The Open Applied Informatics Journal

2008, 2 : 14-17
Published online 2008 April 25. DOI: 10.2174/1874136300802010014
Publisher ID: TOAINFOJ-2-14

JSTRING: A Novel Java Tandem Repeats Searcher in Genomic Sequences with an Interactive Graphic Output

Valeria De Fonzo , Filippo Aluffi-Pentini and Valerio Parisi
Dipartimento di Medicina Sperimentale, Università di Roma “La Sapienza”, Viale Regina Elena 324, 00161 Roma, Italy.

ABSTRACT

The search of Tandem Repeats in a genomic sequence is of growing interest but unfortunately the existing tools have the drawback of producing cumbersome results that require a painstaking interpretation. In order to help users interpret the results at first glance, we implemented JSTRING that shows the results also in a very clear graphic format, thus allowing their immediate survey.

The software is freely available at: http://bioinf.dms.med.uniroma1.it/JSTRING/.

Keywords:

Tandem repeat, genome, graphic results.