| 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 4 | 9 5 I | 10 6 | 11 5 I | 12 5 5 | 13 4 I | 14 4 6 | 15 3 I | 16 3 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_58112.2_Instance_1 IL_58112.2,IL_4PMI_008,G46_C74 | G | G | G | C | G | G | U | A | C | |||||||||||||||
| IL_58112.2_Sequence_1 IL_58112.24PMI_G46_C74 | G | G | G | C | * | G | G | U | A | C | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_58112.2_Instance_2 IL_58112.2,IL_5J7L_296,G1432_C1561 | G | A | A | G | C | C | U | G | C | |||||||||||||||
| IL_58112.2_Sequence_2 IL_58112.25J7L_G_1432_C_1561 | G | A | A | G | * | C | C | U | G | C | true | 98 | 0 | 0 | 0.15 | |||||||||
| IL_58112.2_Instance_3 IL_58112.2,IL_6CF2_001,G5_C31 | G | G | A | C | G | A | A | A | C | |||||||||||||||
| IL_58112.2_Sequence_3 IL_58112.26CF2_G5_C31 | G | G | A | C | * | G | A | A | A | C | true | 96 | 0 | 0 | 0.34 | |||||||||
| IL_58112.2_Instance_4 IL_58112.2,IL_6MDZ_001,U9_A13 | U | U | U | C | C | G | A | C | A | A | ||||||||||||||
| IL_58112.2_Sequence_4 IL_58112.26MDZ_U9_A13 | U | U | U | C | C | * | G | A | C | A | A | true | 53 | 0 | 0 | 4.60 |
1 2 s35 1 8 cWW 2 3 s35 2 7 cWW 3 4 s35 3 6 tWW 4 5 cWW 5 6 s33 6 7 s55 7 8 s35JAR3D SCFG/MRF model for IL_58112.2:
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 [[0.009375029,0.019213306,0.010583069,0.196223339,0.000000000],[0.017981530,0.009431632,0.197640103,0.012479529,0.000000000],[0.010497262,0.230209052,0.002038061,0.025338924,0.000000000],[0.205930492,0.012685537,0.030324695,0.010048441,0.000000000],[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 G46 - C74 cWW BasepairNode | Deletion Probability [0.0000000308662435] | Pair Probability [[0.020766168,0.014915127,0.270921994,0.061032507,0.000000000],[0.016103478,0.009769780,0.062350217,0.035233605,0.000000000],[0.284052038,0.061679391,0.003159712,0.017215100,0.000000000],[0.072643346,0.034472605,0.024715997,0.010968936,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.741082411,0.255227552,0.003536285,0.000153752] | Left Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | Right Length Distribution [0.012187690,0.975015235,0.012187690,0.000609385] | Right Letter Distribution [0.250000000,0.250000000,0.083333333,0.416666667,0.000000000] | Left Index [2] | Right Index [7] // Basepair G47 - A73 cWW BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.223092516,0.188623178,0.003385883,0.028087646,0.000000000],[0.080527913,0.013832044,0.010438729,0.013892665,0.000000000],[0.003385883,0.011656744,0.188983927,0.163604702,0.000000000],[0.016581701,0.013673680,0.022538464,0.017694326,0.000000000],[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 [3] | Right Index [6] // Basepair G48 - G71 tWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009401513,0.017549866,0.010782207,0.195587161,0.000000000],[0.019107025,0.009484786,0.232344244,0.013401212,0.000000000],[0.010842591,0.210218542,0.002049451,0.023823814,0.000000000],[0.196851077,0.013154215,0.025444740,0.009957556,0.000000000],[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 [4] | Right Index [5] // Basepair C49 - G70 cWW HairpinNode | Num Bases [1] | Left Index [5] | Right Index [5] | 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_58112.2:
> IL_58112.2 4PMI G 46 C 74 GGGC*GGUAC > IL_58112.2 5J7L G 1432 C 1561 GAAG*CCUGC > IL_58112.2 6CF2 G 5 C 31 GGAC*GAAAC > IL_58112.2 6MDZ U 9 A 13 UUUCC*GACAA