measuring distances by amino acid composition

Erlendur Helgason erlendur.helgason at biotek.uio.no
Thu Jan 20 04:48:47 EST 2000


You should be able to use MEGA for this,
http://evolgen.biol.metro-u.ac.jp/MEGA/

Erlendur


Thorsten Burmester wrote in message <85d7ia$ro0$1 at mercury.hgmp.mrc.ac.uk>...
>James McInerney wrote:
>>
>> Thorsten,
>>
>> One of the programs in the molphy package calculates amino acid distance
matrices.
>> There is a reference ot it on Joe Felsenstein's webpage:
>>
>> http://evolution.genetics.washington.edu/
>
>Thanks. I have MOLPHY. However, the program PROTST.EXE does not estimate
>distances but plain aa composition. I would like to estimate distances
>based on the aa compositions of the different proteins.
>
>> I can send you a macintosh version of my program GCUA that will do this,
>> although it needs fasta-formatted protein-coding DNA sequences as input
>> (it converts to proteins and then calculates a distance matrix).
>
>Unfortunately, I don't have a Mac. UNIX or DOS are always welcome.
>
>Thorsten
>
>








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