| 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 5 3 | 7 6 I | 8 7 4 | 9 8 I | 10 9 5 | 11 10 I | 12 11 6 | 13 12 I | 14 13 7 | 15 14 I | 16 15 8 | 17 15 I | 18 16 | 19 15 I | 20 15 9 | 21 2 I | 22 2 10 | 23 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_26598.1_Instance_1 IL_26598.1,IL_7JRS_009,G104_C29 | G | G | C | G | U | C | C | C | G | C | ||||||||||||||||||
| IL_26598.1_Sequence_1 IL_26598.17JRS_G104_C29 | G | G | C | G | U | C | C | C | * | G | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_26598.1_Instance_2 IL_26598.1,IL_7JRS_001,A39_U94 | A | G | C | C | U | G | C | C | G | U | ||||||||||||||||||
| IL_26598.1_Sequence_2 IL_26598.17JRS_A39_U94 | A | G | C | C | U | G | C | C | * | G | U | true | 96 | 0 | 0 | 0.71 | ||||||||||||
| IL_26598.1_Instance_3 IL_26598.1,IL_7JRS_008,G104_C29 | G | G | C | G | U | C | C | C | G | C | ||||||||||||||||||
| IL_26598.1_Sequence_3 IL_26598.17JRS_G104_C29 | G | G | C | G | U | C | C | C | * | G | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_26598.1_Instance_4 IL_26598.1,IL_7JRS_005,A39_U94 | A | G | C | C | U | G | C | C | G | U | ||||||||||||||||||
| IL_26598.1_Sequence_4 IL_26598.17JRS_A39_U94 | A | G | C | C | U | G | C | C | * | G | U | true | 96 | 0 | 0 | 0.71 | ||||||||||||
| IL_26598.1_Instance_5 IL_26598.1,IL_3R4F_001,G14_C35 | G | G | A | A | A | C | C | C | G | C | ||||||||||||||||||
| IL_26598.1_Sequence_5 IL_26598.13R4F_G14_C35 | G | G | A | A | A | C | C | C | * | G | C | true | 83 | 0 | 0 | 2.71 |
1 10 cWW 2 3 s35 3 4 s35 4 5 s35 5 6 s35 6 7 s35 7 8 s35 8 9 cWW 10 9 7BPhJAR3D SCFG/MRF model for IL_26598.1:
Character Definition | A,C,G,U,* // Identity and order of characters in matrices InitialNode | Left Length Distribution [0.999900000,0.000100000] | Left Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Right Length Distribution [0.999900000,0.000100000] | Right Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Left Index [1] | Right Index [10] // Initial node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.003560333,0.035649469,0.003960114,0.270094831,0.000000000],[0.006427739,0.016673000,0.074339576,0.013442903,0.000000000],[0.003929160,0.391660075,0.000771180,0.059559905,0.000000000],[0.073625473,0.023680933,0.008672929,0.013952381,0.000000000],[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 [10] // Basepair G104 - C29 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.071428571,0.071428571,0.785714286,0.071428571,0.000000000] | Position [1] | Left Index [2] | Right Index [9] // Fixed node on left for 7JRS|1|B|C|29 InitialNode | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [9] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.214285714,0.642857143,0.071428571,0.071428571,0.000000000] | Position [1] | Left Index [3] | Right Index [9] // Fixed node on left for 7JRS|1|B|G|104 InitialNode | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [9] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.214285714,0.357142857,0.357142857,0.071428571,0.000000000] | Position [1] | Left Index [4] | Right Index [9] // Fixed node on left for 7JRS|1|B|G|105 InitialNode | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [9] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.214285714,0.071428571,0.071428571,0.642857143,0.000000000] | Position [1] | Left Index [5] | Right Index [9] // Fixed node on left for 7JRS|1|B|C|106 InitialNode | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [6] | Right Index [9] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.071428571,0.500000000,0.357142857,0.071428571,0.000000000] | Position [1] | Left Index [6] | Right Index [9] // Fixed node on left for 7JRS|1|B|G|107 InitialNode | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [7] | Right Index [9] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.071428571,0.785714286,0.071428571,0.071428571,0.000000000] | Position [1] | Left Index [7] | Right Index [9] // Fixed node on left for 7JRS|1|B|U|108 InitialNode | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [8] | Right Index [9] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009264105,0.016612765,0.010650229,0.193109658,0.000000000],[0.019697072,0.009435223,0.250623774,0.013396622,0.000000000],[0.010769834,0.197270651,0.002030047,0.022795742,0.000000000],[0.195613131,0.012907388,0.026006356,0.009817401,0.000000000],[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 [8] | Right Index [9] // Basepair C111 - G28 cWW HairpinNode | Num Bases [1] | Left Index [9] | Right Index [9] | 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_26598.1:
> IL_26598.1 7JRS G 104 C 29 GGCGUCCC*GC > IL_26598.1 7JRS A 39 U 94 AGCCUGCC*GU > IL_26598.1 7JRS G 104 C 29 GGCGUCCC*GC > IL_26598.1 7JRS A 39 U 94 AGCCUGCC*GU > IL_26598.1 3R4F G 14 C 35 GGAAACCC*GC