Summation test for gap penalties and strong law of the local alignment score

Details Summation test for gap penalties and strong law of the local alignment score Summation test for gap penalties and strong law of the local alignment score

2005-05-12

arxiv.org/abs/math/0505247v1

Annals of Applied Probability 2005, Vol. 15, No. 2, 1492-1505

Mathematics

Probability

Published at http://dx.doi.org/10.1214/105051605000000061 in the Annals of Applied Probability (http://www.imstat.org/aap/) by

Scientific paper

10.1214/105051605000000061

A summation test is proposed to determine admissible types of gap penalties for logarithmic growth of the local alignment score. We also define a converging sequence of log moment generating functions that provide the constants associated with the large deviation rate and logarithmic strong law of the local alignment score and the asymptotic number of matches in the optimal local alignment.

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