The phrase "alignment is best" is correct and usable in written English.
It can be used in contexts where you are discussing the importance of alignment in various situations, such as teamwork, strategy, or design.
Example: "In our project, we found that alignment is best when all team members are on the same page regarding their roles and responsibilities."
Alternatives: "alignment is optimal" or "alignment is preferable".
These LRTs indicate whether the substitutions inferred from an alignment are best explained by one of two models of ω = dN/dS, where dN and dS are the nonsynonymous and synonymous substitution rates respectively.
Under the Akaike information criterion (AIC), from 88 possible models the ITS2 alignment was best fitted by the GTR+ I followed by the GTR+ Γ model while the mtDNA COI data was best fitted by the TVM+G followed by the GTR+ Γ.
This alignment was best-fit by the LG model (Le and Gascuel, 2008) with a gamma-distributed set of evolutionary rates (Yang and Kumar, 1996), according to the Akaike Information Criterion as implemented in PROTTEST (Abascal et al., 2005).
Therefore, our alignment-free method is best viewed as complementary to alignment-based approaches whenever a rough and ready prescreening of population genomics data is desired.
The purpose of alignment is to best determine sequence homology.
The substitution process in nearly all of the alignments (281/287 = 98%) is best described by an RNA model that describes dinucleotide evolution in the stem region explicitly.
For M2, Alignment A was best for all comparisons.
According to the BI optimality criterion, the tree that best explains our protein alignment is considered the best estimate of the true phylogeny of our proteins [66].
But to define repeat families, these self-alignment approaches are best suited to genomes that have been assembled into sizable scaffolds.
An algorithm for reference-guided assembly has three choices [ 13]: 1) to ignore (hence discard) all multi-reads; 2) to perform the best match approach, in which only the best alignment is reported or, if equally good best match alignments occur, one at random or all of them are reported; 3) to report all alignments up to a maximum number.
