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 [11] // Initial node G2737 - C2767 from junction 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009658942,0.020573664,0.011039066,0.199029485,0.000000000],[0.017014882,0.008233155,0.197928445,0.012283979,0.000000000],[0.010917232,0.250544482,0.002068166,0.026564951,0.000000000],[0.187407283,0.012824330,0.022854039,0.011057898,0.000000000],[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 G2737 - C2767 cWW 
BasepairNode | Deletion Probability [0.0000002938397278] | Pair Probability [[0.260225098,0.014136576,0.300019388,0.015073987,0.000000000],[0.012430390,0.032340569,0.017238234,0.029113976,0.000000000],[0.205435835,0.017393028,0.003392668,0.015657552,0.000000000],[0.014952671,0.037776680,0.013879957,0.010933390,0.000000000],[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 [0.170928484,0.821824149,0.006905511,0.000341857] | Right Letter Distribution [0.642857143,0.071428571,0.071428571,0.214285714,0.000000000] | Left Index [2] | Right Index [10] // Basepair A2738 - G2766 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.024501698,0.005138581,0.025205867,0.005138581,0.000000000],[0.051041372,0.042662605,0.034109102,0.005138581,0.000000000],[0.033070509,0.005138581,0.060137537,0.023969980,0.000000000],[0.561027929,0.005138581,0.063392315,0.055188180,0.000000000],[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 U2739 - A2764 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
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 [[0.042066554,0.042440821,0.411397606,0.045724856,0.000000000],[0.049033954,0.044484169,0.003547938,0.044050066,0.000000000],[0.000506848,0.000506848,0.017189016,0.000506848,0.000000000],[0.002413547,0.000506848,0.295117230,0.000506848,0.000000000],[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 A2741 - G2763 tHS 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009584624,0.018740933,0.010993637,0.188045044,0.000000000],[0.018868970,0.008321615,0.219178300,0.012512409,0.000000000],[0.010972503,0.229485735,0.002069217,0.024688148,0.000000000],[0.198595669,0.012606418,0.024755977,0.010580801,0.000000000],[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 C2742 - G2762 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
