Sentence examples for merged alignment from inspiring English sources

This merged alignment was used to generate the final black grouse draft genome using the SAMtools pipeline.

From a merged alignment that contained Illumina reads from both genotypes (hereafter referred as IL assembly) we separately called SNPs for each read group in positions where there was read depth of at least 6, applying a base quality threshold of 20.

We compared the two variant lists, and for the latter class we examined the merged alignment in regard to the opposing, non-variant genotype, and accepted the non-variant status where there was a read depth of at least 6 in the non-variant read group.

Merged alignment data from several sequencing platforms increased mapped read depth and thus more SNPs can be identified.

Finally, we aligned the merged alignment with the unaligned 24 sequences.

An example of the merged alignment in which the hypervariable region was further hand-curated is given in Figure S2d.

Only merged alignments at least 5,000 nt long were used in the further analysis.

DNA Multiple alignments were produced using the CLUSTALW program using the profile alignment option to merge alignments of the long (fill length) and short (exon 2 only) sequences.

In a second stage, we merge alignments to multiple pseudogenomes and assign an origin to every read.

It is able to convert from other alignment formats, sort and merge alignments, remove PCR duplicates, generate per-position information in the pileup format (Fig. 1c), call SNPs and short indel variants, and show alignments in a text-based viewer.

The methylation output discriminates between sequence context (CpG, CHG or CHH) and can be obtained in either a comprehensive (all alignment strands merged) or alignment strand-specific format.