[Bioperl-l] Bio::SearchIO $hit->description(), only one line returned...

[Martin Schenker]

Hi all,

this might be a daft question, but I spend some time searching the web & the
BioPerl 1.0.2 documentation and couldn't find a hint.

I'm trying to retrieve BLAST hit descriptions which span several lines in
the BLAST output. Up to now I only can get the first line. Anything I'm
missing here?

========================================================

BLASTP 2.2.4 [Aug-26-2002]

Query= test1|
         (668 letters)

Database: /data/scratch/db/ENSEMBL_9.30_pep 
           27,628 sequences; 12,353,235 total letters

Searching..................................................done

 
Score    E
Sequences producing significant alignments:                      (bits)
Value

ENSP00000264758 (ALPHA ADDUCIN (ERYTHROCYTE ADDUCIN ALPHA SUBUNI...  1178
0.0  

>ENSP00000264758 (ALPHA ADDUCIN (ERYTHROCYTE ADDUCIN ALPHA SUBUNIT).
           [Source:SWISSPROT;Acc:P35611]) Clone:Z68280
           Contig:Z68280.1.1.43583 Chr:4 Basepair:2834529
           Status:known
          Length = 631
============================================================================
======

If I use Bio::SearchIO and call 

my $descr = $hit->description();

I only can retrieve the first line:

"(ALPHA ADDUCIN (ERYTHROCYTE ADDUCIN ALPHA SUBUNIT)."

Is there any way to get the full description back up to the "Length = 631"
statement, like

"(ALPHA ADDUCIN (ERYTHROCYTE ADDUCIN ALPHA SUBUNIT).
[Source:SWISSPROT;Acc:P35611]) Clone:Z68280 Contig:Z68280.1.1.43583 Chr:4
Basepair:2834529 Status:known"

?

Cheers for any pointers...

Martin



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