Hi all , I'm using local BLAST to retreive the single top most hit invoking "-v" option of blastall/RPSBLAST, from the local database sequences. I'm getting the top hit in most of the cases but in some cases there are more than one HSP fetched which are mostly the repeat of the same query sequence.Can anybody advise me any option of BLASTALL/RPSBLAST to restrict this redundancy. Thanks in advance.
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