The phrase "aligned to match" is correct and usable in written English.
It can be used when discussing the arrangement or adjustment of elements to ensure they correspond or fit together properly.
Example: "The components of the machine were aligned to match the specifications provided in the manual."
Alternatives: "adjusted to correspond" or "arranged to fit".
CDS sequences were aligned to match the protein alignments codon-by-codon.
The beam waist of this mode was aligned to match the TEM00-mode of the pump spot in the BBO crystal by size (165 μm in diameter) and position.
The head of the fly was aligned to match the symmetry of the deep pseudopupil (Kirschfeld and Franceschini, 1968).
Phylogenetic analyses were performed on the aligned amino acid (AA) sequences, as well as on the nucleotide sequences that were aligned to match the AAa.
Homologous landmarks (i.e. the points that are aligned to match corresponding features in the shape) can be used to characterize shape and shape variations with the aid of a principal component analysis, or similar technique.
The Infernal model used by RDP II is computed from a set of several hundred carefully chosen sequences, which were manually aligned to match the well-known secondary structure of the 16S rRNA.
We trimmed the alignment to match the aligned length of the Rhagoletis sequences and constructed phylogenetic trees (neighbour-joining, 1000 bootstrap intervals).
Each matching contig was then individually aligned to its EST match using ClustalW [27], and contig-EST matches were discarded if their ClustalW alignment score was not greater than 50 plus 3 times the length of the shorter of the two sequences.
Contigs that survived all of these filtering steps were then aligned to their EST match, and any sequence that extended further than the edge of the EST was joined to the EST and the total sequence was used in the final contig set.
If the original gene was aligned to its best match with the number of either starting or ending gaps of more than 20-bp, it was categorized as possible wrong start/stop assignment.
The unidentified ITS sequences that found an Inocybe sequence as their closest BLAST match were aligned to the ITS alignment that featured that matching sequence using Clustal W. Naucoria submelinoides, Crepidotus mollis, and I. dulcamara were used as outgroups for all but one alignment corresponding to the subgenus Mallocybe [ 12] in which I. dulcamara was included in the ingroup [ 23].
