| 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_24982.5_Instance_1 IL_24982.5_IL_3U5F_053_C990_G1014 | C | G | A | A | G | C | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_1 IL_24982.5_IL_3U5F_053_C990_G_1014 | C | G | A | A | G | * | C | G | U | A | G | true | 97 | 0 | 0 | 0.31 | ||||||||||||
| IL_24982.5_Instance_2 IL_24982.5_IL_4BPP_049_C968_G992 | C | A | A | A | G | C | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_2 IL_24982.5_IL_4BPP_049_C968_G992 | C | A | A | A | G | * | C | G | U | A | G | true | 91 | 0 | 0 | 0.93 | ||||||||||||
| IL_24982.5_Instance_3 IL_24982.5_IL_1FJG_033_C779_G803 | C | A | A | A | C | G | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_3 IL_24982.5_IL_1FJG_033_C779_G803 | C | A | A | A | C | * | G | G | U | A | G | true | 89 | 0 | 0 | 1.23 | ||||||||||||
| IL_24982.5_Instance_4 IL_24982.5_IL_3U5F_035_U968_G631 | U | C | A | A | G | C | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_4 IL_24982.5_IL_3U5F_035_U968_G631 | U | C | A | A | G | * | C | G | U | A | G | true | 95 | 0 | 0 | 0.56 | ||||||||||||
| IL_24982.5_Instance_5 IL_24982.5_IL_4BPP_035_U946_G625 | U | C | A | A | G | C | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_5 IL_24982.5_IL_4BPP_035_U946_G625 | U | C | A | A | G | * | C | G | U | A | G | true | 95 | 0 | 0 | 0.56 | ||||||||||||
| IL_24982.5_Instance_6 IL_24982.5_IL_2AW7_040_C779_G803 | C | A | A | A | C | G | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_6 IL_24982.5_IL_2AW7_040_C779_G803 | C | A | A | A | C | * | G | G | U | A | G | true | 89 | 0 | 0 | 1.23 | ||||||||||||
| IL_24982.5_Instance_7 IL_24982.5_IL_2AW7_030_U757_G584 | U | C | A | G | G | C | G | C | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_7 IL_24982.5_IL_2AW7_030_U757_G584 | U | C | A | G | G | * | C | G | C | A | G | true | 80 | 0 | 0 | 2.09 | ||||||||||||
| IL_24982.5_Instance_8 IL_24982.5_IL_1FJG_023_U757_G584 | U | G | A | G | G | U | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_8 IL_24982.5_IL_1FJG_023_U757_G584 | U | G | A | G | G | * | U | G | U | A | G | true | 92 | 0 | 0 | 0.87 | ||||||||||||
| IL_24982.5_Instance_9 IL_24982.5_IL_2QBG_052_C1357_G1374 | C | G | A | G | G | C | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_9 IL_24982.5_IL_2QBG_052_C_1357_G_1374 | C | G | A | G | G | * | C | G | U | A | G | true | 97 | 0 | 0 | 0.30 | ||||||||||||
| IL_24982.5_Instance_10 IL_24982.5_IL_1S72_023_C719_G709 | C | G | A | G | G | C | G | C | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_10 IL_24982.5_IL_1S72_023_C719_G709 | C | G | A | G | G | * | C | G | C | A | G | true | 83 | 0 | 0 | 1.84 | ||||||||||||
| IL_24982.5_Instance_11 IL_24982.5_IL_4IOA_051_U1370_G1387 | U | G | A | G | G | C | G | C | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_11 IL_24982.5_IL_4IOA_051_U_1370_G_1387 | U | G | A | G | G | * | C | G | C | A | G | true | 86 | 0 | 0 | 1.53 | ||||||||||||
| IL_24982.5_Instance_12 IL_24982.5_IL_1S72_055_U1639_G1546 | U | C | A | A | C | G | G | U | C | G | ||||||||||||||||||
| IL_24982.5_Sequence_12 IL_24982.5_IL_1S72_055_U_1639_G_1546 | U | C | A | A | C | * | G | G | U | C | G | true | 89 | 0 | 0 | 1.18 | ||||||||||||
| IL_24982.5_Instance_13 IL_24982.5_IL_3V2F_050_U1357_G1374 | U | G | A | A | G | C | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_13 IL_24982.5_IL_3V2F_050_U_1357_G_1374 | U | G | A | A | G | * | C | G | U | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_24982.5_Instance_14 IL_24982.5_IL_2QBG_058_U1513_G1478 | U | G | A | G | G | U | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_14 IL_24982.5_IL_2QBG_058_U_1513_G_1478 | U | G | A | G | G | * | U | G | U | A | G | true | 92 | 0 | 0 | 0.87 | ||||||||||||
| IL_24982.5_Instance_15 IL_24982.5_IL_2QWY_004_A46_U20 | A | A | A | A | G | C | G | U | A | U | ||||||||||||||||||
| IL_24982.5_Sequence_15 IL_24982.5_IL_2QWY_004_A46_U20 | A | A | A | A | G | * | C | G | U | A | U | true | 87 | 0 | 0 | 1.37 | ||||||||||||
| IL_24982.5_Instance_16 IL_24982.5_IL_4IOA_026_C927_G875 | C | G | A | A | G | U | G | U | A | G | ||||||||||||||||||
| IL_24982.5_Sequence_16 IL_24982.5_IL_4IOA_026_C927_G875 | C | G | A | A | G | * | U | G | U | A | G | true | 89 | 0 | 0 | 1.19 |
1 2 s35 1 10 cWW 2 7 s33 2 8 s33 2 9 tSH 2 10 s55 3 4 s35 3 8 tHW 3 9 s55 4 5 s35 4 7 tHS 4 8 s55 5 6 cWW 5 7 s55 6 7 s35 7 8 s35 8 9 s35 9 10 s35 7 3 6BPh 2 8 6BPh 9 2 6BRJAR3D SCFG/MRF model for IL_24982.5:
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 [10] // Initial node C990 - G1014 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.010090714,0.014463119,0.011862728,0.111472694,0.000000000],[0.148456487,0.010868877,0.173513261,0.013600691,0.000000000],[0.012073761,0.107968823,0.002496283,0.017487865,0.000000000],[0.105870687,0.012603264,0.235985582,0.011185164,0.000000000],[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 C990 - G1014 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.137769253,0.091987757,0.001095288,0.007668052,0.000000000],[0.146471273,0.106633920,0.001319392,0.001319392,0.000000000],[0.256993336,0.001930613,0.010231048,0.138556003,0.000000000],[0.049284353,0.047658021,0.000541150,0.000541150,0.000000000],[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 G991 - A1013 tSH BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.021617428,0.107604254,0.004245584,0.502765553,0.000000000],[0.004245584,0.033679913,0.004245584,0.004245584,0.000000000],[0.043285658,0.065999338,0.047545948,0.049058839,0.000000000],[0.004245584,0.004245584,0.022292533,0.080677030,0.000000000],[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 A992 - U1012 tHW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.031448730,0.031127007,0.294456641,0.032960893,0.000000000],[0.034877929,0.031675905,0.004217122,0.031579695,0.000000000],[0.000674008,0.000674008,0.297759431,0.000674008,0.000000000],[0.032388063,0.000674008,0.174138545,0.000674008,0.000000000],[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 A993 - G1011 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009977130,0.065408444,0.010976641,0.145413475,0.000000000],[0.015265187,0.007936705,0.182128792,0.012129373,0.000000000],[0.010862667,0.246003737,0.002105170,0.101876728,0.000000000],[0.143870840,0.012657470,0.020116733,0.013270908,0.000000000],[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 G994 - C1010 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_24982.5:
> IL_24982.5 IL_3U5F_053 C 990 G 1014 CGAAG*CGUAG > IL_24982.5 IL_4BPP_049 C 968 G 992 CAAAG*CGUAG > IL_24982.5 IL_1FJG_033 C 779 G 803 CAAAC*GGUAG > IL_24982.5 IL_3U5F_035 U 968 G 631 UCAAG*CGUAG > IL_24982.5 IL_4BPP_035 U 946 G 625 UCAAG*CGUAG > IL_24982.5 IL_2AW7_040 C 779 G 803 CAAAC*GGUAG > IL_24982.5 IL_2AW7_030 U 757 G 584 UCAGG*CGCAG > IL_24982.5 IL_1FJG_023 U 757 G 584 UGAGG*UGUAG > IL_24982.5 IL_2QBG_052 C 1357 G 1374 CGAGG*CGUAG > IL_24982.5 IL_1S72_023 C 719 G 709 CGAGG*CGCAG > IL_24982.5 IL_4IOA_051 U 1370 G 1387 UGAGG*CGCAG > IL_24982.5 IL_1S72_055 U 1639 G 1546 UCAAC*GGUCG > IL_24982.5 IL_3V2F_050 U 1357 G 1374 UGAAG*CGUAG > IL_24982.5 IL_2QBG_058 U 1513 G 1478 UGAGG*UGUAG > IL_24982.5 IL_2QWY_004 A 46 U 20 AAAAG*CGUAU > IL_24982.5 IL_4IOA_026 C 927 G 875 CGAAG*UGUAG