Table 1.
Summary information of SARS-CoV-2 specimens included in the study.
| Lineage | N | N (with complete clinical metadata) | Mean coverage | Median coverage | Median mapped reads | Earliest collection date | Latest collection date |
|---|---|---|---|---|---|---|---|
| BA.5 | 2084 | 42 | 3373 | 2987 | 1,739,672 | 13/06/2022 | 18/06/2022 |
| BA.2 | 2306 | 333 | 3401 | 3555 | 2,067,029 | 14/12/2021 | 17/06/2022 |
| BA.1 | 2297 | 473 | 3261 | 3245 | 1,895,626 | 28/11/2021 | 29/03/2022 |
| Late Delta | 1863 | 724 | 3794 | 3926 | 2,322,849 | 21/11/2021 | 22/01/2022 |
| Delta | 1870 | 1281 | 3541 | 3574 | 2,092,134 | 31/05/2021 | 13/09/2021 |
| Alpha | 1904 | 1142 | 1902 | 1808 | 1,036,346 | 03/05/2021 | 10/08/2021 |
| Full dataset | 12,324 | 3995 | 3376 | 3059 | 1,786,170 |
For each lineage group, the number of included samples with available sequence alignment file, mean and median sequence coverage and collection time point is shown.