| 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 3 3 | 7 2 I | 8 2 4 | 9 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_69941.1_Instance_1 HL_69941.1_HL_2Y9H_004_C11_G16 | C | G | C | GU | G | |||||||||
| HL_69941.1_Sequence_1 HL_69941.1_HL_2Y9H_004_C11_G16 | C | G | C | GU | G | true | 100 | 0 | 0 | 0.00 | ||||
| HL_69941.1_Instance_2 HL_69941.1_HL_3SKI_003_A67_U72 | A | C | C | UA | U | |||||||||
| HL_69941.1_Sequence_2 HL_69941.1_HL_3SKI_003_A67_U72 | A | C | C | UA | U | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 4 cWW 2 3 s35 2 4 s55JAR3D SCFG/MRF model for HL_69941.1:
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 [4] // Initial node C11 - G16 from junction BasepairNode | Deletion Probability [0.0000000005912491] | Pair Probability [[0.009409752,0.019555960,0.010438919,0.211256183,0.000000000],[0.018897284,0.009646494,0.211374635,0.012074740,0.000000000],[0.010490831,0.199877935,0.002065453,0.038339992,0.000000000],[0.198695040,0.012157589,0.024891932,0.010827262,0.000000000],[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 [0.000000000,0.023781213,0.951248514,0.023781213,0.001189061] | Right Letter Distribution [0.250000000,0.083333333,0.250000000,0.416666667,0.000000000] | Left Index [1] | Right Index [4] // Basepair C11 - G16 cWW HairpinNode | Num Bases [2] | Left Index [2] | Right Index [3] | Norm Constant [1.000000000000000] // Hairpin node G12:C13 Interaction | Interacting Bases [1,1] | Pair Probability [[0.125000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.375000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.375000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.125000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G12 Interaction | Interacting Bases [2,2] | Pair Probability [[0.125000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.625000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.125000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.125000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C13Sequences of instances from HL_69941.1:
> HL_69941.1 HL_2Y9H_004 C 11 G 16 CGCGUG > HL_69941.1 HL_3SKI_003 A 67 U 72 ACCUAU