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 A1329 - U1308 from junction 
BasepairNode | Deletion Probability [0.0000111424121612] | Pair Probability [[0.009145256,0.020139538,0.010148883,0.212554478,0.000000000],[0.019656953,0.008586697,0.200536528,0.011134298,0.000000000],[0.010128663,0.210775841,0.002049900,0.024757579,0.000000000],[0.212408170,0.011224014,0.024244846,0.012508357,0.000000000],[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 [0.850913138,0.147720949,0.001315324,0.000050589] | Right Letter Distribution [0.166666667,0.166666667,0.500000000,0.166666667,0.000000000] | Left Index [1] | Right Index [12] // Basepair A1329 - U1308 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.014910173,0.157123927,0.014352410,0.034555578,0.000000000],[0.018417960,0.018747039,0.021674633,0.015823830,0.000000000],[0.041393014,0.022076413,0.004517751,0.046000453,0.000000000],[0.056336058,0.017176575,0.018390073,0.498504113,0.000000000],[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 [11] // Basepair U1330 - U1307 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.111467105,0.123315345,0.001308267,0.006561247,0.000000000],[0.122253852,0.111144321,0.001308267,0.001308267,0.000000000],[0.183540869,0.001308267,0.006770963,0.094042494,0.000000000],[0.118679724,0.114374477,0.001308267,0.001308267,0.000000000],[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 [10] // Basepair G1331 - A1306 tSH 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.051645759,0.052105251,0.389908136,0.056137112,0.000000000],[0.060199743,0.054613902,0.003091666,0.054080947,0.000000000],[0.000622266,0.000622266,0.014978472,0.000622266,0.000000000],[0.002963149,0.000622266,0.257164535,0.000622266,0.000000000],[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 [9] // Basepair A1332 - G1305 tHS 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.063824391,0.039175388,0.368475929,0.055855887,0.000000000],[0.073443977,0.040643600,0.003285515,0.040806707,0.000000000],[0.000816114,0.000816114,0.016634154,0.000816114,0.000000000],[0.004334704,0.000816114,0.289439177,0.000816114,0.000000000],[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 [8] // Basepair A1333 - G1304 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.010532611,0.058255416,0.011725921,0.163876120,0.000000000],[0.016999615,0.008485582,0.195963150,0.013119307,0.000000000],[0.011638528,0.217272232,0.002226781,0.077875731,0.000000000],[0.162652665,0.013525563,0.022530856,0.013319923,0.000000000],[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 G1334 - C1303 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
