NA vs. AA phylogenies
joe at evolution.genetics.washington.edu
Wed Jan 17 16:58:16 EST 1996
In article <4dj2d1$1t2 at news.cis.okstate.edu>,
Ulrich Melcher <umelcher at bmb-fs1.biochem.okstate.edu> wrote:
> Is there software that can:
>1) Given an amino acid sequence alignment and the raw nucleotide
>sequences that translate to the amino acid sequences, produce a
>nucleotide sequence alignment that is equivalent to the amino acid
>sequence alignment; and/or
>2) Given a nucleotide sequence alignment, translate the constituent
>sequences into aligned amino acid sequences, so that the resulting amino
>acid sequence alignment is equivalent to the nucleotide sequence
You might want to look at the papers by Jotun Hein and J. Stovlbaek:
J-Mol-Evol. 1994 Mar. 38(3). P 310-6.
An algorithm combining DNA and protein alignment.
J-Theor-Biol. 1994 Mar 21. 167(2). P 169-74.
A maximum-likelihood approach to analyzing nonoverlapping and
overlapping reading frames.
J-Mol-Evol. 1995 Feb. 40(2). P 181-9.
Joe Felsenstein joe at genetics.washington.edu (IP No. 126.96.36.199)
Dept. of Genetics, Univ. of Washington, Box 357360, Seattle, WA 98195-7360 USA
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