Infernal cmscan (SOAP) SOAP

Infernal cmscan is used to search the CM-format Rfam database. The Rfam database is a collection of RNA families, each represented by multiple sequence alignments, consensus secondary structures and covariance models.

Infernal cmscan is used to search the CM-format Rfam database. The Rfam database is a collection of RNA families, each represented by multiple sequence alignments, consensus secondary structures and covariance models.

This service does not require a license but should be used according to EMBL-EBI’s policies http://www.ebi.ac.uk/about/terms-of-use

Free.

E-mail supplied for submission must be a valid e-mail address and no more than 30 concurrent jobs should be submitted at any one time, see http://www.ebi.ac.uk/Tools/webservices/ and the EMBL-EBI Terms of Use: http://www.ebi.ac.uk/about/terms-of-use

EMBL-EBI support: http://www.ebi.ac.uk/support/WebServices

McWilliam H., Li W., Uludag M., Squizzato S., Park Y.M., Buso N., Cowley A.P. and Lopez R. (2013) “Analysis Tool Web Services from the EMBL-EBI” Nucleic Acids Res. 41(Web Server issue):W597-600 PMID: 23671338 (http://europepmc.org/abstract/MED/23671338) DOI: 10.1093/nar/gkt376

Goujon M., McWilliam H., Li W., Valentin F., Squizzato S., Paern J. and Lopez R (2010) “A new bioinformatics analysis tools framework at EMBL-EBI” Nucleic Acids Res. 38(Web Server issue):W695-9 PMID: 20439314 (http://europepmc.org/abstract/MED/20439314) DOI: 10.1093/nar/gkq313

Burge S.W., Daub J., Eberhardt R., Tate J., Barquist L., Nawrocki E.P., Eddy S.R., Gardner P.P. and Bateman A. (2013) “Rfam 11.0: 10 years of RNA families” Nucleic Acids Res. 41(Database issue):D226-32 PMID: 23125362 (http://europepmc.org/abstract/MED/23125362) DOI: 10.1093/nar/gks1005

Nawrocki E.P. and Eddy S.R. (2013) “Infernal 1.1: 100-fold faster RNA homology searches” Bioinformatics 29(22):2933-2935 PMID: 24008419 (http://europepmc.org/abstract/MED/24008419) DOI: 10.1093/bioinformatics/btt509