This data set contains two sets of helices and a multiple sequence alignment.
The two sets of helices are
known which are
helices predicted to occur for RNA sequence RF00458 by the program TRANSAT,
and experimentally proposed structure of the same sequence, respectively.
fasta is the seed homologues for the multiple sequence alignment
obtained from the RFAM database.
known are 4 column data frames, where columns
i and j denote the left-most and right-most basepairs, the
length is the number of consecutive basepairs the helix
contains, and the value is assigned to each helix on a row.
fasta is an array of named characters of length 7.
fasta is an array of strings,
data.frames in “helix” format.
Wiebe NJ, Meyer IM. (2010) TRANSAT– method for detecting the conserved helices of functional RNA structures, including transient, pseudo-knotted and alternative structures. PLoS Comput Biol. 6(6):e1000823.
Gardner PP, Daub J, Tate J, Moore BL, Osuch IH, Griffiths-Jones S, Finn RD, Nawrocki EP, Kolbe DL, Eddy SR, Bateman A. (2011) Rfam: Wikipedia, clans and the “decimal” release. Nucleic Acids Res. 39(Database issue):D141-5.
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