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 [12] // Initial node
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009278404,0.016906130,0.010788355,0.169574323,0.000000000],[0.051346638,0.011266779,0.212625296,0.013109916,0.000000000],[0.010839801,0.202051421,0.002117091,0.022292708,0.000000000],[0.175653840,0.012890456,0.069241210,0.010017632,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [1] | Right Index [12] // Basepair G1527 - C1558 cWW 
BasepairNode | Deletion Probability [0.0000123078457223] | Pair Probability [[0.084933715,0.093222472,0.001568551,0.032594848,0.000000000],[0.102819504,0.081818001,0.001568551,0.001568551,0.000000000],[0.182641940,0.001568551,0.009361557,0.162901424,0.000000000],[0.138440989,0.101854243,0.001568551,0.001568551,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [0.869396619,0.129517605,0.001046999,0.000038778] | Right Letter Distribution [0.166666667,0.500000000,0.166666667,0.166666667,0.000000000] | Left Index [2] | Right Index [11] // Basepair G1528 - A1557 tSH 
BasepairNode | Deletion Probability [0.0000123078457223] | Pair Probability [[0.085957335,0.062700582,0.000710990,0.003350898,0.000000000],[0.059667795,0.062555393,0.000710990,0.000710990,0.000000000],[0.332049366,0.002590235,0.012662837,0.219849361,0.000000000],[0.092843574,0.062217676,0.000710990,0.000710990,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.869396619,0.129517605,0.001046999,0.000038778] | Left Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | 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 [10] // Basepair G1529 - A1556 tSH 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.118911887,0.139363241,0.174330587,0.124654734,0.000000000],[0.107371957,0.110896088,0.001353176,0.120174574,0.000000000],[0.001353176,0.001353176,0.007544025,0.001353176,0.000000000],[0.006495508,0.001353176,0.082138342,0.001353176,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [4] | Right Index [9] // Basepair A1530 - C1555 tHS 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.016075941,0.246526312,0.062907297,0.022889954,0.000000000],[0.015190268,0.015539385,0.019667265,0.017132350,0.000000000],[0.051744375,0.020498092,0.003787742,0.072482833,0.000000000],[0.019958610,0.018442326,0.015665473,0.381491779,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [5] | Right Index [8] // Basepair U1531 - U1554 cWW 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008874834,0.018163668,0.009886445,0.207536427,0.000000000],[0.018165448,0.009130305,0.208151098,0.011446284,0.000000000],[0.009886458,0.208149880,0.001951325,0.029866332,0.000000000],[0.207539466,0.011446018,0.029877333,0.009928679,0.000000000],[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 [6] | Right Index [7] // Basepair A1532 - U1553 cWW 
HairpinNode  | Num Bases [1] | Left Index [7] | Right Index [7] | 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
