| 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 4 3 | 7 4 I | 8 4 4 | 9 4 I | 10 4 5 | 11 4 I | 12 4 6 | 13 3 I | 14 3 7 | 15 2 I | 16 2 8 | 17 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_10751.2_Instance_1 HL_10751.2_HL_1J1U_004_C513_G523 | C | A | G | C | C | U | GGU | A | G | |||||||||||||
| HL_10751.2_Sequence_1 HL_10751.2_HL_1J1U_004_C513_G523 | C | A | G | C | C | U | GGU | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||
| HL_10751.2_Instance_2 HL_10751.2_HL_1J1U_001_C513_G523 | C | A | G | C | C | U | GGU | A | G | |||||||||||||
| HL_10751.2_Sequence_2 HL_10751.2_HL_1J1U_001_C513_G523 | C | A | G | C | C | U | GGU | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||
| HL_10751.2_Instance_3 HL_10751.2_HL_1H4S_001_C13_G22 | C | A | G | C | C | C | GGU | A | G | |||||||||||||
| HL_10751.2_Sequence_3 HL_10751.2_HL_1H4S_001_C13_G22 | C | A | G | C | C | C | GGU | A | G | true | 94 | 0 | 0 | 1.30 | ||||||||
| HL_10751.2_Instance_4 HL_10751.2_HL_6CFJ_106_C13_G22 | C | A | G | C | C | U | GGU | A | G | |||||||||||||
| HL_10751.2_Sequence_4 HL_10751.2_HL_6CFJ_106_C13_G22 | C | A | G | C | C | U | GGU | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||
| HL_10751.2_Instance_5 HL_10751.2_HL_4V9Q_213_C13_G22 | C | A | G | C | C | U | GGU | A | G | |||||||||||||
| HL_10751.2_Sequence_5 HL_10751.2_HL_4V9Q_213_C13_G22 | C | A | G | C | C | U | GGU | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||
| HL_10751.2_Instance_6 HL_10751.2_HL_2ZUE_001_U913_G922 | U | A | G | C | C | A | GGAC | A | G | |||||||||||||
| HL_10751.2_Sequence_6 HL_10751.2_HL_2ZUE_001_U913_G922 | U | A | G | C | C | A | GGAC | A | G | true | 58 | 0 | 0 | 8.40 | ||||||||
| HL_10751.2_Instance_7 HL_10751.2_HL_4WT8_215_C13_G23 | C | A | G | C | C | U | GGU | A | G | |||||||||||||
| HL_10751.2_Sequence_7 HL_10751.2_HL_4WT8_215_C13_G23 | C | A | G | C | C | U | GGU | A | G | true | 100 | 0 | 0 | 0.00 |
1 8 cWW 2 3 s35 2 7 cWS 2 8 s55 5 6 s33 4 3 7BPh 5 4 7BPhJAR3D SCFG/MRF model for HL_10751.2:
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 [8] // Initial node C513 - G523 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009323756,0.015877713,0.010902482,0.167504797,0.000000000],[0.057767753,0.011742545,0.232594255,0.013451740,0.000000000],[0.011045651,0.170984366,0.002157753,0.021172046,0.000000000],[0.176272283,0.012855711,0.076243940,0.010103208,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [8] // Basepair C513 - G523 cWW BasepairNode | Deletion Probability [0.0000000000014450] | Pair Probability [[0.275046072,0.192819086,0.203768565,0.196962408,0.000000000],[0.015406201,0.012565548,0.002096255,0.012752341,0.000000000],[0.020831764,0.002096255,0.026699544,0.009971408,0.000000000],[0.007483724,0.007894387,0.006247309,0.007359133,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.000000000,0.000000000,0.006034093,0.845778649,0.146829587,0.001307387,0.000050284] | Right Letter Distribution [0.062500000,0.062500000,0.604166667,0.270833333,0.000000000] | Left Index [2] | Right Index [7] // Basepair A514 - A522 cWS HairpinNode | Num Bases [4] | Left Index [3] | Right Index [6] | Norm Constant [1.000000000000000] // Hairpin node G515:U518 Interaction | Interacting Bases [1,1] | Pair Probability [[0.055555556,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.055555556,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.833333333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.055555556,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G515 Interaction | Interacting Bases [2,2] | Pair Probability [[0.009803922,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.970588235,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.009803922,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.009803922,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C516 Interaction | Interacting Bases [3,3] | Pair Probability [[0.009803922,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.970588235,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.009803922,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.009803922,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C517 Interaction | Interacting Bases [4,4] | Pair Probability [[0.166666667,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.166666667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.055555556,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.611111111,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U518Sequences of instances from HL_10751.2:
> HL_10751.2 HL_1J1U_004 C 513 G 523 CAGCCUGGUAG > HL_10751.2 HL_1J1U_001 C 513 G 523 CAGCCUGGUAG > HL_10751.2 HL_1H4S_001 C 13 G 22 CAGCCCGGUAG > HL_10751.2 HL_6CFJ_106 C 13 G 22 CAGCCUGGUAG > HL_10751.2 HL_4V9Q_213 C 13 G 22 CAGCCUGGUAG > HL_10751.2 HL_2ZUE_001 U 913 G 922 UAGCCAGGACAG > HL_10751.2 HL_4WT8_215 C 13 G 23 CAGCCUGGUAG