Sentence examples for multiple alignment with from inspiring English sources

The CDV H gene sequence was aligned with all available H gene sequences in GenBank using Multiple Alignment with Fas Fourier Transform (MAFFT) with default settings [ 32].

For the pairwise augmented training model, and the hybrid model, we used multiple alignment with translations and twists (Matt) (Menke et al., 2008) to align the sequences based on the structure.

For profile alignment, we used HMMER 2.3.2 (Eddy, 2008) to build a profile HMM from the training alignment subset with hmmbuild using the -f option to build local alignment models, and aligned each test fragment to the profile (thereby adding it to the multiple alignment with the training sequences) with hmmalign using default parameters.

Sequence alignment was done in BioEdit (version 7.0.9.0) using ClustalW Multiple Alignment with default settings.

Conceptual translation of the ORFs into amino acid sequence was done to compute a multiple alignment with ClustalW [64].

Research into multiple alignment with rearrangements has been limited, although some progress has been made [9], [28] [31].

We conducted phylogenetic footprinting by several alternative methods: generalized Lempel-Ziv complexity (C LZ ), multiple alignments with DIALIGN and ALIGN-M, and the MOTIF SAMPLER Gibbs sampling algorithm.

Multiple alignments with Probalign retained 491 reliably aligned genes from a set of the 497 orthologous genes.

ClustalW [31] was used for multiple alignments with manual refinement.

Here we use standard multiple alignments with substitutions and indels on 21 flu virus genomes (figure 4).

Multiple alignments with complete sequences or domains were conducted using the CLUSTALW program [68] using default parameters and then manually revised.