Character Definition | A,C,G,U,* // Identity and order of characters in matrices
InitialNode  | Left Length Distribution [0.999900000,0.000100000] | Left Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Right Length Distribution [0.999900000,0.000100000] | Right Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Left Index [1] | Right Index [8] // Initial node
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.010516047,0.073156823,0.011144933,0.182463124,0.000000000],[0.016652679,0.009942010,0.173816961,0.012652359,0.000000000],[0.011057680,0.185973025,0.002244750,0.097855704,0.000000000],[0.161540193,0.013138537,0.021585836,0.016259337,0.000000000],[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 G46 - C74 cWW 
BasepairNode | Deletion Probability [0.0000028285212255] | Pair Probability [[0.168581226,0.016814302,0.271366766,0.018880194,0.000000000],[0.014728695,0.009560698,0.020019046,0.037657959,0.000000000],[0.281532577,0.020102734,0.036732860,0.018064858,0.000000000],[0.018707015,0.037867995,0.016056939,0.013326134,0.000000000],[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 [0.595367176,0.400197141,0.004238541,0.000197141] | Right Letter Distribution [0.125000000,0.125000000,0.125000000,0.625000000,0.000000000] | Left Index [2] | Right Index [7] // Basepair G47 - A73 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.001007928,0.040293642,0.072561915,0.008539002,0.000000000],[0.001007928,0.010683622,0.007055495,0.003635228,0.000000000],[0.041909512,0.001007928,0.773406635,0.001007928,0.000000000],[0.003483624,0.001007928,0.022071213,0.011320473,0.000000000],[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 G48 - G71 cWH 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009253120,0.018182514,0.010469835,0.204160012,0.000000000],[0.018543573,0.009376871,0.227543114,0.012631439,0.000000000],[0.010513933,0.206690655,0.002020512,0.029216213,0.000000000],[0.194065633,0.012565763,0.024632950,0.010133862,0.000000000],[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 C49 - G70 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
