| 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 2 I | 6 2 3 | 7 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_61984.1_Instance_1 HL_61984.1_HL_4O26_001_C186_G190 | C | U | C | G | G | |||||||
| HL_61984.1_Sequence_1 HL_61984.1_HL_4O26_001_C186_G190 | C | U | C | G | G | true | 100 | 0 | 0 | 0.00 | ||
| HL_61984.1_Instance_2 HL_61984.1_HL_4V9F_021_C712_G716 | C | U | U | U | G | |||||||
| HL_61984.1_Sequence_2 HL_61984.1_HL_4V9F_021_C712_G716 | C | U | U | U | G | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 3 cWW 2 3 s55JAR3D SCFG/MRF model for HL_61984.1:
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 [3] // Initial node C186 - G190 from junction BasepairNode | Deletion Probability [0.0000000006094467] | Pair Probability [[0.009536579,0.017101376,0.010963471,0.198789353,0.000000000],[0.020276398,0.009712729,0.228583296,0.013790641,0.000000000],[0.011086594,0.203072729,0.002089755,0.023466206,0.000000000],[0.201366458,0.013287017,0.026771249,0.010106148,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.023781213,0.951248514,0.023781213,0.001189061] | Left Letter Distribution [0.125000000,0.125000000,0.125000000,0.625000000,0.000000000] | Right Length Distribution [0.023781213,0.951248514,0.023781213,0.001189061] | Right Letter Distribution [0.125000000,0.125000000,0.375000000,0.375000000,0.000000000] | Left Index [1] | Right Index [3] // Basepair C186 - G190 cWW HairpinNode | Num Bases [1] | Left Index [2] | Right Index [2] | Norm Constant [1.000000000000000] // Hairpin node C188:C188 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],[0.000000000,0.000000000,0.125000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.375000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C188Sequences of instances from HL_61984.1:
> HL_61984.1 HL_4O26_001 C 186 G 190 CUCGG > HL_61984.1 HL_4V9F_021 C 712 G 716 CUUUG