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wublast_version = Re("2\.[^-]+-WashU")
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blastn_appheader = replace_groups(ncbiblast.blastn_appheader, ...
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blastp_appheader = replace_groups(ncbiblast.blastp_appheader, ...
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blastx_appheader = replace_groups(ncbiblast.blastx_appheader, ...
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tblastn_appheader = replace_groups(ncbiblast.tblastn_appheader...
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tblastx_appheader = replace_groups(ncbiblast.tblastx_appheader...
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spaces_line = Opt(Spaces())+ AnyEol()
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query_database = Str("Database:")+ Opt(Spaces())+ Std.database...
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to_table = SkipLinesUntil(Str("Sequences producing High-scorin...
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table_entry = AssertNot(AnyEol())+ Std.search_table_descriptio...
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header = replace_groups(ncbiblast.header, (("query_database", ...
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hit_descr = Str(">")+ Std.hit_description(UntilEol())+ AnyEol(...
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hit_length = Spaces()+ Str("Length = ")+ Std.hit_length(Digits...
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blastp_score = Re(r" *Score = *")+ Std.hsp_value(Digits(), {"n...
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identities = Re(r" *Identities = ")+ Std.hsp_value(Digits(), {...
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blastp_hsp_header = blastp_score+ identities+ spaces_line
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blastn_strand = Re(r" *(Plus|Minus) Strand HSPs:\R")
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blastn_score = Re(r" *Score = *")+ Std.hsp_value(Digits(), {"n...
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blastn_identities = Re(r" *Identities = ")+ Std.hsp_value(Digi...
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blastn_hsp_header = Opt(blastn_strand+ spaces_line)+ blastn_sc...
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blastx_table_entry = AssertNot(AnyEol())+ Std.search_table_des...
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blastx_to_database = Str(" Translating both strands of query ...
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blastx_identities = Re(r" *Identities = ")+ Std.hsp_value(Digi...
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blastx_score = Re(r" *Score = *")+ Std.hsp_value(Digits(), {"n...
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blastx_strand = Re(r" *(Plus|Minus) Strand HSPs:\R")
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|
blastx_hsp_header = Opt(blastx_strand+ spaces_line)+ blastx_sc...
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|
tblastn_strand = Re(r" *(Plus|Minus) Strand HSPs:\R")
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tblastn_score = Re(r" *Score = *")+ Std.hsp_value(Digits(), {"...
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|
tblastn_identities = Re(r" *Identities = ")+ Std.hsp_value(Dig...
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tblastn_hsp_header = Opt(tblastn_strand+ spaces_line)+ tblastn...
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ending_start = Opt(Str("WARNING")+ ToEol()+ Rep(AssertNot(Str(...
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parameters = SkipLinesUntil(Str("Statistics:"))
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|
timestamp = Time.make_expression("%(Mon) %(Jan) %(day) %(hour)...
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|
statistics = Str("Statistics:")+ AnyEol()+ spaces_line+ _nv(" ...
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|
ending = ending_start+ parameters+ statistics
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|
blastp_ending = ending_start+ parameters+ statistics
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blastn_ending = ending_start+ parameters+ statistics
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|
blastx_ending = ending_start+ parameters+ statistics
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format = replace_groups(ncbiblast.format, (("to_table", to_tab...
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blastp = replace_groups(format, (("appheader", blastp_appheade...
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blastn = replace_groups(format, (("appheader", blastn_appheade...
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blastx = replace_groups(format, (("appheader", blastx_appheade...
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tblastn = replace_groups(format, (("appheader", tblastn_apphea...
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__warningregistry__ = { ( ' Bio.expressions was deprecated, as it ...
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