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Maximum-likelihood estimation of the statistical distribution of Smith-Waterman local sequence similarity scores.

Mott, R; (1992) Maximum-likelihood estimation of the statistical distribution of Smith-Waterman local sequence similarity scores. Bull Math Biol , 54 (1) pp. 59-75. 10.1007/BF02458620.

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Abstract

A method is described for estimating the distribution and hence testing the statistical significance of sequence similarity scores obtained during a data-bank search. Maximum-likelihood is used to fit a model to the scores, avoiding any costly simulation of random sequences. The method is applied in detail to the Smith-Waterman algorithm when gaps are allowed, and is shown to give results very similar to those obtained by simulation.

Type: Article
Title: Maximum-likelihood estimation of the statistical distribution of Smith-Waterman local sequence similarity scores.
Location: United States
DOI: 10.1007/BF02458620
Keywords: Algorithms, Amino Acid Sequence, Computer Simulation, Data Interpretation, Statistical, Likelihood Functions, Models, Statistical, Molecular Sequence Data, Proteins, Sequence Alignment, Sequence Analysis, Protein, Sequence Homology, Statistical Distributions
UCL classification: UCL > Provost and Vice Provost Offices
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences > Genetics, Evolution and Environment
URI: http://discovery.ucl.ac.uk/id/eprint/1487578
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