Infernal 1.0: inference of RNA alignments

@article{Nawrocki2009Infernal1I,
  title={Infernal 1.0: inference of RNA alignments},
  author={Eric P. Nawrocki and Diana L. Kolbe and Sean R. Eddy},
  journal={Bioinformatics},
  year={2009},
  volume={25 10},
  pages={
          1335-7
        }
}
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. 
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