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  • #1

    Species comparison of number of hits by dc-megablast

    Hi all,
    I have a new transcriptome and am interested in comparing how many hits I get if I blast it to various similar sequences. I ran a dc-megablast against a few species of interest. Any recommendations on how to filter the results (what % identity cutoff; or % length of hit to total query length, etc)? I am not quite sure when to call a hit "real"
    Thanks!
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