Sentence examples for by aligning the query from inspiring English sources

HHrepID looks for internal sequence similarities by aligning the query protein sequence to itself.

Conserved regions of a protein sequence can be identified by aligning the query protein with its homologues in protein databases.

The PSSM construction method is similar to that of PSI-BLAST, but begins by aligning the query to CDs rather than to individual sequences.

In this instance, FATCAT was used to space the MVP monomer models for RosettaDock analysis by aligning the query structures with 2ZUO*b and with 2ZUO*d (i.e., one monomer width apart) of the rat crystal structure.

SpliceBlast-PL identifies potential plant-specific exon-intron structures within a query sequence of interest by aligning the query sequence against the entire plant splice signal collection in PSR and SpliceMatch-PL can be used to identify the prevalence of a splice signal sequence of interest within various plant genomes.

The second step involves aligning the query sequence with the identified subset of database sequences, analysing the aligned output, and finally assigning the query sequence to an appropriate taxon based on this analysis.

This program finds the probable sites by aligning the consensus of regulatory site with the query sequence.

Manual curation was aided by aligning the amino acid sequences of the hits for each query together with a suitable outgroup by MAFFT [ 50, 51], after which neighbor joining trees were generated using MEGA5 with 1000 bootstraps.

We estimated the full length genes of Yukon by aligning the unigene sequences with Shandong gene models using BLASTN (E-value < 10-10) and > 90% coverand of the aligned query region with the nucleotide sequence length of the published gene models (query coverage).

This alignment looks for inversions by attempting to align the query gap sequence to the genomic region bounded by the genomic alignment coordinates of the bases flanking the gap in the original contig-to-genome alignment.

The first realignment looks for duplications by attempting to align the query gap sequence to the sequence produced by masking the gap position in the original contig sequence.