Sentence examples for over alignment from inspiring English sources

The sum of all scores over alignment columns for a query pair of sequences serves as an approximation of the likelihood ratio statistic comparing the model of independence (null) with the model of homology (alternative).

Quartets containing short internal branches (less than three substitutions over alignment length) or long external branches (10 times longer than internal branch) were excluded from analyses before the summarizing step.

Screening for diversifying selection over alignment positions was implemented with mixed effects model of evolution with default parameters, due to its ability of detecting episodic selection (Murrell et al. 2012).

In addition, for the most conserved Cons alignments (>86% identity over alignment length) the fraction of human-specific positively selected genes was very similar for Cons and PALO (∼0.7%) but still more than double for Longest (∼1.6%).

Over pairs of orthologous proteins from human and each of the other species, and excluding protein pairs with perfectly conserved splicing which contribute a large number of tied scores, the Pearson correlation coefficient between sequence identity (number of identical residues over alignment length) and fraction of exons conserved (with 90% overlap) is a weak 20-42%.

The typical use case for modern likelihood-based inferences are so-called partitioned analyses, where subsets of the alignment sites form partitions that evolve under a distinct set of evolutionary model parameters (e.g. α shape parameter, GTR rates, base frequencies, etc).. ExaML parallelizes likelihood calculations over alignment sites using MPI (Message Passing Interface).

The methods do not rule out that over-alignment has lead to artifacts in the sub-tomogram averaging structures.

Intuitively, this ratio measures the average quality of the alignment over aligned and non-aligned sites.

That year, the state took over the alignment that was maintained by the county.

83 years after the abandonment of the Great Bend and Newburgh Turnpike (1936), the Pennsylvania Department of Highways took over the alignment of the highway for the designation of Legislative PA 371.

It should be noted that we do not expect a better performance of LMS distances over alignment-based distances when comparing catalytic domains only.