searching short peptide sequences against a large database

Question

[h.mendel]

Hello,

I want to search a set of local databases with short peptide queries. I am interested in finding sequences with high sequence similarity. Which tools are optimal for this? I have noticed that the usual BLAST settings aren't optimal for finding matches to the short queries within larger databases. I have little bioinformatics experience, so any advice is highly appreciated:)

Answer 1

[sdf.ambreen]

i want to extract fasta sequences of different transcripts..which command use to copy these sequences

Answer 2

[sdf.ambreen]

hi...i want to use CPC in command line i install it and do not know how to get result?