[Biopython-dev] [Bug 2927] Problem parsing PSI-BLAST plain text output with NCBStandalone.PSIBlastParser

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Sat Dec 19 11:02:44 UTC 2009


------- Comment #6 from robfsouza at gmail.com  2009-12-19 06:02 EST -------
Created an attachment (id=1412)
 --> (http://bugzilla.open-bio.org/attachment.cgi?id=1412&action=view)
Testcase for NCBI's BLAST alignment with errors

This is a sequence from Naegleria gruberi and blastpgp output which reproduces
a reported bug in NCBI's blastpgp output at the first iteration (see hit
against sequence gi|156552846|ref|XP_001600053.1). Search parameters were

blastpgp -d nr -i Ngru1000013938.fa -o Ngru1000013938.fa.br -a 8 -j 1 -b 10000
-v 10000 -h 0.01 -I T -m 0 -M BLOSUM62 -F F

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