| 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_46546.1_Instance_1 HL_46546.1_HL_5TBW_068_C3194_G3197 | C | U | U | G | ||||||||||
| HL_46546.1_Sequence_1 HL_46546.1_HL_5TBW_068_C_3194_G_3197 | C | U | U | G | true | 95 | 0 | 0 | 0.51 | |||||
| HL_46546.1_Instance_2 HL_46546.1_HL_5AH5_007_C46A_G46E | C | U | C | U | G | |||||||||
| HL_46546.1_Sequence_2 HL_46546.1_HL_5AH5_007_C46A_G46E | C | U | C | U | G | true | 95 | 0 | 0 | 0.47 | ||||
| HL_46546.1_Instance_3 HL_46546.1_HL_5J7L_176_C1728_G1731 | C | U | C | G | ||||||||||
| HL_46546.1_Sequence_3 HL_46546.1_HL_5J7L_176_C_1728_G_1731 | C | U | C | G | true | 100 | 0 | 0 | 0.00 | |||||
| HL_46546.1_Instance_4 HL_46546.1_HL_2Y8Y_001_C11_G16 | C | G | C | G | U | G | ||||||||
| HL_46546.1_Sequence_4 HL_46546.1_HL_2Y8Y_001_C11_G16 | C | G | C | G | U | G | true | 62 | 0 | 0 | 3.59 |
1 3 s33 1 4 cWW 3 4 s35JAR3D SCFG/MRF model for HL_46546.1:
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 [4] // Initial node C3194 - G3197 from junction BasepairNode | Deletion Probability [0.0000004157377304] | Pair Probability [[0.009353183,0.016772504,0.010752635,0.194966481,0.000000000],[0.019886467,0.009525946,0.243418233,0.013525436,0.000000000],[0.010873390,0.199167485,0.002049567,0.023014932,0.000000000],[0.197494026,0.013031497,0.026256418,0.009911799,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.741082411,0.255227552,0.003536285,0.000153752] | Left Letter Distribution [0.166666667,0.166666667,0.500000000,0.166666667,0.000000000] | Right Length Distribution [0.496627836,0.496627836,0.006437768,0.000306560] | Right Letter Distribution [0.125000000,0.125000000,0.125000000,0.625000000,0.000000000] | Left Index [1] | Right Index [4] // Basepair C3194 - G3197 cWW HairpinNode | Num Bases [2] | Left Index [2] | Right Index [3] | Norm Constant [1.000000000000000] // Hairpin node U3195:U3196 Interaction | Interacting Bases [1,1] | Pair Probability [[0.083333333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.250000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.083333333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.583333333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U3195 Interaction | Interacting Bases [2,2] | Pair Probability [[0.083333333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.416666667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.250000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.250000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U3196Sequences of instances from HL_46546.1:
> HL_46546.1 HL_5TBW_068 C 3194 G 3197 CUUG > HL_46546.1 HL_5AH5_007 C 46A G 46E CUCUG > HL_46546.1 HL_5J7L_176 C 1728 G 1731 CUCG > HL_46546.1 HL_2Y8Y_001 C 11 G 16 CGCGUG