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Please note that all jobs and outputs will be deleted two weeks after submission. This goes for both registered and unregistered users. Currently, in the beta version, deleted jobs remain visible on the jobs list, but will have a status like “UNKNOWN”.

Input Files

There is a limit of roughly 30MB for input files.

The one and only service, “DCA”, requires these files to be FASTA format protein multiple sequence alignments. Lower-case letters and ’.’ characters are filtered out, upper-case letters and ’-’ characters are preserved. Other characters are not allowed. Only the 20 basic IUPAC protein single-letters are allowed. Please do not use amibiguity codes or modified amino-acid codes. Thus, the only allowable characters in a sequence are: “ACDEFGHIKLMNPQRSTVWY-acdefghiklmnpqrstvwy.”

We do not recommend running the service on alignments of more than 500 columns. (After removing gap/insert columns.)

Example Input

As example input, we provide a JACKHMMER alignment for PDB structure PDB:5pti, the bovine pancreatic trypsin inhibitor.

Download Example File


Results are available to all users, registered and unregistered. However, registration makes tracking ones results far easier.


Unregistered users will have their guest account name saved in a cookie. It should still be possible to use the site without accepting the cookie, but you will need to bookmark the direct-links to results.

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Copyright 2013 Bryan Lunt, Faruck Morcos, All rights reserved.