Sentence examples for using a multiple alignment from inspiring English sources

On the basis of maximum identity score, the sequences were selected and aligned by using a multiple alignment software program such as Clustal W. Distance matrix was generated using RDP database and the phylogenetic tree was constructed using MEGA 5 (Tamura et al. 2013).

The sequences were analyzed using a multiple alignment program MultAlin (http://multalin.toulouse.inra.fr/multalin/ 44 and basic local alignment search tool (BLAST, http://blast.ncbi.nlm.nih.gov/Blast.cgi 45.nih.gov/Blast.cgi 45

In their "MotifMap" article [11], Xie et al. test this approach using a multiple alignment of 18 placental mammals and further improve it by considering the uncertainty of the motif occurrences when calculating the branch length.

We developed a new approach for detecting sHSPs and delineating ACDs based on an iterative Hidden Markov Model algorithm using a multiple alignment profile generated from structural data on ACD.

This profile was constructed by using a multiple alignment of amino acid sequences corresponding to the known α-helical coiled coil domains found in the Protein Data Bank (PDB) [24], release 2006.

Protein secondary structure was predicted using a multiple alignment as the input for the JPRED program.

The program uses a multiple alignment of previously identified components of a regulon as an input and generates a consensus profile.

LOHA was generated in-house and used a multiple alignment of sequences as its input.

Likewise, we could use a multiple alignment of real motif occurrences to set individual parameters of the profile HMM.

To achieve this, we used a multiple alignment of all copies of the duplicated blocks excluding both of the microsatellite regions.

For the analyses, we used a multiple alignment consensus sequence, which contains Gypsy LTR retrotransposon reverse transcriptase (RT) and partial integrase (Int) domains.