| 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 7 | 15 8 I | 16 9 | 17 8 I | 18 8 8 | 19 7 I | 20 7 9 | 21 6 I | 22 6 10 | 23 5 I | 24 5 11 | 25 4 I | 26 4 12 | 27 3 I | 28 3 13 | 29 2 I | 30 2 14 | 31 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_25271.2_Instance_1 IL_25271.2_IL_3U5F_011_G143_C172 | G | U | A | U | A | A | C | G | C | U | A | A | U | A | C | |||||||||||||||||||||
| IL_25271.2_Sequence_1 IL_25271.2_IL_3U5F_011_G143_C172 | G | U | A | U | A | A | C | * | G | C | U | A | A | U | A | C | true | 95 | 0 | 0 | 1.03 | |||||||||||||||
| IL_25271.2_Instance_2 IL_25271.2_IL_4BPP_011_G137_C166 | G | G | A | U | A | A | C | G | C | U | A | A | U | A | C | |||||||||||||||||||||
| IL_25271.2_Sequence_2 IL_25271.2_IL_4BPP_011_G137_C166 | G | G | A | U | A | A | C | * | G | C | U | A | A | U | A | C | true | 100 | 0 | 0 | 0.00 | |||||||||||||||
| IL_25271.2_Instance_3 IL_25271.2_IL_2AW7_012_G147_C175 | G | G | A | U | A | A | C | G | C | U | A | A | U | A | C | |||||||||||||||||||||
| IL_25271.2_Sequence_3 IL_25271.2_IL_2AW7_012_G147_C175 | G | G | A | U | A | A | C | * | G | C | U | A | A | U | A | C | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 14 cWW 2 3 s35 2 13 cWW 3 4 s35 3 12 tWH 3 13 s55 4 10 s33 4 11 tWH 5 6 s35 5 10 tHW 5 11 s55 6 7 s35 6 9 tHW 6 10 s55 7 8 cWW 8 9 s35 9 10 s35 11 12 s35 12 13 s35 13 14 s35 9 5 7BPh 7 6 7BPh 14 13 7BPhJAR3D SCFG/MRF model for IL_25271.2:
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 [14] // Initial node G143 - C172 from junction BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.003914340,0.055820081,0.004532224,0.074283445,0.000000000],[0.006604600,0.022593563,0.080006995,0.005092413,0.000000000],[0.004475173,0.606828618,0.000825289,0.010585725,0.000000000],[0.073854492,0.037418864,0.009131325,0.004032852,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [14] // Basepair G143 - C172 cWW BasepairNode | Deletion Probability [0.0000001200211660] | Pair Probability [[0.033086515,0.015955142,0.229039548,0.079143101,0.000000000],[0.017619624,0.006968133,0.076899009,0.032271219,0.000000000],[0.257684928,0.076367016,0.003061163,0.018168131,0.000000000],[0.091537145,0.030518877,0.019792168,0.011888281,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.016116035,0.966962127,0.016116035,0.000805802] | Right Letter Distribution [0.100000000,0.100000000,0.100000000,0.700000000,0.000000000] | Left Index [2] | Right Index [13] // Basepair U144 - A171 cWW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.423793690,0.003946675,0.338433368,0.003946675,0.000000000],[0.031158431,0.014498516,0.022591591,0.003946675,0.000000000],[0.003946675,0.003946675,0.048887368,0.035214972,0.000000000],[0.018818469,0.003946675,0.023364549,0.019558996,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [12] // Basepair A145 - A169 tWH BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.025719646,0.005394014,0.026458819,0.005394014,0.000000000],[0.053578574,0.044783309,0.035804622,0.005394014,0.000000000],[0.005394014,0.005394014,0.063126898,0.025161497,0.000000000],[0.568527570,0.005394014,0.066543467,0.057931515,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [11] // Basepair U146 - A168 tWH BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.025719646,0.053578574,0.005394014,0.568527570,0.000000000],[0.005394014,0.044783309,0.005394014,0.005394014,0.000000000],[0.026458819,0.035804622,0.063126898,0.066543467,0.000000000],[0.005394014,0.005394014,0.025161497,0.057931515,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [10] // Basepair A147 - U167 tHW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.004849642,0.459121292,0.000614279,0.006101612,0.000000000],[0.000614279,0.020347277,0.000614279,0.000614279,0.000000000],[0.034415907,0.398668342,0.004195929,0.002940416,0.000000000],[0.000614279,0.004299951,0.006344208,0.055644030,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [6] | Right Index [9] // Basepair A148 - C166 tHW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.003849333,0.006602625,0.004473835,0.073832405,0.000000000],[0.055803388,0.023014360,0.606655854,0.037407674,0.000000000],[0.004530869,0.079983068,0.000825042,0.009128594,0.000000000],[0.074261230,0.005090890,0.010582560,0.003958272,0.000000000],[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 [7] | Right Index [8] // Basepair C149 - G165 cWW HairpinNode | Num Bases [1] | Left Index [8] | Right Index [8] | 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_25271.2:
> IL_25271.2 IL_3U5F_011 G 143 C 172 GUAUAAC*GCUAAUAC > IL_25271.2 IL_4BPP_011 G 137 C 166 GGAUAAC*GCUAAUAC > IL_25271.2 IL_2AW7_012 G 147 C 175 GGAUAAC*GCUAAUAC