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 [5] // Initial node
ClusterNode  | Deletion Probability [0.0000000002379439] | Num Left Bases [2] | Num Right Bases [1] | Left Index [1] | Right Index [5] | Norm Constant [0.286073727286833] // Cluster node 5J7L|1|DA|C|1837:5J7L|1|DA|G|1839 and 5J7L|1|DA|G|1903:5J7L|1|DA|G|1903
Interaction  | Interacting Bases [1,3] | Pair Probability [[0.009208251,0.015198363,0.010915184,0.142404866,0.000000000],[0.089105624,0.013481894,0.212839926,0.013192408,0.000000000],[0.011055233,0.154516728,0.002225121,0.019635179,0.000000000],[0.155956237,0.012600390,0.127498609,0.010165989,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 5J7L|1|DA|C|1837 - 5J7L|1|DA|G|1903 cWW 
Interaction  | Interacting Bases [2,3] | Pair Probability [[0.056538351,0.069848158,0.116893445,0.070360750,0.000000000],[0.051109760,0.047530238,0.002656114,0.055636266,0.000000000],[0.002656114,0.002656114,0.249443178,0.002656114,0.000000000],[0.184506145,0.002656114,0.082197022,0.002656114,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 5J7L|1|DA|G|1839 - 5J7L|1|DA|G|1903 tHS 
Insertion    | Location [1] | Length Distribution [0.003684674,0.811447053,0.183824282,0.001003050,0.000040941] | Letter Distribution [0.366666667,0.566666667,0.033333333,0.033333333,0.000000000]// 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 [[0.008836651,0.017605773,0.010057070,0.183945388,0.000000000],[0.016921107,0.008836984,0.214577919,0.012146841,0.000000000],[0.010017559,0.252374982,0.001916236,0.023457692,0.000000000],[0.192770572,0.012259062,0.024880520,0.009395643,0.000000000],[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 G1840 - C1902 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
