A heuristic approximation to the score distribution of gapped alignments in the logarithmic domain is presented. The method applies to comparisons between random, unrelated protein sequences, using standard score matrices and arbitrary gap penalties. It is shown that gapped alignment behavior is essentially governed by a single parameter, alpha, depending on the penalty scheme and sequence composition. This treatment also predicts the position of the transition point between logarithmic and l...Expand abstract
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- Mary Ann Liebert Inc.
- Journal of computational biology : a journal of computational molecular cell biology
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Approximate statistics of gapped alignments.
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