| Root |
---|
X
|
Ï€
X|A
|
Ï€
X|C
|
Ï€
X|G
|
Ï€
X|T
|
---|
A | 0.3114 [0.3063; 0.3162] | 0.1682 [0.1641; 0.1723] | 0.2355 [0.2307; 0.2400] | 0.2849 [0.2799; 0.2899] |
C | 0.3760 [0.3697; 0.3826] | 0.2439 [0.2380; 0.2496] | 0.0069 [0.0057; 0.0083] | 0.3733 [0.3668; 0.3799] |
G | 0.3014 [0.2954; 0.3077] | 0.1926 [0.1873; 0.1981] | 0.2448 [0.2389; 0.2504] | 0.2612 [0.2554; 0.2672] |
T | 0.2287 [0.2241; 0.2331] | 0.1966 [0.1924; 0.2012] | 0.2451 [0.2405; 0.2497] | 0.3296 [0.3247; 0.3347] |
 |
Rest of the tree
|
 |
Ï€
A
|
Ï€
C
|
Ï€
G
|
Ï€
T
|
 | 0.3114 [0.3015; 0.3217] | 0.1676 [0.1610; 0.1739] | 0.1730 [0.1665; 0.1798] | 0.3480 [0.3374; 0.3582] |
- Estimates (mean and accompanying 95% credibility interval) for the four sets of base frequencies at the ancestral root sequence and the set of base frequencies used in the remainder of the tree, for the context-dependent model with independent model frequencies and a first-order Markov chain at the ancestral root. The extremely low estimate for the probability of observing a G when the preceding base is a C, is a direct consequence of the CpG-methylation-deamination process in mammalian sequences. Note that the base frequencies used throughout the remainder of the tree differ from those when assuming a zero order Markov chain at the ancestral root sequence.