Rose (Random-model Of Sequence Evolution) implements a new probabilistic model of the evolution of RNA-, DNA-, or protein-like sequences. Guided by an evolutionary tree, a family of related sequences is created from a common ancestor sequence by insertion, deletion and substitution of characters. During this artificial evolutionary process, the `true’ history is logged and the `correct’ multiple sequence alignment is created simultaneously. The model also allows for varying rates of mutation within the sequences, making it possible to establish so-called sequence motifs.
Jens Stoye – Folker Meyer – Dirk Evers
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Rose: generating sequence families
J. Stoye, D. Evers, F. Meyer
in: Bioinformatics – (formerly CABIOS), Volume 14, Issue 2, March 1998, pp. 157-163, OUP Press