Sentence examples for alignment to estimate from inspiring English sources

We then applied the tool Rate4Site [ 22] to the multiple protein sequence alignment to estimate the relative evolutionary rate for each site, with the supplied phylogenetic tree that was used to calculate PhastCons scores in UCSC genome browser at the nucleotide level.

(GTR = General time reversible model; HKY = Hasegawa-Kishono-Yano model; G = The shape parameter of a gamma distribution; I = The proportion of invariable sites in the alignment) To estimate the genomic divergence for these newly determined markers, we calculated the pairwise Kimura two-parameter distances [ 16] among the 10 primate species.

The structure-based sequence alignments are correlated with the PCAIN-based anchored alignments to estimate the efficacy of the PCAIN approach to sequence alignment (Figure 4C).

Often there is too little information in the original alignments to estimate anything but a zeroth order model for the transcription factor binding site, however it can be combined with a higher order background model to take into account dependencies in the nucleotide composition.

In this study, we showed the importance of using recombination-free alignments to estimate precise τ and θ.

The fourth approach makes use of both BES and existing genomic sequence by using BES-to-sequence alignments to estimate BAC overlaps more accurately than is possible from fingerprint overlaps alone.

Instead, we use alignment rates to estimate the accuracy of error correction.

An additional 43 kbp of Sanger sequence was used to validate variable sites in the multiple sperm whale alignment and to estimate sequencing error of the NGS platforms.

This results in a list of positions for each color channel that should be identical after alignment, allowing to estimate a function that maps one channel onto another one (Goshtasby 1988).

Additionally, mVISTA plots were constructed using the annotated features of C. resedifolia and C. impatiens plastomes with a rank probability of 0.7 (70% alignment conservation) to estimate genome-wide conservation profiles [ 80].

As an alternative to heuristic scoring schemes, there have been also research efforts to develop probabilistic models for sequence alignment that can be used to evaluate and compare potential alignments and to estimate the symbol-to-symbol alignment probabilities.