| Column number: Node in JAR3D model: Insertion positions indicated by I: Position in motif group: | 1 1 I | 2 2 1 | 3 3 I | 4 6 2 | 5 6 I | 6 7 | 7 6 I | 8 6 3 | 9 5 I | 10 4 4 | 11 3 I | 12 2 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_42251.1_Instance_1 IL_42251.1_IL_4FNJ_003_U27_A11 | U | G | C | U | A | A | ||||||||||||||
| IL_42251.1_Sequence_1 IL_42251.1_IL_4FNJ_003_U27_A11 | U | G | * | C | U | A | A | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_42251.1_Instance_2 IL_42251.1_IL_1U6B_009_U162_A150 | U | G | C | U | A | A | ||||||||||||||
| IL_42251.1_Sequence_2 IL_42251.1_IL_1U6B_009_U162_A150 | U | G | * | C | U | A | A | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_42251.1_Instance_3 IL_42251.1_IL_1QA6_001_G109_C129 | G | UA | G | C | A | U | C | |||||||||||||
| IL_42251.1_Sequence_3 IL_42251.1_IL_1QA6_001_G109_C129 | G | UA | G | * | C | A | U | C | true | 84 | 0 | 0 | 1.51 | |||||||
| IL_42251.1_Instance_4 IL_42251.1_IL_2QBG_043_G1059_C1079 | G | UU | G | C | A | U | C | |||||||||||||
| IL_42251.1_Sequence_4 IL_42251.1_IL_2QBG_043_G_1059_C_1079 | G | UU | G | * | C | A | U | C | true | 93 | 0 | 0 | 0.66 |
1 6 cWW 2 3 cWW 2 4 s55 3 4 s35 4 5 s35 5 6 cSHJAR3D SCFG/MRF model for IL_42251.1:
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 U27 - A11 from junction ClusterNode | Deletion Probability [0.0000001250000000] | Num Left Bases [1] | Num Right Bases [2] | Left Index [1] | Right Index [6] | Norm Constant [0.254951209121093] // Cluster node U27:U27 and A10:A11 Interaction | Interacting Bases [1,3] | Pair Probability [[0.009469891,0.020059356,0.010603791,0.196533016,0.000000000],[0.020450148,0.008797341,0.197253072,0.011592952,0.000000000],[0.010539143,0.219155954,0.002110264,0.025117588,0.000000000],[0.219177973,0.011880534,0.025324236,0.011934740,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction U27 - A11 cWW Interaction | Interacting Bases [2,3] | Pair Probability [[0.137818189,0.103088651,0.005213033,0.004518119,0.000000000],[0.106359205,0.100311682,0.001185874,0.104577052,0.000000000],[0.005542935,0.005354284,0.005993321,0.099240131,0.000000000],[0.010111954,0.209208468,0.001185874,0.100291229,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction A10 - A11 cSH InitialNode | Left Length Distribution [0.490496628,0.012262416,0.490803188,0.006131208,0.000306560] | Left Letter Distribution [0.250000000,0.083333333,0.083333333,0.583333333,0.000000000] | 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 [4] // Initial node G28 - U9 from junction FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.416666667,0.083333333,0.083333333,0.416666667,0.000000000] | Position [2] | Left Index [2] | Right Index [4] // Fixed node on right InitialNode | Left Length Distribution [1.000000000] | 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 [3] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009999033,0.020370037,0.011577394,0.189754219,0.000000000],[0.016871198,0.008244913,0.204374808,0.013008374,0.000000000],[0.011431659,0.249278495,0.002108170,0.027040831,0.000000000],[0.188658474,0.013655008,0.023325621,0.010301767,0.000000000],[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 [2] | Right Index [3] // Basepair G28 - C8 cWW HairpinNode | Num Bases [1] | Left Index [3] | Right Index [3] | 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_42251.1:
> IL_42251.1 IL_4FNJ_003 U 27 A 11 UG*CUAA > IL_42251.1 IL_1U6B_009 U 162 A 150 UG*CUAA > IL_42251.1 IL_1QA6_001 G 109 C 129 GUAG*CAUC > IL_42251.1 IL_2QBG_043 G 1059 C 1079 GUUG*CAUC