| 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 5 | 11 7 I | 12 10 6 | 13 10 I | 14 11 | 15 10 I | 16 10 7 | 17 9 I | 18 8 8 | 19 5 I | 20 5 9 | 21 4 I | 22 4 10 | 23 3 I | 24 3 11 | 25 2 I | 26 2 12 | 27 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_93568.2_Instance_1 IL_93568.2_IL_4GMA_004_C97_G143 | C | G | A | A | G | C | G | U | G | G | A | G | ||||||||||||||||||||
| IL_93568.2_Sequence_1 IL_93568.2_IL_4GMA_004_C97_G143 | C | G | A | A | G | C | * | G | U | G | G | A | G | true | 100 | 0 | 0 | 0.05 | ||||||||||||||
| IL_93568.2_Instance_2 IL_93568.2_IL_4IOA_017_U716_G741 | U | G | A | A | A | C | G | C | G | G | A | G | ||||||||||||||||||||
| IL_93568.2_Sequence_2 IL_93568.2_IL_4IOA_017_U716_G741 | U | G | A | A | A | C | * | G | C | G | G | A | G | true | 98 | 0 | 0 | 0.22 | ||||||||||||||
| IL_93568.2_Instance_3 IL_93568.2_IL_4A1B_033_C794_G786 | C | G | A | A | G | G | C | U | U | G | A | G | ||||||||||||||||||||
| IL_93568.2_Sequence_3 IL_93568.2_IL_4A1B_033_C794_G786 | C | G | A | A | G | G | * | C | U | U | G | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||||
| IL_93568.2_Instance_4 IL_93568.2_IL_1FJG_026_U605_G633 | U | G | AA | A | G | A | C | G | G | G | G | A | G | |||||||||||||||||||
| IL_93568.2_Sequence_4 IL_93568.2_IL_1FJG_026_U605_G633 | U | G | AA | A | G | A | C | * | G | G | G | G | A | G | true | 78 | 0 | 0 | 3.12 |
1 2 s35 1 12 cWW 2 10 s33 2 11 tSH 2 12 s55 3 4 s35 3 10 tHS 3 11 s55 4 5 s35 4 9 tHS 5 6 s35 6 7 cWW 6 8 s55 7 8 s35 8 9 s35 9 10 s35 11 12 s35 4 9 6BRJAR3D SCFG/MRF model for IL_93568.2:
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 [12] // Initial node C97 - G143 from junction BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.011302835,0.015688748,0.013344805,0.113345681,0.000000000],[0.165628431,0.012077874,0.146852417,0.015393651,0.000000000],[0.013590323,0.121350928,0.002784428,0.019260671,0.000000000],[0.117275121,0.014236258,0.205766953,0.012100875,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [12] // Basepair C97 - G143 cWW BasepairNode | Deletion Probability [0.0000015977316803] | Pair Probability [[0.109749162,0.127926698,0.001322337,0.006296802,0.000000000],[0.110725601,0.116056577,0.001322337,0.001322337,0.000000000],[0.170695282,0.001322337,0.006406447,0.109991924,0.000000000],[0.119293454,0.114924027,0.001322337,0.001322337,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.738007380,0.012300123,0.246463715,0.003075031,0.000153752] | Left Letter Distribution [0.625000000,0.125000000,0.125000000,0.125000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [11] // Basepair G98 - A142 tSH BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.106208866,0.107153807,0.197447047,0.115445278,0.000000000],[0.123800031,0.112312816,0.001279681,0.111216801,0.000000000],[0.001279681,0.001279681,0.006199787,0.001279681,0.000000000],[0.006093680,0.001279681,0.106443797,0.001279681,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [10] // Basepair A99 - G141 tHS BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.099771965,0.100659637,0.139443264,0.161770273,0.000000000],[0.116296998,0.105505979,0.001202125,0.104476389,0.000000000],[0.001202125,0.001202125,0.059145721,0.001202125,0.000000000],[0.005724366,0.001202125,0.099992658,0.001202125,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [9] // Basepair A100 - G140 tHS FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.416666667,0.083333333,0.416666667,0.083333333,0.000000000] | Position [1] | Left Index [5] | Right Index [8] // Fixed node on left InitialNode | Left Length Distribution [0.995990040,0.003999960,0.000010000] | 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 [6] | Right Index [8] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.083333333,0.250000000,0.250000000,0.416666667,0.000000000] | Position [2] | Left Index [6] | 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 [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [6] | Right Index [7] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009878188,0.017748468,0.011469828,0.188961043,0.000000000],[0.019498419,0.008363241,0.238084568,0.013495422,0.000000000],[0.011542717,0.215631747,0.002108490,0.024257963,0.000000000],[0.189509081,0.013172006,0.026116132,0.010162687,0.000000000],[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 [6] | Right Index [7] // Basepair C102 - G138 cWW HairpinNode | Num Bases [1] | Left Index [7] | Right Index [7] | 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_93568.2:
> IL_93568.2 IL_4GMA_004 C 97 G 143 CGAAGC*GUGGAG > IL_93568.2 IL_4IOA_017 U 716 G 741 UGAAAC*GCGGAG > IL_93568.2 IL_4A1B_033 C 794 G 786 CGAAGG*CUUGAG > IL_93568.2 IL_1FJG_026 U 605 G 633 UGAAAGAC*GGGGAG