Mclip is a tool for motif-elucidation in DNA/RNA-sequences. Although there are a large number of motif-detection tools around, most require “nuisance” parameters to be specified (i.e. things you would like the program to tell you, not the other way around), such as the exact width of the motif you are searching for, or how often it will be present in the set of sequences you supplied. Quite a few program will also return the best motif only, without any estimate of how good the second best would have been, or provide cryptic statistical estimates for the “quality” of detected motifs. Mclip uses a deterministic, expectation-maximization approach to motif detection that can find gapped motifs and provides a P-value or E-value estimate for each motif found in a sequence.
- Linux / Windows / Mac OsX
:: MORE INFORMATION
Frickey T. and Weiller G. (2007)
Mclip: motif detection based on cliques of gapped local profile-to-profile alignments.