| 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 7 3 | 7 7 I | 8 8 4 | 9 8 I | 10 9 5 | 11 10 I | 12 13 6 | 13 13 I | 14 14 | 15 13 I | 16 13 7 | 17 12 I | 18 11 8 | 19 8 I | 20 8 9 | 21 7 I | 22 7 10 | 23 6 I | 24 5 11 | 25 2 I | 26 2 12 | 27 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_82292.1_Instance_1 IL_82292.1,IL_8SSW_003,C11_G16 | C | G | C | A | A | G | C | G | C | A | A | G | ||||||||||||||||||||
| IL_82292.1_Sequence_1 IL_82292.18SSW_C11_G16 | C | G | C | A | A | G | * | C | G | C | A | A | G | true | 96 | 0 | 0 | 0.70 | ||||||||||||||
| IL_82292.1_Instance_2 IL_82292.1,IL_4EYA_005,C5_G10 | C | C | U | U | G | G | C | C | U | U | G | G | ||||||||||||||||||||
| IL_82292.1_Sequence_2 IL_82292.14EYA_C5_G10 | C | C | U | U | G | G | * | C | C | U | U | G | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||||
| IL_82292.1_Instance_3 IL_82292.1,IL_3IGI_015,U214_A163 | U | A | C | A | G | A | U | A | G | G | U | A | ||||||||||||||||||||
| IL_82292.1_Sequence_3 IL_82292.13IGI_U214_A163 | U | A | C | A | G | A | * | U | A | G | G | U | A | true | 86 | 0 | 0 | 2.29 |
1 2 s35 1 12 cWW 2 3 s35 2 12 s55 3 4 s35 3 10 cWW 4 5 s35 4 9 cWW 4 10 s55 5 6 s35 6 7 cWW 7 8 s33 9 10 s35 10 11 s35 11 12 s35 8 8 2BPhJAR3D SCFG/MRF model for IL_82292.1:
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 [12] // Initial node BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.009278201,0.017081703,0.010509311,0.196044617,0.000000000],[0.020663004,0.009657695,0.222404933,0.012750390,0.000000000],[0.010596976,0.198258342,0.002054445,0.023100179,0.000000000],[0.210129795,0.012196624,0.035266599,0.010007185,0.000000000],[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 [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [12] // Basepair C11 - G16 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.300000000,0.300000000,0.300000000,0.100000000,0.000000000] | Position [1] | Left Index [2] | Right Index [11] // Fixed node on left for 8SSW|1|C|G|12 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 [11] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.300000000,0.100000000,0.300000000,0.300000000,0.000000000] | Position [2] | Left Index [3] | Right Index [11] // Fixed node on right for 8SSW|1|D|A|15 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 [3] | Right Index [10] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.011927554,0.103878043,0.012859754,0.083732534,0.000000000],[0.140543245,0.022806684,0.096977940,0.014785151,0.000000000],[0.012918294,0.083647046,0.003278575,0.030690434,0.000000000],[0.086187520,0.014568350,0.123039120,0.158159756,0.000000000],[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 [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [10] // Basepair C13 - A14 cWW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.013792964,0.283399599,0.068124920,0.026469071,0.000000000],[0.013754085,0.014145508,0.021174797,0.012783546,0.000000000],[0.011914856,0.023487030,0.003407727,0.153960462,0.000000000],[0.021947836,0.013925498,0.014151844,0.303560257,0.000000000],[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 [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [9] // Basepair A14 - C13 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.300000000,0.100000000,0.500000000,0.100000000,0.000000000] | Position [1] | Left Index [5] | Right Index [8] // Fixed node on left for 8SSW|1|C|A|15 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 [6] | Right Index [8] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.326086957,0.326086957,0.326086957,0.021739130,0.000000000] | Position [2] | Left Index [6] | Right Index [8] // Fixed node on right for 8SSW|1|D|G|12 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 [6] | Right Index [7] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008967615,0.019938967,0.009902179,0.200899048,0.000000000],[0.016323614,0.009018781,0.187303034,0.011149190,0.000000000],[0.009835030,0.256922509,0.001947776,0.037715456,0.000000000],[0.186159598,0.011702258,0.021915378,0.010299566,0.000000000],[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 [6] | Right Index [7] // Basepair G16 - C11 cWW HairpinNode | Num Bases [1] | Left Index [7] | Right Index [7] | 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_82292.1:
> IL_82292.1 8SSW C 11 G 16 CGCAAG*CGCAAG > IL_82292.1 4EYA C 5 G 10 CCUUGG*CCUUGG > IL_82292.1 3IGI U 214 A 163 UACAGA*UAGGUA