| 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 4 4 | 9 4 I | 10 4 5 | 11 5 I | 12 6 | 13 5 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_53448.1_Instance_1 IL_53448.1,IL_5BTM_002,C19_G37 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_1 IL_53448.15BTM_C19_G37 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_53448.1_Instance_2 IL_53448.1,IL_5XTM_001,C41_G6 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_2 IL_53448.15XTM_C41_G6 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_53448.1_Instance_3 IL_53448.1,IL_6AZ4_002,C13_G31 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_3 IL_53448.16AZ4_C13_G31 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_53448.1_Instance_4 IL_53448.1,IL_4K27_004,C19_G37 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_4 IL_53448.14K27_C19_G37 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_53448.1_Instance_5 IL_53448.1,IL_1KXK_002,C15_G57 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_5 IL_53448.11KXK_C15_G57 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_53448.1_Instance_6 IL_53448.1,IL_5M0H_003,C14_G32 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_6 IL_53448.15M0H_C14_G32 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_53448.1_Instance_7 IL_53448.1,IL_6DVK_001,C85_G9 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_7 IL_53448.16DVK_C85_G9 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_53448.1_Instance_8 IL_53448.1,IL_6WPI_002,C18_G36 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_8 IL_53448.16WPI_C18_G36 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_53448.1_Instance_9 IL_53448.1,IL_2R8S_007,C223_G250 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_9 IL_53448.12R8S_C223_G250 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_53448.1_Instance_10 IL_53448.1,IL_1NBS_008,C146_G162 | C | U | A | C | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_10 IL_53448.11NBS_C146_G162 | C | U | A | C | G | * | U | A | U | G | true | 98 | 0 | 0 | 0.32 | |||||||||
| IL_53448.1_Instance_11 IL_53448.1,IL_5Y7M_005,C46_G6 | C | U | A | A | G | U | A | U | G | |||||||||||||||
| IL_53448.1_Sequence_11 IL_53448.15Y7M_C46_G6 | C | U | A | A | G | * | U | A | U | G | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 8 cWW 2 3 s35 2 7 tWH 2 8 s55 3 4 cSH 3 6 s33 3 7 s55 4 5 s35 4 7 s55 5 6 cWW 7 8 s35 3 7 6BPhJAR3D SCFG/MRF model for IL_53448.1:
Character Definition | A,C,G,U,* // Identity and order of characters in matrices InitialNode | Left Length Distribution [0.999900000,0.000100000] | Left Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Right Length Distribution [0.999900000,0.000100000] | Right Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Left Index [1] | Right Index [8] // Initial node BasepairNode | Deletion Probability [0.0000001233745871] | Pair Probability [[0.008763342,0.015714778,0.010074541,0.182671298,0.000000000],[0.018632366,0.008925211,0.291130597,0.012672481,0.000000000],[0.010187681,0.186607373,0.001920315,0.021563540,0.000000000],[0.185039448,0.012209691,0.024600607,0.009286731,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [0.004503490,0.990767845,0.004503490,0.000225175] | Right Letter Distribution [0.038461538,0.038461538,0.038461538,0.884615385,0.000000000] | Left Index [1] | Right Index [8] // Basepair C19 - G37 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.017253261,0.003818174,0.017920335,0.003818174,0.000000000],[0.038396772,0.307671872,0.003818174,0.003818174,0.000000000],[0.003818174,0.009152416,0.029036892,0.016981924,0.000000000],[0.480916514,0.003818174,0.022152588,0.037608381,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [7] // Basepair U20 - A35 tWH ClusterNode | Deletion Probability [0.0000000006250000] | Num Left Bases [3] | Num Right Bases [1] | Left Index [3] | Right Index [6] | Norm Constant [1.000000000000000] // Cluster node 5BTM|1|A|A|21:5BTM|1|A|G|23 and 5BTM|1|A|U|34:5BTM|1|A|U|34 Interaction | Interacting Bases [3,4] | Pair Probability [[0.014555516,0.272815045,0.013156744,0.077724733,0.000000000],[0.012610104,0.011752420,0.033477885,0.013236984,0.000000000],[0.012874883,0.038193001,0.002981333,0.397232351,0.000000000],[0.033612521,0.014458846,0.013230546,0.038087087,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 5BTM|1|A|G|23 - 5BTM|1|A|U|34 cWW Interaction | Interacting Bases [1,2] | Pair Probability [[0.372580984,0.269968494,0.013045101,0.039359223,0.000000000],[0.045047905,0.042264576,0.000491836,0.003511848,0.000000000],[0.003543956,0.000491836,0.041145174,0.039703616,0.000000000],[0.047144785,0.041542776,0.000491836,0.039666054,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 5BTM|1|A|A|21 - 5BTM|1|A|A|22 cSH InitialNode | Left Length Distribution [0.995173718,0.004600491,0.000225791] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995173718,0.004600491,0.000225791] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [6] | Right Index [5] // New Initial node after Cluster HairpinNode | Num Bases [1] | Left Index [6] | Right Index [6] | 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_53448.1:
> IL_53448.1 5BTM C 19 G 37 CUAAG*UAUG > IL_53448.1 5XTM C 41 G 6 CUAAG*UAUG > IL_53448.1 6AZ4 C 13 G 31 CUAAG*UAUG > IL_53448.1 4K27 C 19 G 37 CUAAG*UAUG > IL_53448.1 1KXK C 15 G 57 CUAAG*UAUG > IL_53448.1 5M0H C 14 G 32 CUAAG*UAUG > IL_53448.1 6DVK C 85 G 9 CUAAG*UAUG > IL_53448.1 6WPI C 18 G 36 CUAAG*UAUG > IL_53448.1 2R8S C 223 G 250 CUAAG*UAUG > IL_53448.1 1NBS C 146 G 162 CUACG*UAUG > IL_53448.1 5Y7M C 46 G 6 CUAAG*UAUG