Multiple sequence alignment - TraesCS2D01G375900

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2D01G375900 chr2D 100.000 2264 0 0 1 2264 480173864 480171601 0.000000e+00 4181.0
1 TraesCS2D01G375900 chr2B 88.377 955 60 24 562 1473 563037652 563036706 0.000000e+00 1101.0
2 TraesCS2D01G375900 chr2B 90.000 300 27 2 1967 2264 563035352 563035054 3.530000e-103 385.0
3 TraesCS2D01G375900 chr2A 96.848 571 13 1 1694 2264 622739730 622739165 0.000000e+00 950.0
4 TraesCS2D01G375900 chr2A 94.495 436 18 1 915 1350 622740855 622740426 0.000000e+00 667.0
5 TraesCS2D01G375900 chr2A 95.745 235 10 0 1470 1704 622739990 622739756 1.640000e-101 379.0
6 TraesCS2D01G375900 chr2A 88.462 286 21 7 543 827 622741168 622740894 3.600000e-88 335.0
7 TraesCS2D01G375900 chr2A 91.262 103 7 2 443 543 7521953 7522055 3.030000e-29 139.0
8 TraesCS2D01G375900 chr4B 93.396 106 4 2 445 549 60699413 60699516 1.080000e-33 154.0
9 TraesCS2D01G375900 chr4B 93.939 99 5 1 456 553 653488451 653488549 5.040000e-32 148.0
10 TraesCS2D01G375900 chr3D 95.745 94 4 0 448 541 583868980 583869073 3.890000e-33 152.0
11 TraesCS2D01G375900 chr3D 95.556 90 4 0 457 546 593223230 593223141 6.520000e-31 145.0
12 TraesCS2D01G375900 chr5D 96.667 90 3 0 453 542 111788640 111788729 1.400000e-32 150.0
13 TraesCS2D01G375900 chr7D 94.737 95 5 0 454 548 5068173 5068079 5.040000e-32 148.0
14 TraesCS2D01G375900 chr1B 93.069 101 6 1 446 545 436383654 436383754 1.810000e-31 147.0
15 TraesCS2D01G375900 chr6B 88.596 114 10 3 436 547 678605931 678605819 3.920000e-28 135.0
16 TraesCS2D01G375900 chr6D 78.488 172 20 10 544 702 11724478 11724645 1.850000e-16 97.1
17 TraesCS2D01G375900 chr5A 75.740 169 25 9 544 698 591012102 591012268 1.120000e-08 71.3


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G375900 chr2D 480171601 480173864 2263 True 4181.00 4181 100.0000 1 2264 1 chr2D.!!$R1 2263
1 TraesCS2D01G375900 chr2B 563035054 563037652 2598 True 743.00 1101 89.1885 562 2264 2 chr2B.!!$R1 1702
2 TraesCS2D01G375900 chr2A 622739165 622741168 2003 True 582.75 950 93.8875 543 2264 4 chr2A.!!$R1 1721

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
39 40 0.399233 AGAAGCTTCCTAGGCCGGAT 60.399 55.0 22.81 0.0 32.02 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1903 2465 1.815003 CAGGTTTCAGAGGAACATGCC 59.185 52.381 0.0 0.0 31.35 4.4 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 2.550277 TGCACTAGAGGAATCTCCCA 57.450 50.000 0.00 0.00 40.83 4.37
21 22 2.392662 TGCACTAGAGGAATCTCCCAG 58.607 52.381 0.00 0.00 40.83 4.45
22 23 2.023984 TGCACTAGAGGAATCTCCCAGA 60.024 50.000 0.00 0.00 40.83 3.86
23 24 3.034635 GCACTAGAGGAATCTCCCAGAA 58.965 50.000 0.00 0.00 40.83 3.02
24 25 3.069443 GCACTAGAGGAATCTCCCAGAAG 59.931 52.174 0.00 0.00 40.83 2.85
25 26 3.069443 CACTAGAGGAATCTCCCAGAAGC 59.931 52.174 0.00 0.00 40.83 3.86
26 27 2.566708 AGAGGAATCTCCCAGAAGCT 57.433 50.000 0.00 0.00 40.83 3.74
27 28 2.844369 AGAGGAATCTCCCAGAAGCTT 58.156 47.619 0.00 0.00 40.83 3.74
28 29 2.771372 AGAGGAATCTCCCAGAAGCTTC 59.229 50.000 19.11 19.11 40.83 3.86
29 30 1.843206 AGGAATCTCCCAGAAGCTTCC 59.157 52.381 22.81 4.15 40.37 3.46
30 31 1.843206 GGAATCTCCCAGAAGCTTCCT 59.157 52.381 22.81 7.67 38.15 3.36
31 32 3.041946 GGAATCTCCCAGAAGCTTCCTA 58.958 50.000 22.81 5.26 38.15 2.94
32 33 3.070878 GGAATCTCCCAGAAGCTTCCTAG 59.929 52.174 22.81 14.28 38.15 3.02
33 34 2.166907 TCTCCCAGAAGCTTCCTAGG 57.833 55.000 22.81 20.30 0.00 3.02
34 35 0.467804 CTCCCAGAAGCTTCCTAGGC 59.532 60.000 22.81 0.00 0.00 3.93
35 36 0.983378 TCCCAGAAGCTTCCTAGGCC 60.983 60.000 22.81 0.00 0.00 5.19
36 37 1.144936 CCAGAAGCTTCCTAGGCCG 59.855 63.158 22.81 0.00 0.00 6.13
37 38 1.144936 CAGAAGCTTCCTAGGCCGG 59.855 63.158 22.81 0.00 0.00 6.13
38 39 1.001760 AGAAGCTTCCTAGGCCGGA 59.998 57.895 22.81 0.00 0.00 5.14
39 40 0.399233 AGAAGCTTCCTAGGCCGGAT 60.399 55.000 22.81 0.00 32.02 4.18
40 41 0.470341 GAAGCTTCCTAGGCCGGATT 59.530 55.000 15.97 1.14 32.02 3.01
41 42 0.470341 AAGCTTCCTAGGCCGGATTC 59.530 55.000 5.05 0.00 32.02 2.52
42 43 1.301009 GCTTCCTAGGCCGGATTCG 60.301 63.158 5.05 0.00 32.02 3.34
52 53 4.126524 CGGATTCGGGAAGCTTCC 57.873 61.111 33.67 33.67 46.82 3.46
60 61 2.346365 GGAAGCTTCCGACCGGTT 59.654 61.111 29.09 0.00 37.65 4.44
61 62 1.302271 GGAAGCTTCCGACCGGTTT 60.302 57.895 29.09 0.00 37.65 3.27
62 63 0.887836 GGAAGCTTCCGACCGGTTTT 60.888 55.000 29.09 0.00 37.65 2.43
63 64 0.949397 GAAGCTTCCGACCGGTTTTT 59.051 50.000 15.97 0.00 36.47 1.94
91 92 7.527084 TTTTTGTTATTTGGTTTCTTGACCG 57.473 32.000 0.00 0.00 42.83 4.79
92 93 4.839668 TGTTATTTGGTTTCTTGACCGG 57.160 40.909 0.00 0.00 42.83 5.28
93 94 3.570550 TGTTATTTGGTTTCTTGACCGGG 59.429 43.478 6.32 0.00 42.83 5.73
94 95 2.375014 ATTTGGTTTCTTGACCGGGT 57.625 45.000 6.32 0.00 42.83 5.28
95 96 2.146920 TTTGGTTTCTTGACCGGGTT 57.853 45.000 6.32 0.00 42.83 4.11
96 97 2.146920 TTGGTTTCTTGACCGGGTTT 57.853 45.000 6.32 0.00 42.83 3.27
97 98 1.682740 TGGTTTCTTGACCGGGTTTC 58.317 50.000 6.32 0.00 42.83 2.78
98 99 1.213430 TGGTTTCTTGACCGGGTTTCT 59.787 47.619 6.32 0.00 42.83 2.52
99 100 2.304092 GGTTTCTTGACCGGGTTTCTT 58.696 47.619 6.32 0.00 0.00 2.52
100 101 2.292569 GGTTTCTTGACCGGGTTTCTTC 59.707 50.000 6.32 0.00 0.00 2.87
101 102 3.211865 GTTTCTTGACCGGGTTTCTTCT 58.788 45.455 6.32 0.00 0.00 2.85
102 103 2.543777 TCTTGACCGGGTTTCTTCTG 57.456 50.000 6.32 0.00 0.00 3.02
103 104 1.766496 TCTTGACCGGGTTTCTTCTGT 59.234 47.619 6.32 0.00 0.00 3.41
104 105 2.171870 TCTTGACCGGGTTTCTTCTGTT 59.828 45.455 6.32 0.00 0.00 3.16
105 106 2.721425 TGACCGGGTTTCTTCTGTTT 57.279 45.000 6.32 0.00 0.00 2.83
106 107 3.007473 TGACCGGGTTTCTTCTGTTTT 57.993 42.857 6.32 0.00 0.00 2.43
107 108 4.153673 TGACCGGGTTTCTTCTGTTTTA 57.846 40.909 6.32 0.00 0.00 1.52
108 109 4.721132 TGACCGGGTTTCTTCTGTTTTAT 58.279 39.130 6.32 0.00 0.00 1.40
109 110 5.134661 TGACCGGGTTTCTTCTGTTTTATT 58.865 37.500 6.32 0.00 0.00 1.40
110 111 5.595133 TGACCGGGTTTCTTCTGTTTTATTT 59.405 36.000 6.32 0.00 0.00 1.40
111 112 6.097129 TGACCGGGTTTCTTCTGTTTTATTTT 59.903 34.615 6.32 0.00 0.00 1.82
112 113 6.509656 ACCGGGTTTCTTCTGTTTTATTTTC 58.490 36.000 6.32 0.00 0.00 2.29
113 114 5.924254 CCGGGTTTCTTCTGTTTTATTTTCC 59.076 40.000 0.00 0.00 0.00 3.13
114 115 5.924254 CGGGTTTCTTCTGTTTTATTTTCCC 59.076 40.000 0.00 0.00 0.00 3.97
115 116 6.239204 CGGGTTTCTTCTGTTTTATTTTCCCT 60.239 38.462 0.00 0.00 0.00 4.20
116 117 7.506114 GGGTTTCTTCTGTTTTATTTTCCCTT 58.494 34.615 0.00 0.00 0.00 3.95
117 118 7.990886 GGGTTTCTTCTGTTTTATTTTCCCTTT 59.009 33.333 0.00 0.00 0.00 3.11
118 119 9.391006 GGTTTCTTCTGTTTTATTTTCCCTTTT 57.609 29.630 0.00 0.00 0.00 2.27
185 186 5.514274 TTTTCAAATTCGTGAGCCTTTCT 57.486 34.783 0.00 0.00 0.00 2.52
186 187 6.627395 TTTTCAAATTCGTGAGCCTTTCTA 57.373 33.333 0.00 0.00 0.00 2.10
187 188 5.607119 TTCAAATTCGTGAGCCTTTCTAC 57.393 39.130 0.00 0.00 0.00 2.59
188 189 4.637276 TCAAATTCGTGAGCCTTTCTACA 58.363 39.130 0.00 0.00 0.00 2.74
189 190 5.060506 TCAAATTCGTGAGCCTTTCTACAA 58.939 37.500 0.00 0.00 0.00 2.41
190 191 5.529430 TCAAATTCGTGAGCCTTTCTACAAA 59.471 36.000 0.00 0.00 0.00 2.83
191 192 6.038825 TCAAATTCGTGAGCCTTTCTACAAAA 59.961 34.615 0.00 0.00 0.00 2.44
192 193 4.806342 TTCGTGAGCCTTTCTACAAAAC 57.194 40.909 0.00 0.00 0.00 2.43
193 194 4.067972 TCGTGAGCCTTTCTACAAAACT 57.932 40.909 0.00 0.00 0.00 2.66
194 195 4.448210 TCGTGAGCCTTTCTACAAAACTT 58.552 39.130 0.00 0.00 0.00 2.66
195 196 4.272504 TCGTGAGCCTTTCTACAAAACTTG 59.727 41.667 0.00 0.00 0.00 3.16
197 198 5.273944 GTGAGCCTTTCTACAAAACTTGTG 58.726 41.667 2.30 0.00 45.03 3.33
198 199 4.947388 TGAGCCTTTCTACAAAACTTGTGT 59.053 37.500 2.30 0.00 45.03 3.72
199 200 5.417580 TGAGCCTTTCTACAAAACTTGTGTT 59.582 36.000 2.30 0.00 45.03 3.32
244 245 8.749841 TTTTTGAATTCACGAACTCTTTTCAA 57.250 26.923 7.89 2.80 31.77 2.69
245 246 8.925161 TTTTGAATTCACGAACTCTTTTCAAT 57.075 26.923 7.89 0.00 33.23 2.57
246 247 8.925161 TTTGAATTCACGAACTCTTTTCAATT 57.075 26.923 7.89 0.00 33.23 2.32
247 248 8.925161 TTGAATTCACGAACTCTTTTCAATTT 57.075 26.923 7.89 0.00 29.45 1.82
248 249 8.925161 TGAATTCACGAACTCTTTTCAATTTT 57.075 26.923 3.38 0.00 0.00 1.82
249 250 9.364989 TGAATTCACGAACTCTTTTCAATTTTT 57.635 25.926 3.38 0.00 0.00 1.94
271 272 7.414814 TTTATGAACTTTTTCCAAAATCCGC 57.585 32.000 0.00 0.00 0.00 5.54
272 273 4.392921 TGAACTTTTTCCAAAATCCGCA 57.607 36.364 0.00 0.00 0.00 5.69
273 274 4.759782 TGAACTTTTTCCAAAATCCGCAA 58.240 34.783 0.00 0.00 0.00 4.85
274 275 5.178797 TGAACTTTTTCCAAAATCCGCAAA 58.821 33.333 0.00 0.00 0.00 3.68
275 276 5.064071 TGAACTTTTTCCAAAATCCGCAAAC 59.936 36.000 0.00 0.00 0.00 2.93
276 277 4.765273 ACTTTTTCCAAAATCCGCAAACT 58.235 34.783 0.00 0.00 0.00 2.66
277 278 5.182487 ACTTTTTCCAAAATCCGCAAACTT 58.818 33.333 0.00 0.00 0.00 2.66
278 279 5.645929 ACTTTTTCCAAAATCCGCAAACTTT 59.354 32.000 0.00 0.00 0.00 2.66
279 280 6.150307 ACTTTTTCCAAAATCCGCAAACTTTT 59.850 30.769 0.00 0.00 0.00 2.27
280 281 7.334671 ACTTTTTCCAAAATCCGCAAACTTTTA 59.665 29.630 0.00 0.00 0.00 1.52
281 282 7.793927 TTTTCCAAAATCCGCAAACTTTTAT 57.206 28.000 0.00 0.00 0.00 1.40
282 283 7.414814 TTTCCAAAATCCGCAAACTTTTATC 57.585 32.000 0.00 0.00 0.00 1.75
283 284 6.090483 TCCAAAATCCGCAAACTTTTATCA 57.910 33.333 0.00 0.00 0.00 2.15
284 285 6.516718 TCCAAAATCCGCAAACTTTTATCAA 58.483 32.000 0.00 0.00 0.00 2.57
285 286 6.986817 TCCAAAATCCGCAAACTTTTATCAAA 59.013 30.769 0.00 0.00 0.00 2.69
286 287 7.659390 TCCAAAATCCGCAAACTTTTATCAAAT 59.341 29.630 0.00 0.00 0.00 2.32
287 288 8.288913 CCAAAATCCGCAAACTTTTATCAAATT 58.711 29.630 0.00 0.00 0.00 1.82
288 289 9.316859 CAAAATCCGCAAACTTTTATCAAATTC 57.683 29.630 0.00 0.00 0.00 2.17
289 290 8.600449 AAATCCGCAAACTTTTATCAAATTCA 57.400 26.923 0.00 0.00 0.00 2.57
290 291 8.776376 AATCCGCAAACTTTTATCAAATTCAT 57.224 26.923 0.00 0.00 0.00 2.57
291 292 7.579589 TCCGCAAACTTTTATCAAATTCATG 57.420 32.000 0.00 0.00 0.00 3.07
292 293 7.374272 TCCGCAAACTTTTATCAAATTCATGA 58.626 30.769 0.00 0.00 0.00 3.07
293 294 7.869937 TCCGCAAACTTTTATCAAATTCATGAA 59.130 29.630 11.26 11.26 32.06 2.57
294 295 8.658609 CCGCAAACTTTTATCAAATTCATGAAT 58.341 29.630 15.36 15.36 32.06 2.57
295 296 9.679596 CGCAAACTTTTATCAAATTCATGAATC 57.320 29.630 20.95 2.48 32.06 2.52
465 466 9.020731 TCATAAACTTTTTCAAATACTCCCTCC 57.979 33.333 0.00 0.00 0.00 4.30
466 467 5.959618 AACTTTTTCAAATACTCCCTCCG 57.040 39.130 0.00 0.00 0.00 4.63
467 468 4.981812 ACTTTTTCAAATACTCCCTCCGT 58.018 39.130 0.00 0.00 0.00 4.69
468 469 5.001874 ACTTTTTCAAATACTCCCTCCGTC 58.998 41.667 0.00 0.00 0.00 4.79
469 470 3.622166 TTTCAAATACTCCCTCCGTCC 57.378 47.619 0.00 0.00 0.00 4.79
470 471 1.492764 TCAAATACTCCCTCCGTCCC 58.507 55.000 0.00 0.00 0.00 4.46
471 472 1.200519 CAAATACTCCCTCCGTCCCA 58.799 55.000 0.00 0.00 0.00 4.37
472 473 1.768870 CAAATACTCCCTCCGTCCCAT 59.231 52.381 0.00 0.00 0.00 4.00
473 474 2.969950 CAAATACTCCCTCCGTCCCATA 59.030 50.000 0.00 0.00 0.00 2.74
474 475 3.339713 AATACTCCCTCCGTCCCATAA 57.660 47.619 0.00 0.00 0.00 1.90
475 476 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
476 477 4.687262 ATACTCCCTCCGTCCCATAATA 57.313 45.455 0.00 0.00 0.00 0.98
477 478 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
478 479 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
479 480 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
480 481 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
481 482 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
482 483 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
483 484 5.482878 TCCCTCCGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
484 485 5.408356 CCTCCGTCCCATAATATAAGAACG 58.592 45.833 0.00 0.00 0.00 3.95
485 486 5.047519 CCTCCGTCCCATAATATAAGAACGT 60.048 44.000 0.00 0.00 0.00 3.99
486 487 6.409524 TCCGTCCCATAATATAAGAACGTT 57.590 37.500 0.00 0.00 0.00 3.99
487 488 6.819284 TCCGTCCCATAATATAAGAACGTTT 58.181 36.000 0.46 0.00 0.00 3.60
488 489 7.274447 TCCGTCCCATAATATAAGAACGTTTT 58.726 34.615 0.46 0.00 0.00 2.43
489 490 7.769970 TCCGTCCCATAATATAAGAACGTTTTT 59.230 33.333 9.22 9.22 0.00 1.94
490 491 7.853929 CCGTCCCATAATATAAGAACGTTTTTG 59.146 37.037 13.87 0.00 0.00 2.44
491 492 8.605746 CGTCCCATAATATAAGAACGTTTTTGA 58.394 33.333 13.87 2.81 0.00 2.69
492 493 9.712359 GTCCCATAATATAAGAACGTTTTTGAC 57.288 33.333 13.87 5.89 0.00 3.18
493 494 9.451002 TCCCATAATATAAGAACGTTTTTGACA 57.549 29.630 13.87 0.01 0.00 3.58
494 495 9.498307 CCCATAATATAAGAACGTTTTTGACAC 57.502 33.333 13.87 0.00 0.00 3.67
500 501 9.924650 ATATAAGAACGTTTTTGACACTAGACT 57.075 29.630 13.87 0.00 0.00 3.24
502 503 7.695869 AAGAACGTTTTTGACACTAGACTAG 57.304 36.000 0.46 8.00 0.00 2.57
503 504 6.803642 AGAACGTTTTTGACACTAGACTAGT 58.196 36.000 9.45 9.45 40.28 2.57
517 518 6.998802 ACTAGACTAGTGTCAAAAATGCTCT 58.001 36.000 14.47 0.00 45.20 4.09
518 519 7.445945 ACTAGACTAGTGTCAAAAATGCTCTT 58.554 34.615 14.47 0.00 45.20 2.85
519 520 8.585881 ACTAGACTAGTGTCAAAAATGCTCTTA 58.414 33.333 14.47 0.00 45.20 2.10
520 521 9.593134 CTAGACTAGTGTCAAAAATGCTCTTAT 57.407 33.333 0.00 0.00 45.20 1.73
528 529 9.683069 GTGTCAAAAATGCTCTTATATTATGGG 57.317 33.333 0.00 0.00 0.00 4.00
529 530 9.639563 TGTCAAAAATGCTCTTATATTATGGGA 57.360 29.630 0.00 0.00 0.00 4.37
530 531 9.899226 GTCAAAAATGCTCTTATATTATGGGAC 57.101 33.333 0.00 0.00 0.00 4.46
658 659 0.942252 GTCAAAACGGTGGACTGGTC 59.058 55.000 0.00 0.00 0.00 4.02
659 660 0.542333 TCAAAACGGTGGACTGGTCA 59.458 50.000 3.10 0.00 0.00 4.02
740 748 3.683937 CGCCTTTGTTGGGCCAGG 61.684 66.667 6.23 5.19 46.24 4.45
741 749 4.007644 GCCTTTGTTGGGCCAGGC 62.008 66.667 16.86 16.86 45.02 4.85
742 750 2.523902 CCTTTGTTGGGCCAGGCA 60.524 61.111 15.19 7.61 0.00 4.75
743 751 2.576832 CCTTTGTTGGGCCAGGCAG 61.577 63.158 15.19 0.00 0.00 4.85
893 931 0.727398 CCGTCCGAAGCCAAAATCTC 59.273 55.000 0.00 0.00 0.00 2.75
908 946 2.010582 ATCTCACGCTTCTCCTCCGC 62.011 60.000 0.00 0.00 0.00 5.54
918 956 4.056584 TCCTCCGCCTTCCTCCGA 62.057 66.667 0.00 0.00 0.00 4.55
1078 1116 1.371183 CTGGAGTTCAACCTCGCCA 59.629 57.895 0.00 0.00 31.98 5.69
1277 1315 4.530875 CCCTGCTGATTCCATTTCTAACT 58.469 43.478 0.00 0.00 0.00 2.24
1278 1316 4.952335 CCCTGCTGATTCCATTTCTAACTT 59.048 41.667 0.00 0.00 0.00 2.66
1283 1321 7.083858 TGCTGATTCCATTTCTAACTTTTTCG 58.916 34.615 0.00 0.00 0.00 3.46
1287 1325 9.243637 TGATTCCATTTCTAACTTTTTCGTTTG 57.756 29.630 0.00 0.00 0.00 2.93
1326 1366 3.264104 GCCAAATTATGCATGCTGTTGT 58.736 40.909 20.33 2.48 0.00 3.32
1334 1374 1.792301 CATGCTGTTGTCCTCGCAG 59.208 57.895 0.00 0.00 35.66 5.18
1390 1464 3.870274 ACTCACATGTGACTGATGATGG 58.130 45.455 24.56 13.56 35.46 3.51
1461 1535 2.276732 CCATGATTTGGTATCGCCCT 57.723 50.000 0.00 0.00 40.99 5.19
1464 1538 0.182537 TGATTTGGTATCGCCCTGGG 59.817 55.000 8.86 8.86 36.04 4.45
1466 1540 0.629058 ATTTGGTATCGCCCTGGGTT 59.371 50.000 15.56 2.35 36.04 4.11
1536 1910 8.602472 ATTATTTTGGCCCTGATTGTAGTTAA 57.398 30.769 0.00 0.00 0.00 2.01
1573 1953 8.821147 ACATTTACGTTGATACTGAAACTGTA 57.179 30.769 0.00 0.00 0.00 2.74
1724 2257 6.490040 CCCTTAATATGTTAATGTGGGTCAGG 59.510 42.308 8.71 0.00 32.25 3.86
1903 2465 6.259550 TGATGACTATACATCTCATGTCCG 57.740 41.667 0.00 0.00 44.61 4.79
1904 2466 5.183904 TGATGACTATACATCTCATGTCCGG 59.816 44.000 0.00 0.00 44.61 5.14
1929 2496 4.168101 TGTTCCTCTGAAACCTGGATACT 58.832 43.478 0.00 0.00 31.45 2.12
1973 2908 6.390721 ACTTTTGATACGAGATGGATATCCG 58.609 40.000 17.04 6.99 39.43 4.18
1975 2910 3.352648 TGATACGAGATGGATATCCGCA 58.647 45.455 17.04 0.35 39.43 5.69
2085 3021 4.865925 CCATGCCTGTTGAAATTGTACATG 59.134 41.667 0.00 0.00 33.80 3.21
2100 3036 2.134789 ACATGGACTGGATTGAAGGC 57.865 50.000 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.023984 TCTGGGAGATTCCTCTAGTGCA 60.024 50.000 0.00 0.00 39.38 4.57
2 3 2.672098 TCTGGGAGATTCCTCTAGTGC 58.328 52.381 0.00 0.00 39.38 4.40
3 4 3.069443 GCTTCTGGGAGATTCCTCTAGTG 59.931 52.174 0.00 0.00 39.38 2.74
4 5 3.052186 AGCTTCTGGGAGATTCCTCTAGT 60.052 47.826 0.00 0.00 39.38 2.57
5 6 3.575805 AGCTTCTGGGAGATTCCTCTAG 58.424 50.000 0.00 0.00 39.38 2.43
6 7 3.697190 AGCTTCTGGGAGATTCCTCTA 57.303 47.619 0.00 0.00 39.38 2.43
7 8 2.566708 AGCTTCTGGGAGATTCCTCT 57.433 50.000 0.00 0.00 39.38 3.69
8 9 3.192541 GAAGCTTCTGGGAGATTCCTC 57.807 52.381 19.44 0.00 36.35 3.71
11 12 3.070878 CCTAGGAAGCTTCTGGGAGATTC 59.929 52.174 25.05 5.98 40.41 2.52
12 13 3.044894 CCTAGGAAGCTTCTGGGAGATT 58.955 50.000 25.05 4.87 35.22 2.40
13 14 2.688477 CCTAGGAAGCTTCTGGGAGAT 58.312 52.381 25.05 6.39 35.22 2.75
14 15 1.967274 GCCTAGGAAGCTTCTGGGAGA 60.967 57.143 25.05 4.70 35.22 3.71
15 16 0.467804 GCCTAGGAAGCTTCTGGGAG 59.532 60.000 25.05 15.86 35.22 4.30
16 17 0.983378 GGCCTAGGAAGCTTCTGGGA 60.983 60.000 25.05 7.97 35.22 4.37
17 18 1.529309 GGCCTAGGAAGCTTCTGGG 59.471 63.158 25.05 22.29 36.17 4.45
18 19 1.144936 CGGCCTAGGAAGCTTCTGG 59.855 63.158 25.05 22.70 0.00 3.86
19 20 1.144936 CCGGCCTAGGAAGCTTCTG 59.855 63.158 25.05 15.10 0.00 3.02
20 21 0.399233 ATCCGGCCTAGGAAGCTTCT 60.399 55.000 25.05 13.83 44.50 2.85
21 22 0.470341 AATCCGGCCTAGGAAGCTTC 59.530 55.000 18.54 18.54 44.50 3.86
22 23 0.470341 GAATCCGGCCTAGGAAGCTT 59.530 55.000 14.75 0.00 44.50 3.74
23 24 1.749334 CGAATCCGGCCTAGGAAGCT 61.749 60.000 14.75 0.00 44.50 3.74
24 25 1.301009 CGAATCCGGCCTAGGAAGC 60.301 63.158 14.75 0.00 44.50 3.86
35 36 4.126524 GGAAGCTTCCCGAATCCG 57.873 61.111 31.91 0.00 41.62 4.18
41 42 4.814294 CCGGTCGGAAGCTTCCCG 62.814 72.222 34.54 30.10 44.67 5.14
42 43 2.743126 AAACCGGTCGGAAGCTTCCC 62.743 60.000 34.54 23.24 44.67 3.97
43 44 0.887836 AAAACCGGTCGGAAGCTTCC 60.888 55.000 32.12 32.12 44.05 3.46
44 45 0.949397 AAAAACCGGTCGGAAGCTTC 59.051 50.000 18.54 18.54 38.96 3.86
45 46 3.105187 AAAAACCGGTCGGAAGCTT 57.895 47.368 16.90 0.00 38.96 3.74
46 47 4.892002 AAAAACCGGTCGGAAGCT 57.108 50.000 16.90 0.00 38.96 3.74
67 68 6.535508 CCGGTCAAGAAACCAAATAACAAAAA 59.464 34.615 0.00 0.00 39.43 1.94
68 69 6.043411 CCGGTCAAGAAACCAAATAACAAAA 58.957 36.000 0.00 0.00 39.43 2.44
69 70 5.452077 CCCGGTCAAGAAACCAAATAACAAA 60.452 40.000 0.00 0.00 39.43 2.83
70 71 4.038162 CCCGGTCAAGAAACCAAATAACAA 59.962 41.667 0.00 0.00 39.43 2.83
71 72 3.570550 CCCGGTCAAGAAACCAAATAACA 59.429 43.478 0.00 0.00 39.43 2.41
72 73 3.570975 ACCCGGTCAAGAAACCAAATAAC 59.429 43.478 0.00 0.00 39.43 1.89
73 74 3.834938 ACCCGGTCAAGAAACCAAATAA 58.165 40.909 0.00 0.00 39.43 1.40
74 75 3.512219 ACCCGGTCAAGAAACCAAATA 57.488 42.857 0.00 0.00 39.43 1.40
75 76 2.375014 ACCCGGTCAAGAAACCAAAT 57.625 45.000 0.00 0.00 39.43 2.32
76 77 2.146920 AACCCGGTCAAGAAACCAAA 57.853 45.000 0.00 0.00 39.43 3.28
77 78 2.025898 GAAACCCGGTCAAGAAACCAA 58.974 47.619 0.00 0.00 39.43 3.67
78 79 1.213430 AGAAACCCGGTCAAGAAACCA 59.787 47.619 0.00 0.00 39.43 3.67
79 80 1.977056 AGAAACCCGGTCAAGAAACC 58.023 50.000 0.00 0.00 35.86 3.27
80 81 3.003378 CAGAAGAAACCCGGTCAAGAAAC 59.997 47.826 0.00 0.00 0.00 2.78
81 82 3.211045 CAGAAGAAACCCGGTCAAGAAA 58.789 45.455 0.00 0.00 0.00 2.52
82 83 2.171870 ACAGAAGAAACCCGGTCAAGAA 59.828 45.455 0.00 0.00 0.00 2.52
83 84 1.766496 ACAGAAGAAACCCGGTCAAGA 59.234 47.619 0.00 0.00 0.00 3.02
84 85 2.256117 ACAGAAGAAACCCGGTCAAG 57.744 50.000 0.00 0.00 0.00 3.02
85 86 2.721425 AACAGAAGAAACCCGGTCAA 57.279 45.000 0.00 0.00 0.00 3.18
86 87 2.721425 AAACAGAAGAAACCCGGTCA 57.279 45.000 0.00 0.00 0.00 4.02
87 88 5.700722 AATAAAACAGAAGAAACCCGGTC 57.299 39.130 0.00 0.00 0.00 4.79
88 89 6.461927 GGAAAATAAAACAGAAGAAACCCGGT 60.462 38.462 0.00 0.00 0.00 5.28
89 90 5.924254 GGAAAATAAAACAGAAGAAACCCGG 59.076 40.000 0.00 0.00 0.00 5.73
90 91 5.924254 GGGAAAATAAAACAGAAGAAACCCG 59.076 40.000 0.00 0.00 0.00 5.28
91 92 7.062749 AGGGAAAATAAAACAGAAGAAACCC 57.937 36.000 0.00 0.00 0.00 4.11
92 93 8.958119 AAAGGGAAAATAAAACAGAAGAAACC 57.042 30.769 0.00 0.00 0.00 3.27
162 163 5.901552 AGAAAGGCTCACGAATTTGAAAAA 58.098 33.333 0.00 0.00 0.00 1.94
163 164 5.514274 AGAAAGGCTCACGAATTTGAAAA 57.486 34.783 0.00 0.00 0.00 2.29
164 165 5.529430 TGTAGAAAGGCTCACGAATTTGAAA 59.471 36.000 0.00 0.00 0.00 2.69
165 166 5.060506 TGTAGAAAGGCTCACGAATTTGAA 58.939 37.500 0.00 0.00 0.00 2.69
166 167 4.637276 TGTAGAAAGGCTCACGAATTTGA 58.363 39.130 0.00 0.00 0.00 2.69
167 168 5.356882 TTGTAGAAAGGCTCACGAATTTG 57.643 39.130 0.00 0.00 0.00 2.32
168 169 6.039382 AGTTTTGTAGAAAGGCTCACGAATTT 59.961 34.615 0.00 0.00 0.00 1.82
169 170 5.531287 AGTTTTGTAGAAAGGCTCACGAATT 59.469 36.000 0.00 0.00 0.00 2.17
170 171 5.063880 AGTTTTGTAGAAAGGCTCACGAAT 58.936 37.500 0.00 0.00 0.00 3.34
171 172 4.448210 AGTTTTGTAGAAAGGCTCACGAA 58.552 39.130 0.00 0.00 0.00 3.85
172 173 4.067972 AGTTTTGTAGAAAGGCTCACGA 57.932 40.909 0.00 0.00 0.00 4.35
173 174 4.035208 ACAAGTTTTGTAGAAAGGCTCACG 59.965 41.667 0.00 0.00 43.27 4.35
174 175 5.163652 ACACAAGTTTTGTAGAAAGGCTCAC 60.164 40.000 0.00 0.00 43.23 3.51
175 176 4.947388 ACACAAGTTTTGTAGAAAGGCTCA 59.053 37.500 0.00 0.00 43.23 4.26
176 177 5.500645 ACACAAGTTTTGTAGAAAGGCTC 57.499 39.130 0.00 0.00 43.23 4.70
177 178 5.914898 AACACAAGTTTTGTAGAAAGGCT 57.085 34.783 0.00 0.00 43.23 4.58
219 220 8.749841 TTGAAAAGAGTTCGTGAATTCAAAAA 57.250 26.923 10.35 4.71 33.74 1.94
220 221 8.925161 ATTGAAAAGAGTTCGTGAATTCAAAA 57.075 26.923 10.35 5.08 38.38 2.44
221 222 8.925161 AATTGAAAAGAGTTCGTGAATTCAAA 57.075 26.923 10.35 0.00 38.38 2.69
222 223 8.925161 AAATTGAAAAGAGTTCGTGAATTCAA 57.075 26.923 10.35 8.67 38.98 2.69
223 224 8.925161 AAAATTGAAAAGAGTTCGTGAATTCA 57.075 26.923 3.38 3.38 30.52 2.57
245 246 8.338986 GCGGATTTTGGAAAAAGTTCATAAAAA 58.661 29.630 0.00 0.00 36.15 1.94
246 247 7.495934 TGCGGATTTTGGAAAAAGTTCATAAAA 59.504 29.630 0.00 0.00 36.56 1.52
247 248 6.986817 TGCGGATTTTGGAAAAAGTTCATAAA 59.013 30.769 0.00 0.00 35.25 1.40
248 249 6.516718 TGCGGATTTTGGAAAAAGTTCATAA 58.483 32.000 0.00 0.00 35.25 1.90
249 250 6.090483 TGCGGATTTTGGAAAAAGTTCATA 57.910 33.333 0.00 0.00 35.25 2.15
250 251 4.954875 TGCGGATTTTGGAAAAAGTTCAT 58.045 34.783 0.00 0.00 35.25 2.57
251 252 4.392921 TGCGGATTTTGGAAAAAGTTCA 57.607 36.364 0.00 0.00 35.25 3.18
252 253 5.293324 AGTTTGCGGATTTTGGAAAAAGTTC 59.707 36.000 0.00 0.00 0.00 3.01
253 254 5.182487 AGTTTGCGGATTTTGGAAAAAGTT 58.818 33.333 0.00 0.00 0.00 2.66
254 255 4.765273 AGTTTGCGGATTTTGGAAAAAGT 58.235 34.783 0.00 0.00 0.00 2.66
255 256 5.733226 AAGTTTGCGGATTTTGGAAAAAG 57.267 34.783 0.00 0.00 0.00 2.27
256 257 6.502136 AAAAGTTTGCGGATTTTGGAAAAA 57.498 29.167 0.00 0.00 0.00 1.94
257 258 7.495934 TGATAAAAGTTTGCGGATTTTGGAAAA 59.504 29.630 0.00 0.00 0.00 2.29
258 259 6.986817 TGATAAAAGTTTGCGGATTTTGGAAA 59.013 30.769 0.00 0.00 0.00 3.13
259 260 6.516718 TGATAAAAGTTTGCGGATTTTGGAA 58.483 32.000 0.00 0.00 0.00 3.53
260 261 6.090483 TGATAAAAGTTTGCGGATTTTGGA 57.910 33.333 0.00 0.00 0.00 3.53
261 262 6.777526 TTGATAAAAGTTTGCGGATTTTGG 57.222 33.333 0.00 0.00 0.00 3.28
262 263 9.316859 GAATTTGATAAAAGTTTGCGGATTTTG 57.683 29.630 0.00 0.00 0.00 2.44
263 264 9.050601 TGAATTTGATAAAAGTTTGCGGATTTT 57.949 25.926 0.00 0.00 0.00 1.82
264 265 8.600449 TGAATTTGATAAAAGTTTGCGGATTT 57.400 26.923 0.00 0.00 0.00 2.17
265 266 8.658609 CATGAATTTGATAAAAGTTTGCGGATT 58.341 29.630 0.00 0.00 0.00 3.01
266 267 8.034215 TCATGAATTTGATAAAAGTTTGCGGAT 58.966 29.630 0.00 0.00 0.00 4.18
267 268 7.374272 TCATGAATTTGATAAAAGTTTGCGGA 58.626 30.769 0.00 0.00 0.00 5.54
268 269 7.579589 TCATGAATTTGATAAAAGTTTGCGG 57.420 32.000 0.00 0.00 0.00 5.69
269 270 9.679596 GATTCATGAATTTGATAAAAGTTTGCG 57.320 29.630 21.57 0.00 0.00 4.85
439 440 9.020731 GGAGGGAGTATTTGAAAAAGTTTATGA 57.979 33.333 0.00 0.00 0.00 2.15
440 441 7.968405 CGGAGGGAGTATTTGAAAAAGTTTATG 59.032 37.037 0.00 0.00 0.00 1.90
441 442 7.668469 ACGGAGGGAGTATTTGAAAAAGTTTAT 59.332 33.333 0.00 0.00 0.00 1.40
442 443 6.999871 ACGGAGGGAGTATTTGAAAAAGTTTA 59.000 34.615 0.00 0.00 0.00 2.01
443 444 5.831525 ACGGAGGGAGTATTTGAAAAAGTTT 59.168 36.000 0.00 0.00 0.00 2.66
444 445 5.382616 ACGGAGGGAGTATTTGAAAAAGTT 58.617 37.500 0.00 0.00 0.00 2.66
445 446 4.981812 ACGGAGGGAGTATTTGAAAAAGT 58.018 39.130 0.00 0.00 0.00 2.66
446 447 4.395231 GGACGGAGGGAGTATTTGAAAAAG 59.605 45.833 0.00 0.00 0.00 2.27
447 448 4.329392 GGACGGAGGGAGTATTTGAAAAA 58.671 43.478 0.00 0.00 0.00 1.94
448 449 3.307904 GGGACGGAGGGAGTATTTGAAAA 60.308 47.826 0.00 0.00 0.00 2.29
449 450 2.237893 GGGACGGAGGGAGTATTTGAAA 59.762 50.000 0.00 0.00 0.00 2.69
450 451 1.835531 GGGACGGAGGGAGTATTTGAA 59.164 52.381 0.00 0.00 0.00 2.69
451 452 1.273381 TGGGACGGAGGGAGTATTTGA 60.273 52.381 0.00 0.00 0.00 2.69
452 453 1.200519 TGGGACGGAGGGAGTATTTG 58.799 55.000 0.00 0.00 0.00 2.32
453 454 2.191981 ATGGGACGGAGGGAGTATTT 57.808 50.000 0.00 0.00 0.00 1.40
454 455 3.339713 TTATGGGACGGAGGGAGTATT 57.660 47.619 0.00 0.00 0.00 1.89
455 456 3.562108 ATTATGGGACGGAGGGAGTAT 57.438 47.619 0.00 0.00 0.00 2.12
456 457 4.687262 ATATTATGGGACGGAGGGAGTA 57.313 45.455 0.00 0.00 0.00 2.59
457 458 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
458 459 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
459 460 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
460 461 5.623824 CGTTCTTATATTATGGGACGGAGGG 60.624 48.000 0.00 0.00 0.00 4.30
461 462 5.047519 ACGTTCTTATATTATGGGACGGAGG 60.048 44.000 13.18 0.00 0.00 4.30
462 463 6.022163 ACGTTCTTATATTATGGGACGGAG 57.978 41.667 13.18 0.00 0.00 4.63
463 464 6.409524 AACGTTCTTATATTATGGGACGGA 57.590 37.500 0.00 0.00 0.00 4.69
464 465 7.486802 AAAACGTTCTTATATTATGGGACGG 57.513 36.000 0.00 1.76 0.00 4.79
465 466 8.605746 TCAAAAACGTTCTTATATTATGGGACG 58.394 33.333 0.00 9.33 0.00 4.79
466 467 9.712359 GTCAAAAACGTTCTTATATTATGGGAC 57.288 33.333 0.00 0.00 0.00 4.46
467 468 9.451002 TGTCAAAAACGTTCTTATATTATGGGA 57.549 29.630 0.00 0.00 0.00 4.37
468 469 9.498307 GTGTCAAAAACGTTCTTATATTATGGG 57.502 33.333 0.00 0.00 0.00 4.00
474 475 9.924650 AGTCTAGTGTCAAAAACGTTCTTATAT 57.075 29.630 0.00 0.00 0.00 0.86
476 477 9.408069 CTAGTCTAGTGTCAAAAACGTTCTTAT 57.592 33.333 0.00 0.00 0.00 1.73
477 478 8.408601 ACTAGTCTAGTGTCAAAAACGTTCTTA 58.591 33.333 11.88 0.00 37.69 2.10
478 479 7.263496 ACTAGTCTAGTGTCAAAAACGTTCTT 58.737 34.615 11.88 0.00 37.69 2.52
479 480 6.803642 ACTAGTCTAGTGTCAAAAACGTTCT 58.196 36.000 11.88 0.00 37.69 3.01
493 494 6.998802 AGAGCATTTTTGACACTAGTCTAGT 58.001 36.000 6.71 6.71 45.20 2.57
494 495 7.897575 AAGAGCATTTTTGACACTAGTCTAG 57.102 36.000 5.27 5.27 45.20 2.43
502 503 9.683069 CCCATAATATAAGAGCATTTTTGACAC 57.317 33.333 0.00 0.00 0.00 3.67
503 504 9.639563 TCCCATAATATAAGAGCATTTTTGACA 57.360 29.630 0.00 0.00 0.00 3.58
504 505 9.899226 GTCCCATAATATAAGAGCATTTTTGAC 57.101 33.333 0.00 0.00 0.00 3.18
505 506 9.639563 TGTCCCATAATATAAGAGCATTTTTGA 57.360 29.630 0.00 0.00 0.00 2.69
506 507 9.903682 CTGTCCCATAATATAAGAGCATTTTTG 57.096 33.333 0.00 0.00 0.00 2.44
507 508 9.866655 TCTGTCCCATAATATAAGAGCATTTTT 57.133 29.630 0.00 0.00 0.00 1.94
508 509 9.512588 CTCTGTCCCATAATATAAGAGCATTTT 57.487 33.333 0.00 0.00 0.00 1.82
509 510 8.105829 CCTCTGTCCCATAATATAAGAGCATTT 58.894 37.037 0.00 0.00 0.00 2.32
510 511 7.311549 CCCTCTGTCCCATAATATAAGAGCATT 60.312 40.741 0.00 0.00 0.00 3.56
511 512 6.157645 CCCTCTGTCCCATAATATAAGAGCAT 59.842 42.308 0.00 0.00 0.00 3.79
512 513 5.485353 CCCTCTGTCCCATAATATAAGAGCA 59.515 44.000 0.00 0.00 0.00 4.26
513 514 5.721960 TCCCTCTGTCCCATAATATAAGAGC 59.278 44.000 0.00 0.00 0.00 4.09
514 515 6.957020 ACTCCCTCTGTCCCATAATATAAGAG 59.043 42.308 0.00 0.00 0.00 2.85
515 516 6.875469 ACTCCCTCTGTCCCATAATATAAGA 58.125 40.000 0.00 0.00 0.00 2.10
516 517 8.846423 ATACTCCCTCTGTCCCATAATATAAG 57.154 38.462 0.00 0.00 0.00 1.73
519 520 9.805204 AAATATACTCCCTCTGTCCCATAATAT 57.195 33.333 0.00 0.00 0.00 1.28
520 521 9.629649 AAAATATACTCCCTCTGTCCCATAATA 57.370 33.333 0.00 0.00 0.00 0.98
521 522 8.525729 AAAATATACTCCCTCTGTCCCATAAT 57.474 34.615 0.00 0.00 0.00 1.28
522 523 7.947782 AAAATATACTCCCTCTGTCCCATAA 57.052 36.000 0.00 0.00 0.00 1.90
523 524 7.947782 AAAAATATACTCCCTCTGTCCCATA 57.052 36.000 0.00 0.00 0.00 2.74
524 525 6.848562 AAAAATATACTCCCTCTGTCCCAT 57.151 37.500 0.00 0.00 0.00 4.00
548 549 6.128117 GCAATAAAAAGTTCACGAGTATGGGA 60.128 38.462 0.00 0.00 0.00 4.37
557 558 9.340695 TCATAGATTTGCAATAAAAAGTTCACG 57.659 29.630 0.00 0.00 0.00 4.35
658 659 1.562575 GCGTTAACCGGTCACCTGTG 61.563 60.000 8.04 0.00 36.94 3.66
659 660 1.301165 GCGTTAACCGGTCACCTGT 60.301 57.895 8.04 0.00 36.94 4.00
686 687 2.582498 CGCTCGGGTCGATGGTTC 60.582 66.667 0.00 0.00 34.61 3.62
880 908 2.997485 AAGCGTGAGATTTTGGCTTC 57.003 45.000 0.00 0.00 39.58 3.86
893 931 3.302347 AAGGCGGAGGAGAAGCGTG 62.302 63.158 0.00 0.00 0.00 5.34
908 946 3.839432 GGTCGGCTCGGAGGAAGG 61.839 72.222 7.20 0.00 0.00 3.46
1255 1293 4.530875 AGTTAGAAATGGAATCAGCAGGG 58.469 43.478 0.00 0.00 0.00 4.45
1265 1303 6.695278 CAGCAAACGAAAAAGTTAGAAATGGA 59.305 34.615 0.00 0.00 33.41 3.41
1277 1315 2.596452 TGCGAAACAGCAAACGAAAAA 58.404 38.095 0.00 0.00 45.06 1.94
1278 1316 2.264109 TGCGAAACAGCAAACGAAAA 57.736 40.000 0.00 0.00 45.06 2.29
1287 1325 2.774864 GCAATGAAATGCGAAACAGC 57.225 45.000 0.00 0.00 36.45 4.40
1359 1427 6.826231 TCAGTCACATGTGAGTTTTCCTTTAA 59.174 34.615 29.55 8.36 41.02 1.52
1364 1432 4.756642 TCATCAGTCACATGTGAGTTTTCC 59.243 41.667 29.55 16.83 41.02 3.13
1390 1464 4.636249 ACCATCTCAATCCTAAGCGATTC 58.364 43.478 0.00 0.00 29.85 2.52
1460 1534 5.126067 CACAAGGATATAAGGTGAACCCAG 58.874 45.833 0.00 0.00 36.42 4.45
1461 1535 4.080015 CCACAAGGATATAAGGTGAACCCA 60.080 45.833 0.00 0.00 36.89 4.51
1464 1538 6.049790 GTCTCCACAAGGATATAAGGTGAAC 58.950 44.000 0.00 0.00 44.70 3.18
1466 1540 5.277250 TGTCTCCACAAGGATATAAGGTGA 58.723 41.667 0.00 0.00 44.70 4.02
1536 1910 6.694447 TCAACGTAAATGTAGCTAGGAAAGT 58.306 36.000 0.00 0.00 0.00 2.66
1573 1953 6.214819 TCAGGTGGTTCTAATAGCCTACTTTT 59.785 38.462 0.00 0.00 0.00 2.27
1632 2012 2.250188 CATCCAATCCAAAAACGTCGC 58.750 47.619 0.00 0.00 0.00 5.19
1724 2257 7.333528 TCACTAATTGTATCCTGAAAATGGC 57.666 36.000 0.00 0.00 0.00 4.40
1850 2412 8.958060 TTTAGTCTAGGATGTAATCTGGCTAT 57.042 34.615 0.00 0.00 44.71 2.97
1903 2465 1.815003 CAGGTTTCAGAGGAACATGCC 59.185 52.381 0.00 0.00 31.35 4.40
1904 2466 1.815003 CCAGGTTTCAGAGGAACATGC 59.185 52.381 0.00 0.00 31.35 4.06
2085 3021 5.067023 CAGAAATTAGCCTTCAATCCAGTCC 59.933 44.000 0.00 0.00 0.00 3.85


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.