| 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 | 7 5 I | 8 5 3 | 9 4 I | 10 3 4 | 11 2 I | 12 2 5 | 13 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_31066.3_Instance_1 IL_31066.3_IL_2AW7_060_C1399_G1504 | C | C | G | C | A | A | G | |||||||||||
| IL_31066.3_Sequence_1 IL_31066.3_IL_2AW7_060_C_1399_G_1504 | C | C | G | * | C | A | A | G | true | 100 | 0 | 0 | 0.00 | |||||
| IL_31066.3_Instance_2 IL_31066.3_IL_3U5F_080_C1636_G1767 | C | C | G | C | A | A | G | |||||||||||
| IL_31066.3_Sequence_2 IL_31066.3_IL_3U5F_080_C_1636_G_1767 | C | C | G | * | C | A | A | G | true | 100 | 0 | 0 | 0.00 | |||||
| IL_31066.3_Instance_3 IL_31066.3_IL_4BPP_080_C1608_G1720 | C | C | G | C | A | A | G | |||||||||||
| IL_31066.3_Sequence_3 IL_31066.3_IL_4BPP_080_C_1608_G_1720 | C | C | G | * | C | A | A | G | true | 100 | 0 | 0 | 0.00 | |||||
| IL_31066.3_Instance_4 IL_31066.3_IL_1FJG_054_C1399_G1504 | C | C | G | C | A | A | G | |||||||||||
| IL_31066.3_Sequence_4 IL_31066.3_IL_1FJG_054_C_1399_G_1504 | C | C | G | * | C | A | A | G | true | 100 | 0 | 0 | 0.00 |
1 2 s55 1 4 s35 1 5 cWW 2 3 cWW 3 5 s33 4 5 s55 4 1 6BR 3 5 7BRJAR3D SCFG/MRF model for IL_31066.3:
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 [5] // Initial node C1399 - G1504 from junction BasepairNode | Deletion Probability [0.0000000006169801] | Pair Probability [[0.009837906,0.016874612,0.011433973,0.188696651,0.000000000],[0.020374159,0.008402684,0.249321155,0.013657771,0.000000000],[0.011579737,0.204416164,0.002108596,0.023330341,0.000000000],[0.189792617,0.013011006,0.027046303,0.010116326,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.012187690,0.975015235,0.012187690,0.000609385] | Left Letter Distribution [0.083333333,0.750000000,0.083333333,0.083333333,0.000000000] | Right Length Distribution [0.012187690,0.975015235,0.012187690,0.000609385] | Right Letter Distribution [0.750000000,0.083333333,0.083333333,0.083333333,0.000000000] | Left Index [1] | Right Index [5] // Basepair C1399 - G1504 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.931818182,0.022727273,0.022727273,0.022727273,0.000000000] | Position [2] | Left Index [2] | Right Index [4] // 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 [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [3] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.006152877,0.042303194,0.007124117,0.116764735,0.000000000],[0.010381645,0.017122510,0.125761474,0.008004667,0.000000000],[0.007034440,0.476272743,0.001297256,0.016639501,0.000000000],[0.116090472,0.028357850,0.014353356,0.006339164,0.000000000],[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 G1401 - C1501 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_31066.3:
> IL_31066.3 IL_2AW7_060 C 1399 G 1504 CCG*CAAG > IL_31066.3 IL_3U5F_080 C 1636 G 1767 CCG*CAAG > IL_31066.3 IL_4BPP_080 C 1608 G 1720 CCG*CAAG > IL_31066.3 IL_1FJG_054 C 1399 G 1504 CCG*CAAG