Table 2 Read and assembly statistics.
| Â | BL720 Dilutions | Tumor Cell Lines | Patient Tumor Samples |
|---|---|---|---|
Median read depth (unique genome) | 1110 | 1232 | 1094 |
Median read depth (repeat regions) | 83 | 316 | 404 |
Median read lengths | |||
 Post-sWGA (bps) | 1449 | 1795 | 1839 |
 Post-multiplex PCR (bps) | 1233 | 1437 | 1402 |
 Post-EBNA2 + LMP2 singleplex PCR (bps) | N/A | 1483 | 1503 |
Mean % EBV mapping bases | |||
 Post-sWGA | 22.09 (p = 0.0153) | 36.22 (p < 0.0001) | 26.41 (p = 0.0123) |
 Post-multiplex PCR | 71.72 (p = 0.0004) | 69.22 (p < 0.0001 ) | 67.53 (p = 0.0042) |
 Post-EBNA2 + LMP2 singleplex PCR | N/A | 62.78 (p < 0.0001) | 46.78 (p = 0.0014) |
Mean x-fold EBV enrichment | |||
 Post-sWGA | 1410 (p = 0.0219) | 631 (p = 0.0007 ) | 490 (p = 0.0598) |
 Post-multiplex PCR | 6617 (p = 0.0477) | 1306 (p = 0.0003) | 1397 (p = 0.0872) |
 Post-EBNA2 + LMP2 singleplex PCR | N/A | 1287 (p = 0.0019) | 1097 (p = 0.1161) |
Mean x-fold human enrichment | |||
 Post-sWGA | 0.83 (p = 0.0125) | 0.71 (p < 0.0001) | 0.83 (p = 0.0213) |
 Post-multiplex PCR | 0.42 (p = 0.0004) | 0.44 (p < 0.0001) | 0.49 (p = 0.0069) |
 Post-EBNA2 + LMP2 singleplex PCR | N/A | 0.56 (p < 0.0001) | 0.72 (p = 0.0089) |
Mean output amount of DNA | |||
 Post-sWGA (Input) | 2652 (12.5) | 2790 (12.5) | 2695 (12.5) |
 Post-multiplex PCR (Input) | 3540 (200) | 4586 (200) | 4385 (200) |
 Post-EBNA2 + LMP2 singleplex PCR (Input) | N/A | 1806 (100) | 1781 (100) |
Mean assembly breadth of coverage across unique genome (%) | 96.01 | 99.62 | 98.68 |
Mean assembly similarity to illumina (%) | 99.91 | 99.61 | N/A |
