| 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 4 3 | 7 4 I | 8 5 | 9 4 I | 10 4 4 | 11 3 I | 12 3 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_37104.3_Instance_1 IL_37104.3_IL_1S72_076_C2122_G2272 | C | A | G | C | G | G | G | |||||||||||||
| IL_37104.3_Sequence_1 IL_37104.3_IL_1S72_076_C_2122_G_2272 | C | A | G | * | C | G | G | G | true | 100 | 0 | 0 | 0.00 | |||||||
| IL_37104.3_Instance_2 IL_37104.3_IL_3V2F_079_C2081_G2239 | C | A | G | C | G | G | G | |||||||||||||
| IL_37104.3_Sequence_2 IL_37104.3_IL_3V2F_079_C_2081_G_2239 | C | A | G | * | C | G | G | G | true | 100 | 0 | 0 | 0.00 | |||||||
| IL_37104.3_Instance_3 IL_37104.3_IL_3V2F_012_C288_G353 | C | A | G | U | G | G | G | |||||||||||||
| IL_37104.3_Sequence_3 IL_37104.3_IL_3V2F_012_C288_G353 | C | A | G | * | U | G | G | G | true | 96 | 0 | 0 | 0.40 | |||||||
| IL_37104.3_Instance_4 IL_37104.3_IL_4IOA_082_C2276_G2300 | C | A | A | U | G | UA | G | |||||||||||||
| IL_37104.3_Sequence_4 IL_37104.3_IL_4IOA_082_C_2276_G_2300 | C | A | A | * | U | G | UA | G | true | 75 | 0 | 0 | 2.34 | |||||||
| IL_37104.3_Instance_5 IL_37104.3_IL_4A1B_102_C2655_G2679 | C | A | G | C | G | UA | G | |||||||||||||
| IL_37104.3_Sequence_5 IL_37104.3_IL_4A1B_102_C_2655_G_2679 | C | A | G | * | C | G | UA | G | true | 78 | 0 | 0 | 2.09 | |||||||
| IL_37104.3_Instance_6 IL_37104.3_IL_3U5H_104_C2666_G2690 | C | A | U | A | G | UA | G | |||||||||||||
| IL_37104.3_Sequence_6 IL_37104.3_IL_3U5H_104_C_2666_G_2690 | C | A | U | * | A | G | UA | G | true | 75 | 0 | 0 | 2.35 | |||||||
| IL_37104.3_Instance_7 IL_37104.3_IL_1S72_078_C2331_G2355 | C | A | G | C | G | AA | G | |||||||||||||
| IL_37104.3_Sequence_7 IL_37104.3_IL_1S72_078_C_2331_G_2355 | C | A | G | * | C | G | AA | G | true | 83 | 0 | 0 | 1.64 | |||||||
| IL_37104.3_Instance_8 IL_37104.3_IL_2QBG_082_U2081_G2239 | U | A | G | U | G | G | G | |||||||||||||
| IL_37104.3_Sequence_8 IL_37104.3_IL_2QBG_082_U_2081_G_2239 | U | A | G | * | U | G | G | G | true | 90 | 0 | 0 | 0.93 | |||||||
| IL_37104.3_Instance_9 IL_37104.3_IL_3U5H_100_U2423_G2607 | U | A | G | U | G | G | G | |||||||||||||
| IL_37104.3_Sequence_9 IL_37104.3_IL_3U5H_100_U_2423_G_2607 | U | A | G | * | U | G | G | G | true | 90 | 0 | 0 | 0.93 | |||||||
| IL_37104.3_Instance_10 IL_37104.3_IL_4IOA_077_U2064_G2218 | U | A | G | C | G | G | G | |||||||||||||
| IL_37104.3_Sequence_10 IL_37104.3_IL_4IOA_077_U_2064_G_2218 | U | A | G | * | C | G | G | G | true | 94 | 0 | 0 | 0.53 | |||||||
| IL_37104.3_Instance_11 IL_37104.3_IL_4BPP_026_C492_G479 | C | U | A | C | G | G | G | |||||||||||||
| IL_37104.3_Sequence_11 IL_37104.3_IL_4BPP_026_C492_G479 | C | U | A | C | * | G | G | G | true | 57 | 0 | 0 | 4.05 |
1 2 s35 1 5 s33 1 6 cWW 2 3 s35 2 5 tHS 2 6 s55 3 4 cWW 3 5 s55 4 5 s35 2 5 6BRJAR3D SCFG/MRF model for IL_37104.3:
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 [6] // Initial node C2122 - G2272 from junction BasepairNode | Deletion Probability [0.0000000176048942] | Pair Probability [[0.009966159,0.015204404,0.011689454,0.138288258,0.000000000],[0.093322444,0.009751015,0.227094929,0.013683603,0.000000000],[0.011877006,0.149074025,0.002321010,0.019779227,0.000000000],[0.140763174,0.012816665,0.133876049,0.010492577,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.904811823,0.094550986,0.000616637,0.000020555] | Left Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | Right Length Distribution [0.092564150,0.542688047,0.362904712,0.001761176,0.000081915] | Right Letter Distribution [0.343750000,0.031250000,0.406250000,0.218750000,0.000000000] | Left Index [1] | Right Index [6] // Basepair C2122 - G2272 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.102828044,0.103742905,0.222993778,0.111770444,0.000000000],[0.119859249,0.108737694,0.001238947,0.107676566,0.000000000],[0.001238947,0.001238947,0.006002437,0.001238947,0.000000000],[0.005899707,0.001238947,0.103055496,0.001238947,0.000000000],[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 [2] | Right Index [5] // Basepair A2123 - G2270 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.010765928,0.091598712,0.011446582,0.152351597,0.000000000],[0.016272570,0.008695101,0.155838320,0.012296204,0.000000000],[0.011310571,0.195594189,0.002302334,0.131380470,0.000000000],[0.150288428,0.012933719,0.020335074,0.016590203,0.000000000],[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 [3] | Right Index [4] // Basepair G2124 - C2269 cWW HairpinNode | Num Bases [1] | Left Index [4] | Right Index [4] | 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_37104.3:
> IL_37104.3 IL_1S72_076 C 2122 G 2272 CAG*CGGG > IL_37104.3 IL_3V2F_079 C 2081 G 2239 CAG*CGGG > IL_37104.3 IL_3V2F_012 C 288 G 353 CAG*UGGG > IL_37104.3 IL_4IOA_082 C 2276 G 2300 CAA*UGUAG > IL_37104.3 IL_4A1B_102 C 2655 G 2679 CAG*CGUAG > IL_37104.3 IL_3U5H_104 C 2666 G 2690 CAU*AGUAG > IL_37104.3 IL_1S72_078 C 2331 G 2355 CAG*CGAAG > IL_37104.3 IL_2QBG_082 U 2081 G 2239 UAG*UGGG > IL_37104.3 IL_3U5H_100 U 2423 G 2607 UAG*UGGG > IL_37104.3 IL_4IOA_077 U 2064 G 2218 UAG*CGGG > IL_37104.3 IL_4BPP_026 C 492 G 479 CUAC*GGG