codonalign.py

Aligns nucleotide sequences based on an aligned peptide
sequence. Neither alignment need be sorted or in any
particular order.

-nuc           unaligned nucleotide sequence in fasta format
-pep           aligned peptide sequence in fasta format

-out           name of outfile. Writes to stdout if unspecified.
-v             { [1] } verbosity
-h             Prints documentation.

-version       print version info and exit

$Id: codonalign.py,v 1.1 2004/10/10 02:53:09 nghoffma Exp $