I am interested in a DOS or MAC based program which
will output a matrix of %identical or % similar amino
acid positions of multiple aligned sequences. I am
well aware of programs such as PROTDIST, MULTALIN,
CLUSTAL, FASTA, etc. which generate a scoring matrix.
However, for the purpose of generating a simple comparative
matrix (for a Table in a paper NOT for phylogenetic analysis),
I have yet to find a program which will simply score the number
of identical aa positions or similar aa positions (ie. Ileu, Leu
and Val are similar but not identical).
I would greatly appreciate any information on such a program.
Dept. of Biochemistry
JRBROWN at AC.DAL.CA