| 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 3 I | 8 3 4 | 9 2 I | 10 2 5 | 11 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_32527.2_Instance_1 HL_32527.2_HL_3OXE_002_G49_C54 | G | G | A | A | A | C | ||||||||||
| HL_32527.2_Sequence_1 HL_32527.2_HL_3OXE_002_G49_C54 | G | G | A | A | A | C | true | 100 | 0 | 0 | 0.00 | |||||
| HL_32527.2_Instance_2 HL_32527.2_HL_5J7L_179_C1806_G1811 | C | G | A | A | A | G | ||||||||||
| HL_32527.2_Sequence_2 HL_32527.2_HL_5J7L_179_C_1806_G_1811 | C | G | A | A | A | G | true | 99 | 0 | 0 | 0.05 | |||||
| HL_32527.2_Instance_3 HL_32527.2_HL_3IGI_004_G135_C141 | G | G | AA | C | A | C | ||||||||||
| HL_32527.2_Sequence_3 HL_32527.2_HL_3IGI_004_G135_C141 | G | G | AA | C | A | C | true | 83 | 0 | 0 | 1.60 |
1 2 s35 1 5 cWW 2 4 tSH 2 5 s55 3 4 s35 4 5 s35 2 4 6BPh 3 2 7BRJAR3D SCFG/MRF model for HL_32527.2:
Character Definition | A,C,G,U,* // Define characters here InitialNode | 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 [1] | Right Index [5] // Initial node G49 - C54 from junction 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 [5] // Basepair G49 - C54 cWW BasepairNode | Deletion Probability [0.0000000205233307] | Pair Probability [[0.043273743,0.045811089,0.000519472,0.002448275,0.000000000],[0.043595236,0.045705009,0.000519472,0.000519472,0.000000000],[0.392756919,0.003636307,0.017776750,0.308635994,0.000000000],[0.048305054,0.045458262,0.000519472,0.000519472,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.010744024,0.650013430,0.333064733,0.005909213,0.000268601] | Left Letter Distribution [0.750000000,0.083333333,0.083333333,0.083333333,0.000000000] | 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 [4] // Basepair G50 - A53 tSH HairpinNode | Num Bases [1] | Left Index [3] | Right Index [3] | Norm Constant [1.000000000000000] // Hairpin node A52:A52 Interaction | Interacting Bases [1,1] | Pair Probability [[0.617647059,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.323529412,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.029411765,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.029411765,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A52Sequences of instances from HL_32527.2:
> HL_32527.2 HL_3OXE_002 G 49 C 54 GGAAAC > HL_32527.2 HL_5J7L_179 C 1806 G 1811 CGAAAG > HL_32527.2 HL_3IGI_004 G 135 C 141 GGAACAC