| 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 | 7 3 I | 8 3 3 | 9 2 I | 10 2 4 | 11 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_92109.3_Instance_1 IL_92109.3_IL_1S72_086_C2547_G2609 | C | C | G | UC | G | |||||||||||
| IL_92109.3_Sequence_1 IL_92109.3_IL_1S72_086_C_2547_G_2609 | C | C | * | G | UC | G | true | 83 | 0 | 0 | 1.63 | |||||
| IL_92109.3_Instance_2 IL_92109.3_IL_3U5H_115_C2881_G2943 | C | U | A | AC | G | |||||||||||
| IL_92109.3_Sequence_2 IL_92109.3_IL_3U5H_115_C_2881_G_2943 | C | U | * | A | AC | G | true | 84 | 0 | 0 | 1.51 | |||||
| IL_92109.3_Instance_3 IL_92109.3_IL_4A1B_113_C2869_G2931 | C | U | A | AC | G | |||||||||||
| IL_92109.3_Sequence_3 IL_92109.3_IL_4A1B_113_C_2869_G_2931 | C | U | * | A | AC | G | true | 84 | 0 | 0 | 1.51 | |||||
| IL_92109.3_Instance_4 IL_92109.3_IL_4IOA_099_C2674_G2694 | C | U | A | CAU | G | |||||||||||
| IL_92109.3_Sequence_4 IL_92109.3_IL_4IOA_099_C_2674_G_2694 | C | U | * | A | CAU | G | true | 52 | 0 | 0 | 4.53 | |||||
| IL_92109.3_Instance_5 IL_92109.3_IL_3V2F_095_C2512_G2574 | C | G | C | AC | G | |||||||||||
| IL_92109.3_Sequence_5 IL_92109.3_IL_3V2F_095_C_2512_G_2574 | C | G | * | C | AC | G | true | 84 | 0 | 0 | 1.53 | |||||
| IL_92109.3_Instance_6 IL_92109.3_IL_4IOA_092_C2491_G2553 | C | G | C | AC | G | |||||||||||
| IL_92109.3_Sequence_6 IL_92109.3_IL_4IOA_092_C_2491_G_2553 | C | G | * | C | AC | G | true | 84 | 0 | 0 | 1.53 | |||||
| IL_92109.3_Instance_7 IL_92109.3_IL_2QBG_022_G697_C765 | G | C | G | A | C | |||||||||||
| IL_92109.3_Sequence_7 IL_92109.3_IL_2QBG_022_G697_C765 | G | C | * | G | A | C | true | 100 | 0 | 0 | 0.00 | |||||
| IL_92109.3_Instance_8 IL_92109.3_IL_3U5H_031_G833_C861 | G | U | G | G | C | |||||||||||
| IL_92109.3_Sequence_8 IL_92109.3_IL_3U5H_031_G833_C861 | G | U | * | G | G | C | true | 61 | 0 | 0 | 3.75 | |||||
| IL_92109.3_Instance_9 IL_92109.3_IL_3SNP_002_A13_U20 | A | C | G | U | U | |||||||||||
| IL_92109.3_Sequence_9 IL_92109.3_IL_3SNP_002_A13_U20 | A | C | * | G | U | U | true | 94 | 0 | 0 | 0.57 | |||||
| IL_92109.3_Instance_10 IL_92109.3_IL_3SN2_002_G13_C20 | G | C | G | C | C | |||||||||||
| IL_92109.3_Sequence_10 IL_92109.3_IL_3SN2_002_G13_C20 | G | C | * | G | C | C | true | 95 | 0 | 0 | 0.46 | |||||
| IL_92109.3_Instance_11 IL_92109.3_IL_3V2F_008_G271I_C271O | G | C | G | U | C | |||||||||||
| IL_92109.3_Sequence_11 IL_92109.3_IL_3V2F_008_G_271I_C_271O | G | C | * | G | U | C | true | 96 | 0 | 0 | 0.35 | |||||
| IL_92109.3_Instance_12 IL_92109.3_IL_2QBG_097_C2512_G2574 | C | A | U | AC | G | |||||||||||
| IL_92109.3_Sequence_12 IL_92109.3_IL_2QBG_097_C_2512_G_2574 | C | A | * | U | AC | G | true | 83 | 0 | 0 | 1.62 | |||||
| IL_92109.3_Instance_13 IL_92109.3_IL_4BPP_033_U1076_A616 | U | C | G | UUAAA | A | |||||||||||
| IL_92109.3_Sequence_13 IL_92109.3_IL_4BPP_033_U_1076_A616 | U | C | * | G | UUAAA | A | true | 42 | 0 | 0 | 5.55 | |||||
| IL_92109.3_Instance_14 IL_92109.3_IL_4OO8_002_G54_C60 | G | C | G | U | C | |||||||||||
| IL_92109.3_Sequence_14 IL_92109.3_IL_4OO8_002_G54_C60 | G | C | * | G | U | C | true | 96 | 0 | 0 | 0.35 | |||||
| IL_92109.3_Instance_15 IL_92109.3_IL_3U5F_033_U1104_A622 | U | C | G | UUAAA | A | |||||||||||
| IL_92109.3_Sequence_15 IL_92109.3_IL_3U5F_033_U_1104_A622 | U | C | * | G | UUAAA | A | true | 42 | 0 | 0 | 5.55 |
1 2 s35 1 4 cWW 2 3 cWW 2 4 s55 3 4 s35JAR3D SCFG/MRF model for IL_92109.3:
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 [4] // Initial node C2547 - G2609 from junction BasepairNode | Deletion Probability [0.0000000004335789] | Pair Probability [[0.008791164,0.017088285,0.010056729,0.182749433,0.000000000],[0.017769220,0.007709097,0.245759773,0.011520229,0.000000000],[0.010075308,0.227524758,0.001907120,0.022437230,0.000000000],[0.192056308,0.011437882,0.023135090,0.009982373,0.000000000],[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 [0.001324284,0.398609502,0.398830216,0.067604701,0.000728356,0.132439442,0.000441428,0.000022071] | Right Letter Distribution [0.409090909,0.257575758,0.045454545,0.287878788,0.000000000] | Left Index [1] | Right Index [4] // Basepair C2547 - G2609 cWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008884572,0.016486355,0.010152446,0.174353499,0.000000000],[0.036137873,0.008237886,0.244341815,0.011637174,0.000000000],[0.010227979,0.189336687,0.001988916,0.021267196,0.000000000],[0.193505768,0.011294003,0.051751617,0.010396213,0.000000000],[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 C2548 - G2606 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_92109.3:
> IL_92109.3 IL_1S72_086 C 2547 G 2609 CC*GUCG > IL_92109.3 IL_3U5H_115 C 2881 G 2943 CU*AACG > IL_92109.3 IL_4A1B_113 C 2869 G 2931 CU*AACG > IL_92109.3 IL_4IOA_099 C 2674 G 2694 CU*ACAUG > IL_92109.3 IL_3V2F_095 C 2512 G 2574 CG*CACG > IL_92109.3 IL_4IOA_092 C 2491 G 2553 CG*CACG > IL_92109.3 IL_2QBG_022 G 697 C 765 GC*GAC > IL_92109.3 IL_3U5H_031 G 833 C 861 GU*GGC > IL_92109.3 IL_3SNP_002 A 13 U 20 AC*GUU > IL_92109.3 IL_3SN2_002 G 13 C 20 GC*GCC > IL_92109.3 IL_3V2F_008 G 271I C 271O GC*GUC > IL_92109.3 IL_2QBG_097 C 2512 G 2574 CA*UACG > IL_92109.3 IL_4BPP_033 U 1076 A 616 UC*GUUAAAA > IL_92109.3 IL_4OO8_002 G 54 C 60 GC*GUC > IL_92109.3 IL_3U5F_033 U 1104 A 622 UC*GUUAAAA