Multiple sequence alignment - TraesCS1D01G364500

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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 TraesCS1D01G364500 chr1D 100.000 2532 0 0 1 2532 445366502 445369033 0.000000e+00 4676
1 TraesCS1D01G364500 chr1D 94.637 578 31 0 1 578 355828399 355827822 0.000000e+00 896
2 TraesCS1D01G364500 chr1D 93.643 582 31 5 1 578 446476488 446475909 0.000000e+00 865
3 TraesCS1D01G364500 chr6D 96.146 1894 48 6 664 2532 289729124 289731017 0.000000e+00 3070
4 TraesCS1D01G364500 chr5D 96.205 1871 48 7 665 2532 475824048 475822198 0.000000e+00 3040
5 TraesCS1D01G364500 chr5D 95.525 1676 46 5 860 2532 408256566 408254917 0.000000e+00 2652
6 TraesCS1D01G364500 chr4A 94.509 1894 71 15 666 2532 20269475 20271362 0.000000e+00 2891
7 TraesCS1D01G364500 chr7A 94.211 1883 69 17 665 2532 151352873 151354730 0.000000e+00 2837
8 TraesCS1D01G364500 chr5B 93.892 1899 60 16 666 2532 708965048 708966922 0.000000e+00 2813
9 TraesCS1D01G364500 chr7B 93.625 1898 65 20 667 2532 474542486 474544359 0.000000e+00 2784
10 TraesCS1D01G364500 chr7B 85.294 340 39 10 666 1000 186594989 186594656 8.670000e-90 340
11 TraesCS1D01G364500 chr6A 93.102 1899 72 20 666 2532 215015705 215013834 0.000000e+00 2726
12 TraesCS1D01G364500 chr6A 95.791 689 29 0 1843 2531 6331044 6331732 0.000000e+00 1112
13 TraesCS1D01G364500 chr6A 84.776 335 34 10 666 999 6329905 6330223 1.130000e-83 320
14 TraesCS1D01G364500 chr4B 93.895 1556 56 16 666 2206 442425163 442426694 0.000000e+00 2311
15 TraesCS1D01G364500 chr2B 91.957 1579 80 18 999 2532 676571124 676572700 0.000000e+00 2169
16 TraesCS1D01G364500 chr2B 87.798 336 24 4 666 1000 676570762 676571081 6.610000e-101 377
17 TraesCS1D01G364500 chr3D 91.947 1577 79 20 1001 2530 14412483 14410908 0.000000e+00 2165
18 TraesCS1D01G364500 chr3D 93.740 607 32 4 1 603 114880411 114881015 0.000000e+00 905
19 TraesCS1D01G364500 chr3D 89.911 337 18 4 666 1000 14412850 14412528 1.080000e-113 420
20 TraesCS1D01G364500 chr2A 97.012 1004 23 3 666 1666 70033415 70034414 0.000000e+00 1681
21 TraesCS1D01G364500 chr2A 93.182 836 29 8 1698 2532 70036264 70037072 0.000000e+00 1203
22 TraesCS1D01G364500 chr3B 95.501 689 31 0 1843 2531 60507678 60506990 0.000000e+00 1101
23 TraesCS1D01G364500 chr1A 96.339 601 20 2 1 601 541344135 541343537 0.000000e+00 987
24 TraesCS1D01G364500 chr1A 95.588 612 25 2 1 612 541460473 541461082 0.000000e+00 979
25 TraesCS1D01G364500 chr1B 96.707 577 19 0 1 577 610893575 610892999 0.000000e+00 961
26 TraesCS1D01G364500 chr1B 95.525 581 22 1 1 577 608042443 608043023 0.000000e+00 926
27 TraesCS1D01G364500 chr1B 95.181 581 24 1 1 577 608335314 608335894 0.000000e+00 915
28 TraesCS1D01G364500 chr1B 91.089 101 9 0 900 1000 529514808 529514708 1.220000e-28 137
29 TraesCS1D01G364500 chr3A 94.050 605 31 2 3 603 111103815 111104418 0.000000e+00 913
30 TraesCS1D01G364500 chr3A 85.075 335 33 10 666 999 71802415 71802097 2.430000e-85 326


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 TraesCS1D01G364500 chr1D 445366502 445369033 2531 False 4676.0 4676 100.0000 1 2532 1 chr1D.!!$F1 2531
1 TraesCS1D01G364500 chr1D 355827822 355828399 577 True 896.0 896 94.6370 1 578 1 chr1D.!!$R1 577
2 TraesCS1D01G364500 chr1D 446475909 446476488 579 True 865.0 865 93.6430 1 578 1 chr1D.!!$R2 577
3 TraesCS1D01G364500 chr6D 289729124 289731017 1893 False 3070.0 3070 96.1460 664 2532 1 chr6D.!!$F1 1868
4 TraesCS1D01G364500 chr5D 475822198 475824048 1850 True 3040.0 3040 96.2050 665 2532 1 chr5D.!!$R2 1867
5 TraesCS1D01G364500 chr5D 408254917 408256566 1649 True 2652.0 2652 95.5250 860 2532 1 chr5D.!!$R1 1672
6 TraesCS1D01G364500 chr4A 20269475 20271362 1887 False 2891.0 2891 94.5090 666 2532 1 chr4A.!!$F1 1866
7 TraesCS1D01G364500 chr7A 151352873 151354730 1857 False 2837.0 2837 94.2110 665 2532 1 chr7A.!!$F1 1867
8 TraesCS1D01G364500 chr5B 708965048 708966922 1874 False 2813.0 2813 93.8920 666 2532 1 chr5B.!!$F1 1866
9 TraesCS1D01G364500 chr7B 474542486 474544359 1873 False 2784.0 2784 93.6250 667 2532 1 chr7B.!!$F1 1865
10 TraesCS1D01G364500 chr6A 215013834 215015705 1871 True 2726.0 2726 93.1020 666 2532 1 chr6A.!!$R1 1866
11 TraesCS1D01G364500 chr6A 6329905 6331732 1827 False 716.0 1112 90.2835 666 2531 2 chr6A.!!$F1 1865
12 TraesCS1D01G364500 chr4B 442425163 442426694 1531 False 2311.0 2311 93.8950 666 2206 1 chr4B.!!$F1 1540
13 TraesCS1D01G364500 chr2B 676570762 676572700 1938 False 1273.0 2169 89.8775 666 2532 2 chr2B.!!$F1 1866
14 TraesCS1D01G364500 chr3D 14410908 14412850 1942 True 1292.5 2165 90.9290 666 2530 2 chr3D.!!$R1 1864
15 TraesCS1D01G364500 chr3D 114880411 114881015 604 False 905.0 905 93.7400 1 603 1 chr3D.!!$F1 602
16 TraesCS1D01G364500 chr2A 70033415 70037072 3657 False 1442.0 1681 95.0970 666 2532 2 chr2A.!!$F1 1866
17 TraesCS1D01G364500 chr3B 60506990 60507678 688 True 1101.0 1101 95.5010 1843 2531 1 chr3B.!!$R1 688
18 TraesCS1D01G364500 chr1A 541343537 541344135 598 True 987.0 987 96.3390 1 601 1 chr1A.!!$R1 600
19 TraesCS1D01G364500 chr1A 541460473 541461082 609 False 979.0 979 95.5880 1 612 1 chr1A.!!$F1 611
20 TraesCS1D01G364500 chr1B 610892999 610893575 576 True 961.0 961 96.7070 1 577 1 chr1B.!!$R2 576
21 TraesCS1D01G364500 chr1B 608042443 608043023 580 False 926.0 926 95.5250 1 577 1 chr1B.!!$F1 576
22 TraesCS1D01G364500 chr1B 608335314 608335894 580 False 915.0 915 95.1810 1 577 1 chr1B.!!$F2 576
23 TraesCS1D01G364500 chr3A 111103815 111104418 603 False 913.0 913 94.0500 3 603 1 chr3A.!!$F1 600

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
641 654 0.038159 GTTCTCGAGTGGACCAGTGG 60.038 60.0 13.13 7.91 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2299 4313 5.230726 CGAAATATTGCATGAAAAGAGGTGC 59.769 40.0 0.0 0.0 0.0 5.01 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
64 65 1.226888 GTAGACGACGTCCATGGCC 60.227 63.158 23.76 0.00 32.18 5.36
351 359 1.595382 GAGCGGATGTGGAATCGGG 60.595 63.158 0.00 0.00 0.00 5.14
534 547 1.971695 GAAAGCTTGGACCGGTGGG 60.972 63.158 14.63 0.00 40.11 4.61
608 621 3.666253 CGGGCCGGGTGTTTGTTC 61.666 66.667 20.56 0.00 0.00 3.18
609 622 2.519780 GGGCCGGGTGTTTGTTCA 60.520 61.111 2.18 0.00 0.00 3.18
610 623 2.561037 GGGCCGGGTGTTTGTTCAG 61.561 63.158 2.18 0.00 0.00 3.02
611 624 1.527380 GGCCGGGTGTTTGTTCAGA 60.527 57.895 2.18 0.00 0.00 3.27
612 625 1.104577 GGCCGGGTGTTTGTTCAGAA 61.105 55.000 2.18 0.00 0.00 3.02
613 626 0.741915 GCCGGGTGTTTGTTCAGAAA 59.258 50.000 2.18 0.00 0.00 2.52
614 627 1.339929 GCCGGGTGTTTGTTCAGAAAT 59.660 47.619 2.18 0.00 0.00 2.17
615 628 2.554893 GCCGGGTGTTTGTTCAGAAATA 59.445 45.455 2.18 0.00 0.00 1.40
616 629 3.192633 GCCGGGTGTTTGTTCAGAAATAT 59.807 43.478 2.18 0.00 0.00 1.28
617 630 4.732784 CCGGGTGTTTGTTCAGAAATATG 58.267 43.478 0.00 0.00 0.00 1.78
618 631 4.217550 CCGGGTGTTTGTTCAGAAATATGT 59.782 41.667 0.00 0.00 0.00 2.29
619 632 5.390613 CGGGTGTTTGTTCAGAAATATGTC 58.609 41.667 0.00 0.00 0.00 3.06
620 633 5.390613 GGGTGTTTGTTCAGAAATATGTCG 58.609 41.667 0.00 0.00 0.00 4.35
621 634 4.851558 GGTGTTTGTTCAGAAATATGTCGC 59.148 41.667 0.00 0.00 0.00 5.19
622 635 4.549599 GTGTTTGTTCAGAAATATGTCGCG 59.450 41.667 0.00 0.00 0.00 5.87
623 636 4.212425 TGTTTGTTCAGAAATATGTCGCGT 59.788 37.500 5.77 0.00 0.00 6.01
624 637 5.144359 GTTTGTTCAGAAATATGTCGCGTT 58.856 37.500 5.77 0.00 0.00 4.84
625 638 4.577687 TGTTCAGAAATATGTCGCGTTC 57.422 40.909 5.77 0.67 0.00 3.95
626 639 4.242475 TGTTCAGAAATATGTCGCGTTCT 58.758 39.130 5.77 3.47 0.00 3.01
627 640 4.326278 TGTTCAGAAATATGTCGCGTTCTC 59.674 41.667 5.77 0.00 0.00 2.87
628 641 3.105937 TCAGAAATATGTCGCGTTCTCG 58.894 45.455 5.77 2.52 40.37 4.04
629 642 3.105937 CAGAAATATGTCGCGTTCTCGA 58.894 45.455 5.77 0.00 39.71 4.04
630 643 3.178618 CAGAAATATGTCGCGTTCTCGAG 59.821 47.826 5.93 5.93 39.34 4.04
631 644 2.846039 AATATGTCGCGTTCTCGAGT 57.154 45.000 13.13 0.00 39.34 4.18
632 645 2.106750 ATATGTCGCGTTCTCGAGTG 57.893 50.000 13.13 5.05 39.34 3.51
633 646 0.098200 TATGTCGCGTTCTCGAGTGG 59.902 55.000 13.13 4.11 39.34 4.00
634 647 1.583495 ATGTCGCGTTCTCGAGTGGA 61.583 55.000 13.13 1.21 39.34 4.02
635 648 1.796749 GTCGCGTTCTCGAGTGGAC 60.797 63.158 13.13 9.03 39.34 4.02
636 649 2.504244 CGCGTTCTCGAGTGGACC 60.504 66.667 13.13 4.17 39.71 4.46
637 650 2.649034 GCGTTCTCGAGTGGACCA 59.351 61.111 13.13 0.00 39.71 4.02
638 651 1.444553 GCGTTCTCGAGTGGACCAG 60.445 63.158 13.13 0.00 39.71 4.00
639 652 1.957562 CGTTCTCGAGTGGACCAGT 59.042 57.895 13.13 0.00 39.71 4.00
640 653 0.387367 CGTTCTCGAGTGGACCAGTG 60.387 60.000 13.13 0.00 39.71 3.66
641 654 0.038159 GTTCTCGAGTGGACCAGTGG 60.038 60.000 13.13 7.91 0.00 4.00
642 655 0.178973 TTCTCGAGTGGACCAGTGGA 60.179 55.000 18.40 10.31 0.00 4.02
643 656 0.039764 TCTCGAGTGGACCAGTGGAT 59.960 55.000 18.40 0.00 0.00 3.41
644 657 0.898320 CTCGAGTGGACCAGTGGATT 59.102 55.000 18.40 0.00 0.00 3.01
645 658 0.608130 TCGAGTGGACCAGTGGATTG 59.392 55.000 18.40 0.35 0.00 2.67
646 659 1.021390 CGAGTGGACCAGTGGATTGC 61.021 60.000 18.40 0.00 0.00 3.56
647 660 0.678048 GAGTGGACCAGTGGATTGCC 60.678 60.000 18.40 11.76 0.00 4.52
648 661 1.136329 AGTGGACCAGTGGATTGCCT 61.136 55.000 18.40 1.67 34.31 4.75
649 662 0.251341 GTGGACCAGTGGATTGCCTT 60.251 55.000 18.40 0.00 34.31 4.35
650 663 0.038166 TGGACCAGTGGATTGCCTTC 59.962 55.000 18.40 0.00 34.31 3.46
651 664 0.038166 GGACCAGTGGATTGCCTTCA 59.962 55.000 18.40 0.00 34.31 3.02
652 665 1.457346 GACCAGTGGATTGCCTTCAG 58.543 55.000 18.40 0.00 34.31 3.02
653 666 0.773644 ACCAGTGGATTGCCTTCAGT 59.226 50.000 18.40 0.00 34.31 3.41
654 667 1.271597 ACCAGTGGATTGCCTTCAGTC 60.272 52.381 18.40 0.00 34.31 3.51
655 668 1.271543 CCAGTGGATTGCCTTCAGTCA 60.272 52.381 1.68 0.00 31.33 3.41
656 669 2.619849 CCAGTGGATTGCCTTCAGTCAT 60.620 50.000 1.68 0.00 31.33 3.06
657 670 3.087031 CAGTGGATTGCCTTCAGTCATT 58.913 45.455 0.00 0.00 31.33 2.57
658 671 3.128242 CAGTGGATTGCCTTCAGTCATTC 59.872 47.826 0.00 0.00 31.33 2.67
659 672 3.009916 AGTGGATTGCCTTCAGTCATTCT 59.990 43.478 0.00 0.00 31.33 2.40
660 673 3.760684 GTGGATTGCCTTCAGTCATTCTT 59.239 43.478 0.00 0.00 31.33 2.52
661 674 4.012374 TGGATTGCCTTCAGTCATTCTTC 58.988 43.478 0.00 0.00 31.33 2.87
662 675 4.012374 GGATTGCCTTCAGTCATTCTTCA 58.988 43.478 0.00 0.00 31.33 3.02
678 691 9.612620 GTCATTCTTCAACGAGAAAATTACATT 57.387 29.630 0.00 0.00 38.98 2.71
788 801 4.829492 GGTCACTATACGGTAACCCATACT 59.171 45.833 0.00 0.00 34.74 2.12
833 851 3.657625 CGTGGACGAATTTGACGAAAAAG 59.342 43.478 0.00 0.00 43.02 2.27
925 943 0.687757 CCTCTCGTTCCCCTCATCCA 60.688 60.000 0.00 0.00 0.00 3.41
1030 1136 3.161450 GTAGCTCATCGGGGGCCA 61.161 66.667 4.39 0.00 0.00 5.36
1031 1137 2.122413 TAGCTCATCGGGGGCCAT 60.122 61.111 4.39 0.00 0.00 4.40
1278 1407 1.592543 GAAACCTTGCAACTTTTGGCG 59.407 47.619 0.00 0.00 0.00 5.69
1349 1478 6.879400 AGAGGTGAATCTGTGGATAGTAAAC 58.121 40.000 0.00 0.00 0.00 2.01
1597 1776 7.446931 TGTGTTGTTTGATGTCAGTGGTAATAT 59.553 33.333 0.00 0.00 0.00 1.28
1838 3835 9.461312 TTGATAACACCATTTCTTTAGCATACT 57.539 29.630 0.00 0.00 0.00 2.12
2029 4038 1.250328 TGTGCTTATTTGCTGCAGCT 58.750 45.000 36.61 21.18 42.66 4.24
2299 4313 2.096496 CCTTTGTGCTAGGATTTCAGCG 59.904 50.000 0.00 0.00 40.79 5.18
2366 4380 4.646945 CCCTCATCACTTCAACTCTAGCTA 59.353 45.833 0.00 0.00 0.00 3.32
2393 4407 6.006449 AGATTTCCTAATCTTGTTGCAGTGT 58.994 36.000 0.00 0.00 46.53 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
447 460 1.592669 GTCCACTCCATCCGCATCG 60.593 63.158 0.00 0.00 0.00 3.84
592 605 2.519780 TGAACAAACACCCGGCCC 60.520 61.111 0.00 0.00 0.00 5.80
603 616 4.688879 AGAACGCGACATATTTCTGAACAA 59.311 37.500 15.93 0.00 0.00 2.83
604 617 4.242475 AGAACGCGACATATTTCTGAACA 58.758 39.130 15.93 0.00 0.00 3.18
605 618 4.546456 CGAGAACGCGACATATTTCTGAAC 60.546 45.833 15.93 0.00 0.00 3.18
606 619 3.546271 CGAGAACGCGACATATTTCTGAA 59.454 43.478 15.93 0.00 0.00 3.02
607 620 3.105937 CGAGAACGCGACATATTTCTGA 58.894 45.455 15.93 0.00 0.00 3.27
608 621 3.105937 TCGAGAACGCGACATATTTCTG 58.894 45.455 15.93 5.66 39.58 3.02
609 622 3.181499 ACTCGAGAACGCGACATATTTCT 60.181 43.478 21.68 10.53 39.58 2.52
610 623 3.061797 CACTCGAGAACGCGACATATTTC 60.062 47.826 21.68 4.69 39.58 2.17
611 624 2.852413 CACTCGAGAACGCGACATATTT 59.148 45.455 21.68 0.00 39.58 1.40
612 625 2.451132 CACTCGAGAACGCGACATATT 58.549 47.619 21.68 0.00 39.58 1.28
613 626 1.268589 CCACTCGAGAACGCGACATAT 60.269 52.381 21.68 0.00 39.58 1.78
614 627 0.098200 CCACTCGAGAACGCGACATA 59.902 55.000 21.68 0.00 39.58 2.29
615 628 1.154016 CCACTCGAGAACGCGACAT 60.154 57.895 21.68 0.00 39.58 3.06
616 629 2.254350 CCACTCGAGAACGCGACA 59.746 61.111 21.68 0.00 39.58 4.35
617 630 1.796749 GTCCACTCGAGAACGCGAC 60.797 63.158 21.68 12.07 39.58 5.19
618 631 2.559840 GTCCACTCGAGAACGCGA 59.440 61.111 21.68 3.58 39.58 5.87
619 632 2.504244 GGTCCACTCGAGAACGCG 60.504 66.667 21.68 3.53 39.58 6.01
620 633 1.444553 CTGGTCCACTCGAGAACGC 60.445 63.158 21.68 6.36 39.58 4.84
621 634 0.387367 CACTGGTCCACTCGAGAACG 60.387 60.000 21.68 6.86 41.26 3.95
622 635 0.038159 CCACTGGTCCACTCGAGAAC 60.038 60.000 21.68 13.50 0.00 3.01
623 636 0.178973 TCCACTGGTCCACTCGAGAA 60.179 55.000 21.68 0.64 0.00 2.87
624 637 0.039764 ATCCACTGGTCCACTCGAGA 59.960 55.000 21.68 0.00 0.00 4.04
625 638 0.898320 AATCCACTGGTCCACTCGAG 59.102 55.000 11.84 11.84 0.00 4.04
626 639 0.608130 CAATCCACTGGTCCACTCGA 59.392 55.000 0.00 0.00 0.00 4.04
627 640 1.021390 GCAATCCACTGGTCCACTCG 61.021 60.000 0.00 0.00 0.00 4.18
628 641 0.678048 GGCAATCCACTGGTCCACTC 60.678 60.000 0.00 0.00 0.00 3.51
629 642 1.136329 AGGCAATCCACTGGTCCACT 61.136 55.000 0.00 0.00 33.74 4.00
630 643 0.251341 AAGGCAATCCACTGGTCCAC 60.251 55.000 0.00 0.00 33.74 4.02
631 644 0.038166 GAAGGCAATCCACTGGTCCA 59.962 55.000 0.00 0.00 33.74 4.02
632 645 0.038166 TGAAGGCAATCCACTGGTCC 59.962 55.000 0.00 0.00 33.74 4.46
633 646 1.271597 ACTGAAGGCAATCCACTGGTC 60.272 52.381 0.00 0.00 33.74 4.02
634 647 0.773644 ACTGAAGGCAATCCACTGGT 59.226 50.000 0.00 0.00 33.74 4.00
635 648 1.271543 TGACTGAAGGCAATCCACTGG 60.272 52.381 0.00 0.00 33.74 4.00
636 649 2.189594 TGACTGAAGGCAATCCACTG 57.810 50.000 0.00 0.00 33.74 3.66
637 650 3.009916 AGAATGACTGAAGGCAATCCACT 59.990 43.478 0.00 0.00 33.74 4.00
638 651 3.350833 AGAATGACTGAAGGCAATCCAC 58.649 45.455 0.00 0.00 33.74 4.02
639 652 3.726557 AGAATGACTGAAGGCAATCCA 57.273 42.857 0.00 0.00 33.74 3.41
640 653 4.012374 TGAAGAATGACTGAAGGCAATCC 58.988 43.478 0.00 0.00 0.00 3.01
641 654 5.397326 GTTGAAGAATGACTGAAGGCAATC 58.603 41.667 0.00 0.00 0.00 2.67
642 655 4.083110 CGTTGAAGAATGACTGAAGGCAAT 60.083 41.667 0.00 0.00 0.00 3.56
643 656 3.250762 CGTTGAAGAATGACTGAAGGCAA 59.749 43.478 0.00 0.00 0.00 4.52
644 657 2.807967 CGTTGAAGAATGACTGAAGGCA 59.192 45.455 0.00 0.00 0.00 4.75
645 658 3.067106 TCGTTGAAGAATGACTGAAGGC 58.933 45.455 0.00 0.00 0.00 4.35
646 659 4.560128 TCTCGTTGAAGAATGACTGAAGG 58.440 43.478 0.00 0.00 0.00 3.46
647 660 6.530913 TTTCTCGTTGAAGAATGACTGAAG 57.469 37.500 0.00 0.00 35.30 3.02
648 661 6.918892 TTTTCTCGTTGAAGAATGACTGAA 57.081 33.333 0.00 0.00 35.30 3.02
649 662 7.496529 AATTTTCTCGTTGAAGAATGACTGA 57.503 32.000 0.00 0.00 35.30 3.41
650 663 8.282592 TGTAATTTTCTCGTTGAAGAATGACTG 58.717 33.333 0.00 0.00 35.30 3.51
651 664 8.378172 TGTAATTTTCTCGTTGAAGAATGACT 57.622 30.769 0.00 0.00 35.30 3.41
652 665 9.612620 AATGTAATTTTCTCGTTGAAGAATGAC 57.387 29.630 0.00 0.00 35.30 3.06
658 671 9.878599 ACTGTAAATGTAATTTTCTCGTTGAAG 57.121 29.630 0.00 0.00 46.10 3.02
678 691 7.039923 CCCTAGAGTCAAGTTCAGTTACTGTAA 60.040 40.741 12.41 3.03 32.61 2.41
788 801 1.074319 GCGTGATACGAGCCGAAACA 61.074 55.000 5.44 0.00 46.05 2.83
833 851 1.576421 CTGGCAAGTCCAAGCGTTC 59.424 57.895 0.00 0.00 46.01 3.95
925 943 1.209504 TGCGCTAGGGATTTAGCAGTT 59.790 47.619 11.61 0.00 44.98 3.16
1030 1136 0.831711 AAAGGAAGCCAACCCGCAAT 60.832 50.000 0.00 0.00 0.00 3.56
1031 1137 1.456705 AAAGGAAGCCAACCCGCAA 60.457 52.632 0.00 0.00 0.00 4.85
1486 1657 7.319646 ACACTAACACAAAGAGAATTGCAAAA 58.680 30.769 1.71 0.00 33.52 2.44
1597 1776 8.085296 CACAAATATTACTGGCACAAAGGTTTA 58.915 33.333 0.00 0.00 38.70 2.01
1837 3834 7.675062 AGGAGCTATGAATGACCAGTTTATAG 58.325 38.462 0.00 0.00 31.79 1.31
1838 3835 7.618019 AGGAGCTATGAATGACCAGTTTATA 57.382 36.000 0.00 0.00 0.00 0.98
1840 3837 5.957771 AGGAGCTATGAATGACCAGTTTA 57.042 39.130 0.00 0.00 0.00 2.01
2186 4196 6.533012 GCTCAAGAAAAAGAAGCTTTGAAAGT 59.467 34.615 6.81 0.00 0.00 2.66
2299 4313 5.230726 CGAAATATTGCATGAAAAGAGGTGC 59.769 40.000 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.