Sentence examples for format alignment from inspiring English sources

Files containing N2/LSJ1 variation were generated from the Pileup format alignment files.

These results are provided in a tabular view: the columns headers of the table are ID of the gene candidates, links towards fasta format alignment and divergence profile, alignment length, GC content, introns number and functional annotation of the candidate.

Alignment statistics were reported from the SAM format alignment files using custom Perl codes (Table 4).

A SAM format alignment of control data is used as input.

A BAM format alignment file consisting of the reference transcripts and the mapped J5 and SC Illumina reads was visualised in the IGV (v2.0.34 [ 29]) alignment viewer window.

The Clustalw alignment was then transformed to a "fasta" format alignment, in which, gaps, i.e. consecutive "-", were deemed to be indels.

SAM format alignments were indexed and converted to BAM format using SAMtools.

Alignments and predicted consensus structures were converted to Stockholm format alignments and used to build covariance models with the INFERNAL package [ 64].

The data described in this paper is available via anonymous ftp as reads, BAM format alignments, consensus sequence, nucleotide frequency profiles at: ftp://gdo144.ucllnl.org/pub/orpdat/.org/pub/orpdat/

Reads retained after quality control were aligned to the Z. lateralis melanops genome using Bowtie2 (Langmead and Salzberg 2012) to obtain SAM format alignments.

Both strategies produced Binary Sequence Alignment Map BAMM) format alignments that were processed, indexed, sorted, and analyzed by the tools included in the SAMtools 0.1.17 17 and GATK 2.7 18 packages.