how to pairwise BLAST very short sequences?

Andrea webmaster at bioinformatik.de
Fri Apr 23 08:23:13 EST 2004


Hi

> As far as I saw, FASTA does not have a sequence-against-sequence mode,
> only sequence-against-database?

No, thats not true. You can compare a sequence against a sequence or against a 
database with fasta.
Maybe you should try the online version of fasta for comparing two sequences:
http://fasta.bioch.virginia.edu/fasta_www/cgi/search_frm2.cgi

Hope this helps,
   Andrea



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