| 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 2 I | 6 2 3 | 7 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_98557.4_Instance_1 HL_98557.4_HL_4Y4O_113_C319_G323 | C | A | GA | G | ||||||||
| HL_98557.4_Sequence_1 HL_98557.4_HL_4Y4O_113_C319_G323 | C | A | GA | G | true | 88 | 0 | 0 | 1.10 | |||
| HL_98557.4_Instance_2 HL_98557.4_HL_5TBW_006_C208_G212 | C | A | UA | G | ||||||||
| HL_98557.4_Sequence_2 HL_98557.4_HL_5TBW_006_C208_G212 | C | A | UA | G | true | 95 | 0 | 0 | 0.51 | |||
| HL_98557.4_Instance_3 HL_98557.4_HL_4WF9_011_C362_G366 | C | A | AA | G | ||||||||
| HL_98557.4_Sequence_3 HL_98557.4_HL_4WF9_011_C362_G366 | C | A | AA | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_98557.4_Instance_4 HL_98557.4_HL_7A0S_011_C330_G334 | C | U | CA | G | ||||||||
| HL_98557.4_Sequence_4 HL_98557.4_HL_7A0S_011_C330_G334 | C | U | CA | G | true | 75 | 0 | 0 | 2.40 | |||
| HL_98557.4_Instance_5 HL_98557.4_HL_4V9F_011_G326_C330 | G | A | UA | C | ||||||||
| HL_98557.4_Sequence_5 HL_98557.4_HL_4V9F_011_G326_C330 | G | A | UA | C | true | 93 | 0 | 0 | 0.64 | |||
| HL_98557.4_Instance_6 HL_98557.4_HL_2Y9H_003_C11_G16 | C | G | CGU | G | ||||||||
| HL_98557.4_Sequence_6 HL_98557.4_HL_2Y9H_003_C11_G16 | C | G | CGU | G | true | 31 | 0 | 0 | 6.58 | |||
| HL_98557.4_Instance_7 HL_98557.4_HL_5J7L_143_G319_C323 | G | A | UA | C | ||||||||
| HL_98557.4_Sequence_7 HL_98557.4_HL_5J7L_143_G319_C323 | G | A | UA | C | true | 93 | 0 | 0 | 0.64 |
1 2 s35 1 3 cWW 2 3 s55JAR3D SCFG/MRF model for HL_98557.4:
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 [3] // Initial node C319 - G323 from junction BasepairNode | Deletion Probability [0.0000000002889971] | Pair Probability [[0.009144630,0.017165752,0.010484008,0.190189591,0.000000000],[0.018463087,0.009213143,0.244318979,0.013008228,0.000000000],[0.010534317,0.213869704,0.001991973,0.023268171,0.000000000],[0.191242613,0.012802444,0.024618634,0.009684725,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.000000000,0.006034093,0.845778649,0.146829587,0.001307387,0.000050284] | Right Letter Distribution [0.441176471,0.147058824,0.147058824,0.264705882,0.000000000] | Left Index [1] | Right Index [3] // Basepair C319 - G323 cWW HairpinNode | Num Bases [1] | Left Index [2] | Right Index [2] | Norm Constant [1.000000000000000] // Hairpin node A320:A320 Interaction | Interacting Bases [1,1] | Pair Probability [[0.611111111,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.055555556,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.166666667,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.166666667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A320Sequences of instances from HL_98557.4:
> HL_98557.4 HL_4Y4O_113 C 319 G 323 CAGAG > HL_98557.4 HL_5TBW_006 C 208 G 212 CAUAG > HL_98557.4 HL_4WF9_011 C 362 G 366 CAAAG > HL_98557.4 HL_7A0S_011 C 330 G 334 CUCAG > HL_98557.4 HL_4V9F_011 G 326 C 330 GAUAC > HL_98557.4 HL_2Y9H_003 C 11 G 16 CGCGUG > HL_98557.4 HL_5J7L_143 G 319 C 323 GAUAC