[BiO BB] finding repeat sequences

[Seema Trivedi]

Hi
One program is SPUTNIK at the following link http://espressosoftware.com/pages/sputnik.jsp
but one will have to modify it a bit to take longer sequences as it analyzes only short seq. You can also use the online version of the same at http://cbi.labri.fr/outils/Pise/sputnik.html.
The modified version of this program is available possibly with MORGANTE 
            MICHELE michele.morgante at dpvta.uniud.it as indicated in the following link http://bioinf.dimi.uniud.it/software/software/sputnik. However, do not know the drawbacks of this modified version.

Seema Trivedi




> Date: Mon, 8 Dec 2008 09:55:11 -0800
> From: idoerg at gmail.com
> To: bbb at bioinformatics.org
> Subject: Re: [BiO BB] finding repeat sequences
> 
> http://tandem.bu.edu/trf/trf.html
> 
> 
> 
> On Fri, Dec 5, 2008 at 9:05 PM, jalil fallah <jalil.fallah at gmail.com> wrote:
> 
> > Dear all ,
> >
> > I was wondering if you would mind answering my request.
> > How could I access to a software or a database to find tandem repeat
> > sequences in a prokaryotic gene ?
> >
> > Thank you in advance
> >
> >
> > --
> > Jalil Fallah
> > Ph.D Candidate of Medical Bacteriology
> > Dep. of Bacteriology
> > School of Medicine
> > Tarbiat Modarres University
> > Tehran - Iran
> > P.O.Box 14115-331
> > Cell Phone +98- 912- 5093060
> > _______________________________________________
> > BBB mailing list
> > BBB at bioinformatics.org
> > http://www.bioinformatics.org/mailman/listinfo/bbb
> >
> 
> 
> 
> -- 
> Iddo Friedberg, Ph.D.
> Atkinson Hall, mail code 0446
> University of California, San Diego
> 9500 Gilman Drive
> La Jolla, CA 92093-0446, USA
> T: +1 (858) 534-0570
> http://iddo-friedberg.org
> _______________________________________________
> BBB mailing list
> BBB at bioinformatics.org
> http://www.bioinformatics.org/mailman/listinfo/bbb

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