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UC Santa Cruz Releases New Software, SAM 3.0

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ANTA CRUZ, Calif.--The University of California, Santa Cruz, has released a new version of its Sequence Alignment and Modeling system, SAM 3.0, a group of software tools for creating, refining, and using linear hidden Markov models for biological sequence analysis. For the first time, the software includes scripts for the SAM-T99 method of remote homology detection. SAM-T99 is an iterative hidden Markov model search method for creating a HMM from a single protein sequence or seed alignment using an iterative search of a protein database. Licensing information for the software, which is free for academic and non-profit use, can be found at http://www.cse.ucsc.edu/research/compbio/sam.html.

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