The phrase "alignment whose" is correct and usable in written English.
It can be used when referring to a specific type of alignment that is associated with or determined by something else.
Example: "The project requires an alignment whose parameters are defined by the latest research findings."
Alternatives: "alignment that belongs to" or "alignment related to".
A near-optimal alignment between a pair of sequences is an alignment whose score lies within the neighborhood of the optimal score.
These regions cannot be aligned to a fixed structural template, and are left unaligned by Infernal (leading to a multiple alignment whose length is not fixed but may be different in different datasets).
2. For each probe, accept any alignment whose score is within 5% of the best alignment's score.
This work focuses on local alignment, whose goal is to find conserved complexes across different species only depending on sequence and topological similarity.
Reference sets 4 and 5 are constructed such that every sequence has at least one other sequence in the same alignment whose identity exceeds 20%.
Similarity of protein structures is typically measured via structural alignment, whose goal is to find a three-dimensional (3D) transformation that brings into correspondence the largest number of atoms between two structures.
To further test this hypothesis, we identified 532 alignments whose representative crystal structure contained multiple copies of the aligned protein.
We present an efficient method for representing all alignments whose score is within any given delta from the optimal score.
In this paper a new predictive model, CCV, is proposed to determine the operating speed S85, also for the alignments whose characteristics of main geometric elements are not known.
We keep only the partial alignments whose lengths are greater than the threshold (i.e., minimum partial alignment length).
Inter-molecular distances were calculated for all alignments whose representative sequence was present on multiple chains annotated by the PDB file as part of a biological unit (PDB REMARK 350) [24].
