Swelfe: a detector of internal repeats in sequences and structures.

Anne-Laure Abraham (1, 2) , Eduardo P C Rocha (1, 2) , Joël Pothier (1)

1 ABI - Atelier de BioInformatique
2 Génomique évolutive des microbes

Intragenic duplications of genetic material have important biological roles because of their protein sequence and structural consequences. We developed Swelfe to find internal repeats at three levels. Swelfe quickly identifies statistically significant internal repeats in DNA and amino acid sequences and in 3D structures using dynamic programming. The associated web server also shows the relationships between repeats at each level and facilitates visualization of the results. AVAILABILITY: http://bioserv.rpbs.jussieu.fr/swelfe. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Keywords: bioinformatics; duplication

Domains: Life Sciences [q-bio]; Quantitative Methods [q-bio.QM]; Computer Science [cs]; Bioinformatics [q-bio.QM]

Anne-Laure Abraham, Eduardo P C Rocha, Joël Pothier. Swelfe: a detector of internal repeats in sequences and structures.. Bioinformatics, 2008, 24 (13), pp.1536-7. ⟨10.1093/bioinformatics/btn234⟩. ⟨pasteur-00336123⟩