Multiple sequence alignment - TraesCS7A01G566300

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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 TraesCS7A01G566300 chr7A 100.000 2627 0 0 1 2627 735764098 735761472 0.000000e+00 4852.0
1 TraesCS7A01G566300 chr7A 87.963 972 94 16 759 1717 642325888 642324927 0.000000e+00 1125.0
2 TraesCS7A01G566300 chr7A 85.120 914 128 7 759 1669 625538221 625537313 0.000000e+00 928.0
3 TraesCS7A01G566300 chr7A 80.333 661 122 4 67 723 625631218 625630562 6.530000e-136 494.0
4 TraesCS7A01G566300 chr7A 80.046 431 60 17 1903 2316 20168550 20168129 1.980000e-76 296.0
5 TraesCS7A01G566300 chr7A 76.027 584 104 16 1900 2467 685565946 685565383 1.200000e-68 270.0
6 TraesCS7A01G566300 chr7A 93.382 136 9 0 1726 1861 735762508 735762373 4.430000e-48 202.0
7 TraesCS7A01G566300 chrUn 99.910 1113 1 0 758 1870 365695920 365694808 0.000000e+00 2050.0
8 TraesCS7A01G566300 chrUn 95.464 970 43 1 758 1726 88865688 88866657 0.000000e+00 1546.0
9 TraesCS7A01G566300 chrUn 100.000 672 0 0 52 723 365696699 365696028 0.000000e+00 1242.0
10 TraesCS7A01G566300 chrUn 94.475 724 39 1 1 723 88843787 88844510 0.000000e+00 1114.0
11 TraesCS7A01G566300 chrUn 94.329 723 41 0 1 723 88864858 88865580 0.000000e+00 1109.0
12 TraesCS7A01G566300 chrUn 87.401 754 81 8 1728 2467 88866523 88867276 0.000000e+00 854.0
13 TraesCS7A01G566300 chrUn 100.000 332 0 0 2296 2627 387059411 387059080 4.810000e-172 614.0
14 TraesCS7A01G566300 chrUn 93.382 136 9 0 1591 1726 365694952 365694817 4.430000e-48 202.0
15 TraesCS7A01G566300 chrUn 93.382 136 9 0 1726 1861 365695087 365694952 4.430000e-48 202.0
16 TraesCS7A01G566300 chr7D 88.598 956 93 11 759 1706 556718050 556717103 0.000000e+00 1147.0
17 TraesCS7A01G566300 chr7D 87.707 968 103 11 759 1718 541965341 541964382 0.000000e+00 1114.0
18 TraesCS7A01G566300 chr7D 85.788 971 118 13 764 1726 542098236 542097278 0.000000e+00 1011.0
19 TraesCS7A01G566300 chr7D 86.750 717 95 0 4 720 541966169 541965453 0.000000e+00 798.0
20 TraesCS7A01G566300 chr7D 83.426 718 117 2 4 720 542099069 542098353 0.000000e+00 665.0
21 TraesCS7A01G566300 chr7D 83.032 719 119 3 8 724 541501716 541500999 0.000000e+00 649.0
22 TraesCS7A01G566300 chr7D 81.203 665 119 6 62 723 543609926 543609265 4.980000e-147 531.0
23 TraesCS7A01G566300 chr7D 84.211 152 22 2 1900 2050 20054540 20054390 2.110000e-31 147.0
24 TraesCS7A01G566300 chr7B 87.320 970 104 12 759 1717 604099263 604098302 0.000000e+00 1092.0
25 TraesCS7A01G566300 chr7B 87.751 898 98 10 766 1660 585579369 585578481 0.000000e+00 1038.0
26 TraesCS7A01G566300 chr7B 86.053 717 100 0 4 720 585514438 585513722 0.000000e+00 771.0
27 TraesCS7A01G566300 chr6A 82.058 758 105 16 1896 2627 502113877 502113125 3.710000e-173 617.0
28 TraesCS7A01G566300 chr3D 80.317 757 112 23 1897 2627 537849851 537850596 2.980000e-149 538.0
29 TraesCS7A01G566300 chr3D 76.527 622 93 26 1897 2497 362203911 362204500 9.200000e-75 291.0
30 TraesCS7A01G566300 chr3D 75.615 488 83 26 2119 2592 611818308 611818773 2.650000e-50 209.0
31 TraesCS7A01G566300 chr5D 81.750 663 97 15 1986 2627 216391032 216390373 1.380000e-147 532.0
32 TraesCS7A01G566300 chr5D 85.526 76 7 4 1897 1968 244834487 244834412 2.800000e-10 76.8
33 TraesCS7A01G566300 chr5B 79.205 654 104 18 1990 2627 232589920 232589283 2.420000e-115 425.0
34 TraesCS7A01G566300 chr3A 78.686 685 113 15 1901 2564 673296079 673296751 2.420000e-115 425.0
35 TraesCS7A01G566300 chr2D 77.376 747 129 21 1891 2622 458518963 458518242 8.750000e-110 407.0
36 TraesCS7A01G566300 chr1D 76.872 748 136 31 1900 2625 213703192 213702460 3.170000e-104 388.0
37 TraesCS7A01G566300 chr6D 82.250 400 56 10 2241 2627 360948819 360948422 5.420000e-87 331.0
38 TraesCS7A01G566300 chr2B 75.689 617 108 28 1931 2537 606617272 606617856 1.200000e-68 270.0
39 TraesCS7A01G566300 chr4A 80.952 294 54 2 1900 2192 712860358 712860066 5.650000e-57 231.0
40 TraesCS7A01G566300 chr4D 76.389 432 81 17 2162 2578 95831004 95830579 2.050000e-51 213.0
41 TraesCS7A01G566300 chr5A 85.714 77 8 3 1895 1968 469630361 469630285 7.800000e-11 78.7
42 TraesCS7A01G566300 chr5A 84.146 82 10 3 1890 1968 469647415 469647334 2.800000e-10 76.8


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 TraesCS7A01G566300 chr7A 735761472 735764098 2626 True 2527.000000 4852 96.6910 1 2627 2 chr7A.!!$R6 2626
1 TraesCS7A01G566300 chr7A 642324927 642325888 961 True 1125.000000 1125 87.9630 759 1717 1 chr7A.!!$R4 958
2 TraesCS7A01G566300 chr7A 625537313 625538221 908 True 928.000000 928 85.1200 759 1669 1 chr7A.!!$R2 910
3 TraesCS7A01G566300 chr7A 625630562 625631218 656 True 494.000000 494 80.3330 67 723 1 chr7A.!!$R3 656
4 TraesCS7A01G566300 chr7A 685565383 685565946 563 True 270.000000 270 76.0270 1900 2467 1 chr7A.!!$R5 567
5 TraesCS7A01G566300 chrUn 88864858 88867276 2418 False 1169.666667 1546 92.3980 1 2467 3 chrUn.!!$F2 2466
6 TraesCS7A01G566300 chrUn 88843787 88844510 723 False 1114.000000 1114 94.4750 1 723 1 chrUn.!!$F1 722
7 TraesCS7A01G566300 chrUn 365694808 365696699 1891 True 924.000000 2050 96.6685 52 1870 4 chrUn.!!$R2 1818
8 TraesCS7A01G566300 chr7D 556717103 556718050 947 True 1147.000000 1147 88.5980 759 1706 1 chr7D.!!$R4 947
9 TraesCS7A01G566300 chr7D 541964382 541966169 1787 True 956.000000 1114 87.2285 4 1718 2 chr7D.!!$R5 1714
10 TraesCS7A01G566300 chr7D 542097278 542099069 1791 True 838.000000 1011 84.6070 4 1726 2 chr7D.!!$R6 1722
11 TraesCS7A01G566300 chr7D 541500999 541501716 717 True 649.000000 649 83.0320 8 724 1 chr7D.!!$R2 716
12 TraesCS7A01G566300 chr7D 543609265 543609926 661 True 531.000000 531 81.2030 62 723 1 chr7D.!!$R3 661
13 TraesCS7A01G566300 chr7B 604098302 604099263 961 True 1092.000000 1092 87.3200 759 1717 1 chr7B.!!$R3 958
14 TraesCS7A01G566300 chr7B 585578481 585579369 888 True 1038.000000 1038 87.7510 766 1660 1 chr7B.!!$R2 894
15 TraesCS7A01G566300 chr7B 585513722 585514438 716 True 771.000000 771 86.0530 4 720 1 chr7B.!!$R1 716
16 TraesCS7A01G566300 chr6A 502113125 502113877 752 True 617.000000 617 82.0580 1896 2627 1 chr6A.!!$R1 731
17 TraesCS7A01G566300 chr3D 537849851 537850596 745 False 538.000000 538 80.3170 1897 2627 1 chr3D.!!$F2 730
18 TraesCS7A01G566300 chr3D 362203911 362204500 589 False 291.000000 291 76.5270 1897 2497 1 chr3D.!!$F1 600
19 TraesCS7A01G566300 chr5D 216390373 216391032 659 True 532.000000 532 81.7500 1986 2627 1 chr5D.!!$R1 641
20 TraesCS7A01G566300 chr5B 232589283 232589920 637 True 425.000000 425 79.2050 1990 2627 1 chr5B.!!$R1 637
21 TraesCS7A01G566300 chr3A 673296079 673296751 672 False 425.000000 425 78.6860 1901 2564 1 chr3A.!!$F1 663
22 TraesCS7A01G566300 chr2D 458518242 458518963 721 True 407.000000 407 77.3760 1891 2622 1 chr2D.!!$R1 731
23 TraesCS7A01G566300 chr1D 213702460 213703192 732 True 388.000000 388 76.8720 1900 2625 1 chr1D.!!$R1 725
24 TraesCS7A01G566300 chr2B 606617272 606617856 584 False 270.000000 270 75.6890 1931 2537 1 chr2B.!!$F1 606

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
746 749 0.538584 TGAAGATGCTCGATGGTGCT 59.461 50.0 3.45 0.0 33.89 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1722 1799 0.032678 CGCTTCCGACCATAGCTCAT 59.967 55.0 0.0 0.0 36.29 2.9 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
725 728 7.827236 TCCAGAGAAACAAAAAGAAGAACTACA 59.173 33.333 0.00 0.00 0.00 2.74
728 731 8.669243 AGAGAAACAAAAAGAAGAACTACAGTG 58.331 33.333 0.00 0.00 0.00 3.66
731 734 9.278734 GAAACAAAAAGAAGAACTACAGTGAAG 57.721 33.333 0.00 0.00 0.00 3.02
732 735 8.561738 AACAAAAAGAAGAACTACAGTGAAGA 57.438 30.769 0.00 0.00 0.00 2.87
733 736 8.738645 ACAAAAAGAAGAACTACAGTGAAGAT 57.261 30.769 0.00 0.00 0.00 2.40
734 737 8.616076 ACAAAAAGAAGAACTACAGTGAAGATG 58.384 33.333 0.00 0.00 0.00 2.90
735 738 6.793492 AAAGAAGAACTACAGTGAAGATGC 57.207 37.500 0.00 0.00 0.00 3.91
736 739 5.736951 AGAAGAACTACAGTGAAGATGCT 57.263 39.130 0.00 0.00 0.00 3.79
737 740 5.719173 AGAAGAACTACAGTGAAGATGCTC 58.281 41.667 0.00 0.00 0.00 4.26
739 742 3.759086 AGAACTACAGTGAAGATGCTCGA 59.241 43.478 0.00 0.00 0.00 4.04
740 743 4.400884 AGAACTACAGTGAAGATGCTCGAT 59.599 41.667 0.00 0.00 0.00 3.59
741 744 4.039151 ACTACAGTGAAGATGCTCGATG 57.961 45.455 0.00 0.00 0.00 3.84
744 747 1.931841 CAGTGAAGATGCTCGATGGTG 59.068 52.381 0.00 0.00 0.00 4.17
745 748 0.654683 GTGAAGATGCTCGATGGTGC 59.345 55.000 0.00 0.00 0.00 5.01
746 749 0.538584 TGAAGATGCTCGATGGTGCT 59.461 50.000 3.45 0.00 33.89 4.40
747 750 1.065926 TGAAGATGCTCGATGGTGCTT 60.066 47.619 3.45 0.00 33.89 3.91
749 752 3.181462 TGAAGATGCTCGATGGTGCTTAT 60.181 43.478 3.45 0.00 33.89 1.73
750 753 3.037431 AGATGCTCGATGGTGCTTATC 57.963 47.619 3.45 0.00 33.89 1.75
751 754 2.072298 GATGCTCGATGGTGCTTATCC 58.928 52.381 3.45 0.00 33.89 2.59
753 756 1.069204 TGCTCGATGGTGCTTATCCTC 59.931 52.381 3.45 0.00 33.89 3.71
755 758 2.224161 GCTCGATGGTGCTTATCCTCTT 60.224 50.000 0.00 0.00 0.00 2.85
1113 1190 5.948162 ACACTGTGATATCAAGCCAGAAAAT 59.052 36.000 22.12 3.77 0.00 1.82
1661 1738 2.812011 GGGAAACTAGTTGTGTTGCGAT 59.188 45.455 9.34 0.00 0.00 4.58
1662 1739 3.364964 GGGAAACTAGTTGTGTTGCGATG 60.365 47.826 9.34 0.00 0.00 3.84
1668 1745 7.661127 AACTAGTTGTGTTGCGATGTTATAA 57.339 32.000 7.48 0.00 0.00 0.98
1669 1746 7.843490 ACTAGTTGTGTTGCGATGTTATAAT 57.157 32.000 0.00 0.00 0.00 1.28
1670 1747 8.936070 ACTAGTTGTGTTGCGATGTTATAATA 57.064 30.769 0.00 0.00 0.00 0.98
1671 1748 9.542462 ACTAGTTGTGTTGCGATGTTATAATAT 57.458 29.630 0.00 0.00 0.00 1.28
1677 1754 9.705290 TGTGTTGCGATGTTATAATATATGTCT 57.295 29.630 0.00 0.00 0.00 3.41
1697 1774 7.775053 TGTCTATCTTTAAGGCCAAATTTGT 57.225 32.000 16.73 1.03 0.00 2.83
1698 1775 8.871629 TGTCTATCTTTAAGGCCAAATTTGTA 57.128 30.769 16.73 0.06 0.00 2.41
1699 1776 9.303116 TGTCTATCTTTAAGGCCAAATTTGTAA 57.697 29.630 16.73 6.21 0.00 2.41
1703 1780 7.665561 TCTTTAAGGCCAAATTTGTAATTGC 57.334 32.000 16.73 11.79 0.00 3.56
1704 1781 7.449247 TCTTTAAGGCCAAATTTGTAATTGCT 58.551 30.769 16.73 1.36 0.00 3.91
1705 1782 8.589338 TCTTTAAGGCCAAATTTGTAATTGCTA 58.411 29.630 16.73 0.51 0.00 3.49
1706 1783 9.382275 CTTTAAGGCCAAATTTGTAATTGCTAT 57.618 29.630 16.73 8.07 0.00 2.97
1708 1785 9.810545 TTAAGGCCAAATTTGTAATTGCTATAC 57.189 29.630 16.73 0.98 0.00 1.47
1709 1786 7.416964 AGGCCAAATTTGTAATTGCTATACA 57.583 32.000 16.73 0.00 0.00 2.29
1710 1787 7.846066 AGGCCAAATTTGTAATTGCTATACAA 58.154 30.769 16.73 5.74 44.01 2.41
1736 1813 8.771920 TTGTAATTATTATGAGCTATGGTCGG 57.228 34.615 0.00 0.00 32.15 4.79
1737 1814 8.129496 TGTAATTATTATGAGCTATGGTCGGA 57.871 34.615 0.00 0.00 32.15 4.55
1738 1815 8.590204 TGTAATTATTATGAGCTATGGTCGGAA 58.410 33.333 0.00 0.00 32.15 4.30
1739 1816 9.088512 GTAATTATTATGAGCTATGGTCGGAAG 57.911 37.037 0.00 0.00 32.15 3.46
1740 1817 3.386768 TTATGAGCTATGGTCGGAAGC 57.613 47.619 0.00 0.00 36.48 3.86
1741 1818 0.032678 ATGAGCTATGGTCGGAAGCG 59.967 55.000 0.00 0.00 41.19 4.68
1742 1819 1.951631 GAGCTATGGTCGGAAGCGC 60.952 63.158 0.00 0.00 41.19 5.92
1743 1820 2.202878 GCTATGGTCGGAAGCGCA 60.203 61.111 11.47 0.00 0.00 6.09
1744 1821 2.526120 GCTATGGTCGGAAGCGCAC 61.526 63.158 11.47 2.54 0.00 5.34
1745 1822 1.153647 CTATGGTCGGAAGCGCACA 60.154 57.895 11.47 0.00 0.00 4.57
1746 1823 0.530650 CTATGGTCGGAAGCGCACAT 60.531 55.000 11.47 4.75 0.00 3.21
1747 1824 0.747852 TATGGTCGGAAGCGCACATA 59.252 50.000 11.47 3.77 0.00 2.29
1748 1825 0.107897 ATGGTCGGAAGCGCACATAA 60.108 50.000 11.47 0.00 0.00 1.90
1749 1826 0.320858 TGGTCGGAAGCGCACATAAA 60.321 50.000 11.47 0.00 0.00 1.40
1750 1827 0.800012 GGTCGGAAGCGCACATAAAA 59.200 50.000 11.47 0.00 0.00 1.52
1751 1828 1.198178 GGTCGGAAGCGCACATAAAAA 59.802 47.619 11.47 0.00 0.00 1.94
1785 1862 6.697641 TCTTTTTGTATCAGGGGAACTAGT 57.302 37.500 0.00 0.00 0.00 2.57
1793 1870 1.880027 CAGGGGAACTAGTTGTGTTGC 59.120 52.381 14.14 0.00 35.48 4.17
1906 2123 9.585099 TGCATAAATTTGTAACTGATGGAAATC 57.415 29.630 0.00 0.00 0.00 2.17
2018 2241 8.827832 TGAATATGAGATTCAATGGAAAACCT 57.172 30.769 0.00 0.00 36.43 3.50
2057 2285 6.530019 AATGTAAACACCAATTCATCCCTC 57.470 37.500 0.00 0.00 0.00 4.30
2058 2286 4.991776 TGTAAACACCAATTCATCCCTCA 58.008 39.130 0.00 0.00 0.00 3.86
2074 2303 2.702478 CCCTCATCATGCCTCTAAGACA 59.298 50.000 0.00 0.00 0.00 3.41
2097 2327 8.563123 ACAATCTCATGTATTGATGATGATCC 57.437 34.615 22.08 0.00 37.68 3.36
2128 2367 7.157347 TCCTAATCATGAGCATTGTGAGTATC 58.843 38.462 0.09 0.00 0.00 2.24
2249 2504 8.627208 AGGTATTTCATATAGCTTGTTCATGG 57.373 34.615 0.00 0.00 0.00 3.66
2319 2574 2.643801 TGGTTACTTTGGGGTTACCGAT 59.356 45.455 0.00 0.00 44.64 4.18
2376 2636 5.667466 ACTTACAGGTATACCGGAAATGTG 58.333 41.667 26.34 14.84 42.08 3.21
2378 2638 6.380846 ACTTACAGGTATACCGGAAATGTGTA 59.619 38.462 26.34 18.34 42.08 2.90
2403 2672 7.284919 TCTCGATATCAATAGTAGGTTTGCA 57.715 36.000 3.12 0.00 0.00 4.08
2440 2709 2.856231 AGATACTCTCTGGGACCACTCT 59.144 50.000 0.00 0.00 31.12 3.24
2546 2828 3.978718 ACTAGTAACGAGGATAACCGC 57.021 47.619 0.00 0.00 41.83 5.68
2565 2847 4.406003 ACCGCTATAGTGATCAAGGAGTTT 59.594 41.667 15.00 0.00 0.00 2.66
2583 2865 5.337330 GGAGTTTATCACGGGGATATCGATT 60.337 44.000 1.71 0.00 38.27 3.34
2585 2867 6.864342 AGTTTATCACGGGGATATCGATTAG 58.136 40.000 1.71 0.00 38.27 1.73
2595 2878 3.690139 GGATATCGATTAGCTCACCTCGA 59.310 47.826 1.71 10.84 43.43 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
725 728 1.741732 GCACCATCGAGCATCTTCACT 60.742 52.381 0.00 0.00 0.00 3.41
728 731 1.661341 AAGCACCATCGAGCATCTTC 58.339 50.000 0.00 0.00 0.00 2.87
731 734 2.072298 GGATAAGCACCATCGAGCATC 58.928 52.381 0.00 0.00 0.00 3.91
732 735 1.696336 AGGATAAGCACCATCGAGCAT 59.304 47.619 0.00 0.00 0.00 3.79
733 736 1.069204 GAGGATAAGCACCATCGAGCA 59.931 52.381 0.00 0.00 0.00 4.26
734 737 1.342819 AGAGGATAAGCACCATCGAGC 59.657 52.381 0.00 0.00 0.00 5.03
735 738 3.742433 AAGAGGATAAGCACCATCGAG 57.258 47.619 0.00 0.00 0.00 4.04
736 739 3.574396 CCTAAGAGGATAAGCACCATCGA 59.426 47.826 0.00 0.00 37.67 3.59
737 740 3.322254 ACCTAAGAGGATAAGCACCATCG 59.678 47.826 0.00 0.00 37.67 3.84
739 742 5.717119 AAACCTAAGAGGATAAGCACCAT 57.283 39.130 0.00 0.00 37.67 3.55
740 743 5.253330 CAAAACCTAAGAGGATAAGCACCA 58.747 41.667 0.00 0.00 37.67 4.17
741 744 4.640647 CCAAAACCTAAGAGGATAAGCACC 59.359 45.833 0.00 0.00 37.67 5.01
744 747 6.094186 CAGAACCAAAACCTAAGAGGATAAGC 59.906 42.308 0.00 0.00 37.67 3.09
745 748 7.168905 ACAGAACCAAAACCTAAGAGGATAAG 58.831 38.462 0.00 0.00 37.67 1.73
746 749 7.086685 ACAGAACCAAAACCTAAGAGGATAA 57.913 36.000 0.00 0.00 37.67 1.75
747 750 6.697641 ACAGAACCAAAACCTAAGAGGATA 57.302 37.500 0.00 0.00 37.67 2.59
749 752 6.697641 ATACAGAACCAAAACCTAAGAGGA 57.302 37.500 0.00 0.00 37.67 3.71
750 753 6.940298 TGAATACAGAACCAAAACCTAAGAGG 59.060 38.462 0.00 0.00 42.49 3.69
751 754 7.979444 TGAATACAGAACCAAAACCTAAGAG 57.021 36.000 0.00 0.00 0.00 2.85
753 756 7.309194 CCCTTGAATACAGAACCAAAACCTAAG 60.309 40.741 0.00 0.00 0.00 2.18
755 758 6.007703 CCCTTGAATACAGAACCAAAACCTA 58.992 40.000 0.00 0.00 0.00 3.08
1113 1190 8.478877 GGAAGGAGTGAAGAATCAAGAAGTATA 58.521 37.037 0.00 0.00 37.30 1.47
1671 1748 9.474313 ACAAATTTGGCCTTAAAGATAGACATA 57.526 29.630 21.74 0.00 0.00 2.29
1672 1749 8.366359 ACAAATTTGGCCTTAAAGATAGACAT 57.634 30.769 21.74 0.00 0.00 3.06
1673 1750 7.775053 ACAAATTTGGCCTTAAAGATAGACA 57.225 32.000 21.74 0.00 0.00 3.41
1677 1754 9.377312 GCAATTACAAATTTGGCCTTAAAGATA 57.623 29.630 21.74 0.00 0.00 1.98
1678 1755 8.102676 AGCAATTACAAATTTGGCCTTAAAGAT 58.897 29.630 21.74 5.43 0.00 2.40
1679 1756 7.449247 AGCAATTACAAATTTGGCCTTAAAGA 58.551 30.769 21.74 0.00 0.00 2.52
1680 1757 7.671495 AGCAATTACAAATTTGGCCTTAAAG 57.329 32.000 21.74 9.40 0.00 1.85
1682 1759 9.810545 GTATAGCAATTACAAATTTGGCCTTAA 57.189 29.630 21.74 11.41 0.00 1.85
1683 1760 8.972127 TGTATAGCAATTACAAATTTGGCCTTA 58.028 29.630 21.74 2.84 0.00 2.69
1684 1761 7.846066 TGTATAGCAATTACAAATTTGGCCTT 58.154 30.769 21.74 8.93 0.00 4.35
1685 1762 7.416964 TGTATAGCAATTACAAATTTGGCCT 57.583 32.000 21.74 10.33 0.00 5.19
1686 1763 8.661352 ATTGTATAGCAATTACAAATTTGGCC 57.339 30.769 21.74 0.00 44.82 5.36
1710 1787 9.383519 CCGACCATAGCTCATAATAATTACAAT 57.616 33.333 0.00 0.00 0.00 2.71
1711 1788 8.590204 TCCGACCATAGCTCATAATAATTACAA 58.410 33.333 0.00 0.00 0.00 2.41
1712 1789 8.129496 TCCGACCATAGCTCATAATAATTACA 57.871 34.615 0.00 0.00 0.00 2.41
1713 1790 8.997621 TTCCGACCATAGCTCATAATAATTAC 57.002 34.615 0.00 0.00 0.00 1.89
1714 1791 7.764443 GCTTCCGACCATAGCTCATAATAATTA 59.236 37.037 0.00 0.00 32.26 1.40
1715 1792 6.595716 GCTTCCGACCATAGCTCATAATAATT 59.404 38.462 0.00 0.00 32.26 1.40
1716 1793 6.109359 GCTTCCGACCATAGCTCATAATAAT 58.891 40.000 0.00 0.00 32.26 1.28
1717 1794 5.479306 GCTTCCGACCATAGCTCATAATAA 58.521 41.667 0.00 0.00 32.26 1.40
1718 1795 4.380550 CGCTTCCGACCATAGCTCATAATA 60.381 45.833 0.00 0.00 36.29 0.98
1719 1796 3.615110 CGCTTCCGACCATAGCTCATAAT 60.615 47.826 0.00 0.00 36.29 1.28
1720 1797 2.288213 CGCTTCCGACCATAGCTCATAA 60.288 50.000 0.00 0.00 36.29 1.90
1721 1798 1.269723 CGCTTCCGACCATAGCTCATA 59.730 52.381 0.00 0.00 36.29 2.15
1722 1799 0.032678 CGCTTCCGACCATAGCTCAT 59.967 55.000 0.00 0.00 36.29 2.90
1723 1800 1.437573 CGCTTCCGACCATAGCTCA 59.562 57.895 0.00 0.00 36.29 4.26
1724 1801 1.951631 GCGCTTCCGACCATAGCTC 60.952 63.158 0.00 0.00 36.29 4.09
1725 1802 2.107141 GCGCTTCCGACCATAGCT 59.893 61.111 0.00 0.00 36.29 3.32
1726 1803 2.202878 TGCGCTTCCGACCATAGC 60.203 61.111 9.73 0.00 36.29 2.97
1727 1804 0.530650 ATGTGCGCTTCCGACCATAG 60.531 55.000 9.73 0.00 36.29 2.23
1728 1805 0.747852 TATGTGCGCTTCCGACCATA 59.252 50.000 9.73 1.19 36.29 2.74
1729 1806 0.107897 TTATGTGCGCTTCCGACCAT 60.108 50.000 9.73 2.13 36.29 3.55
1730 1807 0.320858 TTTATGTGCGCTTCCGACCA 60.321 50.000 9.73 0.00 36.29 4.02
1731 1808 0.800012 TTTTATGTGCGCTTCCGACC 59.200 50.000 9.73 0.00 36.29 4.79
1732 1809 2.604969 TTTTTATGTGCGCTTCCGAC 57.395 45.000 9.73 0.00 36.29 4.79
1750 1827 8.689972 CCTGATACAAAAAGATTAGGAGCATTT 58.310 33.333 0.00 0.00 0.00 2.32
1751 1828 7.286316 CCCTGATACAAAAAGATTAGGAGCATT 59.714 37.037 0.00 0.00 0.00 3.56
1752 1829 6.774656 CCCTGATACAAAAAGATTAGGAGCAT 59.225 38.462 0.00 0.00 0.00 3.79
1753 1830 6.122277 CCCTGATACAAAAAGATTAGGAGCA 58.878 40.000 0.00 0.00 0.00 4.26
1754 1831 5.532779 CCCCTGATACAAAAAGATTAGGAGC 59.467 44.000 0.00 0.00 0.00 4.70
1755 1832 6.900194 TCCCCTGATACAAAAAGATTAGGAG 58.100 40.000 0.00 0.00 0.00 3.69
1756 1833 6.901615 TCCCCTGATACAAAAAGATTAGGA 57.098 37.500 0.00 0.00 0.00 2.94
1757 1834 7.119387 AGTTCCCCTGATACAAAAAGATTAGG 58.881 38.462 0.00 0.00 0.00 2.69
1758 1835 9.331282 CTAGTTCCCCTGATACAAAAAGATTAG 57.669 37.037 0.00 0.00 0.00 1.73
1759 1836 8.832735 ACTAGTTCCCCTGATACAAAAAGATTA 58.167 33.333 0.00 0.00 0.00 1.75
1760 1837 7.699878 ACTAGTTCCCCTGATACAAAAAGATT 58.300 34.615 0.00 0.00 0.00 2.40
1761 1838 7.272144 ACTAGTTCCCCTGATACAAAAAGAT 57.728 36.000 0.00 0.00 0.00 2.40
1762 1839 6.697641 ACTAGTTCCCCTGATACAAAAAGA 57.302 37.500 0.00 0.00 0.00 2.52
1763 1840 6.715264 ACAACTAGTTCCCCTGATACAAAAAG 59.285 38.462 4.77 0.00 0.00 2.27
1764 1841 6.488683 CACAACTAGTTCCCCTGATACAAAAA 59.511 38.462 4.77 0.00 0.00 1.94
1765 1842 6.001460 CACAACTAGTTCCCCTGATACAAAA 58.999 40.000 4.77 0.00 0.00 2.44
1768 1845 4.164981 ACACAACTAGTTCCCCTGATACA 58.835 43.478 4.77 0.00 0.00 2.29
1775 1852 0.872388 CGCAACACAACTAGTTCCCC 59.128 55.000 4.77 0.00 0.00 4.81
1877 2092 9.770097 TTCCATCAGTTACAAATTTATGCAAAA 57.230 25.926 0.00 0.00 0.00 2.44
1878 2093 9.770097 TTTCCATCAGTTACAAATTTATGCAAA 57.230 25.926 0.00 0.00 0.00 3.68
1881 2096 9.807649 AGATTTCCATCAGTTACAAATTTATGC 57.192 29.630 0.00 0.00 0.00 3.14
2057 2285 5.608449 TGAGATTGTCTTAGAGGCATGATG 58.392 41.667 0.00 0.00 25.43 3.07
2058 2286 5.883685 TGAGATTGTCTTAGAGGCATGAT 57.116 39.130 0.00 0.00 25.43 2.45
2074 2303 8.383947 ACAGGATCATCATCAATACATGAGATT 58.616 33.333 0.00 0.00 42.53 2.40
2097 2327 6.750501 CACAATGCTCATGATTAGGAAAACAG 59.249 38.462 0.00 0.00 0.00 3.16
2200 2440 9.314321 CCTATAACATAACAACGAAGACATCTT 57.686 33.333 0.00 0.00 39.23 2.40
2224 2464 8.220559 ACCATGAACAAGCTATATGAAATACCT 58.779 33.333 0.00 0.00 0.00 3.08
2238 2493 3.855689 ACTATGCAACCATGAACAAGC 57.144 42.857 0.00 0.00 32.85 4.01
2249 2504 2.999331 TGGGCTAAGGAACTATGCAAC 58.001 47.619 0.00 0.00 38.49 4.17
2319 2574 7.925043 TTAAGTCCAGTTACAAAAGTGACAA 57.075 32.000 0.00 0.00 38.14 3.18
2376 2636 9.291664 GCAAACCTACTATTGATATCGAGATAC 57.708 37.037 0.00 0.00 0.00 2.24
2378 2638 7.815068 GTGCAAACCTACTATTGATATCGAGAT 59.185 37.037 0.00 0.00 0.00 2.75
2440 2709 4.464951 AGACGATAATGACACCCTAACACA 59.535 41.667 0.00 0.00 0.00 3.72
2498 2767 8.462143 TGTTCTCTTTACTCGTATTCATGTTC 57.538 34.615 0.00 0.00 0.00 3.18
2499 2768 8.827177 TTGTTCTCTTTACTCGTATTCATGTT 57.173 30.769 0.00 0.00 0.00 2.71
2500 2769 8.827177 TTTGTTCTCTTTACTCGTATTCATGT 57.173 30.769 0.00 0.00 0.00 3.21
2501 2770 9.530129 GTTTTGTTCTCTTTACTCGTATTCATG 57.470 33.333 0.00 0.00 0.00 3.07
2502 2771 9.490379 AGTTTTGTTCTCTTTACTCGTATTCAT 57.510 29.630 0.00 0.00 0.00 2.57
2503 2772 8.882415 AGTTTTGTTCTCTTTACTCGTATTCA 57.118 30.769 0.00 0.00 0.00 2.57
2505 2774 9.978044 ACTAGTTTTGTTCTCTTTACTCGTATT 57.022 29.630 0.00 0.00 0.00 1.89
2508 2777 9.242477 GTTACTAGTTTTGTTCTCTTTACTCGT 57.758 33.333 0.00 0.00 0.00 4.18
2546 2828 7.810282 CCGTGATAAACTCCTTGATCACTATAG 59.190 40.741 11.00 0.00 43.88 1.31
2565 2847 4.533815 AGCTAATCGATATCCCCGTGATA 58.466 43.478 0.00 0.00 40.20 2.15


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

AutoCloner maintained by Alex Coulton.