| 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 | 15 7 I | 16 7 7 | 17 6 I | 18 6 8 | 19 5 I | 20 5 9 | 21 4 I | 22 4 10 | 23 3 I | 24 3 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_87284.1_Instance_1 IL_87284.1,IL_1KD4_001,U3_G8 | U | C | A | C | A | G | U | C | A | C | A | G | ||||||||||||||||||||
| IL_87284.1_Sequence_1 IL_87284.11KD4_U3_G8 | U | C | A | C | A | G | * | U | C | A | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||||
| IL_87284.1_Instance_2 IL_87284.1,IL_1KD5_001,U3_G8 | U | C | A | C | A | G | U | C | A | C | A | G | ||||||||||||||||||||
| IL_87284.1_Sequence_2 IL_87284.11KD5_U3_G8 | U | C | A | C | A | G | * | U | C | A | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||||
| IL_87284.1_Instance_3 IL_87284.1,IL_283D_001,C4_G9 | C | G | A | A | A | G | C | G | A | A | A | G | ||||||||||||||||||||
| IL_87284.1_Sequence_3 IL_87284.1283D_C4_G9 | C | G | A | A | A | G | * | C | G | A | A | A | G | true | 81 | 0 | 0 | 3.08 |
1 2 s35 1 12 cWW 2 11 tSH 3 4 s35 3 10 tHW 3 11 s55 4 5 s35 4 9 tWH 4 10 s55 5 6 s35 5 8 tHS 5 9 s55 6 7 cWW 7 8 s35 9 10 s35 10 11 s35 11 12 s35 11 2 6BR 5 8 6BRJAR3D SCFG/MRF model for IL_87284.1:
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 [[0.010572638,0.014877250,0.013044997,0.090228256,0.000000000],[0.206427106,0.021659062,0.106652866,0.015137891,0.000000000],[0.013291996,0.091543616,0.002872521,0.017432502,0.000000000],[0.123374477,0.014077094,0.246524532,0.012283196,0.000000000],[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 U3 - G8 cWW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.146217981,0.053512369,0.001570915,0.007696513,0.000000000],[0.169325908,0.117962426,0.001570915,0.001570915,0.000000000],[0.148726299,0.001570915,0.009984515,0.052151474,0.000000000],[0.143160694,0.141836332,0.001570915,0.001570915,0.000000000],[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 [2] | Right Index [11] // Basepair C4 - A7 tSH BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.149343631,0.266558828,0.003562807,0.029219295,0.000000000],[0.003562807,0.022326558,0.011228334,0.003562807,0.000000000],[0.173069960,0.003562807,0.065177633,0.016372916,0.000000000],[0.003562807,0.003562807,0.034614727,0.210711273,0.000000000],[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 A5 - C6 tHW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.149343631,0.003562807,0.173069960,0.003562807,0.000000000],[0.266558828,0.022326558,0.003562807,0.003562807,0.000000000],[0.003562807,0.011228334,0.065177633,0.034614727,0.000000000],[0.029219295,0.003562807,0.016372916,0.210711273,0.000000000],[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 C6 - A5 tWH BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.146217981,0.169325908,0.148726299,0.143160694,0.000000000],[0.053512369,0.117962426,0.001570915,0.141836332,0.000000000],[0.001570915,0.001570915,0.009984515,0.001570915,0.000000000],[0.007696513,0.001570915,0.052151474,0.001570915,0.000000000],[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 [8] // Basepair A7 - C4 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.013670424,0.202694703,0.013111240,0.122296464,0.000000000],[0.014703520,0.011594218,0.091070574,0.013895076,0.000000000],[0.012868105,0.106114901,0.002831594,0.242445403,0.000000000],[0.089753694,0.014939126,0.017249809,0.030761150,0.000000000],[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 G8 - U3 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_87284.1:
> IL_87284.1 1KD4 U 3 G 8 UCACAG*UCACAG > IL_87284.1 1KD5 U 3 G 8 UCACAG*UCACAG > IL_87284.1 283D C 4 G 9 CGAAAG*CGAAAG