| 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 3 I | 10 3 5 | 11 2 I | 12 2 6 | 13 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_68304.6_Instance_1 HL_68304.6_HL_4LFB_012_C458_G474 | C | G | A | C | G | A | G | |||||||||||
| HL_68304.6_Sequence_1 HL_68304.6_HL_4LFB_012_C458_G474 | C | G | A | C | G | A | G | true | 95 | 0 | 0 | 0.44 | ||||||
| HL_68304.6_Instance_2 HL_68304.6_HL_6CZR_083_C453_G459 | C | G | A | C | G | A | G | |||||||||||
| HL_68304.6_Sequence_2 HL_68304.6_HL_6CZR_083_C453_G459 | C | G | A | C | G | A | G | true | 95 | 0 | 0 | 0.44 | ||||||
| HL_68304.6_Instance_3 HL_68304.6_HL_5J7L_148_C487_G493 | C | G | G | C | G | A | G | |||||||||||
| HL_68304.6_Sequence_3 HL_68304.6_HL_5J7L_148_C487_G493 | C | G | G | C | G | A | G | true | 95 | 0 | 0 | 0.44 | ||||||
| HL_68304.6_Instance_4 HL_68304.6_HL_6ASO_001_U70_A76 | U | G | C | A | U | A | A | |||||||||||
| HL_68304.6_Sequence_4 HL_68304.6_HL_6ASO_001_U70_A76 | U | G | C | A | U | A | A | true | 67 | 0 | 0 | 3.10 | ||||||
| HL_68304.6_Instance_5 HL_68304.6_HL_5J7L_026_U1165_A1171 | U | G | A | U | A | A | A | |||||||||||
| HL_68304.6_Sequence_5 HL_68304.6_HL_5J7L_026_U_1165_A_1171 | U | G | A | U | A | A | A | true | 88 | 0 | 0 | 1.16 | ||||||
| HL_68304.6_Instance_6 HL_68304.6_HL_4WF9_031_C1260_G1265 | C | G | U | A | A | G | ||||||||||||
| HL_68304.6_Sequence_6 HL_68304.6_HL_4WF9_031_C_1260_G_1265 | C | G | U | A | A | G | true | 91 | 0 | 0 | 0.85 | |||||||
| HL_68304.6_Instance_7 HL_68304.6_HL_7A0S_031_C1235_G1240 | C | G | G | A | A | G | ||||||||||||
| HL_68304.6_Sequence_7 HL_68304.6_HL_7A0S_031_C_1235_G_1240 | C | G | G | A | A | G | true | 100 | 0 | 0 | 0.00 | |||||||
| HL_68304.6_Instance_8 HL_68304.6_HL_3KTW_001_U163_G168 | U | G | G | A | G | G | ||||||||||||
| HL_68304.6_Sequence_8 HL_68304.6_HL_3KTW_001_U163_G168 | U | G | G | A | G | G | true | 78 | 0 | 0 | 2.08 |
1 2 s35 1 6 cWW 2 5 tSH 2 6 s55 3 4 s35 4 5 s35 5 6 s35JAR3D SCFG/MRF model for HL_68304.6:
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 [6] // Initial node C458 - G474 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009090007,0.015887961,0.010496925,0.168095018,0.000000000],[0.052889839,0.011354317,0.221159565,0.012641051,0.000000000],[0.010611065,0.170166497,0.002106515,0.021025473,0.000000000],[0.195823217,0.012025535,0.076676079,0.009950935,0.000000000],[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 [6] // Basepair C458 - G474 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.094627850,0.097558487,0.001614695,0.053331582,0.000000000],[0.094362199,0.097387718,0.001614695,0.001614695,0.000000000],[0.188489829,0.001614695,0.067988736,0.095513706,0.000000000],[0.103750567,0.097301154,0.001614695,0.001614695,0.000000000],[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 [2] | Right Index [5] // Basepair G459 - A463 tSH HairpinNode | Num Bases [2] | Left Index [3] | Right Index [4] | Norm Constant [1.000000000000000] // Hairpin node A460:G462 Interaction | Interacting Bases [1,1] | Pair Probability [[0.350000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.150000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.350000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.150000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A460 Interaction | Interacting Bases [2,2] | Pair Probability [[0.450000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.050000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.350000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.150000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G462 Insertion | Location [1] | Length Distribution [0.374980671,0.620844286,0.003981754,0.000193289] | Letter Distribution [0.214285714,0.500000000,0.071428571,0.214285714,0.000000000]// Insertion in Hairpin after nucleotide 3, position 1Sequences of instances from HL_68304.6:
> HL_68304.6 HL_4LFB_012 C 458 G 474 CGACGAG > HL_68304.6 HL_6CZR_083 C 453 G 459 CGACGAG > HL_68304.6 HL_5J7L_148 C 487 G 493 CGGCGAG > HL_68304.6 HL_6ASO_001 U 70 A 76 UGCAUAA > HL_68304.6 HL_5J7L_026 U 1165 A 1171 UGAUAAA > HL_68304.6 HL_4WF9_031 C 1260 G 1265 CGUAAG > HL_68304.6 HL_7A0S_031 C 1235 G 1240 CGGAAG > HL_68304.6 HL_3KTW_001 U 163 G 168 UGGAGG