| 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 2 I | 8 2 4 | 9 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_99223.1_Instance_1 HL_99223.1_HL_6FQL_001_U5_A9 | U | U | U | A | A | |||||||||
| HL_99223.1_Sequence_1 HL_99223.1_HL_6FQL_001_U5_A9 | U | U | U | A | A | true | 100 | 0 | 0 | 0.00 | ||||
| HL_99223.1_Instance_2 HL_99223.1_HL_6FQ3_001_U5_A9 | U | C | C | A | A | |||||||||
| HL_99223.1_Sequence_2 HL_99223.1_HL_6FQ3_001_U5_A9 | U | C | C | A | A | true | 95 | 0 | 0 | 0.51 | ||||
| HL_99223.1_Instance_3 HL_99223.1_HL_5TBW_045_G2110_C2114 | G | G | U | A | C | |||||||||
| HL_99223.1_Sequence_3 HL_99223.1_HL_5TBW_045_G_2110_C_2114 | G | G | U | A | C | true | 99 | 0 | 0 | 0.06 |
1 3 s33 1 4 cWW 2 3 s55 3 4 s35 3 1 2BRJAR3D SCFG/MRF model for HL_99223.1:
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 [4] // Initial node U5 - A9 from junction BasepairNode | Deletion Probability [0.0000001200211660] | Pair Probability [[0.009177479,0.018274610,0.010201403,0.196065482,0.000000000],[0.020197122,0.009641546,0.197064662,0.011676789,0.000000000],[0.010173530,0.207057088,0.002039267,0.024050960,0.000000000],[0.219982557,0.011400443,0.042929120,0.010067941,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.016116035,0.966962127,0.016116035,0.000805802] | Left Letter Distribution [0.100000000,0.300000000,0.300000000,0.300000000,0.000000000] | 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 [4] // Basepair U5 - A9 cWW HairpinNode | Num Bases [2] | Left Index [2] | Right Index [3] | Norm Constant [1.000000000000000] // Hairpin node U7:A8 Interaction | Interacting Bases [1,1] | Pair Probability [[0.100000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.300000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.100000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.500000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U7 Interaction | Interacting Bases [2,2] | Pair Probability [[0.911764706,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.029411765,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.029411765,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.029411765,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A8Sequences of instances from HL_99223.1:
> HL_99223.1 HL_6FQL_001 U 5 A 9 UUUAA > HL_99223.1 HL_6FQ3_001 U 5 A 9 UCCAA > HL_99223.1 HL_5TBW_045 G 2110 C 2114 GGUAC