Provided by: genometools_1.5.1-2ubuntu1_amd64
gt-seqmutate - Mutate the sequences of the given sequence file(s).
gt seqmutate [option ...] [sequence_file ...]
-rate set the mutation rate (default: 1) -width set output width for FASTA sequence printing (0 disables formatting) (default: 0) -o redirect output to specified file (default: undefined) -gzip write gzip compressed output file (default: no) -bzip2 write bzip2 compressed output file (default: no) -force force writing to output file (default: no) -help display help and exit -version display version information and exit
For each position in the given sequences it is randomly determined with probability (mutation rate / 100) if the given position is mutated. If so, in 80% of the cases a substitution is performed, in 10% an insertion, and in 10% a deletion, respectively. For substitution and insertion events, the nucleotide i s generated randomly without regard to the original nucleotide. That is, resubstitutions are possible. This procedure equals the one described on page 1867 of the following paper T.D. Wu and C.K. Watanabe. GMAP: a genomic mapping and alignment program for mRNA and EST sequences. Bioinformatics, 21(9):1859-1875, 2005.
Report bugs to <email@example.com>. 10/07/2012 GT-SEQMUTATE(1)