| 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 | 9 4 I | 10 4 4 | 11 3 I | 12 3 5 | 13 2 I | 14 2 6 | 15 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_86357.3_Instance_1 IL_86357.3_IL_3U5H_083_A1895_U2340 | A | A | G | C | C | U | ||||||||||||||
| IL_86357.3_Sequence_1 IL_86357.3_IL_3U5H_083_A_1895_U_2340 | A | A | G | * | C | C | U | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_86357.3_Instance_2 IL_86357.3_IL_1S72_060_U1741_A2038 | U | A | G | C | C | A | ||||||||||||||
| IL_86357.3_Sequence_2 IL_86357.3_IL_1S72_060_U_1741_A_2038 | U | A | G | * | C | C | A | true | 99 | 0 | 0 | 0.05 | ||||||||
| IL_86357.3_Instance_3 IL_86357.3_IL_4A1B_079_A1919_U2335 | A | A | G | C | C | U | ||||||||||||||
| IL_86357.3_Sequence_3 IL_86357.3_IL_4A1B_079_A_1919_U_2335 | A | A | G | * | C | C | U | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_86357.3_Instance_4 IL_86357.3_IL_2QBG_063_G1663_C1997 | G | A | A | U | C | C | ||||||||||||||
| IL_86357.3_Sequence_4 IL_86357.3_IL_2QBG_063_G_1663_C_1997 | G | A | A | * | U | C | C | true | 99 | 0 | 0 | 0.13 | ||||||||
| IL_86357.3_Instance_5 IL_86357.3_IL_3V2F_062_C1663_G1997 | C | A | A | U | C | G | ||||||||||||||
| IL_86357.3_Sequence_5 IL_86357.3_IL_3V2F_062_C_1663_G_1997 | C | A | A | * | U | C | G | true | 99 | 0 | 0 | 0.13 |
1 6 cWW 2 3 s35 2 5 tWW 3 4 cWW 4 5 s33 5 6 perpJAR3D SCFG/MRF model for IL_86357.3:
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 [6] // Initial node A1895 - U2340 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009295351,0.020785081,0.010277952,0.217760832,0.000000000],[0.019941766,0.008764932,0.204139468,0.011291914,0.000000000],[0.010274719,0.204355555,0.002088457,0.025369463,0.000000000],[0.206675622,0.011305972,0.024556092,0.013116825,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [6] // Basepair A1895 - U2340 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.032853642,0.397518223,0.003498992,0.039114777,0.000000000],[0.016637424,0.016275544,0.010646670,0.016012148,0.000000000],[0.003498992,0.013571742,0.038322192,0.323133304,0.000000000],[0.016476222,0.015549427,0.015692946,0.041197755,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [5] // Basepair A1896 - C2339 tWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009536910,0.021600597,0.010692095,0.215284636,0.000000000],[0.017829900,0.008514812,0.196152613,0.011724048,0.000000000],[0.010598992,0.228986356,0.002087543,0.026866464,0.000000000],[0.192454657,0.012136575,0.023027210,0.012506591,0.000000000],[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 [3] | Right Index [4] // Basepair G1897 - C2338 cWW HairpinNode | Num Bases [1] | Left Index [4] | Right Index [4] | 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_86357.3:
> IL_86357.3 IL_3U5H_083 A 1895 U 2340 AAG*CCU > IL_86357.3 IL_1S72_060 U 1741 A 2038 UAG*CCA > IL_86357.3 IL_4A1B_079 A 1919 U 2335 AAG*CCU > IL_86357.3 IL_2QBG_063 G 1663 C 1997 GAA*UCC > IL_86357.3 IL_3V2F_062 C 1663 G 1997 CAA*UCG