Stemloc

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Stemloc
Developer(s) Ian Holmes (UC Berkeley)
Stable release 1
Operating system UNIX, Linux, Mac, Cygwin on Windows XP
Type Bioinformatics tool
Licence Open source
Website Stemloc homepage

Stemloc is a program for pairwise RNA structural alignment based on probabilistic models of RNA structure known as Pair stochastic context-free grammars. Stemloc implements constrained versions of the Sankoff algorithms for simultaneous structure prediction and sequence alignment of multiple RNAs.

Stemloc can be downloaded as part of the DART software package. It accepts input files in either FASTA or Stockholm format.

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