Urgent request: combined peptide database search

Chris Botka botka at CGL.UCSF.EDU
Wed Aug 18 12:38:57 EST 1999


Cornelius Krasel wrote on Thu, 12 Aug 1999:
> Christian Gotting
> <christian.goetting at gast.genetik.uni-bielefeld.de> wrote:
> > I do have the aminoacid sequences of 3 peptides (too short for a
> > search on its own) and want to do a combined search.
>
> BLAST often refuses to do sequence searches with short patterns.
> Try FASTA instead (for the single peptides, that is; combined
> peptides are not possible with FASTA either). If you have access to
> GCG, you can also use FINDPATTERNS where you could specify all
> possible combinations of the three peptides including gaps of
> unknown lengths.
>

There is fasts part of the fasta3 distribution.




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