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 G103 - C210 from junction 
ClusterNode  | Deletion Probability [0.0000000008620170] | Num Left Bases [2] | Num Right Bases [1] | Left Index [1] | Right Index [5] | Norm Constant [0.255107818202131] // Cluster node G103:A106 and C210:C210
Interaction  | Interacting Bases [1,3] | Pair Probability [[0.008749015,0.017415315,0.010011712,0.181140724,0.000000000],[0.017067831,0.007609293,0.225669046,0.011363249,0.000000000],[0.009988146,0.252552013,0.001890595,0.022784617,0.000000000],[0.190022474,0.011467899,0.022392238,0.009875835,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G103 - C210 cWW 
Interaction  | Interacting Bases [2,3] | Pair Probability [[0.164033804,0.235204347,0.156292787,0.135327736,0.000000000],[0.015108920,0.030878952,0.013650815,0.013448497,0.000000000],[0.011525639,0.041331922,0.102393924,0.054059290,0.000000000],[0.006916998,0.007800792,0.005725395,0.006300183,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction A106 - C210 cWS 
Insertion    | Location [1] | Length Distribution [0.250349596,0.560713176,0.188238036,0.000670059,0.000029133] | Letter Distribution [0.323529412,0.500000000,0.029411765,0.147058824,0.000000000]// Insertion after nucleotide 1, position 1 in cluster node
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 [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [4] // New Initial node after Cluster
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008923836,0.017437847,0.010242436,0.163781264,0.000000000],[0.033196525,0.008016118,0.189841314,0.011490510,0.000000000],[0.010199220,0.261168283,0.001966599,0.022517066,0.000000000],[0.190863191,0.011674884,0.048704589,0.009976317,0.000000000],[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 G107 - C209 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
