[Bioperl-l] SSR electronic searches

[Elia Stupka]

> A friend of mine is interested in programs to search sequence databases for 
> single sequence repeats (SSR) or microsatellites.  I

To my knowledge the following three programs are usually used to predict
SSRs:

TRF - Tandem Rpeat Finder - http://c3.biomath.mssm.edu/trf.html

Sputnik - http://iubio.bio.indiana.edu/soft/molbio/nhgri/sputnik/

Modified Sputnik for non-perfect repeats -
http://capb.dbi.udel.edu/main/ssr-proj/ssr-file/description.html

TROLL - Tandem Repeat Occurrence Locator -
http://sourceforge.net/projects/finder/

Hope this is of help

Elia

********************************
* http://www.fugu-sg.org/~elia *
* tel:    +65 6874 1467        *
* mobile: +65 9030 7613        *
* fax:    +65 6779 1117        *
********************************