| 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 4 I | 6 5 3 | 7 6 I | 8 7 4 | 9 7 I | 10 8 | 11 7 I | 12 7 5 | 13 2 I | 14 2 6 | 15 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_76709.2_Instance_1 IL_76709.2,IL_1MJI_003,G51_C31 | G | A | A | G | C | C | ||||||||||||||
| IL_76709.2_Sequence_1 IL_76709.21MJI_G51_C31 | G | A | A | G | * | C | C | true | 94 | 0 | 0 | 0.54 | ||||||||
| IL_76709.2_Instance_2 IL_76709.2,IL_8CRE_011,G238_C177 | G | A | C | C | G | C | ||||||||||||||
| IL_76709.2_Sequence_2 IL_76709.28CRE_G238_C177 | G | A | C | C | * | G | C | true | 95 | 0 | 0 | 0.44 | ||||||||
| IL_76709.2_Instance_3 IL_76709.2,IL_1KXK_001,U8_G62 | U | A | U | C | G | G | ||||||||||||||
| IL_76709.2_Sequence_3 IL_76709.21KXK_U8_G62 | U | A | U | C | * | G | G | true | 95 | 0 | 0 | 0.44 | ||||||||
| IL_76709.2_Instance_4 IL_76709.2,IL_4V9F_045,A1286_U1270 | A | A | U | C | G | U | ||||||||||||||
| IL_76709.2_Sequence_4 IL_76709.24V9F_A_1286_U_1270 | A | A | U | C | * | G | U | true | 100 | 0 | 0 | 0.00 |
1 4 s35 1 6 cWW 2 3 s35 4 5 cWW 4 6 s55 5 6 s35JAR3D SCFG/MRF model for IL_76709.2:
Character Definition | A,C,G,U,* // Identity and order of characters in matrices InitialNode | Left Length Distribution [0.999900000,0.000100000] | Left Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Right Length Distribution [0.999900000,0.000100000] | Right Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Left Index [1] | Right Index [6] // Initial node BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.009806824,0.018766555,0.011367144,0.167526898,0.000000000],[0.086859697,0.013882967,0.157554046,0.012985623,0.000000000],[0.011378688,0.179013885,0.002335668,0.029770302,0.000000000],[0.166658414,0.013064418,0.107826953,0.011201919,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [6] // Basepair G51 - C31 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.750000000,0.083333333,0.083333333,0.083333333,0.000000000] | Position [1] | Left Index [2] | Right Index [5] // Fixed node on left for 1MJI|1|D|C|31 InitialNode | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [5] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.250000000,0.250000000,0.083333333,0.416666667,0.000000000] | Position [1] | Left Index [3] | Right Index [5] // Fixed node on left for 1MJI|1|D|G|51 InitialNode | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [5] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009401513,0.017549866,0.010782207,0.195587161,0.000000000],[0.019107025,0.009484786,0.232344244,0.013401212,0.000000000],[0.010842591,0.210218542,0.002049451,0.023823814,0.000000000],[0.196851077,0.013154215,0.025444740,0.009957556,0.000000000],[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 [4] | Right Index [5] // Basepair G54 - C30 cWW HairpinNode | Num Bases [1] | Left Index [5] | Right Index [5] | 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_76709.2:
> IL_76709.2 1MJI G 51 C 31 GAAG*CC > IL_76709.2 8CRE G 238 C 177 GACC*GC > IL_76709.2 1KXK U 8 G 62 UAUC*GG > IL_76709.2 4V9F A 1286 U 1270 AAUC*GU