Multiple sequence alignment - TraesCS5A01G203700

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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 TraesCS5A01G203700 chr5A 100.000 2423 0 0 1 2423 413195007 413192585 0.000000e+00 4475.0
1 TraesCS5A01G203700 chr5B 93.845 1641 83 14 793 2423 368657203 368655571 0.000000e+00 2455.0
2 TraesCS5A01G203700 chr5B 84.158 101 7 3 678 777 368657363 368657271 3.320000e-14 89.8
3 TraesCS5A01G203700 chr5D 94.851 1573 54 8 865 2423 318492968 318491409 0.000000e+00 2431.0
4 TraesCS5A01G203700 chr5D 93.110 537 33 4 1 536 563730334 563730867 0.000000e+00 784.0
5 TraesCS5A01G203700 chr7B 93.855 537 31 2 1 537 44786423 44786957 0.000000e+00 808.0
6 TraesCS5A01G203700 chr4B 93.519 540 30 5 1 539 89331027 89330492 0.000000e+00 798.0
7 TraesCS5A01G203700 chr4B 92.950 539 36 2 1 538 667400388 667400925 0.000000e+00 784.0
8 TraesCS5A01G203700 chr3D 93.657 536 31 3 1 535 540257838 540258371 0.000000e+00 798.0
9 TraesCS5A01G203700 chrUn 93.148 540 34 3 1 539 295608841 295608304 0.000000e+00 789.0
10 TraesCS5A01G203700 chr3B 93.148 540 34 3 1 539 5743977 5743440 0.000000e+00 789.0
11 TraesCS5A01G203700 chr2B 93.135 539 33 4 1 538 686053846 686054381 0.000000e+00 787.0
12 TraesCS5A01G203700 chr6B 93.135 539 30 5 1 538 160920013 160920545 0.000000e+00 784.0


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 TraesCS5A01G203700 chr5A 413192585 413195007 2422 True 4475.0 4475 100.0000 1 2423 1 chr5A.!!$R1 2422
1 TraesCS5A01G203700 chr5B 368655571 368657363 1792 True 1272.4 2455 89.0015 678 2423 2 chr5B.!!$R1 1745
2 TraesCS5A01G203700 chr5D 318491409 318492968 1559 True 2431.0 2431 94.8510 865 2423 1 chr5D.!!$R1 1558
3 TraesCS5A01G203700 chr5D 563730334 563730867 533 False 784.0 784 93.1100 1 536 1 chr5D.!!$F1 535
4 TraesCS5A01G203700 chr7B 44786423 44786957 534 False 808.0 808 93.8550 1 537 1 chr7B.!!$F1 536
5 TraesCS5A01G203700 chr4B 89330492 89331027 535 True 798.0 798 93.5190 1 539 1 chr4B.!!$R1 538
6 TraesCS5A01G203700 chr4B 667400388 667400925 537 False 784.0 784 92.9500 1 538 1 chr4B.!!$F1 537
7 TraesCS5A01G203700 chr3D 540257838 540258371 533 False 798.0 798 93.6570 1 535 1 chr3D.!!$F1 534
8 TraesCS5A01G203700 chrUn 295608304 295608841 537 True 789.0 789 93.1480 1 539 1 chrUn.!!$R1 538
9 TraesCS5A01G203700 chr3B 5743440 5743977 537 True 789.0 789 93.1480 1 539 1 chr3B.!!$R1 538
10 TraesCS5A01G203700 chr2B 686053846 686054381 535 False 787.0 787 93.1350 1 538 1 chr2B.!!$F1 537
11 TraesCS5A01G203700 chr6B 160920013 160920545 532 False 784.0 784 93.1350 1 538 1 chr6B.!!$F1 537

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
741 742 0.102663 GGGCCGCTACTCTAACAGTC 59.897 60.0 0.0 0.0 36.43 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1664 1737 1.690893 TCTCATCTCATGGCTGGCTAC 59.309 52.381 2.0 0.0 0.0 3.58 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
327 328 2.875933 CGTGCCTGGTTTTGTTCTTCTA 59.124 45.455 0.00 0.00 0.00 2.10
338 339 6.037940 GGTTTTGTTCTTCTAAGTTCTCCGTT 59.962 38.462 0.00 0.00 0.00 4.44
358 359 1.664965 GAGTCGGAGCTGCGTTGTT 60.665 57.895 27.20 11.17 0.00 2.83
558 559 7.846101 AAAAATCCTTGTCCAGAAGAAGAAT 57.154 32.000 0.00 0.00 0.00 2.40
559 560 7.459795 AAAATCCTTGTCCAGAAGAAGAATC 57.540 36.000 0.00 0.00 0.00 2.52
560 561 6.385766 AATCCTTGTCCAGAAGAAGAATCT 57.614 37.500 0.00 0.00 37.57 2.40
561 562 5.413309 TCCTTGTCCAGAAGAAGAATCTC 57.587 43.478 0.00 0.00 33.77 2.75
562 563 4.840680 TCCTTGTCCAGAAGAAGAATCTCA 59.159 41.667 0.00 0.00 33.77 3.27
563 564 5.046735 TCCTTGTCCAGAAGAAGAATCTCAG 60.047 44.000 0.00 0.00 33.77 3.35
564 565 4.815533 TGTCCAGAAGAAGAATCTCAGG 57.184 45.455 0.00 0.00 33.77 3.86
565 566 4.163427 TGTCCAGAAGAAGAATCTCAGGT 58.837 43.478 0.00 0.00 33.77 4.00
566 567 4.020751 TGTCCAGAAGAAGAATCTCAGGTG 60.021 45.833 0.00 0.00 33.77 4.00
567 568 4.221703 GTCCAGAAGAAGAATCTCAGGTGA 59.778 45.833 0.00 0.00 33.77 4.02
568 569 4.840680 TCCAGAAGAAGAATCTCAGGTGAA 59.159 41.667 0.00 0.00 33.77 3.18
569 570 5.486775 TCCAGAAGAAGAATCTCAGGTGAAT 59.513 40.000 0.00 0.00 33.77 2.57
570 571 5.585445 CCAGAAGAAGAATCTCAGGTGAATG 59.415 44.000 0.00 0.00 33.77 2.67
571 572 6.404708 CAGAAGAAGAATCTCAGGTGAATGA 58.595 40.000 0.00 0.00 33.77 2.57
572 573 6.313411 CAGAAGAAGAATCTCAGGTGAATGAC 59.687 42.308 0.00 0.00 33.77 3.06
573 574 5.752036 AGAAGAATCTCAGGTGAATGACA 57.248 39.130 0.00 0.00 0.00 3.58
574 575 6.119240 AGAAGAATCTCAGGTGAATGACAA 57.881 37.500 0.00 0.00 0.00 3.18
575 576 5.936956 AGAAGAATCTCAGGTGAATGACAAC 59.063 40.000 0.00 0.00 36.27 3.32
576 577 4.583871 AGAATCTCAGGTGAATGACAACC 58.416 43.478 0.00 0.00 36.78 3.77
577 578 2.859165 TCTCAGGTGAATGACAACCC 57.141 50.000 0.00 0.00 36.78 4.11
578 579 2.054021 TCTCAGGTGAATGACAACCCA 58.946 47.619 0.00 0.00 36.78 4.51
579 580 2.038952 TCTCAGGTGAATGACAACCCAG 59.961 50.000 0.00 0.00 36.78 4.45
580 581 2.038952 CTCAGGTGAATGACAACCCAGA 59.961 50.000 0.00 0.00 36.78 3.86
581 582 2.038952 TCAGGTGAATGACAACCCAGAG 59.961 50.000 0.00 0.00 36.78 3.35
582 583 2.038952 CAGGTGAATGACAACCCAGAGA 59.961 50.000 0.00 0.00 36.78 3.10
583 584 2.304180 AGGTGAATGACAACCCAGAGAG 59.696 50.000 0.00 0.00 36.78 3.20
584 585 2.303022 GGTGAATGACAACCCAGAGAGA 59.697 50.000 0.00 0.00 0.00 3.10
585 586 3.054802 GGTGAATGACAACCCAGAGAGAT 60.055 47.826 0.00 0.00 0.00 2.75
586 587 4.162320 GGTGAATGACAACCCAGAGAGATA 59.838 45.833 0.00 0.00 0.00 1.98
587 588 5.338381 GGTGAATGACAACCCAGAGAGATAA 60.338 44.000 0.00 0.00 0.00 1.75
588 589 6.173339 GTGAATGACAACCCAGAGAGATAAA 58.827 40.000 0.00 0.00 0.00 1.40
589 590 6.314896 GTGAATGACAACCCAGAGAGATAAAG 59.685 42.308 0.00 0.00 0.00 1.85
590 591 4.826274 TGACAACCCAGAGAGATAAAGG 57.174 45.455 0.00 0.00 0.00 3.11
591 592 4.168101 TGACAACCCAGAGAGATAAAGGT 58.832 43.478 0.00 0.00 0.00 3.50
592 593 5.338632 TGACAACCCAGAGAGATAAAGGTA 58.661 41.667 0.00 0.00 0.00 3.08
593 594 5.964477 TGACAACCCAGAGAGATAAAGGTAT 59.036 40.000 0.00 0.00 0.00 2.73
594 595 6.443849 TGACAACCCAGAGAGATAAAGGTATT 59.556 38.462 0.00 0.00 0.00 1.89
595 596 6.653989 ACAACCCAGAGAGATAAAGGTATTG 58.346 40.000 0.00 0.00 0.00 1.90
596 597 5.297569 ACCCAGAGAGATAAAGGTATTGC 57.702 43.478 0.00 0.00 0.00 3.56
597 598 4.721776 ACCCAGAGAGATAAAGGTATTGCA 59.278 41.667 0.00 0.00 0.00 4.08
598 599 5.191722 ACCCAGAGAGATAAAGGTATTGCAA 59.808 40.000 0.00 0.00 0.00 4.08
599 600 5.529060 CCCAGAGAGATAAAGGTATTGCAAC 59.471 44.000 0.00 0.00 0.00 4.17
600 601 6.115446 CCAGAGAGATAAAGGTATTGCAACA 58.885 40.000 0.00 0.00 0.00 3.33
601 602 6.599244 CCAGAGAGATAAAGGTATTGCAACAA 59.401 38.462 0.00 0.00 0.00 2.83
602 603 7.121168 CCAGAGAGATAAAGGTATTGCAACAAA 59.879 37.037 0.00 0.00 0.00 2.83
603 604 8.180267 CAGAGAGATAAAGGTATTGCAACAAAG 58.820 37.037 0.00 0.00 0.00 2.77
604 605 7.885399 AGAGAGATAAAGGTATTGCAACAAAGT 59.115 33.333 0.00 0.00 0.00 2.66
605 606 7.820648 AGAGATAAAGGTATTGCAACAAAGTG 58.179 34.615 0.00 0.00 0.00 3.16
606 607 7.665559 AGAGATAAAGGTATTGCAACAAAGTGA 59.334 33.333 0.00 0.00 0.00 3.41
607 608 8.353423 AGATAAAGGTATTGCAACAAAGTGAT 57.647 30.769 0.00 0.00 0.00 3.06
608 609 8.246180 AGATAAAGGTATTGCAACAAAGTGATG 58.754 33.333 0.00 0.00 0.00 3.07
609 610 6.403866 AAAGGTATTGCAACAAAGTGATGA 57.596 33.333 0.00 0.00 0.00 2.92
610 611 5.376854 AGGTATTGCAACAAAGTGATGAC 57.623 39.130 0.00 0.00 0.00 3.06
611 612 4.218417 AGGTATTGCAACAAAGTGATGACC 59.782 41.667 0.00 0.00 0.00 4.02
612 613 2.772568 TTGCAACAAAGTGATGACCG 57.227 45.000 0.00 0.00 0.00 4.79
613 614 1.960417 TGCAACAAAGTGATGACCGA 58.040 45.000 0.00 0.00 0.00 4.69
614 615 2.503331 TGCAACAAAGTGATGACCGAT 58.497 42.857 0.00 0.00 0.00 4.18
615 616 3.669536 TGCAACAAAGTGATGACCGATA 58.330 40.909 0.00 0.00 0.00 2.92
616 617 4.260985 TGCAACAAAGTGATGACCGATAT 58.739 39.130 0.00 0.00 0.00 1.63
617 618 4.094739 TGCAACAAAGTGATGACCGATATG 59.905 41.667 0.00 0.00 0.00 1.78
618 619 4.591202 CAACAAAGTGATGACCGATATGC 58.409 43.478 0.00 0.00 0.00 3.14
619 620 3.872696 ACAAAGTGATGACCGATATGCA 58.127 40.909 0.00 0.00 0.00 3.96
620 621 4.454678 ACAAAGTGATGACCGATATGCAT 58.545 39.130 3.79 3.79 0.00 3.96
621 622 4.512944 ACAAAGTGATGACCGATATGCATC 59.487 41.667 0.19 0.00 39.02 3.91
622 623 4.341366 AAGTGATGACCGATATGCATCA 57.659 40.909 0.19 0.00 44.25 3.07
624 625 3.044235 TGATGACCGATATGCATCACC 57.956 47.619 0.19 0.00 42.31 4.02
625 626 2.634453 TGATGACCGATATGCATCACCT 59.366 45.455 0.19 0.00 42.31 4.00
626 627 3.831911 TGATGACCGATATGCATCACCTA 59.168 43.478 0.19 0.00 42.31 3.08
627 628 4.283212 TGATGACCGATATGCATCACCTAA 59.717 41.667 0.19 0.00 42.31 2.69
628 629 4.681074 TGACCGATATGCATCACCTAAA 57.319 40.909 0.19 0.00 0.00 1.85
629 630 5.227569 TGACCGATATGCATCACCTAAAT 57.772 39.130 0.19 0.00 0.00 1.40
630 631 6.353404 TGACCGATATGCATCACCTAAATA 57.647 37.500 0.19 0.00 0.00 1.40
631 632 6.764379 TGACCGATATGCATCACCTAAATAA 58.236 36.000 0.19 0.00 0.00 1.40
632 633 6.649141 TGACCGATATGCATCACCTAAATAAC 59.351 38.462 0.19 0.00 0.00 1.89
633 634 5.938125 ACCGATATGCATCACCTAAATAACC 59.062 40.000 0.19 0.00 0.00 2.85
634 635 6.173339 CCGATATGCATCACCTAAATAACCT 58.827 40.000 0.19 0.00 0.00 3.50
635 636 6.313905 CCGATATGCATCACCTAAATAACCTC 59.686 42.308 0.19 0.00 0.00 3.85
636 637 7.099764 CGATATGCATCACCTAAATAACCTCT 58.900 38.462 0.19 0.00 0.00 3.69
637 638 7.063898 CGATATGCATCACCTAAATAACCTCTG 59.936 40.741 0.19 0.00 0.00 3.35
638 639 4.780815 TGCATCACCTAAATAACCTCTGG 58.219 43.478 0.00 0.00 0.00 3.86
639 640 4.227300 TGCATCACCTAAATAACCTCTGGT 59.773 41.667 0.00 0.00 37.65 4.00
640 641 4.576463 GCATCACCTAAATAACCTCTGGTG 59.424 45.833 0.00 0.00 44.31 4.17
644 645 5.556915 CACCTAAATAACCTCTGGTGAACA 58.443 41.667 4.14 0.00 45.37 3.18
645 646 5.411669 CACCTAAATAACCTCTGGTGAACAC 59.588 44.000 4.14 0.00 45.37 3.32
646 647 5.072600 ACCTAAATAACCTCTGGTGAACACA 59.927 40.000 7.25 0.00 35.34 3.72
647 648 6.180472 CCTAAATAACCTCTGGTGAACACAT 58.820 40.000 7.25 0.00 35.34 3.21
648 649 5.964958 AAATAACCTCTGGTGAACACATG 57.035 39.130 7.25 0.00 35.34 3.21
649 650 2.276732 AACCTCTGGTGAACACATGG 57.723 50.000 7.25 5.54 35.34 3.66
650 651 1.434188 ACCTCTGGTGAACACATGGA 58.566 50.000 7.25 1.60 32.98 3.41
651 652 1.774254 ACCTCTGGTGAACACATGGAA 59.226 47.619 7.25 0.00 32.98 3.53
652 653 2.154462 CCTCTGGTGAACACATGGAAC 58.846 52.381 7.25 0.00 0.00 3.62
653 654 2.224621 CCTCTGGTGAACACATGGAACT 60.225 50.000 7.25 0.00 0.00 3.01
654 655 2.810274 CTCTGGTGAACACATGGAACTG 59.190 50.000 7.25 0.00 0.00 3.16
655 656 1.881973 CTGGTGAACACATGGAACTGG 59.118 52.381 7.25 0.00 0.00 4.00
656 657 0.598065 GGTGAACACATGGAACTGGC 59.402 55.000 7.25 0.00 0.00 4.85
657 658 0.238289 GTGAACACATGGAACTGGCG 59.762 55.000 0.00 0.00 0.00 5.69
658 659 0.179032 TGAACACATGGAACTGGCGT 60.179 50.000 0.00 0.00 0.00 5.68
659 660 0.238289 GAACACATGGAACTGGCGTG 59.762 55.000 0.00 0.00 0.00 5.34
660 661 1.172180 AACACATGGAACTGGCGTGG 61.172 55.000 0.00 0.00 31.83 4.94
661 662 2.034066 ACATGGAACTGGCGTGGG 59.966 61.111 0.00 0.00 0.00 4.61
662 663 2.350895 CATGGAACTGGCGTGGGA 59.649 61.111 0.00 0.00 0.00 4.37
663 664 1.746615 CATGGAACTGGCGTGGGAG 60.747 63.158 0.00 0.00 0.00 4.30
664 665 1.918293 ATGGAACTGGCGTGGGAGA 60.918 57.895 0.00 0.00 0.00 3.71
665 666 2.047179 GGAACTGGCGTGGGAGAC 60.047 66.667 0.00 0.00 0.00 3.36
666 667 2.584391 GGAACTGGCGTGGGAGACT 61.584 63.158 0.00 0.00 0.00 3.24
667 668 1.255667 GGAACTGGCGTGGGAGACTA 61.256 60.000 0.00 0.00 0.00 2.59
668 669 0.173708 GAACTGGCGTGGGAGACTAG 59.826 60.000 0.00 0.00 0.00 2.57
669 670 0.542232 AACTGGCGTGGGAGACTAGT 60.542 55.000 0.00 0.00 0.00 2.57
670 671 1.251527 ACTGGCGTGGGAGACTAGTG 61.252 60.000 0.00 0.00 0.00 2.74
671 672 1.949847 CTGGCGTGGGAGACTAGTGG 61.950 65.000 0.00 0.00 0.00 4.00
672 673 1.982938 GGCGTGGGAGACTAGTGGT 60.983 63.158 0.00 0.00 0.00 4.16
673 674 1.215647 GCGTGGGAGACTAGTGGTG 59.784 63.158 0.00 0.00 0.00 4.17
674 675 1.890894 CGTGGGAGACTAGTGGTGG 59.109 63.158 0.00 0.00 0.00 4.61
675 676 1.597461 GTGGGAGACTAGTGGTGGC 59.403 63.158 0.00 0.00 0.00 5.01
676 677 1.157513 TGGGAGACTAGTGGTGGCA 59.842 57.895 0.00 0.00 0.00 4.92
677 678 0.904865 TGGGAGACTAGTGGTGGCAG 60.905 60.000 0.00 0.00 0.00 4.85
678 679 0.614979 GGGAGACTAGTGGTGGCAGA 60.615 60.000 0.00 0.00 0.00 4.26
679 680 0.820871 GGAGACTAGTGGTGGCAGAG 59.179 60.000 0.00 0.00 0.00 3.35
680 681 0.174617 GAGACTAGTGGTGGCAGAGC 59.825 60.000 0.00 0.00 0.00 4.09
681 682 0.542938 AGACTAGTGGTGGCAGAGCA 60.543 55.000 0.00 0.00 0.00 4.26
682 683 0.108424 GACTAGTGGTGGCAGAGCAG 60.108 60.000 0.00 0.00 30.97 4.24
683 684 1.220206 CTAGTGGTGGCAGAGCAGG 59.780 63.158 0.00 0.00 30.97 4.85
684 685 2.249413 CTAGTGGTGGCAGAGCAGGG 62.249 65.000 0.00 0.00 30.97 4.45
685 686 4.729918 GTGGTGGCAGAGCAGGGG 62.730 72.222 0.00 0.00 30.97 4.79
686 687 4.980592 TGGTGGCAGAGCAGGGGA 62.981 66.667 0.00 0.00 0.00 4.81
687 688 4.106925 GGTGGCAGAGCAGGGGAG 62.107 72.222 0.00 0.00 0.00 4.30
688 689 4.106925 GTGGCAGAGCAGGGGAGG 62.107 72.222 0.00 0.00 0.00 4.30
704 705 0.990818 GAGGGAGGGGCCTCTTTCAT 60.991 60.000 6.58 0.00 42.38 2.57
710 711 0.332972 GGGGCCTCTTTCATGGAACT 59.667 55.000 0.84 0.00 0.00 3.01
736 737 0.535335 CAACTGGGCCGCTACTCTAA 59.465 55.000 0.00 0.00 0.00 2.10
737 738 0.535797 AACTGGGCCGCTACTCTAAC 59.464 55.000 0.00 0.00 0.00 2.34
738 739 0.613853 ACTGGGCCGCTACTCTAACA 60.614 55.000 0.00 0.00 0.00 2.41
739 740 0.103208 CTGGGCCGCTACTCTAACAG 59.897 60.000 0.00 0.00 0.00 3.16
740 741 0.613853 TGGGCCGCTACTCTAACAGT 60.614 55.000 0.00 0.00 39.41 3.55
741 742 0.102663 GGGCCGCTACTCTAACAGTC 59.897 60.000 0.00 0.00 36.43 3.51
742 743 0.815734 GGCCGCTACTCTAACAGTCA 59.184 55.000 0.00 0.00 36.43 3.41
743 744 1.203994 GGCCGCTACTCTAACAGTCAA 59.796 52.381 0.00 0.00 36.43 3.18
744 745 2.353406 GGCCGCTACTCTAACAGTCAAA 60.353 50.000 0.00 0.00 36.43 2.69
748 749 3.365666 CGCTACTCTAACAGTCAAACGGA 60.366 47.826 0.00 0.00 36.43 4.69
791 819 2.126071 CCGCTTCGGTCGTGTGAT 60.126 61.111 0.00 0.00 42.73 3.06
816 869 1.736126 TCACCGATGACGAGTGTCTAC 59.264 52.381 0.00 0.00 45.70 2.59
818 871 0.381089 CCGATGACGAGTGTCTACCC 59.619 60.000 0.00 0.00 45.70 3.69
819 872 0.381089 CGATGACGAGTGTCTACCCC 59.619 60.000 0.00 0.00 45.70 4.95
824 877 2.893398 GAGTGTCTACCCCTGCGG 59.107 66.667 0.00 0.00 37.81 5.69
919 988 1.333636 CCAGCATCTCTTCCCCTCGT 61.334 60.000 0.00 0.00 0.00 4.18
941 1010 3.244457 TGCAAGAGCTCATCCATATCCTG 60.244 47.826 17.77 0.00 42.74 3.86
942 1011 3.244491 GCAAGAGCTCATCCATATCCTGT 60.244 47.826 17.77 0.00 37.91 4.00
943 1012 4.020751 GCAAGAGCTCATCCATATCCTGTA 60.021 45.833 17.77 0.00 37.91 2.74
944 1013 5.338219 GCAAGAGCTCATCCATATCCTGTAT 60.338 44.000 17.77 0.00 37.91 2.29
945 1014 6.339730 CAAGAGCTCATCCATATCCTGTATC 58.660 44.000 17.77 0.00 0.00 2.24
946 1015 4.961730 AGAGCTCATCCATATCCTGTATCC 59.038 45.833 17.77 0.00 0.00 2.59
947 1016 4.036518 AGCTCATCCATATCCTGTATCCC 58.963 47.826 0.00 0.00 0.00 3.85
948 1017 3.135530 GCTCATCCATATCCTGTATCCCC 59.864 52.174 0.00 0.00 0.00 4.81
975 1045 1.608717 CCCTCGACCCAAGAGACCAG 61.609 65.000 0.00 0.00 37.93 4.00
1262 1332 1.409427 CGGGATCACCTCCTTCTACAC 59.591 57.143 0.00 0.00 44.28 2.90
1488 1561 0.685785 TTGGTGGTTGCTGGCTGAAA 60.686 50.000 0.00 0.00 0.00 2.69
1489 1562 1.363807 GGTGGTTGCTGGCTGAAAC 59.636 57.895 6.69 6.69 33.37 2.78
1566 1639 6.655003 TGATAGTCCAAACTTGTCCTGAATTC 59.345 38.462 0.00 0.00 36.92 2.17
1622 1695 2.163815 GCTGTCTGAATTCTGCATTGCT 59.836 45.455 10.49 0.00 0.00 3.91
1643 1716 5.303078 TGCTCTTAATGGATGTCTAGACTCC 59.697 44.000 23.01 23.46 32.71 3.85
1650 1723 3.056107 TGGATGTCTAGACTCCGTTTTGG 60.056 47.826 23.01 0.00 40.09 3.28
1711 1784 4.991056 GCCTATACATATCCACTGTGTGTG 59.009 45.833 7.08 0.60 45.80 3.82
1794 1867 4.387559 CGAAATTGGACAGTCGTGATTGTA 59.612 41.667 0.00 0.00 31.12 2.41
1801 1874 3.515630 ACAGTCGTGATTGTAGATGCTG 58.484 45.455 0.00 0.00 29.05 4.41
1809 1882 5.449999 CGTGATTGTAGATGCTGTACCAGTA 60.450 44.000 0.00 0.00 33.43 2.74
1827 1900 5.048713 ACCAGTATTGAGCAACAGTTTTAGC 60.049 40.000 0.00 0.00 0.00 3.09
1883 1956 3.054655 TGCCATAGTGACTAACCTTTCCC 60.055 47.826 0.00 0.00 0.00 3.97
1945 2018 0.662619 CCAAGCAGCACACGAGAAAA 59.337 50.000 0.00 0.00 0.00 2.29
1997 2070 9.745018 AAGTATCACTACTAAGTACCAACAGTA 57.255 33.333 0.00 0.00 37.20 2.74
1998 2071 9.393512 AGTATCACTACTAAGTACCAACAGTAG 57.606 37.037 14.49 14.49 43.91 2.57
2059 2135 7.687941 AGGGAAATGAACATACAAACACTAG 57.312 36.000 0.00 0.00 0.00 2.57
2074 2150 8.564509 ACAAACACTAGTAGTTTAACCAACAA 57.435 30.769 17.39 0.00 37.10 2.83
2300 2381 2.324541 GGCTCTCAGATGGTGATACCT 58.675 52.381 0.00 0.00 39.58 3.08
2377 2458 3.797353 GCTGGAAGGGGATCGCCA 61.797 66.667 28.74 8.85 35.15 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 79 1.115467 AATGATTCTCTCGGAGCCGT 58.885 50.000 8.96 0.00 40.74 5.68
83 84 1.471501 CGCCACAATGATTCTCTCGGA 60.472 52.381 0.00 0.00 0.00 4.55
338 339 1.241990 ACAACGCAGCTCCGACTCTA 61.242 55.000 2.80 0.00 0.00 2.43
381 382 0.324275 GGCAAAGCCCACCCTTATCA 60.324 55.000 0.00 0.00 44.06 2.15
538 539 5.486775 TGAGATTCTTCTTCTGGACAAGGAT 59.513 40.000 0.00 0.00 30.30 3.24
539 540 4.840680 TGAGATTCTTCTTCTGGACAAGGA 59.159 41.667 0.00 0.00 30.30 3.36
540 541 5.157940 TGAGATTCTTCTTCTGGACAAGG 57.842 43.478 0.00 0.00 30.30 3.61
541 542 5.177326 CCTGAGATTCTTCTTCTGGACAAG 58.823 45.833 0.00 0.00 30.30 3.16
542 543 4.594920 ACCTGAGATTCTTCTTCTGGACAA 59.405 41.667 4.03 0.00 30.30 3.18
543 544 4.020751 CACCTGAGATTCTTCTTCTGGACA 60.021 45.833 4.03 0.00 30.30 4.02
544 545 4.221703 TCACCTGAGATTCTTCTTCTGGAC 59.778 45.833 4.03 0.00 30.30 4.02
545 546 4.420206 TCACCTGAGATTCTTCTTCTGGA 58.580 43.478 4.03 0.00 30.30 3.86
546 547 4.815533 TCACCTGAGATTCTTCTTCTGG 57.184 45.455 0.00 0.00 30.30 3.86
547 548 6.313411 GTCATTCACCTGAGATTCTTCTTCTG 59.687 42.308 0.00 0.00 30.30 3.02
548 549 6.013898 TGTCATTCACCTGAGATTCTTCTTCT 60.014 38.462 0.00 0.00 30.30 2.85
549 550 6.169094 TGTCATTCACCTGAGATTCTTCTTC 58.831 40.000 0.00 0.00 30.30 2.87
550 551 6.119240 TGTCATTCACCTGAGATTCTTCTT 57.881 37.500 0.00 0.00 30.30 2.52
551 552 5.752036 TGTCATTCACCTGAGATTCTTCT 57.248 39.130 0.00 0.00 33.88 2.85
552 553 5.123027 GGTTGTCATTCACCTGAGATTCTTC 59.877 44.000 0.00 0.00 0.00 2.87
553 554 5.006386 GGTTGTCATTCACCTGAGATTCTT 58.994 41.667 0.00 0.00 0.00 2.52
554 555 4.566488 GGGTTGTCATTCACCTGAGATTCT 60.566 45.833 0.00 0.00 0.00 2.40
555 556 3.691609 GGGTTGTCATTCACCTGAGATTC 59.308 47.826 0.00 0.00 0.00 2.52
556 557 3.074390 TGGGTTGTCATTCACCTGAGATT 59.926 43.478 0.00 0.00 0.00 2.40
557 558 2.644299 TGGGTTGTCATTCACCTGAGAT 59.356 45.455 0.00 0.00 0.00 2.75
558 559 2.038952 CTGGGTTGTCATTCACCTGAGA 59.961 50.000 0.00 0.00 0.00 3.27
559 560 2.038952 TCTGGGTTGTCATTCACCTGAG 59.961 50.000 0.00 0.00 0.00 3.35
560 561 2.038952 CTCTGGGTTGTCATTCACCTGA 59.961 50.000 0.00 0.00 0.00 3.86
561 562 2.038952 TCTCTGGGTTGTCATTCACCTG 59.961 50.000 0.00 0.00 0.00 4.00
562 563 2.304180 CTCTCTGGGTTGTCATTCACCT 59.696 50.000 0.00 0.00 0.00 4.00
563 564 2.303022 TCTCTCTGGGTTGTCATTCACC 59.697 50.000 0.00 0.00 0.00 4.02
564 565 3.685139 TCTCTCTGGGTTGTCATTCAC 57.315 47.619 0.00 0.00 0.00 3.18
565 566 6.373005 TTTATCTCTCTGGGTTGTCATTCA 57.627 37.500 0.00 0.00 0.00 2.57
566 567 5.819901 CCTTTATCTCTCTGGGTTGTCATTC 59.180 44.000 0.00 0.00 0.00 2.67
567 568 5.251700 ACCTTTATCTCTCTGGGTTGTCATT 59.748 40.000 0.00 0.00 0.00 2.57
568 569 4.785376 ACCTTTATCTCTCTGGGTTGTCAT 59.215 41.667 0.00 0.00 0.00 3.06
569 570 4.168101 ACCTTTATCTCTCTGGGTTGTCA 58.832 43.478 0.00 0.00 0.00 3.58
570 571 4.828072 ACCTTTATCTCTCTGGGTTGTC 57.172 45.455 0.00 0.00 0.00 3.18
571 572 6.653989 CAATACCTTTATCTCTCTGGGTTGT 58.346 40.000 0.00 0.00 0.00 3.32
572 573 5.529060 GCAATACCTTTATCTCTCTGGGTTG 59.471 44.000 0.00 0.00 0.00 3.77
573 574 5.191722 TGCAATACCTTTATCTCTCTGGGTT 59.808 40.000 0.00 0.00 0.00 4.11
574 575 4.721776 TGCAATACCTTTATCTCTCTGGGT 59.278 41.667 0.00 0.00 0.00 4.51
575 576 5.296151 TGCAATACCTTTATCTCTCTGGG 57.704 43.478 0.00 0.00 0.00 4.45
576 577 6.115446 TGTTGCAATACCTTTATCTCTCTGG 58.885 40.000 0.59 0.00 0.00 3.86
577 578 7.615582 TTGTTGCAATACCTTTATCTCTCTG 57.384 36.000 0.59 0.00 0.00 3.35
578 579 7.885399 ACTTTGTTGCAATACCTTTATCTCTCT 59.115 33.333 0.59 0.00 0.00 3.10
579 580 7.965107 CACTTTGTTGCAATACCTTTATCTCTC 59.035 37.037 0.59 0.00 0.00 3.20
580 581 7.665559 TCACTTTGTTGCAATACCTTTATCTCT 59.334 33.333 0.59 0.00 0.00 3.10
581 582 7.816640 TCACTTTGTTGCAATACCTTTATCTC 58.183 34.615 0.59 0.00 0.00 2.75
582 583 7.759489 TCACTTTGTTGCAATACCTTTATCT 57.241 32.000 0.59 0.00 0.00 1.98
583 584 8.243426 TCATCACTTTGTTGCAATACCTTTATC 58.757 33.333 0.59 0.00 0.00 1.75
584 585 8.028938 GTCATCACTTTGTTGCAATACCTTTAT 58.971 33.333 0.59 0.00 0.00 1.40
585 586 7.367285 GTCATCACTTTGTTGCAATACCTTTA 58.633 34.615 0.59 0.00 0.00 1.85
586 587 6.215845 GTCATCACTTTGTTGCAATACCTTT 58.784 36.000 0.59 0.00 0.00 3.11
587 588 5.278957 GGTCATCACTTTGTTGCAATACCTT 60.279 40.000 0.59 0.00 0.00 3.50
588 589 4.218417 GGTCATCACTTTGTTGCAATACCT 59.782 41.667 0.59 0.00 0.00 3.08
589 590 4.485163 GGTCATCACTTTGTTGCAATACC 58.515 43.478 0.59 0.00 0.00 2.73
590 591 4.083537 TCGGTCATCACTTTGTTGCAATAC 60.084 41.667 0.59 0.00 0.00 1.89
591 592 4.068599 TCGGTCATCACTTTGTTGCAATA 58.931 39.130 0.59 0.00 0.00 1.90
592 593 2.884012 TCGGTCATCACTTTGTTGCAAT 59.116 40.909 0.59 0.00 0.00 3.56
593 594 2.293170 TCGGTCATCACTTTGTTGCAA 58.707 42.857 0.00 0.00 0.00 4.08
594 595 1.960417 TCGGTCATCACTTTGTTGCA 58.040 45.000 0.00 0.00 0.00 4.08
595 596 4.591202 CATATCGGTCATCACTTTGTTGC 58.409 43.478 0.00 0.00 0.00 4.17
596 597 4.094739 TGCATATCGGTCATCACTTTGTTG 59.905 41.667 0.00 0.00 0.00 3.33
597 598 4.260985 TGCATATCGGTCATCACTTTGTT 58.739 39.130 0.00 0.00 0.00 2.83
598 599 3.872696 TGCATATCGGTCATCACTTTGT 58.127 40.909 0.00 0.00 0.00 2.83
599 600 4.512571 TGATGCATATCGGTCATCACTTTG 59.487 41.667 0.00 0.00 40.91 2.77
600 601 4.707105 TGATGCATATCGGTCATCACTTT 58.293 39.130 0.00 0.00 40.91 2.66
601 602 4.341366 TGATGCATATCGGTCATCACTT 57.659 40.909 0.00 0.00 40.91 3.16
604 605 2.634453 AGGTGATGCATATCGGTCATCA 59.366 45.455 0.00 0.00 42.79 3.07
605 606 3.325293 AGGTGATGCATATCGGTCATC 57.675 47.619 0.00 0.00 36.04 2.92
606 607 4.890158 TTAGGTGATGCATATCGGTCAT 57.110 40.909 0.00 0.00 36.04 3.06
607 608 4.681074 TTTAGGTGATGCATATCGGTCA 57.319 40.909 0.00 0.00 36.04 4.02
608 609 6.092259 GGTTATTTAGGTGATGCATATCGGTC 59.908 42.308 0.00 0.00 36.04 4.79
609 610 5.938125 GGTTATTTAGGTGATGCATATCGGT 59.062 40.000 0.00 0.00 36.04 4.69
610 611 6.173339 AGGTTATTTAGGTGATGCATATCGG 58.827 40.000 0.00 0.00 36.04 4.18
611 612 7.063898 CAGAGGTTATTTAGGTGATGCATATCG 59.936 40.741 0.00 0.00 36.04 2.92
612 613 7.335422 CCAGAGGTTATTTAGGTGATGCATATC 59.665 40.741 0.00 0.00 0.00 1.63
613 614 7.170965 CCAGAGGTTATTTAGGTGATGCATAT 58.829 38.462 0.00 0.00 0.00 1.78
614 615 6.101150 ACCAGAGGTTATTTAGGTGATGCATA 59.899 38.462 0.00 0.00 27.29 3.14
615 616 5.103940 ACCAGAGGTTATTTAGGTGATGCAT 60.104 40.000 0.00 0.00 27.29 3.96
616 617 4.227300 ACCAGAGGTTATTTAGGTGATGCA 59.773 41.667 0.00 0.00 27.29 3.96
617 618 4.781934 ACCAGAGGTTATTTAGGTGATGC 58.218 43.478 0.00 0.00 27.29 3.91
621 622 5.411669 GTGTTCACCAGAGGTTATTTAGGTG 59.588 44.000 0.00 0.00 45.92 4.00
622 623 5.072600 TGTGTTCACCAGAGGTTATTTAGGT 59.927 40.000 0.37 0.00 31.02 3.08
623 624 5.556915 TGTGTTCACCAGAGGTTATTTAGG 58.443 41.667 0.37 0.00 31.02 2.69
624 625 6.094048 CCATGTGTTCACCAGAGGTTATTTAG 59.906 42.308 0.37 0.00 31.02 1.85
625 626 5.943416 CCATGTGTTCACCAGAGGTTATTTA 59.057 40.000 0.37 0.00 31.02 1.40
626 627 4.766891 CCATGTGTTCACCAGAGGTTATTT 59.233 41.667 0.37 0.00 31.02 1.40
627 628 4.042809 TCCATGTGTTCACCAGAGGTTATT 59.957 41.667 0.37 0.00 31.02 1.40
628 629 3.587061 TCCATGTGTTCACCAGAGGTTAT 59.413 43.478 0.37 0.00 31.02 1.89
629 630 2.976185 TCCATGTGTTCACCAGAGGTTA 59.024 45.455 0.37 0.00 31.02 2.85
630 631 1.774254 TCCATGTGTTCACCAGAGGTT 59.226 47.619 0.37 0.00 31.02 3.50
631 632 1.434188 TCCATGTGTTCACCAGAGGT 58.566 50.000 0.37 0.00 35.62 3.85
632 633 2.154462 GTTCCATGTGTTCACCAGAGG 58.846 52.381 0.37 0.00 0.00 3.69
633 634 2.810274 CAGTTCCATGTGTTCACCAGAG 59.190 50.000 0.37 0.00 0.00 3.35
634 635 2.487086 CCAGTTCCATGTGTTCACCAGA 60.487 50.000 0.37 0.00 0.00 3.86
635 636 1.881973 CCAGTTCCATGTGTTCACCAG 59.118 52.381 0.37 0.00 0.00 4.00
636 637 1.979855 CCAGTTCCATGTGTTCACCA 58.020 50.000 0.37 0.00 0.00 4.17
637 638 0.598065 GCCAGTTCCATGTGTTCACC 59.402 55.000 0.37 0.00 0.00 4.02
638 639 0.238289 CGCCAGTTCCATGTGTTCAC 59.762 55.000 0.00 0.00 0.00 3.18
639 640 0.179032 ACGCCAGTTCCATGTGTTCA 60.179 50.000 0.00 0.00 0.00 3.18
640 641 0.238289 CACGCCAGTTCCATGTGTTC 59.762 55.000 0.00 0.00 0.00 3.18
641 642 1.172180 CCACGCCAGTTCCATGTGTT 61.172 55.000 0.00 0.00 0.00 3.32
642 643 1.600636 CCACGCCAGTTCCATGTGT 60.601 57.895 0.00 0.00 0.00 3.72
643 644 2.334946 CCCACGCCAGTTCCATGTG 61.335 63.158 0.00 0.00 0.00 3.21
644 645 2.034066 CCCACGCCAGTTCCATGT 59.966 61.111 0.00 0.00 0.00 3.21
645 646 1.746615 CTCCCACGCCAGTTCCATG 60.747 63.158 0.00 0.00 0.00 3.66
646 647 1.918293 TCTCCCACGCCAGTTCCAT 60.918 57.895 0.00 0.00 0.00 3.41
647 648 2.525629 TCTCCCACGCCAGTTCCA 60.526 61.111 0.00 0.00 0.00 3.53
648 649 1.255667 TAGTCTCCCACGCCAGTTCC 61.256 60.000 0.00 0.00 0.00 3.62
649 650 0.173708 CTAGTCTCCCACGCCAGTTC 59.826 60.000 0.00 0.00 0.00 3.01
650 651 0.542232 ACTAGTCTCCCACGCCAGTT 60.542 55.000 0.00 0.00 0.00 3.16
651 652 1.076906 ACTAGTCTCCCACGCCAGT 59.923 57.895 0.00 0.00 0.00 4.00
652 653 1.513158 CACTAGTCTCCCACGCCAG 59.487 63.158 0.00 0.00 0.00 4.85
653 654 1.982395 CCACTAGTCTCCCACGCCA 60.982 63.158 0.00 0.00 0.00 5.69
654 655 1.982938 ACCACTAGTCTCCCACGCC 60.983 63.158 0.00 0.00 0.00 5.68
655 656 1.215647 CACCACTAGTCTCCCACGC 59.784 63.158 0.00 0.00 0.00 5.34
656 657 1.890894 CCACCACTAGTCTCCCACG 59.109 63.158 0.00 0.00 0.00 4.94
657 658 1.192146 TGCCACCACTAGTCTCCCAC 61.192 60.000 0.00 0.00 0.00 4.61
658 659 0.904865 CTGCCACCACTAGTCTCCCA 60.905 60.000 0.00 0.00 0.00 4.37
659 660 0.614979 TCTGCCACCACTAGTCTCCC 60.615 60.000 0.00 0.00 0.00 4.30
660 661 0.820871 CTCTGCCACCACTAGTCTCC 59.179 60.000 0.00 0.00 0.00 3.71
661 662 0.174617 GCTCTGCCACCACTAGTCTC 59.825 60.000 0.00 0.00 0.00 3.36
662 663 0.542938 TGCTCTGCCACCACTAGTCT 60.543 55.000 0.00 0.00 0.00 3.24
663 664 0.108424 CTGCTCTGCCACCACTAGTC 60.108 60.000 0.00 0.00 0.00 2.59
664 665 1.548357 CCTGCTCTGCCACCACTAGT 61.548 60.000 0.00 0.00 0.00 2.57
665 666 1.220206 CCTGCTCTGCCACCACTAG 59.780 63.158 0.00 0.00 0.00 2.57
666 667 2.293318 CCCTGCTCTGCCACCACTA 61.293 63.158 0.00 0.00 0.00 2.74
667 668 3.644606 CCCTGCTCTGCCACCACT 61.645 66.667 0.00 0.00 0.00 4.00
668 669 4.729918 CCCCTGCTCTGCCACCAC 62.730 72.222 0.00 0.00 0.00 4.16
669 670 4.980592 TCCCCTGCTCTGCCACCA 62.981 66.667 0.00 0.00 0.00 4.17
670 671 4.106925 CTCCCCTGCTCTGCCACC 62.107 72.222 0.00 0.00 0.00 4.61
671 672 4.106925 CCTCCCCTGCTCTGCCAC 62.107 72.222 0.00 0.00 0.00 5.01
674 675 3.478274 CTCCCTCCCCTGCTCTGC 61.478 72.222 0.00 0.00 0.00 4.26
675 676 2.767496 CCTCCCTCCCCTGCTCTG 60.767 72.222 0.00 0.00 0.00 3.35
676 677 4.101077 CCCTCCCTCCCCTGCTCT 62.101 72.222 0.00 0.00 0.00 4.09
686 687 1.085605 ATGAAAGAGGCCCCTCCCT 59.914 57.895 10.64 0.00 43.70 4.20
687 688 1.228510 CATGAAAGAGGCCCCTCCC 59.771 63.158 10.64 2.04 43.70 4.30
688 689 1.228510 CCATGAAAGAGGCCCCTCC 59.771 63.158 10.64 0.00 43.70 4.30
704 705 0.821711 CCAGTTGGCCGAAAGTTCCA 60.822 55.000 0.00 0.00 0.00 3.53
727 728 3.919197 GTCCGTTTGACTGTTAGAGTAGC 59.081 47.826 0.00 0.00 41.03 3.58
736 737 1.604604 CAATGGGTCCGTTTGACTGT 58.395 50.000 0.00 0.00 43.89 3.55
737 738 0.881118 CCAATGGGTCCGTTTGACTG 59.119 55.000 0.00 0.00 43.89 3.51
738 739 3.339547 CCAATGGGTCCGTTTGACT 57.660 52.632 0.00 0.00 43.89 3.41
802 855 1.475403 CAGGGGTAGACACTCGTCAT 58.525 55.000 0.00 0.00 45.23 3.06
806 859 2.490217 CGCAGGGGTAGACACTCG 59.510 66.667 0.00 0.00 0.00 4.18
824 877 1.884926 GCTGATGCTACGTGCTCCC 60.885 63.158 0.00 0.00 43.37 4.30
863 916 4.047059 TCGCTCGTCGGGTTCACC 62.047 66.667 0.00 0.00 39.05 4.02
919 988 2.977580 AGGATATGGATGAGCTCTTGCA 59.022 45.455 22.93 22.93 42.74 4.08
946 1015 3.489513 GTCGAGGGGGAATGGGGG 61.490 72.222 0.00 0.00 0.00 5.40
947 1016 3.489513 GGTCGAGGGGGAATGGGG 61.490 72.222 0.00 0.00 0.00 4.96
948 1017 3.489513 GGGTCGAGGGGGAATGGG 61.490 72.222 0.00 0.00 0.00 4.00
975 1045 3.431725 CTTCGGTTCTTGCCCGGC 61.432 66.667 1.04 1.04 45.51 6.13
1488 1561 4.678256 TCATGACTAACAAGGAGAGGAGT 58.322 43.478 0.00 0.00 0.00 3.85
1489 1562 5.667539 TTCATGACTAACAAGGAGAGGAG 57.332 43.478 0.00 0.00 0.00 3.69
1566 1639 7.148069 ACCAAACTTTTCACTAACAAGGAGAAG 60.148 37.037 0.00 0.00 0.00 2.85
1622 1695 5.446860 ACGGAGTCTAGACATCCATTAAGA 58.553 41.667 27.00 0.00 29.74 2.10
1643 1716 4.549458 ACTGAATGAAGCATTCCAAAACG 58.451 39.130 15.28 0.00 46.65 3.60
1664 1737 1.690893 TCTCATCTCATGGCTGGCTAC 59.309 52.381 2.00 0.00 0.00 3.58
1711 1784 8.292448 TCTCTGAATGTTTACTTCTGAAATTGC 58.708 33.333 0.00 0.00 32.45 3.56
1801 1874 5.941948 AAACTGTTGCTCAATACTGGTAC 57.058 39.130 0.00 0.00 0.00 3.34
1809 1882 6.824305 ACATAGCTAAAACTGTTGCTCAAT 57.176 33.333 7.07 0.00 37.02 2.57
1874 1947 5.949354 TCATTAACAATCATCGGGAAAGGTT 59.051 36.000 0.00 0.00 0.00 3.50
1883 1956 6.267817 AGTGGCATTTCATTAACAATCATCG 58.732 36.000 0.00 0.00 0.00 3.84
1918 1991 4.399395 TGCTGCTTGGGCTCTCGG 62.399 66.667 0.00 0.00 39.59 4.63
1919 1992 3.123620 GTGCTGCTTGGGCTCTCG 61.124 66.667 0.00 0.00 39.59 4.04
1945 2018 7.121168 TGTTTTCAGTCAATTGAAGAACTCTGT 59.879 33.333 18.88 0.00 38.25 3.41
1997 2070 2.232452 AGCACTTGAGCGTATGAAGACT 59.768 45.455 0.00 0.00 40.15 3.24
1998 2071 2.600867 GAGCACTTGAGCGTATGAAGAC 59.399 50.000 0.00 0.00 40.15 3.01
1999 2072 2.231235 TGAGCACTTGAGCGTATGAAGA 59.769 45.455 0.00 0.00 40.15 2.87
2059 2135 8.071967 GTGATGGTTACTTGTTGGTTAAACTAC 58.928 37.037 0.00 0.00 39.70 2.73
2074 2150 2.540383 TGCTGGAGAGTGATGGTTACT 58.460 47.619 0.00 0.00 0.00 2.24
2125 2203 6.126796 TGGCAGATATTACAACATCTCCTGAA 60.127 38.462 0.00 0.00 28.88 3.02
2204 2282 2.956964 CGAGAAGCCGCGGATGAC 60.957 66.667 33.48 21.04 31.87 3.06
2300 2381 2.282407 CATTGCACCATCACATCTCGA 58.718 47.619 0.00 0.00 0.00 4.04
2377 2458 4.960938 TCGGTGCTGAAAGAATATGCTAT 58.039 39.130 0.00 0.00 34.07 2.97


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

AutoCloner maintained by Alex Coulton.