| 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 5 2 | 5 5 I | 6 6 | 7 5 I | 8 5 3 | 9 4 I | 10 3 4 | 11 2 I | 12 2 5 | 13 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_16166.4_Instance_1 IL_16166.4_IL_1U6B_010_A150_U162 | A | G | U | A | U | |||||||||||||
| IL_16166.4_Sequence_1 IL_16166.4_IL_1U6B_010_A150_U162 | A | G | * | U | A | U | true | 100 | 0 | 0 | 0.00 | |||||||
| IL_16166.4_Instance_2 IL_16166.4_IL_4FNJ_004_A11_U27 | A | G | U | A | U | |||||||||||||
| IL_16166.4_Sequence_2 IL_16166.4_IL_4FNJ_004_A11_U27 | A | G | * | U | A | U | true | 100 | 0 | 0 | 0.00 | |||||||
| IL_16166.4_Instance_3 IL_16166.4_IL_1NTB_001_G114_C7 | G | G | C | G | C | |||||||||||||
| IL_16166.4_Sequence_3 IL_16166.4_IL_1NTB_001_G114_C7 | G | G | * | C | G | C | true | 85 | 0 | 0 | 1.44 |
1 2 s35 1 4 s55 1 5 cWW 2 3 cWW 2 5 s55 4 5 s53JAR3D SCFG/MRF model for IL_16166.4:
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 [5] // Initial node A150 - U162 from junction BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.009472747,0.022988174,0.010372983,0.225098889,0.000000000],[0.018936855,0.008916940,0.195696316,0.011163054,0.000000000],[0.010312898,0.208310389,0.002127705,0.027444663,0.000000000],[0.199992661,0.011428674,0.023422512,0.014314540,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [5] // Basepair A150 - U162 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.500000000,0.100000000,0.300000000,0.100000000,0.000000000] | Position [2] | Left Index [2] | Right Index [4] // Fixed node on right InitialNode | Left Length Distribution [1.000000000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [3] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.014258858,0.211706755,0.014176550,0.093357766,0.000000000],[0.015234759,0.010399964,0.094014042,0.014566320,0.000000000],[0.013899989,0.109909176,0.002989625,0.256526531,0.000000000],[0.088532666,0.015883070,0.017860543,0.026683387,0.000000000],[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 [2] | Right Index [3] // Basepair G151 - U160 cWW HairpinNode | Num Bases [1] | Left Index [3] | Right Index [3] | 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_16166.4:
> IL_16166.4 IL_1U6B_010 A 150 U 162 AG*UAU > IL_16166.4 IL_4FNJ_004 A 11 U 27 AG*UAU > IL_16166.4 IL_1NTB_001 G 114 C 7 GG*CGC