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 [10] // Initial node
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009512849,0.061367376,0.010330796,0.147234463,0.000000000],[0.032008708,0.010038147,0.222423107,0.012144246,0.000000000],[0.010345834,0.160227436,0.002092205,0.095974051,0.000000000],[0.152065850,0.012058410,0.047913011,0.014263510,0.000000000],[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 [10] // Basepair C51 - G75 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.014610683,0.162714610,0.083545514,0.020292475,0.000000000],[0.047241285,0.074599531,0.033560937,0.018894692,0.000000000],[0.092952240,0.018703469,0.003629925,0.035579588,0.000000000],[0.019131204,0.019262487,0.036097737,0.319183623,0.000000000],[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 [2] | Right Index [9] // Basepair U52 - U74 cWW 
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.146434771,0.016954389,0.031649303,0.052270096,0.000000000],[0.017984699,0.069091423,0.069283919,0.194092548,0.000000000],[0.029673292,0.072428879,0.003474326,0.019047320,0.000000000],[0.061050069,0.182493126,0.020621478,0.013450360,0.000000000],[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 [8] // Basepair C53 - U73 cWW 
BasepairNode | Deletion Probability [0.0000174430812709] | Pair Probability [[0.028768218,0.147641336,0.074773842,0.032663252,0.000000000],[0.052197334,0.123294957,0.031224773,0.016890105,0.000000000],[0.055639805,0.031114718,0.003514026,0.047253650,0.000000000],[0.040788934,0.017444713,0.056761682,0.240028656,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.934446650,0.065203005,0.000340613,0.000009732] | Left Letter Distribution [0.500000000,0.166666667,0.166666667,0.166666667,0.000000000] | 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 [7] // Basepair C54 - C72 cWW 
BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008711103,0.031976113,0.009639697,0.178001370,0.000000000],[0.016385995,0.008657340,0.203674770,0.011323817,0.000000000],[0.009604678,0.230514201,0.001890642,0.048630221,0.000000000],[0.193071306,0.011406145,0.025753097,0.010759505,0.000000000],[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 [5] | Right Index [6] // Basepair U55 - A71 cWW 
HairpinNode  | Num Bases [1] | Left Index [6] | Right Index [6] | 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
