Sentence examples for aligned site from inspiring English sources

By comparing the Illumina reads with the reference genome, each aligned site was first classified into four categories: "reference type (R)," "non-reference type (N)," "allelic (A)," and "low depth (L)" for each of three sets (NIAS, CSHL and NIAS + CSHL) (Additional file 7).

Moreover, a careful inspection revealed a 37-base inversion on the aligned site 100 136 of the chloroplast psbA-trnH spacer.

Finally, after the UTR sequence removal and unambiguously aligned site cleaning, we retained 1,602 data sets with a length above 100 bp.

For example, an 8- to 26-base stretch of poly-T sequences with very few other bases on the aligned site 170 195 of the chloroplast psbA-trnH spacer was impossible to align and therefore excluded from the data.

The insertion time of retrotransposons was estimated using the formula T = K/2r [ 63], where T, K and r are time of divergence, average number of substitutions per aligned site and average synonymous substitution rate, respectively.

If none of the outgroup species contained introns at an aligned site, but some or all D. pulex clones had an intron at the same site, we inferred the presence of a gained intron in D. pulex.

The alignment information and nucleotide content of the markers are shown in Table 2. A1 had the longest alignment with 778 aligned sites.

Both ends (20 aligned sites) of each alignment were excluded due to the ambiguity of the alignments.

Phylogenies were constructed using outputs from the Gblocks program [ 50], which selects conserved blocks from 18S alignments and eliminates poorly aligned sites and potentially saturated or overly divergent regions.

If the proteomes alignments evoked above were 'classic' protein alignments, then what happened to poorly aligned sites?

Gaps and ambiguously aligned bases were excluded from the 55-taxon alignment resulting in 1,486 unambiguously aligned sites.