The phrase "alignment exists in" is correct and usable in written English.
You can use it when discussing the presence or occurrence of alignment within a specific context or framework.
Example: "In this project, alignment exists in the goals set by the team and the resources allocated for achieving them."
Alternatives: "alignment is found in" or "alignment occurs in".
This is critical to the REAPR pipeline, since reads in a pair should not be artificially forced to map as a proper pair when a higher scoring alignment exists elsewhere in the assembly.
Parameters for the un-gapped alignment included a maximum of three mismatches permitted in the seed, suppression of alignments if more than one reportable alignment exists, and a 'try-hard' option to find valid alignments.
That same alignment also exists in conventional plastic fibers, such as those made from nylon, where the individual polymer chains in the plastic line up along the length of the fiber.
(30) It will be of interest to determine whether the 1, N-εdG (syn)·A (anti) alignment also exists in the primer-template containing 1, N-εdG opposite dA in complex with Y-family DNA polymerases.
In addition, this mode of alignment was combined with options that define which and how many alignments should be reported; the option "-k 1 --best" instoucted bowtie to report only the best alignment if more than one valid alignment exists, while the option "-m 1" instructed bowtie to refrain from reporting any alignments for reads having multiple reportable alignments.
In addition, this mode of alignment was combined with options (−k 1 – best) that instructed Bowtie to report only the best alignment if more than one valid alignment exists.
Although automatic alignment tools exist in some software, the accuracy of the alignment should be carefully evaluated and manual adjustment may be needed.
For the family Podoviridae, the overlap of yellow and peach bars below 55%% in the global alignment method no longer exists in the BLAST-based alignment method, and therefore, the genus demarcation criteria can tentatively be set to around 35%%.
A number of related techniques for PPI network alignment exist.
One might expect higher conservation in the core residues and thus a greater distinction between site and non-site scores; however, many fewer alignment positions exist in the cores than the whole sites, and in some cases the increased statistical power gained by considering the whole site meant that we obtained a significant result using the whole sites but not the cores.
