| 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 3 3 | 7 3 I | 8 3 4 | 9 3 I | 10 3 5 | 11 3 I | 12 3 6 | 13 3 I | 14 3 7 | 15 3 I | 16 3 8 | 17 2 I | 18 2 9 | 19 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_50779.4_Instance_1 HL_50779.4,HL_4LFB_021,G963_C972 | G | A | A | G | C | A | A | C | G | C | ||||||||||||||
| HL_50779.4_Sequence_1 HL_50779.44LFB_G963_C972 | G | A | A | G | C | A | A | C | G | C | true | 97 | 0 | 0 | 0.51 | |||||||||
| HL_50779.4_Instance_2 HL_50779.4,HL_5J7L_021,G963_C972 | G | A | U | G | C | A | A | C | G | C | ||||||||||||||
| HL_50779.4_Sequence_2 HL_50779.45J7L_G963_C972 | G | A | U | G | C | A | A | C | G | C | true | 97 | 0 | 0 | 0.51 | |||||||||
| HL_50779.4_Instance_3 HL_50779.4,HL_8CRE_216,G1173_C1182 | G | A | C | U | C | A | A | C | A | C | ||||||||||||||
| HL_50779.4_Sequence_3 HL_50779.48CRE_G_1173_C_1182 | G | A | C | U | C | A | A | C | A | C | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_50779.4_Instance_4 HL_50779.4,HL_8P9A_215,G1188_C1197 | G | A | C | U | C | A | A | C | A | C | ||||||||||||||
| HL_50779.4_Sequence_4 HL_50779.48P9A_G_1188_C_1197 | G | A | C | U | C | A | A | C | A | C | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 9 cWW 2 7 perp 2 9 s55 3 7 s55 4 5 s35 5 6 s33 7 8 s35 5 6 7BR 2 8 2BRJAR3D SCFG/MRF model for HL_50779.4:
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 [0.0000001215781528] | Pair Probability [[0.009546506,0.019881954,0.010870922,0.197449200,0.000000000],[0.016768697,0.009361308,0.199122279,0.013028540,0.000000000],[0.010750195,0.243371713,0.002049102,0.026250458,0.000000000],[0.194922229,0.013522366,0.023009709,0.010094826,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.012187690,0.975015235,0.012187690,0.000609385] | Right Letter Distribution [0.416666667,0.083333333,0.416666667,0.083333333,0.000000000] | Left Index [1] | Right Index [9] // Basepair G963 - C972 cWW HairpinNode | Num Bases [7] | Left Index [2] | Right Index [8] | Norm Constant [1.000000000000001] // Hairpin node A964:C970 Interaction | Interacting Bases [1,1] | Pair Probability [[0.931818182,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.022727273,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.022727273,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.022727273,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A964 Interaction | Interacting Bases [2,2] | Pair Probability [[0.250000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.416666667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.083333333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.250000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A965 Interaction | Interacting Bases [3,3] | Pair Probability [[0.083333333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.083333333,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.416666667,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.416666667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G966 Interaction | Interacting Bases [4,4] | Pair Probability [[0.022727273,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.931818182,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.022727273,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.022727273,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C967 Interaction | Interacting Bases [5,5] | Pair Probability [[0.750000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.083333333,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.083333333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.083333333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A968 Interaction | Interacting Bases [6,6] | Pair Probability [[0.750000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.083333333,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.083333333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.083333333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A969 Interaction | Interacting Bases [7,7] | Pair Probability [[0.083333333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.750000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.083333333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.083333333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C970Sequences of instances from HL_50779.4:
> HL_50779.4 4LFB G 963 C 972 GAAGCAACGC > HL_50779.4 5J7L G 963 C 972 GAUGCAACGC > HL_50779.4 8CRE G 1173 C 1182 GACUCAACAC > HL_50779.4 8P9A G 1188 C 1197 GACUCAACAC