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Bioinformatics Advance Access published online on June 5, 2007
Bioinformatics, doi:10.1093/bioinformatics/btm293
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© The Author (2007). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Alvira: comparative genomics of viral strains

François Enault a,*,{dagger}, Romain Fremez a,{dagger}, Eric Baranowski b and Thomas Faraut a

a Laboratoire de Génétique Cellulaire INRA UMR444, Chemin de Borde Rouge BP52627 31326 Castanet Tolosan Cedex, b Laboratoire des Interactions Hotes-Agents Pathogènes ENVT UMR1225, 23 chemin des Capelles 31000 Toulouse, France.

*To whom correspondence should be addressed. François Enault, E-mail: fenault{at}toulouse.inra.fr


  Abstract

Motivation: The Alvira tool is a general purpose multiple sequence alignment viewer with a special emphasis on the comparative analysis of viral genomes. This new tool has been devised specifically to address the problem of the simultaneous analysis of a large number of viral strains. The multiple alignment is embedded in a graph that can be explored at different levels of resolution.

Availability: The Alvira software is available at: http://bioinfo.genopole-toulouse.prd.fr/Alvira

Supplementary Information: a tutorial is available at Alvira’s homepage.

Associate Editor: Dr. Chris Stoeckert

{dagger}These authors contributed equally to this work

Received on March 21, 2007; revised on May 18, 2007; accepted on May 23, 2007

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