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 [0.0000001231336240] | Pair Probability [[0.009095347,0.018030680,0.010213250,0.211864073,0.000000000],[0.018626536,0.009303721,0.234075226,0.012169473,0.000000000],[0.010286044,0.193360117,0.001995306,0.032122363,0.000000000],[0.192053984,0.012061081,0.024555413,0.010187385,0.000000000],[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 [0.008193363,0.983203605,0.008193363,0.000409668] | Right Letter Distribution [0.312500000,0.187500000,0.187500000,0.312500000,0.000000000] | Left Index [1] | Right Index [8] // Basepair C1437 - G1555 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.017712837,0.003919879,0.018397680,0.003919879,0.000000000],[0.039419550,0.315867349,0.003919879,0.003919879,0.000000000],[0.003919879,0.009396209,0.029810350,0.017434273,0.000000000],[0.467089651,0.003919879,0.022742669,0.038610158,0.000000000],[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 [2] | Right Index [7] // Basepair U1438 - A1553 tWH 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.149445559,0.129024331,0.188456150,0.131352616,0.000000000],[0.075351379,0.093920228,0.001433690,0.127027567,0.000000000],[0.001433690,0.001433690,0.009544417,0.001433690,0.000000000],[0.007681561,0.001433690,0.079594054,0.001433690,0.000000000],[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 A1439 - A1552 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009142061,0.018632113,0.010289247,0.192120101,0.000000000],[0.018038906,0.009276676,0.193426307,0.012064516,0.000000000],[0.010216480,0.234139331,0.001995996,0.024562720,0.000000000],[0.211934506,0.012172508,0.032144854,0.009843678,0.000000000],[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 U1440 - A1551 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
