Sentence examples for alignment quality were from inspiring English sources

Sampled sequences are aligned using MUSCLE [ 44], sequences with low alignment quality were manually removed.

BLOSUM62 scores indicative of alignment quality were averaged over a sliding window of 3 amino acids (i.e. the score at each position represents the average of it and each residue on either side).

Regions of low alignment quality were identified using the program G-Blocks [ 51] and excluded from subsequent analyses.

The alignments were manually inspected, and proteins, which were decreasing the alignment quality, were taken off from the data.

The intact foldback arms from 13 of the 16 gene-similar MIRNA loci were aligned with up to three gene sequences, and alignment quality was displayed using heat maps (Figure 5; MIR163, MIR163 and MIR447c were not included).

These proteins were aligned using T-Coffee (Notredame et al. 2000) and the alignment quality was assessed using Transitive Consistence Score (TCS, Chang et al. 2015).

Based on these calculation results, the alignment quality was optimized and the whirling vibration characteristic under different alignment conditions was calculated.

Alignment quality is critical to phylogenetic analysis because the alignment is a hypothesis concerning the homology (common ancestry) of the residues at the same position in each of the aligned sequences (positional homology).

The alignment quality was controlled by GUIDANCE [ 68] and manually.

Thus we do not expect that alignment quality is a concern.

Multiple alignment quality was assessed using Guidance (Penn et al. 2010).