Multiple sequence alignment - TraesCS3A01G282000

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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 TraesCS3A01G282000 chr3A 100.000 2342 0 0 1 2342 510687468 510689809 0.000000e+00 4325.0
1 TraesCS3A01G282000 chr3A 97.674 43 0 1 1765 1807 714070598 714070557 3.230000e-09 73.1
2 TraesCS3A01G282000 chr3D 93.286 1683 86 14 676 2337 390073134 390074810 0.000000e+00 2457.0
3 TraesCS3A01G282000 chr3B 89.545 1693 104 28 692 2342 507298635 507300296 0.000000e+00 2078.0
4 TraesCS3A01G282000 chr5A 93.011 558 33 5 1 553 463760806 463760250 0.000000e+00 809.0
5 TraesCS3A01G282000 chr5A 87.455 558 61 9 2 555 591644343 591644895 3.280000e-178 634.0
6 TraesCS3A01G282000 chr5A 86.690 571 62 13 2 563 465299747 465299182 2.560000e-174 621.0
7 TraesCS3A01G282000 chr2A 93.946 479 26 3 78 555 769608966 769608490 0.000000e+00 721.0
8 TraesCS3A01G282000 chr2A 90.143 558 46 8 2 555 652569553 652570105 0.000000e+00 717.0
9 TraesCS3A01G282000 chr4B 88.909 559 55 7 1 555 69425177 69425732 0.000000e+00 682.0
10 TraesCS3A01G282000 chr2D 87.701 561 65 4 1 559 626506785 626507343 0.000000e+00 651.0
11 TraesCS3A01G282000 chr7A 87.567 563 61 7 2 555 711406803 711406241 0.000000e+00 643.0
12 TraesCS3A01G282000 chr1B 86.727 550 65 8 10 555 152849418 152849963 2.570000e-169 604.0


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 TraesCS3A01G282000 chr3A 510687468 510689809 2341 False 4325 4325 100.000 1 2342 1 chr3A.!!$F1 2341
1 TraesCS3A01G282000 chr3D 390073134 390074810 1676 False 2457 2457 93.286 676 2337 1 chr3D.!!$F1 1661
2 TraesCS3A01G282000 chr3B 507298635 507300296 1661 False 2078 2078 89.545 692 2342 1 chr3B.!!$F1 1650
3 TraesCS3A01G282000 chr5A 463760250 463760806 556 True 809 809 93.011 1 553 1 chr5A.!!$R1 552
4 TraesCS3A01G282000 chr5A 591644343 591644895 552 False 634 634 87.455 2 555 1 chr5A.!!$F1 553
5 TraesCS3A01G282000 chr5A 465299182 465299747 565 True 621 621 86.690 2 563 1 chr5A.!!$R2 561
6 TraesCS3A01G282000 chr2A 652569553 652570105 552 False 717 717 90.143 2 555 1 chr2A.!!$F1 553
7 TraesCS3A01G282000 chr4B 69425177 69425732 555 False 682 682 88.909 1 555 1 chr4B.!!$F1 554
8 TraesCS3A01G282000 chr2D 626506785 626507343 558 False 651 651 87.701 1 559 1 chr2D.!!$F1 558
9 TraesCS3A01G282000 chr7A 711406241 711406803 562 True 643 643 87.567 2 555 1 chr7A.!!$R1 553
10 TraesCS3A01G282000 chr1B 152849418 152849963 545 False 604 604 86.727 10 555 1 chr1B.!!$F1 545

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
779 799 1.006805 CTCGTCCGAGCCCATCATC 60.007 63.158 3.49 0.0 35.31 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2138 2198 1.334556 TCAACTGCATGTGTCTTGTGC 59.665 47.619 0.0 0.0 39.26 4.57 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
57 58 1.140589 CTGCGTCAGAAGCCTCGAT 59.859 57.895 5.83 0.00 32.44 3.59
62 63 1.134965 CGTCAGAAGCCTCGATTCCTT 60.135 52.381 0.00 0.00 0.00 3.36
97 98 3.846405 AACTGCCCGGAGTCCAGGA 62.846 63.158 16.25 2.78 0.00 3.86
149 150 3.842923 CTCCGCGCTCTCCCATGT 61.843 66.667 5.56 0.00 0.00 3.21
638 650 9.705290 TTTACTATTTATAAGAGATGCGCATGA 57.295 29.630 30.76 7.82 0.00 3.07
639 651 9.705290 TTACTATTTATAAGAGATGCGCATGAA 57.295 29.630 30.76 6.05 0.00 2.57
640 652 8.607441 ACTATTTATAAGAGATGCGCATGAAA 57.393 30.769 30.76 15.05 0.00 2.69
641 653 8.499162 ACTATTTATAAGAGATGCGCATGAAAC 58.501 33.333 30.76 13.60 0.00 2.78
642 654 6.925610 TTTATAAGAGATGCGCATGAAACT 57.074 33.333 30.76 18.77 0.00 2.66
643 655 8.607441 ATTTATAAGAGATGCGCATGAAACTA 57.393 30.769 30.76 12.50 0.00 2.24
644 656 8.607441 TTTATAAGAGATGCGCATGAAACTAT 57.393 30.769 30.76 18.21 0.00 2.12
645 657 4.808077 AAGAGATGCGCATGAAACTATG 57.192 40.909 30.76 0.00 0.00 2.23
646 658 3.801698 AGAGATGCGCATGAAACTATGT 58.198 40.909 30.76 0.00 0.00 2.29
647 659 4.194640 AGAGATGCGCATGAAACTATGTT 58.805 39.130 30.76 0.00 0.00 2.71
648 660 4.272018 AGAGATGCGCATGAAACTATGTTC 59.728 41.667 30.76 9.57 0.00 3.18
649 661 3.940852 AGATGCGCATGAAACTATGTTCA 59.059 39.130 30.76 0.00 41.59 3.18
650 662 4.577693 AGATGCGCATGAAACTATGTTCAT 59.422 37.500 30.76 0.00 46.77 2.57
651 663 4.277257 TGCGCATGAAACTATGTTCATC 57.723 40.909 5.66 0.00 44.58 2.92
652 664 3.688673 TGCGCATGAAACTATGTTCATCA 59.311 39.130 5.66 0.00 44.58 3.07
653 665 4.155644 TGCGCATGAAACTATGTTCATCAA 59.844 37.500 5.66 0.00 44.58 2.57
654 666 5.094812 GCGCATGAAACTATGTTCATCAAA 58.905 37.500 0.30 0.00 44.58 2.69
655 667 5.745294 GCGCATGAAACTATGTTCATCAAAT 59.255 36.000 0.30 0.00 44.58 2.32
656 668 6.254157 GCGCATGAAACTATGTTCATCAAATT 59.746 34.615 0.30 0.00 44.58 1.82
657 669 7.514125 GCGCATGAAACTATGTTCATCAAATTC 60.514 37.037 0.30 0.00 44.58 2.17
658 670 7.305019 CGCATGAAACTATGTTCATCAAATTCG 60.305 37.037 0.00 0.00 44.58 3.34
659 671 7.514125 GCATGAAACTATGTTCATCAAATTCGC 60.514 37.037 0.00 0.00 44.58 4.70
660 672 6.020984 TGAAACTATGTTCATCAAATTCGCG 58.979 36.000 0.00 0.00 32.56 5.87
661 673 5.545658 AACTATGTTCATCAAATTCGCGT 57.454 34.783 5.77 0.00 0.00 6.01
662 674 5.143916 ACTATGTTCATCAAATTCGCGTC 57.856 39.130 5.77 0.00 0.00 5.19
663 675 2.892373 TGTTCATCAAATTCGCGTCC 57.108 45.000 5.77 0.00 0.00 4.79
664 676 2.147150 TGTTCATCAAATTCGCGTCCA 58.853 42.857 5.77 0.00 0.00 4.02
665 677 2.746904 TGTTCATCAAATTCGCGTCCAT 59.253 40.909 5.77 0.00 0.00 3.41
666 678 3.190327 TGTTCATCAAATTCGCGTCCATT 59.810 39.130 5.77 0.13 0.00 3.16
667 679 4.165779 GTTCATCAAATTCGCGTCCATTT 58.834 39.130 5.77 6.92 0.00 2.32
668 680 4.014847 TCATCAAATTCGCGTCCATTTC 57.985 40.909 5.77 0.00 0.00 2.17
669 681 3.689161 TCATCAAATTCGCGTCCATTTCT 59.311 39.130 5.77 0.00 0.00 2.52
670 682 3.740044 TCAAATTCGCGTCCATTTCTC 57.260 42.857 5.77 0.00 0.00 2.87
671 683 2.093625 TCAAATTCGCGTCCATTTCTCG 59.906 45.455 5.77 0.00 0.00 4.04
672 684 2.004583 AATTCGCGTCCATTTCTCGA 57.995 45.000 5.77 0.00 0.00 4.04
673 685 2.004583 ATTCGCGTCCATTTCTCGAA 57.995 45.000 5.77 0.00 42.21 3.71
674 686 2.004583 TTCGCGTCCATTTCTCGAAT 57.995 45.000 5.77 0.00 34.75 3.34
684 696 6.924060 CGTCCATTTCTCGAATCCTACTAAAT 59.076 38.462 0.00 0.00 0.00 1.40
719 732 5.918011 TGTCATTCGCCATAAAGACAAAAAC 59.082 36.000 0.00 0.00 33.55 2.43
720 733 6.149633 GTCATTCGCCATAAAGACAAAAACT 58.850 36.000 0.00 0.00 0.00 2.66
742 755 1.153066 TGTGGTCGGCAGCTGAAAA 60.153 52.632 20.43 0.00 0.00 2.29
779 799 1.006805 CTCGTCCGAGCCCATCATC 60.007 63.158 3.49 0.00 35.31 2.92
830 850 4.884668 AAGGTAGACTTTTCGGTCATCA 57.115 40.909 0.00 0.00 35.35 3.07
831 851 4.189639 AGGTAGACTTTTCGGTCATCAC 57.810 45.455 0.00 0.00 38.57 3.06
909 932 1.144708 TCCAAACTTCAGACATGGCCA 59.855 47.619 8.56 8.56 0.00 5.36
937 960 1.298667 CCCCAAAATCCCGTCGTCT 59.701 57.895 0.00 0.00 0.00 4.18
1059 1082 1.371558 GTTCCACTCCAGCGTCCTT 59.628 57.895 0.00 0.00 0.00 3.36
1122 1145 1.590932 CGCCCAGGAATCAAGATCAG 58.409 55.000 0.00 0.00 0.00 2.90
1142 1165 1.813753 ATCCCAAATGCGTCGACGG 60.814 57.895 36.13 20.36 40.23 4.79
1284 1310 2.815211 CCCGTCAGCGATGGTGTG 60.815 66.667 0.00 0.00 41.33 3.82
1332 1358 2.180017 CATGCCGTTGCTTGCTCC 59.820 61.111 0.00 0.00 36.07 4.70
1489 1515 1.143969 GCTGCGCATTTCAATCTGCC 61.144 55.000 12.24 0.00 34.89 4.85
1493 1519 2.273557 GCGCATTTCAATCTGCCAATT 58.726 42.857 0.30 0.00 34.89 2.32
1498 1547 4.804139 GCATTTCAATCTGCCAATTGAGAG 59.196 41.667 7.12 2.12 44.23 3.20
1500 1549 5.633830 TTTCAATCTGCCAATTGAGAGTC 57.366 39.130 7.12 0.00 44.23 3.36
1517 1566 2.227388 GAGTCTGCACAATTCCACTTGG 59.773 50.000 0.00 0.00 0.00 3.61
1525 1574 4.202151 GCACAATTCCACTTGGAGTTTCTT 60.202 41.667 3.36 0.00 46.36 2.52
1529 1578 5.941948 ATTCCACTTGGAGTTTCTTTACG 57.058 39.130 0.00 0.00 46.36 3.18
1533 1582 5.065474 TCCACTTGGAGTTTCTTTACGTTTG 59.935 40.000 0.00 0.00 39.78 2.93
1543 1592 1.328069 CTTTACGTTTGCACACACCGA 59.672 47.619 3.55 0.00 0.00 4.69
1558 1607 2.261671 CGACGAGGTTGTGGGAGG 59.738 66.667 0.00 0.00 0.00 4.30
1607 1656 6.088824 CACTTGTTTTACATCTGGAATCTGC 58.911 40.000 0.00 0.00 0.00 4.26
1664 1713 6.478344 CCAGCTCTAGAACATGATTTACAGAC 59.522 42.308 0.00 0.00 0.00 3.51
1666 1715 7.710044 CAGCTCTAGAACATGATTTACAGACAT 59.290 37.037 0.00 0.00 0.00 3.06
1729 1779 5.371526 TGCAGCTCTCCTCAAATAATTAGG 58.628 41.667 0.00 0.00 0.00 2.69
1838 1888 3.565307 TGCCTCTGGAAGTTTGAATGTT 58.435 40.909 0.00 0.00 33.76 2.71
1925 1975 2.630098 CACTCTCTCCTTTGTGTCCTCA 59.370 50.000 0.00 0.00 0.00 3.86
2005 2065 5.286082 CCAAATGATCCGACGAATTGAAAAC 59.714 40.000 0.00 0.00 0.00 2.43
2103 2163 2.203056 TTGGCTCATCCGCATCCG 60.203 61.111 0.00 0.00 37.80 4.18
2118 2178 1.600957 CATCCGCACCTTATTCTGCAG 59.399 52.381 7.63 7.63 32.57 4.41
2134 2194 0.108138 GCAGGACATTACGCAGAGGT 60.108 55.000 0.00 0.00 0.00 3.85
2138 2198 2.093973 AGGACATTACGCAGAGGTTCAG 60.094 50.000 0.00 0.00 0.00 3.02
2139 2199 1.661112 GACATTACGCAGAGGTTCAGC 59.339 52.381 0.00 0.00 0.00 4.26
2207 2273 7.993183 TGATCCTCCTAAACTGGATTTTCATAC 59.007 37.037 0.00 0.00 40.33 2.39
2209 2275 5.007724 CCTCCTAAACTGGATTTTCATACGC 59.992 44.000 0.00 0.00 35.30 4.42
2211 2277 6.119536 TCCTAAACTGGATTTTCATACGCAT 58.880 36.000 0.00 0.00 0.00 4.73
2232 2298 8.668353 ACGCATATATAAAGAAAGCCATGTATG 58.332 33.333 0.00 0.00 0.00 2.39
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 1.152830 GAACAGGTGGCCCAAGGAA 59.847 57.895 0.00 0.00 0.00 3.36
62 63 2.081787 TTCCAGAACAGGTGGCCCA 61.082 57.895 0.00 0.00 34.77 5.36
97 98 1.657487 CGATCGCGCTCCATACGTT 60.657 57.895 5.56 0.00 0.00 3.99
454 464 1.179152 TCCGAGGATCAAGTGCGTAA 58.821 50.000 0.00 0.00 33.17 3.18
612 624 9.705290 TCATGCGCATCTCTTATAAATAGTAAA 57.295 29.630 22.51 0.00 0.00 2.01
613 625 9.705290 TTCATGCGCATCTCTTATAAATAGTAA 57.295 29.630 22.51 0.00 0.00 2.24
614 626 9.705290 TTTCATGCGCATCTCTTATAAATAGTA 57.295 29.630 22.51 0.00 0.00 1.82
615 627 8.499162 GTTTCATGCGCATCTCTTATAAATAGT 58.501 33.333 22.51 0.00 0.00 2.12
616 628 8.715998 AGTTTCATGCGCATCTCTTATAAATAG 58.284 33.333 22.51 4.42 0.00 1.73
617 629 8.607441 AGTTTCATGCGCATCTCTTATAAATA 57.393 30.769 22.51 0.00 0.00 1.40
618 630 7.502120 AGTTTCATGCGCATCTCTTATAAAT 57.498 32.000 22.51 3.58 0.00 1.40
619 631 6.925610 AGTTTCATGCGCATCTCTTATAAA 57.074 33.333 22.51 9.36 0.00 1.40
620 632 7.657354 ACATAGTTTCATGCGCATCTCTTATAA 59.343 33.333 22.51 2.52 0.00 0.98
621 633 7.154656 ACATAGTTTCATGCGCATCTCTTATA 58.845 34.615 22.51 9.85 0.00 0.98
622 634 5.994054 ACATAGTTTCATGCGCATCTCTTAT 59.006 36.000 22.51 11.84 0.00 1.73
623 635 5.359756 ACATAGTTTCATGCGCATCTCTTA 58.640 37.500 22.51 10.01 0.00 2.10
624 636 4.194640 ACATAGTTTCATGCGCATCTCTT 58.805 39.130 22.51 8.00 0.00 2.85
625 637 3.801698 ACATAGTTTCATGCGCATCTCT 58.198 40.909 22.51 17.29 0.00 3.10
626 638 4.034394 TGAACATAGTTTCATGCGCATCTC 59.966 41.667 22.51 10.92 30.29 2.75
627 639 3.940852 TGAACATAGTTTCATGCGCATCT 59.059 39.130 22.51 16.98 30.29 2.90
628 640 4.277257 TGAACATAGTTTCATGCGCATC 57.723 40.909 22.51 9.54 30.29 3.91
629 641 4.336153 TGATGAACATAGTTTCATGCGCAT 59.664 37.500 19.28 19.28 44.59 4.73
630 642 3.688673 TGATGAACATAGTTTCATGCGCA 59.311 39.130 14.96 14.96 44.59 6.09
631 643 4.277257 TGATGAACATAGTTTCATGCGC 57.723 40.909 0.00 0.00 44.59 6.09
632 644 7.305019 CGAATTTGATGAACATAGTTTCATGCG 60.305 37.037 3.13 0.00 44.59 4.73
633 645 7.514125 GCGAATTTGATGAACATAGTTTCATGC 60.514 37.037 3.13 0.00 44.59 4.06
634 646 7.305019 CGCGAATTTGATGAACATAGTTTCATG 60.305 37.037 0.00 0.00 44.59 3.07
635 647 6.688385 CGCGAATTTGATGAACATAGTTTCAT 59.312 34.615 0.00 0.00 46.73 2.57
636 648 6.020984 CGCGAATTTGATGAACATAGTTTCA 58.979 36.000 0.00 0.00 39.79 2.69
637 649 6.021596 ACGCGAATTTGATGAACATAGTTTC 58.978 36.000 15.93 0.00 0.00 2.78
638 650 5.938322 ACGCGAATTTGATGAACATAGTTT 58.062 33.333 15.93 0.00 0.00 2.66
639 651 5.447279 GGACGCGAATTTGATGAACATAGTT 60.447 40.000 15.93 0.00 0.00 2.24
640 652 4.034048 GGACGCGAATTTGATGAACATAGT 59.966 41.667 15.93 0.00 0.00 2.12
641 653 4.033932 TGGACGCGAATTTGATGAACATAG 59.966 41.667 15.93 0.00 0.00 2.23
642 654 3.935828 TGGACGCGAATTTGATGAACATA 59.064 39.130 15.93 0.00 0.00 2.29
643 655 2.746904 TGGACGCGAATTTGATGAACAT 59.253 40.909 15.93 0.00 0.00 2.71
644 656 2.147150 TGGACGCGAATTTGATGAACA 58.853 42.857 15.93 0.00 0.00 3.18
645 657 2.892373 TGGACGCGAATTTGATGAAC 57.108 45.000 15.93 0.00 0.00 3.18
646 658 4.155826 AGAAATGGACGCGAATTTGATGAA 59.844 37.500 15.93 0.00 0.00 2.57
647 659 3.689161 AGAAATGGACGCGAATTTGATGA 59.311 39.130 15.93 0.00 0.00 2.92
648 660 4.019919 AGAAATGGACGCGAATTTGATG 57.980 40.909 15.93 0.00 0.00 3.07
649 661 3.242413 CGAGAAATGGACGCGAATTTGAT 60.242 43.478 15.93 6.87 32.88 2.57
650 662 2.093625 CGAGAAATGGACGCGAATTTGA 59.906 45.455 15.93 0.00 32.88 2.69
651 663 2.093625 TCGAGAAATGGACGCGAATTTG 59.906 45.455 15.93 4.86 36.75 2.32
652 664 2.343101 TCGAGAAATGGACGCGAATTT 58.657 42.857 15.93 15.56 36.75 1.82
653 665 2.004583 TCGAGAAATGGACGCGAATT 57.995 45.000 15.93 6.88 36.75 2.17
654 666 2.004583 TTCGAGAAATGGACGCGAAT 57.995 45.000 15.93 0.00 42.32 3.34
655 667 3.500455 TTCGAGAAATGGACGCGAA 57.500 47.368 15.93 0.00 44.11 4.70
656 668 1.556564 GATTCGAGAAATGGACGCGA 58.443 50.000 15.93 0.00 37.73 5.87
657 669 0.577269 GGATTCGAGAAATGGACGCG 59.423 55.000 3.53 3.53 0.00 6.01
658 670 1.941325 AGGATTCGAGAAATGGACGC 58.059 50.000 0.00 0.00 0.00 5.19
659 671 4.308899 AGTAGGATTCGAGAAATGGACG 57.691 45.455 0.00 0.00 0.00 4.79
660 672 9.930693 ATATTTAGTAGGATTCGAGAAATGGAC 57.069 33.333 0.00 0.00 0.00 4.02
707 719 5.524646 CGACCACACCTAGTTTTTGTCTTTA 59.475 40.000 0.00 0.00 0.00 1.85
719 732 2.125512 GCTGCCGACCACACCTAG 60.126 66.667 0.00 0.00 0.00 3.02
720 733 2.603473 AGCTGCCGACCACACCTA 60.603 61.111 0.00 0.00 0.00 3.08
779 799 3.752339 GCTTGCTTTCCGCTGGGG 61.752 66.667 4.03 4.03 40.11 4.96
829 849 0.668706 CTCGGTGCTTCTGGTCAGTG 60.669 60.000 0.00 0.00 0.00 3.66
830 850 1.668294 CTCGGTGCTTCTGGTCAGT 59.332 57.895 0.00 0.00 0.00 3.41
831 851 1.739562 GCTCGGTGCTTCTGGTCAG 60.740 63.158 0.00 0.00 38.95 3.51
873 896 0.118346 TGGAGTGGGGGAGAGCTTTA 59.882 55.000 0.00 0.00 0.00 1.85
909 932 1.419762 GGATTTTGGGGCTTGGTGTTT 59.580 47.619 0.00 0.00 0.00 2.83
937 960 0.610785 GGGGCGAAGTGGAATTTGGA 60.611 55.000 0.00 0.00 0.00 3.53
1122 1145 1.062525 GTCGACGCATTTGGGATGC 59.937 57.895 0.00 1.04 41.35 3.91
1191 1214 0.457443 ATGTCTCGATGCGCTCTTGA 59.543 50.000 9.73 4.59 0.00 3.02
1332 1358 1.144936 GGAGGGCCTTCATCTGACG 59.855 63.158 17.76 0.00 0.00 4.35
1489 1515 4.216902 TGGAATTGTGCAGACTCTCAATTG 59.783 41.667 13.54 0.00 39.08 2.32
1493 1519 2.369860 AGTGGAATTGTGCAGACTCTCA 59.630 45.455 0.00 0.00 0.00 3.27
1498 1547 2.227388 CTCCAAGTGGAATTGTGCAGAC 59.773 50.000 0.89 0.00 44.91 3.51
1500 1549 2.233271 ACTCCAAGTGGAATTGTGCAG 58.767 47.619 0.89 0.00 44.91 4.41
1517 1566 4.494410 GTGTGTGCAAACGTAAAGAAACTC 59.506 41.667 1.78 0.00 0.00 3.01
1525 1574 0.651551 GTCGGTGTGTGCAAACGTAA 59.348 50.000 1.78 0.00 0.00 3.18
1529 1578 1.275657 CTCGTCGGTGTGTGCAAAC 59.724 57.895 0.00 0.00 0.00 2.93
1543 1592 2.584391 GCTCCTCCCACAACCTCGT 61.584 63.158 0.00 0.00 0.00 4.18
1568 1617 4.749245 ACAAGTGTACAATAAGCAGTGC 57.251 40.909 7.13 7.13 0.00 4.40
1574 1623 9.825972 CCAGATGTAAAACAAGTGTACAATAAG 57.174 33.333 0.00 0.00 31.85 1.73
1575 1624 9.562408 TCCAGATGTAAAACAAGTGTACAATAA 57.438 29.630 0.00 0.00 31.85 1.40
1607 1656 5.871524 CGATCTGTAAATCACCCATAGGATG 59.128 44.000 0.00 0.00 36.73 3.51
1642 1691 8.333908 CAATGTCTGTAAATCATGTTCTAGAGC 58.666 37.037 0.00 0.00 0.00 4.09
1664 1713 2.596862 TCGATTCGACGTGTTAGCAATG 59.403 45.455 4.29 0.00 34.70 2.82
1666 1715 2.247637 CTCGATTCGACGTGTTAGCAA 58.752 47.619 4.29 0.00 34.70 3.91
1729 1779 5.924825 CGTTAGTTAACCCTCCATGTATAGC 59.075 44.000 0.88 0.00 32.69 2.97
1838 1888 3.640407 GGTGCAGACAGGCCTCCA 61.640 66.667 0.00 0.00 0.00 3.86
2005 2065 7.816945 CCAAAAGAATGGTAAAACTAGCATG 57.183 36.000 0.00 0.00 38.10 4.06
2020 2080 6.015434 GGTCACCAACAAGATACCAAAAGAAT 60.015 38.462 0.00 0.00 0.00 2.40
2103 2163 2.113860 TGTCCTGCAGAATAAGGTGC 57.886 50.000 17.39 0.00 40.29 5.01
2118 2178 2.271800 CTGAACCTCTGCGTAATGTCC 58.728 52.381 0.00 0.00 0.00 4.02
2134 2194 1.605232 CTGCATGTGTCTTGTGCTGAA 59.395 47.619 0.00 0.00 39.30 3.02
2138 2198 1.334556 TCAACTGCATGTGTCTTGTGC 59.665 47.619 0.00 0.00 39.26 4.57
2139 2199 3.909776 ATCAACTGCATGTGTCTTGTG 57.090 42.857 0.00 0.00 0.00 3.33
2207 2273 8.124823 CCATACATGGCTTTCTTTATATATGCG 58.875 37.037 0.00 0.00 41.75 4.73
2232 2298 7.824779 ACAAGTCTTGGTATAATTCTCTGTTCC 59.175 37.037 16.85 0.00 34.12 3.62


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

AutoCloner maintained by Alex Coulton.