Table 3. Comparison of co-transcriptional models of the LL motif rRNA leader sequence (+1 to +414) with C vs U at SNP site +139.
| Wild-type (+139 U) | SNP (+139 C) | |||||||
| Population size modelled | % LL motif in conformation listed | Free Energy (kcal/mol) | % LL motif in conformation listed | Free energy (kcal/mol) | ||||
| 5 nt stem | 3 nt stem | Best | Dominant | 5 nt stem | 3 nt stem | Best | Dominant | |
| 16 Ka, 25 runs | 92% | 4% | −245.9 | −245.9 | 84% | 12% | −248.8 | −248.4 |
| 64 K, 25 runs | 44% | 56% | −246.3 | −246.1 | 80% | 20% | −249.0 | −248.8 |
| 128 K, 20 runs | 20% | 80% | −246.1 | −246.1 | 55% | 45% | −249.0 | −248.8 (40%) |
| −248.4 (50%) | ||||||||
a
With the 16 K population, 1 run (4% of the outcomes) did not include either the 5 nt or the 3 nt stem structures.