Table 1.
The analyses of reads mapped to the rabbit reference genome
| Sample name | H1 | H2 | H3 | H4 | L1 | L2 | L3 | L4 |
|---|---|---|---|---|---|---|---|---|
| Total reads | 95,426,664 | 84,456,770 | 149,301,000 | 89,038,716 | 123,865,064 | 94,769,312 | 109,570,388 | 130,245,954 |
| Total mapped | 85,943,449 (90.06%) | 75,328,473 (89.19%) | 133,972,487 (89.73%) | 79,823,704 (89.65%) | 110,263,589 (89.02%) | 84,819,962 (89.5%) | 99,272,110 (90.6%) | 117,162,667 (89.95%) |
| Multiple mapped | 11,938,587 (12.51%) | 9,315,870 (11.03%) | 13,827,931 (9.26%) | 10,659,938 (11.97%) | 16,534,984 (13.35%) | 9,777,660 (10.32%) | 14,500,967 (13.23%) | 11,066,700 (8.5%) |
| Uniquely mapped | 74,004,862 (77.55%) | 66,012,603 (78.16%) | 120,144,556 (80.47%) | 69,163,766 (77.68%) | 93,728,605 (75.67%) | 75,042,302 (79.18%) | 84,771,143 (77.37%) | 106,095,967 (81.46%) |
| Reads map to ‘+’ | 36,872,804 (38.64%) | 32,897,302 (38.95%) | 60,000,375 (40.19%) | 34,636,589 (38.9%) | 46,454,860 (37.5%) | 37,454,686 (39.52%) | 42,357,439 (38.66%) | 52,928,464 (40.64%) |
| Reads map to ‘-’ | 37,132,058 (38.91%) | 33,115,301 (39.21%) | 60,144,181 (40.28%) | 34,527,177 (38.78%) | 47,273,745 (38.17%) | 37,587,616 (39.66%) | 42,413,704 (38.71%) | 53,167,503 (40.82%) |
| Non-splice reads | 56,778,516 (59.5%) | 51,943,073 (61.5%) | 89,625,539 (60.03%) | 51,395,189 (57.72%) | 74,099,166 (59.82%) | 57,787,882 (60.98%) | 65,280,836 (59.58%) | 79,655,006 (61.16%) |
| Splice reads | 17,226,346 (18.05%) | 14,069,530 (16.66%) | 30,519,017 (20.44%) | 17,768,577 (19.96%) | 19,629,439 (15.85%) | 17,254,420 (18.21%) | 19,490,307 (17.79%) | 26,440,961 (20.3%) |
| Reads mapped in proper pairs | 69,994,050 (73.35%) | 62,138,530 (73.57%) | 113,304,356 (75.89%) | 65,315,796 (73.36%) | 88,424,106 (71.39%) | 70,592,926 (74.49%) | 80,480,580 (73.45%) | 100,326,142 (77.03%) |