An exact and efficient method for IUPAC motif discovery in DNA sequences
The DiNAMO software implements an exhaustive algorithm to detect over-represented IUPAC motifs in a set of DNA sequences. It has two modes: scanning mode, where all windows are parsed, or fixed-position mode, where only motifs occurring at a specific position in the sequences are taken into account.
DiNAMO can be used in a variety of applications, such as ChIP-seq peak analysis for transcription factor binding sites identification, or finding motifs that induce systematic sequencing errors.