| 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 7 4 | 9 8 I | 10 13 5 | 11 13 I | 12 14 | 13 13 I | 14 13 6 | 15 12 I | 16 11 7 | 17 10 I | 18 9 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_21001.1_Instance_1 IL_21001.1,IL_8P9A_346,C3084_G3059 | C | G | A | A | G | U | U | U | U | U | G | |||||||||||||||
| IL_21001.1_Sequence_1 IL_21001.18P9A_C_3084_G_3059 | C | G | A | A | G | * | U | U | U | U | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_21001.1_Instance_2 IL_21001.1,IL_8CRE_127,C3056_G3031 | C | G | A | A | G | U | U | U | U | U | G | |||||||||||||||
| IL_21001.1_Sequence_2 IL_21001.18CRE_C_3056_G_3031 | C | G | A | A | G | * | U | U | U | U | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_21001.1_Instance_3 IL_21001.1,IL_5V1K_002,C103_G210 | C | G | A | A | U | A | U | U | A | G | ||||||||||||||||
| IL_21001.1_Sequence_3 IL_21001.15V1K_C103_G210 | C | G | A | A | U | * | A | U | U | A | G | true | 88 | 0 | 0 | 1.99 |
1 2 s35 1 9 cWW 2 7 s33 2 9 s55 3 4 s35 3 8 s53 4 5 s35 5 6 cWW 8 9 s55 2 8 6BPh 2 7 6BRJAR3D SCFG/MRF model for IL_21001.1:
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 [9] // Initial node BasepairNode | Deletion Probability [0.0000006691671388] | 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 [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.334863624,0.653524170,0.011072104,0.000540103] | Right Letter Distribution [0.125000000,0.125000000,0.125000000,0.625000000,0.000000000] | Left Index [1] | Right Index [9] // Basepair C3084 - G3059 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.021739130,0.021739130,0.934782609,0.021739130,0.000000000] | Position [1] | Left Index [2] | Right Index [8] // Fixed node on left for 8P9A|1|AR|U|3055 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 [8] // 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 [8] // Fixed node on left for 8P9A|1|AR|U|3056 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 [8] // 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 [4] | Right Index [8] // Fixed node on left for 8P9A|1|AR|U|3057 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 [8] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.300000000,0.100000000,0.100000000,0.500000000,0.000000000] | Position [2] | Left Index [5] | Right Index [8] // Fixed node on right for 8P9A|1|AR|G|3085 InitialNode | Left Length Distribution [1.000000000] | 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 [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|C|3084 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 [[0.014939087,0.280004346,0.013503455,0.079772957,0.000000000],[0.012942409,0.012062124,0.034360104,0.013585809,0.000000000],[0.013214166,0.039199474,0.003059897,0.325407221,0.000000000],[0.090439111,0.014839870,0.013579202,0.039090769,0.000000000],[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 G3088 - U3054 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_21001.1:
> IL_21001.1 8P9A C 3084 G 3059 CGAAG*UUUUUG > IL_21001.1 8CRE C 3056 G 3031 CGAAG*UUUUUG > IL_21001.1 5V1K C 103 G 210 CGAAU*AUUAG