1 Wed Dec 5 14:33:35 GMT 2001
4 This program takes a FASTA file, and produces a OC input file as
5 output. The FASTA file should be an alignment. The code finds the begining
6 and end of the sequence in each alignment, the number of residues for
7 in each sequence, and then does an all against all pairwise identity
8 calculation. This is the number of identical residues divided by the
9 number of residues in the longest sequence, shared gaps are ignored. A
10 percentage is returned.
13 Very little error checking is done on the filling of the structures with
15 It seems quite slow to do the pairwise comparisons.