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 [18] // Initial node C71 - G105 from junction 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009652285,0.016556223,0.011218237,0.185136336,0.000000000],[0.019989741,0.008244143,0.263484907,0.013400077,0.000000000],[0.011361251,0.200559255,0.002068811,0.022890146,0.000000000],[0.186211624,0.012765515,0.026535995,0.009925452,0.000000000],[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 [18] // Basepair C71 - G105 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.107319836,0.135968602,0.001300561,0.006167642,0.000000000],[0.108304840,0.114225444,0.001300561,0.001300561,0.000000000],[0.176511302,0.001300561,0.006274896,0.108168433,0.000000000],[0.116721758,0.112533879,0.001300561,0.001300561,0.000000000],[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 [17] // Basepair G72 - A104 tSH 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.024991732,0.052062200,0.005241353,0.580739054,0.000000000],[0.005241353,0.043515857,0.005241353,0.005241353,0.000000000],[0.025709985,0.034791284,0.061340288,0.064660161,0.000000000],[0.005241353,0.005241353,0.024449379,0.056291944,0.000000000],[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 [16] // Basepair A73 - U103 tHW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.023615491,0.017319894,0.003739651,0.003739651,0.000000000],[0.300657640,0.014674084,0.003739651,0.003739651,0.000000000],[0.003739651,0.003739651,0.220883287,0.003739651,0.000000000],[0.003739651,0.003739651,0.385453090,0.003739651,0.000000000],[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 [15] // Basepair U74 - G102 bif 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.008042594,0.008042594,0.035974521,0.008042594,0.000000000],[0.008042594,0.008042594,0.008042594,0.008042594,0.000000000],[0.851429169,0.008042594,0.008042594,0.008042594,0.000000000],[0.008042594,0.008042594,0.008042594,0.008042594,0.000000000],[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 [5] | Right Index [14] // Basepair G75 - A101 wat 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.062609363,0.236721929,0.003847175,0.003847175,0.000000000],[0.014591112,0.012435492,0.003847175,0.003847175,0.000000000],[0.003847175,0.003847175,0.422453372,0.212716979,0.000000000],[0.003847175,0.003847175,0.003847175,0.003847175,0.000000000],[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 [6] | Right Index [13] // Basepair G76 - G100 bif 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.024991732,0.005241353,0.025709985,0.005241353,0.000000000],[0.052062200,0.043515857,0.034791284,0.005241353,0.000000000],[0.005241353,0.005241353,0.061340288,0.024449379,0.000000000],[0.580739054,0.005241353,0.064660161,0.056291944,0.000000000],[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 [7] | Right Index [12] // Basepair U77 - A99 tWH 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.124703280,0.115292115,0.176480473,0.121074897,0.000000000],[0.125065232,0.105032267,0.001336529,0.116620511,0.000000000],[0.001336529,0.001336529,0.007456337,0.001336529,0.000000000],[0.007169504,0.001336529,0.093086208,0.001336529,0.000000000],[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 [8] | Right Index [11] // Basepair A78 - G98 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009757676,0.018842539,0.011312047,0.185828079,0.000000000],[0.017698496,0.008140947,0.221507422,0.012975314,0.000000000],[0.011264395,0.242481786,0.002068532,0.025317133,0.000000000],[0.185469795,0.013186749,0.024102342,0.010046747,0.000000000],[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 [9] | Right Index [10] // Basepair G79 - C97 cWW 
HairpinNode  | Num Bases [1] | Left Index [10] | Right Index [10] | 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
