| 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 5 I | 8 6 4 | 9 6 I | 10 7 5 | 11 7 I | 12 8 | 13 7 I | 14 7 6 | 15 6 I | 16 6 7 | 17 5 I | 18 4 8 | 19 4 I | 20 4 9 | 21 3 I | 22 3 10 | 23 2 I | 24 2 11 | 25 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_87548.1_Instance_1 IL_87548.1_IL_1FJG_018_G446_C488 | G | G | A | C | G | C | G | G | U | A | C | |||||||||||||||||||
| IL_87548.1_Sequence_1 IL_87548.1_IL_1FJG_018_G446_C488 | G | G | A | C | G | * | C | G | G | U | A | C | true | 96 | 0 | 0 | 0.85 | |||||||||||||
| IL_87548.1_Instance_2 IL_87548.1_IL_2QBG_067_U1742_G1718 | U | G | A | A | A | U | A | U | G | U | A | G | ||||||||||||||||||
| IL_87548.1_Sequence_2 IL_87548.1_IL_2QBG_067_U_1742_G_1718 | U | G | A | A | A | * | U | A | U | G | U | A | G | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 11 cWW 2 8 s33 2 9 s33 2 10 tSH 2 11 s55 3 4 s35 3 7 s35 3 9 tHW 3 10 s55 4 5 s35 4 7 tWW 5 6 cWW 6 7 s33 7 9 s55 8 9 cSH 9 10 s35 10 11 s35 8 3 6BPh 2 9 6BPh 10 2 6BRJAR3D SCFG/MRF model for IL_87548.1:
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 [11] // Initial node G446 - C488 from junction BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.011606602,0.017778352,0.013679584,0.116107298,0.000000000],[0.167090224,0.012234263,0.126818052,0.015364421,0.000000000],[0.013781309,0.136797428,0.002838808,0.021529953,0.000000000],[0.118996443,0.014843715,0.198100860,0.012432686,0.000000000],[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 [11] // Basepair G446 - C488 cWW BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.043716223,0.050956855,0.000526725,0.002508196,0.000000000],[0.044105167,0.046228647,0.000526725,0.000526725,0.000000000],[0.388315159,0.003687073,0.017863095,0.306690455,0.000000000],[0.047517987,0.045777520,0.000526725,0.000526725,0.000000000],[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 [10] // Basepair G447 - A487 tSH ClusterNode | Deletion Probability [0.0000001250000000] | Num Left Bases [1] | Num Right Bases [2] | Left Index [3] | Right Index [9] | Norm Constant [0.464443704046994] // Cluster node A448:A448 and G485:U486 Interaction | Interacting Bases [1,3] | Pair Probability [[0.025971800,0.054103855,0.005446896,0.564297448,0.000000000],[0.005446896,0.045222361,0.005446896,0.005446896,0.000000000],[0.026718220,0.036155648,0.063745789,0.067195854,0.000000000],[0.005446896,0.005446896,0.025408179,0.058499471,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction A448 - U486 tHW Interaction | Interacting Bases [2,3] | Pair Probability [[0.055133713,0.056797613,0.003097555,0.002562843,0.000000000],[0.053331132,0.061948753,0.000658823,0.062432193,0.000000000],[0.037706404,0.020619858,0.042149551,0.480783711,0.000000000],[0.004744073,0.055246645,0.000658823,0.062128311,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G485 - U486 cSH InitialNode | 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 [0.493381468,0.493381468,0.012635379,0.000601685] | Right Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | Left Index [4] | Right Index [7] // New Initial node after Cluster BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.355127970,0.032424063,0.003453240,0.016359048,0.000000000],[0.032464995,0.013376583,0.109435410,0.013192811,0.000000000],[0.003453240,0.010499215,0.326216817,0.018896577,0.000000000],[0.016362695,0.013193067,0.018914099,0.016630170,0.000000000],[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 [7] // Basepair C449 - G484 tWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009722986,0.022602524,0.010807110,0.213946067,0.000000000],[0.018642384,0.008854915,0.200306720,0.011770232,0.000000000],[0.010724456,0.213953122,0.002148800,0.027678057,0.000000000],[0.199554445,0.012136228,0.023684855,0.013467100,0.000000000],[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 [5] | Right Index [6] // Basepair G450 - C483 cWW HairpinNode | Num Bases [1] | Left Index [6] | Right Index [6] | 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_87548.1:
> IL_87548.1 IL_1FJG_018 G 446 C 488 GGACG*CGGUAC > IL_87548.1 IL_2QBG_067 U 1742 G 1718 UGAAA*UAUGUAG