The phrase "alignments were tested for" is correct and usable in written English.
It can be used in contexts where you are discussing the evaluation or examination of specific alignments in a study or analysis.
Example: "In the research, various alignments were tested for their effectiveness in improving performance metrics."
Alternatives: "alignments were evaluated for" or "alignments were assessed for".
Both alignments were tested for recombination with the Single Breakpoint Recombination SBPP) tool [87] in the DATAMONKEY web-server [88]; evidence for recombination, inferred by the small sample AIC score, was only found for HIV-1 Control dataset.
Prior to performing selection tests, alignments were tested for recombination using Genetic Algorithms for Recombination Detection analysis (GARD) implemented in Datamonkey.
To minimize the influence of recombination in the PS scan, the alignments were tested for intragenic recombination using GARD (Kosakovsky Pond et al. 2006).
The resulting alignments were tested for positive selection by applying test 2. The log-likelihood difference (2Δ L) of these tests was recorded.
The rRNA and RPB1 alignments were tested for saturation using the methods of Steel et al. [ 74] and Xia et al. [ 75], implemented in DAMBE.
Sequence alignments were tested for the presence of recombination breakpoints and partitioned using SBP, and then tested for positive or diversifying selection using PARRIS and MEME algorithms implemented on the DataMonkey server [ 132– 132].
Evidence for recombination within each gene family alignment were tested for with the Pairwise Homoplasy Index (PHI) [44] and GARD [40] using nucleotide substitution models selected above and estimating substitution frequencies and a proportion of invariable sites from the data with 4 rate categories in a gamma distribution.
Each alignment was tested for evidence of recombination using two approaches.
The alignment was tested for phylogenetic information by likelihood-mapping analysis (29 ).
Each alignment was tested for evidence of recombination using the likelihood-based method implemented in the program (GARD [ 61]; ).
Each gene alignment was tested for the most appropriate model of substitutions using likelihood estimation and comparison with the Bayesian Information Criterion as implemented in the package "ape" [ 81] in R (The R Project - http://www.r-project.org/).org/
