Library Type | GIS-PET | ChIP-PET | ||||
---|---|---|---|---|---|---|
Library ID | SHC012 | SHC013 | (combined) | SHC016 | SHC019 | (combined) |
Raw sequence reads | 74,537 | 53,758 | 128,295 | 89,359 | 82,941 | 172,300 |
Spacer-defined PETs | 741,799 | 363,963 | 1,105,762 | 777,038 | 845,045 | 1,622,083 |
PET/sequence read | 10 | 6.8 | 8.6 | 8.7 | 10.2 | 9.4 |
Rejected poor PETs | 157,175 | 83,623 | 240,798 | 51,161 | 81,510 | 132,671 |
Rejection rate % * | 21.1 | 22.3 | 22 | 6.6 | 9.7 | 8.2 |
Total high-quality PETs | 584,624 | 280,340 | 864,964 | 725,877 | 763,535 | 1,489,412 |
Total unique PETs | 135,757 | 145,138 | 280,895 | 640,844 | 582,253 | 1,223,097 |
Redundancy % ** | 76.8 | 48.2 | 62.5 | 11.7 | 23.7 | 17.7 |
5' AT content (%) | 31.71 | 32.89 | 32.30 | 58.06 | 57.85 | 57.96 |
3' AT content (%) | 61.49 | 62.18 | 61.84 | 57.98 | 57.57 | 57.78 |
Breakdown of rejected PETs | 157,175 | 83,623 | 240,798 | 51,161 | 81,510 | 132,671 |
Length < 34 | 43,022 | 7,942 | Â | 26,343 | 64,900 | Â |
 | -27.40% | -9.50% |  | -51.10% | -79.60% |  |
Length > 40 | 17,377 | 7,967 | Â | 24,794 | 16,581 | Â |
 | -11.10% | -9.50% |  | -48.90% | -20.40% |  |
Contain N | 16 | 3 | Â | 24 | 29 | Â |
No AA-tail at 3' end | 43,673 | 26,901 | -30.00% | N. A. | N. A. | Â |
 | -27.80% | -32.20% |  |  |  |  |
PolyA(9) in 3' tag | 41,983 | 20,264 | -25% | N. A. | N. A. | Â |
 | -26.70% | -24.20% |  |  |  |  |
PolyA(9) in 5' tag | 433 | 99 | Â | N. A. | N. A. | Â |
PolyT(9) in 5' tag | 116 | 118 | Â | N. A. | N. A. | Â |
PolyT(9) in 3' tag | 639 | 323 | Â | N. A. | N. A. | Â |