| 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 5 I | 10 6 5 | 11 6 I | 12 7 6 | 13 7 I | 14 8 | 15 7 I | 16 7 7 | 17 6 I | 18 6 8 | 19 5 I | 20 5 9 | 21 4 I | 22 4 10 | 23 3 I | 24 3 11 | 25 2 I | 26 2 12 | 27 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_72158.3_Instance_1 IL_72158.3_IL_3U5H_086_C1918_G1934 | C | G | U | A | A | C | G | G | A | U | A | A | G | |||||||||||||||||||
| IL_72158.3_Sequence_1 IL_72158.3_IL_3U5H_086_C_1918_G_1934 | C | G | U | A | A | C | * | G | G | A | U | A | A | G | true | 97 | 0 | 0 | 0.59 | |||||||||||||
| IL_72158.3_Instance_2 IL_72158.3_IL_4IOA_063_C1703_G1719 | C | G | U | A | A | C | G | A | A | G | A | A | G | |||||||||||||||||||
| IL_72158.3_Sequence_2 IL_72158.3_IL_4IOA_063_C_1703_G_1719 | C | G | U | A | A | C | * | G | A | A | G | A | A | G | true | 98 | 0 | 0 | 0.29 | |||||||||||||
| IL_72158.3_Instance_3 IL_72158.3_IL_2QBG_066_C1686_G1702 | C | G | U | A | A | C | G | G | A | G | A | A | G | |||||||||||||||||||
| IL_72158.3_Sequence_3 IL_72158.3_IL_2QBG_066_C_1686_G_1702 | C | G | U | A | A | C | * | G | G | A | G | A | A | G | true | 100 | 0 | 0 | 0.00 | |||||||||||||
| IL_72158.3_Instance_4 IL_72158.3_IL_1S72_063_C1764_G1780 | C | G | U | A | C | C | G | A | A | G | A | A | G | |||||||||||||||||||
| IL_72158.3_Sequence_4 IL_72158.3_IL_1S72_063_C_1764_G_1780 | C | G | U | A | C | C | * | G | A | A | G | A | A | G | true | 99 | 0 | 0 | 0.21 | |||||||||||||
| IL_72158.3_Instance_5 IL_72158.3_IL_4A1B_082_C1942_G1958 | C | G | U | A | A | C | G | G | A | U | A | A | G | |||||||||||||||||||
| IL_72158.3_Sequence_5 IL_72158.3_IL_4A1B_082_C_1942_G_1958 | C | G | U | A | A | C | * | G | G | A | U | A | A | G | true | 97 | 0 | 0 | 0.59 | |||||||||||||
| IL_72158.3_Instance_6 IL_72158.3_IL_3V2F_065_C1686_G1702 | C | G | U | A | A | C | G | G | A | G | A | A | G | |||||||||||||||||||
| IL_72158.3_Sequence_6 IL_72158.3_IL_3V2F_065_C_1686_G_1702 | C | G | U | A | A | C | * | G | G | A | G | A | A | G | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 12 cWW 2 3 s35 2 11 tSH 2 12 s55 3 9 s35 3 10 tSH 3 11 s55 4 5 s35 4 8 s33 4 9 tHH 4 10 s55 5 6 s35 5 8 tHS 6 7 cWW 6 8 s55 7 8 s35 8 9 s33 9 10 s55 10 11 s35 11 12 s35 9 4 6BPh 4 9 6BPh 2 10 6BPh 3 10 6BPh 11 2 6BR 5 8 6BRJAR3D SCFG/MRF model for IL_72158.3:
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 [12] // Initial node C1918 - G1934 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009652285,0.016556223,0.011218237,0.185136336,0.000000000],[0.019989741,0.008244143,0.263484907,0.013400077,0.000000000],[0.011361251,0.200559255,0.002068811,0.022890146,0.000000000],[0.186211624,0.012765515,0.026535995,0.009925452,0.000000000],[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 [12] // Basepair C1918 - G1934 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.042066554,0.049033954,0.000506848,0.002413547,0.000000000],[0.042440821,0.044484169,0.000506848,0.000506848,0.000000000],[0.411397606,0.003547938,0.017189016,0.295117230,0.000000000],[0.045724856,0.044050066,0.000506848,0.000506848,0.000000000],[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 [2] | Right Index [11] // Basepair G1919 - A1933 tSH BasepairNode | Deletion Probability [0.0000001231336240] | Pair Probability [[0.046567858,0.044178385,0.000505204,0.002570300,0.000000000],[0.047179522,0.042646259,0.000505204,0.000505204,0.000000000],[0.045576476,0.000505204,0.002895928,0.023386205,0.000000000],[0.410246278,0.325659125,0.003536425,0.003536425,0.000000000],[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 [0.008193363,0.983203605,0.008193363,0.000409668] | Right Letter Distribution [0.062500000,0.062500000,0.562500000,0.312500000,0.000000000] | Left Index [3] | Right Index [10] // Basepair U1920 - A1932 tSH BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.882009394,0.023268940,0.005754502,0.005763247,0.000000000],[0.014886891,0.000164675,0.014156831,0.011697190,0.000000000],[0.007201315,0.013664107,0.000403434,0.000164675,0.000000000],[0.007083505,0.013451945,0.000164675,0.000164675,0.000000000],[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 [4] | Right Index [9] // Basepair A1921 - A1930 tHH BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.124344693,0.114960517,0.166649233,0.120754020,0.000000000],[0.135520847,0.105390881,0.001339703,0.116398741,0.000000000],[0.001339703,0.001339703,0.007445662,0.001339703,0.000000000],[0.007159152,0.001339703,0.093338037,0.001339703,0.000000000],[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 A1922 - G1929 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009652285,0.016556223,0.011218237,0.185136336,0.000000000],[0.019989741,0.008244143,0.263484907,0.013400077,0.000000000],[0.011361251,0.200559255,0.002068811,0.022890146,0.000000000],[0.186211624,0.012765515,0.026535995,0.009925452,0.000000000],[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 C1923 - G1928 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_72158.3:
> IL_72158.3 IL_3U5H_086 C 1918 G 1934 CGUAAC*GGAUAAG > IL_72158.3 IL_4IOA_063 C 1703 G 1719 CGUAAC*GAAGAAG > IL_72158.3 IL_2QBG_066 C 1686 G 1702 CGUAAC*GGAGAAG > IL_72158.3 IL_1S72_063 C 1764 G 1780 CGUACC*GAAGAAG > IL_72158.3 IL_4A1B_082 C 1942 G 1958 CGUAAC*GGAUAAG > IL_72158.3 IL_3V2F_065 C 1686 G 1702 CGUAAC*GGAGAAG