| 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 4 | 9 6 I | 10 7 5 | 11 7 I | 12 8 6 | 13 8 I | 14 9 | 15 8 I | 16 8 7 | 17 7 I | 18 7 8 | 19 4 I | 20 4 9 | 21 3 I | 22 3 10 | 23 2 I | 24 2 11 | 25 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_97057.3_Instance_1 IL_97057.3_IL_3V2F_103_G2737_C2767 | G | A | U | A | A | C | G | G | A | A | G | C | ||||||||||||||||||
| IL_97057.3_Sequence_1 IL_97057.3_IL_3V2F_103_G_2737_C_2767 | G | A | U | A | A | C | * | G | G | A | A | G | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_97057.3_Instance_2 IL_97057.3_IL_4IOA_100_G2717_C2747 | G | A | U | A | A | C | G | G | A | A | G | C | ||||||||||||||||||
| IL_97057.3_Sequence_2 IL_97057.3_IL_4IOA_100_G_2717_C_2747 | G | A | U | A | A | C | * | G | G | A | A | G | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_97057.3_Instance_3 IL_97057.3_IL_1S72_094_G2772_C2802 | G | G | U | A | A | G | C | G | A | A | A | C | ||||||||||||||||||
| IL_97057.3_Sequence_3 IL_97057.3_IL_1S72_094_G_2772_C_2802 | G | G | U | A | A | G | * | C | G | A | A | A | C | true | 98 | 0 | 0 | 0.33 | ||||||||||||
| IL_97057.3_Instance_4 IL_97057.3_IL_4A1B_054_G1193_C1360 | G | A | U | A | A | G | C | G | A | U | A | C | ||||||||||||||||||
| IL_97057.3_Sequence_4 IL_97057.3_IL_4A1B_054_G_1193_C_1360 | G | A | U | A | A | G | * | C | G | A | U | A | C | true | 92 | 0 | 0 | 1.19 | ||||||||||||
| IL_97057.3_Instance_5 IL_97057.3_IL_2QBG_105_G2737_C2767 | G | A | U | A | A | G | C | G | A | A | A | C | ||||||||||||||||||
| IL_97057.3_Sequence_5 IL_97057.3_IL_2QBG_105_G_2737_C_2767 | G | A | U | A | A | G | * | C | G | A | A | A | C | true | 99 | 0 | 0 | 0.10 | ||||||||||||
| IL_97057.3_Instance_6 IL_97057.3_IL_1S72_019_A562_U595 | A | C | G | A | A | U | A | G | A | C | U | |||||||||||||||||||
| IL_97057.3_Sequence_6 IL_97057.3_IL_1S72_019_A562_U595 | A | C | G | A | A | U | * | A | G | A | C | U | true | 57 | 0 | 0 | 6.52 |
1 2 s35 1 11 cWW 2 3 s35 2 10 cWW 3 4 s35 3 8 s33 3 9 tWH 4 5 s35 4 9 s55 5 6 s35 5 8 tHS 6 7 cWW 6 8 s55 7 8 s35 9 10 s35 10 11 s35 8 4 6BPh 5 8 6BRJAR3D SCFG/MRF model for IL_97057.3:
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 [11] // Initial node G2737 - C2767 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009658942,0.020573664,0.011039066,0.199029485,0.000000000],[0.017014882,0.008233155,0.197928445,0.012283979,0.000000000],[0.010917232,0.250544482,0.002068166,0.026564951,0.000000000],[0.187407283,0.012824330,0.022854039,0.011057898,0.000000000],[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 [11] // Basepair G2737 - C2767 cWW BasepairNode | Deletion Probability [0.0000002938397278] | Pair Probability [[0.260225098,0.014136576,0.300019388,0.015073987,0.000000000],[0.012430390,0.032340569,0.017238234,0.029113976,0.000000000],[0.205435835,0.017393028,0.003392668,0.015657552,0.000000000],[0.014952671,0.037776680,0.013879957,0.010933390,0.000000000],[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 [0.170928484,0.821824149,0.006905511,0.000341857] | Right Letter Distribution [0.642857143,0.071428571,0.071428571,0.214285714,0.000000000] | Left Index [2] | Right Index [10] // Basepair A2738 - G2766 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.024501698,0.005138581,0.025205867,0.005138581,0.000000000],[0.051041372,0.042662605,0.034109102,0.005138581,0.000000000],[0.033070509,0.005138581,0.060137537,0.023969980,0.000000000],[0.561027929,0.005138581,0.063392315,0.055188180,0.000000000],[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 [3] | Right Index [9] // Basepair U2739 - A2764 tWH FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.812500000,0.062500000,0.062500000,0.062500000,0.000000000] | Position [1] | Left Index [4] | Right Index [8] // 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 [5] | Right Index [8] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.042066554,0.042440821,0.411397606,0.045724856,0.000000000],[0.049033954,0.044484169,0.003547938,0.044050066,0.000000000],[0.000506848,0.000506848,0.017189016,0.000506848,0.000000000],[0.002413547,0.000506848,0.295117230,0.000506848,0.000000000],[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 [5] | Right Index [8] // Basepair A2741 - G2763 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009584624,0.018740933,0.010993637,0.188045044,0.000000000],[0.018868970,0.008321615,0.219178300,0.012512409,0.000000000],[0.010972503,0.229485735,0.002069217,0.024688148,0.000000000],[0.198595669,0.012606418,0.024755977,0.010580801,0.000000000],[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 [6] | Right Index [7] // Basepair C2742 - G2762 cWW HairpinNode | Num Bases [1] | Left Index [7] | Right Index [7] | 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_97057.3:
> IL_97057.3 IL_3V2F_103 G 2737 C 2767 GAUAAC*GGAAGC > IL_97057.3 IL_4IOA_100 G 2717 C 2747 GAUAAC*GGAAGC > IL_97057.3 IL_1S72_094 G 2772 C 2802 GGUAAG*CGAAAC > IL_97057.3 IL_4A1B_054 G 1193 C 1360 GAUAAG*CGAUAC > IL_97057.3 IL_2QBG_105 G 2737 C 2767 GAUAAG*CGAAAC > IL_97057.3 IL_1S72_019 A 562 U 595 ACGAAU*AGACU