| 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 5 4 | 9 5 I | 10 6 | 11 5 I | 12 5 5 | 13 4 I | 14 4 6 | 15 3 I | 16 3 7 | 17 2 I | 18 2 8 | 19 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_47758.2_Instance_1 IL_47758.2_IL_1DUQ_001_G123_C107 | G | G | U | A | C | G | G | G | C | |||||||||||||||
| IL_47758.2_Sequence_1 IL_47758.2_IL_1DUQ_001_G123_C107 | G | G | U | A | C | * | G | G | G | C | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_47758.2_Instance_2 IL_47758.2_IL_1CSL_001_G70_C49 | G | G | U | A | C | G | G | G | C | |||||||||||||||
| IL_47758.2_Sequence_2 IL_47758.2_IL_1CSL_001_G70_C49 | G | G | U | A | C | * | G | G | G | C | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_47758.2_Instance_3 IL_47758.2_IL_1S72_037_A965_U1003 | A | U | U | G | C | U | G | U | ||||||||||||||||
| IL_47758.2_Sequence_3 IL_47758.2_IL_1S72_037_A965_U_1003 | A | U | U | G | * | C | U | G | U | true | 80 | 0 | 0 | 1.92 | ||||||||||
| IL_47758.2_Instance_4 IL_47758.2_IL_4BPP_084_G1621_C1704 | G | U | A | G | C | A | A | C | ||||||||||||||||
| IL_47758.2_Sequence_4 IL_47758.2_IL_4BPP_084_G_1621_C_1704 | G | U | A | G | * | C | A | A | C | true | 84 | 0 | 0 | 1.50 |
1 2 s35 1 8 cWW 2 3 s55 2 7 cHW 3 4 s35 3 6 cWW 3 7 s55 4 5 cWW 4 6 s55 5 6 s35 6 7 s35 7 8 s35JAR3D SCFG/MRF model for IL_47758.2:
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 G123 - C107 from junction BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.009767519,0.021268948,0.011088337,0.204600662,0.000000000],[0.017577537,0.008464771,0.200414738,0.012276127,0.000000000],[0.010974938,0.234366259,0.002107823,0.027093309,0.000000000],[0.192187667,0.012778924,0.023277499,0.011754942,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [8] // Basepair G123 - C107 cWW BasepairNode | Deletion Probability [0.0000016375373120] | Pair Probability [[0.004235055,0.004235055,0.032715145,0.016948065,0.000000000],[0.004235055,0.039851079,0.004235055,0.004235055,0.000000000],[0.042916657,0.197205402,0.442736260,0.013029168,0.000000000],[0.078132752,0.022381797,0.057556733,0.035351667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.496627836,0.496627836,0.006437768,0.000306560] | Left Letter Distribution [0.125000000,0.125000000,0.125000000,0.625000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [7] // Basepair G124 - G106 cHW BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.169109165,0.061910562,0.213476799,0.020571755,0.000000000],[0.013854359,0.009362289,0.017745709,0.027302942,0.000000000],[0.186722167,0.018015243,0.003452274,0.024411989,0.000000000],[0.018645523,0.029161868,0.014693075,0.171564282,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [6] // Basepair A126 - G105 cWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009918469,0.018622325,0.011505683,0.189225435,0.000000000],[0.018622679,0.008323799,0.226847981,0.013333072,0.000000000],[0.011505698,0.226847329,0.002108383,0.025185586,0.000000000],[0.189225546,0.013333007,0.025185962,0.010209047,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [4] | Right Index [5] // Basepair C127 - G104 cWW HairpinNode | Num Bases [1] | Left Index [5] | Right Index [5] | Norm Constant [1.000000000000000] // Hairpin node type * Interaction | Interacting Bases [1,1] | Pair Probability [[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,1.000000000]] // Hairpin for truncationSequences of instances from IL_47758.2:
> IL_47758.2 IL_1DUQ_001 G 123 C 107 GGUAC*GGGC > IL_47758.2 IL_1CSL_001 G 70 C 49 GGUAC*GGGC > IL_47758.2 IL_1S72_037 A 965 U 1003 AUUG*CUGU > IL_47758.2 IL_4BPP_084 G 1621 C 1704 GUAG*CAAC