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 [0.0000214907785014] | Pair Probability [[0.003600837,0.011424936,0.004024202,0.163191793,0.000000000],[0.009147919,0.003726940,0.339312231,0.004769268,0.000000000],[0.004026186,0.267504529,0.000789143,0.044039564,0.000000000],[0.108901356,0.004779822,0.026428808,0.004332465,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.994121845,0.005862633,0.000015444,0.000000078] | Left Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | Right Length Distribution [0.977367115,0.022612683,0.000019890,0.000000312] | Right Letter Distribution [0.250000000,0.083333333,0.250000000,0.416666667,0.000000000] | Left Index [1] | Right Index [6] // Basepair G53 - C80 cWW 
BasepairNode | Deletion Probability [0.0000239734350380] | Pair Probability [[0.050139744,0.197218138,0.107804915,0.009051384,0.000000000],[0.033131055,0.114454415,0.008362955,0.040813749,0.000000000],[0.059705931,0.008751550,0.012849577,0.032691076,0.000000000],[0.008250576,0.085630433,0.010966637,0.220177864,0.000000000],[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 [0.994121845,0.005862633,0.000015444,0.000000078] | Right Letter Distribution [0.500000000,0.166666667,0.166666667,0.166666667,0.000000000] | Left Index [2] | Right Index [5] // Basepair A54 - C79 cWW 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.003491899,0.006787232,0.003974060,0.112959002,0.000000000],[0.011751713,0.003823896,0.279960821,0.004730827,0.000000000],[0.003976114,0.322358960,0.000777124,0.017194182,0.000000000],[0.171333517,0.004700969,0.048379420,0.003800262,0.000000000],[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 C55 - G78 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
