Table 1.
Statistics of quality control and alignment to human reference genome (GRCh38.p13).
| Sample | Raw read number | Raw base number (Q30 base rate %) | Adapter polluted read number (%) | Low-quality read number (%) | Ploy-N read number (%) | Clean read number (%) | Clean base number (Q30 base rate %) | Mapped clean read number to reference genome (%) | Mapped clean read number (%) in exons of reference genes | Mapped clean read number (%) in introns of reference genes |
|---|---|---|---|---|---|---|---|---|---|---|
| HG1 | 48,909,654 | 7,336,448,100 (92.98) | 732,722 (1.50) | 219,180 (0.45) | 70,820 (0.14) | 47,886,932 (97.91) | 7,183,039,800 (93.20) | 46,597,334 (97.31) | 19,291,203 (41.40) | 806,613 (1.73) |
| HG2 | 47,359,384 | 7,103,907,600 (92.80) | 675,864 (1.43) | 337,124 (0.71) | 83,178 (0.18) | 46,263,218 (97.69) | 6,939,482,700 (93.13) | 44,866,400 (96.98) | 18,748,424 (41.79) | 818,605 (1.82) |
| HG3 | 47,542,838 | 7,131,425,700 (92.84) | 2,126,872 (4.47) | 192,338 (0.41) | 261,400 (0.55) | 44,962,228 (94.57) | 6,744,334,200 (93.17) | 43,678,133 (97.14) | 18,195,761 (41.66) | 781,807 (1.79) |
| HGTEPP1 | 47,027,902 | 7,054,185,300 (93.01) | 2,045,470 (4.35) | 171,772 (0.36) | 173,294 (0.37) | 44,637,366 (94.92) | 6,695,604,900 (93.26) | 43,421,950 (97.28) | 18,183,221 (41.88) | 661,783 (1.52) |
| HGTEPP2 | 46,777,790 | 7,016,668,500 (93.24) | 633,516 (1.35) | 311,876 (0.67) | 88,754 (0.19) | 45,743,644 (97.79) | 6,861,546,600 (93.55) | 44,481,632 (97.24) | 17,597,949 (39.56) | 1,224,360 (2.75) |
| HGTEPP3 | 46,290,168 | 6,943,525,200 (92.17) | 746,130 (1.61) | 276,586 (0.60) | 72,800 (0.16) | 45,194,652 (97.63) | 6,779,197,800 (92.44) | 43,790,373 (96.89) | 17,550,446 (40.08) | 1,119,942 (2.56) |
| Mean | 47,317,956 | 7,097,693,400 (92.84) | 1,160,096 (2.45) | 251,479 (0.53) | 125,041 (0.27) | 45,781,340 (96.75) | 6,867,201,000 (93.13) | 44,472,637 (97.14) | 18,261,167 (41.06) | 902,185 (2.03) |
| SD | 818,337 | 122,750,502 (0.33) | 656,293 (1.39) | 61,247 (0.13) | 70,309 (0.15) | 1,079,426 (1.43) | 161,913,969 (0.34) | 1,070,057 (0.16) | 612,880 (0.90) | 199,841 (0.46) |
% indicates the percentage. HGTEPP1, HGTEPP2, and HGTEPP3 indicate the case groups that were treated with 10 μM TEPP-46 in 25 mM HG medium. HG1, HG2, and HG3 indicate the control groups that were treated without TEPP-46 in 25 mM HG medium.