protein based nucleotide multiple alignments

Warren Gallin wgallin at gpu.srv.ualberta.ca
Tue Feb 20 13:41:29 EST 2001

MacClade v. 4 will do this, as will the DNAstacks Hypercard stack from
Doug Eernisse.  I don't think that you will be able to write this up for
publication.  Bummer.

Dan wrote:
> Hi Everyone, after trying to find an program to align multiple
> nucleotide sequences based on a protein multiple alignment I have given
> up and written one for myself using perl. The program allows you to get
> around the problems of optimal nucleotide alignments that are unlikely
> to be evolutionarily significant due to matches in adjacent codons in
> protein coding sequeces. I'd like to write it up somewhere, but I have
> no idea where to find references that say that this kind of thing is
> important.
> Does anyone have any idea where I would find this (or if it exists)?
> please reply directly to my mail account
> thanks
> Dan Kortschak
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