From CAGT

Comet

What is it?

COMET stands for Cluster Of Motifs E-value Tool. It finds statistically significant clusters of motifs in a DNA sequence. The motifs are represented using 4 x L matrices, which record the frequencies of the nucleotides A, C, G, and T at each position in the motif. The Web version of Comet allows you to select motifs from a small library that we have constructed, or you can enter your own matrices, for example by copying and pasting them directly from the TRANSFAC database.

Input Form for using Comet on the Web.
Download Comet to use on your own computer.
Our paper on Comet.