The phrase "alignment rate and" is correct and usable in written English.
It can be used when discussing metrics or statistics related to alignment rates in various contexts, such as business, education, or technology.
Example: "The alignment rate and its impact on overall performance will be analyzed in the upcoming report."
Alternatives: "alignment percentage and" or "alignment ratio and".
Given these vastly different overall alignment rates and patterns, we chose UMD3.1 to serve as our reference sequence build for assembling the optical map.
For the two enzymes then used to make RAD libraries, the correspondences between the unique-alignment rate and the fragment size were tabulated.
Mapping all RNA-seq reads against both transcriptomes (CLC or Velvet/Oases) revealed that the overall mapping success rate, as a measure for assembly quality, was significantly lower for the Velvet/Oases assembly compared to the CLC assembly (see Additional file 1), with an average overall alignment rate of 91.7 % and 73.4 % for the CLC and Velvet/Oases assembly, respectively.
Sequencing performance QC (Step 3) is performed during the alignment process, by estimating specific statistical metrics (that is total number of reads, % of unpaired reads, % of reads aligned 0 times, % reads aligned exactly once, % of reads aligned more than once, and overall alignment rate) for each sequenced sample.
This file contains the read depth and alignment rate for each single-cell RNA-seq sample from the Cas9 microinjected controls and the sgRNA2b/Cas9 ribonucleoprotein complex microinjected embryos collected at the blastocyst stage.
We used the high-resolution RAD-based SNP genetic map and BLASTN (E-value < 1 × 10−5, identity ≥95%, and alignment rate >50%) to map reads containing SNPs with less than two mismatches to PoGSP-derived scaffolds.
We downloaded protein sequences of 1,417 OR gene family members from NCBI and mapped them to H. comes genome using Tblastn with "E-value ≤1e-10" alignmentnment rate ≥ 0.5".
We retained alignments with an alignment rate of more than 70% and a mapping identity of more than 40%.
The average alignment rate was 0.89 (s.d. 0.02) and 0.86 (s.d. 0.03) for human and mouse, respectively.
By eliminating reads with multiple alignments, the false alignment rate decreases to almost 0 for SOAP2, Bowtie, and BWA, and below 9% for Novoalign (Table 10).
