Multiple sequence alignment - TraesCS6B01G296500

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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 TraesCS6B01G296500 chr6B 100.000 4239 0 0 1 4239 532198622 532194384 0.000000e+00 7829.0
1 TraesCS6B01G296500 chr6B 85.084 476 29 17 3406 3845 605795019 605794550 8.360000e-122 448.0
2 TraesCS6B01G296500 chr6D 93.542 2880 119 27 539 3408 347995012 347997834 0.000000e+00 4226.0
3 TraesCS6B01G296500 chr6D 93.893 393 20 4 3848 4239 371298561 371298172 1.310000e-164 590.0
4 TraesCS6B01G296500 chr6D 92.621 393 24 5 3848 4239 409650272 409650660 1.030000e-155 560.0
5 TraesCS6B01G296500 chr6D 91.603 393 29 4 3848 4239 31804788 31805177 1.340000e-149 540.0
6 TraesCS6B01G296500 chr6D 83.744 203 21 7 3409 3599 411203701 411203903 9.360000e-42 182.0
7 TraesCS6B01G296500 chr6A 91.382 2866 150 47 582 3402 495475872 495473059 0.000000e+00 3834.0
8 TraesCS6B01G296500 chr6A 86.354 469 35 14 3406 3845 133505973 133505505 6.370000e-133 484.0
9 TraesCS6B01G296500 chr3A 87.833 526 34 10 1 514 611205257 611205764 1.310000e-164 590.0
10 TraesCS6B01G296500 chr2A 93.130 393 23 4 3848 4239 195742115 195741726 1.320000e-159 573.0
11 TraesCS6B01G296500 chr2A 87.473 463 32 15 3409 3845 657058868 657058406 1.050000e-140 510.0
12 TraesCS6B01G296500 chr4A 92.621 393 25 3 3848 4239 585593686 585593297 2.860000e-156 562.0
13 TraesCS6B01G296500 chr1D 91.980 399 25 3 3848 4239 51045253 51045651 1.720000e-153 553.0
14 TraesCS6B01G296500 chr1D 91.667 396 26 5 3848 4239 493700161 493699769 3.730000e-150 542.0
15 TraesCS6B01G296500 chr1D 88.889 333 21 11 3529 3845 51044081 51044413 3.070000e-106 396.0
16 TraesCS6B01G296500 chr1D 89.024 164 16 2 3407 3568 353551720 353551883 7.190000e-48 202.0
17 TraesCS6B01G296500 chr1B 91.858 393 26 6 3848 4239 564526817 564526430 1.040000e-150 544.0
18 TraesCS6B01G296500 chr2D 91.688 397 24 5 3848 4239 386514731 386515123 3.730000e-150 542.0
19 TraesCS6B01G296500 chr2D 86.638 464 35 16 3408 3845 535624475 535624937 4.930000e-134 488.0
20 TraesCS6B01G296500 chr2D 84.842 475 32 12 3402 3845 386513713 386514178 3.890000e-120 442.0
21 TraesCS6B01G296500 chr2D 87.861 173 15 4 3405 3571 314230521 314230349 9.300000e-47 198.0
22 TraesCS6B01G296500 chr5B 88.717 452 33 10 3410 3845 639620015 639619566 1.730000e-148 536.0
23 TraesCS6B01G296500 chr3B 87.742 465 41 8 3397 3845 706727041 706726577 2.900000e-146 529.0
24 TraesCS6B01G296500 chr3B 85.376 465 38 12 3408 3845 379092627 379093088 5.000000e-124 455.0
25 TraesCS6B01G296500 chr3B 84.906 371 39 7 3409 3762 252872159 252871789 4.030000e-95 359.0
26 TraesCS6B01G296500 chr7A 86.052 466 38 14 3406 3845 522926181 522926645 3.840000e-130 475.0
27 TraesCS6B01G296500 chr3D 93.625 251 13 1 3595 3845 84474681 84474434 5.180000e-99 372.0
28 TraesCS6B01G296500 chr2B 88.095 168 18 2 3406 3571 783706675 783706842 9.300000e-47 198.0
29 TraesCS6B01G296500 chr2B 88.095 168 18 2 3406 3571 783962035 783962202 9.300000e-47 198.0
30 TraesCS6B01G296500 chr5A 91.379 58 3 2 2442 2498 680735427 680735371 1.260000e-10 78.7


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 TraesCS6B01G296500 chr6B 532194384 532198622 4238 True 7829.0 7829 100.0000 1 4239 1 chr6B.!!$R1 4238
1 TraesCS6B01G296500 chr6D 347995012 347997834 2822 False 4226.0 4226 93.5420 539 3408 1 chr6D.!!$F2 2869
2 TraesCS6B01G296500 chr6A 495473059 495475872 2813 True 3834.0 3834 91.3820 582 3402 1 chr6A.!!$R2 2820
3 TraesCS6B01G296500 chr3A 611205257 611205764 507 False 590.0 590 87.8330 1 514 1 chr3A.!!$F1 513
4 TraesCS6B01G296500 chr1D 51044081 51045651 1570 False 474.5 553 90.4345 3529 4239 2 chr1D.!!$F2 710
5 TraesCS6B01G296500 chr2D 386513713 386515123 1410 False 492.0 542 88.2650 3402 4239 2 chr2D.!!$F2 837

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
437 450 0.035439 GGGGCGGAATCAGAGTTGAA 60.035 55.0 0.00 0.0 36.78 2.69 F
1498 1551 0.107703 GATGAGCCGGACATGGACAA 60.108 55.0 17.03 0.0 0.00 3.18 F
1593 1657 0.482446 AGATCTCCTCGCTCCATCCT 59.518 55.0 0.00 0.0 0.00 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2418 2484 0.109412 GTACAGGTTCCAGTCGACGG 60.109 60.000 17.01 17.01 0.0 4.79 R
3124 3190 0.750249 TCTCCACGAACTTGAGCACA 59.250 50.000 0.00 0.00 0.0 4.57 R
3248 3314 1.802365 GGTCTACGCCGATGTTTTTGT 59.198 47.619 0.00 0.00 0.0 2.83 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
22 23 2.930682 GCCAGTAAAGGAATCGAGTGTC 59.069 50.000 0.00 0.00 0.00 3.67
26 27 3.757493 AGTAAAGGAATCGAGTGTCGTCT 59.243 43.478 0.00 0.00 41.35 4.18
41 42 2.520500 TCTTTGCTTTGGCCGCCA 60.521 55.556 8.43 8.43 37.74 5.69
66 79 2.880890 GCAAAGGAAAGAGAGCAGACAA 59.119 45.455 0.00 0.00 0.00 3.18
92 105 0.756294 TGGTGGTCGCTTCTTCTTCA 59.244 50.000 0.00 0.00 0.00 3.02
95 108 0.756294 TGGTCGCTTCTTCTTCACCA 59.244 50.000 0.00 0.00 0.00 4.17
96 109 1.347707 TGGTCGCTTCTTCTTCACCAT 59.652 47.619 0.00 0.00 0.00 3.55
153 166 0.251077 CAACAAGGCCAGCTTCCTCT 60.251 55.000 5.01 0.00 32.45 3.69
254 267 2.047274 CCCATCAGCCACGACGTT 60.047 61.111 0.00 0.00 0.00 3.99
259 272 1.251527 ATCAGCCACGACGTTCTCCT 61.252 55.000 0.00 0.00 0.00 3.69
260 273 1.734477 CAGCCACGACGTTCTCCTG 60.734 63.158 0.00 0.00 0.00 3.86
299 312 2.572284 GTACGTCTTCTGCGCCCT 59.428 61.111 4.18 0.00 0.00 5.19
325 338 2.370445 CCAGGACCAGAAGCGGGAT 61.370 63.158 0.00 0.00 0.00 3.85
344 357 4.269523 TGGCCTCCGCAAGCAGTT 62.270 61.111 3.32 0.00 36.38 3.16
345 358 3.741476 GGCCTCCGCAAGCAGTTG 61.741 66.667 0.00 0.00 36.38 3.16
355 368 2.701073 CAAGCAGTTGCAGAGGAAAG 57.299 50.000 6.90 0.00 45.16 2.62
356 369 2.224606 CAAGCAGTTGCAGAGGAAAGA 58.775 47.619 6.90 0.00 45.16 2.52
357 370 2.818432 CAAGCAGTTGCAGAGGAAAGAT 59.182 45.455 6.90 0.00 45.16 2.40
358 371 2.709213 AGCAGTTGCAGAGGAAAGATC 58.291 47.619 6.90 0.00 45.16 2.75
359 372 1.396301 GCAGTTGCAGAGGAAAGATCG 59.604 52.381 0.00 0.00 41.59 3.69
360 373 2.693069 CAGTTGCAGAGGAAAGATCGT 58.307 47.619 0.00 0.00 0.00 3.73
365 378 0.807667 CAGAGGAAAGATCGTGGGCG 60.808 60.000 0.00 0.00 39.92 6.13
382 395 4.162690 GGAGGGTTCGAGCGGCAT 62.163 66.667 1.45 0.00 0.00 4.40
383 396 2.792947 GGAGGGTTCGAGCGGCATA 61.793 63.158 1.45 0.00 0.00 3.14
384 397 1.300233 GAGGGTTCGAGCGGCATAG 60.300 63.158 1.45 0.00 0.00 2.23
385 398 2.017559 GAGGGTTCGAGCGGCATAGT 62.018 60.000 1.45 0.00 0.00 2.12
386 399 1.153429 GGGTTCGAGCGGCATAGTT 60.153 57.895 1.45 0.00 0.00 2.24
387 400 1.429148 GGGTTCGAGCGGCATAGTTG 61.429 60.000 1.45 0.00 0.00 3.16
388 401 1.429148 GGTTCGAGCGGCATAGTTGG 61.429 60.000 1.45 0.00 0.00 3.77
408 421 3.197549 TGGTGGTAACGGGACCTATTTAC 59.802 47.826 9.17 0.00 40.46 2.01
418 431 0.544697 ACCTATTTACGGCTGGGGTG 59.455 55.000 0.00 0.00 0.00 4.61
437 450 0.035439 GGGGCGGAATCAGAGTTGAA 60.035 55.000 0.00 0.00 36.78 2.69
445 458 2.486472 ATCAGAGTTGAACTGGGCTG 57.514 50.000 0.90 4.30 36.78 4.85
449 462 2.808543 CAGAGTTGAACTGGGCTGTAAC 59.191 50.000 0.90 0.00 0.00 2.50
493 506 0.825840 GGCCCAGCTAACCAAACACA 60.826 55.000 0.00 0.00 0.00 3.72
507 520 7.692908 AACCAAACACAATTAACGAAATCAG 57.307 32.000 0.00 0.00 0.00 2.90
514 527 7.461107 ACACAATTAACGAAATCAGATAACGG 58.539 34.615 11.92 0.00 0.00 4.44
515 528 6.905076 CACAATTAACGAAATCAGATAACGGG 59.095 38.462 11.92 0.00 0.00 5.28
516 529 6.596497 ACAATTAACGAAATCAGATAACGGGT 59.404 34.615 11.92 4.47 0.00 5.28
517 530 7.765360 ACAATTAACGAAATCAGATAACGGGTA 59.235 33.333 11.92 3.76 0.00 3.69
518 531 8.605746 CAATTAACGAAATCAGATAACGGGTAA 58.394 33.333 11.92 10.01 0.00 2.85
519 532 8.721019 ATTAACGAAATCAGATAACGGGTAAA 57.279 30.769 11.92 3.71 0.00 2.01
520 533 8.545229 TTAACGAAATCAGATAACGGGTAAAA 57.455 30.769 11.92 0.23 0.00 1.52
521 534 6.413018 ACGAAATCAGATAACGGGTAAAAC 57.587 37.500 11.92 0.00 0.00 2.43
522 535 6.168389 ACGAAATCAGATAACGGGTAAAACT 58.832 36.000 11.92 0.00 0.00 2.66
523 536 6.091713 ACGAAATCAGATAACGGGTAAAACTG 59.908 38.462 11.92 0.00 0.00 3.16
524 537 6.311935 CGAAATCAGATAACGGGTAAAACTGA 59.688 38.462 0.00 0.00 37.33 3.41
525 538 7.464178 CGAAATCAGATAACGGGTAAAACTGAG 60.464 40.741 0.00 0.00 36.59 3.35
526 539 5.080969 TCAGATAACGGGTAAAACTGAGG 57.919 43.478 0.00 0.00 0.00 3.86
527 540 4.081309 TCAGATAACGGGTAAAACTGAGGG 60.081 45.833 0.00 0.00 0.00 4.30
528 541 4.081309 CAGATAACGGGTAAAACTGAGGGA 60.081 45.833 0.00 0.00 0.00 4.20
529 542 4.533311 AGATAACGGGTAAAACTGAGGGAA 59.467 41.667 0.00 0.00 0.00 3.97
530 543 2.556144 ACGGGTAAAACTGAGGGAAC 57.444 50.000 0.00 0.00 0.00 3.62
565 578 2.734723 TCGCTCGCAACAGCTCAC 60.735 61.111 0.00 0.00 37.25 3.51
566 579 3.037833 CGCTCGCAACAGCTCACA 61.038 61.111 0.00 0.00 37.25 3.58
567 580 2.553268 GCTCGCAACAGCTCACAC 59.447 61.111 0.00 0.00 36.38 3.82
569 582 2.661537 TCGCAACAGCTCACACCG 60.662 61.111 0.00 0.00 0.00 4.94
570 583 4.374702 CGCAACAGCTCACACCGC 62.375 66.667 0.00 0.00 0.00 5.68
571 584 2.974698 GCAACAGCTCACACCGCT 60.975 61.111 0.00 0.00 38.49 5.52
572 585 2.546494 GCAACAGCTCACACCGCTT 61.546 57.895 0.00 0.00 35.07 4.68
573 586 1.280746 CAACAGCTCACACCGCTTG 59.719 57.895 0.00 0.00 35.07 4.01
575 588 2.667536 CAGCTCACACCGCTTGCT 60.668 61.111 0.00 0.00 35.07 3.91
576 589 2.667536 AGCTCACACCGCTTGCTG 60.668 61.111 0.00 0.00 32.98 4.41
577 590 3.730761 GCTCACACCGCTTGCTGG 61.731 66.667 0.00 2.87 0.00 4.85
578 591 3.730761 CTCACACCGCTTGCTGGC 61.731 66.667 4.04 0.00 0.00 4.85
579 592 4.254709 TCACACCGCTTGCTGGCT 62.255 61.111 4.04 0.00 0.00 4.75
580 593 3.289834 CACACCGCTTGCTGGCTT 61.290 61.111 4.04 0.00 0.00 4.35
602 616 2.541762 GAGAGCCAGCATAGTTAAAGCG 59.458 50.000 0.00 0.00 0.00 4.68
658 672 0.892755 AATGAAGGACGTGTAGGCGA 59.107 50.000 0.00 0.00 35.59 5.54
769 784 0.958822 ACGGTCCAAACAAATCTGGC 59.041 50.000 0.00 0.00 32.33 4.85
774 789 2.029020 GTCCAAACAAATCTGGCCCTTC 60.029 50.000 0.00 0.00 32.33 3.46
778 793 0.332972 ACAAATCTGGCCCTTCTCCC 59.667 55.000 0.00 0.00 0.00 4.30
780 795 1.926426 AAATCTGGCCCTTCTCCCCG 61.926 60.000 0.00 0.00 0.00 5.73
797 816 1.272480 CCCGGGAAAGGAATGAAACCT 60.272 52.381 18.48 0.00 39.69 3.50
828 847 1.709147 CCCTTGCTACACGCTGCATC 61.709 60.000 0.00 0.00 39.07 3.91
841 860 4.694982 CACGCTGCATCCCATTATTATACA 59.305 41.667 0.00 0.00 0.00 2.29
843 862 5.767665 ACGCTGCATCCCATTATTATACAAA 59.232 36.000 0.00 0.00 0.00 2.83
844 863 6.434028 ACGCTGCATCCCATTATTATACAAAT 59.566 34.615 0.00 0.00 0.00 2.32
865 884 3.068729 GCGCTTGATTTGGGGGCTC 62.069 63.158 0.00 0.00 36.28 4.70
868 892 1.754234 CTTGATTTGGGGGCTCGGG 60.754 63.158 0.00 0.00 0.00 5.14
1143 1191 1.602237 GCCCGATCTCCTTTCCACA 59.398 57.895 0.00 0.00 0.00 4.17
1165 1213 3.280295 TCATCTTCTCCCTCTCGTACAC 58.720 50.000 0.00 0.00 0.00 2.90
1285 1338 0.793250 GACGAACCTTGAAGCAGAGC 59.207 55.000 0.00 0.00 0.00 4.09
1302 1355 1.076485 GCACTCAGGGCCCATTCAT 60.076 57.895 27.56 0.00 0.00 2.57
1321 1374 1.125093 TCTCACAAAGGCCCCGAGAA 61.125 55.000 0.00 0.00 30.04 2.87
1331 1384 3.532155 CCCGAGAAGAGGCCTCCG 61.532 72.222 29.54 23.51 0.00 4.63
1357 1410 4.481112 GCAATCGGCAAGCCCACG 62.481 66.667 5.34 0.00 43.97 4.94
1374 1427 0.745845 ACGGCAATCTCATCCAGCAC 60.746 55.000 0.00 0.00 0.00 4.40
1376 1429 1.202568 CGGCAATCTCATCCAGCACTA 60.203 52.381 0.00 0.00 0.00 2.74
1380 1433 4.262808 GGCAATCTCATCCAGCACTACTAT 60.263 45.833 0.00 0.00 0.00 2.12
1384 1437 2.968574 CTCATCCAGCACTACTATGGGT 59.031 50.000 0.00 0.00 34.71 4.51
1386 1439 2.543037 TCCAGCACTACTATGGGTGA 57.457 50.000 0.00 0.00 35.69 4.02
1387 1440 3.046283 TCCAGCACTACTATGGGTGAT 57.954 47.619 0.00 0.00 35.69 3.06
1389 1442 6.970706 CATCCAGCACTACTATGGGTGATGA 61.971 48.000 11.95 0.92 46.27 2.92
1392 1445 3.969976 AGCACTACTATGGGTGATGATGT 59.030 43.478 0.00 0.00 35.69 3.06
1405 1458 2.290832 TGATGATGTTGCTGGCCTTGTA 60.291 45.455 3.32 0.00 0.00 2.41
1427 1480 8.526218 TGTAGAGCTGTAGTATACGTGTATAC 57.474 38.462 18.21 18.21 46.99 1.47
1498 1551 0.107703 GATGAGCCGGACATGGACAA 60.108 55.000 17.03 0.00 0.00 3.18
1538 1594 1.594293 TAGGCTAGCGGCGAAATGC 60.594 57.895 12.98 8.64 42.94 3.56
1581 1642 4.142730 GCGGCAAATATGATTCAGATCTCC 60.143 45.833 0.00 0.00 33.28 3.71
1592 1656 0.602562 CAGATCTCCTCGCTCCATCC 59.397 60.000 0.00 0.00 0.00 3.51
1593 1657 0.482446 AGATCTCCTCGCTCCATCCT 59.518 55.000 0.00 0.00 0.00 3.24
1594 1658 1.133199 AGATCTCCTCGCTCCATCCTT 60.133 52.381 0.00 0.00 0.00 3.36
1617 1681 6.459670 TGCATTTGAATTGATACTGCATCT 57.540 33.333 0.00 0.00 33.59 2.90
1620 1684 7.820386 TGCATTTGAATTGATACTGCATCTTTT 59.180 29.630 0.00 0.00 33.59 2.27
1626 1690 9.017509 TGAATTGATACTGCATCTTTTCTTTCT 57.982 29.630 0.00 0.00 34.46 2.52
1631 1695 9.071276 TGATACTGCATCTTTTCTTTCTTTTCT 57.929 29.630 0.00 0.00 34.46 2.52
1663 1727 4.277258 CATTTGATACTGCATCTGCGTTC 58.723 43.478 0.00 1.82 45.83 3.95
1731 1797 3.573967 TCATGCTCTAATGCCGTCATCTA 59.426 43.478 0.00 0.00 31.27 1.98
1737 1803 5.176590 GCTCTAATGCCGTCATCTAAAGAAG 59.823 44.000 0.00 0.00 31.27 2.85
1746 1812 6.565234 CCGTCATCTAAAGAAGTGTATGTCT 58.435 40.000 0.00 0.00 0.00 3.41
1771 1837 4.093291 CTCCAGCAGAAGCCCGCT 62.093 66.667 0.00 0.00 43.56 5.52
1833 1899 3.766691 GGAAGGCGCGGAGTACCA 61.767 66.667 8.83 0.00 35.59 3.25
2012 2078 4.448976 GCTTCCTTGCCCTCCCCC 62.449 72.222 0.00 0.00 0.00 5.40
2353 2419 0.911525 TCTCCCTCCTGCCTTTCCTG 60.912 60.000 0.00 0.00 0.00 3.86
2418 2484 2.478989 TCGAGGTCGATCTCCACAC 58.521 57.895 19.87 0.00 44.22 3.82
2563 2629 1.211969 CATCTTCGTGGTCGTCGGT 59.788 57.895 0.00 0.00 38.33 4.69
2590 2656 2.037367 CCTCTCCTCACCGGGACA 59.963 66.667 6.32 0.00 0.00 4.02
2623 2689 2.217038 GGACAGGGAGCAGTGGACA 61.217 63.158 0.00 0.00 0.00 4.02
3085 3151 2.662596 CTGAAGGTGGCGCTGGTA 59.337 61.111 7.64 0.00 0.00 3.25
3166 3232 2.125912 CGGTGGCTCAGGTTCTCG 60.126 66.667 0.00 0.00 0.00 4.04
3255 3321 1.782569 GTAGGGCGCGAAAACAAAAAC 59.217 47.619 12.10 0.00 0.00 2.43
3319 3385 0.383949 GCGGAGTTTTTGTCAGGCAA 59.616 50.000 0.00 0.00 34.87 4.52
3454 3520 9.915629 TGTATATTTTGGTGCTTTAAATTCGTT 57.084 25.926 0.00 0.00 0.00 3.85
3459 3525 7.861176 TTTGGTGCTTTAAATTCGTTATGTC 57.139 32.000 0.00 0.00 0.00 3.06
3476 3542 7.759886 TCGTTATGTCAAAATTTGAAACACCAA 59.240 29.630 10.27 2.09 42.15 3.67
3477 3543 8.383619 CGTTATGTCAAAATTTGAAACACCAAA 58.616 29.630 10.27 0.00 42.15 3.28
3481 3547 8.159344 TGTCAAAATTTGAAACACCAAAAAGT 57.841 26.923 10.27 0.00 42.15 2.66
3482 3548 8.072567 TGTCAAAATTTGAAACACCAAAAAGTG 58.927 29.630 10.27 0.00 42.15 3.16
3483 3549 8.073167 GTCAAAATTTGAAACACCAAAAAGTGT 58.927 29.630 10.27 0.00 42.99 3.55
3496 3562 7.608755 CACCAAAAAGTGTTTTTACATCTTCG 58.391 34.615 0.00 0.00 40.65 3.79
3550 3616 4.021016 ACGGAGATGTAAAAGAGCAACTCT 60.021 41.667 0.00 0.00 43.37 3.24
3554 3620 6.314152 GGAGATGTAAAAGAGCAACTCTAACC 59.686 42.308 0.00 0.00 40.28 2.85
3557 3623 5.790593 TGTAAAAGAGCAACTCTAACCGAT 58.209 37.500 0.00 0.00 40.28 4.18
3568 3634 3.071892 ACTCTAACCGATGGTCCAAAACA 59.928 43.478 0.00 0.00 33.12 2.83
3618 3708 3.743396 GCCGTGGTTTTGCATTGAAATAA 59.257 39.130 0.00 0.00 0.00 1.40
3675 3768 9.793252 CATCATAGTTTCAAATCCCTAACAAAG 57.207 33.333 0.00 0.00 0.00 2.77
3713 3809 6.248569 TCATAGTTTCAAATCCCTCTACCC 57.751 41.667 0.00 0.00 0.00 3.69
3732 3828 2.692557 CCCAAAATGCATCGTCCCAATA 59.307 45.455 0.00 0.00 0.00 1.90
3806 3902 2.438795 AACACCACCGGCGTTGTT 60.439 55.556 6.01 0.00 0.00 2.83
3845 3944 2.270352 TCATCACCGGCTTCTTTGTT 57.730 45.000 0.00 0.00 0.00 2.83
3846 3945 2.582052 TCATCACCGGCTTCTTTGTTT 58.418 42.857 0.00 0.00 0.00 2.83
3854 4800 5.579119 CACCGGCTTCTTTGTTTTAGTTTTT 59.421 36.000 0.00 0.00 0.00 1.94
3884 4830 4.532126 TCCTCATCCTTGAGCTCTTTGTAA 59.468 41.667 16.19 0.00 46.76 2.41
3945 4897 2.337583 TCTTCTCGCCTTTCATGTTCG 58.662 47.619 0.00 0.00 0.00 3.95
4039 4993 7.983484 GGAACAATCCAATATTTGAGAAAGCAT 59.017 33.333 0.00 0.00 45.79 3.79
4044 4998 5.185442 TCCAATATTTGAGAAAGCATGCACA 59.815 36.000 21.98 8.78 0.00 4.57
4128 5084 3.731766 AAGCAACCGGCCCACTTGT 62.732 57.895 0.00 0.00 46.50 3.16
4129 5085 2.281900 GCAACCGGCCCACTTGTA 60.282 61.111 0.00 0.00 36.11 2.41
4136 5092 0.676466 CGGCCCACTTGTAGCATTCA 60.676 55.000 0.00 0.00 0.00 2.57
4201 5157 3.568000 AGTGACCACTTGTGTTGCA 57.432 47.368 0.00 0.00 38.83 4.08
4224 5180 6.045318 CACTCATCGAAGTAATCCTTGATGT 58.955 40.000 0.00 0.00 38.48 3.06
4235 5191 5.999205 AATCCTTGATGTGTTGCCAATAA 57.001 34.783 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 2.429069 GCGGCCAAAGCAAAGACG 60.429 61.111 2.24 0.00 42.56 4.18
26 27 2.837291 ACTGGCGGCCAAAGCAAA 60.837 55.556 23.94 0.00 42.56 3.68
41 42 1.143684 TGCTCTCTTTCCTTTGCCACT 59.856 47.619 0.00 0.00 0.00 4.00
48 49 2.551938 GCCTTGTCTGCTCTCTTTCCTT 60.552 50.000 0.00 0.00 0.00 3.36
50 51 1.271054 TGCCTTGTCTGCTCTCTTTCC 60.271 52.381 0.00 0.00 0.00 3.13
66 79 2.527951 GAAGCGACCACCATCTGCCT 62.528 60.000 0.00 0.00 0.00 4.75
153 166 2.031012 CAGCTTCGTGAGTGGCCA 59.969 61.111 0.00 0.00 0.00 5.36
191 204 2.046023 TTGCTGATGGCGGAGTGG 60.046 61.111 0.00 0.00 45.43 4.00
200 213 0.647410 CGGCGAGTTAGTTGCTGATG 59.353 55.000 0.00 0.00 44.14 3.07
243 256 2.651361 CAGGAGAACGTCGTGGCT 59.349 61.111 0.00 0.00 37.40 4.75
304 317 3.710722 CGCTTCTGGTCCTGGCCT 61.711 66.667 3.32 0.00 0.00 5.19
311 324 1.450312 CCACATCCCGCTTCTGGTC 60.450 63.158 0.00 0.00 0.00 4.02
338 351 2.709213 GATCTTTCCTCTGCAACTGCT 58.291 47.619 2.95 0.00 42.66 4.24
339 352 1.396301 CGATCTTTCCTCTGCAACTGC 59.604 52.381 0.00 0.00 42.50 4.40
340 353 2.414481 CACGATCTTTCCTCTGCAACTG 59.586 50.000 0.00 0.00 0.00 3.16
341 354 2.613977 CCACGATCTTTCCTCTGCAACT 60.614 50.000 0.00 0.00 0.00 3.16
342 355 1.734465 CCACGATCTTTCCTCTGCAAC 59.266 52.381 0.00 0.00 0.00 4.17
343 356 1.339055 CCCACGATCTTTCCTCTGCAA 60.339 52.381 0.00 0.00 0.00 4.08
344 357 0.250234 CCCACGATCTTTCCTCTGCA 59.750 55.000 0.00 0.00 0.00 4.41
345 358 1.092345 GCCCACGATCTTTCCTCTGC 61.092 60.000 0.00 0.00 0.00 4.26
346 359 0.807667 CGCCCACGATCTTTCCTCTG 60.808 60.000 0.00 0.00 43.93 3.35
348 361 1.521681 CCGCCCACGATCTTTCCTC 60.522 63.158 0.00 0.00 43.93 3.71
349 362 1.961180 CTCCGCCCACGATCTTTCCT 61.961 60.000 0.00 0.00 43.93 3.36
350 363 1.521681 CTCCGCCCACGATCTTTCC 60.522 63.158 0.00 0.00 43.93 3.13
351 364 1.521681 CCTCCGCCCACGATCTTTC 60.522 63.158 0.00 0.00 43.93 2.62
352 365 2.584608 CCTCCGCCCACGATCTTT 59.415 61.111 0.00 0.00 43.93 2.52
353 366 3.470888 CCCTCCGCCCACGATCTT 61.471 66.667 0.00 0.00 43.93 2.40
354 367 4.779733 ACCCTCCGCCCACGATCT 62.780 66.667 0.00 0.00 43.93 2.75
355 368 3.735037 GAACCCTCCGCCCACGATC 62.735 68.421 0.00 0.00 43.93 3.69
356 369 3.782443 GAACCCTCCGCCCACGAT 61.782 66.667 0.00 0.00 43.93 3.73
359 372 4.452733 CTCGAACCCTCCGCCCAC 62.453 72.222 0.00 0.00 0.00 4.61
365 378 2.701163 CTATGCCGCTCGAACCCTCC 62.701 65.000 0.00 0.00 0.00 4.30
377 390 1.003851 CGTTACCACCAACTATGCCG 58.996 55.000 0.00 0.00 0.00 5.69
378 391 1.375551 CCGTTACCACCAACTATGCC 58.624 55.000 0.00 0.00 0.00 4.40
379 392 1.065998 TCCCGTTACCACCAACTATGC 60.066 52.381 0.00 0.00 0.00 3.14
380 393 2.624636 GTCCCGTTACCACCAACTATG 58.375 52.381 0.00 0.00 0.00 2.23
382 395 0.975887 GGTCCCGTTACCACCAACTA 59.024 55.000 0.00 0.00 39.50 2.24
383 396 0.765519 AGGTCCCGTTACCACCAACT 60.766 55.000 6.23 0.00 42.40 3.16
384 397 0.975887 TAGGTCCCGTTACCACCAAC 59.024 55.000 6.23 0.00 42.40 3.77
385 398 1.955451 ATAGGTCCCGTTACCACCAA 58.045 50.000 6.23 0.00 42.40 3.67
386 399 1.955451 AATAGGTCCCGTTACCACCA 58.045 50.000 6.23 0.00 42.40 4.17
387 400 3.737972 CGTAAATAGGTCCCGTTACCACC 60.738 52.174 6.23 0.00 42.40 4.61
388 401 3.447742 CGTAAATAGGTCCCGTTACCAC 58.552 50.000 6.23 0.00 42.40 4.16
418 431 0.035439 TTCAACTCTGATTCCGCCCC 60.035 55.000 0.00 0.00 0.00 5.80
445 458 2.531522 ATACCGCCGTAATGGGTTAC 57.468 50.000 0.00 0.00 38.63 2.50
449 462 1.670791 ACAAATACCGCCGTAATGGG 58.329 50.000 6.41 0.00 38.63 4.00
451 464 4.199840 GGTAACAAATACCGCCGTAATG 57.800 45.455 0.00 0.00 44.57 1.90
493 506 8.721019 TTACCCGTTATCTGATTTCGTTAATT 57.279 30.769 0.00 0.00 0.00 1.40
507 520 4.476628 TCCCTCAGTTTTACCCGTTATC 57.523 45.455 0.00 0.00 0.00 1.75
514 527 3.955551 TGTTTGGTTCCCTCAGTTTTACC 59.044 43.478 0.00 0.00 0.00 2.85
515 528 4.202080 GGTGTTTGGTTCCCTCAGTTTTAC 60.202 45.833 0.00 0.00 0.00 2.01
516 529 3.955551 GGTGTTTGGTTCCCTCAGTTTTA 59.044 43.478 0.00 0.00 0.00 1.52
517 530 2.764010 GGTGTTTGGTTCCCTCAGTTTT 59.236 45.455 0.00 0.00 0.00 2.43
518 531 2.024369 AGGTGTTTGGTTCCCTCAGTTT 60.024 45.455 0.00 0.00 0.00 2.66
519 532 1.569072 AGGTGTTTGGTTCCCTCAGTT 59.431 47.619 0.00 0.00 0.00 3.16
520 533 1.143073 GAGGTGTTTGGTTCCCTCAGT 59.857 52.381 0.00 0.00 42.51 3.41
521 534 1.545651 GGAGGTGTTTGGTTCCCTCAG 60.546 57.143 6.85 0.00 44.34 3.35
522 535 0.476771 GGAGGTGTTTGGTTCCCTCA 59.523 55.000 6.85 0.00 44.34 3.86
523 536 0.771755 AGGAGGTGTTTGGTTCCCTC 59.228 55.000 0.00 0.00 42.28 4.30
524 537 2.127651 TAGGAGGTGTTTGGTTCCCT 57.872 50.000 0.00 0.00 0.00 4.20
525 538 2.307686 TCATAGGAGGTGTTTGGTTCCC 59.692 50.000 0.00 0.00 0.00 3.97
526 539 3.009143 ACTCATAGGAGGTGTTTGGTTCC 59.991 47.826 9.55 0.00 45.81 3.62
527 540 4.254492 GACTCATAGGAGGTGTTTGGTTC 58.746 47.826 9.55 0.00 45.81 3.62
528 541 3.306780 CGACTCATAGGAGGTGTTTGGTT 60.307 47.826 9.55 0.00 45.81 3.67
529 542 2.233922 CGACTCATAGGAGGTGTTTGGT 59.766 50.000 9.55 0.00 45.81 3.67
530 543 2.893637 CGACTCATAGGAGGTGTTTGG 58.106 52.381 9.55 0.00 45.81 3.28
531 544 2.093973 AGCGACTCATAGGAGGTGTTTG 60.094 50.000 9.55 0.00 45.81 2.93
532 545 2.166664 GAGCGACTCATAGGAGGTGTTT 59.833 50.000 9.55 0.00 45.81 2.83
533 546 1.751924 GAGCGACTCATAGGAGGTGTT 59.248 52.381 9.55 0.00 45.81 3.32
534 547 1.394618 GAGCGACTCATAGGAGGTGT 58.605 55.000 9.55 0.00 45.81 4.16
535 548 0.309302 CGAGCGACTCATAGGAGGTG 59.691 60.000 9.55 1.61 45.81 4.00
536 549 1.448922 GCGAGCGACTCATAGGAGGT 61.449 60.000 9.55 0.00 45.81 3.85
537 550 1.284408 GCGAGCGACTCATAGGAGG 59.716 63.158 9.55 0.00 45.81 4.30
538 551 0.382158 TTGCGAGCGACTCATAGGAG 59.618 55.000 2.12 2.12 46.96 3.69
539 552 0.100682 GTTGCGAGCGACTCATAGGA 59.899 55.000 8.14 0.00 0.00 2.94
540 553 0.179137 TGTTGCGAGCGACTCATAGG 60.179 55.000 15.56 0.00 0.00 2.57
565 578 2.974489 CTCAAGCCAGCAAGCGGTG 61.974 63.158 0.00 0.00 40.44 4.94
566 579 2.670934 CTCAAGCCAGCAAGCGGT 60.671 61.111 0.00 0.00 38.01 5.68
567 580 2.359107 TCTCAAGCCAGCAAGCGG 60.359 61.111 0.00 0.00 38.01 5.52
569 582 2.876219 GCTCTCAAGCCAGCAAGC 59.124 61.111 0.00 0.00 43.10 4.01
578 591 4.034975 GCTTTAACTATGCTGGCTCTCAAG 59.965 45.833 0.00 0.00 0.00 3.02
579 592 3.941483 GCTTTAACTATGCTGGCTCTCAA 59.059 43.478 0.00 0.00 0.00 3.02
580 593 3.535561 GCTTTAACTATGCTGGCTCTCA 58.464 45.455 0.00 0.00 0.00 3.27
602 616 5.112686 AGACTTTCACTAATCGAGCATTCC 58.887 41.667 0.00 0.00 0.00 3.01
616 630 1.343465 TCCCGGACAAGAGACTTTCAC 59.657 52.381 0.73 0.00 0.00 3.18
745 760 3.315191 CAGATTTGTTTGGACCGTTGTCT 59.685 43.478 0.00 0.00 41.47 3.41
774 789 0.623723 TTCATTCCTTTCCCGGGGAG 59.376 55.000 23.50 18.72 31.21 4.30
778 793 2.215942 AGGTTTCATTCCTTTCCCGG 57.784 50.000 0.00 0.00 30.18 5.73
780 795 5.269189 TGGATAAGGTTTCATTCCTTTCCC 58.731 41.667 15.79 12.00 41.86 3.97
782 797 6.659242 TGACTGGATAAGGTTTCATTCCTTTC 59.341 38.462 2.56 1.83 41.86 2.62
797 816 1.668826 AGCAAGGGGTGACTGGATAA 58.331 50.000 0.00 0.00 0.00 1.75
798 817 2.116238 GTAGCAAGGGGTGACTGGATA 58.884 52.381 0.00 0.00 0.00 2.59
828 847 7.651304 TCAAGCGCAAATTTGTATAATAATGGG 59.349 33.333 19.03 0.03 0.00 4.00
841 860 2.425539 CCCCAAATCAAGCGCAAATTT 58.574 42.857 11.47 9.47 0.00 1.82
843 862 0.249955 CCCCCAAATCAAGCGCAAAT 59.750 50.000 11.47 0.00 0.00 2.32
844 863 1.670590 CCCCCAAATCAAGCGCAAA 59.329 52.632 11.47 0.00 0.00 3.68
865 884 2.434336 TGATTGAGTGAAGTATCCCCCG 59.566 50.000 0.00 0.00 0.00 5.73
868 892 4.698575 GGAGTGATTGAGTGAAGTATCCC 58.301 47.826 0.00 0.00 0.00 3.85
938 962 1.065551 CAATAAAGTAGGCAAGGCGGC 59.934 52.381 0.00 0.00 41.61 6.53
1088 1132 2.183811 CGTCAGCAGAGCCTCCTG 59.816 66.667 0.00 0.00 37.23 3.86
1091 1135 2.493973 CTCCGTCAGCAGAGCCTC 59.506 66.667 0.00 0.00 0.00 4.70
1101 1145 2.203788 ACCTCTTGCCCTCCGTCA 60.204 61.111 0.00 0.00 0.00 4.35
1143 1191 3.886505 GTGTACGAGAGGGAGAAGATGAT 59.113 47.826 0.00 0.00 0.00 2.45
1165 1213 0.240945 AACCAAATCGAAGCGCCAAG 59.759 50.000 2.29 0.00 0.00 3.61
1204 1252 3.182182 CGCAGAATCGAATCTCACTCAA 58.818 45.455 0.00 0.00 0.00 3.02
1254 1302 1.416401 AGGTTCGTCTGCTCCAGAAAA 59.584 47.619 0.00 0.00 42.46 2.29
1285 1338 0.549950 AGATGAATGGGCCCTGAGTG 59.450 55.000 25.70 0.00 0.00 3.51
1302 1355 1.125093 TTCTCGGGGCCTTTGTGAGA 61.125 55.000 0.84 5.79 34.10 3.27
1321 1374 3.948004 AACGCTCTCGGAGGCCTCT 62.948 63.158 31.36 6.90 40.69 3.69
1331 1384 2.401195 GCCGATTGCAACGCTCTC 59.599 61.111 0.00 0.00 40.77 3.20
1357 1410 2.158842 AGTAGTGCTGGATGAGATTGCC 60.159 50.000 0.00 0.00 0.00 4.52
1374 1427 4.753610 CAGCAACATCATCACCCATAGTAG 59.246 45.833 0.00 0.00 0.00 2.57
1376 1429 3.548770 CAGCAACATCATCACCCATAGT 58.451 45.455 0.00 0.00 0.00 2.12
1380 1433 0.966875 GCCAGCAACATCATCACCCA 60.967 55.000 0.00 0.00 0.00 4.51
1384 1437 1.179152 CAAGGCCAGCAACATCATCA 58.821 50.000 5.01 0.00 0.00 3.07
1386 1439 2.025981 TCTACAAGGCCAGCAACATCAT 60.026 45.455 5.01 0.00 0.00 2.45
1387 1440 1.350684 TCTACAAGGCCAGCAACATCA 59.649 47.619 5.01 0.00 0.00 3.07
1389 1442 1.952367 GCTCTACAAGGCCAGCAACAT 60.952 52.381 5.01 0.00 0.00 2.71
1392 1445 0.321919 CAGCTCTACAAGGCCAGCAA 60.322 55.000 5.01 0.00 34.08 3.91
1405 1458 6.702972 CGTATACACGTATACTACAGCTCT 57.297 41.667 19.85 0.00 43.41 4.09
1454 1507 0.172578 TCGGTAACATCTGTCGCTGG 59.827 55.000 0.00 0.00 0.00 4.85
1510 1563 2.026301 CTAGCCTACGCAGACGGC 59.974 66.667 0.00 0.00 46.04 5.68
1538 1594 1.672356 CAGCCTCGGTTGAGTTGGG 60.672 63.158 0.00 0.00 40.85 4.12
1581 1642 1.065102 CAAATGCAAGGATGGAGCGAG 59.935 52.381 0.00 0.00 0.00 5.03
1592 1656 6.978659 AGATGCAGTATCAATTCAAATGCAAG 59.021 34.615 9.50 0.00 44.42 4.01
1593 1657 6.869695 AGATGCAGTATCAATTCAAATGCAA 58.130 32.000 9.50 0.00 44.42 4.08
1594 1658 6.459670 AGATGCAGTATCAATTCAAATGCA 57.540 33.333 8.28 8.28 45.22 3.96
1617 1681 5.687285 GCTCATTCGCAGAAAAGAAAGAAAA 59.313 36.000 7.64 0.00 45.90 2.29
1620 1684 3.814842 TGCTCATTCGCAGAAAAGAAAGA 59.185 39.130 0.00 0.00 45.90 2.52
1626 1690 4.502171 TCAAATGCTCATTCGCAGAAAA 57.498 36.364 0.00 0.00 45.90 2.29
1631 1695 3.242837 GCAGTATCAAATGCTCATTCGCA 60.243 43.478 0.00 0.00 45.10 5.10
1663 1727 3.050619 GCGATCAACTAACAGGATACCG 58.949 50.000 0.00 0.00 37.17 4.02
1731 1797 7.875554 GGAGAAGAGAAAGACATACACTTCTTT 59.124 37.037 0.00 0.00 43.30 2.52
1737 1803 4.867608 GCTGGAGAAGAGAAAGACATACAC 59.132 45.833 0.00 0.00 0.00 2.90
1823 1889 3.851128 GAGGCCCTGGTACTCCGC 61.851 72.222 0.00 0.00 36.30 5.54
2002 2068 2.367377 CAGATGAGGGGGAGGGCA 60.367 66.667 0.00 0.00 0.00 5.36
2038 2104 4.473520 CCCAGCTCCGCCGTGATT 62.474 66.667 0.00 0.00 0.00 2.57
2156 2222 3.551863 GGGTAGAGAGCATTGTCGATGAG 60.552 52.174 4.07 0.00 38.03 2.90
2272 2338 1.805945 GCGGTAGTTGAGGAGCGTG 60.806 63.158 0.00 0.00 38.75 5.34
2321 2387 2.683933 GGAGAAGACCCCGAGGCA 60.684 66.667 0.00 0.00 36.11 4.75
2353 2419 0.548031 TGGAGATGAAGCCCATGACC 59.452 55.000 0.00 0.00 35.17 4.02
2418 2484 0.109412 GTACAGGTTCCAGTCGACGG 60.109 60.000 17.01 17.01 0.00 4.79
2563 2629 2.292061 GGTGAGGAGAGGGTACAGGTAA 60.292 54.545 0.00 0.00 0.00 2.85
2623 2689 2.749044 TCCGCGAAGTAGCCGTCT 60.749 61.111 8.23 0.00 0.00 4.18
2820 2886 1.066587 GAGAAGAGGATGCCGACCG 59.933 63.158 0.00 0.00 0.00 4.79
3070 3136 2.399356 GCTTACCAGCGCCACCTTC 61.399 63.158 2.29 0.00 35.91 3.46
3124 3190 0.750249 TCTCCACGAACTTGAGCACA 59.250 50.000 0.00 0.00 0.00 4.57
3248 3314 1.802365 GGTCTACGCCGATGTTTTTGT 59.198 47.619 0.00 0.00 0.00 2.83
3249 3315 2.073816 AGGTCTACGCCGATGTTTTTG 58.926 47.619 0.00 0.00 0.00 2.44
3255 3321 2.331805 CCGAGGTCTACGCCGATG 59.668 66.667 0.00 0.00 0.00 3.84
3319 3385 7.921786 TTGGTTTACTCGAAATTCATCTCAT 57.078 32.000 0.00 0.00 0.00 2.90
3387 3453 6.019479 GCTCTTAGTTAGACAATCGTGAATGG 60.019 42.308 0.00 0.00 0.00 3.16
3449 3515 7.759886 TGGTGTTTCAAATTTTGACATAACGAA 59.240 29.630 11.30 0.00 39.87 3.85
3450 3516 7.258441 TGGTGTTTCAAATTTTGACATAACGA 58.742 30.769 11.30 3.76 39.87 3.85
3451 3517 7.456684 TGGTGTTTCAAATTTTGACATAACG 57.543 32.000 11.30 0.00 39.87 3.18
3477 3543 8.592155 GCTTTTTCGAAGATGTAAAAACACTTT 58.408 29.630 0.00 0.00 35.04 2.66
3478 3544 7.973944 AGCTTTTTCGAAGATGTAAAAACACTT 59.026 29.630 0.00 0.00 35.04 3.16
3480 3546 7.431084 TGAGCTTTTTCGAAGATGTAAAAACAC 59.569 33.333 0.00 0.00 35.04 3.32
3481 3547 7.476667 TGAGCTTTTTCGAAGATGTAAAAACA 58.523 30.769 0.00 0.00 35.04 2.83
3482 3548 7.908193 TGAGCTTTTTCGAAGATGTAAAAAC 57.092 32.000 0.00 0.00 35.04 2.43
3483 3549 8.188139 AGTTGAGCTTTTTCGAAGATGTAAAAA 58.812 29.630 0.00 0.00 35.04 1.94
3485 3551 7.259290 AGTTGAGCTTTTTCGAAGATGTAAA 57.741 32.000 0.00 0.00 35.04 2.01
3487 3553 5.408604 GGAGTTGAGCTTTTTCGAAGATGTA 59.591 40.000 0.00 0.00 35.04 2.29
3489 3555 4.214119 TGGAGTTGAGCTTTTTCGAAGATG 59.786 41.667 0.00 0.00 35.04 2.90
3490 3556 4.389374 TGGAGTTGAGCTTTTTCGAAGAT 58.611 39.130 0.00 0.00 35.04 2.40
3491 3557 3.804036 TGGAGTTGAGCTTTTTCGAAGA 58.196 40.909 0.00 0.00 0.00 2.87
3492 3558 4.201910 TGTTGGAGTTGAGCTTTTTCGAAG 60.202 41.667 0.00 0.00 0.00 3.79
3493 3559 3.692101 TGTTGGAGTTGAGCTTTTTCGAA 59.308 39.130 0.00 0.00 0.00 3.71
3494 3560 3.275143 TGTTGGAGTTGAGCTTTTTCGA 58.725 40.909 0.00 0.00 0.00 3.71
3495 3561 3.312421 TCTGTTGGAGTTGAGCTTTTTCG 59.688 43.478 0.00 0.00 0.00 3.46
3496 3562 4.900635 TCTGTTGGAGTTGAGCTTTTTC 57.099 40.909 0.00 0.00 0.00 2.29
3550 3616 5.593679 TTTTTGTTTTGGACCATCGGTTA 57.406 34.783 0.00 0.00 35.25 2.85
3596 3686 1.576356 TTTCAATGCAAAACCACGGC 58.424 45.000 0.00 0.00 0.00 5.68
3600 3690 8.948631 TTAAGTGTTATTTCAATGCAAAACCA 57.051 26.923 0.00 0.00 0.00 3.67
3627 3717 9.708092 TGATGATGATGCACTTTAATTTGAAAA 57.292 25.926 0.00 0.00 0.00 2.29
3675 3768 6.206048 TGAAACTATGATGATGATGATGCACC 59.794 38.462 0.00 0.00 0.00 5.01
3713 3809 5.868801 ACTTTTATTGGGACGATGCATTTTG 59.131 36.000 0.00 0.00 0.00 2.44
3732 3828 8.719560 TTTAATTTGTAGGGCGAAAAACTTTT 57.280 26.923 0.00 0.00 0.00 2.27
3806 3902 3.633065 TGATGATGATCGTACCACGGTTA 59.367 43.478 0.00 0.00 42.81 2.85
3845 3944 7.518188 AGGATGAGGAGAAGTGAAAAACTAAA 58.482 34.615 0.00 0.00 38.56 1.85
3846 3945 7.079451 AGGATGAGGAGAAGTGAAAAACTAA 57.921 36.000 0.00 0.00 38.56 2.24
3910 4856 5.641636 GGCGAGAAGAAGAAGAAGAAGAATT 59.358 40.000 0.00 0.00 0.00 2.17
3911 4857 5.046663 AGGCGAGAAGAAGAAGAAGAAGAAT 60.047 40.000 0.00 0.00 0.00 2.40
3945 4897 1.192534 CGCAAGGTTGTTTCGAGAGAC 59.807 52.381 0.00 0.00 41.84 3.36
3956 4908 3.319755 AGAAAATGATTGCGCAAGGTTG 58.680 40.909 28.62 0.00 38.28 3.77
3957 4909 3.665745 AGAAAATGATTGCGCAAGGTT 57.334 38.095 28.62 18.49 38.28 3.50
4039 4993 7.232534 ACTTGGTAAATATTTCCTCTTTGTGCA 59.767 33.333 3.39 0.00 0.00 4.57
4128 5084 2.009051 CACCATCAACGCTGAATGCTA 58.991 47.619 0.00 0.00 40.11 3.49
4129 5085 0.806868 CACCATCAACGCTGAATGCT 59.193 50.000 0.00 0.00 40.11 3.79
4136 5092 0.889186 GTTGGTCCACCATCAACGCT 60.889 55.000 0.00 0.00 46.97 5.07
4201 5157 6.045318 CACATCAAGGATTACTTCGATGAGT 58.955 40.000 19.40 0.00 41.75 3.41


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

AutoCloner maintained by Alex Coulton.