Multiple sequence alignment - TraesCS5B01G163100

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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 TraesCS5B01G163100 chr5B 100.000 3758 0 0 1 3758 301195265 301199022 0 6940
1 TraesCS5B01G163100 chr5B 89.792 578 55 3 1 577 611865716 611865142 0 737
2 TraesCS5B01G163100 chr5D 96.886 3115 82 6 650 3758 267074557 267077662 0 5201
3 TraesCS5B01G163100 chr5A 97.699 2477 51 2 708 3184 353607685 353605215 0 4253
4 TraesCS5B01G163100 chr5A 95.904 586 15 3 3177 3758 353605112 353604532 0 941
5 TraesCS5B01G163100 chr4B 90.460 587 40 5 1 577 591268219 591267639 0 760
6 TraesCS5B01G163100 chr4B 90.102 586 46 4 2 577 168711146 168710563 0 750
7 TraesCS5B01G163100 chr7D 91.455 550 44 2 28 577 418400343 418399797 0 752
8 TraesCS5B01G163100 chrUn 91.289 551 43 4 28 577 274858678 274859224 0 747
9 TraesCS5B01G163100 chrUn 91.289 551 43 4 28 577 296090957 296090411 0 747
10 TraesCS5B01G163100 chrUn 91.289 551 43 4 28 577 296096059 296095513 0 747
11 TraesCS5B01G163100 chr2B 89.983 579 52 4 1 577 789984503 789983929 0 743
12 TraesCS5B01G163100 chr7B 89.637 579 55 3 1 576 452320683 452320107 0 732


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 TraesCS5B01G163100 chr5B 301195265 301199022 3757 False 6940 6940 100.0000 1 3758 1 chr5B.!!$F1 3757
1 TraesCS5B01G163100 chr5B 611865142 611865716 574 True 737 737 89.7920 1 577 1 chr5B.!!$R1 576
2 TraesCS5B01G163100 chr5D 267074557 267077662 3105 False 5201 5201 96.8860 650 3758 1 chr5D.!!$F1 3108
3 TraesCS5B01G163100 chr5A 353604532 353607685 3153 True 2597 4253 96.8015 708 3758 2 chr5A.!!$R1 3050
4 TraesCS5B01G163100 chr4B 591267639 591268219 580 True 760 760 90.4600 1 577 1 chr4B.!!$R2 576
5 TraesCS5B01G163100 chr4B 168710563 168711146 583 True 750 750 90.1020 2 577 1 chr4B.!!$R1 575
6 TraesCS5B01G163100 chr7D 418399797 418400343 546 True 752 752 91.4550 28 577 1 chr7D.!!$R1 549
7 TraesCS5B01G163100 chrUn 274858678 274859224 546 False 747 747 91.2890 28 577 1 chrUn.!!$F1 549
8 TraesCS5B01G163100 chrUn 296090411 296090957 546 True 747 747 91.2890 28 577 1 chrUn.!!$R1 549
9 TraesCS5B01G163100 chrUn 296095513 296096059 546 True 747 747 91.2890 28 577 1 chrUn.!!$R2 549
10 TraesCS5B01G163100 chr2B 789983929 789984503 574 True 743 743 89.9830 1 577 1 chr2B.!!$R1 576
11 TraesCS5B01G163100 chr7B 452320107 452320683 576 True 732 732 89.6370 1 576 1 chr7B.!!$R1 575

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
551 567 0.250124 ACCCGCAAACGTGATCTTCA 60.250 50.0 0.00 0.0 37.7 3.02 F
652 668 0.383124 GAGACAACGAAACAGCACGC 60.383 55.0 0.00 0.0 0.0 5.34 F
660 676 1.112459 GAAACAGCACGCGAAACAAG 58.888 50.0 15.93 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2088 2109 0.861837 GTTGCTGTGTCTCAAGGTCG 59.138 55.0 0.00 0.0 0.0 4.79 R
2428 2449 1.680522 CGGCCAGCTGACTCCTGTAT 61.681 60.0 17.39 0.0 0.0 2.29 R
2764 2785 0.965363 AACCTTACCCCAATGCAGCG 60.965 55.0 0.00 0.0 0.0 5.18 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
224 239 4.681978 GTTGAGGAGTGGCGCCGT 62.682 66.667 23.90 12.17 0.00 5.68
321 336 1.851021 CTGCGTCGTCCATTTTGCCA 61.851 55.000 0.00 0.00 0.00 4.92
354 370 1.545875 CGTCAGATCCGACCCCTCTAT 60.546 57.143 3.47 0.00 31.91 1.98
381 397 7.137426 ACTAGTTAACGTAGCATGTAGTATGC 58.863 38.462 3.80 3.80 44.85 3.14
411 427 8.109705 TGCTTAATTTGTTGATCATGTAGTGT 57.890 30.769 0.00 0.00 0.00 3.55
412 428 9.225436 TGCTTAATTTGTTGATCATGTAGTGTA 57.775 29.630 0.00 0.00 0.00 2.90
513 529 5.009710 TGCAGGTTTAGATACGGTATCTGAG 59.990 44.000 31.32 17.21 44.81 3.35
531 547 2.553770 CGACCGCGCATGTTTTCA 59.446 55.556 8.75 0.00 0.00 2.69
543 559 0.526662 TGTTTTCAACCCGCAAACGT 59.473 45.000 0.00 0.00 37.70 3.99
551 567 0.250124 ACCCGCAAACGTGATCTTCA 60.250 50.000 0.00 0.00 37.70 3.02
560 576 3.313012 ACGTGATCTTCATGAAACCGA 57.687 42.857 9.88 3.96 36.89 4.69
582 598 3.939564 GCATTTTGCGGGGGATCT 58.060 55.556 0.00 0.00 31.71 2.75
583 599 1.438814 GCATTTTGCGGGGGATCTG 59.561 57.895 0.00 0.00 31.71 2.90
589 605 3.055580 GCGGGGGATCTGCTAGAG 58.944 66.667 0.00 0.00 44.20 2.43
590 606 1.834822 GCGGGGGATCTGCTAGAGT 60.835 63.158 0.00 0.00 44.20 3.24
591 607 1.403687 GCGGGGGATCTGCTAGAGTT 61.404 60.000 0.00 0.00 44.20 3.01
592 608 1.996798 CGGGGGATCTGCTAGAGTTA 58.003 55.000 0.00 0.00 0.00 2.24
593 609 1.614413 CGGGGGATCTGCTAGAGTTAC 59.386 57.143 0.00 0.00 0.00 2.50
594 610 2.753507 CGGGGGATCTGCTAGAGTTACT 60.754 54.545 0.00 0.00 0.00 2.24
595 611 2.894765 GGGGGATCTGCTAGAGTTACTC 59.105 54.545 3.85 3.85 0.00 2.59
596 612 3.437344 GGGGGATCTGCTAGAGTTACTCT 60.437 52.174 19.35 19.35 43.83 3.24
597 613 4.202588 GGGGGATCTGCTAGAGTTACTCTA 60.203 50.000 19.51 19.51 41.50 2.43
598 614 5.386924 GGGGATCTGCTAGAGTTACTCTAA 58.613 45.833 20.78 8.47 41.74 2.10
599 615 5.242171 GGGGATCTGCTAGAGTTACTCTAAC 59.758 48.000 20.78 17.31 41.74 2.34
600 616 5.242171 GGGATCTGCTAGAGTTACTCTAACC 59.758 48.000 20.78 15.26 41.74 2.85
601 617 5.828859 GGATCTGCTAGAGTTACTCTAACCA 59.171 44.000 20.78 18.22 41.74 3.67
602 618 6.321690 GGATCTGCTAGAGTTACTCTAACCAA 59.678 42.308 20.78 9.34 41.74 3.67
603 619 7.147880 GGATCTGCTAGAGTTACTCTAACCAAA 60.148 40.741 20.78 9.95 41.74 3.28
604 620 6.921914 TCTGCTAGAGTTACTCTAACCAAAC 58.078 40.000 20.78 8.67 41.74 2.93
605 621 6.492429 TCTGCTAGAGTTACTCTAACCAAACA 59.508 38.462 20.78 11.90 41.74 2.83
606 622 6.453092 TGCTAGAGTTACTCTAACCAAACAC 58.547 40.000 20.78 6.15 41.74 3.32
607 623 5.572126 GCTAGAGTTACTCTAACCAAACACG 59.428 44.000 20.78 8.79 41.74 4.49
608 624 5.526506 AGAGTTACTCTAACCAAACACGT 57.473 39.130 13.84 0.00 39.28 4.49
609 625 5.527033 AGAGTTACTCTAACCAAACACGTC 58.473 41.667 13.84 0.00 39.28 4.34
610 626 4.625028 AGTTACTCTAACCAAACACGTCC 58.375 43.478 0.00 0.00 39.47 4.79
611 627 4.099881 AGTTACTCTAACCAAACACGTCCA 59.900 41.667 0.00 0.00 39.47 4.02
612 628 3.547054 ACTCTAACCAAACACGTCCAA 57.453 42.857 0.00 0.00 0.00 3.53
613 629 3.876341 ACTCTAACCAAACACGTCCAAA 58.124 40.909 0.00 0.00 0.00 3.28
614 630 3.875134 ACTCTAACCAAACACGTCCAAAG 59.125 43.478 0.00 0.00 0.00 2.77
615 631 4.124238 CTCTAACCAAACACGTCCAAAGA 58.876 43.478 0.00 0.00 0.00 2.52
616 632 4.710324 TCTAACCAAACACGTCCAAAGAT 58.290 39.130 0.00 0.00 0.00 2.40
617 633 3.708563 AACCAAACACGTCCAAAGATG 57.291 42.857 0.00 0.00 34.96 2.90
618 634 1.336755 ACCAAACACGTCCAAAGATGC 59.663 47.619 0.00 0.00 31.66 3.91
619 635 1.608590 CCAAACACGTCCAAAGATGCT 59.391 47.619 0.00 0.00 31.66 3.79
620 636 2.034558 CCAAACACGTCCAAAGATGCTT 59.965 45.455 0.00 0.00 31.66 3.91
621 637 3.490761 CCAAACACGTCCAAAGATGCTTT 60.491 43.478 0.00 0.00 31.66 3.51
622 638 3.354089 AACACGTCCAAAGATGCTTTG 57.646 42.857 11.83 11.83 31.66 2.77
623 639 1.001378 ACACGTCCAAAGATGCTTTGC 60.001 47.619 13.03 2.06 31.66 3.68
624 640 1.001487 CACGTCCAAAGATGCTTTGCA 60.001 47.619 13.03 0.00 44.86 4.08
634 650 3.912899 TGCTTTGCATCTCTGACGA 57.087 47.368 0.00 0.00 31.71 4.20
635 651 1.718396 TGCTTTGCATCTCTGACGAG 58.282 50.000 0.00 0.00 34.25 4.18
645 661 2.996155 TCTCTGACGAGACAACGAAAC 58.004 47.619 0.00 0.00 41.26 2.78
646 662 2.356695 TCTCTGACGAGACAACGAAACA 59.643 45.455 0.00 0.00 41.26 2.83
647 663 2.721603 CTCTGACGAGACAACGAAACAG 59.278 50.000 0.00 0.00 39.74 3.16
648 664 1.190323 CTGACGAGACAACGAAACAGC 59.810 52.381 0.00 0.00 37.03 4.40
652 668 0.383124 GAGACAACGAAACAGCACGC 60.383 55.000 0.00 0.00 0.00 5.34
660 676 1.112459 GAAACAGCACGCGAAACAAG 58.888 50.000 15.93 0.00 0.00 3.16
668 684 1.575132 CGCGAAACAAGACGATGCG 60.575 57.895 0.00 0.00 38.04 4.73
705 721 2.300197 ATTGGCATTGGGTTGGGCC 61.300 57.895 0.00 0.00 46.58 5.80
798 814 1.966451 CCTCCCGGCTTGTGTGAAC 60.966 63.158 0.00 0.00 0.00 3.18
954 975 2.689034 CCCTCGCTTTCCCCTCCT 60.689 66.667 0.00 0.00 0.00 3.69
1365 1386 1.446792 CACGCTTCTCCTGCACGAT 60.447 57.895 0.00 0.00 0.00 3.73
1566 1587 3.060615 CTGCTGGAGTTGCTGGGC 61.061 66.667 0.00 0.00 0.00 5.36
1599 1620 1.577328 CTGAGGCCGCAAACATCGTT 61.577 55.000 11.38 0.00 0.00 3.85
1728 1749 3.202706 GCATCCCGGAAAGCGGTC 61.203 66.667 0.73 0.00 0.00 4.79
1924 1945 1.891919 GGTTCGTTGGCTGTGCAGA 60.892 57.895 3.02 0.00 0.00 4.26
2028 2049 2.819608 TCTGGTTGATTTACTTGCCAGC 59.180 45.455 0.00 0.00 42.17 4.85
2088 2109 4.585526 TCGATCGCGTCCATGGGC 62.586 66.667 13.02 9.73 38.98 5.36
2139 2160 3.996614 GGTGCATTACCGCCACTT 58.003 55.556 0.00 0.00 40.26 3.16
2208 2229 2.274232 TACGCGCTATCCACGTGCTT 62.274 55.000 10.91 1.47 44.52 3.91
2285 2306 1.553248 ACTAACAGACCTTATGCGCCA 59.447 47.619 4.18 0.00 0.00 5.69
2428 2449 1.077501 GTAGCCAAGCCTGCATCCA 60.078 57.895 0.00 0.00 0.00 3.41
2764 2785 2.987232 GGTGGAACAACTAGTCCATCC 58.013 52.381 11.83 11.83 46.61 3.51
2923 2944 2.217750 ACTACATGCTGCAAACGTGAA 58.782 42.857 6.36 0.00 0.00 3.18
3387 3522 3.764218 AGTGAGACGGAAGAGGAAAGTA 58.236 45.455 0.00 0.00 0.00 2.24
3390 3525 5.950549 AGTGAGACGGAAGAGGAAAGTAATA 59.049 40.000 0.00 0.00 0.00 0.98
3391 3526 6.436532 AGTGAGACGGAAGAGGAAAGTAATAA 59.563 38.462 0.00 0.00 0.00 1.40
3430 3565 6.576778 AATAGGTCAAAGTATAGGGCAGTT 57.423 37.500 0.00 0.00 0.00 3.16
3475 3610 2.987149 CGCACCCATGATAGTTATCGAC 59.013 50.000 0.00 0.00 35.48 4.20
3481 3616 3.427638 CCATGATAGTTATCGACGCGGAT 60.428 47.826 12.47 7.12 35.48 4.18
3554 3689 1.742761 CATGTCGATTGTGGAGCCTT 58.257 50.000 0.00 0.00 0.00 4.35
3563 3698 4.635765 CGATTGTGGAGCCTTAGAAATTGA 59.364 41.667 0.00 0.00 0.00 2.57
3565 3700 6.349280 CGATTGTGGAGCCTTAGAAATTGAAA 60.349 38.462 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
110 120 4.492160 CGGACGCTTCGCTAGGCA 62.492 66.667 0.00 0.00 0.00 4.75
303 318 1.894282 TGGCAAAATGGACGACGCA 60.894 52.632 0.00 0.00 0.00 5.24
437 453 8.308931 AGAAATTGCACAAACATAGTTCATCAT 58.691 29.630 0.00 0.00 0.00 2.45
531 547 0.872388 GAAGATCACGTTTGCGGGTT 59.128 50.000 0.00 0.00 43.08 4.11
543 559 4.612712 GCGTTTTCGGTTTCATGAAGATCA 60.613 41.667 8.41 0.00 44.29 2.92
551 567 3.059935 GCAAAATGCGTTTTCGGTTTCAT 60.060 39.130 13.72 0.00 44.29 2.57
577 593 5.828859 TGGTTAGAGTAACTCTAGCAGATCC 59.171 44.000 1.39 0.00 43.10 3.36
578 594 6.945938 TGGTTAGAGTAACTCTAGCAGATC 57.054 41.667 1.39 0.00 43.10 2.75
579 595 7.178628 TGTTTGGTTAGAGTAACTCTAGCAGAT 59.821 37.037 1.39 0.00 43.10 2.90
580 596 6.492429 TGTTTGGTTAGAGTAACTCTAGCAGA 59.508 38.462 1.39 0.00 43.10 4.26
581 597 6.586844 GTGTTTGGTTAGAGTAACTCTAGCAG 59.413 42.308 1.39 0.00 43.10 4.24
582 598 6.453092 GTGTTTGGTTAGAGTAACTCTAGCA 58.547 40.000 1.39 0.11 43.10 3.49
583 599 5.572126 CGTGTTTGGTTAGAGTAACTCTAGC 59.428 44.000 0.00 0.00 42.92 3.42
584 600 6.675987 ACGTGTTTGGTTAGAGTAACTCTAG 58.324 40.000 0.00 0.00 42.92 2.43
585 601 6.294176 GGACGTGTTTGGTTAGAGTAACTCTA 60.294 42.308 0.00 0.00 41.50 2.43
586 602 5.508657 GGACGTGTTTGGTTAGAGTAACTCT 60.509 44.000 0.00 0.00 43.83 3.24
587 603 4.683320 GGACGTGTTTGGTTAGAGTAACTC 59.317 45.833 0.00 0.00 38.68 3.01
588 604 4.099881 TGGACGTGTTTGGTTAGAGTAACT 59.900 41.667 0.00 0.00 38.68 2.24
589 605 4.370917 TGGACGTGTTTGGTTAGAGTAAC 58.629 43.478 0.00 0.00 37.94 2.50
590 606 4.669206 TGGACGTGTTTGGTTAGAGTAA 57.331 40.909 0.00 0.00 0.00 2.24
591 607 4.669206 TTGGACGTGTTTGGTTAGAGTA 57.331 40.909 0.00 0.00 0.00 2.59
592 608 3.547054 TTGGACGTGTTTGGTTAGAGT 57.453 42.857 0.00 0.00 0.00 3.24
593 609 4.124238 TCTTTGGACGTGTTTGGTTAGAG 58.876 43.478 0.00 0.00 0.00 2.43
594 610 4.139859 TCTTTGGACGTGTTTGGTTAGA 57.860 40.909 0.00 0.00 0.00 2.10
595 611 4.783242 CATCTTTGGACGTGTTTGGTTAG 58.217 43.478 0.00 0.00 0.00 2.34
596 612 3.003897 GCATCTTTGGACGTGTTTGGTTA 59.996 43.478 0.00 0.00 0.00 2.85
597 613 2.223711 GCATCTTTGGACGTGTTTGGTT 60.224 45.455 0.00 0.00 0.00 3.67
598 614 1.336755 GCATCTTTGGACGTGTTTGGT 59.663 47.619 0.00 0.00 0.00 3.67
599 615 1.608590 AGCATCTTTGGACGTGTTTGG 59.391 47.619 0.00 0.00 0.00 3.28
600 616 3.354089 AAGCATCTTTGGACGTGTTTG 57.646 42.857 0.00 0.00 0.00 2.93
601 617 3.705604 CAAAGCATCTTTGGACGTGTTT 58.294 40.909 10.54 0.00 0.00 2.83
602 618 2.543653 GCAAAGCATCTTTGGACGTGTT 60.544 45.455 17.69 0.00 0.00 3.32
603 619 1.001378 GCAAAGCATCTTTGGACGTGT 60.001 47.619 17.69 0.00 0.00 4.49
604 620 1.001487 TGCAAAGCATCTTTGGACGTG 60.001 47.619 17.69 0.00 31.71 4.49
605 621 1.317613 TGCAAAGCATCTTTGGACGT 58.682 45.000 17.69 0.00 31.71 4.34
616 632 3.912899 TCGTCAGAGATGCAAAGCA 57.087 47.368 0.00 0.00 44.86 3.91
626 642 2.721603 CTGTTTCGTTGTCTCGTCAGAG 59.278 50.000 0.00 0.00 45.69 3.35
627 643 2.727777 CTGTTTCGTTGTCTCGTCAGA 58.272 47.619 0.00 0.00 32.55 3.27
628 644 1.190323 GCTGTTTCGTTGTCTCGTCAG 59.810 52.381 0.00 0.00 0.00 3.51
629 645 1.205657 GCTGTTTCGTTGTCTCGTCA 58.794 50.000 0.00 0.00 0.00 4.35
630 646 1.071436 GTGCTGTTTCGTTGTCTCGTC 60.071 52.381 0.00 0.00 0.00 4.20
631 647 0.928229 GTGCTGTTTCGTTGTCTCGT 59.072 50.000 0.00 0.00 0.00 4.18
632 648 0.111704 CGTGCTGTTTCGTTGTCTCG 60.112 55.000 0.00 0.00 0.00 4.04
633 649 0.383124 GCGTGCTGTTTCGTTGTCTC 60.383 55.000 0.00 0.00 0.00 3.36
634 650 1.641677 GCGTGCTGTTTCGTTGTCT 59.358 52.632 0.00 0.00 0.00 3.41
635 651 1.717728 CGCGTGCTGTTTCGTTGTC 60.718 57.895 0.00 0.00 0.00 3.18
636 652 1.697772 TTCGCGTGCTGTTTCGTTGT 61.698 50.000 5.77 0.00 0.00 3.32
637 653 0.587737 TTTCGCGTGCTGTTTCGTTG 60.588 50.000 5.77 0.00 0.00 4.10
638 654 0.587985 GTTTCGCGTGCTGTTTCGTT 60.588 50.000 5.77 0.00 0.00 3.85
639 655 1.011574 GTTTCGCGTGCTGTTTCGT 60.012 52.632 5.77 0.00 0.00 3.85
640 656 0.587737 TTGTTTCGCGTGCTGTTTCG 60.588 50.000 5.77 0.00 0.00 3.46
641 657 1.112459 CTTGTTTCGCGTGCTGTTTC 58.888 50.000 5.77 0.00 0.00 2.78
642 658 0.730265 TCTTGTTTCGCGTGCTGTTT 59.270 45.000 5.77 0.00 0.00 2.83
643 659 0.027586 GTCTTGTTTCGCGTGCTGTT 59.972 50.000 5.77 0.00 0.00 3.16
644 660 1.641677 GTCTTGTTTCGCGTGCTGT 59.358 52.632 5.77 0.00 0.00 4.40
645 661 1.437089 CGTCTTGTTTCGCGTGCTG 60.437 57.895 5.77 0.00 0.00 4.41
646 662 0.944311 ATCGTCTTGTTTCGCGTGCT 60.944 50.000 5.77 0.00 0.00 4.40
647 663 0.785708 CATCGTCTTGTTTCGCGTGC 60.786 55.000 5.77 0.00 0.00 5.34
648 664 0.785708 GCATCGTCTTGTTTCGCGTG 60.786 55.000 5.77 0.00 0.00 5.34
652 668 2.570468 TTTCGCATCGTCTTGTTTCG 57.430 45.000 0.00 0.00 0.00 3.46
660 676 2.505866 GGTCATGTTTTTCGCATCGTC 58.494 47.619 0.00 0.00 0.00 4.20
668 684 1.243902 TGGAGCCGGTCATGTTTTTC 58.756 50.000 1.90 0.00 0.00 2.29
786 802 0.594796 CCGCTTTGTTCACACAAGCC 60.595 55.000 15.29 4.94 43.92 4.35
788 804 1.021202 TCCCGCTTTGTTCACACAAG 58.979 50.000 0.00 0.00 43.92 3.16
954 975 2.039624 GGGAGTGGAGCAGGAGGA 59.960 66.667 0.00 0.00 0.00 3.71
1365 1386 3.057547 GCGAAGGAGCAGCGAGAGA 62.058 63.158 0.00 0.00 37.05 3.10
1479 1500 1.533625 CAAAGGCGTCCCTGATGAAA 58.466 50.000 0.00 0.00 41.90 2.69
1566 1587 1.030488 CCTCAGCAGCAGGGTCATTG 61.030 60.000 0.00 0.00 0.00 2.82
1708 1729 3.508840 CGCTTTCCGGGATGCACC 61.509 66.667 19.88 0.00 38.08 5.01
2028 2049 2.203001 TGTGTGTCAGTGGTGCCG 60.203 61.111 0.00 0.00 0.00 5.69
2088 2109 0.861837 GTTGCTGTGTCTCAAGGTCG 59.138 55.000 0.00 0.00 0.00 4.79
2285 2306 1.683011 GCAACAGGATGCTACCACCAT 60.683 52.381 0.00 0.00 42.53 3.55
2428 2449 1.680522 CGGCCAGCTGACTCCTGTAT 61.681 60.000 17.39 0.00 0.00 2.29
2764 2785 0.965363 AACCTTACCCCAATGCAGCG 60.965 55.000 0.00 0.00 0.00 5.18
2809 2830 9.352784 CAAAGAAAACAAATTAGAAGTGTCACA 57.647 29.630 5.62 0.00 0.00 3.58
2923 2944 3.339141 GGAACTTTCCTGAAGCTTCGAT 58.661 45.455 21.11 0.75 44.11 3.59
3181 3312 2.435372 TGAACACTCTGGCCAAACTT 57.565 45.000 7.01 0.00 0.00 2.66
3256 3391 5.957771 AATTTCCACTATCTCTACCTGCA 57.042 39.130 0.00 0.00 0.00 4.41
3257 3392 7.272978 TGTTAATTTCCACTATCTCTACCTGC 58.727 38.462 0.00 0.00 0.00 4.85
3302 3437 0.310854 GTTTCCACTGTCCAAAGGCG 59.689 55.000 0.00 0.00 0.00 5.52
3399 3534 8.352942 CCCTATACTTTGACCTATTTTGCATTC 58.647 37.037 0.00 0.00 0.00 2.67
3454 3589 2.987149 GTCGATAACTATCATGGGTGCG 59.013 50.000 0.00 0.00 32.98 5.34
3475 3610 1.976045 GCAACACAAAACTTATCCGCG 59.024 47.619 0.00 0.00 0.00 6.46
3481 3616 6.639671 GTTGACATTGCAACACAAAACTTA 57.360 33.333 0.00 0.00 45.65 2.24
3554 3689 8.843262 CACCTAGATGCATGATTTCAATTTCTA 58.157 33.333 2.46 0.00 0.00 2.10
3563 3698 2.590821 GCCCACCTAGATGCATGATTT 58.409 47.619 2.46 0.00 0.00 2.17
3565 3700 0.403271 GGCCCACCTAGATGCATGAT 59.597 55.000 2.46 0.00 0.00 2.45
3674 3810 6.931281 CAGAACATCTAGTCCTCAGTGAAAAA 59.069 38.462 0.00 0.00 0.00 1.94


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

AutoCloner maintained by Alex Coulton.