| 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_58291.4_Instance_1 IL_58291.4_IL_4BPP_042_C940_G844 | C | A | U | U | A | G | ||||||||||||||
| IL_58291.4_Sequence_1 IL_58291.4_IL_4BPP_042_C940_G844 | C | A | U | U | * | A | G | true | 88 | 0 | 0 | 1.14 | ||||||||
| IL_58291.4_Instance_2 IL_58291.4_IL_3U5F_045_C962_G866 | C | A | U | U | A | G | ||||||||||||||
| IL_58291.4_Sequence_2 IL_58291.4_IL_3U5F_045_C962_G866 | C | A | U | U | * | A | G | true | 88 | 0 | 0 | 1.14 | ||||||||
| IL_58291.4_Instance_3 IL_58291.4_IL_1S72_008_C245_G266 | C | G | A | A | U | G | ||||||||||||||
| IL_58291.4_Sequence_3 IL_58291.4_IL_1S72_008_C245_G266 | C | G | A | A | * | U | G | true | 64 | 0 | 0 | 3.37 | ||||||||
| IL_58291.4_Instance_4 IL_58291.4_IL_3V2F_047_G1310_C1604 | G | G | U | U | A | C | ||||||||||||||
| IL_58291.4_Sequence_4 IL_58291.4_IL_3V2F_047_G_1310_C_1604 | G | G | U | U | * | A | C | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_58291.4_Instance_5 IL_58291.4_IL_4IOA_022_U857_G945 | U | G | U | U | A | G | ||||||||||||||
| IL_58291.4_Sequence_5 IL_58291.4_IL_4IOA_022_U857_G945 | U | G | U | U | * | A | G | true | 87 | 0 | 0 | 1.28 | ||||||||
| IL_58291.4_Instance_6 IL_58291.4_IL_1NTB_003_C15_G111 | C | U | U | C | G | G | ||||||||||||||
| IL_58291.4_Sequence_6 IL_58291.4_IL_1NTB_003_C15_G111 | C | U | U | C | * | G | G | true | 69 | 0 | 0 | 2.90 | ||||||||
| IL_58291.4_Instance_7 IL_58291.4_IL_4A1B_065_G1518_C1860 | G | G | U | U | A | C | ||||||||||||||
| IL_58291.4_Sequence_7 IL_58291.4_IL_4A1B_065_G_1518_C_1860 | G | G | U | U | * | A | C | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_58291.4_Instance_8 IL_58291.4_IL_1S72_050_G1416_C1679 | G | G | U | U | A | C | ||||||||||||||
| IL_58291.4_Sequence_8 IL_58291.4_IL_1S72_050_G_1416_C_1679 | G | G | U | U | * | A | C | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_58291.4_Instance_9 IL_58291.4_IL_3U5H_067_G1492_C1836 | G | G | U | U | A | C | ||||||||||||||
| IL_58291.4_Sequence_9 IL_58291.4_IL_3U5H_067_G_1492_C_1836 | G | G | U | U | * | A | C | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_58291.4_Instance_10 IL_58291.4_IL_4IOA_048_G1323_C1620 | G | G | U | U | A | C | ||||||||||||||
| IL_58291.4_Sequence_10 IL_58291.4_IL_4IOA_048_G_1323_C_1620 | G | G | U | U | * | A | C | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 4 s35 1 6 cWW 3 4 s53 3 5 s55 4 5 cWW 4 6 s55 5 6 s35 3 2 7BR 4 2 7BRJAR3D SCFG/MRF model for IL_58291.4:
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 [6] // Initial node C940 - G844 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009654467,0.017382325,0.011239422,0.164655864,0.000000000],[0.045073158,0.008564718,0.216916730,0.012934053,0.000000000],[0.011258298,0.226039685,0.002121174,0.023042289,0.000000000],[0.165191753,0.012837436,0.063061178,0.010027450,0.000000000],[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 [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [6] // Basepair C940 - G844 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.208333333,0.041666667,0.625000000,0.125000000,0.000000000] | Position [1] | Left Index [2] | Right Index [5] // Fixed node on left InitialNode | 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 [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 [0.105769231,0.009615385,0.009615385,0.875000000,0.000000000] | Position [1] | Left Index [3] | Right Index [5] // Fixed node on left InitialNode | 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 [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 [[0.005775413,0.013436787,0.006224462,0.139814675,0.000000000],[0.014288816,0.005736381,0.135084521,0.007289412,0.000000000],[0.004464821,0.086521219,0.000958184,0.010718856,0.000000000],[0.472864381,0.019345217,0.051729227,0.025747629,0.000000000],[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 U943 - A843 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_58291.4:
> IL_58291.4 IL_4BPP_042 C 940 G 844 CAUU*AG > IL_58291.4 IL_3U5F_045 C 962 G 866 CAUU*AG > IL_58291.4 IL_1S72_008 C 245 G 266 CGAA*UG > IL_58291.4 IL_3V2F_047 G 1310 C 1604 GGUU*AC > IL_58291.4 IL_4IOA_022 U 857 G 945 UGUU*AG > IL_58291.4 IL_1NTB_003 C 15 G 111 CUUC*GG > IL_58291.4 IL_4A1B_065 G 1518 C 1860 GGUU*AC > IL_58291.4 IL_1S72_050 G 1416 C 1679 GGUU*AC > IL_58291.4 IL_3U5H_067 G 1492 C 1836 GGUU*AC > IL_58291.4 IL_4IOA_048 G 1323 C 1620 GGUU*AC