Input the promoter sequences or the TF-maps to perform the multiple TF-map alignment
(please click here for further information about the data and the algorithm):

SEQUENCES/MAPS

Upload the file A

Engine behaviour: Mapping and meta-alignment Only meta-alignment

Do you want a graphical representation of the results ?
(it might be time consuming)

Maximum accepted file size: 10 sequences (500 bps) or 1000 elements
Field separator: TAB char (\t)

MAPPING OPTIONS

Please select the collection of weight matrices to perform the mapping from nucleotides into TF binding sites (please click here for further information about the mapping functions) Matrix collections: JASPAR 1.0 TOP-50: 50 matrices

Mapping threshold quality:

0.25 0.5 0.75 1.0

Display the predictions

TF-MAP ALIGNMENT CONFIGURATION

Please select the parameters to perform the TF-map alignment
(please click here for further information about the meta-alignment parameters)

0 0.1 0.25 0.5 0.75 1.0	α value
0 0.1 0.25 0.5 0.75 1.0	λ value
0 0.1 0.25 0.5 0.75 1.0	μ value
0 -1 -2 -5 -10 -20	γ value
1 10 25 50 100	c value

Show the alignment in GFF format

DEMO

To see an example with the form ready to submit, please click here.

• Actin, α-cardiac (ACTC) gene
  
  
• See further details about the promoters HERE
  
  
• Experimental annotations included to evaluate the multiple TF-map alignment.
  -- Annotations extracted from ABS (Blanco et al., Nucleic Acids Research, 34:D63-D67, 2006) --

ABOUT mmeta WEB SERVER

The Multiple meta-alignment ^server is the web server to mmeta, a program to align high-level sequence features taking into account their score and positional conservation. Visit the mmeta homepage for additional information about this application.

AUTHORS

Version 1 of the mmeta^server has been written by Enrique Blanco