Sentence examples for alignment to build from inspiring English sources

We used the information in the reference multiple alignment to build a model of the protein family and sequences that deviated from this model were annotated as having potential sequence errors.

The best alignment to Build 35 of the human assembly and the human bovine comparative map of Itoh et al. (2005) were used to order these loci relative to the SNPs contained within the bovine sequence assembly.

For instance, it is standard procedure (e.g. the orangutan genome project, Locke et al., 2011) to use whole genome alignments to build super scaffolds by aligning the new assembly to the high quality genome of closely related species.

TopHat uses full-length read alignments to build a set of exon 'islands', then searches for short reads that bridge these exon islands.

We have used these sequence alignments to build the 3-D model structures of the PE-PPE domains using HOMOLOGY module in InsightII (Accelerys Inc , USA that implements the methodology described in MODELLER [26].

It uses blastx alignments to build a complete gene model from the hits, and is particularly useful in low-coverage genomes with low quality regions, frame shifts or gaps, where ab initio gene predictors generally predict no or incorrect gene models.

We used nucleotide sequences from the protein sequence alignments to build gene family phylogenies, except for agt and dbe for which we used protein alignments, due to greater divergence between sequences.

As shown in Additional file 3: Figure S3, the third step in the phylogenetic method of our " pre-built" pipeline is Phylogenetic Tree Creator that uses multiple sequence alignments to build phylogenetic trees.

Within this approach, subset alignments are sequentially pairwise aligned to build the final multiple alignment.

We have studied all protein coding genes and pseudogenes in T. cruzi for alignment depth using a sensitive multiple alignment tool to build new alignments representing a gene and all its copies.

Programs in the package include the scripts and modules described in the paper, as well as a profile based ss-rRNA alignment script to build alignments for large dataset.