Table 1.
Details of mapping RRBS libraries to the porcine genome (Sscrofa11.1) using bismark (Bowtie 2)
| Sample ID | Clean reads | Unique alignments | Mapping efficiency | CpG methylation | Non-CpG methylation |
|---|---|---|---|---|---|
| DuPi_11 | 25,598,295 | 13,016,706 | 50.8% | 44.0% | 8.1% |
| DuPi_12 | 33,475,531 | 16,674,560 | 49.8% | 45.2% | 8.7% |
| DuPi_56 | 33,731,881 | 17,385,378 | 51.5% | 45.2% | 8.0% |
| DuPi_57 | 29,270,325 | 15,359,097 | 52.5% | 44.8% | 8.5% |
| DuPi_60 | 31,094,984 | 15,763,028 | 50.7% | 44.2% | 9.4% |
| Duroc_38 | 28,869,589 | 14,725,935 | 51.0% | 43.7% | 8.1% |
| Duroc_42 | 23,517,510 | 12,022,839 | 51.1% | 44.8% | 9.1% |
| Duroc_43 | 35,098,019 | 19,596,737 | 55.8% | 45.2% | 10.2% |
| Duroc_58 | 35,688,527 | 18,941,344 | 53.1% | 44.5% | 9.4% |
| Duroc_61 | 30,005,918 | 15,453,489 | 51.5% | 44.5% | 8.0% |
| PiPP_23 | 30,088,721 | 15,743,823 | 52.3% | 44.7% | 9.3% |
| PiPP_48 | 28,917,500 | 15,104,512 | 52.2% | 43.3% | 8.2% |
| PiPP_51 | 34,649,573 | 18,386,095 | 53.1% | 44.6% | 8.6% |
| PiPP_52 | 29,679,615 | 15,433,031 | 52.0% | 44.1% | 7.9% |
| PiNN_41 | 31,118,398 | 16,512,344 | 53.1% | 44.5% | 9.0% |
| PiNN_47 | 25,844,090 | 13,465,314 | 52.1% | 44.6% | 8.2% |
| PiNN_49 | 30,608,401 | 16,929,760 | 55.3% | 45.3% | 9.0% |