Sentence examples for alignment where a from inspiring English sources

Prior to phylogenetic tree calculation, non-aligned ends have been trimmed and all portions of the alignment where a substantial number of sequences contained gaps have been removed.

Transitions from stronger support of one genealogy to another mark points in the alignment where a crossovers must have occurred in the ancestral species.

For most of the previously described arthropod Rickettsia, only 16S rDNA sequence is available, and so we allowed for missing data in the alignment where a gene had not been sequenced.

Finally, our results also show that it is more difficult to accurately infer the phylogeny from an alignment where a greater proportion of gaps reflect deletion events rather than insertion events in the evolutionary history of the sequences in the alignment.

However, DIALIGN uses a greedy approach only for multiple alignment where an exact solution is not feasible, but for pairwise alignment, the program returns an optimal alignment with respect to the underlying objective function.

Typical initializations require (i) a gap weight to be added successively to every cell (global alignment from the beginning of a sequence), and (ii) a zero in every cell (semi-global alignment where an initial gap has no penalty).

Normally, when solving MSA problems, the optimal answer is unknown and there is no concrete criterion to evaluate the quality of a given algorithm, unlike the case for Pair-wise alignment where an optimal solution can always be found.

Since BLASR can find alignments where a contig and a read overlap by only around 100 bases, we use these alignments as a filter.

We were aiming for gene alignments where a major part of the gene was covered by at least four of the 1KP Cornales species.

Percent identity measures between contig consensus sequences from the various species were obtained from BLASTN alignments where a minimum length of 200 bp was observed.

These are sampled uniformly at random ℓ times, and the mean (µ d) and the standard deviation (σ d) of the read depth and the mean (µ i) and the standard deviation (σ i) of the number of alignments where a discordant mate-pair orientation is witnessed are calculated from these sampled regions.