| 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 13 6 | 13 13 I | 14 14 | 15 13 I | 16 13 7 | 17 12 I | 18 11 8 | 19 2 I | 20 2 9 | 21 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_76758.2_Instance_1 IL_76758.2,IL_5J7L_307,A1669_U1993 | A | C | U | A | G | G | C | U | G | U | ||||||||||||||||
| IL_76758.2_Sequence_1 IL_76758.25J7L_A_1669_U_1993 | A | C | U | A | G | G | * | C | U | G | U | true | 93 | 0 | 0 | 1.30 | ||||||||||
| IL_76758.2_Instance_2 IL_76758.2,IL_4WF9_065,A1713_U2020 | A | C | U | C | G | G | C | U | G | U | ||||||||||||||||
| IL_76758.2_Sequence_2 IL_76758.24WF9_A_1713_U_2020 | A | C | U | C | G | G | * | C | U | G | U | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_76758.2_Instance_3 IL_76758.2,IL_9DFE_067,A1669_U1993 | A | C | U | C | U | G | C | U | G | U | ||||||||||||||||
| IL_76758.2_Sequence_3 IL_76758.29DFE_A_1669_U_1993 | A | C | U | C | U | G | * | C | U | G | U | true | 96 | 0 | 0 | 0.79 | ||||||||||
| IL_76758.2_Instance_4 IL_76758.2,IL_4V9F_062,A1747_U2034 | A | U | U | C | G | G | C | U | G | U | ||||||||||||||||
| IL_76758.2_Sequence_4 IL_76758.24V9F_A_1747_U_2034 | A | U | U | C | G | G | * | C | U | G | U | true | 92 | 0 | 0 | 1.34 | ||||||||||
| IL_76758.2_Instance_5 IL_76758.2,IL_7A0S_062,A1686_U1976 | A | C | U | U | U | G | C | U | G | U | ||||||||||||||||
| IL_76758.2_Sequence_5 IL_76758.27A0S_A_1686_U_1976 | A | C | U | U | U | G | * | C | U | G | U | true | 88 | 0 | 0 | 2.09 | ||||||||||
| IL_76758.2_Instance_6 IL_76758.2,IL_8CRE_083,A1897_U2314 | A | G | U | C | G | G | C | U | G | U | ||||||||||||||||
| IL_76758.2_Sequence_6 IL_76758.28CRE_A_1897_U_2314 | A | G | U | C | G | G | * | C | U | G | U | true | 96 | 0 | 0 | 0.68 | ||||||||||
| IL_76758.2_Instance_7 IL_76758.2,IL_8P9A_306,A1901_U2336 | A | G | U | C | G | G | C | U | G | U | ||||||||||||||||
| IL_76758.2_Sequence_7 IL_76758.28P9A_A_1901_U_2336 | A | G | U | C | G | G | * | C | U | G | U | true | 96 | 0 | 0 | 0.68 |
1 9 cWW 2 3 s35 2 9 perp 4 5 s35 6 7 cWW 7 8 s35 2 1 7BPh 3 2 7BPh 3 6 6BPhJAR3D SCFG/MRF model for IL_76758.2:
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 [9] // Initial node BasepairNode | Deletion Probability [0.0000001232089072] | Pair Probability [[0.008849144,0.020982013,0.009451078,0.259997638,0.000000000],[0.016699564,0.009132583,0.185092798,0.009874781,0.000000000],[0.009432681,0.187492341,0.001945771,0.050727154,0.000000000],[0.186863639,0.010512826,0.021937258,0.011008732,0.000000000],[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 [0.007039775,0.985568462,0.007039775,0.000351989] | Right Letter Distribution [0.055555556,0.055555556,0.833333333,0.055555556,0.000000000] | Left Index [1] | Right Index [9] // Basepair A1669 - U1993 cWW FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.009803922,0.558823529,0.284313725,0.147058824,0.000000000] | Position [1] | Left Index [2] | Right Index [8] // Fixed node on left for 5J7L|1|DA|C|1670 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 [8] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.001449275,0.001449275,0.001449275,0.995652174,0.000000000] | Position [1] | Left Index [3] | Right Index [8] // Fixed node on left for 5J7L|1|DA|U|1671 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 [8] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.166666667,0.611111111,0.055555556,0.166666667,0.000000000] | Position [1] | Left Index [4] | Right Index [8] // Fixed node on left for 5J7L|1|DA|A|1672 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 [8] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.055555556,0.055555556,0.611111111,0.277777778,0.000000000] | Position [1] | Left Index [5] | Right Index [8] // Fixed node on left for 5J7L|1|DA|G|1673 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 [8] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.055555556,0.055555556,0.055555556,0.833333333,0.000000000] | Position [2] | Left Index [6] | Right Index [8] // Fixed node on right for 5J7L|1|DA|U|1991 InitialNode | Left Length Distribution [1.000000000] | 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 [6] | Right Index [7] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009278847,0.019324516,0.010566130,0.191913241,0.000000000],[0.016298546,0.009098841,0.193539411,0.012663253,0.000000000],[0.010448787,0.264585590,0.001991650,0.025514464,0.000000000],[0.189457119,0.013143234,0.022364576,0.009811793,0.000000000],[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 [6] | Right Index [7] // Basepair G1674 - C1990 cWW HairpinNode | Num Bases [1] | Left Index [7] | Right Index [7] | 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_76758.2:
> IL_76758.2 5J7L A 1669 U 1993 ACUAGG*CUGU > IL_76758.2 4WF9 A 1713 U 2020 ACUCGG*CUGU > IL_76758.2 9DFE A 1669 U 1993 ACUCUG*CUGU > IL_76758.2 4V9F A 1747 U 2034 AUUCGG*CUGU > IL_76758.2 7A0S A 1686 U 1976 ACUUUG*CUGU > IL_76758.2 8CRE A 1897 U 2314 AGUCGG*CUGU > IL_76758.2 8P9A A 1901 U 2336 AGUCGG*CUGU