Dear all,

Would anyone have an insight into this error while parsing a BLAST
report (bioperl from CVS on 28th of August)? 

------------- EXCEPTION: Bio::Root::Exception -------------
MSG: Undefined sub-sequence (548,548). Valid range = 51 - 548
STACK: Error::throw
STACK:
Bio::Root::Root::throw /usr/local/share/perl/5.8.8/Bio/Root/Root.pm:357
STACK:
Bio::Search::HSP::HSPI::matches /usr/local/share/perl/5.8.8/Bio/Search/HSP/HSPI.pm:691
STACK:
Bio::Search::SearchUtils::_adjust_contigs /usr/local/share/perl/5.8.8/Bio/Search/SearchUtils.pm:421
STACK:
Bio::Search::SearchUtils::tile_hsps /usr/local/share/perl/5.8.8/Bio/Search/SearchUtils.pm:200
STACK:
Bio::Search::Hit::GenericHit::strand /usr/local/share/perl/5.8.8/Bio/Search/Hit/GenericHit.pm:1455

This is using HSPI.pm with the patch starting 
## ML: START fix for substr out of range error 

many thanks for any pointers
a

Alexie Papanicolaou 
Entomology 
Max Planck Institute for Chemical Ecology 
Hans Knoell Str 8 
Jena 07745 
Germany 
Email apapanicolaou@ice.mpg.de 
Tel +493641571561