| 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_09882.1_Instance_1 IL_09882.1_IL_1KD5_001_U3_G8 | U | C | A | C | A | G | U | C | A | C | A | G | ||||||||||||||||||||
| IL_09882.1_Sequence_1 IL_09882.1_IL_1KD5_001_U3_G8 | U | C | A | C | A | G | * | U | C | A | C | A | G | true | 100 | 0 | 0 | 0.02 | ||||||||||||||
| IL_09882.1_Instance_2 IL_09882.1_IL_283D_001_C4_G9 | C | G | A | A | A | G | C | G | A | A | A | G | ||||||||||||||||||||
| IL_09882.1_Sequence_2 IL_09882.1_IL_283D_001_C4_G9 | C | G | A | A | A | G | * | C | G | A | A | A | G | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 12 cWW 2 11 tSH 2 12 s55 3 4 s35 3 10 tHW 3 11 s55 4 5 s35 4 9 tWH 4 10 s55 5 6 s35 5 8 tHS 5 9 s55 6 7 cWW 6 8 s55 7 8 s35 9 10 s35 10 11 s35 11 12 s35 11 2 6BR 5 8 6BRJAR3D SCFG/MRF model for IL_09882.1:
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 [12] // Initial node U3 - G8 from junction BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.011524459,0.015996371,0.013606468,0.115568146,0.000000000],[0.168876048,0.012314695,0.139927955,0.015695487,0.000000000],[0.013856800,0.123730358,0.002839025,0.019638331,0.000000000],[0.119574633,0.014515400,0.199997678,0.012338148,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [12] // Basepair U3 - G8 cWW BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.129506361,0.126673089,0.001432729,0.008039397,0.000000000],[0.142111874,0.112243512,0.001432729,0.001432729,0.000000000],[0.140738059,0.001432729,0.008529896,0.064911900,0.000000000],[0.131659396,0.126990143,0.001432729,0.001432729,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [11] // Basepair C4 - A7 tSH BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.218999763,0.151281779,0.003250143,0.021991785,0.000000000],[0.003250143,0.013270599,0.003250143,0.003250143,0.000000000],[0.241326746,0.127991387,0.033272604,0.017815985,0.000000000],[0.003250143,0.003250143,0.030767019,0.123781475,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [10] // Basepair A5 - C6 tHW BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.218999763,0.003250143,0.241326746,0.003250143,0.000000000],[0.151281779,0.013270599,0.127991387,0.003250143,0.000000000],[0.003250143,0.003250143,0.033272604,0.030767019,0.000000000],[0.021991785,0.003250143,0.017815985,0.123781475,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [9] // Basepair C6 - A5 tWH BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.129506361,0.142111874,0.140738059,0.131659396,0.000000000],[0.126673089,0.112243512,0.001432729,0.126990143,0.000000000],[0.001432729,0.001432729,0.008529896,0.001432729,0.000000000],[0.008039397,0.001432729,0.064911900,0.001432729,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [8] // Basepair A7 - C4 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.013347761,0.165529096,0.013687752,0.119073501,0.000000000],[0.015838591,0.009978088,0.123297350,0.014347705,0.000000000],[0.013441150,0.139428673,0.002801578,0.196271923,0.000000000],[0.115139890,0.015509778,0.019472481,0.022834682,0.000000000],[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 G8 - U3 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_09882.1:
> IL_09882.1 IL_1KD5_001 U 3 G 8 UCACAG*UCACAG > IL_09882.1 IL_283D_001 C 4 G 9 CGAAAG*CGAAAG