| 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 4 I | 6 11 3 | 7 11 I | 8 12 4 | 9 12 I | 10 13 5 | 11 13 I | 12 14 6 | 13 14 I | 14 15 | 15 14 I | 16 14 7 | 17 13 I | 18 13 8 | 19 12 I | 20 12 9 | 21 11 I | 22 11 10 | 23 10 I | 24 9 11 | 25 8 I | 26 7 12 | 27 6 I | 28 5 13 | 29 2 I | 30 2 14 | 31 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_21495.1_Instance_1 IL_21495.1_IL_2NZ4_009_U96_G126 | U | U | A | A | A | U | C | G | G | A | C | A | A | A | G | |||||||||||||||||||||
| IL_21495.1_Sequence_1 IL_21495.1_IL_2NZ4_009_U96_G126 | U | U | A | A | A | U | C | * | G | G | A | C | A | A | A | G | true | 100 | 0 | 0 | 0.00 | |||||||||||||||
| IL_21495.1_Instance_2 IL_21495.1_IL_2NZ4_013_U96_G126 | U | U | A | A | A | U | C | G | G | A | C | A | A | A | G | |||||||||||||||||||||
| IL_21495.1_Sequence_2 IL_21495.1_IL_2NZ4_013_U96_G126 | U | U | A | A | A | U | C | * | G | G | A | C | A | A | A | G | true | 100 | 0 | 0 | 0.00 |
1 14 cWW 2 3 s35 2 11 s55 3 4 s35 3 10 tHW 4 5 s35 4 9 tHW 5 6 s35 5 8 bif 6 7 cWW 7 8 s35 8 9 s35 9 10 s35 11 12 s35 12 13 s35 13 14 s35 6 5 7BPhJAR3D SCFG/MRF model for IL_21495.1:
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 [14] // Initial node U96 - G126 from junction BasepairNode | Deletion Probability [0.0000001182498160] | Pair Probability [[0.013018113,0.014787255,0.015554767,0.038739706,0.000000000],[0.316978443,0.016061948,0.045253948,0.017465403,0.000000000],[0.015906809,0.039036391,0.003528109,0.015488863,0.000000000],[0.045635225,0.015764677,0.372418733,0.014361609,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.023781213,0.951248514,0.023781213,0.001189061] | Left Letter Distribution [0.125000000,0.125000000,0.125000000,0.625000000,0.000000000] | 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 [14] // Basepair U96 - G126 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.625000000,0.125000000,0.125000000,0.125000000,0.000000000] | Position [1] | Left Index [2] | Right Index [13] // Fixed node on left 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [13] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.625000000,0.125000000,0.125000000,0.125000000,0.000000000] | Position [2] | Left Index [3] | Right Index [13] // 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 [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [12] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.625000000,0.125000000,0.125000000,0.125000000,0.000000000] | Position [2] | Left Index [3] | Right Index [12] // 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 [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [11] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.625000000,0.125000000,0.125000000,0.125000000,0.000000000] | Position [2] | Left Index [3] | Right Index [11] // 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 [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [10] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.019854918,0.271099652,0.002514918,0.024980606,0.000000000],[0.002514918,0.011900540,0.002514918,0.002514918,0.000000000],[0.140902150,0.233169698,0.017178551,0.012038356,0.000000000],[0.002514918,0.002514918,0.025973821,0.227812200,0.000000000],[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 A99 - C122 tHW BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.418144609,0.031463906,0.003985368,0.019002964,0.000000000],[0.003985368,0.014640658,0.003985368,0.003985368,0.000000000],[0.341751342,0.022813077,0.049366656,0.023593614,0.000000000],[0.003985368,0.003985368,0.035560217,0.019750751,0.000000000],[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 A100 - A121 tHW BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.022747118,0.018414631,0.003823976,0.003823976,0.000000000],[0.323276683,0.015585583,0.003823976,0.003823976,0.000000000],[0.003823976,0.003823976,0.179730804,0.003823976,0.000000000],[0.003823976,0.003823976,0.402005423,0.003823976,0.000000000],[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 U101 - G120 bif BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.003887072,0.006667356,0.004517696,0.074556253,0.000000000],[0.056350480,0.023239991,0.602799539,0.037774416,0.000000000],[0.004575289,0.080767216,0.000833131,0.009218090,0.000000000],[0.074989282,0.005140801,0.010686310,0.003997079,0.000000000],[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 - G119 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_21495.1:
> IL_21495.1 IL_2NZ4_009 U 96 G 126 UUAAAUC*GGACAAAG > IL_21495.1 IL_2NZ4_013 U 96 G 126 UUAAAUC*GGACAAAG