Sample source | N animals sampled | Mean (range) coverage | Coverage threshold | N samples sequenced | N variable sites (cov. ≥ 20 ×) | |||
---|---|---|---|---|---|---|---|---|
Challenge virus | BAL | NS | Total | |||||
Expt A | 0 | 5234 (−) |  < 20 20–500  ≥ 500 | 0 0 1 | 0 0 0 | 0 0 0 | 0 0 1 | – |
Expt B | 2 | 2323 (64, 8614) |  < 20 20–500  ≥ 500 | 0 0 1 | 0 2 0 | 0 2 1 | 0 4 2 | 0 |
Expt C | 2 | 1952 (148, 7925) |  < 20 20–500  ≥ 500 | 0 1 0 | 0 1 1 | 0 1 2 | 0 3 3 | 1 |
Expt D | 2 | 108 (53, 207) |  < 20 20–500  ≥ 500 | 0 1 0 | 0 2 0 | 0 1 0 | 0 4 0 | 1 |
Expt F | 5 | 604 (1, 2195) |  < 20 20–500  ≥ 500 | 0 0 1 | 2 1 0 | 0 9 3 | 2 10 4 | 7 |
Expt G | 8 | 1314 (65, 5856) |  < 20 20–500  ≥ 500 | 0 0 1 | 0 3 5 | 0 0 0 | 0 3 6 | 0 |
Outbreak | 8 | 1700 (12, 7691) |  < 20 20–500  ≥ 500 | – – – | 0 0 0 | 1 3 4 | 1 3 4 | 146 |
Total | 27 | 1413 (1, 8614) |  < 20 20–500  ≥ 500 | 0 2 4 | 2 9 6 | 1 16 10 | 3 27 20 | – |