Table 3.
Summary of clean reads mapped to the reference genome
| Sample name | A1 | A2 | A3 | B1 | B2 | B3 | C1 | C2 | C3 | D1 | D2 | D3 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Total reads | 40093612 | 45508458 | 41913544 | 44613686 | 43741790 | 42207044 | 44041564 | 45368646 | 40598352 | 45455460 | 40410590 | 41583286 |
| Total mapped | 33174052 (82.74%) | 39784929 (87.42%) | 35390098 (84.44%) | 39156701 (87.77%) | 36809049 (84.15%) | 38574060 (91.39%) | 37395128 (84.91%) | 40004868 (88.18%) | 32801663 (80.8%) | 39311658 (86.48%) | 32232784 (79.76%) | 34737783 (83.54%) |
| Multiple mapped | 917254 (2.29%) | 1067019 (2.34%) | 946894 (2.26%) | 1176321 (2.64%) | 997260 (2.28%) | 1098570 (2.6%) | 1185829 (2.69%) | 1369524 (3.02%) | 1022149 (2.52%) | 1119321 (2.46%) | 937961 (2.32%) | 1015029 (2.44%) |
| Uniquely mapped | 32256798 (80.45%) | 38717910 (85.08%) | 34443204 (82.18%) | 37980380 (85.13%) | 35811789 (81.87%) | 37475490 (88.79%) | 36209299 (82.22%) | 38635344 (85.16%) | 31779514 (78.28%) | 38192337 (84.02%) | 31294823 (77.44%) | 33722754 (81.1%) |
| Non-splice reads | 20272875 (50.56%) | 24409418 (53.64%) | 22061282 (52.64%) | 23293716 (52.21%) | 22443212 (51.31%) | 22884473 (54.22%) | 21414897 (48.62%) | 21880241 (48.23%) | 18591284 (45.79%) | 22881690 (50.34%) | 18665456 (46.19%) | 20269939 (48.75%) |
| Splice reads | 11983923 (29.89%) | 14308492 (31.44%) | 12381922 (29.54%) | 14686664 (32.92%) | 13368577 (30.56%) | 14591017 (34.57%) | 14794402 (33.59%) | 16755103 (36.93%) | 13188230 (32.48%) | 15310647 (33.68%) | 12629367 (31.25%) | 13452815 (32.35%) |