| Column number: Node in JAR3D model: Insertion positions indicated by I: Position in motif group: | 1 1 I | 2 2 1 | 3 3 I | 4 4 2 | 5 4 I | 6 5 | 7 4 I | 8 4 3 | 9 3 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_08926.3_Instance_1 IL_08926.3_IL_3V2F_093_C2507_G2582 | C | G | U | G | G | |||||||||||||
| IL_08926.3_Sequence_1 IL_08926.3_IL_3V2F_093_C_2507_G_2582 | C | G | * | U | G | G | true | 100 | 0 | 0 | 0.00 | |||||||
| IL_08926.3_Instance_2 IL_08926.3_IL_3U5H_113_C2876_G2951 | C | G | U | G | G | |||||||||||||
| IL_08926.3_Sequence_2 IL_08926.3_IL_3U5H_113_C_2876_G_2951 | C | G | * | U | G | G | true | 100 | 0 | 0 | 0.00 | |||||||
| IL_08926.3_Instance_3 IL_08926.3_IL_1S72_084_C2542_G2617 | C | G | U | G | G | |||||||||||||
| IL_08926.3_Sequence_3 IL_08926.3_IL_1S72_084_C_2542_G_2617 | C | G | * | U | G | G | true | 100 | 0 | 0 | 0.00 | |||||||
| IL_08926.3_Instance_4 IL_08926.3_IL_1S72_081_U2528_G2494 | U | G | U | C | G | |||||||||||||
| IL_08926.3_Sequence_4 IL_08926.3_IL_1S72_081_U_2528_G_2494 | U | G | * | U | C | G | true | 93 | 0 | 0 | 0.74 | |||||||
| IL_08926.3_Instance_5 IL_08926.3_IL_3U5H_110_U2862_G2828 | U | G | U | U | G | |||||||||||||
| IL_08926.3_Sequence_5 IL_08926.3_IL_3U5H_110_U_2862_G_2828 | U | G | * | U | U | G | true | 78 | 0 | 0 | 2.47 | |||||||
| IL_08926.3_Instance_6 IL_08926.3_IL_4BPP_018_U336_A314 | U | G | U | C | UCG | A | ||||||||||||
| IL_08926.3_Sequence_6 IL_08926.3_IL_4BPP_018_U336_A314 | U | G | * | U | C | UCG | A | true | 31 | 0 | 0 | 7.67 |
1 2 s35 1 5 cWW 2 3 cWW 2 5 s55 3 4 s33 4 5 cHHJAR3D SCFG/MRF model for IL_08926.3:
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 C2507 - G2582 from junction ClusterNode | Deletion Probability [0.0000000083323644] | Num Left Bases [1] | Num Right Bases [2] | Left Index [1] | Right Index [5] | Norm Constant [0.287606645399910] // Cluster node C2507:C2507 and G2581:G2582 Interaction | Interacting Bases [1,3] | Pair Probability [[0.010463773,0.016250536,0.012173131,0.138240069,0.000000000],[0.115596488,0.010802910,0.177348529,0.013966399,0.000000000],[0.012360245,0.143711858,0.002511480,0.020205985,0.000000000],[0.151719213,0.013091915,0.149769567,0.011787900,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction C2507 - G2582 cWW Interaction | Interacting Bases [2,3] | Pair Probability [[0.005352624,0.005352624,0.005352624,0.005352624,0.000000000],[0.037248401,0.005352624,0.208153515,0.005352624,0.000000000],[0.005352624,0.288273431,0.370197384,0.005352624,0.000000000],[0.005352624,0.005352624,0.037248401,0.005352624,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G2581 - G2582 cHH Insertion | Location [2] | Length Distribution [0.824969064,0.006874742,0.001718686,0.164993813,0.001374948,0.000068747] | Letter Distribution [0.100000000,0.300000000,0.300000000,0.300000000,0.000000000]// Insertion after nucleotide 4, position 2 in cluster node InitialNode | 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 [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [3] // New Initial node after Cluster BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.015877772,0.298579733,0.014983514,0.042986372,0.000000000],[0.013928943,0.011113763,0.036770561,0.014849632,0.000000000],[0.014651906,0.042627226,0.003323323,0.388936094,0.000000000],[0.036491097,0.016451640,0.014589827,0.033838598,0.000000000],[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 [2] | Right Index [3] // Basepair G2508 - U2580 cWW 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_08926.3:
> IL_08926.3 IL_3V2F_093 C 2507 G 2582 CG*UGG > IL_08926.3 IL_3U5H_113 C 2876 G 2951 CG*UGG > IL_08926.3 IL_1S72_084 C 2542 G 2617 CG*UGG > IL_08926.3 IL_1S72_081 U 2528 G 2494 UG*UCG > IL_08926.3 IL_3U5H_110 U 2862 G 2828 UG*UUG > IL_08926.3 IL_4BPP_018 U 336 A 314 UG*UCUCGA