Sentence examples for classic alignment from inspiring English sources
Ferragina et al.[ 95] advocated that classic alignment methods do not scale well for huge data.
Several papers, including [ 1- 4] reported functional frameshifts discovered using classic alignment tools from the BLAST [ 5, 6] family.
We illustrated our approach with several alignment examples of known and hypothetical frameshifted proteins, some of which are not detectable via classic alignment methods because of the low coding sequence similarity.
Section 5 shows four case studies of sequences (two pairs of proteins, a pair of DNA sequences of transposon elements and a pair of sequences of genes of microbial genomes) in which the homologies cannot be reported by a classic alignment.
The application of the classic alignment-based algorithms (e.g. PCA, LDA, etc).
Song et al. [ 26] extended a variant of the classic alignment-free statistic, D2, to perform assembly-free phylogenetic reconstructions.
Classic alignments methods are unable to extract homologies involving shuffled, reverse-complemented or repeated elements between sequences, despite the fact that there are identified mechanisms of evolution of sequences which lead to such types of homologies.
The amino acids 85-112 can be easily aligned with a frameshift, as can be seen in Figure 12, while classic protein alignment reveals little similarity in these areas.
Classic frameshift alignment analysis aids in the identification of frameshifts in DNA sequences.
Frameshift mutations in protein-coding DNA sequences produce a drastic change in the resulting protein sequence, which prevents classic protein alignment methods from revealing the proteins' common origin.
The dynamic programming algorithm begins with a classic local alignment initialization (0 at the top and left borders), followed by the recursion step described in relation (3).
