Sequence align. randomizations

Geoff Barton gjb at bioch.ox.ac.uk
Wed Feb 26 12:19:58 EST 1997


Steve Johnson wrote:
> 
> Can anyone suggest a program that will calculate a "similarity" value
> for two protein sequences and then randomize one sequence and
> recalculate the similarity. I need to generate some good statistical
> values for some fairly similar sequences. I know that GCG's bestfit will
> do this however, I would like to get more than 100 randomizations.
> Thanks.
> 
> Steve Johnson
> sljohnsn at staff.uiuc.edu

The AMPS package will do this.  See our WWW and ftp site for details.
Geoff.

-- 
Geoffrey J. Barton, Laboratory of Molecular Biophysics, University of
Oxford, 
Rex Richards Building, South Parks Road, Oxford OX1 3QU, U.K.
mailto:geoff.barton at ox.ac.uk, Tel: +44 1865 275368, Fax: +44 1865
510454, 
ftp://geoff.biop.ox.ac.uk, http://geoff.biop.ox.ac.uk




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