HI everyone I m working on Blast-2.2.28+ version to generate a PSSM using multiple sequence alignment file in PSI-BLAST. I have used makeblastdb to generate my own database. I successfully generated the PSSM using arguments (-out_pssm and -out_ascii_pssm).
I would like to know is there any way by which i can use this pssm and run against my own database to retrive the sequences which was used to make this pssm.Or how to check whether the pssm is correct or not?
I would be very thankful for your help.