Multiple sequence alignment - TraesCS6B01G173400

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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 TraesCS6B01G173400 chr6B 100.000 3585 0 0 1 3585 187830500 187834084 0.000000e+00 6621.0
1 TraesCS6B01G173400 chr6B 97.143 35 0 1 1782 1815 153419636 153419602 1.390000e-04 58.4
2 TraesCS6B01G173400 chr6D 96.542 1793 49 6 1 1785 102113987 102115774 0.000000e+00 2955.0
3 TraesCS6B01G173400 chr6D 95.256 1581 46 13 2022 3585 102115777 102117345 0.000000e+00 2477.0
4 TraesCS6B01G173400 chr6D 98.315 178 1 1 1819 1994 128903074 128903251 9.670000e-81 311.0
5 TraesCS6B01G173400 chr6A 95.139 1584 39 15 2022 3584 123446969 123448535 0.000000e+00 2464.0
6 TraesCS6B01G173400 chr6A 96.453 1297 29 9 497 1785 123445679 123446966 0.000000e+00 2124.0
7 TraesCS6B01G173400 chr6A 95.381 433 20 0 1 433 123445229 123445661 0.000000e+00 689.0
8 TraesCS6B01G173400 chr3B 99.432 176 1 0 1819 1994 729209751 729209926 1.610000e-83 320.0
9 TraesCS6B01G173400 chr3B 98.315 178 3 0 1821 1998 479903780 479903603 2.690000e-81 313.0
10 TraesCS6B01G173400 chr2A 98.876 178 1 1 1819 1996 127215394 127215218 2.080000e-82 316.0
11 TraesCS6B01G173400 chr3A 98.857 175 2 0 1819 1993 259336884 259337058 2.690000e-81 313.0
12 TraesCS6B01G173400 chr2B 98.315 178 1 1 1819 1996 409336391 409336566 9.670000e-81 311.0
13 TraesCS6B01G173400 chr2B 100.000 37 0 0 1782 1818 765093022 765092986 6.420000e-08 69.4
14 TraesCS6B01G173400 chr7B 97.268 183 4 1 1819 2000 410845971 410845789 3.480000e-80 309.0
15 TraesCS6B01G173400 chr7B 97.765 179 3 1 1819 1997 68862202 68862025 1.250000e-79 307.0
16 TraesCS6B01G173400 chr7A 97.238 181 4 1 1819 1999 105168820 105168999 4.500000e-79 305.0
17 TraesCS6B01G173400 chr7A 100.000 37 0 0 1782 1818 95881832 95881868 6.420000e-08 69.4
18 TraesCS6B01G173400 chr1A 100.000 37 0 0 1782 1818 486586895 486586859 6.420000e-08 69.4
19 TraesCS6B01G173400 chr3D 97.436 39 0 1 1777 1815 39994233 39994196 8.310000e-07 65.8
20 TraesCS6B01G173400 chr5B 97.059 34 0 1 1782 1815 460224545 460224513 5.000000e-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 TraesCS6B01G173400 chr6B 187830500 187834084 3584 False 6621 6621 100.000000 1 3585 1 chr6B.!!$F1 3584
1 TraesCS6B01G173400 chr6D 102113987 102117345 3358 False 2716 2955 95.899000 1 3585 2 chr6D.!!$F2 3584
2 TraesCS6B01G173400 chr6A 123445229 123448535 3306 False 1759 2464 95.657667 1 3584 3 chr6A.!!$F1 3583

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
945 946 0.394899 CATCAAAGCTCCCCACTCCC 60.395 60.0 0.00 0.0 0.00 4.30 F
1830 1839 0.179043 TTTTGACTGGCGCAGTGGTA 60.179 50.0 10.83 0.0 45.44 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1837 1846 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.0 0.0 44.78 4.85 R
3185 3216 1.894466 CAACTGCCCATGATTCCACAA 59.106 47.619 0.0 0.0 0.00 3.33 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
119 120 4.114997 CCGTTTGCATGCCGTCCC 62.115 66.667 16.68 0.00 0.00 4.46
245 246 2.590821 GGCATCAATCAGGCTTACCAT 58.409 47.619 0.00 0.00 39.06 3.55
359 360 8.046708 TGCATACAGTAATTCAACCTGATACTT 58.953 33.333 0.00 0.00 0.00 2.24
400 401 5.352643 AAAACTTATGTTCACGCAGGTAC 57.647 39.130 0.00 0.00 34.96 3.34
464 465 7.559590 ACATTCTATTGGAACTGCATTACTC 57.440 36.000 0.00 0.00 36.70 2.59
468 469 6.291377 TCTATTGGAACTGCATTACTCATCC 58.709 40.000 0.00 0.00 0.00 3.51
470 471 2.213499 GGAACTGCATTACTCATCCGG 58.787 52.381 0.00 0.00 0.00 5.14
576 577 8.618240 TTCTAGGAGGATCAACTTTACCAATA 57.382 34.615 0.00 0.00 36.25 1.90
621 622 4.240096 CGAAATGATTTTGCAGCTCCTTT 58.760 39.130 0.00 0.00 0.00 3.11
747 748 3.879892 TGCACAAAGTAACTACACATGCA 59.120 39.130 0.00 0.00 38.17 3.96
748 749 4.219033 GCACAAAGTAACTACACATGCAC 58.781 43.478 0.00 0.00 0.00 4.57
842 843 9.512588 AAAGCTCTAGCAATGCAAGTATATAAT 57.487 29.630 8.35 0.00 45.16 1.28
878 879 3.389656 GCTGGTCTAATCCTTCTTAGCCT 59.610 47.826 0.00 0.00 31.61 4.58
888 889 6.869206 ATCCTTCTTAGCCTACTAAACACA 57.131 37.500 0.00 0.00 37.91 3.72
927 928 3.819337 ACAAGCTACACGTACTCTCTTCA 59.181 43.478 0.00 0.00 0.00 3.02
945 946 0.394899 CATCAAAGCTCCCCACTCCC 60.395 60.000 0.00 0.00 0.00 4.30
1017 1018 4.598036 AATCATGGTGAGAATTCCCACT 57.402 40.909 18.23 0.00 33.99 4.00
1140 1142 3.495806 CCCTCAGCACAGAGAAGTTCTTT 60.496 47.826 6.88 0.00 37.87 2.52
1591 1600 2.873472 AGTAGAACTCGCGATCTAGTGG 59.127 50.000 20.84 6.96 32.05 4.00
1712 1721 3.270027 TCAACTGAATTACGATGGCTGG 58.730 45.455 0.00 0.00 0.00 4.85
1760 1769 4.698583 AAATGAGAGAAGCAGCACAATC 57.301 40.909 0.00 0.00 0.00 2.67
1770 1779 4.484537 AGCAGCACAATCTTGATCTAGT 57.515 40.909 4.06 0.00 0.00 2.57
1786 1795 9.589111 CTTGATCTAGTTTCTAAAAGGTACTCC 57.411 37.037 0.00 0.00 38.49 3.85
1787 1796 8.075761 TGATCTAGTTTCTAAAAGGTACTCCC 57.924 38.462 0.00 0.00 38.49 4.30
1789 1798 7.715266 TCTAGTTTCTAAAAGGTACTCCCTC 57.285 40.000 0.00 0.00 45.47 4.30
1790 1799 5.758790 AGTTTCTAAAAGGTACTCCCTCC 57.241 43.478 0.00 0.00 45.47 4.30
1791 1800 5.160386 AGTTTCTAAAAGGTACTCCCTCCA 58.840 41.667 0.00 0.00 45.47 3.86
1792 1801 5.791141 AGTTTCTAAAAGGTACTCCCTCCAT 59.209 40.000 0.00 0.00 45.47 3.41
1793 1802 6.274908 AGTTTCTAAAAGGTACTCCCTCCATT 59.725 38.462 0.00 0.00 45.47 3.16
1794 1803 6.713731 TTCTAAAAGGTACTCCCTCCATTT 57.286 37.500 0.00 0.00 45.47 2.32
1795 1804 6.309389 TCTAAAAGGTACTCCCTCCATTTC 57.691 41.667 0.00 0.00 45.47 2.17
1796 1805 5.788533 TCTAAAAGGTACTCCCTCCATTTCA 59.211 40.000 0.00 0.00 45.47 2.69
1797 1806 5.536497 AAAAGGTACTCCCTCCATTTCAT 57.464 39.130 0.00 0.00 45.47 2.57
1798 1807 6.652205 AAAAGGTACTCCCTCCATTTCATA 57.348 37.500 0.00 0.00 45.47 2.15
1799 1808 6.652205 AAAGGTACTCCCTCCATTTCATAA 57.348 37.500 0.00 0.00 45.47 1.90
1800 1809 6.848562 AAGGTACTCCCTCCATTTCATAAT 57.151 37.500 0.00 0.00 45.47 1.28
1801 1810 7.947782 AAGGTACTCCCTCCATTTCATAATA 57.052 36.000 0.00 0.00 45.47 0.98
1802 1811 8.525729 AAGGTACTCCCTCCATTTCATAATAT 57.474 34.615 0.00 0.00 45.47 1.28
1803 1812 9.629649 AAGGTACTCCCTCCATTTCATAATATA 57.370 33.333 0.00 0.00 45.47 0.86
1804 1813 9.629649 AGGTACTCCCTCCATTTCATAATATAA 57.370 33.333 0.00 0.00 40.71 0.98
1805 1814 9.892130 GGTACTCCCTCCATTTCATAATATAAG 57.108 37.037 0.00 0.00 0.00 1.73
1808 1817 8.325046 ACTCCCTCCATTTCATAATATAAGAGC 58.675 37.037 0.00 0.00 0.00 4.09
1809 1818 7.331026 TCCCTCCATTTCATAATATAAGAGCG 58.669 38.462 0.00 0.00 0.00 5.03
1810 1819 7.038302 TCCCTCCATTTCATAATATAAGAGCGT 60.038 37.037 0.00 0.00 0.00 5.07
1811 1820 7.607991 CCCTCCATTTCATAATATAAGAGCGTT 59.392 37.037 0.00 0.00 0.00 4.84
1812 1821 9.003658 CCTCCATTTCATAATATAAGAGCGTTT 57.996 33.333 0.00 0.00 0.00 3.60
1820 1829 8.826710 TCATAATATAAGAGCGTTTTTGACTGG 58.173 33.333 0.00 0.00 0.00 4.00
1821 1830 3.831715 ATAAGAGCGTTTTTGACTGGC 57.168 42.857 0.00 0.00 0.00 4.85
1822 1831 0.307760 AAGAGCGTTTTTGACTGGCG 59.692 50.000 0.00 0.00 0.00 5.69
1824 1833 2.025441 GCGTTTTTGACTGGCGCA 59.975 55.556 10.83 0.00 46.23 6.09
1825 1834 2.010817 GCGTTTTTGACTGGCGCAG 61.011 57.895 10.83 7.58 46.23 5.18
1827 1836 0.929824 CGTTTTTGACTGGCGCAGTG 60.930 55.000 10.83 0.00 45.44 3.66
1828 1837 0.594796 GTTTTTGACTGGCGCAGTGG 60.595 55.000 10.83 0.00 45.44 4.00
1829 1838 1.034838 TTTTTGACTGGCGCAGTGGT 61.035 50.000 10.83 1.00 45.44 4.16
1830 1839 0.179043 TTTTGACTGGCGCAGTGGTA 60.179 50.000 10.83 0.00 45.44 3.25
1831 1840 0.179043 TTTGACTGGCGCAGTGGTAA 60.179 50.000 10.83 3.72 45.44 2.85
1832 1841 0.179043 TTGACTGGCGCAGTGGTAAA 60.179 50.000 10.83 0.00 45.44 2.01
1833 1842 0.602638 TGACTGGCGCAGTGGTAAAG 60.603 55.000 10.83 0.00 45.44 1.85
1834 1843 1.912371 GACTGGCGCAGTGGTAAAGC 61.912 60.000 10.83 0.00 45.44 3.51
1835 1844 1.672356 CTGGCGCAGTGGTAAAGCT 60.672 57.895 10.83 0.00 0.00 3.74
1836 1845 1.915614 CTGGCGCAGTGGTAAAGCTG 61.916 60.000 10.83 0.00 35.93 4.24
1841 1850 1.878775 CAGTGGTAAAGCTGCTGCC 59.121 57.895 12.44 7.07 40.80 4.85
1842 1851 0.607489 CAGTGGTAAAGCTGCTGCCT 60.607 55.000 12.44 2.45 40.80 4.75
1843 1852 0.111253 AGTGGTAAAGCTGCTGCCTT 59.889 50.000 12.44 8.34 40.80 4.35
1844 1853 0.242017 GTGGTAAAGCTGCTGCCTTG 59.758 55.000 12.44 0.00 40.80 3.61
1845 1854 0.178992 TGGTAAAGCTGCTGCCTTGT 60.179 50.000 12.44 0.00 40.80 3.16
1846 1855 0.242017 GGTAAAGCTGCTGCCTTGTG 59.758 55.000 12.44 0.00 40.80 3.33
1847 1856 1.238439 GTAAAGCTGCTGCCTTGTGA 58.762 50.000 12.44 0.00 40.80 3.58
1848 1857 1.068954 GTAAAGCTGCTGCCTTGTGAC 60.069 52.381 12.44 0.00 40.80 3.67
1849 1858 1.458639 AAAGCTGCTGCCTTGTGACC 61.459 55.000 12.44 0.00 40.80 4.02
1850 1859 2.595463 GCTGCTGCCTTGTGACCA 60.595 61.111 3.85 0.00 0.00 4.02
1851 1860 1.975407 GCTGCTGCCTTGTGACCAT 60.975 57.895 3.85 0.00 0.00 3.55
1852 1861 1.880894 CTGCTGCCTTGTGACCATG 59.119 57.895 0.00 0.00 0.00 3.66
1853 1862 0.607217 CTGCTGCCTTGTGACCATGA 60.607 55.000 0.00 0.00 0.00 3.07
1854 1863 0.607217 TGCTGCCTTGTGACCATGAG 60.607 55.000 0.00 0.00 0.00 2.90
1855 1864 1.310933 GCTGCCTTGTGACCATGAGG 61.311 60.000 0.00 0.00 42.21 3.86
1865 1874 4.617875 CCATGAGGTCACGGGTTC 57.382 61.111 0.00 0.00 0.00 3.62
1866 1875 1.676968 CCATGAGGTCACGGGTTCA 59.323 57.895 0.00 0.00 0.00 3.18
1867 1876 0.036164 CCATGAGGTCACGGGTTCAA 59.964 55.000 0.00 0.00 0.00 2.69
1868 1877 1.442769 CATGAGGTCACGGGTTCAAG 58.557 55.000 0.00 0.00 0.00 3.02
1869 1878 1.056660 ATGAGGTCACGGGTTCAAGT 58.943 50.000 0.00 0.00 0.00 3.16
1870 1879 0.391597 TGAGGTCACGGGTTCAAGTC 59.608 55.000 0.00 0.00 0.00 3.01
1871 1880 0.320508 GAGGTCACGGGTTCAAGTCC 60.321 60.000 0.00 0.00 0.00 3.85
1872 1881 0.763223 AGGTCACGGGTTCAAGTCCT 60.763 55.000 0.00 0.00 0.00 3.85
1873 1882 0.602905 GGTCACGGGTTCAAGTCCTG 60.603 60.000 0.00 0.00 37.36 3.86
1874 1883 0.602905 GTCACGGGTTCAAGTCCTGG 60.603 60.000 0.00 0.00 35.79 4.45
1875 1884 0.761323 TCACGGGTTCAAGTCCTGGA 60.761 55.000 0.00 0.00 35.79 3.86
1876 1885 0.107831 CACGGGTTCAAGTCCTGGAA 59.892 55.000 0.00 0.00 35.79 3.53
1877 1886 0.841289 ACGGGTTCAAGTCCTGGAAA 59.159 50.000 0.00 0.00 35.79 3.13
1878 1887 1.235724 CGGGTTCAAGTCCTGGAAAC 58.764 55.000 0.00 0.00 0.00 2.78
1879 1888 1.476110 CGGGTTCAAGTCCTGGAAACA 60.476 52.381 0.00 0.00 32.36 2.83
1890 1899 3.025924 TGGAAACAGCCTCTTGCAG 57.974 52.632 0.00 0.00 44.83 4.41
1891 1900 0.473755 TGGAAACAGCCTCTTGCAGA 59.526 50.000 0.00 0.00 44.83 4.26
1892 1901 1.133823 TGGAAACAGCCTCTTGCAGAA 60.134 47.619 0.00 0.00 44.83 3.02
1893 1902 1.956477 GGAAACAGCCTCTTGCAGAAA 59.044 47.619 0.00 0.00 44.83 2.52
1894 1903 2.560105 GGAAACAGCCTCTTGCAGAAAT 59.440 45.455 0.00 0.00 44.83 2.17
1895 1904 3.572584 GAAACAGCCTCTTGCAGAAATG 58.427 45.455 0.00 0.00 44.83 2.32
1896 1905 2.283145 ACAGCCTCTTGCAGAAATGT 57.717 45.000 0.00 0.00 44.83 2.71
1897 1906 3.423539 ACAGCCTCTTGCAGAAATGTA 57.576 42.857 0.00 0.00 44.83 2.29
1898 1907 3.341823 ACAGCCTCTTGCAGAAATGTAG 58.658 45.455 0.00 0.00 44.83 2.74
1899 1908 2.681848 CAGCCTCTTGCAGAAATGTAGG 59.318 50.000 0.00 0.00 44.83 3.18
1900 1909 2.019984 GCCTCTTGCAGAAATGTAGGG 58.980 52.381 0.00 0.00 40.77 3.53
1901 1910 2.356125 GCCTCTTGCAGAAATGTAGGGA 60.356 50.000 0.00 0.00 40.77 4.20
1902 1911 3.873801 GCCTCTTGCAGAAATGTAGGGAA 60.874 47.826 0.00 0.00 40.77 3.97
1903 1912 4.335416 CCTCTTGCAGAAATGTAGGGAAA 58.665 43.478 0.00 0.00 0.00 3.13
1904 1913 4.397417 CCTCTTGCAGAAATGTAGGGAAAG 59.603 45.833 0.00 0.00 0.00 2.62
1905 1914 4.335416 TCTTGCAGAAATGTAGGGAAAGG 58.665 43.478 0.00 0.00 0.00 3.11
1906 1915 2.446435 TGCAGAAATGTAGGGAAAGGC 58.554 47.619 0.00 0.00 0.00 4.35
1907 1916 2.041620 TGCAGAAATGTAGGGAAAGGCT 59.958 45.455 0.00 0.00 0.00 4.58
1908 1917 2.424956 GCAGAAATGTAGGGAAAGGCTG 59.575 50.000 0.00 0.00 0.00 4.85
1909 1918 2.424956 CAGAAATGTAGGGAAAGGCTGC 59.575 50.000 0.00 0.00 0.00 5.25
1910 1919 2.041620 AGAAATGTAGGGAAAGGCTGCA 59.958 45.455 0.50 0.00 0.00 4.41
1911 1920 2.834638 AATGTAGGGAAAGGCTGCAT 57.165 45.000 0.50 0.00 0.00 3.96
1912 1921 3.951563 AATGTAGGGAAAGGCTGCATA 57.048 42.857 0.50 0.00 0.00 3.14
1913 1922 2.710096 TGTAGGGAAAGGCTGCATAC 57.290 50.000 0.50 0.00 33.66 2.39
1914 1923 1.912731 TGTAGGGAAAGGCTGCATACA 59.087 47.619 0.50 0.00 39.88 2.29
1915 1924 2.307392 TGTAGGGAAAGGCTGCATACAA 59.693 45.455 0.50 0.00 39.32 2.41
1916 1925 2.834638 AGGGAAAGGCTGCATACAAT 57.165 45.000 0.50 0.00 0.00 2.71
1917 1926 3.951563 AGGGAAAGGCTGCATACAATA 57.048 42.857 0.50 0.00 0.00 1.90
1918 1927 3.825328 AGGGAAAGGCTGCATACAATAG 58.175 45.455 0.50 0.00 0.00 1.73
1919 1928 3.459598 AGGGAAAGGCTGCATACAATAGA 59.540 43.478 0.50 0.00 0.00 1.98
1920 1929 3.565902 GGGAAAGGCTGCATACAATAGAC 59.434 47.826 0.50 0.00 0.00 2.59
1921 1930 3.565902 GGAAAGGCTGCATACAATAGACC 59.434 47.826 0.50 0.00 0.00 3.85
1922 1931 2.938956 AGGCTGCATACAATAGACCC 57.061 50.000 0.50 0.00 0.00 4.46
1923 1932 2.126882 AGGCTGCATACAATAGACCCA 58.873 47.619 0.50 0.00 0.00 4.51
1924 1933 2.509548 AGGCTGCATACAATAGACCCAA 59.490 45.455 0.50 0.00 0.00 4.12
1925 1934 3.053693 AGGCTGCATACAATAGACCCAAA 60.054 43.478 0.50 0.00 0.00 3.28
1926 1935 3.316308 GGCTGCATACAATAGACCCAAAG 59.684 47.826 0.50 0.00 0.00 2.77
1927 1936 3.947834 GCTGCATACAATAGACCCAAAGT 59.052 43.478 0.00 0.00 0.00 2.66
1928 1937 4.201950 GCTGCATACAATAGACCCAAAGTG 60.202 45.833 0.00 0.00 0.00 3.16
1929 1938 4.269183 TGCATACAATAGACCCAAAGTGG 58.731 43.478 0.00 0.00 37.25 4.00
1930 1939 4.263727 TGCATACAATAGACCCAAAGTGGT 60.264 41.667 0.00 0.00 42.79 4.16
1935 1944 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
1936 1945 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
1937 1946 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
1938 1947 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
1939 1948 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
1940 1949 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
1941 1950 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
1942 1951 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
1943 1952 3.714001 GTGGTCGGACCCTTCCCC 61.714 72.222 23.81 0.00 38.99 4.81
1944 1953 4.257810 TGGTCGGACCCTTCCCCA 62.258 66.667 23.81 0.69 38.99 4.96
1945 1954 3.400054 GGTCGGACCCTTCCCCAG 61.400 72.222 16.55 0.00 38.99 4.45
1946 1955 2.284405 GTCGGACCCTTCCCCAGA 60.284 66.667 0.00 0.00 38.99 3.86
1947 1956 2.284405 TCGGACCCTTCCCCAGAC 60.284 66.667 0.00 0.00 38.99 3.51
1948 1957 3.400054 CGGACCCTTCCCCAGACC 61.400 72.222 0.00 0.00 38.99 3.85
1949 1958 3.015753 GGACCCTTCCCCAGACCC 61.016 72.222 0.00 0.00 35.57 4.46
1950 1959 2.125225 GACCCTTCCCCAGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
1951 1960 2.204151 ACCCTTCCCCAGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
1952 1961 3.732849 CCCTTCCCCAGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
1953 1962 4.101448 CCTTCCCCAGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
1954 1963 4.785453 CTTCCCCAGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
1975 1984 4.115279 CGGGAGCTACATGCACTG 57.885 61.111 0.00 0.00 45.94 3.66
1976 1985 1.522355 CGGGAGCTACATGCACTGG 60.522 63.158 0.00 0.00 45.94 4.00
1977 1986 1.153086 GGGAGCTACATGCACTGGG 60.153 63.158 0.00 0.00 45.94 4.45
1978 1987 1.153086 GGAGCTACATGCACTGGGG 60.153 63.158 0.00 0.00 45.94 4.96
1979 1988 1.821332 GAGCTACATGCACTGGGGC 60.821 63.158 0.00 0.00 45.94 5.80
1980 1989 2.262774 GAGCTACATGCACTGGGGCT 62.263 60.000 13.29 13.29 45.94 5.19
1981 1990 2.117156 GCTACATGCACTGGGGCTG 61.117 63.158 0.00 0.00 42.31 4.85
1982 1991 2.045045 TACATGCACTGGGGCTGC 60.045 61.111 0.00 0.00 35.03 5.25
1983 1992 3.643595 TACATGCACTGGGGCTGCC 62.644 63.158 11.05 11.05 33.36 4.85
2046 2055 7.798596 CTACAATAGCATCTGACCTCATTTT 57.201 36.000 0.00 0.00 0.00 1.82
2048 2057 6.421485 ACAATAGCATCTGACCTCATTTTCT 58.579 36.000 0.00 0.00 0.00 2.52
2130 2140 9.110502 GCTGGTAGAAGCACTATAAAGTAAAAT 57.889 33.333 0.00 0.00 43.01 1.82
2380 2393 1.785430 CATGACGCTGATGATGAGACG 59.215 52.381 0.00 0.00 0.00 4.18
2521 2534 0.036010 CTGCAAACCGGGTCTCTGAT 60.036 55.000 6.32 0.00 0.00 2.90
2773 2786 8.248945 ACCAGTTCATATATATGTACGCCTTAC 58.751 37.037 19.78 8.39 38.50 2.34
3007 3025 6.648879 AAGAGTGTATTTTTGGCTAAGCAA 57.351 33.333 0.00 0.00 0.00 3.91
3008 3026 6.259550 AGAGTGTATTTTTGGCTAAGCAAG 57.740 37.500 0.00 0.00 0.00 4.01
3010 3028 5.076873 AGTGTATTTTTGGCTAAGCAAGGA 58.923 37.500 0.00 0.00 0.00 3.36
3011 3029 5.538433 AGTGTATTTTTGGCTAAGCAAGGAA 59.462 36.000 0.00 0.00 0.00 3.36
3012 3030 6.211384 AGTGTATTTTTGGCTAAGCAAGGAAT 59.789 34.615 0.00 0.00 0.00 3.01
3077 3108 6.215845 CAGAGGGGTTGTTTTGAAATGTAAG 58.784 40.000 0.00 0.00 0.00 2.34
3168 3199 8.923270 TGTAATCATCATATCTACCACACAAGA 58.077 33.333 0.00 0.00 0.00 3.02
3185 3216 7.119262 CCACACAAGAAATCTACCGTAGATTTT 59.881 37.037 32.62 23.56 46.32 1.82
3214 3245 2.137523 CATGGGCAGTTGCAGTTTTTC 58.862 47.619 6.43 0.00 44.36 2.29
3218 3249 3.270027 GGGCAGTTGCAGTTTTTCTTTT 58.730 40.909 6.43 0.00 44.36 2.27
3219 3250 3.309682 GGGCAGTTGCAGTTTTTCTTTTC 59.690 43.478 6.43 0.00 44.36 2.29
3220 3251 3.932089 GGCAGTTGCAGTTTTTCTTTTCA 59.068 39.130 6.43 0.00 44.36 2.69
3221 3252 4.033243 GGCAGTTGCAGTTTTTCTTTTCAG 59.967 41.667 6.43 0.00 44.36 3.02
3222 3253 4.627035 GCAGTTGCAGTTTTTCTTTTCAGT 59.373 37.500 0.00 0.00 41.59 3.41
3243 3274 8.402798 TCAGTGAAATAGCAATTGACCTAAAA 57.597 30.769 10.34 0.00 0.00 1.52
3372 3403 6.721318 ACAATATTCTAAGCCCTGTTCTGAA 58.279 36.000 0.00 0.00 0.00 3.02
3391 3422 8.717821 GTTCTGAACACTAGCAATTATTACACA 58.282 33.333 15.34 0.00 0.00 3.72
3467 3498 2.560504 AGTCATGAAACAACAGCGACA 58.439 42.857 0.00 0.00 32.32 4.35
3531 3563 8.772250 TCTACTACCCTGATTTCAGAAATGAAT 58.228 33.333 13.38 0.00 46.59 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
119 120 3.612423 TGTATTTCACAGATGCTCGTTCG 59.388 43.478 0.00 0.00 31.89 3.95
245 246 8.450578 AAACAAAACAGATCATCACAGTTAGA 57.549 30.769 0.00 0.00 0.00 2.10
377 378 4.911514 ACCTGCGTGAACATAAGTTTTT 57.088 36.364 0.00 0.00 38.30 1.94
464 465 2.186903 CAGGTTCGTCCCCGGATG 59.813 66.667 0.73 0.00 36.75 3.51
468 469 0.533308 TTTTGTCAGGTTCGTCCCCG 60.533 55.000 0.00 0.00 36.75 5.73
470 471 1.963172 AGTTTTGTCAGGTTCGTCCC 58.037 50.000 0.00 0.00 36.75 4.46
553 554 8.705594 TCTTATTGGTAAAGTTGATCCTCCTAG 58.294 37.037 0.00 0.00 0.00 3.02
673 674 0.902531 GTAGCCTTGTAGGTGCCAGA 59.097 55.000 0.00 0.00 37.80 3.86
675 676 1.060729 TTGTAGCCTTGTAGGTGCCA 58.939 50.000 0.00 0.00 37.80 4.92
747 748 6.299805 TGCTTTATGAAGGAGTAGTGATGT 57.700 37.500 0.00 0.00 33.34 3.06
748 749 6.259608 CCTTGCTTTATGAAGGAGTAGTGATG 59.740 42.308 0.00 0.00 41.26 3.07
842 843 1.925455 CCAGCCAGAAGAAGGGGGA 60.925 63.158 0.00 0.00 0.00 4.81
878 879 5.958380 AGGATGAGAGATGGTGTGTTTAGTA 59.042 40.000 0.00 0.00 0.00 1.82
888 889 3.370315 GCTTGTGAAGGATGAGAGATGGT 60.370 47.826 0.00 0.00 0.00 3.55
927 928 1.575447 GGGGAGTGGGGAGCTTTGAT 61.575 60.000 0.00 0.00 0.00 2.57
945 946 6.039270 TGTTCTATGTGTTCTTTGTTGGAAGG 59.961 38.462 0.00 0.00 0.00 3.46
1017 1018 7.448161 TGAACTTAAATGAGGAGCATGAAGAAA 59.552 33.333 0.00 0.00 37.28 2.52
1140 1142 0.681887 CATGGAAGGAGCATGCCACA 60.682 55.000 15.66 5.07 32.42 4.17
1760 1769 9.589111 GGAGTACCTTTTAGAAACTAGATCAAG 57.411 37.037 0.00 0.00 0.00 3.02
1785 1794 7.106239 ACGCTCTTATATTATGAAATGGAGGG 58.894 38.462 0.00 0.00 37.30 4.30
1786 1795 8.553459 AACGCTCTTATATTATGAAATGGAGG 57.447 34.615 0.00 0.00 0.00 4.30
1794 1803 8.826710 CCAGTCAAAAACGCTCTTATATTATGA 58.173 33.333 0.00 0.00 0.00 2.15
1795 1804 7.587757 GCCAGTCAAAAACGCTCTTATATTATG 59.412 37.037 0.00 0.00 0.00 1.90
1796 1805 7.518370 CGCCAGTCAAAAACGCTCTTATATTAT 60.518 37.037 0.00 0.00 0.00 1.28
1797 1806 6.237996 CGCCAGTCAAAAACGCTCTTATATTA 60.238 38.462 0.00 0.00 0.00 0.98
1798 1807 5.447279 CGCCAGTCAAAAACGCTCTTATATT 60.447 40.000 0.00 0.00 0.00 1.28
1799 1808 4.034048 CGCCAGTCAAAAACGCTCTTATAT 59.966 41.667 0.00 0.00 0.00 0.86
1800 1809 3.369756 CGCCAGTCAAAAACGCTCTTATA 59.630 43.478 0.00 0.00 0.00 0.98
1801 1810 2.159627 CGCCAGTCAAAAACGCTCTTAT 59.840 45.455 0.00 0.00 0.00 1.73
1802 1811 1.529438 CGCCAGTCAAAAACGCTCTTA 59.471 47.619 0.00 0.00 0.00 2.10
1803 1812 0.307760 CGCCAGTCAAAAACGCTCTT 59.692 50.000 0.00 0.00 0.00 2.85
1804 1813 1.941812 CGCCAGTCAAAAACGCTCT 59.058 52.632 0.00 0.00 0.00 4.09
1805 1814 1.725973 GCGCCAGTCAAAAACGCTC 60.726 57.895 0.00 0.00 45.71 5.03
1806 1815 2.331451 GCGCCAGTCAAAAACGCT 59.669 55.556 0.00 0.00 45.71 5.07
1807 1816 2.662091 ACTGCGCCAGTCAAAAACGC 62.662 55.000 4.18 0.00 41.21 4.84
1808 1817 0.929824 CACTGCGCCAGTCAAAAACG 60.930 55.000 4.18 0.00 43.43 3.60
1809 1818 0.594796 CCACTGCGCCAGTCAAAAAC 60.595 55.000 4.18 0.00 43.43 2.43
1810 1819 1.034838 ACCACTGCGCCAGTCAAAAA 61.035 50.000 4.18 0.00 43.43 1.94
1811 1820 0.179043 TACCACTGCGCCAGTCAAAA 60.179 50.000 4.18 0.00 43.43 2.44
1812 1821 0.179043 TTACCACTGCGCCAGTCAAA 60.179 50.000 4.18 0.17 43.43 2.69
1813 1822 0.179043 TTTACCACTGCGCCAGTCAA 60.179 50.000 4.18 0.16 43.43 3.18
1814 1823 0.602638 CTTTACCACTGCGCCAGTCA 60.603 55.000 4.18 0.00 43.43 3.41
1815 1824 1.912371 GCTTTACCACTGCGCCAGTC 61.912 60.000 4.18 0.00 43.43 3.51
1816 1825 1.966451 GCTTTACCACTGCGCCAGT 60.966 57.895 4.18 5.73 46.51 4.00
1817 1826 1.672356 AGCTTTACCACTGCGCCAG 60.672 57.895 4.18 4.99 37.52 4.85
1818 1827 1.965930 CAGCTTTACCACTGCGCCA 60.966 57.895 4.18 0.00 0.00 5.69
1819 1828 2.870372 CAGCTTTACCACTGCGCC 59.130 61.111 4.18 0.00 0.00 6.53
1823 1832 0.607489 AGGCAGCAGCTTTACCACTG 60.607 55.000 0.00 0.00 41.70 3.66
1824 1833 0.111253 AAGGCAGCAGCTTTACCACT 59.889 50.000 0.00 0.00 38.40 4.00
1825 1834 0.242017 CAAGGCAGCAGCTTTACCAC 59.758 55.000 0.00 0.00 38.07 4.16
1826 1835 0.178992 ACAAGGCAGCAGCTTTACCA 60.179 50.000 0.00 0.00 38.07 3.25
1827 1836 0.242017 CACAAGGCAGCAGCTTTACC 59.758 55.000 0.00 0.00 38.07 2.85
1828 1837 1.068954 GTCACAAGGCAGCAGCTTTAC 60.069 52.381 0.00 0.00 38.07 2.01
1829 1838 1.238439 GTCACAAGGCAGCAGCTTTA 58.762 50.000 0.00 0.00 38.07 1.85
1830 1839 1.458639 GGTCACAAGGCAGCAGCTTT 61.459 55.000 0.00 0.00 41.17 3.51
1831 1840 1.900498 GGTCACAAGGCAGCAGCTT 60.900 57.895 0.00 0.00 41.70 3.74
1832 1841 2.282040 GGTCACAAGGCAGCAGCT 60.282 61.111 0.00 0.00 41.70 4.24
1833 1842 1.975407 ATGGTCACAAGGCAGCAGC 60.975 57.895 0.00 0.00 41.10 5.25
1834 1843 0.607217 TCATGGTCACAAGGCAGCAG 60.607 55.000 0.00 0.00 0.00 4.24
1835 1844 0.607217 CTCATGGTCACAAGGCAGCA 60.607 55.000 0.00 0.00 0.00 4.41
1836 1845 1.310933 CCTCATGGTCACAAGGCAGC 61.311 60.000 0.00 0.00 0.00 5.25
1837 1846 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.00 44.78 4.85
1838 1847 2.154139 ACCTCATGGTCACAAGGCA 58.846 52.632 0.00 0.00 44.78 4.75
1849 1858 1.270839 ACTTGAACCCGTGACCTCATG 60.271 52.381 0.00 0.00 0.00 3.07
1850 1859 1.002087 GACTTGAACCCGTGACCTCAT 59.998 52.381 0.00 0.00 0.00 2.90
1851 1860 0.391597 GACTTGAACCCGTGACCTCA 59.608 55.000 0.00 0.00 0.00 3.86
1852 1861 0.320508 GGACTTGAACCCGTGACCTC 60.321 60.000 0.00 0.00 0.00 3.85
1853 1862 0.763223 AGGACTTGAACCCGTGACCT 60.763 55.000 0.00 0.00 0.00 3.85
1854 1863 0.602905 CAGGACTTGAACCCGTGACC 60.603 60.000 0.00 0.00 0.00 4.02
1855 1864 0.602905 CCAGGACTTGAACCCGTGAC 60.603 60.000 0.00 0.00 0.00 3.67
1856 1865 0.761323 TCCAGGACTTGAACCCGTGA 60.761 55.000 0.00 0.00 0.00 4.35
1857 1866 0.107831 TTCCAGGACTTGAACCCGTG 59.892 55.000 0.00 0.00 0.00 4.94
1858 1867 0.841289 TTTCCAGGACTTGAACCCGT 59.159 50.000 0.00 0.00 0.00 5.28
1859 1868 1.235724 GTTTCCAGGACTTGAACCCG 58.764 55.000 0.00 0.00 0.00 5.28
1860 1869 2.230660 CTGTTTCCAGGACTTGAACCC 58.769 52.381 0.00 0.00 34.90 4.11
1861 1870 1.609072 GCTGTTTCCAGGACTTGAACC 59.391 52.381 0.00 0.00 39.22 3.62
1862 1871 1.609072 GGCTGTTTCCAGGACTTGAAC 59.391 52.381 0.00 0.00 39.22 3.18
1863 1872 1.494721 AGGCTGTTTCCAGGACTTGAA 59.505 47.619 0.00 0.00 39.22 2.69
1864 1873 1.072331 GAGGCTGTTTCCAGGACTTGA 59.928 52.381 0.00 0.00 39.22 3.02
1865 1874 1.072965 AGAGGCTGTTTCCAGGACTTG 59.927 52.381 0.00 0.00 39.22 3.16
1866 1875 1.439543 AGAGGCTGTTTCCAGGACTT 58.560 50.000 0.00 0.00 39.22 3.01
1867 1876 1.072965 CAAGAGGCTGTTTCCAGGACT 59.927 52.381 0.00 0.00 39.22 3.85
1868 1877 1.528129 CAAGAGGCTGTTTCCAGGAC 58.472 55.000 0.00 0.00 39.22 3.85
1869 1878 0.250901 GCAAGAGGCTGTTTCCAGGA 60.251 55.000 0.00 0.00 39.22 3.86
1870 1879 0.538057 TGCAAGAGGCTGTTTCCAGG 60.538 55.000 0.00 0.00 45.15 4.45
1871 1880 0.879765 CTGCAAGAGGCTGTTTCCAG 59.120 55.000 0.00 0.00 45.15 3.86
1872 1881 0.473755 TCTGCAAGAGGCTGTTTCCA 59.526 50.000 0.00 0.00 38.67 3.53
1873 1882 3.329300 TCTGCAAGAGGCTGTTTCC 57.671 52.632 0.00 0.00 38.67 3.13
1883 1892 4.335416 CCTTTCCCTACATTTCTGCAAGA 58.665 43.478 0.00 0.00 44.68 3.02
1884 1893 3.119352 GCCTTTCCCTACATTTCTGCAAG 60.119 47.826 0.00 0.00 0.00 4.01
1885 1894 2.825532 GCCTTTCCCTACATTTCTGCAA 59.174 45.455 0.00 0.00 0.00 4.08
1886 1895 2.041620 AGCCTTTCCCTACATTTCTGCA 59.958 45.455 0.00 0.00 0.00 4.41
1887 1896 2.424956 CAGCCTTTCCCTACATTTCTGC 59.575 50.000 0.00 0.00 0.00 4.26
1888 1897 2.424956 GCAGCCTTTCCCTACATTTCTG 59.575 50.000 0.00 0.00 0.00 3.02
1889 1898 2.041620 TGCAGCCTTTCCCTACATTTCT 59.958 45.455 0.00 0.00 0.00 2.52
1890 1899 2.446435 TGCAGCCTTTCCCTACATTTC 58.554 47.619 0.00 0.00 0.00 2.17
1891 1900 2.603075 TGCAGCCTTTCCCTACATTT 57.397 45.000 0.00 0.00 0.00 2.32
1892 1901 2.834638 ATGCAGCCTTTCCCTACATT 57.165 45.000 0.00 0.00 0.00 2.71
1893 1902 2.509548 TGTATGCAGCCTTTCCCTACAT 59.490 45.455 0.00 0.00 0.00 2.29
1894 1903 1.912731 TGTATGCAGCCTTTCCCTACA 59.087 47.619 0.00 0.00 0.00 2.74
1895 1904 2.710096 TGTATGCAGCCTTTCCCTAC 57.290 50.000 0.00 0.00 0.00 3.18
1896 1905 3.951563 ATTGTATGCAGCCTTTCCCTA 57.048 42.857 0.00 0.00 0.00 3.53
1897 1906 2.834638 ATTGTATGCAGCCTTTCCCT 57.165 45.000 0.00 0.00 0.00 4.20
1898 1907 3.565902 GTCTATTGTATGCAGCCTTTCCC 59.434 47.826 0.00 0.00 0.00 3.97
1899 1908 3.565902 GGTCTATTGTATGCAGCCTTTCC 59.434 47.826 0.00 0.00 0.00 3.13
1900 1909 3.565902 GGGTCTATTGTATGCAGCCTTTC 59.434 47.826 0.00 0.00 0.00 2.62
1901 1910 3.053693 TGGGTCTATTGTATGCAGCCTTT 60.054 43.478 0.00 0.00 0.00 3.11
1902 1911 2.509548 TGGGTCTATTGTATGCAGCCTT 59.490 45.455 0.00 0.00 0.00 4.35
1903 1912 2.126882 TGGGTCTATTGTATGCAGCCT 58.873 47.619 0.00 0.00 0.00 4.58
1904 1913 2.638480 TGGGTCTATTGTATGCAGCC 57.362 50.000 0.00 0.00 0.00 4.85
1905 1914 3.947834 ACTTTGGGTCTATTGTATGCAGC 59.052 43.478 0.00 0.00 0.00 5.25
1906 1915 4.336433 CCACTTTGGGTCTATTGTATGCAG 59.664 45.833 0.00 0.00 32.67 4.41
1907 1916 4.263727 ACCACTTTGGGTCTATTGTATGCA 60.264 41.667 0.00 0.00 43.37 3.96
1908 1917 4.270008 ACCACTTTGGGTCTATTGTATGC 58.730 43.478 0.00 0.00 43.37 3.14
1919 1928 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
1920 1929 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
1921 1930 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
1922 1931 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
1923 1932 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
1924 1933 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
1925 1934 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
1926 1935 3.714001 GGGGAAGGGTCCGACCAC 61.714 72.222 19.43 8.70 46.04 4.16
1927 1936 4.257810 TGGGGAAGGGTCCGACCA 62.258 66.667 19.43 0.00 46.04 4.02
1928 1937 3.400054 CTGGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
1929 1938 2.284405 TCTGGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
1930 1939 2.284405 GTCTGGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
1931 1940 3.400054 GGTCTGGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
1932 1941 3.015753 GGGTCTGGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
1933 1942 2.125225 AGGGTCTGGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
1934 1943 2.204151 CAGGGTCTGGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
1935 1944 3.732849 GCAGGGTCTGGGGAAGGG 61.733 72.222 0.00 0.00 31.21 3.95
1936 1945 4.101448 CGCAGGGTCTGGGGAAGG 62.101 72.222 4.35 0.00 40.11 3.46
1937 1946 4.785453 GCGCAGGGTCTGGGGAAG 62.785 72.222 0.30 0.00 43.28 3.46
1949 1958 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
1952 1961 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
1953 1962 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
1954 1963 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
1955 1964 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
1957 1966 2.176273 CAGTGCATGTAGCTCCCGC 61.176 63.158 0.00 0.00 45.94 6.13
1958 1967 1.522355 CCAGTGCATGTAGCTCCCG 60.522 63.158 0.00 0.00 45.94 5.14
1959 1968 1.153086 CCCAGTGCATGTAGCTCCC 60.153 63.158 0.00 0.00 45.94 4.30
1960 1969 1.153086 CCCCAGTGCATGTAGCTCC 60.153 63.158 0.00 0.00 45.94 4.70
1961 1970 1.821332 GCCCCAGTGCATGTAGCTC 60.821 63.158 0.00 0.00 45.94 4.09
1962 1971 2.273449 GCCCCAGTGCATGTAGCT 59.727 61.111 0.00 0.00 45.94 3.32
1963 1972 2.117156 CAGCCCCAGTGCATGTAGC 61.117 63.158 0.00 0.00 45.96 3.58
1964 1973 2.117156 GCAGCCCCAGTGCATGTAG 61.117 63.158 0.00 0.00 40.86 2.74
1965 1974 2.045045 GCAGCCCCAGTGCATGTA 60.045 61.111 0.00 0.00 40.86 2.29
2001 2010 2.353579 GCGTTTTTGACACTGGTGTAGT 59.646 45.455 6.35 0.00 45.05 2.73
2002 2011 2.612212 AGCGTTTTTGACACTGGTGTAG 59.388 45.455 6.35 0.00 45.05 2.74
2003 2012 2.634600 AGCGTTTTTGACACTGGTGTA 58.365 42.857 6.35 0.00 45.05 2.90
2005 2014 2.353269 TGTAGCGTTTTTGACACTGGTG 59.647 45.455 0.00 0.00 0.00 4.17
2006 2015 2.634600 TGTAGCGTTTTTGACACTGGT 58.365 42.857 0.00 0.00 0.00 4.00
2007 2016 3.684103 TTGTAGCGTTTTTGACACTGG 57.316 42.857 0.00 0.00 0.00 4.00
2008 2017 4.846137 GCTATTGTAGCGTTTTTGACACTG 59.154 41.667 0.00 0.00 42.62 3.66
2009 2018 5.030874 GCTATTGTAGCGTTTTTGACACT 57.969 39.130 0.00 0.00 42.62 3.55
2521 2534 1.992538 TGTTTGTGGCCATGTCATCA 58.007 45.000 9.72 0.00 0.00 3.07
2839 2853 7.867305 TGACCTACACAAAAATTGTTGAGTA 57.133 32.000 15.43 15.33 43.23 2.59
2891 2905 6.391227 TTGAGAGTGATAACATGATCGCTA 57.609 37.500 9.71 0.00 44.74 4.26
3008 3026 9.961265 GGTAAGGCAATATTGTAAACTTATTCC 57.039 33.333 16.61 12.96 0.00 3.01
3011 3029 9.350951 GGAGGTAAGGCAATATTGTAAACTTAT 57.649 33.333 16.61 7.06 0.00 1.73
3012 3030 8.330247 TGGAGGTAAGGCAATATTGTAAACTTA 58.670 33.333 16.61 15.23 0.00 2.24
3185 3216 1.894466 CAACTGCCCATGATTCCACAA 59.106 47.619 0.00 0.00 0.00 3.33
3214 3245 7.373493 AGGTCAATTGCTATTTCACTGAAAAG 58.627 34.615 8.28 8.30 35.11 2.27
3218 3249 7.994425 TTTAGGTCAATTGCTATTTCACTGA 57.006 32.000 0.00 0.00 0.00 3.41
3561 3593 2.094390 ACATTGCTTCATGCGCTTTCAT 60.094 40.909 9.73 0.00 46.63 2.57


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

AutoCloner maintained by Alex Coulton.