The phrase "alignment target" is correct and usable in written English.
It can be used in contexts related to goals, objectives, or standards that need to be met or achieved in a specific alignment.
Example: "Our team has set an alignment target to ensure all departments are working towards the same strategic goals."
Alternatives: "goal alignment" or "objective target".
To reduce the cost resulting from a large alignment target, many algorithms have been developed that rapidly reduce the size of the search target for aligning a given read.
We examined the effect of choice of alignment target on the identification of eQTL.
With standard subjective methods in humans, TCA correction at peripheral retinal locations cannot be performed, because foveal inspection of an alignment target is required [ 9, 20].
When the alignment target is diploid, consisting of two copies of a genome or transcriptome, reads may align equally well to both copies.
All of these deficiencies and others not cited provide a less-than-optimal alignment target for next-generation sequencing data and can confound the analytical validity of variants necessary to properly interpret patient-derived data.
Illumina HiSeq2000 sequencing generated 53 98 million paired-end (PE) 100-bp reads per technical replicate library to produce >48x mean alignment target depth of high-quality mapped bases (>Q20) for each technical replicate library (Table 1).
Another Smith-Waterman-like alignment, Target-align, has been shown to perform better than TAPIR [ 37].
The assessment works for any alignment method, which aligns target sequences against structural templates.
With regard to alignments targeting specifically metabolic pathways, several methods have been suggested.
We find that 61 (73%) of the 83 query sRNAs yield a maximum of one significant BLAST alignment per target genome, while each of the remaining 22 yields more than one significant BLAST alignment in at least one target genome.
