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 [12] // Initial node C52 - G57 from junction 
BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.010112949,0.018987468,0.011731285,0.192935737,0.000000000],[0.018987829,0.008487010,0.221492059,0.013594505,0.000000000],[0.011731300,0.221491395,0.002149724,0.025679421,0.000000000],[0.192935850,0.013594439,0.025679804,0.010409224,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [12] // Basepair C52 - G57 cWW 
BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.111901106,0.130435065,0.001348266,0.006420269,0.000000000],[0.112896691,0.118332196,0.001348266,0.001348266,0.000000000],[0.154434405,0.001348266,0.006532064,0.112148628,0.000000000],[0.121632542,0.117177440,0.001348266,0.001348266,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [11] // Basepair G53 - A56 tSH 
BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.111901106,0.130435065,0.001348266,0.006420269,0.000000000],[0.112896691,0.118332196,0.001348266,0.001348266,0.000000000],[0.154434405,0.001348266,0.006532064,0.112148628,0.000000000],[0.121632542,0.117177440,0.001348266,0.001348266,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [10] // Basepair G54 - A55 tSH 
BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.111901106,0.112896691,0.154434405,0.121632542,0.000000000],[0.130435065,0.118332196,0.001348266,0.117177440,0.000000000],[0.001348266,0.001348266,0.006532064,0.001348266,0.000000000],[0.006420269,0.001348266,0.112148628,0.001348266,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [9] // Basepair A55 - G54 tHS 
BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.111901106,0.112896691,0.154434405,0.121632542,0.000000000],[0.130435065,0.118332196,0.001348266,0.117177440,0.000000000],[0.001348266,0.001348266,0.006532064,0.001348266,0.000000000],[0.006420269,0.001348266,0.112148628,0.001348266,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [8] // Basepair A56 - G53 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.010112949,0.018987468,0.011731285,0.192935737,0.000000000],[0.018987829,0.008487010,0.221492059,0.013594505,0.000000000],[0.011731300,0.221491395,0.002149724,0.025679421,0.000000000],[0.192935850,0.013594439,0.025679804,0.010409224,0.000000000],[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 [6] | Right Index [7] // Basepair G57 - C52 cWW 
HairpinNode  | Num Bases [1] | Left Index [7] | Right Index [7] | 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
