| 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 4 4 | 9 3 I | 10 3 5 | 11 2 I | 12 2 6 | 13 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_02361.5_Instance_1 HL_02361.5_HL_6VMY_001_U223_A229 | U | G | A | A | C | A | A | |||||||||||
| HL_02361.5_Sequence_1 HL_02361.5_HL_6VMY_001_U223_A229 | U | G | A | A | C | A | A | true | 99 | 0 | 0 | 0.10 | ||||||
| HL_02361.5_Instance_2 HL_02361.5_HL_5O7H_001_C32_G38 | C | G | C | A | C | A | G | |||||||||||
| HL_02361.5_Sequence_2 HL_02361.5_HL_5O7H_001_C32_G38 | C | G | C | A | C | A | G | true | 85 | 0 | 0 | 1.44 | ||||||
| HL_02361.5_Instance_3 HL_02361.5_HL_5J7L_174_A1630_U1636 | A | G | A | G | A | A | U | |||||||||||
| HL_02361.5_Sequence_3 HL_02361.5_HL_5J7L_174_A_1630_U_1636 | A | G | A | G | A | A | U | true | 74 | 0 | 0 | 2.43 | ||||||
| HL_02361.5_Instance_4 HL_02361.5_HL_4Y4O_123_C641_G647 | C | G | A | A | C | A | G | |||||||||||
| HL_02361.5_Sequence_4 HL_02361.5_HL_4Y4O_123_C641_G647 | C | G | A | A | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||
| HL_02361.5_Instance_5 HL_02361.5_HL_2XLK_001_C10_G16 | C | G | U | A | U | A | G | |||||||||||
| HL_02361.5_Sequence_5 HL_02361.5_HL_2XLK_001_C10_G16 | C | G | U | A | U | A | G | true | 88 | 0 | 0 | 1.10 | ||||||
| HL_02361.5_Instance_6 HL_02361.5_HL_1XJR_001_G21_C27 | G | G | A | G | U | A | C | |||||||||||
| HL_02361.5_Sequence_6 HL_02361.5_HL_1XJR_001_G21_C27 | G | G | A | G | U | A | C | true | 83 | 0 | 0 | 1.57 | ||||||
| HL_02361.5_Instance_7 HL_02361.5_HL_4AL5_001_C10_G16 | C | G | U | A | U | A | G | |||||||||||
| HL_02361.5_Sequence_7 HL_02361.5_HL_4AL5_001_C10_G16 | C | G | U | A | U | A | G | true | 88 | 0 | 0 | 1.10 | ||||||
| HL_02361.5_Instance_8 HL_02361.5_HL_5LM7_001_U21_A27 | U | G | A | A | G | A | A | |||||||||||
| HL_02361.5_Sequence_8 HL_02361.5_HL_5LM7_001_U21_A27 | U | G | A | A | G | A | A | true | 85 | 0 | 0 | 1.40 | ||||||
| HL_02361.5_Instance_9 HL_02361.5_HL_5TBW_042_U1862_G1868 | U | G | A | A | C | A | G | |||||||||||
| HL_02361.5_Sequence_9 HL_02361.5_HL_5TBW_042_U_1862_G_1868 | U | G | A | A | C | A | G | true | 96 | 0 | 0 | 0.42 | ||||||
| HL_02361.5_Instance_10 HL_02361.5_HL_4WF9_021_U686_G692 | U | G | A | A | U | A | G | |||||||||||
| HL_02361.5_Sequence_10 HL_02361.5_HL_4WF9_021_U686_G692 | U | G | A | A | U | A | G | true | 96 | 0 | 0 | 0.42 | ||||||
| HL_02361.5_Instance_11 HL_02361.5_HL_4V9F_016_U493_G499 | U | C | A | G | A | A | G | |||||||||||
| HL_02361.5_Sequence_11 HL_02361.5_HL_4V9F_016_U493_G499 | U | C | A | G | A | A | G | true | 65 | 0 | 0 | 3.33 | ||||||
| HL_02361.5_Instance_12 HL_02361.5_HL_3D0U_003_G121_C127 | G | G | A | A | U | A | C | |||||||||||
| HL_02361.5_Sequence_12 HL_02361.5_HL_3D0U_003_G121_C127 | G | G | A | A | U | A | C | true | 98 | 0 | 0 | 0.21 | ||||||
| HL_02361.5_Instance_13 HL_02361.5_HL_7A0S_046_C1797_G1803 | C | G | A | A | C | A | G | |||||||||||
| HL_02361.5_Sequence_13 HL_02361.5_HL_7A0S_046_C_1797_G_1803 | C | G | A | A | C | A | G | true | 100 | 0 | 0 | 0.00 | ||||||
| HL_02361.5_Instance_14 HL_02361.5_HL_5TBW_074_U73_G78 | U | U | G | C | A | G | ||||||||||||
| HL_02361.5_Sequence_14 HL_02361.5_HL_5TBW_074_U73_G78 | U | U | G | C | A | G | true | 38 | 0 | 0 | 5.84 | |||||||
| HL_02361.5_Instance_15 HL_02361.5_HL_5VSU_001_U70_A75 | U | G | C | A | U | A | ||||||||||||
| HL_02361.5_Sequence_15 HL_02361.5_HL_5VSU_001_U70_A75 | U | G | C | A | U | A | true | 71 | 0 | 0 | 2.76 | |||||||
| HL_02361.5_Instance_16 HL_02361.5_HL_7A0S_004_C133_G138 | C | G | U | A | A | G | ||||||||||||
| HL_02361.5_Sequence_16 HL_02361.5_HL_7A0S_004_C133_G138 | C | G | U | A | A | G | true | 84 | 0 | 0 | 1.55 |
1 2 s35 1 6 cWW 2 5 tSH 3 4 s35 4 5 s35 5 6 s35 4 2 7BRJAR3D SCFG/MRF model for HL_02361.5:
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 [6] // Initial node U223 - A229 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.008686343,0.015043492,0.010150759,0.148076819,0.000000000],[0.079668596,0.012543602,0.195405288,0.011922454,0.000000000],[0.010248665,0.158198059,0.002094714,0.020629282,0.000000000],[0.177529753,0.011440134,0.128618680,0.009743362,0.000000000],[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 [6] // Basepair U223 - A229 cWW BasepairNode | Deletion Probability [0.0000003315588406] | Pair Probability [[0.100363935,0.096106402,0.001186342,0.005620556,0.000000000],[0.109991044,0.102350464,0.001186342,0.001186342,0.000000000],[0.235374957,0.001186342,0.006030461,0.107664908,0.000000000],[0.125126743,0.104252476,0.001186342,0.001186342,0.000000000],[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 [0.188939376,0.808380908,0.002553497,0.000126218] | Right Letter Distribution [0.166666667,0.366666667,0.100000000,0.366666667,0.000000000] | Left Index [2] | Right Index [5] // Basepair G224 - A228 tSH HairpinNode | Num Bases [2] | Left Index [3] | Right Index [4] | Norm Constant [1.000000000000000] // Hairpin node A225:A226 Interaction | Interacting Bases [1,1] | Pair Probability [[0.583333333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.138888889,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.083333333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.194444444,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A225 Interaction | Interacting Bases [2,2] | Pair Probability [[0.737804878,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.067073171,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.189024390,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.006097561,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A226Sequences of instances from HL_02361.5:
> HL_02361.5 HL_6VMY_001 U 223 A 229 UGAACAA > HL_02361.5 HL_5O7H_001 C 32 G 38 CGCACAG > HL_02361.5 HL_5J7L_174 A 1630 U 1636 AGAGAAU > HL_02361.5 HL_4Y4O_123 C 641 G 647 CGAACAG > HL_02361.5 HL_2XLK_001 C 10 G 16 CGUAUAG > HL_02361.5 HL_1XJR_001 G 21 C 27 GGAGUAC > HL_02361.5 HL_4AL5_001 C 10 G 16 CGUAUAG > HL_02361.5 HL_5LM7_001 U 21 A 27 UGAAGAA > HL_02361.5 HL_5TBW_042 U 1862 G 1868 UGAACAG > HL_02361.5 HL_4WF9_021 U 686 G 692 UGAAUAG > HL_02361.5 HL_4V9F_016 U 493 G 499 UCAGAAG > HL_02361.5 HL_3D0U_003 G 121 C 127 GGAAUAC > HL_02361.5 HL_7A0S_046 C 1797 G 1803 CGAACAG > HL_02361.5 HL_5TBW_074 U 73 G 78 UUGCAG > HL_02361.5 HL_5VSU_001 U 70 A 75 UGCAUA > HL_02361.5 HL_7A0S_004 C 133 G 138 CGUAAG