From: Pitfalls of the most commonly used models of context dependent substitution
NF | TF | |||||
---|---|---|---|---|---|---|
Param |
| (SE) | (SE) |
| (SE) | (SE) |
TG ⇔ CG | 90.3 | 25.1 (0.3) | 1.6 (0.0) | 341.1 | 28.8 (0.2) | 1.6 (0.0) |
CA ⇔ CG | 85.8 | 23.7 (0.3) | 1.7 (0.0) | 366.7 | 30.9 (0.2) | 1.4 (0.0) |
AT ⇔ GT | 29.2 | 9.0 (0.2) | 4.7 (0.1) | 28.2 | 2.4 (0.1) | 9.8 (0.2) |
AA ⇔ GA | 25.8 | 7.9 (0.2) | 5.0 (0.1) | 47.5 | 4.1 (0.1) | 6.9 (0.2) |
TT ⇔ CT | 23.5 | 6.7 (0.1) | 5.6 (0.1) | 80.2 | 6.8 (0.1) | 3.8 (0.1) |
AA ⇔ AG | 19.4 | 5.5 (0.1) | 6.7 (0.1) | 55.6 | 4.7 (0.1) | 5.5 (0.1) |
TT ⇔ TC | 15.6 | 4.8 (0.1) | 7.4 (0.1) | 44.6 | 3.8 (0.1) | 7.0 (0.2) |
GA ⇔ GG | 14.3 | 3.8 (0.1) | 9.4 (0.3) | 16.5 | 1.3 (0.1) | 20.9 (0.6) |
TC ⇔ CC | 10.8 | 2.9 (0.1) | 12.4 (0.4) | 11.3 | 0.9 (0.1) | 23.8 (0.6) |
AT ⇔ AC | 10.1 | 3.2 (0.1) | 11.2 (0.3) | 19.0 | 1.6 (0.0) | 12.8 (0.2) |
AG ⇔ GG | 3.8 | 1.1 (0.1) | 21.3 (0.5) | 12.1 | 1.0 (0.1) | 23.3 (0.6) |
CT ⇔ GT | 2.8 | 0.8 (0.0) | 24.2 (0.5) | 1.5 | 0.1 (0.0) | 35.1 (0.4) |
GC ⇔ GA | 2.3 | 0.7 (0.0) | 25.4 (0.5) | 1.8 | 0.1 (0.0) | 34.2 (0.4) |
AC ⇔ GC | 2.1 | 0.6 (0.0) | 26.6 (0.5) | 17.8 | 1.5 (0.0) | 13.8 (0.3) |
GC ⇔ GG | 2.0 | 0.6 (0.0) | 26.5 (0.5) | 2.5 | 0.2 (0.0) | 31.7 (0.4) |
CC ⇔ CA | 1.9 | 0.6 (0.0) | 27.2 (0.5) | 2.6 | 0.2 (0.0) | 30.9 (0.5) |
CT ⇔ CA | 1.7 | 0.5 (0.0) | 27.9 (0.5) | 2.6 | 0.2 (0.0) | 30.8 (0.5) |
AT ⇔ AG | 1.7 | 0.5 (0.0) | 27.8 (0.5) | 2.8 | 0.2 (0.0) | 29.5 (0.4) |
CT ⇔ CG | 1.7 | 0.5 (0.0) | 28.3 (0.5) | 27.4 | 2.3 (0.1) | 10.0 (0.2) |
CA ⇔ GA | 1.7 | 0.5 (0.0) | 28.5 (0.5) | 4.8 | 0.4 (0.0) | 25.1 (0.4) |
GT ⇔ GA | 1.6 | 0.5 (0.0) | 28.6 (0.5) | 1.5 | 0.1 (0.0) | 34.6 (0.4) |
CC ⇔ CG | 1.5 | 0.4 (0.0) | 29.8 (0.5) | 26.1 | 2.2 (0.1) | 10.0 (0.2) |
TT ⇔ GT | 1.5 | 0.4 (0.0) | 29.1 (0.5) | 1.7 | 0.1 (0.0) | 34.1 (0.4) |
TA ⇔ TG | 1.5 | 0.5 (0.0) | 29.4 (0.5) | 3.1 | 0.3 (0.0) | 30.8 (0.5) |
CT ⇔ CC | 1.4 | 0.4 (0.0) | 29.4 (0.5) | 6.4 | 0.5 (0.0) | 25.6 (0.5) |
CG ⇔ AG | 1.4 | 0.4 (0.0) | 29.6 (0.5) | 23.7 | 2.0 (0.1) | 11.1 (0.2) |
TC ⇔ GC | 1.4 | 0.4 (0.0) | 29.6 (0.5) | 1.8 | 0.2 (0.0) | 33.0 (0.4) |
GT ⇔ GC | 1.4 | 0.4 (0.0) | 29.2 (0.5) | 10.4 | 0.9 (0.0) | 19.1 (0.4) |
TT ⇔ TG | 1.4 | 0.4 (0.0) | 29.4 (0.5) | 4.9 | 0.4 (0.0) | 24.9 (0.4) |
GT ⇔ GG | 1.3 | 0.4 (0.0) | 29.9 (0.5) | 2.4 | 0.2 (0.0) | 31.5 (0.4) |
CG ⇔ GG | 1.3 | 0.4 (0.0) | 30.2 (0.5) | 16.3 | 1.4 (0.0) | 13.9 (0.3) |
TC ⇔ AC | 1.3 | 0.4 (0.0) | 29.6 (0.5) | 1.7 | 0.2 (0.0) | 33.5 (0.4) |
TA ⇔ CA | 1.3 | 0.4 (0.0) | 30.6 (0.5) | 4.9 | 0.4 (0.0) | 27.7 (0.5) |
AC ⇔ AG | 1.3 | 0.4 (0.0) | 30.6 (0.5) | 1.3 | 0.1 (0.0) | 35.5 (0.4) |
TC ⇔ TG | 1.3 | 0.4 (0.0) | 30.2 (0.5) | 3.7 | 0.3 (0.0) | 27.7 (0.5) |
TA ⇔ AA | 1.2 | 0.4 (0.0) | 30.7 (0.5) | 1.6 | 0.1 (0.0) | 34.4 (0.4) |
AT ⇔ AA | 1.2 | 0.4 (0.0) | 30.3 (0.5) | 1.8 | 0.2 (0.0) | 32.9 (0.4) |
TT ⇔ AT | 1.2 | 0.4 (0.0) | 30.6 (0.5) | 1.8 | 0.2 (0.0) | 33.0 (0.4) |
TG ⇔ GG | 1.2 | 0.4 (0.0) | 30.5 (0.5) | 2.5 | 0.2 (0.0) | 31.6 (0.4) |
TC ⇔ TA | 1.2 | 0.4 (0.0) | 31.0 (0.5) | 1.5 | 0.1 (0.0) | 35.1 (0.4) |
CT ⇔ AT | 1.2 | 0.4 (0.0) | 30.4 (0.5) | 4.1 | 0.3 (0.0) | 26.6 (0.5) |
CC ⇔ GC | 1.2 | 0.4 (0.0) | 30.9 (0.5) | 1.7 | 0.1 (0.0) | 34.2 (0.4) |
TT ⇔ TA | 1.2 | 0.4 (0.0) | 31.2 (0.5) | 1.5 | 0.1 (0.0) | 34.6 (0.4) |
TA ⇔ GA | 1.2 | 0.4 (0.0) | 31.1 (0.5) | 1.6 | 0.1 (0.0) | 34.9 (0.4) |
AC ⇔ AA | 1.1 | 0.3 (0.0) | 31.0 (0.5) | 1.5 | 0.1 (0.0) | 34.0 (0.4) |
CC ⇔ AC | 1.1 | 0.4 (0.0) | 31.2 (0.5) | 2.5 | 0.2 (0.0) | 31.3 (0.5) |
TG ⇔ AG | 1.1 | 0.4 (0.0) | 31.6 (0.5) | 1.9 | 0.2 (0.0) | 33.0 (0.4) |
CA ⇔ AA | 1.1 | 0.3 (0.0) | 30.9 (0.5) | 2.9 | 0.2 (0.0) | 29.7 (0.5) |