| 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 | 9 4 I | 10 4 4 | 11 3 I | 12 3 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_17212.2_Instance_1 IL_17212.2_IL_4IOA_043_A1260_U1212 | A | G | U | G | C | G | U | |||||||||||||
| IL_17212.2_Sequence_1 IL_17212.2_IL_4IOA_043_A_1260_U_1212 | A | G | U | G | * | C | G | U | true | 95 | 0 | 0 | 0.46 | |||||||
| IL_17212.2_Instance_2 IL_17212.2_IL_3V2F_042_A1247_U1198 | A | G | U | G | C | G | U | |||||||||||||
| IL_17212.2_Sequence_2 IL_17212.2_IL_3V2F_042_A_1247_U_1198 | A | G | U | G | * | C | G | U | true | 95 | 0 | 0 | 0.46 | |||||||
| IL_17212.2_Instance_3 IL_17212.2_IL_1S72_046_G1351_C1303 | G | A | C | G | C | G | C | |||||||||||||
| IL_17212.2_Sequence_3 IL_17212.2_IL_1S72_046_G_1351_C_1303 | G | A | C | G | * | C | G | C | true | 80 | 0 | 0 | 1.88 | |||||||
| IL_17212.2_Instance_4 IL_17212.2_IL_3U5H_062_A1428_U1378 | A | G | U | G | C | G | U | |||||||||||||
| IL_17212.2_Sequence_4 IL_17212.2_IL_3U5H_062_A_1428_U_1378 | A | G | U | G | * | C | G | U | true | 95 | 0 | 0 | 0.46 | |||||||
| IL_17212.2_Instance_5 IL_17212.2_IL_2QBG_045_A1247_U1198 | A | G | U | G | C | G | U | |||||||||||||
| IL_17212.2_Sequence_5 IL_17212.2_IL_2QBG_045_A_1247_U_1198 | A | G | U | G | * | C | G | U | true | 95 | 0 | 0 | 0.46 | |||||||
| IL_17212.2_Instance_6 IL_17212.2_IL_3V2F_030_A870_U907 | A | U | A | U | G | U | ||||||||||||||
| IL_17212.2_Sequence_6 IL_17212.2_IL_3V2F_030_A870_U907 | A | U | A | * | U | G | U | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_17212.2_Instance_7 IL_17212.2_IL_3U5H_052_U1123_A1135 | U | U | U | A | G | A | ||||||||||||||
| IL_17212.2_Sequence_7 IL_17212.2_IL_3U5H_052_U_1123_A_1135 | U | U | U | * | A | G | A | true | 99 | 0 | 0 | 0.14 | ||||||||
| IL_17212.2_Instance_8 IL_17212.2_IL_4J39_001_G9_C11 | G | C | C | G | C | C | ||||||||||||||
| IL_17212.2_Sequence_8 IL_17212.2_IL_4J39_001_G9_C11 | G | C | C | * | G | C | C | true | 74 | 0 | 0 | 2.47 | ||||||||
| IL_17212.2_Instance_9 IL_17212.2_IL_2ZI0_001_U9_A11 | U | U | A | U | U | A | ||||||||||||||
| IL_17212.2_Sequence_9 IL_17212.2_IL_2ZI0_001_U9_A11 | U | U | A | * | U | U | A | true | 73 | 0 | 0 | 2.54 | ||||||||
| IL_17212.2_Instance_10 IL_17212.2_IL_3V2F_025_C844_G934 | C | G | C | G | G | A | G | |||||||||||||
| IL_17212.2_Sequence_10 IL_17212.2_IL_3V2F_025_C844_G934 | C | G | C | * | G | G | A | G | true | 42 | 0 | 0 | 5.48 | |||||||
| IL_17212.2_Instance_11 IL_17212.2_IL_4ERD_003_U119_A148 | U | C | GA | C | G | G | A | |||||||||||||
| IL_17212.2_Sequence_11 IL_17212.2_IL_4ERD_003_U119_A148 | U | C | GA | C | * | G | G | A | true | 53 | 0 | 0 | 4.43 |
1 2 s35 1 6 cWW 2 5 cSW 3 4 cWW 3 5 s55 4 5 s35 5 6 s35JAR3D SCFG/MRF model for IL_17212.2:
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 A1260 - U1212 from junction BasepairNode | Deletion Probability [0.0000021781539185] | Pair Probability [[0.008689929,0.020160253,0.009504388,0.235118271,0.000000000],[0.019137928,0.008395256,0.190661991,0.010272581,0.000000000],[0.009489195,0.200405405,0.001975739,0.024126020,0.000000000],[0.215665956,0.010339743,0.023110977,0.012946368,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.543801687,0.453920502,0.002175207,0.000102604] | Left Letter Distribution [0.214285714,0.071428571,0.642857143,0.071428571,0.000000000] | 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 [6] // Basepair A1260 - U1212 cWW BasepairNode | Deletion Probability [0.0000055822185641] | Pair Probability [[0.015307233,0.014152753,0.062571942,0.012015483,0.000000000],[0.014890737,0.034347499,0.320439627,0.014761469,0.000000000],[0.034150702,0.012767370,0.017416671,0.009480468,0.000000000],[0.017109969,0.013608308,0.374787559,0.032192212,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.904400732,0.004522004,0.090645619,0.000411091,0.000020555] | Left Letter Distribution [0.375000000,0.125000000,0.375000000,0.125000000,0.000000000] | Right Length Distribution [0.904811823,0.094550986,0.000616637,0.000020555] | Right Letter Distribution [0.166666667,0.166666667,0.500000000,0.166666667,0.000000000] | Left Index [2] | Right Index [5] // Basepair U1262 - G1211 cSW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009079395,0.018751861,0.010311537,0.200254787,0.000000000],[0.017793342,0.008009199,0.216258756,0.011613886,0.000000000],[0.010285326,0.235466898,0.001975452,0.024095549,0.000000000],[0.190387789,0.011730064,0.023113053,0.010873107,0.000000000],[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 G1263 - C1210 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_17212.2:
> IL_17212.2 IL_4IOA_043 A 1260 U 1212 AGUG*CGU > IL_17212.2 IL_3V2F_042 A 1247 U 1198 AGUG*CGU > IL_17212.2 IL_1S72_046 G 1351 C 1303 GACG*CGC > IL_17212.2 IL_3U5H_062 A 1428 U 1378 AGUG*CGU > IL_17212.2 IL_2QBG_045 A 1247 U 1198 AGUG*CGU > IL_17212.2 IL_3V2F_030 A 870 U 907 AUA*UGU > IL_17212.2 IL_3U5H_052 U 1123 A 1135 UUU*AGA > IL_17212.2 IL_4J39_001 G 9 C 11 GCC*GCC > IL_17212.2 IL_2ZI0_001 U 9 A 11 UUA*UUA > IL_17212.2 IL_3V2F_025 C 844 G 934 CGC*GGAG > IL_17212.2 IL_4ERD_003 U 119 A 148 UCGAC*GGA