The phrase "alignments used for" is correct and usable in written English.
It can be used when discussing the purpose or application of specific alignments in a particular context, such as in design, data analysis, or project management.
Example: "The alignments used for this project ensure that all elements are properly coordinated and visually appealing."
Alternatives: "alignments intended for" or "alignments applied to".
By placing one of the quarterbacks at least seven yards behind the line of scrimmage, and no one under center to receive the snap, the A-11 qualifies as a scrimmage kick formation — the alignments used for punts and extra points.
For more information about the multi-species alignments used for these fRNA prediction programs, see Text S1.
The alignments used for this purpose were retrieved from the European rRNA database [25] which aligns bacterial and archaeal rRNA sequences with eukaryote sequences.
Repeat sequences spoil multiple genome alignments used for the computation of PhastCons scores, therefore we limit this analysis to 298 431 sites within non-repetitive sequences.
The alignments used for the analyses within each group of homologues represent a concatenated sequence of the different conserved motifs found within each group (Figure 2).
In the alignments used for the modelling sequence identity between TLR4 and TLR1, TLR2 and TLR10 was 35.0%, 40.5% and 35.0%, respectively.
As a consequence, iterative algorithms were developed to construct more reliable multiple alignments, using for example iterative refinement strategies [17], Hidden Markov Models [18] or Genetic Algorithms [19].
In the analysis, the new sequences were compared with consensus sequences (50% threshold) representing the HIV-1 variants from the same alignment used for phylogenetic tree analysis.
Protein sequence alignment used for HMMER3 search.
Schematization of KatG protein alignment used for the phylogenetic analysis.
The alignment used for the phylogenetic analysis was also used for this application.
