| 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 5 2 | 5 5 I | 6 6 3 | 7 6 I | 8 7 4 | 9 7 I | 10 8 | 11 7 I | 12 7 5 | 13 6 I | 14 6 6 | 15 5 I | 16 5 7 | 17 4 I | 18 3 8 | 19 2 I | 20 2 9 | 21 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_06180.1_Instance_1 IL_06180.1_IL_4BPP_007_U63_A82 | U | U | C | A | G | C | G | A | A | A | ||||||||||||||||
| IL_06180.1_Sequence_1 IL_06180.1_IL_4BPP_007_U63_A82 | U | U | C | A | G | * | C | G | A | A | A | true | 98 | 0 | 0 | 0.26 | ||||||||||
| IL_06180.1_Instance_2 IL_06180.1_IL_3U5F_007_U64_A86 | U | A | U | A | A | G | U | G | A | A | A | |||||||||||||||
| IL_06180.1_Sequence_2 IL_06180.1_IL_3U5F_007_U64_A86 | U | A | U | A | A | G | * | U | G | A | A | A | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_06180.1_Instance_3 IL_06180.1_IL_4A1B_075_C1726_G1768 | C | U | A | U | G | U | G | U | A | U | G | |||||||||||||||
| IL_06180.1_Sequence_3 IL_06180.1_IL_4A1B_075_C_1726_G_1768 | C | U | A | U | G | * | U | G | U | A | U | G | true | 82 | 0 | 0 | 1.94 |
1 9 cWW 2 3 s35 2 6 s33 2 7 tWH 2 8 s55 3 4 s35 3 6 tHS 3 7 s55 4 5 cWW 4 6 s55 5 6 s35 7 8 s35 8 9 s35 3 6 6BRJAR3D SCFG/MRF model for IL_06180.1:
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 [9] // Initial node U63 - A82 from junction BasepairNode | Deletion Probability [0.0000038011627649] | Pair Probability [[0.009329508,0.018973088,0.010330785,0.200366695,0.000000000],[0.023032249,0.009121783,0.208662517,0.011447685,0.000000000],[0.010390909,0.196046055,0.002131601,0.023465306,0.000000000],[0.225487075,0.011181893,0.027495044,0.012537807,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.657073038,0.336682053,0.005973391,0.000271518] | Right Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | Left Index [1] | Right Index [9] // Basepair U63 - A82 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.700000000,0.100000000,0.100000000,0.100000000,0.000000000] | Position [2] | Left Index [2] | Right Index [8] // 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 [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [7] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000006691671388] | Pair Probability [[0.209893082,0.004447947,0.173758185,0.004447947,0.000000000],[0.040350955,0.028229441,0.027807720,0.004447947,0.000000000],[0.004447947,0.004447947,0.053340127,0.028750700,0.000000000],[0.275527703,0.004447947,0.042813341,0.092841066,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.334863624,0.653524170,0.011072104,0.000540103] | Left Letter Distribution [0.125000000,0.375000000,0.125000000,0.375000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [7] // Basepair U64 - A80 tWH BasepairNode | Deletion Probability [0.0000006691671388] | Pair Probability [[0.105537798,0.106476768,0.202517886,0.114715851,0.000000000],[0.123017814,0.111603181,0.001271596,0.110514090,0.000000000],[0.001271596,0.001271596,0.006160615,0.001271596,0.000000000],[0.006055177,0.001271596,0.105771244,0.001271596,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.334863624,0.653524170,0.011072104,0.000540103] | Left Letter Distribution [0.375000000,0.125000000,0.125000000,0.375000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [6] // Basepair A66 - G79 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.014258858,0.211706755,0.014176550,0.093357766,0.000000000],[0.015234759,0.010399964,0.094014042,0.014566320,0.000000000],[0.013899989,0.109909176,0.002989625,0.256526531,0.000000000],[0.088532666,0.015883070,0.017860543,0.026683387,0.000000000],[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 G67 - C78 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_06180.1:
> IL_06180.1 IL_4BPP_007 U 63 A 82 UUCAG*CGAAA > IL_06180.1 IL_3U5F_007 U 64 A 86 UAUAAG*UGAAA > IL_06180.1 IL_4A1B_075 C 1726 G 1768 CUAUG*UGUAUG