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 [6] // Initial node
BasepairNode | Deletion Probability [0.0000081095392462] | Pair Probability [[0.009525982,0.018278957,0.010932497,0.172792282,0.000000000],[0.073108794,0.012910753,0.163113552,0.012435427,0.000000000],[0.010945399,0.183437652,0.002247907,0.028067229,0.000000000],[0.181297618,0.012367625,0.097699156,0.010839170,0.000000000],[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 [0.792098765,0.205432099,0.002370370,0.000098765] | Right Letter Distribution [0.166666667,0.500000000,0.166666667,0.166666667,0.000000000] | Left Index [1] | Right Index [6] // Basepair G18 - C48 cWW 
BasepairNode | Deletion Probability [0.0000028285212255] | Pair Probability [[0.165425970,0.016921130,0.187036293,0.019227550,0.000000000],[0.015263490,0.010326070,0.021382444,0.125551631,0.000000000],[0.210660180,0.021202834,0.004012122,0.018229317,0.000000000],[0.019352363,0.135034846,0.016664346,0.013709415,0.000000000],[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 [5] // Basepair G19 - A47 cWW 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008681156,0.016522734,0.009641720,0.186645272,0.000000000],[0.020473036,0.009289642,0.231804626,0.011118199,0.000000000],[0.009684631,0.186337727,0.001948189,0.021942164,0.000000000],[0.221587518,0.010522397,0.044224855,0.009576133,0.000000000],[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 [3] | Right Index [4] // Basepair U20 - A45 cWW 
HairpinNode  | Num Bases [1] | Left Index [4] | Right Index [4] | 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
