Sentence examples for a master alignment from inspiring English sources

Noting that the previously resolved sequence logo of this template is only an approximation, we completed a more precise characterization using a master alignment.

The consensus sequence of each allele present within an isolate was assembled into a master alignment of all the Ldh alleles for a particular gene.

First, a master alignment was generated using the Msx sequences from two cnidarians and two non-vertebrate deuterostomes (Nematostella, Acropora, Saccoglossus and Branchiostoma).

Finally, once all of the sequences are in an alignment or exist as singletons (i.e. are not found to be contained in any subdivisions), profile each alignment to a master alignment.

The input to the program is (1) a master alignment of all the sequences (only core domain was used for mcBPPS) (2) Seed profiles for each subgroup (3) a tree file giving the hierarchy.

Align the new consensus sequences using MAPGAPS and the MAPGAPS profiles; this generates a new master alignment that is not Rio anchored.

Therefore, we aligned all query sequences for the BLAST searches, and the opsin sequences used to build the HMMER profiles to an opsin master alignment using the web server of MAFFT version 7 (Katoh and Standley 2013).

At this step, an unweighted consensus master alignment was generated.

The other MSX sequences were then aligned to the master alignment, once again in three separate blocks.

Re-generate MAPGAPS profiles using the new master alignment of consensus sequences as a template and re-aligned group alignments.

Non-aligned N-ends were trimmed, leaving the master alignment presented in Figure 4 and Additional file 3. A consensus HyPRP pattern was developed on the basis of this alignment and verified by MyHits pattern search of the Arabidopsis GenBank proteins at the MyHits website [ 44, 45], where it retrieved the majority of the previously known HyPRP genes.