A motif searching program availalbe

higgins at ebi.ac.uk higgins at ebi.ac.uk
Mon Aug 28 08:35:48 EST 1995

In article <lemieuse.809439410 at alize.ERE.UMontreal.CA>, lemieuse at ERE.UMontreal.CA (Lemieux Sebastien) writes:
> ping at bnlux1.bnl.gov (Shiping Zhang) writes:
>>A motif searching program is available at the www site
>>It can search GenBank, Swiss-prot or your own DNA/protein sequences
>>for motifs defined in Prosite or defined by yourself.  You can
>>also retrieve entries from Prosite.
> Would it be possible to get an algorithm to find motifs without
> explicitly defining them?  This could be very interesting and really
> helpful [especially in the context of homology 3d modelling].

If, by this, you mean to find shared patterns in a set of unaligned
sequences, there is a program by Inge Jonassen call Pratt that does this:

Anonymous ftp to:


Get the file (binary transfer):


Des Higgins

EMBL/EBI, Hinxton, UK

> --
> | Sebastien Lemieux, dept. biol.  ||  Look behind the wave of changes
> | lemieuse at alize.ERE.UMontreal.CA ||  Feel the future taking shape
> | PGP public key on finger.       ||  I can see the world to come (KJ)
>   http://alize.ere.umontreal.ca/~lemieuse/

More information about the Bio-soft mailing list