Sentence examples for alignment restricted from inspiring English sources

When aligning a "closed" monomer and its domain-swapped "open" homolog (referred to hereinafter as a "DSCO pair"), several methods, such as FAST [30] and TM-align [31], tend to output one local alignment restricted only to the protein bodies or the swapped domains.

Phylogenetic analyses of the MBD proteins were performed using a MUSCLE alignment restricted to the MBD domain regions of the sequences (as defined by Pfam; PF01429).

Alignment, restricted to isoforms known to act as PM susceptibility factors and clade V Cucurbitaceae MLO homologs, also revealed a series of conserved amino acid residues and motifs scattered in several protein domains (Additional file 7).

We investigated the PhyloP evolutionary conservation scores [ 32] applied to 28– and 44 species alignments, and to those alignments restricted to the placental mammals and human, for their ability to predict the disease association status of common variants.

The parameters (λ± i, K± i ) are estimated on alignments restricted to the respective reading frame difference, where further frameshifts are not allowed, while (λ FW, K FW ) and (λ RC, K RC ) are computed in a more flexible setup, where a limited number of frameshifts is accepted.

If the Bowtie alignment was restricted to only uniquely mapped reads (i.e. any read aligning to more than one region of the genome is discarded), there was a significant reduction in the number of aligned reads, with more than 96% of the total reads being discarded in the most severely affected sample.

Additionally, since frameshifts are considered to be very rare events, their number in an alignment is restricted.

In words, the transformation T ij f is the best one for the alignment f restricted to neighbours of the site a i and b j.

RepeatMasker parameters were set to slow/sensitive alignment and restricted REPBASE entries to those of species within the taxon "Eudicotyledons" [NCBI taxid: 71240].

For rep, the helicase domain was excluded and the alignment was restricted to the replication initiator domain (N-terminal region of about 150-180 aa).

When the alignment is restricted to the organisms Mycobacterium vanbaalenii, Mycobacterium smegmatis, Mycobacterium ulcerans, and Mycobacterium flavescens, all of which have both CysO and CysM genes, the CysO binding residues are exclusively conserved.