| 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 5 3 | 7 6 I | 8 7 4 | 9 8 I | 10 9 5 | 11 10 I | 12 11 6 | 13 11 I | 14 12 | 15 11 I | 16 11 7 | 17 2 I | 18 2 8 | 19 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_38186.6_Instance_1 IL_38186.6,IL_4LFB_022,C569_G881 | C | G | U | A | A | A | G | C | G | |||||||||||||||
| IL_38186.6_Sequence_1 IL_38186.64LFB_C569_G881 | C | G | U | A | A | A | G | * | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_38186.6_Instance_2 IL_38186.6,IL_5J7L_026,C569_G881 | C | G | U | A | A | A | G | C | G | |||||||||||||||
| IL_38186.6_Sequence_2 IL_38186.65J7L_C569_G881 | C | G | U | A | A | A | G | * | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_38186.6_Instance_3 IL_38186.6,IL_8P9A_405,G616_C1105 | G | U | U | A | A | A | A | U | C | |||||||||||||||
| IL_38186.6_Sequence_3 IL_38186.68P9A_G616_C_1105 | G | U | U | A | A | A | A | * | U | C | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_38186.6_Instance_4 IL_38186.6,IL_8CRE_424,G614_C1090 | G | U | U | A | A | A | A | U | C | |||||||||||||||
| IL_38186.6_Sequence_4 IL_38186.68CRE_G614_C_1090 | G | U | U | A | A | A | A | * | U | C | true | 100 | 0 | 0 | 0.00 |
1 6 s35 1 8 cWW 2 3 s35 4 5 s35 6 7 cWW 6 8 s55 7 8 s35JAR3D SCFG/MRF model for IL_38186.6:
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 [8] // Initial node BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.009449844,0.018327229,0.010811779,0.196207841,0.000000000],[0.018327582,0.009443627,0.221270256,0.013276988,0.000000000],[0.010811792,0.221269599,0.002049334,0.024632695,0.000000000],[0.196208128,0.013276932,0.024633063,0.010003312,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [8] // Basepair C569 - G881 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.083333333,0.083333333,0.416666667,0.416666667,0.000000000] | Position [1] | Left Index [2] | Right Index [7] // Fixed node on left for 4LFB|1|A|G|570 InitialNode | Left Length Distribution [0.995990040,0.003999960,0.000010000] | 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 [7] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.083333333,0.083333333,0.083333333,0.750000000,0.000000000] | Position [1] | Left Index [3] | Right Index [7] // Fixed node on left for 4LFB|1|A|U|571 InitialNode | Left Length Distribution [0.012187690,0.975015235,0.012187690,0.000609385] | Left Letter Distribution [0.750000000,0.083333333,0.083333333,0.083333333,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [7] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.750000000,0.083333333,0.083333333,0.083333333,0.000000000] | Position [1] | Left Index [4] | Right Index [7] // Fixed node on left for 4LFB|1|A|A|572 InitialNode | Left Length Distribution [0.995990040,0.003999960,0.000010000] | 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 [5] | Right Index [7] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.750000000,0.083333333,0.083333333,0.083333333,0.000000000] | Position [1] | Left Index [5] | Right Index [7] // Fixed node on left for 4LFB|1|A|A|573 InitialNode | Left Length Distribution [0.995990040,0.003999960,0.000010000] | 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 [6] | Right Index [7] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009325457,0.020734609,0.010297314,0.218050308,0.000000000],[0.016974989,0.009378665,0.194777146,0.011594085,0.000000000],[0.010227486,0.218136243,0.002025500,0.039220448,0.000000000],[0.193588082,0.012169223,0.022789886,0.010710558,0.000000000],[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 G575 - C880 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_38186.6:
> IL_38186.6 4LFB C 569 G 881 CGUAAAG*CG > IL_38186.6 5J7L C 569 G 881 CGUAAAG*CG > IL_38186.6 8P9A G 616 C 1105 GUUAAAA*UC > IL_38186.6 8CRE G 614 C 1090 GUUAAAA*UC