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 [[0.008540753,0.016750420,0.009637458,0.188846467,0.000000000],[0.017596354,0.008736198,0.227701616,0.011497236,0.000000000],[0.009648701,0.218091476,0.001873342,0.024076453,0.000000000],[0.207850918,0.011369075,0.028509731,0.009273802,0.000000000],[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 C2466 - G2484 cWW 
BasepairNode | Deletion Probability [0.0000160934329480] | Pair Probability [[0.018353837,0.021527808,0.006264372,0.006264372,0.000000000],[0.141158342,0.674817136,0.024528352,0.006264372,0.000000000],[0.006264372,0.006264372,0.019239330,0.025731867,0.000000000],[0.006264372,0.006264372,0.024528352,0.006264372,0.000000000],[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 [0.919387860,0.080126081,0.000471330,0.000014729] | Right Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | Left Index [2] | Right Index [9] // Basepair C2467 - C2483 bif 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.202312140,0.025397059,0.001883290,0.061653735,0.000000000],[0.136559293,0.062339506,0.001883290,0.001883290,0.000000000],[0.120489081,0.001883290,0.088195101,0.037516830,0.000000000],[0.119647549,0.118426721,0.001883290,0.018046532,0.000000000],[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 A2468 - A2482 tSH 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.141838453,0.114649756,0.203497326,0.120149935,0.000000000],[0.084756172,0.095675957,0.001304620,0.115095002,0.000000000],[0.001304620,0.001304620,0.007881631,0.001304620,0.000000000],[0.006697014,0.001304620,0.085767793,0.017467861,0.000000000],[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 A2469 - G2481 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008758791,0.017858159,0.009988348,0.181371622,0.000000000],[0.015874591,0.008639028,0.201788209,0.012061225,0.000000000],[0.009911428,0.285121904,0.001885965,0.023701586,0.000000000],[0.179761598,0.012375860,0.021636788,0.009264898,0.000000000],[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 G2470 - C2480 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
