Sentence examples for using the alignment for from inspiring English sources

To find the confidence interval around a reference tree, the site-wise log likelihoods were calculated using the alignment for the reference tree.

Finally, the average identities and coverage were calculated using the alignments for each primate species (Table  3).

Using the alignment output, feature segments for each suffix are extracted and stored in the suffix database.

Bayesian and maximum likelihood methods were used to construct the phylogenetic tree using the final alignment for the identified MazF family TA modules.

Although Route S-28 was used for the alignment for nearly three decades, the second state highway renumbering in 1953 eliminated the designation, and Route 18 was designated in place.

We focused on the accuracy of inferred evolutionary homology with the aim of using the resulting alignments for evolutionary studies.

Next, we inferred the genome-wide recombination frequency in B. henselae, using the concatenated alignment blocks for the analysis.

The phylogenetic tree was obtained using the multiple alignment program for amino acid or nucleotide sequences (MAFFT version 7).

AluY sequences were identified in non-human databases using the BLASTN alignment algorithm (BLAT for UCSC).

We used the reference alignments for the structure pairs which have circular permutation in the RIPC dataset [ 26].

The programs were run using the default options for protein alignment, except for Mafft and Muscle.