gt-seqmutate - Mutate the sequences of the given sequence file(s).
gt seqmutate [option ...] [sequence_file ...]
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 is 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.
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