Question: (Closed) How To Compute Dn/Ds From Pairwise Alignment
gravatar for gundalav
7.6 years ago by
La La Land
gundalav310 wrote:

I have a set of sequences (human 5'utr region), with which I already did pairwise alignment against chimp and rat whole genome. So I have the output in MAF and SAM format.

Is there any existing tool which can take these pairwise alignment and compute the dn/ds score?

ADD COMMENTlink modified 7.6 years ago • written 7.6 years ago by gundalav310

Many very similar questions have been asked already, however your question doesn't make sense biologically. You have 5' UnTranslated Regions. There cannot be synonymous or non-synonymous substitutions in untranslated data!

Therefore I will close it. Please read

ADD REPLYlink modified 7.6 years ago • written 7.6 years ago by Michael Dondrup48k
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