Sentence examples for basis of multiple alignment from inspiring English sources
For spliced OR genes, predicted sequences and splice sites were manually corrected on the basis of multiple alignment using MAFFT 7 [ 22] and also by using FSPLICE [ 41].
We estimated ω values by means of the codeml program in the PAML v4.4 package (Yang 1997) on the basis of multiple alignments of orthologous codon sequences and a tree topology.
RNA secondary structures were proposed on the basis of multiple alignments of similar regions within the Pyrococcales using Multalin [ 76] that were improved manually by combining RNAfold predictions and covariations.
b The position of conserved charge pair sequence and arginine residues that are considered important for the catalytic activity of different members of the human PDI family are determined on the basis of multiple alignments of the a type domains of wheat PDI-like proteins and human classical PDI [Accession number P07237].
Often, the exact phase of an indel cannot be reconstructed unambiguously on the sole basis of a multiple alignment.
On the basis of the multiple alignment, analysis and neighbour-joining (NJ) computational method, the phylogenetic tree was constructed.
Based on this, a sketch map of the 3D-motif C in mVAChT (mouse VAChT) could be postulated on the basis of multiple sequence alignment and homology modelling (Fig. 5D).
On the basis of multiple sequence alignment and homology modeling, invariable structural elements were defined, corresponding to the active site, the substrate binding site, the accessory binding sites, the Ca2+ and Cl− binding sites, a protease-like catalytic triad and disulfide bonds.
While ConSurf calculates conservation scores on the basis of multiple sequence alignment typically of hundreds of homologous protein sequences, ProBiS usually uses tens of locally similar structures.
