title: A direct method for computing extreme value (Gumbel) parameters for gapped biological sequence alignments.
abstract: We develop a general method for computing extreme value distribution (Gumbel, 1958) parameters for gapped alignments. Our approach uses mixture distribution theory to obtain associated BLOSUM matrices for gapped alignments, which in turn are used for determining significance of gapped alignment scores for pairs of biological sequences. We compare our results with parameters already obtained in the literature.
authors.affiliation: Department of Mathematical Sciences, Middle Tennessee State University, 1301 E. Main Street, Murfreesboro, TN 37132, USA.
authors.forename: Terrance
authors.initials: T
authors.lastname: Quinn
authors.affiliation: Department of Mathematical Sciences, Middle Tennessee State University, 1301 E. Main Street, Murfreesboro, TN 37132, USA.
authors.forename: Zachariah
authors.initials: Z
authors.lastname: Sinkala
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D015233:Models, Statistical; D011336:Probability; D016415:Sequence Alignment; D012984:Software
keywords: BLOSUM matrix; Gumbel distribution; bioinformatics; biological sequences; direct method; extreme value distribution; gapped alignment; mixture method; sequence alignment