| 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 3 I | 6 4 3 | 7 4 I | 8 5 4 | 9 5 I | 10 6 5 | 11 6 I | 12 7 | 13 6 I | 14 6 6 | 15 5 I | 16 5 7 | 17 4 I | 18 4 8 | 19 3 I | 20 3 9 | 21 2 I | 22 2 10 | 23 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_80093.1_Instance_1 IL_80093.1_IL_4A1B_074_U1718_A1777 | U | U | A | A | C | G | G | C | A | G | A | |||||||||||||||||
| IL_80093.1_Sequence_1 IL_80093.1_IL_4A1B_074_U_1718_A_1777 | U | U | A | A | C | * | G | G | C | A | G | A | true | 100 | 0 | 0 | 0.00 | |||||||||||
| IL_80093.1_Instance_2 IL_80093.1_IL_1S72_056_C1570_G1627 | C | G | A | A | C | G | C | A | U | A | G | |||||||||||||||||
| IL_80093.1_Sequence_2 IL_80093.1_IL_1S72_056_C_1570_G_1627 | C | G | A | A | C | * | G | C | A | U | A | G | true | 97 | 0 | 0 | 0.41 |
1 2 s35 1 10 cWW 2 8 s35 2 9 tSH 2 10 s55 3 4 s35 3 8 tHH 3 9 s55 4 5 s35 4 7 tHS 5 6 cWW 5 7 s55 6 7 s35 7 8 s33 8 9 s53 9 10 s35 8 3 6BPh 4 7 6BRJAR3D SCFG/MRF model for IL_80093.1:
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 [10] // Initial node U1718 - A1777 from junction BasepairNode | Deletion Probability [0.0000015195492620] | Pair Probability [[0.009573432,0.018670696,0.010738592,0.199847452,0.000000000],[0.022636955,0.009050270,0.214230681,0.012151330,0.000000000],[0.010821283,0.200582138,0.002151860,0.023718468,0.000000000],[0.214249849,0.011785171,0.027717608,0.012074217,0.000000000],[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 [0.493381468,0.493381468,0.012635379,0.000601685] | Right Letter Distribution [0.166666667,0.166666667,0.500000000,0.166666667,0.000000000] | Left Index [1] | Right Index [10] // Basepair U1718 - A1777 cWW BasepairNode | Deletion Probability [0.0000015195492620] | Pair Probability [[0.101728279,0.118577332,0.001225696,0.005836608,0.000000000],[0.102633356,0.107574724,0.001225696,0.001225696,0.000000000],[0.132373524,0.001225696,0.005938240,0.101953298,0.000000000],[0.209505519,0.106524945,0.001225696,0.001225696,0.000000000],[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 [0.493381468,0.493381468,0.012635379,0.000601685] | Right Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | Left Index [2] | Right Index [9] // Basepair U1719 - A1775 tSH BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.295197555,0.283041942,0.003523444,0.003492595,0.000000000],[0.069650800,0.003049065,0.065340104,0.030070705,0.000000000],[0.018952628,0.156448550,0.002248308,0.000775677,0.000000000],[0.018634804,0.048022471,0.000775677,0.000775677,0.000000000],[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 [3] | Right Index [8] // Basepair A1720 - C1774 tHH BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.129506361,0.142111874,0.140738059,0.131659396,0.000000000],[0.126673089,0.112243512,0.001432729,0.126990143,0.000000000],[0.001432729,0.001432729,0.008529896,0.001432729,0.000000000],[0.008039397,0.001432729,0.064911900,0.001432729,0.000000000],[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 [4] | Right Index [7] // Basepair A1721 - G1773 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.010030806,0.017205487,0.011658168,0.192396585,0.000000000],[0.020773653,0.008567443,0.234601962,0.013925571,0.000000000],[0.011806790,0.208424324,0.002149941,0.023787799,0.000000000],[0.193514041,0.013266124,0.027576622,0.010314686,0.000000000],[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 C1722 - G1772 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 truncationSequences of instances from IL_80093.1:
> IL_80093.1 IL_4A1B_074 U 1718 A 1777 UUAAC*GGCAGA > IL_80093.1 IL_1S72_056 C 1570 G 1627 CGAAC*GCAUAG