| 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 5 | 11 6 I | 12 7 | 13 6 I | 14 6 6 | 15 5 I | 16 5 7 | 17 4 I | 18 4 8 | 19 3 I | 20 3 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_50730.2_Instance_1 IL_50730.2,IL_8CRE_072,U1641_A1806 | U | G | A | A | U | A | G | G | A | A | ||||||||||||||||||
| IL_50730.2_Sequence_1 IL_50730.28CRE_U_1641_A_1806 | U | G | A | A | U | * | A | G | G | A | A | true | 97 | 0 | 0 | 0.30 | ||||||||||||
| IL_50730.2_Instance_2 IL_50730.2,IL_8P9A_295,U1645_A1810 | U | G | A | A | U | A | G | G | A | A | ||||||||||||||||||
| IL_50730.2_Sequence_2 IL_50730.28P9A_U_1645_A_1810 | U | G | A | A | U | * | A | G | G | A | A | true | 97 | 0 | 0 | 0.30 | ||||||||||||
| IL_50730.2_Instance_3 IL_50730.2,IL_5J7L_310,U1720_G1740 | U | G | A | G | G | U | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_3 IL_50730.25J7L_U_1720_G_1740 | U | G | A | G | G | * | U | G | G | A | G | true | 78 | 0 | 0 | 2.32 | ||||||||||||
| IL_50730.2_Instance_4 IL_50730.2,IL_4WF9_024,U748_G773 | U | G | A | A | G | U | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_4 IL_50730.24WF9_U748_G773 | U | G | A | A | G | * | U | G | G | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_50730.2_Instance_5 IL_50730.2,IL_9DFE_019,U703_G728 | U | G | A | A | G | U | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_5 IL_50730.29DFE_U703_G728 | U | G | A | A | G | * | U | G | G | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_50730.2_Instance_6 IL_50730.2,IL_4V9F_027,U794_A819 | U | G | A | A | G | U | G | G | A | A | ||||||||||||||||||
| IL_50730.2_Sequence_6 IL_50730.24V9F_U794_A819 | U | G | A | A | G | * | U | G | G | A | A | true | 99 | 0 | 0 | 0.11 | ||||||||||||
| IL_50730.2_Instance_7 IL_50730.2,IL_8CRE_033,U830_G855 | U | G | A | A | G | U | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_7 IL_50730.28CRE_U830_G855 | U | G | A | A | G | * | U | G | G | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_50730.2_Instance_8 IL_50730.2,IL_5J7L_263,U703_G728 | U | G | A | A | G | U | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_8 IL_50730.25J7L_U703_G728 | U | G | A | A | G | * | U | G | G | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_50730.2_Instance_9 IL_50730.2,IL_3IWN_002,C12_G35 | C | A | A | A | C | G | G | A | C | G | ||||||||||||||||||
| IL_50730.2_Sequence_9 IL_50730.23IWN_C12_G35 | C | A | A | A | C | * | G | G | A | C | G | true | 78 | 0 | 0 | 2.33 | ||||||||||||
| IL_50730.2_Instance_10 IL_50730.2,IL_9DFE_075,C1882_G1860 | C | G | A | A | C | G | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_10 IL_50730.29DFE_C_1882_G_1860 | C | G | A | A | C | * | G | G | G | A | G | true | 99 | 0 | 0 | 0.06 | ||||||||||||
| IL_50730.2_Instance_11 IL_50730.2,IL_4YAZ_006,U16_G39 | U | A | A | A | C | G | G | G | C | G | ||||||||||||||||||
| IL_50730.2_Sequence_11 IL_50730.24YAZ_U16_G39 | U | A | A | A | C | * | G | G | G | C | G | true | 91 | 0 | 0 | 0.99 | ||||||||||||
| IL_50730.2_Instance_12 IL_50730.2,IL_3MXH_002,C22_G45 | C | A | A | A | C | G | G | A | C | G | ||||||||||||||||||
| IL_50730.2_Sequence_12 IL_50730.23MXH_C22_G45 | C | A | A | A | C | * | G | G | A | C | G | true | 78 | 0 | 0 | 2.33 | ||||||||||||
| IL_50730.2_Instance_13 IL_50730.2,IL_8P9A_258,U834_G859 | U | G | A | A | G | U | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_13 IL_50730.28P9A_U834_G859 | U | G | A | A | G | * | U | G | G | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_50730.2_Instance_14 IL_50730.2,IL_2A64_006,C378_G351 | C | G | A | A | G | C | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_14 IL_50730.22A64_C378_G351 | C | G | A | A | G | * | C | G | G | A | G | true | 98 | 0 | 0 | 0.17 | ||||||||||||
| IL_50730.2_Instance_15 IL_50730.2,IL_2A64_005,C284_G301 | C | G | A | A | G | C | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_15 IL_50730.22A64_C284_G301 | C | G | A | A | G | * | C | G | G | A | G | true | 98 | 0 | 0 | 0.17 | ||||||||||||
| IL_50730.2_Instance_16 IL_50730.2,IL_3IGI_002,C70_G117 | C | U | A | A | C | G | G | A | C | G | ||||||||||||||||||
| IL_50730.2_Sequence_16 IL_50730.23IGI_C70_G117 | C | U | A | A | C | * | G | G | A | C | G | true | 72 | 0 | 0 | 2.94 | ||||||||||||
| IL_50730.2_Instance_17 IL_50730.2,IL_8CRE_476,A1706_U1669 | A | G | A | A | G | C | G | G | A | U | ||||||||||||||||||
| IL_50730.2_Sequence_17 IL_50730.28CRE_A_1706_U_1669 | A | G | A | A | G | * | C | G | G | A | U | true | 96 | 0 | 0 | 0.46 | ||||||||||||
| IL_50730.2_Instance_18 IL_50730.2,IL_8P9A_463,A1719_U1682 | A | G | A | A | U | A | G | G | A | U | ||||||||||||||||||
| IL_50730.2_Sequence_18 IL_50730.28P9A_A_1719_U_1682 | A | G | A | A | U | * | A | G | G | A | U | true | 96 | 0 | 0 | 0.47 | ||||||||||||
| IL_50730.2_Instance_19 IL_50730.2,IL_7A0S_070,C1865_G1852 | C | G | A | A | A | U | G | G | A | G | ||||||||||||||||||
| IL_50730.2_Sequence_19 IL_50730.27A0S_C_1865_G_1852 | C | G | A | A | A | * | U | G | G | A | G | true | 98 | 0 | 0 | 0.20 |
1 2 s35 1 10 cWW 2 8 s33 2 9 tSH 2 10 s55 3 4 s35 3 7 s33 3 8 tHS 3 9 s55 4 5 s35 4 7 tHS 5 6 cWW 5 7 s55 6 7 s35 7 8 s35 9 10 s35 7 3 6BPh 8 3 6BPh 4 7 6BR 2 8 6BRJAR3D SCFG/MRF model for IL_50730.2:
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 [10] // Initial node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.008623215,0.014176818,0.010206608,0.136339420,0.000000000],[0.106505416,0.014088715,0.182368671,0.011847780,0.000000000],[0.010345069,0.119915842,0.002164799,0.019964107,0.000000000],[0.161371158,0.011230519,0.180971395,0.009880468,0.000000000],[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 U1641 - A1806 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.057904005,0.137675809,0.001213155,0.005377808,0.000000000],[0.053764413,0.071065602,0.000805396,0.000805396,0.000000000],[0.344453647,0.002119251,0.010263448,0.165038178,0.000000000],[0.072688845,0.075214255,0.000805396,0.000805396,0.000000000],[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 [2] | Right Index [9] // Basepair G1642 - A1805 tSH BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.105739001,0.045986150,0.408252636,0.050246459,0.000000000],[0.047501482,0.045690999,0.002693229,0.047493499,0.000000000],[0.000785821,0.000541638,0.013320913,0.000541638,0.000000000],[0.004098121,0.000541638,0.226025137,0.000541638,0.000000000],[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 [3] | Right Index [8] // Basepair A1643 - G1804 tHS BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.055748333,0.055833987,0.387563712,0.061592650,0.000000000],[0.058129303,0.058013398,0.002535437,0.057849154,0.000000000],[0.000831586,0.000831586,0.038038844,0.000831586,0.000000000],[0.019425354,0.000831586,0.201111897,0.000831586,0.000000000],[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 [4] | Right Index [7] // Basepair A1644 - G1803 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.010111971,0.103722217,0.010282901,0.142977824,0.000000000],[0.014994759,0.009284179,0.163554743,0.011419553,0.000000000],[0.010198897,0.147607997,0.002147425,0.175713312,0.000000000],[0.145589569,0.011733467,0.022011464,0.018649722,0.000000000],[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 [5] | Right Index [6] // Basepair U1645 - A1802 cWW HairpinNode | Num Bases [1] | Left Index [6] | Right Index [6] | 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_50730.2:
> IL_50730.2 8CRE U 1641 A 1806 UGAAU*AGGAA > IL_50730.2 8P9A U 1645 A 1810 UGAAU*AGGAA > IL_50730.2 5J7L U 1720 G 1740 UGAGG*UGGAG > IL_50730.2 4WF9 U 748 G 773 UGAAG*UGGAG > IL_50730.2 9DFE U 703 G 728 UGAAG*UGGAG > IL_50730.2 4V9F U 794 A 819 UGAAG*UGGAA > IL_50730.2 8CRE U 830 G 855 UGAAG*UGGAG > IL_50730.2 5J7L U 703 G 728 UGAAG*UGGAG > IL_50730.2 3IWN C 12 G 35 CAAAC*GGACG > IL_50730.2 9DFE C 1882 G 1860 CGAAC*GGGAG > IL_50730.2 4YAZ U 16 G 39 UAAAC*GGGCG > IL_50730.2 3MXH C 22 G 45 CAAAC*GGACG > IL_50730.2 8P9A U 834 G 859 UGAAG*UGGAG > IL_50730.2 2A64 C 378 G 351 CGAAG*CGGAG > IL_50730.2 2A64 C 284 G 301 CGAAG*CGGAG > IL_50730.2 3IGI C 70 G 117 CUAAC*GGACG > IL_50730.2 8CRE A 1706 U 1669 AGAAG*CGGAU > IL_50730.2 8P9A A 1719 U 1682 AGAAU*AGGAU > IL_50730.2 7A0S C 1865 G 1852 CGAAA*UGGAG