| 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 | 9 7 I | 10 7 4 | 11 6 I | 12 5 5 | 13 2 I | 14 2 6 | 15 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_08770.1_Instance_1 IL_08770.1,IL_2ET8_003,G15_C31 | G | A | A | G | C | A | C | |||||||||||||
| IL_08770.1_Sequence_1 IL_08770.12ET8_G15_C31 | G | A | A | G | * | C | A | C | true | 97 | 0 | 0 | 0.30 | |||||||
| IL_08770.1_Instance_2 IL_08770.1,IL_3LOA_003,G1491_C1409 | G | A | A | G | C | A | C | |||||||||||||
| IL_08770.1_Sequence_2 IL_08770.13LOA_G_1491_C_1409 | G | A | A | G | * | C | A | C | true | 97 | 0 | 0 | 0.30 | |||||||
| IL_08770.1_Instance_3 IL_08770.1,IL_7A0S_092,A2579_U2572 | A | C | A | G | C | G | U | |||||||||||||
| IL_08770.1_Sequence_3 IL_08770.17A0S_A_2579_U_2572 | A | C | A | G | * | C | G | U | true | 75 | 0 | 0 | 2.33 | |||||||
| IL_08770.1_Instance_4 IL_08770.1,IL_9E7E_002,C28_G16 | C | U | G | C | A | G | ||||||||||||||
| IL_08770.1_Sequence_4 IL_08770.19E7E_C28_G16 | C | U | G | * | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_08770.1_Instance_5 IL_08770.1,IL_8CRE_450,A1219_U1236 | A | C | A | U | U | U | ||||||||||||||
| IL_08770.1_Sequence_5 IL_08770.18CRE_A_1219_U_1236 | A | C | A | * | U | U | U | true | 95 | 0 | 0 | 0.43 |
1 2 s33 1 6 cWW 2 3 s55 3 4 cWW 3 5 s55 4 5 s35 5 6 s35JAR3D SCFG/MRF model for IL_08770.1:
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 [6] // Initial node BasepairNode | Deletion Probability [0.0000028285212255] | Pair Probability [[0.009242135,0.019752262,0.010289441,0.215210366,0.000000000],[0.017390073,0.009318520,0.204462455,0.011866257,0.000000000],[0.010258032,0.216110658,0.002010977,0.035636684,0.000000000],[0.192518135,0.012224138,0.023259543,0.010450323,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.595367176,0.400197141,0.004238541,0.000197141] | Left Letter Distribution [0.625000000,0.125000000,0.125000000,0.125000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [6] // Basepair G15 - C31 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.357142857,0.357142857,0.071428571,0.214285714,0.000000000] | Position [1] | Left Index [2] | Right Index [5] // Fixed node on left for 2ET8|1|A|A|16 InitialNode | Left Length Distribution [0.792098765,0.205432099,0.002370370,0.000098765] | Left Letter Distribution [0.500000000,0.166666667,0.166666667,0.166666667,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [5] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.500000000,0.071428571,0.214285714,0.214285714,0.000000000] | Position [2] | Left Index [3] | Right Index [5] // Fixed node on right for 2ET8|1|B|C|29 InitialNode | Left Length Distribution [1.000000000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [4] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009368009,0.020030415,0.010540131,0.205635456,0.000000000],[0.016690726,0.009279029,0.195504376,0.012336141,0.000000000],[0.010440720,0.238674882,0.002020236,0.031139040,0.000000000],[0.192537250,0.012857479,0.022703477,0.010242632,0.000000000],[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 [3] | Right Index [4] // Basepair G18 - C29 cWW HairpinNode | Num Bases [1] | Left Index [4] | Right Index [4] | 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_08770.1:
> IL_08770.1 2ET8 G 15 C 31 GAAG*CAC > IL_08770.1 3LOA G 1491 C 1409 GAAG*CAC > IL_08770.1 7A0S A 2579 U 2572 ACAG*CGU > IL_08770.1 9E7E C 28 G 16 CUG*CAG > IL_08770.1 8CRE A 1219 U 1236 ACA*UUU