| 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 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_56387.1_Instance_1 HL_56387.1_HL_5B2P_003_A64_U68 | A | U | U | U | U | |||||||||||
| HL_56387.1_Sequence_1 HL_56387.1_HL_5B2P_003_A64_U68 | A | U | U | U | U | true | 100 | 0 | 0 | 0.00 | ||||||
| HL_56387.1_Instance_2 HL_56387.1_HL_2Y9H_005_A10_U17 | A | C | G | CGU | G | U | ||||||||||
| HL_56387.1_Sequence_2 HL_56387.1_HL_2Y9H_005_A10_U17 | A | C | G | CGU | G | U | true | 53 | 0 | 0 | 4.47 |
1 2 s35 1 5 cWW 2 3 s35 2 4 cWH 3 4 s53 4 5 s55JAR3D SCFG/MRF model for HL_56387.1:
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 [5] // Initial node A64 - U68 from junction BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.009282926,0.022010543,0.009914366,0.223723012,0.000000000],[0.017518170,0.009580259,0.194165974,0.010358839,0.000000000],[0.009895067,0.196683142,0.002041152,0.053213779,0.000000000],[0.196023621,0.011028161,0.023012614,0.011548375,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [5] // Basepair A64 - U68 cWW BasepairNode | Deletion Probability [0.0000000071284465] | Pair Probability [[0.055704100,0.055704100,0.055704100,0.055704100,0.000000000],[0.055704100,0.055704100,0.065508021,0.055704100,0.000000000],[0.055704100,0.055704100,0.055704100,0.055704100,0.000000000],[0.055704100,0.055704100,0.055704100,0.154634581,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.481347774,0.012033694,0.012635379,0.481347774,0.012033694,0.000601685] | Right Letter Distribution [0.100000000,0.300000000,0.300000000,0.300000000,0.000000000] | Left Index [2] | Right Index [4] // Basepair U65 - U67 cWH HairpinNode | Num Bases [1] | Left Index [3] | Right Index [3] | Norm Constant [1.000000000000000] // Hairpin node U66:U66 Interaction | Interacting Bases [1,1] | Pair Probability [[0.125000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.125000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.375000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.375000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U66Sequences of instances from HL_56387.1:
> HL_56387.1 HL_5B2P_003 A 64 U 68 AUUUU > HL_56387.1 HL_2Y9H_005 A 10 U 17 ACGCGUGU