The program calculates the

• Correlation between codon multiplicities and amino acid propensities
• RNA single mutation numbers and amino-acid substitution matrices
• RNA double mutation numbers and amino-acid substitution matrices

The program can be run as
codon [directive argument] [directive argument]...
where

Directive	Argument	Default
-cf	Codon usage frequncy file
-mf	Amino acid substitution matrix file	matrices.AA
-iv	Output level	1
-of	Output file	STDOUT

The program is written in Fortran-77 and can be compiled with any Fortran compiler, including GNU fortran:

f77 -o codon codon.f

to obtain the executable codon