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 [7] // Initial node
ClusterNode  | Deletion Probability [0.000000000000000078125000000000012233710187403301545271878291] | Num Left Bases [5] | Num Right Bases [2] | Left Index [1] | Right Index [7] | Norm Constant [0.001636750906250] // Cluster node 8P9A|1|sR|C|443:8P9A|1|sR|U|447 and 8P9A|1|sR|A|460:8P9A|1|sR|G|461
Interaction  | Interacting Bases [2,6] | Pair Probability [[0.028150634,0.003288854,0.094083918,0.003288854,0.000000000],[0.366621280,0.023961426,0.003288854,0.003288854,0.000000000],[0.003288854,0.011482329,0.093366750,0.030315993,0.000000000],[0.033073764,0.003288854,0.014786757,0.284424024,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 8P9A|1|sR|C|444 - 8P9A|1|sR|A|460 tWH 
Interaction  | Interacting Bases [5,6] | Pair Probability [[0.008854514,0.016740477,0.009873999,0.189704501,0.000000000],[0.020645154,0.009422516,0.212263396,0.011508821,0.000000000],[0.009925891,0.189884907,0.001981704,0.022312113,0.000000000],[0.233465652,0.010917253,0.042775962,0.009723142,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 8P9A|1|sR|U|447 - 8P9A|1|sR|A|460 cWW 
Interaction  | Interacting Bases [1,7] | Pair Probability [[0.009715992,0.016751901,0.011463867,0.150175329,0.000000000],[0.109095859,0.015147973,0.163183771,0.013358213,0.000000000],[0.011580780,0.151529457,0.002393189,0.025059826,0.000000000],[0.155547819,0.012950151,0.140954472,0.011091400,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 8P9A|1|sR|C|443 - 8P9A|1|sR|G|461 cWW 
Interaction  | Interacting Bases [4,7] | Pair Probability [[0.185853659,0.192148415,0.206960133,0.192369274,0.000000000],[0.014963268,0.012531621,0.065744759,0.012571448,0.000000000],[0.018853431,0.001953205,0.059899549,0.009144432,0.000000000],[0.006976870,0.007386555,0.005785039,0.006858342,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 8P9A|1|sR|A|446 - 8P9A|1|sR|G|461 cWS 
Interaction  | Interacting Bases [1,3] | Pair Probability [[0.107772906,0.092207144,0.004875680,0.025481989,0.000000000],[0.120021076,0.089879740,0.001039542,0.008292878,0.000000000],[0.046607768,0.001039542,0.085361082,0.069630866,0.000000000],[0.136501855,0.088688263,0.039061268,0.083538401,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 8P9A|1|sR|C|443 - 8P9A|1|sR|A|445 cSH 
Interaction  | Interacting Bases [2,4] | Pair Probability [[0.100165751,0.095527635,0.005188632,0.033823675,0.000000000],[0.146725533,0.094547687,0.001089897,0.009192068,0.000000000],[0.009640247,0.064881451,0.088966332,0.065593146,0.000000000],[0.102438069,0.093686988,0.001089897,0.087442992,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 8P9A|1|sR|C|444 - 8P9A|1|sR|A|446 cSH 
InitialNode  | Left Length Distribution [0.991157722,0.008431010,0.000411269] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991157722,0.008431010,0.000411269] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [6] | Right Index [5] // New Initial node after Cluster
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
