulatory proteins%2C luxR family;protein_id=gnl|SC|22222_2#22_04110 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 55092 55547 . + 0 ID=22222_2#22_04111;gene=csgB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729864.1,similar to AA sequence:UniProtKB:P0A1E9,protein motif:CLUSTERS:PRK10101,protein motif:Pfam:PF07012.6;locus_tag=22222_2#22_04111;product=nucleation component of curlin monomers,Fimbrin SEF17 minor subunit,curlin minor subunit CsgB,Curlin associated repeat;protein_id=gnl|SC|22222_2#22_04111 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 55589 56044 . + 0 ID=22222_2#22_04112;gene=csgA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729865.1,similar to AA sequence:UniProtKB:P0A1E7,protein motif:CLUSTERS:PRK10051,protein motif:Pfam:PF07012.6;locus_tag=22222_2#22_04112;product=major curlin subunit,Fimbrin SEF17,major curlin subunit,Curlin associated repeat;protein_id=gnl|SC|22222_2#22_04112 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 56106 56432 . + 0 ID=22222_2#22_04113;gene=csgC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_007470940.1,similar to AA sequence:UniProtKB:P0A1Z9,protein motif:CLUSTERS:PRK10102,protein motif:Pfam:PF10610.3;locus_tag=22222_2#22_04113;product=curli assembly protein CsgC,Curli assembly protein CsgC precursor,curli assembly protein CsgC,Thin aggregative fimbriae synthesis protein;protein_id=gnl|SC|22222_2#22_04113 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 56564 56884 . + 0 ID=22222_2#22_04114;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087410.1;locus_tag=22222_2#22_04114;product=Fimbrial protein;protein_id=gnl|SC|22222_2#22_04114 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 56972 57511 . + 0 ID=22222_2#22_04115;eC_number=3.5.1.-;gene=ymdB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087411.1,similar to AA sequence:UniProtKB:P0A8D6,protein motif:CLUSTERS:PRK00431,protein motif:Pfam:PF01661.15;locus_tag=22222_2#22_04115;product=Macro domain%2C possibly ADP-ribose binding module,O-acetyl-ADP-ribose deacetylase,RNase III inhibitor,Macro domain;protein_id=gnl|SC|22222_2#22_04115 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 57450 58934 . + 0 ID=22222_2#22_04116;eC_number=2.7.8.-;gene=ybhO_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570877.2,similar to AA sequence:UniProtKB:P0AA84,protein motif:CLUSTERS:PRK01642,protein motif:TIGRFAMs:TIGR04265;locus_tag=22222_2#22_04116;product=phospholipase,Putative cardiolipin synthase YbhO,cardiolipin synthetase,cardiolipin synthase;protein_id=gnl|SC|22222_2#22_04116 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 58951 60105 . - 0 ID=22222_2#22_04117;eC_number=2.1.-.-;gene=mdoC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570876.1,similar to AA sequence:UniProtKB:P75920,protein motif:CLUSTERS:PRK03854,protein motif:Cdd:COG3274,protein motif:Pfam:PF01757.16;locus_tag=22222_2#22_04117;product=glucans biosynthesis protein,Glucans biosynthesis protein C,glucans biosynthesis protein,Uncharacterized protein conserved in bacteria,Acyltransferase family;protein_id=gnl|SC|22222_2#22_04117 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 60359 61912 . + 0 ID=22222_2#22_04118;gene=mdoG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570875.1,similar to AA sequence:UniProtKB:P33136,protein motif:CLUSTERS:PRK13274,protein motif:Cdd:COG3131,protein motif:Pfam:PF04349.6;locus_tag=22222_2#22_04118;product=glucan biosynthesis protein G,Glucans biosynthesis protein G precursor,glucan biosynthesis protein G,Periplasmic glucans biosynthesis protein,Periplasmic glucan biosynthesis protein%2C MdoG;protein_id=gnl|SC|22222_2#22_04118 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 61905 64448 . + 0 ID=22222_2#22_04119;eC_number=2.4.1.-;gene=mdoH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216085.1,similar to AA sequence:UniProtKB:P62517,protein motif:CLUSTERS:PRK05454,protein motif:Pfam:PF00535.20;locus_tag=22222_2#22_04119;product=glucosyltransferase MdoH,Glucans biosynthesis glucosyltransferase H,glucosyltransferase MdoH,Glycosyl transferase family 2;protein_id=gnl|SC|22222_2#22_04119 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 64522 64749 . + 0 ID=22222_2#22_04120;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729872.1,protein motif:CLUSTERS:PRK10175,protein motif:Cdd:COG5645,protein motif:Pfam:PF07119.6;locus_tag=22222_2#22_04120;product=lipoprotein,lipoprotein,Predicted periplasmic lipoprotein,Protein of unknown function (DUF1375);protein_id=gnl|SC|22222_2#22_04120 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 64750 65124 . - 0 ID=22222_2#22_04121;gene=msyB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729873.1,protein motif:CLUSTERS:PRK11467;locus_tag=22222_2#22_04121;product=acidic protein MsyB,secY/secA suppressor protein;protein_id=gnl|SC|22222_2#22_04121 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 65206 66420 . - 0 ID=22222_2#22_04122;gene=yceE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729874.1,similar to AA sequence:UniProtKB:O31762,protein motif:CLUSTERS:PRK09874,protein motif:Cdd:COG2814,protein motif:TIGRFAMs:TIGR00880,protein motif:Pfam:PF07690.10;locus_tag=22222_2#22_04122;product=membrane transport protein,Bacillibactin exporter,drug efflux system protein MdtG,Arabinose efflux permease,multidrug resistance protein,Major Facilitator Superfamily;protein_id=gnl|SC|22222_2#22_04122 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 66575 67495 . - 0 ID=22222_2#22_04123;eC_number=2.3.1.-;gene=htrB_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729875.1,similar to AA sequence:UniProtKB:P0ACV0,protein motif:CLUSTERS:PRK06860,protein motif:Cdd:COG1560,protein motif:TIGRFAMs:TIGR02207,protein motif:Pfam:PF03279.7;locus_tag=22222_2#22_04123;product=lipid A biosynthesis lauroyl acyltransferase,Lipid A biosynthesis lauroyl acyltransferase,lipid A biosynthesis lauroyl acyltransferase,Lauroyl/myristoyl acyltransferase,lipid A biosynthesis lauroyl (or palmitoleoyl) acyltransferase,Bacterial lipid A biosynthesis acyltransferase;protein_id=gnl|SC|22222_2#22_04123 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 67715 68767 . + 0 ID=22222_2#22_04124;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087420.1,protein motif:CLUSTERS:PRK00142,protein motif:Cdd:COG2210,protein motif:Pfam:PF00581.14;locus_tag=22222_2#22_04124;product=Rhodanese-like sulfurtransferase,putative rhodanese-related sulfurtransferase,Uncharacterized conserved protein,Rhodanese-like domain;protein_id=gnl|SC|22222_2#22_04124 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 68819 69394 . - 0 ID=22222_2#22_04125;gene=yceI_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_006087865.1,similar to AA sequence:UniProtKB:P0A8X2,protein motif:CLUSTERS:PRK03757,protein motif:Cdd:COG2353,protein motif:Pfam:PF04264.7;locus_tag=22222_2#22_04125;product=YceI protein,hypothetical protein,hypothetical protein,Uncharacterized conserved protein,YceI-like domain;protein_id=gnl|SC|22222_2#22_04125 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 69391 69795 . - 0 ID=22222_2#22_04126;gene=yceJ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_005212184.1,similar to AA sequence:UniProtKB:P75925,protein motif:CLUSTERS:PRK11513,protein motif:Pfam:PF00033.13;locus_tag=22222_2#22_04126;product=cytochrome b561-like protein 2,Cytochrome b561 homolog 2,cytochrome b561,Cytochrome b(N-terminal)/b6/petB;protein_id=gnl|SC|22222_2#22_04126 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 70226 70243 . - 0 ID=22222_2#22_04127;gene=yceO;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_216094.1,similar to AA sequence:UniProtKB:P64442,protein motif:Pfam:PF10968.2;locus_tag=22222_2#22_04127;product=inner membrane protein,hypothetical protein,Protein of unknown function (DUF2770);protein_id=gnl|SC|22222_2#22_04127 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 70380 71498 . - 0 ID=22222_2#22_04128;eC_number=1.5.3.1,1.5.3.-;gene=solA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729880.1,similar to AA sequence:UniProtKB:P40874,protein motif:CLUSTERS:PRK11259,protein motif:Cdd:COG4121,protein motif:TIGRFAMs:TIGR01377,protein motif:Pfam:PF01266.18;locus_tag=22222_2#22_04128;product=sarcosine oxidase,N-methyl-L-tryptophan oxidase,N-methyltryptophan oxidase,Uncharacterized conserved protein,sarcosine oxidase%2C monomeric form,FAD dependent oxidoreductase;protein_id=gnl|SC|22222_2#22_04128 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 71611 71865 . - 0 ID=22222_2#22_04129;gene=bssS;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570863.1,protein motif:CLUSTERS:PRK12301;locus_tag=22222_2#22_04129;product=biofilm formation regulatory protein BssS,biofilm formation regulatory protein BssS;protein_id=gnl|SC|22222_2#22_04129 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 72155 72418 . - 0 ID=22222_2#22_04130;gene=dinI_3;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729882.1,similar to AA sequence:UniProtKB:P0ABR1,protein motif:CLUSTERS:PRK10597,protein motif:Pfam:PF06183.7;locus_tag=22222_2#22_04130;product=damage-inducible protein,DNA-damage-inducible protein I,DNA damage-inducible protein I,DinI-like family;protein_id=gnl|SC|22222_2#22_04130 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 72492 73538 . - 0 ID=22222_2#22_04131;eC_number=3.5.2.3,3.5.2.3;gene=pyrC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729883.1,similar to AA sequence:UniProtKB:P06204,protein motif:CLUSTERS:PRK05451,protein motif:Cdd:COG0418,protein motif:TIGRFAMs:TIGR00856,protein motif:Pfam:PF01979.14;locus_tag=22222_2#22_04131;product=dihydroorotase,Dihydroorotase,dihydroorotase,Dihydroorotase,dihydroorotase%2C homodimeric type,Amidohydrolase family;protein_id=gnl|SC|22222_2#22_04131 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 73642 74268 . - 0 ID=22222_2#22_04132;gene=yceB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_007470922.1,similar to AA sequence:UniProtKB:P0AB26,protein motif:CLUSTERS:PRK10598,protein motif:Pfam:PF07273.6;locus_tag=22222_2#22_04132;product=lipoprotein,Uncharacterized lipoprotein yceB precursor,lipoprotein,Protein of unknown function (DUF1439);protein_id=gnl|SC|22222_2#22_04132 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 74326 74973 . - 0 ID=22222_2#22_04133;gene=grxB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729885.1,similar to AA sequence:UniProtKB:P0AC59,protein motif:CLUSTERS:PRK10387,protein motif:TIGRFAMs:TIGR02182,protein motif:Pfam:PF04399.7;locus_tag=22222_2#22_04133;product=glutaredoxin,Glutaredoxin-2,glutaredoxin 2,glutaredoxin%2C GrxB family,Glutaredoxin 2%2C C terminal domain;protein_id=gnl|SC|22222_2#22_04133 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 75037 76245 . - 0 ID=22222_2#22_04134;gene=mdtH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_001570858.1,similar to AA sequence:UniProtKB:P69367,protein motif:CLUSTERS:PRK11646,protein motif:Cdd:COG2814,protein motif:TIGRFAMs:TIGR00880,protein motif:Pfam:PF07690.10;locus_tag=22222_2#22_04134;product=multidrug resistance protein MdtH,Multidrug resistance protein MdtH,multidrug resistance protein MdtH,Arabinose efflux permease,multidrug resistance protein,Major Facilitator Superfamily;protein_id=gnl|SC|22222_2#22_04134 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 76482 77066 . + 0 ID=22222_2#22_04135;eC_number=2.3.1.-;gene=rimJ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729887.1,similar to AA sequence:UniProtKB:P96579,protein motif:CLUSTERS:PRK10809,protein motif:TIGRFAMs:TIGR03585,protein motif:Pfam:PF00583.18;locus_tag=22222_2#22_04135;product=ribosomal-protein-alanine acetyltransferase,Putative ribosomal N-acetyltransferase YdaF,ribosomal-protein-S5-alanine N-acetyltransferase,pseudaminic acid biosynthesis N-acetyl transferase,Acetyltransferase (GNAT) family;protein_id=gnl|SC|22222_2#22_04135 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 77102 77749 . + 0 ID=22222_2#22_04136;gene=yceH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P29217,protein motif:CLUSTERS:PRK11239,protein motif:Cdd:COG3132,protein motif:Pfam:PF04337.6;locus_tag=22222_2#22_04136;product=G20.3,hypothetical protein,Uncharacterized protein conserved in bacteria,Protein of unknown function%2C DUF480;protein_id=gnl|SC|22222_2#22_04136 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 77751 78674 . + 0 ID=22222_2#22_04137;gene=mviM;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729889.1,similar to AA sequence:UniProtKB:P75931,protein motif:CLUSTERS:PRK11579,protein motif:Cdd:COG3132,protein motif:Pfam:PF01408.16;locus_tag=22222_2#22_04137;product=virulence factor MviM,Virulence factor mviM homolog,putative oxidoreductase,Uncharacterized protein conserved in bacteria,Oxidoreductase family%2C NAD-binding Rossmann fold;protein_id=gnl|SC|22222_2#22_04137 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 78939 80513 . + 0 ID=22222_2#22_04138;gene=mviN;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002146873.1,similar to AA sequence:UniProtKB:P37169,protein motif:TIGRFAMs:TIGR01695,protein motif:Pfam:PF03023.8;locus_tag=22222_2#22_04138;product=integral membrane protein MviN,hypothetical protein,integral membrane protein MviN,MviN-like protein;protein_id=gnl|SC|22222_2#22_04138 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 80595 81017 . - 0 ID=22222_2#22_04139;gene=flgN;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729891.1,protein motif:CLUSTERS:PRK15459,protein motif:Pfam:PF05130.6;locus_tag=22222_2#22_04139;product=flagella synthesis protein FlgN,flagella synthesis chaperone protein FlgN,FlgN protein;protein_id=gnl|SC|22222_2#22_04139 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 81022 81315 . - 0 ID=22222_2#22_04140;gene=flgM;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729892.1,similar to AA sequence:UniProtKB:P26477,protein motif:CLUSTERS:PRK10810,protein motif:TIGRFAMs:TIGR03824,protein motif:Pfam:PF04316.7;locus_tag=22222_2#22_04140;product=negative regulator of flagellin synthesis (anti-sigma factor),Anti-sigma-28 factor,anti-sigma28 factor FlgM,flagellar biosynthesis anti-sigma factor FlgM,Anti-sigma-28 factor%2C FlgM;protein_id=gnl|SC|22222_2#22_04140 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 81407 82066 . - 0 ID=22222_2#22_04141;gene=flgA;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729893.1,protein motif:CLUSTERS:PRK07018,protein motif:TIGRFAMs:TIGR03170,protein motif:Pfam:PF08666.6;locus_tag=22222_2#22_04141;product=flagellar basal body P-ring protein FlgA,flagellar basal body P-ring biosynthesis protein FlgA,flagella basal body P-ring formation protein FlgA,SAF domain;protein_id=gnl|SC|22222_2#22_04141 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 82223 82639 . + 0 ID=22222_2#22_04142;gene=flgB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729894.1,similar to AA sequence:UniProtKB:P16437,protein motif:CLUSTERS:PRK05680,protein motif:Cdd:COG1815,protein motif:TIGRFAMs:TIGR01396,protein motif:Pfam:PF00460.14;locus_tag=22222_2#22_04142;product=flagellar basal-body rod protein FlgB,Putative proximal rod protein,flagellar basal body rod protein FlgB,Flagellar basal body protein,flagellar basal-body rod protein FlgB,Flagella basal body rod protein;protein_id=gnl|SC|22222_2#22_04142 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 82643 83047 . + 0 ID=22222_2#22_04143;gene=flgC;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729895.1,similar to AA sequence:UniProtKB:P0A1I7,protein motif:CLUSTERS:PRK05681,protein motif:Cdd:COG4786,protein motif:TIGRFAMs:TIGR01395,protein motif:Pfam:PF06429.7;locus_tag=22222_2#22_04143;product=flagellar basal-body rod protein FlgC,Putative proximal rod protein,flagellar basal body rod protein FlgC,Flagellar basal body rod protein,flagellar basal-body rod protein FlgC,Domain of unknown function (DUF1078);protein_id=gnl|SC|22222_2#22_04143 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 83059 83757 . + 0 ID=22222_2#22_04144;gene=flgD;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729896.1,similar to AA sequence:UniProtKB:P0A1I9,protein motif:CLUSTERS:PRK06655,protein motif:Cdd:COG1843,protein motif:Pfam:PF03963.8;locus_tag=22222_2#22_04144;product=flagellar hook formation protein FlgD,Basal-body rod modification protein flgD,flagellar basal body rod modification protein,Flagellar hook capping protein,Flagellar hook capping protein;protein_id=gnl|SC|22222_2#22_04144 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 83784 84995 . + 0 ID=22222_2#22_04145;gene=flgE;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_002146866.1,similar to AA sequence:UniProtKB:P0A1J1,protein motif:CLUSTERS:PRK05682,protein motif:Cdd:COG1749,protein motif:TIGRFAMs:TIGR03506,protein motif:Pfam:PF07559.8;locus_tag=22222_2#22_04145;product=flagellar hook protein FlgE,Flagellar hook protein flgE,flagellar hook protein FlgE,Flagellar hook protein FlgE,flagellar hook-basal body protein,Flagellar basal body protein FlaE;protein_id=gnl|SC|22222_2#22_04145 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 85016 85771 . + 0 ID=22222_2#22_04146;gene=flgF;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729898.1,similar to AA sequence:UniProtKB:P16323,protein motif:CLUSTERS:PRK12640,protein motif:Cdd:COG4787,protein motif:TIGRFAMs:TIGR03506,protein motif:Pfam:PF06429.7;locus_tag=22222_2#22_04146;product=flagellar basal-body rod protein FlgF,Putative proximal rod protein,flagellar basal body rod protein FlgF,Flagellar basal body rod protein,flagellar hook-basal body protein,Domain of unknown function (DUF1078);protein_id=gnl|SC|22222_2#22_04146 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 85785 86567 . + 0 ID=22222_2#22_04147;gene=flgG;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729899.1,similar to AA sequence:UniProtKB:P0A1J3,protein motif:CLUSTERS:PRK12694,protein motif:Cdd:COG4786,protein motif:TIGRFAMs:TIGR02488,protein motif:Pfam:PF06429.7;locus_tag=22222_2#22_04147;product=flagellar basal-body rod protein FlgG (distal rod protein),Distal rod protein,flagellar basal body rod protein FlgG,Flagellar basal body rod protein,flagellar basal-body rod protein FlgG,Domain of unknown function (DUF1078);protein_id=gnl|SC|22222_2#22_04147 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 86655 87320 . + 0 ID=22222_2#22_04148;gene=flgH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729900.1,similar to AA sequence:UniProtKB:Q9PPM0,protein motif:CLUSTERS:PRK00249,protein motif:Pfam:PF02107.10;locus_tag=22222_2#22_04148;product=flagellar L-ring protein,Basal body L-ring protein,flagellar basal body L-ring protein,Flagellar L-ring protein;protein_id=gnl|SC|22222_2#22_04148 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 87332 88429 . + 0 ID=22222_2#22_04149;gene=flgI;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729901.1,similar to AA sequence:UniProtKB:Q9PMJ8,protein motif:CLUSTERS:PRK05303,protein motif:Cdd:COG1706,protein motif:Pfam:PF02119.10;locus_tag=22222_2#22_04149;product=flagellar P-ring protein,Basal body P-ring protein,flagellar basal body P-ring protein,Flagellar basal-body P-ring protein,Flagellar P-ring protein;protein_id=gnl|SC|22222_2#22_04149 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 88429 89379 . + 0 ID=22222_2#22_04150;eC_number=3.2.1.-;gene=flgJ;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729902.1,similar to AA sequence:UniProtKB:P15931,protein motif:CLUSTERS:PRK05684,protein motif:Cdd:COG3951,protein motif:TIGRFAMs:TIGR02541,protein motif:Pfam:PF01832.14;locus_tag=22222_2#22_04150;product=flagellar protein FlgJ,Peptidoglycan hydrolase flgJ,flagellar rod assembly protein/muramidase FlgJ,Rod binding protein,flagellar rod assembly protein/muramidase FlgJ,Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase;protein_id=gnl|SC|22222_2#22_04150 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 89444 91105 . + 0 ID=22222_2#22_04151;gene=flgK;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729903.1,similar to AA sequence:UniProtKB:P0A1J5,protein motif:CLUSTERS:PRK08147,protein motif:Cdd:COG1749,protein motif:TIGRFAMs:TIGR02492,protein motif:Pfam:PF06429.7;locus_tag=22222_2#22_04151;product=flagellar hook-associated protein 1,Flagellar hook-associated protein 1,flagellar hook-associated protein FlgK,Flagellar hook protein FlgE,flagellar hook-associated protein FlgK,Domain of unknown function (DUF1078);protein_id=gnl|SC|22222_2#22_04151 +ERS222222|SC|contig000020 Prodigal:2.60 CDS 91120 92073 . + 0 ID=22222_2#22_04152;gene=flgL;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_004729904.1,similar to AA sequence:UniProtKB:P16326,protein motif:CLUSTERS:PRK08027,protein motif:Cdd:COG3951,protein motif:TIGRFAMs:TIGR02550,protein motif:Pfam:PF00669.14;locus_tag=22222_2#22_04152;product=flagellar hook-associated protein 3,Hook-filament junction protein,flagellar hook-associated protein FlgL,Rod binding protein,flagellar hook-associated protein 3,Bacterial flagellin N-terminal helical region;protein_id=gnl|SC|22222_2#22_04152 +ERS222222|SC|contig000020 Infernal:1.1 ncRNA 92162 92179 . + 0 ID=22222_2#22_04153;inference=COORDINATES:profile:Infernal:1.1;locus_tag=22222_2#22_04153;product=STnc490k +##FASTA +>ERS222222|SC|contig000020 +TATCCGGGCAGCCCGTTTACGGGCCGTAAGTAACGAAGTTTGATGCAAATGTCAGATCGT +ATGCGCCTGTTAGGGCGCGGCTGGTAAGAGAGACTTACAGGCGCATCAGAAAAACCTCCG +GCTATGCCGGAGGATATTTATTTTTTGGGCGCATAGAATATAGTTAGAAAATACTGCTAG +AACATTTCCCGAAAAAACGGACTACGTGGGTTATTAGTTTCTTTTCGTTTCTTGATGTGT +CTATTTATTGAAGATGTAGACCATTCTGGGAGATGAAGGATGCCCCATCTCTTTCAGAAT +AATGTTGGTATATTCGACAACAGGGCCTCTTGAATGATTTTCTTCTTTATCCTGAAGATG +GGTCAGTGCATGTACAACTTCATGAGTAAATGAACGTTTTGTGTCAAAAAGTTGTCTTCC +TTCGTTACTTTCATAATGTTCGGTATATGAATAATCAGAATCGTCCAGATTGAGACAAAT +AACTTTCCTGCCTTCTGAAAGTTTGAAGTGTTACTGAGCCACGGTAGTTTCAAAGGCTTC +GCCTGCCCCCGGTAGCCAGCGCTGCTCCACATAATGTAGTTCTTTTTCATATGCGTAATT +CATCAGTCTGCGGAATGTTTCGCTTTGGGTATACGCATTTTGAAGTACGGAGGATAGTTC +ATCGTAGCATTCGTCATAAGTGTCGTCATCAAATTCTGTATCAGGGTCTATTCCACCCGC +GCCTGAGATAAGGTACTCCACCACACACTCTGACTCCAGACGGAATTCACTGTTTATGGC +AAGGCTGTCATGAGCAAGGCGTAGCCGTGAGGAGTTTGGTGCATGTTCGGGAATATCGGG +GAAAACAGGTGTATCTGCGGTATTTAATCCATATGTGGATACTCCGCTTTGAGGTATTAA +TCTGTAGGTGACCGGAAGCATAATTTCTTATTACCTGACTGCAATTATGAATTATTTAAA +TTAAACAATAATAGTGTTTTTAGTTAATGTGCAACATACAGATAACGCTATGATTCAGGC +AAAACCAACAAGTAATACGCTGAAAATGTTATATATAATGAAGCTTAGGGGCGGGGTTTG +TTTAATAAAACAAGGAGGGCTTCTGTTTGAATACTTCTTGTTTATAAAATCCCTTTATCT +CGACTAAAATATTGGATGGGGGAAAAGCGTTTAATCATTGTAATCCGGGAGTGGAGTAGG +GGTATGTTGACTACCTGTCAGATCGGCTCCTGATAATGCTTTCGCTAAAGTTAGAGCTAT +CTTATCTAATTTTGCACCATTTAGTTTGGTGTAAGTTAAGTCTGAGCCGAATAGAATTGC +AGCGGTTAAGTTTACACCGGACATGTTAGCGCAAGTCAGGTCTGCGTGAGTCAGGTTTGC +TTTAGTCATGTTTGAACCCATTAGATTTACAGAGTGTAGATTTGCACAACACAAATTTGC +ACCGACTAAATTTACATTAGATAGATTTGTTTAACGGAAATCTGCATTAGAAGCATCTAT +GTCTGACAAATCTTCTCCCTGGAAATCTTTATAAGCTAGGTTTACTCCGCGCAGGTTCAG +AAAACCATCCTCGGTTATAAGTGAATCAGGCTATTGTATATTATGTTTACTCATCAGTTT +TAACATTCGACATACATTCCAAAATCTCTCACAATCAACTTTATCCGTTACAGTTTTTCC +ATTTTTGTTCACTTCAATAGTGACCATGGGATACGTATTTTCGGATGCTGCTCCACATGA +CAGACATATAGTACACCCGTTGACATCCTCCAAAAATATTTTATTACCATCGAAGAAAGC +ATCTTTATTTACATATAATAATGATGTGGTCAATTTTCCAATTACCTCCCAAAAGCATCT +TTCATTGCTTCTTCTTACTCCACCACAGGTAAAAAAATTGACAAACCATTCCAGTATACC +GCGTGGTGAAGTTGCACTTTTCATTGCTTCTTACGTACCGGTACCGGCCGCATGCAAATA +TCTTAATATATTTTCTGGGGACGCGTTAGTTAATGGCATTTTGATTCCTTCTTATGGAAG +TGAGTCGATTCCTTATAGGTGTGAGTCAAGTCACATTTATACAAGGAATAATAAAAAAAG +ATATAAGGTGATTTTTGTATTTAGAGCTTTGGATGAGTATGAGTAGGTGTCTGGCATCTG +ACAAGAGGCGATGATATCTGCCATAACGGTGAAGCAGAAGTAATATCACCCGTGAATAAT +AAGATTATCCTTGCTATTGACTTCCTTCATTTACAGCATAGCTTACGCCTCATCATCATT +GAATAAACAATTAAGTTTGTTGAGCGAAAATTAACTTAAAGAAAAAATAATAAGCTTTAA +TATTTTTTGCAGCATTTCAACTTATAGCAGAAAAAATGTGCGTAGATGGCGTAAAAACCT +GATGAGCAGGAATACTTACACACTAAAAATGCACCCGCAAACAGAGCAAAATGAGAAAGA +GGAACGTTTGCCCTTTACATTTCCACCAAAGAATCTGGTTTTGTCTCTTGTAAAGGGCAT +ACGTATCGCGTTTTATCTCATTAAGAAAGTATATTGACGTATTAAATTATGCATAATGCT +CTTTCAATTGCTTCACGTTTGAAATGAATAATACAAAACCAGTGAGCGCCTCTTCTTCGG +TACTGGTTTGCGGCAAGCGATAAAGCGCCACTAAAGCAGTATTGTCTGCATCAGCGCCGA +TAGTGACGGCGCTGGCGTAGTTAAGACGTAAAAAATGCTGCAAAGTCAGAGTGTCGTCAG +GCAGTGGCATAAAGGGACAGCACATTTCCAGTATATGATCGGATTCATTAAAATAAACCT +GTATCCCATCATCAATGATAAGCAGTGGCTCAACTTCTGGCGCATCCAGGCCTAACGCGT +CATATAAACGATTTAATAGACTTTCCATATAGATACCTCAAGACTCAAGATGTGATTAAT +GAAGAAATACCTTTTACTGACTGCCAAATATTATCATCCCCAACTCGTTTTTGATAGGAA +AGATTGAGCACCTCTGGCGATAAATTTTTCATTACTTTGTTTCCCGCCCCGCCCGTATTT +TGTTTCTGAATCTCCAGGTTACCGCTATTCAGTAATACTTTTTGGAAAATTTTCTGTCCA +CCGCTATCCGGAAGACTACCAGGCGCACTTAACATATGGGTCTGATGGAAAGAAATGAGC +TCTCGCTTGATTTCTGAATCCATCATCCCTGTACGATCTTTGCCGCTTTTACAATTCCAG +GCGGGCACCGCGTCAATTTCATGGGCTAACATGGCAAGGCGTTGTGCGAGTTTATAGGGT +TCGCCGCCATCTTTATGATGTTGGTTATTTTTCCAGATATCCTTAATCTGGCGCGCTAAT +GTATTGACGACCTCATAATTATCCGGGTATTGCGCCAGCCATTCGCCAACCCAGCCACCT +GGTCTGGCTTCAGGGCGTAAATCATTGCCTAATAACTGATGTAGCGCTTCGGCATTATAG +CTATCTGATGCTTTAAGGCCAAAGCCGAGCTTGAGCGCCAGCTCATTAACACCCACATTA +AATGCGGCGACGTCCGGTTTTATTTTTACCGTCTGTAGATCGCCATCTTTATTGCGGATT +TTTAAATGAATCATTTTTCCCGGCTGGGTCAACGATTGCCATGCGCGCATTTGATCCTCG +ACCATAGTTCCCTCTTTGCCGAAAATATTCGACGCGGTGAGTAACCCGACGGATACCAGT +TTCAGGCTTACCGCTTCGCCCTCTAAGGCTCTGTTAAGCAACTCAGGTTTACTAAAAAGT +GCCGCAGCTAATACTTCTTTGGCTTTGTTTTCAGCGCCGGCCTGACGCAGAAGCGGATCT +TTTTCATGATAGGGGGAAAGCACACCATGACGTATCCCGCAAAAAAGCGTTTTATCTTTA +CCGTCCTCATGCACACTCACCGTGGACATCCACAAATTATTGGCGTGATGAATATTCTTG +GTATCCCAACTGCATACGCCCTTTCCCTCATAAGCACTGGGAAAGATATCTTTTGCGCCG +ATTTTCATCTCTGCGGCAGGGAGCTGCGTGTTGGTATAGTGATGCCCGTTATGCGTGAGT +GTATTTTTTATGGTTTGCCAGGGCTGGTTATTGAGCTGCTTGACCTGAGCATCTCTAAAC +GCTACTGCCGCAAAGCGATGAGCTTCTTTTGCAGGTAAGCCATTTTGCTGCTGAGTGCGT +GCTGCAATAAGTTCGATAAGATTTTTCTTCAATGCTTTTGCCGCAGCTTCTTCTTGTTTT +GTTGCTGGCCGGTCCGCTTTAACTTTGGCTAACTCCATTTGGTTTGCCATTGACGTTAGA +ACCGGGTCTTGTTTACCCAGAACGGTTGCCGCGACGGTAAGAAGATCGCGCTGTAAGTTA +TAGAGGTTATGCAGCGAGTGGTTAGACGTCTTCTGATGCTGTAGATAATTCCCCCATGTC +GCGCCAGGTTCTCGCAGGACAATAATTTCCGGGCGAGCGTCGGGCGCTTTAGCCGGCGCT +TTGCCCTGGCCTGAGAGAATCTGCATTCCGTTGTATAAGGTTTTTTGTAGGCTTTTAAAA +GCCTCCTGGGTTTTTAGTGAAGCTGAGTGATAGAAGCTCTGTATTTGCATAGCGTTTTTA +ATATTCCTGAATAGGGGAGTGGGAACATTCAACAGGGTTAACAATCTTTTAAAAGGATGT +GACTTTTATGCACCAGGAACTTTAAAAAAATGTCCTTTTTAATGAGGAAACGCTTCTGAT +CAGGCGGGGAGGCATCCTGACGTCCATACGTAGTGGCGATCATGGGGGAGATCGGTACAT +CAAATGTTCATAAAATCTACAAACTTCACAATTTAGGGCACAACTTTTATTGAAAACCCA +CCTTCTTGATTCAGATCAAATTCACCGATTTACTCCTGCGTAAAGTAACGGCGTTACATC +AAATGTTATACAGGTGTGTGTATGCCAGCAAAGCCCCGGACGAGTAAGACCGTGACGAAG +AATATTCGTTTTTCCTATTCCATGCTTGAACAGATAGAATTCGCGTTGAAATCTGAAAAG +ACGCGGAATTTTTCAGCATGGGTAAAAGAGGCCTGTCGGGAAAAGTTATGTAACACGGGA +CATAAGCTGTAGTTATCGTCTTATGTAAGAGGGGGCGGCCATTTTGAAAAGAACAACGTG +CTTATATACCTCCTGGGTCTTTGCCGCTTTTGTCTCTCTGCTGATATTTGTCTGGAGTGT +CATAAACTATCCTCTCTATGAATCCATAATAATTATTGTCTTTTATATCTGGCTAATTCT +GGTACCGCTTTATCTTATTGTGTATGAGTGGCTAATAGATTGTCATTAAATTTATGGCTG +CGTACTTGAAAAGTGATATTTCATATCTGTGCGGTAAGTCATTGTCGTAATAATATTATT +GGTCAGGCGACGGGCGAGCGTCTGCGCATTTTGCATCGTTTTATCTTCAAAATTTTGCAG +TAAGCGTTGTGCTTCTTTCGGATGCGACGCATATAATCTCAGATAGCTCTGCTCCATCTT +ATACTGTTGCTTAGCTGTTTGCTGTTCAAATGTTTTCCAGGCATGTTGCACATCTGGCGC +AAACGTATTGTAGTCTTGCATAACCAGTGTTTGCAGCGTGCGGAATGTCCAGTAGGTAGA +GTCGTTGCTCGCCCGATCGGTTCCTTTATCATCTCCGGGTTGATAATGACGCATCCCCTG +GTAATAGGGGAGATAGACGCTAAGAGATGGCATTCCATAGGCGATGTATTCTACGTTGCC +GATAGCCTGCGGTAATTTCGGTCTGACCTGTAAAATATGTGACTCCTGGGTACGAAAAAC +GGATATAGGTCGCCATGGTTCTTGTGGATTATGACTGGCATAAGGGTCGTGCGACGTTCC +CTGATAGTGATTGCGTAACGCGTTTTTTACTGCCGCCACGCTGATCTTCGTTATTGGCGT +TAAAAAAACAGAAAATGTTTCCCCTTCGCTAACGACCGTATCCAGATGCGGATTAAACTG +GTGTTGTAGCGTCCAGACGCGCGGATAATTATAGGTGGTATCGTTTTTGTTATCCTGCGA +ATAGGCTTGATGAAAGTCGAATTCGCCGCGGGCCGGATCATATAATCCCTGCTTTTTCGC +AAAGCTTACTAACGTTGGTGACGCCATATAATTCGCGTTATCATTCGGATCGTAATGGCG +TAAACGTCCCTGATTGGCGGAAACGAAATAGCTATCTGCCGGAAGTCGTACTGCCAGCCA +TTGATGTCCGCTTCCCGTCTCCAGATACCATATCTCTTTGCTATCAATAAACGCGACGCC +GAAACCTTCGCCCGCGCCTTTTTGTTCAATAATATCTCCCAGTAATTTGGCGCCCTGACG +CGCCGATTGCGCCACTGGCAGGATCACGGACTCAATGGCGTCTTCCGTGATTCCCGTTTT +TGTCACGTAAGGATCGGCAGCCAGCGCCGCTCTGCCGTTGTAAATGGTTTCCGTTGCGCT +CATTCCGACGCCCGCCGAATTGAAACCGGCTTCACCCATGGCGTTATCGTTAGTATCAAA +GTCATGAATCGCCGTATAGCGCATCGCTGTCTCCGGAAGCGGCCAGCTAAAATTGTTGCG +ATGTGCTTTATACTCGCCTTGTTGATGAAACGCGACGGGATGAATAACCTTATGCTTGGC +GTTATTTGCCGAGCCATCCTCGTTGCGCGCGATAATAAAGGAGCCGTCAGCCGAAGCCTG +ATTGCCTACCAAAAGGGTAGTACAGGCGATGACTTTACCCATACCCAGCAGCGTAACGGC +GAAAGCAAGATACTTTTTCATAAAGGTTCCCACTGAATAACGCGTTATGGGATGAATTGA +CCCTGGATTGGAAACCGAGAAAGTGATCGAGCCAGCAATATTCTTTACCGGCATCCTTTA +TTTTCTTTTTATTGAGGTTGTATTGATAACCACAGCCCTGTGGCAGGGAAGGGGAACAGA +ACCTGTACTGACCTTAGCTATCACCGCTATCAGGCAGACGAACCGAAAAGATATTATGTT +CATCGGCATAGCGGTAAGATGCCGAGCCACCGTGCAATAGGGCAATCGCGTTAACTAACG +ATAACCCCAGGCCGAAACCGGCAGTGTAGCGGGCATTATCTCCTCGCCAAAAACGCCGGA +AAAGCTTATCCGCATCGGCGGTGGGGCTGCCCGGATTAGCGACCCGAATTTCTGCAACGT +TATCATCATAAGCGCTTTCAATACGTATCACGGCGTTTTCATCAGAATAACGGATGGCAT +TCGTCAGCAGGTTTGAGAGCACTCTTTGTAATAATATTTCGTCAGCCCATACCGTTCCCT +GACATTGATTTATAAAACAGATGTGCTTCTCTTCGGCAAGGGGGCTAAGATAATCCAGCA +TATTTTCGACCAGCGCATTGAGCGAAACAGGCTGTTTTTTTACCGCTATATTCTGGTGCT +CCGCGCGTGCCAGAAAGAGAATATTTTCTGTCAGTCGCGACAGTCCCTCCAGCTCTTCAA +TATTATCGACAAGGGCTTGTTGATACTCTTCGGCGCTGCGTTCCTGACTCAGCATAACCT +GATTCTTCCCCAGTAAAATATTAACCGGCGTGCGCAGCTCATGCGCCAGATCGTCGGCAA +ATTGGTTCAGGCGTTCAAAATCGTCGGAAAGCTTCTGGCGCATGGTATTTAGCGCTTGCC +CAAGCGGCCTGAGCTCGACGGGTAACGCCTGTTCCGCCAGCGGCTGGCGAAGTGTGCCGC +TATCTGTCGCCGCGGTGAGTCGGCTGAGCGACGTAATGGCCCGCAGCCCGTTTCTGATGA +CTAATGGACTGAGCGCCGAACAGACGAGGATCGCGATAAGGCTAATCAGCAAACTGTTGC +GGCGATATTGCGCCAGCATTTGCCGCCTTTCCGTCGCCAGCCTGGCAATAGTAAGGGTCA +GCGGGTTATCGCCGCTTCTGGCGTTTACTCGTACCGCGGTCAGCTCCGTGCCTTGTACCG +CCTGGCGAAATAAGGTTTCGCGGGTGATGTTTTTAGCCAGCGGAATCTCGTTAAAGCGTT +GGTCGGGGATGCCGCTATGATTAATCGCAACATTATGGCCTGTTGCTGAGTGGATCAATA +AGATATCCTGCTTCGTATCCACCATCCGATTGAAATAGAGCGGCAGATTTTCCGGCCTGG +CGCCATCCAGTAACAGTTGCTGCATTTGCGCCGCCCGATTTATTAGCGTCATATCATCCC +GATACGTTAATTCTTTGCTCAGCGCGTTATAGAGCGTCCAGCTAATGCCGGTACAGGCGA +GGATAAGTATGGCGATAAAAGAAATTGTCAGGCGCAGCGTCATTGATAACTTAACCATTC +TGCGACGTTTCCGCCTGTAATCGATAACCCATCCCCTGGACGGTCATAATGAGCTTCTTT +TCAAATGGATCGTCTACTTTGGCGCGCAGCCGACGAATCGCGACATCAACGGTGTTGGTT +TCACTATCAAAGTTAATTCCCCAAACTTCGCTGGCGATCGCGGTTCGGGGCACGATTTCC +CCTGCCCGGGACGCCAGTAACCAGAGGAGCAGGAATTCTTTGCGGGTCAGGGAAATCGGT +TTGCCATTTCGTAACACCGATTGCTTTGTGGCATCCATGTCCAGACCATTGATCGTCAGT +CGGGTAAAGACCGGGACATGCTGTCTGAGTTGAGCTCTCACCCGGGCCAGCAGTTCGGCG +AAGGAAAAAGGCTTAACAAGGTAATCATTAGCGCCCGCCTCAAGACCTTTGACGCGATCC +TCAACCGAGTCGCGCGCCGTCAGGCAAATAACAGGGGGCTGATATGCAGTGCGCAACGCG +CGTAAAACCTGCCATCCATCAAGCCCCGGCAGCATAATATCAAGAATAATCAATGAATAA +TGTTCCTGAAGGGCTAGGTGTAATCCGTCTCGTCCATCACAGGCATAATCAACCACATAG +CCTGCCTCCGTGAGTCCCTGACGTACCCACTCAATGGTTTTCTGGTTATCTTCAATCAAT +AAAATCTTCATCAACGCAGTATGCCATAGGCTTGTTAGCGAATCCGTAAATCTCCAACAA +GATGACATAATTGTCATGTCCGTGTAAGGTTAATCCTGGACGCGCCAGATATATTTTCCT +GCATCAATACCGTAAAGGAGTGAAGCATGAAACGATATATACTGGCTACCGCGATAGCGT +CTCTTGTTGCAGCCCCGGCAATGGCGCTGGCCGCTGGCAGCAATATTCTCAGCGTACATA +TTCTCGATCAGCAAACAGGCAAACCAGCGCCCGGCGTGGAGGTGGTACTGGAGCAGAAAA +AGGATAACGGATGGACGCAATTAAACACCGGGCATACCGACCAGGATGGACGAATTAAAG +CACTGTGGCCCGAAAAAGCTGCCGCGCCGGGGGATTATCGCGTTATTTTTAAAACCGGCC +AGTATTTTGAAAGTAAAAAACTGGACACGTTTTTCCCGGAGATTCCCGTCGAGTTTCATA +TCAGCAAAACGAATGAGCACTATCATGTGCCGCTGTTATTAAGTCAGTATGGTTATTCAA +CCTATCGCGGGAGCTAATTTAGAGCCTATCCTATTAGGGCTATTTTACTTGCCATTTTGG +TCCTGGGCAGTGCTCGCCAAAACGCGTTAGCGTTTTGAACGCCGCTTGCGGCGGCCCGAA +GGGCGAGCGTAGCGAGTCAAACCTCACGTACAACGTGTACGCTCCGGTTTTTGCGCGCTG +TCCGTGTCCAAACAGGCTGCGCCAATAACGCCTGGTGGGACAGGCTCTTAGATTTTATTA +ATCGCCGGGATTTATGGCGAGCAAACATCGCGGCGGGAATAAAAATCTTCAGCGTATCGA +CTCTCCTCCCACAAGCGGTGGTTATCCCGCTTGTGGGTATGAGTGACGGTTAAACAGGCG +CTTCCATCTCAAGTCTGACCGGATGAAAACGGCGTTTGAAATAAATCAGGCCATGCCCCT +CCTGGCTAAGAATAATATTTTTGATCGCCACCAGATACACCAGATGCGTGCCAATGGTTT +GTACCTCGCTGATCTCGCCTTCAAGACTGGCCAGCGCGCCGTTAAGTACCGGCTGGCCCA +GCGGCCCGTTTTGCCAACATGGCTGGTGAAAACGCTCCTCCATCGCCATCCCCGTCATAC +CGGCAAAGTGGCGCGCCATCAGCTCCTGCTCATGGTTAAGTACATTAATGCACAGCCTGC +CGTTGCCCTGAAAAACGGGGTTCATGGCGCTATTGGCATTAATACATACCATCACGGAGG +GCGGCGTATCAGTGACTGAGCAAACCGCTGTTGCGGTGATACCGCAGCGTCCGGCGTGAC +CCGCCGTGGTTACGATGTTGACCGCTGCCGCCAGACTTGCCATCGCATCGCGAAAACGCA +GACGTTGTTCATCTACTTGCATGAGAACCTCCTGCCGCGTTATTTCAGCAGCTTATCCAG +TTGATTGATGTCGTCGTTATTGTGCAAATGCGAAACCGTCCAGCCATTCTGATCGTATTC +GGAGAGGCAGCGATCGACCATTGCCATCATCTTATCCATATTGCCGGAGCTCTGGGCCTG +ACGCAGACACTGCAGACGAATTTCATCCTGGCTGCCCGAGTAGTTAATCTCGTACAGCTC +ATGGCGACCGCCAAACTCGCTGCCGATGGCATCCCACATCAATTTAAGAATTTTGATACG +TTCAACATGGTCCATTCCGTTAGAGCCGCGTACGTATTTCGCCAGGTACTGGTCGATTTG +CGGATTATTCAGATCGCGGGCGCTGGAAGGCAGGTAAATCAGGCCGCTGGTAACGTTACG +TTCAATAATATTTTTAATTTTCGCGTAGGCCATTGGGGCCATCACACGATAGGTTTGCAG +CGCGGCGTGGTCCGGTAGCCAGGCGCCGTTTACCCACGGGGTTGCTTCAGAACACATAGA +ATCGCTCAATGCCCAGAACATATTGCGCCAGGCCACGACTTCGCCGAGATCGGCCTGCAC +GCCCCGGAACTCTACGGTACCCGTACATTCGAGCGATTTTTTCAGCAGCGCGGTAATGAA +ATCAAGTTTTACCGCCAGACGAACACAGGCTTGCAGTGGATACATACGGGCAAAGCCGCC +TTCCATCGTCCAGCGACGACAACGATCGAAATCACGGTAAATTAATACGTTTTCCCACGG +GATCAGCACCTTGTCCATCACCAGAATGGCATCGTTTTCATCAAAACGGCTGGAGAGGGG +ATAATCAAACGGCGAGCCCGTCGCGCCCGCGACCATTTCATACGAGGCGCGCGAAATAAG +TTTTACGCCTTCGGCATCCATTGGCGCGACAAACATCAGAGCAAAATCCGGGTTTTCGCC +CATCACCTGGGCTGAGCCGAAACCAATCATGTTGTAGTGAGTCAGGGCGGAGTTAGTGGC +GACAACTTTCGCCCCGCTGACAATAATCCCGGCGTCCGTCTCTTTCTCCAGCTTGATATA +GACGTCTTTCACTTCGTCGGCAGGTTTGTGGCGGTCAATGGGCGGGTTGACGATTGCATG +GTTAAAGTACAGGCCGGTCTCCTGAATACGGGTGTACCAGTTACGGGCGTTCTGCTCAAA +CTGGCCGTAGAAGGCTGGGTTAGCGCCCAGAGCGCAGCCAAAGGCGGCTTTGTAATCCGG +TGTGCGTCCCATCCAGCCGTAACTCAGGCGTGACCACTCGGCGATAGCATCACGCTGTTG +GCGCAGATCGTCTGCGCTTTTCGCCACGCGGAAAAATTTATGCGTATAACCGCCGCTGCC +GGTATCGGTATTCCAGCACAGGGTGTAAGCGGGAGGGGATTCCCGTGTCGGCGGCGTGGG +AAGGTAAGAATACTATGCTTCCGCTTCGCTATCAGGATGCTGGCGCCCCAGAGCAATAAG +ATCGTCCAGCAGCAGCATCAATTGCTGTGTTTTTTCGGGCGTGAAATCGGCCTCAATTTT +TCGATAAGCCTCTTCTACCTCGCTCCGGGCACGGGCGTACAACGTTTGTCCCTGCTCCGT +CAACATGACATATAACTTACGCTGATCGTTAACCGGCTTGAGTCGCAACACCAGTCCGTC +TCGCTCCATGCGCGTCAATATTCCGGTCAGACTTGGACGCAAAATACAGGTACGAAAGGC +CAGCTCGTGAAAATCCATAGAGGGGCTATCGGCCAGGATTCGCACAATGCGCCATTGCTG +GTCGGTCAGATTGTGGCTTTTAACGATGGGGCGGAAATAGGTCATTGCCGCTTCGCGCGC +CTGAAGCAAGGCGATGGTTAATGAATCATGCATAAGCGTTTCTCTTTTGCAGAATTATTA +ATACCTGAATAATCGTGTTTACCGATGTGAGCTATGACATCTGTTTTATGTCCAAAGTTT +AATAGAAACAAGGGGTTTTATTTAACTATTTGATATATATGTATTTAATAATAAATTTGT +GAAAATATTGTTAATCACATCATAAATACTTTACTTAAGCTTGCTAAATGTACAGCGAAA +GCATAAATCTAATCATTAATATGTTAATGAAATCACAGCCCGTTAAATCGGCCTGAGGAG +TTTATGTATGAAGGGTACTGTTTTCGCCGTTGCGTTAAACCATCGCAGCCAGCTTGATGC +CTGGCAAGAGGCTTTCTCTCAGCCTCCCTATAATGCGCCGCCTAAAACCGCAGTGTGGTT +CATCAAGCCGCGTAATACGGTGATTCGTCACGGCGAACCCATTCCTTATCCGCAGGGAGA +AAAGGTACTGAGCGGCGCGACAGTGGCGCTCATTGTGGGGAAAACCGCCAGCCGGATACG +CCCTGAAGCGGCGGCGGACTATATCGCCGGGTATGCGCTGGCTAACGAGGTCAGCCTGCC +GGAAGAGAGCTTTTATCGCCCGGCGATTAAAGCGAAATGTCGCGATGGCTTTTGCCCGCT +GGGTGAAATGGCGCCGCTGAGTGATGTGGATAATCTCACCATTATCACTGAAATCAACGG +ACGAGAAGCGGACCACTGGAATACTGCCGATTTACAGCGTAGCGCCGCACAACTGCTTAG +CGCGTTAAGTGAGTTCGCTACACTTAACCCTGGCGATGCGATCTTACTTGGTACGCCGCA +GAATCGCGTTGCGCTGCGTCCCGGCGATCGGGTGCGTATTCTGGCGAAAGGTTTACCCGC +GCTGGAAAATCCGGTTGTCGCAGAAGATGAATTCGCCCGCCACCAGACGTTTACGTGGCC +GCTGTCAGCGACGGGAACGTTATTTGCGCTGGGGTTGAACTACGCCGATCACGCCAGCGA +GCTGGCATTTACGCCGCCGAAAGAGCCGCTGGTATTTATCAAAGCGCCAAACACCTTTAC +CGAACATCACCAAACGTCGGTGCGCCCGAACAACGTCGAATATATGCACTACGAAGCCGA +GCTGGTCGTGGTGATTGGCAAAACGGCGCGTAAGGTGAGCGAAGCCGAAGCCATGGAGTA +TGTGGCCGGTTACACCGTCTGTAACGACTACGCGATCCGCGACTATCTGGAAAACTACTA +CCGTCCGAATCTGCGGGTAAAAAGCCGCGACGGCCTGACGCCGATAGGCCCGTGGATTGT +GGATAAAGAGGCGGTTTCTGATCCGCACAACCTGACGTTACGCACCTTTGTCAACGGTGA +GCTGCGGCAGGAAGGGACGACCGCCGATCTGATCTTCAGCATCCCGTTCCTGATTTCTTA +TCTGAGCGAATTTATGACGTTGCAACCGGGCGACATGATTGCCACCGGTACGCCGAAAGG +GCTGTCCGATGTGGTGCCGGGGGATGAAGTTGTCGTTGAAGTAGAAGGCGTGGGTCGCCT +GGTTAACCGAATCGTCAGTGAGGAGAGCGCAAAATGAAGAAAATAAATCATTGGATTAAC +GGCAAAAACGTTGCAGGTAACGACTACTTCCAGACCACTAACCCGGCGACCGGTGATGTG +CTGGCGGAAGTAGCCTCCGGCGGTGAAGCAGAAGTGAACCAGGCTGTCGCGGCGGCAAAA +GAGGCGTTCCCGAAATGGGCCAACCTGCCGATGAAAGAGCGCGCGCGCCTGATGCGCCGC +CTTGGCGACCTGATTGACCAGCATGTGCCGGAAATCGCGGCGATGGAAACCGCCGACACC +GGCCTGCCTATTCACCAGACTAAAACGTGCTGATCCCGCGCGCCTCGCATAACTTCGAAT +TCTTCGCCGAAGTGTGCCAGCAGATGAACGGCAAGACCTATCCGGTTGACGATAAAATGC +TCAATTATACGCTGGTGCAGCCCGTCGGCGTCTGCGCGCTGGTGTCGCCGTGGAACGTGC +CGTTTATGACCGCGACTTGGAAAGTTGCGCCGTGCCTGGCGCTGGGTAACACCGCGGTGC +TCAAAATGTCCGAGCTGTCGCCGCTGACTGCCGACAGGCTGGGCGAGCTGGCACTGGAGG +CAGGAATTCCGGCAGGCGTGCTGAACGTGGTGCAGGGCTACGGCGCGACGGCGGGCGATG +CGCTGGTACGCCACCATGACGTGCGTGCGGTGTCGTTTACCGGCGGTACCGCCACCGGTC +GCAATATCATGAAAAATGCCGGGCTGAAAAAATACTCGATGGAGCTGGGCGGCAAATCGC +CGGTGCTGATTTTTGAAGACGCCGACATTGAGCGCGCGCTGGACGCCGCGCTGTTCACCA +TCTTCTCGATCAACGGCGAACGCTGCACCGCTGGGTCGCGCATCTTTATCCAGCAGAGCA +TTTACCCTGAGTTCGTGAAGCGCTTTGCCGAACGCGCGAATCGCCTGCGTGTCGGCGATC +CGACCGACCCGAACACCCAGGTCGGCGCGCTGATTAGCCAACAGCACTGGGAGAAAGTCT +CCGGTTATATCCGCCTCGGCATTGAAGAGGGGGCAACGCTGCTGGCGGGCGGTGCGGAAA +AACCCACTGACCTGCCTGCGCATCTGAAAGGCGGTAACTTCCTGCGCCCAACCGTGCTGG +CCGATGTCGACAACCGTATGCGCGTTGCGCAGGAAGAGATCTTTGGGCCGGTCGCCTGCC +TGCTGCCATTCAAAGACGAAGCGGAAGGGTTACGTTTGGCGAACGATGTGGAATACGGTC +TGGCCTCTTATATCTGGACCCAGGACGTGAGCAAAGTGTTGCGCCTGGCGCGTGGGATTG +AAGCCGGCATGGTCTTCGTCAACACCCAGAACGTCCGCGACCTGCGCCAGCCGTTCGGCG +GCGTGAAAGCCTCCGGTACCGGGCGCGAAGGCGGCGAATATAGCTTCGAAGTGTTTGCGG +AAATGAAAAACGTCTGCATCTCAATGGGCGACCATCCTATCCCAAAATGGGGAGTTTGAT +ATGGGCAAGTTAGCGTTAGCAGCAAAAATTACCCACGTGCCGTCGATGTATCTTTCTGAA +CTGCCAGGAAAAAATCACGGTTGTCGTCAGGCAGCCATTGATGGGCATATTGAAATTGGC +AAGCGTTGCCGCGAAATGGGCGTTGACACCATTATCGTATTCGACACCCACTGGCTGGTG +AATAGCGCTTACCACATTAATTGTGCCGACCATTTCCAGGGCGTCTATACCAGCAACGAA +TTGCCGCACTTTATTCGCGACATGACCTATGACTATGACGGTAATCCGGCGCTCGGCCAT +CTGATCGCCGACGAGGCGGTCAAACTGGGCGTGCGCGCCAAAGCGCACAACATCCCGAGC +CTGAAGCTGGAGTATGGCACGCTGGTGCCGATGCGCTACATGAACAGCGACAAGCACTTC +AAAGTGGTCTCCATCTCGGCGTTCTGCACTGTGCATGATTTTGCCGACAGCCGCAAACTG +GGCGAAGCCATTCTCAAGGCGATTGAGAAATATGACGGTACCGTAGCGGTATTCGCCAGT +GGTTCTCTGTCGCACCGTTTTATTGACGACCAACGGGCGGAAGAGGGGATGAACAGCTAC +ACCCGCGAGTTCGATCATCAAATGGACGAGCGCGTGGTCAAGCTGTGGCGCGAAGGCAAA +TTCAAGGAGTTTTGCACCATGTTGCCGGAGTACGCCGACTACTGCTACGGCGAAGGCAAC +ATGCACGACACGGTCATGCTACTGGGAATGCTGGGGTGGGACAAATACGACGGCAAGGTG +GAGTTCATCACCGACCTGTTCGCCAGCTCCGGTACCGGCCAGGTAAACGCTGTTTTCCCG +CTGCCTGCGTAAGGGGGGTTTATGCCGCACTTTATTGCTGAATGTACTGAAAATATTCGC +GAGCAGGCTGATTTACCAAGCCTGTTCAGCAAGGTAAACGAGGCGCTGGCCGCCACCGGG +ATTTTCCCCATCGGCGGTATCCGCAGTCGCGCCCACTGGCTGGATACCTGGCAGATGGCT +GACGGTAAGCATGATTACGCGTTTGTGCATATGACGCTGAAAATCGGCGCCGGGCGCAGC +CTGGAGAGCCGTCAGGAAGTCGGCGAAATGCTGTTTGGGCTGATTAAAGCCCACTTCGCC +GACCTGATGGAGAACCGCTATCTGGCGCTGTCGTTTGAGATTGCCGAGTTACATCCAACG +CTCAATTACAAACAAAACAACGTACACGCGTTATTTAAATAGCACACTCTTTCGCCCGGT +GGCGCTGCGCTGACCGGGCCTACAAAAAAACGATGCACGAAGCAGTACCGAACCGTAGGC +CGGGTAAGACGCACCCGCGTCGCCACCCGGCGCAGCAGCACCGAATGAGGTAACAGGAAG +CAACTATGCTCGATAAACAGACCCATACCCTGATCGCTCAGCGACTTAATCAGGCTGAAA +AACAGCGTGAACAGATTCGCGCAGTGTCGCTGGATTATCCCAACATCACTATTGAAGATG +CCTATGCCGTACAGCGTGAATGGGTCAATATCAAGATTGCCGAAGGGCGCACGCTCAAAG +GCCACAAAATCGGCCTGACCTCAAAAGCGATGCAGGCCAGCTCGCAAATCAGCGAACCGG +ATTACGGCGCGCTGCTTGACGATATGTTCTTCCATGACGGCGGAGATATCCCCACCGACC +GTTTTATCGTCCCGCGTATTGAAGTGGAGCTGGCGTTCGTGCTGGCGAAACCGCTGCGCG +GCCCTCACTGCACGCTGTTCGACGTCTACAACGCCACGGATTATGTGATTCCGGCGCTGG +AACTGATTGACGCCCGCAGCCACAACATCGACCCGGAAACCCAGCGCCCGCGCAAAGTGT +TCGACACCATTTCCGACAACGCCGCCAACGCCGGGGTGATCCTCGGTGGTCGCCCCATCA +AACCAGACGAGCTGGATCTGCGCTGGATCTCCGCGCTGCTCTATCGCAACGGCGTGATCG +AAGAAACCGGCGTCGCCGCAGGCGTGCTGAATCATCCGGCCAACGGCGTGGCGTGGCTGG +CGAACAAGCTTGCCCCCTACGATGTCCAGCTTGAAGCCGGGCAGATCATCCTCGGCGGCT +CGTTCACCCGCCCGGTGCCGGCGCGCAAGGGCGACACCTTCCATGTCGATTACGGCAACA +TGGGCGCGATCAGTTGCCGGTTTGTGTAAGGAAAAAACGATGAAAAATGCTTTCAAAGAC +GCGTTAAAAGCGGGGCGCCCGCAAATCGGTTTGTGGCTGGGGCTTGCCAACAGTTACAGC +GCTGAACTGTTAGCGGGCGCCGGCTTCGACTGGCTACTGATTGACGGTGAACACGCGCCA +AACAACGTGCAGACGGTGTTGACCCAGTTGCAGGCGATTGCGCCTTATCCCAGCCAGCCG +GTGGTGCGTCCGTCATGGAACGATCCGGTACAGATTAAGCAACTGCTCGACGTCGGCGCG +CAAACGCTGCTGATACCGATGGTGCAGAATGCCGATGAAGCGCGAAACGCCGTGGCGGCT +ACGCGTTATCCGCCTGCCGGTATTCGCGGCGTGGGCAGCGCGCTGGCGCGGGCATCGCGC +TGGAATCGCATTCCGGACTATCTCCACCAGGCCAACGACGCCATGTGCGTACTGGTGCAG +ATTGAAACGCGTGAGGCGATGAGCAATCTGGCGTCAATTCTCGACGTGGATGGCATTGAC +GGCGTGTTTATTGGCCCGGCGGATCTCAGCGCCGATATGGGCTTTGCCGGCAATCCGCAG +CACCCGGAAGTGCAGGCGGCGATTGAGAACGCCATCGTGCAGATACGCGCGGCGGGGAAA +GCGCCGGGGATTCTGATGGCCAATGAAGCACTGGCGAAACGTTATCTGGAACTGGGGGCG +CTATTTGTCGCCGTCGGCGTTGACACCACGCTGCTGGCGCGCGGAGCGGAGGCGCTGGCG +GCGCGCTTTGGCGCAGAAAAAAAACTGTCCGGTGCGTCCGGCGTCTATTAAGCCTGGGCC +GGTAAGCGCAGCGCTACCGGGCAACCGTAGTACCCTACAAAATTCCCATCAGAGGAAAAA +AAATGAGCGACACATCATCTGCACTTCCGGAAAGCCCCGAGTCTGTCGGTTCGCACAACG +CGCTCAGCACGGGTCAACAAACCGTCATAAATAAACTGTTCCGCCGACTGATCGTATTTT +TATTCGTGTTGTTTATCTTCTCGTTTTTAGACCGTATCAACATCGGTTTTGCCGGGTTGA +CGATGGGGCAGGATCTGGGGTTAAGCGCCACCATGTTTGGTCTTGCCACGACGCTGTTTT +ACGCCACCTACGTCATTTTCGGCATTCCCAGCAACGTGATGTTGAGCATCGTCGGCGCCC +GCCGCTGGATTGCGACCATTATGGTGCTATGGGGCATTGCATCTACCGCCACGATGTTCG +CGGTGGGACCGAAAAGCCTGTATGTGCTGCGAATGCTGGTGGGCATTACCGAAGCGGGCT +TTTTGCCAGGAATATTGCTCTATTTAACCTACTGGTTCCCGGCATTTTTCCGCGCCCGCG +CCAACGCATTATTTATGATTGCCATGCCGGCCACTACCGCGTTGGGGTCAATTGTCTCCG +GCTATATTTTATCGCTGGACGGCATATTCAATCTGCATGGATGGCAGTGGTTATTCCTGT +TGGAAGGATTTCCGTCAGTTTTGTTAGGCATTATGGTCTGGTTTTACCTGGATGATACCC +CGGCAAAAGCCAAATGGCTGACGGCAGAGGATAAAAAATGTTTGCAGGAGATGATGGATA +ATGATCGCCTGACGCTGGTTCAGCCTGAGGGGGCCATCAGCCATAACGCCATGCAGCAGC +GTAGCCTGTGGCGCGAAGTATTCACGCCAATTGTACTGATGTATACGCTGGCCTATTTTT +GCCTTACCAATACGCTTAGCGCCATTAGTATCTGGACGCCGCAAATCCTGAAAAGTTTTA +ATGAAGGCAGCAGCAATATCACCATCGGCCTGCTGGCGGCGATCCCGCAGATTTGTACTG +TTCTGGGCATGATTTACTGGAGCCGCCATTCGGACAAACATCAGGAGCGTAAACACCACA +CTGCGTTACCGTTCCTGTTTGCCGCCGCGGGCTGGCTGCTGGCGTCGGCGACCGACCGTA +ACCTGATCCAGCTCCTGGGGATCGTGATGGCATCCACGGGTTCCTTTAGCGCGATGGCGA +TCTTCTGGACCACGCCGGATCAGTCGATCAGTTTACGCGCCAGGGCGATAGGCATTGCGG +TCATCAATGCCACCGGCAATATTGGCTCCGCGCTCAGCCCGGTTATGATTGGCTGGCTAA +AAGATATCACTGGTAGCTTCAATAGCGGACTCTGGTTTGTCGCTTCTCTGTTAGTCGTCG +GCGCCGCCATTATCTGGCTCATTCCCATGAAAGCATCGCGTCCGCGCGCCACCCCTTGAG +GAGAAACTATGTGCCAACGTGCGATCGCCAATATTGATATCAGCAAAGAGTATGACGAAA +GCATGGGCAGTAACGATGTGCATTATCAGTCGTTTGCTCGTATGGCGGATTTCTTTGGTC +GTGATATGCAGGCGCATCGCCACGACCAGTTTTTTCAAATGCACTTTCTTGATACCGGGC +AGATTGAGCTACAGCTCGACGATCATCGCTATTCGGTGCAGGCGCCGCTATTTGTGCTAA +CGCCGCCCTCGGTGCCGCATGCTTTTATTACCGAATCGGATAGCGATGGTCATGTTCTGA +CGGTACGCGAAGAGCTGGTTTGGCCGCTGCTGGAAGTGCTTTATCCCGGCACCAGAGAGG +CCTTCGGCCTGCCGGGAATCTGCCTGTCGCTGGCGGATAAACTCAACGAGCTGGCGGCGC +TCAAACATTACTGGCAGCTAATTGAGCGGGAGTCCACGGAACAACTGGCTGGCTGCGAAC +ATACCTTGGTACTACTGGCGCAGGCGGTATTTACCTTGCTGTTGCGTAATGCGAAGCTGG +ACGATCATGCCGCAACCGGGATGCGCGGTGAACTGAAACTTTTTCAGCGCTTTACCCTGT +TAATTGACAACCACTTCCATCAGCACTGGACGGTGCCCGATTATGCCTGTGAGTTGCATA +TTACCGAATCTCGTTTGACCGATATTTGCCGACGTTTTGCTAATCGCCCGCCTAAACGCC +TGATTTTTGATCGGCAATTACGCGAGGCGAAACGACTGCTGCTTTTTTCCGACAATGCTG +TCAACGAGATCGCCTGGCAATTAGGTTTTAAAGATCCGGCTTATTTCGCCCGTTTCTTTA +ATCGCCTTGCTGGCTGTTCTCCTTCGCAGTTTCGCCAACGTGAAGTTCCTTCTTTTCTCA +ACTAAGAAGAGTAAAAACATGATGAAAAAAAGCGTCGCTATGCTGGCGGTTTGTATGCTG +GCGCAAAGCCACCTTGCCATTGCTGCCGGTGCTCCTGCGCCTCAAGAGATCAACATTGTT +TTACTGGGCACCAAAGGCGGGCCTTCTTTGCTCAATACAGCCAGACTACCGCAAGCGACG +GCGCTCACTATCGGCGATAAGATATGGCTGATAGATGCCGGCTACGGCGCCAGTCTGCAA +CTGGTGAAAAATGGCATTCCACTGCGCAACATCAATACTATTTTGCTCACCCATCTGCAC +AGCGACCACATACTGGATTATCCTTCCTTGCTGATGAATGCCTGGGCAAGTGGCCTGAAA +GACCATACCATACAGGTTTATGGCCCGCCGGGAACCCAGGCGATGACGAAGGCTAGCTGG +AAGGTCTTTGACAGGGATATCACGTTACGCATGGAAGAAGAGGGGAAACCCGATCCGCGC +AACCTGGTTAAGGCGACCGATATCGGCCAGGGCGTCATCTATAAAGATGAACTGGTCACA +ATAAGCGCGCTGAAAGTGCCTCATTCCCCTTTCCCGGACGGTGAAGCGTTTGCTTACCGT +TTTGATACTCAGGGTAAGCGAATCGTCTTCTCTGGCGATACGTCCTGGTTTCCTCCGCTT +GCAACGTTTGCCCAGGGGGCGGATATCCTGGTACATGAGGCGGTACATGTCCCTTCGGTA +GCAAAACTGGCTAATAGTATTGGCAACGGAAAAACGCTGGCTGAAGCGATTGCGTCGCAT +CACACCACGATTGAAGATGTCGGTAAGATTGCTCGCGAGGCCCACGTGAAAAAACTGGTG +TTAAGTCATCTGGTGCCTGCGACGGTTGCGGATGACGTCTGGCAACAGGAAGCCATGAAA +AATTACCCGGGCCCTGTCATTGTCGGTCATGACAATATGACGATAAGCGTACCGTAAGCA +TCAGGGCAGGGGTAAACCAACGGGCTGACATCATGTCAGCCCGTTATGCTTTTGGCGATC +AGCATGACGCGCAGAGCTTTTGTCTAAAACATTATTTTTTCTAAACACTACTTGCTGATT +TTTATGCACAATAAAGGTAAGATGATTGCTCTGGTGAAATATCACTAAATAAGAATGTCA +CGGATGGAATTTATACAGTGTTAAAAGCAATGCGTTTCTTTGTCTGCCGGCCATCAGTAA +TATCCTCTGTACCGGCTCCTCGTTGCCAAAGTGAAGGTTAGATTAAACGAATCAAAAAAT +ATCCGAACTGTACAATTTTTATATCAAACATATTTAACTGCAAAATACTGCAAACGTGCG +CGAATACACTTAATCAGTAGTATGGCTAATGCATACTTTATTTCCTAAACTTTCTTATTA +TCTATTTGAATATTTCTGGTTAAACCAAATGGACAAACGGATACCAGACACTCGAAAGGA +TAACTGCAAGCTTCTGGTTTAGGATTGCAGTTACCAGGACAGTGGCTATTTTCTTTAAGC +GATTTCCATAGAACAGGATTAAACCTGGTAACGTTGTAAACAGTAACGGGATAAAGTTTA +TCGTTTATTAAGACCCCCTTATTAAAGGGGATGATAATGCTACCTGGAGGCATGTAAACA +TCTGCTTGATACCATAAGGTCAATCTAAGATTTTTTAGGCTATGTATGCATGAGAACGAC +ACTCCGGTAGAGGGACTTATAACTGTATCAACGACCTTCCATTCCATTACAGAAACCTTT +TAAGTGAAATAGTCAATGGTGTAAATTACATTTTCCGCAAGCCTATTCAGGATAGATGAA +AATCTGAGAAACATAACTCGTTGAAAACGATCGTTTTTTATTGACCACTCTATTTATATT +GATTTTTTAATAAGTTATTTATTTTATGCTCTTATTTTGTTTACATTCTATTACATTTTT +GTATTTTATACGTGGTGTAAATATTGGGCGGTAGTGGATGTTATAACGCTCAATTATTAA +ACTGTAAGTGACTGTTGTATTTCTTATTTATAAATACCGCAACCTGTAAGCGCAGCGGTA +CATTTTACCCGGCATTGACAGGGAGAAGATACGTATCAACCAGAGAGTACAAAACAGTGA +AAGAATATATTCTTCAGGCAATAAATGATCGCTAACGTGTAAAAATAACCGACGAATCTA +AAAAATGTGAGCGTGTGGCTGGTCTTTATTTAAACGATGATCTTCGCAATGGCGCATTAA +TGGCTGACATTGGCGGTTCGTTGATCGGCTTGTGCGCGGTGAAAGGCTATATTTCTTCCG +TTGCGGGAAGTATGTCAGAGGCATTCTGGTATTATACCGGGTGTATGTAAATCCGGGGTG +GGCAGAAAGCCCACCCTCGGTTTATTGCCTTTATCGTGGATTAGGGATGCGAGATAAAGC +GAGAAAGGCGTTGCAGCAGTAACCGGTTTTCTTCGCGCAGCCGTGAATTCTCTTCCAGCA +GCGTTAACGCGACCGCGATCCCTGGCCAGTCGAGCGCCAGCTCCTCGCGTAAGCGTAGCG +CGCGTTGTACCACGCTCGCTGCGCGATCGTCGAATTGCCAGTCGGCGTTATCGTCTTCGT +AAGGCTCAATTACGCCAAGTCCGACGATTTCGTTTAGCTCCTCTTCCGTCACGCCGGTGT +GCAAACAAAATTCGGTGATGGTAAAGGTGACAGTGATGTTAGCCATTATGCTTTCCCCCA +TTGCTGGCGTGGGTCAAAGGACGACTGCGCGTCCGCCAGTTGTTGCCACAGGGCAGCTGT +TTTCTCGTCAGGTTTCGGCGGCATAACGATTTTGATGATGGCATAGAGATCGCCAGTGTG +CTTTTTACTGGCTAATCCTTTTCCTTTGATACGCAGCCGCTGACCTGCCTGGCTGCCGGG +GGGAATGGTCAGCAAAATACGCTCTTTAAGCGTTGGCACAGACACCTTAGCGCCGAGCGC +CGCCTCCCATGGGGCAAGCGGAAGGACGACTTCCAGATCCTGATTGACGATATCAAAGAG +CGGATGCGGGGCAATATGGATAACGAGCCATAAATCGCCATTAGGTCCGCCGTTTTCCCC +CGGCGTGCCCTGGCCTTTCAGTCTGATTCGTTGCCCGTTGCTGACGCCAGCCGGGATTTT +CACATTCAATGTTTTGGGAATTTCCCGCTCCACCAGGCCGAACGCGTTATAAACGGGGAC +GGAATAGCTAATCGTACGCTGGTGCTCTTCCAGCGTTTCTTCCAGGAATACCGCCACTTC +AATTTCGATATCATGACCGCGTGCGGCGTGGCGGTGGTGCGAATGACGACCGTGCTGACC +AAAAATAGACGAGAAAATATCATCAAAATCTTCGGCGTTATACGGCTGGCCTTCGTGTTG +CTGGAACTGGCGATTAAATTGTGGATCGTTACGGTGTTGCCATAACTGGTCATACTCGGC +GCGCCGTTGCTCATCACTCAGCACTTCCCATGCTTCAGCAACCTCTTTGAAACGGGCTTC +GGCATCGGGTTCTTTGCTGACATCTGGATGGTACTTGCGGGCCAGTCGGCGATAGGCGGT +CTTAATCGTCTTGAGATCGTCCGTCGGTTTCACGCCCATAATGGCGTAATAATCCTTAAG +TTCCATAGCATCATCTCGCTAAATCAATACATACAGAAGGGACCCCAAAAAGGTTTCTCC +ACTAAGTGTAGGGTAAACCTGAAAAGTGCGTATGAAAACACCAGTTATATCATTAGTAAG +AATAAATTACGTTGTTCGACTATCAGAAGGTTGCGCAGCGCGCCGACATAACTTTACAGG +GGAAAGGTTGCCAAAACCGCGCCAGTGGCTAAGATAACTCGCGTTAAACAGTGAGGGCGC +AATGGCGAAACAACAACGGATGGGCTGGTGGTTTCTTTGCCTTGCATGTGTCGTGGTAAT +GGTTTGTACCGCGCAACGCATGGCGGGCCTGCACGCCTTGCAGATGCAGGCGACGGCCTC +TGCTGCGGTGGTCAGCGCTCCCTCCTCGACAGATGACGGCTCGCCGGTCACTCCCTGCGA +ATTAAGCGCCAAGTCGCTGCTGGCGGCGCCTCCAGTACTCTTTGAAGGTGCTATCCTTGC +GCTTTATCTACTGCTTTCCTTACTGGCGCCTGTCCGGGTCATGCGCCTGCCGTTTTCGCC +TCCACGGGCTATTTCGCCGCCCACATTACGGGTACATCTACGATTTTGTGTCTTCCGTGA +ATGACAGACCGGTTATTACTAACGGTTAATTACTCATTCACGGAGAAAAAATATGATGAT +TTTATTCAGGCGGATACTGTTCTGCCTGTTATGGCTTTGGCTGCCCGTCTCCTGGGCGGC +GGAAAGCGGCTGGCTGCGTTCGCCCGATAACGACCATGCCAGCATACGGCTACGTGCCGA +TACGTCCGCTAACAGTGAGACCCGGCTGTTGCTGGATGTCAAACTGGAAAACGGCTGGAA +AACCTACTGGCGCGCGCCGGGGGAAGGGGGCGTGGCACCCTCTATCGCCTGGAAAGGCGA +CATGCCTGAGGTAAGCTGGTTCTGGCCAACCCCCTCGCGCTTTGATGTGGCGAATATCAC +CACCCAGGGATATCACGACGAGGTGACCTTTCCGATGATCGTGCGCGGTACGCCGCCGGC +GACCTTGCGCGGTGTGTTGACGTTATCAACCTGCAGCAATGTTTGTCTGTTGACCGATTA +CCCCTTTTCCGTGACGCCCACTGTGCAGAATGCCGATTTTGCCCATGACTATGCGCGGGC +GATGGGTAAAGTTCCGCTCCGCAGTGGGCTAACGGACTCGCTTGACGTTGGCTATCGCCC +GGGAGAACTGGTGGTCACTGCTACGCGAGCGGCGGGCTGGTCATCGCCCGGGCTCTATCT +TGACACCATAGATGACGTCGATTTTGCGAAGCCTCGCCTGCGCGTAGAGGGCGACAGGTT +ACAGGCGACGGTGCCGGTGACGGACAGTTGGGGCGAAAAGGCGCCCGATTTGCGCGACAA +ATCGCTGACCCTCGTGTTAGCCGATGGCGCTATCGCCCAGGAGAGCACGCAAACCATTGG +CGCTGCGCCAGCGCAAACGCCGGACAATGCGGCGCTACCTTTCTGGCAAGTTGTAATGAT +GGCGCTAATCGGCGGACTGATTCTTAATTTAATGCCCTGCGTACTGCCTGTTCTGGGCAT +GAAACTTGGCTCTATTTTATTGGTAGAGGAAAAAAGCCGCTCTCACATCAGGCGACAATT +TTTGGCTTCGGTCGCCGGTATCATTGCGTCATTTATGGCGCTGGCGGCGTTTATGACCCT +CCTTCGCCTGTCAAACCATGCGCTGGCCTGGGGAGTCCAGTTCCAGAATGCATGGTTTAT +TGGTTTTATGGCGCTGGTGATGTTGTTGTTTAGCGCCAGCCTGTTCGGGCTTTTTGAGTT +CAGGCTTCCCTCATCTATGACCACGAAACTGGCCACTTACGGCGGTAACGGTATGTCGGG +ACATTTCTGGCAGGGGGCGTTCGCCACGCTGCTGGCGACGCCTTGTAGCGCGCCGTTTCT +GGGCACGGCGGTCGCGGTGGCGCTCACGGCGTCGCTGCCGACGCTGTGGGGGCTGTTCCT +TGCGCTTGGCCTGGGAATGAGCGCGCCGTGGCTACTGGTCGCGATACGACCAGGGCTTGC +GCTACGTTTACCGCGCCCCGGGCGTTGGATGAATGTCCTGCGCAGGATCCTCGGTCTGAT +GATGCTGGGGTCGGCTATCTGGCTGGCGACGTTACTCCTGCCGCATTTCGGCTTCACTGC +GTCAAAGAGCGCGCAAGACACGGTTCAGTGGCAACCGTTGAGTGAACAGGCAATCCAGTC +GGCGCTGGCGCAGCATAAGCGGGTATTTGTCGATGTCACTGCGGACTGGTGTATTACCTG +TAAAGTGAATAAATACAACGTCCTGCAAAAAGAGGATGTGCAGGCCGCCTTGCAACAGCC +GGATGTTGTGGCGCTGCGGGGAGACTGGACGCTGCCGTCCGATGCCATTACAGATTTTCT +GAAAACGCGCGGCCAGGTCGCCGTGCCGTTTAATCAGGTATATGGCCCCGGTTTGCCGGA +AGGGGAGGCACTGCCCACTTTGCTGACCCGCGATGCGGTATTACAAACGTTGAAAAAAGC +GAAAGGAATAACCCAATGAAATACATGATTGTTTTACTGCTGGCGCTGTTTTCGACGCTG +AGCATCGCGCAAGAAACCGCTCCTTTTACGCCGGATCAGGAAAAGCAGATTAAAAATCTG +ATCCATGCGGCGTTGTTTAACGATCCTGCCAGCCCGCGGATAGGCGCTAAACACCCTAAG +CTGACGCTGGTGAACTTTACGGATTACAACTGCCCGTACTGCAAACAGCTCGATCCGATG +CTGGAAAAGATTGTGCAGAAATATCCTGACGTTGCGGTCATTATTAAACCGCTGCCATTC +AAAGGAGAGAGTTCCATACTGGCGGCGCGTATTGCGCTGACCACCTGGCGCGATCATCCG +CAACAGTTCCTCGCGCTACATGAAAAACTTATGCAAAAGCGCGGTTACCATACGGATGAC +AGTATTAAACAGGCCCAGCAGAAAGCAGGGGCGACGCCAGTGACGCTGGATGAAAAAAGC +ATGGAAACGATACGCACTAATTTGCAGTTGGCAAGACTGGTCGACGTGCAAGGAACGCCA +GCGACGATCATTGGCGACGAGCTGATTCCGGGCGCAGTGCCCTGGGATACGCTGGAAGCG +GTGGTGAAAGAAAAACTGGCGGCTGCCAATGGCGGGTAAACTGCGGCGTTGGCTGCGTGA +AGCCGCGGTTTTTCTGGCGCTCCTCATCGCGATAATGGTGGTCATGGACGTCTGGCGCGC +GCCGCAGGCGCCTCCGGCGTTTGCCGCGACACCATTACATACGCTGACGGGAGAGTCGAC +AACTCTGGCGACCTTGAGCGAGGAACGCCCCGTACTGCTCTATTTTTGGGCCAGCTGGTG +CGGGGTATGCCGCTTTACCACGCCTGCGGTCGCTCACCTGGCGGCGGAAGGGGAAAACGT +CATGACCGTTGCGCTCCGCTCCGGCGGTGATGCTGAGGTTGCCCGCTGGCTGGCGCGCAA +GGGCGTTGACTTCCCGGTCGTCAATGATGCTAACGGCGCCTTATCCGCTGGCTGGGAAAT +CAGCGTGACGCCAACGCTGGTGGTGGTTTCACAAGGTCGGGTTGTGTTCACCACCAGCGG +CTGGACCAGCTATTGGGGCATGAAGCTTCGGCTGTGGTGGGCAAAAACGTTCTGAATATG +CGCCGGGGTTTCCCGGCGCTAACGCGTTTACTGTAAGAAAAACCTCCGTTTTGCGAAATC +GTTCCCGGAAAAATGATCCATTTCTGTCACACTCAGAACGATTTGATAACAACAAGAGGT +CATAGGGATGAAAAAATCATTACTCGCTGTTGCTGTGGCAGGGGCTGTTTTGTTGTCATC +CGCCGTACAGGCGCAGACAACGCCGGAAGGTTATCAATTACAACAGGTGCTGATGATGAG +CCGCCATAATCTGCGGGCGCCGCTGGCGAATAATGGCAACGTACTGGCGCAGTCGACGCC +GAACGCCTGGCCGGCGTGGGACGTTCCCGGCGGGCAACTGACGACGAAAGGCGGCGTGCT +GGAAGTCTATATGGGACACTACACACGTGAATGGCTGGTCGCGCAGGGGCTGATACCGTC +GGGAGAATGTCCGGCGCCCGACACGGTATATGCCTATGCGAATAGTTTGCAGCGCACCGT +CGCCACCGCGCAATTTTTCATTACCAGCGCTTTCCCCGGCTGTGATATTCCTGTTCATCA +TCAGGAAAAAATGGGCACTATGGACCCTACCTTCAATCCGGTGATTACCGATGATTCCGC +CGCGTTCCGGCAACAGGCCGTACAGGCGATGGAAAAGGCGCGTAGTCAGCTACATCTTGA +TGAGAGTTATAAACTGCTTGAGCAGATAACGCATTATCAGGACTCGCCGTCCTGCAAAGA +GAAGCATCAGTGTTCGCTAATCGACGCGAAAGATACCTTCAGCGCGAACTATCAGCAAGA +GCCTGGCGTGCAGGGGCCGCTGAAAGTAGGGAACTCGCTGGTGGATGCGTTTACCCTGCA +ATATTACGAAGGCTTTCCGATGGATCAGGTCGCTTGGGGCGGGATCCACACCGATCGGCA +GTGGAAGGTGCTGTCAAAACTGAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCCAC +GGTGGCGCGCAATGTCGCTGCGCCGCTGGTAAAATATATCGATAAGGTGCTGGTTGCCGA +GCGCGTTAGCGCGCCGAAGGTTACCGTGCTGGTGGGGCATGATTCCAATATCGCGTCGCT +GCTGACGGCGCTGGATTTTAAACCCTATCAGCTCCATGACCAGTATGAGAGAACGCCGAT +TGGTGGTCAGCTTGTCTTCCAACGCTGGCATGACGGTAACGCTAACCGGGATTTGATGAA +AATCGAGTATGTCTACCAGAGCGCCCGGCAGTTACGTAATGCGGAAGCGTTAACGCTCAA +ATCGCCTGCGCAAAGGGTAACGCTGGAACTGAAAGGATGTCCGGTGGATGCGAACGGCTT +CTGTCCGCTGGATAAGTTCGATAACGTCATGAACACTGCTGCAAAATAGCCGTATGCCCC +CGCGCAGGCGGGGGCGTTTGTGTTATACGTTCTTACGTTCGATGACTTGTTCGCCCCAGA +AGAGCGAGTCTTTGTCCGTTTTCTCAAAGGCTTTGATCAGCACCTCATCGCTACCTTCTT +CCCATATTTTTTCTGCCAGTTTCTCGTCATAGTGAGCGACTTCAAAAATGGCTTCGGCAA +TTTCCGGCGACGTATTACGCAGGCTTGCCCATTCGCCGACGCGGTGCGCTTTTGCTTCTT +GAGTTGGCATTCGAATCCTCCTGTTGAAGATTAGCCGTTGAGTTTGACTGCCAGACCGGC +GACGTATTCCCCCTGATAGCGAGCGATAGAGAGTTCCTCCTGGCTTGGTTGACGTGAACC +GTCGCCTCCAGCGATAGTCGTTGCGCCGTAAGGCGTACCGCCGCGAACCTGGGAGACGTC +AAACAGTTCCTGTGCGGAATAGCCTATCGGGACAATCACCATCCCATGATGGGCAAGCGT +AGTCCAGGTCGAGGTGATGGTCTGCTCCTGGCCGCCGCCCGTTCCGGTAGAACTGAACAC +GCCGCCGAGCTTGCCGTATAGCGCGCCGGATGCCCACAGTCCGCCGGTTTGGTCCAGGAA +GGTACGCATCTGGCCTGACATATTGCCAAACCGGGTTGGCGTACCAAAAATAATGGCATC +GTAATCCGCCAGCTCCTGTGGGGTGGCAACCGGTGCGTTTTGCGTTTTACCGCCAGCTTT +TGCGAAGATTTCAGGCGGCATTGTTTCTGGCACACGCTTTATAATGACCTCTGCGCCGTC +GACTTTCTTTGCCCCTTCCGCCACCGCGTGCGCCATGGTTTCAATGTGTCCGTACATGGA +ATAATAGAGCACCAGAATCTTTGCCATTTGTACTACTCCTCAGATTAATCAGGTGTGTAG +CGATTCGCTACGTCTATTTAAAGATATGCCCTCCTGTGAAGAGTGCAAATTTCAGCGCCA +TTTCTTTGATTTATAACAATAATTAATTTGGCGACCTTTGTTGCAAAATGATACATTTTT +AAGCGCTTTGATTTTTCCAAGTATAAGAATAACTTATTTATTTCTCATGGTTATTATTCT +GCATATTCGGCTTCTGATGTTGCAGAATATTTCGGTAAGCGGCCTACCACGGCGTTTTTC +ACTATGCTTAATTTTACGCGGCGTTACTGATGATATCGTTCATACGCGGCGCGAGGAGAT +ACTCCTCATTACCTATGCAATATGATGTCTAATCTATGACGGAGGTCAGTAATGGCAAAC +CATCGTGGCGGTTCCGGTAATTTTGCGGAAGACCGCGAAAGAGCATCAGAAGCAGGTCGT +AAAAGTGGTCAGCACAGCGGGGGCAATTTTAAGAATGACCCGCAGCGTGCATCCGAAGCA +GGCAAAAAAGGGGGCAAAAGCAGTAACCGTAATCGCTAGCCTGCGTCACAACAGCAAGAC +GCTGAGCGTTTCGCGCTAAAAAGCGTCATGCGCCACCGCCGCCGGATTTCCGGCGGTTTT +TTTGTTTATAAGCCGGATTTGGTATGCTTGCGTCCTGACGAAAAGGAGAGGGCGCATGTC +GCAACGCACAGAGAAAAAAATCGGGAAACGTTCGCAGGCCACCGGTGCAAAACGGCAGCT +TATCTTAACCGCCGCGCTTGCCGTTTTTTCCCAGTATGGCATTCATGGCGCGCGTCTTGA +ACAGGTCGCCGAGCGGGCAGGCGTCTCCAAAACCAATCTGCTTTATTATTATCCCTCGAA +AGAGGCGCTGTATGTCGCGGTAATGCGACAGATTCTGGATGTCTGGTTGGCGCCGCTCAA +GGCGTTTCGCGCAGAATTTTCCCCTCTGGAGGCCATCAAAGAGTATATCCGTCTCAAGCT +GGAGGTTTCGCGTGATTATCCGCAGGCGTCGCGGCTCTTCTGCATGGAGATGCTGGCGGG +CGCGCCGCTCTTAATGGATGAACTGACCGGCGATCTAAAAGCGTTGATAGATGAAAAATC +CGCGCTGATTGCCGGATGGGTGCACAGCGGGAAACTCGCGCCCGTTTCTCCGCATCATTT +GATCTTCATGATTTGGGCCGCCACGCAACATTACGCCGATTTCGCCCCTCAGGTTGAAGC +GGTAACCGGCGCGACGCTTCGCGATGAAGCCTTTTTCAACCAAACGGTCGAAAGCGTTCA +GCGCATTATTATTGAAGGGATTCGCGTGCGTTAACCGGCTGGCGGCAGTGGGCAGCTCAA +ATCACCCTCTTCACATTGCAGCAGCGAGGCTAAAAACGCTTCGCGTTCGTTCGTTTTATC +GGTCAGGCACTGGCTGGCGATCATGGGTTGAACGCTGCCGCCCTCCGTACCTGAGCGAAT +CAGCGCGCAATCGGCGTCGCGCAGGGCAATCCATGCCACCTGCGCTTTTTGCAATAGCTC +ACGCTGCGGCGGTTGCGCACGCTTAATCGCGCTTTGATAGGTTTCGTTCAGCTTTTTATC +TGCCGCCTGGTATTGCGCGGCGGCGCAGCGATTCATTTCCAGCTGCGTACTGGCGCTGGC +ACACTCATCGGCCAACGCCTGACTGCTGAACAACAACGCCGCGCAGGTAAGGAAAATTCG +TTTCATACGGTCCTCTGACGCGAGTAAAAAGGCTCCATTGACGGAGCCTTAATTAACCAC +AGTATTAGCCAATTGTCATCAGGCTGGCATTACCGCCAGCGGCGGCAGTGTTTACGCTCA +GCGAACGTTCAATATAGAGCCGTTCCAGCAGCATATTGCTTTCGCCGCGGGCGAACCCCT +GTACCGACACTATCGCGCCTTCGCGGGCGGCGACGGCTTCGCACACGGTTCGCAGCTTGT +CGGAGTCGCCGTGGAAAATCACCGCGTCAAACGGCTGCGCCATCAGCGTTTCCGCTTTCG +CAAACTGGACACGCGCCGCGACGGCGGCGGGGAGACGTTTCGCCAGATCGCGGTGGAAGG +CGTCGTCTGACCATAGCGCCTGACTGCCGACGGCGAGAACGGCGGCAAGCTGCGTCAACG +CGTCCTGTTCATCATCAGCCAGGCATAACACCCGTTCACGCGGCAACAGCGTCCAGGTAT +TACGCTCGCCGGTCGGCCCCGGTAGCAGGCGCTGCGTGCCGGCCTGCGCCAGATCGGCGA +ATTGTCGGCAGAGCGTCTGTAGCGCCGGGCGATCCGCCGCCCATTGCGTCAGAGCGGTCA +ACGGCGCGAGTAGCGTGGTTTTAAGCTGCGCATCCACCGGGTAACGCGCATCCTGACGAG +TCAGCGTCGTATTGAGCGCATTGGGCGGGCGGTGTGCCAGCAGGCGGTAGAGATAGAGCG +GCCCTCCCGCTTTTGGCCCGGTGCCGGACAGGCCTTCGCCGCCAAACGGCTGGACGCCGA +CGACCGCGCCCACCATATTACGGTTAACGTACAGGTTGCCGACATGGGCGGAACCGGTGA +CTTGCGCAATGGTTTCATCAATACGGGTATGTACGCCCAGCGTTAGCCCGTAGCCGGAAG +CGTTAATCTGTTCGATAAGCTCCGCCAGTTGGTTACGGTTATAACGCACGACGTGCAGCA +CGGGCCCGAAGACCTCTTTTTCCAGTTCTGCGAAGTTTTCCAGCTCAATAAGCGTGGGCA +TAACAAACGTACCGGTCTGCCATTCCTGCGCGTCATCGCTGTTTTCACGCGCGGCCTGGA +AAACCGGGCGGCCTTTGGCGCGCATCGTCTGGATATGACGTTCAATGTTGGCTTTGGCCT +CGCTATCGATCACCGGCCCGATATCGGTCGTCAGACGGCCTGGATTCCCCATCCGACACT +CCGCCATCGCGCCGCGTAACATTTTCAGCGTATGTTCGGCGATATCGTCCTGCAAACACA +GCACGCGGAGCGCGGAACAGCGTTGTCCGGCGCTGTCGAAGGCGGAAGCCAGCACATCCA +CGACCACCTGCTCGGTGAGCGCGGAAGAGTCGACAATCATAGCGTTCATACCGCCGGTTT +CCGCAATCAACGGAATAGGGCGCCCCTGGGCGTCAAGACGCGTGGCGATGTTGCGCTGCA +ACAACGTCGCGACCTCCGTGGAACCGGTAAACATCACGCCGCGTACACGCGCATCGGCGG +TAAGCTGGGCGCCGACGGTTTCTCCCCGTCCCGGCAACAGTTGCACGACGCCCGGCGGTA +CGCCCGCTTCCAGCAAAATGGCAATGCCCTGGGCGGCAATCAGCGATGTCTGCTCTGCCG +GTTTCGCCAGAACGCTGTTACCTGCCGCCAGCGCGGCGGCGATTTGGCCAGTGAAAATGG +CCAGCGGAAAGTTCCACGGACTGATACAGACCACCGGCCCTAACGGGCGATGCGTTTCGT +TATCGAAATCGTCACGCACTTGACCGGCATAATAATGGAGGAAGTCTACCGCTTCGCGCA +CTTCGGCAATGGCGTTGCTGAACGTTTTCCCCGCTTCACGCACCAACAGGCCAATCAACT +GCTGCATTTGGTCTTCCATCAATACCGCCGCCCGCTGCAAAATAGCGGCGCGTTCTTGCG +GCGGCGTCGCAAACCAAACCGGCGCCTGATTGACCGCGTTTTGCAACGCCTGTTCAACCT +CGCTTTCTGTCGCTTCGCGTCCCCAGCCAACAATATCTTTCGGTTCCGCCGGGTTGATAA +CCGGCGTCATCTCACCGTCGGCCACCGGTTGTTCCAGCACAGGTTTGGCCTGCCATTTCT +GCATGGCGTTGCTTAACAGGGCAGAAGAAAGCGAGGCGAGGCGATGTTCATTCGCTAAAT +CAAGTCCGGCGGAGTTTATCCGACCTTCGCCGTACAGATCGCGCGGCAGCGGAATTTTTG +GATGCGGTATGCCAGCCTGACCTTCCTGCTGCGCCAGTTTTTCCACGGCCTCGACCGGGT +CGGCCACCAGTTCATCGAGCGGTAGGGTGGCATCGGCGATGCGGTTGACAAAAGAGGTGT +TGGCGCCGTTTTCCAGCAGGCGTCGTACCAGATAGGCCAGCAGGGTTTCGTGTGTTCCCA +CCGGCGCGTAAATACGGCAGGGACGGTTAAGTTTTCCGTCCCCCACTTTACCGGTGACCT +GTTCATACAGCGGTTCTCCCATGCCGTGCAGGCACTGGAATTCGTACTGACCCGGATAGT +AATTTTGCCCGGCCAGATGATAAATCGCCGCCAGTGTGTGAGCGTTATGGGTCGCGAACT +GCGGGTAGATCAGATTAGGGACGGCGAGCAGTTTTTTCGCGCAGGCCAGATAAGAGACAT +CGGTATACACTTTGCGGGTATAAACTGGATAGCCCTCCAGCCCTTCCATTTGCGCGCGTT +TGATCTCGCTATCCCAGTAGGCGCCTTTCACCAGACGAATCATCAGCCGACGGCGGCTAC +GGGAGGCCAGATCGACTAAATAATCAATGACCAGCGGGCAGCGTTTCTGGTAAGCCTGAA +TCACAAAGCCAATGCCGTTCCAGCCCGCCAGTTCGGGTTCGAAGCAGAGTTTTTCCAGCA +GATCAAGCGAGATCTCCAGACGATCCGCCTCTTCGGCGTCGATATTGAGACCGATATCAT +ACTGGCGCGCCAGCAGCGTCAGGGATTTCAGGCGCGGATAAAGCTCCTCCATTACCCGAT +CGTATTGCGCGCGACTATAGCGTGGATGCAGGGCGGACAGCTTAATCGAGATGCCTGGCC +CTTCGTAAATACCGCGACCGTTAGACGCTTTGCCGATGGCATGAATCGCTTGCTGGTAAG +AGACCATATAGGCCTGCGCATCGGCGGCGGTTAACGCGGCTTCGCCCAGCATATCGTAAG +AATAGCGGAACCCTTTCTCTTCCAGTTTTCGGGCATTCGCCAGCGCCTGAGCAATGGTTT +CGCCAGTCACGAACTGCTCGCCCATTAAACGCATCGCCATGTCGACGCCTTTGCGGATTA +ACGGTTCGCCGCTCTTGCCGATAATGCGGTTCAGCGAGCGCGAAAGATTGGCTTCGTTAT +GCGTTGAGACCAGTCGGCCGGTAAAGAGCAGCCCCCAGGTGGCGGCGTTTACAAACAGCG +ACGGGCTACGGCCAATATGCGACTGCCAGTTGCCATTACTGATTTTGTCGCGAATTAACG +CATCGCGCGTAGCTTTGTCGGGAATACGCAGCAGCGCTTCCGCCAGACACATCAGCGCTA +CGCCTTCTTGCGAAGAGAGGGAAAACTCCTGCAACAGGCCTTGCACCATACCCGCGCGAC +CGCTGGCGGATTTTTGATTGCGCAATTTCTCCGCCAGTTGATACGCCAGTTTATGCGCCT +GCTCAGCGACAGGCGGCGACAGGCGCGCCTGTTCCATTAGCATTGACACCGCATCGGTTT +CCGGGCGGCGCCAGGCGGCGGTGATGGCGGCGCGAGAGACGGATTGGGGAAGAATCTGTT +CGGCAAACTCCAGAAAGGGCTGATGCGGCTCATCCTGCGGCGCGACCGGCTCCTCGCTTT +CATTTGCCGCGCCGGCAAACAGCGCAGGTAGCTCCGGTAGCGTATCGCTATTTTCCAGCT +TGTCCAGATAGCTAAAGATTGCCTGTTTTATTAACCAGTGCGGCGTGCGATCGATACGCG +ACGCGGCCATTTTGATCCGTTCGCGCGTGGCGTCGTCCAGCTTAACCCCCATCGTGGTGG +TTCCCATACCCTCTACTCCTGTTATTCGCTCTATCTGCTAACCAATAGTTAGCGGAAAAT +ATCCACTATATTGCAACTTTGTGCAACCGCGTTAAATGTGACCTGCGTTGCAAGCTTAAA +AATGAATAAATTGTTAAAAAAAGAAAGTGGGAGTCTGACGGGGAAAACCATCTGGATTTA +TTTTCTCTGCGGTAGTTAACACTTTTAAAAGGTGCAACCGCAAAAAATGTGAGAGAGTGC +AACCTGGAGAAAAATAGTATCCCTCTGCAATCAAATTTGATGTAAATGGTGTGTTAAATC +GATTGTGAATAACCACCGATTCCGGCAGGATACGGTCGCCCTGGTAAACATAACACCCTT +GCCACGTTCCGGCAGGGTACAAAACGGCACGCTACGGTAGTGCCAATAAATAAATTTGGA +GAACCTTGATGGCTATTAGCACACCGATGTTGGTGACATTCTGTGTCTATATTTTTGGCA +TGATATTGATTGGGTTTATCGCCTGGCGCTCAACCAAAAACTTTGATGACTATATTCTTG +GCGGTCGCAGCCTGGGGCCGTTTGTTACGGCTTTATCAGCCGGCGCGTCGGATATGAGCG +GCTGGCTGTTAATGGGGCTGCCTGGCGCTATCTTTCTGTCGGGGATCTCTGAAAGCTGGA +TCGCCATTGGCCTGACGTTAGGCGCATGGATTAACTGGAAGCTGGTGGCCGGGCGCCTGC +GCGTGCATACCGAATTTAACAATAACGCGCTCACGCTGCCGGACTATTTTACCGGTCGGT +TTGAGGATAAGAGCCGAGTCCTGCGTATTATTTCCGCGCTGGTCATTCTGCTGTTTTTCA +CTATCTATTGCGCATCAGGTATTGTCGCTGGGGCACGACTGTTCGAAAGCACCTTCGGTA +TGAGCTATGAAACCGCACTGTGGGCGGGGGCCGCGGCAACCATTATTTATACCTTTATCG +GCGGGTTTCTTGCCGTTAGCTGGACGGATACCGTTCAGGCCAGCCTGATGATTTTTGCGT +TAATCCTGACGCCGGTGATGGTTATTGTCGGCGTAGGCGGTTTTAGCGAGTCGCTGGAAG +TGATCAAGCAAAAGAGCATCGAGAATGTCGACATGCTCAAGGGGCTGAATTTTGTCGCTA +TTATTTCTCTGATGGGCTGGGGGCTGGGTTACTTCGGTCAGCCGCATATCCTGGCGCGCT +TTATGGCGGCGGATTCCCATCACAGTATTGTTCATGCGCGTCGTATCAGTATGACCTGGA +TGATTCTGTGTCTGGCGGGCGCGGTGGCGGTGGGCTTCTTTGGCATTGCGTACTTTAACA +ATAACCCCGCGCTGGCCGGGGCGGTGAACCAAAACTCAGAACGCGTATTTATTGAACTGG +CGCAGATCCTGTTTAACCCGTGGATTGCCGGTGTTCTGCTGTCTGCTATCCTGGCGGCGG +TGATGTCGACGTTGAGCTGTCAGTTGCTGGTATGCTCCAGCGCGATTACGGAAGATTTAT +ATAAGGCTTTTCTGCGTAAAAGCGCCAGCCAGCAAGAGCTGGTATGGGTAGGGCGAGTGA +TGGTGCTGGTGGTAGCGCTGATCGCCATTGCGCTGGCGGCGAATCCTGATAACCGTGTGC +TGGGGCTGGTGAGCTACGCCTGGGCTGGATTCGGCGCGGCATTTGGACCTGTTGTCCTGT +TTTCTGTGATGTGGTCGCGTATGACACGTAACGGCGCGCTGGCGGGAATGATTATTGGCG +CGGTGACGGTTATCGTCTGGAAACAATATGGCTGGCTGGATCTGTATGAGATTATCCCTG +GCTTCATTTTCGGCAGCCTGGGGATCGTAATCTTTAGCCTGCTTGGCAAAGCGCCGACAG +CAACGATGCAGGAACGCTTTGCAAAAGCGGACGCGCATTATCATTCCGCGCCGCCGTCGA +AGCTACAGGCGGAATAACCGACATGTCCGATAGCATTATTGCCATCGGATATATTTTACC +AGGCGGCGTTATACGCCTGCCTGGTCCTCTGATAAGTCCCGGACCGATTGACTGAAGGTG +TTCAGGTAAATGAGGACGCTCTCTCAAACTATTTTTAGCCCTTGAGCGCCGTTAACGCGG +CCGTAATACGTCTCGAGTAATCACTAACTGACCATATATGAAATCGCCTGTTAATGGTAC +CAATAGCCTTGACGCAATAGAGTAATGACAAAAATTAAAACGAGTCAGCGTTACTGGCGT +AAGTATGCCGCACAAAATTTTGCATAAATAATGCCGTTTTAGCGATGGGAGAGAGGACAC +GTTAATTACTCCGTTTTAATCTTTTATATGTTGAATATTCAATGGGTTATGGGTGTTTTC +ACCATTAATACCCATAGTAGCTAATGATTATCTTTTTTAGTCTCCTGCCAATGAAATAAT +TGTGTAATCTTTCTGTAAGAGACTGACAATGACGCAATAATGTTTGGTTAATGTTTGGTG +AATATATTGTTGCATTATTGATGTTTTGTGTTGTACTTAGTAGTAATAGCGGTAGTTCCC +CGGCAGTGATGGTCACTCACTATGGAGATCGCGAATGGTAATGTCCGCACCAGGACACAT +TGTTTACAGTAGTTACAACACCCTGTACGGACATTCTCTCTCCGGTGGTGGTCTTGTCAT +CTTAAAAGCTCTCATCATTTCCCTTACTGTCCATACCCATGACGCCATATGTGGTGCGCG +TAGCCGTGTGTGGCGTCGTTTCAAAAAGCAAGCTAAGGCTTACAAGGAAGCCAACCCTCA +GATGTGTGTGCGCATAATCGCGTTCAAGAGAACGCGGGTGATGTATACCTACAACTCAAG +GTGCTATCCATGGGAAGACAAAAAGCAGTGATCAAAGCTCGTCGTGAAGCAAAGCGTGTG +TTGAGACGAGATTCGCGTAGTCATAAGCAACGTGAAGAAGAATCGGTCACGTCACTGGTA +CAGATGGGCGGAGTAGAAGCCATTGGCATGGCGCGCGATAGTCGCGATACCTCTCCTGTT +AAGGCGCGAAATGAAGCACAGGCGCATTATCTGAACGCTATCGACAGTAAACAGCTTATT +TTTGCGACCGGCGAAGCCGGCTGCGGAAAAACATGGATCAGTGCGGCAAAGGCGGCAGAA +GCATTGATTCATAAGGACGTCGAGAGGATCATTGTGACGCGTCCGGTATTGCAGGCTGAT +GAAGATCTTGGTTTTTTGCCCGGTGATATCGCTGAAAAATTCGCGCCTTATTTTCGTCCC +GTCTACGATGTCCTGCTTAAACGGTTGGGCGCGTCCTTTATGCAATATTGTTTGCGCCCG +GAAATCGGTAAGGTAGAAATTGCCCCGTTCGCCTATATGCGTGGGCGTACTTTTGAAAAT +GCGGTCGTGATCCTCGACGAGGCGCAAAATGTGACTGCGGCGCAAATGAAAATGTTTTTG +ACGCGATTAGGCGAAAATGTCACGGTCATTGTCAATGGCGATATTACGCAATGCGACCTG +CCGCGCGGTGTGCGTTCCGGGTTGAGTGATGCGTTGGAACGCTTTGAAGAAGATGAAATG +GTGGGGATTGTGCATTTCAACAAAGACGACTGCGTGCGCTCGGCGCTTTGTCAGCGAACG +CTCCACGCATACAGCTAATATAGCATTGACTTTCAGAGCCCGGGAGACCGGGCTTTGTTG +TCTATAAAGCGTCCAGCAGACTCATGGACAAAAAAGGAAAATGACGCCTGTACGTGAAGG +GAATTATTTTGTCATGTCCAGGGCATTCATTGTCCGTAATTTGCTTTCTCGGGCCTGTTC +CGGCGAGGACTGTACAAGAAGGGTATAGAGCAGGTCAAAGACGAAAAGCTGCGCGGCTTT +CGTACCGATCGAGTCACCCTGCAACATTCCTTGCCGATTACCATTGATCAGGCAAAAATC +GGCCTCTTCACATAATGGAGAACCCAGATTATGGGTAATGGCGACTGTGGTGGCGCCAGC +CTGTCGGGCCAATCGGAGTGAATGCACTGTTTCTGGCGATGTGCCCGAGTGACTGACACC +CATCGCGACATCGCCTGCTTTCAATAGCGTAGCCTGCATGTACATAAAATGGTTATTGCT +TACCGCATCGCCCCGTAAACCCATACGCATTAGCTTGTGTTTCATATCCAGCGCCGTGAT +CCCCGATGAGCCCACACCAAACATATAAACTGAGTGACAGTGACGTAGGGCGTCCACGAC +ACCGAGAACCTGTTGCATATCCAGCAGATTTAGCGTTTCAGATAATACATTACTAATGGT +GTTCTGCAATTTTAAACCAATCGCGTGGGCATCGTCGGATTCGCTAACTTCGGCATCCAG +TAGAGGACTACTGTCATCAGACTCGGTAGTGGCAAGTTCAATGGCCAGGTCCATTTTAAA +ATCCTGAAAACCTTTATAGCCCAGGGTGCGACAAAAGCGAATAACCGTGGCTTCTCCGGC +CTGTGTGTCGCGCGACAAATCCGCAATAGATGACTGTGTCACCTGTCTGGGGAAGGCTAA +AATATATTGCGCAATACGCTGCGAGGCACGTGTCAGGCTTTTTTGCATAGCACCCAGAGT +GTCAAGGATTTTTCCGGGTTTCAGACGTGGGGGTTGAGGCTCCATATAGTTCCTGCTCTT +GAGGGCTGATTGCGGCACAAACCCTGCAATATCGAACAGAGCAGAGCCTATCAAGTCTGC +GGCATGAAAAAAAGCGCGATGCAAGTAAAGGAGGGGGAATATTTACATCGCGTTGCCAAC +TTATGACAGAACATCACTGGACAGTAATCTGTTTGCTCTTACGGTGTTTATAGCGCGCCA +TCTGTCGGATGGTTTATATCTCGCCCGGTATTGTCGCCCCGCGCGTTGGCGTCACCGTGT +GCTGTGTCGGTATAGCGTGGTCTCATGAAATCATAATGTCACCTTTGGTTCAGGTTTTTC +ATCCAGCGTCAATGGCGGTGCCGGGGCAAATAACGGGGCGAAAATAACGCCGCTGATCAC +CACGCTTAGCGAGCCAATGACCCCATAAAAGAAGAAGTTAAGGTCAGTGGCATAGCGTGT +GCCCAGCACGGTAATGACGCTCATAATAATTCCTAAAACCGCACTCCCGGCATTTGCTCG +TTTAAAGAAAATGCCCAGCATCAACAGACCGGTCATTGGCCCTCCCATCAGACCTATCAG +ACTATTAAATGCATCCCAGATCTCTGATTCATCGGCCATGACCAGCCATACCGAGGCCGC +GCTACTTATCAGGCCCGCGACCAGAATAACTAACTTAGCTATTTTCATACGGTTTTCTGG +CGTTCCTTTTTTATGACTCAACCGCTGATAGATATCGGAATTAAAACAACTGGAAATGCT +GTTTAAGCTGCTGGAGATGCTCGACTGCGCGGCAGCGAAAATAGCGGAGATTATCAACCC +TGCAATGCCGACTGGCATTTCCGTGACCACGAATAAGGGCAAAATGCCGCCAGTGTTGAA +TCCCGCCGGTAATAATTGTGGCTGTTGCTGATAGTAGACAAATAATGCCGAGCCGATAGC +AAAAAAGAAAACAGGGATCACCGCAACCAGTTTGGCATTTGTAAGTAATGTTTTCTTCGT +TTCCTCTATGGAGTCAGTCACCATATAGCGTTGGACCACATCCTGACTGGCAGTAAATTG +CTGAATATTGGCAAACAGAAACCCAATCATCAATACAGGTACTGTGCTTTCCGTCCAGCT +CCAGTGGAACTGCGTAGCCGGCAAGAATTTATCCGCCTGCTGCGTCACCGTAAAAATTTC +ACCAATGCCGCCCTGGACTTTCAGACATATCACTATAAAAATCAGTATCGCGCTGCCAGA +AAGTAAGAGACCTTGAATAACCTCAGTCCATATTACTCCTTCAATTCCCCCCCATCCAGG +TATAAATGATACACATCACACCAATCAACAGTACCAAAATCACCGGGTCTATAGCGATGA +AGGGGCGCAAGGCCAGCACGGCGAGGAAAGTGATAATGGCGATACGTCCAATATGAAACA +ACATAAATGACATGCTGGCGACCAGACGGCAGCGCACATCGAACCGTGCTTCGAGATATT +CATAGGCTGATGTGACTTTCACTTTCCGAAAAAACGGAATATAGAAATAAAAAACCAGCG +GTAAAATTGCGATAGCCAGATCCTGACCAATGATAAACGTCCAGTCGGAAGTAAACGCTT +TGGCAGGAATTGACATAAATGCAATTGAGCTTAACGTAGTAGCAAATACACTGACCCCAG +CCGCCCAACCAGGAACCCGGCCACCACCGCGAAAATAATCGTCTGCTGTTTTTTGCCGTC +TGGAAAAATAGACACCGACTACCATCATGGCCAGGAGGTAGCCAAATAATACAAAATAAT +TAACGATGCCGAAAGAATGTGCAATCATAGTTCTTTCCTGCTTATGGTTTTGAGTAGCGT +TGCGGTCATCGTCTGTGTATTTTTATCTTCCCATCATTCAGACGATACGATATTCAGATC +AAGCAATAGTTTTTGTTAATCTCAATGACGCTAATCATGAGATGTAAAAGGCAGAGCATT +TATGCTCCACCAATGGTGATGCCCAGACGTATGTCCTGCCGGATACCTGAAATAGCAGCT +ATCCGATATTGCGTTCAAACAGGCTTCAGGCCTGGGTATCGTATTTGCCGATAGCATTCT +TAACGTCGGATTATTCTCTGAGACATAAATATCAATAGTAAGCGTGTTCATTTTCTTTTC +CTGTTCAGCGTTTTACTGCGTGACTGAACCACTGACAGATATGCTCGATACGGGTGATAG +CGGAACCAACGGTAACTGCCCAGGCACCATGCTCAATAGCATTGGCCGCCAGTGCAGGCG +TGTTATAGCGCCCCTCGGCAATAACACGACAACCTGCATGACTCAGTTGTGTCACCATTG +CCAAATCTGGCTCAACCGGCGTGATGGGACCGGTATAGCCAGACAGTGTTGTACCAATGA +ATTCGATTCCTTTCTGATGGCAACTTATGCCTTCATTCACGGTTGAACAGTCTGCCATCG +CCAGTAATCCATGCAGGCGAATACGTGTCAGTAAACTATCAATATCAACCGGGCGAGAGC +GGAATGAGGCATCAAAAGCGATAATATCGGCACCTGCCTGCGCCAGGGCGTCAACATCCT +GTAAATATGGAGTGATACGGACTGGCGACCCTGTAAGGTCACGTTTAATTATCCCAATAA +TAGGAACAGAAAGATGGGGACGAACAGTCCGCAGATTCTCAATGCCTTCAATGCGCACAG +CGACCGCACCCGCCGAAGCCGCTGCCTGTGCCATTGCAGCCACAATTTCAGGTTTATCCA +TAGGGCTGCCTGGTACCGGTTGGCATGAGACAATCAGCCCACCGTTTTCGTGTACACTTT +GTTCCAGCCTGGCTAATAGTGACATCCAGTTCCGCCTTATATATTTTGAAGTTTTACTCC +GTTTTATATTATGTTGTGGAGTGTTGCTGCATCAAGCAAAAAGATAGAAAAATGTGAACA +CAGTCATAAGGTATGTTTGTCATTCAATTACTGCGCCAGCGGATTTGAGGCTATAACCTG +AAGCTACAAGACAAATACAATTCATTCTGACGGCAGCATGCTGTATTTTATTAACTGCTT +CCGGCATAAAGATAAAATGCTCAGAAGGAGCTTATACGCCACGGGATAGCCAGTATGAAA +TGCATCACATAATTCTTGTTGTATTTATTCAGAATGCAATCACTAATGAGTTTGCCCATA +ACAGGTCACCCATAATCACTTCTAACATCACCATAGTGTGCTTTTACCTCGCACATGGTA +ACCCCATGTAATTATTTTTAGCGCTTGGTCACATTTTGTCATTTTCATTGTTGAAATTAT +GCACCATAAGATCACTAATGATGAAGCTTTACTCCAGTTGTATTTCTTCGCATGGGGATG +CAGATGAAAAATTTTAAGAAAATGATGACGCTAATGGCGCTATGTTTATCAGTTGCTATC +ACCACATCAGGATATGCAACCACGCTTCCTGATATACCAGAACCACTGAAAAATGGTACT +GGCGCTATTGATAATAATGGCGTGATTTATGTCGGCTTAGGTACCGCAGGGACATCCTGG +TATAAAATTGATCTTAAAAAGCAACATAAAGACTGGGAGCGTATAAAGTCGTTTCCTGGT +GGAGCTCGTGAGCAATCCGTGTCGGTATTTTTAAATGATAAGCTGTATGTTTTTGGTGGC +GTAGGGAAAAAAAACAGTGAATCACCGTTGCAGGTTTATAGCGATGTGTACAAATACTCA +CCGGTGAAAAATACATGGCAAAAAGTTGATACTATATCTCCAGTTGGATTAACAGGGCAT +ACGGGAGTAAAATTAAACGAAACGATGGTACTTATTACCGGAGGGGTTAATGAGCATATC +TTTGATAAGTATTTTATTGATATAGCGGCTGCGGATGAAAGTGAAAAAAATAAAGTCATC +TATAATTATTTTAATAAACCTGCCAAAGATTATTTTTTTAATAAAATCGTATTTATCTAC +AATGCTAAAGAGAACACATGGAAGAATGCCGGTGAGCTGCCAGGCGCGGGGACGGCAGGA +TCGTCATCGGTAATGGAAAATAATTTCTTGATGCTGATTAATGGTGAGCTCAAACCGGGT +TTACGTACCGATGTGATTTACCGCGCCATGTGGGATAACGATAAGCTAACATGGTTGAAG +AACAGCCAGTTACCGCCATCGCCTGGAGAACAACAGCAGGAAGGGTTGGCCGGAGCATTT +TCGGGCTATAGCCACGGTGTCCTGCTTGTCGGTGGTGGCGCGAATTTTCCGGGAGCAAAA +CAAAATTATACTAATGGAAAGTTTTATTCCCACGAAGGGATAAATAAAAAATGGCGAGAT +GAAGTCTATGGTTTGATTAATGGCCATTGGCAATATATGGGTAAAATGAAACAACCTCTC +GGCTATGGTGTATCAGTAAGTTATGGTGATGAAGTTTTCCTTATTGGTGGTGAAAATGCT +AAAGGGAAACCTGTTTCGTCTGTAACCTCCTTTACCATGCGTGATGGTAATTTATTAATA +AAATAATTTTTTAAATACAAAAATAAAGTTAATTGATAAGCGGAGTATTTTATGAAAATC +AACAGATATCTTCTGGGTATGGTTTCGTTTATAGCATTTTCATCATATCTACAAGCGGCA +ACCCTTGATTATCGGCATGAATATGCTGATAGAACCAGAATTAATAAAGACCGTATTGCT +ATAATTGAAAAGCTTCCTAACGGCATTGGTTTTTATGTCGATGCCAGCGTTAAATCGGGA +GGAGTAGATGGTGAGCAGGATAAGCATTTAAGCGATCTCGTCGCAAACGCTATAGAACTG +GGCGTAAGTTATAATTATAAAGTTACGGACCATTTTGTTTTGCAGCCTGGATTTATATTT +GAAAGCGGTCCAGACACTTCAATTTATAAGCCTTATTTAAGGGCGCAATATAATTTTGAT +TCTGGTGTTTATATGGCTGGTCGTTACCGTTATGACTATGCAAGGAAGACAGCTAACTAT +AATGATGATGAGAAAACGAATAGATTTGATACTTATATAGGTTATGTTTTTGATGAGTTG +AAATTGGAATATAAATTTACCTGGATGGATAGCGATCAAATTAAATTTGATAACAAAAAA +ACAAACTATGAACATAATGTGGCTTTAGCCTGGAAACTGAATAAGTCATTTACACCATAC +GTTGAGGTCGGAAATGTAGCGGTGAGAAATAATACCGATGAGAGACAGACCCGTTATCGC +GTTGGATTACAATACCACTTTTGAGAAAGGTTAAAGAGTTACTGTACTAATCTTTGCTTA +GTATTCATATCGATAATCTTATAGCCCGTAGCTACGTTACAGAACGTTAGACTTTGTCTT +GAGTATTCACGTCCTTAACGTAGCTACGAACAAGGATGATAAACAATGAATATACGCCTT +ACATAGCTACGATCTCAGGCGGTTGTCGGAAAGTGCCGGTTGATAGTGTCTTATTCGGCA +ATTGATATGACTTAAAAATTAATTCCGTAAGCATTTCAGACGGTAACAGCAAATAAGGGT +TTTATTGTGATAGCAAAATTCTTCCCGTGGTATAGCGAGATAACACGTCCACAAAAAAAT +GCTTTATTTTCAGCATGGCTGGGTTACGTTTTTGATGGCTTCGACTTTATGCTGATTTTC +TACATTATGTATCTGATCAAGGCTGACTTAGGATTGACAGATATGGAGGGCGCATTCCTT +GCCACAGCGGCCTTTATTGGGCGACCATTTGGCGGGGCGCTATTTGGTCTGCTGGCAGAC +AAATTTGGCCGTAAGCCGTTAATGATGTGGTCGATAGTTGCCTATTCTGTAGGTACAGGG +TTAAGTGGCCTGGCTTCCGGTGTAATTATGCTGACGCTTAGTCGTTTTATTGTCGGTATG +GGGATGGCGGGGAAGTATGCTTGCGCTTCTACTTATGCCGTGGAAAGTTGGCCAAAGCAT +TTAAAATCTAAAGCGAGCGCATTTCTGGTTTCAGGTTTCGGTATTGGTAACATCATAGCA +GCCTATTTTATGCCGTCATTTGCCGAAGCGTATGGTTGGCGTGCTGCTTTTTTTGTCGGT +TTGCTACCCGTTCTTTTAGTAATCTACATCCGGGCCAGGGCTCCTGAATCTAAAGAGTGG +GAAGAAGCCAAACTCAGTGGTCTCGGAAAGCATTCACAAAGTGCCTGGTCAGTTTTCTCT +TTGTCAATGAAAGGGCTATTTAATCGAGCTCAATTTCCACTGACATTATGTGTATTTATT +GTTCTGTTCTCTATTTTCGGCGCAAACTGGCCGATCTTTGGTCTACTGCCTACATATTTG +GCGGGAGAGGGCTTTGATACGGGCGTGGTCTCTAATTTAATGACGGCGGCGGCATTCGGC +ACTGTATTGGGAAATATCGTTTGGGGTCTGTGCGCAGATAGAATTGGTTTGAAGAAAACG +TTCAGCATTGGTCTTCTCATGTCCTTTTTATTCATTTTCCCGTTATTCAGAATTCCGCAA +GATAATTATTTACTGCTGGGCGCATGTTTATTCGGTTTAATGGCGACTAACGTAGGTGTT +GGCGGGCTGGTTCCCAAATTTCTCTACGACTACTTTCCTCTTGAGGTTCGTGGTTTGGGT +ACCGGGCTTATTTATAATCTTGCTGCGACATCAGGCACATTCAATTCAATGGCGGCGACC +TGGCTTGGAATAACAATGGGGCTAGGCGCTGCGCTAACGTTCATTGTTGCTTTCTGGACC +GCAACAATTCTACTCATTATTGGCCTATCCATTCCGGATAGACTAAAAGCACGTCGTGAA +AGGTTTCAGTCAACAAAAGAATTTTAATAGAGGATAAATGATGACGAAATACGGTGTTAT +AGGTACAGGTTATTTTGGCGCTGAACTGGCGCGATTTATGTCTAAGGTTGAAGGGGCGAA +AATCACTGCGATTTACGATCCGGTAAATGCGGCTCCGATAGCGAAAGAGCTGAACTGTGT +CGCCACTTCAACGATGGAGGCGCTTTGTACCCATCCTGATGTGGATTGCGTAATTATTGC +TTCACCAAATTACTTACATAAAGCGCCGGTCATTGCGGCGGCTAAAGCGGGTAAACACGT +GTTTTGTGAAAAACCTATCGCCTTAAATTACCAGGATTGTAAGGATATGGTTGATGCCTG +CAAAGAAGCTGGTGTTACCTTTATGGCGGGTCACGTTATGAACTTTTTTCACGGGGTTCG +CCACGCTAAAGCGCTCATCAAAGCCGGTGAAATCGGTGAAGTTACACAAGTTCACACTAA +ACGTAATGGTTTTGAAGACGTGCAGGATGAGATCTCATGGAAGAAGATTCGCGCAAAGTC +AGGTGGGCATCTGTACCATCACATTCACGAGCTAGATTGTACACTGTTCATCATGGATGA +AACCCCATCCCTGGTTTCAATGGCGGCGGGGAATGTTGCGCACAAAGGTGAAAAATTTGG +TGATGAAGATGATGTTGTCCTAATCACCCTTGAGTTTGAAAGCGGTCGTTTCGCGACACT +TCAGTGGGGATCATCGTTCCACTACCCTGAGCACTATGTATTAATTGAGGGCACGACAGG +TGCAATTCTCATTGATATGCAAAACACGGCTGGTTATCTAATAAAAGCGGGCAAAAAAAC +ACACTTTCTTGTGCATGAAAGCCAGGCGGAGGATGATGATCGTCGCAACGGTAACATATC +CAGCGAGATGGATGGCGCAATCGCTTATGGTAAACCCGGTAAACGTACGCCGATGTGGCT +CTCATCAATTATGAAACTGGAGATGCAGTACTTGCATGATGTGATAAACGGTCTGGAGCC +AGGCGAGGAGTTTGCTAAATTGCTAACGGGAGAAGCGGCGACAAATGCCATTGCTACCGC +TGATGCTGCGACGCTTTCTTCAAACGAGGGGCGCAAAGTTAAACTCACTGAAATTCTTGG +CTAAAATTTAAAGCCGGATGGTGGTGTTATTGGCCGGTGGCGCTGCGCTTATGTAGACTG +GATAAGGCGCCCGTGAACTGTGCCGCCATCCGGCAATGGACGGGGGCTTAATGCGAAAAA +AAGCCCGTACATTCGTACGAGCTCTTTCTTAAATATGGCGGTGAGGGGGGGATTGACTCG +CTGCGCTCGCCCTTCGGGCAGCCCGTTCGCTGCGCGCCCGGTCTGTCCAACTGGCTGCGC +CAGTTGTCGAACCCCGGTCGGTGGTTCTCATCCCCCCTTGGTTTGGGGGATACATATAAG +CAAAAAGCCTGTACTTCTGTACAGGCTCTCAACTTGAAGATGGCGGTGAGGGGGGGATTC +GAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGAC +ACCTCACCAAATTGTCGCTCCAGCATTACTGGAACGGGCGCTAATGTAGGGAAATATCCT +TTCTACGTCAATCAACTTTTTTAAAAAAAAGCGCTTTTATACAAACTTCCATCAATCTGT +GGCTTTAATAAGCGAAAACTGCTTTTTTTGCCCGCGCCGGGAAATTTGCTATGCTGCACA +TCCCGTTGAAAACGCTGATAACAGGCGCAATCACATTCCGCACAATACTGCTCAGGAGAT +AACATGGAGATAATTTTTTATCACCCGACATTTAACGCCGCCTGGTGGGTAAATGCGCTG +GAGAAGGCTCTCCCACATGCGCGCGTTCGTGAATGGAAGGTCGGTGATAACAACCCCGCA +GACTATGCGCTTGTATGGCAGCCCCCGGTTGAAATGCTGGCCGGAAGACGCTTAAAAGCC +GTCTTTGTGCTGGGCGCGGGGGTGGATGCAATTCTGAGTAAATTAAATGCGCATCCGGAA +ATGCTGGACGCCTCCATTCCTCTATTCCGTCTGGAAGATACCGGAATGGGCCTGCAAATG +CAGGAGTATGCCGCCAGCCAGGTATTACACTGGTTCCGTCGTTTCGATGATTATCAGGCG +CTGAAAAATCAGGCGCTATGGAAACCGTTGCCGGAATATACCCGCGAAGAGTTTAGCGTC +GGTATCATAGGCGCAGGGGTACTGGGCGCAAAAGTGGCAGAAAGTCTACAGGCGTGGGGG +TTCCCGTTACGTTGCTGGAGTCGTAGCCGCAAATCCTGGCCTGGCGTGGAAAGTTATGTA +GGGCGTGAAGAACTGCGCGCTTTCCTGAACCAGACGCGGGTGCTGATTAATCTGCTGCCG +AATACGGCCCAAACGGTAGGAATTATTAATAGCGAATTGTTGGATCAATTGCCGGATGGC +GCTTACGTGCTGAATCTCGCGCGCGGCGTTCATGTTCAGGAGGCGGATCTGCTGGCTGCG +CTTGATAGCGGTAAGCTAAAAGGCGCGATGTTGGATGTCTTTAGCCAGGAACCGTTACCG +CAGGAAAGTCCATTATGGCGCCATCCGCGAGTCGCCATGACGCCGCACATTGCGGCAGTC +ACCCGTCCGGCGGAAGCCATCGATTATATTAGCCGCACCATTACCCAGCTGGAGAAGGGA +GAGCCGGTGACGGGGCAGGTGGATCGGGCGAGAGGATATTGGTATCAACCCGGCGCGGGC +CGGGTTTCGCTAAAAAACGCTGGCGATACCTGCTATCCTTGGCGGAAATGACTACAGGAG +AGAGCAATGTATCCCGTTGACCTGCATATGCATACCGTCGCGAGCACTCATGCCTACAGT +ACTCTGAGCGATTATATCGCGGAAGCCAAACGCAAAGGCATGAAACTTTTTGCGATTACC +GATCATGGTCCGGACATGGAAGATGCGCCGCATCACTGGCAGTTTATTAACATGCGCATC +TGGCCGCGTCTGGTTGACGGCGTGGGGATACTGCGTGGCATGGAGGCGAATATCAAGAAT +ATTAACGGTGAAATTGATTGTTCCGGAAAGATGTTCGACTCGCTGGATCTGATTATCGCA +GGCTTTCATGAGCCCGTTTTTGCGCCGCATGATAAAGAAACGAATACTCAGGCGATGATC +GCGACCATCGCCAGCGGCAAGGTGCATATAATTAGTCACCCGGGAAATCCAAAGTATCCA +GTGGAGGTTAAAGCCATCGCGCAGGCGGCGGCGAAACACCAGGTAGCGCTGGAAATCAAC +AACTCTTCTTTTCTGCATTCGCGTAAAGGAAGCGAAGATAAGTGCCGCGCGGTCGCTGCC +GCCGTACGCGATGCGGGAGGCTGGGTAGCGTTAGGCTCTGAGTCCCATACGGCCTTTACG +CTTGGCGATTTCACCGAATGCCGGAAAATTCTGGATGCGGTGAATTTTCCGGAAGATCGA +ATCCTGAACGTCTCTCCGCAGCGCTTACTGGCCTTTCTCGAGTCACGCGGTATGGCGCCT +GTACCGGAATTTGCCGAACTTTAATCGTTATTTACGGGAAGGTATCAATGAATGAGTTTT +CAATCCTGTGCCGTGTGCTGGGATCGTTGTTTTACCGCCAAGCGCAAGATCCTTTACTGG +TTCCGCTGTTTACGTTAATCCGTGAAGGTAAACTGGCGGCAGACTGGCCGCTGGAGCAGG +ATGACATGCTGGCGCGTTTACAGAAAAGCTGCGATATCACGGAGATTTCCACTGATTACA +ATGCGTTATTTGTTGGGGAAGAGTGCGCGGTAGCGCCATACGGCAGTGCGTGGGTCGAAG +GCGCGGAAGAGTCTGAGGTGCGCGCTTTTTTAACGTCGCGAGGGATGCCGCTGGCCGATA +CGCCTGCCGATCACATTGGCACTTTATTGCTCGCGGCCTCCGGGCTGGAAGATCAGTCTG +CCGAAGATGAAAGTGAAGCGCTGGAAACCTTATTTGCCGATGATCTGCTTCCCTGGTGCA +ATACCTTCCTCGGTAAAGTTGAAGCCCATGCCGTTACGCCAGTCTGGCGCACTCTGGCGC +CGCTAACGCGTGATGCGATAGGGGCCATGTGGGATGAACTTGAGGAAGAAGATGAAGAAT +AATGTGATGTAAATCACCATTAACTGCAACGGGTTTTGCATGATTGCATAAAATGTGTGC +GTGATCTCATTAATGTGCCGCTTTTCTGTTATGATGCGCGCGATGAACATACTTCTTTCT +ATTGCTATCACTACGGGCATCCTTTCTGGAATATGGGGATGGGTGGCCGTCTCCCTGGGG +TTACTAAGCTGGGCCGGTTTTTTAGGCTGTACGGCTTATTTGGCCTGTCCGCAGGGCGGC +TTTAAGGGATTGTTGATTTCCGCCTGTACGCTGTTAAGCGGGATGGTGTGGGCGCTGGTC +ATTATTCACGGTAGCGCGTTGGCGCCGCATCTGGAAATTGTGAGTTACGTGTTGACGGGG +ATCGTGGCATTCCTGATGTGTATCCAGGCAAAGCAGCTATTGCTTTCTTTTGTTCCGGGA +ACATTTATCGGCGCCTGCGCGACATTTGCAGGGCAGGGTGAGTGGCGGTTGGTATTACCG +TCGCTGGCGCTGGGGCTAATCTTTGGCTATGCCATGAAAAAGAGTGGGCTATGGCTGGCA +TCACGCCGCGAGCAACATTCAGCGAATACGGCGGTCACAAAGTAAAAAAGCGTGGGGTTT +TCCCCACGCTTTGTCGTATTCATCAGGATTCTGGCGGTACTGACAGCTCACGGTATTTCA +CCAGAATATCATTTTGCCTGTCCGCTTTATTCTGCAAATCCGACAGTCCGCGATCGATAC +CATCATTAATGAGGAAGATAACGCCGGTTTCAATGGCTGACGTCAGACACAGCATCACCG +GTTCGTTCGAGGTATAGCCGATTTCGCCTTCCAGTAAGCGCGGGTAATCAATAAAACGGA +ACACGCCTGCCTGTACTTCATAGGAAAGGATCGTTTTACTGGTGTTCACCGAAGAAAGGA +TCTCGCCCGTACTGACGTTAACCACGCGCAGGTTGACAGCAGTCTGATCCAGCTGATACT +GCGTATCGGCGCCAATACCGAAATATCTTGCGCCGACCCCGGCGGATTTGACGTTACTTT +CATAACCAATAATAGAACCTTCCACCATAATATTTGCCGCCGTCAACGACTGAAGCGGGA +TACGGTTATTCATCGCCACGGTGCCGTTTTCCTGGGCTGCGGGAATAATTTTCCGTTCAT +TCAAAAGATTCTGTAAGCCTTGTCGTTCTAGTGGGATAAACGAGCGCGAATCTTTCAGCG +CGGTGACCAACATAGCGGTGGCGCTCTGCGGCACAGCCGTGGAAAAGTTACTTGCCGGGT +AAGGTTTAAATTGGCCCGTTTCATCCTGAATGTTATATACCGAAACAAAGATCTTACCGG +TGGGAGCAGGTAAGTGCGTCAAATCTTTGTAACTTTGTGCGGGGGGCATTAATGTCGGTT +TCGCAGCTTGTTTCGGCGGGGCAGTTAAGCATCCGCTCAACGATAAAACGGCAACCAAAA +TAAGTAAGCGCGGCATGATTTATATCCTTTAGTGACTGTAGGTTAAAAATCGGTTGACTG +AGTTTGTAAACCTGACACTTCGATGGTCGAGGTTCTTCCCGGTTTTCTGTCCGTGACGTT +GAGCTGGAGCTGTCCGTCGCGATTAGCGATATCGATAATAAGATCATTGGTCACCATACG +TCCTGGTTTTCCGGTATTAATATTGGTCAACAAGCCGCCCAGAATTTGCGATTGAATAGC +CTGCGTAAAGTTATCCAACGCTGAGGGGGTCTCGATACCAAGATCGTTATCATAAGCGGG +GTCTTTATATGAATTTTGCGCCTGGGCGCTATTCAATAAAAGGGAACCGTTATTGGGGTT +TCCACCAAAGTTAGGATTACGGAACTGGAACGTCATATTTCGAGCCCAGGTTAATGGCGA +AAAAAGCATGAGCAGCACTACTGCATGTTTAACACGCATGAGAGCCTCCGGATAAAAATC +ATGTTTTAGAATTCATCACGCGCTAAATCACTCGTACTTAAGAGCGTTTGATCTATTTGT +CGGCGATTTAATGCTTCCTCTGTTTGCGCTAATGCGAAGACGACGGTTTTCTCGAAGTCT +CTTTTCATTGGAAATAAAAAGGTCTGGAAAATAACGTCCTGGTTTACCGTTATGGTGATC +CAGCTTCCCCAACGCGCACTGGGTCTTTCATTAATGGTCAGGTTGCCGGTGTATTCGCTT +TCCCATTTGTCGCTGAATGCACGATAGAATTCATGTCCTATGGAAGAGACGGTATGGTCG +GTTAACAATCCGGGAACCTCGACTTCAACTTCATTGGCATGGAGGTTTCCGGTAGCGAAC +AGTAACTCTGCTGCTACAATCCAGGTCAGATAGCGTTTCATGGCCTTACCGCCTGAGATT +ATCGTTTGCTCATGAAACTGCCTGGGTGCGATTTTTGACAGGTATCTTTTTGAAAAGATT +ATAAAGATGTGTCTTAACCGTATTCTCGCTGATAAATAGCGGCCTGGCGATTTCATTATT +AGAGGCACCAATACGTAACTTATTGAGGATCTCTTTTTCGCGATGAGTGAGTAATGCGGA +CTCGGTGCTGTTGTAGCGGTAATTTCCTGAGTGTGTAATCAGGTAACTGGCTAATTTTTG +TGAAAAATAGCATTCGCCCCGCAGAATACCCTGTAATCCGCGGACCACGTGTTCCTGGTC +TTCAGTGGCGTAAAACACGCCGTTAATATGAGGCCAGTTTTGAATTTCACGGTAGGGATA +ATCGTCAGGGGTATTTAACAATAATGTTTTTATATTATTGTGTTTGCGGCTTAAATTATC +CTGCCAATAGTGGATAAGCTTCTTATCCGCTTCCATCATATGCATTAAAACAATGCAACC +GGCTGAGATATCTTCCAGAGAACGTTGAATATTATGCAGTTGTCCGGTTATGGCCAGCGA +TTGCTTTAAATGTTGCAATAATGCCGTAGCTTGCAGAGATGGCTTTGTGATCAACAATAG +TGTGTGACCATGACTACTATGGACTTCATTAAACATGATGAGACTCCACTTTTTTTAATC +GCACATCTGACAGCTGCCCCCATAAAATAAAGGCACCAGAAGTACTGACAGATGTTGCAC +TGCTGTGGGTTGAAATAGCCCATTATCCAGAAAGAGAAAAAGATTTACGAAAATACTTTT +AACTGTTTTCAATCTAGCCATTACAAATCTTAAAGCAAGTGGTAAACTTGTAACAAGATG +TAAAAATATATATTAAAATGTTGTTTTTGGGTTTTTTTGAAGTTTAGATTTGATAGTAAA +GTTGTACATTTCGCTGTTATTGCATAGATTTAAAAAATCATGCAAATTATAATAATTCAT +TGATTTTTAATCATTTTAATTATTGTATGTCATGTTTTGATGTTATTTTTTCTTAAAATT +TGAGACGTGGCATTAACCTGGACAGCACAAAGACAAAAAAAGACGAAGTGTGTCACGTCT +TGTGCGTATTGCCCCCCATGGGAAGCATAAGAACATCCCCAGGGCGGCATAACACACACC +AACACTTCATTTTTTAGGTGCGCGATACACTATCTTCTGTGGCCAAAAATCAATTATAAA +AAATCACATGGCTATCGTTTTATTAGCACTTTGGTATGAGCGTAAATAACAAAATACCAC +GCGTGGGTGAGTTATTAAAAATGTTTCCACGGACATACTCTGCATCGTAACGACGCGTTA +ACAAAAAACGCATGTCGCTAACAAGGTAATAGATAATTTTCGCTATGTACGACCAGGTCC +AGGGTGACAGCATGAAAAACAAATTGTTATTTATGATGTTGGCAATACTGGGTGCGCCTG +GGATTGCAACCGCGACAAATTATGATCTGGCTCGTTCAGAGGATAATTTTGCGGTAAATG +AATTAAGCAAGTCTTCATTTAATCAGGCGGCCATTATTGGTGAAGTCGGCACGGATAATA +GTGCCAGAGTACGCCAGGAAGGATCAAAACTATTGTCCGTTGTTTCACAAGAAGGAGAAA +ATAATCGGGCGAAAGTCGACCAGGCAGGGAATTATAACTTTGCGTATATTGAGCAAACGG +GCAATGCCAACGATGCCAGTATATCGCAAAGCGCTTACGGTGATAGTGCGGCTATTATCC +AGAAAGGTTCTGGAAATAAGGCCAATATTACCCAGTACGGTGCGCAGAAAACAGCAGTTG +TAGTGCAGAAACAGTCGCATATGGCTATTCGCGTCACCCAAGGCTAATACCGTTACGACT +TTTAAATCAATCCGATGGGGGTTTTACCATGAAACTTTTAAGAGTGGCAGCATTCGCAGC +AATCGTAGTTTCTGGCAGTGCTCTGGCTGGCGTCGTTCCACGATGGGGCGGCGGCGGTAA +TCATAACGGCGGCGGCAATAGTTCCGGGCCGGATTCCACGTGGAGCATTTATCAGTACGG +TTCCGCTAACGCTGCGCTTGCTCTGCAAAGCGATGCCCGTAGATCTGAAACGACCATTAC +CCAGAGCGGTTATGGTAACGGCGCCGATGTAGGCCAGGGTGGGGATAACAGTACTATTGA +ACTGACTCAGAATGGTTTCAGAAACAATGCCACCATCGACCGGTGGAACGCTAAAAACTC +CGATATTACTGTCGGTCAATACGGCGGTAATAACGCCGCGCGGGTTAATCAGACCGCATC +TGATTCCAGCGTAATGGTGCGTCAGGTTGGTTTTGGCAACAGCGCCACGGCTAACCAGTA +TTAATTTAGCGTCTGCGCTAATAAAAAAACAGGGCGTAAGCGCTGTTTTTTTTCGGGAGG +AAATTATGCATACTTTATTGCTCCTTGCCGCACTTTCAAATGAGATTACGTTTACCACGA +CTCAGCAAGGCGATATTTACACGGTGATCCCTCAGGTCACAGTAAACGAACCCTGCGTCT +GTCTGGTGCAAATTCTCTCTGTGCGCGACGGCGTCGGGGGAGAAAGCCATACACAGCAAA +AACAAACGCTATCTTTACCTGCTAATCAACCGATTGAGTTGGCTCGTCTTAGTGTAAATA +TATCTTCAGAGGACTCGGTTAAAATTATTGTTACTGTTTCGGACGGACAATCACTGCATT +TATCACAACAATGGCCGCCTTCTGCACAGTAGTTTTTGATGGTGGCGGAAATGGATTGGC +TGACCTGGGTATTAAAGAGGCGATAAAAGCGTCTCATCGTCTCGGCATGTCGCTAAAAGG +TAACGCCGAACCCTCGAGGATGACTAATCATTGAGGAGTTAACATGTCCGTAATCAAGAA +AAATATCCCTGCCATAGGCCTGTGTATCTGCGCTTTTTTTATCCATTCTGCGGTAGGGCA +ACAAACGGTACAGGGCGGCGTTATCCATTTTCGCGGCGCGATTGTTGAGCCACTGTGCGA +TATTTCTACTCACGCCGAAAATATTGATTTAACCTGCCTACGCGAAGGTAAAAAGCAAAT +GCACCGGATAGACCTTCGGCAGGCATCTGGATTACCGCAGGATATTCAGTCCATTGCGAC +GGTACGGCTGCATTATCTCGATGCGCAAAAAAGCCTGGCGGTGATGAATATTGAGTACCG +TTAACGGCGGTGTCATAGATATAAAAAGAGCGACTCTGTTGAAAGCCCTGCTGTACACTT +TGCAGATAAGGTGAGACAAAAGGGGGGGGTTATGACATCACGTCTTCAGGTCATACAGGG +TGATATCACTCAACTTAGCGTCGATGCGATTGTGAATGCCGCTAACGCATCATTAATGGG +CGGCGGTGGCGTAGACGGCGCAATTCATCGCGCGGCGGGGCCGGCATTGCTGGACGCCTG +TAAACTCATCCGTCAGCAACAGGGCGAATGTCAGACGGGACATGCGGTTATCACGCCTGC +TGGCAAGCTTTCGGCAAAGGCGGTTATTCACACAGTGGGGCCCGTCTGGCGAGGCGGCGA +ACACCAGGAAGCTGAGCTACTCGAAGAGGCATACCGGAATTGTTTGCTGCTTGCCGAGGC +GAATCACTTTCGTTCCATCGCTTTTCCGGCAATCAGTACCGGCGTTTATGGCTATCCACG +CGCCCAGGCCGCTGAAGTCGCCGTCAGGACGGTTTCAGATTTTATTACCCGTTACGCTCT +GCCTGAACAGGTATACTTTGTCTGTTATGATGAAGAAACTGCCCGGCTTTACGCAAGATT +ACTTACTCAGCAAGGCGACGACCCTGCCTGATAAAACACGCCTGGAGCGTGCCGTTGAAC +CGCTATGCGCGCGCCATCCCGGAGAGTGCGGCATTCTTGCGCTGGATAACAGTCTGGACG +CTTTTGCCGCCCGCTACCGCCTGACCGAAATGGCGGCGCGGACGCTGGATGTGCAGTATT +ATATTTGGGAAGACGATATGTCCGGGCGGCTGCTCTTTTCGGTTCTGCTGTCGGCGGCGA +AGCGCGGCGTTCATGTTCGTCTGCTGCTGGATGATAACAATACGCCTGGTCTGGATGATA +CGTTGCGCTTGCTGGATAGCCATCCTAATATCGAAGTTCGTCTGTTTAATCCTTTCTCTT +TTCGTACGCTACGCGCGCTGGGATATTTGACGGATTTTGCGCGGCTGAATCGGCGGATGC +ACAATAAAAGTTACACTGCCGACGGCGTAGTGACGCTGGTCGGTGGGCGCAACATCGGCG +ATGCCTATTTCGGCGCTGGCGAGGAGCCGCTATTTTCCGATCTGGACGTGATGGCCATTG +GCCCGGTGGTCAATGATGTCGCCAATGATTTTGAACGTTACTGGCGCTGTAGTTCAGTGT +CGACATTGCAGCAAGTATTATCCCTTTCTGAGCAGGAACTGACGCAGCGTATCGAACTTC +CCGAATCCTGGTATAACGATGAGATCACCCGCCGTTATCTGCATAAGCTGGAAACCAGCC +AGTTTATGGCGGATCTCGATCGCGGAACGTTGCCGCTGATTTGGGCAAAAACACGCTTGC +TTAGCGATGACCCTTCTAAAGGCGAGGGGAAGGCGCAGCGCCATTCGCTTCTTCCGCAGC +GATTATTTGACGTGATGGGGTCGCCGACGGAGCGTATCGACATTATTTCCGCTTACTTTG +TCCCTACGCGCGCAGGCGTGGCGCAGTTGCTTAATCTGGTCAGGAAAGGTGTGAAGATCG +CCATCTTAACTAACTCTCTGGCGGCCAACGATGTGGCGGTCGTTCACGCAGGGTACGCGC +GCTGGCGCAAGAAATTACTGCGCTATGGCGTGGAGCTCTACGAACTGAAACCGACCCGCG +AACATGAAACCGCCGTACATGATCGCGGACTCACCGGGAACTCAGGTTCCAGCTTACATG +CTAAAACGTTCAGTATTGATGGTAGTAAGGTGTTTATCGGGTCGCTTAATTTTGATCCCC +GTTCAACGCTTTTAAATACCGAAATGGGCTTTGTCATTGAAAGTGAAACGCTGGCGACGC +TTATTCATAAGCGTTTTACGCAGAGCCAACGCGATGCGGCCTGGCAACTGCGGCTGGATC +GCTGGGGACGAATTAACTGGATCGATCGTCAGCAAGAAGAGGAAAAGGTGTTAAAGAAAG +AACCCGCTACGCGTTTCTGGCAGCGAGTTCTGGTACGGTTGGCGGCAATTTTACCTGTGG +AATGGTTGCTGTGAACCCGCGCGCGGAAAACTACCCGATCGCGGCGCGGCTTTCTTGTTT +TACCGGCGGTTTACCTGAAAAGAGAAATTTCAGGAGCGGGATGCGTAAATGAATTTCATA +CAGAATTAACGCAATACCCATAACAAATATCAGCCCGCACAAGAACCCGATCAGGTTGGA +GGAGATATGCGGTGTAATATACGCGCCAAAGAAAAGCGTTAAGGGATGATGCACCAGATA +AATAAACAGCGAAGCATTCACGAAATAGGTGACACGCGCGGACTGAAAGTTTAACAAGCG +ATGCCCCAGTGAAAATACCACGTTCACCATCCATAGCCCCATTACCATCGTAATCACGGA +TTCGGTTTCGTACATCCAGGCGTCGCCGCTCCCATAACGTTGATTCAGCAGATACGCGAT +AAAAGCAACGGCAGCGCCTAAAGTGCATCCGCGTGAGGGCGTGGTGAAGCGCGCTTTCAG +ATCGGGGTGAATGAAGGCCAACGCGCCGAGAATAAAAAACGGCACATAAAATAGCGTTTG +CATCACAATAAAATTGAACATGCCGTCACTGAGGATTGCCGGATATACGATGAATATAAT +GCGCCTGATAGCAGCGTACGCCACCCCCAGCAGGAAAAAAATAAGCGAAAGTTTGGCCAG +CGAAATAGCGGCGGGACGAGGCTTGCTTGTTTCCTGCCTTTTTTGGAACCAGGTAAAAAT +CCCGATGCTGACGGTGGTTAATATCACCAGCACCAGTAAAAACCACAGATGTGAAATGAG +TTCCCACGCTAACGTATTATATTTTTCATAGGCAGAGAGTGTAGGCCAGTTCTCTGTTTT +CTCTTTGACATATTGCAACAGGATAAATTGCGGCAAGGTAAGCAAAGGGATTGCGGTAAG +CATGGGAATACCCACACGTTCTACCCGTACTTTCCACCAGTGTTTTAATGGATAACGTAA +AAATAACATGTACGAAAAATAACCAGAAATAACAAAAAACACCTGCATACGAAAAGCGTG +GATAAAATCGTTAAACAGGGTTAGCCACCACGATGGCGCGGCGCTATTGACATGCCAACT +GTGAGTGGAATAGATCAACGAGATATGAAAGGGAATCCCTAACAACATCAGCCATGCGCG +GATAGAGTCAAGAAAATATTCACGCGGCGCGGGTACAGAGCTCATATAAGGTCACGTATT +CTCAGATTTTTCACCTTATCCATAAGGCGAATTATAGTTACATTCGGTAGCAACCCTACA +CCAACTCCGACAACCTGTCTCCAGGATAAGCACGCAAAGTGAAAACAGGCGCGGGAGGTG +CTTAATCCATGAGCCAGCGCGCTGAACAAAGCCTGGATTCAGTTGTCGTAATGCCTGATT +ATCCATTAAAATGGATCGGATCGATATAAGCACACAAAGGGGGAAGTGCTTACTTATTAT +GAAACATAAACGACAAATGATGAAAATGCGTTGGTTGGGCGCAGCTATTATGTTAACGCT +CTACGCATCATCGAGCTGGGCGTTCAGTATTGATGACGTGGCAAAACAAGCTCAATCTTT +AGCCGGGAAAGGCTATGAGGCGCCTAAAAGCAACTTGCCCTCCGTTTTCCGCGACATGAA +ATATGCGGATTATCAGCAGATCCAGTTTAACAGCGATAAAGCCTACTGGAACAACTTAAA +GACCCCTTTTAAGCTCGAATTTTACCATCAGGGGATGTACTTCGATACGCCGGTCAAGAT +TAACGAAGTGACGGCGACGACGGTCAAAAGAATCAAATACAGCCCGGATTACTTCAATTT +TGGCAATGTTCAGCACGATAAAGACACGGTAAAAGATTTAGGCTTCGCCGGGTTCAAAGT +CCTGTACCCCATTAACAGTAAAGATAAGAACGACGAAATCGTCAGTATGCTTGGCGCCAG +CTATTTCCGCGTTATCGGCGCAGGCCAGGTGTATGGCTTATCTGCGCGCGGCCTGGCGAT +TGATACCGCCTTACCATCTGGTGAAGAGTTTCCCCGCTTTCGCGAGTTCTGGATTGAGCG +TCCAAAACCCACCGATAAGCGTTTGACCGTCTATGCATTACTGGATTCTCCGCGCGCGAC +CGGCGCTTACCGTTTTGTGATCATTCCTGGCCGCGATACCGTGGTGGACGTGCAGTCAAA +AGTCTATCTGCGCGATAAGGTGGGCAAGCTGGGCGTTGCGCCATTAACCAGTATGTTCCT +GTTTGGGCCAAACCAGCCGTCGCCGACGACCAACTATCGTCCGGAATTGCATGACTCGAA +CGGCTTATCCATTCATGCGGGTAATGGCGAGTGGATTTGGCGTCCGCTGAACAATCCAAA +ACACCTCGCTGTGAGCAGCTATGCGATGGAAAACCCTCAGGGATTCGGCCTGTTGCAGCG +TGGTCGCGAGTTCTCGCGCTTTGAAGATTTAGACGATCGCTATGACCTGCGTCCAAGCGC +CTGGATTACCCCGAAAGGCGACTGGGGCAAAGGTAAGGTTGAACTGGTTGAAATTCCGAC +CAATGATGAAACCAACGATAACATCGTCGCTTACTGGACTCCGGATCAACTGCCGGAACC +GGGTAAAGAGATGAACTTCAAGTACACTCTGACCTTCAGCCGCGATGAAGATAAACTTCA +TGCGCCGGATAATGCCTGGGTGCTGCAAACACGCCGCTCAACGGGCGACGTTAAACAGTC +GAATCTGATTCGCCAGCCCGACGGCACTATTGCCTTTGTGGTGGATTTCGTTGGCGCCGA +CATGAAAAAACTGCCGCCGGATACGCCCGTCGCTGCACAAACCAGCATTGGCGATAACGG +TGAAATCGTTGACAGTAATGTACGCTATAACCCAGTCACTAAAGGCTGGCGTTTAATGCT +GCGCGTGAAAGTCAAAGACGCGAAGAAAACCACGGAAATGCGTGCCGCATTGGTGAATGC +CGATCAGACGCTAAGTGAAACCTGGAGCTACCAGTTACCTGCCAATGAATAAAACAACTG +AGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCATTGCCGAAAACTGACA +TCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTACTCGCGAGAAGACGATT +CACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCGGATTCATTGGCGAAGG +GGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCTATGCCAAAAGCGACGC +GCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGCCGTTTCTGGGATCGCC +TGCGTGGGCGGGATGTTACGCCGCGCTATGTTTCTCGTCTGACAAAAGAAGAGCAGGCGA +GTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATTTTGTTAATTTTGACTC +TGGCGCAAACCGTCGTTGCGACCTGGTATATGAAGACCATTCTGCCCTATCAGGGATGGG +CGCTCATCAATCCTATTGATATGGTGGGGCAGGATATTTGGGTCTCCTTTATGCAGCTCC +TGCCCTACATGCTGCATACCGGTATCCTGATTTTGTTTGCCGTGCTGTTCTGCTGGGTGT +CTGCCGGATTCTGGACTGCGCTGATGGGCTTCCTGCAACTGCTTATCGGGCGCGATAAGT +ACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCGGAACACCAGACGGCGC +TGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCCGGTCTGCGCGCGACCT +GGGAGTCCGTTAAAGCTACAGGCAACGCCGCGCATTTTGACGTCTATATCCTTAGCGATA +GTTATAACCCGGATATTTGCGTGGCGGAGCAAAAGGCGTGGATGGAGCTCATCGCGGAAG +TGCAGGGCGAAGGCCATATTTTTTACCGTCGCCGCCGCCGCCGTATGAAACGCAAAAGCG +GCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGCTATATGGTGGTGCTGG +ACGCGGACTCAGTGATTAGCGGCGAGTGTCTGAGCGGGCTGGTGCGCCTGATGGAAGCGA +ACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGGATGGATACTCTGTATG +CCCGCTGCCAACAGTTTGCGACCCGTGTTTATGGACCGCTGTTTACCGCCGGGCTGCACT +TCTGGCAGTTGGGGGATTCGCACTACTGGGGGCACAATGCCATTATCCGCGTGAAGCCGT +TTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCGTTCGCCGGATCGATTC +TTTCCCACGACTTTGTTGAGGCGGCGCTAATGCGTCGGGCAGGGTGGGGCGTCTGGATTG +CCTACGATCTCCCCGGTTCCTATGAAGAGCTGCCGCCAAACCTGCTGGATGAGCTTAAAC +GCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTGTTCCTGGTGAAAGGAA +TGCACCCGGTGCATCGTGCCGTGTTCCTGACCGGGGTAATGTCATACCTGTCCGCGCCGT +TATGGTTTATGTTCCTTGCGCTTTCTACCGCGCTGCAGGTCGTTCATGCGTTAACAGAGC +CGCAATATTTCCTTCATCCGCGCCAGCTTTTTCCGGTCTGGCCGCAGTGGCGTCCGGAAC +TGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTGCCGAAGCTGCTCAGTA +TTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTCTGGCGCGTTACGCTGT +CGCTATTGCTGGAAGTTCTGTTCTCCGTGTTGCTGGCGCCGGTGCGTATGCTGTTTCATA +CCGTGTTTGTGGTCAGTGCGTTCCTCGGCTGGGAAGTGGTCTGGAACTCACCGCAACGCG +ACGATGATTCTACGCCTTGGGGAGAAGCCTTTATGCGTCACGGCTCTCAACTGCTGCTGG +GGCTGGTCTGGGCGGTTGGTATGGCGTGGCTGGATTTACGCTTTCTGTTCTGGCTGGCGC +CGATTGTCTTTTCGCTTATTCTGTCGCCATTTGTTTCGGTGATCTCCAGTCGTTCAACGG +TAGGATTACGCACCAATCGCTGGAAGCTGTTCCTGATCCCGGAAGAGTATTCGCCGCCTC +AGGTGTTGGTCGATACTGATAAATATCTGGAGATGAATCGCCGCCGTATTCTGGACGATG +GCTTTATGCATGCGGTTTTTAACCCGTCGCTTAATGCGCTGGCGACCGCGATGGCCACCG +CGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGTCATGTGGAGCAGGCGC +TAAACGAAACGCCGGATAAACTGAACCGCGATCGGCGTCTGGTTTTGCTCAGCGATCCGG +TGACGATGGCGCGTTTTCACTATCGGGTCTGGAATGCGCCAGAGAGATACTCTTCCTGGG +TAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAGGGACGAACATCGTCAG +CGGGATAAGGTCTTCATGTCTGGAGTGAGGTGAAAAATACCGGCGTGATGCCGGTATTTT +TATAGTGAAATGAGGTTTCAGGTGCGTATATTCGCGGTGAGCATAATGGTGATTACCCTG +AGCGGCTGCGGCAGTATTATCAGCAGAACGATCCCCGGACAAGGACACGGCAACCAGTAT +TACCCTGGCGTGCAGTTGGATATGCGTGATTCCGCATGGCGCTATATCACTATCCTCGAT +CTGCCCTTCTCACTGATCTTCGATACACTGCTACTGCCGCTCGATATTCACCACGGGCCT +TATGAGTAATTAACGCTCATCCCATTCGTCTGCCGCAGTACGGCCTTCCTCGGTATCAAG +CGGGGGTTCAAGCTGGTATTCCCCTTCATCCCATTCATGCAAAGTATTCTCTTCCTGCCA +TTCCTGGCGGATCTCTTTCTCATCATAATCGCCGTCAAACACGCTCTGTGCGGCTTCACC +ACTCAGCATCGGCAGATATTCGCCATCTTCACCTTCATCGGCGAAAAATTCGACCTGCCA +CATGATGTCCCCATCCTGCAGTACATATTTCTGAACGTTGAACTGCTGCACATTCGCTTC +GTCTTGTTCGAGGCCTTGATGGTCAGCCAGAAATTCTTCCCGGGCTGCATCGATAGCTTC +TTCCAGCGTGGCATACTTGGTCATCAGTGTCTCCCTTTGATTTGACGAGGTATTTAGGGA +AAGAATAGCTGATTCTTTGATATTGCAAGTATGAAAGCGCAAAAATCATTCTATTGCCAG +TCTGCGCCGTCGTAAGTTGTTCCATGAATAGATAGCATTGAACAACACCACGCCTGCCGT +GACGCAGAATACGGCGTGGAAGCCATAGCTCGCGGAAATTGCGGCACCCATGAGAGGGCC +GGTGACGTTGCCGATATCGCGGAAAGATTGGTTGTAACTGAATATGCGCCCGGCTATCTG +GTTGGTAGAGTTGTAATCCAGCAGAGTTTGAACGGCTGGCAGCAGCGCGCCATCCGCCGC +GCCAAGCAGAAACCGCTATAGCGCGAGCTGCCACGGCGTTTGCACAAAAGACATTGGAAT +CAGCAGCAGTACGGAATTAATCAGCGCGACGATAAGGATCTTTTCCGGGCCAATTCTGTC +GCCGAGCTTGCCGAGCTGGGGGGCGCTAAGTAATGCCGCCACGCCGGGAACGGACGCTAT +CATCCCGCTAATGAACTCAATATTACTGACATTTCCCGCGAGTTCGCGCACATAGAGCGT +CAGGATGGGCGCAATATACCCCGTCGCCACCTGAATAATCAGCGTGGTGACAAACAGGCT +TAACACCAGGCGGGGATTTTTTAACGAGGCGACCACTTCCCGAACGTGAAGCATCTCTTT +TTTGCTCACCGGCAGGTAATTCTCGCGAATAAAAAAGAAGGTGAGCAGAAAACAGATAAA +CAAAACGCTGGCGGTATTAAAAAAGACCGGGCGAAGGCCGTAATGGTCGGCGAGCAGACC +GCCCGCAAGTGGGCCATGCAGAGCGCCGCTGACGCCGCCAGTAGAGAGCGTCCCTAACGC +CCAGCCGCTTTTGTGGTGCGGCACCTGAGTGGCGATGAGCGCATTGGCGTTGGGAATAAA +TCCGCCCAGCAGGCCTTATAACGCGCGGAGGATCAGAAATTGCCAGATATTTTGCGCCAT +GCCCATTAACAGCATCTCAATGGCCATGCCGAGAGCGGAACGCAACAGTATGATCTTACG +CCCTTTACGATCCGCCTGACCGCCCCAAAAAGGGGAAGCGATAGCTGAAAAGAGGAACGT +AATACTAAAGACCAGCTCGGACCACATGTTGAGCGCGCTATGGCCTGTTACGCCGAGTTG +CTCAACGTAGAGAGGGTGAAAAGGCATGACCAGACTGAATGCCGCGCCGGTTAAAAAACA +GCCCAGCCAGGTAACGTTTAGATTGCGTTTCCAGTTTATGGGGACATCAGAGGGTGACAT +AGTGTTCCACAGTATGTTGCGCGTTTTGCGCTATCATCAATTTAATTATGAGCGTACTAA +TTATAATTATGCGCCGTCCTTACCAGCCTCGCAATGTGGGGAGCTTTTAAAGCTAAAAGA +GGGGAAAAATTGCAGCTTGACGGCTGCAATCCTGTCAATAGCGCGACGGTACGCCTTCAG +GGCGAGTTTTAAAGCGTCGATGCAGCCACATATACTGCTCTGGCGCCATCATAATGCACT +GCTCAACAATCTTATTTATCCATGCGGCAGTCGCTTCTGCGCTCTCCAGCGGAGGCGAAT +ATTCCGCAGGAAGGATTATCAGTTCGTAGCCTTTCCCGTCGGGTTTACGGCGAGGCACGG +AGGGGATAATACAGGCTTTAGACATGCGCGCGAGCATCCAGGTACCGGAGGTCGTAGCGG +CCTGGTCGACGGCGAATAACGGTACAAAGACGCTGGCGCGCGGGCCATAATCGTGATCCG +GCGCATACCAGATCAATTCGCCGCTTTTCAATGCCTTAACCATACCTTTCAGATCTTTGC +GATCCAACATCGATTTTTTGGAGCGTAAGCGCCCCCAGGTCTGTAACCAGTCGAGCAACG +GATTATCATTCGGGCGTTAAACGCCGATACCCGGGTTATGCATACCAAACATGCGGGCGC +CAAACTCAAGGGTAAGTAAATGTATTCCTACCAGAATGAACCCCAGCCCCTGCGCCTTAA +CTTCACGGATATGCTCTAGACCGCTCGCTTCCATCCAGCGGTTCACTCGCCGATCGGGCC +AGAACCAGGCCATGCCTGTTTCCATCACGCCCATACCGACGGATTCAAAGTTTTTGACCA +CCATGGTGTGGCGTTCTTGCGCGCTCATTTCCGGAAAGCATAATTCAAGGTTGCGATAGG +CGATTTTCGCGCGGCGTTTCATTACGCGTCGCGCCAGGTGGCCCAATGCGCAACCCAATT +TATAGATGACCGGGTATGGGAGTTGCACGACCAACCAAAGCGCGCCTATACCCAACCAGG +TTAACCAATAGCGCGGTTGCAGTAAGGCCACGGAGAACTTAGGCAACTTCGTCATTTCTA +TCCTGTCTTTCAACGATCAATTCTCCGTATTCTCGCATCTTTTTGCGTTGAGCAAAAATA +TGTAGCAGGAGAGTGGTGATTAAATCGACAATTGTTGTTAATTATTTAGCGTAAAGCAGG +AAATGTAGCGCAAAATTTGTGGATGTAAATTGGCGAGACTTGCCTTATCATGCCTGCCCA +CTTTATTTTTTGCTGATTGCAGGATACGTACACCATGCCAGTGTTACACAACCGCATCTC +TAATGACGAGCTGAAATCCAAAATGCTGGCGGAAAGCGAGCCGCGTACGACAATTTCTTT +TTATAAATATTTCACTTTCGCCTCGCCGCAACAGACGCGGGACGCGTTGTATCAGGTGTT +TACGGCGTTGGACGTTTTTGGTCGCGTTTACCTGGCGCATGAGGGCATCAATGCGCAAAT +CAGCGTGCCGCAAAGCTAGGTTGAGACCTTTCGTCAACAGCTTTATACGTTCGACCCCGC +GCTGGACGGGGTGCGTTTAAATATCGCGCTGGAGGATGACGGAAAGTCATTTTGGGTGCT +GCGTATGAAAGTTCGCGACCGTATCGTCGCTGACGGTATTGACGATCCGAGTTTTGACGC +CAGTAATGTCGGCGATTATCTGAAGGCGGCAGATGTGAATGCGATGCTGGACGATCCTGA +CGCGGTCTTTATTGATATGCGCAACCACTATGAGTATGAAGTCGGCCATTTCGAAAATGC +TCTGGAAATCCCGGCGGATACGTTTCGTGAACAGTTGCCAAAAGCGGTTGAAATGCTGCG +GGAACATGCAGATAAAAAGATAGTGATGTACTGTACCGGCGGTATTCGTTGTGAGAAAGC +CAGCGCCTGGATGAAACACAACGGTTTCAATAAAGTCTGGCATATTGAGGGTGGCATCAT +TGAGTACGCCCGTCGCGCGCGCGAGCAGGGGCTTCCCGTTCGCTTTATCGGCAAAAACTT +TGTATTTGATGAGCGAATGGGCGAGCGCATCTCGGATGAGGTTATCGCGCATTGCCATCA +GTGCGGCGTGTCCTGCGATAGCCATACCAACTGCAAAAACGACGGTTGCCATCTGCTGTT +TATCCAGTGTCCGCAGTGCGCCAGTAAATTTAACGGCTGCTGTAGTGAACAATGCTGTGA +AGAGTTGGCCTTGCCGGAGGAAGAACAGCGCCGACGTCGCGCGGGTCGTGAGAACGGCAA +CAAAATTTTTAATAAATCGCGGGGTCGGCTTAATAGCAAACTGAGCATTCCCGATCCGGC +TGAGTAATATTTTGCCGGATAGCGGCGTAAAGGCTGCTATCCGGCATTTCGCCAGGCGTT +ACTTCTGCTGAACGCCTTCTACTGAGATGATAAGCTCCACCTCTTGTGAGGCTGGGCCGA +GATCGGTAGTTATATTGAAATCTTTCAGCTTAATTTTTCCTTCGGCCTCAAAGCCCGCGC +GCTTACCGCCCCACGGATCGTCGCCCTGGCCCATCAGCTTCGCTTCCAGCGTCACCGGTT +TAGTCACGCCATTGAGCGTCAGATTGCCGGTAATATCCAGTTCATCGCCCTCTTTTTTCA +CGCTGGTAGAGGTGAAGGTTGCCTGCGGGAATTTCGCAACATTAAGAAACTCCGCGCTAC +GCAGGTGTTTGTCACGTTCGGCATGGTTAGTGTCGACGCTATTGGTGTTAATGGTCACAT +TCACTTTGTCTGCTGACGGATTTTTTTCGTCAAAAGTGAACGTGCCGTCGAAATCTTTAA +AGGTGCCGTATAGCCAGCTGTAGCCCAGATGCTGGATGCGGAAATTGACGAACGCATGTT +GGCCTTCTTTATCAATTTTATACTCCGCCGCCACGGCGGAACCGGTCGTGAATAACAAGG +ATGCGAGGGTGAATCCCAGCAGGTTTTTTTTCATTTTTGAGCTCCATAGTCAGATGACGA +CATTCCTGTCATACGTTTCAGTGTGTCGTCTTTATCGATGAAATGGTGTTTTAGCGCCAT +AACCCCATGCGAGAGCGAGATAATGACCAGCGACCAGGCAAACCACAGATGCAGTGTTCC +GGCGATGTCAGCCTGCGCGCCCGCGTCCGTAAGCGTGGCCGGAATCTCAAACCAGCCAAA +GACGCTAATCGGTTTACCGTCGGCGGTGGAAATCAGGTAGCCGCTAATGATTATCGCAAA +GAGCAGGAGATACAGAAGGATATGACCCGCGGCGGCGCCAATGCGCGTTAAACGGGAATA +GCTGGTCAACGCAACGGGCGGCGGAGAATAAAGCCGCCAGATAATACGCACGATCAGCGC +CATCATCAGTAACATGCCAATACTTTTATGTATTTCCGGCGCCTAGTGATACCAGCCGTC +GTAATAACTGAGCGTGACCATCCATAAACCCAACGCAAACATGCCATAGACCACTAGGGC +GGTCAGCCAGTGGAGGGCGGCGGAAACTACGCCATAACGTTGTGGAGTATTTTTAAATTG +CATAAACACACCAATGAATATTTCACGAGAGAATGAAAATGGCGTGGAAAAGCGCCGAAT +GCAACTTATAAATAAGAATTTGAATGATATTTATTTTTATTTCAATAATTTTGATGTTGT +TTGCGATTCAGCTTCAGAAGTTTCGAGATATTTCACTCCTGTAACCGCACAACGGCAGGA +GTTGGCATTATTGCCGTGCTTCAACATTATGAAATAAAAAGTGAGGAACTTTCAGGAAGT +GTTAGTTAACGTCAATGAAAAGCAATCAGAAGAAAAGGAGATAAACAATATCCATCACCG +CCAGCAGCGACCAAAGAATAACGTAAAGCATGAAATGTTCGCGAATATTATTCATCAGAA +AATGAAAGAGACGACGCATAGCTTACCTTAATAAACAGCCCCTTTACGGGGCCGACAAAT +TATTGGCTAAAACGGGAAAGCCGGAACGGCGTCAGATCAAAGGAGGGCGTTTTTCCCAAC +GCAAAATCCGCAGCGATTTCTCCTAACACCGGGGCGAATTTAAAACCATGTCCGCTGAGT +CCAGTGATGACAAGCGTATTCTCATGGCCAGGCAGCGTATCGATAATAAAATCCTCGTCC +GGCGAATTATCATAGGTACATGCCGCCCCATGTAAACAACCGCCGATACCCGGCAGTACG +TTACGCAGGAAAGGAAATGCTTCCGCGCCATCGCTGGCAACGGCGGCAAAGGGCTTGCGC +TCTTCCGGTGCCTGTATTCGCTGCCCGCCATTGTGTTTGCCGATTTTTAACTCGTCGTTC +TCCGCCGGGAAACCGTAATAGTGATCGCCGTTGGGCATTTCGCCGGTAAAGGCCGGAAAG +CGGTTTTTAGTGCTGTAACGTCCATCCGCCTTAAACCAGGCAAAAACTTTACGTACGGGC +TGAACGGGCAGCTCCGGTACCAGCGTTTTGACCCAGGTGCCCGCGCTAATCAGCGCTTTG +CTGGCGTGGTAGCAGCCTTCACTCGTCTCTATCGTCACACCGTTATCATCATGGTGAATA +TGGCTTACCGGGCTGTTGAATAGCTGTGCGCAGCCTGCCTCTCGGGCCAGACGAAGCCAT +GTGGTAATGGCTAATTCGCTGCGCAGGAAACCGGAGTCAGCTTCAAACAGCCCGATATAA +TTATCGGGCACGCGAATTTCCGGCCAGCGCGTCATGAGGGCCGTCGCGTCCAGGCGCTCG +ACGTTCAATTGCCACTGTTGCGCGCTTCGTGCGACGTTGGCTAAGAAAGCGGAATCGGCC +GGGCCGAGGTTGACGACGCCGGAGCGGACAAAAATAGGCTCTTCATTGTGTGTGGAGAGC +TCATCCCAAAGCGTCTGGGCGCGAAGCACCAGCGGGACATATTTTTCGCCTTCACCATAA +GCGTGGCGGATAAGACGGGTATCGCCGTGGTGGCTGCCCTGTTGATAAGGCGGCATATGC +GCATCGGTCATCAGGACCTTTAGCCCGGCGCGGGTGGCGTAATAACCAGCGGCGGCGCCA +ACCGAACCGCTGCCGATAATAATAAGGTCGTATTTCATCAGCTTCTCTCTGCTATCGCGA +TGATTTCAAGGTAAATAACTGCGCTGAGATATACAAGCCAGAAATAAGTGAGGCACCTTA +CGGTGCCTGAGAGAGGGGGAGCGCGTCACGCTAATGGTGACGATACTCGTTTTCCTGGTA +ATCGCCTGATTCTATTTTGGCGATGCCGGCTTCTAATATTGAAATAAATTGCCTGGCTAC +ATCTGTCGTTAACCAGAGCGTTTGACCAACTTCAGTCCCTTCCGGTTCCGGACGATTTGG +GGTCTGGTAGTGTAAACGCAGCATCAGCGCATCATAGCTATCGACGGTGCTGATGTCCCA +TCCTACAAGCGGATGGGTCTGAATGACTTCATTATTCTTTTCCATCATGCCCCCCTGGTA +CGTGTTATAAGACAACGGTTCTCGAGGTTCAATGCGTGTTTTTCTTCTGAAGCAACTTCA +GTATACCAATTAATAAGGCTATTCACTGCGTTTTTAAAGAGACCGGAGGATAAATTTCTC +TTTTTAAGAATTATATGAACAATAAAGCGGCAGTTCATTCATATTTTTTTAGGATGTTGT +GCAATTATTTTGACGGTCAGGCGAAATATTCATCAGTTGCGCAAATAAAAAAGCCGGGGC +GACCCGGCAAACATACATCACTGCATATCATTTTTTATTCATTGATGAACCAGTCATCAG +CGCTCTCCCAGGTCTCCTGGAGAATCTCGCTAATGCGTTCTTTATCCTCTTTTGACGCGC +CAATGACGGACAAGTTGTTGGCGGTAGCGTAACGCACGGTGACGTTACCCAAATTCTCAG +GAAAATGATGGCTAATACGGCGGGNNNNNNNNNNNNNNNNNNNNNNNNNNCCCGCCAGCG +CACCAATCGCACCGGCAGGCAGAGGTGACGTTTTGGCTATAGTGACTTCAATACGCATAA +TGGCCCCCTGTTGAATATACTGGATATATATACAGTTAAATCCAATATATAGCAACAGGT +AAGCGCATTTTTTATTTTTTTACTGACCAGCGTACTGTTTCACCCGCTAAAAAAGGCACC +AGCGAATCATCAGCCAGCGCGATATTTTNNGGTATCTGTTGTTCATCGCGAACCAGTTCC +ACCCACCCCGTATTCACCGGCAGGCCATNNAATTGCGGGCCATTCAGTGAACAGAACGCT +TCAAAGTGCGCCAGCGCGTTCATTTCCTNNAACACGGCGGCATAACTGCCAAGAGCGGAG +GGGGCGTTGAAACAACCGGCGCAGCCGCNNCGGGTCTCTTTACGATGACGTGAATGCGGC +GCTGAATCCGTCCCCAGGAAGGCGCGCGNNAAACCACTGGCGACCAGGTCGCGTAACGCC +TGCTGGTGAATATTGCGTTTCAGAATCGNNAGACAGTACAGGTGAGGACGAATGCCGCCA +ACCAGCATATCATTACGGTTAAACATTANNTGTTGAGGCGTAATGGTCGCCGCCAGGTTG +TAGCTGCCGTCACGTACATACTGCGCGGNNTCTTTGGTTGTGATGTGTTCAAAGACCACT +TTAAGCGCGGTCAGACGCTGGCGTAGCGNNTCCATTACGGTGTCGATAAAACGCGCTTCG +CGATCGAAGATATCAACATCCGCATGGGNNACCTCACCGTGGACCAGCAATGGCATTCCG +AGTTTTTCCATCCGCTCCAGTACCGGCANNATAGCGTCGACTGACGTTACGCCATGACTG +GAGTTAGTGGTGGCATTGGCCGGGTAAANNTTGGCCGCAGTAAACACGCCTTCATGGAAA +CCACGCTCCAGTTCATCGGCATCGAGCGNNTCCGTTAAATAGCAGGTCATTAACGGCGTG +AAATCATGCCCGGCGGGCACCGCATCGANNATACGCTGGCGGTAGGCGATCGCTGCATCA +ACGGTCGTAATGGGGGACGCCAGGTTCGNNATCACGATAGCGCGACCATAAATTTCGCTG +GTATAGGGTACGACCGTTTTTAACATGTNNCCATCGCGAAGGTGAACGTGCCAGTCGTCC +GGGCGGCGGATCTTTAAAACCTGGGATGNNGCAGTCATTAATAAGCTCCGGCTGAGGAAT +AGTCTTTTTGCCGGAAACAAAGGATAAGNNGAAACGTTTTCGTTTGCACGTAAAAAAAGG +GCGCGAGCGCGCCCTCCGAAATCAATTGNNGAAAGGAATAACGATTTCACCAGGTTTAAC +TTCAATGCCTTTCGCGAGTTTCTTCGCTNNCGCTTCGCCTTTACTACTGTCCTCACGCAA +CACGTAAGCGGGCCGCTGGTTAAAGTAGNNACGTAAAGACTGATTTAAATAGGGCAGGAG +CGTTTGTAGCACTGATTGCATTTTCTCCNNCGTCACGGTGGCGTCTACTACTTCCATCTC +CTGAAGATAGATGGCGCCTTTTTCTTTANNAAAGACCGGCAGGGCTTTTAGCTTGAGTTT +CATCGTCGCTTTTTGACTGCCAAACAGGNNATTCATATCCAGCCTGGCATCGCCAGTAAG +GGTGACTTTATTAGGCTCTTCCCGACCANNCTGGCTGGCAAGGTTAGTCAATACGATATG +CGCGTCGGCAATGCCAGGCAGACCAATANNTTTTGAGAAATTATTCCGTTTTTCAAGCGC +TTGATTGATTTCTTGTTCGCTAATGGTGNNTTGCGTAAGTTGATTACAACCCACTAACAG +GCCGCTAACTACCAGCGCAGCGGCAAAANNAACTTTTTCATGGCGTTCCTTAGCATGTTG +CCTGTGCCCTAATCTTGACACAAAGCAGNNTGTCGCGCCAGCGGACATGGCGCCACTAAA +AAAAGCTGAAAAAGGCGGCAAGAAAGGGNNGCCGCCTGGCGGGCGTTAGATAGCCATTGA +GGAGAGTAAATTAATTTGCGTCTGCTTANNCATATTATCGCGATAGTCCGCGACTTTTGT +CGGCCAGTGAATACCGGCGACCAGCGTCNNATTACGCAGAAGCGGAAACAGATGAATATC +ATCTTCCGATAATTCGCCGTTAACGGCGNNAGGCTGTACGATGAGTTTATCCAGCAAACG +TAAATCATCGCCGATCTTTTTAATCAGTNNGGCAGAGTGCGCAAGATGGTTGTCAAAACT +GCCAGATGAGGCCTCTTTTTTGCGGATANNATACTGGCGCGCCGCAGGGGTAGAAAATTC +ATCGAAAGCGGATTTTGCAAATCGCGGCNNCAGTAGCTGATTAACGTAACCGTTAACTTT +GCGCAACCACTCTTCAATGGCTGGATTANNTTTCCCGGTTAACAGCGGTTTGCCGTCGAG +GTTGTCGACATAATGTACAATATCCATANNTTCAGGAAGGTAGCGACTATCATCTTTTTG +CAGGATGGGCACCATCTTTTGACCAATCNNCCGGGTGGGCGTCGCCTCGTCGTCATTTTG +TAACACGTTAAGTTCAACGGGGATGTTCNNCAGGCCGAAAATCATGCGGGCTTTAACGCA +GAAAGGGCAATGATCGTAAATATAAAGCNNCACGTTTCTCCTCCATTTGACTGTCGGTTC +CTGACCAGTATGGAGGAGATAGCGACAGNNATCAAATCAGGCGCCGGGTTCCAGCATCCG +GCGCGGCGTGCGCTTATGACTAAATTGCNNGCCTAAAGCCAAAAAGGTGATAAAGCCGAT +AATACCGAGCATCATCCACGGTAGTTCANNCTGCGCAAGCGCTTTACCCATATCAAACAA +CCAGCCGCCGCCGATATAACTAATCGCGNNGCCAATGGCTAATCCCAGACGGCTAAAGCC +CATATAGCTTCCCCGCGCCCTCGCGTCCNNGGGCGACGCGCTGAGCGTTTCGCGCGCCGG +TTCGGCGATAACCGAGCCGATGTAGAAANNGCAAATAAGCGTAAAAAGCTGCTGTAAATT +GCCCACCATCCCGATGGGGAGCATGCTCNNCGACATGACGAGCAAACCGGCCATCAGCCG +ATGCTCCAGCCGAAAACGCTTTTCGCTCNNGCGGGCAATCGGGTAGAGCAACGTCAGCGA +GAGACACGCCTCAATAGCGTACATCCATNNCACGGCAGCAGGCGAACCGGCGATATCGTT +TACCATAATCGGCAGCATTAACATGACCNNTACCGCCAGCATATAGTAGCCCGCCAGCGT +CAGCACGTAGGTGACAAACCTTTTATTGNNCATGACGCGGCGCATTCCTTCACGCACCGG +CGTTCTGGCCGTTGATAGCTTCCAGGCCNNAAGCAGCCATGCGTTGAAAAGGGCGCATAA +TATGAACAAAATAGCGCCCGTCGCGCAGNNCAGGCGAAAATCGTATTGTAGCAACCAGCT +TCCCAGCAGCGCGCCAATCACCGCGCCCNNGCTGTCCTGCATCATCAACAGAGAGAAGAA +GCGGCCCCGTTGCTCCGGACGAATTAATNNGACCACCAGCGCTGAACGCGGCGGGTCGAA +AAGCGTACCGCCGAGACCGGAAAGAAAGNNGGAAAACCACAAGAGCCAGGGCTCATGCGC +GATACCCATGGTGGCAAAGCCTGCGGCGNNCATCAGCATACCGGTGACAATCATCGGTTT +CGCGCCAAAGCGATCGGCGATGGCGCCGNNAAAAATGCCCAGACCTTGTTGAATAAACTG +ACGCAGGCCGAGCGCGATCCCTACCATTNNGGCAGCCCACCCCATTTGATCGACAAAGCG +AATAGAGATGAGCGGGAAGACGACGAAANNACCCAGCACCACTAACATGTTATCGATGAG +AAGAAAATATTTACCCAGGTTCCTCGCCNNCGAGACGCGCGACATTTCCCCTCCCGGGAA +ATAAAAGATGAGCGTCTTCTATTCTGCGNNGGCGTTTCGTTTTTTCCTACCGTTAGCGGG +ACAATATTTTTTTATCAAAAGTCCTTTTNNATCGAGAGTTTTCATCAAAATGTGGCAGCA +ATTCAAAAAATGACGATTTGCGCTTTTCNNAGGGCCTGGTTGCGCAGGTATAGTAATGTT +ACTGGCGTGCTGAAGACGTTACAGGAAGNNGTAGGTATAGAATGTTTGGCTATCGCAGTA +ACGTGCCAAAAGTGCGCTTAACCACCGANNGTCTGGTGGTACGTTTAGTGCATGAGCGTG +ATGCCTGGCGTCTGGCCGATTATTACGCNNAAAATCGTCATTTTTTAAAACCCTGGGAAC +CGGTCCGTGATGAAAGTCATTGTTATCCNNCAGGATGGCAGGCGCGTCTGGGAATGATCG +GTGAATTTCACAAACAGGGCTCCGCCTTNNATTTCGCGCTACTTGATCCGGAAGAAAAAG +AAATTATCGGCGTGGCGAATTTTTCCAANNTGGTGCGCGGTTCTTTTCATGCCTGTTATC +TGGGCTATTCCATTGCGCAAGAGTGGCANNGGCAAGGGCTGATGTTTGAAGCCTTAACCG +CTGCGATTCGCTATATGCAGCGCACTCANNATATCCACCGTATCATGGCGAACTATATGC +CGCACAACAAACGTAGCGGCGCGTTGCTNNCGCGGCTTGGCTTTGAAAAAGAAGGCTATG +CGAAAGATTACCTGTTGATTGATGGACANNGGCGCGACCATGTCCTGACGGCGTTAACCA +CGCCGTTATGGACGCCGGGGCGTTGAGCNNCTTACGGAATGAGAGGCAAAGGGAGAAAAC +GATGAAATATGAATTAACCGCCACTGAANNGCGAGTGATTGGCTGTCTGCTGGAAAAGCA +GGTGACAACGCCGGAACAGTATCCGCTTNNCGTCAACGGGGTGGTGACAGCCTGTAATCA +GAAAACCAACCGTGAACCGGTGATGAACNNGACGGAACAAGAGGTACAAGAACAGCTCGA +TAACCTGGTGAAACGCCACTTTTTGCGTNNGGTCAGCGGGTTTGGCAACCGCGTCACCAA +ATATGAACAGCGCTTCTGTAATTCCGAANNTGGCGATCTGAAACTTAGCGCGGCGGAAGT +GGCGCTCGTCACTACGTTGCTGCTGCGCNNCGCGCAAACGCCCGGCGAGTTGCGTAGCCG +GGCGTCGCGGATGCATGAATTCAGCGATNNGGCGGAAGTTGAATCCACGCTGGAACGGCT +TGCCAGTCGTGAGGACGGCCCGTATGTCNNCCGTCTGGCGCGTGAACCGGGTAAGCGCGA +AAGCCGCTATATGCACCTTTTTTGCGGCNNCGTCGATGAACTGTCTCTCCAGACGTCTGC +GCCGGAAAGTGCGTCGGGCGATCTTCAGNNGCGCGTCGAAGCGCTGGAAAGCGAAGTGGC +GGAGTTAAAGCAGCGGCTGGATTCTTTGNNAGCTCACCTGGGAGAGTAATGTGAGAACAT +TACGGATTGGCATTGTCGTGTTAGGTGGNNTTGCGCAGAAGGCCTGGCTGCCGGTATTAA +CCAACACCGCCGGATGGACGTTACAGGGNNCCTGGTCTCCTTCGCGGGATAAAGCCTTAC +GTATTTGCGAAAGCTGGCGCATACCGTANNTGGATTCGCTGGCGAATTTAGCGTCCGGCT +GCGATGCGGTCTTCGTCCACTCCAGTACNNCAAGCCATTATGCCGTGGTCAGCGAACTTC +TCAACGCTGGCGTCCATGTCTGCGTGGANNAACCGCTGGCGGAAAATCTACGTGATGCCG +AACGGCTGGTGGCGCTGGCGGCGCAAAANNAATTGACGCTGATGGTTGGCTTTAATCGCC +GTTTCGCGCCGCTGTACCGCGAACTGAANNCGCGCCTCGGCACTGCGGCGTCACTGCGTA +TGGATAAACATCGTACCGATAGCATCGGNNCGCATGACTTACGTTTTACTTTGCTCGATG +ACTATCTGCATGTCGTGGATACCGTTCTNNGGCTGGCGGGCGGCGAGGCGCGCCTTGCCA +GCGGCACGTTGCTCACCAGCGAGTCCGGNNAAATGTGCTATGCGGAACATCATTTTTCCG +CCGACAAATTACAAATTACCACCAGTATNNACCGGCGCGCCGGAAGTCAGCGTGAATCGG +TCCAGGCCGTCACCGATGGCGGGCTGTANNACGTGACGGATATGCGTGAATGGCGCGAAG +AGCGCGGGCAGGGTATTCTCATCAAACCNNTTCCGGGTTGGCAAACAACGCTTGAGCAGC +GTGGTTTTGTCGGATGCGCGCGGCATTTNNTTGACTGCGTACAAAATCAGACGGTTCCGG +AAACGGCGGGGGAGCAGGCGATTTTGGCNNAGCGCGTCGTGGAGGCGCTGTGGCGGGACG +CCATCAGCGAATAATCCTCTGTAACATCNNGCGGTAGTAATTCATCGTAATCCAGGTACT +ATACCCTCAATAATTCGAGTTGCAGAAANNCTAACGCACATGCAGCTCGAAGTATGGCGG +GTATATATGCCCACTCTACATAATACCTNNTTTCACAGTGAATAATGGCAAACCGTGGGG +AGTCTGTAAGGCCTGATAAGACGTTTTGNNGTCGCCGTCAGGCGCAGTGATACAGCCGGA +TACGGCAGAAGTTGCGTTATCCGGTCGANNGATCAGCCATGCAGGAGTTTTACGCCAGGG +TCTGGAATACAAAAGAAATGAATTTATTNNAATCGCTGGCTGCCGTCAGCTCGATGACTA +TGTTTTCACGCGTGTTGGGCTTTGCCCGNNATGCGATTGTCGCCAGAATTTTTGGCGCAG +GGATGGCGACCGACGCCTTTTTTGTGGCNNTTAAACTTCCCAATCTACTACGCCGGATCT +TTGCCGAAGGCGCTTTTTCTCAGGCCTTNNTGCCTATCCTGGCGGAATATAAGAGCAAGC +AGGGTGAAGAAGCGACGCGGATCTTTGTNNCTTACGTTTCCGGCCTGTTGACGCTGGCAT +TGGCCGTCGTGACGGTGGCCGGTATGCTNNCCGCCCCGTGGGTGATTATGGTAACCGCGC +CGGGTTTTGCCGATACTGCGGATAAATTNNCGCTGACGACGCAACTGCTGCGGATTACGT +TTCCCTATATTCTGCTGATCTCGCTGGCNNCACTGGTTGGCGCCATTCTCAACACCTGGA +ATCGCTTCTCTATTCCCGCTTTTGCGCCNNCATTTCTTAATATCAGTATGATCGGTTTTG +CATTATTCGCCGCGCCATACTTTAATCCNNCGGTGCTGGCGTTAGCCTGGGCAGTCACCG +TCGGCGGCGTGCTGCAACTGGTGTATCANNTTCCGTATTTGAAAAAGATCGGTATGCTGG +TGCTGCCGCGCATTAACTTTCACGACACNNGGGCGATGCGGGTGGTCAAACAGATGGGGC +CGGCGATTTTGGGCGTTTCCGTCAGTCANNTCTCCCTTATCATCAATACCATTTTCGCCT +CGTTTCTGGCCTCCGGCTCGGTCTCATGNNTGTACTATGCCGATCGGTTGATGGAGTTCC +CGTCCGGCGTGCTGGGCGTGGCGTTGGGNNCCATCCTGTTGCCGTCATTGTCGAAAAGCT +TTGCCAGCGGCAATCATGATGAGTACTGNNGCCTGATGGACTGGGGGCTGCGTTTGTGCT +TTTTACTGGCGTTGCCGAGCGCGGTAGCNNTAGGCATTCTGGCGAAGCCGCTGACGGTCT +CGCTGTTTCAGTACGGTAAATTCACCGCNNTTGATGCGGCGATGACGCAGCGGGCGTTAA +TCGCCTATTCGGTGGGGCTGATTGGCTTNNTCGTCGTAAAAGTGCTGGCCCCGGGCTTCT +ATTCTCGCCAGGATATTAAAACGCCGGTNNAAATCGCCATCGTGACGTTAATCATGACGC +AGTTAATGAACCTGGCGTTTATTGGACCNNTGAAACACGCCGGGCTGTCGCTCTCTATTG +GTCTGGCGGCATGTCTCAATGCGTCGCTNNTGTACTGGCAACTGCGCAAACAGAATATCT +TTACGCCACAACCGGGGTGGATGTGGTTNNTGATGCGTCTGATCATTTCCGTACTGGTAA +TGGCCGCCGTGTTGTTCGGCGTGTTGCANNTTATGCCGGAGTGGTCGCAAGGGTCGATGC +TATGGCGTTTGCTGCGTTTGATGGCGGTNNTGATCGCGGGTATCGCGGCCTATTTCGCCG +CGCTTGCCGTGCTGGGCTTTAAAGTGAANNAGTTTGTTCGCCGGACGGCGTAAATTCAGT +GCCTGATAGCGCTGTGCTATCAGGCCTANNAGGCATTCAGGCCGGAAAGGCGCAACGTCG +CCATCCGGCAATGATTAGATAGATATTTNNTTACCGCCGCGGTGAGAGACGGAAGTCTGA +CCGTCAGCCCCGTACAAGGTCGGCTCCTNNTGAGGTTTCAGCACCTCCAGCGCCTGTTGA +TTACGCTCGATTTGCCCTTCCAGCAGCCNNCCGTTGTGCTGGTTGAGGTCGCGCAGATGC +TGCGTTTTTTCGGTAATCGCCTGCCAGCNNTCTGCAATGTCATCGTTTGCGCTACGCTGC +GCGTTCTGCTCCAGACGGCGCTGTTGTTNNAGATAATCCAGCGTCGCCAGCAACGAGCTT +TTTTCTTCTGTAATACGCTGTAGCTGGCNNCCGTTAATCTGGCCTACGGAAAGCTGTTGT +TGCTCGGCGTCCATCACCGTCTTCAGGTNNTTCAGGACGGTGGTCATCTGGTCAAGTATT +TCTGACAAACGAGTCATACGCTTATTTANNCTGTAAGTAGCTCTGCGCCTCGCGAATGAG +CGAGTCTGCTATTTTTCCCGTATCCATTNNTAACTCACCGTTACGGATAGCCGTTTTTAA +TGCTTCGACGCGTTCCATATTAATGTCGNNGACGCCTGGCTGCATAAGCTTCGCTTGCGC +GTCGCTTAACGTTACGCTGGCGCTCGTCNNGGCGGACGTTTTTTCCTGACGCGTTTTTTG +TACCGGCGTGTCGCTGGTTTCGCGCGTCNNGACAGTGCTAACGGGTTTCAAAGGTGAGGT +ACGGTCAATGCTCATTTATTTATCCTCANNGAGGGTTACGTTGTAGCGGCCAGCTACCAT +CATGGTTGAATATCTCATCGGCAGCCGCNNCAAAATCTTTACACAATTATAGGTTAATAA +GAATATTCCCATCAGAATCGACGGTTCCNNTCACGATTTGACCCGATGTCATGCGCACGC +GCGCATTTTGCGCGACGGCGGCATTATTNNTCGCCTGACCTTCCGCATTGACGCTAAACC +CCTCGCCATTGGCGATGACCTGTACTCGNNGACCCGCTTTGACACGCCAGGCCTGACGTA +TCATCGTAAGCTGTACCGGCTGCCCGGGNNCGAGATCGCGCAAACTGACGGCATCCTGAA +TCTGACGGATATCCAGTACCGTCCGCGGNNGTAACTGATCCAGTCTGCCACGTTTTAGCG +TGACGTTGGCCGGCGTCAATTTTCCGCCNNGCGCGACGGGCGCGGCTACGGCGACATAAT +TGCCGGTCGCTTGCACATTCACCTGCAANNAACGTTTTTCATTGGCGCAGCGCGCCACCA +CATTGACGTTGCCCCACAGCTTCGCGCTNNCCGTCATGCTGAAGGCTGGCTGCTCGCAGC +TCGGTAGCAGATTGGGCGGTGAACGGAGNNTGACAACCACCTCGTCGCTGAAGCCAGCCA +GACGCTGGGAAAACCACGTGGTCAGCTGNNCGTTGATGTCCTGCGCCATTGTCAGGGGGC +TGAACAGCAAAGCCGCCACGGCGAATCCNNGTTTTAACGTTTGCATGGTACTTCCCCCTG +GTTGATGTCATGACAGGATTCTACCCGTNNGAAGCAAGCATCAACGCAATAAATAGCGAC +GCATTTTGCGTTTATTCCGGCGATAACGNNCGCGTGAAGGCATTTAAGCTGTCGGCTGAA +TTTTGCCATTTGCGGAGGAGATATGCTCNNCAGGCTCGATGCCGCCTTACGATTTCAGCA +GGAAGCGCTAAATCTGCGCGCGCAACGTNNGGAAATATTAGCGGCGAATATCGCCAATGC +CGATACGCCGGGGTATCAGGCGCGCGATNNTGATTTTGCCAGTGAGTTAAAAAAAGTGAT +GGTGCGCGGACGGGAAGAAACCGGCGGCNNCGCGTTGTCGTTGACTTCTTCTCGCCATAT +TCCCGCCCAGGCGGTCTCTTCTCCCGCANNGGATCTGCTTTACCGCGTACCCGATCAGCC +TTCTTTGGATGGTAACACCGTAGATATGNNCAGGGAACGTACGCAGTTTGCGGATAACAG +TCTCAAATATCAGATGGGGCTTACCGTTNNGGGTAGCCAACTCAAAGGCATGATGAATGT +GCTACAGGGAGGAAACTAATTCGTGGCGNNGTTAAACATTTTTGATATTGCCGGATCGGC +GCTTGCCGCACAGTCCAAGCGGTTGAACNNTGCGGCCAGTAACCTTGCGAATGCGGATAG +CGTCACCGGCCCGGACGGACAGCCTTATNNCGCCAAACAGGTGGTTTTTCAGGTGGACGC +CGCGCCGGGTCAAGCCACTGGCGGGGTANNGGTCGCCAGCGTGATTGAAAGTCAGGCACC +GGAAAAGCTGGTTTATGAGCCAGGCAATNNGCTGGCGGACGCTAATGGTTACGTCAAAAT +GCCCAACGTCGATGTGGTCGGCGAAATGNNCAACACGATGTCAGCCTCGCGCAGCTATCA +GGCAAATATCGAAGTCCTGAATACCGTANNAAGCATGATGCTTAAAACGCTGACATTAGG +CCAGTAAAGGAGGCGCGTATGTCTATTGCCGTAAATATGAATGACCCGACCAACACGGGC +GTCAAAACGACGACCGGCAGCGGGTCGATGACCGGAAGCAACGCTGCCGATCTGCAAAGC +AGTTTCCTGACCTTACTGGTCGCGCAATTGAAGAACCAGGACCCGACTAACCCATTACAA +AATAATGAGTTAACGACACAGTTGGCGCAAATCAGTACCGTGAGCGGCATTGAAAAACTG +AATACGACGCTGGGGGCTATTTCCGGGCAAATCGATAATAGTCAGTCCCTACAGGCGACC +ACGCTGATTGGACATGGCGTTATGGTGCCTGGCACCACAATTCTGGCGGGTAAAGGCGCG +GAAGAAGGGGCCGTGACGTCCACGACGCCGTTTGGCGTGGAATTGCAACAGCCTGCGGAC +AAAGTGACGGCAACCATTACCGATAAAGATGGCCGGGTGGTACGGACGCTGGAGATCGGT +GAGTTGCGAGCCGGGGTACACACCTTTACCTGGGATGGTAAGCAAACGGACGGAACAACG +GTACCGAATGGTTCTTACAACATTGCGATTACCGCCAGCAATGGCGGGACGCAACTGGTG +GCGCAGCCGCTGCAATTCGCTCTGGTACAGGGCGTGACGAAGGGCAGTAACGGCAACCTG +TTGGATCTGGGTACCTACGGCACCACCACACTCGACGAAGTTCGGCAAATAATCTAAGCC +CTTACACTTATCAGGAGTCAGTCATGTCTTTTTCTCAAGCGGTTAGCGGCCTGAACGCTG +CGGCCACCAACCTTGATGTTATCGGTAATAACATCGCCAACTCCGCCACCTATGGCTTTA +AGTCCGGTACGGCATCATTTGCCGATATGTTCGCCGGTTCCAAAGTGGGGTTGGGCGTAA +AAGTGGCGGGGATTACCCAGGATTTTACCGACGGTACGACAACGAACACCGGGCGCGGGC +TGGATGTCGCGATTAGCCAGAACGGTTTTTTCCGCCTGGTAGACAGCAACGGTTCCGTGT +TCTATAGCCGCAACGGCCAGTTCAAACTGGACGAGAACCGTAACCTGGTCAATATGCAGG +GGATGCAGTTGACCGGCTATCCGGCCACCGGTACGCCGCCGACCATTCAGCAGGGGGCGA +ATCCTGCGCCGATCACCATTCCGAACACGCTGATGGCGGCGAAATCGACCACCACCGCGT +CAATGCAGATCAACCTGAACTCAACGGACCCTGTACCGTCTAAAACGCCCTTTAGCGTGA +GTGATGCGGATTCGTATAACAAAAAAGGCACCGTCACCGTTTATGACAGCCAGGGTAATG +CCCATGACATGAACGTCTATTTTGTGAAAACCAAAGATAATGAATGGGCTGTGTACACCC +ATGACAGCAGCGATCCTGCAGCCACTGCGCCAACAACGGCGTCCACTACGCTGAAATTCA +ATGAAAACGGGATTCTGGAGTCTGGCGGTACGGTGAACATCACCACCGGTACGATTAATG +GCGCGACAGCGGCCACCTTCTCCCTCAGCTTCCTTAACTCCATGCAGCAGAACACCGGGG +CTAATAACATCGTCGCCACCAATCAAAACGGCTATAAGCCTGGCGACCTGGTGAGCTACC +AGATTAACAATGATGGCACCGTGGTTGGCAACTACTCCAACGAGCAGGAGCAGGTGCTGG +GGCAGATTGTGCTGGCTAACTTCGCCAACAACGAAGGTCTGGCATCCCAGGGCGATAACG +TCTGGGCGGCGACGCAGGCCTCCGGGGTAGCGCTGCTGGGGACTGCCGGTTCCGGCAACT +TCGGTAAGCTGACGAACGGCGCGCTGGAAGCCTCTAACGTGGATTTGAGTAAAGAGCTGG +TGAATATGATCGTCGCGCAGCGTAACTACCAGTCGAATGCGCAGACCATCAAAACCCAGG +ACCAGATCCTCAATACGCTGGTTAACCTGCGCTAAGCGCCTGACGGGATAGCTTAATGGA +TCACGCAATTTATACCGCCATGGGGGCGGCCAGCCAGACGCTTAACCAGCAGGCGGTAAC +GGCCAGCAACCTGGCTAATGCCTCAACGCCGGGCTTTCGCGCGCAGCTTAACGCGCTACG +CGCGGTGCCCGTTGATGGCCTCTCTTTAGCGACGCGCACGTTGGTTACGGCGTCGACGCC +GGGGGCGGATATGACCCAGGGTCAGTTGGACTACACTTCCCGCCCGCTGGATGTTGCGTT +ACAGCAGGACGGCTGGCTGGTGGTGCAAGCGGCGGATGGCGCTGAAGGATATACCCGTAA +CGGGAATATCCAGGTGGGCCCGACCGGGCAGTTAACCATTCAGGGACATCCGGTTATCGG +CGAAGGCGGCCCGATTACCGTTCCGGAAGGGTCGGAAATCACCATTGCGGCAGACGGCAC +GATCTCCGCGCTCAATCCCGGCGACCCGCCAAACACGGTGGCGCCCGTTGGGCGGCTGAA +GCTGGTCAAAGCGGAAGGCAATGAGGTGCAGCGGAGCGATGACGGTTTATTCCGCCTTAC +CGCCGAGGCACAGGCTGAACGCGGGGCGGTACTGGCCGCCGACCCGTCAATTCGCATTAT +GTCGGGCGTGCTGGAGGGCAGTAACGTCAAGCCGGTTGAAGCCATGACCGACATGATCGC +CAACGCACGTCGTTTTGAAATGCAGATGAAGGTTATCACCAGCGTAGATGAGAACGAAGG +GCGAGCTAACCAACTGCTGTCGATGAGTTAATACAGGACATTTTATGATCAGTTCATTAT +GGATCGCCAAAACCGGTCTGGACGCGCAGCAAACCAATATGGATGTGATTGCCAATAACC +TGGCAAACGTCAGCACCAATGGTTTTAAGCGTCAGCGCGCGGTATTTGAAGATCTGTTGT +ATCAGACCATCCGCCAGCCGGGCGCGCAGTCGTCCGAGCAGACGACGCTGCCTTCCGGGC +TGCAAATCGGTACCGGCGTGCGTCCGGTCGCCACGGAGCGCCTGCACAGTCAGGGGAACC +TGTCGCAGACCAACAACAGTAAAGATGTGGCGATTAAAGGGCAGGGCTTTTTCCAGGTCA +TGCTGCCGGACGGTACGTCTGCCTATACCCGCGACGGCTCTTTCCAGGTGGATCAGAATG +GTCAACTGGTGACGGCGGGCGGTTTTCAGGTGCAGCCGGCAATCACCATTCCGGCCAACG +CGTTAAGCATCACGATTGGCCGCGACGGCGTGGTCAGCGTTACCCAGCAAGGGCAGGCCG +CGCCGGTTCAGGTCGGGCAGCTTAACCTGACCACCTTTATGAACGACACCGGTCTGGAAA +GCATCGGCGAGAACCTCTATATCGAAACGCAATCGTCCGGCGCGCCGAACGAAAGCACGC +CGGGGCTCAACGGCGCGGGGTTGTTGTATCAAGGGTATGTCGAAACGTCGAACGTTAACG +TGGCGGAAGAGCTGGTGAACATGATTCAGGTTCAACGCGCCTATGAAATTAACAGTAAAG +CAGTATCGACGACCGATCAGATGCTGCAGAAACTGACGCAACTCTAAGGGGCCGCCGGTG +GGGGATACGCCACCGGCTCCCTGATTTTGAAGATGAAGGTAATGCAAAAATACGCGCTTC +ACGCTTACCCAGTTATGGCCCTGATGGTCGCGACGCTGACAGGATGCGCCTGGATACCCG +CTAAACCGCTCGTGCAGGGGGCGACCACGGCGCAGCCGATACCTGGCCCGGTACCGGTGG +CGAATGGCTCCATATTTCAGTCTGCGCAGCCGATTAATTATGGCTATCAGCCGCTTTTTG +AAGATCGTCGACCGCGTAATATCGGCGATACGCTCACGATTGTGTTACAGGAAAACGTCA +GCGCCAGTAAAAGCTCGTCGGCAAATGCCAGCCGCGACGGCAAAACCAGCTTTGGTTTTG +ATACGGTACCGCGTTATCTGCAGGGATTATTCGGTAATTCCCGCGCGGATATGGAGGCCT +CCGGCGGCAACTCTTTTAATGGTAAAGGCGGCGCGAATGCCAGCAATACCTTTAGCGGCA +CGCTGACCGTGACCGTCGATCAGGTTCTGGCCAATGGCAATTTACACGTCGTGGGGGAAA +AACAGATCGCGATTAATCAGGGAACGGAATTCATCCGCTTCTCCGGCGTGGTAAATCCAC +GCACCATCAGCGGTAGCAACTCTGTTCCCTCGACACAGGTGGCGGATGCGCGGATTGAAT +ATGTCGGGAACGGCTATATTAACGAAGCGCAAAATATGGGCTGGCTGCAACGTTTCTTCC +TTAATTTGTCGCCGATGTAAGCGAGGTGTATGTGTTTAAAGCTCTTGCAGGAATCGTTCT +GGCACTGGTTGCCACTCTGGCGCACGCCGAGCGTATCCGGGATCTGACCAGTGTCCAGGG +AGTACGGGAAAACTCGCTGATCGGCTACGGGCTGGTGGTCGGGCTGGACGGTACGGGCGA +CCAGACGACCCAGACGCCATTTACCACCCAGACGCTGAATAACATGCTGTCACAACTGGG +GATTACGGTCCCCACCGGCACCAATATGCAGTTGAAAAACGTGGCGGCGGTGATGGTGAC +GGCGTCGTATCCGCCTTTTGCGCGACAGGGACAAACGATCGATGTCGTCGTTTCCTCAAT +GGGGAACGCTAAAAGTCTGCGTGGCGGGACGTTATTAATGACGCCGTTAAAAGGGGTGGA +CAGCCAGGTGTATGCTCTGGCGCAGGGCAATATTCTGGTCGGCGGCGCGGGCGCTTCCGC +AGGCGGCAGTAGCGTGCAGGTTAACCAGCTTAATGGCGGGCGCATCACTAATGGCGCGAT +TATCGAACGCGAGTTGCCGACTCAGTTCGGCGCTGGCAACACCATTAATCTGCAATTGAA +CGACGAAGATTTTACGATGGCGCAGCAAATTACCGACGCCATCAACCGCGCCCGCGGTTA +CGGCAGCGCCACTGCGCTTGATGCGCGAACGGTACAGGTACGCGTGCCCAGCGGCAACAG +CTCGCAGGTGCGTTTTCTGGCGGACATTCAAAATATGGAAGTCAACGTGACGCCGCAGGA +TGCAAAAGTCGTGATCAACTCGCGTACCGGTTCGGTGGTCATGAATCGGGAAGTCACGCT +GGATAGCTGCGCTGTGGCGCAGGGCAATTTGTCAGTGACAGTCAATCGCCAACTCAACGT +CAACCAGCCGAATACGCCATTTGGCGGCGGGCAGACCGTGGTGACGCCACAGACTCAGAT +AGATTTGCGTCAGAGCGGCGGATCGCTACAGAGCGTGCGTTCCAGCGCCAATCTGAACAG +CGTAGTGCGCGCGCTGAATGCGCTTGGCGCGACGCCGATGGATCTGATGTCGATTTTGCA +GTCCATGCAGAGCGCGGGCTGTCTACGCGCCAAACTGGAAATCATCTGATGATCGGAGAC +GGTAAATTGCTGGCCAGCGCGGCCTGGGATGCGCAATCTCTGAACGAACTGAAAGCGAAA +GCGGGCCAGGACCCGGCGGCGAATATCCGTCCTGTGGCCCGTCAGGTGGAAGGGATGTTT +GTGCAGATGATGCTGAAAAGTATGCGCGAGGCTTTACCCAAAGATGGTTTATTCAGCAGC +GATCAGACGCGTCTGTATACCAGCATGTATGACCAGCAGATCGCCCAGCAGATGACCGCC +GGTAAGGGATTGGGGCTGGCGGATATGATGGTTAAACAGATGACGGGCGGGCAGACGATG +CCTGCAGATGATGCGCCGCAAGTACCGCTTAAATTCTCCCTGGAGACGGTAAACAGCTAT +CAAAATCAGGCGCTGACCCAACTGGTGCGCAAAGCCATACCGAAAACGCCGGACAGCAGC +GATGCGCCGCTCTCCGGCGACAGTAAAGACTTTCTGGCCCGGCTTTCGCTCCCGGCGAGG +CTGGCCAGCGAACAAAGCGGGGTGCCGCATCATCTGATTCTGGCGCAGGCGGCGCTGGAG +TCCGGCTGGGGGCAGCGGCAAATCCTGCGGGAGAATGGCGAACCCAGCTATAACGTATTT +GGCGTGAAAGCGACCGCCAGTTGGAAAGGGCCGGTGACGGAAATCACCACCACTGAATAC +GAAAATGGCGAAGCGAAAAAAGTGAAAGCGAAATTCCGCGTCTATAGCTCGTATCTGGAG +GCGTTATCGGATTATGTCGCGCTGTTAACGCGTAACCCACGCTACGCTGCCGTGACCACT +GCCGCCACGGCAGAGCAGGGCGCAGTGGCTCTGCAAAACGCCGGATACGCCACTGACCCG +AATTACGCGCGTAAATTGGCCAGCATGATTCAGCAGTTGAAAGCGATGAGTGAAAAGGTC +AGCAAAACCTACAGCGCGAATCTCGACAATCTCTTTTAAATTGCTCAAGTCCACGTAGTC +GCTGCCGATAACAACGAGTATTGAAGGATTAAAAGGAACCATCATGTCCAGCTTGATTAA +TCACGCCATGAGCGGACTTAACGCCGCGCAGGCCGCGTTAAATACGGTCAGTAATAACAT +CAACAATTATAACGTTGCGGGTTATACCCGGCAGACAACTATTCTGGCGCAGGCAAACAG +TACGTTAGGGGCTGGCGGCTGGATAGGTAATGGCGTTTACGTTTCAGGCGTACAGCGCGA +ATATGATGCGTTTATCACTAATCAGCTACGCGGCGCGCAAAACCAGAGCAGCGGCTTAAC +CACGCGCTATGAACAAATGTCGAAAATCGACAACCTGCTGGCCGATAAATCCAGCTCACT +GTCTGGCTCGCTGCAGAGTTTTTTTACCAGCCTGCAAACGTTAGTCAGTAATGCGGAAGA +TCCTGCGGCGCGTCAGGCGCTGATTGGTAAAGCGGAAGGGCTGGTAAACCAGTTCAAAAC +CACCGATCAGTATCTGCGCGATCAGGATAAACAGGTCAATATCGCGATTGGCTCCAGCGT +GGCGCAAATCAACAATTACGCGAAGCAGATAGCTAACCTGAACGATCAAATCTCCCGTAT +GACGGGCGTAGGCGCGGGCGCATCGCCGAACGACCTGCTCGATCAACGTGATCAGTTGGT +TAGCGAGCTTAACAAGATCGTTGGCGTCGAGGTGAGTGTACAGGACGGCGGCACCTATAA +CCTGACGATGGCCAATGGCTATACGCTGGTGCAGGGGTCGACGGCGCGTCAGTTGGCGGC +GGTTCCCTCCAGCGCCGACCCGACGCGAACGACTGTCGCTTATGTCGATGAGGCCGCCGG +TAACATCGAAATTCCGGAAAAGTTGCTGAACACCGGTTCGCTCGGCGGGCTACTGACGTT +CCGTTCTCAGGATCTGGATCAGACTCGTAATACGCTGGGCCAGTTGGCGTTGGCGTTTGC +CGATGCGTTTAACGCGCAGCATACCAAAGGTTATGACGCCGACGGCAATAAAGGGAAAGA +CTTCTTTAGCATTGGCTCGCCGGTGGTATATAGCAACAGTAATAATGCCGATAAAACGGT +ATCGCTAACCGCTAAGGTGGTCGACAGCACGAAGGTTCAGGCGACGGATTATAAGATTGT +TTTTGACGGTACAGACTGGCAGGTTACTCGCACTGCGGATAACACCACCTTCACGGCAAC +AAAAGATGCTGACGGAAAACTGGAGATTGACGGTCTGAAAGTGACGGTAGGGACTGGCGC +ACAGAAAAACGACAGTTTTCTTCTCAAGCCGGTCAGCAATGCTATCGTCGACATGAACGT +TAAAGTGACAAATGAAGCCGAGATTGCGATGGCGTCTGAGTCAAAACTCGATCCTGATGT +GGATACCGGCGACAGCGATAACCGCAATGGTCAGGCATTGCTGGACTTACAAAACAGCAA +TGTAGTGGGCGGCAACAAAACCTTTAACGATGCTTACGCCACGTTGGTCAGCGATGTGGG +TAACAAAACGTCAACGCTGAAAACCAGCAGCACCACGCAGGCGAATGTGGTTAAACAGCT +TTATAAACAGCAACAGTCGGTTTCCGGCGTTAACCTCGACGAAGAGTACGGCAATTTGCA +GCGTTATCAGCAGTATTATCTGGCGAATGCGCAAGTATTGCAGACCGCGAATGCGCTGTT +TGATGCGTTATTGAATATTCGCTAAAGGAGAAGGATGACATGCGTATCAGTACCCAGATG +ATGTACGAACAAAATATGAGCGGCATCACTAATTCTCAGGCCGAATGGATGAAGCTGGGC +GAGCAGATGTCTACCGGTAAGCGCGTTACCAACCCATCTGACGATCCGATCGCCGCGTCG +CAGGCGGTAGTACTCTTTCAGGCGCAGGCGCAGAATAGCCAGTACGCCCTGGCGCGTACG +TTTGCCACCCAAAAAGTGTCGCTGGAAGAAAGCGTACTCAGTCAGGTGACGACGGCGATT +CAAACCGCGCAGGAAAAAATCGTCTATGCCGGAAACGGCACGTTAAGCGACGATGACCGC +GCGTCGCTGGCGACGGATTTACAGGGGATCCGCGATCAGCTGATGAACCTGGCAAACAGC +ACTGACGGCAATGGTCGCTATATCTTTGCCGGGTATAAAACGGAAGCGGCGCCATTCGAC +CAGGCGACAGGTGGTTATCATGGCGGCGAGAAAAGTGTTACCCAGCAGGTGGATTCCGCA +CGCACGATGGTAATTGGCCATACGGGAGCGCAAATTTTTAATAGCATCACCAGCAATGCG +GTGCCGGAACCGGATGGCTCGGACTCCGAAAAGAATCTGTTTGTCATGCTCGATACGGCA +ATTGCCGCGCTCAAGACCCCGGTGGAAGGCAATGACGTGGAAAAAGAAAAAGCCGCTGCC +GCCATTGATAAAACCAATCGCGGCTTAAAAAATTCGCTTAATAACGTCCTGACCGTTCGT +GCGGAACTGGGAACGCAACTGAGCGAACTCAGTACGCTGGATTCACTGGGAAGCGACCGT +GCGCTGGGACAGAAGCTACAGATGAGCAACCTGGTAGATGTGGACTGGAACTCGGTCATT +TCCTCCTACGTCATGCAACAGGCGGCATTACAGGCGTCCTATAAAACGTTTACCGACATG +CAGGGAATGTCGCTTTTCCAGTTGAACCGGTAACGCCTCTTTTTGAAACATATCACGAAA +CTGGATATGTTTTGTCTGCCCGCGCCATCCACCCCGGCGCGGGCATTTTTTGTCTATGGA +AAACCCCCAGCTAGGCTGGGGGTTCCGGAAAGCTTTCAGCTTTAAGCCAGTTATTAAAAC +CCCTTTTGATTTGTTAAAACATCTTGCGGTCTGGC \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/real_data_core_gene_alignment.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1950 @@ +>11111_1#11 +ATGCGTATCAGTACCCAGATGATGTACGAACAAAATATGAGCGGCATCACTAATTCTCAG +GCCGAATGGATGAAGCTGGGCGAGCAGATGTCTACCGGTAAGCGCGTTACCAACCCATCT +GACGATCCGATCGCCGCGTCGCAGGCGGTAGTACTCTTTCAGGCGCAGGCGCAGAATAGC +CAGTACGCCCTGGCGCGTACGTTTGCCACCCAAAAAGTGTCGCTGGAAGAAAGCGTACTC +AGTCAGGTGACGACGGCGATTCAAACCGCGCAGGAAAAAATCGTCTATGCCGGAAACGGC +ACGTTAAGCGACGATGACCGCGCGTCGCTGGCGACGGATTTACAGGGGATCCGCGATCAG +CTGATGAACCTGGCAAACAGCACTGACGGCAATGGTCGCTATATCTTTGCCGGGTATAAA +ACGGAAGCGGCGCCATTCGACCAGGCGACAGGTGGTTATCATGGCGGCGAGAAAAGTGTT +ACCCAGCAGGTGGATTCCGCACGCACGATGGTAATTGGCCATACGGGAGCGCAAATTTTT +AATAGCATCACCAGCAATGCGGTGCCGGAACCGGATGGCTCGGACTCCGAAAAGAATCTG +TTTGTCATGCTCGATACGGCAATTGCCGCGCTCAAGACCCCGGTGGAAGGCAATGACGTG +GAAAAAGAAAAAGCCGCTGCCGCCATTGATAAAACCAATCGCGGCTTAAAAAATTCGCTT +AATAACGTCCTGACCGTTCGTGCGGAACTGGGAACGCAACTGAGCGAACTCAGTACGCTG +GATTCACTGGGAAGCGACCGTGCGCTGGGACAGAAGCTACAGATGAGCAACCTGGTAGAT +GTGGACTGGAACTCGGTCATTTCCTCCTACGTCATGCAACAGGCGGCATTACAGGCGTCC +TATAAAACGTTTACCGACATGCAGGGAATGTCGCTTTTCCAGTTGAACCGGATGTCCAGC +TTGATTAATCACGCCATGAGCGGACTTAACGCCGCGCAGGCCGCGTTAAATACGGTCAGT +AATAACATCAACAATTATAACGTTGCGGGTTATACCCGGCAGACAACTATTCTGGCGCAG +GCAAACAGTACGTTAGGGGCTGGCGGCTGGATAGGTAATGGCGTTTACGTTTCAGGCGTA +CAGCGCGAATATGATGCGTTTATCACTAATCAGCTACGCGGCGCGCAAAACCAGAGCAGC +GGCTTAACCACGCGCTATGAACAAATGTCGAAAATCGACAACCTGCTGGCCGATAAATCC +AGCTCACTGTCTGGCTCGCTGCAGAGTTTTTTTACCAGCCTGCAAACGTTAGTCAGTAAT +GCGGAAGATCCTGCGGCGCGTCAGGCGCTGATTGGTAAAGCGGAAGGGCTGGTAAACCAG +TTCAAAACCACCGATCAGTATCTGCGCGATCAGGATAAACAGGTCAATATCGCGATTGGC +TCCAGCGTGGCGCAAATCAACAATTACGCGAAGCAGATAGCTAACCTGAACGATCAAATC +TCCCGTATGACGGGCGTAGGCGCGGGCGCATCGCCGAACGACCTGCTCGATCAACGTGAT +CAGTTGGTTAGCGAGCTTAACAAGATCGTTGGCGTCGAGGTGAGTGTACAGGACGGCGGC +ACCTATAACCTGACGATGGCCAATGGCTATACGCTGGTGCAGGGGTCGACGGCGCGTCAG +TTGGCGGCGGTTCCCTCCAGCGCCGACCCGACGCGAACGACTGTCGCTTATGTCGATGAG +GCCGCCGGTAACATCGAAATTCCGGAAAAGTTGCTGAACACCGGTTCGCTCGGCGGGCTA +CTGACGTTCCGTTCTCAGGATCTGGATCAGACTCGTAATACGCTGGGCCAGTTGGCGTTG +GCGTTTGCCGATGCGTTTAACGCGCAGCATACCAAAGGTTATGACGCCGACGGCAATAAA +GGGAAAGACTTCTTTAGCATTGGCTCGCCGGTGGTATATAGCAACAGTAATAATGCCGAT +AAAACGGTATCGCTAACCGCTAAGGTGGTCGACAGCACGAAGGTTCAGGCGACGGATTAT +AAGATTGTTTTTGACGGTACAGACTGGCAGGTTACTCGCACTGCGGATAACACCACCTTC +ACGGCAACAAAAGATGCTGACGGAAAACTGGAGATTGACGGTCTGAAAGTGACGGTAGGG +ACTGGCGCACAGAAAAACGACAGTTTTCTTCTCAAGCCGGTCAGCAATGCTATCGTCGAC +ATGAACGTTAAAGTGACAAATGAAGCCGAGATTGCGATGGCGTCTGAGTCAAAACTCGAT +CCTGATGTGGATACCGGCGACAGCGATAACCGCAATGGTCAGGCATTGCTGGACTTACAA +AACAGCAATGTAGTGGGCGGCAACAAAACCTTTAACGATGCTTACGCCACGTTGGTCAGC +GATGTGGGTAACAAAACGTCAACGCTGAAAACCAGCAGCACCACGCAGGCGAATGTGGTT +AAACAGCTTTATAAACAGCAACAGTCGGTTTCCGGCGTTAACCTCGACGAAGAGTACGGC +AATTTGCAGCGTTATCAGCAGTATTATCTGGCGAATGCGCAAGTATTGCAGACCGCGAAT +GCGCTGTTTGATGCGTTATTGAATATTCGCATGATCGGAGACGGTAAATTGCTGGCCAGC +GCGGCCTGGGATGCGCAATCTCTGAACGAACTGAAAGCGAAAGCGGGCCAGGACCCGGCG +GCGAATATCCGTCCTGTGGCCCGTCAGGTGGAAGGGATGTTTGTGCAGATGATGCTGAAA +AGTATGCGCGAGGCTTTACCCAAAGATGGTTTATTCAGCAGCGATCAGACGCGTCTGTAT +ACCAGCATGTATGACCAGCAGATCGCCCAGCAGATGACCGCCGGTAAGGGATTGGGGCTG +GCGGATATGATGGTTAAACAGATGACGGGCGGGCAGACGATGCCTGCAGATGATGCGCCG +CAAGTACCGCTTAAATTCTCCCTGGAGACGGTAAACAGCTATCAAAATCAGGCGCTGACC +CAACTGGTGCGCAAAGCCATACCGAAAACGCCGGACAGCAGCGATGCGCCGCTCTCCGGC +GACAGTAAAGACTTTCTGGCCCGGCTTTCGCTCCCGGCGAGGCTGGCCAGCGAACAAAGC +GGGGTGCCGCATCATCTGATTCTGGCGCAGGCGGCGCTGGAGTCCGGCTGGGGGCAGCGG +CAAATCCTGCGGGAGAATGGCGAACCCAGCTATAACGTATTTGGCGTGAAAGCGACCGCC +AGTTGGAAAGGGCCGGTGACGGAAATCACCACCACTGAATACGAAAATGGCGAAGCGAAA +AAAGTGAAAGCGAAATTCCGCGTCTATAGCTCGTATCTGGAGGCGTTATCGGATTATGTC +GCGCTGTTAACGCGTAACCCACGCTACGCTGCCGTGACCACTGCCGCCACGGCAGAGCAG +GGCGCAGTGGCTCTGCAAAACGCCGGATACGCCACTGACCCGAATTACGCGCGTAAATTG +GCCAGCATGATTCAGCAGTTGAAAGCGATGAGTGAAAAGGTCAGCAAAACCTACAGCGCG +AATCTCGACAATCTCTTTGTGTTTAAAGCTCTTGCAGGAATCGTTCTGGCACTGGTTGCC +ACTCTGGCGCACGCCGAGCGTATCCGGGATCTGACCAGTGTCCAGGGAGTACGGGAAAAC +TCGCTGATCGGCTACGGGCTGGTGGTCGGGCTGGACGGTACGGGCGACCAGACGACCCAG +ACGCCATTTACCACCCAGACGCTGAATAACATGCTGTCACAACTGGGGATTACGGTCCCC +ACCGGCACCAATATGCAGTTGAAAAACGTGGCGGCGGTGATGGTGACGGCGTCGTATCCG +CCTTTTGCGCGACAGGGACAAACGATCGATGTCGTCGTTTCCTCAATGGGGAACGCTAAA +AGTCTGCGTGGCGGGACGTTATTAATGACGCCGTTAAAAGGGGTGGACAGCCAGGTGTAT +GCTCTGGCGCAGGGCAATATTCTGGTCGGCGGCGCGGGCGCTTCCGCAGGCGGCAGTAGC +GTGCAGGTTAACCAGCTTAATGGCGGGCGCATCACTAATGGCGCGATTATCGAACGCGAG +TTGCCGACTCAGTTCGGCGCTGGCAACACCATTAATCTGCAATTGAACGACGAAGATTTT +ACGATGGCGCAGCAAATTACCGACGCCATCAACCGCGCCCGCGGTTACGGCAGCGCCACT +GCGCTTGATGCGCGAACGGTACAGGTACGCGTGCCCAGCGGCAACAGCTCGCAGGTGCGT +TTTCTGGCGGACATTCAAAATATGGAAGTCAACGTGACGCCGCAGGATGCAAAAGTCGTG +ATCAACTCGCGTACCGGTTCGGTGGTCATGAATCGGGAAGTCACGCTGGATAGCTGCGCT +GTGGCGCAGGGCAATTTGTCAGTGACAGTCAATCGCCAACTCAACGTCAACCAGCCGAAT +ACGCCATTTGGCGGCGGGCAGACCGTGGTGACGCCACAGACTCAGATAGATTTGCGTCAG +AGCGGCGGATCGCTACAGAGCGTGCGTTCCAGCGCCAATCTGAACAGCGTAGTGCGCGCG +CTGAATGCGCTTGGCGCGACGCCGATGGATCTGATGTCGATTTTGCAGTCCATGCAGAGC +GCGGGCTGTCTACGCGCCAAACTGGAAATCATCATGGCCCTGATGGTCGCGACGCTGACA +GGATGCGCCTGGATACCCGCTAAACCGCTCGTGCAGGGGGCGACCACGGCGCAGCCGATA +CCTGGCCCGGTACCGGTGGCGAATGGCTCCATATTTCAGTCTGCGCAGCCGATTAATTAT +GGCTATCAGCCGCTTTTTGAAGATCGTCGACCGCGTAATATCGGCGATACGCTCACGATT +GTGTTACAGGAAAACGTCAGCGCCAGTAAAAGCTCGTCGGCAAATGCCAGCCGCGACGGC +AAAACCAGCTTTGGTTTTGATACGGTACCGCGTTATCTGCAGGGATTATTCGGTAATTCC +CGCGCGGATATGGAGGCCTCCGGCGGCAACTCTTTTAATGGTAAAGGCGGCGCGAATGCC +AGCAATACCTTTAGCGGCACGCTGACCGTGACCGTCGATCAGGTTCTGGCCAATGGCAAT +TTACACGTCGTGGGGGAAAAACAGATCGCGATTAATCAGGGAACGGAATTCATCCGCTTC +TCCGGCGTGGTAAATCCACGCACCATCAGCGGTAGCAACTCTGTTCCCTCGACACAGGTG +GCGGATGCGCGGATTGAATATGTCGGGAACGGCTATATTAACGAAGCGCAAAATATGGGC +TGGCTGCAACGTTTCTTCCTTAATTTGTCGCCGATGATGATCAGTTCATTATGGATCGCC +AAAACCGGTCTGGACGCGCAGCAAACCAATATGGATGTGATTGCCAATAACCTGGCAAAC +GTCAGCACCAATGGTTTTAAGCGTCAGCGCGCGGTATTTGAAGATCTGTTGTATCAGACC +ATCCGCCAGCCGGGCGCGCAGTCGTCCGAGCAGACGACGCTGCCTTCCGGGCTGCAAATC +GGTACCGGCGTGCGTCCGGTCGCCACGGAGCGCCTGCACAGTCAGGGGAACCTGTCGCAG +ACCAACAACAGTAAAGATGTGGCGATTAAAGGGCAGGGCTTTTTCCAGGTCATGCTGCCG +GACGGTACGTCTGCCTATACCCGCGACGGCTCTTTCCAGGTGGATCAGAATGGTCAACTG +GTGACGGCGGGCGGTTTTCAGGTGCAGCCGGCAATCACCATTCCGGCCAACGCGTTAAGC +ATCACGATTGGCCGCGACGGCGTGGTCAGCGTTACCCAGCAAGGGCAGGCCGCGCCGGTT +CAGGTCGGGCAGCTTAACCTGACCACCTTTATGAACGACACCGGTCTGGAAAGCATCGGC +GAGAACCTCTATATCGAAACGCAATCGTCCGGCGCGCCGAACGAAAGCACGCCGGGGCTC +AACGGCGCGGGGTTGTTGTATCAAGGGTATGTCGAAACGTCGAACGTTAACGTGGCGGAA +GAGCTGGTGAACATGATTCAGGTTCAACGCGCCTATGAAATTAACAGTAAAGCAGTATCG +ACGACCGATCAGATGCTGCAGAAACTGACGCAACTCATGGATCACGCAATTTATACCGCC +ATGGGGGCGGCCAGCCAGACGCTTAACCAGCAGGCGGTAACGGCCAGCAACCTGGCTAAT +GCCTCAACGCCGGGCTTTCGCGCGCAGCTTAACGCGCTACGCGCGGTGCCCGTTGATGGC +CTCTCTTTAGCGACGCGCACGTTGGTTACGGCGTCGACGCCGGGGGCGGATATGACCCAG +GGTCAGTTGGACTACACTTCCCGCCCGCTGGATGTTGCGTTACAGCAGGACGGCTGGCTG +GTGGTGCAAGCGGCGGATGGCGCTGAAGGATATACCCGTAACGGGAATATCCAGGTGGGC +CCGACCGGGCAGTTAACCATTCAGGGACATCCGGTTATCGGCGAAGGCGGCCCGATTACC +GTTCCGGAAGGGTCGGAAATCACCATTGCGGCAGACGGCACGATCTCCGCGCTCAATCCC +GGCGACCCGCCAAACACGGTGGCGCCCGTTGGGCGGCTGAAGCTGGTCAAAGCGGAAGGC +AATGAGGTGCAGCGGAGCGATGACGGTTTATTCCGCCTTACCGCCGAGGCACAGGCTGAA +CGCGGGGCGGTACTGGCCGCCGACCCGTCAATTCGCATTATGTCGGGCGTGCTGGAGGGC +AGTAACGTCAAGCCGGTTGAAGCCATGACCGACATGATCGCCAACGCACGTCGTTTTGAA +ATGCAGATGAAGGTTATCACCAGCGTAGATGAGAACGAAGGGCGAGCTAACCAACTGCTG +TCGATGAGTATGTCTTTTTCTCAAGCGGTTAGCGGCCTGAACGCTGCGGCCACCAACCTT +GATGTTATCGGTAATAACATCGCCAACTCCGCCACCTATGGCTTTAAGTCCGGTACGGCA +TCATTTGCCGATATGTTCGCCGGTTCCAAAGTGGGGTTGGGCGTAAAAGTGGCGGGGATT +ACCCAGGATTTTACCGACGGTACGACAACGAACACCGGGCGCGGGCTGGATGTCGCGATT +AGCCAGAACGGTTTTTTCCGCCTGGTAGACAGCAACGGTTCCGTGTTCTATAGCCGCAAC +GGCCAGTTCAAACTGGACGAGAACCGTAACCTGGTCAATATGCAGGGGATGCAGTTGACC +GGCTATCCGGCCACCGGTACGCCGCCGACCATTCAGCAGGGGGCGAATCCTGCGCCGATC +ACCATTCCGAACACGCTGATGGCGGCGAAATCGACCACCACCGCGTCAATGCAGATCAAC +CTGAACTCAACGGACCCTGTACCGTCTAAAACGCCCTTTAGCGTGAGTGATGCGGATTCG +TATAACAAAAAAGGCACCGTCACCGTTTATGACAGCCAGGGTAATGCCCATGACATGAAC +GTCTATTTTGTGAAAACCAAAGATAATGAATGGGCTGTGTACACCCATGACAGCAGCGAT +CCTGCAGCCACTGCGCCAACAACGGCGTCCACTACGCTGAAATTCAATGAAAACGGGATT +CTGGAGTCTGGCGGTACGGTGAACATCACCACCGGTACGATTAATGGCGCGACAGCGGCC +ACCTTCTCCCTCAGCTTCCTTAACTCCATGCAGCAGAACACCGGGGCTAATAACATCGTC +GCCACCAATCAAAACGGCTATAAGCCTGGCGACCTGGTGAGCTACCAGATTAACAATGAT +GGCACCGTGGTTGGCAACTACTCCAACGAGCAGGAGCAGGTGCTGGGGCAGATTGTGCTG +GCTAACTTCGCCAACAACGAAGGTCTGGCATCCCAGGGCGATAACGTCTGGGCGGCGACG +CAGGCCTCCGGGGTAGCGCTGCTGGGGACTGCCGGTTCCGGCAACTTCGGTAAGCTGACG +AACGGCGCGCTGGAAGCCTCTAACGTGGATTTGAGTAAAGAGCTGGTGAATATGATCGTC +GCGCAGCGTAACTACCAGTCGAATGCGCAGACCATCAAAACCCAGGACCAGATCCTCAAT +ACGCTGGTTAACCTGCGCATGTCTATTGCCGTAAATATGAATGACCCGACCAACACGGGC +GTCAAAACGACGACCGGCAGCGGGTCGATGACCGGAAGCAACGCTGCCGATCTGCAAAGC +AGTTTCCTGACCTTACTGGTCGCGCAATTGAAGAACCAGGACCCGACTAACCCATTACAA +AATAATGAGTTAACGACACAGTTGGCGCAAATCAGTACCGTGAGCGGCATTGAAAAACTG +AATACGACGCTGGGGGCTATTTCCGGGCAAATCGATAATAGTCAGTCCCTACAGGCGACC +ACGCTGATTGGACATGGCGTTATGGTGCCTGGCACCACAATTCTGGCGGGTAAAGGCGCG +GAAGAAGGGGCCGTGACGTCCACGACGCCGTTTGGCGTGGAATTGCAACAGCCTGCGGAC +AAAGTGACGGCAACCATTACCGATAAAGATGGCCGGGTGGTACGGACGCTGGAGATCGGT +GAGTTGCGAGCCGGGGTACACACCTTTACCTGGGATGGTAAGCAAACGGACGGAACAACG +GTACCGAATGGTTCTTACAACATTGCGATTACCGCCAGCAATGGCGGGACGCAACTGGTG +GCGCAGCCGCTGCAATTCGCTCTGGTACAGGGCGTGACGAAGGGCAGTAACGGCAACCTG +TTGGATCTGGGTACCTACGGCACCACCACACTCGACGAAGTTCGGCAAATAATCATGCAA +ATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGCCTACAA +AAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCTAAAGCG +CCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGGAATTAT +CTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAGCGCGAT +CTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCAATGGCA +AACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAAGAAGCT +GCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAGCAGCAA +AATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGATGCTCAG +GTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCATAACGGG +CATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAAGATATC +TTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATTCATCAC +GCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAAACGCTT +TTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTTCTGCGT +CAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGTAAACCT +GAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCCGTCGGG +TTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAAATGCGC +GCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAATAAAGAT +GGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGTGTTAAT +GAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCCGAAGCG +CTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGGGTTGGC +GAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGCCAGATT +AAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAACTCGCA +CAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGTAAAAGC +GGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCTTTCCAT +CAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAAATTTTC +CAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGCGGGGCG +GGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAAAAACGA +GTTGGGGATGAAAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATCACATCTATG +AAAAAGTATCTTGCTTTCGCCGTTACGCTGCTGGGTATGGGTAAAGTCATCGCCTGTACT +ACCCTTTTGGTAGGCAATCAGGCTTCGGCTGACGGCTCCTTTATTATCGCGCGCAACGAG +GATGGCTCGGCAAATAACGCCAAGCATAAGGTTATTCATCCCGTCGCGTTTCATCAACAA +GGCGAGTATAAAGCACATCGCAACAATTTTAGCTGGCCGCTTCCGGAGACAGCGATGCGC +TATACGGCGATTCATGACTTTGATACTAACGATAACGCCATGGGTGAAGCCGGTTTCAAT +TCGGCGGGCGTCGGAATGAGCGCAACGGAAACCATTTACAACGGCAGAGCGGCGCTGGCT +GCCGATCCTTACGTGACAAAAACGGGAATCACGGAAGACGCCATTGAGTCCGTGATCCTG +CCAGTGGCGCAATCGGCGCGTCAGGGCGCCAAATTACTGGGAGATATTATTGAACAAAAA +GGCGCGGGCGAAGGTTTCGGCGTCGCGTTTATTGATAGCAAAGAGATATGGTATCTGGAG +ACGGGAAGCGGACATCAATGGCTGGCAGTACGACTTCCGGCAGATAGCTATTTCGTTTCC +GCCAATCAGGGACGTTTACGCCATTACGATCCGAATGATAACGCGAATTATATGGCGTCA +CCAACGTTAGTAAGCTTTGCGAAAAAGCAGGGATTATATGATCCGGCCCGCGGCGAATTC +GACTTTCATCAAGCCTATTCGCAGGATAACAAAAACGATACCACCTATAATTATCCGCGC +GTCTGGACGCTACAACACCAGTTTAATCCGCATCTGGATACGGTCGTTAGCGAAGGGGAA +ACATTTTCTGTTTTTTTAACGCCAATAACGAAGATCAGCGTGGCGGCAGTAAAAAACGCG +TTACGCAATCACTATCAGGGAACGTCGCACGACCCTTATGCCAGTCATAATCCACAAGAA +CCATGGCGACCTATATCCGTTTTTCGTACCCAGGAGTCACATATTTTACAGGTCAGACCG +AAATTACCGCAGGCTATCGGCAACGTAGAATACATCGCCTATGGAATGCCATCTCTTAGC +GTCTATCTCCCCTATTACCAGGGGATGCGTCATTATCAACCCGGAGATGATAAAGGAACC +GATCGGGCGAGCAACGACTCTACCTACTGGACATTCCGCACGCTGCAAACACTGGTTATG +CAAGACTACAATACGTTTGCGCCAGATGTGCAACATGCCTGGAAAACATTTGAACAGCAA +ACAGCTAAGCAACAGTATAAGATGGAGCAGAGCTATCTGAGATTATATGCGTCGCATCCG +AAAGAAGCACAACGCTTACTGCAAAATTTTGAAGATAAAACGATGCAAAATGCGCAGACG +CTCGCCCGTCGCCTGACCAATAATATTATTACGACAATGACTTACCGCACAGATATGAAA +TATCACTTTTCAAGTACGCAGCCAATGGTTAAGTTATCAATGACGCTGCGCCTGACAATT +TCTTTTATCGCCATACTTATCCTCGCCTGTACCGGCATTAGCTGGACGCTCTATAACGCG +CTGAGCAAAGAATTAACGTATCGGGATGATATGACGCTAATAAATCGGGCGGCGCAAATG +CAGCAACTGTTACTGGATGGCGCCAGGCCGGAAAATCTGCCGCTCTATTTCAATCGGATG +GTGGATACGAAGCAGGATATCTTATTGATCCACTCAGCAACAGGCCATAATGTTGCGATT +AATCATAGCGGCATCCCCGACCAACGCTTTAACGAGATTCCGCTGGCTAAAAACATCACC +CGCGAAACCTTATTTCGCCAGGCGGTACAAGGCACGGAGCTGACCGCGGTACGAGTAAAC +GCCAGAAGCGGCGATAACCCGCTGACCCTTACTATTGCCAGGCTGGCGACGGAAAGGCGG +CAAATGCTGGCGCAATATCGCCGCAACAGTTTGCTGATTAGCCTTATCGCGATCCTCGTC +TGTTCGGCGCTCAGTCCATTAGTCATCAGAAACGGGCTGCGGGCCATTACGTCGCTCAGC +CGACTCACCGCGGCGACAGATAGCGGCACACTTCGCCAGCCGCTGGCGGAACAGGCGTTA +CCCGTCGAGCTCAGGCCGCTTGGGCAAGCGCTAAATACCATGCGCCAGAAGCTTTCCGAC +GATTTTGAACGCCTGAACCAATTTGCCGACGATCTGGCGCATGAGCTGCGCACGCCGGTT +AATATTTTACTGGGGAAGAATCAGGTTATGCTGAGTCAGGAACGCAGCGCCGAAGAGTAT +CAACAAGCCCTTGTCGATAATATTGAAGAGCTGGAGGGACTGTCGCGACTGACAGAAAAT +ATTCTCTTTCTGGCACGCGCGGAGCACCAGAATATAGCGGTAAAAAAACAGCCTGTTTCG +CTCAATGCGCTGGTCGAAAATATGCTGGATTATCTTAGCCCCCTTGCCGAAGAGAAGCAC +ATCTGTTTTATAAATCAATGTCAGGGAACGGTATGGGCTGACGAAATATTATTACAAAGA +GTGCTCTCAAACCTGCTGACGAATGCCATCCGTTATTCTGATGAAAACGCCGTGATACGT +ATTGAAAGCGCTTATGATGATAACGTTGCAGAAATTCGGGTCGCTAATCCGGGCAGCCCC +ACCGCCGATGCGGATAAGCTTTTCCGGCGTTTTTGGCGAGGAGATAATGCCCGCTACACT +GCCGGTTTCGGCCTGGGGTTATCGTTAGTTAACGCGATTGCCCTATTGCACGGTGGCTCG +GCATCTTACCGCTATGCCGATGAACATAATATCTTTTCGGTTCGTCTGCCTGATAGCGGT +GATAGCATGTCATCTTGTTGGAGATTTACGGATTCGCTAACAAGCCTATGGCATACTGCG +TTGATGAAGATTTTATTGATTGAAGATAACCAGAAAACCATTGAGTGGGTACGTCAGGGA +CTCACGGAGGCAGGCTATGTGGTTGATTATGCCTGTGATGGACGAGACGGATTACACCTA +GCCCTTCAGGAACATTATTCATTGATTATTCTTGATATTATGCTGCCGGGGCTTGATGGA +TGGCAGGTTTTACGCGCGTTGCGCACTGCATATCAGCCCCCTGTTATTTGCCTGACGGCG +CGCGACTCGGTTGAGGATCGCGTCAAAGGTCTTGAGGCGGGCGCTAATGATTACCTTGTT +AAGCCTTTTTCCTTCGCCGAACTGCTGGCCCGGGTGAGAGCTCAACTCAGACAGCATGTC +CCGGTCTTTACCCGACTGACGATCAATGGTCTGGACATGGATGCCACAAAGCAATCGGTG +TTACGAAATGGCAAACCGATTTCCCTGACCCGCAAAGAATTCCTGCTCCTCTGGTTACTG +GCGTCCCGGGCAGGGGAAATCGTGCCCCGAACCGCGATCGCCAGCGAAGTTTGGGGAATT +AACTTTGATAGTGAAACCAACACCGTTGATGTCGCGATTCGTCGGCTGCGCGCCAAAGTA +GACGATCCATTTGAAAAGAAGCTCATTATGACCGTCCAGGGGATGGGTTATCGATTACAG +GCGGAAACGTCGCAGAATGGTATGAAACGATATATACTGGCTACCGCGATAGCGTCTCTT +GTTGCAGCCCCGGCAATGGCGCTGGCCGCTGGCAGCAATATTCTCAGCGTACATATTCTC +GATCAGCAAACAGGCAAACCAGCGCCCGGCGTGGAGGTGGTACTGGAGCAGAAAAAGGAT +AACGGATGGACGCAATTAAACACCGGGCATACCGACCAGGATGGACGAATTAAAGCACTG +TGGCCCGAAAAAGCTGCCGCGCCGGGGGATTATCGCGTTATTTTTAAAACCGGCCAGTAT +TTTGAAAGTAAAAAACTGGACACGTTTTTCCCGGAGATTCCCGTCGAGTTTCATATCAGC +AAAACGAATGAGCACTATCATGTGCCGCTGTTATTAAGTCAGTATGGTTATTCAACCTAT +CGCGGGAGCATGCAAGTAGATGAACAACGTCTGCGTTTTCGCGATGCGATGGCAAGTCTG +GCGGCAGCGGTCAACATCGTAACCACGGCGGGTCACGCCGGACGCTGCGGTATCACCGCA +ACAGCGGTTTGCTCAGTCACTGATACGCCGCCCTCCGTGATGGTATGTATTAATGCCAAT +AGCGCCATGAACCCCGTTTTTCAGGGCAACGGCAGGCTGTGCATTAATGTACTTAACCAT +GAGCAGGAGCTGATGGCGCGCCACTTTGCCGGTATGACGGGGATGGCGATGGAGGAGCGT +TTTCACCAGCCATGTTGGCAAAACGGGCCGCTGGGCCAGCCGGTACTTAACGGCGCGCTG +GCCAGTCTTGAAGGCGAGATCAGCGAGGTACAAACCATTGGCACGCATCTGGTGTATCTG +GTGGCGATCAAAAATATTATTCTTAGCCAGGAGGGGCATGGCCTGATTTATTTCAAACGC +CGTTTTCATCCGGTCAGACTTGAGATGGAAGCGCCTGTTATGGGACGCACACCGGATTAC +AAAGCCGCCTTTGGCTGCGCTCTGGGCGCTAACCCAGCCTTCTACGGCCAGTTTGAGCAG +AACGCCCGTAACTGGTACACCCGTATTCAGGAGACCGGCCTGTACTTTAACCATGCAATC +GTCAACCCGCCCATTGACCGCCACAAACCTGCCGACGAAGTGAAAGACGTCTATATCAAG +CTGGAGAAAGAGACGGACGCCGGGATTATTGTCAGCGGGGCGAAAGTTGTCGCCACTAAC +TCCGCCCTGACTCACTACAACATGATTGGTTTCGGCTCAGCCCAGGTGATGGGCGAAAAC +CCGGATTTTGCTCTGATGTTTGTCGCGCCAATGGATGCCGAAGGCGTAAAACTTATTTCG +CGCGCCTCGTATGAAATGGTCGCGGGCGCGACGGGCTCGCCGTTTGATTATCCCCTCTCC +AGCCGTTTTGATGAAAACGATGCCATTCTGGTGATGGACAAGGTGCTGATCCCGTGGGAA +AACGTATTAATTTACCGTGATTTCGATCGTTGTCGTCGCTGGACGATGGAAGGCGGCTTT +GCCCGTATGTATCCACTGCAAGCCTGTGTTCGTCTGGCGGTAAAACTTGATTTCATTACC +GCGCTGCTGAAAAAATCGCTCGAATGTACGGGTACCGTAGAGTTCCGGGGCGTGCAGGCC +GATCTCGGCGAAGTCGTGGCCTGGCGCAATATGTTCTGGGCATTGAGCGATTCTATGTGT +TCTGAAGCAACCCCGTGGGTAAACGGCGCCTGGCTACCGGACCACGCCGCGCTGCAAACC +TATCGTGTGATGGCCCCAATGGCCTACGCGAAAATTAAAAATATTATTGAACGTAACGTT +ACCAGCGGCCTGATTTACCTGCCTTCCAGCGCCCGCGATCTGAATAATCCGCAAATCGAC +CAGTACCTGGCGAAATACGTACGCGGCTCTAACGGAATGGACCATGTTGAACGTATCAAA +ATTCTTAAATTGATGTGGGATGCCATCGGCAGCGAGTTTGGCGGTCGCCATGAGCTGTAC +GAGATTAACTACTCGGGCAGCCAGGATGAAATTCGTCTGCAGTGTCTGCGTCAGGCCCAG +AGCTCCGGCAATATGGATAAGATGATGGCAATGGTCGATCGCTGCCTCTCCGAATACGAT +CAGAATGGCTGGACGGTTTCGCATTTGCACAATAACGACGACATCAATCAACTGGATAAG +CTGCTGAAAATGCATGATTCATTAACCATCGCCTTGCTTCAGGCGCGCGAAGCGGCAATG +ACCTATTTCCGCCCCATCGTTAAAAGCCACAATCTGACCGACCAGCAATGGCGCATTGTG +CGAATCCTGGCCGATAGCCCCTCTATGGATTTTCACGAGCTGGCCTTTCGTACCTGTATT +TTGCGTCCAAGTCTGACCGGAATATTGACGCGCATGGAGCGAGACGGACTGGTGTTGCGA +CTCAAGCCGGTTAACGATCAGCGTAAGTTATATGTCATGTTGACGGAGCAGGGACAAACG +TTGTACGCCCGTGCCCGGAGCGAGGTAGAAGAGGCTTATCGAAAAATTGAGGCCGATTTC +ACGCCCGAAAAAACACAGCAATTGATGCTGCTGCTGGACGATCTTATTGCTCTGGGGCGC +CAGCATCCTGATAGCGAAGCGGAAGCAATGAAGGGTACTGTTTTCGCCGTTGCGTTAAAC +CATCGCAGCCAGCTTGATGCCTGGCAAGAGGCTTTCTCTCAGCCTCCCTATAATGCGCCG +CCTAAAACCGCAGTGTGGTTCATCAAGCCGCGTAATACGGTGATTCGTCACGGCGAACCC +ATTCCTTATCCGCAGGGAGAAAAGGTACTGAGCGGCGCGACAGTGGCGCTCATTGTGGGG +AAAACCGCCAGCCGGATACGCCCTGAAGCGGCGGCGGACTATATCGCCGGGTATGCGCTG +GCTAACGAGGTCAGCCTGCCGGAAGAGAGCTTTTATCGCCCGGCGATTAAAGCGAAATGT +CGCGATGGCTTTTGCCCGCTGGGTGAAATGGCGCCGCTGAGTGATGTGGATAATCTCACC +ATTATCACTGAAATCAACGGACGAGAAGCGGACCACTGGAATACTGCCGATTTACAGCGT +AGCGCCGCACAACTGCTTAGCGCGTTAAGTGAGTTCGCTACACTTAACCCTGGCGATGCG +ATCTTACTTGGTACGCCGCAGAATCGCGTTGCGCTGCGTCCCGGCGATCGGGTGCGTATT +CTGGCGAAAGGTTTACCCGCGCTGGAAAATCCGGTTGTCGCAGAAGATGAATTCGCCCGC +CACCAGACGTTTACGTGGCCGCTGTCAGCGACGGGAACGTTATTTGCGCTGGGGTTGAAC +TACGCCGATCACGCCAGCGAGCTGGCATTTACGCCGCCGAAAGAGCCGCTGGTATTTATC +AAAGCGCCAAACACCTTTACCGAACATCACCAAACGTCGGTGCGCCCGAACAACGTCGAA +TATATGCACTACGAAGCCGAGCTGGTCGTGGTGATTGGCAAAACGGCGCGTAAGGTGAGC +GAAGCCGAAGCCATGGAGTATGTGGCCGGTTACACCGTCTGTAACGACTACGCGATCCGC +GACTATCTGGAAAACTACTACCGTCCGAATCTGCGGGTAAAAAGCCGCGACGGCCTGACG +CCGATAGGCCCGTGGATTGTGGATAAAGAGGCGGTTTCTGATCCGCACAACCTGACGTTA +CGCACCTTTGTCAACGGTGAGCTGCGGCAGGAAGGGACGACCGCCGATCTGATCTTCAGC +ATCCCGTTCCTGATTTCTTATCTGAGCGAATTTATGACGTTGCAACCGGGCGACATGATT +GCCACCGGTACGCCGAAAGGGCTGTCCGATGTGGTGCCGGGGGATGAAGTTGTCGTTGAA +GTAGAAGGCGTGGGTCGCCTGGTTAACCGAATCGTCAGTGAGGAGAGCGCAAAAATGAAG +AAAATAAATCATTGGATTAACGGCAAAAACGTTGCAGGTAACGACTACTTCCAGACCACT +AACCCGGCGACCGGTGATGTGCTGGCGGAAGTAGCCTCCGGCGGTGAAGCAGAAGTGAAC +CAGGCTGTCGCGGCGGCAAAAGAGGCGTTCCCGAAATGGGCCAACCTGCCGATGAAAGAG +CGCGCGCGCCTGATGCGCCGCCTTGGCGACCTGATTGACCAGCATGTGCCGGAAATCGCG +GCGATGGAAACCGCCGACACCGGCCTGCCTATTCACCAGACTAAAACGTGCGTGCTGATC +CCGCGCGCCTCGCATAACTTCGAATTCTTCGCCGAAGTGTGCCAGCAGATGAACGGCAAG +ACCTATCCGGTTGACGATAAAATGCTCAATTATACGCTGGTGCAGCCCGTCGGCGTCTGC +GCGCTGGTGTCGCCGTGGAACGTGCCGTTTATGACCGCGACTTGGAAAGTTGCGCCGTGC +CTGGCGCTGGGTAACACCGCGGTGCTCAAAATGTCCGAGCTGTCGCCGCTGACTGCCGAC +AGGCTGGGCGAGCTGGCACTGGAGGCAGGAATTCCGGCAGGCGTGCTGAACGTGGTGCAG +GGCTACGGCGCGACGGCGGGCGATGCGCTGGTACGCCACCATGACGTGCGTGCGGTGTCG +TTTACCGGCGGTACCGCCACCGGTCGCAATATCATGAAAAATGCCGGGCTGAAAAAATAC +TCGATGGAGCTGGGCGGCAAATCGCCGGTGCTGATTTTTGAAGACGCCGACATTGAGCGC +GCGCTGGACGCCGCGCTGTTCACCATCTTCTCGATCAACGGCGAACGCTGCACCGCTGGG +TCGCGCATCTTTATCCAGCAGAGCATTTACCCTGAGTTCGTGAAGCGCTTTGCCGAACGC +GCGAATCGCCTGCGTGTCGGCGATCCGACCGACCCGAACACCCAGGTCGGCGCGCTGATT +AGCCAACAGCACTGGGAGAAAGTCTCCGGTTATATCCGCCTCGGCATTGAAGAGGGGGCA +ACGCTGCTGGCGGGCGGTGCGGAAAAACCCACTGACCTGCCTGCGCATCTGAAAGGCGGT +AACTTCCTGCGCCCAACCGTGCTGGCCGATGTCGACAACCGTATGCGCGTTGCGCAGGAA +GAGATCTTTGGGCCGGTCGCCTGCCTGCTGCCATTCAAAGACGAAGCGGAAGGGTTACGT +TTGGCGAACGATGTGGAATACGGTCTGGCCTCTTATATCTGGACCCAGGACGTGAGCAAA +GTGTTGCGCCTGGCGCGTGGGATTGAAGCCGGCATGGTCTTCGTCAACACCCAGAACGTC +CGCGACCTGCGCCAGCCGTTCGGCGGCGTGAAAGCCTCCGGTACCGGGCGCGAAGGCGGC +GAATATAGCTTCGAAGTGTTTGCGGAAATGAAAAACGTCTGCATCTCAATGGGCGACCAT +CCTATCCCAAAATGGGGAGTTATGGGCAAGTTAGCGTTAGCAGCAAAAATTACCCACGTG +CCGTCGATGTATCTTTCTGAACTGCCAGGAAAAAATCACGGTTGTCGTCAGGCAGCCATT +GATGGGCATATTGAAATTGGCAAGCGTTGCCGCGAAATGGGCGTTGACACCATTATCGTA +TTCGACACCCACTGGCTGGTGAATAGCGCTTACCACATTAATTGTGCCGACCATTTCCAG +GGCGTCTATACCAGCAACGAATTGCCGCACTTTATTCGCGACATGACCTATGACTATGAC +GGTAATCCGGCGCTCGGCCATCTGATCGCCGACGAGGCGGTCAAACTGGGCGTGCGCGCC +AAAGCGCACAACATCCCGAGCCTGAAGCTGGAGTATGGCACGCTGGTGCCGATGCGCTAC +ATGAACAGCGACAAGCACTTCAAAGTGGTCTCCATCTCGGCGTTCTGCACTGTGCATGAT +TTTGCCGACAGCCGCAAACTGGGCGAAGCCATTCTCAAGGCGATTGAGAAATATGACGGT +ACCGTAGCGGTATTCGCCAGTGGTTCTCTGTCGCACCGTTTTATTGACGACCAACGGGCG +GAAGAGGGGATGAACAGCTACACCCGCGAGTTCGATCATCAAATGGACGAGCGCGTGGTC +AAGCTGTGGCGCGAAGGCAAATTCAAGGAGTTTTGCACCATGTTGCCGGAGTACGCCGAC +TACTGCTACGGCGAAGGCAACATGCACGACACGGTCATGCTACTGGGAATGCTGGGGTGG +GACAAATACGACGGCAAGGTGGAGTTCATCACCGACCTGTTCGCCAGCTCCGGTACCGGC +CAGGTAAACGCTGTTTTCCCGCTGCCTGCGATGCCGCACTTTATTGCTGAATGTACTGAA +AATATTCGCGAGCAGGCTGATTTACCAAGCCTGTTCAGCAAGGTAAACGAGGCGCTGGCC +GCCACCGGGATTTTCCCCATCGGCGGTATCCGCAGTCGCGCCCACTGGCTGGATACCTGG +CAGATGGCTGACGGTAAGCATGATTACGCGTTTGTGCATATGACGCTGAAAATCGGCGCC +GGGCGCAGCCTGGAGAGCCGTCAGGAAGTCGGCGAAATGCTGTTTGGGCTGATTAAAGCC +CACTTCGCCGACCTGATGGAGAACCGCTATCTGGCGCTGTCGTTTGAGATTGCCGAGTTA +CATCCAACGCTCAATTACAAACAAAACAACGTACACGCGTTATTTAAAATGCTCGATAAA +CAGACCCATACCCTGATCGCTCAGCGACTTAATCAGGCTGAAAAACAGCGTGAACAGATT +CGCGCAGTGTCGCTGGATTATCCCAACATCACTATTGAAGATGCCTATGCCGTACAGCGT +GAATGGGTCAATATCAAGATTGCCGAAGGGCGCACGCTCAAAGGCCACAAAATCGGCCTG +ACCTCAAAAGCGATGCAGGCCAGCTCGCAAATCAGCGAACCGGATTACGGCGCGCTGCTT +GACGATATGTTCTTCCATGACGGCGGAGATATCCCCACCGACCGTTTTATCGTCCCGCGT +ATTGAAGTGGAGCTGGCGTTCGTGCTGGCGAAACCGCTGCGCGGCCCTCACTGCACGCTG +TTCGACGTCTACAACGCCACGGATTATGTGATTCCGGCGCTGGAACTGATTGACGCCCGC +AGCCACAACATCGACCCGGAAACCCAGCGCCCGCGCAAAGTGTTCGACACCATTTCCGAC +AACGCCGCCAACGCCGGGGTGATCCTCGGTGGTCGCCCCATCAAACCAGACGAGCTGGAT +CTGCGCTGGATCTCCGCGCTGCTCTATCGCAACGGCGTGATCGAAGAAACCGGCGTCGCC +GCAGGCGTGCTGAATCATCCGGCCAACGGCGTGGCGTGGCTGGCGAACAAGCTTGCCCCC +TACGATGTCCAGCTTGAAGCCGGGCAGATCATCCTCGGCGGCTCGTTCACCCGCCCGGTG +CCGGCGCGCAAGGGCGACACCTTCCATGTCGATTACGGCAACATGGGCGCGATCAGTTGC +CGGTTTGTGATGAAAAATGCTTTCAAAGACGCGTTAAAAGCGGGGCGCCCGCAAATCGGT +TTGTGGCTGGGGCTTGCCAACAGTTACAGCGCTGAACTGTTAGCGGGCGCCGGCTTCGAC +TGGCTACTGATTGACGGTGAACACGCGCCAAACAACGTGCAGACGGTGTTGACCCAGTTG +CAGGCGATTGCGCCTTATCCCAGCCAGCCGGTGGTGCGTCCGTCATGGAACGATCCGGTA +CAGATTAAGCAACTGCTCGACGTCGGCGCGCAAACGCTGCTGATACCGATGGTGCAGAAT +GCCGATGAAGCGCGAAACGCCGTGGCGGCTACGCGTTATCCGCCTGCCGGTATTCGCGGC +GTGGGCAGCGCGCTGGCGCGGGCATCGCGCTGGAATCGCATTCCGGACTATCTCCACCAG +GCCAACGACGCCATGTGCGTACTGGTGCAGATTGAAACGCGTGAGGCGATGAGCAATCTG +GCGTCAATTCTCGACGTGGATGGCATTGACGGCGTGTTTATTGGCCCGGCGGATCTCAGC +GCCGATATGGGCTTTGCCGGCAATCCGCAGCACCCGGAAGTGCAGGCGGCGATTGAGAAC +GCCATCGTGCAGATACGCGCGGCGGGGAAAGCGCCGGGGATTCTGATGGCCAATGAAGCA +CTGGCGAAACGTTATCTGGAACTGGGGGCGCTATTTGTCGCCGTCGGCGTTGACACCACG +CTGCTGGCGCGCGGAGCGGAGGCGCTGGCGGCGCGCTTTGGCGCAGAAAAAAAACTGTCC +GGTGCGTCCGGCGTCTATATGAGCGACACATCATCTGCACTTCCGGAAAGCCCCGAGTCT +GTCGGTTCGCACAACGCGCTCAGCACGGGTCAACAAACCGTCATAAATAAACTGTTCCGC +CGACTGATCGTATTTTTATTCGTGTTGTTTATCTTCTCGTTTTTAGACCGTATCAACATC +GGTTTTGCCGGGTTGACGATGGGGCAGGATCTGGGGTTAAGCGCCACCATGTTTGGTCTT +GCCACGACGCTGTTTTACGCCACCTACGTCATTTTCGGCATTCCCAGCAACGTGATGTTG +AGCATCGTCGGCGCCCGCCGCTGGATTGCGACCATTATGGTGCTATGGGGCATTGCATCT +ACCGCCACGATGTTCGCGGTGGGACCGAAAAGCCTGTATGTGCTGCGAATGCTGGTGGGC +ATTACCGAAGCGGGCTTTTTGCCAGGAATATTGCTCTATTTAACCTACTGGTTCCCGGCA +TTTTTCCGCGCCCGCGCCAACGCATTATTTATGATTGCCATGCCGGCCACTACCGCGTTG +GGGTCAATTGTCTCCGGCTATATTTTATCGCTGGACGGCATATTCAATCTGCATGGATGG +CAGTGGTTATTCCTGTTGGAAGGATTTCCGTCAGTTTTGTTAGGCATTATGGTCTGGTTT +TACCTGGATGATACCCCGGCAAAAGCCAAATGGCTGACGGCAGAGGATAAAAAATGTTTG +CAGGAGATGATGGATAATGATCGCCTGACGCTGGTTCAGCCTGAGGGGGCCATCAGCCAT +AACGCCATGCAGCAGCGTAGCCTGTGGCGCGAAGTATTCACGCCAATTGTACTGATGTAT +ACGCTGGCCTATTTTTGCCTTACCAATACGCTTAGCGCCATTAGTATCTGGACGCCGCAA +ATCCTGAAAAGTTTTAATGAAGGCAGCAGCAATATCACCATCGGCCTGCTGGCGGCGATC +CCGCAGATTTGTACTGTTCTGGGCATGATTTACTGGAGCCGCCATTCGGACAAACATCAG +GAGCGTAAACACCACACTGCGTTACCGTTCCTGTTTGCCGCCGCGGGCTGGCTGCTGGCG +TCGGCGACCGACCGTAACCTGATCCAGCTCCTGGGGATCGTGATGGCATCCACGGGTTCC +TTTAGCGCGATGGCGATCTTCTGGACCACGCCGGATCAGTCGATCAGTTTACGCGCCAGG +GCGATAGGCATTGCGGTCATCAATGCCACCGGCAATATTGGCTCCGCGCTCAGCCCGGTT +ATGATTGGCTGGCTAAAAGATATCACTGGTAGCTTCAATAGCGGACTCTGGTTTGTCGCT +TCTCTGTTAGTCGTCGGCGCCGCCATTATCTGGCTCATTCCCATGAAAGCATCGCGTCCG +CGCGCCACCCCTATGTGCCAACGTGCGATCGCCAATATTGATATCAGCAAAGAGTATGAC +GAAAGCATGGGCAGTAACGATGTGCATTATCAGTCGTTTGCTCGTATGGCGGATTTCTTT +GGTCGTGATATGCAGGCGCATCGCCACGACCAGTTTTTTCAAATGCACTTTCTTGATACC +GGGCAGATTGAGCTACAGCTCGACGATCATCGCTATTCGGTGCAGGCGCCGCTATTTGTG +CTAACGCCGCCCTCGGTGCCGCATGCTTTTATTACCGAATCGGATAGCGATGGTCATGTT +CTGACGGTACGCGAAGAGCTGGTTTGGCCGCTGCTGGAAGTGCTTTATCCCGGCACCAGA +GAGGCCTTCGGCCTGCCGGGAATCTGCCTGTCGCTGGCGGATAAACTCAACGAGCTGGCG +GCGCTCAAACATTACTGGCAGCTAATTGAGCGGGAGTCCACGGAACAACTGGCTGGCTGC +GAACATACCTTGGTACTACTGGCGCAGGCGGTATTTACCTTGCTGTTGCGTAATGCGAAG +CTGGACGATCATGCCGCAACCGGGATGCGCGGTGAACTGAAACTTTTTCAGCGCTTTACC +CTGTTAATTGACAACCACTTCCATCAGCACTGGACGGTGCCCGATTATGCCTGTGAGTTG +CATATTACCGAATCTCGTTTGACCGATATTTGCCGACGTTTTGCTAATCGCCCGCCTAAA +CGCCTGATTTTTGATCGGCAATTACGCGAGGCGAAACGACTGCTGCTTTTTTCCGACAAT +GCTGTCAACGAGATCGCCTGGCAATTAGGTTTTAAAGATCCGGCTTATTTCGCCCGTTTC +TTTAATCGCCTTGCTGGCTGTTCTCCTTCGCAGTTTCGCCAACGTGAAGTTCCTTCTTTT +CTCAACATGATGAAAAAAAGCGTCGCTATGCTGGCGGTTTGTATGCTGGCGCAAAGCCAC +CTTGCCATTGCTGCCGGTGCTCCTGCGCCTCAAGAGATCAACATTGTTTTACTGGGCACC +AAAGGCGGGCCTTCTTTGCTCAATACAGCCAGACTACCGCAAGCGACGGCGCTCACTATC +GGCGATAAGATATGGCTGATAGATGCCGGCTACGGCGCCAGTCTGCAACTGGTGAAAAAT +GGCATTCCACTGCGCAACATCAATACTATTTTGCTCACCCATCTGCACAGCGACCACATA +CTGGATTATCCTTCCTTGCTGATGAATGCCTGGGCAAGTGGCCTGAAAGACCATACCATA +CAGGTTTATGGCCCGCCGGGAACCCAGGCGATGACGAAGGCTAGCTGGAAGGTCTTTGAC +AGGGATATCACGTTACGCATGGAAGAAGAGGGGAAACCCGATCCGCGCAACCTGGTTAAG +GCGACCGATATCGGCCAGGGCGTCATCTATAAAGATGAACTGGTCACAATAAGCGCGCTG +AAAGTGCCTCATTCCCCTTTCCCGGACGGTGAAGCGTTTGCTTACCGTTTTGATACTCAG +GGTAAGCGAATCGTCTTCTCTGGCGATACGTCCTGGTTTCCTCCGCTTGCAACGTTTGCC +CAGGGGGCGGATATCCTGGTACATGAGGCGGTACATGTCCCTTCGGTAGCAAAACTGGCT +AATAGTATTGGCAACGGAAAAACGCTGGCTGAAGCGATTGCGTCGCATCACACCACGATT +GAAGATGTCGGTAAGATTGCTCGCGAGGCCCACGTGAAAAAACTGGTGTTAAGTCATCTG +GTGCCTGCGACGGTTGCGGATGACGTCTGGCAACAGGAAGCCATGAAAAATTACCCGGGC +CCTGTCATTGTCGGTCATGACAATATGACGATAAGCGTACCGATGGCTAACATCACTGTC +ACCTTTACCATCACCGAATTTTGTTTGCACACCGGCGTGACGGAAGAGGAGCTAAACGAA +ATCGTCGGACTTGGCGTAATTGAGCCTTACGAAGACGATAACGCCGACTGGCAATTCGAC +GATCGCGCAGCGAGCGTGGTACAACGCGCGCTACGCTTACGCGAGGAGCTGGCGCTCGAC +TGGCCAGGGATCGCGGTCGCGTTAACGCTGCTGGAAGAGAATTCACGGCTGCGCGAAGAA +AACCGGTTACTGCTGCAACGCCTTTCTCGCTTTATCTCGCATCCCATGGAACTTAAGGAT +TATTACGCCATTATGGGCGTGAAACCGACGGACGATCTCAAGACGATTAAGACCGCCTAT +CGCCGACTGGCCCGCAAGTACCATCCAGATGTCAGCAAAGAACCCGATGCCGAAGCCCGT +TTCAAAGAGGTTGCTGAAGCATGGGAAGTGCTGAGTGATGAGCAACGGCGCGCCGAGTAT +GACCAGTTATGGCAACACCGTAACGATCCACAATTTAATCGCCAGTTCCAGCAACACGAA +GGCCAGCCGTATAACGCCGAAGATTTTGATGATATTTTCTCGTCTATTTTTGGTCAGCAC +GGTCGTCATTCGCACCACCGCCACGCCGCACGCGGTCATGATATCGAAATTGAAGTGGCG +GTATTCCTGGAAGAAACGCTGGAAGAGCACCAGCGTACGATTAGCTATTCCGTCCCCGTT +TATAACGCGTTCGGCCTGGTGGAGCGGGAAATTCCCAAAACATTGAATGTGAAAATCCCG +GCTGGCGTCAGCAACGGGCAACGAATCAGACTGAAAGGCCAGGGCACGCCGGGGGAAAAC +GGCGGACCTAATGGCGATTTATGGCTCGTTATCCATATTGCCCCGCATCCGCTCTTTGAT +ATCGTCAATCAGGATCTGGAAGTCGTCCTTCCGCTTGCCCCATGGGAGGCGGCGCTCGGC +GCTAAGGTGTCTGTGCCAACGCTTAAAGAGCGTATTTTGCTGACCATTCCCCCCGGCAGC +CAGGCAGGTCAGCGGCTGCGTATCAAAGGAAAAGGATTAGCCAGTAAAAAGCACACTGGC +GATCTCTATGCCATCATCAAAATCGTTATGCCGCCGAAACCTGACGAGAAAACAGCTGCC +CTGTGGCAACAACTGGCGGACGCGCAGTCGTCCTTTGACCCACGCCAGCAATGGGGGAAA +GCAATGGCGAAACAACAACGGATGGGCTGGTGGTTTCTTTGCCTTGCATGTGTCGTGGTA +ATGGTTTGTACCGCGCAACGCATGGCGGGCCTGCACGCCTTGCAGATGCAGGCGACGGCC +TCTGCTGCGGTGGTCAGCGCTCCCTCCTCGACAGATGACGGCTCGCCGGTCACTCCCTGC +GAATTAAGCGCCAAGTCGCTGCTGGCGGCGCCTCCAGTACTCTTTGAAGGTGCTATCCTT +GCGCTTTATCTACTGCTTTCCTTACTGGCGCCTGTCCGGGTCATGCGCCTGCCGTTTTCG +CCTCCACGGGCTATTTCGCCGCCCACATTACGGGTACATCTACGATTTTGTGTCTTCCGT +GAAATGATGATTTTATTCAGGCGGATACTGTTCTGCCTGTTATGGCTTTGGCTGCCCGTC +TCCTGGGCGGCGGAAAGCGGCTGGCTGCGTTCGCCCGATAACGACCATGCCAGCATACGG +CTACGTGCCGATACGTCCGCTAACAGTGAGACCCGGCTGTTGCTGGATGTCAAACTGGAA +AACGGCTGGAAAACCTACTGGCGCGCGCCGGGGGAAGGGGGCGTGGCACCCTCTATCGCC +TGGAAAGGCGACATGCCTGAGGTAAGCTGGTTCTGGCCAACCCCCTCGCGCTTTGATGTG +GCGAATATCACCACCCAGGGATATCACGACGAGGTGACCTTTCCGATGATCGTGCGCGGT +ACGCCGCCGGCGACCTTGCGCGGTGTGTTGACGTTATCAACCTGCAGCAATGTTTGTCTG +TTGACCGATTACCCCTTTTCCGTGACGCCCACTGTGCAGAATGCCGATTTTGCCCATGAC +TATGCGCGGGCGATGGGTAAAGTTCCGCTCCGCAGTGGGCTAACGGACTCGCTTGACGTT +GGCTATCGCCCGGGAGAACTGGTGGTCACTGCTACGCGAGCGGCGGGCTGGTCATCGCCC +GGGCTCTATCTTGACACCATAGATGACGTCGATTTTGCGAAGCCTCGCCTGCGCGTAGAG +GGCGACAGGTTACAGGCGACGGTGCCGGTGACGGACAGTTGGGGCGAAAAGGCGCCCGAT +TTGCGCGACAAATCGCTGACCCTCGTGTTAGCCGATGGCGCTATCGCCCAGGAGAGCACG +CAAACCATTGGCGCTGCGCCAGCGCAAACGCCGGACAATGCGGCGCTACCTTTCTGGCAA +GTTGTAATGATGGCGCTAATCGGCGGACTGATTCTTAATTTAATGCCCTGCGTACTGCCT +GTTCTGGGCATGAAACTTGGCTCTATTTTATTGGTAGAGGAAAAAAGCCGCTCTCACATC +AGGCGACAATTTTTGGCTTCGGTCGCCGGTATCATTGCGTCATTTATGGCGCTGGCGGCG +TTTATGACCCTCCTTCGCCTGTCAAACCATGCGCTGGCCTGGGGAGTCCAGTTCCAGAAT +GCATGGTTTATTGGTTTTATGGCGCTGGTGATGTTGTTGTTTAGCGCCAGCCTGTTCGGG +CTTTTTGAGTTCAGGCTTCCCTCATCTATGACCACGAAACTGGCCACTTACGGCGGTAAC +GGTATGTCGGGACATTTCTGGCAGGGGGCGTTCGCCACGCTGCTGGCGACGCCTTGTAGC +GCGCCGTTTCTGGGCACGGCGGTCGCGGTGGCGCTCACGGCGTCGCTGCCGACGCTGTGG +GGGCTGTTCCTTGCGCTTGGCCTGGGAATGAGCGCGCCGTGGCTACTGGTCGCGATACGA +CCAGGGCTTGCGCTACGTTTACCGCGCCCCGGGCGTTGGATGAATGTCCTGCGCAGGATC +CTCGGTCTGATGATGCTGGGGTCGGCTATCTGGCTGGCGACGTTACTCCTGCCGCATTTC +GGCTTCACTGCGTCAAAGAGCGCGCAAGACACGGTTCAGTGGCAACCGTTGAGTGAACAG +GCAATCCAGTCGGCGCTGGCGCAGCATAAGCGGGTATTTGTCGATGTCACTGCGGACTGG +TGTATTACCTGTAAAGTGAATAAATACAACGTCCTGCAAAAAGAGGATGTGCAGGCCGCC +TTGCAACAGCCGGATGTTGTGGCGCTGCGGGGAGACTGGACGCTGCCGTCCGATGCCATT +ACAGATTTTCTGAAAACGCGCGGCCAGGTCGCCGTGCCGTTTAATCAGGTATATGGCCCC +GGTTTGCCGGAAGGGGAGGCACTGCCCACTTTGCTGACCCGCGATGCGGTATTACAAACG +TTGAAAAAAGCGAAAGGAATAACCCAAATGAAATACATGATTGTTTTACTGCTGGCGCTG +TTTTCGACGCTGAGCATCGCGCAAGAAACCGCTCCTTTTACGCCGGATCAGGAAAAGCAG +ATTAAAAATCTGATCCATGCGGCGTTGTTTAACGATCCTGCCAGCCCGCGGATAGGCGCT +AAACACCCTAAGCTGACGCTGGTGAACTTTACGGATTACAACTGCCCGTACTGCAAACAG +CTCGATCCGATGCTGGAAAAGATTGTGCAGAAATATCCTGACGTTGCGGTCATTATTAAA +CCGCTGCCATTCAAAGGAGAGAGTTCCATACTGGCGGCGCGTATTGCGCTGACCACCTGG +CGCGATCATCCGCAACAGTTCCTCGCGCTACATGAAAAACTTATGCAAAAGCGCGGTTAC +CATACGGATGACAGTATTAAACAGGCCCAGCAGAAAGCAGGGGCGACGCCAGTGACGCTG +GATGAAAAAAGCATGGAAACGATACGCACTAATTTGCAGTTGGCAAGACTGGTCGACGTG +CAAGGAACGCCAGCGACGATCATTGGCGACGAGCTGATTCCGGGCGCAGTGCCCTGGGAT +ACGCTGGAAGCGGTGGTGAAAGAAAAACTGGCGGCTGCCAATGGCGGGATGGCGGGTAAA +CTGCGGCGTTGGCTGCGTGAAGCCGCGGTTTTTCTGGCGCTCCTCATCGCGATAATGGTG +GTCATGGACGTCTGGCGCGCGCCGCAGGCGCCTCCGGCGTTTGCCGCGACACCATTACAT +ACGCTGACGGGAGAGTCGACAACTCTGGCGACCTTGAGCGAGGAACGCCCCGTACTGCTC +TATTTTTGGGCCAGCTGGTGCGGGGTATGCCGCTTTACCACGCCTGCGGTCGCTCACCTG +GCGGCGGAAGGGGAAAACGTCATGACCGTTGCGCTCCGCTCCGGCGGTGATGCTGAGGTT +GCCCGCTGGCTGGCGCGCAAGGGCGTTGACTTCCCGGTCGTCAATGATGCTAACGGCGCC +TTATCCGCTGGCTGGGAAATCAGCGTGACGCCAACGCTGGTGGTGGTTTCACAAGGTCGG +GTTGTGTTCACCACCAGCGGCTGGACCAGCTATTGGGGCATGAAGCTTCGGCTGTGGTGG +GCAAAAACGTTCATGAAAAAATCATTACTCGCTGTTGCTGTGGCAGGGGCTGTTTTGTTG +TCATCCGCCGTACAGGCGCAGACAACGCCGGAAGGTTATCAATTACAACAGGTGCTGATG +ATGAGCCGCCATAATCTGCGGGCGCCGCTGGCGAATAATGGCAACGTACTGGCGCAGTCG +ACGCCGAACGCCTGGCCGGCGTGGGACGTTCCCGGCGGGCAACTGACGACGAAAGGCGGC +GTGCTGGAAGTCTATATGGGACACTACACACGTGAATGGCTGGTCGCGCAGGGGCTGATA +CCGTCGGGAGAATGTCCGGCGCCCGACACGGTATATGCCTATGCGAATAGTTTGCAGCGC +ACCGTCGCCACCGCGCAATTTTTCATTACCAGCGCTTTCCCCGGCTGTGATATTCCTGTT +CATCATCAGGAAAAAATGGGCACTATGGACCCTACCTTCAATCCGGTGATTACCGATGAT +TCCGCCGCGTTCCGGCAACAGGCCGTACAGGCGATGGAAAAGGCGCGTAGTCAGCTACAT +CTTGATGAGAGTTATAAACTGCTTGAGCAGATAACGCATTATCAGGACTCGCCGTCCTGC +AAAGAGAAGCATCAGTGTTCGCTAATCGACGCGAAAGATACCTTCAGCGCGAACTATCAG +CAAGAGCCTGGCGTGCAGGGGCCGCTGAAAGTAGGGAACTCGCTGGTGGATGCGTTTACC +CTGCAATATTACGAAGGCTTTCCGATGGATCAGGTCGCTTGGGGCGGGATCCACACCGAT +CGGCAGTGGAAGGTGCTGTCAAAACTGAAAAACGGCTACCAGGACAGCCTGTTTACCTCA +CCCACGGTGGCGCGCAATGTCGCTGCGCCGCTGGTAAAATATATCGATAAGGTGCTGGTT +GCCGAGCGCGTTAGCGCGCCGAAGGTTACCGTGCTGGTGGGGCATGATTCCAATATCGCG +TCGCTGCTGACGGCGCTGGATTTTAAACCCTATCAGCTCCATGACCAGTATGAGAGAACG +CCGATTGGTGGTCAGCTTGTCTTCCAACGCTGGCATGACGGTAACGCTAACCGGGATTTG +ATGAAAATCGAGTATGTCTACCAGAGCGCCCGGCAGTTACGTAATGCGGAAGCGTTAACG +CTCAAATCGCCTGCGCAAAGGGTAACGCTGGAACTGAAAGGATGTCCGGTGGATGCGAAC +GGCTTCTGTCCGCTGGATAAGTTCGATAACGTCATGAACACTGCTGCAAAAATGCCAACT +CAAGAAGCAAAAGCGCACCGCGTCGGCGAATGGGCAAGCCTGCGTAATACGTCGCCGGAA +ATTGCCGAAGCCATTTTTGAAGTCGCTCACTATGACGAGAAACTGGCAGAAAAAATATGG +GAAGAAGGTAGCGATGAGGTGCTGATCAAAGCCTTTGAGAAAACGGACAAAGACTCGCTC +TTCTGGGGCGAACAAGTCATCGAACGTAAGAACGTAATGGCAAAGATTCTGGTGCTCTAT +TATTCCATGTACGGACACATTGAAACCATGGCGCACGCGGTGGCGGAAGGGGCAAAGAAA +GTCGACGGCGCAGAGGTCATTATAAAGCGTGTGCCAGAAACAATGCCGCCTGAAATCTTC +GCAAAAGCTGGCGGTAAAACGCAAAACGCACCGGTTGCCACCCCACAGGAGCTGGCGGAT +TACGATGCCATTATTTTTGGTACGCCAACCCGGTTTGGCAATATGTCAGGCCAGATGCGT +ACCTTCCTGGACCAAACCGGCGGACTGTGGGCATCCGGCGCGCTATACGGCAAGCTCGGC +GGCGTGTTCAGTTCTACCGGAACGGGCGGCGGCCAGGAGCAGACCATCACCTCGACCTGG +ACTACGCTTGCCCATCATGGGATGGTGATTGTCCCGATAGGCTATTCCGCACAGGAACTG +TTTGACGTCTCCCAGGTTCGCGGCGGTACGCCTTACGGCGCAACGACTATCGCTGGAGGC +GACGGTTCACGTCAACCAAGCCAGGAGGAACTCTCTATCGCTCGCTATCAGGGGGAATAC +GTCGCCGGTCTGGCAGTCAAACTCAACGGCATGGCAAACCATCGTGGCGGTTCCGGTAAT +TTTGCGGAAGACCGCGAAAGAGCATCAGAAGCAGGTCGTAAAAGTGGTCAGCACAGCGGG +GGCAATTTTAAGAATGACCCGCAGCGTGCATCCGAAGCAGGCAAAAAAGGGGGCAAAAGC +AGTAACCGTAATCGCATGTCGCAACGCACAGAGAAAAAAATCGGGAAACGTTCGCAGGCC +ACCGGTGCAAAACGGCAGCTTATCTTAACCGCCGCGCTTGCCGTTTTTTCCCAGTATGGC +ATTCATGGCGCGCGTCTTGAACAGGTCGCCGAGCGGGCAGGCGTCTCCAAAACCAATCTG +CTTTATTATTATCCCTCGAAAGAGGCGCTGTATGTCGCGGTAATGCGACAGATTCTGGAT +GTCTGGTTGGCGCCGCTCAAGGCGTTTCGCGCAGAATTTTCCCCTCTGGAGGCCATCAAA +GAGTATATCCGTCTCAAGCTGGAGGTTTCGCGTGATTATCCGCAGGCGTCGCGGCTCTTC +TGCATGGAGATGCTGGCGGGCGCGCCGCTCTTAATGGATGAACTGACCGGCGATCTAAAA +GCGTTGATAGATGAAAAATCCGCGCTGATTGCCGGATGGGTGCACAGCGGGAAACTCGCG +CCCGTTTCTCCGCATCATTTGATCTTCATGATTTGGGCCGCCACGCAACATTACGCCGAT +TTCGCCCCTCAGGTTGAAGCGGTAACCGGCGCGACGCTTCGCGATGAAGCCTTTTTCAAC +CAAACGGTCGAAAGCGTTCAGCGCATTATTATTGAAGGGATTCGCGTGCGTATGAAACGA +ATTTTCCTTACCTGCGCGGCGTTGTTGTTCAGCAGTCAGGCGTTGGCCGATGAGTGTGCC +AGCGCCAGTACGCAGCTGGAAATGAATCGCTGCGCCGCCGCGCAATACCAGGCGGCAGAT +AAAAAGCTGAACGAAACCTATCAAAGCGCGATTAAGCGTGCGCAACCGCCGCAGCGTGAG +CTATTGCAAAAAGCGCAGGTGGCATGGATTGCCCTGCGCGACGCCGATTGCGCGCTGATT +CGCTCAGGTACGGAGGGCGGCAGCGTTCAACCCATGATCGCCAGCCAGTGCCTGACCGAT +AAAACGAACGAACGCGAAGCGTTTTTAGCCTCGCTGCTGCAATGTGAAGAGGGTGATTTG +AGCTGCCCACTGCCGCCAGCCGGTATGGGAACCACCACGATGGGGGTTAAGCTGGACGAC +GCCACGCGCGAACGGATCAAAATGGCCGCGTCGCGTATCGATCGCACGCCGCACTGGTTA +ATAAAACAGGCAATCTTTAGCTATCTGGACAAGCTGGAAAATAGCGATACGCTACCGGAG +CTACCTGCGCTGTTTGCCGGCGCGGCAAATGAAAGCGAGGAGCCGGTCGCGCCGCAGGAT +GAGCCGCATCAGCCCTTTCTGGAGTTTGCCGAACAGATTCTTCCCCAATCCGTCTCTCGC +GCCGCCATCACCGCCGCCTGGCGCCGCCCGGAAACCGATGCGGTGTCAATGCTAATGGAA +CAGGCGCGCCTGTCGCCGCCTGTCGCTGAGCAGGCGCATAAACTGGCGTATCAACTGGCG +GAGAAATTGCGCAATCAAAAATCCGCCAGCGGTCGCGCGGGTATGGTGCAAGGCCTGTTG +CAGGAGTTTTCCCTCTCTTCGCAAGAAGGCGTAGCGCTGATGTGTCTGGCGGAAGCGCTG +CTGCGTATTCCCGACAAAGCTACGCGCGATGCGTTAATTCGCGACAAAATCAGTAATGGC +AACTGGCAGTCGCATATTGGCCGTAGCCCGTCGCTGTTTGTAAACGCCGCCACCTGGGGG +CTGCTCTTTACCGGCCGACTGGTCTCAACGCATAACGAAGCCAATCTTTCGCGCTCGCTG +AACCGCATTATCGGCAAGAGCGGCGAACCGTTAATCCGCAAAGGCGTCGACATGGCGATG +CGTTTAATGGGCGAGCAGTTCGTGACTGGCGAAACCATTGCTCAGGCGCTGGCGAATGCC +CGAAAACTGGAAGAGAAAGGGTTCCGCTATTCTTACGATATGCTGGGCGAAGCCGCGTTA +ACCGCCGCCGATGCGCAGGCCTATATGGTCTCTTACCAGCAAGCGATTCATGCCATCGGC +AAAGCGTCTAACGGTCGCGGTATTTACGAAGGGCCAGGCATCTCGATTAAGCTGTCCGCC +CTGCATCCACGCTATAGTCGCGCGCAATACGATCGGGTAATGGAGGAGCTTTATCCGCGC +CTGAAATCCCTGACGCTGCTGGCGCGCCAGTATGATATCGGTCTCAATATCGACGCCGAA +GAGGCGGATCGTCTGGAGATCTCGCTTGATCTGCTGGAAAAACTCTGCTTCGAACCCGAA +CTGGCGGGCTGGAACGGCATTGGCTTTGTGATTCAGGCTTACCAGAAACGCTGCCCGCTG +GTCATTGATTATTTAGTCGATCTGGCCTCCCGTAGCCGCCGTCGGCTGATGATTCGTCTG +GTGAAAGGCGCCTACTGGGATAGCGAGATCAAACGCGCGCAAATGGAAGGGCTGGAGGGC +TATCCAGTTTATACCCGCAAAGTGTATACCGATGTCTCTTATCTGGCCTGCGCGAAAAAA +CTGCTCGCCGTCCCTAATCTGATCTACCCGCAGTTCGCGACCCATAACGCTCACACACTG +GCGGCGATTTATCATCTGGCCGGGCAAAATTACTATCCGGGTCAGTACGAATTCCAGTGC +CTGCACGGCATGGGAGAACCGCTGTATGAACAGGTCACCGGTAAAGTGGGGGACGGAAAA +CTTAACCGTCCCTGCCGTATTTACGCGCCGGTGGGAACACACGAAACCCTGCTGGCCTAT +CTGGTACGACGCCTGCTGGAAAACGGCGCCAACACCTCTTTTGTCAACCGCATCGCCGAT +GCCACCCTACCGCTCGATGAACTGGTGGCCGACCCGGTCGAGGCCGTGGAAAAACTGGCG +CAGCAGGAAGGTCAGGCTGGCATACCGCATCCAAAAATTCCGCTGCCGCGCGATCTGTAC +GGCGAAGGTCGGATAAACTCCGCCGGACTTGATTTAGCGAATGAACATCGCCTCGCCTCG +CTTTCTTCTGCCCTGTTAAGCAACGCCATGCAGAAATGGCAGGCCAAACCTGTGCTGGAA +CAACCGGTGGCCGACGGTGAGATGACGCCGGTTATCAACCCGGCGGAACCGAAAGATATT +GTTGGCTGGGGACGCGAAGCGACAGAAAGCGAGGTTGAACAGGCGTTGCAAAACGCGGTC +AATCAGGCGCCGGTTTGGTTTGCGACGCCGCCGCAAGAACGCGCCGCTATTTTGCAGCGG +GCGGCGGTATTGATGGAAGACCAAATGCAGCAGTTGATTGGCCTGTTGGTGCGTGAAGCG +GGGAAAACGTTCAGCAACGCCATTGCCGAAGTGCGCGAAGCGGTAGACTTCCTCCATTAT +TATGCCGGTCAAGTGCGTGACGATTTCGATAACGAAACGCATCGCCCGTTAGGGCCGGTG +GTCTGTATCAGTCCGTGGAACTTTCCGCTGGCCATTTTCACTGGCCAAATCGCCGCCGCG +CTGGCGGCAGGTAACAGCGTTCTGGCGAAACCGGCAGAGCAGACATCGCTGATTGCCGCC +CAGGGCATTGCCATTTTGCTGGAAGCGGGCGTACCGCCGGGCGTCGTGCAACTGTTGCCG +GGACGGGGAGAAACCGTCGGCGCCCAGCTTACCGCCGATGCGCGTGTACGCGGCGTGATG +TTTACCGGTTCCACGGAGGTCGCGACGTTGTTGCAGCGCAACATCGCCACGCGTCTTGAC +GCCCAGGGGCGCCCTATTCCGTTGATTGCGGAAACCGGCGGTATGAACGCTATGATTGTC +GACTCTTCCGCGCTCACCGAGCAGGTGGTCGTGGATGTGCTGGCTTCCGCCTTCGACAGC +GCCGGACAACGCTGTTCCGCGCTCCGCGTGCTGTGTTTGCAGGACGATATCGCCGAACAT +ACGCTGAAAATGTTACGCGGCGCGATGGCGGAGTGTCGGATGGGGAATCCAGGCCGTCTG +ACGACCGATATCGGGCCGGTGATCGATAGCGAGGCCAAAGCCAACATTGAACGTCATATC +CAGACGATGCGCGCCAAAGGCCGCCCGGTTTTCCAGGCCGCGCGTGAAAACAGCGATGAC +GCGCAGGAATGGCAGACCGGTACGTTTGTTATGCCCACGCTTATTGAGCTGGAAAACTTC +GCAGAACTGGAAAAAGAGGTCTTCGGGCCCGTGCTGCACGTCGTGCGTTATAACCGTAAC +CAACTGGCGGAGCTTATCGAACAGATTAACGCTTCCGGCTACGGGCTAACGCTGGGCGTA +CATACCCGTATTGATGAAACCATTGCGCAAGTCACCGGTTCCGCCCATGTCGGCAACCTG +TACGTTAACCGTAATATGGTGGGCGCGGTCGTCGGCGTCCAGCCGTTTGGCGGCGAAGGC +CTGTCCGGCACCGGGCCAAAAGCGGGAGGGCCGCTCTATCTCTACCGCCTGCTGGCACAC +CGCCCGCCCAATGCGCTCAATACGACGCTGACTCGTCAGGATGCGCGTTACCCGGTGGAT +GCGCAGCTTAAAACCACGCTACTCGCGCCGTTGACCGCTCTGACGCAATGGGCGGCGGAT +CGCCCGGCGCTACAGACGCTCTGCCGACAATTCGCCGATCTGGCGCAGGCCGGCACGCAG +CGCCTGCTACCGGGGCCGACCGGCGAGCGTAATACCTGGACGCTGTTGCCGCGTGAACGG +GTGTTATGCCTGGCTGATGATGAACAGGACGCGTTGACGCAGCTTGCCGCCGTTCTCGCC +GTCGGCAGTCAGGCGCTATGGTCAGACGACGCCTTCCACCGCGATCTGGCGAAACGTCTC +CCCGCCGCCGTCGCGGCGCGTGTCCAGTTTGCGAAAGCGGAAACGCTGATGGCGCAGCCG +TTTGACGCGGTGATTTTCCACGGCGACTCCGACAAGCTGCGAACCGTGTGCGAAGCCGTC +GCCGCCCGCGAAGGCGCGATAGTGTCGGTACAGGGGTTCGCCCGCGGCGAAAGCAATATG +CTGCTGGAACGGCTCTATATTGAACGTTCGCTGAGCGTAAACACTGCCGCCGCTGGCGGT +AATGCCAGCCTGATGACAATTGGCATGGCTATTAGCACACCGATGTTGGTGACATTCTGT +GTCTATATTTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGCTCAACCAAAAACTTT +GATGACTATATTCTTGGCGGTCGCAGCCTGGGGCCGTTTGTTACGGCTTTATCAGCCGGC +GCGTCGGATATGAGCGGCTGGCTGTTAATGGGGCTGCCTGGCGCTATCTTTCTGTCGGGG +ATCTCTGAAAGCTGGATCGCCATTGGCCTGACGTTAGGCGCATGGATTAACTGGAAGCTG +GTGGCCGGGCGCCTGCGCGTGCATACCGAATTTAACAATAACGCGCTCACGCTGCCGGAC +TATTTTACCGGTCGGTTTGAGGATAAGAGCCGAGTCCTGCGTATTATTTCCGCGCTGGTC +ATTCTGCTGTTTTTCACTATCTATTGCGCATCAGGTATTGTCGCTGGGGCACGACTGTTC +GAAAGCACCTTCGGTATGAGCTATGAAACCGCACTGTGGGCGGGGGCCGCGGCAACCATT +ATTTATACCTTTATCGGCGGGTTTCTTGCCGTTAGCTGGACGGATACCGTTCAGGCCAGC +CTGATGATTTTTGCGTTAATCCTGACGCCGGTGATGGTTATTGTCGGCGTAGGCGGTTTT +AGCGAGTCGCTGGAAGTGATCAAGCAAAAGAGCATCGAGAATGTCGACATGCTCAAGGGG +CTGAATTTTGTCGCTATTATTTCTCTGATGGGCTGGGGGCTGGGTTACTTCGGTCAGCCG +CATATCCTGGCGCGCTTTATGGCGGCGGATTCCCATCACAGTATTGTTCATGCGCGTCGT +ATCAGTATGACCTGGATGATTCTGTGTCTGGCGGGCGCGGTGGCGGTGGGCTTCTTTGGC +ATTGCGTACTTTAACAATAACCCCGCGCTGGCCGGGGCGGTGAACCAAAACTCAGAACGC +GTATTTATTGAACTGGCGCAGATCCTGTTTAACCCGTGGATTGCCGGTGTTCTGCTGTCT +GCTATCCTGGCGGCGGTGATGTCGACGTTGAGCTGTCAGTTGCTGGTATGCTCCAGCGCG +ATTACGGAAGATTTATATAAGGCTTTTCTGCGTAAAAGCGCCAGCCAGCAAGAGCTGGTA +TGGGTAGGGCGAGTGATGGTGCTGGTGGTAGCGCTGATCGCCATTGCGCTGGCGGCGAAT +CCTGATAACCGTGTGCTGGGGCTGGTGAGCTACGCCTGGGCTGGATTCGGCGCGGCATTT +GGACCTGTTGTCCTGTTTTCTGTGATGTGGTCGCGTATGACACGTAACGGCGCGCTGGCG +GGAATGATTATTGGCGCGGTGACGGTTATCGTCTGGAAACAATATGGCTGGCTGGATCTG +TATGAGATTATCCCTGGCTTCATTTTCGGCAGCCTGGGGATCGTAATCTTTAGCCTGCTT +GGCAAAGCGCCGACAGCAACGATGCAGGAACGCTTTGCAAAAGCGGACGCGCATTATCAT +TCCGCGCCGCCGTCGAAGCTACAGGCGGAAATGGTAATGTCCGCACCAGGACACATTGTT +TACAGTAGTTACAACACCCTGTACGGACATTCTCTCTCCGGTGGTGGTCTTGTCATCTTA +AAAGCTCTCATCATTTCCCTTACTGTCCATACCCATGACGCCATATGTGGTGCGCGTAGC +CGTGTGTGGCGTCGTTTCAAAAAGCAAGCTAAGGCTTACAAGGAAGCCAACCCTCAGATG +TGTGTGCGCATAATCGCGTTCAAGAGAACGCGGGTGATGTATACCTACAACTCAAGGTGC +TATCCATGGGAAGACAAAAAGCAGATGGGAAGACAAAAAGCAGTGATCAAAGCTCGTCGT +GAAGCAAAGCGTGTGTTGAGACGAGATTCGCGTAGTCATAAGCAACGTGAAGAAGAATCG +GTCACGTCACTGGTACAGATGGGCGGAGTAGAAGCCATTGGCATGGCGCGCGATAGTCGC +GATACCTCTCCTGTTAAGGCGCGAAATGAAGCACAGGCGCATTATCTGAACGCTATCGAC +AGTAAACAGCTTATTTTTGCGACCGGCGAAGCCGGCTGCGGAAAAACATGGATCAGTGCG +GCAAAGGCGGCAGAAGCATTGATTCATAAGGACGTCGAGAGGATCATTGTGACGCGTCCG +GTATTGCAGGCTGATGAAGATCTTGGTTTTTTGCCCGGTGATATCGCTGAAAAATTCGCG +CCTTATTTTCGTCCCGTCTACGATGTCCTGCTTAAACGGTTGGGCGCGTCCTTTATGCAA +TATTGTTTGCGCCCGGAAATCGGTAAGGTAGAAATTGCCCCGTTCGCCTATATGCGTGGG +CGTACTTTTGAAAATGCGGTCGTGATCCTCGACGAGGCGCAAAATGTGACTGCGGCGCAA +ATGAAAATGTTTTTGACGCGATTAGGCGAAAATGTCACGGTCATTGTCAATGGCGATATT +ACGCAATGCGACCTGCCGCGCGGTGTGCGTTCCGGGTTGAGTGATGCGTTGGAACGCTTT +GAAGAAGATGAAATGGTGGGGATTGTGCATTTCAACAAAGACGACTGCGTGCGCTCGGCG +CTTTGTCAGCGAACGCTCCACGCATACAGCATGGAGCCTCAACCCCCACGTCTTAAACCC +GGAAAAATCCTTGACACTCTGGGTGCTATGCAAAAAAGCCTGACACGTGCCTCCCAGCGT +ATTGCGCAATATATTTTAGCCTTCCCCAGACAGGTGACACAGTCATCTATTGCCGATTTG +TCGCGCGACACACAGGCCGGAGAAGCCACGGTTATTCGCTTTTGTCGCACCCTGGGCTAT +AAAGGTTTTCAGGATTTTAAAATGGACCTGGCCATTGAACTTGCCACTACCGAGTCTGAT +GACAGTAGTCCTCTACTGGATGCCGAAGTTAGCGAATCCGACGATGCCCACGCCATTGGT +TTAAAATTGCAGAACACCATTAGTAATGTATTATCTGAAACGCTAAATCTGCTTGATATG +CAACAGGTTCTCGGTGTCGTGGACGCCCTACGTCACTGTCACTCAGTTTATATCTTTGGT +GTGGGCTCATCGGGGATCACGGCGCTGGATATGAAACACAAGCTAATGCGTATTGGTTTA +CGGGGCGATGCGGTAAGCAATAACCATTTTATGTACATGCAGGCTACGCTATTAAAAGCA +GGCGATGTCGCGATGGGTGTCAGTCACTCGGGCACATCGCCAGAAACAGTGCATTCACTC +CGATTGGCCCGACAGGCTGGCGCCACCACAGTCGCCATTACCCATAATCTGGGTTCTCCA +TTATGTGAAGAGGCCGATTTTTGCCTGATCAATGGTAATCGGCAAGGAATGTTGCAGGGT +GACTCGATCGGTACGAAAGCCGCGCAGCTTTTCGTCTTTGACCTGCTCTATACCCTTCTT +GTACAGTCCTCGCCGGAACAGGCCCGAGAAAGCAAATTACGGACAATGAATGCCCTGGAC +ATGACAAAAGTGATATGTCTCAAAGTCCAGGGCGGCATTGGTGAAATTTTTACGGTGACG +CAGCAGGCGGATAAATTCTTTCCGGCTACGCAGTTCCACTGGAGCTGGACGGAAAGCACA +GTACCTGTATTGATGATTGGTTTTCTGTTTGCCAATATTCAGCAATTTACTGCCAGTCAG +GATGTGGTCCAACGCTATATCGTGACTGACTCCATAGAGGAAACGAAGAAAACATTACTT +ACAAATGCCAAACTGGTTGCTGTGATCCCTGTTTTCTTTTTTGCTATCGGCTCGGCATTA +TTTGTCTACTATCAGCAACATCCACAATTATTACCGGCGGGATTCAACACTGGCGGCATT +TTGCCCTTATTCGTGGTCACCGAAATGCCAGTCGGCATTGCAGGGTTGATAATCTCCGCT +ATTTTCGCTGCCGCGCAGTCCAGCATCTCCAGCAGCTTAAACAGCATTTCCAGTTGTTTT +AATTCCGATATCTATCAGCGTTTGAGTCATAAAAAAGGAACGCCAGAAAACCGTATGAAA +ATAGCTAAGTTAGTTATTCTGGTCGCGGGCCTGATAAGTAGCGCGGCCTCGGTATGGCTG +GTCATGGCCGATGAATCAGAAATCTGGGATGCATTTAATAGTCTGATAGGTCTGATGGGA +GGGCCAATGACCGGTCTGTTCATGCTGGGCATTTTCTTTAAACGAGCAAATGCCGGGAGT +GCGGTTTTAGGAATTATTATCAGCGTCATTACCGTGCTGGGCACACGCTATGCCACTGAC +CTTAACTTCTTCTTTTATGGGGTCATTGGCTCGCTAAGCGTGGTGATCAGCGGCGTTATT +TTCGCCCCGTTATTTGCCCCGGCACCGCCATTGACGCTGGATGAAAAACCTGAACCAAAG +GTGACATTAATGTCACTATTAGCCAGGCTGGAACAAAGTGTACACGAAAACGGTGGGCTG +ATTGTCTCATGCCAACCGGTACCAGGCAGCCCTATGGATAAACCTGAAATTGTGGCTGCA +ATGGCACAGGCAGCGGCTTCGGCGGGTGCGGTCGCTGTGCGCATTGAAGGCATTGAGAAT +CTGCGGACTGTTCGTCCCCATCTTTCTGTTCCTATTATTGGGATAATTAAACGTGACCTT +ACAGGGTCGCCAGTCCGTATCACTCCATATTTACAGGATGTTGACGCCCTGGCGCAGGCA +GGTGCCGATATTATCGCTTTTGATGCCTCATTCCGCTCTCGCCCGGTTGATATTGATAGT +TTACTGACACGTATTCGCCTGCATGGATTACTGGCGATGGCAGACTGTTCAACCGTGAAT +GAAGGCATAAGTTGCCATCAGAAAGGAATCGAATTCATTGGTACAACACTGTCTGGCTAT +ACCGGTCCCATCACGCCGGTTGAGCCAGATTTGGCAATGGTGACACAACTGAGTCATGCA +GGTTGTCGTGTTATTGCCGAGGGGCGCTATAACACGCCTGCACTGGCGGCCAATGCTATT +GAGCATGGTGCCTGGGCAGTTACCGTTGGTTCCGCTATCACCCGTATCGAGCATATCTGT +CAGTGGTTCAGTCACGCAGTAAAACGCATGAAAAATTTTAAGAAAATGATGACGCTAATG +GCGCTATGTTTATCAGTTGCTATCACCACATCAGGATATGCAACCACGCTTCCTGATATA +CCAGAACCACTGAAAAATGGTACTGGCGCTATTGATAATAATGGCGTGATTTATGTCGGC +TTAGGTACCGCAGGGACATCCTGGTATAAAATTGATCTTAAAAAGCAACATAAAGACTGG +GAGCGTATAAAGTCGTTTCCTGGTGGAGCTCGTGAGCAATCCGTGTCGGTATTTTTAAAT +GATAAGCTGTATGTTTTTGGTGGCGTAGGGAAAAAAAACAGTGAATCACCGTTGCAGGTT +TATAGCGATGTGTACAAATACTCACCGGTGAAAAATACATGGCAAAAAGTTGATACTATA +TCTCCAGTTGGATTAACAGGGCATACGGGAGTAAAATTAAACGAAACGATGGTACTTATT +ACCGGAGGGGTTAATGAGCATATCTTTGATAAGTATTTTATTGATATAGCGGCTGCGGAT +GAAAGTGAAAAAAATAAAGTCATCTATAATTATTTTAATAAACCTGCCAAAGATTATTTT +TTTAATAAAATCGTATTTATCTACAATGCTAAAGAGAACACATGGAAGAATGCCGGTGAG +CTGCCAGGCGCGGGGACGGCAGGATCGTCATCGGTAATGGAAAATAATTTCTTGATGCTG +ATTAATGGTGAGCTCAAACCGGGTTTACGTACCGATGTGATTTACCGCGCCATGTGGGAT +AACGATAAGCTAACATGGTTGAAGAACAGCCAGTTACCGCCATCGCCTGGAGAACAACAG +CAGGAAGGGTTGGCCGGAGCATTTTCGGGCTATAGCCACGGTGTCCTGCTTGTCGGTGGT +GGCGCGAATTTTCCGGGAGCAAAACAAAATTATACTAATGGAAAGTTTTATTCCCACGAA +GGGATAAATAAAAAATGGCGAGATGAAGTCTATGGTTTGATTAATGGCCATTGGCAATAT +ATGGGTAAAATGAAACAACCTCTCGGCTATGGTGTATCAGTAAGTTATGGTGATGAAGTT +TTCCTTATTGGTGGTGAAAATGCTAAAGGGAAACCTGTTTCGTCTGTAACCTCCTTTACC +ATGCGTGATGGTAATTTATTAATAAAAATGAAAATCAACAGATATCTTCTGGGTATGGTT +TCGTTTATAGCATTTTCATCATATCTACAAGCGGCAACCCTTGATTATCGGCATGAATAT +GCTGATAGAACCAGAATTAATAAAGACCGTATTGCTATAATTGAAAAGCTTCCTAACGGC +ATTGGTTTTTATGTCGATGCCAGCGTTAAATCGGGAGGAGTAGATGGTGAGCAGGATAAG +CATTTAAGCGATCTCGTCGCAAACGCTATAGAACTGGGCGTAAGTTATAATTATAAAGTT +ACGGACCATTTTGTTTTGCAGCCTGGATTTATATTTGAAAGCGGTCCAGACACTTCAATT +TATAAGCCTTATTTAAGGGCGCAATATAATTTTGATTCTGGTGTTTATATGGCTGGTCGT +TACCGTTATGACTATGCAAGGAAGACAGCTAACTATAATGATGATGAGAAAACGAATAGA +TTTGATACTTATATAGGTTATGTTTTTGATGAGTTGAAATTGGAATATAAATTTACCTGG +ATGGATAGCGATCAAATTAAATTTGATAACAAAAAAACAAACTATGAACATAATGTGGCT +TTAGCCTGGAAACTGAATAAGTCATTTACACCATACGTTGAGGTCGGAAATGTAGCGGTG +AGAAATAATACCGATGAGAGACAGACCCGTTATCGCGTTGGATTACAATACCACTTTGTG +ATAGCAAAATTCTTCCCGTGGTATAGCGAGATAACACGTCCACAAAAAAATGCTTTATTT +TCAGCATGGCTGGGTTACGTTTTTGATGGCTTCGACTTTATGCTGATTTTCTACATTATG +TATCTGATCAAGGCTGACTTAGGATTGACAGATATGGAGGGCGCATTCCTTGCCACAGCG +GCCTTTATTGGGCGACCATTTGGCGGGGCGCTATTTGGTCTGCTGGCAGACAAATTTGGC +CGTAAGCCGTTAATGATGTGGTCGATAGTTGCCTATTCTGTAGGTACAGGGTTAAGTGGC +CTGGCTTCCGGTGTAATTATGCTGACGCTTAGTCGTTTTATTGTCGGTATGGGGATGGCG +GGGAAGTATGCTTGCGCTTCTACTTATGCCGTGGAAAGTTGGCCAAAGCATTTAAAATCT +AAAGCGAGCGCATTTCTGGTTTCAGGTTTCGGTATTGGTAACATCATAGCAGCCTATTTT +ATGCCGTCATTTGCCGAAGCGTATGGTTGGCGTGCTGCTTTTTTTGTCGGTTTGCTACCC +GTTCTTTTAGTAATCTACATCCGGGCCAGGGCTCCTGAATCTAAAGAGTGGGAAGAAGCC +AAACTCAGTGGTCTCGGAAAGCATTCACAAAGTGCCTGGTCAGTTTTCTCTTTGTCAATG +AAAGGGCTATTTAATCGAGCTCAATTTCCACTGACATTATGTGTATTTATTGTTCTGTTC +TCTATTTTCGGCGCAAACTGGCCGATCTTTGGTCTACTGCCTACATATTTGGCGGGAGAG +GGCTTTGATACGGGCGTGGTCTCTAATTTAATGACGGCGGCGGCATTCGGCACTGTATTG +GGAAATATCGTTTGGGGTCTGTGCGCAGATAGAATTGGTTTGAAGAAAACGTTCAGCATT +GGTCTTCTCATGTCCTTTTTATTCATTTTCCCGTTATTCAGAATTCCGCAAGATAATTAT +TTACTGCTGGGCGCATGTTTATTCGGTTTAATGGCGACTAACGTAGGTGTTGGCGGGCTG +GTTCCCAAATTTCTCTACGACTACTTTCCTCTTGAGGTTCGTGGTTTGGGTACCGGGCTT +ATTTATAATCTTGCTGCGACATCAGGCACATTCAATTCAATGGCGGCGACCTGGCTTGGA +ATAACAATGGGGCTAGGCGCTGCGCTAACGTTCATTGTTGCTTTCTGGACCGCAACAATT +CTACTCATTATTGGCCTATCCATTCCGGATAGACTAAAAGCACGTCGTGAAAGGTTTCAG +TCAACAAAAGAATTTATGACGAAATACGGTGTTATAGGTACAGGTTATTTTGGCGCTGAA +CTGGCGCGATTTATGTCTAAGGTTGAAGGGGCGAAAATCACTGCGATTTACGATCCGGTA +AATGCGGCTCCGATAGCGAAAGAGCTGAACTGTGTCGCCACTTCAACGATGGAGGCGCTT +TGTACCCATCCTGATGTGGATTGCGTAATTATTGCTTCACCAAATTACTTACATAAAGCG +CCGGTCATTGCGGCGGCTAAAGCGGGTAAACACGTGTTTTGTGAAAAACCTATCGCCTTA +AATTACCAGGATTGTAAGGATATGGTTGATGCCTGCAAAGAAGCTGGTGTTACCTTTATG +GCGGGTCACGTTATGAACTTTTTTCACGGGGTTCGCCACGCTAAAGCGCTCATCAAAGCC +GGTGAAATCGGTGAAGTTACACAAGTTCACACTAAACGTAATGGTTTTGAAGACGTGCAG +GATGAGATCTCATGGAAGAAGATTCGCGCAAAGTCAGGTGGGCATCTGTACCATCACATT +CACGAGCTAGATTGTACACTGTTCATCATGGATGAAACCCCATCCCTGGTTTCAATGGCG +GCGGGGAATGTTGCGCACAAAGGTGAAAAATTTGGTGATGAAGATGATGTTGTCCTAATC +ACCCTTGAGTTTGAAAGCGGTCGTTTCGCGACACTTCAGTGGGGATCATCGTTCCACTAC +CCTGAGCACTATGTATTAATTGAGGGCACGACAGGTGCAATTCTCATTGATATGCAAAAC +ACGGCTGGTTATCTAATAAAAGCGGGCAAAAAAACACACTTTCTTGTGCATGAAAGCCAG +GCGGAGGATGATGATCGTCGCAACGGTAACATATCCAGCGAGATGGATGGCGCAATCGCT +TATGGTAAACCCGGTAAACGTACGCCGATGTGGCTCTCATCAATTATGAAACTGGAGATG +CAGTACTTGCATGATGTGATAAACGGTCTGGAGCCAGGCGAGGAGTTTGCTAAATTGCTA +ACGGGAGAAGCGGCGACAAATGCCATTGCTACCGCTGATGCTGCGACGCTTTCTTCAAAC +GAGGGGCGCAAAGTTAAACTCACTGAAATTCTTGGCATGGAGATAATTTTTTATCACCCG +ACATTTAACGCCGCCTGGTGGGTAAATGCGCTGGAGAAGGCTCTCCCACATGCGCGCGTT +CGTGAATGGAAGGTCGGTGATAACAACCCCGCAGACTATGCGCTTGTATGGCAGCCCCCG +GTTGAAATGCTGGCCGGAAGACGCTTAAAAGCCGTCTTTGTGCTGGGCGCGGGGGTGGAT +GCAATTCTGAGTAAATTAAATGCGCATCCGGAAATGCTGGACGCCTCCATTCCTCTATTC +CGTCTGGAAGATACCGGAATGGGCCTGCAAATGCAGGAGTATGCCGCCAGCCAGGTATTA +CACTGGTTCCGTCGTTTCGATGATTATCAGGCGCTGAAAAATCAGGCGCTATGGAAACCG +TTGCCGGAATATACCCGCGAAGAGTTTAGCGTCGGTATCATAGGCGCAGGGGTACTGGGC +GCAAAAGTGGCAGAAAGTCTACAGGCGTGGGGGTTCCCGTTACGTTGCTGGAGTCGTAGC +CGCAAATCCTGGCCTGGCGTGGAAAGTTATGTAGGGCGTGAAGAACTGCGCGCTTTCCTG +AACCAGACGCGGGTGCTGATTAATCTGCTGCCGAATACGGCCCAAACGGTAGGAATTATT +AATAGCGAATTGTTGGATCAATTGCCGGATGGCGCTTACGTGCTGAATCTCGCGCGCGGC +GTTCATGTTCAGGAGGCGGATCTGCTGGCTGCGCTTGATAGCGGTAAGCTAAAAGGCGCG +ATGTTGGATGTCTTTAGCCAGGAACCGTTACCGCAGGAAAGTCCATTATGGCGCCATCCG +CGAGTCGCCATGACGCCGCACATTGCGGCAGTCACCCGTCCGGCGGAAGCCATCGATTAT +ATTAGCCGCACCATTACCCAGCTGGAGAAGGGAGAGCCGGTGACGGGGCAGGTGGATCGG +GCGAGAGGATAT---ATGATGCGCGCCATGAACATACTTCTTTCTATTGCTATCACTACG +GGCATCCTTTCTGGAATATGGGGATGGGTGGCCGTCTCCCTGGGGTTACTAAGCTGGGCC +GGTTTTTTAGGCTGTACGGCTTATTTCGCCTGTCCGCAGGGCGGCTTTAAGGGATTGTTG +ATTTCCGCCTGTACGCTGTTAAGCGGTATGGTGTGGGCGCTGGTCATTATTCACGGTAGC +GCGTTGGCGCCGCATCTGGAAATTGTCAGTTACGTGTTGACGGGGATCGTGGCATTCCTG +ATGTGTATCCAGGCAAAGCAGCTATTGCTTTCTTTTGTTCCGGGAACATTTATCGGCGCC +TGCGCGACATTTGCAGGGCAGGGTGACTGGCGGTTGGTATTACCGTCGCTGGCGCTGGGG +CTAATCTTTGGCTATGCCATGAAAAATAGTGGGCTATGGCTGGCATCACGCCGCGAGCAA +CATTCAGCGAATACGGCGGTCACAAAAATGAAACGCTATCTGACCTGGATTGTAGCAGCA +GAGTTACTGTTCGCTACCGGAAACCTGCATGCCAATGAAGTTGAAGTCGAGGTTCCCGGA +TTGTTAACCGACCATACCGTCTCTTCGATAGGACATGAATTCTATCGTGCATTCAGCGAC +AAATGGGAAAGCGAATACACCGGCAATCTGACCATTAATGAAAGACCCAGTGCGCGTTGG +GGAAGCTGGATCACCATAACGGTAAATCAGGACGTTATTTTCCAGACCTTTTTATTTCCA +ATGAAAAGAGACTTCGAGAAAACCGTCGTCTTCGCATTAGCGCAAACAGAGGAAGCATTA +AATCGCCGACAAATAGATCAAACGCTATTAAGTACGAGTGATTTAGCGCGTGATGAATTC +ATGTCCGTAATCAAGAAAAATATCCCTGCCATAGGCCTGTGTATCTGCGCTTTTTTTATC +CATTCTGCGGTAGGGCAACAAACGGTACAGGGCGGCGTTATCCATTTTCGCGGCGCGATT +GTTGAGCCACTGTGCGATATTTCTACTCACGCCGAAAATATTGATTTAACCTGCCTACGC +GAAGGTAAAAAGCAAATGCACCGGATAGACCTTCGGCAGGCATCTGGATTACCGCAGGAT +ATTCAGTCCATTGCGACGGTACGGCTGCATTATCTCGATGCGCAAAAAAGCCTGGCGGTG +ATGAATATTGAGTACCGTATGACATCACGTCTTCAGGTCATACAGGGTGATATCACTCAA +CTTAGCGTCGATGCGATTGTGAATGCCGCTAACGCATCATTAATGGGCGGCGGTGGCGTA +GACGGCGCAATTCATCGCGCGGCGGGGCCGGCATTGCTGGACGCCTGTAAACTCATCCGT +CAGCAACAGGGCGAATGTCAGACGGGACATGCGGTTATCACGCCTGCTGGCAAGCTTTCG +GCAAAGGCGGTTATTCACACAGTGGGGCCCGTCTGGCGAGGCGGCGAACACCAGGAAGCT +GAGCTACTCGAAGAGGCATACCGGAATTGTTTGCTGCTTGCCGAGGCGAATCACTTTCGT +TCCATCGCTTTTCCGGCAATCAGTACCGGCGTTTATGGCTATCCACGCGCCCAGGCCGCT +GAAGTCGCCGTCAGGACGGTTTCAGATTTTATTACCCGTTACGCTCTGCCTGAACAGGTA +TACTTTGTCTGTTATGATGAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAA +GGCGACGACCCTGCCATGAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAAG +GCGACGACCCTGCCTGATAAAACACGCCTGGAGCGTGCCGTTGAACCGCTATGCGCGCGC +CATCCCGGAGAGTGCGGCATTCTTGCGCTGGATAACAGTCTGGACGCTTTTGCCGCCCGC +TACCGCCTGACCGAAATGGCGGCGCGGACGCTGGATGTGCAGTATTATATTTGGGAAGAC +GATATGTCCGGGCGGCTGCTCTTTTCGGTTCTGCTGTCGGCGGCGAAGCGCGGCGTTCAT +GTTCGTCTGCTGCTGGATGATAACAATACGCCTGGTCTGGATGATACGTTGCGCTTGCTG +GATAGCCATCCTAATATCGAAGTTCGTCTGTTTAATCCTTTCTCTTTTCGTACGCTACGC +GCGCTGGGATATTTGACGGATTTTGCGCGGCTGAATCGGCGGATGCACAATAAAAGTTAC +ACTGCCGACGGCGTAGTGACGCTGGTCGGTGGGCGCAACATCGGCGATGCCTATTTCGGC +GCTGGCGAGGAGCCGCTATTTTCCGATCTGGACGTGATGGCCATTGGCCCGGTGGTCAAT +GATGTCGCCAATGATTTTGAACGTTACTGGCGCTGTAGTTCAGTGTCGACATTGCAGCAA +GTATTATCCCTTTCTGAGCAGGAACTGACGCAGCGTATCGAACTTCCCGAATCCTGGTAT +AACGATGAGATCACCCGCCGTTATCTGCATAAGCTGGAAACCAGCCAGTTTATGGCGGAT +CTCGATCGCGGAACGTTGCCGCTGATTTGGGCAAAAACACGCTTGCTTAGCGATGACCCT +TCTAAAGGCGAGGGGAAGGCGCAGCGCCATTCGCTTCTTCCGCAGCGATTATTTGACGTG +ATGGGGTCGCCGACGGAGCGTATCGACATTATTTCCGCTTACTTTGTCCCTACGCGCGCA +GGCGTGGCGCAGTTGCTTAATCTGGTCAGGAAAGGTGTGAAGATCGCCATCTTAACTAAC +TCTCTGGCGGCCAACGATGTGGCGGTCGTTCACGCAGGGTACGCGCGCTGGCGCAAGAAA +TTACTGCGCTATGGCGTGGAGCTCTACGAACTGAAACCGACCCGCGAACATGAAACCGCC +GTACATGATCGCGGACTCACCGGGAACTCAGGTTCCAGCTTACATGCTAAAACGTTCAGT +ATTGATGGTAGTAAGGTGTTTATCGGGTCGCTTAATTTTGATCCCCGTTCAACGCTTTTA +AATACCGAAATGGGCTTTGTCATTGAAAGTGAAACGCTGGCGACGCTTATTCATAAGCGT +TTTACGCAGAGCCAACGCGATGCGGCCTGGCAACTGCGGCTGGATCGCTGGGGACGAATT +AACTGGATCGATCGTCAGCAAGAAGAGGAAAAGGTGTTAAAGAAAGAACCCGCTACGCGT +TTCTGGCAGCGAGTTCTGGTACGGTTGGCGGCAATTTTACCTGTGGAATGGTTGCTGATG +AGCTCTGTACCCGCGCCGCGTGAATATTTTCTTGACTCTATCCGCGCATGGCTGATGTTG +TTAGGGATTCCCTTTCATATCTCGTTGATCTATTCCACTCACAGTTGGCATGTCAATAGC +GCCGCGCCATCGTGGTGGCTAACCCTGTTTAACGATTTTATCCACGCTTTTCGTATGCAG +GTGTTTTTTGTTATTTCTGGTTATTTTTCGTACATGTTATTTTTACGTTATCCATTAAAA +CACTGGTGGAAAGTACGGGTAGAACGTGTGGGTATTCCCATGCTTACCGCAATCCCTTTG +CTTACCTTGCCGCAATTTATCCTGTTGCAATATGTCAAAGAGAAAACAGAGAACTGGCCT +ACACTCTCTGCCTATGAAAAATATAATACGTTAGCGTGGGAACTCATTTCACATCTGTGG +TTTTTACTGGTGCTGGTGATATTAACCACCGTCAGCATCGGGATTTTTACCTGGTTCCAA +AAAAGGCAGGAAACAAGCAAGCCTCGTCCCGCCGCTATTTCGCTGGCCAAACTTTCGCTT +ATTTTTTTCCTGCTGGGGGTGGCGTACGCTGCTATCAGGCGCATTATATTCATCGTATAT +CCGGCAATCCTCAGTGACGGCATGTTCAATTTTATTGTGATGCAAACGCTATTTTATGTG +CCGTTTTTTATTCTCGGCGCGTTGGCCTTCATTCACCCCGATCTGAAAGCGCGCTTCACC +ACGCCCTCACGCGGATGCACTTTAGGCGCTGCCGTTGCTTTTATCGCGTATCTGCTGAAT +CAACGTTATGGGAGCGGCGACGCCTGGATGTACGAAACCGAATCCGTGATTACGATGGTA +ATGGGGCTATGGATGGTGAACGTGGTATTTTCACTGGGGCATCGCTTGTTAAACTTTCAG +TCCGCGCGTGTCACCTATTTCGTGAATGCTTCGCTGTTTATTTATCTGGTGCATCATCCC +TTAACGCTTTTCTTTGGCGCGTATATTACACCGCATATCTCCTCCAACCTGATCGGGTTC +TTGTGCGGGCTGATATTTGTTATGGGTATTGCGTTAATTCTGTATGAAATTCATTTACGC +ATCCCGCTCCTGAAATTTCTCTTTTCAGGTAAACCGCCGGTAAAACAAGAAAGCCGCGCC +GCGATCGGGATGAAACATAAACGACAAATGATGAAAATGCGTTGGTTGGGCGCAGCTATT +ATGTTAACGCTCTACGCATCATCGAGCTGGGCGTTCAGTATTGATGACGTGGCAAAACAA +GCTCAATCTTTAGCCGGGAAAGGCTATGAGGCGCCTAAAAGCAACTTGCCCTCCGTTTTC +CGCGACATGAAATATGCGGATTATCAGCAGATCCAGTTTAACAGCGATAAAGCCTACTGG +AACAACTTAAAGACCCCTTTTAAGCTCGAATTTTACCATCAGGGGATGTACTTCGATACG +CCGGTCAAGATTAACGAAGTGACGGCGACGACGGTCAAAAGAATCAAATACAGCCCGGAT +TACTTCAATTTTGGCAATGTTCAGCACGATAAAGACACGGTAAAAGATTTAGGCTTCGCC +GGGTTCAAAGTCCTGTACCCCATTAACAGTAAAGATAAGAACGACGAAATCGTCAGTATG +CTTGGCGCCAGCTATTTCCGCGTTATCGGCGCAGGCCAGGTGTATGGCTTATCTGCGCGC +GGCCTGGCGATTGATACCGCCTTACCATCTGGTGAAGAGTTTCCCCGCTTTCGCGAGTTC +TGGATTGAGCGTCCAAAACCCACCGATAAGCGTTTGACCGTCTATGCATTACTGGATTCT +CCGCGCGCGACCGGCGCTTACCGTTTTGTGATCATTCCTGGCCGCGATACCGTGGTGGAC +GTGCAGTCAAAAGTCTATCTGCGCGATAAGGTGGGCAAGCTGGGCGTTGCGCCATTAACC +AGTATGTTCCTGTTTGGGCCAAACCAGCCGTCGCCGACGACCAACTATCGTCCGGAATTG +CATGACTCGAACGGCTTATCCATTCATGCGGGTAATGGCGAGTGGATTTGGCGTCCGCTG +AACAATCCAAAACACCTCGCTGTGAGCAGCTATGCGATGGAAAACCCTCAGGGATTCGGC +CTGTTGCAGCGTGGTCGCGAGTTCTCGCGCTTTGAAGATTTAGACGATCGCTATGACCTG +CGTCCAAGCGCCTGGATTACCCCGAAAGGCGACTGGGGCAAAGGTAAGGTTGAACTGGTT +GAAATTCCGACCAATGATGAAACCAACGATAACATCGTCGCTTACTGGACTCCGGATCAA +CTGCCGGAACCGGGTAAAGAGATGAACTTCAAGTACACTCTGACCTTCAGCCGCGATGAA +GATAAACTTCATGCGCCGGATAATGCCTGGGTGCTGCAAACACGCCGCTCAACGGGCGAC +GTTAAACAGTCGAATCTGATTCGCCAGCCCGACGGCACTATTGCCTTTGTGGTGGATTTC +GTTGGCGCCGACATGAAAAAACTGCCGCCGGATACGCCCGTCGCTGCACAAACCAGCATT +GGCGATAACGGTGAAATCGTTGACAGTAATGTACGCTATAACCCAGTCACTAAAGGCTGG +CGTTTAATGCTGCGCGTGAAAGTCAAAGACGCGAAGAAAACCACGGAAATGCGTGCCGCA +TTGGTGAATGCCGATCAGACGCTAAGTGAAACCTGGAGCTACCAGTTACCTGCCAATGAA +ATGAATAAAACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCA +TTGCCGAAAACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTAC +TCGCGAGAAGACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCG +GATTCATTGGCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCT +ATGCCAAAAGCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGC +CGTTTCTGGGATCGCCTGCGTGGGCGGGATGTAACGCCGCGCTATGTTTCTCGTCTGACA +AAAGAAGAGCAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATT +TTGTTAATTTTGACTCTGGCGCAAACCGTCGTCGCGACCTGGTATATGAAGACCATTCTG +CCCTATCAGGGATGGGCGCTCATCAATCCTATGGATATGGTGGGGCAGGATATTTGGGTC +TCCTTTATGCAGCTCCTGCCCTACATGCTGCAAACCGGTATCCTGATTTTGTTTGCCGTG +CTGTTCTGCTGGGTGTCTGCCGGATTCTGGACGGCGCTGATGGGCTTCCTGCAACTGCTT +ATCGGGCGCGATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCG +GAACACCAGACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCC +GGTCTGCGCGCGACCTGGGAGTCCGTTAAAGCCACAGGCAACGCCGCGCATTTTGACGTC +TATATCCTTAGCGATAGTTATAACCCGGATATCTGCGTGGCGGAGCAAAAGGCGTGGATG +GAGCTCATCGCGGAAGTGCAGGGCGAAGGCCAAATTTTTTACCGTCGCCGCCGCCGCCGT +ATGAAACGCAAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGC +TATATGGTGGTGCTGGACGCGGACTCAGTGATGAGCGGCGAGTGTCTGAGCGGGCTGGTG +CGCCTGATGGAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGG +ATGGATACTCTGTATGCCCGCTGCCAACAGTTCGCGACCCGTGTTTATGGACCGCTGTTT +ACCGCCGGGCTGCACTTCTGGCAGTTGGGGGAGTCGCACTACTGGGGGCACAATGCCATT +ATCCGCGTGAAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCG +TTCGCCGGATCGATTCTTTCCCACGACTTTGTGGAGGCGGCGCTAATGCGTCGGGCAGGG +TGGGGCGTCTGGATTGCCTACGATCTCCCCGGCTCCTATGAAGAGCTGCCGCCAAACCTG +CTGGATGAGCTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTG +TTCCTGGTGAAAGGAATGCACCCGGTGCATCGCGCCGTGTTCCTGACCGGGGTAATGTCA +TACCTGTCCGCGCCGTTATGGTTTATGTTCCTCGCGCTTTCTACCGCGCTGCAGGTCGTT +CATGCGTTAACAGAGCCGCAATATTTCCTTCAGCCGCGCCAGCTTTTTCCGGTCTGGCCG +CAGTGGCGTCCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTG +CCGAAGCTGCTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTC +TGGCGCGTTACGCTGTCGCTATTGCTGGAAGTGCTGTTCTCCGTGTTGCTGGCGCCGGTG +CGTATGCTGTTTCATACCGTGTTTGTGGTCAGCGCGTTCCTCGGCTGGGAAGTGGTCTGG +AACTCACCGCAACGCGACGATGATTCTACGCCGTGGGGAGAAGCCTTTATGCGTCACGGC +TCTCAACTGCTGCTGGGGCTGGTCTGGGCGGTGGGTATGGCGTGGCTGGATTTACGCTTT +CTGTTCTGGCTGGCGCCGATTGTCTTTTCGCTGATTCTGTCGCCATTTGTTTCGGTGATC +TCCAGTCGTTCAACGGTAGGATTACGCACCAAACGCTGGAAGCTGTTCCTGATCCCGGAA +GAGTATTCGCCGCCTCAGGTGTTGGTCGATACCGATAAATATCTGGAGATGAATCGCCGC +CGTATTCTGGACGATGGCTTTATGCATGCGGTATTTAACCCGTCGCTTAATGCGCTGGCG +ACCGCGATGGCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGT +CATGTGGAGCAGGCGCTAAACGAAACGCCGGAGAAACTGAACCGCGATCGGCGTCTGGTT +TTGCTCAGCGATCCGGTGACGATGGCGCGTTTACACTATCGGGTCTGGAATGCGCCAGAG +AGATACTCTTCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAG +GGACGAACATCGTCAGCGGGAGTGCGTATATTCGCGGTGAGCATAATGGTGATTACCCTG +AGCGGCTGCGGCAGTATTATCAGCAGAACGATCCCCGGACAAGGACACGGCAACCAGTAT +TACCCTGGCGTGCAGTGGGATATGCGTGATTCCGCATGGCGCTATATCACTATCCTCGAT +CTGCCCTTCTCACTGATCTTCGATACACTGCTACTGCCGCTCGATATTCACCACGGGCCT +TATGAGATGAAAAAAAACCTGCTGGGATTCACCCTCGCATCCTTGTTATTCACGACCGGT +TCCGCCGTGGCGGCGGAGTATAAAATTGATAAAGAAGGCCAACATGCGTTCGTCAATTTC +CGCATCCAGCATCTGGGCTACAGCTGGCTATACGGCACCTTTAAAGATTTCGACGGCACG +TTCACTTTTGACGAAAAAAATCCGTCAGCAGACAAAGTGAATGTGACCATTAACACCAAT +AGCGTCGACACTAACCATGCCGAACGTGACAAACACCTGCGTAGCGCGGAGTTTCTTAAT +GTTGCGAAATTCCCGCAGGCAACCTTCACCTCTACCAGCGTGAAAAAAGAGGGCGATGAA +CTGGATATTACCGGCAATCTGACGCTCAATGGCGTGACTAAACCGGTGACGCTGGAAGCG +AAGCTGATGGGCCAGGGCGACGATCCGTGGGGCGGTAAGCGCGCGGGCTTTGAGGCCGAA +GGAAAAATTAAGCTGAAAGATTTCAATATAACTACCGATCTCGGCCCAGCCTCACAAGAG +GTGGAGCTTATCATCTCAGTAGAAGGCGTTCAGCAGAAGATGTTACTGATGATGGCGCTG +ATCGTGCGTATTATCTGGCGGCTTTATTCTCCGCCGCCCGTTGCGTTGACCAGCTATTCC +CGTTTAACGCGCATTGGCGCCGCCGCGGGTCATATCCTTCTGTATCTCCTGCTCTTTGCG +ATAATCATTAGCGGCTACCTGATTTCCACCGCCGACGGTAAACCGATTAGCGTCTTTGGC +TGGTTTGAGATTCCGGCCACGCTTACGGACGCGGGCGCGCAGGCTGACATCGCCGGAACA +CTGCATCTGTGGTTTGCCTGGTCGCTGGTCATTATCTCGCTCTCGCATGGGGTTATGGCG +CTAAAACACCATTTCATCGATAAAGACGACACACTGAAACGTATGACAGGAATGTCGTCA +TCTGACTATGGAGCTCAAAAAATGAAATACGACCTTATTATTATCGGCAGCGGTTCGGTT +GGCGCCGCCGCTGGTTATTACGCCACCCGCGCCGGGCTAAAGGTCCTGATGACCGATGCG +CATATGCCGCCTTATCAACAGGGCAGCCACCACGGCGATACCCGTCTTATCCGCCACGCT +TATGGTGAAGGCGAAAAATATGTCCCGCTGGTGCTTCGCGCCCAGACGCTTTGGGATGAG +CTCTCCACACACAATGAAGAGCCTATTTTTGTCCGCTCCGGCGTCGTCAACCTCGGCCCG +GCCGATTCCGCTTTCTTAGCCAACGTCGCACGAAGCGCGCAACAGTGGCAATTGAACGTC +GAGCGCCTGGACGCGACGGCCCTCATGACGCGCTGGCCGGAAATTCGCGTGCCCGATAAT +TATATCGGGCTGTTTGAAGCTGACTCCGGTTTCCTGCGCAGCGAATTAGCCATTACCACA +TGGCTTCGTCTGGCCCGAGAGGCAGGCTGCGCACAGCTATTCAACAGCCCGGTAAGCCAT +ATTCACCATGATGATAACGGTGTGACGATAGAGACGAGTGAAGGCTGCTACCACGCCAGC +AAAGCGCTGATTAGCGCGGGCACCTGGGTCAAAACGCTGGTACCGGAGCTGCCCGTTCAG +CCCGTACGTAAAGTTTTTGCCTGGTTTAAGGCGGATGGACGTTACAGCACTAAAAACCGC +TTTCCGGCCTTTACCGGCGAAATGCCCAACGGCGATCACTATTACGGTTTCCCGGCGGAG +AACGACGAGTTAAAAATCGGCAAACACAATGGCGGGCAGCGAATACAGGCACCGGAAGAG +CGCAAGCCCTTTGCCGCCGTTGCCAGCGATGGCGCGGAAGCATTTCCTTTCCTGCGTAAC +GTACTGCCGGGTATCGGCGGTTGTTTACATGGGGCGGCATGTACCTATGATAATTCGCCG +GACGAGGATTTTATTATCGATACGCTGCCTGGCCATGAGAATACGCTTGTCATCACTGGA +CTCAGCGGACATGGTTTTAAATTCGCCCCGGTGTTAGGAGAAATCGCTGCGGATTTTGCG +TTGGGAAAAACGCCCTCCTTTGATCTGACGCCGTTCCGGCTTTCCCGTTTTAGCCAAATG +GAAAAGAATAATGAAGTCATTCAGACCCATCCGCTTGTAGGATGGGACATCAGCACCGTC +GATAGCTATGATGCGCTGATGCTGCGTTTACACTACCAGACCCCAAATCGTCCGGAACCG +GAAGGGACTGAAGTTGGTCAAACGCTCTGGTTAACGACAGATGTAGCCAGGCAATTTATT +TCAATATTAGAAGCCGGCATCGCCAAAATAGAATCAGGCGATTACCAGGAAAACGAGTAT +CGTCACCAT +>22222_2#22 +ATGCGTATCAGTACCCAGATGATGTACGAACAAAATATGAGCGGCATCACTAATTCTCAG +GCCGAATGGATGAAGCTGGGCGAGCAGATGTCTACCGGTAAGCGCGTTACCAACCCATCT +GACGATCCGATCGCCGCGTCGCAGGCGGTAGTACTCTTTCAGGCGCAGGCGCAGAATAGC +CAGTACGCCCTGGCGCGTACGTTTGCCACCCAAAAAGTGTCGCTGGAAGAAAGCGTACTC +AGTCAGGTGACGACGGCGATTCAAACCGCGCAGGAAAAAATCGTCTATGCCGGAAACGGC +ACGTTAAGCGACGATGACCGCGCGTCGCTGGCGACGGATTTACAGGGGATCCGCGATCAG +CTGATGAACCTGGCAAACAGCACTGACGGCAATGGTCGCTATATCTTTGCCGGGTATAAA +ACGGAAGCGGCGCCATTCGACCAGGCGACAGGTGGTTATCATGGCGGCGAGAAAAGTGTT +ACCCAGCAGGTGGATTCCGCACGCACGATGGTAATTGGCCATACGGGAGCGCAAATTTTT +AATAGCATCACCAGCAATGCGGTGCCGGAACCGGATGGCTCGGACTCCGAAAAGAATCTG +TTTGTCATGCTCGATACGGCAATTGCCGCGCTCAAGACCCCGGTGGAAGGCAATGACGTG +GAAAAAGAAAAAGCCGCTGCCGCCATTGATAAAACCAATCGCGGCTTAAAAAATTCGCTT +AATAACGTCCTGACCGTTCGTGCGGAACTGGGAACGCAACTGAGCGAACTCAGTACGCTG +GATTCACTGGGAAGCGACCGTGCGCTGGGACAGAAGCTACAGATGAGCAACCTGGTAGAT +GTGGACTGGAACTCGGTCATTTCCTCCTACGTCATGCAACAGGCGGCATTACAGGCGTCC +TATAAAACGTTTACCGACATGCAGGGAATGTCGCTTTTCCAGTTGAACCGGATGTCCAGC +TTGATTAATCACGCCATGAGCGGACTTAACGCCGCGCAGGCCGCGTTAAATACGGTCAGT +AATAACATCAACAATTATAACGTTGCGGGTTATACCCGGCAGACAACTATTCTGGCGCAG +GCAAACAGTACGTTAGGGGCTGGCGGCTGGATAGGTAATGGCGTTTACGTTTCAGGCGTA +CAGCGCGAATATGATGCGTTTATCACTAATCAGCTACGCGGCGCGCAAAACCAGAGCAGC +GGCTTAACCACGCGCTATGAACAAATGTCGAAAATCGACAACCTGCTGGCCGATAAATCC +AGCTCACTGTCTGGCTCGCTGCAGAGTTTTTTTACCAGCCTGCAAACGTTAGTCAGTAAT +GCGGAAGATCCTGCGGCGCGTCAGGCGCTGATTGGTAAAGCGGAAGGGCTGGTAAACCAG +TTCAAAACCACCGATCAGTATCTGCGCGATCAGGATAAACAGGTCAATATCGCGATTGGC +TCCAGCGTGGCGCAAATCAACAATTACGCGAAGCAGATAGCTAACCTGAACGATCAAATC +TCCCGTATGACGGGCGTAGGCGCGGGCGCATCGCCGAACGACCTGCTCGATCAACGTGAT +CAGTTGGTTAGCGAGCTTAACAAGATCGTTGGCGTCGAGGTGAGTGTACAGGACGGCGGC +ACCTATAACCTGACGATGGCCAATGGCTATACGCTGGTGCAGGGGTCGACGGCGCGTCAG +TTGGCGGCGGTTCCCTCCAGCGCCGACCCGACGCGAACGACTGTCGCTTATGTCGATGAG +GCCGCCGGTAACATCGAAATTCCGGAAAAGTTGCTGAACACCGGTTCGCTCGGCGGGCTA +CTGACGTTCCGTTCTCAGGATCTGGATCAGACTCGTAATACGCTGGGCCAGTTGGCGTTG +GCGTTTGCCGATGCGTTTAACGCGCAGCATACCAAAGGTTATGACGCCGACGGCAATAAA +GGGAAAGACTTCTTTAGCATTGGCTCGCCGGTGGTATATAGCAACAGTAATAATGCCGAT +AAAACGGTATCGCTAACCGCTAAGGTGGTCGACAGCACGAAGGTTCAGGCGACGGATTAT +AAGATTGTTTTTGACGGTACAGACTGGCAGGTTACTCGCACTGCGGATAACACCACCTTC +ACGGCAACAAAAGATGCTGACGGAAAACTGGAGATTGACGGTCTGAAAGTGACGGTAGGG +ACTGGCGCACAGAAAAACGACAGTTTTCTTCTCAAGCCGGTCAGCAATGCTATCGTCGAC +ATGAACGTTAAAGTGACAAATGAAGCCGAGATTGCGATGGCGTCTGAGTCAAAACTCGAT +CCTGATGTGGATACCGGCGACAGCGATAACCGCAATGGTCAGGCATTGCTGGACTTACAA +AACAGCAATGTAGTGGGCGGCAACAAAACCTTTAACGATGCTTACGCCACGTTGGTCAGC +GATGTGGGTAACAAAACGTCAACGCTGAAAACCAGCAGCACCACGCAGGCGAATGTGGTT +AAACAGCTTTATAAACAGCAACAGTCGGTTTCCGGCGTTAACCTCGACGAAGAGTACGGC +AATTTGCAGCGTTATCAGCAGTATTATCTGGCGAATGCGCAAGTATTGCAGACCGCGAAT +GCGCTGTTTGATGCGTTATTGAATATTCGCATGATCGGAGACGGTAAATTGCTGGCCAGC +GCGGCCTGGGATGCGCAATCTCTGAACGAACTGAAAGCGAAAGCGGGCCAGGACCCGGCG +GCGAATATCCGTCCTGTGGCCCGTCAGGTGGAAGGGATGTTTGTGCAGATGATGCTGAAA +AGTATGCGCGAGGCTTTACCCAAAGATGGTTTATTCAGCAGCGATCAGACGCGTCTGTAT +ACCAGCATGTATGACCAGCAGATCGCCCAGCAGATGACCGCCGGTAAGGGATTGGGGCTG +GCGGATATGATGGTTAAACAGATGACGGGCGGGCAGACGATGCCTGCAGATGATGCGCCG +CAAGTACCGCTTAAATTCTCCCTGGAGACGGTAAACAGCTATCAAAATCAGGCGCTGACC +CAACTGGTGCGCAAAGCCATACCGAAAACGCCGGACAGCAGCGATGCGCCGCTCTCCGGC +GACAGTAAAGACTTTCTGGCCCGGCTTTCGCTCCCGGCGAGGCTGGCCAGCGAACAAAGC +GGGGTGCCGCATCATCTGATTCTGGCGCAGGCGGCGCTGGAGTCCGGCTGGGGGCAGCGG +CAAATCCTGCGGGAGAATGGCGAACCCAGCTATAACGTATTTGGCGTGAAAGCGACCGCC +AGTTGGAAAGGGCCGGTGACGGAAATCACCACCACTGAATACGAAAATGGCGAAGCGAAA +AAAGTGAAAGCGAAATTCCGCGTCTATAGCTCGTATCTGGAGGCGTTATCGGATTATGTC +GCGCTGTTAACGCGTAACCCACGCTACGCTGCCGTGACCACTGCCGCCACGGCAGAGCAG +GGCGCAGTGGCTCTGCAAAACGCCGGATACGCCACTGACCCGAATTACGCGCGTAAATTG +GCCAGCATGATTCAGCAGTTGAAAGCGATGAGTGAAAAGGTCAGCAAAACCTACAGCGCG +AATCTCGACAATCTCTTTGTGTTTAAAGCTCTTGCAGGAATCGTTCTGGCACTGGTTGCC +ACTCTGGCGCACGCCGAGCGTATCCGGGATCTGACCAGTGTCCAGGGAGTACGGGAAAAC +TCGCTGATCGGCTACGGGCTGGTGGTCGGGCTGGACGGTACGGGCGACCAGACGACCCAG +ACGCCATTTACCACCCAGACGCTGAATAACATGCTGTCACAACTGGGGATTACGGTCCCC +ACCGGCACCAATATGCAGTTGAAAAACGTGGCGGCGGTGATGGTGACGGCGTCGTATCCG +CCTTTTGCGCGACAGGGACAAACGATCGATGTCGTCGTTTCCTCAATGGGGAACGCTAAA +AGTCTGCGTGGCGGGACGTTATTAATGACGCCGTTAAAAGGGGTGGACAGCCAGGTGTAT +GCTCTGGCGCAGGGCAATATTCTGGTCGGCGGCGCGGGCGCTTCCGCAGGCGGCAGTAGC +GTGCAGGTTAACCAGCTTAATGGCGGGCGCATCACTAATGGCGCGATTATCGAACGCGAG +TTGCCGACTCAGTTCGGCGCTGGCAACACCATTAATCTGCAATTGAACGACGAAGATTTT +ACGATGGCGCAGCAAATTACCGACGCCATCAACCGCGCCCGCGGTTACGGCAGCGCCACT +GCGCTTGATGCGCGAACGGTACAGGTACGCGTGCCCAGCGGCAACAGCTCGCAGGTGCGT +TTTCTGGCGGACATTCAAAATATGGAAGTCAACGTGACGCCGCAGGATGCAAAAGTCGTG +ATCAACTCGCGTACCGGTTCGGTGGTCATGAATCGGGAAGTCACGCTGGATAGCTGCGCT +GTGGCGCAGGGCAATTTGTCAGTGACAGTCAATCGCCAACTCAACGTCAACCAGCCGAAT +ACGCCATTTGGCGGCGGGCAGACCGTGGTGACGCCACAGACTCAGATAGATTTGCGTCAG +AGCGGCGGATCGCTACAGAGCGTGCGTTCCAGCGCCAATCTGAACAGCGTAGTGCGCGCG +CTGAATGCGCTTGGCGCGACGCCGATGGATCTGATGTCGATTTTGCAGTCCATGCAGAGC +GCGGGCTGTCTACGCGCCAAACTGGAAATCATCATGGCCCTGATGGTCGCGACGCTGACA +GGATGCGCCTGGATACCCGCTAAACCGCTCGTGCAGGGGGCGACCACGGCGCAGCCGATA +CCTGGCCCGGTACCGGTGGCGAATGGCTCCATATTTCAGTCTGCGCAGCCGATTAATTAT +GGCTATCAGCCGCTTTTTGAAGATCGTCGACCGCGTAATATCGGCGATACGCTCACGATT +GTGTTACAGGAAAACGTCAGCGCCAGTAAAAGCTCGTCGGCAAATGCCAGCCGCGACGGC +AAAACCAGCTTTGGTTTTGATACGGTACCGCGTTATCTGCAGGGATTATTCGGTAATTCC +CGCGCGGATATGGAGGCCTCCGGCGGCAACTCTTTTAATGGTAAAGGCGGCGCGAATGCC +AGCAATACCTTTAGCGGCACGCTGACCGTGACCGTCGATCAGGTTCTGGCCAATGGCAAT +TTACACGTCGTGGGGGAAAAACAGATCGCGATTAATCAGGGAACGGAATTCATCCGCTTC +TCCGGCGTGGTAAATCCACGCACCATCAGCGGTAGCAACTCTGTTCCCTCGACACAGGTG +GCGGATGCGCGGATTGAATATGTCGGGAACGGCTATATTAACGAAGCGCAAAATATGGGC +TGGCTGCAACGTTTCTTCCTTAATTTGTCGCCGATGATGATCAGTTCATTATGGATCGCC +AAAACCGGTCTGGACGCGCAGCAAACCAATATGGATGTGATTGCCAATAACCTGGCAAAC +GTCAGCACCAATGGTTTTAAGCGTCAGCGCGCGGTATTTGAAGATCTGTTGTATCAGACC +ATCCGCCAGCCGGGCGCGCAGTCGTCCGAGCAGACGACGCTGCCTTCCGGGCTGCAAATC +GGTACCGGCGTGCGTCCGGTCGCCACGGAGCGCCTGCACAGTCAGGGGAACCTGTCGCAG +ACCAACAACAGTAAAGATGTGGCGATTAAAGGGCAGGGCTTTTTCCAGGTCATGCTGCCG +GACGGTACGTCTGCCTATACCCGCGACGGCTCTTTCCAGGTGGATCAGAATGGTCAACTG +GTGACGGCGGGCGGTTTTCAGGTGCAGCCGGCAATCACCATTCCGGCCAACGCGTTAAGC +ATCACGATTGGCCGCGACGGCGTGGTCAGCGTTACCCAGCAAGGGCAGGCCGCGCCGGTT +CAGGTCGGGCAGCTTAACCTGACCACCTTTATGAACGACACCGGTCTGGAAAGCATCGGC +GAGAACCTCTATATCGAAACGCAATCGTCCGGCGCGCCGAACGAAAGCACGCCGGGGCTC +AACGGCGCGGGGTTGTTGTATCAAGGGTATGTCGAAACGTCGAACGTTAACGTGGCGGAA +GAGCTGGTGAACATGATTCAGGTTCAACGCGCCTATGAAATTAACAGTAAAGCAGTATCG +ACGACCGATCAGATGCTGCAGAAACTGACGCAACTCATGGATCACGCAATTTATACCGCC +ATGGGGGCGGCCAGCCAGACGCTTAACCAGCAGGCGGTAACGGCCAGCAACCTGGCTAAT +GCCTCAACGCCGGGCTTTCGCGCGCAGCTTAACGCGCTACGCGCGGTGCCCGTTGATGGC +CTCTCTTTAGCGACGCGCACGTTGGTTACGGCGTCGACGCCGGGGGCGGATATGACCCAG +GGTCAGTTGGACTACACTTCCCGCCCGCTGGATGTTGCGTTACAGCAGGACGGCTGGCTG +GTGGTGCAAGCGGCGGATGGCGCTGAAGGATATACCCGTAACGGGAATATCCAGGTGGGC +CCGACCGGGCAGTTAACCATTCAGGGACATCCGGTTATCGGCGAAGGCGGCCCGATTACC +GTTCCGGAAGGGTCGGAAATCACCATTGCGGCAGACGGCACGATCTCCGCGCTCAATCCC +GGCGACCCGCCAAACACGGTGGCGCCCGTTGGGCGGCTGAAGCTGGTCAAAGCGGAAGGC +AATGAGGTGCAGCGGAGCGATGACGGTTTATTCCGCCTTACCGCCGAGGCACAGGCTGAA +CGCGGGGCGGTACTGGCCGCCGACCCGTCAATTCGCATTATGTCGGGCGTGCTGGAGGGC +AGTAACGTCAAGCCGGTTGAAGCCATGACCGACATGATCGCCAACGCACGTCGTTTTGAA +ATGCAGATGAAGGTTATCACCAGCGTAGATGAGAACGAAGGGCGAGCTAACCAACTGCTG +TCGATGAGTATGTCTTTTTCTCAAGCGGTTAGCGGCCTGAACGCTGCGGCCACCAACCTT +GATGTTATCGGTAATAACATCGCCAACTCCGCCACCTATGGCTTTAAGTCCGGTACGGCA +TCATTTGCCGATATGTTCGCCGGTTCCAAAGTGGGGTTGGGCGTAAAAGTGGCGGGGATT +ACCCAGGATTTTACCGACGGTACGACAACGAACACCGGGCGCGGGCTGGATGTCGCGATT +AGCCAGAACGGTTTTTTCCGCCTGGTAGACAGCAACGGTTCCGTGTTCTATAGCCGCAAC +GGCCAGTTCAAACTGGACGAGAACCGTAACCTGGTCAATATGCAGGGGATGCAGTTGACC +GGCTATCCGGCCACCGGTACGCCGCCGACCATTCAGCAGGGGGCGAATCCTGCGCCGATC +ACCATTCCGAACACGCTGATGGCGGCGAAATCGACCACCACCGCGTCAATGCAGATCAAC +CTGAACTCAACGGACCCTGTACCGTCTAAAACGCCCTTTAGCGTGAGTGATGCGGATTCG +TATAACAAAAAAGGCACCGTCACCGTTTATGACAGCCAGGGTAATGCCCATGACATGAAC +GTCTATTTTGTGAAAACCAAAGATAATGAATGGGCTGTGTACACCCATGACAGCAGCGAT +CCTGCAGCCACTGCGCCAACAACGGCGTCCACTACGCTGAAATTCAATGAAAACGGGATT +CTGGAGTCTGGCGGTACGGTGAACATCACCACCGGTACGATTAATGGCGCGACAGCGGCC +ACCTTCTCCCTCAGCTTCCTTAACTCCATGCAGCAGAACACCGGGGCTAATAACATCGTC +GCCACCAATCAAAACGGCTATAAGCCTGGCGACCTGGTGAGCTACCAGATTAACAATGAT +GGCACCGTGGTTGGCAACTACTCCAACGAGCAGGAGCAGGTGCTGGGGCAGATTGTGCTG +GCTAACTTCGCCAACAACGAAGGTCTGGCATCCCAGGGCGATAACGTCTGGGCGGCGACG +CAGGCCTCCGGGGTAGCGCTGCTGGGGACTGCCGGTTCCGGCAACTTCGGTAAGCTGACG +AACGGCGCGCTGGAAGCCTCTAACGTGGATTTGAGTAAAGAGCTGGTGAATATGATCGTC +GCGCAGCGTAACTACCAGTCGAATGCGCAGACCATCAAAACCCAGGACCAGATCCTCAAT +ACGCTGGTTAACCTGCGCATGTCTATTGCCGTAAATATGAATGACCCGACCAACACGGGC +GTCAAAACGACGACCGGCAGCGGGTCGATGACCGGAAGCAACGCTGCCGATCTGCAAAGC +AGTTTCCTGACCTTACTGGTCGCGCAATTGAAGAACCAGGACCCGACTAACCCATTACAA +AATAATGAGTTAACGACACAGTTGGCGCAAATCAGTACCGTGAGCGGCATTGAAAAACTG +AATACGACGCTGGGGGCTATTTCCGGGCAAATCGATAATAGTCAGTCCCTACAGGCGACC +ACGCTGATTGGACATGGCGTTATGGTGCCTGGCACCACAATTCTGGCGGGTAAAGGCGCG +GAAGAAGGGGCCGTGACGTCCACGACGCCGTTTGGCGTGGAATTGCAACAGCCTGCGGAC +AAAGTGACGGCAACCATTACCGATAAAGATGGCCGGGTGGTACGGACGCTGGAGATCGGT +GAGTTGCGAGCCGGGGTACACACCTTTACCTGGGATGGTAAGCAAACGGACGGAACAACG +GTACCGAATGGTTCTTACAACATTGCGATTACCGCCAGCAATGGCGGGACGCAACTGGTG +GCGCAGCCGCTGCAATTCGCTCTGGTACAGGGCGTGACGAAGGGCAGTAACGGCAACCTG +TTGGATCTGGGTACCTACGGCACCACCACACTCGACGAAGTTCGGCAAATAATCATGCAA +ATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGCCTACAA +AAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCTAAAGCG +CCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGGAATTAT +CTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAGCGCGAT +CTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCAATGGCA +AACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAAGAAGCT +GCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAGCAGCAA +AATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGATGCTCAG +GTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCATAACGGG +CATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAAGATATC +TTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATTCATCAC +GCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAAACGCTT +TTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTTCTGCGT +CAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGTAAACCT +GAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCCGTCGGG +TTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAAATGCGC +GCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAATAAAGAT +GGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGTGTTAAT +GAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCCGAAGCG +CTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGGGTTGGC +GAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGCCAGATT +AAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAACTCGCA +CAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGTAAAAGC +GGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCTTTCCAT +CAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAAATTTTC +CAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGCGGGGCG +GGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAAAAACGA +GTTGGGGATGATAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATCACATCTATG +AAAAAGTATCTTGCTTTCGCCGTTACGCTGCTGGGTATGGGTAAAGTCATCGCCTGTACT +ACCCTTTTGGTAGGCAATCAGGCTTCGGCTGACGGCTCCTTTATTATCGCGCGCAACGAG +GATGGCTCGGCAAATAACGCCAAGCATAAGGTTATTCATCCCGTCGCGTTTCATCAACAA +GGCGAGTATAAAGCACATCGCAACAATTTTAGCTGGCCGCTTCCGGAGACAGCGATGCGC +TATACGGCGATTCATGACTTTGATACTAACGATAACGCCATGGGTGAAGCCGGTTTCAAT +TCGGCGGGCGTCGGAATGAGCGCAACGGAAACCATTTACAACGGCAGAGCGGCGCTGGCT +GCCGATCCTTACGTGACAAAAACGGGAATCACGGAAGACGCCATTGAGTCCGTGATCCTG +CCAGTGGCGCAATCGGCGCGTCAGGGCGCCAAATTACTGGGAGATATTATTGAACAAAAA +GGCGCGGGCGAAGGTTTCGGCGTCGCGTTTATTGATAGCAAAGAGATATGGTATCTGGAG +ACGGGAAGCGGACATCAATGGCTGGCAGTACGACTTCCGGCAGATAGCTATTTCGTTTCC +GCCAATCAGGGACGTTTACGCCATTACGATCCGAATGATAACGCGAATTATATGGCGTCA +CCAACGTTAGTAAGCTTTGCGAAAAAGCAGGGATTATATGATCCGGCCCGCGGCGAATTC +GACTTTCATCAAGCCTATTCGCAGGATAACAAAAACGATACCACCTATAATTATCCGCGC +GTCTGGACGCTACAACACCAGTTTAATCCGCATCTGGATACGGTCGTTAGCGAAGGGGAA +ACATTTTCTGTTTTTTTAACGCCAATAACGAAGATCAGCGTGGCGGCAGTAAAAAACGCG +TTACGCAATCACTATCAGGGAACGTCGCACGACCCTTATGCCAGTCATAATCCACAAGAA +CCATGGCGACCTATATCCGTTTTTCGTACCCAGGAGTCACATATTTTACAGGTCAGACCG +AAATTACCGCAGGCTATCGGCAACGTAGAATACATCGCCTATGGAATGCCATCTCTTAGC +GTCTATCTCCCCTATTACCAGGGGATGCGTCATTATCAACCCGGAGATGATAAAGGAACC +GATCGGGCGAGCAACGACTCTACCTACTGGACATTCCGCACGCTGCAAACACTGGTTATG +CAAGACTACAATACGTTTGCGCCAGATGTGCAACATGCCTGGAAAACATTTGAACAGCAA +ACAGCTAAGCAACAGTATAAGATGGAGCAGAGCTATCTGAGATTATATGCGTCGCATCCG +AAAGAAGCACAACGCTTACTGCAAAATTTTGAAGATAAAACGATGCAAAATGCGCAGACG +CTCGCCCGTCGCCTGACCAATAATATTATTACGACAATGACTTACCGCACAGATATGAAA +TATCACTTTTCAAGTACGCAGCCAATGGTTAAGTTATCAATGACGCTGCGCCTGACAATT +TCTTTTATCGCCATACTTATCCTCGCCTGTACCGGCATTAGCTGGACGCTCTATAACGCG +CTGAGCAAAGAATTAACGTATCGGGATGATATGACGCTAATAAATCGGGCGGCGCAAATG +CAGCAACTGTTACTGGATGGCGCCAGGCCGGAAAATCTGCCGCTCTATTTCAATCGGATG +GTGGATACGAAGCAGGATATCTTATTGATCCACTCAGCAACAGGCCATAATGTTGCGATT +AATCATAGCGGCATCCCCGACCAACGCTTTAACGAGATTCCGCTGGCTAAAAACATCACC +CGCGAAACCTTATTTCGCCAGGCGGTACAAGGCACGGAGCTGACCGCGGTACGAGTAAAC +GCCAGAAGCGGCGATAACCCGCTGACCCTTACTATTGCCAGGCTGGCGACGGAAAGGCGG +CAAATGCTGGCGCAATATCGCCGCAACAGTTTGCTGATTAGCCTTATCGCGATCCTCGTC +TGTTCGGCGCTCAGTCCATTAGTCATCAGAAACGGGCTGCGGGCCATTACGTCGCTCAGC +CGACTCACCGCGGCGACAGATAGCGGCACACTTCGCCAGCCGCTGGCGGAACAGGCGTTA +CCCGTCGAGCTCAGGCCGCTTGGGCAAGCGCTAAATACCATGCGCCAGAAGCTTTCCGAC +GATTTTGAACGCCTGAACCAATTTGCCGACGATCTGGCGCATGAGCTGCGCACGCCGGTT +AATATTTTACTGGGGAAGAATCAGGTTATGCTGAGTCAGGAACGCAGCGCCGAAGAGTAT +CAACAAGCCCTTGTCGATAATATTGAAGAGCTGGAGGGACTGTCGCGACTGACAGAAAAT +ATTCTCTTTCTGGCACGCGCGGAGCACCAGAATATAGCGGTAAAAAAACAGCCTGTTTCG +CTCAATGCGCTGGTCGAAAATATGCTGGATTATCTTAGCCCCCTTGCCGAAGAGAAGCAC +ATCTGTTTTATAAATCAATGTCAGGGAACGGTATGGGCTGACGAAATATTATTACAAAGA +GTGCTCTCAAACCTGCTGACGAATGCCATCCGTTATTCTGATGAAAACGCCGTGATACGT +ATTGAAAGCGCTTATGATGATAACGTTGCAGAAATTCGGGTCGCTAATCCGGGCAGCCCC +ACCGCCGATGCGGATAAGCTTTTCCGGCGTTTTTGGCGAGGAGATAATGCCCGCTACACT +GCCGGTTTCGGCCTGGGGTTATCGTTAGTTAACGCGATTGCCCTATTGCACGGTGGCTCG +GCATCTTACCGCTATGCCGATGAACATAATATCTTTTCGGTTCGTCTGCCTGATAGCGGT +GATAGCATGTCATCTTGTTGGAGATTTACGGATTCGCTAACAAGCCTATGGCATACTGCG +TTGATGAAGATTTTATTGATTGAAGATAACCAGAAAACCATTGAGTGGGTACGTCAGGGA +CTCACGGAGGCAGGCTATGTGGTTGATTATGCCTGTGATGGACGAGACGGATTACACCTA +GCCCTTCAGGAACATTATTCATTGATTATTCTTGATATTATGCTGCCGGGGCTTGATGGA +TGGCAGGTTTTACGCGCGTTGCGCACTGCATATCAGCCCCCTGTTATTTGCCTGACGGCG +CGCGACTCGGTTGAGGATCGCGTCAAAGGTCTTGAGGCGGGCGCTAATGATTACCTTGTT +AAGCCTTTTTCCTTCGCCGAACTGCTGGCCCGGGTGAGAGCTCAACTCAGACAGCATGTC +CCGGTCTTTACCCGACTGACGATCAATGGTCTGGACATGGATGCCACAAAGCAATCGGTG +TTACGAAATGGCAAACCGATTTCCCTGACCCGCAAAGAATTCCTGCTCCTCTGGTTACTG +GCGTCCCGGGCAGGGGAAATCGTGCCCCGAACCGCGATCGCCAGCGAAGTTTGGGGAATT +AACTTTGATAGTGAAACCAACACCGTTGATGTCGCGATTCGTCGGCTGCGCGCCAAAGTA +GACGATCCATTTGAAAAGAAGCTCATTATGACCGTCCAGGGGATGGGTTATCGATTACAG +GCGGAAACGTCGCAGAATGGTATGAAACGATATATACTGGCTACCGCGATAGCGTCTCTT +GTTGCAGCCCCGGCAATGGCGCTGGCCGCTGGCAGCAATATTCTCAGCGTACATATTCTC +GATCAGCAAACAGGCAAACCAGCGCCCGGCGTGGAGGTGGTACTGGAGCAGAAAAAGGAT +AACGGATGGACGCAATTAAACACCGGGCATACCGACCAGGATGGACGAATTAAAGCACTG +TGGCCCGAAAAAGCTGCCGCGCCGGGGGATTATCGCGTTATTTTTAAAACCGGCCAGTAT +TTTGAAAGTAAAAAACTGGACACGTTTTTCCCGGAGATTCCCGTCGAGTTTCATATCAGC +AAAACGAATGAGCACTATCATGTGCCGCTGTTATTAAGTCAGTATGGTTATTCAACCTAT +CGCGGGAGCATGCAAGTAGATGAACAACGTCTGCGTTTTCGCGATGCGATGGCAAGTCTG +GCGGCAGCGGTCAACATCGTAACCACGGCGGGTCACGCCGGACGCTGCGGTATCACCGCA +ACAGCGGTTTGCTCAGTCACTGATACGCCGCCCTCCGTGATGGTATGTATTAATGCCAAT +AGCGCCATGAACCCCGTTTTTCAGGGCAACGGCAGGCTGTGCATTAATGTACTTAACCAT +GAGCAGGAGCTGATGGCGCGCCACTTTGCCGGTATGACGGGGATGGCGATGGAGGAGCGT +TTTCACCAGCCATGTTGGCAAAACGGGCCGCTGGGCCAGCCGGTACTTAACGGCGCGCTG +GCCAGTCTTGAAGGCGAGATCAGCGAGGTACAAACCATTGGCACGCATCTGGTGTATCTG +GTGGCGATCAAAAATATTATTCTTAGCCAGGAGGGGCATGGCCTGATTTATTTCAAACGC +CGTTTTCATCCGGTCAGACTTGAGATGGAAGCGCCTGTTATGGGACGCACACCGGATTAC +AAAGCCGCCTTTGGCTGCGCTCTGGGCGCTAACCCAGCCTTCTACGGCCAGTTTGAGCAG +AACGCCCGTAACTGGTACACCCGTATTCAGGAGACCGGCCTGTACTTTAACCATGCAATC +GTCAACCCGCCCATTGACCGCCACAAACCTGCCGACGAAGTGAAAGACGTCTATATCAAG +CTGGAGAAAGAGACGGACGCCGGGATTATTGTCAGCGGGGCGAAAGTTGTCGCCACTAAC +TCCGCCCTGACTCACTACAACATGATTGGTTTCGGCTCAGCCCAGGTGATGGGCGAAAAC +CCGGATTTTGCTCTGATGTTTGTCGCGCCAATGGATGCCGAAGGCGTAAAACTTATTTCG +CGCGCCTCGTATGAAATGGTCGCGGGCGCGACGGGCTCGCCGTTTGATTATCCCCTCTCC +AGCCGTTTTGATGAAAACGATGCCATTCTGGTGATGGACAAGGTGCTGATCCCGTGGGAA +AACGTATTAATTTACCGTGATTTCGATCGTTGTCGTCGCTGGACGATGGAAGGCGGCTTT +GCCCGTATGTATCCACTGCAAGCCTGTGTTCGTCTGGCGGTAAAACTTGATTTCATTACC +GCGCTGCTGAAAAAATCGCTCGAATGTACGGGTACCGTAGAGTTCCGGGGCGTGCAGGCC +GATCTCGGCGAAGTCGTGGCCTGGCGCAATATGTTCTGGGCATTGAGCGATTCTATGTGT +TCTGAAGCAACCCCGTGGGTAAACGGCGCCTGGCTACCGGACCACGCCGCGCTGCAAACC +TATCGTGTGATGGCCCCAATGGCCTACGCGAAAATTAAAAATATTATTGAACGTAACGTT +ACCAGCGGCCTGATTTACCTGCCTTCCAGCGCCCGCGATCTGAATAATCCGCAAATCGAC +CAGTACCTGGCGAAATACGTACGCGGCTCTAACGGAATGGACCATGTTGAACGTATCAAA +ATTCTTAAATTGATGTGGGATGCCATCGGCAGCGAGTTTGGCGGTCGCCATGAGCTGTAC +GAGATTAACTACTCGGGCAGCCAGGATGAAATTCGTCTGCAGTGTCTGCGTCAGGCCCAG +AGCTCCGGCAATATGGATAAGATGATGGCAATGGTCGATCGCTGCCTCTCCGAATACGAT +CAGAATGGCTGGACGGTTTCGCATTTGCACAATAACGACGACATCAATCAACTGGATAAG +CTGCTGAAAATGCATGATTCATTAACCATCGCCTTGCTTCAGGCGCGCGAAGCGGCAATG +ACCTATTTCCGCCCCATCGTTAAAAGCCACAATCTGACCGACCAGCAATGGCGCATTGTG +CGAATCCTGGCCGATAGCCCCTCTATGGATTTTCACGAGCTGGCCTTTCGTACCTGTATT +TTGCGTCCAAGTCTGACCGGAATATTGACGCGCATGGAGCGAGACGGACTGGTGTTGCGA +CTCAAGCCGGTTAACGATCAGCGTAAGTTATATGTCATGTTGACGGAGCAGGGACAAACG +TTGTACGCCCGTGCCCGGAGCGAGGTAGAAGAGGCTTATCGAAAAATTGAGGCCGATTTC +ACGCCCGAAAAAACACAGCAATTGATGCTGCTGCTGGACGATCTTATTGCTCTGGGGCGC +CAGCATCCTGATAGCGAAGCGGAAGCAATGAAGGGTACTGTTTTCGCCGTTGCGTTAAAC +CATCGCAGCCAGCTTGATGCCTGGCAAGAGGCTTTCTCTCAGCCTCCCTATAATGCGCCG +CCTAAAACCGCAGTGTGGTTCATCAAGCCGCGTAATACGGTGATTCGTCACGGCGAACCC +ATTCCTTATCCGCAGGGAGAAAAGGTACTGAGCGGCGCGACAGTGGCGCTCATTGTGGGG +AAAACCGCCAGCCGGATACGCCCTGAAGCGGCGGCGGACTATATCGCCGGGTATGCGCTG +GCTAACGAGGTCAGCCTGCCGGAAGAGAGCTTTTATCGCCCGGCGATTAAAGCGAAATGT +CGCGATGGCTTTTGCCCGCTGGGTGAAATGGCGCCGCTGAGTGATGTGGATAATCTCACC +ATTATCACTGAAATCAACGGACGAGAAGCGGACCACTGGAATACTGCCGATTTACAGCGT +AGCGCCGCACAACTGCTTAGCGCGTTAAGTGAGTTCGCTACACTTAACCCTGGCGATGCG +ATCTTACTTGGTACGCCGCAGAATCGCGTTGCGCTGCGTCCCGGCGATCGGGTGCGTATT +CTGGCGAAAGGTTTACCCGCGCTGGAAAATCCGGTTGTCGCAGAAGATGAATTCGCCCGC +CACCAGACGTTTACGTGGCCGCTGTCAGCGACGGGAACGTTATTTGCGCTGGGGTTGAAC +TACGCCGATCACGCCAGCGAGCTGGCATTTACGCCGCCGAAAGAGCCGCTGGTATTTATC +AAAGCGCCAAACACCTTTACCGAACATCACCAAACGTCGGTGCGCCCGAACAACGTCGAA +TATATGCACTACGAAGCCGAGCTGGTCGTGGTGATTGGCAAAACGGCGCGTAAGGTGAGC +GAAGCCGAAGCCATGGAGTATGTGGCCGGTTACACCGTCTGTAACGACTACGCGATCCGC +GACTATCTGGAAAACTACTACCGTCCGAATCTGCGGGTAAAAAGCCGCGACGGCCTGACG +CCGATAGGCCCGTGGATTGTGGATAAAGAGGCGGTTTCTGATCCGCACAACCTGACGTTA +CGCACCTTTGTCAACGGTGAGCTGCGGCAGGAAGGGACGACCGCCGATCTGATCTTCAGC +ATCCCGTTCCTGATTTCTTATCTGAGCGAATTTATGACGTTGCAACCGGGCGACATGATT +GCCACCGGTACGCCGAAAGGGCTGTCCGATGTGGTGCCGGGGGATGAAGTTGTCGTTGAA +GTAGAAGGCGTGGGTCGCCTGGTTAACCGAATCGTCAGTGAGGAGAGCGCAAAAATGAAG +AAAATAAATCATTGGATTAACGGCAAAAACGTTGCAGGTAACGACTACTTCCAGACCACT +AACCCGGCGACCGGTGATGTGCTGGCGGAAGTAGCCTCCGGCGGTGAAGCAGAAGTGAAC +CAGGCTGTCGCGGCGGCAAAAGAGGCGTTCCCGAAATGGGCCAACCTGCCGATGAAAGAG +CGCGCGCGCCTGATGCGCCGCCTTGGCGACCTGATTGACCAGCATGTGCCGGAAATCGCG +GCGATGGAAACCGCCGACACCGGCCTGCCTATTCACCAGACTAAAACGTGCGTGCTGATC +CCGCGCGCCTCGCATAACTTCGAATTCTTCGCCGAAGTGTGCCAGCAGATGAACGGCAAG +ACCTATCCGGTTGACGATAAAATGCTCAATTATACGCTGGTGCAGCCCGTCGGCGTCTGC +GCGCTGGTGTCGCCGTGGAACGTGCCGTTTATGACCGCGACTTGGAAAGTTGCGCCGTGC +CTGGCGCTGGGTAACACCGCGGTGCTCAAAATGTCCGAGCTGTCGCCGCTGACTGCCGAC +AGGCTGGGCGAGCTGGCACTGGAGGCAGGAATTCCGGCAGGCGTGCTGAACGTGGTGCAG +GGCTACGGCGCGACGGCGGGCGATGCGCTGGTACGCCACCATGACGTGCGTGCGGTGTCG +TTTACCGGCGGTACCGCCACCGGTCGCAATATCATGAAAAATGCCGGGCTGAAAAAATAC +TCGATGGAGCTGGGCGGCAAATCGCCGGTGCTGATTTTTGAAGACGCCGACATTGAGCGC +GCGCTGGACGCCGCGCTGTTCACCATCTTCTCGATCAACGGCGAACGCTGCACCGCTGGG +TCGCGCATCTTTATCCAGCAGAGCATTTACCCTGAGTTCGTGAAGCGCTTTGCCGAACGC +GCGAATCGCCTGCGTGTCGGCGATCCGACCGACCCGAACACCCAGGTCGGCGCGCTGATT +AGCCAACAGCACTGGGAGAAAGTCTCCGGTTATATCCGCCTCGGCATTGAAGAGGGGGCA +ACGCTGCTGGCGGGCGGTGCGGAAAAACCCACTGACCTGCCTGCGCATCTGAAAGGCGGT +AACTTCCTGCGCCCAACCGTGCTGGCCGATGTCGACAACCGTATGCGCGTTGCGCAGGAA +GAGATCTTTGGGCCGGTCGCCTGCCTGCTGCCATTCAAAGACGAAGCGGAAGGGTTACGT +TTGGCGAACGATGTGGAATACGGTCTGGCCTCTTATATCTGGACCCAGGACGTGAGCAAA +GTGTTGCGCCTGGCGCGTGGGATTGAAGCCGGCATGGTCTTCGTCAACACCCAGAACGTC +CGCGACCTGCGCCAGCCGTTCGGCGGCGTGAAAGCCTCCGGTACCGGGCGCGAAGGCGGC +GAATATAGCTTCGAAGTGTTTGCGGAAATGAAAAACGTCTGCATCTCAATGGGCGACCAT +CCTATCCCAAAATGGGGAGTTATGGGCAAGTTAGCGTTAGCAGCAAAAATTACCCACGTG +CCGTCGATGTATCTTTCTGAACTGCCAGGAAAAAATCACGGTTGTCGTCAGGCAGCCATT +GATGGGCATATTGAAATTGGCAAGCGTTGCCGCGAAATGGGCGTTGACACCATTATCGTA +TTCGACACCCACTGGCTGGTGAATAGCGCTTACCACATTAATTGTGCCGACCATTTCCAG +GGCGTCTATACCAGCAACGAATTGCCGCACTTTATTCGCGACATGACCTATGACTATGAC +GGTAATCCGGCGCTCGGCCATCTGATCGCCGACGAGGCGGTCAAACTGGGCGTGCGCGCC +AAAGCGCACAACATCCCGAGCCTGAAGCTGGAGTATGGCACGCTGGTGCCGATGCGCTAC +ATGAACAGCGACAAGCACTTCAAAGTGGTCTCCATCTCGGCGTTCTGCACTGTGCATGAT +TTTGCCGACAGCCGCAAACTGGGCGAAGCCATTCTCAAGGCGATTGAGAAATATGACGGT +ACCGTAGCGGTATTCGCCAGTGGTTCTCTGTCGCACCGTTTTATTGACGACCAACGGGCG +GAAGAGGGGATGAACAGCTACACCCGCGAGTTCGATCATCAAATGGACGAGCGCGTGGTC +AAGCTGTGGCGCGAAGGCAAATTCAAGGAGTTTTGCACCATGTTGCCGGAGTACGCCGAC +TACTGCTACGGCGAAGGCAACATGCACGACACGGTCATGCTACTGGGAATGCTGGGGTGG +GACAAATACGACGGCAAGGTGGAGTTCATCACCGACCTGTTCGCCAGCTCCGGTACCGGC +CAGGTAAACGCTGTTTTCCCGCTGCCTGCGATGCCGCACTTTATTGCTGAATGTACTGAA +AATATTCGCGAGCAGGCTGATTTACCAAGCCTGTTCAGCAAGGTAAACGAGGCGCTGGCC +GCCACCGGGATTTTCCCCATCGGCGGTATCCGCAGTCGCGCCCACTGGCTGGATACCTGG +CAGATGGCTGACGGTAAGCATGATTACGCGTTTGTGCATATGACGCTGAAAATCGGCGCC +GGGCGCAGCCTGGAGAGCCGTCAGGAAGTCGGCGAAATGCTGTTTGGGCTGATTAAAGCC +CACTTCGCCGACCTGATGGAGAACCGCTATCTGGCGCTGTCGTTTGAGATTGCCGAGTTA +CATCCAACGCTCAATTACAAACAAAACAACGTACACGCGTTATTTAAAATGCTCGATAAA +CAGACCCATACCCTGATCGCTCAGCGACTTAATCAGGCTGAAAAACAGCGTGAACAGATT +CGCGCAGTGTCGCTGGATTATCCCAACATCACTATTGAAGATGCCTATGCCGTACAGCGT +GAATGGGTCAATATCAAGATTGCCGAAGGGCGCACGCTCAAAGGCCACAAAATCGGCCTG +ACCTCAAAAGCGATGCAGGCCAGCTCGCAAATCAGCGAACCGGATTACGGCGCGCTGCTT +GACGATATGTTCTTCCATGACGGCGGAGATATCCCCACCGACCGTTTTATCGTCCCGCGT +ATTGAAGTGGAGCTGGCGTTCGTGCTGGCGAAACCGCTGCGCGGCCCTCACTGCACGCTG +TTCGACGTCTACAACGCCACGGATTATGTGATTCCGGCGCTGGAACTGATTGACGCCCGC +AGCCACAACATCGACCCGGAAACCCAGCGCCCGCGCAAAGTGTTCGACACCATTTCCGAC +AACGCCGCCAACGCCGGGGTGATCCTCGGTGGTCGCCCCATCAAACCAGACGAGCTGGAT +CTGCGCTGGATCTCCGCGCTGCTCTATCGCAACGGCGTGATCGAAGAAACCGGCGTCGCC +GCAGGCGTGCTGAATCATCCGGCCAACGGCGTGGCGTGGCTGGCGAACAAGCTTGCCCCC +TACGATGTCCAGCTTGAAGCCGGGCAGATCATCCTCGGCGGCTCGTTCACCCGCCCGGTG +CCGGCGCGCAAGGGCGACACCTTCCATGTCGATTACGGCAACATGGGCGCGATCAGTTGC +CGGTTTGTGATGAAAAATGCTTTCAAAGACGCGTTAAAAGCGGGGCGCCCGCAAATCGGT +TTGTGGCTGGGGCTTGCCAACAGTTACAGCGCTGAACTGTTAGCGGGCGCCGGCTTCGAC +TGGCTACTGATTGACGGTGAACACGCGCCAAACAACGTGCAGACGGTGTTGACCCAGTTG +CAGGCGATTGCGCCTTATCCCAGCCAGCCGGTGGTGCGTCCGTCATGGAACGATCCGGTA +CAGATTAAGCAACTGCTCGACGTCGGCGCGCAAACGCTGCTGATACCGATGGTGCAGAAT +GCCGATGAAGCGCGAAACGCCGTGGCGGCTACGCGTTATCCGCCTGCCGGTATTCGCGGC +GTGGGCAGCGCGCTGGCGCGGGCATCGCGCTGGAATCGCATTCCGGACTATCTCCACCAG +GCCAACGACGCCATGTGCGTACTGGTGCAGATTGAAACGCGTGAGGCGATGAGCAATCTG +GCGTCAATTCTCGACGTGGATGGCATTGACGGCGTGTTTATTGGCCCGGCGGATCTCAGC +GCCGATATGGGCTTTGCCGGCAATCCGCAGCACCCGGAAGTGCAGGCGGCGATTGAGAAC +GCCATCGTGCAGATACGCGCGGCGGGGAAAGCGCCGGGGATTCTGATGGCCAATGAAGCA +CTGGCGAAACGTTATCTGGAACTGGGGGCGCTATTTGTCGCCGTCGGCGTTGACACCACG +CTGCTGGCGCGCGGAGCGGAGGCGCTGGCGGCGCGCTTTGGCGCAGAAAAAAAACTGTCC +GGTGCGTCCGGCGTCTATATGAGCGACACATCATCTGCACTTCCGGAAAGCCCCGAGTCT +GTCGGTTCGCACAACGCGCTCAGCACGGGTCAACAAACCGTCATAAATAAACTGTTCCGC +CGACTGATCGTATTTTTATTCGTGTTGTTTATCTTCTCGTTTTTAGACCGTATCAACATC +GGTTTTGCCGGGTTGACGATGGGGCAGGATCTGGGGTTAAGCGCCACCATGTTTGGTCTT +GCCACGACGCTGTTTTACGCCACCTACGTCATTTTCGGCATTCCCAGCAACGTGATGTTG +AGCATCGTCGGCGCCCGCCGCTGGATTGCGACCATTATGGTGCTATGGGGCATTGCATCT +ACCGCCACGATGTTCGCGGTGGGACCGAAAAGCCTGTATGTGCTGCGAATGCTGGTGGGC +ATTACCGAAGCGGGCTTTTTGCCAGGAATATTGCTCTATTTAACCTACTGGTTCCCGGCA +TTTTTCCGCGCCCGCGCCAACGCATTATTTATGATTGCCATGCCGGCCACTACCGCGTTG +GGGTCAATTGTCTCCGGCTATATTTTATCGCTGGACGGCATATTCAATCTGCATGGATGG +CAGTGGTTATTCCTGTTGGAAGGATTTCCGTCAGTTTTGTTAGGCATTATGGTCTGGTTT +TACCTGGATGATACCCCGGCAAAAGCCAAATGGCTGACGGCAGAGGATAAAAAATGTTTG +CAGGAGATGATGGATAATGATCGCCTGACGCTGGTTCAGCCTGAGGGGGCCATCAGCCAT +AACGCCATGCAGCAGCGTAGCCTGTGGCGCGAAGTATTCACGCCAATTGTACTGATGTAT +ACGCTGGCCTATTTTTGCCTTACCAATACGCTTAGCGCCATTAGTATCTGGACGCCGCAA +ATCCTGAAAAGTTTTAATGAAGGCAGCAGCAATATCACCATCGGCCTGCTGGCGGCGATC +CCGCAGATTTGTACTGTTCTGGGCATGATTTACTGGAGCCGCCATTCGGACAAACATCAG +GAGCGTAAACACCACACTGCGTTACCGTTCCTGTTTGCCGCCGCGGGCTGGCTGCTGGCG +TCGGCGACCGACCGTAACCTGATCCAGCTCCTGGGGATCGTGATGGCATCCACGGGTTCC +TTTAGCGCGATGGCGATCTTCTGGACCACGCCGGATCAGTCGATCAGTTTACGCGCCAGG +GCGATAGGCATTGCGGTCATCAATGCCACCGGCAATATTGGCTCCGCGCTCAGCCCGGTT +ATGATTGGCTGGCTAAAAGATATCACTGGTAGCTTCAATAGCGGACTCTGGTTTGTCGCT +TCTCTGTTAGTCGTCGGCGCCGCCATTATCTGGCTCATTCCCATGAAAGCATCGCGTCCG +CGCGCCACCCCTATGTGCCAACGTGCGATCGCCAATATTGATATCAGCAAAGAGTATGAC +GAAAGCATGGGCAGTAACGATGTGCATTATCAGTCGTTTGCTCGTATGGCGGATTTCTTT +GGTCGTGATATGCAGGCGCATCGCCACGACCAGTTTTTTCAAATGCACTTTCTTGATACC +GGGCAGATTGAGCTACAGCTCGACGATCATCGCTATTCGGTGCAGGCGCCGCTATTTGTG +CTAACGCCGCCCTCGGTGCCGCATGCTTTTATTACCGAATCGGATAGCGATGGTCATGTT +CTGACGGTACGCGAAGAGCTGGTTTGGCCGCTGCTGGAAGTGCTTTATCCCGGCACCAGA +GAGGCCTTCGGCCTGCCGGGAATCTGCCTGTCGCTGGCGGATAAACTCAACGAGCTGGCG +GCGCTCAAACATTACTGGCAGCTAATTGAGCGGGAGTCCACGGAACAACTGGCTGGCTGC +GAACATACCTTGGTACTACTGGCGCAGGCGGTATTTACCTTGCTGTTGCGTAATGCGAAG +CTGGACGATCATGCCGCAACCGGGATGCGCGGTGAACTGAAACTTTTTCAGCGCTTTACC +CTGTTAATTGACAACCACTTCCATCAGCACTGGACGGTGCCCGATTATGCCTGTGAGTTG +CATATTACCGAATCTCGTTTGACCGATATTTGCCGACGTTTTGCTAATCGCCCGCCTAAA +CGCCTGATTTTTGATCGGCAATTACGCGAGGCGAAACGACTGCTGCTTTTTTCCGACAAT +GCTGTCAACGAGATCGCCTGGCAATTAGGTTTTAAAGATCCGGCTTATTTCGCCCGTTTC +TTTAATCGCCTTGCTGGCTGTTCTCCTTCGCAGTTTCGCCAACGTGAAGTTCCTTCTTTT +CTCAACATGATGAAAAAAAGCGTCGCTATGCTGGCGGTTTGTATGCTGGCGCAAAGCCAC +CTTGCCATTGCTGCCGGTGCTCCTGCGCCTCAAGAGATCAACATTGTTTTACTGGGCACC +AAAGGCGGGCCTTCTTTGCTCAATACAGCCAGACTACCGCAAGCGACGGCGCTCACTATC +GGCGATAAGATATGGCTGATAGATGCCGGCTACGGCGCCAGTCTGCAACTGGTGAAAAAT +GGCATTCCACTGCGCAACATCAATACTATTTTGCTCACCCATCTGCACAGCGACCACATA +CTGGATTATCCTTCCTTGCTGATGAATGCCTGGGCAAGTGGCCTGAAAGACCATACCATA +CAGGTTTATGGCCCGCCGGGAACCCAGGCGATGACGAAGGCTAGCTGGAAGGTCTTTGAC +AGGGATATCACGTTACGCATGGAAGAAGAGGGGAAACCCGATCCGCGCAACCTGGTTAAG +GCGACCGATATCGGCCAGGGCGTCATCTATAAAGATGAACTGGTCACAATAAGCGCGCTG +AAAGTGCCTCATTCCCCTTTCCCGGACGGTGAAGCGTTTGCTTACCGTTTTGATACTCAG +GGTAAGCGAATCGTCTTCTCTGGCGATACGTCCTGGTTTCCTCCGCTTGCAACGTTTGCC +CAGGGGGCGGATATCCTGGTACATGAGGCGGTACATGTCCCTTCGGTAGCAAAACTGGCT +AATAGTATTGGCAACGGAAAAACGCTGGCTGAAGCGATTGCGTCGCATCACACCACGATT +GAAGATGTCGGTAAGATTGCTCGCGAGGCCCACGTGAAAAAACTGGTGTTAAGTCATCTG +GTGCCTGCGACGGTTGCGGATGACGTCTGGCAACAGGAAGCCATGAAAAATTACCCGGGC +CCTGTCATTGTCGGTCATGACAATATGACGATAAGCGTACCGATGGCTAACATCACTGTC +ACCTTTACCATCACCGAATTTTGTTTGCACACCGGCGTGACGGAAGAGGAGCTAAACGAA +ATCGTCGGACTTGGCGTAATTGAGCCTTACGAAGACGATAACGCCGACTGGCAATTCGAC +GATCGCGCAGCGAGCGTGGTACAACGCGCGCTACGCTTACGCGAGGAGCTGGCGCTCGAC +TGGCCAGGGATCGCGGTCGCGTTAACGCTGCTGGAAGAGAATTCACGGCTGCGCGAAGAA +AACCGGTTACTGCTGCAACGCCTTTCTCGCTTTATCTCGCATCCCATGGAACTTAAGGAT +TATTACGCCATTATGGGCGTGAAACCGACGGACGATCTCAAGACGATTAAGACCGCCTAT +CGCCGACTGGCCCGCAAGTACCATCCAGATGTCAGCAAAGAACCCGATGCCGAAGCCCGT +TTCAAAGAGGTTGCTGAAGCATGGGAAGTGCTGAGTGATGAGCAACGGCGCGCCGAGTAT +GACCAGTTATGGCAACACCGTAACGATCCACAATTTAATCGCCAGTTCCAGCAACACGAA +GGCCAGCCGTATAACGCCGAAGATTTTGATGATATTTTCTCGTCTATTTTTGGTCAGCAC +GGTCGTCATTCGCACCACCGCCACGCCGCACGCGGTCATGATATCGAAATTGAAGTGGCG +GTATTCCTGGAAGAAACGCTGGAAGAGCACCAGCGTACGATTAGCTATTCCGTCCCCGTT +TATAACGCGTTCGGCCTGGTGGAGCGGGAAATTCCCAAAACATTGAATGTGAAAATCCCG +GCTGGCGTCAGCAACGGGCAACGAATCAGACTGAAAGGCCAGGGCACGCCGGGGGAAAAC +GGCGGACCTAATGGCGATTTATGGCTCGTTATCCATATTGCCCCGCATCCGCTCTTTGAT +ATCGTCAATCAGGATCTGGAAGTCGTCCTTCCGCTTGCCCCATGGGAGGCGGCGCTCGGC +GCTAAGGTGTCTGTGCCAACGCTTAAAGAGCGTATTTTGCTGACCATTCCCCCCGGCAGC +CAGGCAGGTCAGCGGCTGCGTATCAAAGGAAAAGGATTAGCCAGTAAAAAGCACACTGGC +GATCTCTATGCCATCATCAAAATCGTTATGCCGCCGAAACCTGACGAGAAAACAGCTGCC +CTGTGGCAACAACTGGCGGACGCGCAGTCGTCCTTTGACCCACGCCAGCAATGGGGGAAA +GCAATGGCGAAACAACAACGGATGGGCTGGTGGTTTCTTTGCCTTGCATGTGTCGTGGTA +ATGGTTTGTACCGCGCAACGCATGGCGGGCCTGCACGCCTTGCAGATGCAGGCGACGGCC +TCTGCTGCGGTGGTCAGCGCTCCCTCCTCGACAGATGACGGCTCGCCGGTCACTCCCTGC +GAATTAAGCGCCAAGTCGCTGCTGGCGGCGCCTCCAGTACTCTTTGAAGGTGCTATCCTT +GCGCTTTATCTACTGCTTTCCTTACTGGCGCCTGTCCGGGTCATGCGCCTGCCGTTTTCG +CCTCCACGGGCTATTTCGCCGCCCACATTACGGGTACATCTACGATTTTGTGTCTTCCGT +GAAATGATGATTTTATTCAGGCGGATACTGTTCTGCCTGTTATGGCTTTGGCTGCCCGTC +TCCTGGGCGGCGGAAAGCGGCTGGCTGCGTTCGCCCGATAACGACCATGCCAGCATACGG +CTACGTGCCGATACGTCCGCTAACAGTGAGACCCGGCTGTTGCTGGATGTCAAACTGGAA +AACGGCTGGAAAACCTACTGGCGCGCGCCGGGGGAAGGGGGCGTGGCACCCTCTATCGCC +TGGAAAGGCGACATGCCTGAGGTAAGCTGGTTCTGGCCAACCCCCTCGCGCTTTGATGTG +GCGAATATCACCACCCAGGGATATCACGACGAGGTGACCTTTCCGATGATCGTGCGCGGT +ACGCCGCCGGCGACCTTGCGCGGTGTGTTGACGTTATCAACCTGCAGCAATGTTTGTCTG +TTGACCGATTACCCCTTTTCCGTGACGCCCACTGTGCAGAATGCCGATTTTGCCCATGAC +TATGCGCGGGCGATGGGTAAAGTTCCGCTCCGCAGTGGGCTAACGGACTCGCTTGACGTT +GGCTATCGCCCGGGAGAACTGGTGGTCACTGCTACGCGAGCGGCGGGCTGGTCATCGCCC +GGGCTCTATCTTGACACCATAGATGACGTCGATTTTGCGAAGCCTCGCCTGCGCGTAGAG +GGCGACAGGTTACAGGCGACGGTGCCGGTGACGGACAGTTGGGGCGAAAAGGCGCCCGAT +TTGCGCGACAAATCGCTGACCCTCGTGTTAGCCGATGGCGCTATCGCCCAGGAGAGCACG +CAAACCATTGGCGCTGCGCCAGCGCAAACGCCGGACAATGCGGCGCTACCTTTCTGGCAA +GTTGTAATGATGGCGCTAATCGGCGGACTGATTCTTAATTTAATGCCCTGCGTACTGCCT +GTTCTGGGCATGAAACTTGGCTCTATTTTATTGGTAGAGGAAAAAAGCCGCTCTCACATC +AGGCGACAATTTTTGGCTTCGGTCGCCGGTATCATTGCGTCATTTATGGCGCTGGCGGCG +TTTATGACCCTCCTTCGCCTGTCAAACCATGCGCTGGCCTGGGGAGTCCAGTTCCAGAAT +GCATGGTTTATTGGTTTTATGGCGCTGGTGATGTTGTTGTTTAGCGCCAGCCTGTTCGGG +CTTTTTGAGTTCAGGCTTCCCTCATCTATGACCACGAAACTGGCCACTTACGGCGGTAAC +GGTATGTCGGGACATTTCTGGCAGGGGGCGTTCGCCACGCTGCTGGCGACGCCTTGTAGC +GCGCCGTTTCTGGGCACGGCGGTCGCGGTGGCGCTCACGGCGTCGCTGCCGACGCTGTGG +GGGCTGTTCCTTGCGCTTGGCCTGGGAATGAGCGCGCCGTGGCTACTGGTCGCGATACGA +CCAGGGCTTGCGCTACGTTTACCGCGCCCCGGGCGTTGGATGAATGTCCTGCGCAGGATC +CTCGGTCTGATGATGCTGGGGTCGGCTATCTGGCTGGCGACGTTACTCCTGCCGCATTTC +GGCTTCACTGCGTCAAAGAGCGCGCAAGACACGGTTCAGTGGCAACCGTTGAGTGAACAG +GCAATCCAGTCGGCGCTGGCGCAGCATAAGCGGGTATTTGTCGATGTCACTGCGGACTGG +TGTATTACCTGTAAAGTGAATAAATACAACGTCCTGCAAAAAGAGGATGTGCAGGCCGCC +TTGCAACAGCCGGATGTTGTGGCGCTGCGGGGAGACTGGACGCTGCCGTCCGATGCCATT +ACAGATTTTCTGAAAACGCGCGGCCAGGTCGCCGTGCCGTTTAATCAGGTATATGGCCCC +GGTTTGCCGGAAGGGGAGGCACTGCCCACTTTGCTGACCCGCGATGCGGTATTACAAACG +TTGAAAAAAGCGAAAGGAATAACCCAAATGAAATACATGATTGTTTTACTGCTGGCGCTG +TTTTCGACGCTGAGCATCGCGCAAGAAACCGCTCCTTTTACGCCGGATCAGGAAAAGCAG +ATTAAAAATCTGATCCATGCGGCGTTGTTTAACGATCCTGCCAGCCCGCGGATAGGCGCT +AAACACCCTAAGCTGACGCTGGTGAACTTTACGGATTACAACTGCCCGTACTGCAAACAG +CTCGATCCGATGCTGGAAAAGATTGTGCAGAAATATCCTGACGTTGCGGTCATTATTAAA +CCGCTGCCATTCAAAGGAGAGAGTTCCATACTGGCGGCGCGTATTGCGCTGACCACCTGG +CGCGATCATCCGCAACAGTTCCTCGCGCTACATGAAAAACTTATGCAAAAGCGCGGTTAC +CATACGGATGACAGTATTAAACAGGCCCAGCAGAAAGCAGGGGCGACGCCAGTGACGCTG +GATGAAAAAAGCATGGAAACGATACGCACTAATTTGCAGTTGGCAAGACTGGTCGACGTG +CAAGGAACGCCAGCGACGATCATTGGCGACGAGCTGATTCCGGGCGCAGTGCCCTGGGAT +ACGCTGGAAGCGGTGGTGAAAGAAAAACTGGCGGCTGCCAATGGCGGGATGGCGGGTAAA +CTGCGGCGTTGGCTGCGTGAAGCCGCGGTTTTTCTGGCGCTCCTCATCGCGATAATGGTG +GTCATGGACGTCTGGCGCGCGCCGCAGGCGCCTCCGGCGTTTGCCGCGACACCATTACAT +ACGCTGACGGGAGAGTCGACAACTCTGGCGACCTTGAGCGAGGAACGCCCCGTACTGCTC +TATTTTTGGGCCAGCTGGTGCGGGGTATGCCGCTTTACCACGCCTGCGGTCGCTCACCTG +GCGGCGGAAGGGGAAAACGTCATGACCGTTGCGCTCCGCTCCGGCGGTGATGCTGAGGTT +GCCCGCTGGCTGGCGCGCAAGGGCGTTGACTTCCCGGTCGTCAATGATGCTAACGGCGCC +TTATCCGCTGGCTGGGAAATCAGCGTGACGCCAACGCTGGTGGTGGTTTCACAAGGTCGG +GTTGTGTTCACCACCAGCGGCTGGACCAGCTATTGGGGCATGAAGCTTCGGCTGTGGTGG +GCAAAAACGTTCATGAAAAAATCATTACTCGCTGTTGCTGTGGCAGGGGCTGTTTTGTTG +TCATCCGCCGTACAGGCGCAGACAACGCCGGAAGGTTATCAATTACAACAGGTGCTGATG +ATGAGCCGCCATAATCTGCGGGCGCCGCTGGCGAATAATGGCAACGTACTGGCGCAGTCG +ACGCCGAACGCCTGGCCGGCGTGGGACGTTCCCGGCGGGCAACTGACGACGAAAGGCGGC +GTGCTGGAAGTCTATATGGGACACTACACACGTGAATGGCTGGTCGCGCAGGGGCTGATA +CCGTCGGGAGAATGTCCGGCGCCCGACACGGTATATGCCTATGCGAATAGTTTGCAGCGC +ACCGTCGCCACCGCGCAATTTTTCATTACCAGCGCTTTCCCCGGCTGTGATATTCCTGTT +CATCATCAGGAAAAAATGGGCACTATGGACCCTACCTTCAATCCGGTGATTACCGATGAT +TCCGCCGCGTTCCGGCAACAGGCCGTACAGGCGATGGAAAAGGCGCGTAGTCAGCTACAT +CTTGATGAGAGTTATAAACTGCTTGAGCAGATAACGCATTATCAGGACTCGCCGTCCTGC +AAAGAGAAGCATCAGTGTTCGCTAATCGACGCGAAAGATACCTTCAGCGCGAACTATCAG +CAAGAGCCTGGCGTGCAGGGGCCGCTGAAAGTAGGGAACTCGCTGGTGGATGCGTTTACC +CTGCAATATTACGAAGGCTTTCCGATGGATCAGGTCGCTTGGGGCGGGATCCACACCGAT +CGGCAGTGGAAGGTGCTGTCAAAACTGAAAAACGGCTACCAGGACAGCCTGTTTACCTCA +CCCACGGTGGCGCGCAATGTCGCTGCGCCGCTGGTAAAATATATCGATAAGGTGCTGGTT +GCCGAGCGCGTTAGCGCGCCGAAGGTTACCGTGCTGGTGGGGCATGATTCCAATATCGCG +TCGCTGCTGACGGCGCTGGATTTTAAACCCTATCAGCTCCATGACCAGTATGAGAGAACG +CCGATTGGTGGTCAGCTTGTCTTCCAACGCTGGCATGACGGTAACGCTAACCGGGATTTG +ATGAAAATCGAGTATGTCTACCAGAGCGCCCGGCAGTTACGTAATGCGGAAGCGTTAACG +CTCAAATCGCCTGCGCAAAGGGTAACGCTGGAACTGAAAGGATGTCCGGTGGATGCGAAC +GGCTTCTGTCCGCTGGATAAGTTCGATAACGTCATGAACACTGCTGCAAAAATGCCAACT +CAAGAAGCAAAAGCGCACCGCGTCGGCGAATGGGCAAGCCTGCGTAATACGTCGCCGGAA +ATTGCCGAAGCCATTTTTGAAGTCGCTCACTATGACGAGAAACTGGCAGAAAAAATATGG +GAAGAAGGTAGCGATGAGGTGCTGATCAAAGCCTTTGAGAAAACGGACAAAGACTCGCTC +TTCTGGGGCGAACAAGTCATCGAACGTAAGAACGTAATGGCAAAGATTCTGGTGCTCTAT +TATTCCATGTACGGACACATTGAAACCATGGCGCACGCGGTGGCGGAAGGGGCAAAGAAA +GTCGACGGCGCAGAGGTCATTATAAAGCGTGTGCCAGAAACAATGCCGCCTGAAATCTTC +GCAAAAGCTGGCGGTAAAACGCAAAACGCACCGGTTGCCACCCCACAGGAGCTGGCGGAT +TACGATGCCATTATTTTTGGTACGCCAACCCGGTTTGGCAATATGTCAGGCCAGATGCGT +ACCTTCCTGGACCAAACCGGCGGACTGTGGGCATCCGGCGCGCTATACGGCAAGCTCGGC +GGCGTGTTCAGTTCTACCGGAACGGGCGGCGGCCAGGAGCAGACCATCACCTCGACCTGG +ACTACGCTTGCCCATCATGGGATGGTGATTGTCCCGATAGGCTATTCCGCACAGGAACTG +TTTGACGTCTCCCAGGTTCGCGGCGGTACGCCTTACGGCGCAACGACTATCGCTGGAGGC +GACGGTTCACGTCAACCAAGCCAGGAGGAACTCTCTATCGCTCGCTATCAGGGGGAATAC +GTCGCCGGTCTGGCAGTCAAACTCAACGGCATGGCAAACCATCGTGGCGGTTCCGGTAAT +TTTGCGGAAGACCGCGAAAGAGCATCAGAAGCAGGTCGTAAAAGTGGTCAGCACAGCGGG +GGCAATTTTAAGAATGACCCGCAGCGTGCATCCGAAGCAGGCAAAAAAGGGGGCAAAAGC +AGTAACCGTAATCGCATGTCGCAACGCACAGAGAAAAAAATCGGGAAACGTTCGCAGGCC +ACCGGTGCAAAACGGCAGCTTATCTTAACCGCCGCGCTTGCCGTTTTTTCCCAGTATGGC +ATTCATGGCGCGCGTCTTGAACAGGTCGCCGAGCGGGCAGGCGTCTCCAAAACCAATCTG +CTTTATTATTATCCCTCGAAAGAGGCGCTGTATGTCGCGGTAATGCGACAGATTCTGGAT +GTCTGGTTGGCGCCGCTCAAGGCGTTTCGCGCAGAATTTTCCCCTCTGGAGGCCATCAAA +GAGTATATCCGTCTCAAGCTGGAGGTTTCGCGTGATTATCCGCAGGCGTCGCGGCTCTTC +TGCATGGAGATGCTGGCGGGCGCGCCGCTCTTAATGGATGAACTGACCGGCGATCTAAAA +GCGTTGATAGATGAAAAATCCGCGCTGATTGCCGGATGGGTGCACAGCGGGAAACTCGCG +CCCGTTTCTCCGCATCATTTGATCTTCATGATTTGGGCCGCCACGCAACATTACGCCGAT +TTCGCCCCTCAGGTTGAAGCGGTAACCGGCGCGACGCTTCGCGATGAAGCCTTTTTCAAC +CAAACGGTCGAAAGCGTTCAGCGCATTATTATTGAAGGGATTCGCGTGCGTATGAAACGA +ATTTTCCTTACCTGCGCGGCGTTGTTGTTCAGCAGTCAGGCGTTGGCCGATGAGTGTGCC +AGCGCCAGTACGCAGCTGGAAATGAATCGCTGCGCCGCCGCGCAATACCAGGCGGCAGAT +AAAAAGCTGAACGAAACCTATCAAAGCGCGATTAAGCGTGCGCAACCGCCGCAGCGTGAG +CTATTGCAAAAAGCGCAGGTGGCATGGATTGCCCTGCGCGACGCCGATTGCGCGCTGATT +CGCTCAGGTACGGAGGGCGGCAGCGTTCAACCCATGATCGCCAGCCAGTGCCTGACCGAT +AAAACGAACGAACGCGAAGCGTTTTTAGCCTCGCTGCTGCAATGTGAAGAGGGTGATTTG +AGCTGCCCACTGCCGCCAGCCGGTATGGGAACCACCACGATGGGGGTTAAGCTGGACGAC +GCCACGCGCGAACGGATCAAAATGGCCGCGTCGCGTATCGATCGCACGCCGCACTGGTTA +ATAAAACAGGCAATCTTTAGCTATCTGGACAAGCTGGAAAATAGCGATACGCTACCGGAG +CTACCTGCGCTGTTTGCCGGCGCGGCAAATGAAAGCGAGGAGCCGGTCGCGCCGCAGGAT +GAGCCGCATCAGCCCTTTCTGGAGTTTGCCGAACAGATTCTTCCCCAATCCGTCTCTCGC +GCCGCCATCACCGCCGCCTGGCGCCGCCCGGAAACCGATGCGGTGTCAATGCTAATGGAA +CAGGCGCGCCTGTCGCCGCCTGTCGCTGAGCAGGCGCATAAACTGGCGTATCAACTGGCG +GAGAAATTGCGCAATCAAAAATCCGCCAGCGGTCGCGCGGGTATGGTGCAAGGCCTGTTG +CAGGAGTTTTCCCTCTCTTCGCAAGAAGGCGTAGCGCTGATGTGTCTGGCGGAAGCGCTG +CTGCGTATTCCCGACAAAGCTACGCGCGATGCGTTAATTCGCGACAAAATCAGTAATGGC +AACTGGCAGTCGCATATTGGCCGTAGCCCGTCGCTGTTTGTAAACGCCGCCACCTGGGGG +CTGCTCTTTACCGGCCGACTGGTCTCAACGCATAACGAAGCCAATCTTTCGCGCTCGCTG +AACCGCATTATCGGCAAGAGCGGCGAACCGTTAATCCGCAAAGGCGTCGACATGGCGATG +CGTTTAATGGGCGAGCAGTTCGTGACTGGCGAAACCATTGCTCAGGCGCTGGCGAATGCC +CGAAAACTGGAAGAGAAAGGGTTCCGCTATTCTTACGATATGCTGGGCGAAGCCGCGTTA +ACCGCCGCCGATGCGCAGGCCTATATGGTCTCTTACCAGCAAGCGATTCATGCCATCGGC +AAAGCGTCTAACGGTCGCGGTATTTACGAAGGGCCAGGCATCTCGATTAAGCTGTCCGCC +CTGCATCCACGCTATAGTCGCGCGCAATACGATCGGGTAATGGAGGAGCTTTATCCGCGC +CTGAAATCCCTGACGCTGCTGGCGCGCCAGTATGATATCGGTCTCAATATCGACGCCGAA +GAGGCGGATCGTCTGGAGATCTCGCTTGATCTGCTGGAAAAACTCTGCTTCGAACCCGAA +CTGGCGGGCTGGAACGGCATTGGCTTTGTGATTCAGGCTTACCAGAAACGCTGCCCGCTG +GTCATTGATTATTTAGTCGATCTGGCCTCCCGTAGCCGCCGTCGGCTGATGATTCGTCTG +GTGAAAGGCGCCTACTGGGATAGCGAGATCAAACGCGCGCAAATGGAAGGGCTGGAGGGC +TATCCAGTTTATACCCGCAAAGTGTATACCGATGTCTCTTATCTGGCCTGCGCGAAAAAA +CTGCTCGCCGTCCCTAATCTGATCTACCCGCAGTTCGCGACCCATAACGCTCACACACTG +GCGGCGATTTATCATCTGGCCGGGCAAAATTACTATCCGGGTCAGTACGAATTCCAGTGC +CTGCACGGCATGGGAGAACCGCTGTATGAACAGGTCACCGGTAAAGTGGGGGACGGAAAA +CTTAACCGTCCCTGCCGTATTTACGCGCCGGTGGGAACACACGAAACCCTGCTGGCCTAT +CTGGTACGACGCCTGCTGGAAAACGGCGCCAACACCTCTTTTGTCAACCGCATCGCCGAT +GCCACCCTACCGCTCGATGAACTGGTGGCCGACCCGGTCGAGGCCGTGGAAAAACTGGCG +CAGCAGGAAGGTCAGGCTGGCATACCGCATCCAAAAATTCCGCTGCCGCGCGATCTGTAC +GGCGAAGGTCGGATAAACTCCGCCGGACTTGATTTAGCGAATGAACATCGCCTCGCCTCG +CTTTCTTCTGCCCTGTTAAGCAACGCCATGCAGAAATGGCAGGCCAAACCTGTGCTGGAA +CAACCGGTGGCCGACGGTGAGATGACGCCGGTTATCAACCCGGCGGAACCGAAAGATATT +GTTGGCTGGGGACGCGAAGCGACAGAAAGCGAGGTTGAACAGGCGTTGCAAAACGCGGTC +AATCAGGCGCCGGTTTGGTTTGCGACGCCGCCGCAAGAACGCGCCGCTATTTTGCAGCGG +GCGGCGGTATTGATGGAAGACCAAATGCAGCAGTTGATTGGCCTGTTGGTGCGTGAAGCG +GGGAAAACGTTCAGCAACGCCATTGCCGAAGTGCGCGAAGCGGTAGACTTCCTCCATTAT +TATGCCGGTCAAGTGCGTGACGATTTCGATAACGAAACGCATCGCCCGTTAGGGCCGGTG +GTCTGTATCAGTCCGTGGAACTTTCCGCTGGCCATTTTCACTGGCCAAATCGCCGCCGCG +CTGGCGGCAGGTAACAGCGTTCTGGCGAAACCGGCAGAGCAGACATCGCTGATTGCCGCC +CAGGGCATTGCCATTTTGCTGGAAGCGGGCGTACCGCCGGGCGTCGTGCAACTGTTGCCG +GGACGGGGAGAAACCGTCGGCGCCCAGCTTACCGCCGATGCGCGTGTACGCGGCGTGATG +TTTACCGGTTCCACGGAGGTCGCGACGTTGTTGCAGCGCAACATCGCCACGCGTCTTGAC +GCCCAGGGGCGCCCTATTCCGTTGATTGCGGAAACCGGCGGTATGAACGCTATGATTGTC +GACTCTTCCGCGCTCACCGAGCAGGTGGTCGTGGATGTGCTGGCTTCCGCCTTCGACAGC +GCCGGACAACGCTGTTCCGCGCTCCGCGTGCTGTGTTTGCAGGACGATATCGCCGAACAT +ACGCTGAAAATGTTACGCGGCGCGATGGCGGAGTGTCGGATGGGGAATCCAGGCCGTCTG +ACGACCGATATCGGGCCGGTGATCGATAGCGAGGCCAAAGCCAACATTGAACGTCATATC +CAGACGATGCGCGCCAAAGGCCGCCCGGTTTTCCAGGCCGCGCGTGAAAACAGCGATGAC +GCGCAGGAATGGCAGACCGGTACGTTTGTTATGCCCACGCTTATTGAGCTGGAAAACTTC +GCAGAACTGGAAAAAGAGGTCTTCGGGCCCGTGCTGCACGTCGTGCGTTATAACCGTAAC +CAACTGGCGGAGCTTATCGAACAGATTAACGCTTCCGGCTACGGGCTAACGCTGGGCGTA +CATACCCGTATTGATGAAACCATTGCGCAAGTCACCGGTTCCGCCCATGTCGGCAACCTG +TACGTTAACCGTAATATGGTGGGCGCGGTCGTCGGCGTCCAGCCGTTTGGCGGCGAAGGC +CTGTCCGGCACCGGGCCAAAAGCGGGAGGGCCGCTCTATCTCTACCGCCTGCTGGCACAC +CGCCCGCCCAATGCGCTCAATACGACGCTGACTCGTCAGGATGCGCGTTACCCGGTGGAT +GCGCAGCTTAAAACCACGCTACTCGCGCCGTTGACCGCTCTGACGCAATGGGCGGCGGAT +CGCCCGGCGCTACAGACGCTCTGCCGACAATTCGCCGATCTGGCGCAGGCCGGCACGCAG +CGCCTGCTACCGGGGCCGACCGGCGAGCGTAATACCTGGACGCTGTTGCCGCGTGAACGG +GTGTTATGCCTGGCTGATGATGAACAGGACGCGTTGACGCAGCTTGCCGCCGTTCTCGCC +GTCGGCAGTCAGGCGCTATGGTCAGACGACGCCTTCCACCGCGATCTGGCGAAACGTCTC +CCCGCCGCCGTCGCGGCGCGTGTCCAGTTTGCGAAAGCGGAAACGCTGATGGCGCAGCCG +TTTGACGCGGTGATTTTCCACGGCGACTCCGACAAGCTGCGAACCGTGTGCGAAGCCGTC +GCCGCCCGCGAAGGCGCGATAGTGTCGGTACAGGGGTTCGCCCGCGGCGAAAGCAATATG +CTGCTGGAACGGCTCTATATTGAACGTTCGCTGAGCGTAAACACTGCCGCCGCTGGCGGT +AATGCCAGCCTGATGACAATTGGCATGGCTATTAGCACACCGATGTTGGTGACATTCTGT +GTCTATATTTTTGGCATGATATTGATTGGGTTTATCGCCTGGCGCTCAACCAAAAACTTT +GATGACTATATTCTTGGCGGTCGCAGCCTGGGGCCGTTTGTTACGGCTTTATCAGCCGGC +GCGTCGGATATGAGCGGCTGGCTGTTAATGGGGCTGCCTGGCGCTATCTTTCTGTCGGGG +ATCTCTGAAAGCTGGATCGCCATTGGCCTGACGTTAGGCGCATGGATTAACTGGAAGCTG +GTGGCCGGGCGCCTGCGCGTGCATACCGAATTTAACAATAACGCGCTCACGCTGCCGGAC +TATTTTACCGGTCGGTTTGAGGATAAGAGCCGAGTCCTGCGTATTATTTCCGCGCTGGTC +ATTCTGCTGTTTTTCACTATCTATTGCGCATCAGGTATTGTCGCTGGGGCACGACTGTTC +GAAAGCACCTTCGGTATGAGCTATGAAACCGCACTGTGGGCGGGGGCCGCGGCAACCATT +ATTTATACCTTTATCGGCGGGTTTCTTGCCGTTAGCTGGACGGATACCGTTCAGGCCAGC +CTGATGATTTTTGCGTTAATCCTGACGCCGGTGATGGTTATTGTCGGCGTAGGCGGTTTT +AGCGAGTCGCTGGAAGTGATCAAGCAAAAGAGCATCGAGAATGTCGACATGCTCAAGGGG +CTGAATTTTGTCGCTATTATTTCTCTGATGGGCTGGGGGCTGGGTTACTTCGGTCAGCCG +CATATCCTGGCGCGCTTTATGGCGGCGGATTCCCATCACAGTATTGTTCATGCGCGTCGT +ATCAGTATGACCTGGATGATTCTGTGTCTGGCGGGCGCGGTGGCGGTGGGCTTCTTTGGC +ATTGCGTACTTTAACAATAACCCCGCGCTGGCCGGGGCGGTGAACCAAAACTCAGAACGC +GTATTTATTGAACTGGCGCAGATCCTGTTTAACCCGTGGATTGCCGGTGTTCTGCTGTCT +GCTATCCTGGCGGCGGTGATGTCGACGTTGAGCTGTCAGTTGCTGGTATGCTCCAGCGCG +ATTACGGAAGATTTATATAAGGCTTTTCTGCGTAAAAGCGCCAGCCAGCAAGAGCTGGTA +TGGGTAGGGCGAGTGATGGTGCTGGTGGTAGCGCTGATCGCCATTGCGCTGGCGGCGAAT +CCTGATAACCGTGTGCTGGGGCTGGTGAGCTACGCCTGGGCTGGATTCGGCGCGGCATTT +GGACCTGTTGTCCTGTTTTCTGTGATGTGGTCGCGTATGACACGTAACGGCGCGCTGGCG +GGAATGATTATTGGCGCGGTGACGGTTATCGTCTGGAAACAATATGGCTGGCTGGATCTG +TATGAGATTATCCCTGGCTTCATTTTCGGCAGCCTGGGGATCGTAATCTTTAGCCTGCTT +GGCAAAGCGCCGACAGCAACGATGCAGGAACGCTTTGCAAAAGCGGACGCGCATTATCAT +TCCGCGCCGCCGTCGAAGCTACAGGCGGAAATGGTAATGTCCGCACCAGGACACATTGTT +TACAGTAGTTACAACACCCTGTACGGACATTCTCTCTCCGGTGGTGGTCTTGTCATCTTA +AAAGCTCTCATCATTTCCCTTACTGTCCATACCCATGACGCCATATGTGGTGCGCGTAGC +CGTGTGTGGCGTCGTTTCAAAAAGCAAGCTAAGGCTTACAAGGAAGCCAACCCTCAGATG +TGTGTGCGCATAATCGCGTTCAAGAGAACGCGGGTGATGTATACCTACAACTCAAGGTGC +TATCCATGGGAAGACAAAAAGCAGATGGGAAGACAAAAAGCAGTGATCAAAGCTCGTCGT +GAAGCAAAGCGTGTGTTGAGACGAGATTCGCGTAGTCATAAGCAACGTGAAGAAGAATCG +GTCACGTCACTGGTACAGATGGGCGGAGTAGAAGCCATTGGCATGGCGCGCGATAGTCGC +GATACCTCTCCTGTTAAGGCGCGAAATGAAGCACAGGCGCATTATCTGAACGCTATCGAC +AGTAAACAGCTTATTTTTGCGACCGGCGAAGCCGGCTGCGGAAAAACATGGATCAGTGCG +GCAAAGGCGGCAGAAGCATTGATTCATAAGGACGTCGAGAGGATCATTGTGACGCGTCCG +GTATTGCAGGCTGATGAAGATCTTGGTTTTTTGCCCGGTGATATCGCTGAAAAATTCGCG +CCTTATTTTCGTCCCGTCTACGATGTCCTGCTTAAACGGTTGGGCGCGTCCTTTATGCAA +TATTGTTTGCGCCCGGAAATCGGTAAGGTAGAAATTGCCCCGTTCGCCTATATGCGTGGG +CGTACTTTTGAAAATGCGGTCGTGATCCTCGACGAGGCGCAAAATGTGACTGCGGCGCAA +ATGAAAATGTTTTTGACGCGATTAGGCGAAAATGTCACGGTCATTGTCAATGGCGATATT +ACGCAATGCGACCTGCCGCGCGGTGTGCGTTCCGGGTTGAGTGATGCGTTGGAACGCTTT +GAAGAAGATGAAATGGTGGGGATTGTGCATTTCAACAAAGACGACTGCGTGCGCTCGGCG +CTTTGTCAGCGAACGCTCCACGCATACAGCATGGAGCCTCAACCCCCACGTCTGAAACCC +GGAAAAATCCTTGACACTCTGGGTGCTATGCAAAAAAGCCTGACACGTGCCTCGCAGCGT +ATTGCGCAATATATTTTAGCCTTCCCCAGACAGGTGACACAGTCATCTATTGCGGATTTG +TCGCGCGACACACAGGCCGGAGAAGCCACGGTTATTCGCTTTTGTCGCACCCTGGGCTAT +AAAGGTTTTCAGGATTTTAAAATGGACCTGGCCATTGAACTTGCCACTACCGAGTCTGAT +GACAGTAGTCCTCTACTGGATGCCGAAGTTAGCGAATCCGACGATGCCCACGCGATTGGT +TTAAAATTGCAGAACACCATTAGTAATGTATTATCTGAAACGCTAAATCTGCTGGATATG +CAACAGGTTCTCGGTGTCGTGGACGCCCTACGTCACTGTCACTCAGTTTATATGTTTGGT +GTGGGCTCATCGGGGATCACGGCGCTGGATATGAAACACAAGCTAATGCGTATGGGTTTA +CGGGGCGATGCGGTAAGCAATAACCATTTTATGTACATGCAGGCTACGCTATTGAAAGCA +GGCGATGTCGCGATGGGTGTCAGTCACTCGGGCACATCGCCAGAAACAGTGCATTCACTC +CGATTGGCCCGACAGGCTGGCGCCACCACAGTCGCCATTACCCATAATCTGGGTTCTCCA +TTATGTGAAGAGGCCGATTTTTGCCTGATCAATGGTAATCGGCAAGGAATGTTGCAGGGT +GACTCGATCGGTACGAAAGCCGCGCAGCTTTTCGTCTTTGACCTGCTCTATACCCTTCTT +GTACAGTCCTCGCCGGAACAGGCCCGAGAAAGCAAATTACGGACAATGAATGCCCTGGAC +ATGACAAAAGTGATATGTCTGAAAGTCCAGGGCGGCATTGGTGAAATTTTTACGGTGACG +CAGCAGGCGGATAAATTCTTGCCGGCTACGCAGTTCCACTGGAGCTGGACGGAAAGCACA +GTACCTGTATTGATGATTGGGTTTCTGTTTGCCAATATTCAGCAATTTACTGCCAGTCAG +GATGTGGTCCAACGCTATATGGTGACTGACTCCATAGAGGAAACGAAGAAAACATTACTT +ACAAATGCCAAACTGGTTGCGGTGATCCCTGTTTTCTTTTTTGCTATCGGCTCGGCATTA +TTTGTCTACTATCAGCAACAGCCACAATTATTACCGGCGGGATTCAACACTGGCGGCATT +TTGCCCTTATTCGTGGTCACGGAAATGCCAGTCGGCATTGCAGGGTTGATAATCTCCGCT +ATTTTCGCTGCCGCGCAGTCGAGCATCTCCAGCAGCTTAAACAGCATTTCCAGTTGTTTT +AATTCCGATATCTATCAGCGGTTGAGTCATAAAAAAGGAACGCCAGAAAACCGTATGAAA +ATAGCTAAGTTAGTTATTCTGGTCGCGGGCCTGATAAGTAGCGCGGCCTCGGTATGGCTG +GTCATGGCCGATGAATCAGAGATCTGGGATGCATTTAATAGTCTGATAGGTCTGATGGGA +GGGCCAATGACCGGTCTGTTGATGCTGGGCATTTTCTTTAAACGAGCAAATGCCGGGAGT +GCGGTTTTAGGAATTATTATGAGCGTCATTACCGTGCTGGGCACACGCTATGCCACTGAC +CTTAACTTCTTCTTTTATGGGGTCATTGGCTCGCTAAGCGTGGTGATCAGCGGCGTTATT +TTCGCCCCGTTATTTGCCCCGGCACCGCCATTGACGCTGGATGAAAAACCTGAACCAAAG +GTGACATTAATGTCACTATTAGCCAGGCTGGAACAAAGTGTACACGAAAACGGTGGGCTG +ATTGTCTCATGCCAACCGGTACCAGGCAGCCCTATGGATAAACCTGAAATTGTGGCTGCA +ATGGCACAGGCAGCGGCTTCGGCGGGTGCGGTCGCTGTGCGCATTGAAGGCATTGAGAAT +CTGCGGACTGTTCGTCCCCATCTTTCTGTTCCTATTATTGGGATAATTAAACGTGACCTT +ACAGGGTCGCCAGTCCGTATCACTCCATATTTACAGGATGTTGACGCCCTGGCGCAGGCA +GGTGCCGATATTATCGCTTTTGATGCCTCATTCCGCTCTCGCCCGGTTGATATTGATAGT +TTACTGACACGTATTCGCCTGCATGGATTACTGGCGATGGCAGACTGTTCAACCGTGAAT +GAAGGCATAAGTTGCCATCAGAAAGGAATCGAATTCATTGGTACAACACTGTCTGGCTAT +ACCGGTCCCATCACGCCGGTTGAGCCAGATTTGGCAATGGTGACACAACTGAGTCATGCA +GGTTGTCGTGTTATTGCCGAGGGGCGCTATAACACGCCTGCACTGGCGGCCAATGCTATT +GAGCATGGTGCCTGGGCAGTTACCGTTGGTTCCGCTATCACCCGTATCGAGCATATCTGT +CAGTGGTTCAGTCACGCAGTAAAACGCATGAAAAATTTTAAGAAAATGATGACGCTAATG +GCGCTATGTTTATCAGTTGCTATCACCACATCAGGATATGCAACCACGCTTCCTGATATA +CCAGAACCACTGAAAAATGGTACTGGCGCTATTGATAATAATGGCGTGATTTATGTCGGC +TTAGGTACCGCAGGGACATCCTGGTATAAAATTGATCTTAAAAAGCAACATAAAGACTGG +GAGCGTATAAAGTCGTTTCCTGGTGGAGCTCGTGAGCAATCCGTGTCGGTATTTTTAAAT +GATAAGCTGTATGTTTTTGGTGGCGTAGGGAAAAAAAACAGTGAATCACCGTTGCAGGTT +TATAGCGATGTGTACAAATACTCACCGGTGAAAAATACATGGCAAAAAGTTGATACTATA +TCTCCAGTTGGATTAACAGGGCATACGGGAGTAAAATTAAACGAAACGATGGTACTTATT +ACCGGAGGGGTTAATGAGCATATCTTTGATAAGTATTTTATTGATATAGCGGCTGCGGAT +GAAAGTGAAAAAAATAAAGTCATCTATAATTATTTTAATAAACCTGCCAAAGATTATTTT +TTTAATAAAATCGTATTTATCTACAATGCTAAAGAGAACACATGGAAGAATGCCGGTGAG +CTGCCAGGCGCGGGGACGGCAGGATCGTCATCGGTAATGGAAAATAATTTCTTGATGCTG +ATTAATGGTGAGCTCAAACCGGGTTTACGTACCGATGTGATTTACCGCGCCATGTGGGAT +AACGATAAGCTAACATGGTTGAAGAACAGCCAGTTACCGCCATCGCCTGGAGAACAACAG +CAGGAAGGGTTGGCCGGAGCATTTTCGGGCTATAGCCACGGTGTCCTGCTTGTCGGTGGT +GGCGCGAATTTTCCGGGAGCAAAACAAAATTATACTAATGGAAAGTTTTATTCCCACGAA +GGGATAAATAAAAAATGGCGAGATGAAGTCTATGGTTTGATTAATGGCCATTGGCAATAT +ATGGGTAAAATGAAACAACCTCTCGGCTATGGTGTATCAGTAAGTTATGGTGATGAAGTT +TTCCTTATTGGTGGTGAAAATGCTAAAGGGAAACCTGTTTCGTCTGTAACCTCCTTTACC +ATGCGTGATGGTAATTTATTAATAAAAATGAAAATCAACAGATATCTTCTGGGTATGGTT +TCGTTTATAGCATTTTCATCATATCTACAAGCGGCAACCCTTGATTATCGGCATGAATAT +GCTGATAGAACCAGAATTAATAAAGACCGTATTGCTATAATTGAAAAGCTTCCTAACGGC +ATTGGTTTTTATGTCGATGCCAGCGTTAAATCGGGAGGAGTAGATGGTGAGCAGGATAAG +CATTTAAGCGATCTCGTCGCAAACGCTATAGAACTGGGCGTAAGTTATAATTATAAAGTT +ACGGACCATTTTGTTTTGCAGCCTGGATTTATATTTGAAAGCGGTCCAGACACTTCAATT +TATAAGCCTTATTTAAGGGCGCAATATAATTTTGATTCTGGTGTTTATATGGCTGGTCGT +TACCGTTATGACTATGCAAGGAAGACAGCTAACTATAATGATGATGAGAAAACGAATAGA +TTTGATACTTATATAGGTTATGTTTTTGATGAGTTGAAATTGGAATATAAATTTACCTGG +ATGGATAGCGATCAAATTAAATTTGATAACAAAAAAACAAACTATGAACATAATGTGGCT +TTAGCCTGGAAACTGAATAAGTCATTTACACCATACGTTGAGGTCGGAAATGTAGCGGTG +AGAAATAATACCGATGAGAGACAGACCCGTTATCGCGTTGGATTACAATACCACTTTGTG +ATAGCAAAATTCTTCCCGTGGTATAGCGAGATAACACGTCCACAAAAAAATGCTTTATTT +TCAGCATGGCTGGGTTACGTTTTTGATGGCTTCGACTTTATGCTGATTTTCTACATTATG +TATCTGATCAAGGCTGACTTAGGATTGACAGATATGGAGGGCGCATTCCTTGCCACAGCG +GCCTTTATTGGGCGACCATTTGGCGGGGCGCTATTTGGTCTGCTGGCAGACAAATTTGGC +CGTAAGCCGTTAATGATGTGGTCGATAGTTGCCTATTCTGTAGGTACAGGGTTAAGTGGC +CTGGCTTCCGGTGTAATTATGCTGACGCTTAGTCGTTTTATTGTCGGTATGGGGATGGCG +GGGAAGTATGCTTGCGCTTCTACTTATGCCGTGGAAAGTTGGCCAAAGCATTTAAAATCT +AAAGCGAGCGCATTTCTGGTTTCAGGTTTCGGTATTGGTAACATCATAGCAGCCTATTTT +ATGCCGTCATTTGCCGAAGCGTATGGTTGGCGTGCTGCTTTTTTTGTCGGTTTGCTACCC +GTTCTTTTAGTAATCTACATCCGGGCCAGGGCTCCTGAATCTAAAGAGTGGGAAGAAGCC +AAACTCAGTGGTCTCGGAAAGCATTCACAAAGTGCCTGGTCAGTTTTCTCTTTGTCAATG +AAAGGGCTATTTAATCGAGCTCAATTTCCACTGACATTATGTGTATTTATTGTTCTGTTC +TCTATTTTCGGCGCAAACTGGCCGATCTTTGGTCTACTGCCTACATATTTGGCGGGAGAG +GGCTTTGATACGGGCGTGGTCTCTAATTTAATGACGGCGGCGGCATTCGGCACTGTATTG +GGAAATATCGTTTGGGGTCTGTGCGCAGATAGAATTGGTTTGAAGAAAACGTTCAGCATT +GGTCTTCTCATGTCCTTTTTATTCATTTTCCCGTTATTCAGAATTCCGCAAGATAATTAT +TTACTGCTGGGCGCATGTTTATTCGGTTTAATGGCGACTAACGTAGGTGTTGGCGGGCTG +GTTCCCAAATTTCTCTACGACTACTTTCCTCTTGAGGTTCGTGGTTTGGGTACCGGGCTT +ATTTATAATCTTGCTGCGACATCAGGCACATTCAATTCAATGGCGGCGACCTGGCTTGGA +ATAACAATGGGGCTAGGCGCTGCGCTAACGTTCATTGTTGCTTTCTGGACCGCAACAATT +CTACTCATTATTGGCCTATCCATTCCGGATAGACTAAAAGCACGTCGTGAAAGGTTTCAG +TCAACAAAAGAATTTATGACGAAATACGGTGTTATAGGTACAGGTTATTTTGGCGCTGAA +CTGGCGCGATTTATGTCTAAGGTTGAAGGGGCGAAAATCACTGCGATTTACGATCCGGTA +AATGCGGCTCCGATAGCGAAAGAGCTGAACTGTGTCGCCACTTCAACGATGGAGGCGCTT +TGTACCCATCCTGATGTGGATTGCGTAATTATTGCTTCACCAAATTACTTACATAAAGCG +CCGGTCATTGCGGCGGCTAAAGCGGGTAAACACGTGTTTTGTGAAAAACCTATCGCCTTA +AATTACCAGGATTGTAAGGATATGGTTGATGCCTGCAAAGAAGCTGGTGTTACCTTTATG +GCGGGTCACGTTATGAACTTTTTTCACGGGGTTCGCCACGCTAAAGCGCTCATCAAAGCC +GGTGAAATCGGTGAAGTTACACAAGTTCACACTAAACGTAATGGTTTTGAAGACGTGCAG +GATGAGATCTCATGGAAGAAGATTCGCGCAAAGTCAGGTGGGCATCTGTACCATCACATT +CACGAGCTAGATTGTACACTGTTCATCATGGATGAAACCCCATCCCTGGTTTCAATGGCG +GCGGGGAATGTTGCGCACAAAGGTGAAAAATTTGGTGATGAAGATGATGTTGTCCTAATC +ACCCTTGAGTTTGAAAGCGGTCGTTTCGCGACACTTCAGTGGGGATCATCGTTCCACTAC +CCTGAGCACTATGTATTAATTGAGGGCACGACAGGTGCAATTCTCATTGATATGCAAAAC +ACGGCTGGTTATCTAATAAAAGCGGGCAAAAAAACACACTTTCTTGTGCATGAAAGCCAG +GCGGAGGATGATGATCGTCGCAACGGTAACATATCCAGCGAGATGGATGGCGCAATCGCT +TATGGTAAACCCGGTAAACGTACGCCGATGTGGCTCTCATCAATTATGAAACTGGAGATG +CAGTACTTGCATGATGTGATAAACGGTCTGGAGCCAGGCGAGGAGTTTGCTAAATTGCTA +ACGGGAGAAGCGGCGACAAATGCCATTGCTACCGCTGATGCTGCGACGCTTTCTTCAAAC +GAGGGGCGCAAAGTTAAACTCACTGAAATTCTTGGCATGGAGATAATTTTTTATCACCCG +ACATTTAACGCCGCCTGGTGGGTAAATGCGCTGGAGAAGGCTCTCCCACATGCGCGCGTT +CGTGAATGGAAGGTCGGTGATAACAACCCCGCAGACTATGCGCTTGTATGGCAGCCCCCG +GTTGAAATGCTGGCCGGAAGACGCTTAAAAGCCGTCTTTGTGCTGGGCGCGGGGGTGGAT +GCAATTCTGAGTAAATTAAATGCGCATCCGGAAATGCTGGACGCCTCCATTCCTCTATTC +CGTCTGGAAGATACCGGAATGGGCCTGCAAATGCAGGAGTATGCCGCCAGCCAGGTATTA +CACTGGTTCCGTCGTTTCGATGATTATCAGGCGCTGAAAAATCAGGCGCTATGGAAACCG +TTGCCGGAATATACCCGCGAAGAGTTTAGCGTCGGTATCATAGGCGCAGGGGTACTGGGC +GCAAAAGTGGCAGAAAGTCTACAGGCGTGGGGGTTCCCGTTACGTTGCTGGAGTCGTAGC +CGCAAATCCTGGCCTGGCGTGGAAAGTTATGTAGGGCGTGAAGAACTGCGCGCTTTCCTG +AACCAGACGCGGGTGCTGATTAATCTGCTGCCGAATACGGCCCAAACGGTAGGAATTATT +AATAGCGAATTGTTGGATCAATTGCCGGATGGCGCTTACGTGCTGAATCTCGCGCGCGGC +GTTCATGTTCAGGAGGCGGATCTGCTGGCTGCGCTTGATAGCGGTAAGCTAAAAGGCGCG +ATGTTGGATGTCTTTAGCCAGGAACCGTTACCGCAGGAAAGTCCATTATGGCGCCATCCG +CGAGTCGCCATGACGCCGCACATTGCGGCAGTCACCCGTCCGGCGGAAGCCATCGATTAT +ATTAGCCGCACCATTACCCAGCTGGAGAAGGGAGAGCCGGTGACGGGGCAGGTGGATCGG +GCGAGAGGATATTGGATGATGCGCGCGATGAACATACTTCTTTCTATTGCTATCACTACG +GGCATCCTTTCTGGAATATGGGGATGGGTGGCCGTCTCCCTGGGGTTACTAAGCTGGGCC +GGTTTTTTAGGCTGTACGGCTTATTTGGCCTGTCCGCAGGGCGGCTTTAAGGGATTGTTG +ATTTCCGCCTGTACGCTGTTAAGCGGGATGGTGTGGGCGCTGGTCATTATTCACGGTAGC +GCGTTGGCGCCGCATCTGGAAATTGTGAGTTACGTGTTGACGGGGATCGTGGCATTCCTG +ATGTGTATCCAGGCAAAGCAGCTATTGCTTTCTTTTGTTCCGGGAACATTTATCGGCGCC +TGCGCGACATTTGCAGGGCAGGGTGAGTGGCGGTTGGTATTACCGTCGCTGGCGCTGGGG +CTAATCTTTGGCTATGCCATGAAAAAGAGTGGGCTATGGCTGGCATCACGCCGCGAGCAA +CATTCAGCGAATACGGCGGTCACAAAGATGAAACGCTATCTGACCTGGATTGTAGCAGCA +GAGTTACTGTTCGCTACCGGAAACCTCCATGCCAATGAAGTTGAAGTCGAGGTTCCCGGA +TTGTTAACCGACCATACCGTCTCTTCCATAGGACATGAATTCTATCGTGCATTCAGCGAC +AAATGGGAAAGCGAATACACCGGCAACCTGACCATTAATGAAAGACCCAGTGCGCGTTGG +GGAAGCTGGATCACCATAACGGTAAACCAGGACGTTATTTTCCAGACCTTTTTATTTCCA +ATGAAAAGAGACTTCGAGAAAACCGTCGTCTTCGCATTAGCGCAAACAGAGGAAGCATTA +AATCGCCGACAAATAGATCAAACGCTCTTAAGTACGAGTGATTTAGCGCGTGATGAATTC +ATGTCCGTAATCAAGAAAAATATCCCTGCCATAGGCCTGTGTATCTGCGCTTTTTTTATC +CATTCTGCGGTAGGGCAACAAACGGTACAGGGCGGCGTTATCCATTTTCGCGGCGCGATT +GTTGAGCCACTGTGCGATATTTCTACTCACGCCGAAAATATTGATTTAACCTGCCTACGC +GAAGGTAAAAAGCAAATGCACCGGATAGACCTTCGGCAGGCATCTGGATTACCGCAGGAT +ATTCAGTCCATTGCGACGGTACGGCTGCATTATCTCGATGCGCAAAAAAGCCTGGCGGTG +ATGAATATTGAGTACCGTATGACATCACGTCTTCAGGTCATACAGGGTGATATCACTCAA +CTTAGCGTCGATGCGATTGTGAATGCCGCTAACGCATCATTAATGGGCGGCGGTGGCGTA +GACGGCGCAATTCATCGCGCGGCGGGGCCGGCATTGCTGGACGCCTGTAAACTCATCCGT +CAGCAACAGGGCGAATGTCAGACGGGACATGCGGTTATCACGCCTGCTGGCAAGCTTTCG +GCAAAGGCGGTTATTCACACAGTGGGGCCCGTCTGGCGAGGCGGCGAACACCAGGAAGCT +GAGCTACTCGAAGAGGCATACCGGAATTGTTTGCTGCTTGCCGAGGCGAATCACTTTCGT +TCCATCGCTTTTCCGGCAATCAGTACCGGCGTTTATGGCTATCCACGCGCCCAGGCCGCT +GAAGTCGCCGTCAGGACGGTTTCAGATTTTATTACCCGTTACGCTCTGCCTGAACAGGTA +TACTTTGTCTGTTATGATGAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAA +GGCGACGACCCTGCCATGAAGAAACTGCCCGGCTTTACGCAAGATTACTTACTCAGCAAG +GCGACGACCCTGCCTGATAAAACACGCCTGGAGCGTGCCGTTGAACCGCTATGCGCGCGC +CATCCCGGAGAGTGCGGCATTCTTGCGCTGGATAACAGTCTGGACGCTTTTGCCGCCCGC +TACCGCCTGACCGAAATGGCGGCGCGGACGCTGGATGTGCAGTATTATATTTGGGAAGAC +GATATGTCCGGGCGGCTGCTCTTTTCGGTTCTGCTGTCGGCGGCGAAGCGCGGCGTTCAT +GTTCGTCTGCTGCTGGATGATAACAATACGCCTGGTCTGGATGATACGTTGCGCTTGCTG +GATAGCCATCCTAATATCGAAGTTCGTCTGTTTAATCCTTTCTCTTTTCGTACGCTACGC +GCGCTGGGATATTTGACGGATTTTGCGCGGCTGAATCGGCGGATGCACAATAAAAGTTAC +ACTGCCGACGGCGTAGTGACGCTGGTCGGTGGGCGCAACATCGGCGATGCCTATTTCGGC +GCTGGCGAGGAGCCGCTATTTTCCGATCTGGACGTGATGGCCATTGGCCCGGTGGTCAAT +GATGTCGCCAATGATTTTGAACGTTACTGGCGCTGTAGTTCAGTGTCGACATTGCAGCAA +GTATTATCCCTTTCTGAGCAGGAACTGACGCAGCGTATCGAACTTCCCGAATCCTGGTAT +AACGATGAGATCACCCGCCGTTATCTGCATAAGCTGGAAACCAGCCAGTTTATGGCGGAT +CTCGATCGCGGAACGTTGCCGCTGATTTGGGCAAAAACACGCTTGCTTAGCGATGACCCT +TCTAAAGGCGAGGGGAAGGCGCAGCGCCATTCGCTTCTTCCGCAGCGATTATTTGACGTG +ATGGGGTCGCCGACGGAGCGTATCGACATTATTTCCGCTTACTTTGTCCCTACGCGCGCA +GGCGTGGCGCAGTTGCTTAATCTGGTCAGGAAAGGTGTGAAGATCGCCATCTTAACTAAC +TCTCTGGCGGCCAACGATGTGGCGGTCGTTCACGCAGGGTACGCGCGCTGGCGCAAGAAA +TTACTGCGCTATGGCGTGGAGCTCTACGAACTGAAACCGACCCGCGAACATGAAACCGCC +GTACATGATCGCGGACTCACCGGGAACTCAGGTTCCAGCTTACATGCTAAAACGTTCAGT +ATTGATGGTAGTAAGGTGTTTATCGGGTCGCTTAATTTTGATCCCCGTTCAACGCTTTTA +AATACCGAAATGGGCTTTGTCATTGAAAGTGAAACGCTGGCGACGCTTATTCATAAGCGT +TTTACGCAGAGCCAACGCGATGCGGCCTGGCAACTGCGGCTGGATCGCTGGGGACGAATT +AACTGGATCGATCGTCAGCAAGAAGAGGAAAAGGTGTTAAAGAAAGAACCCGCTACGCGT +TTCTGGCAGCGAGTTCTGGTACGGTTGGCGGCAATTTTACCTGTGGAATGGTTGCTGATG +AGCTCTGTACCCGCGCCGCGTGAATATTTTCTTGACTCTATCCGCGCATGGCTGATGTTG +TTAGGGATTCCCTTTCATATCTCGTTGATCTATTCCACTCACAGTTGGCATGTCAATAGC +GCCGCGCCATCGTGGTGGCTAACCCTGTTTAACGATTTTATCCACGCTTTTCGTATGCAG +GTGTTTTTTGTTATTTCTGGTTATTTTTCGTACATGTTATTTTTACGTTATCCATTAAAA +CACTGGTGGAAAGTACGGGTAGAACGTGTGGGTATTCCCATGCTTACCGCAATCCCTTTG +CTTACCTTGCCGCAATTTATCCTGTTGCAATATGTCAAAGAGAAAACAGAGAACTGGCCT +ACACTCTCTGCCTATGAAAAATATAATACGTTAGCGTGGGAACTCATTTCACATCTGTGG +TTTTTACTGGTGCTGGTGATATTAACCACCGTCAGCATCGGGATTTTTACCTGGTTCCAA +AAAAGGCAGGAAACAAGCAAGCCTCGTCCCGCCGCTATTTCGCTGGCCAAACTTTCGCTT +ATTTTTTTCCTGCTGGGGGTGGCGTACGCTGCTATCAGGCGCATTATATTCATCGTATAT +CCGGCAATCCTCAGTGACGGCATGTTCAATTTTATTGTGATGCAAACGCTATTTTATGTG +CCGTTTTTTATTCTCGGCGCGTTGGCCTTCATTCACCCCGATCTGAAAGCGCGCTTCACC +ACGCCCTCACGCGGATGCACTTTAGGCGCTGCCGTTGCTTTTATCGCGTATCTGCTGAAT +CAACGTTATGGGAGCGGCGACGCCTGGATGTACGAAACCGAATCCGTGATTACGATGGTA +ATGGGGCTATGGATGGTGAACGTGGTATTTTCACTGGGGCATCGCTTGTTAAACTTTCAG +TCCGCGCGTGTCACCTATTTCGTGAATGCTTCGCTGTTTATTTATCTGGTGCATCATCCC +TTAACGCTTTTCTTTGGCGCGTATATTACACCGCATATCTCCTCCAACCTGATCGGGTTC +TTGTGCGGGCTGATATTTGTTATGGGTATTGCGTTAATTCTGTATGAAATTCATTTACGC +ATCCCGCTCCTGAAATTTCTCTTTTCAGGTAAACCGCCGGTAAAACAAGAAAGCCGCGCC +GCGATCGGGATGAAACATAAACGACAAATGATGAAAATGCGTTGGTTGGGCGCAGCTATT +ATGTTAACGCTCTACGCATCATCGAGCTGGGCGTTCAGTATTGATGACGTGGCAAAACAA +GCTCAATCTTTAGCCGGGAAAGGCTATGAGGCGCCTAAAAGCAACTTGCCCTCCGTTTTC +CGCGACATGAAATATGCGGATTATCAGCAGATCCAGTTTAACAGCGATAAAGCCTACTGG +AACAACTTAAAGACCCCTTTTAAGCTCGAATTTTACCATCAGGGGATGTACTTCGATACG +CCGGTCAAGATTAACGAAGTGACGGCGACGACGGTCAAAAGAATCAAATACAGCCCGGAT +TACTTCAATTTTGGCAATGTTCAGCACGATAAAGACACGGTAAAAGATTTAGGCTTCGCC +GGGTTCAAAGTCCTGTACCCCATTAACAGTAAAGATAAGAACGACGAAATCGTCAGTATG +CTTGGCGCCAGCTATTTCCGCGTTATCGGCGCAGGCCAGGTGTATGGCTTATCTGCGCGC +GGCCTGGCGATTGATACCGCCTTACCATCTGGTGAAGAGTTTCCCCGCTTTCGCGAGTTC +TGGATTGAGCGTCCAAAACCCACCGATAAGCGTTTGACCGTCTATGCATTACTGGATTCT +CCGCGCGCGACCGGCGCTTACCGTTTTGTGATCATTCCTGGCCGCGATACCGTGGTGGAC +GTGCAGTCAAAAGTCTATCTGCGCGATAAGGTGGGCAAGCTGGGCGTTGCGCCATTAACC +AGTATGTTCCTGTTTGGGCCAAACCAGCCGTCGCCGACGACCAACTATCGTCCGGAATTG +CATGACTCGAACGGCTTATCCATTCATGCGGGTAATGGCGAGTGGATTTGGCGTCCGCTG +AACAATCCAAAACACCTCGCTGTGAGCAGCTATGCGATGGAAAACCCTCAGGGATTCGGC +CTGTTGCAGCGTGGTCGCGAGTTCTCGCGCTTTGAAGATTTAGACGATCGCTATGACCTG +CGTCCAAGCGCCTGGATTACCCCGAAAGGCGACTGGGGCAAAGGTAAGGTTGAACTGGTT +GAAATTCCGACCAATGATGAAACCAACGATAACATCGTCGCTTACTGGACTCCGGATCAA +CTGCCGGAACCGGGTAAAGAGATGAACTTCAAGTACACTCTGACCTTCAGCCGCGATGAA +GATAAACTTCATGCGCCGGATAATGCCTGGGTGCTGCAAACACGCCGCTCAACGGGCGAC +GTTAAACAGTCGAATCTGATTCGCCAGCCCGACGGCACTATTGCCTTTGTGGTGGATTTC +GTTGGCGCCGACATGAAAAAACTGCCGCCGGATACGCCCGTCGCTGCACAAACCAGCATT +GGCGATAACGGTGAAATCGTTGACAGTAATGTACGCTATAACCCAGTCACTAAAGGCTGG +CGTTTAATGCTGCGCGTGAAAGTCAAAGACGCGAAGAAAACCACGGAAATGCGTGCCGCA +TTGGTGAATGCCGATCAGACGCTAAGTGAAACCTGGAGCTACCAGTTACCTGCCAATGAA +ATGAATAAAACAACTGAGTATATTGACGCACTGCTGCTTTCTGAACGTGAGAAAGCGGCA +TTGCCGAAAACTGACATCCGCGCCGTGCATCAGGCGCTGGATGCCGAGCATCGGACTTAC +TCGCGAGAAGACGATTCACCGCAGGGTTCCGTAAAAGCCCGCCTTGAACACGCCTGGCCG +GATTCATTGGCGAAGGGGCAGTTAATTAAAGATGATGAAGGGCGCGATCAGTTGCAGGCT +ATGCCAAAAGCGACGCGCTCTTCGATGTTTCCTGATCCCTGGCGAACCAACCCGGTTGGC +CGTTTCTGGGATCGCCTGCGTGGGCGGGATGTTACGCCGCGCTATGTTTCTCGTCTGACA +AAAGAAGAGCAGGCGAGTGAGCAAAAATGGCGTACCGTCGGCACTATACGCCGCTATATT +TTGTTAATTTTGACTCTGGCGCAAACCGTCGTTGCGACCTGGTATATGAAGACCATTCTG +CCCTATCAGGGATGGGCGCTCATCAATCCTATTGATATGGTGGGGCAGGATATTTGGGTC +TCCTTTATGCAGCTCCTGCCCTACATGCTGCATACCGGTATCCTGATTTTGTTTGCCGTG +CTGTTCTGCTGGGTGTCTGCCGGATTCTGGACTGCGCTGATGGGCTTCCTGCAACTGCTT +ATCGGGCGCGATAAGTACAGTATCTCCGCGTCTACGGTTGGCGATGAGCCCCTCAATCCG +GAACACCAGACGGCGCTGATCATGCCTATCTGTAATGAAGACGTTAGCCGCGTTTTCGCC +GGTCTGCGCGCGACCTGGGAGTCCGTTAAAGCTACAGGCAACGCCGCGCATTTTGACGTC +TATATCCTTAGCGATAGTTATAACCCGGATATTTGCGTGGCGGAGCAAAAGGCGTGGATG +GAGCTCATCGCGGAAGTGCAGGGCGAAGGCCATATTTTTTACCGTCGCCGCCGCCGCCGT +ATGAAACGCAAAAGCGGCAATATTGACGATTTTTGCCGCCGCTGGGGCAATCAGTACAGC +TATATGGTGGTGCTGGACGCGGACTCAGTGATTAGCGGCGAGTGTCTGAGCGGGCTGGTG +CGCCTGATGGAAGCGAACCCTAACGCCGGGATTATCCAGTCTTCGCCGAAAGCGTCGGGG +ATGGATACTCTGTATGCCCGCTGCCAACAGTTTGCGACCCGTGTTTATGGACCGCTGTTT +ACCGCCGGGCTGCACTTCTGGCAGTTGGGGGATTCGCACTACTGGGGGCACAATGCCATT +ATCCGCGTGAAGCCGTTTATCGAGCACTGCGCTCTGGCGCCGCTGCCGGGAGAAGGTTCG +TTCGCCGGATCGATTCTTTCCCACGACTTTGTTGAGGCGGCGCTAATGCGTCGGGCAGGG +TGGGGCGTCTGGATTGCCTACGATCTCCCCGGTTCCTATGAAGAGCTGCCGCCAAACCTG +CTGGATGAGCTTAAACGCGACCGCCGCTGGTGTCACGGCAACCTGATGAACTTTCGTCTG +TTCCTGGTGAAAGGAATGCACCCGGTGCATCGTGCCGTGTTCCTGACCGGGGTAATGTCA +TACCTGTCCGCGCCGTTATGGTTTATGTTCCTTGCGCTTTCTACCGCGCTGCAGGTCGTT +CATGCGTTAACAGAGCCGCAATATTTCCTTCATCCGCGCCAGCTTTTTCCGGTCTGGCCG +CAGTGGCGTCCGGAACTGGCAATCGCGCTGTTTGCGTCAACGATGGTGCTGCTGTTCCTG +CCGAAGCTGCTCAGTATTATGCTGATCTGGTGTAAAGGCACCAAAGAGTATGGCGGTTTC +TGGCGCGTTACGCTGTCGCTATTGCTGGAAGTTCTGTTCTCCGTGTTGCTGGCGCCGGTG +CGTATGCTGTTTCATACCGTGTTTGTGGTCAGTGCGTTCCTCGGCTGGGAAGTGGTCTGG +AACTCACCGCAACGCGACGATGATTCTACGCCTTGGGGAGAAGCCTTTATGCGTCACGGC +TCTCAACTGCTGCTGGGGCTGGTCTGGGCGGTTGGTATGGCGTGGCTGGATTTACGCTTT +CTGTTCTGGCTGGCGCCGATTGTCTTTTCGCTTATTCTGTCGCCATTTGTTTCGGTGATC +TCCAGTCGTTCAACGGTAGGATTACGCACCAATCGCTGGAAGCTGTTCCTGATCCCGGAA +GAGTATTCGCCGCCTCAGGTGTTGGTCGATACTGATAAATATCTGGAGATGAATCGCCGC +CGTATTCTGGACGATGGCTTTATGCATGCGGTTTTTAACCCGTCGCTTAATGCGCTGGCG +ACCGCGATGGCCACCGCGCGTCACCGCGCCAGTAAGGTGCTGGAAATAGCCCGCGATCGT +CATGTGGAGCAGGCGCTAAACGAAACGCCGGATAAACTGAACCGCGATCGGCGTCTGGTT +TTGCTCAGCGATCCGGTGACGATGGCGCGTTTTCACTATCGGGTCTGGAATGCGCCAGAG +AGATACTCTTCCTGGGTAAACCATTATCAGTCTCTCGTCCTGAATCCGCAGGCGTTGCAG +GGACGAACATCGTCAGCGGGAGTGCGTATATTCGCGGTGAGCATAATGGTGATTACCCTG +AGCGGCTGCGGCAGTATTATCAGCAGAACGATCCCCGGACAAGGACACGGCAACCAGTAT +TACCCTGGCGTGCAGTTGGATATGCGTGATTCCGCATGGCGCTATATCACTATCCTCGAT +CTGCCCTTCTCACTGATCTTCGATACACTGCTACTGCCGCTCGATATTCACCACGGGCCT +TATGAGATGAAAAAAAACCTGCTGGGATTCACCCTCGCATCCTTGTTATTCACGACCGGT +TCCGCCGTGGCGGCGGAGTATAAAATTGATAAAGAAGGCCAACATGCGTTCGTCAATTTC +CGCATCCAGCATCTGGGCTACAGCTGGCTATACGGCACCTTTAAAGATTTCGACGGCACG +TTCACTTTTGACGAAAAAAATCCGTCAGCAGACAAAGTGAATGTGACCATTAACACCAAT +AGCGTCGACACTAACCATGCCGAACGTGACAAACACCTGCGTAGCGCGGAGTTTCTTAAT +GTTGCGAAATTCCCGCAGGCAACCTTCACCTCTACCAGCGTGAAAAAAGAGGGCGATGAA +CTGGATATTACCGGCAATCTGACGCTCAATGGCGTGACTAAACCGGTGACGCTGGAAGCG +AAGCTGATGGGCCAGGGCGACGATCCGTGGGGCGGTAAGCGCGCGGGCTTTGAGGCCGAA +GGAAAAATTAAGCTGAAAGATTTCAATATAACTACCGATCTCGGCCCAGCCTCACAAGAG +GTGGAGCTTATCATCTCAGTAGAAGGCGTTCAGCAGAAGATGTTACTGATGATGGCGCTG +ATCGTGCGTATTATCTGGCGGCTTTATTCTCCGCCGCCCGTTGCGTTGACCAGCTATTCC +CGTTTAACGCGCATTGGCGCCGCCGCGGGTCATATCCTTCTGTATCTCCTGCTCTTTGCG +ATAATCATTAGCGGCTACCTGATTTCCACCGCCGACGGTAAACCGATTAGCGTCTTTGGC +TGGTTTGAGATTCCGGCCACGCTTACGGACGCGGGCGCGCAGGCTGACATCGCCGGAACA +CTGCATCTGTGGTTTGCCTGGTCGCTGGTCATTATCTCGCTCTCGCATGGGGTTATGGCG +CTAAAACACCATTTCATCGATAAAGACGACACACTGAAACGTATGACAGGAATGTCGTCA +TCTGACTATGGAGCTCAAAAAATGAAATACGACCTTATTATTATCGGCAGCGGTTCGGTT +GGCGCCGCCGCTGGTTATTACGCCACCCGCGCCGGGCTAAAGGTCCTGATGACCGATGCG +CATATGCCGCCTTATCAACAGGGCAGCCACCACGGCGATACCCGTCTTATCCGCCACGCT +TATGGTGAAGGCGAAAAATATGTCCCGCTGGTGCTTCGCGCCCAGACGCTTTGGGATGAG +CTCTCCACACACAATGAAGAGCCTATTTTTGTCCGCTCCGGCGTCGTCAACCTCGGCCCG +GCCGATTCCGCTTTCTTAGCCAACGTCGCACGAAGCGCGCAACAGTGGCAATTGAACGTC +GAGCGCCTGGACGCGACGGCCCTCATGACGCGCTGGCCGGAAATTCGCGTGCCCGATAAT +TATATCGGGCTGTTTGAAGCTGACTCCGGTTTCCTGCGCAGCGAATTAGCCATTACCACA +TGGCTTCGTCTGGCCCGAGAGGCAGGCTGCGCACAGCTATTCAACAGCCCGGTAAGCCAT +ATTCACCATGATGATAACGGTGTGACGATAGAGACGAGTGAAGGCTGCTACCACGCCAGC +AAAGCGCTGATTAGCGCGGGCACCTGGGTCAAAACGCTGGTACCGGAGCTGCCCGTTCAG +CCCGTACGTAAAGTTTTTGCCTGGTTTAAGGCGGATGGACGTTACAGCACTAAAAACCGC +TTTCCGGCCTTTACCGGCGAAATGCCCAACGGCGATCACTATTACGGTTTCCCGGCGGAG +AACGACGAGTTAAAAATCGGCAAACACAATGGCGGGCAGCGAATACAGGCACCGGAAGAG +CGCAAGCCCTTTGCCGCCGTTGCCAGCGATGGCGCGGAAGCATTTCCTTTCCTGCGTAAC +GTACTGCCGGGTATCGGCGGTTGTTTACATGGGGCGGCATGTACCTATGATAATTCGCCG +GACGAGGATTTTATTATCGATACGCTGCCTGGCCATGAGAATACGCTTGTCATCACTGGA +CTCAGCGGACATGGTTTTAAATTCGCCCCGGTGTTAGGAGAAATCGCTGCGGATTTTGCG +TTGGGAAAAACGCCCTCCTTTGATCTGACGCCGTTCCGGCTTTCCCGTTTTAGCCAAATG +GAAAAGAATAATGAAGTCATTCAGACCCATCCGCTTGTAGGATGGGACATCAGCACCGTC +GATAGCTATGATGCGCTGATGCTGCGTTTACACTACCAGACCCCAAATCGTCCGGAACCG +GAAGGGACTGAAGTTGGTCAAACGCTCTGGTTAACGACAGATGTAGCCAGGCAATTTATT +TCAATATTAGAAGCCGGCATCGCCAAAATAGAATCAGGCGATTACCAGGAAAACGAGTAT +CGTCACCAT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reformat_input_gffs/expected_fixed_query_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,220 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=5d3897f59edf296200f1c7de895509e1_1;gene=different;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=5d3897f59edf296200f1c7de895509e1_2;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;ID=5d3897f59edf296200f1c7de895509e1_3;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=5d3897f59edf296200f1c7de895509e1_4;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 gene=speH;ID=5d3897f59edf296200f1c7de895509e1_5;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reformat_input_gffs/expected_fixed_query_3.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,220 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=1_1___6;gene=different;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002___7;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003___8;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004___9;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=1_2___10;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reformat_input_gffs/expected_real_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,223 @@ +##gff-version 3 +##sequence-region 2 1 15000 +2 annotation remark 1 15000 . . . ID=id___1;accessions=REL607;comment=Source DNAEscherichia +2 feature source 1 4629812 . + . ID=id___2;mol_type=genomic DNA;organism=Escherichia coli;strain=REL607 +2 feature CDS 190 255 . + 0 ID=id___3;codon_start=1;gene=thrL;locus_tag=ABC_00001;note=b0001;product=thr operon leader peptide;protein_id=kribb:ABC_00001;transl_table=11;translation=MKRISTTITTTITITTGNGAG +2 feature gene 190 255 . + . ID=id___4;gene=thrL;locus_tag=ABC_00001 +2 feature CDS 336 2798 . + 0 ID=id___5;EC_number=2.7.2.4,1.1.1.3;codon_start=1;gene=thrA;locus_tag=ABC_00002;note=b0002;product=bifunctional aspartokinase I/homeserine dehydrogenase I;protein_id=kribb:ABC_00002;transl_table=11;translation=MRVLKFGGTSVANAERFLRVADILESNARQGQVATVLSAPAKITNHLVAMIEKTISGQDALPNISDAERIFAELLTGLAAAQPGFPLAQLKTFVDQEFAQIKHVLHGISLLGQCPDSINAALICRGEKMSIAIMAGVLEARGHNVTVIDPVEKLLAVGHYLESTVDIAESTRRIAASRIPADHMVLMAGFTAGNEKGELVVLGRNGSDYSAAVLAACLRADCCEIWTDVDGVYTCDPRQVPDARLLKSMSYQEAMELSYFGAKVLHPRTITPIAQFQIPCLIKNTGNPQAPGTLIGASRDEDELPVKGISNLNNMAMFSVSGPGMKGMVGMAARVFAAMSRARISVVLITQSSSEYSISFCVPQSDCVRAERAMQEEFYLELKEGLLEPLAVTERLAIISVVGDGMRTLRGISAKFFAALARANINIVAIAQGSSERSISVVVNNDDATTGVRVTHQMLFNTDQVIEVFVIGVGGVGGALLEQLKRQQSWLKNKHIDLRVCGVANSKALLTNVHGLNLENWQEELAQAKEPFNLGRLIRLVKEYHLLNPVIVDCTSSQAVADQYADFLREGFHVVTPNKKANTSSMDYYHLLRHAAEKSRRKFLYDTNVGAGLPVIENLQNLLNAGDELMKFSGILSGSLSYIFGKLDEGMSFSEATTLAREMGYTEPDPRDDLSGMDVARKLLILARETGRELELADIEIEPVLPAEFNAEGDVAAFMANLSQLDDLFAARVAKARDEGKVLRYVGNIDEDGACRVKIAEVDGNDPLFKVKNGENALAFYSHYYQPLPLVLRGYGAGNDVTAAGVFADLLRTLSWKLGV +2 feature gene 336 2798 . + . ID=id___6;gene=thrA +2 feature CDS 2800 3732 . + 0 ID=id___7;EC_number=2.7.1.39;codon_start=1;gene=thrB;locus_tag=ABC_00003;note=b0003;product=homoserine kinase;protein_id=kribb:ABC_00003;transl_table=11;translation=MVKVYAPASSANMSVGFDVLGAAVTPVDGALLGDVVTVEAAETFSLNNLGRFADKLPSEPRENIVYQCWERFCQELGKQIPVAMTLEKNMPIGSGLGSSACSVVAALMAMNEHCGKPLNDTRLLALMGELEGRISGSIHYDNVAPCFLGGMQLMIEENDIISQQVPGFDEWLWVLAYPGIKVSTAEARAILPAQYRRQDCIAHGRHLAGFIHACYSRQPELAAKLMKDVIAEPYRERLLPGFRQARQAVAEIGAVASGISGSGPTLFALCDKPDTAQRVADWLGKNYLQNQEGFVHICRLDTAGARVLEN +2 feature gene 2800 3732 . + . ID=id___8;gene=thrB;locus_tag=ABC_00003 +##FASTA +>2 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reformat_input_gffs/query_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,220 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=1_1;gene=different;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=1_2;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reformat_input_gffs/query_2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,220 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=1_1;gene=different;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;ID=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 gene=speH;ID=1_2;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reformat_input_gffs/query_3.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,220 @@ +##gff-version 3 +##sequence-region abc|SC|contig000001 1 15000 +abc|SC|contig000001 Prodigal:2.60 CDS 172 1131 . - 0 ID=1_1;gene=different;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:Q2G1X0,protein motif:TIGRFAMs:TIGR01002,protein motif:Pfam:PF07968.6;locus_tag=abc_00001;product=Alpha-toxin,beta-channel forming cytolysin,Leukocidin/Hemolysin toxin family protein;protein_id=gnl|SC|abc_00001 +abc|SC|contig000001 Prodigal:2.60 CDS 1804 1950 . + 0 ID=abc_00002;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00002;product=hypothetical protein;protein_id=gnl|SC|abc_00002 +abc|SC|contig000001 Prodigal:2.60 CDS 1934 2131 . + 0 ID=abc_00003;inference=ab initio prediction:Prodigal:2.60;locus_tag=abc_00003;product=hypothetical protein;protein_id=gnl|SC|abc_00003 +abc|SC|contig000001 Prodigal:2.60 CDS 2621 3337 . - 0 ID=abc_00004;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK13350,protein motif:Pfam:PF02876.11;locus_tag=abc_00004;product=superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00004 +abc|SC|contig000001 Prodigal:2.60 CDS 3445 4170 . - 0 ID=1_2;gene=speH;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:UniProtKB:P0C0I6,protein motif:CLUSTERS:PRK13349,protein motif:Pfam:PF02876.11;locus_tag=abc_00005;note=SPE H;product=hypothetical protein,superantigen-like protein,Staphylococcal/Streptococcal toxin%2C beta-grasp domain;protein_id=gnl|SC|abc_00005 +##FASTA +>abc|SC|contig000001 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reformat_input_gffs/real_1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,223 @@ +##gff-version 3 +##sequence-region 2 1 15000 +2 annotation remark 1 15000 . . . accessions=REL607;comment=Source DNAEscherichia +2 feature source 1 4629812 . + . mol_type=genomic DNA;organism=Escherichia coli;strain=REL607 +2 feature CDS 190 255 . + 0 codon_start=1;gene=thrL;locus_tag=ABC_00001;note=b0001;product=thr operon leader peptide;protein_id=kribb:ABC_00001;transl_table=11;translation=MKRISTTITTTITITTGNGAG +2 feature gene 190 255 . + . gene=thrL;locus_tag=ABC_00001 +2 feature CDS 336 2798 . + 0 EC_number=2.7.2.4,1.1.1.3;codon_start=1;gene=thrA;locus_tag=ABC_00002;note=b0002;product=bifunctional aspartokinase I/homeserine dehydrogenase I;protein_id=kribb:ABC_00002;transl_table=11;translation=MRVLKFGGTSVANAERFLRVADILESNARQGQVATVLSAPAKITNHLVAMIEKTISGQDALPNISDAERIFAELLTGLAAAQPGFPLAQLKTFVDQEFAQIKHVLHGISLLGQCPDSINAALICRGEKMSIAIMAGVLEARGHNVTVIDPVEKLLAVGHYLESTVDIAESTRRIAASRIPADHMVLMAGFTAGNEKGELVVLGRNGSDYSAAVLAACLRADCCEIWTDVDGVYTCDPRQVPDARLLKSMSYQEAMELSYFGAKVLHPRTITPIAQFQIPCLIKNTGNPQAPGTLIGASRDEDELPVKGISNLNNMAMFSVSGPGMKGMVGMAARVFAAMSRARISVVLITQSSSEYSISFCVPQSDCVRAERAMQEEFYLELKEGLLEPLAVTERLAIISVVGDGMRTLRGISAKFFAALARANINIVAIAQGSSERSISVVVNNDDATTGVRVTHQMLFNTDQVIEVFVIGVGGVGGALLEQLKRQQSWLKNKHIDLRVCGVANSKALLTNVHGLNLENWQEELAQAKEPFNLGRLIRLVKEYHLLNPVIVDCTSSQAVADQYADFLREGFHVVTPNKKANTSSMDYYHLLRHAAEKSRRKFLYDTNVGAGLPVIENLQNLLNAGDELMKFSGILSGSLSYIFGKLDEGMSFSEATTLAREMGYTEPDPRDDLSGMDVARKLLILARETGRELELADIEIEPVLPAEFNAEGDVAAFMANLSQLDDLFAARVAKARDEGKVLRYVGNIDEDGACRVKIAEVDGNDPLFKVKNGENALAFYSHYYQPLPLVLRGYGAGNDVTAAGVFADLLRTLSWKLGV +2 feature gene 336 2798 . + . gene=thrA +2 feature CDS 2800 3732 . + 0 EC_number=2.7.1.39;codon_start=1;gene=thrB;locus_tag=ABC_00003;note=b0003;product=homoserine kinase;protein_id=kribb:ABC_00003;transl_table=11;translation=MVKVYAPASSANMSVGFDVLGAAVTPVDGALLGDVVTVEAAETFSLNNLGRFADKLPSEPRENIVYQCWERFCQELGKQIPVAMTLEKNMPIGSGLGSSACSVVAALMAMNEHCGKPLNDTRLLALMGELEGRISGSIHYDNVAPCFLGGMQLMIEENDIISQQVPGFDEWLWVLAYPGIKVSTAEARAILPAQYRRQDCIAHGRHLAGFIHACYSRQPELAAKLMKDVIAEPYRERLLPGFRQARQAVAEIGAVASGISGSGPTLFALCDKPDTAQRVADWLGKNYLQNQEGFVHICRLDTAGARVLEN +2 feature gene 2800 3732 . + . gene=thrB;locus_tag=ABC_00003 +##FASTA +>2 +ACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTAATTTAAAATAGTTCTTTAAATTAT +ATACCCACCACATTTGGTGGAGAACCAAAAATTAGCCGAAAAACATCATTTCTGAAGTTA +TCGGCTAAAGTTATAAATTATATTTATTTGTACATGAACAAATAATTTACATTAATTTGT +CATTTCTTCTTTTTCCCAATCGATTTTATATCTTTCTGAAGAACGATCTGTCCATTTATC +TTTAGTATTGGTACCTTTCCAATTTGTTGAAGTCCAATGCAATTGGTAGTCATCACGAAC +TCGTTCGTATATTACATCTATATTTGTTTGTTGTTTGGATGCTTTTCTATCCATAGTAAT +AACTGTAGCGAAGTCTGGTGAAAACCCTGAAGATAATAGAGAACTTGCTTTGTTAGGATC +AAGGAAGTTCTCTGCTGCTTTCATAGAACCATTTCTAGTTTTCATGAAAAGTTGATTGCC +ATATACCGGGTTCCAAGAATCTCTATCATATGGTCCCCAATTTTGATTCACCATATTGTT +AAATATCACTTTCCAGCCTACTTTTTTATCAGTTGGGCTCTCTAAAATTGTTTTGAAATC +AGGTTGAACATATTTCAGTGTATGACCAATCGAAACATTTGCACCAATAAGGCCGCCAAT +TTTTCCTGTATCATCACCAGTAACATTACCGTTGAATCCATAAGTTAAAGTACTCATATA +CTCTTTTGTATCAATCGAATTTCTTGGATAGTAATCAGATATTTGAGCTACTTCATTATC +AGGTAGTTGCAACTGTACCTTAAAGGCTGAAGGCCAGGCTAAACCACTTTTGTTAGCACC +TTCTTCGCTATAAACTCTATATTGACCAGCAATGGTACCTTTCGTTCTAATAACTAGCAG +TTTTTTATTGTGATTTTTATCATCGATAAAACTATAAAATACTTTTTTGTGCATGCCATT +TTCTTTATCATAAGTGACTAAATCACCTGTTTTTACTGTAGTATTGCTTCCAATATCTGT +AGTACCGGTTTTAATATTAATATCAGAATCTGCGGCATTAGCGACAGGATTCATTAATAT +GGAACCTAGCAATAGTGTTGTTGTTACTGAGCTGACTATACGTGTTTTCATTTTCATCAT +CCTTCTATTTTTTTTAACGATTTGAGGAAACAATAATCAATATGTCAATTTAGAATATTG +CAGTTGAGACATATCAAATATTTATAATCGTTTATATTAGTATATTTAATGTAGCAACTG +ATAAATTACTGAGTGATGATGAGTGATTATTTTAAGAATATGTTTTTAACTTTTATTTAA +AATTTGAAAGGAAGCATTTCAATTTCGAGGGTTAGTCAAAGTTGAATAAATTCTTTATGA +AACAAGGAAAAGACATAGCTAATTTTATTGATTAATTTCTTTAAAACTAATGATTTGTTT +GATTTAAAAATGTAATCGATTACAATATAAAAATACAAATATCTTAGAATTAAATCAATT +AATTAACTATTAAATAAAAATTAAATATATATTAACTACTGTAAATTAATAAATAGAAAT +AGAGAAAAAGGGTATTAATTATGTTTGGAATTTCGTCGGGAATAATTTTTGCCATTACAT +AGAAATATCTAATAGATAATGAAAAAGTATCGTATGTATTTTTAATATAGTGTAAAATAT +CATATGTAAAATAAAATGTAGATTTTTAGTTAGAGGCATTATAAGAAAATTTTGAGTATA +GGTTAGCTTTTAATTATGAATCTTATTGAAATTTGATTAATAAATATATGATAGGGGATT +AAAATGAAACTATTTTATATCGTATTTCTTATTATTATATGGCTGAATATATTTTTAGGA +AATGAAATTATCCATACACTGACTGTTTTAATAACAACATTGTATATTGTTAATTCAAGA +AAGGGGATTAAAAATGACAGAGTTGAATAATATTATAAACTCTCTTCAATCTTTGTTTGA +GTCTGAATCAGGCTATAAAATTTCGAAAAATTCAGGAGTTCCATATCAAACAGTACAAGA +TTTAAGAAATGGGAAAACCAAACTAGAAGATGCTAGATTTAGAACGATTATTAAACTTTA +TAGTTACTATGTCTCATTAAAAGAACATTAATCATGGGACAATAAAGTATTGCTATAATA +ATTGAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCT +ACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGACCATGTAACAAGCATTTTTGG +GGCCCCAACACAGAAGCTGACGAAAAGTCAGCTTACAATAATGTGCAAGTTGGGGATGGG +CCCCAACACAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGCGGGGCCCCA +ACATAGAGAAATTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGAGTGACAACGAAA +TAAATTTTATAAAATACCATTTCTGTCACATTCCTACTCCCAATTCCATTTAAATATATA +GAAAATTTCACCTATTATATACATCATACACTTTAAAAATTATCATTTAAATAATCTGAT +TTGGAATTAAAGTGCATGAAGTATAAGTCACCTTCATATACTAATCAAAGAGGACGTCAA +CAGTTATTTTATTAGGATTTTTAACATAAACATTTGCTAGATCTGAATGTAATCTTTTGC +TTAAATCAATAGTGTAGTTATTACCGCCACCGGTGATCTTAAGCTTACCTTTATTACGAT +TTTCGGTATATAATATTTTATTTTTTATTAACGCTTCTCGTGCACGGAAATCGATTTCTT +TCAATGTTAATACTGGTTTATTGCCTTGGTATATTTTATGCGCACCAATAATCGTTTGTA +GTTTATCTTTGTATTGCACAAAAAGATTATAAGTTTTATCAGAAGGTTTTGCGGCTGGTG +TAACGCCACCTGTAAATGTCTCTCTATAAGACCACCATAACTGATCAGTATCTTTGTCTT +TTAGTCCAAACACATCTACGTAACGATCTTTTAACTGATTAATATTTCCCCAACTTTCAG +CGCCCCATAAAGATATATGTGCTGACCATGAATATCTCTTAAGTTCAACATAAATGTTTC +CATTATCATATTGATATAGCCATTTATTTGAAAATGAAAAATGAGGCTGTGTGTAATATT +TAATTAATTCATTGATGTTAGTTTCATCTTGACCAATGCTATAAGCTTTAGCTTCAGAGT +AAAAACTAAATACTGGTTTTTGATTTTGAGGTAATACAGTACCTAATAGTAATAATGTTG +TCGTTAAAATTATATTTTTCGTGATGTTCTTACTCATTAGAACATCTCCTTTCAGAGGAA +TCATGATACGAGGAATAAGAAATTTAAATGTGAGCGAAGTCAATATAGTATTTGCGATTA +TTTTTATTAACTCCATTATTATTGTTAGTTTGATTTTTCGAGGATAACTTCAATTTTTGC +ATTTTGAGGTTTTTTAACATATCTATTTGCATCAGTTGATGGCAACCTTTTACTTAAATC +TATTGTGTAGTTATTGTCTGTACCTGTTATTTTAATTTGTCCTTTATTATAAGAATTATT +ATATAATTTTTTACTTTTAATTAATGTTTGACGAATACGAAAATCTAATTCTTTTAAAGT +TAAAACAGGCTTATTGCCTTCATAAACTGGAAATCCGCCAGTAAACGTTTCTGCTTTATC +TTTATATGTTACATTCAGTTTATAGTGTTTATCGTTAGATGTTGCTGCAGGAGTAACACC +ACCAGTAAACGTTTCTTGAGATAATGCAAAAGAATCAATGGTTTCTTGGTCTTTTATGCC +AAAAATATCAACGCTTTTATTTCTTAATTGGTTGATATTGCCCCAACTTTCAGGTCCATA +AACTTGAATATGACTATACCAAGAAAACTGTAACAACGTTGCATGAATCGTACCGTTATC +TTTTTGCCATAACGTACTGTTAGAGAAGGTTAAATATTTTTGCGAGTAATATTTAGTTAA +CTCATTAACGTTAGTTTCGTTTTGATTTATATAATAAGCTTTCGCTTCAGATGAAGAATT +GATAGGTGTATTAGGAAATTGTGTAAATGCTGTACCTAATAGTAACAATGTTGTTGATAA +AATAATTTTTTTCGTGATGTTATTGTTCATTCGAATTTCTCCTTTGAGTATTGTTGGAAT +GTTTAATTATAAAAAGGGGTTAATTAGATAATTGAAATTATCCGCATTTACAAAAGGTAA +TAGGTTAGTTAGATTTTTCGAGTATGACTTCAATTTGTGCATTTTTAGGATTTTTAACAT +AACGGTTTGTGTCAGTTAATTTTAACTTTTTACTTAAATCAATCGTGTAATTATTTCCAT +CAGCAGTTATCTTAATTTGACCTTTATTAAATTCTCCGTTATATAACTTTTTATTCTTTA +TTAATGTTTGACGAATACGGAAATCTAATTCTTTTAAAGTTAATACTGGTTTATTTCCTT +TGTAAAATTCATGTCCACCGATGATAGTTTGTTGTTTATCACTATATTTTAAAAATAGTC +TATAAGGTTTATCAGATGAAGTAGCTGCTGGCGTAACACCACCAGTAAATGTTTCATCAT +AAGTCCAGTAACCTTCAACTGTGTCCTCATCTTTAGTTCCAAATATATCAACGTATTTAT +TTCTTAACTGATTAATGTTTCCCCAACTCTCGGATCCAAACACTTGAATATGACTATACC +AAACCCACGTTTGCAATGTTGCATGAATGCTACCATTGGGCTTTTGCCATAGCCATTTTC +CAGATAATGAAAAATGCGGCTGAGTGTAATATTTGATTAACTCATTGATATTAGTCTCGT +TTTCACTGATATTATAGGCTTTTGCTTCAGATGAAAAACTGATTGGTGTTTTAGGAAGTT +GTGTTGATGTGGTTCCTAAAAGTAACAATGCTGTTGATAAAACTAATTTATTCATGATGT +TCTTTTTCATATGAAAATCTCCTTTGCGTGAATTACCCAAAGTATATAAGCTATTACACC +GATTCGGAATTAAATAAAAGCTAAAACTATGTTAAATAAACTTAAACAGTTAGTAGTGTT +ATTTAAGCAAAACTTATCATTTTTAAGTTTTGGACAGAAACAGTACTTAATAAAGTAGGC +GGGAGTTATATATTAAAAACGACACGTTACAATTATTCTCTAATCAATTGCATTAAATTG +TTTGATAATTGAATTTTCTAACTACTTGAAAAATAGTTATACTTTAAATGTAGTACTTAT +TTTAATTATTTCCTACTACTTAAATTTAATATTAATAAAATGTTCATTTAATTATTGATA +AAATATTACAAATTTTAATAGTAGGTTGTGTTTATTTTGTATGCGCTTACAATTTAGGTG +TAACTAAAATAAAAGGAGTTGTTATTAATGAAAAATTTACGAAACAGAAGTTTTTTAACT +TTATTAGACTTTTCACGACAAGAGGTAGAATTCTTATTAACACTCTCCGAGGATTTAAAA +CGTGCTAAATATATTGGCACTGAAAAGCCTATGTTAAAAAATAAAAATATTGCACTGTTA +TTTGAAAAAGATTCTACAAGAACGCGATGTGCATTTGAAGTTGCAGCGCATGATCAAGGT +GCAAATGTAACTTATTTAGGCCCAACTGGATCACAAATGGGTAAAAAAGAAACAACTAAA +GATACTGCACGTGTGCTTGGTGGAATGTATGATGGCATTGAATACCGTGGTTTTTCACAA +AGAACAGTAGAAACTTTAGCTGAAAATTCAGGCGTACCAGTGTGGAATGGTTTAACTGAT +GAAGATCATCCTACTCAAGTTCTTGCTGATTTCTTAACAGCAAAAGAAGTCTTAAAAAAA +GATTATGCAGATATTAACTTTACATATGTTGGAGATGGTCGTAATAACGTTGCAAATGCA +TTAATGCAAGGTGCTGCCATTATGGGTATGAACTTCCATTTAGTTTGTCCAAAAGAATTA +AATCCAACAGATGAATTATTAAATCGCTGTAAAAATATTGCCGCTGAAAATGGTGGCAAC +ATATTAATCACAGATGATATTGACCAAGGTGTAAAAGGTTCGGATGTAATTTACACTGAT +GTTTGGGTATCAATGGGTGAACCTGATGAAGTATGGAAAGAACGACTTGAATTATTGAAA +CCATATCAAGTAAATAAAGAAATGATGGATAAAACTGGTAATCCAAATGTTATTTTTGAG +CATTGCTTACCATCTTTCCATAATGCTGATACGAAAATTGGTCAACAAATTTTTGAAAAA +TATGGTATTCGAGAAATGGAAGTTACAGATGAAGTATTCGAAAGTAAAGCTTCAGTTGTA +TTCCAAGAAGCTGAGAACAGAATGCATACAATCAAAGCAGTCATGGTTGCTACATTGGGT +GAATTTTAAATGATATAAGGAAGTGAATATGATGGCGAAAATAGTAGTAGCATTAGGTGG +TAATGCTTTAGGAAAATCACCTCAAGAACAACTCGAGCTTGTTAAAAATACTGCGAAATC +ATTAGTAGGATTAATAACAAAAGGACATGAGATTGTTATTAGTCATGGTAATGGACCACA +GGTTGGAAGCATTAATTTGGGACTTAACTATGCTGCAGAACATAACCAAGGTCCGGCATT +TCCATTTGCTGAATGTGGCGCAATGAGTCAAGCTTACATCGGCTATCAATTACAAGAAAG +CTTACAAAATGAATTGCATTCTATTGGAATGGATAAACAAGTGGTAACACTAGTGACACA +AGTTGAAGTTGATGAAAATGATCCGGCATTTAACAATCCTTCAAAACCAATTGGGTTATT +TTACAACAAAGAAGAAGCTGAACAAATTCAAAAAGAAAAAGGATTTATATTTGTTGAAGA +TGCTGGAAGAGGATATAGACGCGTTGTTCCTTCACCACAACCCATCTCTATTATTGAATT +AGAGAGTATTAAAACACTTATTAAAAATGATACACTCGTTATTGCTGCTGGTGGTGGAGG +TATACCAGTAATTAGAGAGCAACATGATGGTTTTAAAGGTATTGATGCAGTTATAGACAA +AGATAAAACAAGTGCGTTGTTGGGTGCTAATATTCAATGCGATCAATTGATTATTTTAAC +AGCAATTGATTATGTATATATTAATTTTAACACTGAAAACCAACAGCCTTTGAAAACAAC +AAATGTTGATGAATTAAAACGATATATAGACGAAAATCAATTTGCAAAAGGAAGTATGTT +ACCAAAAATTGAAGCAGCCATATCATTTATTGAAAACAATCCAAAAGGAAGTGTGCTTAT +AACATCATTAAATGAATTAGATGCTGCCTTAGAGGGTAAAGTAGGTACTGTGATTAAAAA +GTAATTGAATTGAAACGCTTTTCAATTACTATATGTCAAATGCATGATTTTTATTATTTA +TGTGCACCCCCTGAAAATAATGCCTCTATTTTGATGCGGGGTGCACTTTCTTAATTTATA +TTTATAAAATCTTTAAGGTAGAAATGCTAGGTTAAATGTCGAAGGAGATGAAACCGTGGA +AAATACAATTAATGAAAGTGAAAAGAAAAAACGATTTAAATTAAAAATGCCAGGTGCATT +TATGATTTTATTCATTTTAACGGTTGTTGCAGTTATAGCAACATGGGTTATTCCTGCTGG +TGCATATTCTAAACTTTCTTACGAACCTTCATCCCAAGAACTAAAGATAGTTAACCCTCA +TAACCAAGTGAAAAAGGTTCCGGGTACGCAACAGGAACTAGACAAAATGGGGGTTAAAAT +TAAGATTGAACAATTTAAATCAGGTGCAATTAATAAGCCAGTATCAATTCCGAATACTTA +TGAAAGATTAAAGCAACATCCAGCTGGACCAGAACAAATAACAAGTAGCATGGTTGAAGG +TACGATAGAAGCGGTCGATATCATGGTATTCATTCTTGTACTAGGGGGACTTATTGGCGT +AGTTCAAGCCAGTGGTTCTTTTGAATCGGGATTGTTAGCTTTAACGAAGAAAACAAAAGG +GCATGAATTTATGCTAATTGTGTTTGTATCAATACTAATGATTATCGGCGGGACGTTATG +TGGTATTGAAGAAGAAGCTGTAGCATTCTATCCGATTTTAGTCCCTATATTTATAGCGTT +AGGATACGATTCTATCGTTTCAGTTGGTGCCATATTCCTTGCCAGCTCTGTCGGTAGTAC +ATTTTCAACTATTAACCCGTTCTCGGTTGTAATTGCCTCTAATGCCGCTGGTACAACTTT +TACGGATGGCTTGTATTGGAGAATAGGTGCTTGTATTGTCGGTGCGATTTTTGTTATTAG +TTATTTATATTGGTACTGTAAAAAAATTAAAAACGATCCTAAAGCGTCATATTCTTATGA +AGACAAAGATGCTTTTGAACAGCAATGGTCTGTATTAAAAGATGACGATAGTGCCCATTT +TACTTTGCGTAAGAAGATAATCCTTACATTATTTGTACTACCATTTCCAATTATGGTATG +GGGAGTTATGACGCAAGGTTGGTGGTTCCCAGTTATGGCTTCAGCATTTTTAATATTTAC +AATTATAATAATGTTTATTGCTGGGACAGGTAAATCTGGATTGGGAGAAAAAGGAACTGT +AGATGCATTTGTCAATGGTGCATCAAGTTTAGTAGGTGTATCTTTAATTATTGGTTTAGC +TCGAGGTATTAATTTAGTGTTGAATGAAGGTATGATTTCAGATACAATCTTACACTTTTC +ATCATCTTTAGTTCAACATATGAGTGGACCATTATTTATCATCGTATTACTATTTATTTT +CTTCTGTTTAGGTTTTATCGTGCCATCATCTTCTGGATTAGCGGTATTATCAATGCCTAT +CTTTGCACCACTAGCTGATACAGTAGGTATACCAAGATTCGTCATCGTTACGACATATCA +ATTTGGTCAATATGCGATGTTATTCTTAGCGCCGACTGGACTTGTTATGGCCACACTACA +AATGTTAAACATGCGATATTCACATTGGTTCCGATTTGTATGGCCGGTAGTTGCTTTTGT +ATTGATTTTCGGTGGCGGAGTACTAATTACGCAAGTACTAATTTATTCATAATTTGAAAT +GCTATATTATAAAAATACTAATTGGGTTTTATGCATCTCGTAGGTTTGTAGAAATACTAA +ACTAAGCGAGGTGCATTATTATTTTTGATTAAGAAAATAATGACGGTAATGATAACACTA +GTAAGTAATTGATACAATGCTCTATTTAATAATGATATTTTTAAAATTTGTTTTTAATGT +AATGTTAGATCTATGGTATATTATATTTATCGTGGTAAATATGTATTTGCTGTAAACAGT +TTTTGTAACACATGACACATATGGTTGTGAAAATAGCATATATAAAGGATGGCTATAAAT +GACACATTTGACAAAGGTTTTAGATACACTAACTGGAATATGCGTAGTATTATTATTTAG +TAAATATTTTGTGGCGTATGCAAATATGGTGTTTGATTGGAATTTAAGATGGTATTTGCT +AGAAAACATACCACATTTGCCAATTATATTATTTATTCTGATGTTTATTTTCGGAGTACC +TTCTGAAATGATAAAAGATAGGCAAAGGAAAAATAACGGTGTTTAATTTATCGATATTTA +GAGGTGATAAAATTTGTCAACTATTACAAAGACTAAAATAAAAATCTTTATTAATTATTT +TATTGGTATATTAGCCTTGGCGTTTGCTGCTTATATATTATTTAAATAAAGGTTAGAGTG +AAACGTGTTTATGAACTAGACGTTCTAGTATAGTTACTACAGCTTTAGTCAGAAGGTATC +ATTGATAAGATCATATTAAATCAAAGAGGCATTGATATACACTAAAAAGAGGCAAGATTA +CCTGCCTCTTTTTTAGTTATTAAATATGCGTGTTAATTCTTGGTAATAGTGTTACTGAGA +CGCATTACGAAGAAATTTATCTTGATTTTCCTTTTTTAAAAAGAAGTGAAGATATCCTAT +AAAGACTCTAAGTACTATTACAGTGGCTAATAACACTTCGATAAACAAAAGACCTTTCCA +AATATCTGGAAACATAAGTACAGGCAAACTGTTCTTTAAAGCAGTTGCTGAGATTACTAA +AGGGAATGTGAAAGCTGAAAATACGGGCGAAAAAGGTTCTTTTAGTAATTTAGGCAATTG +TATAATGATATAAAAATAAAATATTTGAGCTAATATTAAAAATATAATTACGATAAAAGC +ATTCGCCTTAGGAAAGGCTATAACATATGCTGCAGCGACTAAAGAAAATGGTGCACAAAT +TGTCGATGTGTTCGGTTTGATTGACGTCTGCAATGGAAATGCTTTTAATCGCTTGAAAAC +AATAGGTAAGACAATACAAGTAGCTACAAAGCCATATATTACTGTTAATTGACCTATGAA +AAAACATCCGCTAACGGGTGCCGTCAATCCTGCGATAGCAATACCAATAAAAAGTACAGT +CCACGAAGGATAAACATTTTCAAGTGAAAAATCTTTTAAATATTTTATTGAAAAAATAAT +CATATGCGTCATAATTCCCACAAGGCATAAAATCCAAATAGGCGTTATTAAGCTATTGAT +AAAAGTTATGTTACTAAAAAATGTATTTAAATAAGTAGTACCTAAAAAGCCAGACATGAA +AAATGTTGTGAACACTGATGAAACTAGAGGACTGTTTAATTGTTCTTTCACATTATTAAA +ATATTTGATCATAGTACATAAAAGGTGAATCCAAATCAAGAAAGCAAAGATTCCGCAAAC +AGCGTTTAAAGTAAGAGATAAGTCTTTTAATAGATTACCCAGGCCTAATAATCCTAAGAC +TAGTCCTGACGTTACTAGAGGTGCTTTTTGAAGTCTCATGATTTACAACCTTTCTTATGT +GATTTTCTTCACTAATTATATCATGATAGCTATGGCCAATTAATAAGAAGAGTGTGTACT +ATTACGTTATTAGAGTATGTATATTGGATTGATAGACACATAATTGACATTTAAATCTCA +AAATTAATGATATTTGAGGTATGCTTTGCAACCTAAATATTGGAATATGTGGAAAAGTAA +TTATTTAATTTAAATGATGATTGAAGATTTACAAGGGGGTGTACAAAATGAGAAATCAAA +TTCAAAAACTATTAGACAGTGATTTGAGCAGTTTACATATATCGAAACAAACAGGAGTTC +CACAAAGCACAATACACAGAATGAGAAAAAAAGAAAGATCATTAGACAATATGTCATTGA +AAAACGCTGAACTACTTTATAAATTTGCCAATAGTATATTTAGCAATGAAAATTAAGAAG +AATAATTAGTGAGTTAAATAATTAAAAAACCACGTCTCGATGGACGTGGTTATTTTTTTA +AATGTATTTAATTATAGGATTTCGGGCCCCTGAAAAGTCCCTAAAATTTTGAATAGTATC +AAAATCTATAGGAATAATATAATAATAAAAATCTCTACGCATGCAAATGGTGAGTGTTAA +AAATCTTGGTGTAGTGTTGGTGTAGTTCAGGTGCAGTATAGATGAAATTTGAGCACAAAA +TTACTTAATTAAAAATGTATAAACAAGTGTCAGACGCGTGTCAATTGTGTGTCAAAAAAT +TCTATGACGAATAAGCATGCTTGTTTTAATTACTGTATTTTCGGGGCTTATGCGGGGGAC +GTTTTGGTGACGCATCATACTATATTACTGAAATTCAAAACAAAAAGAGCCCCGTAATCA +CGGAACTCTTTTGTTTGGTAATGCGTATAAAAATACCTATAAACGTCCTGGGAGGGATTC +GAACCCCCGACCGATGGCTTAGAAGGCCATTGCTCTATCCAGCTGAGCTACCAGGACACG +TTTAACAACACAAGAATTATTATATCTAAATGAACTTAAATTAGCAATACCTTGTAAATA +AAAAATGTTTATATTTTTCACTATTATAGAGCTATTTATCTAAAAAGGTTCAATAAGACT +TAAATGCGAATTCAGGCAACTTAATTGTGTTAAATACAGTTTTGAATGCCTAACTGTATT +TCTTTTCTCTTTAAAATACAGTTAAGTACATTATAAGATGTTGTGCGGATAAACAAACTA +ATTGCATCAAATTTATTTTAAAATAACAACAACAAAACGTTAAGCGAATAACATTTCGGT +GATTTAAAAGCTACGCACGTTTTTGTTATCTTCAAATTTAAATTTTAAGGAGTGTTTTCA +ATGGAAGGTTTATTTAACGCAATTAAAGATACCGTAACTGCAGCAATTAATAATGATGGC +GCAAAATTAGGCACAAGCATTGTGAGCATCGTTGAAAATGGCGTAGGTTTATTAGGTAAA +TTATTCGGATTCTAATTTCAATATGTTATGTAAGTAATCAGTATTATTTCAAAGGTGAGG +GAGAGATTTAAATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAAC +AACATGATAGTGTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTT +TACTAGGTAAATTATTTGGATTCTAATATAATAACTAATATTCTTTAAAATAAACTGGGT +GAGCATACTTTAATGTTATGCACTCAGTTTATTTTATTTGCAGAAATTTGAGCCTCTGTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates.tre Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,1 @@ +(query_1:6.0,(query_3:5.0,query_4:3.0):5.0,query_2:11.0); \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_expected_output.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_expected_output_breadth_alpha.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_expected_output_breadth_creation.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_expected_output_breadth_height.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_expected_output_breadth_revalpha.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_expected_output_depth_alpha.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_expected_output_depth_creation.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_expected_output_depth_height.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_expected_output_depth_revalpha.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","",""
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/reorder_isolates_input.csv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +"Gene","Non-unique Gene name","Annotation","No. isolates","No. sequences","Avg sequences per isolate","Genome Fragment","Order within Fragment","Accessory Fragment","Accessory Order with Fragment","QC","query_1","query_2","query_3" +"hly","","Alpha-toxin","3","3","1","","","","","","1_1","2_1","3_1" +"argF","","Ornithine carbamoyltransferase","2","2","1","","","","","","1_3","","3_3" +"group_4","","","2","2","1","","","","","","","2_4","3_4" +"speH","","hypothetical protein","2","2","1","","","","","","1_2","2_2","" +"group_7","","Gonococcal growth inhibitor III","1","1","1","","","","","","","2_7","" +"yfnB","","Putative HAD-hydrolase yfnB","1","1","1","","","","","","","","3_5" +"group_6","","Gonococcal growth inhibitor III","1","1","1","","","","","","1_6","","" \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/sequences_with_unknowns.faa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,26 @@ +>1234_00186 GGDEF family protein +MNFENEYDLEKLVNNSLDLLTIVDLSGNVLLVNPAFERTLGWKKEDLVGKDPFHLLHPED +KESTYKEFEKLNQGLLTLSFQNRYICADGQYRYFSWTASPDLVSGLVYVTGRDITDVIES +NRKISQLAVKLKETNDRLFEQASTDPLTKLKNRRMFNEELNNLIHACDKESHPLSLLMID +ADHFKDYNDKFGHIAGDKVLVELASILTKTFRKKDVLARYGGEEFIAALPNTSEPEANQI +AERLVQTVREFSWEKRSVTISVGITTYNFNPTSKSINSEYLLNLIEQADKALYCSKVSGR +XXXXXXXXXXXXXXXXXXXYYI* +>1234_00325 only a few unknowns so keep +MAFDPSVPQQQAQAPAGTLLFPEGSSANTLNVLHSGTVRYLTEVPGGRKLELFKLNGANL +TPGSVALFTSGRYPFHLQAEEACVISTYAMNRDTISKSVGSRVSLGLMVARTLLREITEL +FKKSNQIRKITSEIEKVNDNLSILYYQFNPSVFPDIKPGSPIPEVSADVVDPVMRLCREN +LKLFFDNGGILPDRPSPQFLEEEHESQLTRLYPEEIDFQDGEFNFIRKLVMQDPKILNVL +FTADPSMLAYVCSKLANVLDQISGILKTCLTDLDEAFRIFFIGENSLVEKFYLILDITSS +GYGTAPAEFVIPVLGAFAGKIEKYKNGHQALFGVPVANISPNTQAFQSKAVTLAKKMEET +APKVQAPVTSSATAGVDVDAIRKELDNSASVIIQFSGLGAEQIKEFSALMVKVKSLKNPL +DPEGDNRKVRRTLGRHYWDMYQECFTKYMNSNRNVPKPVELMLKYGYFDETLVDDSQIAF +MYTQKDPANFTSNVPISLGTEWLEKVFKREVPTSLDEMGQNFFEKVKLENRNIVIKKESD +IPPELDNPDTRLKFEFASLYEANVRLTSGSPATHFPILTKFHSQMAIDKSYVSKKILEEV +VHELMAVDYSIFHREVIYNNNELGITKEFIQKCVIPDFILVPSIGTKVMMWQDLSIHRGA +GSKESPGRIVLPIFAQGDLKTMVADALAAFRWELTKSILGAEWNNVGNPSITADYTDYIQ +FFKKNKDLSMEIKEKLASDFKRFRNDRDIFANDYQLWMKYEADGVQRLNKVVRGIFYRHI +PFSKQVRDKVAXXXXXXXXXXXXXLLPLQRSITDLLILEIENILK* +>1234_00377 Uncharacterized protein conserved in bacteria +MTLNEFAKNVLFGSGLEDKLFSPPVHPVDIRSFDFLNVPSLPAREKKIQISEQKSKIPRL +EQLFNEENRIITLHHFANHELMAIELFAWAILKFQDAPSSIRFGLYRTLLEEQTHLKMYL +SEMKKGGMELGDRPLNFIFWKQVPKMQTLEKFXXXXXXXXXXXXXXXXXF*
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/shred1.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,9 @@ +##gff-version 3 +##sequence-region shredA 1 40 +##sequence-region shredB 1 40 +shredA Prodigal:2.60 CDS 179 1471 . - 0 ID=11983_1#21_00001;eC_number=2.7.13.3;gene=regB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_005150533.1,similar to AA sequence:UniProtKB:Q3J6C1,protein motif:CLUSTERS:PRK11360,protein motif:Cdd:COG4191,protein motif:TIGRFAMs:TIGR02966,protein motif:Pfam:PF02518.20;locus_tag=11983_1#21_00001;product=integral membrane sensor signal transduction histidine kinase,Sensor histidine kinase regB,sensory histidine kinase AtoS,Signal transduction histidine kinase regulating C4-dicarboxylate transport system,phosphate regulon sensor kinase PhoR,Histidine kinase-%2C DNA gyrase B-%2C and HSP90-like ATPase;protein_id=gnl|SC|11983_1#21_00001 +##FASTA +>shredA +AAAAAAAAAACCCCCCCCCCGGGGGGGGGGTTTTTTTTTT +>shredB +AAAAAAAAAACCCCCCCCCCGGGGGGGGGGTTTTTTTTTT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/shred1.shred.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,16 @@ +>shred1_1 +AAAAAAAAAA +>shred1_2 +CCCCCCCCCC +>shred1_3 +GGGGGGGGGG +>shred1_4 +TTTTTTTTTT +>shred1_5 +AAAAAAAAAA +>shred1_6 +CCCCCCCCCC +>shred1_7 +GGGGGGGGGG +>shred1_8 +TTTTTTTTTT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/shred2.gff Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,9 @@ +##gff-version 3 +##sequence-region shredA 1 40 +##sequence-region shredB 1 40 +shredA Prodigal:2.60 CDS 179 1471 . - 0 ID=11983_1#21_00001;eC_number=2.7.13.3;gene=regB;inference=ab initio prediction:Prodigal:2.60,similar to AA sequence:RefSeq:YP_005150533.1,similar to AA sequence:UniProtKB:Q3J6C1,protein motif:CLUSTERS:PRK11360,protein motif:Cdd:COG4191,protein motif:TIGRFAMs:TIGR02966,protein motif:Pfam:PF02518.20;locus_tag=11983_1#21_00001;product=integral membrane sensor signal transduction histidine kinase,Sensor histidine kinase regB,sensory histidine kinase AtoS,Signal transduction histidine kinase regulating C4-dicarboxylate transport system,phosphate regulon sensor kinase PhoR,Histidine kinase-%2C DNA gyrase B-%2C and HSP90-like ATPase;protein_id=gnl|SC|11983_1#21_00001 +##FASTA +>shredA +AAAAAAAAAAGGGGGGGGGGTTTTTTTTTTCCCCCCCCCC +>shredB +AAAAAAAAAACCCCCCCCCCTTTTTTTTTTGGGGGGGGGG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/shred2.shred.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,16 @@ +>shred2_1 +AAAAAAAAAA +>shred2_2 +GGGGGGGGGG +>shred2_3 +TTTTTTTTTT +>shred2_4 +CCCCCCCCCC +>shred2_5 +AAAAAAAAAA +>shred2_6 +CCCCCCCCCC +>shred2_7 +TTTTTTTTTT +>shred2_8 +GGGGGGGGGG
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/sopB.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,60 @@ +>11111_1#11_04059 +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGAAAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATCACA +TCT +>22222_2#22_04059 +ATGCAAATACAGAGCTTCTATCACTCAGCTTCACTAAAAACCCAGGAGGCTTTTAAAAGC +CTACAAAAAACCTTATACAACGGAATGCAGATTCTCTCAGGCCAGGGCAAAGCGCCGGCT +AAAGCGCCCGACGCTCGCCCGGAAATTATTGTCCTGCGAGAACCTGGCGCGACATGGGGG +AATTATCTACAGCATCAGAAGACGTCTAACCACTCGCTGCATAACCTCTATAACTTACAG +CGCGATCTTCTTACCGTCGCGGCAACCGTTCTGGGTAAACAAGACCCGGTTCTAACGTCA +ATGGCAAACCAAATGGAGTTAGCCAAAGTTAAAGCGGACCGGCCAGCAACAAAACAAGAA +GAAGCTGCGGCAAAAGCATTGAAGAAAAATCTTATCGAACTTATTGCAGCACGCACTCAG +CAGCAAAATGGCTTACCTGCAAAAGAAGCTCATCGCTTTGCGGCAGTAGCGTTTAGAGAT +GCTCAGGTCAAGCAGCTCAATAACCAGCCCTGGCAAACCATAAAAAATACACTCACGCAT +AACGGGCATCACTATACCAACACGCAGCTCCCTGCCGCAGAGATGAAAATCGGCGCAAAA +GATATCTTTCCCAGTGCTTATGAGGGAAAGGGCGTATGCAGTTGGGATACCAAGAATATT +CATCACGCCAATAATTTGTGGATGTCCACGGTGAGTGTGCATGAGGACGGTAAAGATAAA +ACGCTTTTTTGCGGGATACGTCATGGTGTGCTTTCCCCCTATCATGAAAAAGATCCGCTT +CTGCGTCAGGCCGGCGCTGAAAACAAAGCCAAAGAAGTATTAGCTGCGGCACTTTTTAGT +AAACCTGAGTTGCTTAACAGAGCCTTAGAGGGCGAAGCGGTAAGCCTGAAACTGGTATCC +GTCGGGTTACTCACCGCGTCGAATATTTTCGGCAAAGAGGGAACTATGGTCGAGGATCAA +ATGCGCGCATGGCAATCGTTGACCCAGCCGGGAAAAATGATTCATTTAAAAATCCGCAAT +AAAGATGGCGATCTACAGACGGTAAAAATAAAACCGGACGTCGCCGCATTTAATGTGGGT +GTTAATGAGCTGGCGCTCAAGCTCGGCTTTGGCCTTAAAGCATCAGATAGCTATAATGCC +GAAGCGCTACATCAGTTATTAGGCAATGATTTACGCCCTGAAGCCAGACCAGGTGGCTGG +GTTGGCGAATGGCTGGCGCAATACCCGGATAATTATGAGGTCGTCAATACATTAGCGCGC +CAGATTAAGGATATCTGGAAAAATAACCAACATCATAAAGATGGCGGCGAACCCTATAAA +CTCGCACAACGCCTTGCCATGTTAGCCCATGAAATTGACGCGGTGCCCGCCTGGAATTGT +AAAAGCGGCAAAGATCGTACAGGGATGATGGATTCAGAAATCAAGCGAGAGCTCATTTCT +TTCCATCAGACCCATATGTTAAGTGCGCCTGGTAGTCTTCCGGATAGCGGTGGACAGAAA +ATTTTCCAAAAAGTATTACTGAATAGCGGTAACCTGGAGATTCAGAAACAAAATACGGGC +GGGGCGGGAAACAAAGTAATGAAAAATTTATCGCCAGAGGTGCTCAATCTTTCCTATCAA +AAACGAGTTGGGGATGATAATATTTGGCAGTCAGTAAAAGGTATTTCTTCATTAATCACA +TCT
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/speH.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,32 @@ +>2_2 +ATGAACAATAACATCACGAAAAAAATTATTTTATCAACAACATTGTTACT +ATTAGGTACAGCATTTACACAATTTCCTAATACACCTATCAATTCTTCAT +CTGAAGCGAAAGCTTATTATATAAATCAAAACGAAACTAACGTTAATGAG +TTAACTAAATATTACTCGCAAAAATATTTAACCTTCTCTAACAGTACGTT +ATGGCAAAAAGATAACGGTACGATTCATGCAACGTTGTTACAGTTTTCTT +GGTATAGTCATATTCAAGTTTATGGACCTGAAAGTTGGGGCAATATCAAC +CAATTAAGAAATAAAAGCGTTGATATTTTTGGCATAAAAGACCAAGAAAC +CATTGATTCTTTTGCATTATCTCAAGAAACGTTTACTGGTGGTGTTACTC +CTGCAGCAACATCTAACGATAAACACTATAAACTGAATGTAACATATAAA +GATAAAGCAGAAACGTTTACTGGCGGATTTCCAGTTTATGAAGGCAATAA +GCCTGTTTTAACTTTAAAAGAATTAGATTTTCGTATTCGTCAAACATTAA +TTAAAAGTAAAAAATTATATAATAATTCTTATAATAAAGGACAAATTAAA +ATAACAGGTACAGACAATAACTACACAATAGATTTAAGTAAAAGGTTGCC +ATCAACTGATGCAAATAGATATGTTAAAAAACCTCAAAATGCAAAAATTG +AAGTTATCCTCGAAAAATCAAAC +>1_2 +ATGAACAATAACATCACGAAAAAAATTATTTTATCAACAACATTGTTACT +ATTAGGTACAGCATTTACACAATTTCCTAATACACCTATCAATTCTTCAT +CTGAAGCGAAAGCTTATTATATAAATCAAAACGAAACTAACGTTAATGAG +TTAACTAAATATTACTCGCAAAAATATTTAACCTTCTCTAACAGTACGTT +ATGGCAAAAAGATAACGGTACGATTCATGCAACGTTGTTACAGTTTTCTT +GGTATAGTCATATTCAAGTTTATGGACCTGAAAGTTGGGGCAATATCAAC +CAATTAAGAAATAAAAGCGTTGATATTTTTGGCATAAAAGACCAAGAAAC +CATTGATTCTTTTGCATTATCTCAAGAAACGTTTACTGGTGGTGTTACTC +CTGCAGCAACATCTAACGATAAACACTATAAACTGAATGTAACATATAAA +GATAAAGCAGAAACGTTTACTGGCGGATTTCCAGTTTATGAAGGCAATAA +GCCTGTTTTAACTTTAAAAGAATTAGATTTTCGTATTCGTCAAACATTAA +TTAAAAGTAAAAAATTATATAATAATTCTTATAATAAAGGACAAATTAAA +ATAACAGGTACAGACAATAACTACACAATAGATTTAAGTAAAAGGTTGCC +ATCAACTGATGCAAATAGATATGTTAAAAAACCTCAAAATGCAAAAATTG +AAGTTATCCTCGAAAAATCAAAC
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralog_clusters1 Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,13 @@ +abc_02 def_02 +abc_03 def_03 +abc_04 def_04 +abc_05 def_05 abc_12 def_12 +abc_06 def_06 +abc_07 def_07 +abc_08 def_08 +abc_09 def_09 +abc_10 def_10 +abc_11 def_11 +abc_13 def_13 +abc_14 def_14 +abc_15 def_15 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralog_clusters2 Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,11 @@ +abc_02 def_03 +abc_03 def_04 +abc_05 def_05 abc_12 def_12 +abc_06 def_06 +abc_07 def_07 +abc_08 def_08 +abc_09 def_09 +abc_10 def_10 +abc_13 def_13 +abc_14 def_14 +abc_15 def_15 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralog_clusters3 Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,13 @@ +abc_02 def_02 +abc_03 def_03 +abc_04 def_04 +abc_05 def_05 abc_12 def_12 abc_20 +abc_06 def_06 +abc_07 def_07 +abc_08 def_08 +abc_09 def_09 +abc_10 def_10 +abc_11 def_11 +abc_13 def_13 +abc_14 def_14 +abc_15 def_15 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralog_clusters4 Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,14 @@ +abc_02 def_02 +abc_03 def_03 +abc_04 def_04 +abc_05 def_05 ghi_05 abc_12 def_12 abc_20 abc_13 def_14 def_25 ghi_23 +abc_06 def_06 ghi_06 +abc_07 def_07 ghi_07 +abc_08 def_08 +abc_09 def_09 +abc_10 def_10 +abc_11 def_11 +abc_14 def_13 +abc_15 def_15 +abc_22 def_22 ghi_22 +abc_23 def_23 ghi_23 \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralog_exp_clusters1 Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,14 @@ +abc_02 def_02 +abc_03 def_03 +abc_04 def_04 +abc_05 def_05 +abc_12 def_12 +abc_06 def_06 +abc_07 def_07 +abc_08 def_08 +abc_09 def_09 +abc_10 def_10 +abc_11 def_11 +abc_13 def_13 +abc_14 def_14 +abc_15 def_15
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralog_exp_clusters2 Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,12 @@ +abc_02 def_03 +abc_03 def_04 +abc_05 def_05 +abc_12 def_12 +abc_06 def_06 +abc_07 def_07 +abc_08 def_08 +abc_09 def_09 +abc_10 def_10 +abc_13 def_13 +abc_14 def_14 +abc_15 def_15
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralog_exp_clusters3 Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,15 @@ +abc_02 def_02 +abc_03 def_03 +abc_04 def_04 +abc_05 def_05 +abc_12 def_12 +abc_20 +abc_06 def_06 +abc_07 def_07 +abc_08 def_08 +abc_09 def_09 +abc_10 def_10 +abc_11 def_11 +abc_13 def_13 +abc_14 def_14 +abc_15 def_15
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralog_exp_clusters4 Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,17 @@ +abc_02 def_02 +abc_03 def_03 +abc_04 def_04 +abc_05 def_05 ghi_05 +abc_12 def_12 +abc_20 def_25 ghi_23 +abc_13 def_14 +abc_06 def_06 ghi_06 +abc_07 def_07 ghi_07 +abc_08 def_08 +abc_09 def_09 +abc_10 def_10 +abc_11 def_11 +abc_14 def_13 +abc_15 def_15 +abc_22 def_22 ghi_22 +abc_23 def_23 ghi_23
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralogs1.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,50 @@ +>abc_01 +AAAAAAAAAAAAAAAAAAA +>abc_02 +AAAAAAAAAAAAAAAAAAA +>abc_03 +AAAAAAAAAAAAAAAAAAA +>abc_04 +AAAAAAAAAAAAAAAAAAA +>abc_05 +AAAAAAAAAAAAAAAAAAA +>abc_06 +AAAAAAAAAAAAAAAAAAA +>abc_07 +AAAAAAAAAAAAAAAAAAA +>abc_08 +AAAAAAAAAAAAAAAAAAA +>abc_09 +AAAAAAAAAAAAAAAAAAA +>abc_10 +AAAAAAAAAAAAAAAAAAA +>abc_11 +AAAAAAAAAAAAAAAAAAA +>abc_12 +AAAAAAAAAAAAAAAAAAA +>abc_13 +AAAAAAAAAAAAAAAAAAA +>abc_14 +AAAAAAAAAAAAAAAAAAA +>abc_15 +AAAAAAAAAAAAAAAAAAA +>abc_16 +AAAAAAAAAAAAAAAAAAA +>abc_17 +AAAAAAAAAAAAAAAAAAA +>abc_18 +AAAAAAAAAAAAAAAAAAA +>abc_19 +AAAAAAAAAAAAAAAAAAA +>abc_20 +AAAAAAAAAAAAAAAAAAA +>abc_21 +AAAAAAAAAAAAAAAAAAA +>abc_22 +AAAAAAAAAAAAAAAAAAA +>abc_23 +AAAAAAAAAAAAAAAAAAA +>abc_24 +AAAAAAAAAAAAAAAAAAA +>abc_25 +AAAAAAAAAAAAAAAAAAA \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralogs2.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,50 @@ +>def_01 +AAAAAAAAAAAAAAAAAAA +>def_02 +AAAAAAAAAAAAAAAAAAA +>def_03 +AAAAAAAAAAAAAAAAAAA +>def_04 +AAAAAAAAAAAAAAAAAAA +>def_05 +AAAAAAAAAAAAAAAAAAA +>def_06 +AAAAAAAAAAAAAAAAAAA +>def_07 +AAAAAAAAAAAAAAAAAAA +>def_08 +AAAAAAAAAAAAAAAAAAA +>def_09 +AAAAAAAAAAAAAAAAAAA +>def_10 +AAAAAAAAAAAAAAAAAAA +>def_11 +AAAAAAAAAAAAAAAAAAA +>def_12 +AAAAAAAAAAAAAAAAAAA +>def_13 +AAAAAAAAAAAAAAAAAAA +>def_14 +AAAAAAAAAAAAAAAAAAA +>def_15 +AAAAAAAAAAAAAAAAAAA +>def_16 +AAAAAAAAAAAAAAAAAAA +>def_17 +AAAAAAAAAAAAAAAAAAA +>def_18 +AAAAAAAAAAAAAAAAAAA +>def_19 +AAAAAAAAAAAAAAAAAAA +>def_20 +AAAAAAAAAAAAAAAAAAA +>def_21 +AAAAAAAAAAAAAAAAAAA +>def_22 +AAAAAAAAAAAAAAAAAAA +>def_23 +AAAAAAAAAAAAAAAAAAA +>def_24 +AAAAAAAAAAAAAAAAAAA +>def_25 +AAAAAAAAAAAAAAAAAAA \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_groups/paralogs3.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,50 @@ +>ghi_01 +AAAAAAAAAAAAAAAAAAA +>ghi_02 +AAAAAAAAAAAAAAAAAAA +>ghi_03 +AAAAAAAAAAAAAAAAAAA +>ghi_04 +AAAAAAAAAAAAAAAAAAA +>ghi_05 +AAAAAAAAAAAAAAAAAAA +>ghi_06 +AAAAAAAAAAAAAAAAAAA +>ghi_07 +AAAAAAAAAAAAAAAAAAA +>ghi_08 +AAAAAAAAAAAAAAAAAAA +>ghi_09 +AAAAAAAAAAAAAAAAAAA +>ghi_10 +AAAAAAAAAAAAAAAAAAA +>ghi_11 +AAAAAAAAAAAAAAAAAAA +>ghi_12 +AAAAAAAAAAAAAAAAAAA +>ghi_13 +AAAAAAAAAAAAAAAAAAA +>ghi_14 +AAAAAAAAAAAAAAAAAAA +>ghi_15 +AAAAAAAAAAAAAAAAAAA +>ghi_16 +AAAAAAAAAAAAAAAAAAA +>ghi_17 +AAAAAAAAAAAAAAAAAAA +>ghi_18 +AAAAAAAAAAAAAAAAAAA +>ghi_19 +AAAAAAAAAAAAAAAAAAA +>ghi_20 +AAAAAAAAAAAAAAAAAAA +>ghi_21 +AAAAAAAAAAAAAAAAAAA +>ghi_22 +AAAAAAAAAAAAAAAAAAA +>ghi_23 +AAAAAAAAAAAAAAAAAAA +>ghi_24 +AAAAAAAAAAAAAAAAAAA +>ghi_25 +AAAAAAAAAAAAAAAAAAA \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_pan_genome_sequences/argF.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,36 @@ +>1_3 +ATGAAAAATTTACGAAACAGAAGTTTTTTAACTTTATTAGACTTTTCACGACAAGAGGTA +GAATTCTTATTAACACTCTCCGAGGATTTAAAACGTGCTAAATATATTGGCACTGAAAAG +CCTATGTTAAAAAATAAAAATATTGCACTGTTATTTGAAAAAGATTCTACAAGAACGCGA +TGTGCATTTGAAGTTGCAGCGCATGATCAAGGTGCAAATGTAACTTATTTAGGCCCAACT +GGATCACAAATGGGTAAAAAAGAAACAACTAAAGATACTGCACGTGTGCTTGGTGGAATG +TATGATGGCATTGAATACCGTGGTTTTTCACAAAGAACAGTAGAAACTTTAGCTGAAAAT +TCAGGCGTACCAGTGTGGAATGGTTTAACTGATGAAGATCATCCTACTCAAGTTCTTGCT +GATTTCTTAACAGCAAAAGAAGTCTTAAAAAAAGATTATGCAGATATTAACTTTACATAT +GTTGGAGATGGTCGTAATAACGTTGCAAATGCATTAATGCAAGGTGCTGCCATTATGGGT +ATGAACTTCCATTTAGTTTGTCCAAAAGAATTAAATCCAACAGATGAATTATTAAATCGC +TGTAAAAATATTGCCGCTGAAAATGGTGGCAACATATTAATCACAGATGATATTGACCAA +GGTGTAAAAGGTTCGGATGTAATTTACACTGATGTTTGGGTATCAATGGGTGAACCTGAT +GAAGTATGGAAAGAACGACTTGAATTATTGAAACCATATCAAGTAAATAAAGAAATGATG +GATAAAACTGGTAATCCAAATGTTATTTTTGAGCATTGCTTACCATCTTTCCATAATGCT +GATACGAAAATTGGTCAACAAATTTTTGAAAAATATGGTATTCGAGAAATGGAAGTTACA +GATGAAGTATTCGAAAGTAAAGCTTCAGTTGTATTCCAAGAAGCTGAGAACAGAATGCAT +ACAATCAAAGCAGTCATGGTTGCTACATTGGGTGAATTTTAA +>3_3 +ATGAAAAATTTACGAAACAGAAGTTTTTTAACTTTATTAGACTTTTCACGACAAGAGGTA +GAATTCTTATTAACACTCTCCGAGGATTTAAAACGTGCTAAATATATTGGCACTGAAAAG +CCTATGTTAAAAAATAAAAATATTGCACTGTTATTTGAAAAAGATTCTACAAGAACGCGA +TGTGCATTTGAAGTTGCAGCGCATGATCAAGGTGCAAATGTAACTTATTTAGGCCCAACT +GGATCACAAATGGGTAAAAAAGAAACAACTAAAGATACTGCACGTGTGCTTGGTGGAATG +TATGATGGCATTGAATACCGTGGTTTTTCACAAAGAACAGTAGAAACTTTAGCTGAAAAT +TCAGGCGTACCAGTGTGGAATGGTTTAACTGATGAAGATCATCCTACTCAAGTTCTTGCT +GATTTCTTAACAGCAAAAGAAGTCTTAAAAAAAGATTATGCAGATATTAACTTTACATAT +GTTGGAGATGGTCGTAATAACGTTGCAAATGCATTAATGCAAGGTGCTGCCATTATGGGT +ATGAACTTCCATTTAGTTTGTCCAAAAGAATTAAATCCAACAGATGAATTATTAAATCGC +TGTAAAAATATTGCCGCTGAAAATGGTGGCAACATATTAATCACAGATGATATTGACCAA +GGTGTAAAAGGTTCGGATGTAATTTACACTGATGTTTGGGTATCAATGGGTGAACCTGAT +GAAGTATGGAAAGAACGACTTGAATTATTGAAACCATATCAAGTAAATAAAGAAATGATG +GATAAAACTGGTAATCCAAATGTTATTTTTGAGCATTGCTTACCATCTTTCCATAATGCT +GATACGAAAATTGGTCAACAAATTTTTGAAAAATATGGTATTCGAGAAATGGAAGTTACA +GATGAAGTATTCGAAAGTAAAGCTTCAGTTGTATTCCAAGAAGCTGAGAACAGAATGCAT +ACAATCAAAGCAGTCATGGTTGCTACATTGGGTGAATTTTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_pan_genome_sequences/different.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,38 @@ +>1_1 +ATGAAAACACGTATAGTCAGCTCAGTAACAACAACACTATTGCTAGGTTCCATATTAATG +AATCCTGTCGCTAATGCCGCAGATTCTGATATTAATATTAAAACCGGTACTACAGATATT +GGAAGCAATACTACAGTAAAAACAGGTGATTTAGTCACTTATGATAAAGAAAATGGCATG +CACAAAAAAGTATTTTATAGTTTTATCGATGATAAAAATCACAATAAAAAACTGCTAGTT +ATTAGAACGAAAGGTACCATTGCTGGTCAATATAGAGTTTATAGCGAAGAAGGTGCTAAC +AAAAGTGGTTTAGCCTGGCCTTCAGCCTTTAAGGTACAGTTGCAACTACCTGATAATGAA +GTAGCTCAAATATCTGATTACTATCCAAGAAATTCGATTGATACAAAAGAGTATATGAGT +ACTTTAACTTATGGATTCAACGGTAATGTTACTGGTGATGATACAGGAAAAATTGGCGGC +CTTATTGGTGCAAATGTTTCGATTGGTCATACACTGAAATATGTTCAACCTGATTTCAAA +ACAATTTTAGAGAGCCCAACTGATAAAAAAGTAGGCTGGAAAGTGATATTTAACAATATG +GTGAATCAAAATTGGGGACCATATGATAGAGATTCTTGGAACCCGGTATATGGCAATCAA +CTTTTCATGAAAACTAGAAATGGTTCTATGAAAGCAGCAGAGAACTTCCTTGATCCTAAC +AAAGCAAGTTCTCTATTATCTTCAGGGTTTTCACCAGACTTCGCTACAGTTATTACTATG +GATAGAAAAGCATCCAAACAACAAACAAATATAGATGTAATATACGAACGAGTTCGTGAT +GACTACCAATTGCATTGGACTTCAACAAATTGGAAAGGTACCAATACTAAAGATAAATGG +ACAGATCGTTCTTCAGAAAGATATAAAATCGATTGGGAAAAAGAAGAAATGACAAATTAA +>1_6 +ATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAACAACATGATAGT +GTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTTTACTAGGTAAA +TTATTTGGATTCTAA +>2_7 +ATGACTGGACTAGCAGAAGCAATCGCAAATACTGTGCAAGCTGCACAACAACATGATAGT +GTGAAATTAGGCACAAGTATCGTAGACATCGTTGCTAACGGTGTGGGTTTACTAGGTAAA +TTATTTGGATTCTAA +>3_5 +TTGGGATATAAAAATATTTTGATAGACTTTGATGATACAATTGTTGATTTTTATGATGCA +GAAGAATGGGCGTTTCACTATATGGCGAATGTTTTTAATCATAAAGCAACAAAGGATGAT +TTTTTAACATTTAAAAAAATCAATCACCAACATTGGGAAGCTTTTCAACAAAATAAATTA +ACGAAGTCTGAAGTATTATCAGAACGATTTGTGAATTACTTCAAACATCATCAAATGGAA +GTTGATGGGCATCGTGCAGATGTGTTATTTAGAAATGGATTAGCAGAAGCTAAAGTTAAA +TACTTTGATCAAACATTAGAAACAATTGTCGAATTATCGAAAAGACATGATTTATATATT +GTTACTAATGGTGTAACCGAAACGCAAAAGAGAAGGTTAAATCAGACGCCGTTGCATAAA +TATATTAAAAAGATATTTATATCTGAGGAAACAGGATATCAAAAACCTAATCCGGAATTT +TTTAATTATGTTTTTAATGATATTGGTGAGGATGAAAGACAGCACTCGATTATAGTTGGA +GATTCTTTAACATCTGACATTCTAGGTGGAATCAATGCGGGTATAGCTACTTGCTGGTTT +AATTTTAGAGGATTTGATCATAATCCAGGAATTATACCTGATTATGAAATTAATTCATGG +AAACAACTAAATGATATTGTACGTTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_pan_genome_sequences/hly.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,34 @@ +>2_1 +ATGAAAACACGTATAGTCAGCTCAGTAACAACAACACTATTGCTAGGTTCCATATTAATG +AATCCTGTCGCTAATGCCGCAGATTCTGATATTAATATTAAAACCGGTACTACAGATATT +GGAAGCAATACTACAGTAAAAACAGGTGATTTAGTCACTTATGATAAAGAAAATGGCATG +CACAAAAAAGTATTTTATAGTTTTATCGATGATAAAAATCACAATAAAAAACTGCTAGTT +ATTAGAACGAAAGGTACCATTGCTGGTCAATATAGAGTTTATAGCGAAGAAGGTGCTAAC +AAAAGTGGTTTAGCCTGGCCTTCAGCCTTTAAGGTACAGTTGCAACTACCTGATAATGAA +GTAGCTCAAATATCTGATTACTATCCAAGAAATTCGATTGATACAAAAGAGTATATGAGT +ACTTTAACTTATGGATTCAACGGTAATGTTACTGGTGATGATACAGGAAAAATTGGCGGC +CTTATTGGTGCAAATGTTTCGATTGGTCATACACTGAAATATGTTCAACCTGATTTCAAA +ACAATTTTAGAGAGCCCAACTGATAAAAAAGTAGGCTGGAAAGTGATATTTAACAATATG +GTGAATCAAAATTGGGGACCATATGATAGAGATTCTTGGAACCCGGTATATGGCAATCAA +CTTTTCATGAAAACTAGAAATGGTTCTATGAAAGCAGCAGAGAACTTCCTTGATCCTAAC +AAAGCAAGTTCTCTATTATCTTCAGGGTTTTCACCAGACTTCGCTACAGTTATTACTATG +GATAGAAAAGCATCCAAACAACAAACAAATATAGATGTAATATACGAACGAGTTCGTGAT +GACTACCAATTGCATTGGACTTCAACAAATTGGAAAGGTACCAATACTAAAGATAAATGG +ACAGATCGTTCTTCAGAAAGATATAAAATCGATTGGGAAAAAGAAGAAATGACAAATTAA +>3_1 +ATGAAAACACGTATAGTCAGCTCAGTAACAACAACACTATTGCTAGGTTCCATATTAATG +AATCCTGTCGCTAATGCCGCAGATTCTGATATTAATATTAAAACCGGTACTACAGATATT +GGAAGCAATACTACAGTAAAAACAGGTGATTTAGTCACTTATGATAAAGAAAATGGCATG +CACAAAAAAGTATTTTATAGTTTTATCGATGATAAAAATCACAATAAAAAACTGCTAGTT +ATTAGAACGAAAGGTACCATTGCTGGTCAATATAGAGTTTATAGCGAAGAAGGTGCTAAC +AAAAGTGGTTTAGCCTGGCCTTCAGCCTTTAAGGTACAGTTGCAACTACCTGATAATGAA +GTAGCTCAAATATCTGATTACTATCCAAGAAATTCGATTGATACAAAAGAGTATATGAGT +ACTTTAACTTATGGATTCAACGGTAATGTTACTGGTGATGATACAGGAAAAATTGGCGGC +CTTATTGGTGCAAATGTTTCGATTGGTCATACACTGAAATATGTTCAACCTGATTTCAAA +ACAATTTTAGAGAGCCCAACTGATAAAAAAGTAGGCTGGAAAGTGATATTTAACAATATG +GTGAATCAAAATTGGGGACCATATGATAGAGATTCTTGGAACCCGGTATATGGCAATCAA +CTTTTCATGAAAACTAGAAATGGTTCTATGAAAGCAGCAGAGAACTTCCTTGATCCTAAC +AAAGCAAGTTCTCTATTATCTTCAGGGTTTTCACCAGACTTCGCTACAGTTATTACTATG +GATAGAAAAGCATCCAAACAACAAACAAATATAGATGTAATATACGAACGAGTTCGTGAT +GACTACCAATTGCATTGGACTTCAACAAATTGGAAAGGTACCAATACTAAAGATAAATGG +ACAGATCGTTCTTCAGAAAGATATAAAATCGATTGGGAAAAAGAAGAAATGACAAATTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_pan_genome_sequences/reannotated_groups_file Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +different: 1_1 2_4 3_4 3_5 1_6 2_7 +speH: 1_2 2_2 +hly: 2_1 3_1 +argF: 1_3 3_3
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/split_pan_genome_sequences/speH.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,28 @@ +>1_2 +ATGAACAATAACATCACGAAAAAAATTATTTTATCAACAACATTGTTACTATTAGGTACA +GCATTTACACAATTTCCTAATACACCTATCAATTCTTCATCTGAAGCGAAAGCTTATTAT +ATAAATCAAAACGAAACTAACGTTAATGAGTTAACTAAATATTACTCGCAAAAATATTTA +ACCTTCTCTAACAGTACGTTATGGCAAAAAGATAACGGTACGATTCATGCAACGTTGTTA +CAGTTTTCTTGGTATAGTCATATTCAAGTTTATGGACCTGAAAGTTGGGGCAATATCAAC +CAATTAAGAAATAAAAGCGTTGATATTTTTGGCATAAAAGACCAAGAAACCATTGATTCT +TTTGCATTATCTCAAGAAACGTTTACTGGTGGTGTTACTCCTGCAGCAACATCTAACGAT +AAACACTATAAACTGAATGTAACATATAAAGATAAAGCAGAAACGTTTACTGGCGGATTT +CCAGTTTATGAAGGCAATAAGCCTGTTTTAACTTTAAAAGAATTAGATTTTCGTATTCGT +CAAACATTAATTAAAAGTAAAAAATTATATAATAATTCTTATAATAAAGGACAAATTAAA +ATAACAGGTACAGACAATAACTACACAATAGATTTAAGTAAAAGGTTGCCATCAACTGAT +GCAAATAGATATGTTAAAAAACCTCAAAATGCAAAAATTGAAGTTATCCTCGAAAAATCA +AACTAA +>2_2 +ATGAACAATAACATCACGAAAAAAATTATTTTATCAACAACATTGTTACTATTAGGTACA +GCATTTACACAATTTCCTAATACACCTATCAATTCTTCATCTGAAGCGAAAGCTTATTAT +ATAAATCAAAACGAAACTAACGTTAATGAGTTAACTAAATATTACTCGCAAAAATATTTA +ACCTTCTCTAACAGTACGTTATGGCAAAAAGATAACGGTACGATTCATGCAACGTTGTTA +CAGTTTTCTTGGTATAGTCATATTCAAGTTTATGGACCTGAAAGTTGGGGCAATATCAAC +CAATTAAGAAATAAAAGCGTTGATATTTTTGGCATAAAAGACCAAGAAACCATTGATTCT +TTTGCATTATCTCAAGAAACGTTTACTGGTGGTGTTACTCCTGCAGCAACATCTAACGAT +AAACACTATAAACTGAATGTAACATATAAAGATAAAGCAGAAACGTTTACTGGCGGATTT +CCAGTTTATGAAGGCAATAAGCCTGTTTTAACTTTAAAAGAATTAGATTTTCGTATTCGT +CAAACATTAATTAAAAGTAAAAAATTATATAATAATTCTTATAATAAAGGACAAATTAAA +ATAACAGGTACAGACAATAACTACACAATAGATTTAAGTAAAAGGTTGCCATCAACTGAT +GCAAATAGATATGTTAAAAAACCTCAAAATGCAAAAATTGAAGTTATCCTCGAAAAATCA +AACTAA
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/uneven_sequences.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,18 @@ +>1 +a +>2 +aa +>3 +aaa +>4 +aaaa +>5 +aaaaa +>6 +aaaaaa +>7 +aaaaaaa +>8 +aaaaaaaa +>9 +aaaaaaaaa \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/uneven_sequences.fa.sorted.fa Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,18 @@ +>1 +aNN +>2 +aaN +>3 +aaa +>4 +aaaaNN +>5 +aaaaaN +>6 +aaaaaa +>7 +aaaaaaaNN +>8 +aaaaaaaaN +>9 +aaaaaaaaa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/unique_genes_per_sample/clustered_proteins_valid Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,6 @@ +group_2: 123_4#5_02659 999_4#5_02659 +group_2: 123_4#5_02654 +group_8: 999_4#5_02651 +group_7: 123_4#5_02674 +nagK: 11111_4#44_01973 +dnaA: 22222_6#21_00645
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/unique_genes_per_sample/expected_unique_genes_per_sample.tsv Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +123_4#5 2 +11111_4#44 1 +22222_6#21 1 +999_4#5 1
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/variable_core/gene_1.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +>111_00001 +AAAA +>222_00001 +AAAA +>333_00001 +AAAA +>444_00001 +AAAA +>555_00001 +AAAA \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/variable_core/gene_2.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>333_00002 +CCCCCCC +>444_00002 +CCCCCCC +>555_00002 +CCCCCCC +>222_00002 +CCCCCCC \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/variable_core/gene_3.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,8 @@ +>111_00003 +GG +>333_00003 +GG +>222_00003 +GG +>444_00003 +GG \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/variable_core/gene_4.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,4 @@ +>222_00004 +TTTTT +>444_00004 +TTTTT \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/data/variable_core/gene_5.fa.aln Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +>555_00005 +XXXXXXX +>111_00005 +XXXXXXX +>222_00005 +XXXXXXX +>333_00005 +XXXXXXX +>444_00005 +XXXXXXX \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/dummy_blastp Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,3 @@ +#!/usr/bin/env perl +system("touch results.out"); +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/dummy_cd-hit Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,5 @@ +#!/usr/bin/env perl +system("touch output"); +system("touch output.clstr"); +system("touch output.bak.clstr"); +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/dummy_makeblastdb Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,5 @@ +#!/usr/bin/env perl +system("touch output_contigs.phr"); +system("touch output_contigs.pin"); +system("touch output_contigs.psq"); +1; \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Roary/t/lib/TestHelper.pm Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,323 @@ +package TestHelper; +use Moose::Role; +use Test::Most; +use Data::Dumper; +use File::Slurper qw(read_lines read_text); +use Test::Files; +use Test::Output; + +$ENV{PATH} .= ":./bin"; + +sub compare_files { + my ( $actual_file, $expected_file, $comment ) = @_; + my @actual_lines = sort( read_lines($actual_file) ); + my @expected_lines = sort( read_lines($expected_file) ); + is_deeply( \@actual_lines, \@expected_lines, $comment ); +} + +sub compare_groups_files { + my ( $actual_file, $expected_file, $comment ) = @_; + my @actual_lines = sort( read_lines($actual_file) ); + my @expected_lines = sort( read_lines($expected_file) ); + + my @actual_sorted_lines; + for my $line (@actual_lines) { + my @line_details = split( / /, $line ); + shift @line_details; + my @sorted = sort(@line_details); + push( @actual_sorted_lines, \@sorted ); + } + + my @expected_sorted_lines; + for my $line (@expected_lines) { + my @line_details = split( / /, $line ); + shift @line_details; + my @sorted = sort(@line_details); + push( @expected_sorted_lines, \@sorted ); + } + is_deeply( \@actual_sorted_lines, \@expected_sorted_lines, $comment ); +} + + +sub stdout_should_have +{ + my ( $script_name, $parameters, $expected ) = @_; + my @input_args = split( " ", $parameters ); + open OLDERR, '>&STDERR'; + eval("use $script_name ;"); + my $returned_values = 0; + { + local *STDERR; + open STDERR, '>/dev/null' or warn "Can't open /dev/null: $!"; + stdout_like { eval("$script_name->new(args => \\\@input_args, script_name => '$script_name')->run;"); } qr/$expected/, "got expected text $expected for $parameters"; + close STDERR; + } + open STDERR, '>&OLDERR' or die "Can't restore stderr: $!"; + close OLDERR or die "Can't close OLDERR: $!"; +} + + +sub stdout_should_not_have +{ + my ( $script_name, $parameters, $expected ) = @_; + my @input_args = split( " ", $parameters ); + open OLDERR, '>&STDERR'; + eval("use $script_name ;"); + my $returned_values = 0; + { + local *STDERR; + open STDERR, '>/dev/null' or warn "Can't open /dev/null: $!"; + stdout_unlike { eval("$script_name->new(args => \\\@input_args, script_name => '$script_name')->run;"); } qr/$expected/, "got expected text $expected for $parameters"; + close STDERR; + } + open STDERR, '>&OLDERR' or die "Can't restore stderr: $!"; + close OLDERR or die "Can't close OLDERR: $!"; +} + + + +sub stderr_should_not_have +{ + my ( $script_name, $parameters, $expected ) = @_; + my @input_args = split( " ", $parameters ); + open OLDOUT, '>&STDOUT'; + eval("use $script_name ;"); + my $returned_values = 0; + { + local *STDOUT; + open STDOUT, '>/dev/null' or warn "Can't open /dev/null: $!"; + stderr_unlike { eval("$script_name->new(args => \\\@input_args, script_name => '$script_name')->run;"); } qr/$expected/, "got expected text $expected for $parameters"; + close STDOUT; + } + open STDOUT, '>&OLDOUT' or die "Can't restore stdout: $!"; + close OLDOUT or die "Can't close OLDOUT: $!"; +} + +sub stderr_should_have +{ + my ( $script_name, $parameters, $expected ) = @_; + my @input_args = split( " ", $parameters ); + open OLDOUT, '>&STDOUT'; + eval("use $script_name ;"); + my $returned_values = 0; + { + local *STDOUT; + open STDOUT, '>/dev/null' or warn "Can't open /dev/null: $!"; + stderr_like { eval("$script_name->new(args => \\\@input_args, script_name => '$script_name')->run;"); } qr/$expected/, "got expected text $expected for $parameters"; + close STDOUT; + } + open STDOUT, '>&OLDOUT' or die "Can't restore stdout: $!"; + close OLDOUT or die "Can't close OLDOUT: $!"; +} + + +sub mock_execute_script_and_check_output { + my ( $script_name, $scripts_and_expected_files, $columns_to_exclude ) = @_; + + system('touch empty_file'); + + open OLDOUT, '>&STDOUT'; + open OLDERR, '>&STDERR'; + eval("use $script_name ;"); + my $returned_values = 0; + { + local *STDOUT; + open STDOUT, '>/dev/null' or warn "Can't open /dev/null: $!"; + local *STDERR; + open STDERR, '>/dev/null' or warn "Can't open /dev/null: $!"; + + for my $script_parameters ( sort keys %$scripts_and_expected_files ) { + my $full_script = $script_parameters; + my @input_args = split( " ", $full_script ); + + my $cmd = "$script_name->new(args => \\\@input_args, script_name => '$script_name')->run;"; + eval($cmd); + warn $@ if $@; + + my $actual_output_file_name = $scripts_and_expected_files->{$script_parameters}->[0]; + my $expected_output_file_name = $scripts_and_expected_files->{$script_parameters}->[1]; + ok( -e $actual_output_file_name, "Actual output file exists $actual_output_file_name $script_parameters" ); + if ( defined($columns_to_exclude) ) { + is( + _exclude_variable_columns_from_spreadsheet( $actual_output_file_name, $columns_to_exclude ), + _exclude_variable_columns_from_spreadsheet( $expected_output_file_name, $columns_to_exclude ), + 'Actual and expected match output excluding variable columns' + ); + } + else { + compare_ok( $actual_output_file_name, $expected_output_file_name, + "Actual and expected output match for '$script_parameters'" ); + + } + unlink($actual_output_file_name); + } + close STDOUT; + close STDERR; + } + + # Restore stdout. + open STDOUT, '>&OLDOUT' or die "Can't restore stdout: $!"; + open STDERR, '>&OLDERR' or die "Can't restore stderr: $!"; + + # Avoid leaks by closing the independent copies. + close OLDOUT or die "Can't close OLDOUT: $!"; + close OLDERR or die "Can't close OLDERR: $!"; + unlink('empty_file'); +} + +sub mock_execute_script_and_check_output_sorted_groups { + my ( $script_name, $scripts_and_expected_files, $columns_to_exclude ) = @_; + + system('touch empty_file'); + + open OLDOUT, '>&STDOUT'; + open OLDERR, '>&STDERR'; + eval("use $script_name ;"); + my $returned_values = 0; + { + local *STDOUT; + open STDOUT, '>/dev/null' or warn "Can't open /dev/null: $!"; + local *STDERR; + open STDERR, '>/dev/null' or warn "Can't open /dev/null: $!"; + + for my $script_parameters ( sort keys %$scripts_and_expected_files ) { + my $full_script = $script_parameters; + my @input_args = split( " ", $full_script ); + + my $cmd = "$script_name->new(args => \\\@input_args, script_name => '$script_name')->run;"; + eval($cmd); + warn $@ if $@; + + my $actual_output_file_name = $scripts_and_expected_files->{$script_parameters}->[0]; + + my $expected_output_file_name = $scripts_and_expected_files->{$script_parameters}->[1]; + ok( -e $actual_output_file_name, "Actual output file exists $actual_output_file_name $script_parameters" ); + if ( defined($columns_to_exclude) ) { + my @actual_content_sorted = + sort( split( /\n/, _exclude_variable_columns_from_spreadsheet( $actual_output_file_name, $columns_to_exclude ) ) ); + my @expected_content_sorted = + sort( split( /\n/, _exclude_variable_columns_from_spreadsheet( $expected_output_file_name, $columns_to_exclude ) ) ); + is_deeply( \@actual_content_sorted, \@expected_content_sorted, + 'Actual and expected match output excluding variable columns' ); + } + else { + compare_groups_files( $actual_output_file_name, $expected_output_file_name, + "Actual and expected sorted output match for '$script_parameters'" ); + } + unlink($actual_output_file_name); + } + close STDOUT; + close STDERR; + } + + # Restore stdout. + open STDOUT, '>&OLDOUT' or die "Can't restore stdout: $!"; + open STDERR, '>&OLDERR' or die "Can't restore stderr: $!"; + + # Avoid leaks by closing the independent copies. + close OLDOUT or die "Can't close OLDOUT: $!"; + close OLDERR or die "Can't close OLDERR: $!"; + unlink('empty_file'); +} + +sub mock_execute_script_and_check_output_sorted { + my ( $script_name, $scripts_and_expected_files, $columns_to_exclude ) = @_; + + system('touch empty_file'); + + open OLDOUT, '>&STDOUT'; + open OLDERR, '>&STDERR'; + eval("use $script_name ;"); + my $returned_values = 0; + { + local *STDOUT; + open STDOUT, '>/dev/null' or warn "Can't open /dev/null: $!"; + local *STDERR; + open STDERR, '>/dev/null' or warn "Can't open /dev/null: $!"; + + for my $script_parameters ( sort keys %$scripts_and_expected_files ) { + my $full_script = $script_parameters; + my @input_args = split( " ", $full_script ); + + my $cmd = "$script_name->new(args => \\\@input_args, script_name => '$script_name')->run;"; + eval($cmd); + warn $@ if $@; + + my $actual_output_file_name = $scripts_and_expected_files->{$script_parameters}->[0]; + + my $expected_output_file_name = $scripts_and_expected_files->{$script_parameters}->[1]; + ok( -e $actual_output_file_name, "Actual output file exists $actual_output_file_name $script_parameters" ); + if ( defined($columns_to_exclude) ) { + my @actual_content_sorted = + sort( split( /\n/, _exclude_variable_columns_from_spreadsheet( $actual_output_file_name, $columns_to_exclude ) ) ); + my @expected_content_sorted = + sort( split( /\n/, _exclude_variable_columns_from_spreadsheet( $expected_output_file_name, $columns_to_exclude ) ) ); + is_deeply( \@actual_content_sorted, \@expected_content_sorted, + 'Actual and expected match output excluding variable columns' ); + } + else { + compare_groups_files( $actual_output_file_name, $expected_output_file_name, + "Actual and expected sorted output match for '$script_parameters'" ); + } + unlink($actual_output_file_name); + } + close STDOUT; + close STDERR; + } + + # Restore stdout. + open STDOUT, '>&OLDOUT' or die "Can't restore stdout: $!"; + open STDERR, '>&OLDERR' or die "Can't restore stderr: $!"; + + # Avoid leaks by closing the independent copies. + close OLDOUT or die "Can't close OLDOUT: $!"; + close OLDERR or die "Can't close OLDERR: $!"; + unlink('empty_file'); +} + +sub compare_tab_files_with_variable_coordinates { + my ( $actual_file, $expected_file ) = @_; + ok( -e $actual_file, 'File exists' . $actual_file ); + + is( + _filter_coordinates_from_string($actual_file), + _filter_coordinates_from_string($expected_file), + 'file contents the same for ' . $actual_file + ); +} + +sub _filter_coordinates_from_string { + my ($file_name) = @_; + my $file_contents = read_text($file_name); + my @lines = split( /\n/, $file_contents ); + my $modified_file_contents = ''; + for my $line ( sort @lines ) { + next if ( $line =~ /(variation|misc_feature|feature)/ ); + $line =~ s!group_[\d]+!group_XX!gi; + $modified_file_contents .= $line . "\n"; + } + return $modified_file_contents; +} + +sub _exclude_variable_columns_from_spreadsheet { + my ( $file_name, $columns_to_exclude ) = @_; + my $file_contents = read_text($file_name); + my @lines = split( /\n/, $file_contents ); + my $modified_file_contents = ''; + + for ( my $i = 0 ; $i < @lines ; $i++ ) { + my @cells = split( /,/, $lines[$i] ); + + for my $col_number ( @{$columns_to_exclude} ) { + next unless ( defined( $cells[$col_number] ) ); + $cells[$col_number] = ''; + } + $modified_file_contents .= join( ',', @cells ) . "\n"; + } + + return $modified_file_contents; +} + +no Moose; +1; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/roary_plots.sh Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,10 @@ +#!/bin/bash + +tool_path=$(dirname $0) +input=$2 +tree=$1 +heatmap=$3 + +python3 $tool_path/Roary/contrib/roary_plots/roary_plots.py --labels $tree $input + +cp -rf pangenome_matrix.png $heatmap
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/roary_plots.xml Fri May 14 20:27:06 2021 +0000 @@ -0,0 +1,29 @@ +<tool id="roary_plots" name="Roary plots" version="1.0"> + <description>Generate plots from Roary outputs</description> + <requirements> + <requirement type="package" version="3.4.2">matplotlib</requirement> + <requirement type="package" version="1.20.2">numpy</requirement> + <requirement type="package" version="1.2.4">pandas</requirement> + <requirement type="package" version="0.11.1">seaborn</requirement> +</requirements> + + <command interpreter="perl">roary_plots.sh $tree $input $heatmap +</command> + + + <inputs> + <param format="tabular" name="input" type="data" label="Gene Presence Absence matrix"/> + <param format="newick" name="tree" type="data" label="Newick"/> + + </inputs> + + <outputs> + <data format="png" name="heatmap" label="Heatmap tree"/> +</outputs> + + <help> + For full documentation, please go to the Roary plots website : https://github.com/sanger-pathogens/Roary/tree/master/contrib/roary_plots + +</help> + +</tool>