| 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_58912.1_Instance_1 HL_58912.1_HL_5NFV_001_C-10_G-5 | C | U | G | UU | G | |||||||||
| HL_58912.1_Sequence_1 HL_58912.1_HL_5NFV_001_C-10_G-5 | C | U | G | UU | G | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 3 perp 1 4 cWW 2 3 perp 2 4 s55 4 3 2BRJAR3D SCFG/MRF model for HL_58912.1:
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 C-10 - G-5 from junction BasepairNode | Deletion Probability [0.0000000005780646] | Pair Probability [[0.004779407,0.008570624,0.027472582,0.099626418,0.000000000],[0.010161837,0.004867687,0.533557704,0.006911397,0.000000000],[0.005556221,0.101773100,0.005236567,0.011760459,0.000000000],[0.100917975,0.006658998,0.067084168,0.005064856,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.989901010,0.009999000,0.000099990] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.000000000,0.045351474,0.907029478,0.045351474,0.002267574] | Right Letter Distribution [0.125000000,0.125000000,0.125000000,0.625000000,0.000000000] | Left Index [1] | Right Index [4] // Basepair C-10 - G-5 cWW HairpinNode | Num Bases [2] | Left Index [2] | Right Index [3] | Norm Constant [1.000000000000000] // Hairpin node U-9:G-8 Interaction | Interacting Bases [1,1] | Pair Probability [[0.166666667,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.166666667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.166666667,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.500000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U-9 Interaction | Interacting Bases [2,2] | Pair Probability [[0.166666667,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.166666667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.500000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.166666667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G-8Sequences of instances from HL_58912.1:
> HL_58912.1 HL_5NFV_001 C -10 G -5 CUGUUG