Sentence examples for separately aligned from inspiring English sources
All reads corresponding to each of the individuals were separately aligned using MUSCLE [22] generating one alignment per individual.
The N- and C-terminal regions were separately aligned with default settings and the alignments were adjusted by eye.
First, each gene-set was separately aligned using muscle 3.6 [ 33] and ambiguous alignment regions were removed using Gblocks (version 0.91b) [ 34] with no gaps allowed.
DNA reads and RNA reads were separately aligned against the RNA components using Bowtie2 with local alignment configuration and default parameters (Langmead and Salzberg, 2012).
After assembling the P. americana transcriptome, reads generated by the SOLiD system were separated according to the barcode used, and then were separately aligned to the avocado unigene set using BioScope Life Technologiess).
In the case of the inbred line assembly, short reads from two genotypes (J5 and SC) were separately aligned onto the reference sequence backbones and then the alignments were merged using the SAMtools merge command.
We tested core and peripheral genes separately, aligning the orthologous sequences using ClustalW 2.0.12 (Thompson et al. 1994) and counting nonidentical sites, excluding gaps.
After excluding these biased sites, as well as those affected by imperfect mappability and/or an indel(s) nearby, we found that RNA-seq data aligned to a single reference genome produced measures of relative ASE that were comparable to those resulting from separately aligning the same reads to allele-specific maternal and paternal genomes.
A second strategy was to separately align the At and Dt genome reads from two varieties using very stringent alignment parameters or a precharacterized genome-specific SNP index to separate short reads into their subgenome of origin before varietal SNP identification (Byers et al. 2012; Salmon et al. 2012; Page et al. 2013a, b).
Two crowdsourced video collections and one manually collected video collection are then used to separately align the disjoint models.
They usually align (superimpose) only one domain for a given DSCO pair, or separately align the two domains and output two sets of similarity values.
