Sentence examples for for a given alignment from inspiring English sources

Moreover, Golubchik et al. ([3]) showed that the absence of amino acid residues often leads to an incorrect placement of gaps in the alignments, even when the sequences were otherwise identical, and, for a given alignment, not all amino acid positions will be aligned with equal confidence [4].

For a given alignment identity x, let Ix be the set of target strains with which the first segment has identity at least x.

When all models generated for a given alignment have been evaluated, the predictor score distribution of the formers is assigned to the latter.

Once the maximum likelihood for all available models is estimated and merged into a file by PalmDaemon, statistical information of the parameters can be accessed to evaluate the fitness of a model for a given alignment.

For a given alignment, the entropy of an amino acid position H x) is defined as H x) = −∑ P x) log P x) where x is one of 20 amino acid residue types.

In phylogenetic model comparison, we wish to choose between two competing models as the better explanation for a given alignment.

In addition to insertion and deletion probabilities that vary along the profile, the improvement over, e.g. PSI-BLAST comes from a number of other innovations, including use of the forward algorithm instead of Viterbi (Durbin et al., 1998) and a better algorithm for estimating a profile from a given alignment.

Each of these methods produces a set of residues that are potentially important for functional differences between subfamilies of a given alignment.

For example, if a given alignment pattern is "AACGGA", the resulting set partition would be P i) = {{1, 2, 6}, {3}, {4, 5}}.

As a conservative pruning procedure, we only consider aligned node pairs which appear in more than half the runs (for comparison, under random matching a given alignment partner appears with probability 1/ N ~ 0.03).

What we have not attempted to show is that for any given alignment the selected model is the actual model that gave rise to the observed data.