Sentence examples for multiple alignment based from inspiring English sources
The results of these pairwise comparisons are used to train an SVR model that predicts PFM-similarities which are quantified using the well established multiple alignment based PFM similarity score MoSta [36].
We also tested another alternative from the TBA package called Roast which appears to implement the method described in [23] which builds a multiple alignment based on pairwise comparisons between a reference sequence and all other sequences, thus in theory requiring time linear with respect to the number of sequences, similar to Murasaki.
Bioedit 7.0 was used to conduct complete multiple alignment based on the complete nucleotide of cloned LMW-GS genes and other genes from GenBank.
A UCSC (The University of California, Santa Cruz) genome browser style multiple alignment based on pig and 17 other vertebrates was performed using lastz [ 78] and the UCSC tool chain as part of our in house ncRNA pipeline.
A multiple alignment based on these hits suggests that the PVC-metallopeptidase adopts a similar structure with three beta-strands and three alpha helices, with the conserved histidines on the second helix and glutamate on the third helix forming the Zn-dependent active site [ 83].
This method identifies characteristic motifs for each individual subdomain of the kinase catalytic core, which are then used to generate high-confidence motif-based Markov chain Monte Carlo multiple alignments based on these motifs [127], [128].
Multiple alignments based on consensus sequences were carried out using BioEdit.
Multiple alignments based on many, very long sequences are error prone, especially if the sequences differ in their length and are not all closely related.
Multiple alignments based on CDK amino acid sequences were generated with MUSCLE [ 53] and then manually improved, yielding 226 amino acid positions (Additional file 6: Figure S3).
This method provides a robust way to construct multiple alignments based on segment-to-segment (or local) comparisons rather than the residue-to-residue (or global) comparisons.
BAliBASE consists of 218 sets of related protein sequences together with reference multiple alignments based on 3D superposition that are considered to be reliable.
