MMF input form on Bioputer BIAS server.

This application lets you find consensus motifs based on the results of several different methods for de novo regulatory motif prediction.

your e-mail address:

Input data

input sequences:upload input sequences in a fasta file
organism:select an organism

Motif Prediction

MEME:use MEME
Weeder:use Weeder
Bioprospector:use Bioprospector
MDscan:use MDScan
search on both strands:search for motifs on both DNA strands
motif length:set the length of expected motifs
number of results for each program:number of motifs returned
external motif predictions:upload motif predictions from some external motif prediction program

Reference Motif Database

Reference motif database:
user supplied database:upload a different motif database

Motif comparison

position similarity score:
position type:
motif filtering threshold:set the threshold for identical motif filtering

Motif clustering

use relative threshold:if unset, the absolute threshold is used
motif clustering threshold:set the threshold for motif clustering

Consensus Motifs

column trimming threshold:trim columns with IC less than
column similarity function for consensus:

Output

provide data for weblogo:include data for weblogo generation
Number of sequences for weblogo:The more sequences, the more detailed the logo
return