The phrase "alignment of alignments" is correct and usable in written English.
It can be used in contexts where multiple alignments are being coordinated or harmonized, such as in project management or strategic planning.
Example: "The team focused on the alignment of alignments to ensure that all departments were working towards the same goals."
Alternatives: "synchronization of alignments" or "coordination of alignments".
HHpred produces pairwise query-template alignments, multiple alignments of the query with a set of templates selected from the search results, as well as 3D structural models that are calculated by the MODELLER from these alignments.
A near perfect alignment suggested insertion of IS6110 in the region of alignment whereas alignment with around 1355 bp deletion suggested presence of IS6110 in the same position as H37Rv.
The representation is a compact graph that makes it easy to impose additional biological constraints and select one desirable alignment from the large set of alignments.
The repeat sequences were reinserted into the pairwise alignments, the ends of alignments were trimmed, and global alignments were generated (see reference [ 66] for details).
Considering a probability-weighted distribution of alignments removes sensitivity to alignment errors, properly accommodates regions of alignment uncertainty, and increases the accuracy of functional element prediction.
# M1 > M2: the number of alignments among 992 alignments where M1 results in better likelihood value than M2.
The objective function is specifically tuned to finding SV events by taking into account the length and quality of alignments, the number of alignments in the OCS and the genomic distance between those alignments.
We believe our estimates of alignment overextension (7 10% of alignments) are conservative, both because sequence databases are growing, allowing similarity searches to identify closer homologs, and because many proteins comprise multiple domains.
N : number of alignments in the test sets, A: accuracy, which is defined as the fraction of correctly classified input alignments, A+: accuracy of alignments in reading direction of ncRNA, A-: accuracy of reverse complementary alignments.
The assembly of alignments via the PASA alignment assembly algorithm, and subsequent clustering of overlapping alignment assemblies with same transcribed orientation were performed exactly as previously described.
