| 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 5 2 | 5 5 I | 6 6 | 7 5 I | 8 5 3 | 9 4 I | 10 3 4 | 11 2 I | 12 2 5 | 13 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_80348.3_Instance_1 IL_80348.3_IL_3U5F_020_U345_A323 | U | G | U | U | UCG | A | ||||||||||||
| IL_80348.3_Sequence_1 IL_80348.3_IL_3U5F_020_U345_A323 | U | G | * | U | U | UCG | A | true | 61 | 0 | 0 | 3.66 | ||||||
| IL_80348.3_Instance_2 IL_80348.3_IL_1FJG_012_A274_U252 | A | G | U | A | G | U | ||||||||||||
| IL_80348.3_Sequence_2 IL_80348.3_IL_1FJG_012_A274_U252 | A | G | * | U | A | G | U | true | 85 | 0 | 0 | 1.44 | ||||||
| IL_80348.3_Instance_3 IL_80348.3_IL_4IOA_023_U860_A944 | U | G | U | U | A | |||||||||||||
| IL_80348.3_Sequence_3 IL_80348.3_IL_4IOA_023_U860_A944 | U | G | * | U | U | A | true | 100 | 0 | 0 | 0.00 |
1 2 perp 1 5 cWW 2 3 cWW 2 4 s55 3 4 s35 2 5 6BRJAR3D SCFG/MRF model for IL_80348.3:
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 U345 - A323 from junction BasepairNode | Deletion Probability [0.0000000191968215] | Pair Probability [[0.009072057,0.021359726,0.009720650,0.217473838,0.000000000],[0.022804189,0.009364671,0.191439834,0.010243310,0.000000000],[0.009726197,0.191069331,0.002130991,0.024784794,0.000000000],[0.229856632,0.010219191,0.026177990,0.014556599,0.000000000],[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 [0.329462598,0.329462598,0.011072104,0.324331623,0.005401026,0.000270051] | Right Letter Distribution [0.083333333,0.250000000,0.416666667,0.250000000,0.000000000] | Left Index [1] | Right Index [5] // Basepair U345 - A323 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.300000000,0.100000000,0.100000000,0.500000000,0.000000000] | Position [2] | Left Index [2] | Right Index [4] // Fixed node on right InitialNode | Left Length Distribution [1.000000000] | 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 [2] | Right Index [3] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.006129019,0.115255522,0.005783824,0.016593279,0.000000000],[0.005376747,0.004290052,0.014193898,0.005732144,0.000000000],[0.028279097,0.082273219,0.006414222,0.670548436,0.000000000],[0.014086021,0.006350540,0.005631856,0.013062123,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [2] | Right Index [3] // Basepair G346 - U318 cWW HairpinNode | Num Bases [1] | Left Index [3] | Right Index [3] | Norm Constant [1.000000000000000] // Hairpin node type * Interaction | Interacting Bases [1,1] | Pair Probability [[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,1.000000000]] // Hairpin for truncationSequences of instances from IL_80348.3:
> IL_80348.3 IL_3U5F_020 U 345 A 323 UG*UUUCGA > IL_80348.3 IL_1FJG_012 A 274 U 252 AG*UAGU > IL_80348.3 IL_4IOA_023 U 860 A 944 UG*UUA