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Table 2 Summary of the MHC regional capture using dCATCH-Seq in three cell genomes

From: dCATCH-Seq: improved sequencing of large continuous genomic targets with double-hybridization

Cell Conditiona Total reads Aligned reads Alignment rate (%) PCR duplicate rate (%) Aligned reads on target On-target rate (%) Uniquely aligned reads on targetb On-target rate (%)b
K562 With PCR 2,882,056 2,744,145 97.79 2.67 2,503,434 91.23 2,342,653 92.77
K562 Without PCR 1,922,388 1,795,403 97.67 4.43 1,633,616 90.99 1,528,150 92.71
GM12878 Without PCR 4,243,904 3,836,649 98.44 8.39 3,492,283 91.02 3,228,811 92.28
U937 Without PCR 1,489,332 1,244,031 95.96 13.63 1,033,606 83.09 983,376 86.38
  1. aConditions are defined based on with or without PCR amplification of DNA library after the first round of capture
  2. bUniqueness and relevant statistics are calculated from reads with MAPQ ≥20