The phrase "automatically aligned by" is correct and usable in written English.
It can be used in contexts where something is adjusted or positioned without manual intervention, often in technical or software-related discussions.
Example: "The text in the document is automatically aligned by the formatting software to ensure consistency across all pages."
Alternatives: "automatically adjusted by" or "automatically positioned by".
To visualize the genetic relationships among different MLST genotypes, sequences were automatically aligned by using Sequencher 4.1 (Gene Codes Corp., Ann Arbor, MI, USA); the alignment was imported into MacClade 4.05 and edited manually.
The sequences automatically aligned by the L-INS-i method of the MAFFT package [ 64], and poorly aligned positions were manually inspected with MEGA6 [ 65].
Each data set was automatically aligned by M afft with the linsi algorithm (Katoh et al. 2002) followed by manual modification.
The two RACE products and original fragment were automatically aligned and assembled by DNAMAN program, and the full-length cDNA sequence of Cs GPX2 gene was obtained by splicing.
For each sequence, a keyframe is manually annotated, and in the remaining frames annotated landmarks are automatically aligned to face by the gradient descent AAM fitting algorithm in [115].
In the automatic word alignment the author MM automatically aligned the test sets from the partitions 2 8 in 6 batches.
COI sequences were manually aligned and 12S and 16S were automatically aligned using ClustalW multiple alignment implemented in BioEdit version 7.0.5.3 [22].
Line profiles (a simple right-click in the image) are automatically aligned to the underlying structure by principal components analysis and fitted to a Gaussian function.
The computational mesh is automatically aligned to the implicitly described geometry by minimizing a nonlinear, constrained functional.
Sequences were automatically aligned using Sequencher 4.1 (Gene Code Corporation); the alignment was imported into MacClade 4.05 [52] and edited manually.
Initially, contiguous sequences including ITS1 and ITS2, 5.8S and approximately 600 bases of the 5' terminal domain (D1/D2 regions) of the nucLSU of a broad sampling of Phlegmacium species by Garnica et al. [[ 13, 15], unpublished data] were automatically aligned in MAFFT v5.7 [ 55] and analysed by neighbor joining [ 56] in PAUP* 4.0b10 [ 57] using Kimura 2-parameter distances [ 58].
