Reconstructing ancestral sequences

Daniel B Davison Daniel.Davison at bms.com
Mon Jul 31 12:34:47 EST 2000


Hi all,

A long time ago (late 1970s), Walter Fitch and a postdoc (Ron ????) of his
had a program ANCSTR, written in Univac 1108 Fortran, which did this. I
assume it's been ported to more current machines. Try checking with him. I
hope this helps.

dan davison


James McInerney wrote:

> Hi,
>
> I am having a problem trying to unambiguously reconstruct ancestral
> sequences.  I know it is possible to resolve ancestral sequences _with_
> ambiguity, but what about making some educated guesses and/or
> assumptions and then deciding to construct unambiguous ancestral
> sequences (sort-of like maximum likelihood).  We can choose among
> competing alternatives using a pre-constructed substitution matrix to
> choose which ancestor might be the most likely.  The problem we are
> finding arises when we get to the root.
>
> Is there any method that has been published that will succesfully
> reconstruct ancestral sequences based on a tree, without having to
> resort to introducing ambiguous residues?
>
> James.
>
> ---


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