Multiple sequence alignment - TraesCS1D01G446800

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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 TraesCS1D01G446800 chr1D 100.000 2514 0 0 1 2514 489249089 489251602 0.000000e+00 4643.0
1 TraesCS1D01G446800 chr1D 91.237 582 29 16 1 565 490558715 490558139 0.000000e+00 773.0
2 TraesCS1D01G446800 chr1D 88.141 624 32 20 1 600 490531662 490531057 0.000000e+00 704.0
3 TraesCS1D01G446800 chr1D 97.490 239 6 0 745 983 489256375 489256137 2.330000e-110 409.0
4 TraesCS1D01G446800 chr5D 98.025 1772 26 3 746 2514 125738424 125740189 0.000000e+00 3070.0
5 TraesCS1D01G446800 chr5D 80.576 556 69 18 745 1268 13323648 13324196 2.340000e-105 392.0
6 TraesCS1D01G446800 chr5D 95.855 193 7 1 745 936 125678329 125678521 6.750000e-81 311.0
7 TraesCS1D01G446800 chr5D 86.770 257 33 1 742 997 13330202 13329946 4.090000e-73 285.0
8 TraesCS1D01G446800 chr5D 80.711 394 44 11 1456 1823 13324397 13324784 6.850000e-71 278.0
9 TraesCS1D01G446800 chr5D 90.500 200 19 0 2315 2514 13325170 13325369 5.330000e-67 265.0
10 TraesCS1D01G446800 chr5D 81.176 340 37 11 2012 2340 13324838 13325161 5.370000e-62 248.0
11 TraesCS1D01G446800 chr5D 100.000 33 0 0 951 983 125678518 125678550 7.510000e-06 62.1
12 TraesCS1D01G446800 chr5D 97.222 36 1 0 1839 1874 562434092 562434127 7.510000e-06 62.1
13 TraesCS1D01G446800 chr4D 97.800 1773 30 3 745 2514 95521781 95523547 0.000000e+00 3049.0
14 TraesCS1D01G446800 chr4D 96.373 193 6 1 745 936 95528311 95528119 1.450000e-82 316.0
15 TraesCS1D01G446800 chr4D 100.000 33 0 0 951 983 95528122 95528090 7.510000e-06 62.1
16 TraesCS1D01G446800 chr7B 86.381 257 31 4 746 999 651487415 651487670 6.850000e-71 278.0
17 TraesCS1D01G446800 chr7B 88.208 212 22 3 745 954 651491551 651491341 1.490000e-62 250.0
18 TraesCS1D01G446800 chr1B 98.305 59 1 0 1 59 683370424 683370366 1.230000e-18 104.0
19 TraesCS1D01G446800 chr2A 100.000 33 0 0 420 452 760507856 760507824 7.510000e-06 62.1
20 TraesCS1D01G446800 chr2A 97.143 35 1 0 1840 1874 440946924 440946958 2.700000e-05 60.2
21 TraesCS1D01G446800 chr7D 100.000 31 0 0 1844 1874 596879420 596879390 9.710000e-05 58.4
22 TraesCS1D01G446800 chr4A 97.059 34 1 0 1840 1873 595828949 595828916 9.710000e-05 58.4
23 TraesCS1D01G446800 chr2B 100.000 31 0 0 1844 1874 161206829 161206859 9.710000e-05 58.4
24 TraesCS1D01G446800 chr7A 100.000 30 0 0 1845 1874 172593770 172593741 3.490000e-04 56.5
25 TraesCS1D01G446800 chr2D 100.000 30 0 0 1844 1873 37075949 37075920 3.490000e-04 56.5


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 TraesCS1D01G446800 chr1D 489249089 489251602 2513 False 4643.00 4643 100.00000 1 2514 1 chr1D.!!$F1 2513
1 TraesCS1D01G446800 chr1D 490558139 490558715 576 True 773.00 773 91.23700 1 565 1 chr1D.!!$R3 564
2 TraesCS1D01G446800 chr1D 490531057 490531662 605 True 704.00 704 88.14100 1 600 1 chr1D.!!$R2 599
3 TraesCS1D01G446800 chr5D 125738424 125740189 1765 False 3070.00 3070 98.02500 746 2514 1 chr5D.!!$F1 1768
4 TraesCS1D01G446800 chr5D 13323648 13325369 1721 False 295.75 392 83.24075 745 2514 4 chr5D.!!$F3 1769
5 TraesCS1D01G446800 chr4D 95521781 95523547 1766 False 3049.00 3049 97.80000 745 2514 1 chr4D.!!$F1 1769

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
519 577 0.039180 TCCTTCTCCTCGCTACACCA 59.961 55.0 0.00 0.0 0.00 4.17 F
1381 1527 0.112412 ATGTGGTGGTCCCCAAGTTC 59.888 55.0 0.99 0.0 35.92 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1391 1537 0.467290 TCAAACTGGTTCCTGGGCAC 60.467 55.000 0.00 0.0 0.00 5.01 R
2259 2441 1.073763 TGCATGTACTGAACTTGGCCT 59.926 47.619 3.32 0.0 34.58 5.19 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
406 454 8.349118 ACAGGGTGCATAGGTAGGTATATATAA 58.651 37.037 0.00 0.00 0.00 0.98
408 456 8.798665 AGGGTGCATAGGTAGGTATATATAAGA 58.201 37.037 0.00 0.00 0.00 2.10
409 457 9.603189 GGGTGCATAGGTAGGTATATATAAGAT 57.397 37.037 0.00 0.00 0.00 2.40
411 459 9.915629 GTGCATAGGTAGGTATATATAAGATGC 57.084 37.037 0.00 0.00 36.27 3.91
412 460 9.090103 TGCATAGGTAGGTATATATAAGATGCC 57.910 37.037 0.00 0.00 35.15 4.40
413 461 9.090103 GCATAGGTAGGTATATATAAGATGCCA 57.910 37.037 7.55 0.00 31.88 4.92
516 574 1.201647 CGTTTCCTTCTCCTCGCTACA 59.798 52.381 0.00 0.00 0.00 2.74
519 577 0.039180 TCCTTCTCCTCGCTACACCA 59.961 55.000 0.00 0.00 0.00 4.17
544 602 2.736721 CCAAACACAACACGATCGAGAT 59.263 45.455 24.34 5.67 0.00 2.75
565 623 1.965930 ACGCGGACACGTACCTACA 60.966 57.895 12.47 0.00 46.19 2.74
578 636 4.772046 GTACCTACATACGTACGTTCGA 57.228 45.455 27.92 9.29 34.70 3.71
636 694 5.353394 AAAGAAGTTGGGTTTTCCTTTCC 57.647 39.130 0.00 0.00 40.46 3.13
637 695 3.989056 AGAAGTTGGGTTTTCCTTTCCA 58.011 40.909 0.00 0.00 40.46 3.53
638 696 4.358214 AGAAGTTGGGTTTTCCTTTCCAA 58.642 39.130 0.00 0.00 40.46 3.53
639 697 4.968719 AGAAGTTGGGTTTTCCTTTCCAAT 59.031 37.500 0.00 0.00 40.77 3.16
640 698 4.955811 AGTTGGGTTTTCCTTTCCAATC 57.044 40.909 0.00 0.00 40.77 2.67
641 699 3.320826 AGTTGGGTTTTCCTTTCCAATCG 59.679 43.478 0.00 0.00 40.77 3.34
642 700 3.231207 TGGGTTTTCCTTTCCAATCGA 57.769 42.857 0.00 0.00 40.46 3.59
643 701 3.773560 TGGGTTTTCCTTTCCAATCGAT 58.226 40.909 0.00 0.00 40.46 3.59
644 702 3.509575 TGGGTTTTCCTTTCCAATCGATG 59.490 43.478 0.00 0.00 40.46 3.84
645 703 3.511699 GGTTTTCCTTTCCAATCGATGC 58.488 45.455 0.00 0.00 36.94 3.91
646 704 3.056891 GGTTTTCCTTTCCAATCGATGCA 60.057 43.478 0.00 0.00 36.94 3.96
647 705 4.555262 GTTTTCCTTTCCAATCGATGCAA 58.445 39.130 0.00 0.00 0.00 4.08
648 706 4.862902 TTTCCTTTCCAATCGATGCAAA 57.137 36.364 0.00 0.00 0.00 3.68
649 707 4.439305 TTCCTTTCCAATCGATGCAAAG 57.561 40.909 0.00 7.74 0.00 2.77
650 708 3.684908 TCCTTTCCAATCGATGCAAAGA 58.315 40.909 18.74 0.00 0.00 2.52
651 709 3.691118 TCCTTTCCAATCGATGCAAAGAG 59.309 43.478 18.74 12.11 0.00 2.85
652 710 3.181493 CCTTTCCAATCGATGCAAAGAGG 60.181 47.826 18.74 10.76 0.00 3.69
653 711 2.042686 TCCAATCGATGCAAAGAGGG 57.957 50.000 0.00 0.00 0.00 4.30
654 712 1.027357 CCAATCGATGCAAAGAGGGG 58.973 55.000 0.00 0.00 0.00 4.79
655 713 1.408683 CCAATCGATGCAAAGAGGGGA 60.409 52.381 0.00 0.00 0.00 4.81
656 714 1.672881 CAATCGATGCAAAGAGGGGAC 59.327 52.381 0.00 0.00 0.00 4.46
669 727 4.062032 GGGACCCCCTTTCAGGCC 62.062 72.222 0.00 0.00 41.34 5.19
670 728 4.426313 GGACCCCCTTTCAGGCCG 62.426 72.222 0.00 0.00 32.73 6.13
671 729 4.426313 GACCCCCTTTCAGGCCGG 62.426 72.222 0.00 0.00 32.73 6.13
676 734 4.447342 CCTTTCAGGCCGGCCCAT 62.447 66.667 41.72 23.04 36.58 4.00
677 735 2.595095 CTTTCAGGCCGGCCCATA 59.405 61.111 41.72 24.62 36.58 2.74
678 736 1.151450 CTTTCAGGCCGGCCCATAT 59.849 57.895 41.72 21.73 36.58 1.78
679 737 1.152777 TTTCAGGCCGGCCCATATG 60.153 57.895 41.72 31.66 36.58 1.78
680 738 1.640593 TTTCAGGCCGGCCCATATGA 61.641 55.000 41.72 33.40 36.58 2.15
681 739 1.426251 TTCAGGCCGGCCCATATGAT 61.426 55.000 41.72 19.56 36.58 2.45
682 740 1.676635 CAGGCCGGCCCATATGATG 60.677 63.158 41.72 26.96 36.58 3.07
683 741 1.847506 AGGCCGGCCCATATGATGA 60.848 57.895 41.72 0.00 36.58 2.92
684 742 1.210204 AGGCCGGCCCATATGATGAT 61.210 55.000 41.72 16.98 36.58 2.45
685 743 1.033746 GGCCGGCCCATATGATGATG 61.034 60.000 36.64 0.00 0.00 3.07
686 744 0.322816 GCCGGCCCATATGATGATGT 60.323 55.000 18.11 0.00 0.00 3.06
687 745 1.065491 GCCGGCCCATATGATGATGTA 60.065 52.381 18.11 0.00 0.00 2.29
688 746 2.421952 GCCGGCCCATATGATGATGTAT 60.422 50.000 18.11 0.00 0.00 2.29
689 747 3.889815 CCGGCCCATATGATGATGTATT 58.110 45.455 3.65 0.00 0.00 1.89
690 748 4.272489 CCGGCCCATATGATGATGTATTT 58.728 43.478 3.65 0.00 0.00 1.40
691 749 4.706476 CCGGCCCATATGATGATGTATTTT 59.294 41.667 3.65 0.00 0.00 1.82
692 750 5.185635 CCGGCCCATATGATGATGTATTTTT 59.814 40.000 3.65 0.00 0.00 1.94
693 751 6.376864 CCGGCCCATATGATGATGTATTTTTA 59.623 38.462 3.65 0.00 0.00 1.52
694 752 7.415541 CCGGCCCATATGATGATGTATTTTTAG 60.416 40.741 3.65 0.00 0.00 1.85
695 753 7.415541 CGGCCCATATGATGATGTATTTTTAGG 60.416 40.741 3.65 0.00 0.00 2.69
696 754 7.147846 GGCCCATATGATGATGTATTTTTAGGG 60.148 40.741 3.65 0.00 0.00 3.53
697 755 7.615365 GCCCATATGATGATGTATTTTTAGGGA 59.385 37.037 3.65 0.00 0.00 4.20
698 756 9.532494 CCCATATGATGATGTATTTTTAGGGAA 57.468 33.333 3.65 0.00 0.00 3.97
701 759 6.959639 TGATGATGTATTTTTAGGGAAGCC 57.040 37.500 0.00 0.00 0.00 4.35
702 760 6.430864 TGATGATGTATTTTTAGGGAAGCCA 58.569 36.000 0.00 0.00 0.00 4.75
703 761 7.068702 TGATGATGTATTTTTAGGGAAGCCAT 58.931 34.615 0.00 0.00 0.00 4.40
704 762 6.959639 TGATGTATTTTTAGGGAAGCCATC 57.040 37.500 0.00 0.00 0.00 3.51
705 763 6.430864 TGATGTATTTTTAGGGAAGCCATCA 58.569 36.000 0.00 0.00 35.21 3.07
706 764 6.547141 TGATGTATTTTTAGGGAAGCCATCAG 59.453 38.462 0.00 0.00 33.31 2.90
707 765 5.826643 TGTATTTTTAGGGAAGCCATCAGT 58.173 37.500 0.00 0.00 0.00 3.41
708 766 6.252995 TGTATTTTTAGGGAAGCCATCAGTT 58.747 36.000 0.00 0.00 0.00 3.16
709 767 6.723977 TGTATTTTTAGGGAAGCCATCAGTTT 59.276 34.615 0.00 0.00 0.00 2.66
710 768 6.686484 ATTTTTAGGGAAGCCATCAGTTTT 57.314 33.333 0.00 0.00 0.00 2.43
711 769 6.493189 TTTTTAGGGAAGCCATCAGTTTTT 57.507 33.333 0.00 0.00 0.00 1.94
735 793 4.727235 GAACCTTCTGTAAGTTTCCACG 57.273 45.455 0.00 0.00 30.15 4.94
736 794 3.832615 ACCTTCTGTAAGTTTCCACGT 57.167 42.857 0.00 0.00 33.76 4.49
737 795 3.725490 ACCTTCTGTAAGTTTCCACGTC 58.275 45.455 0.00 0.00 33.76 4.34
738 796 3.387050 ACCTTCTGTAAGTTTCCACGTCT 59.613 43.478 0.00 0.00 33.76 4.18
739 797 3.741344 CCTTCTGTAAGTTTCCACGTCTG 59.259 47.826 0.00 0.00 33.76 3.51
740 798 4.369182 CTTCTGTAAGTTTCCACGTCTGT 58.631 43.478 0.00 0.00 33.76 3.41
741 799 4.395959 TCTGTAAGTTTCCACGTCTGTT 57.604 40.909 0.00 0.00 33.76 3.16
742 800 4.761975 TCTGTAAGTTTCCACGTCTGTTT 58.238 39.130 0.00 0.00 33.76 2.83
743 801 5.180271 TCTGTAAGTTTCCACGTCTGTTTT 58.820 37.500 0.00 0.00 33.76 2.43
874 932 0.958822 GTTCAAAACCCAGATGCGGT 59.041 50.000 0.00 0.00 34.07 5.68
936 995 0.250467 GCTTGTCAGTGGCTGGAAGA 60.250 55.000 0.00 0.00 34.07 2.87
1160 1268 2.722201 GGGTCTTCAGGCCGACGAT 61.722 63.158 0.00 0.00 0.00 3.73
1368 1514 3.417069 TTTCGATGTTCAGGATGTGGT 57.583 42.857 0.00 0.00 37.40 4.16
1381 1527 0.112412 ATGTGGTGGTCCCCAAGTTC 59.888 55.000 0.99 0.00 35.92 3.01
1695 1867 4.511527 CCTCTATTTTGCTTCAGCTGAGA 58.488 43.478 17.43 6.44 42.66 3.27
1725 1897 7.270047 CACAAGTATAATAGGAAAGGGAACGA 58.730 38.462 0.00 0.00 0.00 3.85
1912 2084 2.858745 TGTGGAGTTGGTTAAAGCTCC 58.141 47.619 3.69 3.69 45.64 4.70
2259 2441 7.604927 ACATATACTTGTAAACGAAAGGCTTCA 59.395 33.333 0.00 0.00 0.00 3.02
2425 2640 0.321671 CAGAACTTCTTCCTCGGCCA 59.678 55.000 2.24 0.00 0.00 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
406 454 4.726583 TCCGAGTAGTAGTATTGGCATCT 58.273 43.478 0.00 0.00 0.00 2.90
408 456 4.726583 TCTCCGAGTAGTAGTATTGGCAT 58.273 43.478 0.00 0.00 0.00 4.40
409 457 4.160642 TCTCCGAGTAGTAGTATTGGCA 57.839 45.455 0.00 0.00 0.00 4.92
411 459 4.023021 GCCTTCTCCGAGTAGTAGTATTGG 60.023 50.000 1.81 0.00 0.00 3.16
412 460 4.822896 AGCCTTCTCCGAGTAGTAGTATTG 59.177 45.833 1.81 0.00 0.00 1.90
413 461 5.051409 AGCCTTCTCCGAGTAGTAGTATT 57.949 43.478 1.81 0.00 0.00 1.89
414 462 4.710313 AGCCTTCTCCGAGTAGTAGTAT 57.290 45.455 1.81 0.00 0.00 2.12
516 574 1.470890 CGTGTTGTGTTTGGAGTTGGT 59.529 47.619 0.00 0.00 0.00 3.67
519 577 2.286833 CGATCGTGTTGTGTTTGGAGTT 59.713 45.455 7.03 0.00 0.00 3.01
544 602 4.088762 GGTACGTGTCCGCGTCGA 62.089 66.667 9.38 0.00 44.55 4.20
612 670 6.177610 GGAAAGGAAAACCCAACTTCTTTTT 58.822 36.000 0.00 0.00 32.79 1.94
613 671 5.249622 TGGAAAGGAAAACCCAACTTCTTTT 59.750 36.000 0.00 0.00 34.62 2.27
614 672 4.780554 TGGAAAGGAAAACCCAACTTCTTT 59.219 37.500 0.00 0.00 37.41 2.52
615 673 4.358214 TGGAAAGGAAAACCCAACTTCTT 58.642 39.130 0.00 0.00 37.41 2.52
616 674 3.989056 TGGAAAGGAAAACCCAACTTCT 58.011 40.909 0.00 0.00 37.41 2.85
617 675 4.746535 TTGGAAAGGAAAACCCAACTTC 57.253 40.909 0.00 0.00 34.10 3.01
618 676 4.202212 CGATTGGAAAGGAAAACCCAACTT 60.202 41.667 0.00 0.00 40.95 2.66
619 677 3.320826 CGATTGGAAAGGAAAACCCAACT 59.679 43.478 0.00 0.00 40.95 3.16
620 678 3.319689 TCGATTGGAAAGGAAAACCCAAC 59.680 43.478 0.00 0.00 40.95 3.77
621 679 3.567397 TCGATTGGAAAGGAAAACCCAA 58.433 40.909 0.00 0.00 42.16 4.12
622 680 3.231207 TCGATTGGAAAGGAAAACCCA 57.769 42.857 0.00 0.00 37.41 4.51
623 681 3.676049 GCATCGATTGGAAAGGAAAACCC 60.676 47.826 0.00 0.00 0.00 4.11
624 682 3.056891 TGCATCGATTGGAAAGGAAAACC 60.057 43.478 0.00 0.00 0.00 3.27
625 683 4.173036 TGCATCGATTGGAAAGGAAAAC 57.827 40.909 0.00 0.00 0.00 2.43
626 684 4.862902 TTGCATCGATTGGAAAGGAAAA 57.137 36.364 0.00 0.00 32.09 2.29
627 685 4.862902 TTTGCATCGATTGGAAAGGAAA 57.137 36.364 0.00 0.00 40.29 3.13
632 690 2.754552 CCCTCTTTGCATCGATTGGAAA 59.245 45.455 0.00 4.89 42.57 3.13
633 691 2.368439 CCCTCTTTGCATCGATTGGAA 58.632 47.619 0.00 0.00 33.34 3.53
634 692 1.408683 CCCCTCTTTGCATCGATTGGA 60.409 52.381 0.00 0.00 0.00 3.53
635 693 1.027357 CCCCTCTTTGCATCGATTGG 58.973 55.000 0.00 0.00 0.00 3.16
636 694 1.672881 GTCCCCTCTTTGCATCGATTG 59.327 52.381 0.00 0.00 0.00 2.67
637 695 1.408822 GGTCCCCTCTTTGCATCGATT 60.409 52.381 0.00 0.00 0.00 3.34
638 696 0.181350 GGTCCCCTCTTTGCATCGAT 59.819 55.000 0.00 0.00 0.00 3.59
639 697 1.602237 GGTCCCCTCTTTGCATCGA 59.398 57.895 0.00 0.00 0.00 3.59
640 698 1.452108 GGGTCCCCTCTTTGCATCG 60.452 63.158 0.00 0.00 0.00 3.84
641 699 1.076705 GGGGTCCCCTCTTTGCATC 60.077 63.158 21.13 0.00 41.34 3.91
642 700 3.100111 GGGGTCCCCTCTTTGCAT 58.900 61.111 21.13 0.00 41.34 3.96
660 718 1.151450 ATATGGGCCGGCCTGAAAG 59.849 57.895 42.70 0.00 36.10 2.62
661 719 1.152777 CATATGGGCCGGCCTGAAA 60.153 57.895 42.70 26.47 36.10 2.69
662 720 1.426251 ATCATATGGGCCGGCCTGAA 61.426 55.000 42.70 28.99 36.10 3.02
663 721 1.847506 ATCATATGGGCCGGCCTGA 60.848 57.895 42.70 36.14 36.10 3.86
664 722 1.676635 CATCATATGGGCCGGCCTG 60.677 63.158 42.70 32.45 36.10 4.85
665 723 1.210204 ATCATCATATGGGCCGGCCT 61.210 55.000 42.70 28.20 36.10 5.19
666 724 1.033746 CATCATCATATGGGCCGGCC 61.034 60.000 38.57 38.57 0.00 6.13
667 725 0.322816 ACATCATCATATGGGCCGGC 60.323 55.000 21.18 21.18 0.00 6.13
668 726 3.565764 ATACATCATCATATGGGCCGG 57.434 47.619 2.13 0.00 0.00 6.13
669 727 5.902613 AAAATACATCATCATATGGGCCG 57.097 39.130 2.13 0.00 0.00 6.13
670 728 7.147846 CCCTAAAAATACATCATCATATGGGCC 60.148 40.741 2.13 0.00 0.00 5.80
671 729 7.615365 TCCCTAAAAATACATCATCATATGGGC 59.385 37.037 2.13 0.00 0.00 5.36
672 730 9.532494 TTCCCTAAAAATACATCATCATATGGG 57.468 33.333 2.13 0.00 0.00 4.00
675 733 9.247861 GGCTTCCCTAAAAATACATCATCATAT 57.752 33.333 0.00 0.00 0.00 1.78
676 734 8.224025 TGGCTTCCCTAAAAATACATCATCATA 58.776 33.333 0.00 0.00 0.00 2.15
677 735 7.068702 TGGCTTCCCTAAAAATACATCATCAT 58.931 34.615 0.00 0.00 0.00 2.45
678 736 6.430864 TGGCTTCCCTAAAAATACATCATCA 58.569 36.000 0.00 0.00 0.00 3.07
679 737 6.959639 TGGCTTCCCTAAAAATACATCATC 57.040 37.500 0.00 0.00 0.00 2.92
680 738 7.068702 TGATGGCTTCCCTAAAAATACATCAT 58.931 34.615 0.00 0.00 37.75 2.45
681 739 6.430864 TGATGGCTTCCCTAAAAATACATCA 58.569 36.000 0.00 0.00 39.61 3.07
682 740 6.547510 ACTGATGGCTTCCCTAAAAATACATC 59.452 38.462 0.00 0.00 34.40 3.06
683 741 6.435164 ACTGATGGCTTCCCTAAAAATACAT 58.565 36.000 0.00 0.00 0.00 2.29
684 742 5.826643 ACTGATGGCTTCCCTAAAAATACA 58.173 37.500 0.00 0.00 0.00 2.29
685 743 6.775594 AACTGATGGCTTCCCTAAAAATAC 57.224 37.500 0.00 0.00 0.00 1.89
686 744 7.790782 AAAACTGATGGCTTCCCTAAAAATA 57.209 32.000 0.00 0.00 0.00 1.40
687 745 6.686484 AAAACTGATGGCTTCCCTAAAAAT 57.314 33.333 0.00 0.00 0.00 1.82
688 746 6.493189 AAAAACTGATGGCTTCCCTAAAAA 57.507 33.333 0.00 0.00 0.00 1.94
715 773 4.124970 GACGTGGAAACTTACAGAAGGTT 58.875 43.478 0.00 0.00 45.60 3.50
716 774 3.387050 AGACGTGGAAACTTACAGAAGGT 59.613 43.478 0.00 0.00 36.95 3.50
717 775 3.741344 CAGACGTGGAAACTTACAGAAGG 59.259 47.826 0.00 0.00 36.95 3.46
718 776 4.369182 ACAGACGTGGAAACTTACAGAAG 58.631 43.478 0.00 0.00 38.76 2.85
719 777 4.395959 ACAGACGTGGAAACTTACAGAA 57.604 40.909 0.00 0.00 0.00 3.02
720 778 4.395959 AACAGACGTGGAAACTTACAGA 57.604 40.909 0.00 0.00 0.00 3.41
721 779 5.479716 AAAACAGACGTGGAAACTTACAG 57.520 39.130 0.00 0.00 0.00 2.74
722 780 6.339730 TCTAAAACAGACGTGGAAACTTACA 58.660 36.000 0.00 0.00 0.00 2.41
723 781 6.073927 CCTCTAAAACAGACGTGGAAACTTAC 60.074 42.308 0.00 0.00 0.00 2.34
724 782 5.987347 CCTCTAAAACAGACGTGGAAACTTA 59.013 40.000 0.00 0.00 0.00 2.24
725 783 4.814771 CCTCTAAAACAGACGTGGAAACTT 59.185 41.667 0.00 0.00 0.00 2.66
726 784 4.377897 CCTCTAAAACAGACGTGGAAACT 58.622 43.478 0.00 0.00 0.00 2.66
727 785 3.059120 GCCTCTAAAACAGACGTGGAAAC 60.059 47.826 0.00 0.00 0.00 2.78
728 786 3.135994 GCCTCTAAAACAGACGTGGAAA 58.864 45.455 0.00 0.00 0.00 3.13
729 787 2.103432 TGCCTCTAAAACAGACGTGGAA 59.897 45.455 0.00 0.00 0.00 3.53
730 788 1.689813 TGCCTCTAAAACAGACGTGGA 59.310 47.619 0.00 0.00 0.00 4.02
731 789 2.163818 TGCCTCTAAAACAGACGTGG 57.836 50.000 0.00 0.00 0.00 4.94
732 790 4.749245 ATTTGCCTCTAAAACAGACGTG 57.251 40.909 0.00 0.00 0.00 4.49
733 791 5.178809 GTGTATTTGCCTCTAAAACAGACGT 59.821 40.000 0.00 0.00 0.00 4.34
734 792 5.390567 GGTGTATTTGCCTCTAAAACAGACG 60.391 44.000 0.00 0.00 0.00 4.18
735 793 5.472137 TGGTGTATTTGCCTCTAAAACAGAC 59.528 40.000 0.00 0.00 0.00 3.51
736 794 5.626142 TGGTGTATTTGCCTCTAAAACAGA 58.374 37.500 0.00 0.00 0.00 3.41
737 795 5.957842 TGGTGTATTTGCCTCTAAAACAG 57.042 39.130 0.00 0.00 0.00 3.16
738 796 6.295011 CCATTGGTGTATTTGCCTCTAAAACA 60.295 38.462 0.00 0.00 0.00 2.83
739 797 6.099341 CCATTGGTGTATTTGCCTCTAAAAC 58.901 40.000 0.00 0.00 0.00 2.43
740 798 5.777732 ACCATTGGTGTATTTGCCTCTAAAA 59.222 36.000 7.76 0.00 32.98 1.52
741 799 5.329399 ACCATTGGTGTATTTGCCTCTAAA 58.671 37.500 7.76 0.00 32.98 1.85
742 800 4.929479 ACCATTGGTGTATTTGCCTCTAA 58.071 39.130 7.76 0.00 32.98 2.10
743 801 4.584638 ACCATTGGTGTATTTGCCTCTA 57.415 40.909 7.76 0.00 32.98 2.43
874 932 1.080772 CAGCTGGCGTCGTACAAGA 60.081 57.895 5.57 0.00 0.00 3.02
936 995 1.229428 CGCTTCATCCCGCATAATGT 58.771 50.000 0.00 0.00 0.00 2.71
940 999 1.887242 GCACGCTTCATCCCGCATA 60.887 57.895 0.00 0.00 0.00 3.14
1210 1318 1.740296 CGCCCATCTTCCGTTCGTT 60.740 57.895 0.00 0.00 0.00 3.85
1350 1488 1.066215 CCACCACATCCTGAACATCGA 60.066 52.381 0.00 0.00 0.00 3.59
1391 1537 0.467290 TCAAACTGGTTCCTGGGCAC 60.467 55.000 0.00 0.00 0.00 5.01
1695 1867 8.058847 TCCCTTTCCTATTATACTTGTGCAAAT 58.941 33.333 0.00 0.00 0.00 2.32
2099 2271 4.818005 CAGTATATTCATCTTGCTGTGCCA 59.182 41.667 0.00 0.00 0.00 4.92
2259 2441 1.073763 TGCATGTACTGAACTTGGCCT 59.926 47.619 3.32 0.00 34.58 5.19


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

AutoCloner maintained by Alex Coulton.