BLAST TEST DATA FILES ===================== This directory contains various data files for testing the BLAST-related code in Biopython. BLAST OUTPUT FILES (plain text) ------------------------------- ID PROGRAM VER. QUERY DATABASE PARAMETERS DESCRIPTION bt001 blastall 2.0.10 sp:P21297 swissprot -p blastp bt002 blastall 2.0.10 sp:Q02112 pdbaa -p blastp no hits bt003 blastall 2.0.10 sp:P16153 swissprot -p blastp -v 0 no descriptions bt004 blastall 2.0.10 sp:P16153 swissprot -p blastp -b 0 no alignments bt005 blastall 2.0.10 sp:P15394 swissprot -p blastp -m 6 master-slave bt006 blastpgp 2.0.10 sp:P12921 swissprot -j 10 converges in 1 round bt007 blastpgp 2.0.10 sp:P17216 swissprot -j 10 converges in 3 rounds *bt008 blastpgp 2.0.10 sp:P33654 swissprot -j 10 doesn't converge bt009 blastpgp 2.0.10 sp:Q02134 swissprot -j 10 no new sequences before CONVERGED! message bt010 blastall 2.0.10 gi:1348916 sts -p blastn bt011 blastall 2.0.10 gi:1348400 sts -p blastn -b 0 no alignment bt012 blastall 2.0.10 gi:1347201 sts -p blastn -v 0 no descriptions bt013 blastall 2.0.10 gi:859351 sts -p blastn -m 1 master-slave bt014 blastall 2.0.10 gi:1347369 swissprot -p blastx bt015 blastall 2.0.10 gi:1347782 swissprot -p blastx no hits bt016 blastall 2.0.10 sp:P39483 sts -p tblastn bt017 blastall 2.0.10 sp:P19888 sts -p tblastn no hits bt018 blastall 2.0.10 gi:1348853 sts -p tblastx bt019 NCBI WWW 2.0.10 sp:P21297 swissprot blastp bt020 NCBI WWW 2.0.10 sp:P54929 pdb blastp no hits bt021 NCBI WWW 2.0.10 sp:P16153 swissprot blastp descriptions=0 bt022 NCBI WWW 2.0.10 sp:P16153 swissprot blastp alignments=0 bt023 NCBI WWW 2.0.10 sp:P15394 swissprot blastp flat master-slave without identities bt024 NCBI WWW 2.0.10 gi:1348916 dbsts blastn bt025 NCBI WWW 2.0.10 gi:1348400 dbsts blastn alignments=0 bt026 NCBI WWW 2.0.10 gi:1347201 dbsts blastn descriptions=0 bt027 NCBI WWW 2.0.10 gi:859351 dbsts blastn master-slave with identities bt028 NCBI WWW 2.0.10 gi:1347369 swissprot blastx bt029 NCBI WWW 2.0.10 gi:1347782 swissprot blastx no hits bt030 NCBI WWW 2.0.10 sp:P39483 dbsts tblastn bt031 NCBI WWW 2.0.10 sp:P19888 dbsts tblastn no hits bt032 NCBI WWW 2.0.10 gi:1348853 dbsts tblastx bt033 NCBI WWW 2.0.10 gi:1593528 dbsts blastx >1 HSP in alignment bt034 NCBI WWW 2.0.10 gi:1347369 swissprot blastx no header info bt035 NCBI WWW 2.0.10 sp:P23832 swissprot blastp >1 HSP in alignment bt036 NCBI WWW 2.0.10 sp:P29247 swissprot blastp no graphical overview bt037 NCBI WWW 2.0.10 sp:Q06110 swissprot blastp no graphical overview descriptions=0 bt038 NCBI WWW 2.0.10 sp:Q06110 swissprot blastp descriptions=0 master-slave without identities bt039 blastall 2.0.10 sp:Q08386 swissprot -p blastp >1 HSP in alignment bt040 blastall 2.0.10 sp:Q05362 swissprot -p blastp -v 0 -m 4 no descriptions, master-slave bt041 blastall 2.0.11 sp:P21297 swissprot -p blastp bt042 blastall 2.0.11 sp:Q02112 pdbaa -p blastp no hits bt043 blastall 2.0.11 sp:P16153 swissprot -p blastp -v 0 no descriptions bt044 blastall 2.0.11 sp:P16153 swissprot -p blastp -b 0 no alignments bt045 blastall 2.0.11 sp:P15394 swissprot -p blastp -m 6 master-slave bt046 blastpgp 2.0.11 sp:P12921 swissprot -j 10 converges in 2 rounds bt047 blastpgp 2.0.11 sp:Q02134 swissprot -j 10 no new sequences before CONVERGED! message bt048 blastall 2.0.11 gi:1348916 sts -p blastn bt049 blastall 2.0.11 gi:1348400 sts -p blastn -b 0 no alignment bt050 blastall 2.0.11 gi:1347201 sts -p blastn -v 0 no descriptions bt051 blastall 2.0.11 gi:859351 sts -p blastn -m 1 master-slave bt052 blastall 2.0.11 gi:1347369 swissprot -p blastx bt053 blastall 2.0.11 gi:1347782 swissprot -p blastx no hits bt054 blastall 2.0.11 sp:P39483 sts -p tblastn bt055 blastall 2.0.11 sp:P19888 sts -p tblastn no hits bt056 blastall 2.0.11 gi:1348853 sts -p tblastx bt057 blastall 2.0.11 sp:Q08386 swissprot -p blastp >1 HSP in alignment bt058 blastall 2.0.11 sp:Q05362 swissprot -p blastp -v 0 -m 4 no descriptions, master-slave bt059 blastpgp 2.0.11 sp:P07175 swissprot -m 6 multiple HSP (41943) bt060 blastpgp 2.0.12 multiple db, Mike Poidinger bt061 NCBI WWW 2.0.14 sp:P06563 swissprot blastp bt062 blastall 2.0.14 gi:1348916 sts -p blastn bt063 blastpgp 2.0.14 ad-hoc from Mike Poidinger, no model sequences found bt064 NCBIWWW 2.1.12 ad-hoc from Brad Chapman bt065 blastn 2.1.2 ad-hoc no hits found bt066 NCBIWWW 2.1.3 ad-hoc 6/3/01 new format bt067 blastall 2.2.1 ad-hoc -p blastx No 'length of query' ... bt072 NCBIWWW 2.2.4 ad-hoc bt073 NCBIWWW 2.2.4 ad-hoc Confusing sequences line in the database bt074 NCBIWWW 2.2.4 ad-hoc -p blastp nov 2002 new format bt075 blastpgp 2.2.8 ad-hoc from Jer-Yee John Chuang, no Searching... lines bt076 blastall 2.2.15 ad-hoc -p blastx no hits, single query bt077 blastall 2.2.20 ad-hoc nr -p blastx single query bt078 blastall 2.2.20 opuntia nr -p blastx multiple queries, most with no hits bt079 blastall 2.2.21 ad-hoc nr -p blastp multiple queries bt080 blastall 2.2.22 ad-hoc nr -p blastx multiple queries bt081 blastx 2.2.22+ nr the new C++ BLAST toolkit, multiple queries * bt008 is not included because the file is too big (>15Mb). BLAST OUTPUT FILES (XML) ------------------------ xbt001.xml - BLASTP 2.2.12 xbt002.xml - BLASTN 2.2.12 xbt003.xml - BLASTX 2.2.12 xbt004.xml - TBLASTN 2.2.12 xbt005.xml - TBLASTX 2.2.12 xbt006.xml - BLASTP 2.2.18+ xbt007.xml - BLASTP 2.2.18+ xbt008.xml - blastp 2.2.18 xbt009.xml - blastx 2.2.22+ (the new C++ tool blastx, not blastall - compare with bt081.txt file) xbt010.xml - blastp 2.2.22+ (the new C++ tool blastp, not blastall) xbt011.xml - RPSBLAST 2.2.18 (the old C tool blastpgp)