The phrase "alignments with the same" is not correct and lacks clarity in written English.
It may be used in contexts discussing similarities or agreements, but it requires additional context to be meaningful.
Example: "The alignments with the same objectives were crucial for the project's success."
Alternatives: "similar alignments" or "alignments of the same type".
We used BWA for non-allele-aware alignments with the same alignment parameters as GSNAP.
If there are multiple alignments with the same alignment score, a single result is selected at random.
Therefore ties among alignments with the same edge correctness are broken in favor of those with the highest overall bit score.
Each read is counted as starting at the position in the reference genome where its first base matches, so alignments with the same start and end coordinates, but on opposite strands will each count toward this evenness score once.
Should there be several alignments with the same maximum edge correctness, we would prefer the alignment with the highest overall bit score as obtained by an all-against-all sequence alignment.
The comparison of the differences in alignments is not straightforward with large amounts of indels, as even the same differences can often produce different alignments with the same alignment score.
Here, our goal is to find 𝒜, the minimal set of cells containing no holes, such that for every parse y∈??𝒞, there exists some DP path through 𝒜 corresponding to an alignment with the same set of aligned positions.
From the fourth century in western Europe, for example, it had to take account of its alignment with the same empire that did the crucifying.
The scree plot of the eigenvalues (Figure 2, insert) shows a sharp drop from the first to the third component, followed by a slow decrease towards values similar to those obtained from the MDS analysis of a random multiple sequence alignment with the same characteristics as human GPCRs.
For fair comparison, we choose the FlexProt alignment with the same number of hinges as the FlexSnap solution.
For the sake of fair comparison, we choose the FlexProt alignment with the same number of hinges as the solution reported by FlexSnap.
