Table 1. The number of putative iHVs identified in the pangolin-CoV-GXC sublineage.
| Library | GXP1E | GXP5L | GXP5E | GXP4L | GXP2V | Total
iHVs (union) |
| Median coverage
(25%, 75%) |
420
(56, 2558) |
341
(37, 1547) |
829
(130, 3662) |
247
(126, 443) |
133
(88, 254) |
|
| The SRA accession Nos. are as follows: SRR11093266 (GXP1E), SRR11093267 (GXP5L), SRR11093268 (GXP5E), SRR11093269 (GXP4L), and SRR11093271 (GXP2V). Sites with coverage of ≥150X and ≥10 reads covering the alternative alleles in each library. | ||||||
|
Genome-wide |
||||||
| Synonymous | 93 | 61 | 139 | 15 | 1 | 217 |
| Nonsynonymous | 162 | 107 | 181 | 31 | 8 | 336 |
| Frameshift | 105 | 85 | 108 | 22 | 114 | 264 |
| Stop-gain | 3 | 1 | 0 | 0 | 0 | 3 |
| Intergenic | 7 | 9 | 2 | 3 | 20 | 29 |
| Other | 3 | 2 | 2 | 0 | 0 | 3 |
| Total | 373 | 265 | 432 | 71 | 143 | 852 |
| S gene | ||||||
| Synonymous | 31 | 8 | 13 | 1 | 0 | 36 |
| Nonsynonymous | 63 | 20 | 28 | 6 | 0 | 73 |
| Frameshift | 23 | 20 | 16 | 6 | 18 | 46 |
| Stop-gain | 1 | 0 | 0 | 0 | 0 | 1 |
| Other | 2 | 1 | 1 | 0 | 0 | 2 |
| Total | 120 | 49 | 58 | 13 | 18 | 158 |