Transition=
GG      0.9990
GE      0.0010
ER      0.9965
ES	0.0030
ES1	0.0005
RS      0.0040
RR      0.9920
MM      0.999999999999999998
MI      0.000000000000000001
MD      0.000000000000000001
II      0.000000000000000001
IM      0.999999999999999999
DD      0.000000000000000001
DM      0.999999999999999999
TransitionMI=
A	A	0	
A	C	0	
A	G	0		
A	T	0
C       A       0	
C       C       0 	
C       G       0	
C       T       0	
G       A       0		
G       C       0	
G       G       0	
G       T       0	
T       A       0	  
T       C       0	
T       G       0	
T       T       0	
TransitionII=
A	A	0
A	C	0	
A	G	0
A	T	0	
C       A       0  
C       C       0 
C       G       0 
C       T       0
G       A       0 
G       C       0  
G       G       0  
G       T       0  
T       A       0  
T       C       0  
T       G       0  
T       T       0  
PI=
S	0.000001	
E	0.000001
R	0.077
S_1	0.000001
E_1	0.000001
M1	0.077
M2	0.077
M3	0.077
M4	0.077
M5	0.077
M6	0.077
M1_1	0.077
M2_1	0.077
M3_1	0.077
M4_1	0.077
M5_1	0.077
M6_1	0.077
I1	0.000001
I2	0.000001
I3	0.000001
I4	0.000001
I5	0.000001
I6	0.000001
I1_1	0.000001
I2_1	0.000001
I3_1	0.000001
I4_1	0.000001
I5_1	0.000001
I6_1	0.000001