| 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 6 | 13 8 I | 14 9 7 | 15 9 I | 16 10 8 | 17 10 I | 18 11 | 19 10 I | 20 10 9 | 21 9 I | 22 9 10 | 23 8 I | 24 8 11 | 25 7 I | 26 7 12 | 27 6 I | 28 6 13 | 29 3 I | 30 3 14 | 31 2 I | 32 2 15 | 33 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_37347.1_Instance_1 IL_37347.1_IL_3U5H_020_G517_C573 | G | G | A | U | A | A | A | U | C | G | G | A | A | U | A | C | ||||||||||||||||||||||
| IL_37347.1_Sequence_1 IL_37347.1_IL_3U5H_020_G517_C573 | G | G | A | U | A | A | A | U | C | * | G | G | A | A | U | A | C | true | 100 | 0 | 0 | 0.00 |
1 2 s33 1 15 cWW 2 14 cHW 4 5 s35 4 13 tHW 4 14 s55 5 6 s35 5 12 tHW 6 7 s35 6 11 tHW 6 12 s55 7 8 s35 7 10 bif 8 9 cWW 9 10 s35 10 11 s35 11 12 s35 12 13 s35 13 14 s35 14 15 s35 2 2 2BPh 8 7 7BPhJAR3D SCFG/MRF model for IL_37347.1:
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 [15] // Initial node G517 - C573 from junction BasepairNode | Deletion Probability [0.0000224390099112] | Pair Probability [[0.010296034,0.020975088,0.011921277,0.195390483,0.000000000],[0.017372323,0.008489812,0.210445347,0.013394761,0.000000000],[0.011771213,0.226979836,0.002170788,0.027844024,0.000000000],[0.194262192,0.014060602,0.024018461,0.010607760,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.989901010,0.009999000,0.000099990] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.989901010,0.009999000,0.000099990] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [15] // Basepair G517 - C573 cWW BasepairNode | Deletion Probability [0.0000001156129129] | Pair Probability [[0.000621011,0.000621011,0.054171297,0.003080014,0.000000000],[0.000621011,0.038440378,0.000621011,0.000621011,0.000000000],[0.444608600,0.359793593,0.044051843,0.017397626,0.000000000],[0.006851264,0.019906195,0.000621011,0.007973124,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.045351474,0.907029478,0.045351474,0.002267574] | Left Letter Distribution [0.500000000,0.166666667,0.166666667,0.166666667,0.000000000] | Right Length Distribution [0.989901010,0.009999000,0.000099990] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [14] // Basepair G518 - A572 cHW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | Position [1] | Left Index [3] | Right Index [13] // Fixed node on left InitialNode | Left Length Distribution [0.989901010,0.009999000,0.000099990] | 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 [4] | Right Index [13] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000224390099112] | Pair Probability [[0.026228946,0.054639536,0.005500826,0.559983562,0.000000000],[0.005500826,0.045670107,0.005500826,0.005500826,0.000000000],[0.026982756,0.036513624,0.064376936,0.067861159,0.000000000],[0.005500826,0.005500826,0.025659745,0.059078674,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.989901010,0.009999000,0.000099990] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.989901010,0.009999000,0.000099990] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [13] // Basepair A521 - U571 tHW BasepairNode | Deletion Probability [0.0000224390099112] | Pair Probability [[0.412383664,0.031775430,0.004024827,0.019191112,0.000000000],[0.004024827,0.014785615,0.004024827,0.004024827,0.000000000],[0.345135019,0.023038949,0.049855435,0.023827214,0.000000000],[0.004024827,0.004024827,0.035912298,0.019946303,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.989901010,0.009999000,0.000099990] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.989901010,0.009999000,0.000099990] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [12] // Basepair A522 - A570 tHW BasepairNode | Deletion Probability [0.0000224390099112] | Pair Probability [[0.412383664,0.031775430,0.004024827,0.019191112,0.000000000],[0.004024827,0.014785615,0.004024827,0.004024827,0.000000000],[0.345135019,0.023038949,0.049855435,0.023827214,0.000000000],[0.004024827,0.004024827,0.035912298,0.019946303,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.989901010,0.009999000,0.000099990] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.989901010,0.009999000,0.000099990] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [6] | Right Index [11] // Basepair A523 - A569 tHW BasepairNode | Deletion Probability [0.0000224390099112] | Pair Probability [[0.022972337,0.018596955,0.003861837,0.003861837,0.000000000],[0.326477442,0.015739896,0.003861837,0.003861837,0.000000000],[0.003861837,0.003861837,0.181510317,0.003861837,0.000000000],[0.003861837,0.003861837,0.396084684,0.003861837,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.989901010,0.009999000,0.000099990] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.989901010,0.009999000,0.000099990] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [7] | Right Index [10] // Basepair U524 - G568 bif BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.003925557,0.006733370,0.004562426,0.075294433,0.000000000],[0.056908405,0.023470090,0.598866861,0.038148420,0.000000000],[0.004620589,0.081566892,0.000841380,0.009309359,0.000000000],[0.075731750,0.005191700,0.010792115,0.004036654,0.000000000],[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 [8] | Right Index [9] // Basepair C525 - G567 cWW HairpinNode | Num Bases [1] | Left Index [9] | Right Index [9] | 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_37347.1:
> IL_37347.1 IL_3U5H_020 G 517 C 573 GGAUAAAUC*GGAAUAC