Sentence examples for extension of alignment from inspiring English sources

A large gap penalty does not allow for the extension of alignment across an SV.

Both the identification of seeds and the extension of alignments are performed through an iterative Gibbs sampling strategy.

Results: We have developed a method for phylogeny-aware alignment of partial-order sequence graphs and apply it here to the extension of alignments with new data.

One major source for such false positives is profile corruption, usually resulting from extension of alignments over non-homologous sequence regions (Galperin and Koonin, 1998).

PAGAN and hmmalign were consistently the two most accurate methods for the extension of alignments with new DNA and protein sequences (Fig. 4).

A classic extension of sequence alignment is structural alignment, which has been used to compare evolutionary distant RNAs [ 1] and proteins conserved in structure rather than sequence [ 2, 3].

While this segment is good for modeling the structure locally, extension of the alignment to cover the entire domain results in a wrong fold prediction.

Spurious extension of an alignment due to compositional bias is possible but highly unlikely given the composition-based statistical corrections implemented in the current version of BLAST [ 42, 43].

Cyclic_exonerate launches exonerate with a custom scoring matrix (derived from BLOSUM62), which is favoring the extension of the alignment over Sec-encoding UGA codons: in the query protein selected from the profile, the position(s) aligned to Sec are replaced with a flag character.

In principle, the self-alignment repeat-detection methods are the extension of an alignment-based homology-detection approach.

Here, we outline a new general-purpose method for phylogeny-aware alignment of sequence graphs and apply it to phylogenetic extension of existing alignments.