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 [0.0000141488146644] | Pair Probability [[0.009246203,0.017498623,0.010750568,0.165371436,0.000000000],[0.069124087,0.012282993,0.167284515,0.012603653,0.000000000],[0.010749677,0.214738733,0.002158587,0.024722486,0.000000000],[0.163407812,0.012647864,0.097164932,0.010247830,0.000000000],[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 [0.895351728,0.103902560,0.000720855,0.000024857] | Right Letter Distribution [0.166666667,0.166666667,0.500000000,0.166666667,0.000000000] | Left Index [1] | Right Index [8] // Basepair G1932 - C1940 cWW 
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.125000000,0.208333333,0.458333333,0.208333333,0.000000000] | Position [1] | Left Index [2] | Right Index [7] // Fixed node on left for 7A0S|1|X|G|1933
InitialNode  | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [7] // New Initial node after Fixed node
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.375000000,0.041666667,0.041666667,0.541666667,0.000000000] | Position [2] | Left Index [3] | Right Index [7] // Fixed node on right for 7A0S|1|X|U|1938
InitialNode  | Left Length Distribution [1.000000000] | 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 [0.150000000,0.050000000,0.050000000,0.750000000,0.000000000] | Left Index [3] | Right Index [6] // New Initial node after Fixed node
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.208333333,0.041666667,0.541666667,0.208333333,0.000000000] | Position [2] | Left Index [3] | Right Index [6] // Fixed node on right for 7A0S|1|X|G|1937
InitialNode  | Left Length Distribution [1.000000000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.895351728,0.103902560,0.000720855,0.000024857] | Right Letter Distribution [0.500000000,0.166666667,0.166666667,0.166666667,0.000000000] | Left Index [3] | Right Index [5] // New Initial node after Fixed node
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.042036586,0.038396378,0.000466833,0.002296447,0.000000000],[0.042198976,0.039705166,0.000466833,0.000466833,0.000000000],[0.043410166,0.000466833,0.023062641,0.038755802,0.000000000],[0.399510253,0.302047212,0.023445213,0.003267830,0.000000000],[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 U1934 - A1936 tSH 
HairpinNode  | Num Bases [1] | Left Index [4] | Right Index [4] | Norm Constant [1.000000000000000] // Hairpin node A1935:A1935
Interaction  | Interacting Bases [1,1] | Pair Probability [[0.708333333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.208333333,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.041666667,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.041666667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A1935
