| Position | A | C | G | T | 
|---|---|---|---|---|
| 1 | 0.522 | 0.087 | 0.304 | 0.087 | 
| 2 | 0.609 | 0.0 | 0.217 | 0.174 | 
| 3 | 0.391 | 0.0 | 0.348 | 0.261 | 
| 4 | 0.0 | 0.0 | 0.0 | 1.0 | 
| 5 | 0.0 | 1.0 | 0.0 | 0.0 | 
| 6 | 0.0 | 0.0 | 1.0 | 0.0 | 
| 7 | 0.0 | 0.0 | 0.0 | 1.0 | 
| 8 | 0.0 | 0.0 | 1.0 | 0.0 | 
| 9 | 0.913 | 0.043 | 0.043 | 0.0 | 
| 10 | 0.0 | 0.696 | 0.043 | 0.261 | 
| 11 | 0.13 | 0.174 | 0.043 | 0.652 | 
| NPAS4 | NPAS1 | NPAS3 | Pax2 | ARNTL2 | SIM1 | SIM2 | Mitf | Arntl | HES4 | |
|---|---|---|---|---|---|---|---|---|---|---|
| NPAS4 | 100 | 78 | 78 | 72 | 71 | 70 | 70 | 68 | 65 | 61 | 
| NPAS1 | 78 | 100 | 100 | 5 | 81 | 100 | 100 | 73 | 81 | -31 | 
| NPAS3 | 78 | 100 | 100 | 5 | 81 | 100 | 100 | 73 | 81 | -31 | 
| Pax2 | 72 | 5 | 5 | 100 | 18 | 5 | 5 | 15 | 18 | 47 | 
| ARNTL2 | 71 | 81 | 81 | 18 | 100 | 81 | 81 | 95 | 100 | 87 | 
| SIM1 | 70 | 100 | 100 | 5 | 81 | 100 | 100 | 73 | 81 | -31 | 
| SIM2 | 70 | 100 | 100 | 5 | 81 | 100 | 100 | 73 | 81 | -31 | 
| Mitf | 68 | 73 | 73 | 15 | 95 | 73 | 73 | 100 | 95 | 86 | 
| Arntl | 65 | 81 | 81 | 18 | 100 | 81 | 81 | 95 | 100 | 87 | 
| HES4 | 61 | -31 | -31 | 47 | 87 | -31 | -31 | 86 | 87 | 100 |