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Each 32-nt sequence that could not be uniquely aligned to the genomic region from which it originated was considered unmappable and its first position was considered an unmappable position.
The fraction of the H37Rv genome that could not be covered (approximately 2.0%) comprised DNA with a GC content >80% and repeat regions (such as IS6110 elements) whose sequence could not be uniquely aligned to the reference.
To determine genome-wide mappability, we exhaustively enumerated the hg18 reference genome sequences to generate genome-wide mappability data resources that profiled the extent to which 32-nt DNA sequences could be uniquely aligned to the genome using precisely the same parameters as above.
Almost half of the reads could be uniquely aligned to the reference genome.
About 20% of reads could be uniquely mapped to the genome for CLIP samples, while ~60% of reads could be uniquely aligned to the genome for RNAseq samples.
There were 94% (32,892), 94% (36,151) and 93% (35,589) of the total transcripts can be uniquely aligned to the reference genome with ≥ 97% sequence identity for BH, HN and S, respectively.
Similar(52)
Only the reads that were uniquely aligned to reference genome with read alignment score higher than 4.5 were retained for further analysis.
Fragments that are uniquely aligned to the unknown gene by the aligner can also be aligned to Caml3.
However, the confounding factors of SNPs, read errors and aligner heuristics can result in reads that are uniquely aligned to the wrong positions.
The Institute's diverse array of work and inquiry areas are uniquely aligned to create belonging and identify its barriers.
All of these A-supporting reads were uniquely aligned to mPing locus Chr3: 25526483–25526485 that contains a 430-bp mPingC element successfully assembled from locus-specific paired-end reads, suggesting these A-supporting reads were from mPing not from Ping.
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