| 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 4 I | 6 9 3 | 7 9 I | 8 10 4 | 9 10 I | 10 11 | 11 10 I | 12 10 5 | 13 9 I | 14 9 6 | 15 8 I | 16 7 7 | 17 6 I | 18 5 8 | 19 2 I | 20 2 9 | 21 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_46301.1_Instance_1 IL_46301.1_IL_1NUV_002_G43_C27 | G | G | A | G | C | C | G | A | G | C | ||||||||||||||||
| IL_46301.1_Sequence_1 IL_46301.1_IL_1NUV_002_G43_C27 | G | G | A | G | * | C | C | G | A | G | C | true | 94 | 0 | 0 | 0.69 | ||||||||||
| IL_46301.1_Instance_2 IL_46301.1_IL_1NUV_003_G43_C27 | G | G | A | G | C | C | G | A | G | C | ||||||||||||||||
| IL_46301.1_Sequence_2 IL_46301.1_IL_1NUV_003_G43_C27 | G | G | A | G | * | C | C | G | A | G | C | true | 94 | 0 | 0 | 0.69 | ||||||||||
| IL_46301.1_Instance_3 IL_46301.1_IL_429D_002_G143_C127 | G | G | A | G | C | C | G | A | G | C | ||||||||||||||||
| IL_46301.1_Sequence_3 IL_46301.1_IL_429D_002_G143_C127 | G | G | A | G | * | C | C | G | A | G | C | true | 94 | 0 | 0 | 0.69 | ||||||||||
| IL_46301.1_Instance_4 IL_46301.1_IL_2AW7_010_G227_C136 | G | A | U | G | C | U | G | C | C | |||||||||||||||||
| IL_46301.1_Sequence_4 IL_46301.1_IL_2AW7_010_G227_C136 | G | A | U | G | * | C | U | G | C | C | true | 85 | 0 | 0 | 1.72 | |||||||||||
| IL_46301.1_Instance_5 IL_46301.1_IL_2QBG_108_G2843_C2874 | G | G | U | G | C | U | A | A | C | |||||||||||||||||
| IL_46301.1_Sequence_5 IL_46301.1_IL_2QBG_108_G_2843_C_2874 | G | G | U | G | * | C | U | A | A | C | true | 100 | 0 | 0 | 0.00 | |||||||||||
| IL_46301.1_Instance_6 IL_46301.1_IL_1FJG_008_G227_C136 | G | A | U | G | C | U | A | C | C | |||||||||||||||||
| IL_46301.1_Sequence_6 IL_46301.1_IL_1FJG_008_G227_C136 | G | A | U | G | * | C | U | A | C | C | true | 98 | 0 | 0 | 0.25 | |||||||||||
| IL_46301.1_Instance_7 IL_46301.1_IL_3BNQ_002_C7_G19 | C | A | C | C | G | C | A | A | G | |||||||||||||||||
| IL_46301.1_Sequence_7 IL_46301.1_IL_3BNQ_002_C7_G19 | C | A | C | C | * | G | C | A | A | G | true | 68 | 0 | 0 | 3.76 |
1 2 s35 1 9 cWW 2 3 s35 2 9 s55 3 4 s35 3 6 cWW 4 5 cWW 4 6 s55 5 6 s35 7 8 s35 8 9 s35 9 8 7BPhJAR3D SCFG/MRF model for IL_46301.1:
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 [9] // Initial node G43 - C27 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.006295927,0.038704674,0.007295738,0.119757154,0.000000000],[0.011147152,0.015884338,0.139388841,0.008310045,0.000000000],[0.007244124,0.460777835,0.001332193,0.016571652,0.000000000],[0.119369086,0.026181520,0.015255875,0.006483846,0.000000000],[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 [1] | Right Index [9] // Basepair G43 - C27 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.388888889,0.055555556,0.500000000,0.055555556,0.000000000] | Position [1] | Left Index [2] | Right Index [8] // Fixed node on left 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [8] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.277777778,0.277777778,0.388888889,0.055555556,0.000000000] | Position [2] | Left Index [3] | Right Index [8] // Fixed node on right InitialNode | Left Length Distribution [1.000000000] | 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 [3] | Right Index [7] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.722222222,0.055555556,0.166666667,0.055555556,0.000000000] | Position [2] | Left Index [3] | Right Index [7] // Fixed node on right InitialNode | Left Length Distribution [1.000000000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.568485889,0.428131469,0.003231181,0.000151462] | Right Letter Distribution [0.100000000,0.100000000,0.700000000,0.100000000,0.000000000] | Left Index [3] | Right Index [6] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.013993991,0.258807327,0.013386597,0.033410534,0.000000000],[0.016349387,0.047220491,0.021592336,0.014415690,0.000000000],[0.013115176,0.023100305,0.004010946,0.099227971,0.000000000],[0.027907040,0.015718289,0.016415483,0.381328436,0.000000000],[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 [3] | Right Index [6] // Basepair A45 - C23 cWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009696313,0.019313569,0.011232880,0.184287162,0.000000000],[0.016884566,0.008035654,0.208890895,0.012733823,0.000000000],[0.011131706,0.260092205,0.002049121,0.025767468,0.000000000],[0.183526462,0.013182737,0.023188255,0.009987184,0.000000000],[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 G46 - C22 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_46301.1:
> IL_46301.1 IL_1NUV_002 G 43 C 27 GGAG*CCGAGC > IL_46301.1 IL_1NUV_003 G 43 C 27 GGAG*CCGAGC > IL_46301.1 IL_429D_002 G 143 C 127 GGAG*CCGAGC > IL_46301.1 IL_2AW7_010 G 227 C 136 GAUG*CUGCC > IL_46301.1 IL_2QBG_108 G 2843 C 2874 GGUG*CUAAC > IL_46301.1 IL_1FJG_008 G 227 C 136 GAUG*CUACC > IL_46301.1 IL_3BNQ_002 C 7 G 19 CACC*GCAAG