Sentence examples for using the protein alignment from inspiring English sources

Then, the following conservative approach was taken to retain only unambiguously aligned sequences: Using the protein alignment generated by BLAST as a guide, a sequence pair was scanned to the right of each alignment gap.

Parsimony analyses were performed using the protein alignment as input.

The different reconstruction methods provided poor support for basal nodes using the protein alignment.

Distance, parsimony and likelihood analyses were performed using the protein alignment as input.

Nucleotide alignments were created in BioEdit [ 83] using the protein alignment as a guide.

Using the protein alignment in Figure 2, we carried out successive phylogenetic comparisons focusing on various portions of the proteins.

cDNA sequences of all these genomes were aligned using the protein alignments as a guide.

The corresponding nucleotide alignments were generated using the protein alignments as guides.

We used the protein alignments to calculate the proportion of amino acid differences and indels.

We also used the protein alignments to guide a nucleotide sequence alignment using tranalign from the EMBOSS package (Rice et al. 2000).

Using the protein sequence alignment as a guide, the corresponding nucleotide sequences are subsequently aligned, codon by codon, using pal2nal (Suyama et al. 2006).