| 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 | 7 3 I | 8 3 3 | 9 2 I | 10 2 4 | 11 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_28947.2_Instance_1 IL_28947.2_IL_2QBG_060_C1489_G1500 | C | A | G | C | G | |||||||||||
| IL_28947.2_Sequence_1 IL_28947.2_IL_2QBG_060_C_1489_G_1500 | C | A | G | * | C | G | true | 100 | 0 | 0 | 0.00 | |||||
| IL_28947.2_Instance_2 IL_28947.2_IL_2AW7_005_C63_G104 | C | GA | A | U | G | |||||||||||
| IL_28947.2_Sequence_2 IL_28947.2_IL_2AW7_005_C63_G104 | C | GA | A | * | U | G | true | 78 | 0 | 0 | 2.05 | |||||
| IL_28947.2_Instance_3 IL_28947.2_IL_1S72_022_C699_G727 | C | AU | G | C | G | |||||||||||
| IL_28947.2_Sequence_3 IL_28947.2_IL_1S72_022_C699_G727 | C | AU | G | * | C | G | true | 82 | 0 | 0 | 1.69 | |||||
| IL_28947.2_Instance_4 IL_28947.2_IL_1FJG_005_C63_G104 | C | GU | G | C | G | |||||||||||
| IL_28947.2_Sequence_4 IL_28947.2_IL_1FJG_005_C63_G104 | C | GU | G | * | C | G | true | 75 | 0 | 0 | 2.42 | |||||
| IL_28947.2_Instance_5 IL_28947.2_IL_2NZ4_007_C5_G53 | C | A | G | C | G | |||||||||||
| IL_28947.2_Sequence_5 IL_28947.2_IL_2NZ4_007_C5_G53 | C | A | G | * | C | G | true | 100 | 0 | 0 | 0.00 | |||||
| IL_28947.2_Instance_6 IL_28947.2_IL_1S72_099_C64_G16 | C | A | G | C | G | |||||||||||
| IL_28947.2_Sequence_6 IL_28947.2_IL_1S72_099_C64_G16 | C | A | G | * | C | G | true | 100 | 0 | 0 | 0.00 | |||||
| IL_28947.2_Instance_7 IL_28947.2_IL_1S72_042_U1136_G1226 | U | G | G | C | G | |||||||||||
| IL_28947.2_Sequence_7 IL_28947.2_IL_1S72_042_U_1136_G_1226 | U | G | G | * | C | G | true | 88 | 0 | 0 | 1.14 | |||||
| IL_28947.2_Instance_8 IL_28947.2_IL_3U5H_137_U3381_G3325 | U | U | G | C | G | |||||||||||
| IL_28947.2_Sequence_8 IL_28947.2_IL_3U5H_137_U_3381_G_3325 | U | U | G | * | C | G | true | 88 | 0 | 0 | 1.14 | |||||
| IL_28947.2_Instance_9 IL_28947.2_IL_3V2F_059_U1489_G1500 | U | A | G | C | G | |||||||||||
| IL_28947.2_Sequence_9 IL_28947.2_IL_3V2F_059_U_1489_G_1500 | U | A | G | * | C | G | true | 96 | 0 | 0 | 0.41 | |||||
| IL_28947.2_Instance_10 IL_28947.2_IL_4A1B_063_U1424_A1438 | U | U | G | U | A | |||||||||||
| IL_28947.2_Sequence_10 IL_28947.2_IL_4A1B_063_U_1424_A_1438 | U | U | G | * | U | A | true | 81 | 0 | 0 | 1.80 | |||||
| IL_28947.2_Instance_11 IL_28947.2_IL_2QBG_086_U2202_G2221 | U | U | G | U | G | |||||||||||
| IL_28947.2_Sequence_11 IL_28947.2_IL_2QBG_086_U_2202_G_2221 | U | U | G | * | U | G | true | 81 | 0 | 0 | 1.80 | |||||
| IL_28947.2_Instance_12 IL_28947.2_IL_3V2F_069_U1898_G1842 | U | GA | A | U | G | |||||||||||
| IL_28947.2_Sequence_12 IL_28947.2_IL_3V2F_069_U_1898_G_1842 | U | GA | A | * | U | G | true | 74 | 0 | 0 | 2.46 | |||||
| IL_28947.2_Instance_13 IL_28947.2_IL_4IOA_067_U1881_G1834 | U | GA | A | U | G | |||||||||||
| IL_28947.2_Sequence_13 IL_28947.2_IL_4IOA_067_U_1881_G_1834 | U | GA | A | * | U | G | true | 74 | 0 | 0 | 2.46 | |||||
| IL_28947.2_Instance_14 IL_28947.2_IL_1XOK_001_A864_U847 | A | AU | G | C | U | |||||||||||
| IL_28947.2_Sequence_14 IL_28947.2_IL_1XOK_001_A864_U847 | A | AU | G | * | C | U | true | 77 | 0 | 0 | 2.17 | |||||
| IL_28947.2_Instance_15 IL_28947.2_IL_1XOK_002_G877_C869 | G | AU | G | C | C | |||||||||||
| IL_28947.2_Sequence_15 IL_28947.2_IL_1XOK_002_G877_C869 | G | AU | G | * | C | C | true | 79 | 0 | 0 | 2.02 | |||||
| IL_28947.2_Instance_16 IL_28947.2_IL_3U5H_019_C577_G513 | C | A | G | U | G | |||||||||||
| IL_28947.2_Sequence_16 IL_28947.2_IL_3U5H_019_C577_G513 | C | A | G | * | U | G | true | 93 | 0 | 0 | 0.67 | |||||
| IL_28947.2_Instance_17 IL_28947.2_IL_387D_001_G15_C2 | G | GA | A | U | C | |||||||||||
| IL_28947.2_Sequence_17 IL_28947.2_IL_387D_001_G15_C2 | G | GA | A | * | U | C | true | 75 | 0 | 0 | 2.37 | |||||
| IL_28947.2_Instance_18 IL_28947.2_IL_1U9S_008_G217_C196 | G | G | C | G | C | |||||||||||
| IL_28947.2_Sequence_18 IL_28947.2_IL_1U9S_008_G217_C196 | G | G | C | * | G | C | true | 84 | 0 | 0 | 1.54 | |||||
| IL_28947.2_Instance_19 IL_28947.2_IL_4FAW_014_U375_A366 | U | AC | G | U | A | |||||||||||
| IL_28947.2_Sequence_19 IL_28947.2_IL_4FAW_014_U375_A366 | U | AC | G | * | U | A | true | 63 | 0 | 0 | 3.53 | |||||
| IL_28947.2_Instance_20 IL_28947.2_IL_3U5H_063_C1385_G1421 | C | A | G | C | G | |||||||||||
| IL_28947.2_Sequence_20 IL_28947.2_IL_3U5H_063_C_1385_G_1421 | C | A | G | * | C | G | true | 100 | 0 | 0 | 0.00 | |||||
| IL_28947.2_Instance_21 IL_28947.2_IL_1KXK_003_C42_G29 | C | AC | G | U | G | |||||||||||
| IL_28947.2_Sequence_21 IL_28947.2_IL_1KXK_003_C42_G29 | C | AC | G | * | U | G | true | 67 | 0 | 0 | 3.12 | |||||
| IL_28947.2_Instance_22 IL_28947.2_IL_4C7O_003_C31_G13 | C | C | G | C | G | |||||||||||
| IL_28947.2_Sequence_22 IL_28947.2_IL_4C7O_003_C31_G13 | C | C | G | * | C | G | true | 84 | 0 | 0 | 1.49 |
1 2 s35 1 4 cWW 2 3 cWW 2 4 s55 3 4 s35JAR3D SCFG/MRF model for IL_28947.2:
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 [4] // Initial node C1489 - G1500 from junction BasepairNode | Deletion Probability [0.0000000111126777] | Pair Probability [[0.008987135,0.014737334,0.010442130,0.136123677,0.000000000],[0.084757914,0.008954844,0.219787357,0.011965985,0.000000000],[0.010562580,0.159202085,0.002111911,0.018568547,0.000000000],[0.146497848,0.011399971,0.145832717,0.010067968,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.001233920,0.543953276,0.453671428,0.001089963,0.000051413] | Left Letter Distribution [0.455882353,0.102941176,0.220588235,0.220588235,0.000000000] | 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 [4] // Basepair C1489 - G1500 cWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009572099,0.072799459,0.010276225,0.169471956,0.000000000],[0.014437509,0.007768090,0.147879255,0.011072350,0.000000000],[0.010146088,0.242115188,0.002044737,0.124309147,0.000000000],[0.133710503,0.011675351,0.018360351,0.014361691,0.000000000],[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 [2] | Right Index [3] // Basepair G1491 - C1499 cWW HairpinNode | Num Bases [1] | Left Index [3] | Right Index [3] | 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_28947.2:
> IL_28947.2 IL_2QBG_060 C 1489 G 1500 CAG*CG > IL_28947.2 IL_2AW7_005 C 63 G 104 CGAA*UG > IL_28947.2 IL_1S72_022 C 699 G 727 CAUG*CG > IL_28947.2 IL_1FJG_005 C 63 G 104 CGUG*CG > IL_28947.2 IL_2NZ4_007 C 5 G 53 CAG*CG > IL_28947.2 IL_1S72_099 C 64 G 16 CAG*CG > IL_28947.2 IL_1S72_042 U 1136 G 1226 UGG*CG > IL_28947.2 IL_3U5H_137 U 3381 G 3325 UUG*CG > IL_28947.2 IL_3V2F_059 U 1489 G 1500 UAG*CG > IL_28947.2 IL_4A1B_063 U 1424 A 1438 UUG*UA > IL_28947.2 IL_2QBG_086 U 2202 G 2221 UUG*UG > IL_28947.2 IL_3V2F_069 U 1898 G 1842 UGAA*UG > IL_28947.2 IL_4IOA_067 U 1881 G 1834 UGAA*UG > IL_28947.2 IL_1XOK_001 A 864 U 847 AAUG*CU > IL_28947.2 IL_1XOK_002 G 877 C 869 GAUG*CC > IL_28947.2 IL_3U5H_019 C 577 G 513 CAG*UG > IL_28947.2 IL_387D_001 G 15 C 2 GGAA*UC > IL_28947.2 IL_1U9S_008 G 217 C 196 GGC*GC > IL_28947.2 IL_4FAW_014 U 375 A 366 UACG*UA > IL_28947.2 IL_3U5H_063 C 1385 G 1421 CAG*CG > IL_28947.2 IL_1KXK_003 C 42 G 29 CACG*UG > IL_28947.2 IL_4C7O_003 C 31 G 13 CCG*CG