The phrase "alignment only" is correct and usable in written English.
It can be used in contexts where you want to specify that something pertains solely to alignment, such as in design, strategy, or technical discussions.
Example: "For this project, we will focus on alignment only, ensuring that all elements are properly coordinated."
Alternatives: "only alignment" or "alignment exclusively".
On average, each sequence alignment had 18.0 more non-paring bases (sd = 16.0) in the greengenes alignment than in the SILVA alignment; only 5.8% of the greengenes aligned sequences had fewer non-pairs than the SILVA aligned sequences.
Of the 168 aligned residues in the N-terminal alignment, only three are present universally in all sequences (Additional file 1).
This globally meaningful Dali alignment (only residues in capital letters are aligned) superimposes hydrophobic cores of both proteins.
In fact, all of the MultiProt alignments had rmsd ≤ 2.3 Å; this can be explained by noting that MultiProt includes in the alignment only residue pairs which are closely aligned and thus the overall rmsd will not be large.
For peak alignment, only the (recommended) option of the "fast aligner" was tested as the other alignment procedure resulted in frequent crashes of the computer.
In the new eight-division alignment, only two wild-card berths are available in each conference, not three as in the past.
The alignment only-based predictions have low TPRs coupled with very low (~0) FPRs for all MoRF types.
As the detection of imprecise intron losses generally depends on the quality of alignments, only intron losses positioned at well-aligned regions are readily observed.
For the soft-clipping re-alignment only method, we found it can robustly detect large deletions (up to 1 kb) with high sensitivity (0.6 to 1).
In cases where a single read produced multiple equally good alignments, only one alignment was kept.
Since we do not know the ground truth for these alignments, only indirect evaluation is possible.
