| 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 3 | 7 4 I | 8 5 4 | 9 5 I | 10 6 5 | 11 6 I | 12 7 6 | 13 7 I | 14 8 7 | 15 8 I | 16 9 | 17 8 I | 18 8 8 | 19 7 I | 20 7 9 | 21 6 I | 22 6 10 | 23 5 I | 24 5 11 | 25 4 I | 26 4 12 | 27 3 I | 28 3 13 | 29 2 I | 30 2 14 | 31 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_80604.6_Instance_1 IL_80604.6,IL_8P9A_383,G143_C172 | G | U | A | U | A | A | C | G | C | U | A | A | U | A | C | |||||||||||||||||||||
| IL_80604.6_Sequence_1 IL_80604.68P9A_G143_C172 | G | U | A | U | A | A | C | * | G | C | U | A | A | U | A | C | true | 95 | 0 | 0 | 1.08 | |||||||||||||||
| IL_80604.6_Instance_2 IL_80604.6,IL_8CRE_400,G141_C170 | G | G | A | U | A | A | C | G | C | U | A | A | U | A | C | |||||||||||||||||||||
| IL_80604.6_Sequence_2 IL_80604.68CRE_G141_C170 | G | G | A | U | A | A | C | * | G | C | U | A | A | U | A | C | true | 100 | 0 | 0 | 0.00 | |||||||||||||||
| IL_80604.6_Instance_3 IL_80604.6,IL_5J7L_012,G147_C175 | G | G | A | U | A | A | C | G | C | U | A | A | U | A | C | |||||||||||||||||||||
| IL_80604.6_Sequence_3 IL_80604.65J7L_G147_C175 | G | G | A | U | A | A | C | * | G | C | U | A | A | U | A | C | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 14 cWW 2 3 s35 2 13 cWW 3 4 s35 3 12 tWH 3 13 s55 4 10 s33 4 11 tWH 5 6 s35 5 10 tHW 5 11 s55 6 7 s35 6 9 tHW 6 10 s55 7 8 cWW 7 9 s55 8 9 s35 9 10 s35 11 12 s35 12 13 s35 13 14 s35 7 6 7BPhJAR3D SCFG/MRF model for IL_80604.6:
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 [14] // Initial node BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.009639190,0.020074982,0.010976465,0.199366183,0.000000000],[0.016931500,0.009452194,0.201055505,0.013155030,0.000000000],[0.010854565,0.236025807,0.002068996,0.026505317,0.000000000],[0.196814677,0.013653651,0.023233104,0.010192834,0.000000000],[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 [14] // Basepair G143 - C172 cWW BasepairNode | Deletion Probability [0.0000001200211660] | Pair Probability [[0.018125141,0.015263839,0.233048493,0.076399111,0.000000000],[0.016976775,0.009949786,0.077711139,0.033435759,0.000000000],[0.261857232,0.076738061,0.003066422,0.017936141,0.000000000],[0.088805512,0.031619181,0.028146699,0.010920710,0.000000000],[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 [0.016116035,0.966962127,0.016116035,0.000805802] | Right Letter Distribution [0.100000000,0.100000000,0.100000000,0.700000000,0.000000000] | Left Index [2] | Right Index [13] // Basepair U144 - A171 cWW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.387192728,0.003580665,0.315879003,0.003580665,0.000000000],[0.030648361,0.015195078,0.003580665,0.003580665,0.000000000],[0.003580665,0.008869795,0.131616019,0.038326316,0.000000000],[0.016180024,0.003580665,0.017162126,0.017446559,0.000000000],[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 [12] // Basepair A145 - A169 tWH BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.017707924,0.003918792,0.018392577,0.003918792,0.000000000],[0.039408615,0.315779730,0.003918792,0.003918792,0.000000000],[0.003918792,0.009393603,0.029802081,0.017429436,0.000000000],[0.467237476,0.003918792,0.022736360,0.038599448,0.000000000],[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 [11] // Basepair U146 - A168 tWH BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.018593320,0.041379046,0.004114731,0.440599350,0.000000000],[0.004114731,0.331568716,0.009863283,0.004114731,0.000000000],[0.019312206,0.004114731,0.031292185,0.023873178,0.000000000],[0.004114731,0.004114731,0.018300908,0.040529420,0.000000000],[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 [5] | Right Index [10] // Basepair A147 - U167 tHW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.028970555,0.413822916,0.003384646,0.034037077,0.000000000],[0.003384646,0.024659331,0.011816766,0.003384646,0.000000000],[0.096824226,0.003384646,0.030436609,0.015217440,0.000000000],[0.003384646,0.003384646,0.031198983,0.292708219,0.000000000],[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 [6] | Right Index [9] // Basepair A148 - C166 tHW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.003708089,0.006649494,0.004262905,0.077294868,0.000000000],[0.055188220,0.026436068,0.597914779,0.037535311,0.000000000],[0.004310778,0.078960365,0.000812555,0.009124318,0.000000000],[0.078296919,0.005166364,0.010409412,0.003929554,0.000000000],[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 [7] | Right Index [8] // Basepair C149 - G165 cWW HairpinNode | Num Bases [1] | Left Index [8] | Right Index [8] | 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_80604.6:
> IL_80604.6 8P9A G 143 C 172 GUAUAAC*GCUAAUAC > IL_80604.6 8CRE G 141 C 170 GGAUAAC*GCUAAUAC > IL_80604.6 5J7L G 147 C 175 GGAUAAC*GCUAAUAC