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 G2433 - C2477 from junction 
ClusterNode  | Deletion Probability [0.0000000339040770] | Num Left Bases [1] | Num Right Bases [2] | Left Index [1] | Right Index [5] | Norm Constant [0.022570743379188] // Cluster node G2433:G2433 and A2476:C2477
Interaction  | Interacting Bases [1,2] | Pair Probability [[0.023174854,0.020802096,0.063364650,0.037691947,0.000000000],[0.091213019,0.018093295,0.029881461,0.019334421,0.000000000],[0.095268990,0.039222537,0.167381916,0.057904688,0.000000000],[0.183689544,0.001858235,0.121236887,0.029881461,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G2433 - A2476 tHS 
Interaction  | Interacting Bases [1,3] | Pair Probability [[0.006640898,0.017001667,0.007476669,0.135004367,0.000000000],[0.017207632,0.006020718,0.177571505,0.008289648,0.000000000],[0.007446706,0.296464579,0.001467737,0.027543671,0.000000000],[0.247592329,0.008422878,0.027675888,0.008173106,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G2433 - C2477 cWW 
Interaction  | Interacting Bases [2,3] | Pair Probability [[0.106562097,0.127283530,0.054124748,0.013905486,0.000000000],[0.053122930,0.079513339,0.001438079,0.053688995,0.000000000],[0.098173903,0.071086581,0.053071691,0.066815342,0.000000000],[0.061147678,0.098077305,0.009490488,0.052497807,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction A2476 - C2477 cSH 
Insertion    | Location [2] | Length Distribution [0.754026986,0.245694786,0.000266673,0.000011556] | Letter Distribution [0.700000000,0.033333333,0.033333333,0.233333333,0.000000000]// Insertion after nucleotide 4, position 2 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 [0.961313284,0.038604031,0.000080907,0.000001778] | Right Letter Distribution [0.625000000,0.125000000,0.125000000,0.125000000,0.000000000] | Left Index [2] | Right Index [3] // New Initial node after Cluster
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008114349,0.079137857,0.008522903,0.142745883,0.000000000],[0.011688303,0.006421270,0.185018901,0.009178599,0.000000000],[0.008439672,0.199732170,0.001728229,0.207381295,0.000000000],[0.094728355,0.009578507,0.014506460,0.013077248,0.000000000],[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 [2] | Right Index [3] // Basepair G2434 - C2475 cWW 
HairpinNode  | Num Bases [1] | Left Index [3] | Right Index [3] | 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
