Table 1.
Number of reads after QC and host genome depletion as described in the workflow in Fig. 2.
| Sample | QC | Host genome depletion | Echo 11 reads | Coverage | Depth (X) | E11 RT-PCR (CT value) | |
|---|---|---|---|---|---|---|---|
| Case1 | Anal Swab | 3.5E+07 | 8.5E+05 (2.4%) | 113 | 3734 (50.2%) | 6.52 | 28 |
| Oral Swab | 3.7E+07 | 1.2E+07 (31.8%) | 18625 | 7420 (99.9%) | 1080 | 24 | |
| Case4 | Anal Swab | 4.4E+07 | 1.1E+06 (2.5%) | 1542 | 7386 (99.4%) | 62.5 | 28 |
| Oral Swab | 2.7E+07 | 1.3E+07 (49.2%) | 3811 | 7385 (99.4%) | 246.2 | 24 | |
| Case5 | Day0_Blood | 4.2E+07 | 8.5E+05 (2.0%) | 6 | 775 (10.4%) | 0.96 | NT |
| Day4_Blood | 5.8E+07 | 1.3E+06 (2.2%) | 2 | 61 (0.8%) | 0.96 | NT | |
| Day8_Blood | 2.3E+07 | 6.4E+05 (2.7%) | 176 | 2309 (31.1%) | 1.59 | 24 | |
| Day9_Blood | 3.0E+07 | 2.5E+06 (8.2%) | 7262 | 7130 (95.9%) | 1769 | 18 | |
| Day10_Blood | 2.6E+07 | 6.7E+05 (2.5%) | 38211 | 7386 (99.4%) | 2702 | 18 | |
| Day11_Blood | 2.1E+07 | 2.8E+06 (13.1%) | 8572 | 7225 (97.2%) | 1252 | 21 |
The number of reads and the coverage depth of Echo 11 virus were calculated.