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 [21] // Initial node
BasepairNode | Deletion Probability [0.0000224390099112] | Pair Probability [[0.009374836,0.022228469,0.010012528,0.216037101,0.000000000],[0.017691617,0.009675113,0.196088410,0.010461402,0.000000000],[0.009993038,0.198630499,0.002061361,0.053740648,0.000000000],[0.197964449,0.011137350,0.023240462,0.011662716,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.989901010,0.009999000,0.000099990] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.989901010,0.009999000,0.000099990] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [21] // Basepair A8 - U31 cWW 
HairpinNode  | Num Bases [19] | Left Index [2] | Right Index [20] | Norm Constant [0.011168842434633] // Hairpin node G9:A30
Interaction  | Interacting Bases [1,4] | Pair Probability [[0.004966430,0.004966430,0.051077026,0.042074794,0.000000000],[0.004966430,0.052642128,0.004966430,0.017912101,0.000000000],[0.206503547,0.004966430,0.506544030,0.004966430,0.000000000],[0.017165095,0.004966430,0.015536138,0.055780127,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G9 - G13 cWH 
Interaction  | Interacting Bases [2,5] | Pair Probability [[0.004966430,0.004966430,0.051077026,0.042074794,0.000000000],[0.004966430,0.052642128,0.004966430,0.017912101,0.000000000],[0.206503547,0.004966430,0.506544030,0.004966430,0.000000000],[0.017165095,0.004966430,0.015536138,0.055780127,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G10 - G14 cWH 
Interaction  | Interacting Bases [4,7] | Pair Probability [[0.004966430,0.004966430,0.051077026,0.042074794,0.000000000],[0.004966430,0.052642128,0.004966430,0.017912101,0.000000000],[0.206503547,0.004966430,0.506544030,0.004966430,0.000000000],[0.017165095,0.004966430,0.015536138,0.055780127,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G13 - G18 cWH 
Interaction  | Interacting Bases [5,8] | Pair Probability [[0.004966430,0.004966430,0.051077026,0.042074794,0.000000000],[0.004966430,0.052642128,0.004966430,0.017912101,0.000000000],[0.206503547,0.004966430,0.506544030,0.004966430,0.000000000],[0.017165095,0.004966430,0.015536138,0.055780127,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G14 - G19 cWH 
Interaction  | Interacting Bases [6,11] | Pair Probability [[0.017376847,0.042940161,0.003635060,0.373406976,0.000000000],[0.017064104,0.039159201,0.015138258,0.041984236,0.000000000],[0.003635060,0.018018508,0.017398138,0.291185254,0.000000000],[0.041525169,0.034858775,0.017919960,0.024754293,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction A15 - U22 tWW 
Interaction  | Interacting Bases [2,12] | Pair Probability [[0.004966430,0.004966430,0.206503547,0.017165095,0.000000000],[0.004966430,0.052642128,0.004966430,0.004966430,0.000000000],[0.051077026,0.004966430,0.506544030,0.015536138,0.000000000],[0.042074794,0.017912101,0.004966430,0.055780127,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G10 - G23 cHW 
Interaction  | Interacting Bases [8,12] | Pair Probability [[0.004966430,0.004966430,0.051077026,0.042074794,0.000000000],[0.004966430,0.052642128,0.004966430,0.017912101,0.000000000],[0.206503547,0.004966430,0.506544030,0.004966430,0.000000000],[0.017165095,0.004966430,0.015536138,0.055780127,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G19 - G23 cWH 
Interaction  | Interacting Bases [1,14] | Pair Probability [[0.001279730,0.001279730,0.266055152,0.004423035,0.000000000],[0.001279730,0.013564619,0.006398652,0.001279730,0.000000000],[0.013161329,0.001279730,0.649766220,0.004003292,0.000000000],[0.010841669,0.004615521,0.006398652,0.014373206,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G9 - G25 cHW 
Interaction  | Interacting Bases [7,14] | Pair Probability [[0.001506979,0.001506979,0.077492300,0.012766885,0.000000000],[0.001506979,0.015973364,0.007534897,0.005435124,0.000000000],[0.062660010,0.001506979,0.763390658,0.001506979,0.000000000],[0.005208458,0.001506979,0.023570892,0.016925537,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G18 - G25 cWH 
Interaction  | Interacting Bases [9,16] | Pair Probability [[0.025225366,0.030632286,0.005409939,0.036840993,0.000000000],[0.047552989,0.030869927,0.019182033,0.027617952,0.000000000],[0.005409939,0.018294450,0.025916781,0.039370057,0.000000000],[0.047096977,0.029437174,0.060248256,0.550894880,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction U20 - U27 tWW 
Interaction  | Interacting Bases [10,17] | Pair Probability [[0.426248873,0.334479782,0.019961529,0.020365520,0.000000000],[0.052326193,0.000594783,0.050705654,0.005651677,0.000000000],[0.002965422,0.050057641,0.001484577,0.000594783,0.000000000],[0.004039806,0.029334195,0.000594783,0.000594783,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction A21 - A28 tHH 
Interaction  | Interacting Bases [15,18] | Pair Probability [[0.080081996,0.081599880,0.004486614,0.079746437,0.000000000],[0.059786442,0.090099217,0.000993413,0.079913615,0.000000000],[0.069967806,0.000993413,0.085348797,0.109242244,0.000000000],[0.081324543,0.080836340,0.000993413,0.094585831,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G26 - U29 cSH 
Interaction  | Interacting Bases [13,19] | Pair Probability [[0.235660254,0.004986930,0.000530644,0.002473347,0.000000000],[0.236059076,0.002540673,0.000530644,0.002112943,0.000000000],[0.229609277,0.000530644,0.000530644,0.001678859,0.000000000],[0.275223099,0.002427299,0.002631877,0.002473789,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction U24 - A30 tSW 
Interaction  | Interacting Bases [3,3] | Pair Probability [[0.500000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.166666667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.166666667,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.166666667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A12
Insertion    | Location [2] | Length Distribution [0.045351474,0.907029478,0.045351474,0.002267574] | Letter Distribution [0.500000000,0.166666667,0.166666667,0.166666667,0.000000000]// Insertion in Hairpin after nucleotide 3, position 2
Insertion    | Location [6] | Length Distribution [0.000000000,0.045351474,0.907029478,0.045351474,0.002267574] | Letter Distribution [0.125000000,0.125000000,0.125000000,0.625000000,0.000000000]// Insertion in Hairpin after nucleotide 7, position 6
