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 [7] // Initial node C30 - G19 from junction 
BasepairNode | Deletion Probability [0.0000001177014991] | Pair Probability [[0.009878188,0.017748468,0.011469828,0.188961043,0.000000000],[0.019498419,0.008363241,0.238084568,0.013495422,0.000000000],[0.011542717,0.215631747,0.002108490,0.024257963,0.000000000],[0.189509081,0.013172006,0.026116132,0.010162687,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.250611247,0.495110024,0.250764059,0.003361858,0.000152812] | Right Letter Distribution [0.416666667,0.083333333,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [7] // Basepair C30 - G19 cWW 
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.250000000,0.083333333,0.583333333,0.083333333,0.000000000] | Position [1] | Left Index [2] | Right Index [6] // Fixed node on left
InitialNode  | Left Length Distribution [0.995990040,0.003999960,0.000010000] | 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 [6] // New Initial node after Fixed node
BasepairNode | Deletion Probability [0.0000016375373120] | Pair Probability [[0.012055565,0.018331342,0.011355527,0.017534010,0.000000000],[0.145009686,0.144826619,0.129873228,0.134137228,0.000000000],[0.085274723,0.108121990,0.019701983,0.086598223,0.000000000],[0.012763005,0.014039013,0.050235073,0.010142786,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.496627836,0.496627836,0.006437768,0.000306560] | Right Letter Distribution [0.375000000,0.375000000,0.125000000,0.125000000,0.000000000] | Left Index [3] | Right Index [6] // Basepair C32 - A17 cWS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.011240200,0.090328744,0.011978303,0.156393929,0.000000000],[0.018867816,0.009331214,0.170326246,0.012994719,0.000000000],[0.011897924,0.171543763,0.002429090,0.112687596,0.000000000],[0.166335353,0.013385023,0.023141294,0.017118787,0.000000000],[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 U33 - A15 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
