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Table 1 Sequencing quality control metrics

From: A cancer cell-line titration series for evaluating somatic classification

Library Read length Error % (%) Soft clip % (%) % Reads on target (%) # Reads on target Average coverage 90 % covered at
100 % Cell-line 2 × 101 0.18 1.76 65.34 164,598,000 326.04× >22×
60 % Cell-line 2 × 101 0.19 1.54 67.30 154,878,000 307.48× >21×
40 % Cell-line 2 × 101 0.18 1.59 66.29 171,334,000 339.97× >24×
20 % Cell-line 2 × 101 0.29 1.18 67.25 153,932,000 306.70× >21×
15 % Cell-line 2 × 101 0.18 1.52 66.05 182,028,000 361.46× >25×
10 % Cell-line 2 × 101 0.20 2.13 66.03 184,641,000 364.35× >27×
5 % Cell-line 2 × 101 0.21 1.70 67.40 186,666,000 369.99× >29×
100 % Normal 2 × 101 0.23 1.78 66.81 200,737,000 397.55× >27×
  1. Several quality control metrics are reported here for the cell-line titration series libraries, as determined from Novoalign mapped reads. Error % is defined as the number of bases mapped as mismatches or indels over the total number of mapped bases. An on target read is defined as any read with at least one base overlapping the Agilent SureSelect All Exon v4 target regions