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 [0.0000244705618206] | Pair Probability [[0.007439942,0.013390961,0.008610424,0.167535108,0.000000000],[0.052946482,0.009825040,0.260691692,0.010196118,0.000000000],[0.008690141,0.153773955,0.001745576,0.020204431,0.000000000],[0.159627145,0.009886146,0.107107371,0.008329468,0.000000000],[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 [1] | Right Index [8] // Basepair C2350 - G2367 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.099967529,0.101625715,0.001080307,0.005167024,0.000000000],[0.092984731,0.100176249,0.001080307,0.001080307,0.000000000],[0.318505337,0.001080307,0.005635680,0.077712322,0.000000000],[0.099053200,0.092690371,0.001080307,0.001080307,0.000000000],[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 G2351 - A2366 tSH 
BasepairNode | Deletion Probability [0.0000131428944851] | Pair Probability [[0.166207335,0.098315364,0.298388333,0.102202392,0.000000000],[0.068377635,0.079090719,0.001111336,0.098160589,0.000000000],[0.001111336,0.001111336,0.006903637,0.001111336,0.000000000],[0.005774001,0.001111336,0.069911977,0.001111336,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.939644265,0.001468194,0.058796858,0.000086364,0.000004318] | Left Letter Distribution [0.416666667,0.416666667,0.083333333,0.083333333,0.000000000] | 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 A2352 - G2365 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.007437179,0.020446774,0.008392875,0.149501402,0.000000000],[0.014267555,0.007410010,0.256749091,0.010145208,0.000000000],[0.008381803,0.271883842,0.001613333,0.033216822,0.000000000],[0.171243839,0.010152464,0.020696713,0.008461092,0.000000000],[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 G2353 - C2364 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
