| 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 4 I | 6 5 3 | 7 6 I | 8 9 4 | 9 9 I | 10 10 | 11 9 I | 12 9 5 | 13 8 I | 14 7 6 | 15 2 I | 16 2 7 | 17 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_06211.3_Instance_1 IL_06211.3_IL_2AW7_003_C47_G361 | C | C | U | A | A | C | G | G | G | |||||||||||||
| IL_06211.3_Sequence_1 IL_06211.3_IL_2AW7_003_C47_G361 | C | C | U | A | A | C | * | G | G | G | true | 98 | 0 | 0 | 0.29 | |||||||
| IL_06211.3_Instance_2 IL_06211.3_IL_1FJG_003_C47_G361 | C | C | U | A | A | G | U | A | G | |||||||||||||
| IL_06211.3_Sequence_2 IL_06211.3_IL_1FJG_003_C47_G361 | C | C | U | A | A | G | * | U | A | G | true | 100 | 0 | 0 | 0.00 | |||||||
| IL_06211.3_Instance_3 IL_06211.3_IL_4BPP_004_U41_A425 | U | AU | U | A | A | C | G | A | A | |||||||||||||
| IL_06211.3_Sequence_3 IL_06211.3_IL_4BPP_004_U41_A425 | U | AU | U | A | A | C | * | G | A | A | true | 74 | 0 | 0 | 3.44 |
1 2 s53 1 7 cWW 2 7 s33 4 5 cWW 4 6 s55 5 6 s35 6 7 s35 7 2 2BRJAR3D SCFG/MRF model for IL_06211.3:
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 [7] // Initial node C47 - G361 from junction BasepairNode | Deletion Probability [0.0000000205233307] | Pair Probability [[0.006245839,0.012198524,0.022050021,0.130509465,0.000000000],[0.014790529,0.005911317,0.430272268,0.007918832,0.000000000],[0.007056476,0.130875485,0.004179580,0.015482156,0.000000000],[0.143245792,0.007681992,0.053686990,0.007894735,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.010744024,0.650013430,0.333064733,0.005909213,0.000268601] | Left Letter Distribution [0.250000000,0.416666667,0.083333333,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [7] // Basepair C47 - G361 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.100000000,0.100000000,0.100000000,0.700000000,0.000000000] | Position [1] | Left Index [2] | Right Index [6] // Fixed node on left InitialNode | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [6] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.700000000,0.100000000,0.100000000,0.100000000,0.000000000] | Position [1] | Left Index [3] | Right Index [6] // Fixed node on left InitialNode | Left Length Distribution [0.016116035,0.966962127,0.016116035,0.000805802] | Left Letter Distribution [0.700000000,0.100000000,0.100000000,0.100000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [6] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.500000000,0.100000000,0.300000000,0.100000000,0.000000000] | Position [2] | Left Index [4] | Right Index [6] // 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 [4] | Right Index [5] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.012069023,0.113784372,0.012836630,0.141765239,0.000000000],[0.018492858,0.009468664,0.173969190,0.014287629,0.000000000],[0.012820994,0.152223457,0.002559418,0.139417271,0.000000000],[0.140274824,0.014401822,0.023210850,0.018417758,0.000000000],[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 C52 - G359 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_06211.3:
> IL_06211.3 IL_2AW7_003 C 47 G 361 CCUAAC*GGG > IL_06211.3 IL_1FJG_003 C 47 G 361 CCUAAG*UAG > IL_06211.3 IL_4BPP_004 U 41 A 425 UAUUAAC*GAA