| 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 2 2 | 5 3 I | 6 4 3 | 7 4 I | 8 5 | 9 4 I | 10 4 4 | 11 3 I | 12 2 5 | 13 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_94430.5_Instance_1 IL_94430.5_IL_3Q1Q_003_G103_C210 | G | AC | A | G | C | C | ||||||||||||
| IL_94430.5_Sequence_1 IL_94430.5_IL_3Q1Q_003_G103_C210 | G | AC | A | G | * | C | C | true | 78 | 0 | 0 | 2.11 | ||||||
| IL_94430.5_Instance_2 IL_94430.5_IL_2AW7_007_U70_A98 | U | A | A | C | G | A | ||||||||||||
| IL_94430.5_Sequence_2 IL_94430.5_IL_2AW7_007_U70_A98 | U | A | A | C | * | G | A | true | 86 | 0 | 0 | 1.29 | ||||||
| IL_94430.5_Instance_3 IL_94430.5_IL_3U5H_145_G49_C29 | G | U | A | G | C | C | ||||||||||||
| IL_94430.5_Sequence_3 IL_94430.5_IL_3U5H_145_G49_C29 | G | U | A | G | * | C | C | true | 88 | 0 | 0 | 1.11 | ||||||
| IL_94430.5_Instance_4 IL_94430.5_IL_4IOA_106_G53_C33 | G | U | C | G | C | C | ||||||||||||
| IL_94430.5_Sequence_4 IL_94430.5_IL_4IOA_106_G53_C33 | G | U | C | G | * | C | C | true | 67 | 0 | 0 | 3.14 | ||||||
| IL_94430.5_Instance_5 IL_94430.5_IL_2QBG_072_C1837_G1903 | C | C | G | G | C | G | ||||||||||||
| IL_94430.5_Sequence_5 IL_94430.5_IL_2QBG_072_C_1837_G_1903 | C | C | G | G | * | C | G | true | 91 | 0 | 0 | 0.83 | ||||||
| IL_94430.5_Instance_6 IL_94430.5_IL_1S72_066_C1893_G1944 | C | C | A | G | C | G | ||||||||||||
| IL_94430.5_Sequence_6 IL_94430.5_IL_1S72_066_C_1893_G_1944 | C | C | A | G | * | C | G | true | 96 | 0 | 0 | 0.41 | ||||||
| IL_94430.5_Instance_7 IL_94430.5_IL_4BPP_040_G785_C731 | G | A | A | U | A | C | ||||||||||||
| IL_94430.5_Sequence_7 IL_94430.5_IL_4BPP_040_G785_C731 | G | A | A | U | * | A | C | true | 93 | 0 | 0 | 0.64 | ||||||
| IL_94430.5_Instance_8 IL_94430.5_IL_2AW7_046_G993_C1045 | G | AC | A | U | A | C | ||||||||||||
| IL_94430.5_Sequence_8 IL_94430.5_IL_2AW7_046_G993_C_1045 | G | AC | A | U | * | A | C | true | 75 | 0 | 0 | 2.42 | ||||||
| IL_94430.5_Instance_9 IL_94430.5_IL_4IOA_066_C1829_G1886 | C | C | G | G | C | G | ||||||||||||
| IL_94430.5_Sequence_9 IL_94430.5_IL_4IOA_066_C_1829_G_1886 | C | C | G | G | * | C | G | true | 91 | 0 | 0 | 0.83 | ||||||
| IL_94430.5_Instance_10 IL_94430.5_IL_1FJG_039_G993_C1045 | G | AC | A | U | A | C | ||||||||||||
| IL_94430.5_Sequence_10 IL_94430.5_IL_1FJG_039_G993_C_1045 | G | AC | A | U | * | A | C | true | 75 | 0 | 0 | 2.42 | ||||||
| IL_94430.5_Instance_11 IL_94430.5_IL_3V2F_068_C1837_G1903 | C | C | G | G | C | G | ||||||||||||
| IL_94430.5_Sequence_11 IL_94430.5_IL_3V2F_068_C_1837_G_1903 | C | C | G | G | * | C | G | true | 91 | 0 | 0 | 0.83 | ||||||
| IL_94430.5_Instance_12 IL_94430.5_IL_4A1B_086_C2191_G2241 | C | C | A | G | C | G | ||||||||||||
| IL_94430.5_Sequence_12 IL_94430.5_IL_4A1B_086_C_2191_G_2241 | C | C | A | G | * | C | G | true | 96 | 0 | 0 | 0.41 | ||||||
| IL_94430.5_Instance_13 IL_94430.5_IL_3V2F_055_G1448_C1463 | G | A | G | C | C | |||||||||||||
| IL_94430.5_Sequence_13 IL_94430.5_IL_3V2F_055_G_1448_C_1463 | G | A | G | * | C | C | true | 100 | 0 | 0 | 0.00 | |||||||
| IL_94430.5_Instance_14 IL_94430.5_IL_3V2F_032_U877_A899 | U | A | G | C | A | |||||||||||||
| IL_94430.5_Sequence_14 IL_94430.5_IL_3V2F_032_U877_A899 | U | A | G | * | C | A | true | 93 | 0 | 0 | 0.64 | |||||||
| IL_94430.5_Instance_15 IL_94430.5_IL_4GMA_001_A7_U177 | A | G | C | G | U | |||||||||||||
| IL_94430.5_Sequence_15 IL_94430.5_IL_4GMA_001_A7_U177 | A | G | C | * | G | U | true | 78 | 0 | 0 | 2.12 | |||||||
| IL_94430.5_Instance_16 IL_94430.5_IL_2XXA_013_G68_C29 | G | A | U | G | C | |||||||||||||
| IL_94430.5_Sequence_16 IL_94430.5_IL_2XXA_013_G68_C29 | G | A | U | * | G | C | true | 82 | 0 | 0 | 1.68 |
1 5 cWW 2 3 s35 2 5 cWS 3 4 cWW 4 5 s35JAR3D SCFG/MRF model for IL_94430.5:
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 [5] // Initial node G103 - C210 from junction ClusterNode | Deletion Probability [0.0000000008620170] | Num Left Bases [2] | Num Right Bases [1] | Left Index [1] | Right Index [5] | Norm Constant [0.255107818202131] // Cluster node G103:A106 and C210:C210 Interaction | Interacting Bases [1,3] | Pair Probability [[0.008749015,0.017415315,0.010011712,0.181140724,0.000000000],[0.017067831,0.007609293,0.225669046,0.011363249,0.000000000],[0.009988146,0.252552013,0.001890595,0.022784617,0.000000000],[0.190022474,0.011467899,0.022392238,0.009875835,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G103 - C210 cWW Interaction | Interacting Bases [2,3] | Pair Probability [[0.164033804,0.235204347,0.156292787,0.135327736,0.000000000],[0.015108920,0.030878952,0.013650815,0.013448497,0.000000000],[0.011525639,0.041331922,0.102393924,0.054059290,0.000000000],[0.006916998,0.007800792,0.005725395,0.006300183,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction A106 - C210 cWS Insertion | Location [1] | Length Distribution [0.250349596,0.560713176,0.188238036,0.000670059,0.000029133] | Letter Distribution [0.323529412,0.500000000,0.029411765,0.147058824,0.000000000]// Insertion after nucleotide 1, position 1 in cluster node 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 [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [4] // New Initial node after Cluster BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008923836,0.017437847,0.010242436,0.163781264,0.000000000],[0.033196525,0.008016118,0.189841314,0.011490510,0.000000000],[0.010199220,0.261168283,0.001966599,0.022517066,0.000000000],[0.190863191,0.011674884,0.048704589,0.009976317,0.000000000],[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 G107 - C209 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_94430.5:
> IL_94430.5 IL_3Q1Q_003 G 103 C 210 GACAG*CC > IL_94430.5 IL_2AW7_007 U 70 A 98 UAAC*GA > IL_94430.5 IL_3U5H_145 G 49 C 29 GUAG*CC > IL_94430.5 IL_4IOA_106 G 53 C 33 GUCG*CC > IL_94430.5 IL_2QBG_072 C 1837 G 1903 CCGG*CG > IL_94430.5 IL_1S72_066 C 1893 G 1944 CCAG*CG > IL_94430.5 IL_4BPP_040 G 785 C 731 GAAU*AC > IL_94430.5 IL_2AW7_046 G 993 C 1045 GACAU*AC > IL_94430.5 IL_4IOA_066 C 1829 G 1886 CCGG*CG > IL_94430.5 IL_1FJG_039 G 993 C 1045 GACAU*AC > IL_94430.5 IL_3V2F_068 C 1837 G 1903 CCGG*CG > IL_94430.5 IL_4A1B_086 C 2191 G 2241 CCAG*CG > IL_94430.5 IL_3V2F_055 G 1448 C 1463 GAG*CC > IL_94430.5 IL_3V2F_032 U 877 A 899 UAG*CA > IL_94430.5 IL_4GMA_001 A 7 U 177 AGC*GU > IL_94430.5 IL_2XXA_013 G 68 C 29 GAU*GC