| 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 | 11 5 I | 12 5 5 | 13 4 I | 14 4 6 | 15 3 I | 16 3 7 | 17 2 I | 18 2 8 | 19 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_21333.2_Instance_1 IL_21333.2_IL_3V2F_054_C1437_G1555 | C | U | A | G | C | G | A | A | G | |||||||||||||||
| IL_21333.2_Sequence_1 IL_21333.2_IL_3V2F_054_C_1437_G_1555 | C | U | A | G | * | C | G | A | A | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| IL_21333.2_Instance_2 IL_21333.2_IL_3V2F_011_A357_U284 | A | U | A | G | C | G | A | A | U | |||||||||||||||
| IL_21333.2_Sequence_2 IL_21333.2_IL_3V2F_011_A357_U284 | A | U | A | G | * | C | G | A | A | U | true | 99 | 0 | 0 | 0.09 | |||||||||
| IL_21333.2_Instance_3 IL_21333.2_IL_1LNG_002_G223_C198 | G | U | A | G | C | G | A | ACC | C | |||||||||||||||
| IL_21333.2_Sequence_3 IL_21333.2_IL_1LNG_002_G223_C198 | G | U | A | G | * | C | G | A | ACC | C | true | 76 | 0 | 0 | 2.80 | |||||||||
| IL_21333.2_Instance_4 IL_21333.2_IL_4IOA_055_C1451_G1571 | C | U | A | U | A | A | A | C | G | |||||||||||||||
| IL_21333.2_Sequence_4 IL_21333.2_IL_4IOA_055_C_1451_G_1571 | C | U | A | U | * | A | A | A | C | G | true | 97 | 0 | 0 | 0.34 |
1 2 s35 1 8 cWW 2 3 s35 2 6 s33 2 7 tWH 2 8 s55 3 4 s35 3 6 tHS 3 7 s55 4 5 cWW 4 6 s55 5 6 s35 7 8 s35 3 6 6BRJAR3D SCFG/MRF model for IL_21333.2:
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 [8] // Initial node C1437 - G1555 from junction BasepairNode | Deletion Probability [0.0000000085968736] | Pair Probability [[0.009686956,0.019521236,0.011016627,0.204071877,0.000000000],[0.019329018,0.008543656,0.222887911,0.012600826,0.000000000],[0.011048977,0.211935094,0.002108037,0.025238064,0.000000000],[0.192754738,0.012456923,0.025137840,0.011662222,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.009140768,0.731261426,0.012187690,0.244210847,0.003046923,0.000152346] | Right Letter Distribution [0.437500000,0.437500000,0.062500000,0.062500000,0.000000000] | Left Index [1] | Right Index [8] // Basepair C1437 - G1555 cWW BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.025472342,0.005342148,0.026204408,0.005342148,0.000000000],[0.053063396,0.044352700,0.035460347,0.005342148,0.000000000],[0.005342148,0.005342148,0.062519909,0.024919560,0.000000000],[0.572676343,0.005342148,0.065903626,0.057374481,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [7] // Basepair U1438 - A1553 tWH BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.130969856,0.120901106,0.160425389,0.125458163,0.000000000],[0.127242150,0.102549889,0.001382179,0.120832807,0.000000000],[0.001382179,0.001382179,0.008196369,0.001382179,0.000000000],[0.007812668,0.001382179,0.087318529,0.001382179,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [6] // Basepair A1439 - G1552 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009734462,0.020214697,0.011090593,0.193143617,0.000000000],[0.018660673,0.008521127,0.200813940,0.012300663,0.000000000],[0.010985401,0.234217224,0.002109217,0.026079210,0.000000000],[0.203918224,0.012767771,0.024324928,0.011118254,0.000000000],[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 G1440 - C1551 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_21333.2:
> IL_21333.2 IL_3V2F_054 C 1437 G 1555 CUAG*CGAAG > IL_21333.2 IL_3V2F_011 A 357 U 284 AUAG*CGAAU > IL_21333.2 IL_1LNG_002 G 223 C 198 GUAG*CGAACCC > IL_21333.2 IL_4IOA_055 C 1451 G 1571 CUAU*AAACG