Frequent base changes
Table. The most frequent base changes* in PBS region of HIV-1 isolates of B, C, D, F1, A, G, 01_AE, and 02_AG subtypes. The PBS region is considered within BMH model for 5` UTR of HIV-1 genome.
| Subtype (number of isolates) | B (441) | C (449) | D (37) | F1 (14) | A (26) | G (12) | 01_AE (68) | 02_AG (20) |
|---|---|---|---|---|---|---|---|---|
| No base changes | 0.9% | - | - | - | - | - | - | - |
| 1G → 1A | 1.4% | 0.2% | - | - | - | - | - | 5.0% |
| 3U → 3G | 0.5% | - | - | - | - | - | 100% | - |
| 4G → 4U | - | - | 2.7% | - | 3.8% | - | 97.1% | - |
| 5U → 5G | 0.7% | - | - | - | - | - | - | - |
| 6G → 6A | 0.7% | 2.4% | 2.7% | 7.1% | 19.2% | - | 94.1% | - |
| 6G → 6U | 0.2% | 0.7% | 8.1% | 7.1% | 19.2% | 8.3% | 4.4% | - |
| 7U → 7G | 0.2% | - | - | - | - | - | 95.6% | - |
| 7(UG)8del | 1.8% | 0.2% | 45.9% | - | - | - | - | - |
| 8G → 8A | 1.4% | 0.4% | 2.7% | - | - | - | - | - |
| 9A → 9G | - | 13.4% | - | - | 3.8% | - | - | - |
| 17A → 17G | 0.7% | 0.2% | - | - | - | - | - | - |
| 18A → 18G | 12.9% | 3.1% | - | 7.1% | - | - | - | - |
| 18A → 18U | 3.6% | 2.2% | - | - | - | - | - | 15.0% |
| 35C → 35U | 3.4% | 2.9% | 5.4% | - | - | - | 1.5% | - |
| 36C → 36U | 4.1% | 4.0% | 10.8% | - | 3.8% | - | - | 20.0% |
| 36C → 36A | 9.8% | 5.6% | 5.4% | - | - | - | - | - |
| 37C → 37U | 4.8% | 14.0% | 67.6% | - | - | - | - | - |
| 37C → 37A | 15.2% | 23.6% | 8.1% | 92.9% | 96.2% | 100% | 100% | 100% |
| 38U → 38C | 7.3% | 1.8% | 78.4% | - | 100% | 100% | 100% | 95.0% |
| Subtype | B | C | D | F1 | A | G | 01_AE | 02_AG |
| 39U → 39C | 1.6% | 0.4% | 5.4% | 7.1% | 3.8% | - | - | - |
| 39U → 39G | 1.1% | 0.6% | 2.7% | - | 7.7% | - | - | - |
| 40U → 40C | 0.2% | 3.8% | 2.7% | 7.1% | 88.5% | 100% | 100% | 70.0% |
| 40(G)41ins | - | 26.1% | - | - | - | - | - | - |
| 41(U)42ins | - | 11.4% | - | - | - | - | - | - |
| 41(U)del | 3.9% | 4.7% | 2.7% | - | - | - | - | - |
| 42A → 42G | 0.2% | 86.4% | 2.7% | - | - | - | - | - |
| 44U → 44G | 0.7% | 0.2% | - | - | 30.8% | - | 1.5% | 10.0% |
| 44U → 44A | - | 0.7% | 2.7% | - | 65.4% | 100% | 98.5% | 70.0% |
| 45C → 45U | 5.0% | 3.1% | 10.8% | - | 3.8% | 41.7% | 8.8% | 15.0% |
| 45(C)del | - | 81.7% | - | - | - | - | - | - |
| 46A → 46U | 0.9% | 5.3% | 10.8% | 7.1% | 38.5% | - | 100% | 75.0% |
| 46A → 46G | - | 1.1% | 2.7% | - | 42.3% | 16.7% | - | 10.0% |
| 48U → 48A | - | 0.7% | 8.1% | - | 34.6% | 8.3% | 98.5% | 5.0% |
| 49G → 49A | 1.4% | 0.9% | - | - | - | 8.3% | 2.9% | 5.0% |
| 50U → 50G | 1.1% | 0.2% | - | - | - | - | - | - |
| 51G → 51A | 11.6% | 2.2% | 18.9% | - | 88.5% | 100% | 91.2% | 90.0% |
| 52G → 52A | 7.5% | 2.7% | 18.9% | - | 3.8% | - | - | 20.0% |
| 52(G)d | 0.9% | 0.7% | 8.1% | - | 92.3% | 100% | 91.2% | 60.0% |
| 85C → 85U | 58.5% | 50.3% | 78.4% | 35.7% | 92.3% | 91.7% | 89.7% | 55.0% |
| Subtype | B | C | D | F1 | A | G | 01_AE | 02_AG |
| 85C → 85G | 8.4% | 12.5% | - | 50.0% | - | - | - | - |
| 86U → 86C | 21.5% | 29.0% | 5.4% | 50.0% | 65.4% | 8.3% | 8.8% | - |
| 86U → 86G | 5.9% | 0.4% | - | - | - | - | - | 40.0% |
| 86U → 86A | 1.6% | 3.7% | 2.7% | - | - | - | 1.5% | - |
| 90(A)91ins | 0.9% | - | 2.7% | - | 19.2% | - | 1.5% | - |
| 90-96del | - | - | - | - | - | - | - | 95.0% |
| 91G → 91A | 10.2% | 5.1% | - | 7.1% | - | 25.0% | 1.5% | - |
| 92C → 92U | 5.9% | 4.7% | 5.4% | 7.1% | 3.8% | 33.3% | 22.1% | - |
| 92C → 92A | 1.4% | 0.2% | - | - | - | - | - | - |
| 98G → 98A | 25.2% | - | - | - | - | - | - | 5.0% |
| 98G → 98U | 56.% | 98.7% | 97.3% | 100% | 100% | 100% | 94.1% | 85.0% |
| 99G → 99A | 60.3% | 93.1% | 97.3% | 100% | 15.4% | - | - | - |
| 99G → 99U | 0.5% | 0.9% | - | - | 61.5% | 100% | 98.5% | 100% |
| 99(G)del | - | - | - | - | 23.1% | - | - | - |
| 100A → 100G | 42.6% | 12.5% | 91.9% | 100% | - | - | - | - |
| 100(AAA)102del | - | - | - | - | 53.8% | - | 1.5% | - |
| 101A → 101G | 3.6% | 88.2% | - | - | 11.5% | - | - | - |
| 102A → 102U | 0.2% | 0.7% | - | - | 9.5% | 50.0% | 97.1% | 100% |
| 102A → 102C | 0.7% | 0.2% | - | - | 15.4% | 33.3% | 1.5% | - |
| 102(ins21)103 | - | 0.9% | - | - | 30.8% | 100% | 98.5% | 100% |
| 105A → 105G | 15.9% | 1.1% | 2.7% | - | - | - | - | - |
| 109G → 109A | 14.1% | 29.2% | 24.3% | 71.4% | 80.8% | 100% | 98.5% | 95.0% |
| 112C → 112U | 1.4% | 2.2% | 2.7% | - | 84.6% | 83.3% | 97.1% | 15.0% |
| 112C → 112A | 26.5% | 95.1% | 21.6% | 100% | 9.5% | 16.7% | 2.9% | 50.0% |
| 113U → 113A | - | 3.3% | - | - | - | - | - | - |
| 115U → 115C | - | 0.2% | 2.7% | - | - | - | 2.9% | - |
| 117U → 117C | 0.2% | 0.4% | 2.7% | - | - | - | - | - |
| 124(A)125ins | 0.2% | - | - | - | - | - | 1.5% | 30.0% |
| 124(G/C)125ins | - | - | - | - | - | - | - | 65.0% |
| 127A → 127G | 0.5% | 5.7% | - | - | 3.8% | - | - | 5.0% |
| Subtype (number of isolates) | B (441) | C (449) | D (37) | F1 (14) | A (26) | G (12) | 01_AE (68) | 02_AG (20) |