Multiple sequence alignment - TraesCS2D01G263700

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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 TraesCS2D01G263700 chr2D 100.000 2588 0 0 1 2588 322858592 322856005 0.000000e+00 4780.0
1 TraesCS2D01G263700 chr2D 86.270 437 54 6 2153 2588 6531946 6532377 1.080000e-128 470.0
2 TraesCS2D01G263700 chr2D 84.633 436 55 10 2153 2586 616994079 616993654 8.560000e-115 424.0
3 TraesCS2D01G263700 chr2D 88.772 285 28 3 2308 2588 633698898 633699182 1.910000e-91 346.0
4 TraesCS2D01G263700 chr2D 93.496 123 7 1 1941 2063 589708085 589707964 5.690000e-42 182.0
5 TraesCS2D01G263700 chr2B 95.455 1738 41 8 40 1766 390805779 390804069 0.000000e+00 2737.0
6 TraesCS2D01G263700 chr2B 87.218 133 5 4 1747 1879 390802166 390802046 9.660000e-30 141.0
7 TraesCS2D01G263700 chr2B 91.837 49 2 2 454 501 390805762 390805809 1.660000e-07 67.6
8 TraesCS2D01G263700 chr2B 94.286 35 2 0 1853 1887 68335670 68335636 1.000000e-03 54.7
9 TraesCS2D01G263700 chr2A 94.852 1690 54 10 1 1676 408086876 408088546 0.000000e+00 2608.0
10 TraesCS2D01G263700 chr2A 89.680 281 21 8 2314 2588 610718370 610718092 4.100000e-93 351.0
11 TraesCS2D01G263700 chr5A 86.301 657 71 14 1941 2588 581297714 581298360 0.000000e+00 697.0
12 TraesCS2D01G263700 chr1D 86.928 612 46 19 1941 2548 58617510 58616929 0.000000e+00 656.0
13 TraesCS2D01G263700 chr1D 86.448 487 52 9 1882 2359 90139471 90139952 2.950000e-144 521.0
14 TraesCS2D01G263700 chr5B 84.903 669 71 14 1941 2588 615601346 615600687 0.000000e+00 649.0
15 TraesCS2D01G263700 chr7A 84.475 657 83 13 1941 2587 18120620 18119973 4.700000e-177 630.0
16 TraesCS2D01G263700 chr3A 84.462 650 86 13 1944 2588 54671419 54670780 6.080000e-176 627.0
17 TraesCS2D01G263700 chr7D 85.179 614 58 17 1941 2548 397552109 397552695 1.330000e-167 599.0
18 TraesCS2D01G263700 chrUn 84.006 619 81 16 1934 2547 86400046 86399441 1.730000e-161 579.0
19 TraesCS2D01G263700 chr1A 85.192 547 53 12 1941 2486 148951019 148950500 1.050000e-148 536.0
20 TraesCS2D01G263700 chr3D 83.716 436 62 8 2155 2588 104342724 104343152 1.120000e-108 403.0


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 TraesCS2D01G263700 chr2D 322856005 322858592 2587 True 4780 4780 100.0000 1 2588 1 chr2D.!!$R1 2587
1 TraesCS2D01G263700 chr2B 390802046 390805779 3733 True 1439 2737 91.3365 40 1879 2 chr2B.!!$R2 1839
2 TraesCS2D01G263700 chr2A 408086876 408088546 1670 False 2608 2608 94.8520 1 1676 1 chr2A.!!$F1 1675
3 TraesCS2D01G263700 chr5A 581297714 581298360 646 False 697 697 86.3010 1941 2588 1 chr5A.!!$F1 647
4 TraesCS2D01G263700 chr1D 58616929 58617510 581 True 656 656 86.9280 1941 2548 1 chr1D.!!$R1 607
5 TraesCS2D01G263700 chr5B 615600687 615601346 659 True 649 649 84.9030 1941 2588 1 chr5B.!!$R1 647
6 TraesCS2D01G263700 chr7A 18119973 18120620 647 True 630 630 84.4750 1941 2587 1 chr7A.!!$R1 646
7 TraesCS2D01G263700 chr3A 54670780 54671419 639 True 627 627 84.4620 1944 2588 1 chr3A.!!$R1 644
8 TraesCS2D01G263700 chr7D 397552109 397552695 586 False 599 599 85.1790 1941 2548 1 chr7D.!!$F1 607
9 TraesCS2D01G263700 chrUn 86399441 86400046 605 True 579 579 84.0060 1934 2547 1 chrUn.!!$R1 613
10 TraesCS2D01G263700 chr1A 148950500 148951019 519 True 536 536 85.1920 1941 2486 1 chr1A.!!$R1 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
202 212 0.108756 GGAGCTACTTCGGTGACACC 60.109 60.0 15.13 15.13 34.05 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1701 1730 0.185901 GCCCTGCCCCTTTCATCATA 59.814 55.0 0.0 0.0 0.0 2.15 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
18 19 1.531365 CTTCCACTGCAAAGCCCCA 60.531 57.895 0.00 0.00 0.00 4.96
26 27 3.058160 CAAAGCCCCACCTGCTCG 61.058 66.667 0.00 0.00 38.34 5.03
36 37 0.736053 CACCTGCTCGTACTCCTCTC 59.264 60.000 0.00 0.00 0.00 3.20
106 107 1.291877 GCCTCGTGCACCTACACTTG 61.292 60.000 12.15 0.00 40.77 3.16
202 212 0.108756 GGAGCTACTTCGGTGACACC 60.109 60.000 15.13 15.13 34.05 4.16
601 612 1.021390 CAGCAGGAACATGTCGGTCC 61.021 60.000 6.92 6.92 0.00 4.46
654 665 3.305110 CATTGTCGCCACTTGTAAAACC 58.695 45.455 0.00 0.00 0.00 3.27
655 666 0.938713 TGTCGCCACTTGTAAAACCG 59.061 50.000 0.00 0.00 0.00 4.44
720 731 5.183228 GGTTTTAGGATCAGTCGATTTGGA 58.817 41.667 0.00 0.00 29.66 3.53
721 732 5.646360 GGTTTTAGGATCAGTCGATTTGGAA 59.354 40.000 0.00 0.00 29.66 3.53
722 733 6.318900 GGTTTTAGGATCAGTCGATTTGGAAT 59.681 38.462 0.00 0.00 29.66 3.01
723 734 7.148069 GGTTTTAGGATCAGTCGATTTGGAATT 60.148 37.037 0.00 0.00 29.66 2.17
724 735 6.925610 TTAGGATCAGTCGATTTGGAATTG 57.074 37.500 0.00 0.00 29.66 2.32
725 736 4.202441 AGGATCAGTCGATTTGGAATTGG 58.798 43.478 0.00 0.00 29.66 3.16
726 737 4.080356 AGGATCAGTCGATTTGGAATTGGA 60.080 41.667 0.00 0.00 29.66 3.53
951 966 4.783242 CCTAACCACAACTTGTCATTTCG 58.217 43.478 0.00 0.00 0.00 3.46
985 1013 1.436600 CTGCTCTCAAATCACACGCT 58.563 50.000 0.00 0.00 0.00 5.07
986 1014 1.392853 CTGCTCTCAAATCACACGCTC 59.607 52.381 0.00 0.00 0.00 5.03
987 1015 1.270252 TGCTCTCAAATCACACGCTCA 60.270 47.619 0.00 0.00 0.00 4.26
988 1016 1.800586 GCTCTCAAATCACACGCTCAA 59.199 47.619 0.00 0.00 0.00 3.02
989 1017 2.412065 GCTCTCAAATCACACGCTCAAC 60.412 50.000 0.00 0.00 0.00 3.18
1242 1270 3.382832 ACCCAGAACCGGAGCTCG 61.383 66.667 9.46 3.03 38.88 5.03
1602 1631 3.437049 GTCTCTGAGCCACGCTAAAAATT 59.563 43.478 0.00 0.00 39.88 1.82
1611 1640 5.594317 AGCCACGCTAAAAATTCTAATGGAT 59.406 36.000 0.00 0.00 36.99 3.41
1701 1730 1.999048 CATGCATGCATGTTCGGTTT 58.001 45.000 40.30 14.92 46.20 3.27
1759 3709 5.128827 AGCCTCAAATTATAGTGAACGGAGA 59.871 40.000 0.00 0.00 0.00 3.71
1784 3734 6.011096 AGGTCCTACTTTTGGGATTGGATTAA 60.011 38.462 0.00 0.00 33.89 1.40
1789 3739 8.539544 CCTACTTTTGGGATTGGATTAAACAAT 58.460 33.333 8.08 8.08 40.98 2.71
1798 3748 7.828717 GGGATTGGATTAAACAATTGTTGGATT 59.171 33.333 23.93 11.14 38.57 3.01
1875 3825 4.721132 TCAAACCTAACCCGACTTTGAAT 58.279 39.130 0.00 0.00 29.93 2.57
1879 3829 6.564709 AACCTAACCCGACTTTGAATTAAC 57.435 37.500 0.00 0.00 0.00 2.01
1880 3830 5.623169 ACCTAACCCGACTTTGAATTAACA 58.377 37.500 0.00 0.00 0.00 2.41
1881 3831 6.063404 ACCTAACCCGACTTTGAATTAACAA 58.937 36.000 0.00 0.00 0.00 2.83
1882 3832 6.546772 ACCTAACCCGACTTTGAATTAACAAA 59.453 34.615 0.00 0.00 37.98 2.83
1883 3833 7.068470 ACCTAACCCGACTTTGAATTAACAAAA 59.932 33.333 0.00 0.00 38.90 2.44
1884 3834 8.085909 CCTAACCCGACTTTGAATTAACAAAAT 58.914 33.333 0.00 0.00 38.90 1.82
1885 3835 7.940178 AACCCGACTTTGAATTAACAAAATC 57.060 32.000 0.00 0.00 38.90 2.17
1886 3836 7.045126 ACCCGACTTTGAATTAACAAAATCA 57.955 32.000 0.00 0.00 36.30 2.57
1887 3837 6.921307 ACCCGACTTTGAATTAACAAAATCAC 59.079 34.615 0.00 0.00 36.30 3.06
1888 3838 7.145323 CCCGACTTTGAATTAACAAAATCACT 58.855 34.615 0.00 0.00 36.30 3.41
1889 3839 8.293867 CCCGACTTTGAATTAACAAAATCACTA 58.706 33.333 0.00 0.00 36.30 2.74
1890 3840 9.672086 CCGACTTTGAATTAACAAAATCACTAA 57.328 29.630 0.00 0.00 36.30 2.24
1902 3852 7.730364 ACAAAATCACTAATTGAAGAGTCGT 57.270 32.000 0.00 0.00 37.92 4.34
1903 3853 7.576236 ACAAAATCACTAATTGAAGAGTCGTG 58.424 34.615 0.00 0.00 37.92 4.35
1904 3854 6.727824 AAATCACTAATTGAAGAGTCGTGG 57.272 37.500 0.00 0.00 37.92 4.94
1905 3855 4.866508 TCACTAATTGAAGAGTCGTGGT 57.133 40.909 0.00 0.00 0.00 4.16
1906 3856 5.209818 TCACTAATTGAAGAGTCGTGGTT 57.790 39.130 0.00 0.00 0.00 3.67
1907 3857 4.988540 TCACTAATTGAAGAGTCGTGGTTG 59.011 41.667 0.00 0.00 0.00 3.77
1908 3858 3.746492 ACTAATTGAAGAGTCGTGGTTGC 59.254 43.478 0.00 0.00 0.00 4.17
1909 3859 2.254546 ATTGAAGAGTCGTGGTTGCA 57.745 45.000 0.00 0.00 0.00 4.08
1910 3860 2.031258 TTGAAGAGTCGTGGTTGCAA 57.969 45.000 0.00 0.00 0.00 4.08
1911 3861 2.031258 TGAAGAGTCGTGGTTGCAAA 57.969 45.000 0.00 0.00 0.00 3.68
1912 3862 1.939934 TGAAGAGTCGTGGTTGCAAAG 59.060 47.619 0.00 0.00 0.00 2.77
1913 3863 2.210116 GAAGAGTCGTGGTTGCAAAGA 58.790 47.619 0.00 0.00 0.00 2.52
1914 3864 2.550830 AGAGTCGTGGTTGCAAAGAT 57.449 45.000 0.00 0.00 0.00 2.40
1915 3865 2.417719 AGAGTCGTGGTTGCAAAGATC 58.582 47.619 0.00 0.00 0.00 2.75
1916 3866 2.143122 GAGTCGTGGTTGCAAAGATCA 58.857 47.619 0.00 0.00 0.00 2.92
1917 3867 1.873591 AGTCGTGGTTGCAAAGATCAC 59.126 47.619 0.00 7.03 0.00 3.06
1918 3868 1.873591 GTCGTGGTTGCAAAGATCACT 59.126 47.619 0.00 0.00 0.00 3.41
1919 3869 3.064207 GTCGTGGTTGCAAAGATCACTA 58.936 45.455 0.00 0.00 0.00 2.74
1920 3870 3.684788 GTCGTGGTTGCAAAGATCACTAT 59.315 43.478 0.00 0.00 0.00 2.12
1921 3871 4.868171 GTCGTGGTTGCAAAGATCACTATA 59.132 41.667 0.00 0.00 0.00 1.31
1922 3872 5.350365 GTCGTGGTTGCAAAGATCACTATAA 59.650 40.000 0.00 0.00 0.00 0.98
1923 3873 6.037172 GTCGTGGTTGCAAAGATCACTATAAT 59.963 38.462 0.00 0.00 0.00 1.28
1924 3874 6.597672 TCGTGGTTGCAAAGATCACTATAATT 59.402 34.615 0.00 0.00 0.00 1.40
1925 3875 6.907212 CGTGGTTGCAAAGATCACTATAATTC 59.093 38.462 0.00 0.00 0.00 2.17
1926 3876 7.196331 GTGGTTGCAAAGATCACTATAATTCC 58.804 38.462 0.00 0.00 0.00 3.01
1927 3877 6.321181 TGGTTGCAAAGATCACTATAATTCCC 59.679 38.462 0.00 0.00 0.00 3.97
1928 3878 6.239036 GGTTGCAAAGATCACTATAATTCCCC 60.239 42.308 0.00 0.00 0.00 4.81
1929 3879 6.266131 TGCAAAGATCACTATAATTCCCCT 57.734 37.500 0.00 0.00 0.00 4.79
1930 3880 6.064060 TGCAAAGATCACTATAATTCCCCTG 58.936 40.000 0.00 0.00 0.00 4.45
1931 3881 5.474876 GCAAAGATCACTATAATTCCCCTGG 59.525 44.000 0.00 0.00 0.00 4.45
1932 3882 6.605119 CAAAGATCACTATAATTCCCCTGGT 58.395 40.000 0.00 0.00 0.00 4.00
1937 3887 4.785914 TCACTATAATTCCCCTGGTTGTGA 59.214 41.667 0.00 0.00 0.00 3.58
1939 3889 4.788617 ACTATAATTCCCCTGGTTGTGAGT 59.211 41.667 0.00 0.00 0.00 3.41
1957 3907 0.814010 GTCACTTGTCGCAACCTGGT 60.814 55.000 0.00 0.00 0.00 4.00
2026 3977 2.160615 TCAAACCGTGCGTCCAAATATG 59.839 45.455 0.00 0.00 0.00 1.78
2040 3991 4.701956 CAAATATGGAACCGCTTTCACT 57.298 40.909 0.00 0.00 35.70 3.41
2303 4265 1.006102 CACGGCCTTGACTCTCGTT 60.006 57.895 2.29 0.00 31.35 3.85
2318 4280 1.595794 CTCGTTAAAGCACAACCGTGT 59.404 47.619 0.00 0.00 45.50 4.49
2323 4285 2.038387 AAAGCACAACCGTGTCTCTT 57.962 45.000 0.00 0.00 45.50 2.85
2326 4288 1.436195 GCACAACCGTGTCTCTTGCA 61.436 55.000 0.00 0.00 45.50 4.08
2330 4292 1.939934 CAACCGTGTCTCTTGCAGAAA 59.060 47.619 0.00 0.00 30.72 2.52
2337 4299 4.437390 CGTGTCTCTTGCAGAAACAAAACT 60.437 41.667 0.00 0.00 39.19 2.66
2341 4326 4.458989 TCTCTTGCAGAAACAAAACTGTGT 59.541 37.500 0.00 0.00 36.62 3.72
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.376918 GAGCAGGTGGGGCTTTGC 61.377 66.667 0.00 0.00 42.78 3.68
12 13 3.391382 GTACGAGCAGGTGGGGCT 61.391 66.667 0.00 0.00 46.07 5.19
18 19 0.745128 CGAGAGGAGTACGAGCAGGT 60.745 60.000 0.00 0.00 0.00 4.00
202 212 1.583967 GAGGTCGTCGATCACTGCG 60.584 63.158 8.47 0.00 0.00 5.18
538 549 0.528466 CATCCATGACGACGACCAGG 60.528 60.000 0.00 0.00 0.00 4.45
601 612 1.927174 CTAGGAATCAGCGGACAAACG 59.073 52.381 0.00 0.00 0.00 3.60
654 665 6.494893 TTATTTTTGTGGGAGAGATGTTCG 57.505 37.500 0.00 0.00 0.00 3.95
655 666 9.788960 GTATTTATTTTTGTGGGAGAGATGTTC 57.211 33.333 0.00 0.00 0.00 3.18
696 707 4.941263 CCAAATCGACTGATCCTAAAACCA 59.059 41.667 0.00 0.00 32.24 3.67
720 731 2.416547 CGCATCGTGTTCTCTTCCAATT 59.583 45.455 0.00 0.00 0.00 2.32
721 732 2.002586 CGCATCGTGTTCTCTTCCAAT 58.997 47.619 0.00 0.00 0.00 3.16
722 733 1.428448 CGCATCGTGTTCTCTTCCAA 58.572 50.000 0.00 0.00 0.00 3.53
723 734 0.389817 CCGCATCGTGTTCTCTTCCA 60.390 55.000 0.00 0.00 0.00 3.53
724 735 0.389948 ACCGCATCGTGTTCTCTTCC 60.390 55.000 0.00 0.00 0.00 3.46
725 736 0.716108 CACCGCATCGTGTTCTCTTC 59.284 55.000 0.00 0.00 0.00 2.87
726 737 1.291877 GCACCGCATCGTGTTCTCTT 61.292 55.000 0.00 0.00 36.08 2.85
760 771 2.541999 CGCAAGTTTTTAACTCGGCCAA 60.542 45.455 2.24 0.00 41.91 4.52
871 886 1.558756 AGTCCAAGAAGCTGAGATGGG 59.441 52.381 7.89 0.00 0.00 4.00
985 1013 1.963855 CCATTGGCGGTGTCGTTGA 60.964 57.895 0.00 0.00 38.89 3.18
986 1014 2.560861 CCATTGGCGGTGTCGTTG 59.439 61.111 0.00 0.00 38.89 4.10
987 1015 3.361977 GCCATTGGCGGTGTCGTT 61.362 61.111 12.82 0.00 39.62 3.85
997 1025 3.443045 GCGGTGTCTGGCCATTGG 61.443 66.667 5.51 0.00 0.00 3.16
1242 1270 2.743928 CCTGCCTGCTTGGACGAC 60.744 66.667 0.00 0.00 38.35 4.34
1449 1477 1.554042 CCGTGGTGCAGTTGACGTAC 61.554 60.000 0.00 0.00 0.00 3.67
1582 1610 3.686726 AGAATTTTTAGCGTGGCTCAGAG 59.313 43.478 0.00 0.00 40.44 3.35
1602 1631 6.811954 TCAAGTATTACACGCATCCATTAGA 58.188 36.000 0.00 0.00 0.00 2.10
1611 1640 5.006261 CGATTTCCATCAAGTATTACACGCA 59.994 40.000 0.00 0.00 0.00 5.24
1701 1730 0.185901 GCCCTGCCCCTTTCATCATA 59.814 55.000 0.00 0.00 0.00 2.15
1759 3709 3.265489 TCCAATCCCAAAAGTAGGACCT 58.735 45.455 0.00 0.00 34.20 3.85
1813 3763 3.118371 GCCGATTCCTTTCCCTCTAGAAA 60.118 47.826 0.00 0.00 34.64 2.52
1814 3764 2.434702 GCCGATTCCTTTCCCTCTAGAA 59.565 50.000 0.00 0.00 0.00 2.10
1815 3765 2.040178 GCCGATTCCTTTCCCTCTAGA 58.960 52.381 0.00 0.00 0.00 2.43
1816 3766 1.070914 GGCCGATTCCTTTCCCTCTAG 59.929 57.143 0.00 0.00 0.00 2.43
1817 3767 1.129058 GGCCGATTCCTTTCCCTCTA 58.871 55.000 0.00 0.00 0.00 2.43
1818 3768 1.636769 GGGCCGATTCCTTTCCCTCT 61.637 60.000 0.00 0.00 34.19 3.69
1819 3769 1.152943 GGGCCGATTCCTTTCCCTC 60.153 63.158 0.00 0.00 34.19 4.30
1820 3770 1.926426 CTGGGCCGATTCCTTTCCCT 61.926 60.000 0.00 0.00 37.83 4.20
1821 3771 1.453928 CTGGGCCGATTCCTTTCCC 60.454 63.158 0.00 0.00 37.49 3.97
1879 3829 7.017645 CCACGACTCTTCAATTAGTGATTTTG 58.982 38.462 0.00 0.00 35.70 2.44
1880 3830 6.710744 ACCACGACTCTTCAATTAGTGATTTT 59.289 34.615 0.00 0.00 35.70 1.82
1881 3831 6.231211 ACCACGACTCTTCAATTAGTGATTT 58.769 36.000 0.00 0.00 35.70 2.17
1882 3832 5.794894 ACCACGACTCTTCAATTAGTGATT 58.205 37.500 0.00 0.00 35.70 2.57
1883 3833 5.407407 ACCACGACTCTTCAATTAGTGAT 57.593 39.130 0.00 0.00 35.70 3.06
1884 3834 4.866508 ACCACGACTCTTCAATTAGTGA 57.133 40.909 0.00 0.00 0.00 3.41
1885 3835 4.377431 GCAACCACGACTCTTCAATTAGTG 60.377 45.833 0.00 0.00 0.00 2.74
1886 3836 3.746492 GCAACCACGACTCTTCAATTAGT 59.254 43.478 0.00 0.00 0.00 2.24
1887 3837 3.745975 TGCAACCACGACTCTTCAATTAG 59.254 43.478 0.00 0.00 0.00 1.73
1888 3838 3.734463 TGCAACCACGACTCTTCAATTA 58.266 40.909 0.00 0.00 0.00 1.40
1889 3839 2.571212 TGCAACCACGACTCTTCAATT 58.429 42.857 0.00 0.00 0.00 2.32
1890 3840 2.254546 TGCAACCACGACTCTTCAAT 57.745 45.000 0.00 0.00 0.00 2.57
1891 3841 2.031258 TTGCAACCACGACTCTTCAA 57.969 45.000 0.00 0.00 0.00 2.69
1892 3842 1.939934 CTTTGCAACCACGACTCTTCA 59.060 47.619 0.00 0.00 0.00 3.02
1893 3843 2.210116 TCTTTGCAACCACGACTCTTC 58.790 47.619 0.00 0.00 0.00 2.87
1894 3844 2.325583 TCTTTGCAACCACGACTCTT 57.674 45.000 0.00 0.00 0.00 2.85
1895 3845 2.224281 TGATCTTTGCAACCACGACTCT 60.224 45.455 0.00 0.00 0.00 3.24
1896 3846 2.096218 GTGATCTTTGCAACCACGACTC 60.096 50.000 0.00 0.00 0.00 3.36
1897 3847 1.873591 GTGATCTTTGCAACCACGACT 59.126 47.619 0.00 0.00 0.00 4.18
1898 3848 1.873591 AGTGATCTTTGCAACCACGAC 59.126 47.619 0.00 0.00 33.37 4.34
1899 3849 2.254546 AGTGATCTTTGCAACCACGA 57.745 45.000 0.00 0.00 33.37 4.35
1900 3850 5.794687 TTATAGTGATCTTTGCAACCACG 57.205 39.130 0.00 0.00 33.37 4.94
1901 3851 7.196331 GGAATTATAGTGATCTTTGCAACCAC 58.804 38.462 0.00 5.52 0.00 4.16
1902 3852 6.321181 GGGAATTATAGTGATCTTTGCAACCA 59.679 38.462 0.00 0.00 0.00 3.67
1903 3853 6.239036 GGGGAATTATAGTGATCTTTGCAACC 60.239 42.308 0.00 0.00 0.00 3.77
1904 3854 6.547510 AGGGGAATTATAGTGATCTTTGCAAC 59.452 38.462 0.00 0.00 0.00 4.17
1905 3855 6.547141 CAGGGGAATTATAGTGATCTTTGCAA 59.453 38.462 0.00 0.00 0.00 4.08
1906 3856 6.064060 CAGGGGAATTATAGTGATCTTTGCA 58.936 40.000 0.00 0.00 0.00 4.08
1907 3857 5.474876 CCAGGGGAATTATAGTGATCTTTGC 59.525 44.000 0.00 0.00 0.00 3.68
1908 3858 6.605119 ACCAGGGGAATTATAGTGATCTTTG 58.395 40.000 0.00 0.00 0.00 2.77
1909 3859 6.848562 ACCAGGGGAATTATAGTGATCTTT 57.151 37.500 0.00 0.00 0.00 2.52
1910 3860 6.160459 ACAACCAGGGGAATTATAGTGATCTT 59.840 38.462 0.00 0.00 0.00 2.40
1911 3861 5.672194 ACAACCAGGGGAATTATAGTGATCT 59.328 40.000 0.00 0.00 0.00 2.75
1912 3862 5.765182 CACAACCAGGGGAATTATAGTGATC 59.235 44.000 0.00 0.00 0.00 2.92
1913 3863 5.431731 TCACAACCAGGGGAATTATAGTGAT 59.568 40.000 0.00 0.00 0.00 3.06
1914 3864 4.785914 TCACAACCAGGGGAATTATAGTGA 59.214 41.667 0.00 0.00 0.00 3.41
1915 3865 5.110814 TCACAACCAGGGGAATTATAGTG 57.889 43.478 0.00 0.00 0.00 2.74
1916 3866 4.788617 ACTCACAACCAGGGGAATTATAGT 59.211 41.667 0.00 0.00 0.00 2.12
1917 3867 5.104527 TGACTCACAACCAGGGGAATTATAG 60.105 44.000 0.00 0.00 0.00 1.31
1918 3868 4.785914 TGACTCACAACCAGGGGAATTATA 59.214 41.667 0.00 0.00 0.00 0.98
1919 3869 3.591527 TGACTCACAACCAGGGGAATTAT 59.408 43.478 0.00 0.00 0.00 1.28
1920 3870 2.983192 TGACTCACAACCAGGGGAATTA 59.017 45.455 0.00 0.00 0.00 1.40
1921 3871 1.780309 TGACTCACAACCAGGGGAATT 59.220 47.619 0.00 0.00 0.00 2.17
1922 3872 1.073923 GTGACTCACAACCAGGGGAAT 59.926 52.381 4.17 0.00 34.08 3.01
1923 3873 0.472471 GTGACTCACAACCAGGGGAA 59.528 55.000 4.17 0.00 34.08 3.97
1924 3874 0.399949 AGTGACTCACAACCAGGGGA 60.400 55.000 11.80 0.00 36.74 4.81
1925 3875 0.474184 AAGTGACTCACAACCAGGGG 59.526 55.000 11.80 0.00 36.74 4.79
1926 3876 1.134098 ACAAGTGACTCACAACCAGGG 60.134 52.381 11.80 0.00 36.74 4.45
1927 3877 2.213499 GACAAGTGACTCACAACCAGG 58.787 52.381 11.80 0.00 36.74 4.45
1928 3878 1.860950 CGACAAGTGACTCACAACCAG 59.139 52.381 11.80 0.00 36.74 4.00
1929 3879 1.934589 CGACAAGTGACTCACAACCA 58.065 50.000 11.80 0.00 36.74 3.67
1930 3880 0.582005 GCGACAAGTGACTCACAACC 59.418 55.000 11.80 0.00 36.74 3.77
1931 3881 1.286501 TGCGACAAGTGACTCACAAC 58.713 50.000 11.80 0.00 36.74 3.32
1932 3882 1.663643 GTTGCGACAAGTGACTCACAA 59.336 47.619 11.80 0.00 36.74 3.33
1937 3887 0.532862 CCAGGTTGCGACAAGTGACT 60.533 55.000 6.39 0.00 0.00 3.41
1939 3889 0.753867 TACCAGGTTGCGACAAGTGA 59.246 50.000 6.39 0.00 0.00 3.41
2026 3977 0.310854 CCAACAGTGAAAGCGGTTCC 59.689 55.000 0.00 0.00 35.12 3.62
2040 3991 1.445410 CGACGCGAGGAATCCAACA 60.445 57.895 15.93 0.00 0.00 3.33
2120 4073 1.371267 GTTCGGCTTTTTGTCCGGC 60.371 57.895 0.00 0.00 45.31 6.13
2122 4075 1.082366 CGGTTCGGCTTTTTGTCCG 60.082 57.895 0.00 0.00 46.52 4.79
2158 4112 1.508632 CGTGCCTCTTTCGAAAAGGA 58.491 50.000 28.33 17.09 31.44 3.36
2225 4180 4.330944 TTTTCTTCCGCAAGAGTCACTA 57.669 40.909 0.00 0.00 39.90 2.74
2318 4280 4.458989 ACACAGTTTTGTTTCTGCAAGAGA 59.541 37.500 0.00 0.00 39.15 3.10
2323 4285 4.009675 AGAGACACAGTTTTGTTTCTGCA 58.990 39.130 1.46 0.00 42.76 4.41
2326 4288 4.437390 CGCAAGAGACACAGTTTTGTTTCT 60.437 41.667 0.00 0.00 44.77 2.52
2330 4292 1.670811 CCGCAAGAGACACAGTTTTGT 59.329 47.619 0.00 0.00 43.02 2.83
2337 4299 1.445518 TGCTTCCGCAAGAGACACA 59.554 52.632 0.00 0.00 44.62 3.72
2520 4559 3.941657 GAGTCACAGCCGTGCCTCC 62.942 68.421 0.00 0.00 41.31 4.30
2531 4570 0.939577 GTGCTTTCGCGAGAGTCACA 60.940 55.000 30.42 19.25 43.69 3.58


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

AutoCloner maintained by Alex Coulton.