| 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 4 I | 6 7 3 | 7 7 I | 8 8 | 9 7 I | 10 7 4 | 11 6 I | 12 5 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_70173.1_Instance_1 IL_70173.1_IL_4M4O_004_G26_C41 | G | A | G | C | A | C | ||||||||||||||
| IL_70173.1_Sequence_1 IL_70173.1_IL_4M4O_004_G26_C41 | G | A | G | * | C | A | C | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_70173.1_Instance_2 IL_70173.1_IL_4M6D_013_G26_C41 | G | A | G | C | A | C | ||||||||||||||
| IL_70173.1_Sequence_2 IL_70173.1_IL_4M6D_013_G26_C41 | G | A | G | * | C | A | C | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_70173.1_Instance_3 IL_70173.1_IL_3U5H_085_C2333_G1906 | C | U | G | U | A | G | UCG | G | ||||||||||||
| IL_70173.1_Sequence_3 IL_70173.1_IL_3U5H_085_C_2333_G_1906 | C | U | G | U | * | A | G | UCG | G | true | 31 | 0 | 0 | 6.52 | ||||||
| IL_70173.1_Instance_4 IL_70173.1_IL_4A1B_081_C2328_G1930 | C | U | G | U | A | G | UCG | G | ||||||||||||
| IL_70173.1_Sequence_4 IL_70173.1_IL_4A1B_081_C_2328_G_1930 | C | U | G | U | * | A | G | UCG | G | true | 31 | 0 | 0 | 6.52 | ||||||
| IL_70173.1_Instance_5 IL_70173.1_IL_3BNL_002_C6_G18 | C | A | C | G | A | A | G | |||||||||||||
| IL_70173.1_Sequence_5 IL_70173.1_IL_3BNL_002_C6_G18 | C | A | C | * | G | A | A | G | true | 76 | 0 | 0 | 2.30 | |||||||
| IL_70173.1_Instance_6 IL_70173.1_IL_3U5F_093_U1688_G1713 | U | A | G | C | A | G | ||||||||||||||
| IL_70173.1_Sequence_6 IL_70173.1_IL_3U5F_093_U_1688_G_1713 | U | A | G | * | C | A | G | true | 92 | 0 | 0 | 0.80 |
1 2 s35 1 6 cWW 2 3 s35 2 6 s55 3 4 cWWJAR3D SCFG/MRF model for IL_70173.1:
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 G26 - C41 from junction BasepairNode | Deletion Probability [0.0000001161691144] | Pair Probability [[0.010184077,0.017311551,0.011890069,0.160839123,0.000000000],[0.066348660,0.009394494,0.205839722,0.013755405,0.000000000],[0.011970373,0.194354531,0.002289699,0.022772678,0.000000000],[0.162124296,0.013376844,0.086913343,0.010635134,0.000000000],[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 [0.659069065,0.005492242,0.003020733,0.329534532,0.002746121,0.000137306] | Right Letter Distribution [0.062500000,0.312500000,0.312500000,0.312500000,0.000000000] | Left Index [1] | Right Index [6] // Basepair G26 - C41 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.562500000,0.062500000,0.062500000,0.312500000,0.000000000] | Position [1] | Left Index [2] | Right Index [5] // Fixed node on left InitialNode | Left Length Distribution [0.661815186,0.335026775,0.003020733,0.000137306] | Left Letter Distribution [0.125000000,0.125000000,0.625000000,0.125000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [5] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.562500000,0.062500000,0.312500000,0.062500000,0.000000000] | Position [2] | Left Index [3] | Right Index [5] // 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 [0.826344012,0.171868555,0.001718686,0.000068747] | Right Letter Distribution [0.500000000,0.166666667,0.166666667,0.166666667,0.000000000] | Left Index [3] | Right Index [4] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009437919,0.019210905,0.010698678,0.190434945,0.000000000],[0.019466633,0.008476484,0.206354808,0.011943313,0.000000000],[0.010656397,0.226970317,0.002069833,0.024665910,0.000000000],[0.211536085,0.012131395,0.024801198,0.011145179,0.000000000],[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 [3] | Right Index [4] // Basepair G28 - C39 cWW HairpinNode | Num Bases [1] | Left Index [4] | Right Index [4] | 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_70173.1:
> IL_70173.1 IL_4M4O_004 G 26 C 41 GAG*CAC > IL_70173.1 IL_4M6D_013 G 26 C 41 GAG*CAC > IL_70173.1 IL_3U5H_085 C 2333 G 1906 CUGU*AGUCGG > IL_70173.1 IL_4A1B_081 C 2328 G 1930 CUGU*AGUCGG > IL_70173.1 IL_3BNL_002 C 6 G 18 CAC*GAAG > IL_70173.1 IL_3U5F_093 U 1688 G 1713 UAG*CAG