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 [10] // Initial node
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009406793,0.013707370,0.011503862,0.095285184,0.000000000],[0.162456321,0.018015036,0.154419759,0.013486043,0.000000000],[0.011710885,0.096851345,0.002491696,0.016499798,0.000000000],[0.121284217,0.012600150,0.249477228,0.010804313,0.000000000],[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 [10] // Basepair C975 - G999 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.126200657,0.036042198,0.001157200,0.006488509,0.000000000],[0.165367853,0.125226296,0.001521107,0.001521107,0.000000000],[0.275366234,0.002027665,0.010549753,0.153411532,0.000000000],[0.047658537,0.046415582,0.000522886,0.000522886,0.000000000],[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 [9] // Basepair G976 - A998 tSH 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.019117863,0.128388417,0.003573270,0.394375693,0.000000000],[0.003573270,0.234040778,0.009369982,0.003573270,0.000000000],[0.034355291,0.003573270,0.028194796,0.019771442,0.000000000],[0.003573270,0.003573270,0.019400325,0.091545791,0.000000000],[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 [8] // Basepair A977 - U997 tHW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.025882581,0.025336157,0.271863101,0.027458641,0.000000000],[0.025403813,0.025387036,0.004730615,0.025584918,0.000000000],[0.000675802,0.000675802,0.347131858,0.000675802,0.000000000],[0.038052600,0.000675802,0.179789670,0.000675802,0.000000000],[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 [4] | Right Index [7] // Basepair A978 - G996 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009061542,0.035208473,0.010100865,0.172183055,0.000000000],[0.015691569,0.008779683,0.198464727,0.012054463,0.000000000],[0.010026198,0.262836002,0.001943270,0.051111483,0.000000000],[0.167962559,0.012364674,0.021046798,0.011164641,0.000000000],[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 [5] | Right Index [6] // Basepair G979 - C995 cWW 
HairpinNode  | Num Bases [1] | Left Index [6] | Right Index [6] | 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
