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Bioinformatics Advance Access originally published online on March 23, 2009
Bioinformatics 2009 25(10):1335-1337; doi:10.1093/bioinformatics/btp157
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© Crown Copyright 2009.
Reproduced with the permission of the Controller of Her Majesty's Stationery Office.

Infernal 1.0: inference of RNA alignments

Eric P. Nawrocki , Diana L. Kolbe and Sean R. Eddy *

HHMI Janelia Farm Research Campus, Ashburn, VA 20147, USA\}

*To whom correspondence should be addressed.


  Abstract

Summary: INFERNAL builds consensus RNA secondary structure profiles called covariance models (CMs), and uses them to search nucleic acid sequence databases for homologous RNAs, or to create new sequence- and structure-based multiple sequence alignments.

Availability: Source code, documentation and benchmark downloadable from http://infernal.janelia.org. INFERNAL is freely licensed under the GNU GPLv3 and should be portable to any POSIX-compliant operating system, including Linux and Mac OS/X.

Contact: nawrockie,kolbed,eddys{at}janelia.hhmi.org

Associate Editor: Ivo Hofacker

Received on January 13, 2009; revised on March 11, 2009; accepted on March 14, 2009

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