Character Definition | A,C,G,U,* // Define characters here
InitialNode  | Left Length Distribution [0.999900000,0.000100000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.999900000,0.000100000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [8] // Initial node G1949 - C1957 from junction 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009129477,0.017626462,0.010551722,0.170998231,0.000000000],[0.042911716,0.010588550,0.192647392,0.012666863,0.000000000],[0.010523640,0.240352930,0.002050257,0.023085440,0.000000000],[0.174339825,0.012774643,0.059941008,0.009811843,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [8] // Basepair G1949 - C1957 cWW 
BasepairNode | Deletion Probability [0.0000003525527566] | Pair Probability [[0.062029806,0.212148009,0.003700315,0.003700315,0.000000000],[0.142492471,0.023420514,0.029320149,0.003700315,0.000000000],[0.029320149,0.003700315,0.123744185,0.296682531,0.000000000],[0.054939984,0.003700315,0.003700315,0.003700315,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.202130295,0.793658657,0.004012881,0.000198167] | Right Letter Distribution [0.050000000,0.050000000,0.050000000,0.850000000,0.000000000] | Left Index [2] | Right Index [7] // Basepair G1950 - U1956 bif 
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.125000000,0.291666667,0.458333333,0.125000000,0.000000000] | Position [2] | Left Index [3] | Right Index [6] // Fixed node on right
InitialNode  | Left Length Distribution [1.000000000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [5] // New Initial node after Fixed node
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.040394532,0.036896519,0.000448597,0.025502196,0.000000000],[0.040550578,0.038154183,0.000448597,0.000448597,0.000000000],[0.041714457,0.000448597,0.002772552,0.037241903,0.000000000],[0.415154383,0.313543947,0.003140180,0.003140180,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [5] // Basepair U1951 - A1953 tSH 
HairpinNode  | Num Bases [1] | Left Index [4] | Right Index [4] | Norm Constant [1.000000000000000] // Hairpin node A1952:A1952
Interaction  | Interacting Bases [1,1] | Pair Probability [[0.541666667,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.125000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.208333333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.125000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A1952
