CompariMotif takes two lists of protein motifs and compares them to each other, identifying which motifs have some degree of overlap. CompariMotif outputs a table of all pairs of matching motifs, along with their degree of similarity (information content) and their relationship to each other.


The CompariMotif webserver is currently powered by CompariMotif 3.6.


Publications: please cite

When using results obtained with one of the motif databases provided, please cite the appropriate reference. (Click here for details.)

News and Updates:

  • August 2012: upgraded to CompariMotif 3.6, which now accepts ELM downloads and variable-length non-wildcards (although these will be split).
  • August 2012: migration to new server. (Please report any odd behaviour.)
  • April 2012: new ELM database entries added.

Input options

Enter motifs (max 10000 characters)

Motif list

Motif Database
Enter motifs (max 10000 characters)

Motif list

Motif Database
Normalised IC cut-off

Must exactly match all fixed positions in the motifs from
Input motifs.
Searchdb motifs.
Both input and searchdb motifs.
Min. motif IC
Min. defined positions
Mismatches allowed
Trims Xs
Reverse motifs
AA Freq. File