Functional equivalent of GCG Findpatterns?

Tania Broveak taniab at egenetics.com
Tue Jan 18 07:03:10 EST 2000


On the web, the EXPASY server has links lots of protein analysis programs.
They list FPAT, which finds patterns in protein databases:

http://alfredo.wustl.edu/fpat/

THe expasy home page is at:
www.expasy.ch


Keith James wrote:

> >>>>> "Greg" == Greg Quinn <greg at franklin.burnham-inst.org> writes:
>
>     Greg> Hi; Does anyone know of a publicly available functional
>     Greg> equivalent of the GCG FindPatterns program?
>
> The EMBOSS program fuzznuc will search sequences or databases for
> arbitrary, short patterns in a similar manner to findpatterns. It
> allows a number of mismatches to be supplied.
>
> The output is more terse than findpatterns, but on the other hand
> there are no arbitrary limits on the length of sequence to be searched
> or number of hits reported.
>
> fuzznuc is part of the EMBOSS package which already covers much of
> GCG's functionality. It's homepage is at:
>
> http://www.sanger.ac.uk/Software/EMBOSS/
>
> hth
>
> --
>
> Keith James  --  kdj at sanger.ac.uk  --  http://www.sanger.ac.uk/Users/kdj
> The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambs CB10 1SA






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