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 [[0.008623215,0.014176818,0.010206608,0.136339420,0.000000000],[0.106505416,0.014088715,0.182368671,0.011847780,0.000000000],[0.010345069,0.119915842,0.002164799,0.019964107,0.000000000],[0.161371158,0.011230519,0.180971395,0.009880468,0.000000000],[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 U1641 - A1806 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.057904005,0.137675809,0.001213155,0.005377808,0.000000000],[0.053764413,0.071065602,0.000805396,0.000805396,0.000000000],[0.344453647,0.002119251,0.010263448,0.165038178,0.000000000],[0.072688845,0.075214255,0.000805396,0.000805396,0.000000000],[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 G1642 - A1805 tSH 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.105739001,0.045986150,0.408252636,0.050246459,0.000000000],[0.047501482,0.045690999,0.002693229,0.047493499,0.000000000],[0.000785821,0.000541638,0.013320913,0.000541638,0.000000000],[0.004098121,0.000541638,0.226025137,0.000541638,0.000000000],[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 A1643 - G1804 tHS 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.055748333,0.055833987,0.387563712,0.061592650,0.000000000],[0.058129303,0.058013398,0.002535437,0.057849154,0.000000000],[0.000831586,0.000831586,0.038038844,0.000831586,0.000000000],[0.019425354,0.000831586,0.201111897,0.000831586,0.000000000],[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 A1644 - G1803 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.010111971,0.103722217,0.010282901,0.142977824,0.000000000],[0.014994759,0.009284179,0.163554743,0.011419553,0.000000000],[0.010198897,0.147607997,0.002147425,0.175713312,0.000000000],[0.145589569,0.011733467,0.022011464,0.018649722,0.000000000],[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 U1645 - A1802 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
