| 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 5 4 | 9 5 I | 10 6 | 11 5 I | 12 5 5 | 13 4 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_02809.3_Instance_1 IL_02809.3_IL_4B5R_004_G82_C69 | G | A | A | A | U | CC | U | G | C | |||||||||||||||
| IL_02809.3_Sequence_1 IL_02809.3_IL_4B5R_004_G82_C69 | G | A | A | A | * | U | CC | U | G | C | true | 90 | 0 | 0 | 1.25 | |||||||||
| IL_02809.3_Instance_2 IL_02809.3_IL_3GX5_004_G82_C69 | G | A | A | A | U | CC | U | G | C | |||||||||||||||
| IL_02809.3_Sequence_2 IL_02809.3_IL_3GX5_004_G82_C69 | G | A | A | A | * | U | CC | U | G | C | true | 90 | 0 | 0 | 1.25 | |||||||||
| IL_02809.3_Instance_3 IL_02809.3_IL_4AOB_004_G82_C69 | G | A | A | A | U | CC | U | G | C | |||||||||||||||
| IL_02809.3_Sequence_3 IL_02809.3_IL_4AOB_004_G82_C69 | G | A | A | A | * | U | CC | U | G | C | true | 90 | 0 | 0 | 1.25 | |||||||||
| IL_02809.3_Instance_4 IL_02809.3_IL_4KQY_006_G106_C90 | G | G | A | A | U | CC | A | G | C | |||||||||||||||
| IL_02809.3_Sequence_4 IL_02809.3_IL_4KQY_006_G106_C90 | G | G | A | A | * | U | CC | A | G | C | true | 70 | 0 | 0 | 3.89 | |||||||||
| IL_02809.3_Instance_5 IL_02809.3_IL_3V7E_009_G314_C301 | G | A | A | A | U | CC | U | G | C | |||||||||||||||
| IL_02809.3_Sequence_5 IL_02809.3_IL_3V7E_009_G314_C301 | G | A | A | A | * | U | CC | U | G | C | true | 90 | 0 | 0 | 1.25 | |||||||||
| IL_02809.3_Instance_6 IL_02809.3_IL_4ERD_002_U127_G142 | U | U | C | G | U | U | C | G | ||||||||||||||||
| IL_02809.3_Sequence_6 IL_02809.3_IL_4ERD_002_U127_G142 | U | U | C | G | * | U | U | C | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_02809.3_Instance_7 IL_02809.3_IL_165D_001_U3_G15 | U | U | C | G | U | U | C | G | ||||||||||||||||
| IL_02809.3_Sequence_7 IL_02809.3_IL_165D_001_U3_G15 | U | U | C | G | * | U | U | C | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_02809.3_Instance_8 IL_02809.3_IL_422D_001_U7_G22 | U | U | C | G | U | U | C | G | ||||||||||||||||
| IL_02809.3_Sequence_8 IL_02809.3_IL_422D_001_U7_G22 | U | U | C | G | * | U | U | C | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_02809.3_Instance_9 IL_02809.3_IL_1QBP_002_U22_G10 | U | U | C | G | U | U | C | G | ||||||||||||||||
| IL_02809.3_Sequence_9 IL_02809.3_IL_1QBP_002_U22_G10 | U | U | C | G | * | U | U | C | G | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 8 cWW 2 3 s35 2 7 cWW 2 8 s55 3 4 s35 3 6 cWW 4 5 cWW 4 6 s55 6 7 s35 7 8 s35 8 7 7BPhJAR3D SCFG/MRF model for IL_02809.3:
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 [8] // Initial node G82 - C69 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.007469190,0.035454171,0.008848563,0.055108842,0.000000000],[0.135299260,0.018541243,0.060822847,0.009937285,0.000000000],[0.008965028,0.365385918,0.001900604,0.011999087,0.000000000],[0.057751514,0.026200513,0.188225765,0.008090169,0.000000000],[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 [8] // Basepair G82 - C69 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.031367251,0.013715955,0.156150857,0.014879404,0.000000000],[0.012363135,0.006744102,0.019055853,0.256312561,0.000000000],[0.035633151,0.020003102,0.032649911,0.015287890,0.000000000],[0.014774915,0.345521165,0.013799204,0.011741543,0.000000000],[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 A83 - G68 cWW BasepairNode | Deletion Probability [0.0000000665942263] | Pair Probability [[0.045076221,0.012605543,0.036331824,0.133311299,0.000000000],[0.013984889,0.008297207,0.020395310,0.351576389,0.000000000],[0.038647371,0.019429488,0.003148791,0.014069770,0.000000000],[0.015171150,0.261338176,0.015587646,0.011028925,0.000000000],[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 [0.440515158,0.005506439,0.550766313,0.003059133,0.000152957] | Right Letter Distribution [0.041666667,0.875000000,0.041666667,0.041666667,0.000000000] | Left Index [3] | Right Index [6] // Basepair A84 - U67 cWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.011671890,0.141753274,0.011575960,0.176125399,0.000000000],[0.016460837,0.009640055,0.115829431,0.011760984,0.000000000],[0.011423945,0.118941193,0.002553126,0.194780112,0.000000000],[0.123257240,0.012491177,0.018568110,0.023167266,0.000000000],[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 A85 - U64 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_02809.3:
> IL_02809.3 IL_4B5R_004 G 82 C 69 GAAA*UCCUGC > IL_02809.3 IL_3GX5_004 G 82 C 69 GAAA*UCCUGC > IL_02809.3 IL_4AOB_004 G 82 C 69 GAAA*UCCUGC > IL_02809.3 IL_4KQY_006 G 106 C 90 GGAA*UCCAGC > IL_02809.3 IL_3V7E_009 G 314 C 301 GAAA*UCCUGC > IL_02809.3 IL_4ERD_002 U 127 G 142 UUCG*UUCG > IL_02809.3 IL_165D_001 U 3 G 15 UUCG*UUCG > IL_02809.3 IL_422D_001 U 7 G 22 UUCG*UUCG > IL_02809.3 IL_1QBP_002 U 22 G 10 UUCG*UUCG