Sentence examples for basis of multiple alignments from inspiring English sources
The primers and probe were designed on the basis of multiple alignments of 74 HPV-6 E2 gene sequences and 20 HPV-11 E2 gene sequences.
C-terminal end of Alk-Exo and N-terminus of Helicase-2 were selected on the basis of multiple alignments of the respective GV proteins.
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.
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.
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].
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].
The third primer set was designed on the basis of 5 multiple alignments of complete or nearly complete aHEV sequences of other aHEV strains (GenBank accession nos. AM943647, GU954430, AM943646, EF206691, and AY535004) for the aligned results near the end of ORF2.
Secondary structure prediction was performed with SOPMA (http://npsa-pbil.ibcp.fr/cgi-bin/npsa_automat.pl?page=npsa_sopma.html) on the basis of multiple sequence alignments [76].
Of the 37 isolates, 33 were classified as genotype 3 on the basis of multiple sequence alignments of ctxB (10 ).
The first and the second sets of degenerative primers were designed on the basis of multiple sequence alignments derived from the helicase gene in open reading frame (ORF) 1 and the capsid gene in ORF2 (5 ), respectively.
On the basis of multiple sequence alignments to rooted phylogenic tree with branch length (UPGMA) of 16S rDNA sequence by CLUSTALW, the strain BI19 exhibited high level (99%) of similarity with the known sequences in the public databases in NCBI and BLAST results and identified as Bacillus subtilis (accession number FJ527663).
