Table 4.
Complex SNPs and INDELs in Protein Coding Regions
| Strain | Strain 17 Position | Reference Nucleotide | Allele Variation | Frequencies (%) | Base Call | Coverage | Protein | Amino Acid Change |
|---|---|---|---|---|---|---|---|---|
| TFT401 | 19403 | — | T/— | 50/50 | — | 4 | UL9 | — |
| TFT401 | 144830 | G | G/T | 57.1/42.9 | G | 354 | US10 | — |
| 134 | 79414 | — | —/A | 52.5/45.8 | — | 59 | UL36; VP1/2 | — |
| 134 | 79416 | G | G/— | 54.4/43.9 | G | 57 | UL36; VP1/2 | — |
| 134 | 99188 | CGT | —/CGT | 54.8/43.7 | — | 135 | UL46; VP11/12 | del589A |
| 134 | 141630 | A | A/G | 63.7/36.3 | A | 146 | US8; gE | — |
| CJ311 | 40230 | T | T/G | 64.9/35.1 | T | 1073 | UL19; VP5 | — |
| CJ311 | 79421 | A | A/C | 63.6/36.4 | A | 11 | UL36; VP1/2 | — |
| CJ360 | 40230 | T | T/G | 58.8/41.2 | T | 1127 | UL19; VP5 | — |
| CJ360 | 99188 | CGT | —/CGT | 56.9/39.2 | — | 153 | UL46; VP11/12 | del589A |
| CJ360 | 141799 | A | A/G | 64.4/35.6 | A | 427 | US8; gE | — |
| CJ394 | 141799 | A | A/G | 54.7/45.3 | A | 311 | US8; gE | — |
| CJ970 | 19176 | C | C/T | 57.1/42.9 | C | 18 | UL8 | — |
| CJ970 | 24282 | G | A/G | 58.5/41.5 | A | 172 | UL10 | R360H |
| CJ970 | 26636 | C | C/A | 63.6/36.2 | C | 434 | UL12 | — |
| CJ970 | 71812 | G | G/A | 57.1/42.9 | G | 7 | UL36; VP1/2 | — |
| CJ970 | 71818 | G | G/A | 55.6/44.4 | G | 9 | UL36; VP1/2 | — |
| CJ970 | 79625 | G | G/T | 62.5/37.5 | G | 8 | UL36; VP1/2 | — |
| CJ970 | 99510 | — | —/CGG | 50/50 | — | 4 | UL46; VP11/12 | — |
| CJ970 | 144838 | — | —/T | 62.1/37.9 | — | 29 | US10 | — |