Optimizing Smith-Waterman alignments

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dc.creatorOlsen, Rolf
dc.creatorHwa, Terence
dc.creatorLassig, Michael
dc.date1998-11-16
dc.date.accessioned2026-07-07T03:12:05Z
dc.date.available2026-07-07T03:12:05Z
dc.descriptionMutual correlation between segments of DNA or protein sequences can be detected by Smith-Waterman local alignments. We present a statistical analysis of alignment of such sequences, based on a recent scaling theory. A new fidelity measure is introduced and shown to capture the significance of the local alignment, i.e., the extent to which the correlated subsequences are correctly identified. It is demonstrated how the fidelity may be optimized in the space of penalty parameters using only the alignment score data of a single sequence pair.
dc.description12 pages, 5 figures
dc.identifierhttps://arxiv.org/abs/cond-mat/9811225
dc.identifierhttp://arxiv.org/abs/cond-mat/9811225
dc.identifier.urihttp://salesiana.dossiersoluciones.com/handle/123456789/28777
dc.subjectCondensed Matter
dc.subjectBiological Physics
dc.subjectQuantitative Biology
dc.titleOptimizing Smith-Waterman alignments
dc.typetext

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