Examine the meaning of each column in the BLAST tab delimited format which is generated by -m 8 option.

From WABI

Contents 1 Summary 2 Services can be used 3 Description 4 Sample program 5 How to execute 6 Links

Summary

Examine the meaning of each column in the BLAST tab delimited format which is generated by -m 8 option.

Services can be used

• Blast
  • searchParam
  • searchParamAsync

Description

Information header will be added if you specify '-m 9' instead of '-m 8' in parameter "param". Information header is shown as follows.

Query id
Subject id
% identity
alignment length
mismatches
gap
openings
q. start
q. end
s. start
s. end
e-value
bit score

Sample program

This program executes BLASTP against Swiss-Prot database with -m 9 option.
Download this program

use SOAP::Lite;

$service = SOAP::Lite -> service('http://xml.nig.ac.jp/wsdl/Blast.wsdl');
$result = $service->searchParam("blastp","SWISS","MSSRIARALALVVTLLHLTRLALSTCPAACHCPLEAPKCAPGVGLVRDGCGCCKVCAKQL","-b 5 -m 9");

print $result."\n";

How to execute

Unpack archive file after downloading sample program and type as follows.

perl test.pl 

Execution result is as follows.

Links

Japanese page