I'm trying to find (and hopefully not have to write!) some
software that will let me take multiple a.a. sequence alignments and then
look for specific protein motiffs and generate statistics about the
number of sequences containing the motiff at a certain location. Is there
anything like this out there. It seems like some of the alignment programs
take structure and motiffs into consideration when doing alignments.
Anyway, if I could get some help it would be appreciated.
Thanks in Advance,
REMEANS at husc.havard.edu