… alignments. Our approach, which seeks to find the alignment which is closest to the truth
under our statistical … and produces concordant alignments in protein and codon space. It is …

… The advantages of a statistical approach to alignment include the … statistical alignment
includes better models, the extension of pairwise alignment algorithms to many sequences, faster …

… We conclude that the statistical theory for ungapped alignments carries over essentially
unchanged to gapped alignments. All that is required for its application are good estimates of h …

… of an alignment score by assessing its location among a distribution of background alignment
… of profile–profile alignment algorithms where the normalization of alignment scores has …

… Herein, we introduce a novel computational approach for statistical alignment. … blocks of the
long-indel statistical alignment. Our proposed procedure serves as … Fast statistical alignment …

… estimation of the statistical significance of scores. Optimal local sequence alignment scores
follow … Moreover, optimal alignment scores are less powerful than probabilistic scores that …

… The distribution of optimal local alignment scores of random sequences plays a vital role
in evaluating the statistical significance of sequence alignments. These scores can be well …

… alignments. Using simulations, I show that these methods lead to fast and accurate pairwise
alignment … Also, I show that it is possible, with these methods, to align and infer evolutionary …

… statistical alignment models and heuristic models. We present a new statistical alignment
model… To keep the training fast, we consider only a small fraction of all alignments. We compare …

… to accelerate pairwise statistical significance estimation of local sequence alignment using
… We further extend the parallelization technique to estimate pairwise statistical significance …