The phrase "alignment profile" is correct and usable in written English.
It can be used in contexts related to data analysis, machine learning, or any field where alignment of data or parameters is relevant.
Example: "The alignment profile of the sequences indicates a high degree of similarity, suggesting a common evolutionary origin."
Alternatives: "alignment chart" or "alignment matrix".
To preserve the amino acid numbering of the sequence, A. halleri and A. lyrata amino acid sequences were all aligned to the alignment profile used in [ 26], kindly provided by R. Sainudiin) using CLUSTALX [ 45] followed by manual adjustments in the alignment editor in MEGA3.1.
The query sequences were aligned to the structure alignment profile and the distances between residues corresponding to the functional position were calculated in their respective models.
Thereafter, the nucleotide sequences were aligned based on the protein sequence alignment profile using PAL2NAL [ 61].
As employing 23,511 NBCI CDD PSSMs as a measuring PSSM set, each of 534 queries was encoded in an alignment profile.
The alignment profile and the positive identification of a MazG domain by MotifScan, CDART and SMART, implies that these conserved regions encode key amino acid residues in the pyrophosphohydrolase, most likely the active site of the MazG protein.
By doing so, we were able to detect and delineate ACD more accurately, since HMM derived from the structural alignment profile performed significantly better than HMM derived only from sequence alignments [41], [42].
An analysis of two Dutch telecare projects shows how the proposed alignment profiles can explain the contrasting project outcomes more effectively than the traditional strategic alignment model would have done.
We used the Pearson's correleration coefficient to measure the similarity between two alignment profiles.
We previously theorized that embedded-alignment profiles (simply "alignment profiles" hereafter) provide a quantitative method that is capable of relating the structural and functional properties of proteins, as well as their evolutionary relationships.
FastTree is a neighbor-joining with nearest neighbor interchange phylogenetic inference method using alignment profiles rather than distance matrices.
The outstanding merit underlying the alignment profiles is centered on the successful construction of PSSMs representative of specific folds and/or activities.
