Sentence examples for by manual alignment of from inspiring English sources
All sequences were aligned using the integrated aligner tool and the fast aligner option, followed by manual alignment of the sequences to closely related sequences in the ARB database.
The T. thermophila and S. cerevisiae TEN-domains were aligned to the human TEN-domain using Psi-blast, followed by manual alignment of the remaining species.
These two families, which were defined by manual alignment of the sampled structures, correspond to the alternating structures of this conformational switch.
The conservation of blocks of order of genetic elements (synteny) was tested by manual alignment of gene maps, focusing on a region including between 2 and 5 genes on each side the gene(s) of interest.
Nucleotide alignments were constructed using ClustalW [55] followed by manual alignment to codon position in Molecular Evolutionary Genetics Analysis MEGAA) ver. 4.1 [56].
The position of each intron was determined by performing a manual alignment of the sequence obtained with the complete COI sequence of closely-related species.
Putative introns were identified by translating the DNA sequences in the three frames and comparing the results with a manual alignment of known amylase proteins.
Protein sequence alignments were generated with CLUSTALW (version 1.8) [47] at NPS@ [135] with manual alignment of some positions.
The multiple alignment diagram of the new Alu subfamilies discovered in this study was constructed using the "view alignment report" option in MegAlign with the ClustalW algorithm followed by manual formatting of "alignment report contents" under Options (DNASTAR, Inc. Version 5.0 for Windows).
The identification of eh1-like motifs by manual sequence alignment was validated by statistical analyses of the Swiss protein database, confirming a high frequency of occurrence of eh1-like sequences in Fox family proteins.
