QOMA (Quasi-Optimal Multiple Alignment) is an alignment of three or more sequences. It is widely used in many applications such as phylogenetic analysis and identification of conserved motifs.
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Xu Zhang, Tamer Kahveci,
QOMA2: Optimizing the alignment of many sequences,
Bioinformatics. 2007 Jan 15;23(2):162-8. Epub 2006 Nov 22.
QOMA: quasi-optimal multiple alignment of protein sequences.
Zhang X, Kahveci T.