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 [5] // Initial node A189 - U161 from junction 
BasepairNode | Deletion Probability [0.0000004752076360] | Pair Probability [[0.007013269,0.013200437,0.008049529,0.149653816,0.000000000],[0.027041859,0.006359192,0.273371709,0.009196872,0.000000000],[0.008076843,0.238547761,0.001552997,0.017140816,0.000000000],[0.170808705,0.009069603,0.052955769,0.007960824,0.000000000],[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 [0.616195094,0.107125059,0.233832083,0.000299453,0.042500850,0.000045200,0.000002260] | Right Letter Distribution [0.743243243,0.148648649,0.040540541,0.067567568,0.000000000] | Left Index [1] | Right Index [5] // Basepair A189 - U161 cWW 
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.663265306,0.071428571,0.091836735,0.173469388,0.000000000] | Position [1] | Left Index [2] | Right Index [4] // Fixed node on left
InitialNode  | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [4] // New Initial node after Fixed node
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.007092369,0.022541509,0.007972059,0.192002477,0.000000000],[0.017778225,0.006243616,0.237874688,0.008951255,0.000000000],[0.007961221,0.251860467,0.001550452,0.040958339,0.000000000],[0.150342859,0.009001170,0.028902739,0.008966555,0.000000000],[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 [3] | Right Index [4] // Basepair G191 - C160 cWW 
HairpinNode  | Num Bases [1] | Left Index [4] | Right Index [4] | 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
