| 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 6 I | 12 7 6 | 13 7 I | 14 8 | 15 7 I | 16 7 7 | 17 6 I | 18 6 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_76308.6_Instance_1 IL_76308.6,IL_1LNT_002,U4_G21 | U | C | A | G | G | U | A | A | G | C | A | G | ||||||||||||||||||||
| IL_76308.6_Sequence_1 IL_76308.61LNT_U4_G21 | U | C | A | G | G | U | * | A | A | G | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||||
| IL_76308.6_Instance_2 IL_76308.6,IL_1MFQ_007,C190_G209 | C | C | A | G | G | U | G | A | G | C | A | G | ||||||||||||||||||||
| IL_76308.6_Sequence_2 IL_76308.61MFQ_C190_G209 | C | C | A | G | G | U | * | G | A | G | C | A | G | true | 96 | 0 | 0 | 0.66 | ||||||||||||||
| IL_76308.6_Instance_3 IL_76308.6,IL_3LQX_002,U146_G165 | U | C | A | G | G | U | A | A | G | C | A | G | ||||||||||||||||||||
| IL_76308.6_Sequence_3 IL_76308.63LQX_U146_G165 | U | C | A | G | G | U | * | A | A | G | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||||
| IL_76308.6_Instance_4 IL_76308.6,IL_6DVK_004,C52_G43 | C | U | A | C | C | C | G | A | A | C | A | G | ||||||||||||||||||||
| IL_76308.6_Sequence_4 IL_76308.66DVK_C52_G43 | C | U | A | C | C | C | * | G | A | A | C | A | G | true | 74 | 0 | 0 | 4.60 | ||||||||||||||
| IL_76308.6_Instance_5 IL_76308.6,IL_8ZA4_001,G5_C12 | G | G | C | C | A | G | C | U | C | A | A | C | ||||||||||||||||||||
| IL_76308.6_Sequence_5 IL_76308.68ZA4_G5_C12 | G | G | C | C | A | G | * | C | U | C | A | A | C | true | 58 | 0 | 0 | 7.49 |
1 2 s35 1 12 cWW 2 9 s33 2 11 tSH 3 4 s35 3 10 tHW 3 11 s55 4 5 s35 4 9 tHS 4 10 s55 5 6 s35 5 8 cWW 5 9 s55 6 7 cWW 7 8 s35 8 9 s35 9 10 s35 10 11 s35 11 12 s35 9 3 6BPh 2 10 6BPhJAR3D SCFG/MRF model for IL_76308.6:
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 [12] // Initial node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009966691,0.016017398,0.011961436,0.130841452,0.000000000],[0.128758310,0.016489380,0.156152284,0.014169946,0.000000000],[0.012106818,0.143449627,0.002502611,0.020019512,0.000000000],[0.150350483,0.013545569,0.162475729,0.011192755,0.000000000],[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 [12] // Basepair U4 - G21 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.066346764,0.034815187,0.000717135,0.003526002,0.000000000],[0.309426988,0.205155555,0.002849893,0.002849893,0.000000000],[0.134850329,0.001328628,0.007559591,0.086616417,0.000000000],[0.077108253,0.065415094,0.000717135,0.000717135,0.000000000],[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 [11] // Basepair C5 - A20 tSH BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.029111875,0.378210903,0.003401157,0.034203112,0.000000000],[0.036153770,0.024779621,0.011874409,0.003401157,0.000000000],[0.097296540,0.003401157,0.030585081,0.015291671,0.000000000],[0.003401157,0.003401157,0.031351173,0.294136064,0.000000000],[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 [10] // Basepair A6 - C19 tHW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.022328159,0.033013448,0.060776904,0.038427415,0.000000000],[0.071653768,0.052532348,0.005685807,0.037933337,0.000000000],[0.001152463,0.001152463,0.559204546,0.001152463,0.000000000],[0.069845296,0.001152463,0.042836657,0.001152463,0.000000000],[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 [4] | Right Index [9] // Basepair G7 - G18 tHS BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.018950070,0.013663575,0.250759906,0.052536113,0.000000000],[0.105032401,0.016930834,0.021914310,0.035835594,0.000000000],[0.289516627,0.020470187,0.003425600,0.014717903,0.000000000],[0.021680039,0.033784356,0.089204342,0.011578143,0.000000000],[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 [5] | Right Index [8] // Basepair G8 - A17 cWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009439388,0.016795352,0.010908234,0.161262394,0.000000000],[0.074605705,0.012992213,0.174340184,0.012667152,0.000000000],[0.010976477,0.172344453,0.002248601,0.021565418,0.000000000],[0.192963155,0.012143402,0.104225661,0.010522212,0.000000000],[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 U9 - A16 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_76308.6:
> IL_76308.6 1LNT U 4 G 21 UCAGGU*AAGCAG > IL_76308.6 1MFQ C 190 G 209 CCAGGU*GAGCAG > IL_76308.6 3LQX U 146 G 165 UCAGGU*AAGCAG > IL_76308.6 6DVK C 52 G 43 CUACCC*GAACAG > IL_76308.6 8ZA4 G 5 C 12 GGCCAG*CUCAAC