| 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 2 2 | 5 3 I | 6 4 | 7 3 I | 8 2 3 | 9 2 I | 10 2 4 | 11 2 I | 12 2 5 | 13 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_96206.3_Instance_1 IL_96206.3_IL_1S72_017_G554_C605 | G | U | A | A | G | C | ||||||||||||
| IL_96206.3_Sequence_1 IL_96206.3_IL_1S72_017_G554_C605 | G | U | * | A | A | G | C | true | 100 | 0 | 0 | 0.00 | ||||||
| IL_96206.3_Instance_2 IL_96206.3_IL_1XJR_004_G19_C31 | G | C | G | A | U | C | ||||||||||||
| IL_96206.3_Sequence_2 IL_96206.3_IL_1XJR_004_G19_C31 | G | C | * | G | A | U | C | true | 84 | 0 | 0 | 1.50 |
1 2 cSS 1 4 s35 1 5 cWW 2 3 cWW 3 5 cSS 4 5 s55JAR3D SCFG/MRF model for IL_96206.3:
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 G554 - C605 from junction ClusterNode | Deletion Probability [0.000000000000015429359482326747000000000000000000000000000000] | Num Left Bases [2] | Num Right Bases [3] | Left Index [1] | Right Index [5] | Norm Constant [0.004696580370998] // Cluster node G554:U555 and A602:C605 Interaction | Interacting Bases [2,3] | Pair Probability [[0.009573432,0.018670696,0.010738592,0.199847452,0.000000000],[0.022636955,0.009050270,0.214230681,0.012151330,0.000000000],[0.010821283,0.200582138,0.002151860,0.023718468,0.000000000],[0.214249849,0.011785171,0.027717608,0.012074217,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction U555 - A602 cWW Interaction | Interacting Bases [1,5] | Pair Probability [[0.010195092,0.020769450,0.011804402,0.193474890,0.000000000],[0.017202006,0.008406578,0.208382157,0.013263440,0.000000000],[0.011655809,0.234558465,0.002149506,0.027571043,0.000000000],[0.192357660,0.013922753,0.023782986,0.010503762,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G554 - C605 cWW Interaction | Interacting Bases [1,2] | Pair Probability [[0.057311062,0.059127325,0.058376074,0.057761567,0.000000000],[0.062190460,0.060578703,0.008504233,0.053949004,0.000000000],[0.060554353,0.075378184,0.054532050,0.161787815,0.000000000],[0.058781312,0.056539156,0.057004634,0.057624068,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G554 - U555 cSS Interaction | Interacting Bases [3,5] | Pair Probability [[0.057311062,0.158057807,0.058376074,0.057761567,0.000000000],[0.062190460,0.060578703,0.008504233,0.053949004,0.000000000],[0.060554353,0.075378184,0.054532050,0.062857333,0.000000000],[0.058781312,0.056539156,0.057004634,0.057624068,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction A602 - C605 cSS Interaction | Interacting Bases [4,4] | Pair Probability [[0.625000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.125000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.125000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.125000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Right strand conserved insertion A603 Insertion | Location [4] | Length Distribution [0.023781213,0.951248514,0.023781213,0.001189061] | Letter Distribution [0.125000000,0.125000000,0.375000000,0.375000000,0.000000000]// Insertion after nucleotide 4, position 4 in cluster node 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 [3] | Right Index [2] // New Initial node after Cluster HairpinNode | Num Bases [1] | Left Index [3] | Right Index [3] | 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_96206.3:
> IL_96206.3 IL_1S72_017 G 554 C 605 GU*AAGC > IL_96206.3 IL_1XJR_004 G 19 C 31 GC*GAUC