protein based nucleotide multiple alignments

[Dan]

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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  Dan Kortschak                                          <\/    \_O>
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