| 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 5 I | 8 6 4 | 9 7 I | 10 10 5 | 11 10 I | 12 11 | 13 10 I | 14 10 6 | 15 9 I | 16 8 7 | 17 3 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_16218.2_Instance_1 IL_16218.2,IL_8P9A_283,G1250_C1238 | G | A | A | U | C | G | U | G | G | C | ||||||||||||||||
| IL_16218.2_Sequence_1 IL_16218.28P9A_G_1250_C_1238 | G | A | A | U | C | * | G | U | G | G | C | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_16218.2_Instance_2 IL_16218.2,IL_8CRE_058,G1246_C1234 | G | A | A | U | C | G | U | G | G | C | ||||||||||||||||
| IL_16218.2_Sequence_2 IL_16218.28CRE_G_1246_C_1234 | G | A | A | U | C | * | G | U | G | G | C | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_16218.2_Instance_3 IL_16218.2,IL_7A0S_039,C1087_G1074 | C | A | C | C | C | G | U | U | G | G | ||||||||||||||||
| IL_16218.2_Sequence_3 IL_16218.27A0S_C_1087_G_1074 | C | A | C | C | C | * | G | U | U | G | G | true | 89 | 0 | 0 | 1.59 |
1 2 s35 1 9 cWW 2 3 s35 2 8 cWW 2 9 s55 3 4 s35 5 6 cWW 6 7 s33 8 9 s35JAR3D SCFG/MRF model for IL_16218.2:
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 [9] // Initial node BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.009574124,0.019028436,0.010936653,0.198530575,0.000000000],[0.017980846,0.009507606,0.212727929,0.013322270,0.000000000],[0.010896029,0.224384255,0.002069153,0.025416337,0.000000000],[0.197680266,0.013488440,0.024325847,0.010131233,0.000000000],[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 [9] // Basepair G1250 - C1238 cWW BasepairNode | Deletion Probability [0.0000001200211660] | Pair Probability [[0.028091145,0.013760207,0.414623810,0.016478944,0.000000000],[0.013437108,0.009151593,0.017798873,0.039995656,0.000000000],[0.325952502,0.017998760,0.003392655,0.014971928,0.000000000],[0.016446867,0.042258685,0.014651180,0.010990087,0.000000000],[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 [0.100000000,0.100000000,0.500000000,0.300000000,0.000000000] | Left Index [2] | Right Index [8] // Basepair A1251 - G1237 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.500000000,0.300000000,0.100000000,0.100000000,0.000000000] | Position [1] | Left Index [3] | Right Index [7] // Fixed node on left for 8P9A|1|AR|G|1236 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 [4] | Right Index [7] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.100000000,0.300000000,0.100000000,0.500000000,0.000000000] | Position [1] | Left Index [4] | Right Index [7] // Fixed node on left for 8P9A|1|AR|G|1237 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 [5] | Right Index [7] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.100000000,0.100000000,0.100000000,0.700000000,0.000000000] | Position [2] | Left Index [5] | Right Index [7] // Fixed node on right for 8P9A|1|AR|A|1251 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 [5] | Right Index [6] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009443990,0.016935343,0.010857030,0.196859360,0.000000000],[0.020079540,0.009618431,0.236072779,0.013656751,0.000000000],[0.010978957,0.201101150,0.002069466,0.023238378,0.000000000],[0.199411444,0.013158017,0.026511334,0.010008030,0.000000000],[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 [5] | Right Index [6] // Basepair C1254 - G1234 cWW HairpinNode | Num Bases [1] | Left Index [6] | Right Index [6] | 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_16218.2:
> IL_16218.2 8P9A G 1250 C 1238 GAAUC*GUGGC > IL_16218.2 8CRE G 1246 C 1234 GAAUC*GUGGC > IL_16218.2 7A0S C 1087 G 1074 CACCC*GUUGG