The MERCI motif locator program is called from within MERCI to locate the motifs in the positive and negative sequence set. It can also be called directly to locate the found motifs in a third sequence set by typing
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Bioinformatics. 2011 May 1;27(9):1231-8. doi: 10.1093/bioinformatics/btr110. Epub 2011 Mar 3.
Identifying discriminative classification-based motifs in biological sequences.
Vens C1, Rosso MN, Danchin EG.