FASTA program discussion list

[Frédéric Mahé <>]

Hello everyone,

According to that message on BioStar: "ggsearch36 does use sse2 
instructions, but it also achieves a speed-up by not considering for 
alignment library sequences that are 25% shorter or 33% longer than the 
query." [1]

Out of curiosity, I would like to know if there is a way to force 
ggsearch36 to compute *all* alignments.

Best regards,

[1] 
http://biostar.stackexchange.com/questions/16584/which-pairwise-global-alignment-tools-are-available

--
Frédéric Mahé - PostDoc

Évolution du Plancton et PaléOceans (EPPO) Lab. CNRS - Univ. Paris VI
Station Biologique de Roscoff - Place Georges Teissier
29680 Roscoff - France

E-mail: 

Web: http://www.sb-roscoff.fr/Phyto/