Table 1.
The results of RNA-Sequencing and clean reads mapping to the reference genome for each group.
| Sample | ZKR a_S1 b | ZKR_S2 b | ZKR_S3 b | QXR c_S1 | QXR_S2 | QXR_S3 |
|---|---|---|---|---|---|---|
| Raw reads | 100,481,781 | 99,812,614 | 99,445,825 | 100,002,793 | 99,887,525 | 99,071,615 |
| Clean reads | 95,660,601 | 94,297,177 | 90,539,959 | 97,386,913 | 97,460,159 | 91,414,542 |
| Filtering rate | 93.26% | 92.81% | 90.31% | 95.51% | 95.85% | 91.25% |
| Q30 | 92.25% | 91.40% | 95.96% | 94.52% | 95.74% | 96.03% |
| Total mapped reads | 87,463,758 (91.41%) |
87,557,832 (92.85%) |
83,122,460 (91.81%) |
89,812,801 (92.22%) |
90,465,752 (92.82%) |
83,950,965 (91.84%) |
| Multiple mapped | 10,182,952 (10.65%) |
11,506,609 (12.20%) |
11,988,424 (13.24%) |
10,370,562 (10.65%) |
11,019,503 (11.30%) |
13,298,066 (14.53%) |
| Uniquely mapped | 77,280,806 (80.77%) |
76,051,223 (80.65%) |
71,134,037 (78.56%) |
79,442,240 (81.58%) |
79,446,249 (81.52%) |
70,652,899 (77.31%) |
| Reads map to ‘+’ | 38,609,153 (40.35%) |
37,967,782 (40.26%) |
35,526,529 (39.24%) |
39,685,378 (40.75%) |
39,665,757 (40.70%) |
35,482,024 (38.82%) |
| Reads map to ‘−’ | 38,671,654 (40.42%) |
38,083,441 (40.39%) |
35,607,508 (39.33%) |
39,756,861 (40.83%) |
39,780,492 (40.82%) |
35,170,875 (38.49%) |
a ZKR: ZIKA rabbits; b S1, S2, and S3 refer to the age of 0 day, 35 days, and 84 days after birth, respectively; c QXR: Qixin rabbits.