Tab-delimited output is available from WU-BLAST 2.0 when
are specified on the command line.
The latter option causes comment lines beginning with a pound sign (#)
to be reported in the output, as well.
If a query sequence identifier begins with a pound sign (#) or a backslash (\),
it is escaped with a backslash;
subject sequence identifiers are always reported “as is”.
The standard tokens reported in tabular output are shown in the Table 1 below. Table 2 describes tokens that appear only if certain other command line options are specified.
This file is available in PDF format here.
||query sequence identifier|
||subject (database) sequence identifier|
||the expectation or E-value|
||the number of scores considered jointly in computing E|
||the normalized alignment score, expressed in units of bits|
||the raw alignment score|
||the overall length of the alignment including any gaps|
||the number of identical letter pairs|
||the number of letter pairs contributing a positive score|
||the number of mismatched letter pairs|
||percent identity over the alignment length (as a fraction of
||percent positive letter pairs over the alignment length (as a fraction of
||number of gaps in the query sequence|
||total length of all gaps in the query sequence|
||number of gaps in the subject sequence|
||total length of all gaps in the subject sequence|
||the reading frame in the query sequence (
||the starting coordinate of the alignment in the query sequence|
||the ending coordinate of the alignment in the query sequence|
||the reading frame in the subject sequence (
||the starting coordinate of the alignment in the subject sequence|
||the ending coordinate of the alignment in the subject sequence|
||the “topcombo” group number for a set of HSPs||
||a dash-delimited list of consistent HSP numbers whose scores were used jointly to compute the E-value; the number of the current HSP (the HSP described by the current line of output) is enclosed in parentheses||
Last modified: 2005-03-24
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Copyright © 2005 by Warren R. Gish, Saint Louis, Missouri 63108 USA. All rights reserved.