Dear all,
I'm going to do homology serach using short sequences (35 bp) as a query against my own database, which is my genes sequence of interest in usual length (not short). As far as I know using of usual blast is not suitable in my case as the its heuristic nature and small word size (that I have to choose in my case). Could please someone introduce the appropriate tool to this end? Thanks a lot for sharing your similar experience.