Sentence examples for edges of the alignment from inspiring English sources
The latter two rules are designed to ensure that the outer edges of the alignment are covered even if the reference alignment contains partial sequences.
In accommodating small errors in alignment that occur at the edges of the alignment, we only allowed overlaps or gaps of up to 10 nt within the fusion junction.
In this step, we only allowed overlaps or gaps of up to 10 nt within the fusion junction to accommodate small errors in alignment that occur at the edges of the alignment.
The alignment was then manually adjusted to ensure consistency with pfam00379, particularly at the edges of the alignment, and to ensure that alignments among sets of highly similar genes were not distorted by the global optimum.
The SBP-box genes used in this study are summarized in Additional file 2. We aligned full-length SBP-box protein sequences using Clustal X [ 26] and manually trimmed the edges of the alignment and discarded the excessive gaps.
Otherwise, the alignments in A(C) are grouped by their pairwise overlap values, resulting in a partitioning of the positions in C based on the edges of the alignments in each group.
LCBs that contained a bias of single nucleotide polymorphism (SNP) density toward the edge of the alignment could have been the result of alignment artifacts.
Since the number of vertices and edges in the alignment graph is a function of the genetic diversity of the sequences and not the sequence lengths, this method allows for a compact representation and fast alignment of very long and highly similar sequences.
The key problem is the relative weight given to the similarity of vertices and to the similarity of edges when constructing the alignment.
The constrained alignment problem is that of finding a subset of constraints, that is, a subset of edges from the bipartite similarity graph, such that the subset of edges define a legal alignment and the number of conserved edges induced by the alignment is maximum.
The edges in the alignment graph represent conserved interactions.
