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Old 10-20-2014, 08:56 AM   #1
Location: UK

Join Date: Feb 2014
Posts: 60
Default 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.
thh32 is offline   Reply With Quote

clustalo, hmm, hmmer

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