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Table 1 Results from the first sequencing run

From: Modified SureSelectQXT Target Enrichment Protocol for Illumina Multiplexed Sequencing of FFPE Samples

Sample DIN #Pre-hyb Cycles Hyb Input (ng) #Sequences Aligned On target No PCR Dup Final MedianDepth (per million reads)
NA12878 9.3 8 750 3,387,238 99.37% 75.07% 48.16% 48.14% 113.07
NA12891 9.1 8 750 3,188,127 99.48% 72.49% 49.56% 49.54% 118.25
NA12892 9.1 8 750 3,115,861 98.88% 73.80% 50.41% 50.40% 119.07
NT1 6.4 8 401 11,305,259 99.72% 71.49% 31.15% 31.13% 63.42
T1 2.7 10 362.5 2,866,206 99.37% 72.20% 35.17% 35.13% 66.29
T2 2.2 10 11,9 2,813,675 97.65% 81.07% 4.45% 4.40% 4.98
T3 3 10 87 2,730,937 99.39% 77.30% 13.86% 13.84% 25.63
T4 2 10 12 2,347,778 97.87% 71.73% 5.09% 5.05% 7.24
T5 3.6 10 32.4 3,077,225 99.35% 79.63% 8.45% 8.42% 13.65
NA12892 9.1 10 156 2,983,904 98.63% 77.31% 49.21% 49.19% 106.24
  1. From left to right: sample name, DIN value for input DNA, number of cycles in the pre-hyb PCR, total amount of digested and adaptor-tagged library used in the hybridization step, number of sequences obtained, percentage of sequences aligned to the human reference genome, percentage of sequences on target, percentage of sequences after PCR duplicates removal, percentage of sequences after low-quality-mapped-reads removal, median of the depth in the target regions obtained per million reads (normalized for a more realistic comparison)