| 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_57052.2_Instance_1 HL_57052.2_HL_6MSF_001_G6_C10 | G | U | C | A | C | |||||||
| HL_57052.2_Sequence_1 HL_57052.2_HL_6MSF_001_G6_C10 | G | U | C | A | C | true | 100 | 0 | 0 | 0.00 | ||
| HL_57052.2_Instance_2 HL_57052.2_HL_6MSF_005_G6_C10 | G | U | C | A | C | |||||||
| HL_57052.2_Sequence_2 HL_57052.2_HL_6MSF_005_G6_C10 | G | U | C | A | C | true | 100 | 0 | 0 | 0.00 | ||
| HL_57052.2_Instance_3 HL_57052.2_HL_6MSF_006_G6_C10 | G | U | C | A | C | |||||||
| HL_57052.2_Sequence_3 HL_57052.2_HL_6MSF_006_G6_C10 | G | U | C | A | C | true | 100 | 0 | 0 | 0.00 | ||
| HL_57052.2_Instance_4 HL_57052.2_HL_6MSF_002_G6_C10 | G | U | C | A | C | |||||||
| HL_57052.2_Sequence_4 HL_57052.2_HL_6MSF_002_G6_C10 | G | U | C | A | C | true | 100 | 0 | 0 | 0.00 | ||
| HL_57052.2_Instance_5 HL_57052.2_HL_4LFB_005_C201_G216 | C | U | U | U | G | |||||||
| HL_57052.2_Sequence_5 HL_57052.2_HL_4LFB_005_C201_G216 | C | U | U | U | G | true | 78 | 0 | 0 | 2.13 | ||
| HL_57052.2_Instance_6 HL_57052.2_HL_4YAZ_004_C56_G60 | C | C | C | U | G | |||||||
| HL_57052.2_Sequence_6 HL_57052.2_HL_4YAZ_004_C56_G60 | C | C | C | U | G | true | 76 | 0 | 0 | 2.30 | ||
| HL_57052.2_Instance_7 HL_57052.2_HL_4L8H_001_C9_G13 | C | U | A | A | G | |||||||
| HL_57052.2_Sequence_7 HL_57052.2_HL_4L8H_001_C9_G13 | C | U | A | A | G | true | 86 | 0 | 0 | 1.34 |
1 2 s35 1 3 cWWJAR3D SCFG/MRF model for HL_57052.2:
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 [3] // Initial node G6 - C10 from junction BasepairNode | Deletion Probability [0.0000000006203550] | Pair Probability [[0.009198317,0.018029257,0.010516857,0.190879051,0.000000000],[0.017597271,0.009167422,0.224007152,0.012870238,0.000000000],[0.010500105,0.234156059,0.001991844,0.024166688,0.000000000],[0.190528416,0.012938760,0.023717011,0.009735553,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.007039775,0.985568462,0.007039775,0.000351989] | Left Letter Distribution [0.055555556,0.166666667,0.055555556,0.722222222,0.000000000] | Right Length Distribution [0.007039775,0.985568462,0.007039775,0.000351989] | Right Letter Distribution [0.611111111,0.055555556,0.055555556,0.277777778,0.000000000] | Left Index [1] | Right Index [3] // Basepair G6 - C10 cWW HairpinNode | Num Bases [1] | Left Index [2] | Right Index [2] | Norm Constant [1.000000000000000] // Hairpin node C8:C8 Interaction | Interacting Bases [1,1] | Pair Probability [[0.166666667,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.611111111,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.055555556,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.166666667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C8Sequences of instances from HL_57052.2:
> HL_57052.2 HL_6MSF_001 G 6 C 10 GUCAC > HL_57052.2 HL_6MSF_005 G 6 C 10 GUCAC > HL_57052.2 HL_6MSF_006 G 6 C 10 GUCAC > HL_57052.2 HL_6MSF_002 G 6 C 10 GUCAC > HL_57052.2 HL_4LFB_005 C 201 G 216 CUUUG > HL_57052.2 HL_4YAZ_004 C 56 G 60 CCCUG > HL_57052.2 HL_4L8H_001 C 9 G 13 CUAAG