Table 1.
Nucleotide substitutions affect the stability of the branched hairpin (BH) and extended hairpin (EH) conformation of TAR.
| ΔGBHa | ΔGEHa | ΔΔGBH-EHb | culturec | |
| TARwt (SIVmac239) | -65.3 | -68.2 | 2.9 | |
| TARm (SIV-rtTA) | -67.5 | -63.9 | -3.6 | |
| +63A-G | -67.5 | -66.3 | -1.2 | 172, 281, 3115, 481, 6124, 7136, 1328 |
| +63A-G +44C-T | -65.9 | -63.9 | -2.0 | 1153 |
| +63A-G +21G-A | -62.5 | -66.6 | 4.1 | 4234 |
| +78C-T | -65.8 | -65.7 | -0.1 | 532, 1037 |
| +78C-T +47T-C | -63.7 | -64.1 | 0.4 | 5198 |
| +21G-A | -62.5 | -64.2 | 1.7 | 948 |
| +21G-A +78C-T +99C-T | -58.4 | -63.6 | 5.2 | 5124 |
| +21G-A +74G-A | -58.8 | -63.4 | 4.6 | 9130 |
| +5G-A +59A-T | -63.3 | -69.6 | 6.3 | 10136 |
| +73T-C | -66.5 | -65.1 | -1.4 | 11147 |
| +73T-C +49C-T | -64.2 | -64.9 | 0.7 | 8222 |
| +46C-T +72G-A | -67.6 | -63.6 | -4.0 | 12120 |
a ΔG values (kcal/mole) as determined with the Mfold RNA analysis software. b ΔΔGBH-EH = ΔGBH-ΔGEH. c Culture in which the mutation is observed (see Figure 2), with the day of earliest detection in superscript.