| 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 3 I | 8 3 4 | 9 2 I | 10 2 5 | 11 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_79272.2_Instance_1 HL_79272.2_HL_4WF9_042_C1779_G1783 | C | G | C | A | G | |||||||||||
| HL_79272.2_Sequence_1 HL_79272.2_HL_4WF9_042_C_1779_G_1783 | C | G | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||
| HL_79272.2_Instance_2 HL_79272.2_HL_5J7L_177_C1752_G1756 | C | G | A | A | G | |||||||||||
| HL_79272.2_Sequence_2 HL_79272.2_HL_5J7L_177_C_1752_G_1756 | C | G | A | A | G | true | 96 | 0 | 0 | 0.37 | ||||||
| HL_79272.2_Instance_3 HL_79272.2_HL_4V9F_046_C1808_G1812 | C | G | C | A | G | |||||||||||
| HL_79272.2_Sequence_3 HL_79272.2_HL_4V9F_046_C_1808_G_1812 | C | G | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||
| HL_79272.2_Instance_4 HL_79272.2_HL_4Y4O_146_C1752_G1756 | C | G | C | A | G | |||||||||||
| HL_79272.2_Sequence_4 HL_79272.2_HL_4Y4O_146_C_1752_G_1756 | C | G | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||
| HL_79272.2_Instance_5 HL_79272.2_HL_7A0S_044_C1743_G1747 | C | G | C | A | G | |||||||||||
| HL_79272.2_Sequence_5 HL_79272.2_HL_7A0S_044_C_1743_G_1747 | C | G | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||
| HL_79272.2_Instance_6 HL_79272.2_HL_3IVK_002_C40_G44 | C | G | A | A | G | |||||||||||
| HL_79272.2_Sequence_6 HL_79272.2_HL_3IVK_002_C40_G44 | C | G | A | A | G | true | 96 | 0 | 0 | 0.37 | ||||||
| HL_79272.2_Instance_7 HL_79272.2_HL_3HHN_007_C40_G44 | C | G | A | A | G | |||||||||||
| HL_79272.2_Sequence_7 HL_79272.2_HL_3HHN_007_C40_G44 | C | G | A | A | G | true | 96 | 0 | 0 | 0.37 | ||||||
| HL_79272.2_Instance_8 HL_79272.2_HL_5MGA_001_C-11_G-6 | C | U | G | U | U | G | ||||||||||
| HL_79272.2_Sequence_8 HL_79272.2_HL_5MGA_001_C-11_G-6 | C | U | G | U | U | G | true | 54 | 0 | 0 | 4.41 | |||||
| HL_79272.2_Instance_9 HL_79272.2_HL_4ZNP_001_G26_C31 | G | G | A | A | A | C | ||||||||||
| HL_79272.2_Sequence_9 HL_79272.2_HL_4ZNP_001_G26_C31 | G | G | A | A | A | C | true | 72 | 0 | 0 | 2.67 | |||||
| HL_79272.2_Instance_10 HL_79272.2_HL_5XH7_001_C-11_G-6 | C | U | C | U | U | G | ||||||||||
| HL_79272.2_Sequence_10 HL_79272.2_HL_5XH7_001_C-11_G-6 | C | U | C | U | U | G | true | 69 | 0 | 0 | 2.95 | |||||
| HL_79272.2_Instance_11 HL_79272.2_HL_5KK5_001_C-11_G-6 | C | U | C | U | U | G | ||||||||||
| HL_79272.2_Sequence_11 HL_79272.2_HL_5KK5_001_C-11_G-6 | C | U | C | U | U | G | true | 69 | 0 | 0 | 2.95 |
1 2 s35 1 5 cWW 2 4 s33 2 5 s55 3 4 s35 2 5 6BPhJAR3D SCFG/MRF model for HL_79272.2:
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 [5] // Initial node C1779 - G1783 from junction BasepairNode | Deletion Probability [0.0000035196243062] | Pair Probability [[0.008779809,0.015979629,0.010084616,0.182882766,0.000000000],[0.018366806,0.008911187,0.281624635,0.012630157,0.000000000],[0.010177188,0.196105522,0.001920275,0.021839130,0.000000000],[0.184820392,0.012251502,0.024324066,0.009302320,0.000000000],[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 [0.633943052,0.364188787,0.001786044,0.000082117] | Right Letter Distribution [0.250000000,0.083333333,0.083333333,0.583333333,0.000000000] | Left Index [1] | Right Index [5] // Basepair C1779 - G1783 cWW HairpinNode | Num Bases [3] | Left Index [2] | Right Index [4] | Norm Constant [1.000000000000000] // Hairpin node G1780:A1782 Interaction | Interacting Bases [1,1] | Pair Probability [[0.006329114,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.006329114,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.715189873,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.272151899,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G1780 Interaction | Interacting Bases [2,2] | Pair Probability [[0.346153846,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.500000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.115384615,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.038461538,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C1781 Interaction | Interacting Bases [3,3] | Pair Probability [[0.653846154,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.038461538,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.038461538,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.269230769,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A1782Sequences of instances from HL_79272.2:
> HL_79272.2 HL_4WF9_042 C 1779 G 1783 CGCAG > HL_79272.2 HL_5J7L_177 C 1752 G 1756 CGAAG > HL_79272.2 HL_4V9F_046 C 1808 G 1812 CGCAG > HL_79272.2 HL_4Y4O_146 C 1752 G 1756 CGCAG > HL_79272.2 HL_7A0S_044 C 1743 G 1747 CGCAG > HL_79272.2 HL_3IVK_002 C 40 G 44 CGAAG > HL_79272.2 HL_3HHN_007 C 40 G 44 CGAAG > HL_79272.2 HL_5MGA_001 C -11 G -6 CUGUUG > HL_79272.2 HL_4ZNP_001 G 26 C 31 GGAAAC > HL_79272.2 HL_5XH7_001 C -11 G -6 CUCUUG > HL_79272.2 HL_5KK5_001 C -11 G -6 CUCUUG