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  • thh32
    Member
    • Feb 2014
    • 60
    #1

    Compare 10000 sequences in hmmer

    So I have used Clustal Omega to do a multiple alignment and hmmbuild to create a hmmer profile for 10000 copies of the same repeat region (30bp long) however when the output is viewed as a hmm logo it is 1200 bases long. I was wondering why this is and if anyone knows a way to get around this?

    Used default Clustal Omega options and default hmmbuild options.
    Tags: clustalo, hmm, hmmer
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