Package rnamotif-3.0.7-1

The rnamotif program searches a database for RNA sequences that match a "motif" describing secondary structure interactions. A match means that the given sequence is capable of adopting the given secondary structure, but is not intended to be predictive. Matches can be ranked by applying scoring rules that may provide finer distinctions than just matching to a profile. The rnamotif program is a (significant) extension of earlier programs rnamot and rnabob. The nearest-neighbor energies used in the scoring section are based on Turner's rules. The code was written by Tom Macke; Tom Macke and Dave Case wrote the Users' manual. See home page for additional info and literature references. There are four binaries: rnamotif The actual serach program. rmprune Remove hits that differ only by 'unzipped' base pairs. rmfmt Format the output. rm2ct Convert the output to ct-format suitable for drawing. Usage is described in the README file