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 [11] // Initial node
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009608946,0.018498398,0.011177979,0.167414454,0.000000000],[0.062230525,0.012136566,0.169597020,0.013223777,0.000000000],[0.011129400,0.220660488,0.002205597,0.023815697,0.000000000],[0.173193752,0.013410226,0.081270055,0.010427122,0.000000000],[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 [11] // Basepair G2717 - C2747 cWW 
BasepairNode | Deletion Probability [0.0000001231336240] | Pair Probability [[0.124502328,0.016502751,0.266861980,0.047448978,0.000000000],[0.015435019,0.009512959,0.059470576,0.034067488,0.000000000],[0.241640867,0.049248809,0.003602166,0.018574203,0.000000000],[0.047728662,0.035286070,0.017581112,0.012536033,0.000000000],[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 [0.008193363,0.983203605,0.008193363,0.000409668] | Right Letter Distribution [0.687500000,0.062500000,0.062500000,0.187500000,0.000000000] | Left Index [2] | Right Index [10] // Basepair A2718 - G2746 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.017712837,0.003919879,0.018397680,0.003919879,0.000000000],[0.039419550,0.315867349,0.003919879,0.003919879,0.000000000],[0.003919879,0.009396209,0.029810350,0.017434273,0.000000000],[0.467089651,0.003919879,0.022742669,0.038610158,0.000000000],[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 [3] | Right Index [9] // Basepair U2719 - A2744 tWH 
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.812500000,0.062500000,0.062500000,0.062500000,0.000000000] | Position [1] | Left Index [4] | Right Index [8] // Fixed node on left for 7A0S|1|X|A|2720
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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [8] // New Initial node after Fixed node
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.041224524,0.041530793,0.421512788,0.046017578,0.000000000],[0.043641714,0.043540658,0.003464110,0.043305596,0.000000000],[0.000494873,0.000494873,0.016934936,0.000494873,0.000000000],[0.002332338,0.000494873,0.294020601,0.000494873,0.000000000],[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 A2721 - G2743 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.010210151,0.063131561,0.010958119,0.184071784,0.000000000],[0.016998190,0.009764550,0.188002203,0.012655871,0.000000000],[0.010905840,0.189228391,0.002188127,0.086112889,0.000000000],[0.165641478,0.012976428,0.022111999,0.015042420,0.000000000],[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 C2722 - G2742 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
