RNAmotif: Difference between revisions
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The rnamotif program [1] 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 [2-4]. The nearest-neighbor energies used in the scoring section are based on refs. [5] and [6]. An example of applying the code to finding tRNA genes is given in Ref. [7]. The code was written by Tom Macke; Tom Macke and Dave Case wrote the Users' manual. | |||
== Links == | == Links == | ||
Revision as of 18:56, 7 July 2009
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Analyzes nucleotide sequences for secondary structural motifs |
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Short Description
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The rnamotif program [1] 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 [2-4]. The nearest-neighbor energies used in the scoring section are based on refs. [5] and [6]. An example of applying the code to finding tRNA genes is given in Ref. [7]. The code was written by Tom Macke; Tom Macke and Dave Case wrote the Users' manual.
Links
- RNAmotif as well as other bioinfomatics programs can be found here with user manuals.
Requirements
Hardware/Software requirements, if applicable
User notes
Most computer will be able to run RNAmotif upon downloading, but some user may have to edit the 'config.h' file to customize the program for your settings.
- Make sure your system is up to date, this seems to cause most of the problems.
See Also
References
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