Multiple sequence alignment - TraesCS5D01G028200

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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 TraesCS5D01G028200 chr5D 100.000 2186 0 0 1 2186 26829841 26832026 0 4037
1 TraesCS5D01G028200 chr5D 98.392 1803 27 2 1 1802 371072184 371073985 0 3168
2 TraesCS5D01G028200 chr5D 98.698 384 5 0 1803 2186 26839080 26839463 0 682
3 TraesCS5D01G028200 chr5D 98.196 388 6 1 1799 2186 328429120 328429506 0 676
4 TraesCS5D01G028200 chr5D 98.438 384 6 0 1803 2186 451496171 451495788 0 676
5 TraesCS5D01G028200 chr6D 98.613 1803 24 1 1 1802 102995944 102997746 0 3190
6 TraesCS5D01G028200 chr6D 98.557 1802 24 2 1 1802 83548805 83547006 0 3182
7 TraesCS5D01G028200 chr6D 98.210 391 7 0 1796 2186 227105574 227105184 0 684
8 TraesCS5D01G028200 chr2D 98.558 1803 25 1 1 1802 536996627 536998429 0 3184
9 TraesCS5D01G028200 chr2D 98.502 1802 26 1 1 1802 516822364 516820564 0 3177
10 TraesCS5D01G028200 chr2D 98.698 384 4 1 1803 2186 4224592 4224210 0 680
11 TraesCS5D01G028200 chr2D 97.943 389 7 1 1798 2186 342127963 342127576 0 673
12 TraesCS5D01G028200 chr1D 98.502 1803 25 2 1 1802 476465040 476466841 0 3179
13 TraesCS5D01G028200 chr4D 98.448 1804 26 1 1 1802 11929770 11927967 0 3175
14 TraesCS5D01G028200 chr7D 98.446 1802 28 0 1 1802 230443590 230441789 0 3173
15 TraesCS5D01G028200 chr7D 98.438 384 6 0 1803 2186 635856911 635856528 0 676
16 TraesCS5D01G028200 chr3D 98.395 1807 24 3 1 1802 605514864 605516670 0 3171
17 TraesCS5D01G028200 chr3D 98.438 384 6 0 1803 2186 366832679 366833062 0 676
18 TraesCS5D01G028200 chr3D 98.191 387 6 1 1800 2186 291906650 291906265 0 675


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 TraesCS5D01G028200 chr5D 26829841 26832026 2185 False 4037 4037 100.000 1 2186 1 chr5D.!!$F1 2185
1 TraesCS5D01G028200 chr5D 371072184 371073985 1801 False 3168 3168 98.392 1 1802 1 chr5D.!!$F4 1801
2 TraesCS5D01G028200 chr6D 102995944 102997746 1802 False 3190 3190 98.613 1 1802 1 chr6D.!!$F1 1801
3 TraesCS5D01G028200 chr6D 83547006 83548805 1799 True 3182 3182 98.557 1 1802 1 chr6D.!!$R1 1801
4 TraesCS5D01G028200 chr2D 536996627 536998429 1802 False 3184 3184 98.558 1 1802 1 chr2D.!!$F1 1801
5 TraesCS5D01G028200 chr2D 516820564 516822364 1800 True 3177 3177 98.502 1 1802 1 chr2D.!!$R3 1801
6 TraesCS5D01G028200 chr1D 476465040 476466841 1801 False 3179 3179 98.502 1 1802 1 chr1D.!!$F1 1801
7 TraesCS5D01G028200 chr4D 11927967 11929770 1803 True 3175 3175 98.448 1 1802 1 chr4D.!!$R1 1801
8 TraesCS5D01G028200 chr7D 230441789 230443590 1801 True 3173 3173 98.446 1 1802 1 chr7D.!!$R1 1801
9 TraesCS5D01G028200 chr3D 605514864 605516670 1806 False 3171 3171 98.395 1 1802 1 chr3D.!!$F2 1801

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
319 320 0.685097 ACACCGTACATCAAGCAGGT 59.315 50.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1830 1839 0.108329 CTGGTGCGTAGGTCGGAAAT 60.108 55.0 0.0 0.0 42.24 2.17 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
319 320 0.685097 ACACCGTACATCAAGCAGGT 59.315 50.000 0.00 0.00 0.00 4.00
670 671 3.820467 TGGATTCAAACTCACTTTGCGAT 59.180 39.130 0.00 0.00 39.43 4.58
728 729 2.879826 CATGCTCGTGTCTACATGTGA 58.120 47.619 9.11 0.98 36.11 3.58
1183 1184 2.738013 GTACCAGAAGTACGTTGCCT 57.262 50.000 0.00 0.00 41.94 4.75
1248 1249 5.533903 ACTTCAGTCATTTCTCATGTTTGCT 59.466 36.000 0.00 0.00 0.00 3.91
1321 1326 2.034879 CCATATGGCGCCGATGACC 61.035 63.158 32.11 6.66 0.00 4.02
1451 1456 1.225104 CACATCGCGTGTTTCGTCG 60.225 57.895 5.77 0.00 39.62 5.12
1808 1817 6.485830 TGAGGATATTCTTGAAGTGTAGGG 57.514 41.667 0.00 0.00 0.00 3.53
1809 1818 5.964477 TGAGGATATTCTTGAAGTGTAGGGT 59.036 40.000 0.00 0.00 0.00 4.34
1810 1819 7.130099 TGAGGATATTCTTGAAGTGTAGGGTA 58.870 38.462 0.00 0.00 0.00 3.69
1811 1820 7.622081 TGAGGATATTCTTGAAGTGTAGGGTAA 59.378 37.037 0.00 0.00 0.00 2.85
1812 1821 7.793036 AGGATATTCTTGAAGTGTAGGGTAAC 58.207 38.462 0.00 0.00 0.00 2.50
1813 1822 6.700520 GGATATTCTTGAAGTGTAGGGTAACG 59.299 42.308 0.00 0.00 37.60 3.18
1814 1823 3.308438 TCTTGAAGTGTAGGGTAACGC 57.692 47.619 0.00 0.00 37.60 4.84
1815 1824 2.629137 TCTTGAAGTGTAGGGTAACGCA 59.371 45.455 0.00 0.00 37.60 5.24
1816 1825 2.736144 TGAAGTGTAGGGTAACGCAG 57.264 50.000 0.00 0.00 37.60 5.18
1817 1826 1.337447 TGAAGTGTAGGGTAACGCAGC 60.337 52.381 0.00 0.00 37.60 5.25
1818 1827 0.682852 AAGTGTAGGGTAACGCAGCA 59.317 50.000 0.00 0.00 37.60 4.41
1819 1828 0.246635 AGTGTAGGGTAACGCAGCAG 59.753 55.000 0.00 0.00 37.60 4.24
1820 1829 0.245539 GTGTAGGGTAACGCAGCAGA 59.754 55.000 0.00 0.00 37.60 4.26
1821 1830 0.970640 TGTAGGGTAACGCAGCAGAA 59.029 50.000 0.00 0.00 37.60 3.02
1822 1831 1.345089 TGTAGGGTAACGCAGCAGAAA 59.655 47.619 0.00 0.00 37.60 2.52
1823 1832 2.224329 TGTAGGGTAACGCAGCAGAAAA 60.224 45.455 0.00 0.00 37.60 2.29
1824 1833 1.235724 AGGGTAACGCAGCAGAAAAC 58.764 50.000 0.00 0.00 37.60 2.43
1825 1834 0.948678 GGGTAACGCAGCAGAAAACA 59.051 50.000 0.00 0.00 37.60 2.83
1826 1835 1.335496 GGGTAACGCAGCAGAAAACAA 59.665 47.619 0.00 0.00 37.60 2.83
1827 1836 2.223618 GGGTAACGCAGCAGAAAACAAA 60.224 45.455 0.00 0.00 37.60 2.83
1828 1837 3.440228 GGTAACGCAGCAGAAAACAAAA 58.560 40.909 0.00 0.00 0.00 2.44
1829 1838 3.860536 GGTAACGCAGCAGAAAACAAAAA 59.139 39.130 0.00 0.00 0.00 1.94
1846 1855 3.547649 AAAAATTTCCGACCTACGCAC 57.452 42.857 0.00 0.00 41.07 5.34
1847 1856 1.445871 AAATTTCCGACCTACGCACC 58.554 50.000 0.00 0.00 41.07 5.01
1848 1857 0.322322 AATTTCCGACCTACGCACCA 59.678 50.000 0.00 0.00 41.07 4.17
1849 1858 0.108329 ATTTCCGACCTACGCACCAG 60.108 55.000 0.00 0.00 41.07 4.00
1850 1859 2.775032 TTTCCGACCTACGCACCAGC 62.775 60.000 0.00 0.00 41.07 4.85
1851 1860 4.814294 CCGACCTACGCACCAGCC 62.814 72.222 0.00 0.00 41.07 4.85
1852 1861 4.814294 CGACCTACGCACCAGCCC 62.814 72.222 0.00 0.00 37.52 5.19
1853 1862 3.702048 GACCTACGCACCAGCCCA 61.702 66.667 0.00 0.00 37.52 5.36
1854 1863 3.665675 GACCTACGCACCAGCCCAG 62.666 68.421 0.00 0.00 37.52 4.45
1855 1864 4.473520 CCTACGCACCAGCCCAGG 62.474 72.222 0.00 0.00 37.52 4.45
1856 1865 3.390521 CTACGCACCAGCCCAGGA 61.391 66.667 0.00 0.00 37.52 3.86
1857 1866 3.665675 CTACGCACCAGCCCAGGAC 62.666 68.421 0.00 0.00 37.52 3.85
1861 1870 3.252284 CACCAGCCCAGGACCACT 61.252 66.667 0.00 0.00 0.00 4.00
1862 1871 1.918293 CACCAGCCCAGGACCACTA 60.918 63.158 0.00 0.00 0.00 2.74
1863 1872 1.082954 ACCAGCCCAGGACCACTAT 59.917 57.895 0.00 0.00 0.00 2.12
1864 1873 1.274703 ACCAGCCCAGGACCACTATG 61.275 60.000 0.00 0.00 0.00 2.23
1865 1874 1.528824 CAGCCCAGGACCACTATGG 59.471 63.158 0.00 0.00 45.02 2.74
1866 1875 0.982852 CAGCCCAGGACCACTATGGA 60.983 60.000 0.84 0.00 40.96 3.41
1867 1876 0.692419 AGCCCAGGACCACTATGGAG 60.692 60.000 0.84 0.00 40.96 3.86
1868 1877 0.691078 GCCCAGGACCACTATGGAGA 60.691 60.000 0.84 0.00 40.96 3.71
1869 1878 1.123928 CCCAGGACCACTATGGAGAC 58.876 60.000 0.84 0.00 40.96 3.36
1870 1879 1.343478 CCCAGGACCACTATGGAGACT 60.343 57.143 0.84 0.00 40.96 3.24
1871 1880 1.759445 CCAGGACCACTATGGAGACTG 59.241 57.143 0.84 6.55 40.96 3.51
1872 1881 1.137872 CAGGACCACTATGGAGACTGC 59.862 57.143 0.84 0.00 40.96 4.40
1873 1882 1.195115 GGACCACTATGGAGACTGCA 58.805 55.000 0.00 0.00 40.96 4.41
1874 1883 1.765314 GGACCACTATGGAGACTGCAT 59.235 52.381 14.36 14.36 40.96 3.96
1875 1884 2.965831 GGACCACTATGGAGACTGCATA 59.034 50.000 15.06 15.06 40.96 3.14
1876 1885 3.243907 GGACCACTATGGAGACTGCATAC 60.244 52.174 12.24 3.29 40.96 2.39
1877 1886 3.374764 ACCACTATGGAGACTGCATACA 58.625 45.455 12.24 0.00 40.96 2.29
1878 1887 3.969976 ACCACTATGGAGACTGCATACAT 59.030 43.478 12.24 1.97 40.96 2.29
1879 1888 4.202295 ACCACTATGGAGACTGCATACATG 60.202 45.833 12.24 12.66 40.96 3.21
1880 1889 4.313282 CACTATGGAGACTGCATACATGG 58.687 47.826 12.24 6.09 29.08 3.66
1881 1890 3.969976 ACTATGGAGACTGCATACATGGT 59.030 43.478 12.24 6.67 29.08 3.55
1882 1891 3.939740 ATGGAGACTGCATACATGGTT 57.060 42.857 7.82 0.00 0.00 3.67
1883 1892 3.719268 TGGAGACTGCATACATGGTTT 57.281 42.857 0.00 0.00 0.00 3.27
1884 1893 3.346315 TGGAGACTGCATACATGGTTTG 58.654 45.455 0.00 0.00 0.00 2.93
1885 1894 3.008923 TGGAGACTGCATACATGGTTTGA 59.991 43.478 0.00 0.00 0.00 2.69
1886 1895 4.202441 GGAGACTGCATACATGGTTTGAT 58.798 43.478 0.00 0.00 0.00 2.57
1887 1896 4.274459 GGAGACTGCATACATGGTTTGATC 59.726 45.833 0.00 0.00 0.00 2.92
1888 1897 5.108187 AGACTGCATACATGGTTTGATCT 57.892 39.130 0.00 0.00 0.00 2.75
1889 1898 5.503927 AGACTGCATACATGGTTTGATCTT 58.496 37.500 0.00 0.00 0.00 2.40
1890 1899 5.948162 AGACTGCATACATGGTTTGATCTTT 59.052 36.000 0.00 0.00 0.00 2.52
1891 1900 6.435277 AGACTGCATACATGGTTTGATCTTTT 59.565 34.615 0.00 0.00 0.00 2.27
1892 1901 6.996509 ACTGCATACATGGTTTGATCTTTTT 58.003 32.000 0.00 0.00 0.00 1.94
1893 1902 7.092716 ACTGCATACATGGTTTGATCTTTTTC 58.907 34.615 0.00 0.00 0.00 2.29
1894 1903 6.092092 TGCATACATGGTTTGATCTTTTTCG 58.908 36.000 0.00 0.00 0.00 3.46
1895 1904 6.092748 GCATACATGGTTTGATCTTTTTCGT 58.907 36.000 0.00 0.00 0.00 3.85
1896 1905 6.586082 GCATACATGGTTTGATCTTTTTCGTT 59.414 34.615 0.00 0.00 0.00 3.85
1897 1906 7.753132 GCATACATGGTTTGATCTTTTTCGTTA 59.247 33.333 0.00 0.00 0.00 3.18
1898 1907 9.061610 CATACATGGTTTGATCTTTTTCGTTAC 57.938 33.333 0.00 0.00 0.00 2.50
1899 1908 6.443792 ACATGGTTTGATCTTTTTCGTTACC 58.556 36.000 0.00 0.00 0.00 2.85
1900 1909 5.098218 TGGTTTGATCTTTTTCGTTACCG 57.902 39.130 0.00 0.00 0.00 4.02
1901 1910 4.815308 TGGTTTGATCTTTTTCGTTACCGA 59.185 37.500 0.00 0.00 42.41 4.69
1902 1911 5.142265 GGTTTGATCTTTTTCGTTACCGAC 58.858 41.667 0.00 0.00 44.13 4.79
1903 1912 5.049886 GGTTTGATCTTTTTCGTTACCGACT 60.050 40.000 0.00 0.00 44.13 4.18
1904 1913 5.834239 TTGATCTTTTTCGTTACCGACTC 57.166 39.130 0.00 0.00 44.13 3.36
1905 1914 3.916172 TGATCTTTTTCGTTACCGACTCG 59.084 43.478 0.00 0.00 44.13 4.18
1906 1915 3.354089 TCTTTTTCGTTACCGACTCGT 57.646 42.857 0.00 0.00 44.13 4.18
1907 1916 4.481930 TCTTTTTCGTTACCGACTCGTA 57.518 40.909 0.00 0.00 44.13 3.43
1908 1917 4.466828 TCTTTTTCGTTACCGACTCGTAG 58.533 43.478 0.00 0.00 44.13 3.51
1909 1918 2.247311 TTTCGTTACCGACTCGTAGC 57.753 50.000 0.00 0.00 44.13 3.58
1910 1919 0.095245 TTCGTTACCGACTCGTAGCG 59.905 55.000 0.00 4.73 44.13 4.26
1911 1920 1.931612 CGTTACCGACTCGTAGCGC 60.932 63.158 0.00 0.00 36.40 5.92
1912 1921 1.135315 GTTACCGACTCGTAGCGCA 59.865 57.895 11.47 0.00 0.00 6.09
1913 1922 0.860618 GTTACCGACTCGTAGCGCAG 60.861 60.000 11.47 0.00 0.00 5.18
1926 1935 2.885861 CGCAGCGGGAAGTAGAGT 59.114 61.111 7.00 0.00 0.00 3.24
1927 1936 1.226717 CGCAGCGGGAAGTAGAGTC 60.227 63.158 7.00 0.00 0.00 3.36
1928 1937 1.226717 GCAGCGGGAAGTAGAGTCG 60.227 63.158 0.00 0.00 0.00 4.18
1929 1938 1.654954 GCAGCGGGAAGTAGAGTCGA 61.655 60.000 0.00 0.00 0.00 4.20
1930 1939 1.025812 CAGCGGGAAGTAGAGTCGAT 58.974 55.000 0.00 0.00 0.00 3.59
1931 1940 1.025812 AGCGGGAAGTAGAGTCGATG 58.974 55.000 0.00 0.00 0.00 3.84
1932 1941 1.022735 GCGGGAAGTAGAGTCGATGA 58.977 55.000 0.00 0.00 0.00 2.92
1933 1942 1.268640 GCGGGAAGTAGAGTCGATGAC 60.269 57.143 0.00 0.00 0.00 3.06
1934 1943 1.003759 CGGGAAGTAGAGTCGATGACG 60.004 57.143 0.00 0.00 37.67 4.35
1935 1944 2.286872 GGGAAGTAGAGTCGATGACGA 58.713 52.381 0.00 0.00 46.56 4.20
1942 1951 2.726180 GTCGATGACGATCGGCGG 60.726 66.667 20.98 10.12 46.06 6.13
1943 1952 3.465296 GTCGATGACGATCGGCGGT 62.465 63.158 20.98 9.46 46.06 5.68
1944 1953 3.024609 CGATGACGATCGGCGGTG 61.025 66.667 20.98 5.87 46.51 4.94
1945 1954 3.330853 GATGACGATCGGCGGTGC 61.331 66.667 20.98 3.12 46.49 5.01
1946 1955 4.141965 ATGACGATCGGCGGTGCA 62.142 61.111 20.98 0.00 46.49 4.57
1947 1956 4.794439 TGACGATCGGCGGTGCAG 62.794 66.667 20.98 0.00 46.49 4.41
1948 1957 4.492160 GACGATCGGCGGTGCAGA 62.492 66.667 20.98 0.00 46.49 4.26
1949 1958 3.774959 GACGATCGGCGGTGCAGAT 62.775 63.158 20.98 4.11 45.16 2.90
1952 1961 4.241555 ATCGGCGGTGCAGATCCC 62.242 66.667 7.21 0.00 39.00 3.85
1959 1968 4.479993 GTGCAGATCCCCGCAGCT 62.480 66.667 2.52 0.00 39.20 4.24
1960 1969 2.763710 TGCAGATCCCCGCAGCTA 60.764 61.111 0.00 0.00 33.34 3.32
1961 1970 2.030262 GCAGATCCCCGCAGCTAG 59.970 66.667 0.00 0.00 0.00 3.42
1962 1971 2.739784 CAGATCCCCGCAGCTAGG 59.260 66.667 0.61 0.61 0.00 3.02
1963 1972 1.834378 CAGATCCCCGCAGCTAGGA 60.834 63.158 8.84 2.90 0.00 2.94
1964 1973 1.157276 AGATCCCCGCAGCTAGGAT 59.843 57.895 11.86 11.86 43.18 3.24
1965 1974 0.472734 AGATCCCCGCAGCTAGGATT 60.473 55.000 12.97 3.18 40.54 3.01
1966 1975 0.398318 GATCCCCGCAGCTAGGATTT 59.602 55.000 12.97 0.00 40.54 2.17
1967 1976 1.623811 GATCCCCGCAGCTAGGATTTA 59.376 52.381 12.97 0.00 40.54 1.40
1968 1977 0.756903 TCCCCGCAGCTAGGATTTAC 59.243 55.000 8.84 0.00 0.00 2.01
1969 1978 0.468226 CCCCGCAGCTAGGATTTACA 59.532 55.000 8.84 0.00 0.00 2.41
1970 1979 1.134220 CCCCGCAGCTAGGATTTACAA 60.134 52.381 8.84 0.00 0.00 2.41
1971 1980 1.940613 CCCGCAGCTAGGATTTACAAC 59.059 52.381 8.84 0.00 0.00 3.32
1972 1981 1.940613 CCGCAGCTAGGATTTACAACC 59.059 52.381 1.34 0.00 0.00 3.77
1973 1982 2.420129 CCGCAGCTAGGATTTACAACCT 60.420 50.000 1.34 0.00 39.95 3.50
1974 1983 2.866762 CGCAGCTAGGATTTACAACCTC 59.133 50.000 0.00 0.00 37.68 3.85
1975 1984 3.206964 GCAGCTAGGATTTACAACCTCC 58.793 50.000 0.00 0.00 37.68 4.30
1976 1985 3.809905 CAGCTAGGATTTACAACCTCCC 58.190 50.000 0.00 0.00 37.68 4.30
1977 1986 3.199946 CAGCTAGGATTTACAACCTCCCA 59.800 47.826 0.00 0.00 37.68 4.37
1978 1987 3.850173 AGCTAGGATTTACAACCTCCCAA 59.150 43.478 0.00 0.00 37.68 4.12
1979 1988 3.945921 GCTAGGATTTACAACCTCCCAAC 59.054 47.826 0.00 0.00 37.68 3.77
1980 1989 3.451402 AGGATTTACAACCTCCCAACC 57.549 47.619 0.00 0.00 0.00 3.77
1981 1990 2.089201 GGATTTACAACCTCCCAACCG 58.911 52.381 0.00 0.00 0.00 4.44
1982 1991 1.471287 GATTTACAACCTCCCAACCGC 59.529 52.381 0.00 0.00 0.00 5.68
1983 1992 0.885596 TTTACAACCTCCCAACCGCG 60.886 55.000 0.00 0.00 0.00 6.46
1984 1993 1.756408 TTACAACCTCCCAACCGCGA 61.756 55.000 8.23 0.00 0.00 5.87
1985 1994 2.162338 TACAACCTCCCAACCGCGAG 62.162 60.000 8.23 0.00 0.00 5.03
2004 2013 4.464069 GAGGATGTATACCCTCATCTGC 57.536 50.000 18.33 2.39 46.28 4.26
2005 2014 4.093011 GAGGATGTATACCCTCATCTGCT 58.907 47.826 18.33 2.77 46.28 4.24
2006 2015 4.093011 AGGATGTATACCCTCATCTGCTC 58.907 47.826 0.00 0.00 39.93 4.26
2007 2016 3.196685 GGATGTATACCCTCATCTGCTCC 59.803 52.174 0.00 0.00 39.93 4.70
2008 2017 3.619900 TGTATACCCTCATCTGCTCCT 57.380 47.619 0.00 0.00 0.00 3.69
2009 2018 3.501349 TGTATACCCTCATCTGCTCCTC 58.499 50.000 0.00 0.00 0.00 3.71
2010 2019 2.783379 ATACCCTCATCTGCTCCTCA 57.217 50.000 0.00 0.00 0.00 3.86
2011 2020 2.079170 TACCCTCATCTGCTCCTCAG 57.921 55.000 0.00 0.00 44.21 3.35
2017 2026 3.705502 TCTGCTCCTCAGACAGCC 58.294 61.111 0.00 0.00 46.34 4.85
2018 2027 1.986757 TCTGCTCCTCAGACAGCCC 60.987 63.158 0.00 0.00 46.34 5.19
2019 2028 1.988956 CTGCTCCTCAGACAGCCCT 60.989 63.158 0.00 0.00 45.72 5.19
2020 2029 1.958902 CTGCTCCTCAGACAGCCCTC 61.959 65.000 0.00 0.00 45.72 4.30
2021 2030 1.986757 GCTCCTCAGACAGCCCTCA 60.987 63.158 0.00 0.00 0.00 3.86
2022 2031 1.958902 GCTCCTCAGACAGCCCTCAG 61.959 65.000 0.00 0.00 0.00 3.35
2023 2032 1.305633 TCCTCAGACAGCCCTCAGG 60.306 63.158 0.00 0.00 0.00 3.86
2068 2077 4.681978 GTGTCGCGGACAGCCCTT 62.682 66.667 6.13 0.00 43.57 3.95
2069 2078 4.373116 TGTCGCGGACAGCCCTTC 62.373 66.667 6.13 0.00 44.76 3.46
2083 2092 4.013702 CTTCGGGAGGACCTTCGA 57.986 61.111 14.37 14.37 36.97 3.71
2084 2093 2.273908 CTTCGGGAGGACCTTCGAA 58.726 57.895 23.23 23.23 37.45 3.71
2085 2094 0.606604 CTTCGGGAGGACCTTCGAAA 59.393 55.000 24.14 9.26 38.57 3.46
2086 2095 0.319405 TTCGGGAGGACCTTCGAAAC 59.681 55.000 22.82 0.01 37.08 2.78
2087 2096 0.541296 TCGGGAGGACCTTCGAAACT 60.541 55.000 15.55 0.00 36.97 2.66
2088 2097 0.108756 CGGGAGGACCTTCGAAACTC 60.109 60.000 11.36 4.93 36.97 3.01
2089 2098 0.108756 GGGAGGACCTTCGAAACTCG 60.109 60.000 0.00 0.00 37.49 4.18
2098 2107 2.792374 TCGAAACTCGAACGCTCAC 58.208 52.632 0.00 0.00 46.90 3.51
2099 2108 0.309922 TCGAAACTCGAACGCTCACT 59.690 50.000 0.00 0.00 46.90 3.41
2100 2109 0.703466 CGAAACTCGAACGCTCACTC 59.297 55.000 0.00 0.00 43.74 3.51
2101 2110 0.703466 GAAACTCGAACGCTCACTCG 59.297 55.000 0.00 0.00 36.39 4.18
2102 2111 0.663568 AAACTCGAACGCTCACTCGG 60.664 55.000 0.00 0.00 35.76 4.63
2103 2112 1.512996 AACTCGAACGCTCACTCGGA 61.513 55.000 0.00 0.00 35.76 4.55
2104 2113 1.512310 CTCGAACGCTCACTCGGAC 60.512 63.158 0.00 0.00 35.76 4.79
2105 2114 2.183858 CTCGAACGCTCACTCGGACA 62.184 60.000 0.00 0.00 35.76 4.02
2106 2115 1.797933 CGAACGCTCACTCGGACAG 60.798 63.158 0.00 0.00 0.00 3.51
2107 2116 2.049063 AACGCTCACTCGGACAGC 60.049 61.111 0.00 0.00 0.00 4.40
2108 2117 3.575351 AACGCTCACTCGGACAGCC 62.575 63.158 0.00 0.00 0.00 4.85
2109 2118 4.803426 CGCTCACTCGGACAGCCC 62.803 72.222 0.00 0.00 0.00 5.19
2110 2119 3.386237 GCTCACTCGGACAGCCCT 61.386 66.667 0.00 0.00 0.00 5.19
2111 2120 2.948720 GCTCACTCGGACAGCCCTT 61.949 63.158 0.00 0.00 0.00 3.95
2112 2121 1.216710 CTCACTCGGACAGCCCTTC 59.783 63.158 0.00 0.00 0.00 3.46
2113 2122 2.125912 CACTCGGACAGCCCTTCG 60.126 66.667 0.00 0.00 0.00 3.79
2114 2123 3.382832 ACTCGGACAGCCCTTCGG 61.383 66.667 0.00 0.00 0.00 4.30
2126 2135 4.013702 CTTCGGGAGGACCTTCGA 57.986 61.111 14.37 14.37 36.97 3.71
2127 2136 2.273908 CTTCGGGAGGACCTTCGAA 58.726 57.895 23.23 23.23 37.45 3.71
2128 2137 0.606604 CTTCGGGAGGACCTTCGAAA 59.393 55.000 24.14 9.26 38.57 3.46
2129 2138 0.319405 TTCGGGAGGACCTTCGAAAC 59.681 55.000 22.82 0.01 37.08 2.78
2130 2139 0.541296 TCGGGAGGACCTTCGAAACT 60.541 55.000 15.55 0.00 36.97 2.66
2131 2140 0.108756 CGGGAGGACCTTCGAAACTC 60.109 60.000 11.36 4.93 36.97 3.01
2132 2141 0.108756 GGGAGGACCTTCGAAACTCG 60.109 60.000 0.00 0.00 37.49 4.18
2133 2142 0.108756 GGAGGACCTTCGAAACTCGG 60.109 60.000 0.00 0.00 40.88 4.63
2134 2143 0.108756 GAGGACCTTCGAAACTCGGG 60.109 60.000 0.00 0.00 40.88 5.14
2135 2144 1.740664 GGACCTTCGAAACTCGGGC 60.741 63.158 0.00 0.00 40.88 6.13
2136 2145 2.048503 ACCTTCGAAACTCGGGCG 60.049 61.111 0.00 0.00 40.88 6.13
2137 2146 2.813908 CCTTCGAAACTCGGGCGG 60.814 66.667 0.00 0.00 40.88 6.13
2138 2147 2.048503 CTTCGAAACTCGGGCGGT 60.049 61.111 0.00 0.00 40.88 5.68
2139 2148 2.048877 TTCGAAACTCGGGCGGTC 60.049 61.111 0.00 0.00 40.88 4.79
2140 2149 2.758770 CTTCGAAACTCGGGCGGTCA 62.759 60.000 0.00 0.00 40.88 4.02
2141 2150 3.110178 CGAAACTCGGGCGGTCAC 61.110 66.667 0.00 0.00 36.00 3.67
2142 2151 2.029964 GAAACTCGGGCGGTCACA 59.970 61.111 0.00 0.00 0.00 3.58
2143 2152 1.375523 GAAACTCGGGCGGTCACAT 60.376 57.895 0.00 0.00 0.00 3.21
2144 2153 1.635663 GAAACTCGGGCGGTCACATG 61.636 60.000 0.00 0.00 0.00 3.21
2145 2154 3.605749 AACTCGGGCGGTCACATGG 62.606 63.158 0.00 0.00 0.00 3.66
2146 2155 3.770040 CTCGGGCGGTCACATGGA 61.770 66.667 0.00 0.00 0.00 3.41
2147 2156 4.077184 TCGGGCGGTCACATGGAC 62.077 66.667 0.00 1.55 46.20 4.02
2155 2164 2.859992 GTCACATGGACAGCCCTTC 58.140 57.895 0.00 0.00 46.19 3.46
2156 2165 1.021390 GTCACATGGACAGCCCTTCG 61.021 60.000 0.00 0.00 46.19 3.79
2157 2166 1.746615 CACATGGACAGCCCTTCGG 60.747 63.158 0.00 0.00 35.38 4.30
2178 2187 2.726832 AGGCACTCACGAACTAAGAC 57.273 50.000 0.00 0.00 0.00 3.01
2179 2188 1.272769 AGGCACTCACGAACTAAGACC 59.727 52.381 0.00 0.00 0.00 3.85
2180 2189 1.337821 GCACTCACGAACTAAGACCG 58.662 55.000 0.00 0.00 0.00 4.79
2181 2190 1.068748 GCACTCACGAACTAAGACCGA 60.069 52.381 0.00 0.00 0.00 4.69
2182 2191 2.606308 GCACTCACGAACTAAGACCGAA 60.606 50.000 0.00 0.00 0.00 4.30
2183 2192 3.635331 CACTCACGAACTAAGACCGAAA 58.365 45.455 0.00 0.00 0.00 3.46
2184 2193 3.424529 CACTCACGAACTAAGACCGAAAC 59.575 47.826 0.00 0.00 0.00 2.78
2185 2194 3.317430 ACTCACGAACTAAGACCGAAACT 59.683 43.478 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
177 178 6.723977 AGGGCATGTAAATTTCAACTTAAGGA 59.276 34.615 7.53 0.00 0.00 3.36
319 320 2.242965 TGAATCCACGGGAGTAGTCCTA 59.757 50.000 16.32 0.00 44.67 2.94
728 729 4.894784 ACAAAGTCCTCGACACAACATAT 58.105 39.130 0.00 0.00 34.60 1.78
809 810 1.133699 CCCCAGCTCCATTTGCTATCA 60.134 52.381 0.00 0.00 38.92 2.15
974 975 2.158769 CCACCAATGCCTGCACTATCTA 60.159 50.000 0.00 0.00 0.00 1.98
1183 1184 1.820519 AGGCGTAATCGTGTCCAACTA 59.179 47.619 0.00 0.00 39.49 2.24
1705 1710 9.169592 GTAGTTATCAAAAGCAAGTGGGTTATA 57.830 33.333 0.00 0.00 35.85 0.98
1802 1811 0.970640 TTCTGCTGCGTTACCCTACA 59.029 50.000 0.00 0.00 0.00 2.74
1803 1812 2.088950 TTTCTGCTGCGTTACCCTAC 57.911 50.000 0.00 0.00 0.00 3.18
1804 1813 2.224329 TGTTTTCTGCTGCGTTACCCTA 60.224 45.455 0.00 0.00 0.00 3.53
1805 1814 1.235724 GTTTTCTGCTGCGTTACCCT 58.764 50.000 0.00 0.00 0.00 4.34
1806 1815 0.948678 TGTTTTCTGCTGCGTTACCC 59.051 50.000 0.00 0.00 0.00 3.69
1807 1816 2.766970 TTGTTTTCTGCTGCGTTACC 57.233 45.000 0.00 0.00 0.00 2.85
1826 1835 2.227149 GGTGCGTAGGTCGGAAATTTTT 59.773 45.455 0.00 0.00 42.24 1.94
1827 1836 1.808343 GGTGCGTAGGTCGGAAATTTT 59.192 47.619 0.00 0.00 42.24 1.82
1828 1837 1.270947 TGGTGCGTAGGTCGGAAATTT 60.271 47.619 0.00 0.00 42.24 1.82
1829 1838 0.322322 TGGTGCGTAGGTCGGAAATT 59.678 50.000 0.00 0.00 42.24 1.82
1830 1839 0.108329 CTGGTGCGTAGGTCGGAAAT 60.108 55.000 0.00 0.00 42.24 2.17
1831 1840 1.290955 CTGGTGCGTAGGTCGGAAA 59.709 57.895 0.00 0.00 42.24 3.13
1832 1841 2.967397 CTGGTGCGTAGGTCGGAA 59.033 61.111 0.00 0.00 42.24 4.30
1833 1842 3.755628 GCTGGTGCGTAGGTCGGA 61.756 66.667 0.00 0.00 40.26 4.55
1834 1843 4.814294 GGCTGGTGCGTAGGTCGG 62.814 72.222 0.00 0.00 40.82 4.79
1835 1844 4.814294 GGGCTGGTGCGTAGGTCG 62.814 72.222 0.00 0.00 40.82 4.79
1836 1845 3.665675 CTGGGCTGGTGCGTAGGTC 62.666 68.421 0.00 0.00 40.82 3.85
1837 1846 3.706373 CTGGGCTGGTGCGTAGGT 61.706 66.667 0.00 0.00 40.82 3.08
1838 1847 4.473520 CCTGGGCTGGTGCGTAGG 62.474 72.222 0.00 0.00 40.82 3.18
1839 1848 3.390521 TCCTGGGCTGGTGCGTAG 61.391 66.667 0.00 0.00 40.82 3.51
1840 1849 3.702048 GTCCTGGGCTGGTGCGTA 61.702 66.667 0.00 0.00 40.82 4.42
1844 1853 1.274703 ATAGTGGTCCTGGGCTGGTG 61.275 60.000 0.00 0.00 0.00 4.17
1845 1854 1.082954 ATAGTGGTCCTGGGCTGGT 59.917 57.895 0.00 0.00 0.00 4.00
1846 1855 1.528824 CATAGTGGTCCTGGGCTGG 59.471 63.158 0.00 0.00 0.00 4.85
1847 1856 0.982852 TCCATAGTGGTCCTGGGCTG 60.983 60.000 0.00 0.00 39.03 4.85
1848 1857 0.692419 CTCCATAGTGGTCCTGGGCT 60.692 60.000 0.00 0.00 39.03 5.19
1849 1858 0.691078 TCTCCATAGTGGTCCTGGGC 60.691 60.000 0.00 0.00 39.03 5.36
1850 1859 1.123928 GTCTCCATAGTGGTCCTGGG 58.876 60.000 0.00 0.00 39.03 4.45
1851 1860 1.759445 CAGTCTCCATAGTGGTCCTGG 59.241 57.143 0.00 0.00 39.03 4.45
1852 1861 1.137872 GCAGTCTCCATAGTGGTCCTG 59.862 57.143 0.00 2.78 39.03 3.86
1853 1862 1.273267 TGCAGTCTCCATAGTGGTCCT 60.273 52.381 0.00 0.00 39.03 3.85
1854 1863 1.195115 TGCAGTCTCCATAGTGGTCC 58.805 55.000 0.00 0.00 39.03 4.46
1855 1864 3.384789 TGTATGCAGTCTCCATAGTGGTC 59.615 47.826 0.00 0.00 39.03 4.02
1856 1865 3.374764 TGTATGCAGTCTCCATAGTGGT 58.625 45.455 0.00 0.00 39.03 4.16
1857 1866 4.313282 CATGTATGCAGTCTCCATAGTGG 58.687 47.826 0.00 0.00 39.43 4.00
1858 1867 4.202295 ACCATGTATGCAGTCTCCATAGTG 60.202 45.833 0.00 0.00 0.00 2.74
1859 1868 3.969976 ACCATGTATGCAGTCTCCATAGT 59.030 43.478 0.00 0.00 0.00 2.12
1860 1869 4.613925 ACCATGTATGCAGTCTCCATAG 57.386 45.455 0.00 0.00 0.00 2.23
1861 1870 5.104569 TCAAACCATGTATGCAGTCTCCATA 60.105 40.000 0.00 0.00 0.00 2.74
1862 1871 3.939740 AACCATGTATGCAGTCTCCAT 57.060 42.857 0.00 0.00 0.00 3.41
1863 1872 3.008923 TCAAACCATGTATGCAGTCTCCA 59.991 43.478 0.00 0.00 0.00 3.86
1864 1873 3.609853 TCAAACCATGTATGCAGTCTCC 58.390 45.455 0.00 0.00 0.00 3.71
1865 1874 5.121811 AGATCAAACCATGTATGCAGTCTC 58.878 41.667 0.00 0.00 0.00 3.36
1866 1875 5.108187 AGATCAAACCATGTATGCAGTCT 57.892 39.130 0.00 0.00 0.00 3.24
1867 1876 5.824904 AAGATCAAACCATGTATGCAGTC 57.175 39.130 0.00 0.00 0.00 3.51
1868 1877 6.594788 AAAAGATCAAACCATGTATGCAGT 57.405 33.333 0.00 0.00 0.00 4.40
1869 1878 6.252015 CGAAAAAGATCAAACCATGTATGCAG 59.748 38.462 0.00 0.00 0.00 4.41
1870 1879 6.092092 CGAAAAAGATCAAACCATGTATGCA 58.908 36.000 0.00 0.00 0.00 3.96
1871 1880 6.092748 ACGAAAAAGATCAAACCATGTATGC 58.907 36.000 0.00 0.00 0.00 3.14
1872 1881 9.061610 GTAACGAAAAAGATCAAACCATGTATG 57.938 33.333 0.00 0.00 0.00 2.39
1873 1882 8.241367 GGTAACGAAAAAGATCAAACCATGTAT 58.759 33.333 0.00 0.00 0.00 2.29
1874 1883 7.586747 GGTAACGAAAAAGATCAAACCATGTA 58.413 34.615 0.00 0.00 0.00 2.29
1875 1884 6.443792 GGTAACGAAAAAGATCAAACCATGT 58.556 36.000 0.00 0.00 0.00 3.21
1876 1885 6.927933 GGTAACGAAAAAGATCAAACCATG 57.072 37.500 0.00 0.00 0.00 3.66
1894 1903 0.860618 CTGCGCTACGAGTCGGTAAC 60.861 60.000 18.30 2.77 0.00 2.50
1895 1904 1.426621 CTGCGCTACGAGTCGGTAA 59.573 57.895 18.30 0.74 0.00 2.85
1896 1905 3.095911 CTGCGCTACGAGTCGGTA 58.904 61.111 18.30 6.12 0.00 4.02
1897 1906 4.477975 GCTGCGCTACGAGTCGGT 62.478 66.667 18.30 5.20 0.00 4.69
1902 1911 4.492160 TTCCCGCTGCGCTACGAG 62.492 66.667 18.00 10.57 0.00 4.18
1903 1912 4.492160 CTTCCCGCTGCGCTACGA 62.492 66.667 18.00 5.90 0.00 3.43
1904 1913 3.405592 TACTTCCCGCTGCGCTACG 62.406 63.158 18.00 12.58 0.00 3.51
1905 1914 1.589196 CTACTTCCCGCTGCGCTAC 60.589 63.158 18.00 0.00 0.00 3.58
1906 1915 1.725557 CTCTACTTCCCGCTGCGCTA 61.726 60.000 18.00 3.19 0.00 4.26
1907 1916 3.068691 TCTACTTCCCGCTGCGCT 61.069 61.111 18.00 0.00 0.00 5.92
1908 1917 2.583593 CTCTACTTCCCGCTGCGC 60.584 66.667 18.00 0.00 0.00 6.09
1909 1918 1.226717 GACTCTACTTCCCGCTGCG 60.227 63.158 16.34 16.34 0.00 5.18
1910 1919 1.226717 CGACTCTACTTCCCGCTGC 60.227 63.158 0.00 0.00 0.00 5.25
1911 1920 1.025812 ATCGACTCTACTTCCCGCTG 58.974 55.000 0.00 0.00 0.00 5.18
1912 1921 1.025812 CATCGACTCTACTTCCCGCT 58.974 55.000 0.00 0.00 0.00 5.52
1913 1922 1.022735 TCATCGACTCTACTTCCCGC 58.977 55.000 0.00 0.00 0.00 6.13
1914 1923 1.003759 CGTCATCGACTCTACTTCCCG 60.004 57.143 0.00 0.00 39.71 5.14
1915 1924 2.286872 TCGTCATCGACTCTACTTCCC 58.713 52.381 0.00 0.00 41.35 3.97
1928 1937 3.330853 GCACCGCCGATCGTCATC 61.331 66.667 15.09 0.00 36.19 2.92
1929 1938 4.141965 TGCACCGCCGATCGTCAT 62.142 61.111 15.09 0.00 36.19 3.06
1930 1939 4.794439 CTGCACCGCCGATCGTCA 62.794 66.667 15.09 1.36 36.19 4.35
1931 1940 3.774959 ATCTGCACCGCCGATCGTC 62.775 63.158 15.09 0.00 36.19 4.20
1932 1941 3.774959 GATCTGCACCGCCGATCGT 62.775 63.158 15.09 0.00 38.89 3.73
1933 1942 3.032609 GATCTGCACCGCCGATCG 61.033 66.667 8.51 8.51 38.89 3.69
1934 1943 2.663188 GGATCTGCACCGCCGATC 60.663 66.667 10.77 10.77 44.56 3.69
1935 1944 4.241555 GGGATCTGCACCGCCGAT 62.242 66.667 0.00 0.00 35.34 4.18
1944 1953 2.030262 CTAGCTGCGGGGATCTGC 59.970 66.667 0.00 0.00 45.23 4.26
1945 1954 1.190833 ATCCTAGCTGCGGGGATCTG 61.191 60.000 18.68 0.00 35.16 2.90
1946 1955 0.472734 AATCCTAGCTGCGGGGATCT 60.473 55.000 22.48 13.68 38.73 2.75
1947 1956 0.398318 AAATCCTAGCTGCGGGGATC 59.602 55.000 22.48 0.00 38.73 3.36
1948 1957 1.348036 GTAAATCCTAGCTGCGGGGAT 59.652 52.381 18.68 18.68 41.09 3.85
1949 1958 0.756903 GTAAATCCTAGCTGCGGGGA 59.243 55.000 16.26 16.26 0.00 4.81
1950 1959 0.468226 TGTAAATCCTAGCTGCGGGG 59.532 55.000 13.06 10.36 0.00 5.73
1951 1960 1.940613 GTTGTAAATCCTAGCTGCGGG 59.059 52.381 0.00 8.09 0.00 6.13
1952 1961 1.940613 GGTTGTAAATCCTAGCTGCGG 59.059 52.381 0.00 0.00 0.00 5.69
1953 1962 2.866762 GAGGTTGTAAATCCTAGCTGCG 59.133 50.000 0.00 0.00 33.83 5.18
1954 1963 3.206964 GGAGGTTGTAAATCCTAGCTGC 58.793 50.000 0.00 0.00 33.83 5.25
1955 1964 3.199946 TGGGAGGTTGTAAATCCTAGCTG 59.800 47.826 0.00 0.00 33.83 4.24
1956 1965 3.460825 TGGGAGGTTGTAAATCCTAGCT 58.539 45.455 0.00 0.00 33.83 3.32
1957 1966 3.926058 TGGGAGGTTGTAAATCCTAGC 57.074 47.619 0.00 0.00 33.83 3.42
1958 1967 4.524053 GGTTGGGAGGTTGTAAATCCTAG 58.476 47.826 0.00 0.00 33.83 3.02
1959 1968 3.054948 CGGTTGGGAGGTTGTAAATCCTA 60.055 47.826 0.00 0.00 33.83 2.94
1960 1969 2.290705 CGGTTGGGAGGTTGTAAATCCT 60.291 50.000 0.00 0.00 36.70 3.24
1961 1970 2.089201 CGGTTGGGAGGTTGTAAATCC 58.911 52.381 0.00 0.00 0.00 3.01
1962 1971 1.471287 GCGGTTGGGAGGTTGTAAATC 59.529 52.381 0.00 0.00 0.00 2.17
1963 1972 1.541379 GCGGTTGGGAGGTTGTAAAT 58.459 50.000 0.00 0.00 0.00 1.40
1964 1973 0.885596 CGCGGTTGGGAGGTTGTAAA 60.886 55.000 0.00 0.00 0.00 2.01
1965 1974 1.301874 CGCGGTTGGGAGGTTGTAA 60.302 57.895 0.00 0.00 0.00 2.41
1966 1975 2.208619 TCGCGGTTGGGAGGTTGTA 61.209 57.895 6.13 0.00 32.60 2.41
1967 1976 3.552384 TCGCGGTTGGGAGGTTGT 61.552 61.111 6.13 0.00 32.60 3.32
1973 1982 1.046472 ATACATCCTCGCGGTTGGGA 61.046 55.000 6.13 9.83 34.85 4.37
1974 1983 0.677288 TATACATCCTCGCGGTTGGG 59.323 55.000 6.13 4.04 34.85 4.12
1975 1984 1.604693 GGTATACATCCTCGCGGTTGG 60.605 57.143 6.13 6.84 34.85 3.77
1976 1985 1.604693 GGGTATACATCCTCGCGGTTG 60.605 57.143 6.13 0.91 36.32 3.77
1977 1986 0.677842 GGGTATACATCCTCGCGGTT 59.322 55.000 6.13 0.00 0.00 4.44
1978 1987 0.178970 AGGGTATACATCCTCGCGGT 60.179 55.000 6.13 0.00 0.00 5.68
1979 1988 0.526662 GAGGGTATACATCCTCGCGG 59.473 60.000 6.13 0.00 39.95 6.46
1984 1993 4.093011 GAGCAGATGAGGGTATACATCCT 58.907 47.826 5.01 2.65 42.38 3.24
1985 1994 3.196685 GGAGCAGATGAGGGTATACATCC 59.803 52.174 5.01 0.00 42.38 3.51
1986 1995 4.093011 AGGAGCAGATGAGGGTATACATC 58.907 47.826 5.01 2.92 41.92 3.06
1987 1996 4.093011 GAGGAGCAGATGAGGGTATACAT 58.907 47.826 5.01 0.00 0.00 2.29
1988 1997 3.117131 TGAGGAGCAGATGAGGGTATACA 60.117 47.826 5.01 0.00 0.00 2.29
1989 1998 3.501349 TGAGGAGCAGATGAGGGTATAC 58.499 50.000 0.00 0.00 0.00 1.47
1990 1999 3.903530 TGAGGAGCAGATGAGGGTATA 57.096 47.619 0.00 0.00 0.00 1.47
1991 2000 2.783379 TGAGGAGCAGATGAGGGTAT 57.217 50.000 0.00 0.00 0.00 2.73
2001 2010 1.958902 GAGGGCTGTCTGAGGAGCAG 61.959 65.000 10.00 0.73 46.31 4.24
2002 2011 1.986757 GAGGGCTGTCTGAGGAGCA 60.987 63.158 10.00 0.00 36.90 4.26
2003 2012 1.958902 CTGAGGGCTGTCTGAGGAGC 61.959 65.000 0.86 0.86 34.23 4.70
2004 2013 1.329171 CCTGAGGGCTGTCTGAGGAG 61.329 65.000 0.00 0.00 40.00 3.69
2005 2014 1.305633 CCTGAGGGCTGTCTGAGGA 60.306 63.158 0.00 0.00 40.00 3.71
2006 2015 2.365586 CCCTGAGGGCTGTCTGAGG 61.366 68.421 3.66 0.00 37.80 3.86
2007 2016 1.305633 TCCCTGAGGGCTGTCTGAG 60.306 63.158 14.20 0.00 43.94 3.35
2008 2017 1.305633 CTCCCTGAGGGCTGTCTGA 60.306 63.158 14.20 0.00 43.94 3.27
2009 2018 2.365586 CCTCCCTGAGGGCTGTCTG 61.366 68.421 14.20 0.00 45.43 3.51
2010 2019 2.040278 CCTCCCTGAGGGCTGTCT 59.960 66.667 14.20 0.00 45.43 3.41
2018 2027 3.003173 TTGGACCGCCTCCCTGAG 61.003 66.667 0.00 0.00 38.49 3.35
2019 2028 3.319198 GTTGGACCGCCTCCCTGA 61.319 66.667 0.00 0.00 38.49 3.86
2020 2029 3.612247 CTGTTGGACCGCCTCCCTG 62.612 68.421 0.00 0.00 38.49 4.45
2021 2030 3.322466 CTGTTGGACCGCCTCCCT 61.322 66.667 0.00 0.00 38.49 4.20
2051 2060 4.681978 AAGGGCTGTCCGCGACAC 62.682 66.667 8.23 4.10 37.67 3.67
2052 2061 4.373116 GAAGGGCTGTCCGCGACA 62.373 66.667 8.23 9.55 40.50 4.35
2066 2075 0.606604 TTTCGAAGGTCCTCCCGAAG 59.393 55.000 21.01 0.84 38.14 3.79
2067 2076 0.319405 GTTTCGAAGGTCCTCCCGAA 59.681 55.000 19.26 19.26 36.28 4.30
2068 2077 0.541296 AGTTTCGAAGGTCCTCCCGA 60.541 55.000 11.08 11.08 38.74 5.14
2069 2078 0.108756 GAGTTTCGAAGGTCCTCCCG 60.109 60.000 0.00 7.18 38.74 5.14
2070 2079 0.108756 CGAGTTTCGAAGGTCCTCCC 60.109 60.000 0.00 0.00 43.74 4.30
2071 2080 0.886563 TCGAGTTTCGAAGGTCCTCC 59.113 55.000 0.00 0.00 46.90 4.30
2081 2090 0.703466 GAGTGAGCGTTCGAGTTTCG 59.297 55.000 0.00 0.00 42.10 3.46
2082 2091 0.703466 CGAGTGAGCGTTCGAGTTTC 59.297 55.000 0.00 0.00 39.06 2.78
2083 2092 0.663568 CCGAGTGAGCGTTCGAGTTT 60.664 55.000 0.00 0.00 39.06 2.66
2084 2093 1.081376 CCGAGTGAGCGTTCGAGTT 60.081 57.895 0.00 0.00 39.06 3.01
2085 2094 1.964891 TCCGAGTGAGCGTTCGAGT 60.965 57.895 0.00 0.00 39.06 4.18
2086 2095 1.512310 GTCCGAGTGAGCGTTCGAG 60.512 63.158 0.00 0.00 39.06 4.04
2087 2096 2.183858 CTGTCCGAGTGAGCGTTCGA 62.184 60.000 0.00 0.00 39.06 3.71
2088 2097 1.797933 CTGTCCGAGTGAGCGTTCG 60.798 63.158 0.00 0.00 36.62 3.95
2089 2098 2.089349 GCTGTCCGAGTGAGCGTTC 61.089 63.158 0.00 0.00 0.00 3.95
2090 2099 2.049063 GCTGTCCGAGTGAGCGTT 60.049 61.111 0.00 0.00 0.00 4.84
2091 2100 4.057428 GGCTGTCCGAGTGAGCGT 62.057 66.667 0.00 0.00 33.26 5.07
2092 2101 4.803426 GGGCTGTCCGAGTGAGCG 62.803 72.222 0.00 0.00 33.26 5.03
2093 2102 2.844072 GAAGGGCTGTCCGAGTGAGC 62.844 65.000 0.00 0.00 41.52 4.26
2094 2103 1.216710 GAAGGGCTGTCCGAGTGAG 59.783 63.158 0.00 0.00 41.52 3.51
2095 2104 2.636412 CGAAGGGCTGTCCGAGTGA 61.636 63.158 0.00 0.00 41.52 3.41
2096 2105 2.125912 CGAAGGGCTGTCCGAGTG 60.126 66.667 0.00 0.00 41.52 3.51
2109 2118 0.606604 TTTCGAAGGTCCTCCCGAAG 59.393 55.000 21.01 0.84 38.14 3.79
2110 2119 0.319405 GTTTCGAAGGTCCTCCCGAA 59.681 55.000 19.26 19.26 36.28 4.30
2111 2120 0.541296 AGTTTCGAAGGTCCTCCCGA 60.541 55.000 11.08 11.08 38.74 5.14
2112 2121 0.108756 GAGTTTCGAAGGTCCTCCCG 60.109 60.000 0.00 7.18 38.74 5.14
2113 2122 0.108756 CGAGTTTCGAAGGTCCTCCC 60.109 60.000 0.00 0.00 43.74 4.30
2114 2123 0.108756 CCGAGTTTCGAAGGTCCTCC 60.109 60.000 0.00 0.00 43.74 4.30
2115 2124 0.108756 CCCGAGTTTCGAAGGTCCTC 60.109 60.000 0.00 2.43 43.74 3.71
2116 2125 1.972978 CCCGAGTTTCGAAGGTCCT 59.027 57.895 0.00 0.00 43.74 3.85
2117 2126 1.740664 GCCCGAGTTTCGAAGGTCC 60.741 63.158 0.00 0.00 43.74 4.46
2118 2127 2.092882 CGCCCGAGTTTCGAAGGTC 61.093 63.158 0.00 0.00 43.74 3.85
2119 2128 2.048503 CGCCCGAGTTTCGAAGGT 60.049 61.111 0.00 0.00 43.74 3.50
2120 2129 2.813908 CCGCCCGAGTTTCGAAGG 60.814 66.667 0.00 0.00 43.74 3.46
2121 2130 2.048503 ACCGCCCGAGTTTCGAAG 60.049 61.111 0.00 0.00 43.74 3.79
2122 2131 2.048877 GACCGCCCGAGTTTCGAA 60.049 61.111 0.00 0.00 43.74 3.71
2123 2132 3.296836 TGACCGCCCGAGTTTCGA 61.297 61.111 0.00 0.00 43.74 3.71
2124 2133 3.110178 GTGACCGCCCGAGTTTCG 61.110 66.667 0.00 0.00 40.07 3.46
2125 2134 1.375523 ATGTGACCGCCCGAGTTTC 60.376 57.895 0.00 0.00 0.00 2.78
2126 2135 1.671054 CATGTGACCGCCCGAGTTT 60.671 57.895 0.00 0.00 0.00 2.66
2127 2136 2.047274 CATGTGACCGCCCGAGTT 60.047 61.111 0.00 0.00 0.00 3.01
2128 2137 4.082523 CCATGTGACCGCCCGAGT 62.083 66.667 0.00 0.00 0.00 4.18
2129 2138 3.770040 TCCATGTGACCGCCCGAG 61.770 66.667 0.00 0.00 0.00 4.63
2130 2139 4.077184 GTCCATGTGACCGCCCGA 62.077 66.667 3.65 0.00 38.09 5.14
2131 2140 4.386951 TGTCCATGTGACCGCCCG 62.387 66.667 10.60 0.00 43.78 6.13
2132 2141 2.436646 CTGTCCATGTGACCGCCC 60.437 66.667 10.60 0.00 43.78 6.13
2133 2142 3.127533 GCTGTCCATGTGACCGCC 61.128 66.667 15.14 3.56 45.40 6.13
2135 2144 2.436646 GGGCTGTCCATGTGACCG 60.437 66.667 10.60 6.62 43.78 4.79
2136 2145 0.678048 GAAGGGCTGTCCATGTGACC 60.678 60.000 0.00 1.42 43.78 4.02
2137 2146 1.021390 CGAAGGGCTGTCCATGTGAC 61.021 60.000 0.00 7.22 44.72 3.67
2138 2147 1.296392 CGAAGGGCTGTCCATGTGA 59.704 57.895 0.00 0.00 38.24 3.58
2139 2148 3.895025 CGAAGGGCTGTCCATGTG 58.105 61.111 0.00 0.00 38.24 3.21
2152 2161 2.125912 CGTGAGTGCCTCCCGAAG 60.126 66.667 1.90 0.00 33.50 3.79
2153 2162 2.204461 TTCGTGAGTGCCTCCCGAA 61.204 57.895 14.81 14.81 44.89 4.30
2154 2163 2.599281 TTCGTGAGTGCCTCCCGA 60.599 61.111 5.86 5.86 38.45 5.14
2155 2164 1.592400 TAGTTCGTGAGTGCCTCCCG 61.592 60.000 1.73 1.73 33.01 5.14
2156 2165 0.606604 TTAGTTCGTGAGTGCCTCCC 59.393 55.000 0.50 0.00 0.00 4.30
2157 2166 1.544691 TCTTAGTTCGTGAGTGCCTCC 59.455 52.381 0.50 0.00 0.00 4.30
2158 2167 2.597520 GTCTTAGTTCGTGAGTGCCTC 58.402 52.381 0.00 0.00 0.00 4.70
2159 2168 1.272769 GGTCTTAGTTCGTGAGTGCCT 59.727 52.381 0.00 0.00 0.00 4.75
2160 2169 1.711206 GGTCTTAGTTCGTGAGTGCC 58.289 55.000 0.00 0.00 0.00 5.01
2161 2170 1.068748 TCGGTCTTAGTTCGTGAGTGC 60.069 52.381 0.00 0.00 0.00 4.40
2162 2171 2.983402 TCGGTCTTAGTTCGTGAGTG 57.017 50.000 0.00 0.00 0.00 3.51
2163 2172 3.317430 AGTTTCGGTCTTAGTTCGTGAGT 59.683 43.478 0.00 0.00 0.00 3.41
2164 2173 3.898529 AGTTTCGGTCTTAGTTCGTGAG 58.101 45.455 0.00 0.00 0.00 3.51
2165 2174 3.996150 AGTTTCGGTCTTAGTTCGTGA 57.004 42.857 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.