Input is read from standard input. The format is very much like that of the fastDNAml program. The first line of the input file gives the number of sequences and the number of bases per sequence. Also on this line are the requested program option letters.
Any auxiliary data required by the options follow on subsequent lines.
Elsewhere in the data matrix, blanks and numbers are ignored. The default data matrix format is interleaved. If all the data for a sequence are on one input line, then interleaved and noninterleaved are equivalent. The program writes to standard output. If the C option is specified, the program also categorizes the rates into the requested number of categories.