| Previous changeset 20:3034ce97dd33 (2016-11-07) Next changeset 22:6f386c5dc4fb (2017-09-18) |
|
Commit message:
v0.2.00, for NCBI BLAST+ 2.5.0 via bioconda or tool_dependencies.xml |
|
modified:
test-data/blastn_arabidopsis.extended.tabular test-data/blastn_arabidopsis.standard.tabular test-data/blastn_chimera_vs_rhodopsin_db.tabular test-data/blastn_chimera_vs_three_human_and_rhodopsin_db.tabular test-data/blastn_chimera_vs_three_human_db.tabular test-data/blastn_chimera_vs_three_human_max1.tabular test-data/blastn_chimera_vs_three_human_max1.txt test-data/blastn_rhodopsin_vs_three_human.columns.tabular test-data/blastn_rhodopsin_vs_three_human.tabular test-data/blastn_rhodopsin_vs_three_human.xml test-data/blastn_rhodopsin_vs_three_human_converted.tabular test-data/blastp_four_human_vs_rhodopsin.tabular test-data/blastp_four_human_vs_rhodopsin.xml test-data/blastp_four_human_vs_rhodopsin_converted.tabular test-data/blastp_four_human_vs_rhodopsin_converted_ext.tabular test-data/blastp_four_human_vs_rhodopsin_ext.tabular test-data/blastp_human_vs_pdb_seg_no_converted_ext.tabular test-data/blastp_human_vs_pdb_seg_no_converted_std.tabular test-data/blastp_rhodopsin_vs_four_human.tabular test-data/blastp_sample_converted.tabular test-data/blastx_rhodopsin_vs_four_human.tabular test-data/blastx_rhodopsin_vs_four_human.xml test-data/blastx_rhodopsin_vs_four_human_all.tabular test-data/blastx_rhodopsin_vs_four_human_converted.tabular test-data/blastx_rhodopsin_vs_four_human_converted_ext.tabular test-data/blastx_rhodopsin_vs_four_human_ext.tabular test-data/blastx_sample_converted.tabular test-data/cd00003_and_cd00008.pin test-data/four_human_proteins.dbinfo.txt test-data/four_human_proteins.fasta.log.txt test-data/four_human_proteins.fasta.pin test-data/four_human_proteins_taxid.fasta.log.txt test-data/four_human_proteins_taxid.fasta.pin test-data/rhodopsin_bufo.fasta test-data/rhodopsin_nucs.dbinfo.txt test-data/rhodopsin_nucs.fasta.log.txt test-data/rhodopsin_nucs.fasta.nin test-data/rhodopsin_nucs.fasta.nsq test-data/tblastn_four_human_vs_rhodopsin.html test-data/tblastn_four_human_vs_rhodopsin.tabular test-data/tblastn_four_human_vs_rhodopsin.xml test-data/tblastn_four_human_vs_rhodopsin_ext.tabular test-data/tblastx_rhodopsin_vs_three_human.tabular test-data/three_human_mRNA.dbinfo.txt test-data/three_human_mRNA.fasta.log.txt test-data/three_human_mRNA.fasta.nin tools/ncbi_blast_plus/README.rst tools/ncbi_blast_plus/blastxml_to_tabular.py tools/ncbi_blast_plus/check_no_duplicates.py tools/ncbi_blast_plus/ncbi_blastdbcmd_wrapper.xml tools/ncbi_blast_plus/ncbi_macros.xml tools/ncbi_blast_plus/ncbi_tblastn_wrapper.xml tools/ncbi_blast_plus/tool_dependencies.xml |
|
added:
test-data/rhodopsin_nucs.no_gi.fasta test-data/tblastn_four_human_vs_rhodopsin_deflines.tabular |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_arabidopsis.extended.tabular --- a/test-data/blastn_arabidopsis.extended.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_arabidopsis.extended.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,1 +1,1 @@ -chunk_of_plant chrIII 100.00 630 0 0 1 630 4341 4970 0.0 1164 chrIII 630 630 630 0 100.00 1 1 GATGTTCAATACTGTTTCCAACAAAAAGATTGTTGTCCTCGAGTTCGCCTTCAAGAAAGACACGAGAGAGACTCCAGCCATTGACGTCTGCAAAGGTTTGTTAGGAGACAAGGCCCGAATCAGCATCTATGATCCACAAGTCACGGAAGAACAAATCCAAAGAGACTTAACCATGAACACATTCGACTGGGACCATCCACTTCACCTCCAACCCATGAGTCCAACCACTGTGAAACAAGTCTCAGTTGCTTGGGACGCTTACGCTGCCACCAAAGACGCCCACGGAATCTGCTTGTTAACCGAGTGGGACGAGTATAAGACGCTTGACTATGAGCGGATTTTTGAAAACATGCAGAAACCAGCGTTTGTCTTCGATGGCAGAAATGTTTTTGATGCAGAGAAGCTGAGGAAGATAGGGTTTATTGTTTACTCTATTGGTAAGCCGTTGGACCAGTGGCACATGCCTGCTCTTGCTTAGCTCAGACTCTTTGCCCTTTCTCAAGATTTGGATTGTTTTTCTCTCTGTTGCTTATATCAAATAATTTGTTCTGTTTCTTCTTGACGAGATATTTTCCTATACTTATTATGTTGGTTAGAACAAGAGACTAGGTTTGGTTATTATTGCTAACT GATGTTCAATACTGTTTCCAACAAAAAGATTGTTGTCCTCGAGTTCGCCTTCAAGAAAGACACGAGAGAGACTCCAGCCATTGACGTCTGCAAAGGTTTGTTAGGAGACAAGGCCCGAATCAGCATCTATGATCCACAAGTCACGGAAGAACAAATCCAAAGAGACTTAACCATGAACACATTCGACTGGGACCATCCACTTCACCTCCAACCCATGAGTCCAACCACTGTGAAACAAGTCTCAGTTGCTTGGGACGCTTACGCTGCCACCAAAGACGCCCACGGAATCTGCTTGTTAACCGAGTGGGACGAGTATAAGACGCTTGACTATGAGCGGATTTTTGAAAACATGCAGAAACCAGCGTTTGTCTTCGATGGCAGAAATGTTTTTGATGCAGAGAAGCTGAGGAAGATAGGGTTTATTGTTTACTCTATTGGTAAGCCGTTGGACCAGTGGCACATGCCTGCTCTTGCTTAGCTCAGACTCTTTGCCCTTTCTCAAGATTTGGATTGTTTTTCTCTCTGTTGCTTATATCAAATAATTTGTTCTGTTTCTTCTTGACGAGATATTTTCCTATACTTATTATGTTGGTTAGAACAAGAGACTAGGTTTGGTTATTATTGCTAACT 630 23459830 gi|240255695|ref|NC_003074.8| Arabidopsis thaliana chromosome 3, complete sequence +chunk_of_plant chrIII 100.000 630 0 0 1 630 4341 4970 0.0 1164 chrIII 630 630 630 0 100.00 1 1 GATGTTCAATACTGTTTCCAACAAAAAGATTGTTGTCCTCGAGTTCGCCTTCAAGAAAGACACGAGAGAGACTCCAGCCATTGACGTCTGCAAAGGTTTGTTAGGAGACAAGGCCCGAATCAGCATCTATGATCCACAAGTCACGGAAGAACAAATCCAAAGAGACTTAACCATGAACACATTCGACTGGGACCATCCACTTCACCTCCAACCCATGAGTCCAACCACTGTGAAACAAGTCTCAGTTGCTTGGGACGCTTACGCTGCCACCAAAGACGCCCACGGAATCTGCTTGTTAACCGAGTGGGACGAGTATAAGACGCTTGACTATGAGCGGATTTTTGAAAACATGCAGAAACCAGCGTTTGTCTTCGATGGCAGAAATGTTTTTGATGCAGAGAAGCTGAGGAAGATAGGGTTTATTGTTTACTCTATTGGTAAGCCGTTGGACCAGTGGCACATGCCTGCTCTTGCTTAGCTCAGACTCTTTGCCCTTTCTCAAGATTTGGATTGTTTTTCTCTCTGTTGCTTATATCAAATAATTTGTTCTGTTTCTTCTTGACGAGATATTTTCCTATACTTATTATGTTGGTTAGAACAAGAGACTAGGTTTGGTTATTATTGCTAACT GATGTTCAATACTGTTTCCAACAAAAAGATTGTTGTCCTCGAGTTCGCCTTCAAGAAAGACACGAGAGAGACTCCAGCCATTGACGTCTGCAAAGGTTTGTTAGGAGACAAGGCCCGAATCAGCATCTATGATCCACAAGTCACGGAAGAACAAATCCAAAGAGACTTAACCATGAACACATTCGACTGGGACCATCCACTTCACCTCCAACCCATGAGTCCAACCACTGTGAAACAAGTCTCAGTTGCTTGGGACGCTTACGCTGCCACCAAAGACGCCCACGGAATCTGCTTGTTAACCGAGTGGGACGAGTATAAGACGCTTGACTATGAGCGGATTTTTGAAAACATGCAGAAACCAGCGTTTGTCTTCGATGGCAGAAATGTTTTTGATGCAGAGAAGCTGAGGAAGATAGGGTTTATTGTTTACTCTATTGGTAAGCCGTTGGACCAGTGGCACATGCCTGCTCTTGCTTAGCTCAGACTCTTTGCCCTTTCTCAAGATTTGGATTGTTTTTCTCTCTGTTGCTTATATCAAATAATTTGTTCTGTTTCTTCTTGACGAGATATTTTCCTATACTTATTATGTTGGTTAGAACAAGAGACTAGGTTTGGTTATTATTGCTAACT 630 23459830 gi|240255695|ref|NC_003074.8| Arabidopsis thaliana chromosome 3, complete sequence |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_arabidopsis.standard.tabular --- a/test-data/blastn_arabidopsis.standard.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_arabidopsis.standard.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,1 +1,1 @@ -chunk_of_plant chrIII 100.00 630 0 0 1 630 4341 4970 0.0 1164 +chunk_of_plant chrIII 100.000 630 0 0 1 630 4341 4970 0.0 1164 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_chimera_vs_rhodopsin_db.tabular --- a/test-data/blastn_chimera_vs_rhodopsin_db.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_chimera_vs_rhodopsin_db.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,8 +1,8 @@ -chimera gi|57163782|ref|NM_001009242.1| 92.31 1014 78 0 8881 9894 34 1047 0.0 1441 -chimera gi|283855822|gb|GQ290312.1| 91.53 956 81 0 8881 9836 4 959 0.0 1317 -chimera gi|18148870|dbj|AB062417.1| 87.65 1012 123 2 8884 9894 37 1047 0.0 1175 -chimera gi|283855845|gb|GQ290303.1| 91.52 330 28 0 8881 9210 4 333 8e-130 455 -chimera gi|283855845|gb|GQ290303.1| 91.36 243 19 2 9542 9783 3127 3368 1e-92 331 -chimera gi|283855845|gb|GQ290303.1| 94.22 173 10 0 9208 9380 1410 1582 1e-72 265 -chimera gi|283855845|gb|GQ290303.1| 92.94 170 12 0 9375 9544 2854 3023 2e-67 248 -chimera gi|283855845|gb|GQ290303.1| 95.59 68 3 0 9781 9848 4222 4289 7e-26 110 +chimera NM_001009242 92.308 1014 78 0 8881 9894 34 1047 0.0 1441 +chimera GQ290312 91.527 956 81 0 8881 9836 4 959 0.0 1317 +chimera AB062417 87.586 1015 124 2 8881 9894 34 1047 0.0 1175 +chimera GQ290303 91.515 330 28 0 8881 9210 4 333 8.28e-130 455 +chimera GQ290303 91.358 243 19 2 9542 9783 3127 3368 1.46e-92 331 +chimera GQ290303 94.220 173 10 0 9208 9380 1410 1582 1.50e-72 265 +chimera GQ290303 92.941 170 12 0 9375 9544 2854 3023 1.51e-67 248 +chimera GQ290303 95.588 68 3 0 9781 9848 4222 4289 7.43e-26 110 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_chimera_vs_three_human_and_rhodopsin_db.tabular --- a/test-data/blastn_chimera_vs_three_human_and_rhodopsin_db.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_chimera_vs_three_human_and_rhodopsin_db.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,11 +1,11 @@ -chimera ENA|AB011145|AB011145.1 100.00 4560 0 0 1 4560 121 4680 0.0 8421 -chimera ENA|M10051|M10051.1 99.93 4331 3 0 4560 8890 60 4390 0.0 7982 -chimera ENA|BC112106|BC112106.1 100.00 1093 0 0 8881 9973 121 1213 0.0 2019 -chimera gi|57163782|ref|NM_001009242.1| 92.31 1014 78 0 8881 9894 34 1047 0.0 1441 -chimera gi|283855822|gb|GQ290312.1| 91.53 956 81 0 8881 9836 4 959 0.0 1317 -chimera gi|18148870|dbj|AB062417.1| 87.65 1012 123 2 8884 9894 37 1047 0.0 1175 -chimera gi|283855845|gb|GQ290303.1| 91.52 330 28 0 8881 9210 4 333 2e-129 455 -chimera gi|283855845|gb|GQ290303.1| 91.36 243 19 2 9542 9783 3127 3368 3e-92 331 -chimera gi|283855845|gb|GQ290303.1| 94.22 173 10 0 9208 9380 1410 1582 3e-72 265 -chimera gi|283855845|gb|GQ290303.1| 92.94 170 12 0 9375 9544 2854 3023 3e-67 248 -chimera gi|283855845|gb|GQ290303.1| 95.59 68 3 0 9781 9848 4222 4289 2e-25 110 +chimera ENA|AB011145|AB011145.1 100.000 4560 0 0 1 4560 121 4680 0.0 8421 +chimera ENA|M10051|M10051.1 99.931 4331 3 0 4560 8890 60 4390 0.0 7982 +chimera ENA|BC112106|BC112106.1 100.000 1093 0 0 8881 9973 121 1213 0.0 2019 +chimera NM_001009242 92.308 1014 78 0 8881 9894 34 1047 0.0 1441 +chimera GQ290312 91.527 956 81 0 8881 9836 4 959 0.0 1317 +chimera AB062417 87.586 1015 124 2 8881 9894 34 1047 0.0 1175 +chimera GQ290303 91.515 330 28 0 8881 9210 4 333 1.70e-129 455 +chimera GQ290303 91.358 243 19 2 9542 9783 3127 3368 2.98e-92 331 +chimera GQ290303 94.220 173 10 0 9208 9380 1410 1582 3.07e-72 265 +chimera GQ290303 92.941 170 12 0 9375 9544 2854 3023 3.09e-67 248 +chimera GQ290303 95.588 68 3 0 9781 9848 4222 4289 1.52e-25 110 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_chimera_vs_three_human_db.tabular --- a/test-data/blastn_chimera_vs_three_human_db.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_chimera_vs_three_human_db.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,3 +1,3 @@ -chimera ENA|AB011145|AB011145.1 100.00 4560 0 0 1 4560 121 4680 0.0 8421 -chimera ENA|M10051|M10051.1 99.93 4331 3 0 4560 8890 60 4390 0.0 7982 -chimera ENA|BC112106|BC112106.1 100.00 1093 0 0 8881 9973 121 1213 0.0 2019 +chimera ENA|AB011145|AB011145.1 100.000 4560 0 0 1 4560 121 4680 0.0 8421 +chimera ENA|M10051|M10051.1 99.931 4331 3 0 4560 8890 60 4390 0.0 7982 +chimera ENA|BC112106|BC112106.1 100.000 1093 0 0 8881 9973 121 1213 0.0 2019 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_chimera_vs_three_human_max1.tabular --- a/test-data/blastn_chimera_vs_three_human_max1.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_chimera_vs_three_human_max1.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,1 +1,1 @@ -chimera ENA|AB011145|AB011145.1 100.00 4560 0 0 1 4560 121 4680 0.0 8421 +chimera ENA|AB011145|AB011145.1 100.000 4560 0 0 1 4560 121 4680 0.0 8421 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_chimera_vs_three_human_max1.txt --- a/test-data/blastn_chimera_vs_three_human_max1.txt Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_chimera_vs_three_human_max1.txt Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,4 +1,4 @@ -BLASTN 2.2.31+ +BLASTN 2.5.0+ Reference: Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb @@ -346,7 +346,7 @@ Database: Just 3 human mRNA sequences - Posted date: Jul 4, 2015 3:35 PM + Posted date: Dec 2, 2016 10:38 AM Number of letters in database: 10,732 Number of sequences in database: 3 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_rhodopsin_vs_three_human.columns.tabular --- a/test-data/blastn_rhodopsin_vs_three_human.columns.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_rhodopsin_vs_three_human.columns.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,7 +1,7 @@ -gi|57163782|ref|NM_001009242.1| ENA|BC112106|BC112106.1 92.07 1047 1213 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.59 4301 1213 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.36 4301 1213 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 94.22 4301 1213 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 92.94 4301 1213 -gi|283855822|gb|GQ290312.1| ENA|BC112106|BC112106.1 91.55 983 1213 -gi|18148870|dbj|AB062417.1| ENA|BC112106|BC112106.1 87.50 1047 1213 +gi|57163782|ref|NM_001009242.1| ENA|BC112106|BC112106.1 92.073 1047 1213 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.592 4301 1213 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.358 4301 1213 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 94.220 4301 1213 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 92.941 4301 1213 +gi|283855822|gb|GQ290312.1| ENA|BC112106|BC112106.1 91.554 983 1213 +gi|18148870|dbj|AB062417.1| ENA|BC112106|BC112106.1 87.500 1047 1213 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_rhodopsin_vs_three_human.tabular --- a/test-data/blastn_rhodopsin_vs_three_human.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_rhodopsin_vs_three_human.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,7 +1,7 @@ -gi|57163782|ref|NM_001009242.1| ENA|BC112106|BC112106.1 92.07 1047 83 0 1 1047 88 1134 0.0 1474 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.59 333 28 0 1 333 118 450 4e-132 460 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.36 243 19 2 3127 3368 782 1023 3e-93 331 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 94.22 173 10 0 1410 1582 448 620 3e-73 265 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 92.94 170 12 0 2854 3023 615 784 3e-68 248 -gi|283855822|gb|GQ290312.1| ENA|BC112106|BC112106.1 91.55 959 81 0 1 959 118 1076 0.0 1323 -gi|18148870|dbj|AB062417.1| ENA|BC112106|BC112106.1 87.50 1048 129 2 1 1047 88 1134 0.0 1208 +gi|57163782|ref|NM_001009242.1| ENA|BC112106|BC112106.1 92.073 1047 83 0 1 1047 88 1134 0.0 1474 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.592 333 28 0 1 333 118 450 8.03e-132 460 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.358 243 19 2 3127 3368 782 1023 6.57e-93 331 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 94.220 173 10 0 1410 1582 448 620 6.76e-73 265 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 92.941 170 12 0 2854 3023 615 784 6.81e-68 248 +gi|283855822|gb|GQ290312.1| ENA|BC112106|BC112106.1 91.554 959 81 0 1 959 118 1076 0.0 1323 +gi|18148870|dbj|AB062417.1| ENA|BC112106|BC112106.1 87.500 1048 129 2 1 1047 88 1134 0.0 1208 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_rhodopsin_vs_three_human.xml --- a/test-data/blastn_rhodopsin_vs_three_human.xml Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_rhodopsin_vs_three_human.xml Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -2,7 +2,7 @@\n <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd">\n <BlastOutput>\n <BlastOutput_program>blastn</BlastOutput_program>\n- <BlastOutput_version>BLASTN 2.2.31+</BlastOutput_version>\n+ <BlastOutput_version>BLASTN 2.5.0+</BlastOutput_version>\n <BlastOutput_reference>Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000), "A greedy algorithm for aligning DNA sequences", J Comput Biol 2000; 7(1-2):203-14.</BlastOutput_reference>\n <BlastOutput_db></BlastOutput_db>\n <BlastOutput_query-ID>Query_1</BlastOutput_query-ID>\n@@ -25,49 +25,9 @@\n <Iteration_query-def>gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA</Iteration_query-def>\n <Iteration_query-len>1047</Iteration_query-len>\n <Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>15</Statistics_hsp-len>\n- <Statistics_eff-space>4933992</Statistics_eff-space>\n- <Statistics_kappa>0.46</Statistics_kappa>\n- <Statistics_lambda>1.28</Statistics_lambda>\n- <Statistics_entropy>0.85</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>2</Iteration_iter-num>\n- <Iteration_query-ID>Query_1</Iteration_query-ID>\n- <Iteration_query-def>gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA</Iteration_query-def>\n- <Iteration_query-len>1047</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>15</Statistics_hsp-len>\n- <Statistics_eff-space>4933992</Statistics_eff-space>\n- <Statistics_kappa>0.46</Statistics_kappa>\n- <Statistics_lambda>1.28</Statistics_lambda>\n- <Statistics_entropy>0.85</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>3</Iteration_iter-num>\n- <Iteration_query-ID>Query_1</Iteration_query-ID>\n- <Iteration_query-def>gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA</Iteration_query-def>\n- <Iteration_query-len>1047</Iteration_query-len>\n-<Iteration_hits>\n <Hit>\n <Hit_num>1</Hit_num>\n- <Hit_id>Subject_3</Hit_id>\n+ <Hit_id>ENA|BC112106|BC112106.1</Hit_id>\n <Hit_def>ENA|BC112106|BC112106.1 Homo sapiens rhodopsin, mRNA (cDNA clone MGC:138311 IMAGE:8327574), complete cds</Hit_def>\n <Hit_accession>Subject_3</Hit_accession>\n <Hit_len>1213</Hit_len>\n@@ -98,8 +58,8 @@\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>15</Statistics_hsp-len>\n- <Statistics_eff-space>4933992</Statistics_eff-space>\n+ <Statistics_hsp-len>16</Statistics_hsp-len>\n+ <Statistics_eff-space>11015204</Statistics_eff-space>\n <Statistics_kappa>0.46</Statistics_kappa>\n <Statistics_lambda>1.28</Statistics_lambda>\n <Statistics_entropy>0.85</Statistics_entropy>\n@@ -107,47 +67,7 @@\n </Iteration_stat>\n </Iteration>\n <Iteration>\n- <Iteration_iter-num>4</Iteration_iter-num>\n- <Iteration_query-ID>Query_2</Iteration_query-ID>\n- <Iteration_query-def>gi|2734705|gb|U59921.1|BBU59921 Bufo bufo rhodopsin mRNA, complete cds</Iteration_query-def>\n- <Iteration_query-len>1574</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>15</Statistics_hsp-len>\n- <Statistics_eff-space>7453579</Statistics_eff-space>\n- <Statistics_kappa>0.46</Statistics_kappa>\n- <Statistics_lambda>1.28</Statistics_lambda>\n- <'..b'bda>1.28</Statistics_lambda>\n- <Statistics_entropy>0.85</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>15</Iteration_iter-num>\n+ <Iteration_iter-num>5</Iteration_iter-num>\n <Iteration_query-ID>Query_5</Iteration_query-ID>\n <Iteration_query-def>gi|18148870|dbj|AB062417.1| Synthetic construct Bos taurus gene for rhodopsin, complete cds</Iteration_query-def>\n <Iteration_query-len>1047</Iteration_query-len>\n <Iteration_hits>\n <Hit>\n <Hit_num>1</Hit_num>\n- <Hit_id>Subject_3</Hit_id>\n+ <Hit_id>ENA|BC112106|BC112106.1</Hit_id>\n <Hit_def>ENA|BC112106|BC112106.1 Homo sapiens rhodopsin, mRNA (cDNA clone MGC:138311 IMAGE:8327574), complete cds</Hit_def>\n <Hit_accession>Subject_3</Hit_accession>\n <Hit_len>1213</Hit_len>\n@@ -476,8 +276,8 @@\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>15</Statistics_hsp-len>\n- <Statistics_eff-space>4933992</Statistics_eff-space>\n+ <Statistics_hsp-len>16</Statistics_hsp-len>\n+ <Statistics_eff-space>11015204</Statistics_eff-space>\n <Statistics_kappa>0.46</Statistics_kappa>\n <Statistics_lambda>1.28</Statistics_lambda>\n <Statistics_entropy>0.85</Statistics_entropy>\n@@ -485,7 +285,7 @@\n </Iteration_stat>\n </Iteration>\n <Iteration>\n- <Iteration_iter-num>16</Iteration_iter-num>\n+ <Iteration_iter-num>6</Iteration_iter-num>\n <Iteration_query-ID>Query_6</Iteration_query-ID>\n <Iteration_query-def>gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh water form rod opsin, complete cds</Iteration_query-def>\n <Iteration_query-len>1344</Iteration_query-len>\n@@ -495,48 +295,8 @@\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>15</Statistics_hsp-len>\n- <Statistics_eff-space>6353949</Statistics_eff-space>\n- <Statistics_kappa>0.46</Statistics_kappa>\n- <Statistics_lambda>1.28</Statistics_lambda>\n- <Statistics_entropy>0.85</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>17</Iteration_iter-num>\n- <Iteration_query-ID>Query_6</Iteration_query-ID>\n- <Iteration_query-def>gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh water form rod opsin, complete cds</Iteration_query-def>\n- <Iteration_query-len>1344</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>15</Statistics_hsp-len>\n- <Statistics_eff-space>6353949</Statistics_eff-space>\n- <Statistics_kappa>0.46</Statistics_kappa>\n- <Statistics_lambda>1.28</Statistics_lambda>\n- <Statistics_entropy>0.85</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>18</Iteration_iter-num>\n- <Iteration_query-ID>Query_6</Iteration_query-ID>\n- <Iteration_query-def>gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh water form rod opsin, complete cds</Iteration_query-def>\n- <Iteration_query-len>1344</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>15</Statistics_hsp-len>\n- <Statistics_eff-space>6353949</Statistics_eff-space>\n+ <Statistics_hsp-len>16</Statistics_hsp-len>\n+ <Statistics_eff-space>14188352</Statistics_eff-space>\n <Statistics_kappa>0.46</Statistics_kappa>\n <Statistics_lambda>1.28</Statistics_lambda>\n <Statistics_entropy>0.85</Statistics_entropy>\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastn_rhodopsin_vs_three_human_converted.tabular --- a/test-data/blastn_rhodopsin_vs_three_human_converted.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastn_rhodopsin_vs_three_human_converted.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,7 +1,7 @@ -gi|57163782|ref|NM_001009242.1| ENA|BC112106|BC112106.1 92.07 1047 83 0 1 1047 88 1134 0.0 1474 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.59 333 28 0 1 333 118 450 4e-132 460 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.36 243 19 2 3127 3368 782 1023 3e-93 331 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 94.22 173 10 0 1410 1582 448 620 3e-73 265 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 92.94 170 12 0 2854 3023 615 784 3e-68 248 -gi|283855822|gb|GQ290312.1| ENA|BC112106|BC112106.1 91.55 959 81 0 1 959 118 1076 0.0 1323 -gi|18148870|dbj|AB062417.1| ENA|BC112106|BC112106.1 87.50 1048 129 2 1 1047 88 1134 0.0 1208 +gi|57163782|ref|NM_001009242.1| ENA|BC112106|BC112106.1 92.073 1047 83 0 1 1047 88 1134 0.0 1474 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.592 333 28 0 1 333 118 450 8e-132 460 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.358 243 19 2 3127 3368 782 1023 7e-93 331 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 94.220 173 10 0 1410 1582 448 620 7e-73 265 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 92.941 170 12 0 2854 3023 615 784 7e-68 248 +gi|283855822|gb|GQ290312.1| ENA|BC112106|BC112106.1 91.554 959 81 0 1 959 118 1076 0.0 1323 +gi|18148870|dbj|AB062417.1| ENA|BC112106|BC112106.1 87.500 1048 129 2 1 1047 88 1134 0.0 1208 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastp_four_human_vs_rhodopsin.tabular --- a/test-data/blastp_four_human_vs_rhodopsin.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastp_four_human_vs_rhodopsin.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,6 +1,6 @@ -sp|P08100|OPSD_HUMAN gi|57163783|ref|NP_001009242.1| 96.55 348 12 0 1 348 1 348 0.0 701 -sp|P08100|OPSD_HUMAN gi|3024260|sp|P56514.1|OPSD_BUFBU 84.80 342 51 1 1 341 1 342 0.0 619 -sp|P08100|OPSD_HUMAN gi|283855846|gb|ADB45242.1| 94.82 328 17 0 11 338 1 328 0.0 653 -sp|P08100|OPSD_HUMAN gi|283855823|gb|ADB45229.1| 94.82 328 17 0 11 338 1 328 0.0 631 -sp|P08100|OPSD_HUMAN gi|223523|prf||0811197A 93.10 348 23 1 1 348 1 347 0.0 673 -sp|P08100|OPSD_HUMAN gi|12583665|dbj|BAB21486.1| 82.16 342 60 1 1 341 1 342 0.0 599 +P08100 NP_001009242 96.552 348 12 0 1 348 1 348 0.0 701 +P08100 0811197A 93.103 348 23 1 1 348 1 347 0.0 673 +P08100 ADB45242 94.817 328 17 0 11 338 1 328 0.0 653 +P08100 ADB45229 94.817 328 17 0 11 338 1 328 0.0 631 +P08100 P56514 84.795 342 51 1 1 341 1 342 0.0 619 +P08100 BAB21486 82.164 342 60 1 1 341 1 342 0.0 599 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastp_four_human_vs_rhodopsin.xml --- a/test-data/blastp_four_human_vs_rhodopsin.xml Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastp_four_human_vs_rhodopsin.xml Wed Apr 19 05:27:19 2017 -0400 |
| [ |
| b'@@ -2,10 +2,10 @@\n <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd">\n <BlastOutput>\n <BlastOutput_program>blastp</BlastOutput_program>\n- <BlastOutput_version>BLASTP 2.2.31+</BlastOutput_version>\n+ <BlastOutput_version>BLASTP 2.5.0+</BlastOutput_version>\n <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&auml;ffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>\n <BlastOutput_db></BlastOutput_db>\n- <BlastOutput_query-ID>sp|Q9BS26|ERP44_HUMAN</BlastOutput_query-ID>\n+ <BlastOutput_query-ID>Q9BS26</BlastOutput_query-ID>\n <BlastOutput_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</BlastOutput_query-def>\n <BlastOutput_query-len>406</BlastOutput_query-len>\n <BlastOutput_param>\n@@ -20,7 +20,7 @@\n <BlastOutput_iterations>\n <Iteration>\n <Iteration_iter-num>1</Iteration_iter-num>\n- <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID>\n+ <Iteration_query-ID>Q9BS26</Iteration_query-ID>\n <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>\n <Iteration_query-len>406</Iteration_query-len>\n <Iteration_hits>\n@@ -29,8 +29,8 @@\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>30</Statistics_hsp-len>\n- <Statistics_eff-space>119568</Statistics_eff-space>\n+ <Statistics_hsp-len>42</Statistics_hsp-len>\n+ <Statistics_eff-space>657748</Statistics_eff-space>\n <Statistics_kappa>0.041</Statistics_kappa>\n <Statistics_lambda>0.267</Statistics_lambda>\n <Statistics_entropy>0.14</Statistics_entropy>\n@@ -40,17 +40,17 @@\n </Iteration>\n <Iteration>\n <Iteration_iter-num>2</Iteration_iter-num>\n- <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID>\n- <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>\n- <Iteration_query-len>406</Iteration_query-len>\n+ <Iteration_query-ID>Q9NSY1</Iteration_query-ID>\n+ <Iteration_query-def>BMP-2-inducible protein kinase OS=Homo sapiens GN=BMP2K PE=1 SV=2</Iteration_query-def>\n+ <Iteration_query-len>1161</Iteration_query-len>\n <Iteration_hits>\n </Iteration_hits>\n <Iteration_stat>\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>30</Statistics_hsp-len>\n- <Statistics_eff-space>119568</Statistics_eff-space>\n+ <Statistics_hsp-len>50</Statistics_hsp-len>\n+ <Statistics_eff-space>1954249</Statistics_eff-space>\n <Statistics_kappa>0.041</Statistics_kappa>\n <Statistics_lambda>0.267</Statistics_lambda>\n <Statistics_entropy>0.14</Statistics_entropy>\n@@ -60,17 +60,17 @@\n </Iteration>\n <Iteration>\n <Iteration_iter-num>3</Iteration_iter-num>\n- <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID>\n- <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>\n- <Iteration_query-len>406</Iteration_query-len>\n+ <Iteration_query-ID>P06213</Iteration_query-ID>\n+ <Iteration_query-def>Insulin receptor OS=Homo sapiens GN=INSR PE=1 SV=4</Iteration_query-def>\n+ <Iteration_query-len>1382</Iteration_query-len>\n <Iteration_hits>\n </Iteration_hits>\n <Iteration_stat>\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>30</Statistics_hsp-len>\n- <Statistics_eff-space>119568</Statistics_eff-space>\n+ <Statistics_hsp-len>51</Statistics_hsp-len>\n+ <Statistics_eff-space>2333243</Statistics_eff-space>\n <Statistics_kappa>0.041</Statistics_kappa>\n <'..b' <Hsp_positive>336</Hsp_positive>\n+ <Hsp_identity>290</Hsp_identity>\n+ <Hsp_positive>322</Hsp_positive>\n <Hsp_gaps>1</Hsp_gaps>\n- <Hsp_align-len>348</Hsp_align-len>\n- <Hsp_qseq>MNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA</Hsp_qseq>\n- <Hsp_hseq>MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGID-YTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA</Hsp_hseq>\n- <Hsp_midline>MNGTEGPNFYVPFSN TGVVRSPFE PQYYLAEPWQFSMLAAYMFLLI+LGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMV GGFT+TLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPL GWSRYIPEG+QCSCGID YT E NNESFVIYMFVVHF IP+I+IFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICW+PYA VAFYIFTHQGS+FGPIFMTIPAFFAK++A+YNPVIYIMMNKQFRNCM+TT+CCGKNPLGDDEAS TVSKTETSQVAPA</Hsp_midline>\n+ <Hsp_align-len>342</Hsp_align-len>\n+ <Hsp_qseq>MNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE</Hsp_qseq>\n+ <Hsp_hseq>MNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE</Hsp_hseq>\n+ <Hsp_midline>MNGTEGPNFY+P SN TGVVRSPFEYPQYYLAEPWQ+S+L AYMFLLI+LGFPINF+TLYVT+QHKKLRTPLNYILLNLA A+ FMVL GFT T+Y+S++GYF+ G TGC +EGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRF ENHA+MGVAFTW+MAL+CA PPL GWSRYIPEG+QCSCG+DYYTLKPEVNNESFVIYMFVVHFTIP+IIIFFCYG+LV TVKEAAAQQQESATTQKAEKEVTRMVIIMV+ FLICWVPYASVAF+IF++QGS FGPIFMT+PAFFAKS++IYNPVIYIM+NKQFRNCM+TT+CCGKNP G+D+A SA SKTE</Hsp_midline>\n </Hsp>\n </Hit_hsps>\n </Hit>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>29</Statistics_hsp-len>\n- <Statistics_eff-space>101761</Statistics_eff-space>\n- <Statistics_kappa>0.041</Statistics_kappa>\n- <Statistics_lambda>0.267</Statistics_lambda>\n- <Statistics_entropy>0.14</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>24</Iteration_iter-num>\n- <Iteration_query-ID>sp|P08100|OPSD_HUMAN</Iteration_query-ID>\n- <Iteration_query-def>Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1</Iteration_query-def>\n- <Iteration_query-len>348</Iteration_query-len>\n-<Iteration_hits>\n <Hit>\n- <Hit_num>1</Hit_num>\n+ <Hit_num>6</Hit_num>\n <Hit_id>gi|12583665|dbj|BAB21486.1|</Hit_id>\n <Hit_def>fresh water form rod opsin [Conger myriaster]</Hit_def>\n <Hit_accession>BAB21486</Hit_accession>\n@@ -652,8 +257,8 @@\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>29</Statistics_hsp-len>\n- <Statistics_eff-space>101761</Statistics_eff-space>\n+ <Statistics_hsp-len>41</Statistics_hsp-len>\n+ <Statistics_eff-space>556591</Statistics_eff-space>\n <Statistics_kappa>0.041</Statistics_kappa>\n <Statistics_lambda>0.267</Statistics_lambda>\n <Statistics_entropy>0.14</Statistics_entropy>\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastp_four_human_vs_rhodopsin_converted.tabular --- a/test-data/blastp_four_human_vs_rhodopsin_converted.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastp_four_human_vs_rhodopsin_converted.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,6 +1,6 @@ -sp|P08100|OPSD_HUMAN gi|57163783|ref|NP_001009242.1| 96.55 348 12 0 1 348 1 348 0.0 701 -sp|P08100|OPSD_HUMAN gi|3024260|sp|P56514.1|OPSD_BUFBU 84.80 342 51 1 1 341 1 342 0.0 619 -sp|P08100|OPSD_HUMAN gi|283855846|gb|ADB45242.1| 94.82 328 17 0 11 338 1 328 0.0 653 -sp|P08100|OPSD_HUMAN gi|283855823|gb|ADB45229.1| 94.82 328 17 0 11 338 1 328 0.0 631 -sp|P08100|OPSD_HUMAN gi|223523|prf||0811197A 93.10 348 23 1 1 348 1 347 0.0 673 -sp|P08100|OPSD_HUMAN gi|12583665|dbj|BAB21486.1| 82.16 342 60 1 1 341 1 342 0.0 599 +P08100 gi|57163783|ref|NP_001009242.1| 96.552 348 12 0 1 348 1 348 0.0 701 +P08100 gi|223523|prf||0811197A 93.103 348 23 1 1 348 1 347 0.0 673 +P08100 gi|283855846|gb|ADB45242.1| 94.817 328 17 0 11 338 1 328 0.0 653 +P08100 gi|283855823|gb|ADB45229.1| 94.817 328 17 0 11 338 1 328 0.0 631 +P08100 gi|3024260|sp|P56514.1|OPSD_BUFBU 84.795 342 51 1 1 341 1 342 0.0 619 +P08100 gi|12583665|dbj|BAB21486.1| 82.164 342 60 1 1 341 1 342 0.0 599 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastp_four_human_vs_rhodopsin_converted_ext.tabular --- a/test-data/blastp_four_human_vs_rhodopsin_converted_ext.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastp_four_human_vs_rhodopsin_converted_ext.tabular Wed Apr 19 05:27:19 2017 -0400 |
| [ |
| b'@@ -1,6 +1,6 @@\n-sp|P08100|OPSD_HUMAN\tgi|57163783|ref|NP_001009242.1|\t96.55\t348\t12\t0\t1\t348\t1\t348\t0.0\t701\tgi|57163783|ref|NP_001009242.1|\t1808\t336\t343\t0\t98.56\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\t348\t348\trhodopsin [Felis catus]\n-sp|P08100|OPSD_HUMAN\tgi|3024260|sp|P56514.1|OPSD_BUFBU\t84.80\t342\t51\t1\t1\t341\t1\t342\t0.0\t619\tgi|3024260|sp|P56514.1|OPSD_BUFBU\t1595\t290\t322\t1\t94.15\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE\t348\t354\tRecName: Full=Rhodopsin\n-sp|P08100|OPSD_HUMAN\tgi|283855846|gb|ADB45242.1|\t94.82\t328\t17\t0\t11\t338\t1\t328\t0.0\t653\tgi|283855846|gb|ADB45242.1|\t1684\t311\t321\t0\t97.87\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\trhodopsin [Cynopterus brachyotis]\n-sp|P08100|OPSD_HUMAN\tgi|283855823|gb|ADB45229.1|\t94.82\t328\t17\t0\t11\t338\t1\t328\t0.0\t631\tgi|283855823|gb|ADB45229.1|\t1627\t311\t323\t0\t98.48\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\trhodopsin [Myotis pilosus]\n-sp|P08100|OPSD_HUMAN\tgi|223523|prf||0811197A\t93.10\t348\t23\t1\t1\t348\t1\t347\t0.0\t673\tgi|223523|prf||0811197A\t1736\t324\t336\t1\t96.55\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFG'..b'YTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGID-YTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\t348\t347\trhodopsin [Bos taurus]\n+P08100\tgi|283855846|gb|ADB45242.1|\t94.817\t328\t17\t0\t11\t338\t1\t328\t0.0\t653\tgi|283855846|gb|ADB45242.1|\t1684\t311\t321\t0\t97.87\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\trhodopsin [Cynopterus brachyotis]\n+P08100\tgi|283855823|gb|ADB45229.1|\t94.817\t328\t17\t0\t11\t338\t1\t328\t0.0\t631\tgi|283855823|gb|ADB45229.1|\t1627\t311\t323\t0\t98.48\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\trhodopsin [Myotis pilosus]\n+P08100\tgi|3024260|sp|P56514.1|OPSD_BUFBU\t84.795\t342\t51\t1\t1\t341\t1\t342\t0.0\t619\tgi|3024260|sp|P56514.1|OPSD_BUFBU\t1595\t290\t322\t1\t94.15\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE\t348\t354\tRecName: Full=Rhodopsin\n+P08100\tgi|12583665|dbj|BAB21486.1|\t82.164\t342\t60\t1\t1\t341\t1\t342\t0.0\t599\tgi|12583665|dbj|BAB21486.1|\t1544\t281\t314\t1\t91.81\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPL-GDDEASATVSKTE\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDGASATSSKTE\t348\t354\tfresh water form rod opsin [Conger myriaster]\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastp_four_human_vs_rhodopsin_ext.tabular --- a/test-data/blastp_four_human_vs_rhodopsin_ext.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastp_four_human_vs_rhodopsin_ext.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -1,6 +1,6 @@\n-sp|P08100|OPSD_HUMAN\tgi|57163783|ref|NP_001009242.1|\t96.55\t348\t12\t0\t1\t348\t1\t348\t0.0\t701\tgi|57163783|ref|NP_001009242.1|\t1808\t336\t343\t0\t98.56\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\t348\t348\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|3024260|sp|P56514.1|OPSD_BUFBU\t84.80\t342\t51\t1\t1\t341\t1\t342\t0.0\t619\tgi|3024260|sp|P56514.1|OPSD_BUFBU\t1595\t290\t322\t1\t94.15\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE\t348\t354\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855846|gb|ADB45242.1|\t94.82\t328\t17\t0\t11\t338\t1\t328\t0.0\t653\tgi|283855846|gb|ADB45242.1|\t1684\t311\t321\t0\t97.87\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855823|gb|ADB45229.1|\t94.82\t328\t17\t0\t11\t338\t1\t328\t0.0\t631\tgi|283855823|gb|ADB45229.1|\t1627\t311\t323\t0\t98.48\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|223523|prf||0811197A\t93.10\t348\t23\t1\t1\t348\t1\t347\t0.0\t673\tgi|223523|prf||0811197A\t1736\t324\t336\t1\t96.55\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEG'..b'ETSQVAPA\t348\t348\tN/A\n+P08100\t0811197A\t93.103\t348\t23\t1\t1\t348\t1\t347\t0.0\t673\tgi|223523|prf||0811197A\t1736\t324\t336\t1\t96.55\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGID-YTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\t348\t347\tN/A\n+P08100\tADB45242\t94.817\t328\t17\t0\t11\t338\t1\t328\t0.0\t653\tgi|283855846|gb|ADB45242.1|\t1684\t311\t321\t0\t97.87\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\tN/A\n+P08100\tADB45229\t94.817\t328\t17\t0\t11\t338\t1\t328\t0.0\t631\tgi|283855823|gb|ADB45229.1|\t1627\t311\t323\t0\t98.48\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\tN/A\n+P08100\tP56514\t84.795\t342\t51\t1\t1\t341\t1\t342\t0.0\t619\tgi|3024260|sp|P56514.1|OPSD_BUFBU\t1595\t290\t322\t1\t94.15\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE\t348\t354\tN/A\n+P08100\tBAB21486\t82.164\t342\t60\t1\t1\t341\t1\t342\t0.0\t599\tgi|12583665|dbj|BAB21486.1|\t1544\t281\t314\t1\t91.81\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPL-GDDEASATVSKTE\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDGASATSSKTE\t348\t354\tN/A\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastp_human_vs_pdb_seg_no_converted_ext.tabular --- a/test-data/blastp_human_vs_pdb_seg_no_converted_ext.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastp_human_vs_pdb_seg_no_converted_ext.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -1,8 +1,8 @@\n-sp|Q9BS26|ERP44_HUMAN\tgi|193885198|pdb|2R2J|A\t97.11\t381\t11\t0\t26\t406\t2\t382\t0.0\t768\tgi|193885198|pdb|2R2J|A\t1982\t370\t372\t0\t97.64\t1\t1\tPVTTEITSLDTENIDEILNNADVALVNFYADWCRFSQMLHPIFEEASDVIKEEFPNENQVVFARVDCDQHSDIAQRYRISKYPTLKLFRNGMMMKREYRGQRSVKALADYIRQQKSDPIQEIRDLAEITTLDRSKRNIIGYFEQKDSDNYRVFERVANILHDDCAFLSAFGDVSKPERYSGDNIIYKPPGHSAPDMVYLGAMTNFDVTYNWIQDKCVPLVREITFENGEELTEEGLPFLILFHMKEDTESLEIFQNEVARQLISEKGTINFLHADCDKFRHPLLHIQKTPADCPVIAIDSFRHMYVFGDFKDVLIPGKLKQFVFDLHSGKLHREFHHGPDPTDTAPGEQAQDVASSPPESSFQKLAPSEYRYTLLRDRDEL\tPLGSEITSLDTENIDEILNNADVALVNFYADWCRFSQXLHPIFEEASDVIKEEFPNENQVVFARVDCDQHSDIAQRYRISKYPTLKLFRNGXXXKREYRGQRSVKALADYIRQQKSDPIQEIRDLAEITTLDRSKRNIIGYFEQKDSDNYRVFERVANILHDDCAFLSAFGDVSKPERYSGDNIIYKPPGHSAPDXVYLGAXTNFDVTYNWIQDKCVPLVREITFENGEELTEEGLPFLILFHXKEDTESLEIFQNEVARQLISEKGTINFLHADCDKFRHPLLHIQKTPADCPVIAIDSFRHXYVFGDFKDVLIPGKLKQFVFDLHSGKLHREFHHGPDPTDTAPGEQAQDVASSPPESSFQKLAPSEYRYTLLRDRDEL\t406\t382\tChain A, Crystal Structure Of Human Erp44\n-sp|Q9BS26|ERP44_HUMAN\tgi|88192228|pdb|2B5E|A\t25.17\t290\t193\t8\t25\t306\t10\t283\t4e-20\t95.1\tgi|88192228|pdb|2B5E|A;gi|206581884|pdb|3BOA|A\t235\t73\t133\t24\t45.86\t1\t1\tTPVTTEITSLDTENIDEILNNADVALVNFYADWCRFSQMLHPIFEEASDVIKEEFPNENQVVFARVDCDQHSDIAQRYRISKYPTLKLFRNGMMMKR-EYRGQRSVKALADYIRQQKSDPIQEIRDLAEITTLDRSKRNIIGYFEQKDSDNYRVFERVANILHDDCAFLSAFGDVSKPERYSGDNI---IYKPPGHSAPDMVYLGA---MTNFDVTYNWIQDKCVPLVREITFENGEELTEEGLPFLILFHMKEDTESLEIFQNEVARQLISEKGTINFLHADCDKF-RH\tAPEDSAVVKLATDSFNEYIQSHDLVLAEFFAPWCGHCKNMAPEYVKAAETLVEK-----NITLAQIDCTENQDLCMEHNIPGFPSLKIFKNSDVNNSIDYEGPRTAEAIVQFMIKQSQPAVAVVADLPAYLANETFVTPVIVQSGKIDADFNATFYSMANKHFNDYDFVSA--------ENADDDFKLSIYLPSAMDEP-VVYNGKKADIADADVFEKWLQVEALPYFGEIDGSVFAQYVESGLPLGYLFY--NDEEELEEYKPLFTELAKKNRGLMNFVSIDARKFGRH\t406\t504\tChain A, Crystal Structure Of Yeast Protein Disulfide Isomerase<>Chain A, Crystal Structure Of Yeast Protein Disulfide Isomerase.\n-sp|Q9NSY1|BMP2K_HUMAN\tgi|73536291|pdb|2BUJ|A\t29.39\t279\t182\t8\t40\t308\t21\t294\t1e-22\t105\tgi|73536291|pdb|2BUJ|A;gi|73536292|pdb|2BUJ|B\t262\t82\t130\t15\t46.59\t1\t1\tGVRVFAVGRHQVTLEESLAEGGFSTVFLVR-THGGIRCALKRMYVNNMPDLNVCKREITIMKELSGHKNIVGYLDCAVNSISDNVWEVLILMEYCRAGQVVNQMNKKLQTG--FTEPEVLQIFCDTCEAVARLHQCKTPIIHRDLKVENILLNDGGNYVLCDFGSATNKFLNPQKDG-VNVVEEEIKKYTTLSYRAPEMINLYGGKPITTKADIWALGCLLYKLCFFTLPF------GESQVAICDGNFTIPDNSRYSRNIHCLIRFMLEPDPEHRPDI\tGHMVIIDNKHYLFIQK-LGEGGFSYVDLVEGLHDGHFYALKRILCHEQQDREEAQREAD-MHRLFNHPNILRLVAYCLRERGAKH-EAWLLLPFFKRGTLWNEIERLKDKGNFLTEDQILWLLLGICRGLEAIH--AKGYAHRDLKPTNILLGDEGQPVLMDLGSMNQACIHVEGSRQALTLQDWAAQRCTISYRAPELFSVQSHCVIDERTDVWSLGCVLYAMMFGEGPYDMVFQKGDSVALAVQNQLSIPQSPRHSSALWQLLNSMMTVDPHQRPHI\t1161\t317\tChain A, Crystal Structure Of The Human Serine-Threonine Kinase 16 In Complex With Staurosporine<>Chain B, Crystal Structure Of The Human Serine-Threonine Kinase 16 In Complex With Staurosporine\n-sp|Q9NSY1|BMP2K_HUMAN\tgi|270346335|pdb|2WQM|A\t27.21\t272\t166\t12\t53\t311\t36\t288\t6e-17\t86.3\tgi|270346335|pdb|2WQM|A;gi|270346336|pdb|2WQN|A\t212\t74\t129\t32\t47.43\t1\t1\tLEESLAEGGFSTVFLVRTH-GGIRCALKRMYVNNMPDLNV---CKREITIMKELSGHKNIVGYLDCAVNSISDNVWEVLILMEYCRAGQVVNQMN--KKLQTGFTEPEVLQIFCDTCEAVARLHQCKTPIIHRDLKVENILLNDGGNYVLCDFGSATNKFLNPQKDGVNVVEEEIKKYTTLSYRAPEMINLYGGKPITTKADIWALGCLLYKLCFFTLPFGESQV---AICD----GNFTIPDNSRYSRNIHCLIRFMLEPDPEHRPDIFQV\tIEKKIGRGQFSEVYRAACLLDGVPVALKKVQIFDLMDAKARADCIKEIDLLKQLN-HPNVIKYY---ASFIEDN--ELNIVLELADAGDLSRMIKHFKKQKRLIPERTVWKYFVQLCSALEHMHSRR--VMHRDIKPANVFITATGVVKLGDLG--LGRFFSSKTTAAHSL------VGTPYYMSPERIHENG---YNFKSDIWSLGCLLYEMAALQSPFYGDKMNLYSLCKKIEQCDYPPLPSDHYSEELRQLVNMCINPDPEKRPDVTYV\t1161\t310\tChain A, Structure Of Apo Human Nek7<>Chain A, Structure Of Adp-Bound Human Nek7\n-sp|P06213|INSR_HUMAN\tgi|116667097|pdb|2DTG|E\t95.91\t928\t7\t2\t28\t955\t1\t897\t0.0\t1846\tgi|116667097|pdb|2DTG|E\t4781\t890\t893\t31\t96.23\t1\t1\tHLYPGEVCPGMDIRNNLTRLHELENCSVIEGHLQILLMFKTRPEDFRDLSFPKLIMITDYLLLFRVYGLESLKDLFPNLTVIRGSRLFFNYALVIFEMVHLKELGLYNLMNITRGSVRIEKNNELCYLATIDWSRILDSVEDNYIVLNKDDNEECGDICPGTAKGKTNCPATVINGQFVERCWTHSHCQKVCPTICKSHGCTAEGLCCHSECLGNCSQPDDPTKCVACRNFYLDGRCVETCPPPYYHFQDWRCVNFSFCQDLHHKCKNSRRQGCHQYVIHNNKCIPECPSGYTMNSSNLLCTPCLGPCPK'..b'3860|pdb|2I35|A;gi|157883861|pdb|2I36|A;gi|157883862|pdb|2I36|B;gi|157883863|pdb|2I36|C;gi|157883864|pdb|2I37|A;gi|157883865|pdb|2I37|B;gi|157883866|pdb|2I37|C;gi|159795066|pdb|2PED|A;gi|159795067|pdb|2PED|B;gi|192988480|pdb|3CAP|A;gi|192988481|pdb|3CAP|B;gi|195927457|pdb|3C9L|A;gi|197107530|pdb|1F88|A;gi|197107531|pdb|1F88|B;gi|206582030|pdb|3DQB|A\t1756\t325\t337\t0\t96.84\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\t348\t348\tChain A, Structure Of Bovine Rhodopsin (Dark Adapted)<>Chain A, Structure Of Bovine Rhodopsin (Metarhodopsin Ii)<>Chain A, Structure Of Bovine Rhodopsin In A Trigonal Crystal Form<>Chain B, Structure Of Bovine Rhodopsin In A Trigonal Crystal Form<>Chain A, Crystal Structure Of Bovine Rhodopsin<>Chain B, Crystal Structure Of Bovine Rhodopsin<>Chain A, Crystal Structure Of Bovine Rhodopsin At 2.6 Angstroms Resolution<>Chain B, Crystal Structure Of Bovine Rhodopsin At 2.6 Angstroms Resolution<>Chain A, Crystal Structure Of Bovine Rhodopsin At 2.2 Angstroms Resolution<>Chain B, Crystal Structure Of Bovine Rhodopsin At 2.2 Angstroms Resolution<>Chain A, Crystallographic Model Of Bathorhodopsin<>Chain B, Crystallographic Model Of Bathorhodopsin<>Chain A, Crystallographic Model Of Lumirhodopsin<>Chain B, Crystallographic Model Of Lumirhodopsin<>Chain A, Crystal Structure Of Rhombohedral Crystal Form Of Ground- State Rhodopsin<>Chain A, Crystal Structure Of Trigonal Crystal Form Of Ground-State Rhodopsin<>Chain B, Crystal Structure Of Trigonal Crystal Form Of Ground-State Rhodopsin<>Chain C, Crystal Structure Of Trigonal Crystal Form Of Ground-State Rhodopsin<>Chain A, Crystal Structure Of A Photoactivated Rhodopsin<>Chain B, Crystal Structure Of A Photoactivated Rhodopsin<>Chain C, Crystal Structure Of A Photoactivated Rhodopsin<>Chain A, Crystallographic Model Of 9-Cis-Rhodopsin<>Chain B, Crystallographic Model Of 9-Cis-Rhodopsin<>Chain A, Crystal Structure Of Native Opsin: The G Protein-Coupled Receptor Rhodopsin In Its Ligand-Free State<>Chain B, Crystal Structure Of Native Opsin: The G Protein-Coupled Receptor Rhodopsin In Its Ligand-Free State<>Chain A, Structure Of Ground-State Bovine Rhodospin In A Hexagonal Crystal Form<>Chain A, Crystal Structure Of Bovine Rhodopsin<>Chain B, Crystal Structure Of Bovine Rhodopsin<>Chain A, Crystal Structure Of The Active G-Protein-Coupled Receptor Opsin In Complex With A C-Terminal Peptide Derived From The Galpha Subunit Of Transducin\n+sp|P08100|OPSD_HUMAN\tgi|195927458|pdb|3C9M|A\t93.103\t348\t24\t0\t1\t348\t1\t348\t0.0\t674\tgi|195927458|pdb|3C9M|A\t1738\t324\t335\t0\t96.26\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMCGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSCFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\t348\t348\tChain A, Structure Of A Mutant Bovine Rhodopsin In Hexagonal Crystal Form\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastp_human_vs_pdb_seg_no_converted_std.tabular --- a/test-data/blastp_human_vs_pdb_seg_no_converted_std.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastp_human_vs_pdb_seg_no_converted_std.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,8 +1,8 @@ -sp|Q9BS26|ERP44_HUMAN gi|193885198|pdb|2R2J|A 97.11 381 11 0 26 406 2 382 0.0 768 -sp|Q9BS26|ERP44_HUMAN gi|88192228|pdb|2B5E|A 25.17 290 193 8 25 306 10 283 4e-20 95.1 -sp|Q9NSY1|BMP2K_HUMAN gi|73536291|pdb|2BUJ|A 29.39 279 182 8 40 308 21 294 1e-22 105 -sp|Q9NSY1|BMP2K_HUMAN gi|270346335|pdb|2WQM|A 27.21 272 166 12 53 311 36 288 6e-17 86.3 -sp|P06213|INSR_HUMAN gi|116667097|pdb|2DTG|E 95.91 928 7 2 28 955 1 897 0.0 1846 -sp|P06213|INSR_HUMAN gi|114794482|pdb|2HR7|A 99.59 485 2 0 28 512 1 485 0.0 1016 -sp|P08100|OPSD_HUMAN gi|16975387|pdb|1JFP|A 93.39 348 23 0 1 348 1 348 0.0 681 -sp|P08100|OPSD_HUMAN gi|195927458|pdb|3C9M|A 93.10 348 24 0 1 348 1 348 0.0 674 +sp|Q9BS26|ERP44_HUMAN gi|193885198|pdb|2R2J|A 97.113 381 11 0 26 406 2 382 0.0 768 +sp|Q9BS26|ERP44_HUMAN gi|88192228|pdb|2B5E|A 25.172 290 193 8 25 306 10 283 4e-20 95.1 +sp|Q9NSY1|BMP2K_HUMAN gi|73536291|pdb|2BUJ|A 29.391 279 182 8 40 308 21 294 1e-22 105 +sp|Q9NSY1|BMP2K_HUMAN gi|270346335|pdb|2WQM|A 27.206 272 166 12 53 311 36 288 6e-17 86.3 +sp|P06213|INSR_HUMAN gi|116667097|pdb|2DTG|E 95.905 928 7 2 28 955 1 897 0.0 1846 +sp|P06213|INSR_HUMAN gi|114794482|pdb|2HR7|A 99.588 485 2 0 28 512 1 485 0.0 1016 +sp|P08100|OPSD_HUMAN gi|16975387|pdb|1JFP|A 93.391 348 23 0 1 348 1 348 0.0 681 +sp|P08100|OPSD_HUMAN gi|195927458|pdb|3C9M|A 93.103 348 24 0 1 348 1 348 0.0 674 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastp_rhodopsin_vs_four_human.tabular --- a/test-data/blastp_rhodopsin_vs_four_human.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastp_rhodopsin_vs_four_human.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,6 +1,6 @@ -gi|57163783|ref|NP_001009242.1| sp|P08100|OPSD_HUMAN 96.55 348 12 0 1 348 1 348 0.0 701 -gi|3024260|sp|P56514.1|OPSD_BUFBU sp|P08100|OPSD_HUMAN 83.33 354 53 2 1 354 1 348 0.0 605 -gi|283855846|gb|ADB45242.1| sp|P08100|OPSD_HUMAN 94.82 328 17 0 1 328 11 338 0.0 630 -gi|283855823|gb|ADB45229.1| sp|P08100|OPSD_HUMAN 94.82 328 17 0 1 328 11 338 0.0 630 -gi|223523|prf||0811197A sp|P08100|OPSD_HUMAN 93.10 348 23 1 1 347 1 348 0.0 651 -gi|12583665|dbj|BAB21486.1| sp|P08100|OPSD_HUMAN 81.09 349 65 1 1 349 1 348 0.0 587 +gi|57163783|ref|NP_001009242.1| sp|P08100|OPSD_HUMAN 96.552 348 12 0 1 348 1 348 0.0 701 +gi|3024260|sp|P56514.1|OPSD_BUFBU sp|P08100|OPSD_HUMAN 83.333 354 53 2 1 354 1 348 0.0 605 +gi|283855846|gb|ADB45242.1| sp|P08100|OPSD_HUMAN 94.817 328 17 0 1 328 11 338 0.0 630 +gi|283855823|gb|ADB45229.1| sp|P08100|OPSD_HUMAN 94.817 328 17 0 1 328 11 338 0.0 630 +gi|223523|prf||0811197A sp|P08100|OPSD_HUMAN 93.103 348 23 1 1 347 1 348 0.0 651 +gi|12583665|dbj|BAB21486.1| sp|P08100|OPSD_HUMAN 81.089 349 65 1 1 349 1 348 0.0 587 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastp_sample_converted.tabular --- a/test-data/blastp_sample_converted.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastp_sample_converted.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,9 +1,9 @@ -Sample gi|119953746|ref|YP_950551.1| 96.90 516 16 0 1 516 27 542 0.0 949 -Sample gi|148986157|ref|ZP_01819143.1| 41.27 252 115 3 49 300 679 897 2e-41 174 -Sample gi|77411259|ref|ZP_00787609.1| 41.00 261 143 2 50 310 655 904 8e-39 165 -Sample gi|76786754|ref|YP_329383.1| 39.46 261 147 2 50 310 655 904 7e-37 159 -Sample gi|153811333|ref|ZP_01964001.1| 29.98 557 277 18 3 516 573 1059 2e-36 157 -Sample gi|56962696|ref|YP_174422.1| 28.79 389 228 8 48 433 123 465 3e-33 146 -Sample gi|50914476|ref|YP_060448.1| 43.82 178 100 0 50 227 655 832 5e-33 146 -Sample gi|29374987|ref|NP_814140.1| 25.46 432 244 8 73 482 545 920 7e-31 139 -Sample gi|163941333|ref|YP_001646217.1| 27.19 434 287 7 61 480 142 560 8e-31 138 +Sample gi|119953746|ref|YP_950551.1| 96.899 516 16 0 1 516 27 542 0.0 949 +Sample gi|148986157|ref|ZP_01819143.1| 41.270 252 115 3 49 300 679 897 2e-41 174 +Sample gi|77411259|ref|ZP_00787609.1| 40.996 261 143 2 50 310 655 904 8e-39 165 +Sample gi|76786754|ref|YP_329383.1| 39.464 261 147 2 50 310 655 904 7e-37 159 +Sample gi|153811333|ref|ZP_01964001.1| 29.982 557 277 18 3 516 573 1059 2e-36 157 +Sample gi|56962696|ref|YP_174422.1| 28.792 389 228 8 48 433 123 465 3e-33 146 +Sample gi|50914476|ref|YP_060448.1| 43.820 178 100 0 50 227 655 832 5e-33 146 +Sample gi|29374987|ref|NP_814140.1| 25.463 432 244 8 73 482 545 920 7e-31 139 +Sample gi|163941333|ref|YP_001646217.1| 27.189 434 287 7 61 480 142 560 8e-31 138 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastx_rhodopsin_vs_four_human.tabular --- a/test-data/blastx_rhodopsin_vs_four_human.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastx_rhodopsin_vs_four_human.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,10 +1,10 @@ -gi|57163782|ref|NM_001009242.1| sp|P08100|OPSD_HUMAN 96.55 348 12 0 1 1044 1 348 0.0 639 -gi|2734705|gb|U59921.1|BBU59921 sp|P08100|OPSD_HUMAN 85.24 332 49 0 42 1037 1 332 0.0 551 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 96.40 111 4 0 1 333 11 121 3e-67 220 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 92.31 65 5 0 3174 3368 248 312 2e-35 127 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 91.53 59 5 0 2855 3031 177 235 2e-33 121 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 93.22 59 4 0 1404 1580 119 177 1e-25 97.1 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 88.46 26 3 0 4222 4299 312 337 1e-12 57.0 -gi|283855822|gb|GQ290312.1| sp|P08100|OPSD_HUMAN 95.09 326 16 0 1 978 11 336 0.0 589 -gi|18148870|dbj|AB062417.1| sp|P08100|OPSD_HUMAN 93.39 348 23 0 1 1044 1 348 0.0 619 -gi|12583664|dbj|AB043817.1| sp|P08100|OPSD_HUMAN 81.68 333 61 0 23 1021 1 333 0.0 532 +gi|57163782|ref|NM_001009242.1| sp|P08100|OPSD_HUMAN 96.552 348 12 0 1 1044 1 348 0.0 639 +gi|2734705|gb|U59921.1|BBU59921 sp|P08100|OPSD_HUMAN 85.241 332 49 0 42 1037 1 332 0.0 551 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 96.396 111 4 0 1 333 11 121 3.78e-67 220 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 92.308 65 5 0 3174 3368 248 312 4.13e-35 127 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 91.525 59 5 0 2855 3031 177 235 3.99e-33 121 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 93.220 59 4 0 1404 1580 119 177 7.46e-25 97.1 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 88.462 26 3 0 4222 4299 312 337 1.13e-11 57.0 +gi|283855822|gb|GQ290312.1| sp|P08100|OPSD_HUMAN 95.092 326 16 0 1 978 11 336 0.0 589 +gi|18148870|dbj|AB062417.1| sp|P08100|OPSD_HUMAN 93.391 348 23 0 1 1044 1 348 0.0 619 +gi|12583664|dbj|AB043817.1| sp|P08100|OPSD_HUMAN 81.682 333 61 0 23 1021 1 333 0.0 532 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastx_rhodopsin_vs_four_human.xml --- a/test-data/blastx_rhodopsin_vs_four_human.xml Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastx_rhodopsin_vs_four_human.xml Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -2,7 +2,7 @@\n <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd">\n <BlastOutput>\n <BlastOutput_program>blastx</BlastOutput_program>\n- <BlastOutput_version>BLASTX 2.2.31+</BlastOutput_version>\n+ <BlastOutput_version>BLASTX 2.5.0+</BlastOutput_version>\n <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&auml;ffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>\n <BlastOutput_db></BlastOutput_db>\n <BlastOutput_query-ID>Query_1</BlastOutput_query-ID>\n@@ -24,69 +24,9 @@\n <Iteration_query-def>gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA</Iteration_query-def>\n <Iteration_query-len>1047</Iteration_query-len>\n <Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>30</Statistics_hsp-len>\n- <Statistics_eff-space>119944</Statistics_eff-space>\n- <Statistics_kappa>0.041</Statistics_kappa>\n- <Statistics_lambda>0.267</Statistics_lambda>\n- <Statistics_entropy>0.14</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>2</Iteration_iter-num>\n- <Iteration_query-ID>Query_1</Iteration_query-ID>\n- <Iteration_query-def>gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA</Iteration_query-def>\n- <Iteration_query-len>1047</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>30</Statistics_hsp-len>\n- <Statistics_eff-space>119944</Statistics_eff-space>\n- <Statistics_kappa>0.041</Statistics_kappa>\n- <Statistics_lambda>0.267</Statistics_lambda>\n- <Statistics_entropy>0.14</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>3</Iteration_iter-num>\n- <Iteration_query-ID>Query_1</Iteration_query-ID>\n- <Iteration_query-def>gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA</Iteration_query-def>\n- <Iteration_query-len>1047</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>30</Statistics_hsp-len>\n- <Statistics_eff-space>119944</Statistics_eff-space>\n- <Statistics_kappa>0.041</Statistics_kappa>\n- <Statistics_lambda>0.267</Statistics_lambda>\n- <Statistics_entropy>0.14</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>4</Iteration_iter-num>\n- <Iteration_query-ID>Query_1</Iteration_query-ID>\n- <Iteration_query-def>gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA</Iteration_query-def>\n- <Iteration_query-len>1047</Iteration_query-len>\n-<Iteration_hits>\n <Hit>\n <Hit_num>1</Hit_num>\n- <Hit_id>Subject_4</Hit_id>\n+ <Hit_id>sp|P08100|OPSD_HUMAN</Hit_id>\n <Hit_def>sp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1</Hit_def>\n <Hit_accession>Subject_4</Hit_accession>\n <Hit_len>348</Hit_len>\n@@ -117,8 +57,8 @@\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>30</Statistics_hsp-len>\n- <Statistics_eff-space>119944</Statistics_eff-space>\n+ <Statistics_hsp-len>45</Statistics_hsp-len>\n+ <Statistics_eff-space>947568</Statistics_eff-spa'..b'</Statistics_hsp-len>\n+ <Statistics_eff-space>947568</Statistics_eff-space>\n <Statistics_kappa>0.041</Statistics_kappa>\n <Statistics_lambda>0.267</Statistics_lambda>\n <Statistics_entropy>0.14</Statistics_entropy>\n@@ -630,74 +330,14 @@\n </Iteration_stat>\n </Iteration>\n <Iteration>\n- <Iteration_iter-num>21</Iteration_iter-num>\n- <Iteration_query-ID>Query_6</Iteration_query-ID>\n- <Iteration_query-def>gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh water form rod opsin, complete cds</Iteration_query-def>\n- <Iteration_query-len>1344</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>32</Statistics_hsp-len>\n- <Statistics_eff-space>155584</Statistics_eff-space>\n- <Statistics_kappa>0.041</Statistics_kappa>\n- <Statistics_lambda>0.267</Statistics_lambda>\n- <Statistics_entropy>0.14</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>22</Iteration_iter-num>\n- <Iteration_query-ID>Query_6</Iteration_query-ID>\n- <Iteration_query-def>gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh water form rod opsin, complete cds</Iteration_query-def>\n- <Iteration_query-len>1344</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>32</Statistics_hsp-len>\n- <Statistics_eff-space>155584</Statistics_eff-space>\n- <Statistics_kappa>0.041</Statistics_kappa>\n- <Statistics_lambda>0.267</Statistics_lambda>\n- <Statistics_entropy>0.14</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>23</Iteration_iter-num>\n- <Iteration_query-ID>Query_6</Iteration_query-ID>\n- <Iteration_query-def>gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh water form rod opsin, complete cds</Iteration_query-def>\n- <Iteration_query-len>1344</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>32</Statistics_hsp-len>\n- <Statistics_eff-space>155584</Statistics_eff-space>\n- <Statistics_kappa>0.041</Statistics_kappa>\n- <Statistics_lambda>0.267</Statistics_lambda>\n- <Statistics_entropy>0.14</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>24</Iteration_iter-num>\n+ <Iteration_iter-num>6</Iteration_iter-num>\n <Iteration_query-ID>Query_6</Iteration_query-ID>\n <Iteration_query-def>gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh water form rod opsin, complete cds</Iteration_query-def>\n <Iteration_query-len>1344</Iteration_query-len>\n <Iteration_hits>\n <Hit>\n <Hit_num>1</Hit_num>\n- <Hit_id>Subject_4</Hit_id>\n+ <Hit_id>sp|P08100|OPSD_HUMAN</Hit_id>\n <Hit_def>sp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1</Hit_def>\n <Hit_accession>Subject_4</Hit_accession>\n <Hit_len>348</Hit_len>\n@@ -728,8 +368,8 @@\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>32</Statistics_hsp-len>\n- <Statistics_eff-space>155584</Statistics_eff-space>\n+ <Statistics_hsp-len>47</Statistics_hsp-len>\n+ <Statistics_eff-space>1246709</Statistics_eff-space>\n <Statistics_kappa>0.041</Statistics_kappa>\n <Statistics_lambda>0.267</Statistics_lambda>\n <Statistics_entropy>0.14</Statistics_entropy>\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastx_rhodopsin_vs_four_human_all.tabular --- a/test-data/blastx_rhodopsin_vs_four_human_all.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastx_rhodopsin_vs_four_human_all.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -1,10 +1,10 @@\n-gi|57163782|ref|NM_001009242.1|\tsp|P08100|OPSD_HUMAN\t96.55\t348\t12\t0\t1\t1044\t1\t348\t0.0\t639\tsp|P08100|OPSD_HUMAN\t1647\t336\t343\t0\t98.56\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\t0\tgi|57163782|ref|NM_001009242.1|\tgi|57163782|ref|NM_001009242.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t1/0\t15KA71FL4TS79VA9ML34VI71LI7SASA21LI13TA1GV11\t99\t33\tN/A\tN/A\tN/A\tN/A\tN/A\n-gi|2734705|gb|U59921.1|BBU59921\tsp|P08100|OPSD_HUMAN\t85.24\t332\t49\t0\t42\t1037\t1\t332\t0.0\t551\tsp|P08100|OPSD_HUMAN\t1419\t283\t315\t0\t94.88\t3\t0\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDD\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDE\t1574\t348\tN/A\t0\tgi|2734705|gb|U59921.1|BBU59921\tgi|2734705|gb|U59921.1|BBU59921\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t3/0\t10IV1MF2KA20YF1IM1CA7LV7ML5IV17FV1NDHL4CG3VS1ML1ST1MLNH3IVLF1AP3YNVL36SG4VI7IV3SA2VA3LA9ML5VI26LM8RQ2CF30VIFA13FY2STNH3EN7VI7SASA9LM8IL2LI6FL1ED1DE\t63\t21\tN/A\tN/A\tN/A\tN/A\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t96.40\t111\t4\t0\t1\t333\t11\t121\t3e-67\t220\tsp|P08100|OPSD_HUMAN\t561\t107\t109\t0\t98.20\t1\t0\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG\t4301\t348\tN/A\t0\tgi|283855845|gb|GQ290303.1|\tgi|283855845|gb|GQ290303.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t1/0\t5KA9HY61FL4TS28\t22\t3\tN/A\tN/A\tN/A\tN/A\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t92.31\t65\t5\t0\t3174\t3368\t248\t312\t2e-35\t127\tsp|P08100|OPSD_HUMAN\t319\t60\t64\t0\t98.46\t3\t0\tKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\tKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\t4301\t348\tN/A\t0\tgi|283855845|gb|GQ290303.1|\tgi|283855845|gb|GQ290303.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t3/0\t18LV3GS19LI7SASA13\t22\t2\tN/A\tN/A\tN/A\tN/A\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t91.53\t59\t5\t0\t2855\t3031\t177\t235\t2e-33\t121\tsp|P08100|OPSD_HUMAN\t304\t54\t57\t0\t96.61\t2\t0\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\t4301\t348\tN/A\t0\tgi|283855845|gb|GQ290303.1|\tgi|283855845|gb|GQ290303.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t2/0\t6ML34VI14VARASA\t22\t1\tN/A\tN/A\tN/A\tN/A\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t93.22\t59\t4\t0\t1404\t1580\t119\t177\t1e-25\t97.1\tsp|P08100|OPSD_HUMAN\t240\t55\t56\t0\t94.92\t3\t0\tLAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR\tLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR\t4301\t348\tN/A\t0\tgi|283855845|gb|GQ290303.1|\tgi|283855845|gb|GQ290303.1|\t0\t0\ts'..b'.1\tsp|P08100|OPSD_HUMAN\t240\t55\t56\t0\t94.92\t3\t0\tLAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR\tLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR\t4301\t348\tN/A\t0\tgi|283855845|gb|GQ290303.1|\tgi|283855845|gb|GQ290303.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t3/0\t1AG36LV1LF13VA4\t22\t1\tN/A\tN/A\tN/A\tN/A\tN/A\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t88.462\t26\t3\t0\t4222\t4299\t312\t337\t1.13e-11\t57.0\tsp|P08100|OPSD_HUMAN\t136\t23\t24\t0\t92.31\t1\t0\tQFRNCMLTTLCCGKNPLGDDEASTTA\tQFRNCMLTTICCGKNPLGDDEASATV\t4301\t348\tN/A\t0\tgi|283855845|gb|GQ290303.1|\tgi|283855845|gb|GQ290303.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t1/0\t9LI13TA1AV\t22\t1\tN/A\tN/A\tN/A\tN/A\tN/A\n+gi|283855822|gb|GQ290312.1|\tsp|P08100|OPSD_HUMAN\t95.092\t326\t16\t0\t1\t978\t11\t336\t0.0\t589\tsp|P08100|OPSD_HUMAN\t1518\t310\t322\t0\t98.77\t1\t0\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASAT\t983\t348\tN/A\t0\tgi|283855822|gb|GQ290312.1|\tgi|283855822|gb|GQ290312.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t1/0\t5KA66ND4FL4TS5ML7AP49LV25ML34VI40VI6LV19VI11SASA21LI13TA1\t99\t33\tN/A\tN/A\tN/A\tN/A\tN/A\n+gi|18148870|dbj|AB062417.1|\tsp|P08100|OPSD_HUMAN\t93.391\t348\t23\t0\t1\t1044\t1\t348\t0.0\t619\tsp|P08100|OPSD_HUMAN\t1596\t325\t337\t0\t96.84\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\t0\tgi|18148870|dbj|AB062417.1|\tgi|18148870|dbj|AB062417.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t1/0\t15KA9AY22MV38FL4TS79VA9ML10PLHKEP1TV14IT2LM1VI47LV3GS11DN14TSSA1VI17VL2LI13TA13\t99\t33\tN/A\tN/A\tN/A\tN/A\tN/A\n+gi|12583664|dbj|AB043817.1|\tsp|P08100|OPSD_HUMAN\t81.682\t333\t61\t0\t23\t1021\t1\t333\t0.0\t532\tsp|P08100|OPSD_HUMAN\t1371\t272\t307\t0\t92.19\t2\t0\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDG\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA\t1344\t348\tN/A\t0\tgi|12583664|dbj|AB043817.1|\tgi|12583664|dbj|AB043817.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t2/0\t10IV1MF22AQ2AM1SA4FL2IVAL12IVEQ23FL4TS1ML3ML12IL14CS8WYMV5VMTS6SN6MAVF2TV6LA3FA20RLAK1GEIV10TVCV2ST2LMAIVI1SF4RQ2CF12EA3RK2RK6VI4SA2VI9WF8TN9SA5SA1LI3MV3CM6HN2IL2LI6FLEGEDEDDEGA\t74\t25\tN/A\tN/A\tN/A\tN/A\tN/A\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastx_rhodopsin_vs_four_human_converted.tabular --- a/test-data/blastx_rhodopsin_vs_four_human_converted.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastx_rhodopsin_vs_four_human_converted.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,10 +1,10 @@ -gi|57163782|ref|NM_001009242.1| sp|P08100|OPSD_HUMAN 96.55 348 12 0 1 1044 1 348 0.0 639 -gi|2734705|gb|U59921.1|BBU59921 sp|P08100|OPSD_HUMAN 85.24 332 49 0 42 1037 1 332 0.0 551 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 96.40 111 4 0 1 333 11 121 3e-67 220 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 92.31 65 5 0 3174 3368 248 312 2e-35 127 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 91.53 59 5 0 2855 3031 177 235 2e-33 121 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 93.22 59 4 0 1404 1580 119 177 1e-25 97.1 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 88.46 26 3 0 4222 4299 312 337 1e-12 57.0 -gi|283855822|gb|GQ290312.1| sp|P08100|OPSD_HUMAN 95.09 326 16 0 1 978 11 336 0.0 589 -gi|18148870|dbj|AB062417.1| sp|P08100|OPSD_HUMAN 93.39 348 23 0 1 1044 1 348 0.0 619 -gi|12583664|dbj|AB043817.1| sp|P08100|OPSD_HUMAN 81.68 333 61 0 23 1021 1 333 0.0 532 +gi|57163782|ref|NM_001009242.1| sp|P08100|OPSD_HUMAN 96.552 348 12 0 1 1044 1 348 0.0 639 +gi|2734705|gb|U59921.1|BBU59921 sp|P08100|OPSD_HUMAN 85.241 332 49 0 42 1037 1 332 0.0 551 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 96.396 111 4 0 1 333 11 121 4e-67 220 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 92.308 65 5 0 3174 3368 248 312 4e-35 127 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 91.525 59 5 0 2855 3031 177 235 4e-33 121 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 93.220 59 4 0 1404 1580 119 177 7e-25 97.1 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 88.462 26 3 0 4222 4299 312 337 1e-11 57.0 +gi|283855822|gb|GQ290312.1| sp|P08100|OPSD_HUMAN 95.092 326 16 0 1 978 11 336 0.0 589 +gi|18148870|dbj|AB062417.1| sp|P08100|OPSD_HUMAN 93.391 348 23 0 1 1044 1 348 0.0 619 +gi|12583664|dbj|AB043817.1| sp|P08100|OPSD_HUMAN 81.682 333 61 0 23 1021 1 333 0.0 532 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastx_rhodopsin_vs_four_human_converted_ext.tabular --- a/test-data/blastx_rhodopsin_vs_four_human_converted_ext.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastx_rhodopsin_vs_four_human_converted_ext.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -1,10 +1,10 @@\n-gi|57163782|ref|NM_001009242.1|\tsp|P08100|OPSD_HUMAN\t96.55\t348\t12\t0\t1\t1044\t1\t348\t0.0\t639\tsp|P08100|OPSD_HUMAN\t1647\t336\t343\t0\t98.56\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVXXXXXXXXXXXXXXXXXKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tRhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n-gi|2734705|gb|U59921.1|BBU59921\tsp|P08100|OPSD_HUMAN\t85.24\t332\t49\t0\t42\t1037\t1\t332\t0.0\t551\tsp|P08100|OPSD_HUMAN\t1419\t283\t315\t0\t94.88\t3\t0\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVXXXXXXXXXXXXXXXXXKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDD\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDE\t1574\t348\tRhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t96.40\t111\t4\t0\t1\t333\t11\t121\t3e-67\t220\tsp|P08100|OPSD_HUMAN\t561\t107\t109\t0\t98.20\t1\t0\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG\t4301\t348\tRhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t92.31\t65\t5\t0\t3174\t3368\t248\t312\t2e-35\t127\tsp|P08100|OPSD_HUMAN\t319\t60\t64\t0\t98.46\t3\t0\tKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\tKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\t4301\t348\tRhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t91.53\t59\t5\t0\t2855\t3031\t177\t235\t2e-33\t121\tsp|P08100|OPSD_HUMAN\t304\t54\t57\t0\t96.61\t2\t0\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\t4301\t348\tRhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t93.22\t59\t4\t0\t1404\t1580\t119\t177\t1e-25\t97.1\tsp|P08100|OPSD_HUMAN\t240\t55\t56\t0\t94.92\t3\t0\tLAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR\tLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR\t4301\t348\tRhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t88.46\t26\t3\t0\t4222\t4299\t312\t337\t1e-12\t57.0\tsp|P08100|OPSD_HUMAN\t136\t23\t24\t0\t92.31\t1\t0\tQFRNCMLTTLCCGKNPLGDDEASTTA\tQFRNCMLTTICCGKNPLGDDEASATV\t4301\t348\tRhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n-gi|283855822|gb|GQ290312.1|\tsp|P08100|OPSD_HUMAN\t95.09\t326\t16\t0\t1\t978\t11\t336\t0.0\t589\tsp|P08100|OPSD_HUMAN\t1518\t310\t322\t0\t98.77\t1\t0\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVXXXXXXXXXXXXXXXXXKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVH'..b'LYTSLHGYFVFGPTGCNLEGFFATLGG\t4301\t348\tsp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t92.308\t65\t5\t0\t3174\t3368\t248\t312\t4e-35\t127\tsp|P08100|OPSD_HUMAN\t319\t60\t64\t0\t98.46\t3\t0\tKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\tKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\t4301\t348\tsp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t91.525\t59\t5\t0\t2855\t3031\t177\t235\t4e-33\t121\tsp|P08100|OPSD_HUMAN\t304\t54\t57\t0\t96.61\t2\t0\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\t4301\t348\tsp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t93.220\t59\t4\t0\t1404\t1580\t119\t177\t7e-25\t97.1\tsp|P08100|OPSD_HUMAN\t240\t55\t56\t0\t94.92\t3\t0\tLAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR\tLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR\t4301\t348\tsp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t88.462\t26\t3\t0\t4222\t4299\t312\t337\t1e-11\t57.0\tsp|P08100|OPSD_HUMAN\t136\t23\t24\t0\t92.31\t1\t0\tQFRNCMLTTLCCGKNPLGDDEASTTA\tQFRNCMLTTICCGKNPLGDDEASATV\t4301\t348\tsp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n+gi|283855822|gb|GQ290312.1|\tsp|P08100|OPSD_HUMAN\t95.092\t326\t16\t0\t1\t978\t11\t336\t0.0\t589\tsp|P08100|OPSD_HUMAN\t1518\t310\t322\t0\t98.77\t1\t0\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVXXXXXXXXXXXXXXXXXKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASAT\t983\t348\tsp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n+gi|18148870|dbj|AB062417.1|\tsp|P08100|OPSD_HUMAN\t93.391\t348\t23\t0\t1\t1044\t1\t348\t0.0\t619\tsp|P08100|OPSD_HUMAN\t1596\t325\t337\t0\t96.84\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVXXXXXXXXXXXXXXXXXKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tsp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n+gi|12583664|dbj|AB043817.1|\tsp|P08100|OPSD_HUMAN\t81.682\t333\t61\t0\t23\t1021\t1\t333\t0.0\t532\tsp|P08100|OPSD_HUMAN\t1371\t272\t307\t0\t92.19\t2\t0\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKXXXXXXXXXXXXXXXXXXVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDG\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA\t1344\t348\tsp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastx_rhodopsin_vs_four_human_ext.tabular --- a/test-data/blastx_rhodopsin_vs_four_human_ext.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastx_rhodopsin_vs_four_human_ext.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -1,10 +1,10 @@\n-gi|57163782|ref|NM_001009242.1|\tsp|P08100|OPSD_HUMAN\t96.55\t348\t12\t0\t1\t1044\t1\t348\t0.0\t639\tsp|P08100|OPSD_HUMAN\t1647\t336\t343\t0\t98.56\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\n-gi|2734705|gb|U59921.1|BBU59921\tsp|P08100|OPSD_HUMAN\t85.24\t332\t49\t0\t42\t1037\t1\t332\t0.0\t551\tsp|P08100|OPSD_HUMAN\t1419\t283\t315\t0\t94.88\t3\t0\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDD\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDE\t1574\t348\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t96.40\t111\t4\t0\t1\t333\t11\t121\t3e-67\t220\tsp|P08100|OPSD_HUMAN\t561\t107\t109\t0\t98.20\t1\t0\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG\t4301\t348\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t92.31\t65\t5\t0\t3174\t3368\t248\t312\t2e-35\t127\tsp|P08100|OPSD_HUMAN\t319\t60\t64\t0\t98.46\t3\t0\tKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\tKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\t4301\t348\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t91.53\t59\t5\t0\t2855\t3031\t177\t235\t2e-33\t121\tsp|P08100|OPSD_HUMAN\t304\t54\t57\t0\t96.61\t2\t0\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\t4301\t348\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t93.22\t59\t4\t0\t1404\t1580\t119\t177\t1e-25\t97.1\tsp|P08100|OPSD_HUMAN\t240\t55\t56\t0\t94.92\t3\t0\tLAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR\tLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR\t4301\t348\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t88.46\t26\t3\t0\t4222\t4299\t312\t337\t1e-12\t57.0\tsp|P08100|OPSD_HUMAN\t136\t23\t24\t0\t92.31\t1\t0\tQFRNCMLTTLCCGKNPLGDDEASTTA\tQFRNCMLTTICCGKNPLGDDEASATV\t4301\t348\tN/A\n-gi|283855822|gb|GQ290312.1|\tsp|P08100|OPSD_HUMAN\t95.09\t326\t16\t0\t1\t978\t11\t336\t0.0\t589\tsp|P08100|OPSD_HUMAN\t1518\t310\t322\t0\t98.77\t1\t0\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASAT\t983\t348\tN/A\n-gi|18148870|dbj|AB062417.1|\tsp|P08100|OPSD_HUMAN\t93.39\t348\t23\t0\t1\t1044\t1\t348\t0.0\t619\tsp|P08100|OPSD_HUMAN\t1596\t325\t337\t0\t96.84\t1\t0\tMNG'..b'HFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDE\t1574\t348\tN/A\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t96.396\t111\t4\t0\t1\t333\t11\t121\t3.78e-67\t220\tsp|P08100|OPSD_HUMAN\t561\t107\t109\t0\t98.20\t1\t0\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG\t4301\t348\tN/A\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t92.308\t65\t5\t0\t3174\t3368\t248\t312\t4.13e-35\t127\tsp|P08100|OPSD_HUMAN\t319\t60\t64\t0\t98.46\t3\t0\tKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\tKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\t4301\t348\tN/A\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t91.525\t59\t5\t0\t2855\t3031\t177\t235\t3.99e-33\t121\tsp|P08100|OPSD_HUMAN\t304\t54\t57\t0\t96.61\t2\t0\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\t4301\t348\tN/A\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t93.220\t59\t4\t0\t1404\t1580\t119\t177\t7.46e-25\t97.1\tsp|P08100|OPSD_HUMAN\t240\t55\t56\t0\t94.92\t3\t0\tLAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR\tLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR\t4301\t348\tN/A\n+gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t88.462\t26\t3\t0\t4222\t4299\t312\t337\t1.13e-11\t57.0\tsp|P08100|OPSD_HUMAN\t136\t23\t24\t0\t92.31\t1\t0\tQFRNCMLTTLCCGKNPLGDDEASTTA\tQFRNCMLTTICCGKNPLGDDEASATV\t4301\t348\tN/A\n+gi|283855822|gb|GQ290312.1|\tsp|P08100|OPSD_HUMAN\t95.092\t326\t16\t0\t1\t978\t11\t336\t0.0\t589\tsp|P08100|OPSD_HUMAN\t1518\t310\t322\t0\t98.77\t1\t0\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASAT\t983\t348\tN/A\n+gi|18148870|dbj|AB062417.1|\tsp|P08100|OPSD_HUMAN\t93.391\t348\t23\t0\t1\t1044\t1\t348\t0.0\t619\tsp|P08100|OPSD_HUMAN\t1596\t325\t337\t0\t96.84\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\n+gi|12583664|dbj|AB043817.1|\tsp|P08100|OPSD_HUMAN\t81.682\t333\t61\t0\t23\t1021\t1\t333\t0.0\t532\tsp|P08100|OPSD_HUMAN\t1371\t272\t307\t0\t92.19\t2\t0\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDG\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA\t1344\t348\tN/A\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/blastx_sample_converted.tabular --- a/test-data/blastx_sample_converted.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/blastx_sample_converted.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,33 +1,33 @@ -phage_suis gi|119953746|ref|YP_950551.1| 100.00 518 0 0 336 1889 25 542 0.0 988 -phage_suis gi|289551554|ref|YP_003472458.1| 32.95 516 280 6 342 1889 657 1106 6e-66 256 -phage_suis gi|223044325|ref|ZP_03614360.1| 30.22 546 327 7 393 1889 655 1193 1e-64 252 -phage_suis gi|223044325|ref|ZP_03614360.1| 19.88 508 328 9 384 1796 844 1309 6e-28 130 -phage_suis gi|268611153|ref|ZP_06144880.1| 28.64 639 371 11 78 1847 440 1042 1e-60 239 -phage_suis gi|268611153|ref|ZP_06144880.1| 23.36 441 286 7 543 1856 547 938 4e-31 141 -phage_suis gi|268611153|ref|ZP_06144880.1| 25.27 459 266 11 522 1844 722 1121 8e-31 140 -phage_suis gi|268611153|ref|ZP_06144880.1| 24.63 406 267 8 501 1694 770 1144 3e-23 115 -phage_suis gi|268611153|ref|ZP_06144880.1| 27.80 241 145 3 492 1148 811 1044 6e-16 90.9 -phage_suis gi|268611153|ref|ZP_06144880.1| 19.76 253 168 6 1158 1883 547 775 3e-04 52.0 -phage_suis gi|268610688|ref|ZP_06144415.1| 28.95 639 369 11 78 1847 440 1042 3e-59 234 -phage_suis gi|268610688|ref|ZP_06144415.1| 24.64 491 316 9 501 1856 770 1245 4e-39 167 -phage_suis gi|268610688|ref|ZP_06144415.1| 23.79 517 319 9 492 1832 811 1322 3e-37 161 -phage_suis gi|268610688|ref|ZP_06144415.1| 21.91 493 322 11 510 1859 905 1377 1e-25 123 -phage_suis gi|268610688|ref|ZP_06144415.1| 20.55 292 197 5 486 1343 1138 1400 4e-10 71.6 -phage_suis gi|268610688|ref|ZP_06144415.1| 21.41 341 225 10 894 1883 467 775 8e-05 53.9 -phage_suis gi|153811333|ref|ZP_01964001.1| 28.34 621 364 16 108 1847 493 1073 8e-55 219 -phage_suis gi|153811333|ref|ZP_01964001.1| 29.67 428 250 9 519 1760 709 1099 2e-47 195 -phage_suis gi|153811333|ref|ZP_01964001.1| 29.41 391 226 7 498 1640 746 1096 1e-39 169 -phage_suis gi|153811333|ref|ZP_01964001.1| 26.49 268 174 3 492 1256 854 1111 3e-24 118 -phage_suis gi|153811333|ref|ZP_01964001.1| 27.12 306 198 4 510 1385 816 1110 1e-23 116 -phage_suis gi|262113750|emb|CAR95417.1| 38.46 286 169 1 384 1241 540 818 2e-54 218 -phage_suis gi|262113750|emb|CAR95417.1| 29.68 411 271 7 657 1871 460 858 3e-40 171 -phage_suis gi|77411259|ref|ZP_00787609.1| 37.19 285 172 1 387 1241 628 905 2e-53 215 -phage_suis gi|77411259|ref|ZP_00787609.1| 28.01 407 281 6 660 1871 548 945 1e-40 172 -phage_suis gi|77411259|ref|ZP_00787609.1| 22.82 355 207 7 978 1877 540 882 9e-14 83.6 -phage_suis gi|76786754|ref|YP_329383.1| 36.84 285 173 1 387 1241 628 905 8e-53 213 -phage_suis gi|76786754|ref|YP_329383.1| 27.27 407 284 6 660 1871 548 945 3e-38 164 -phage_suis gi|76786754|ref|YP_329383.1| 24.73 283 194 2 543 1391 637 900 3e-23 115 -phage_suis gi|76786754|ref|YP_329383.1| 22.91 323 204 6 978 1847 540 850 2e-13 82.4 -phage_suis gi|50914476|ref|YP_060448.1| 35.86 290 179 1 372 1241 623 905 4e-51 207 -phage_suis gi|50914476|ref|YP_060448.1| 27.01 411 280 7 660 1871 548 945 2e-35 155 -phage_suis gi|50914476|ref|YP_060448.1| 23.00 387 269 5 543 1673 637 1004 3e-25 121 +phage_suis gi|119953746|ref|YP_950551.1| 100.000 518 0 0 336 1889 25 542 0.0 988 +phage_suis gi|289551554|ref|YP_003472458.1| 32.946 516 280 6 342 1889 657 1106 6e-66 256 +phage_suis gi|223044325|ref|ZP_03614360.1| 30.220 546 327 7 393 1889 655 1193 1e-64 252 +phage_suis gi|223044325|ref|ZP_03614360.1| 19.882 508 328 9 384 1796 844 1309 6e-28 130 +phage_suis gi|268611153|ref|ZP_06144880.1| 28.638 639 371 11 78 1847 440 1042 1e-60 239 +phage_suis gi|268611153|ref|ZP_06144880.1| 23.356 441 286 7 543 1856 547 938 4e-31 141 +phage_suis gi|268611153|ref|ZP_06144880.1| 25.272 459 266 11 522 1844 722 1121 8e-31 140 +phage_suis gi|268611153|ref|ZP_06144880.1| 24.631 406 267 8 501 1694 770 1144 3e-23 115 +phage_suis gi|268611153|ref|ZP_06144880.1| 27.801 241 145 3 492 1148 811 1044 6e-16 90.9 +phage_suis gi|268611153|ref|ZP_06144880.1| 19.763 253 168 6 1158 1883 547 775 3e-04 52.0 +phage_suis gi|268610688|ref|ZP_06144415.1| 28.951 639 369 11 78 1847 440 1042 3e-59 234 +phage_suis gi|268610688|ref|ZP_06144415.1| 24.644 491 316 9 501 1856 770 1245 4e-39 167 +phage_suis gi|268610688|ref|ZP_06144415.1| 23.791 517 319 9 492 1832 811 1322 3e-37 161 +phage_suis gi|268610688|ref|ZP_06144415.1| 21.907 493 322 11 510 1859 905 1377 1e-25 123 +phage_suis gi|268610688|ref|ZP_06144415.1| 20.548 292 197 5 486 1343 1138 1400 4e-10 71.6 +phage_suis gi|268610688|ref|ZP_06144415.1| 21.408 341 225 10 894 1883 467 775 8e-05 53.9 +phage_suis gi|153811333|ref|ZP_01964001.1| 28.341 621 364 16 108 1847 493 1073 8e-55 219 +phage_suis gi|153811333|ref|ZP_01964001.1| 29.673 428 250 9 519 1760 709 1099 2e-47 195 +phage_suis gi|153811333|ref|ZP_01964001.1| 29.412 391 226 7 498 1640 746 1096 1e-39 169 +phage_suis gi|153811333|ref|ZP_01964001.1| 26.493 268 174 3 492 1256 854 1111 3e-24 118 +phage_suis gi|153811333|ref|ZP_01964001.1| 27.124 306 198 4 510 1385 816 1110 1e-23 116 +phage_suis gi|262113750|emb|CAR95417.1| 38.462 286 169 1 384 1241 540 818 2e-54 218 +phage_suis gi|262113750|emb|CAR95417.1| 29.684 411 271 7 657 1871 460 858 3e-40 171 +phage_suis gi|77411259|ref|ZP_00787609.1| 37.193 285 172 1 387 1241 628 905 2e-53 215 +phage_suis gi|77411259|ref|ZP_00787609.1| 28.010 407 281 6 660 1871 548 945 1e-40 172 +phage_suis gi|77411259|ref|ZP_00787609.1| 22.817 355 207 7 978 1877 540 882 9e-14 83.6 +phage_suis gi|76786754|ref|YP_329383.1| 36.842 285 173 1 387 1241 628 905 8e-53 213 +phage_suis gi|76786754|ref|YP_329383.1| 27.273 407 284 6 660 1871 548 945 3e-38 164 +phage_suis gi|76786754|ref|YP_329383.1| 24.735 283 194 2 543 1391 637 900 3e-23 115 +phage_suis gi|76786754|ref|YP_329383.1| 22.910 323 204 6 978 1847 540 850 2e-13 82.4 +phage_suis gi|50914476|ref|YP_060448.1| 35.862 290 179 1 372 1241 623 905 4e-51 207 +phage_suis gi|50914476|ref|YP_060448.1| 27.007 411 280 7 660 1871 548 945 2e-35 155 +phage_suis gi|50914476|ref|YP_060448.1| 22.997 387 269 5 543 1673 637 1004 3e-25 121 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/cd00003_and_cd00008.pin |
| b |
| Binary file test-data/cd00003_and_cd00008.pin has changed |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/four_human_proteins.dbinfo.txt --- a/test-data/four_human_proteins.dbinfo.txt Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/four_human_proteins.dbinfo.txt Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,7 +1,7 @@ Database: Just 4 human proteins 4 sequences; 3,297 total residues -Date: Jul 4, 2015 3:35 PM Longest sequence: 1,382 residues +Date: Dec 2, 2016 10:38 AM Longest sequence: 1,382 residues Volumes: - /mnt/galaxy/repositories/galaxy_blast/test-data/four_human_proteins_taxid.fasta + /mnt/shared/users/pc40583/repositories/galaxy_blast/test-data/four_human_proteins_taxid.fasta |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/four_human_proteins.fasta.log.txt --- a/test-data/four_human_proteins.fasta.log.txt Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/four_human_proteins.fasta.log.txt Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,5 +1,2 @@ New DB title: Just 4 human proteins Sequence type: Protein -Keep Linkouts: T -Keep MBits: T -Maximum file size: 1000000000B |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/four_human_proteins.fasta.pin |
| b |
| Binary file test-data/four_human_proteins.fasta.pin has changed |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/four_human_proteins_taxid.fasta.log.txt --- a/test-data/four_human_proteins_taxid.fasta.log.txt Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/four_human_proteins_taxid.fasta.log.txt Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,5 +1,2 @@ New DB title: Just 4 human proteins Sequence type: Protein -Keep Linkouts: T -Keep MBits: T -Maximum file size: 1000000000B |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/four_human_proteins_taxid.fasta.pin |
| b |
| Binary file test-data/four_human_proteins_taxid.fasta.pin has changed |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/rhodopsin_bufo.fasta --- a/test-data/rhodopsin_bufo.fasta Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/rhodopsin_bufo.fasta Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,4 +1,4 @@ ->gi|2734705|gb|U59921.1|BBU59921 Bufo bufo rhodopsin mRNA, complete cds +>U59921.1 Bufo bufo rhodopsin mRNA, complete cds TCTTTCTAGTTTGGGGGGGGGGACTTTAAAGAGCCGCCAATATGAACGGAACAGAAGGCCCAAACTTTTACATACCCATG TCCAACAAGACTGGGGTGGTGCGAAGCCCCTTTGAATACCCTCAGTATTACCTGGCAGAGCCATGGCAATATTCCATTCT GTGCGCGTACATGTTCCTGCTCATTCTACTTGGGTTCCCAATCAACTTCATGACCTTGTACGTCACCATCCAGCACAAGA |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/rhodopsin_nucs.dbinfo.txt --- a/test-data/rhodopsin_nucs.dbinfo.txt Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/rhodopsin_nucs.dbinfo.txt Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,7 +1,7 @@ Database: Rhodopsin nucleotides 6 sequences; 10,296 total bases -Date: Oct 14, 2016 2:16 PM Longest sequence: 4,301 bases +Date: Dec 2, 2016 10:38 AM Longest sequence: 4,301 bases Volumes: - /mnt/galaxy/repositories/galaxy_blast/test-data/rhodopsin_nucs.fasta + /mnt/shared/users/pc40583/repositories/galaxy_blast/test-data/rhodopsin_nucs.fasta |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/rhodopsin_nucs.fasta.log.txt --- a/test-data/rhodopsin_nucs.fasta.log.txt Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/rhodopsin_nucs.fasta.log.txt Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,5 +1,2 @@ New DB title: Rhodopsin nucleotides Sequence type: Nucleotide -Keep Linkouts: T -Keep MBits: T -Maximum file size: 1000000000B |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/rhodopsin_nucs.fasta.nin |
| b |
| Binary file test-data/rhodopsin_nucs.fasta.nin has changed |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/rhodopsin_nucs.fasta.nsq |
| b |
| Binary file test-data/rhodopsin_nucs.fasta.nsq has changed |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/rhodopsin_nucs.no_gi.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/rhodopsin_nucs.no_gi.fasta Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -0,0 +1,138 @@\n+>NM_001009242.1 Felis catus rhodopsin (RHO), mRNA\n+ATGAACGGGACGGAGGGCCCGAACTTCTACGTGCCCTTCTCCAACAAAACGGGTGTGGTACGCAGCCCCTTCGAGTACCC\n+ACAGTACTACCTGGCTGAGCCATGGCAGTTCTCCATGCTGGCCGCCTACATGTTCCTGCTCATCGTGCTTGGCTTCCCCA\n+TCAACTTCCTCACGCTCTACGTCACGGTCCAGCACAAGAAGCTGCGCACGCCTCTCAACTACATCCTGCTCAACCTGGCC\n+GTGGCTGACCTCTTCATGGTCTTCGGTGGCTTCACCACCACCCTCTACACCTCTCTGCATGGATACTTTGTCTTTGGGCC\n+CACAGGATGCAATTTGGAGGGCTTCTTTGCCACACTGGGCGGTGAAATTGCCCTGTGGTCTTTGGTGGTCCTGGCCATTG\n+AGCGGTACGTGGTGGTGTGTAAGCCCATGAGCAACTTCCGCTTTGGGGAGAACCATGCCATAATGGGCGTCGCTTTCACC\n+TGGGTCATGGCACTGGCCTGCGCTGCACCCCCCCTCGTTGGTTGGTCCAGGTACATCCCTGAAGGCATGCAGTGTTCATG\n+CGGGATCGACTACTACACACTCAAGCCAGAAGTCAACAACGAGTCCTTTGTCATCTACATGTTCGTGGTCCACTTCACCA\n+TCCCCATGATCGTCATCTTCTTTTGCTACGGGCAGCTTGTCTTCACAGTCAAGGAGGCGGCAGCCCAGCAGCAGGAGTCA\n+GCCACCACCCAGAAGGCTGAGAAGGAGGTCACTCGCATGGTCATCATCATGGTCATTGCTTTCCTGATCTGTTGGGTGCC\n+CTACGCCAGCGTGGCATTCTACATCTTCACCCACCAGGGGTCCAACTTTGGCCCCATCTTCATGACACTCCCGGCGTTCT\n+TCGCAAAGTCCTCCTCCATCTACAACCCTGTCATCTACATCATGATGAACAAGCAGTTCCGGAACTGCATGCTCACTACC\n+CTCTGCTGTGGCAAGAACCCACTGGGTGATGACGAGGCTTCCACAACCGGTTCCAAGACGGAGACCAGCCAGGTGGCACC\n+GGCCTAA\n+>U59921.1 Bufo bufo rhodopsin mRNA, complete cds\n+TCTTTCTAGTTTGGGGGGGGGGACTTTAAAGAGCCGCCAATATGAACGGAACAGAAGGCCCAAACTTTTACATACCCATG\n+TCCAACAAGACTGGGGTGGTGCGAAGCCCCTTTGAATACCCTCAGTATTACCTGGCAGAGCCATGGCAATATTCCATTCT\n+GTGCGCGTACATGTTCCTGCTCATTCTACTTGGGTTCCCAATCAACTTCATGACCTTGTACGTCACCATCCAGCACAAGA\n+AGCTCCGGACACCCTTAAACTATATCCTGCTGAATTTGGCCTTTGCCAACCACTTCATGGTCCTGTGTGGATTCACGGTG\n+ACAATGTACTCCTCAATGAACGGATACTTCATCCTCGGAGCCACCGGTTGCTATGTTGAAGGCTTCTTCGCTACCCTTGG\n+TGGTGAAATCGCCCTTTGGTCCCTGGTGGTCTTGGCCATTGAACGATACGTGGTCGTCTGTAAGCCCATGAGCAACTTCC\n+GATTTAGTGAGAACCATGCCGTCATGGGCGTAGCGTTCACCTGGATAATGGCTTTGTCCTGTGCTGTTCCTCCACTCCTT\n+GGATGGTCCAGGTACATCCCCGAGGGCATGCAGTGCTCCTGCGGAGTCGACTACTACACCCTGAAGCCCGAGGTCAACAA\n+CGAGTCCTTCGTCATCTACATGTTCGTCGTCCACTTCACCATCCCCCTGATTATCATTTTCTTCTGCTATGGCCGCCTGG\n+TGTGCACTGTGAAAGAGGCTGCAGCTCAACAGCAAGAGTCCGCCACCACCCAGAAGGCCGAGAAAGAGGTGACCAGGATG\n+GTGATCATCATGGTGGTCTTCTTCCTTATCTGTTGGGTCCCCTACGCCTCTGTCGCTTTCTTCATCTTCAGCAATCAGGG\n+CTCTGAGTTCGGCCCCATCTTCATGACCGTCCCAGCTTTCTTTGCCAAGAGTTCTTCCATCTACAACCCCGTCATCTACA\n+TCATGCTCAACAAGCAGTTCCGTAACTGCATGATCACCACCCTGTGCTGCGGCAAGAATCCCTTTGGAGAAGACGATGCC\n+TCCTCTGCCGCCACCTCCAAGACAGAGGCTTCTTCTGTTTCTTCCAGCCAGGTGTCTCCTGCATAAGACCTTCCACCAGG\n+CCTGTCTCAGGGTCCGCTGCCTCACACAGCTCCCACCGCCCCAACTCCGTCTCCTGCTCGCTAAGGCGGCGAAGTTCCCC\n+TTCCATTACATAAAACGTATCTGTTCAAGAAAGGCGACGACGAAGGAGAAGAAGAGGAGCCCCCCCGAACCCCTTCGCTG\n+CTGCTGAAAACGACTTGATTGCTTCTGCAACGCAACGGGGCCTTACGGCAGCGAAGGGGTTGTCATCCGGACGCGCCAAG\n+AATTCCTTCGAGACTGTAAATATCTTAAAGGAACCGTCCTGCTAGTTACCGACGCCGCTCCTGTAGCCGCCGTTCCCCCG\n+CACTCCGGCCGGTTCATACCTCTTATTTTTTTGCAATGCAACAGAAAATAATATTTTTGTTCCCACGGCTTTTCCCGGTC\n+AGGTCTGGTAGTGGCGGAGATTGGCCGACCCCTCGCACCTGTAATAAAGCGCAG\n+>GQ290303.1 Cynopterus brachyotis voucher 20020434 rhodopsin (RHO) gene, exons 1 through 5 and partial cds\n+GTGCCCTTCTCCAACAAGACAGGCGTGGTGCGCAGTCCCTTCGAGCATCCACAGTACTACCTGGCCGAGCCATGGCAGTT\n+CTCCATGCTGGCCGCCTACATGTTTCTGCTGATCGTGCTCGGCTTCCCCATCAACTTCCTCACGCTCTATGTCACGGTTC\n+AGCACAAGAAGCTGCGTACGCCTCTCAACTACATCCTGCTCAACCTGGCCGTGGCCGACCTCTTCATGGTCTTCGGAGGC\n+TTCACCACCACCCTCTACACCTCCCTGCATGGATACTTTGTCTTCGGGCCTACGGGATGCAATCTGGAGGGCTTTTTTGC\n+CACCCTGGGAGGTATGAGCTGAGATGCGGGTAAGGAGGAGGCATAGAGGCATCTGGGAACAGTCCCAAGCTTGGGGTGAA\n+GGCTAAGAGGCCTTCTTCCTTGTTCTGTCATTGGCGTCGTCCGAAGCCCTCACTTAATCAACAAACAGTTTGGTGGTGAG\n+GCGCTGAGCTCCATTTGGAGAGGGCAGGTATCGAGCACTGTTTTATCCCCCCTGGAGTGGTGCCATTGCCTTGCTTTACA\n+GCAAAGAAACTGAGGATGAGAGGAGTCGAGGGTCTTGCCAGGTCACATCATGGCAGAGACAGAGCTGAGTTTCAACCCTG\n+CATCTATGTGCAGTTTCCCTTGGAGCAGCTATGTTAGGTCAGACCCACGGTGGGCACTGGGGAGAGAGCTGCACAAGACA\n+GGTCCCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\n+NNNNNNNNNNNNNNNNNNNNNNNNNNNTTCCTGATTGCCAGGAGTGATGTGCAGCGCAAATGTCTGAATTCCATTATTAT\n+GTGCTCCTTCTTCCTCTGAGCCAAACATCCATCTTCATGGCTCCTAGAATTGGGTCCCACCCACATGAGCAGGTCATTTT\n+GTTTCCCTAGAGGGGAGAGGTCACTGCTGTGGAGGGAGGGAAGGTTCGTCCCGCTCCATGTTTCTGTTGTCTCTGCAATG\n+CCTTTCTCTAGGGACT'..b'ATGTCGTTAGTGACAAAGTTCCCTTGGGTTTGGTCCCTGGTATCTCTGGAGTGAGATTGCATATGTTCCC\n+TTCAGAGGGTCAGATTTGGGATGAGAGTGGAGGCTGCGAGGGCCTGAGTGGGAAGGGATTGGAGGCAAATCTCACCAACC\n+ATGTCAGTTTGCTACACACACTTTGGGTGGACCCTGACCCTGACTCATGCTTCTTGCCTTCCAGTTCCGGAACTGCATGC\n+TCACTACCCTCTGCTGTGGCAAGAACCCACTGGGTGACGATGAGGCCTCCACCACTGCCTC\n+>GQ290312.1 Myotis ricketti voucher GQX10 rhodopsin (RHO) mRNA, partial cds\n+GTGCCCTTCTCCAACAAGACGGGTGTGGTGCGCAGCCCCTTCGAGTACCCGCAGTACTACCTGGCTGAGCCCTGGCAGTT\n+CTCCATGCTGGCTGCCTACATGTTTCTGCTGATCGTGCTCGGATTCCCCATCAACTTCCTCACGCTCTACGTCACCGTCC\n+AGCACAAGAAGCTGCGCACGCCTCTCAACTACATCCTGCTCAACCTGGCTGTGGCCAACCTCTTCATGGTCTTTGGAGGC\n+TTCACCACCACCCTGTATACCTCTATGCATGGATACTTCGTCTTCGGGGCCACGGGATGCAATCTGGAGGGCTTCTTTGC\n+CACGCTGGGCGGTGAAATCGCCCTGTGGTCCCTGGTGGTCCTGGCCATCGAGCGGTATGTGGTGGTCTGCAAGCCCATGA\n+GCAACTTCCGCTTTGGGGAGAACCACGCCATCATGGGCCTCGCCTTCACGTGGGTCATGGCACTGGCCTGCGCTGCACCC\n+CCACTAGCCGGCTGGTCCAGGTACATCCCAGAGGGCATGCAGTGCTCGTGTGGGATTGACTACTACACGCTCAAACCGGA\n+GGTCAACAACGAGTCCTTCGTCATCTACATGTTCGTGGTCCACTTCACCATCCCCATGATTGTCATTTTCTTCTGCTACG\n+GACAGCTGGTGTTCACAGTGAAGGAGGCGGCTGCCCAGCAGCAGGAGTCAGCCACCACCCAGAAGGCCGAGAAGGAAGTC\n+ACGCGCATGGTCATCATCATGGTCGTTGCGTTCCTAATCTGTTGGCTGCCCTACGCCAGCGTGGCATTCTACATCTTTAC\n+CCACCAGGGCTCTAACTTTGGCCCTGTCTTCATGACCATCCCGGCATTCTTCGCCAAGTCATCCTCCATCTACAACCCGG\n+TCATCTATATCATGATGAACAAGCAGTTCCGGAACTGCATGCTCACCACCCTCTGCTGTGGCAAGAACCCACTGGGTGAT\n+GACGAAGCATCCACCACTGCCTC\n+>AB062417.1 Synthetic construct Bos taurus gene for rhodopsin, complete cds\n+ATGAACGGGACCGAGGGCCCAAACTTCTACGTGCCTTTCTCCAACAAGACGGGCGTCGTACGCAGCCCCTTCGAGGCGCC\n+GCAGTACTACCTGGCTGAGCCATGGCAGTTCAGCATGCTGGCCGCCTACATGTTCCTGCTGATCATGCTTGGCTTCCCCA\n+TCAACTTCCTCACGCTGTACGTCACAGTCCAGCACAAGAAGCTGAGGACCCCCCTCAACTACATCCTGCTCAACCTGGCC\n+GTGGCAGATCTCTTCATGGTGTTCGGGGGCTTCACCACCACCCTGTATACCTCTCTGCACGGGTACTTCGTGTTCGGTCC\n+GACGGGCTGCAACCTCGAGGGCTTCTTTGCCACCTTAGGCGGTGAAATTGCACTGTGGTCCTTGGTGGTGCTAGCCATCG\n+AGCGGTACGTAGTGGTGTGCAAGCCCATGAGCAACTTCCGCTTCGGGGAGAACCACGCCATCATGGGCGTCGCATTCACC\n+TGGGTCATGGCTCTGGCCTGTGCGGCCCCCCCCCTCGTCGGCTGGTCTAGATACATCCCGGAGGGGATGCAGTGCTCGTG\n+CGGGATCGATTACTACACGCCCCACGAGGAGACCAACAATGAGTCGTTCGTCATCTACATGTTCGTTGTACACTTCATCA\n+TCCCCCTGATTGTCATATTCTTCTGCTACGGGCAGCTGGTCTTCACCGTCAAGGAGGCTGCAGCCCAGCAGCAGGAGTCG\n+GCCACCACTCAGAAGGCCGAGAAGGAGGTCACGCGTATGGTCATCATCATGGTCATCGCTTTCCTCATATGCTGGCTGCC\n+CTACGCAGGTGTGGCGTTCTACATCTTCACCCATCAGGGATCCGACTTTGGCCCCATCTTCATGACCATCCCGGCTTTCT\n+TTGCCAAGACGTCTGCCGTCTATAACCCCGTCATCTACATCATGATGAACAAGCAGTTCCGGAACTGCATGGTCACCACT\n+CTCTGCTGTGGCAAGAACCCCCTAGGTGACGACGAGGCCTCCACGACCGTGTCCAAGACAGAGACCAGCCAAGTGGCCCC\n+TGCCTAA\n+>AB043817.1 Conger myriaster conf gene for fresh water form rod opsin, complete cds\n+CCGCTACTGACGAACCGCAACCATGAACGGCACTGAGGGACCTAACTTCTACATCCCCATGTCAAACGCCACTGGTGTAG\n+TGAGGAGTCCATTTGAATACCCGCAGTACTACCTTGCAGAACCATGGGCTTTCTCAGCTCTGTCTGCCTACATGTTCTTC\n+CTGATTATCGCCGGATTCCCCATCAACTTCCTCACCCTGTATGTCACCATCGAACATAAGAAACTGAGGACCCCACTGAA\n+CTACATTCTGCTGAACCTGGCCGTGGCCGACCTCTTCATGGTGTTTGGCGGATTCACCACCACGATGTACACCTCCATGC\n+ACGGCTACTTTGTCTTCGGCCCCACCGGCTGCAACATCGAAGGGTTCTTCGCCACCCTCGGCGGCGAGATTGCCCTCTGG\n+TGCCTCGTTGTCCTGGCCATTGAAAGGTGGATGGTCGTCTGCAAGCCAGTGACCAATTTCCGCTTCGGTGAGAGCCATGC\n+CATCATGGGTGTCATGGTGACCTGGACCATGGCATTGGCCTGTGCCCTCCCCCCTCTCTTCGGCTGGTCTCGGTACATTC\n+CGGAAGGTCTGCAGTGCTCGTGCGGGATCGACTACTATACCCGGGCGCCTGGGATCAACAATGAGTCCTTTGTGATCTAC\n+ATGTTTACCTGCCACTTCTCCATCCCACTCGCCGTCATCTCTTTCTGCTACGGCCGACTGGTGTGCACCGTCAAAGAGGC\n+CGCTGCCCAGCAACAGGAGTCCGAGACCACCCAGAGGGCTGAGCGGGAGGTCACCCGCATGGTCGTCATCATGGTCATCT\n+CCTTCCTGGTCTGCTGGGTGCCCTATGCCAGTGTGGCCTGGTACATCTTTACCCACCAGGGAAGCACTTTTGGGCCCATC\n+TTCATGACCATTCCATCCTTCTTTGCCAAGAGTTCAGCCCTCTACAACCCCATGATCTACATCTGCATGAACAAGCAGTT\n+CCGCCATTGCATGATCACCACCCTCTGCTGTGGGAAGAACCCCTTCGAGGAGGAGGATGGAGCGTCCGCCACTAGCTCTA\n+AAACTGAGGCTTCATCCGTGTCCTCCAGCTCTGTCTCCCCGGCATAAACCTTGTTTGACCGAACACCACGCATCAACACA\n+AAGACCAAGAATGCTGACTAAATGCTAACATTTCAGGGAAATCCAAAGACTTTTTACTATTTTTTTACACAACCATATAG\n+GTTGCAAACAGAGGTTTAGCCCTGTTTACAGGTTGTCATCAATGTGATGTCAGTATGTACAATATAGTCAACTTGATAGC\n+AAGTTGTTGGCTTATTTCAGATTGTATGGGCAATGTAATCAACCATATGTGAAATAAATTGCAA\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/tblastn_four_human_vs_rhodopsin.html --- a/test-data/tblastn_four_human_vs_rhodopsin.html Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/tblastn_four_human_vs_rhodopsin.html Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -3,31 +3,22 @@\n <BODY BGCOLOR="#FFFFFF" LINK="#0000FF" VLINK="#660099" ALINK="#660099">\n <PRE>\n \n-<b>TBLASTN 2.2.31+</b>\n+<b>TBLASTN 2.5.0+</b>\n \n \n-<b>Query=</b> sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44\n-OS=Homo sapiens GN=ERP44 PE=1 SV=1\n-\n-Length=406\n-\n-<b>Subject=</b> gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA\n-\n-Length=1047\n-\n-\n-***** No hits found *****\n+<b><a\n+href="https://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=R\n+etrieve&list_uids=9254694&dopt=Citation">Reference</a>:</b>\n+Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schäffer,\n+Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),\n+"Gapped BLAST and PSI-BLAST: a new generation of protein database\n+search programs", Nucleic Acids Res. 25:3389-3402.\n \n \n \n-Lambda K H a alpha\n- 0.347 0.182 0.684 0.522 1.92 \n+Database: User specified sequence set (Input: rhodopsin_nucs.fasta).\n+ 6 sequences; 10,296 total letters\n \n-Gapped\n-Lambda K H a alpha sigma\n- 0.299 0.0710 0.270 1.10 13.8 14.5 \n-\n-Effective search space used: 127710\n \n \n <b>Query=</b> sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44\n@@ -35,61 +26,6 @@\n \n Length=406\n \n-<b>Subject=</b> gi|2734705|gb|U59921.1|BBU59921 Bufo bufo rhodopsin mRNA, complete\n-cds\n-\n-Length=1574\n-\n-\n-***** No hits found *****\n-\n-\n-\n-Lambda K H a alpha\n- 0.347 0.182 0.684 0.522 1.92 \n-\n-Gapped\n-Lambda K H a alpha sigma\n- 0.299 0.0710 0.270 1.10 13.8 14.5 \n-\n-Effective search space used: 127710\n-\n-\n-<b>Query=</b> sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44\n-OS=Homo sapiens GN=ERP44 PE=1 SV=1\n-\n-Length=406\n-\n-<b>Subject=</b> gi|283855845|gb|GQ290303.1| Cynopterus brachyotis voucher 20020434\n-rhodopsin (RHO) gene, exons 1 through 5 and partial cds\n-\n-Length=4301\n-\n-\n-***** No hits found *****\n-\n-\n-\n-Lambda K H a alpha\n- 0.347 0.182 0.684 0.522 1.92 \n-\n-Gapped\n-Lambda K H a alpha sigma\n- 0.299 0.0710 0.270 1.10 13.8 14.5 \n-\n-Effective search space used: 127710\n-\n-\n-<b>Query=</b> sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44\n-OS=Homo sapiens GN=ERP44 PE=1 SV=1\n-\n-Length=406\n-\n-<b>Subject=</b> gi|283855822|gb|GQ290312.1| Myotis ricketti voucher GQX10 rhodopsin\n-(RHO) mRNA, partial cds\n-\n-Length=983\n-\n \n ***** No hits found *****\n \n@@ -102,57 +38,7 @@\n Lambda K H a alpha sigma\n 0.299 0.0710 0.270 1.10 13.8 14.5 \n \n-Effective search space used: 127710\n-\n-\n-<b>Query=</b> sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44\n-OS=Homo sapiens GN=ERP44 PE=1 SV=1\n-\n-Length=406\n-\n-<b>Subject=</b> gi|18148870|dbj|AB062417.1| Synthetic construct Bos taurus gene for\n-rhodopsin, complete cds\n-\n-Length=1047\n-\n-\n-***** No hits found *****\n-\n-\n-\n-Lambda K H a alpha\n- 0.347 0.182 0.684 0.522 1.92 \n-\n-Gapped\n-Lambda K H a alpha sigma\n- 0.299 0.0710 0.270 1.10 13.8 14.5 \n-\n-Effective search space used: 127710\n-\n-\n-<b>Query=</b> sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44\n-OS=Homo sapiens GN=ERP44 PE=1 SV=1\n-\n-Length=406\n-\n-<b>Subject=</b> gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh\n-water form rod opsin, complete cds\n-\n-Length=1344\n-\n-\n-***** No hits found *****\n-\n-\n-\n-Lambda K H a alpha\n- 0.347 0.182 0.684 0.522 1.92 \n-\n-Gapped\n-Lambda K H a alpha sigma\n- 0.299 0.0710 0.270 1.10 13.8 14.5 \n-\n-Effective search space used: 127710\n+Effective search space used: 1239330\n \n \n <b>Query=</b> sp|Q9NSY1|BMP2K_HUMAN BMP-2-inducible protein kinase OS=Homo sapiens\n@@ -160,60 +46,6 @'..b'QKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAV 900\n-\n-Query 301 YNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA 348\n- YNPVIYIMMNKQFRNCM+TT+CCGKNPLGDDEAS TVSKTETSQVAPA\n-Sbjct 901 YNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA 1044\n-\n-\n-\n-Lambda K H a alpha\n- 0.351 0.182 0.707 0.522 1.92 \n-\n-Gapped\n-Lambda K H a alpha sigma\n- 0.299 0.0710 0.270 1.10 13.8 14.5 \n-\n-Effective search space used: 109230\n-\n-\n-<b>Query=</b> sp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO PE=1 SV=1\n-\n-Length=348\n-\n-<b>Subject=</b> gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh\n+><a name=Subject_6></a> gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh \n water form rod opsin, complete cds\n-\n Length=1344\n \n-\n Score = 626 bits (1444), Expect = 0.0, Method: Compositional matrix adjust.\n Identities = 281/342 (82%), Positives = 311/342 (91%), Gaps = 1/342 (0%)\n Frame = +2\n@@ -765,6 +260,63 @@\n Sbjct 923 YNPMIYICMNKQFRHCMITTLCCGKNPFEEEDGASATSSKTE 1048\n \n \n+><a name=Subject_3></a> gi|283855845|gb|GQ290303.1| Cynopterus brachyotis voucher 20020434 \n+rhodopsin (RHO) gene, exons 1 through 5 and partial cds\n+Length=4301\n+\n+ Score = 151 bits (342), Expect(2) = 1e-71, Method: Compositional matrix adjust.\n+ Identities = 69/74 (93%), Positives = 73/74 (99%), Gaps = 0/74 (0%)\n+ Frame = +3\n+\n+Query 239 ESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSA 298\n+ ESATTQKAEKEVTRMVIIMVIAFLICW+PYA VAFYIFTHQGSNFGPIFMT+PAFFAKS+\n+Sbjct 3147 ESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSS 3326\n+\n+Query 299 AIYNPVIYIMMNKQ 312\n+ +IYNPVIYIMMNKQ\n+Sbjct 3327 SIYNPVIYIMMNKQ 3368\n+\n+\n+ Score = 126 bits (284), Expect(2) = 1e-71, Method: Compositional matrix adjust.\n+ Identities = 54/59 (92%), Positives = 57/59 (97%), Gaps = 0/59 (0%)\n+ Frame = +2\n+\n+Query 177 RYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA 235\n+ RYIPEG+QCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMI+IFFCYGQLVFTVKE +\n+Sbjct 2855 RYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS 3031\n+\n+\n+ Score = 229 bits (523), Expect = 3e-67, Method: Compositional matrix adjust.\n+ Identities = 107/111 (96%), Positives = 109/111 (98%), Gaps = 0/111 (0%)\n+ Frame = +1\n+\n+Query 11 VPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRT 70\n+ VPFSN TGVVRSPFE+PQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRT\n+Sbjct 1 VPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRT 180\n+\n+Query 71 PLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG 121\n+ PLNYILLNLAVADLFMV GGFT+TLYTSLHGYFVFGPTGCNLEGFFATLGG\n+Sbjct 181 PLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG 333\n+\n+\n+ Score = 122 bits (276), Expect = 2e-32, Method: Compositional matrix adjust.\n+ Identities = 55/59 (93%), Positives = 56/59 (95%), Gaps = 0/59 (0%)\n+ Frame = +3\n+\n+Query 119 LGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR 177\n+ L GEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMG+A TWVMALACAAPPL GWSR\n+Sbjct 1404 LAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR 1580\n+\n+\n+ Score = 57.7 bits (125), Expect = 4e-12, Method: Compositional matrix adjust.\n+ Identities = 23/26 (88%), Positives = 24/26 (92%), Gaps = 0/26 (0%)\n+ Frame = +1\n+\n+Query 312 QFRNCMLTTICCGKNPLGDDEASATV 337\n+ QFRNCMLTT+CCGKNPLGDDEAS T \n+Sbjct 4222 QFRNCMLTTLCCGKNPLGDDEASTTA 4299\n+\n+\n \n Lambda K H a alpha\n 0.351 0.182 0.707 0.522 1.92 \n@@ -773,8 +325,13 @@\n Lambda K H a alpha sigma\n 0.299 0.0710 0.270 1.10 13.8 14.5 \n \n-Effective search space used: 109230\n+Effective search space used: 1049670\n+\n \n+ Database: User specified sequence set (Input: rhodopsin_nucs.fasta).\n+ Posted date: Unknown\n+ Number of letters in database: 10,296\n+ Number of sequences in database: 6\n \n \n \n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/tblastn_four_human_vs_rhodopsin.tabular --- a/test-data/tblastn_four_human_vs_rhodopsin.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/tblastn_four_human_vs_rhodopsin.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,10 +1,10 @@ -sp|P08100|OPSD_HUMAN gi|57163782|ref|NM_001009242.1| 96.55 348 12 0 1 348 1 1044 0.0 732 -sp|P08100|OPSD_HUMAN gi|2734705|gb|U59921.1|BBU59921 84.80 342 51 1 1 341 42 1067 0.0 646 -sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 93.24 74 5 0 239 312 3147 3368 1e-72 151 -sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 91.53 59 5 0 177 235 2855 3031 1e-72 126 -sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 96.40 111 4 0 11 121 1 333 9e-67 229 -sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 93.22 59 4 0 119 177 1404 1580 1e-32 122 -sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 88.46 26 3 0 312 337 4222 4299 2e-12 57.7 -sp|P08100|OPSD_HUMAN gi|283855822|gb|GQ290312.1| 95.09 326 16 0 11 336 1 978 0.0 658 -sp|P08100|OPSD_HUMAN gi|18148870|dbj|AB062417.1| 93.39 348 23 0 1 348 1 1044 0.0 711 -sp|P08100|OPSD_HUMAN gi|12583664|dbj|AB043817.1| 82.16 342 60 1 1 341 23 1048 0.0 626 +sp|P08100|OPSD_HUMAN gi|57163782|ref|NM_001009242.1| 96.552 348 12 0 1 348 1 1044 0.0 732 +sp|P08100|OPSD_HUMAN gi|18148870|dbj|AB062417.1| 93.391 348 23 0 1 348 1 1044 0.0 711 +sp|P08100|OPSD_HUMAN gi|283855822|gb|GQ290312.1| 95.092 326 16 0 11 336 1 978 0.0 658 +sp|P08100|OPSD_HUMAN gi|2734705|gb|U59921.1|BBU59921 84.795 342 51 1 1 341 42 1067 0.0 646 +sp|P08100|OPSD_HUMAN gi|12583664|dbj|AB043817.1| 82.164 342 60 1 1 341 23 1048 0.0 626 +sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 93.243 74 5 0 239 312 3147 3368 1.34e-71 151 +sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 91.525 59 5 0 177 235 2855 3031 1.34e-71 126 +sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 96.396 111 4 0 11 121 1 333 3.31e-67 229 +sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 93.220 59 4 0 119 177 1404 1580 2.31e-32 122 +sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 88.462 26 3 0 312 337 4222 4299 3.61e-12 57.7 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/tblastn_four_human_vs_rhodopsin.xml --- a/test-data/tblastn_four_human_vs_rhodopsin.xml Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/tblastn_four_human_vs_rhodopsin.xml Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -2,7 +2,7 @@\n <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd">\n <BlastOutput>\n <BlastOutput_program>tblastn</BlastOutput_program>\n- <BlastOutput_version>TBLASTN 2.2.31+</BlastOutput_version>\n+ <BlastOutput_version>TBLASTN 2.5.0+</BlastOutput_version>\n <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&auml;ffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>\n <BlastOutput_db></BlastOutput_db>\n <BlastOutput_query-ID>Query_1</BlastOutput_query-ID>\n@@ -29,8 +29,8 @@\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>19</Statistics_hsp-len>\n- <Statistics_eff-space>127710</Statistics_eff-space>\n+ <Statistics_hsp-len>27</Statistics_hsp-len>\n+ <Statistics_eff-space>1239330</Statistics_eff-space>\n <Statistics_kappa>0.071</Statistics_kappa>\n <Statistics_lambda>0.299</Statistics_lambda>\n <Statistics_entropy>0.27</Statistics_entropy>\n@@ -40,146 +40,6 @@\n </Iteration>\n <Iteration>\n <Iteration_iter-num>2</Iteration_iter-num>\n- <Iteration_query-ID>Query_1</Iteration_query-ID>\n- <Iteration_query-def>sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>\n- <Iteration_query-len>406</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>19</Statistics_hsp-len>\n- <Statistics_eff-space>127710</Statistics_eff-space>\n- <Statistics_kappa>0.071</Statistics_kappa>\n- <Statistics_lambda>0.299</Statistics_lambda>\n- <Statistics_entropy>0.27</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>3</Iteration_iter-num>\n- <Iteration_query-ID>Query_1</Iteration_query-ID>\n- <Iteration_query-def>sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>\n- <Iteration_query-len>406</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>19</Statistics_hsp-len>\n- <Statistics_eff-space>127710</Statistics_eff-space>\n- <Statistics_kappa>0.071</Statistics_kappa>\n- <Statistics_lambda>0.299</Statistics_lambda>\n- <Statistics_entropy>0.27</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>4</Iteration_iter-num>\n- <Iteration_query-ID>Query_1</Iteration_query-ID>\n- <Iteration_query-def>sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>\n- <Iteration_query-len>406</Iteration_query-len>\n-<Iteration_hits>\n-</Iteration_hits>\n- <Iteration_stat>\n- <Statistics>\n- <Statistics_db-num>0</Statistics_db-num>\n- <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>19</Statistics_hsp-len>\n- <Statistics_eff-space>127710</Statistics_eff-space>\n- <Statistics_kappa>0.071</Statistics_kappa>\n- <Statistics_lambda>0.299</Statistics_lambda>\n- <Statistics_entropy>0.27</Statistics_entropy>\n- </Statistics>\n- </Iteration_stat>\n- <Iteration_message>No hits found</Iteration_message>\n-</Iteration>\n-<Iteration>\n- <Iteration_iter-num>5</Iteration_iter-num>\n- <Iteration_query-ID>Query_1</Iteration_query-ID>\n- <Iteration_query-def>sp|Q9BS26|ERP44_HUMAN Endoplasm'..b'YIMMNKQ</Hsp_midline>\n+ </Hsp>\n+ <Hsp>\n+ <Hsp_num>2</Hsp_num>\n+ <Hsp_bit-score>126.324</Hsp_bit-score>\n+ <Hsp_score>284</Hsp_score>\n+ <Hsp_evalue>1.34146e-71</Hsp_evalue>\n+ <Hsp_query-from>177</Hsp_query-from>\n+ <Hsp_query-to>235</Hsp_query-to>\n+ <Hsp_hit-from>2855</Hsp_hit-from>\n+ <Hsp_hit-to>3031</Hsp_hit-to>\n+ <Hsp_query-frame>0</Hsp_query-frame>\n+ <Hsp_hit-frame>2</Hsp_hit-frame>\n+ <Hsp_identity>54</Hsp_identity>\n+ <Hsp_positive>57</Hsp_positive>\n+ <Hsp_gaps>0</Hsp_gaps>\n+ <Hsp_align-len>59</Hsp_align-len>\n+ <Hsp_qseq>RYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA</Hsp_qseq>\n+ <Hsp_hseq>RYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS</Hsp_hseq>\n+ <Hsp_midline>RYIPEG+QCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMI+IFFCYGQLVFTVKE +</Hsp_midline>\n+ </Hsp>\n+ <Hsp>\n+ <Hsp_num>3</Hsp_num>\n+ <Hsp_bit-score>229.42</Hsp_bit-score>\n+ <Hsp_score>523</Hsp_score>\n+ <Hsp_evalue>3.3088e-67</Hsp_evalue>\n+ <Hsp_query-from>11</Hsp_query-from>\n+ <Hsp_query-to>121</Hsp_query-to>\n+ <Hsp_hit-from>1</Hsp_hit-from>\n+ <Hsp_hit-to>333</Hsp_hit-to>\n+ <Hsp_query-frame>0</Hsp_query-frame>\n+ <Hsp_hit-frame>1</Hsp_hit-frame>\n+ <Hsp_identity>107</Hsp_identity>\n+ <Hsp_positive>109</Hsp_positive>\n+ <Hsp_gaps>0</Hsp_gaps>\n+ <Hsp_align-len>111</Hsp_align-len>\n+ <Hsp_qseq>VPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG</Hsp_qseq>\n+ <Hsp_hseq>VPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG</Hsp_hseq>\n+ <Hsp_midline>VPFSN TGVVRSPFE+PQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMV GGFT+TLYTSLHGYFVFGPTGCNLEGFFATLGG</Hsp_midline>\n+ </Hsp>\n+ <Hsp>\n+ <Hsp_num>4</Hsp_num>\n+ <Hsp_bit-score>122.873</Hsp_bit-score>\n+ <Hsp_score>276</Hsp_score>\n+ <Hsp_evalue>2.31174e-32</Hsp_evalue>\n+ <Hsp_query-from>119</Hsp_query-from>\n+ <Hsp_query-to>177</Hsp_query-to>\n+ <Hsp_hit-from>1404</Hsp_hit-from>\n+ <Hsp_hit-to>1580</Hsp_hit-to>\n+ <Hsp_query-frame>0</Hsp_query-frame>\n+ <Hsp_hit-frame>3</Hsp_hit-frame>\n+ <Hsp_identity>55</Hsp_identity>\n+ <Hsp_positive>56</Hsp_positive>\n+ <Hsp_gaps>0</Hsp_gaps>\n+ <Hsp_align-len>59</Hsp_align-len>\n+ <Hsp_qseq>LGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR</Hsp_qseq>\n+ <Hsp_hseq>LAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR</Hsp_hseq>\n+ <Hsp_midline>L GEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMG+A TWVMALACAAPPL GWSR</Hsp_midline>\n+ </Hsp>\n+ <Hsp>\n+ <Hsp_num>5</Hsp_num>\n+ <Hsp_bit-score>57.7368</Hsp_bit-score>\n+ <Hsp_score>125</Hsp_score>\n+ <Hsp_evalue>3.61181e-12</Hsp_evalue>\n+ <Hsp_query-from>312</Hsp_query-from>\n+ <Hsp_query-to>337</Hsp_query-to>\n+ <Hsp_hit-from>4222</Hsp_hit-from>\n+ <Hsp_hit-to>4299</Hsp_hit-to>\n+ <Hsp_query-frame>0</Hsp_query-frame>\n+ <Hsp_hit-frame>1</Hsp_hit-frame>\n+ <Hsp_identity>23</Hsp_identity>\n+ <Hsp_positive>24</Hsp_positive>\n+ <Hsp_gaps>0</Hsp_gaps>\n+ <Hsp_align-len>26</Hsp_align-len>\n+ <Hsp_qseq>QFRNCMLTTICCGKNPLGDDEASATV</Hsp_qseq>\n+ <Hsp_hseq>QFRNCMLTTLCCGKNPLGDDEASTTA</Hsp_hseq>\n+ <Hsp_midline>QFRNCMLTT+CCGKNPLGDDEAS T </Hsp_midline>\n+ </Hsp>\n+ </Hit_hsps>\n+</Hit>\n </Iteration_hits>\n <Iteration_stat>\n <Statistics>\n <Statistics_db-num>0</Statistics_db-num>\n <Statistics_db-len>0</Statistics_db-len>\n- <Statistics_hsp-len>18</Statistics_hsp-len>\n- <Statistics_eff-space>109230</Statistics_eff-space>\n+ <Statistics_hsp-len>27</Statistics_hsp-len>\n+ <Statistics_eff-space>1049670</Statistics_eff-space>\n <Statistics_kappa>0.071</Statistics_kappa>\n <Statistics_lambda>0.299</Statistics_lambda>\n <Statistics_entropy>0.27</Statistics_entropy>\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/tblastn_four_human_vs_rhodopsin_deflines.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/tblastn_four_human_vs_rhodopsin_deflines.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -0,0 +1,10 @@ +P08100 NM_001009242 96.552 348 12 0 1 348 1 1044 0.0 732 +P08100 AB062417 93.391 348 23 0 1 348 1 1044 0.0 711 +P08100 GQ290312 95.092 326 16 0 11 336 1 978 0.0 658 +P08100 U59921 84.795 342 51 1 1 341 42 1067 0.0 646 +P08100 AB043817 82.164 342 60 1 1 341 23 1048 0.0 626 +P08100 GQ290303 93.243 74 5 0 239 312 3147 3368 1.34e-71 151 +P08100 GQ290303 91.525 59 5 0 177 235 2855 3031 1.34e-71 126 +P08100 GQ290303 96.396 111 4 0 11 121 1 333 3.31e-67 229 +P08100 GQ290303 93.220 59 4 0 119 177 1404 1580 2.31e-32 122 +P08100 GQ290303 88.462 26 3 0 312 337 4222 4299 3.61e-12 57.7 |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/tblastn_four_human_vs_rhodopsin_ext.tabular --- a/test-data/tblastn_four_human_vs_rhodopsin_ext.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/tblastn_four_human_vs_rhodopsin_ext.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -1,10 +1,10 @@\n-sp|P08100|OPSD_HUMAN\tgi|57163782|ref|NM_001009242.1|\t96.55\t348\t12\t0\t1\t348\t1\t1044\t0.0\t732\tgi|57163782|ref|NM_001009242.1|\t1689\t336\t343\t0\t98.56\t0\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\t348\t1047\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|2734705|gb|U59921.1|BBU59921\t84.80\t342\t51\t1\t1\t341\t42\t1067\t0.0\t646\tgi|2734705|gb|U59921.1|BBU59921\t1489\t290\t320\t1\t93.57\t0\t3\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE\t348\t1574\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t93.24\t74\t5\t0\t239\t312\t3147\t3368\t1e-72\t151\tgi|283855845|gb|GQ290303.1|\t342\t69\t73\t0\t98.65\t0\t3\tESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\tESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\t348\t4301\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t91.53\t59\t5\t0\t177\t235\t2855\t3031\t1e-72\t126\tgi|283855845|gb|GQ290303.1|\t284\t54\t57\t0\t96.61\t0\t2\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\t348\t4301\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t96.40\t111\t4\t0\t11\t121\t1\t333\t9e-67\t229\tgi|283855845|gb|GQ290303.1|\t523\t107\t109\t0\t98.20\t0\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG\t348\t4301\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t93.22\t59\t4\t0\t119\t177\t1404\t1580\t1e-32\t122\tgi|283855845|gb|GQ290303.1|\t276\t55\t56\t0\t94.92\t0\t3\tLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR\tLAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR\t348\t4301\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t88.46\t26\t3\t0\t312\t337\t4222\t4299\t2e-12\t57.7\tgi|283855845|gb|GQ290303.1|\t125\t23\t24\t0\t92.31\t0\t1\tQFRNCMLTTICCGKNPLGDDEASATV\tQFRNCMLTTLCCGKNPLGDDEASTTA\t348\t4301\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855822|gb|GQ290312.1|\t95.09\t326\t16\t0\t11\t336\t1\t978\t0.0\t658\tgi|283855822|gb|GQ290312.1|\t1517\t310\t322\t0\t98.77\t0\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASAT\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\t348\t983\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|18148870|'..b'NCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\t348\t1047\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|283855822|gb|GQ290312.1|\t95.092\t326\t16\t0\t11\t336\t1\t978\t0.0\t658\tgi|283855822|gb|GQ290312.1|\t1517\t310\t322\t0\t98.77\t0\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASAT\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\t348\t983\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|2734705|gb|U59921.1|BBU59921\t84.795\t342\t51\t1\t1\t341\t42\t1067\t0.0\t646\tgi|2734705|gb|U59921.1|BBU59921\t1489\t290\t320\t1\t93.57\t0\t3\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE\t348\t1574\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|12583664|dbj|AB043817.1|\t82.164\t342\t60\t1\t1\t341\t23\t1048\t0.0\t626\tgi|12583664|dbj|AB043817.1|\t1444\t281\t311\t1\t90.94\t0\t2\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPL-GDDEASATVSKTE\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDGASATSSKTE\t348\t1344\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t93.243\t74\t5\t0\t239\t312\t3147\t3368\t1.34e-71\t151\tgi|283855845|gb|GQ290303.1|\t342\t69\t73\t0\t98.65\t0\t3\tESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\tESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\t348\t4301\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t91.525\t59\t5\t0\t177\t235\t2855\t3031\t1.34e-71\t126\tgi|283855845|gb|GQ290303.1|\t284\t54\t57\t0\t96.61\t0\t2\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\t348\t4301\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t96.396\t111\t4\t0\t11\t121\t1\t333\t3.31e-67\t229\tgi|283855845|gb|GQ290303.1|\t523\t107\t109\t0\t98.20\t0\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG\t348\t4301\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t93.220\t59\t4\t0\t119\t177\t1404\t1580\t2.31e-32\t122\tgi|283855845|gb|GQ290303.1|\t276\t55\t56\t0\t94.92\t0\t3\tLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR\tLAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR\t348\t4301\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t88.462\t26\t3\t0\t312\t337\t4222\t4299\t3.61e-12\t57.7\tgi|283855845|gb|GQ290303.1|\t125\t23\t24\t0\t92.31\t0\t1\tQFRNCMLTTICCGKNPLGDDEASATV\tQFRNCMLTTLCCGKNPLGDDEASTTA\t348\t4301\tN/A\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/tblastx_rhodopsin_vs_three_human.tabular --- a/test-data/tblastx_rhodopsin_vs_three_human.tabular Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/tblastx_rhodopsin_vs_three_human.tabular Wed Apr 19 05:27:19 2017 -0400 |
| b |
| b'@@ -1,117 +1,117 @@\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t97.39\t230\t6\t0\t1\t690\t88\t777\t0.0\t559\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t91.22\t148\t13\t0\t1046\t603\t1133\t690\t0.0\t308\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.12\t102\t6\t0\t742\t1047\t829\t1134\t0.0\t236\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.32\t88\t5\t0\t566\t303\t653\t390\t0.0\t207\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t96.34\t82\t3\t0\t248\t3\t335\t90\t0.0\t182\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t83.33\t204\t34\t0\t18\t629\t105\t716\t4e-158\t404\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t75.28\t89\t22\t0\t780\t1046\t867\t1133\t4e-158\t161\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t81.28\t203\t38\t0\t609\t1\t696\t88\t5e-153\t360\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t80.60\t67\t13\t0\t916\t716\t1003\t803\t5e-153\t135\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t70.27\t37\t11\t0\t1047\t937\t1134\t1024\t5e-153\t64.2\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t100.00\t7\t0\t0\t646\t626\t733\t713\t5e-153\t24.0\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t89.23\t65\t7\t0\t460\t266\t547\t353\t4e-105\t167\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t89.58\t48\t5\t0\t184\t41\t271\t128\t4e-105\t104\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t77.78\t45\t10\t0\t882\t748\t969\t835\t4e-105\t93.9\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t67.86\t28\t9\t0\t1045\t962\t1132\t1049\t4e-105\t51.9\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t59.09\t22\t9\t0\t586\t521\t673\t608\t4e-105\t33.1\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t81.40\t86\t16\t0\t296\t553\t383\t640\t2e-87\t185\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t84.38\t32\t5\t0\t11\t106\t98\t193\t2e-87\t74.8\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t71.43\t35\t10\t0\t941\t1045\t1028\t1132\t2e-87\t61.6\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.44\t18\t1\t0\t794\t847\t881\t934\t2e-87\t50.1\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t83.61\t238\t39\t0\t18\t731\t64\t777\t0.0\t507\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t82.35\t85\t15\t0\t783\t1037\t829\t1083\t0.0\t188\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t70.96\t303\t88\t0\t925\t17\t971\t63\t2e-130\t435\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t72.22\t18\t5\t0\t1027\t974\t1073\t1020\t2e-130\t35.0\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t55.32\t188\t84\t0\t605\t42\t651\t88\t7e-89\t245\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t61.11\t72\t28\t0\t1037\t822\t1083\t868\t7e-89\t91.3\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t49.02\t204\t104\t0\t29\t640\t75\t686\t4e-78\t197\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t66.04\t53\t18\t0\t860\t1018\t906\t1064\t4e-78\t85.8\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t44.44\t27\t15\t0\t689\t769\t735\t815\t4e-78\t32.2\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t47.47\t198\t104\t0\t633\t40\t679\t86\t4e-65\t177\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t68.09\t47\t15\t0\t1017\t877\t1063\t923\t4e-65\t80.3\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t57.89\t114\t48\t0\t265\t606\t311\t652\t3e-46\t137\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t46.30\t54\t29\t0\t19\t180\t65\t226\t3e-46\t52.4\n-gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t96.40\t111\t4\t0\t1\t333\t118\t450\t0.0\t264\n-gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t92.31\t65\t5\t0\t3174\t3368\t829\t1023\t0.0\t151\n-gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t96.43\t56\t2\t0\t2855\t3022\t616\t783\t0.0\t141\n-gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t93.22\t59\t4\t0\t1404\t1580\t442\t618\t0.0\t138\n-gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t92.00\t25\t2\t0\t4222\t4296\t1021\t1095\t0.0\t64.3\n-gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t88.89\t9\t1\t0\t3128\t3154\t783\t809\t0.0\t22.6\n-gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t78.38\t111\t24\t0\t333\t1\t450\t118\t7e-171\t212\n-gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t88.75\t80\t9\t0\t3367\t3128\t1022\t783\t7e-171\t161\n-gi|283855845|gb|GQ2'..b'2\t675\t289\t1.77e-132\t248\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t76.829\t82\t19\t0\t963\t718\t1080\t835\t1.77e-132\t159\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t84.091\t44\t7\t0\t133\t2\t250\t119\t1.77e-132\t97.3\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t73.077\t78\t21\t0\t433\t200\t550\t317\t5.37e-101\t145\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t70.149\t67\t20\t0\t799\t599\t916\t716\t5.37e-101\t106\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t80.488\t41\t8\t0\t123\t1\t240\t118\t5.37e-101\t84.5\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t77.778\t27\t6\t0\t553\t473\t670\t590\t5.37e-101\t51.9\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t71.429\t14\t4\t0\t889\t848\t1006\t965\t5.37e-101\t32.7\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t81.818\t11\t2\t0\t958\t926\t1075\t1043\t5.37e-101\t28.6\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t84.848\t33\t5\t0\t239\t337\t356\t454\t3.28e-47\t72.5\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t86.667\t30\t4\t0\t2\t91\t119\t208\t3.28e-47\t71.2\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t81.395\t43\t8\t0\t404\t532\t521\t649\t3.28e-47\t47.3\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t88.889\t18\t2\t0\t764\t817\t881\t934\t3.28e-47\t44.6\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t87.500\t8\t1\t0\t935\t958\t1052\t1075\t3.28e-47\t21.7\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t93.913\t230\t14\t0\t1\t690\t88\t777\t0.0\t538\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t88.830\t188\t21\t0\t566\t3\t653\t90\t0.0\t394\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t84.058\t138\t22\t0\t1046\t633\t1133\t720\t0.0\t260\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t91.176\t102\t9\t0\t742\t1047\t829\t1134\t0.0\t233\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t67.105\t228\t75\t0\t684\t1\t771\t88\t6.59e-131\t333\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t67.273\t110\t36\t0\t1045\t716\t1132\t803\t6.59e-131\t141\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t70.199\t151\t45\t0\t3\t455\t90\t542\t1.16e-127\t236\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t64.045\t89\t32\t0\t780\t1046\t867\t1133\t1.16e-127\t136\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.216\t74\t25\t0\t510\t731\t597\t818\t1.16e-127\t111\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.038\t106\t36\t0\t242\t559\t329\t646\t1.70e-57\t161\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t85.714\t21\t3\t0\t92\t154\t179\t241\t1.70e-57\t53.8\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t73.684\t19\t5\t0\t791\t847\t878\t934\t1.70e-57\t39.1\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t61.290\t62\t24\t0\t424\t239\t511\t326\t3.59e-54\t81.3\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t74.359\t39\t10\t0\t133\t17\t220\t104\t3.59e-54\t69.8\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t65.714\t35\t12\t0\t882\t778\t969\t865\t3.59e-54\t56.3\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t58.140\t43\t18\t0\t649\t521\t736\t608\t3.59e-54\t50.6\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.667\t12\t4\t0\t972\t937\t1059\t1024\t3.59e-54\t23.9\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t82.128\t235\t42\t0\t11\t715\t76\t780\t0.0\t498\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t78.313\t83\t18\t0\t770\t1018\t835\t1083\t0.0\t177\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t72.289\t332\t92\t0\t1017\t22\t1082\t87\t1.28e-149\t516\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t48.299\t147\t76\t0\t712\t272\t777\t337\t2.25e-97\t169\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t54.167\t72\t33\t0\t1030\t815\t1095\t880\t2.25e-97\t103\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t47.826\t69\t36\t0\t220\t14\t285\t79\t2.25e-97\t83.5\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t72.000\t25\t7\t0\t782\t708\t847\t773\t2.25e-97\t45.1\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t56.000\t75\t33\t0\t532\t756\t597\t821\t4.32e-64\t87.7\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t39.423\t104\t63\t0\t19\t330\t84\t395\t4.32e-64\t86.8\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t56.897\t58\t25\t0\t829\t1002\t894\t1067\t4.32e-64\t81.3\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t50.000\t30\t15\t0\t388\t477\t453\t542\t4.32e-64\t33.6\n' |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/three_human_mRNA.dbinfo.txt --- a/test-data/three_human_mRNA.dbinfo.txt Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/three_human_mRNA.dbinfo.txt Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,7 +1,7 @@ Database: Just 3 human mRNA sequences 3 sequences; 10,732 total bases -Date: Jul 4, 2015 3:35 PM Longest sequence: 4,796 bases +Date: Dec 2, 2016 10:38 AM Longest sequence: 4,796 bases Volumes: - /mnt/galaxy/repositories/galaxy_blast/test-data/three_human_mRNA.fasta + /mnt/shared/users/pc40583/repositories/galaxy_blast/test-data/three_human_mRNA.fasta |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/three_human_mRNA.fasta.log.txt --- a/test-data/three_human_mRNA.fasta.log.txt Mon Nov 07 11:31:37 2016 -0500 +++ b/test-data/three_human_mRNA.fasta.log.txt Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,5 +1,2 @@ New DB title: Just 3 human mRNA sequences Sequence type: Nucleotide -Keep Linkouts: T -Keep MBits: T -Maximum file size: 1000000000B |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 test-data/three_human_mRNA.fasta.nin |
| b |
| Binary file test-data/three_human_mRNA.fasta.nin has changed |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 tools/ncbi_blast_plus/README.rst --- a/tools/ncbi_blast_plus/README.rst Mon Nov 07 11:31:37 2016 -0500 +++ b/tools/ncbi_blast_plus/README.rst Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -7,8 +7,9 @@ See the licence text below. -Currently tested with NCBI BLAST+ 2.2.31, and does not work with the NCBI -'legacy' BLAST suite (e.g. ``blastall``). +Note this does not work with the NCBI 'legacy' BLAST suite written in C +(e.g. binary name ``blastall``), but its replacement BLAST, which is +written in C++ (e.g. binary name ``blastn``). Note that these wrappers (and the associated datatypes) were originally distributed as part of the main Galaxy repository, but as of August 2012 @@ -234,6 +235,13 @@ - Set ``allow_duplicate_entries="False"`` in sample configuration file ``tool_data_table_conf.xml``. - Fix identifers with pipes in ``blastdbcmd`` wrapper (Devon Ryan). +v0.2.00 - Updated for NCBI BLAST+ 2.5.0, where GI numbers are less visible, + tabular output changes with `-parse_deflines`, and percentage + identifies are now given to 3dp rather than 2dp. + - Depends on ``package_blast_plus_2_5_0`` in ToolShed, or BioConda. + - ``blastxml_to_tabular`` now also gives percentage idenity to 3dp. + - Removed never-used binary and Python module dependency declarations + (internal change only). ======= ====================================================================== @@ -258,17 +266,17 @@ Planemo commands (which requires you have set your Tool Shed access details in ``~/.planemo.yml`` and that you have access rights on the Tool Shed):: - $ planemo shed_update -t testtoolshed --check_diff ~/repositories/galaxy_blast/tools/ncbi_blast_plus/ + $ planemo shed_update -t testtoolshed --check_diff tools/ncbi_blast_plus/ ... or:: - $ planemo shed_update -t toolshed --check_diff ~/repositories/galaxy_blast/tools/ncbi_blast_plus/ + $ planemo shed_update -t toolshed --check_diff tools/ncbi_blast_plus/ ... To just build and check the tar ball, use:: - $ planemo shed_upload --tar_only ~/repositories/galaxy_blast/tools/ncbi_blast_plus/ + $ planemo shed_upload --tar_only tools/ncbi_blast_plus/ ... $ tar -tzf shed_upload.tar.gz test-data/blastdb.loc |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 tools/ncbi_blast_plus/blastxml_to_tabular.py --- a/tools/ncbi_blast_plus/blastxml_to_tabular.py Mon Nov 07 11:31:37 2016 -0500 +++ b/tools/ncbi_blast_plus/blastxml_to_tabular.py Wed Apr 19 05:27:19 2017 -0400 |
| [ |
| @@ -60,13 +60,16 @@ However, check this with "diff -b ..." since BLAST+ sometimes includes an extra space character (probably a bug). """ -import sys + + +import os import re -import os +import sys + from optparse import OptionParser if "-v" in sys.argv or "--version" in sys.argv: - print "v0.1.08" + print "v0.2.00" sys.exit(0) if sys.version_info[:2] >= (2, 5): @@ -75,7 +78,7 @@ except ImportError: from xml.etree import ElementTree as ElementTree else: - from galaxy import eggs + from galaxy import eggs # noqa - ignore flake8 F401 import pkg_resources pkg_resources.require("elementtree") from elementtree import ElementTree @@ -106,11 +109,16 @@ 'qseqid,sseqid,pident' (space or comma separated). """ parser = OptionParser(usage=usage) -parser.add_option('-o', '--output', dest='output', default=None, help='output filename (defaults to stdout)', metavar="FILE") -parser.add_option("-c", "--columns", dest="columns", default='std', help="[std|ext|col1,col2,...] standard 12 columns, extended 25 columns, or list of column names") +parser.add_option('-o', '--output', dest='output', default=None, + help='output filename (defaults to stdout)', + metavar="FILE") +parser.add_option("-c", "--columns", dest="columns", default='std', + help="[std|ext|col1,col2,...] standard 12 columns, extended 25 columns, or list of column names") (options, args) = parser.parse_args() -colnames = 'qseqid,sseqid,pident,length,mismatch,gapopen,qstart,qend,sstart,send,evalue,bitscore,sallseqid,score,nident,positive,gaps,ppos,qframe,sframe,qseq,sseq,qlen,slen,salltitles'.split(',') +colnames = ('qseqid,sseqid,pident,length,mismatch,gapopen,qstart,qend,' + 'sstart,send,evalue,bitscore,sallseqid,score,nident,positive,' + 'gaps,ppos,qframe,sframe,qseq,sseq,qlen,slen,salltitles').split(',') if len(args) < 1: sys.exit("ERROR: No BLASTXML input files given; run with --help to see options.") @@ -176,7 +184,8 @@ if event == "end" and elem.tag == "Iteration": # Expecting either this, from BLAST 2.2.25+ using FASTA vs FASTA # <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID> - # <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def> + # <Iteration_query-def>Endoplasmic reticulum resident protein 44 + # OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def> # <Iteration_query-len>406</Iteration_query-len> # <Iteration_hits></Iteration_hits> # @@ -206,17 +215,16 @@ # # Or, with a local database not using -parse_seqids can get this, # <Hit_id>gnl|BL_ORD_ID|2</Hit_id> - # <Hit_def>chrIII gi|240255695|ref|NC_003074.8| Arabidopsis thaliana chromosome 3, complete sequence</Hit_def> + # <Hit_def>chrIII gi|240255695|ref|NC_003074.8| Arabidopsis + # thaliana chromosome 3, complete sequence</Hit_def> # <Hit_accession>2</Hit_accession> sseqid = hit.findtext("Hit_id").split(None, 1)[0] hit_def = sseqid + " " + hit.findtext("Hit_def") - if re_default_subject_id.match(sseqid) \ - and sseqid == hit.findtext("Hit_accession"): + if re_default_subject_id.match(sseqid) and sseqid == hit.findtext("Hit_accession"): # Place holder ID, take the first word of the subject definition hit_def = hit.findtext("Hit_def") sseqid = hit_def.split(None, 1)[0] - if sseqid.startswith("gnl|BL_ORD_ID|") \ - and sseqid == "gnl|BL_ORD_ID|" + hit.findtext("Hit_accession"): + if sseqid.startswith("gnl|BL_ORD_ID|") and sseqid == "gnl|BL_ORD_ID|" + hit.findtext("Hit_accession"): # Alternative place holder ID, again take the first word of hit_def hit_def = hit.findtext("Hit_def") sseqid = hit_def.split(None, 1)[0] @@ -224,7 +232,8 @@ for hsp in hit.findall("Hit_hsps/Hsp"): nident = hsp.findtext("Hsp_identity") length = hsp.findtext("Hsp_align-len") - pident = "%0.2f" % (100 * float(nident) / float(length)) + # As of NCBI BLAST+ 2.4.0 this is given to 3dp (not 2dp) + pident = "%0.3f" % (100 * float(nident) / float(length)) q_seq = hsp.findtext("Hsp_qseq") h_seq = hsp.findtext("Hsp_hseq") @@ -233,13 +242,11 @@ gapopen = str(len(q_seq.replace('-', ' ').split()) - 1 + len(h_seq.replace('-', ' ').split()) - 1) - mismatch = m_seq.count(' ') + m_seq.count('+') \ - - q_seq.count('-') - h_seq.count('-') + mismatch = m_seq.count(' ') + m_seq.count('+') - q_seq.count('-') - h_seq.count('-') # TODO - Remove this alternative mismatch calculation and test # once satisifed there are no problems - expected_mismatch = len(q_seq) \ - - sum(1 for q, h in zip(q_seq, h_seq) - if q == h or q == "-" or h == "-") + expected_mismatch = len(q_seq) - sum(1 for q, h in zip(q_seq, h_seq) + if q == h or q == "-" or h == "-") xx = sum(1 for q, h in zip(q_seq, h_seq) if q == "X" and h == "X") if not (expected_mismatch - q_seq.count("X") <= int(mismatch) <= expected_mismatch + xx): sys.exit("%s vs %s mismatches, expected %i <= %i <= %i" |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 tools/ncbi_blast_plus/check_no_duplicates.py --- a/tools/ncbi_blast_plus/check_no_duplicates.py Mon Nov 07 11:31:37 2016 -0500 +++ b/tools/ncbi_blast_plus/check_no_duplicates.py Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -9,8 +9,9 @@ will return a non-zero error if any duplicate identifiers are found. """ + +import os import sys -import os if "-v" in sys.argv or "--version" in sys.argv: print("v0.0.23") |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 tools/ncbi_blast_plus/ncbi_blastdbcmd_wrapper.xml --- a/tools/ncbi_blast_plus/ncbi_blastdbcmd_wrapper.xml Mon Nov 07 11:31:37 2016 -0500 +++ b/tools/ncbi_blast_plus/ncbi_blastdbcmd_wrapper.xml Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -79,12 +79,13 @@ <output name="seq" file="four_human_proteins.fasta" ftype="fasta" /> </test> <test> + <!-- This used to recover the original FASTA file, but had GI numbers --> <param name="db_opts|db_type" value="nucl" /> <param name="db_opts|database" value="rhodopsin_nucs" /> <param name="id_opts|id_type" value="prompt" /> <param name="id_opts|entries" value="all" /> <param name="outfmt" value="original" /> - <output name="seq" file="rhodopsin_nucs.fasta" ftype="fasta" /> + <output name="seq" file="rhodopsin_nucs.no_gi.fasta" ftype="fasta" /> </test> <test> <param name="db_opts|db_type" value="nucl" /> |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 tools/ncbi_blast_plus/ncbi_macros.xml --- a/tools/ncbi_blast_plus/ncbi_macros.xml Mon Nov 07 11:31:37 2016 -0500 +++ b/tools/ncbi_blast_plus/ncbi_macros.xml Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,13 +1,12 @@ <macros> - <token name="@WRAPPER_VERSION@">0.1.08</token> + <token name="@WRAPPER_VERSION@">0.2.00</token> <xml name="parallelism"> <!-- If job splitting is enabled, break up the query file into parts --> <parallelism method="multi" split_inputs="query" split_mode="to_size" split_size="1000" merge_outputs="output1" /> </xml> <xml name="preamble"> <requirements> - <requirement type="binary">@BINARY@</requirement> - <requirement type="package" version="2.2.31">blast+</requirement> + <requirement type="package" version="2.5.0">blast</requirement> </requirements> <stdio> <!-- Anything other than zero is an error --> |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 tools/ncbi_blast_plus/ncbi_tblastn_wrapper.xml --- a/tools/ncbi_blast_plus/ncbi_tblastn_wrapper.xml Mon Nov 07 11:31:37 2016 -0500 +++ b/tools/ncbi_blast_plus/ncbi_tblastn_wrapper.xml Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -110,7 +110,8 @@ <output name="output1" file="tblastn_four_human_vs_rhodopsin.tabular" ftype="tabular" /> </test> <test> - <!-- Same as above, but parse deflines - on BLAST 2.2.25+ - 2.2.27+ makes no difference --> + <!-- Same as above, but parse deflines --> + <!-- Note back on BLAST 2.2.25+ - 2.2.27+ made no difference --> <param name="query" value="four_human_proteins.fasta" ftype="fasta" /> <param name="db_opts_selector" value="file" /> <param name="subject" value="rhodopsin_nucs.fasta" ftype="fasta" /> @@ -123,9 +124,10 @@ <param name="max_hits" value="0" /> <param name="word_size" value="0" /> <param name="parse_deflines" value="true" /> - <output name="output1" file="tblastn_four_human_vs_rhodopsin.tabular" ftype="tabular" /> + <output name="output1" file="tblastn_four_human_vs_rhodopsin_deflines.tabular" ftype="tabular" /> </test> <test> + <!-- As of BLAST 2.5.0+ the full path appears twice, so get small diff --> <param name="query" value="four_human_proteins.fasta" ftype="fasta" /> <param name="db_opts_selector" value="file" /> <param name="subject" value="rhodopsin_nucs.fasta" ftype="fasta" /> @@ -138,7 +140,7 @@ <param name="max_hits" value="0" /> <param name="word_size" value="0" /> <param name="parse_deflines" value="false" /> - <output name="output1" file="tblastn_four_human_vs_rhodopsin.html" ftype="html" /> + <output name="output1" file="tblastn_four_human_vs_rhodopsin.html" ftype="html" lines_diff="8" /> </test> </tests> <help> |
| b |
| diff -r 3034ce97dd33 -r 7538e2bfcd41 tools/ncbi_blast_plus/tool_dependencies.xml --- a/tools/ncbi_blast_plus/tool_dependencies.xml Mon Nov 07 11:31:37 2016 -0500 +++ b/tools/ncbi_blast_plus/tool_dependencies.xml Wed Apr 19 05:27:19 2017 -0400 |
| b |
| @@ -1,6 +1,6 @@ <?xml version="1.0"?> <tool_dependency> - <package name="blast+" version="2.2.31"> - <repository changeset_revision="921d2963a177" name="package_blast_plus_2_2_31" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> + <package name="blast" version="2.5.0"> + <repository changeset_revision="5dd2b68c7d04" name="package_blast_plus_2_5_0" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> </tool_dependency> |