Table 1.
Highest scoring Yfr1 target candidates and their ranks under different IntaRNA parameter settings
| Target | Fixed seed |
No seed |
|||||
|---|---|---|---|---|---|---|---|
| α | 1 | 0.5 | 0 | 1 | 0.5 | 0 | |
| PMM1119 (som) | 1 | 4 | 22 | 1 | 11 | 173 | |
| PMM0494 (ppa) | 2 | 3 | 25 | 2 | 10 | 195 | |
| PMM1121 (som) | 3 | 6 | 32 | 4 | 32 | 184 | |
| PMM1697 | 4 | 7 | 12 | 12 | 19 | 10 | |
| PMED4_09051 | 5 | 1 | 8 | 52 | 2 | 46 | |
| PMM0538 | 6 | 16 | 14 | 26 | 84 | 91 | |
| PMM0130 | 7 | 13 | 72 | 13 | 60 | 238 | |
| PMM1021 | 8 | 22 | 69 | 5 | 51 | 830 | |
| PMM1405 | 9 | 12 | 26 | 37 | 61 | 115 | |
| PMM0050 (argJ) | 10 | 11 | 7 | 40 | 8 | 11 | |
Only interactions at RBS [−39 to +19 relative to start codon, see Hüttenhofer and Noller (1994)] were considered. All ranks are given according to IntaRNA energy score. α is a weighting factor for the accessibility in the energy score.