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 C111 - G106 from junction 
BasepairNode | Deletion Probability [0.0000132678587784] | Pair Probability [[0.008294599,0.014312172,0.009576747,0.151456887,0.000000000],[0.044699620,0.007743685,0.298156428,0.011138058,0.000000000],[0.009689343,0.159107771,0.001869446,0.018710913,0.000000000],[0.169069254,0.010625603,0.076296475,0.009253001,0.000000000],[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 [0.921154598,0.040223480,0.038540736,0.000077495,0.000003690] | Right Letter Distribution [0.500000000,0.300000000,0.100000000,0.100000000,0.000000000] | Left Index [1] | Right Index [8] // Basepair C111 - G106 cWW 
BasepairNode | Deletion Probability [0.0000132736577717] | Pair Probability [[0.145487941,0.108926192,0.001227015,0.027212787,0.000000000],[0.105368082,0.081170457,0.001227015,0.001227015,0.000000000],[0.242216542,0.001227015,0.018730957,0.066681200,0.000000000],[0.100258643,0.096585107,0.001227015,0.001227015,0.000000000],[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 [0.882858682,0.116823982,0.000306266,0.000011070] | Right Letter Distribution [0.700000000,0.100000000,0.100000000,0.100000000,0.000000000] | Left Index [2] | Right Index [7] // Basepair G112 - A105 tSH 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.118163166,0.094541409,0.277534671,0.099817256,0.000000000],[0.115282494,0.088817694,0.001102839,0.096148385,0.000000000],[0.001102839,0.001102839,0.005980668,0.001102839,0.000000000],[0.017117566,0.001102839,0.079979660,0.001102839,0.000000000],[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 [6] // Basepair A113 - G104 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008128108,0.025408901,0.009083861,0.188309537,0.000000000],[0.016113918,0.007225292,0.216116288,0.010127624,0.000000000],[0.009064412,0.232552318,0.001781266,0.038742155,0.000000000],[0.196220574,0.010218194,0.020421330,0.010486221,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [4] | Right Index [5] // Basepair G114 - C103 cWW 
HairpinNode  | Num Bases [1] | Left Index [5] | Right Index [5] | Norm Constant [1.000000000000000] // Hairpin node type *
Interaction  | Interacting Bases [1,1] | Pair Probability [[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,1.000000000]] // Hairpin for truncation
