The phrase "alignment where the" is correct and usable in written English.
It can be used in contexts discussing the positioning or arrangement of elements, often in technical or analytical discussions.
Example: "We need to focus on the alignment where the two components meet to ensure optimal performance."
Alternatives: "positioning where the" or "arrangement where the".
A protein chain in the I-TASSER modeling is divided into aligned and unaligned regions based on the PPA alignment, where the aligned regions are modeled off-lattice for maximum accuracy of the secondary structure blocks and the unaligned regions are simulated on a cubic lattice system for computational efficiency [ 20].
Performing a global alignment where the aligned symbols are the exons, there cannot be internal gaps (missing exons) and aligned exons must have the same phase.
We use two different score evaluation parameter sets for the forward alignment (where the two back-translated graphs that are aligned have the same translation sense) and the reverse complementary alignment (where one of the graphs is aligned with the reverse complementary of the other), because these are two independent cases with different score distributions.
Because the other sequences were aligned to the D. melanogaster genome, any section of the alignment where the sequence for D. melanogaster was unavailable would be unreliable and was excluded from further analyses.
Furthermore, CUSHAW2 is on an average superior to all other evaluated aligners in terms of both recall and precision for the SE PEE) alignment, where the average recall is ~89.92% (90.75%) and the average precision is ~97.46% (98.28%).
These languages are unlike English, which has nominative-accusative alignment where the subject of transitive verbs (such as she bit her) is the same in form as the subject of intransitive verbs (she ran)—called "nominative"—but different in form from the object of transitive verbs (she bit her)—called "accusative".
Pindel [ 22] in version 0.1 requires uniquely and error-free mapped reads and allows only split read alignments where the read partners are aligned within two times the average insertion size.
This means that we are not interested in alignments where the corresponding splicing sites (one from each sequence) do not align exactly.
Alignments where the coverage was <0.96 of the length of the mRNA or EST and <98% sequence identity were discarded.
Because the P736 residue is at the end of modeled β strand, alignments where the peptide would be slipped backwards are not possible (Figure 3D).
Performance in SNP detection was not significantly affected by the use of trimmed vs. raw reads, except for Roche 454 alignments, where the trimming process decreased the number of false positives.
