| 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_44730.2_Instance_1 HL_44730.2_HL_4LFB_004_C190B_G190G | C | C | U | UG | G | |||||||||
| HL_44730.2_Sequence_1 HL_44730.2_HL_4LFB_004_C_190B_G_190G | C | C | U | UG | G | true | 100 | 0 | 0 | 0.00 | ||||
| HL_44730.2_Instance_2 HL_44730.2_HL_6CZR_075_C187_G192 | C | C | U | UG | G | |||||||||
| HL_44730.2_Sequence_2 HL_44730.2_HL_6CZR_075_C187_G192 | C | C | U | UG | G | true | 100 | 0 | 0 | 0.00 | ||||
| HL_44730.2_Instance_3 HL_44730.2_HL_5AMQ_001_U3_A9 | U | A | G | UGU | A | |||||||||
| HL_44730.2_Sequence_3 HL_44730.2_HL_5AMQ_001_U3_A9 | U | A | G | UGU | A | true | 79 | 0 | 0 | 2.00 | ||||
| HL_44730.2_Instance_4 HL_44730.2_HL_1H4S_002_U32_A38 | U | U | C | GGG | A | |||||||||
| HL_44730.2_Sequence_4 HL_44730.2_HL_1H4S_002_U32_A38 | U | U | C | GGG | A | true | 87 | 0 | 0 | 1.27 |
1 2 s35 1 4 cWW 2 3 s35 2 4 s55JAR3D SCFG/MRF model for HL_44730.2:
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 C190B - G190G from junction BasepairNode | Deletion Probability [0.0000000000429844] | Pair Probability [[0.009106890,0.016989933,0.010236072,0.193756118,0.000000000],[0.020753249,0.009584275,0.218305904,0.012178967,0.000000000],[0.010305927,0.194944276,0.002027252,0.022809627,0.000000000],[0.218224654,0.011603275,0.039263037,0.009910544,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.000000000,0.006093845,0.493601463,0.493601463,0.006398537,0.000304692] | Right Letter Distribution [0.041666667,0.041666667,0.541666667,0.375000000,0.000000000] | Left Index [1] | Right Index [4] // Basepair C190B - G190G cWW HairpinNode | Num Bases [2] | Left Index [2] | Right Index [3] | Norm Constant [1.000000000000000] // Hairpin node C190C:U190D Interaction | Interacting Bases [1,1] | Pair Probability [[0.250000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.416666667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.083333333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.250000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C190C Interaction | Interacting Bases [2,2] | Pair Probability [[0.083333333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.250000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.250000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.416666667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U190DSequences of instances from HL_44730.2:
> HL_44730.2 HL_4LFB_004 C 190B G 190G CCUUGG > HL_44730.2 HL_6CZR_075 C 187 G 192 CCUUGG > HL_44730.2 HL_5AMQ_001 U 3 A 9 UAGUGUA > HL_44730.2 HL_1H4S_002 U 32 A 38 UUCGGGA