Sentence examples for using the genome alignment from inspiring English sources

The two sequenced genomes were aligned using the genome alignment software progressiveMauve [ 66], using default options.

Because the parasites used to infect the murine macrophages were grown in human foreskin fibroblasts (HFFs), we initially used the genome alignment tool, Tophat [ 32, 33] to sequentially align the RNA-seq reads to the mouse (mm9) and human (hg19) reference genomes and a collection of mouse and human splice junctions [ 34], to filter out mouse and human reads.

These hits were used to create transitive alignments using the genome-genome alignment of mouse and human (from the net/chain database at UCSC) and the MIR hits found by RepeatMasker in the target region.

Whole-genome alignment using the Mauve genome alignment software [39] reveals the two Lactococcus isolates have approximately 87% average nucleotide identity thoughout their genomes and fewer than 1% of subsequences of the length of our reads lack differences to guide taxonomic assignment.

All 188 sequenced seed BACs [ 12] anchored to the genetic linkage groups were used for the genome alignment.

SNP calling was based on alignment using the Genome Analysis Toolkit 2.0-35 2.0-35 and Picard packaGATK1.71 [ 16].

Genome alignment of the DSM and Broad Institute draft genomes was performed using the Mauve genome alignment program (Darling et al. 2004).

Genomes were aligned using the MAUVE genome alignment program version 2.1.1 [ 32].

These alignments were performed using the whole genome alignment software Eland (Illumina), which reports unique alignments of the first 32 bases of each read, allowing up to 2 mismatches.

For all human pre-NAGNAG acceptors, we determined the orthologous mouse and dog site using the genome-wide pairwise alignments from the UCSC genome browser [ 41].

In the approach using Mauve, the Progressive Mauve algorithm was used to score the genome alignment.