| Column number: Node in JAR3D model: Insertion positions indicated by I: Position in motif group: | 1 1 I | 2 2 1 | 3 2 I | 4 3 2 | 5 4 I | 6 5 3 | 7 6 I | 8 7 4 | 9 8 I | 10 9 5 | 11 9 I | 12 10 6 | 13 10 I | 14 11 7 | 15 11 I | 16 12 | 17 11 I | 18 11 8 | 19 10 I | 20 10 9 | 21 9 I | 22 9 10 | 23 2 I | 24 2 11 | 25 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_37197.1_Instance_1 IL_37197.1_IL_3U5H_082_A1883_U2349 | A | A | U | A | A | U | G | C | U | A | U | |||||||||||||||||||
| IL_37197.1_Sequence_1 IL_37197.1_IL_3U5H_082_A_1883_U_2349 | A | A | U | A | A | U | G | * | C | U | A | U | true | 100 | 0 | 0 | 0.00 | |||||||||||||
| IL_37197.1_Instance_2 IL_37197.1_IL_4A1B_078_A1907_U2344 | A | A | C | A | A | U | G | C | U | A | U | |||||||||||||||||||
| IL_37197.1_Sequence_2 IL_37197.1_IL_4A1B_078_A_1907_U_2344 | A | A | C | A | A | U | G | * | C | U | A | U | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 11 cWW 2 3 s35 4 5 s35 5 6 s35 5 10 tHS 6 7 s35 6 9 cWW 7 8 cWW 7 9 s55 8 9 s35 9 10 s35 10 11 s35 11 10 7BPh 5 10 6BRJAR3D SCFG/MRF model for IL_37197.1:
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 A1883 - U2349 from junction BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.003493366,0.009227499,0.003704435,0.587430059,0.000000000],[0.007583759,0.003513143,0.072591391,0.027166046,0.000000000],[0.003698123,0.073013008,0.000811175,0.073446414,0.000000000],[0.078074490,0.003908310,0.008906943,0.043431838,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [11] // Basepair A1883 - U2349 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.625000000,0.125000000,0.125000000,0.125000000,0.000000000] | Position [1] | Left Index [2] | Right Index [10] // Fixed node on left InitialNode | Left Length Distribution [0.991950402,0.007999600,0.000049998] | 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 [3] | Right Index [10] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.125000000,0.375000000,0.125000000,0.375000000,0.000000000] | Position [1] | Left Index [3] | Right Index [10] // Fixed node on left InitialNode | Left Length Distribution [0.991950402,0.007999600,0.000049998] | 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 [4] | Right Index [10] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.625000000,0.125000000,0.125000000,0.125000000,0.000000000] | Position [1] | Left Index [4] | Right Index [10] // Fixed node on left InitialNode | Left Length Distribution [0.991950402,0.007999600,0.000049998] | 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 [10] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.178840408,0.154396792,0.132157194,0.146774881,0.000000000],[0.127643181,0.063246095,0.001592326,0.141275990,0.000000000],[0.001592326,0.001592326,0.013832138,0.001592326,0.000000000],[0.012602622,0.001592326,0.019676744,0.001592326,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [10] // Basepair A1887 - A2348 tHS BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.016266706,0.171419124,0.015658197,0.037699458,0.000000000],[0.020093633,0.020452651,0.023646600,0.017263489,0.000000000],[0.015355045,0.024084933,0.004928778,0.050185592,0.000000000],[0.031657613,0.018739307,0.020063209,0.512485663,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [6] | Right Index [9] // Basepair U1888 - U2347 cWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.010195092,0.020769450,0.011804402,0.193474890,0.000000000],[0.017202006,0.008406578,0.208382157,0.013263440,0.000000000],[0.011655809,0.234558465,0.002149506,0.027571043,0.000000000],[0.192357660,0.013922753,0.023782986,0.010503762,0.000000000],[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 [7] | Right Index [8] // Basepair G1889 - C2346 cWW HairpinNode | Num Bases [1] | Left Index [8] | Right Index [8] | 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 truncationSequences of instances from IL_37197.1:
> IL_37197.1 IL_3U5H_082 A 1883 U 2349 AAUAAUG*CUAU > IL_37197.1 IL_4A1B_078 A 1907 U 2344 AACAAUG*CUAU