Multiple sequence alignment - TraesCS2D01G270500

Loading Multiple Alignment...

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 TraesCS2D01G270500 chr2D 100.000 2117 0 0 1 2117 334225792 334223676 0.000000e+00 3910
1 TraesCS2D01G270500 chr2D 97.536 1826 22 7 3 1821 628285534 628283725 0.000000e+00 3101
2 TraesCS2D01G270500 chr2D 97.635 296 7 0 1822 2117 221899122 221899417 1.870000e-140 508
3 TraesCS2D01G270500 chr6D 97.809 1826 25 7 3 1821 431399895 431398078 0.000000e+00 3136
4 TraesCS2D01G270500 chr6D 97.635 296 7 0 1822 2117 45845462 45845757 1.870000e-140 508
5 TraesCS2D01G270500 chr6D 97.635 296 7 0 1822 2117 57041632 57041337 1.870000e-140 508
6 TraesCS2D01G270500 chr1D 97.589 1825 29 8 3 1821 254489566 254487751 0.000000e+00 3112
7 TraesCS2D01G270500 chr1D 94.825 1739 62 13 90 1821 244408395 244406678 0.000000e+00 2687
8 TraesCS2D01G270500 chr3D 97.259 1824 34 8 3 1821 21897424 21895612 0.000000e+00 3077
9 TraesCS2D01G270500 chr3D 97.973 296 6 0 1822 2117 303266246 303265951 4.030000e-142 514
10 TraesCS2D01G270500 chr2A 97.151 1825 45 5 3 1821 276441208 276443031 0.000000e+00 3075
11 TraesCS2D01G270500 chr2A 96.053 1824 50 9 3 1821 335826144 335824338 0.000000e+00 2950
12 TraesCS2D01G270500 chr5D 96.996 1831 40 9 3 1821 329131839 329133666 0.000000e+00 3062
13 TraesCS2D01G270500 chr3B 96.505 1831 43 9 4 1821 201506443 201504621 0.000000e+00 3007
14 TraesCS2D01G270500 chrUn 97.237 579 8 3 3 580 317473325 317473896 0.000000e+00 974
15 TraesCS2D01G270500 chr7D 95.445 483 15 6 3 480 88605453 88604973 0.000000e+00 763
16 TraesCS2D01G270500 chr7D 97.973 296 6 0 1822 2117 475840070 475839775 4.030000e-142 514
17 TraesCS2D01G270500 chr7D 97.635 296 7 0 1822 2117 488917448 488917743 1.870000e-140 508
18 TraesCS2D01G270500 chr4D 98.311 296 5 0 1822 2117 337580226 337579931 8.660000e-144 520
19 TraesCS2D01G270500 chr4D 97.973 296 6 0 1822 2117 104436184 104436479 4.030000e-142 514
20 TraesCS2D01G270500 chr2B 97.959 294 6 0 1822 2115 779622146 779622439 5.210000e-141 510


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 TraesCS2D01G270500 chr2D 334223676 334225792 2116 True 3910 3910 100.000 1 2117 1 chr2D.!!$R1 2116
1 TraesCS2D01G270500 chr2D 628283725 628285534 1809 True 3101 3101 97.536 3 1821 1 chr2D.!!$R2 1818
2 TraesCS2D01G270500 chr6D 431398078 431399895 1817 True 3136 3136 97.809 3 1821 1 chr6D.!!$R2 1818
3 TraesCS2D01G270500 chr1D 254487751 254489566 1815 True 3112 3112 97.589 3 1821 1 chr1D.!!$R2 1818
4 TraesCS2D01G270500 chr1D 244406678 244408395 1717 True 2687 2687 94.825 90 1821 1 chr1D.!!$R1 1731
5 TraesCS2D01G270500 chr3D 21895612 21897424 1812 True 3077 3077 97.259 3 1821 1 chr3D.!!$R1 1818
6 TraesCS2D01G270500 chr2A 276441208 276443031 1823 False 3075 3075 97.151 3 1821 1 chr2A.!!$F1 1818
7 TraesCS2D01G270500 chr2A 335824338 335826144 1806 True 2950 2950 96.053 3 1821 1 chr2A.!!$R1 1818
8 TraesCS2D01G270500 chr5D 329131839 329133666 1827 False 3062 3062 96.996 3 1821 1 chr5D.!!$F1 1818
9 TraesCS2D01G270500 chr3B 201504621 201506443 1822 True 3007 3007 96.505 4 1821 1 chr3B.!!$R1 1817
10 TraesCS2D01G270500 chrUn 317473325 317473896 571 False 974 974 97.237 3 580 1 chrUn.!!$F1 577

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
551 575 2.761767 TGGTCGATCCCATCTTTTACGA 59.238 45.455 0.0 0.0 34.77 3.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1441 1475 0.037734 AAATTCCGCGGGTCCTTTCT 59.962 50.0 27.83 0.0 0.0 2.52 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
63 64 6.874278 TCTGTCTTTCCCTATTTCATCTCA 57.126 37.500 0.00 0.00 0.00 3.27
75 76 6.483307 CCTATTTCATCTCATAAAGTTCCGCA 59.517 38.462 0.00 0.00 0.00 5.69
275 277 4.150897 TGGCTGCTATTCCGAATTACTT 57.849 40.909 0.00 0.00 0.00 2.24
551 575 2.761767 TGGTCGATCCCATCTTTTACGA 59.238 45.455 0.00 0.00 34.77 3.43
593 617 9.936759 TGAATGTATAAAATTTTTGGGAGTTCC 57.063 29.630 9.06 0.00 0.00 3.62
877 901 5.453903 CCTCAATGACCATAGATCGAACCTT 60.454 44.000 0.00 0.00 0.00 3.50
1131 1157 9.618890 TTCTTCAATTGAGAGAAAGAAAGAGAA 57.381 29.630 20.92 14.50 0.00 2.87
1229 1255 7.631161 GCATGACCAATTGATAAAATGTGGAGA 60.631 37.037 7.12 0.00 0.00 3.71
1441 1475 4.982241 CCCCCTTTATCTGATTAGAGCA 57.018 45.455 0.00 0.00 36.14 4.26
1491 1525 9.471084 TCTTATAACGCGAATTGAATCTATTCA 57.529 29.630 15.93 1.23 44.42 2.57
1749 1793 7.647907 ATTTGCTCACAATCACAAGAAATTC 57.352 32.000 0.00 0.00 35.21 2.17
1809 1855 4.753610 ACCTCGACTAAACCTAAGCAAAAC 59.246 41.667 0.00 0.00 0.00 2.43
1821 1867 5.420739 ACCTAAGCAAAACAAAAAGAGGTCA 59.579 36.000 0.00 0.00 28.54 4.02
1822 1868 6.098266 ACCTAAGCAAAACAAAAAGAGGTCAT 59.902 34.615 0.00 0.00 28.54 3.06
1823 1869 6.986231 CCTAAGCAAAACAAAAAGAGGTCATT 59.014 34.615 0.00 0.00 0.00 2.57
1824 1870 7.495606 CCTAAGCAAAACAAAAAGAGGTCATTT 59.504 33.333 0.00 0.00 0.00 2.32
1825 1871 7.686438 AAGCAAAACAAAAAGAGGTCATTTT 57.314 28.000 0.00 0.00 0.00 1.82
1826 1872 7.075674 AGCAAAACAAAAAGAGGTCATTTTG 57.924 32.000 15.42 15.42 44.97 2.44
1827 1873 6.878389 AGCAAAACAAAAAGAGGTCATTTTGA 59.122 30.769 21.22 0.00 43.28 2.69
1828 1874 7.064966 AGCAAAACAAAAAGAGGTCATTTTGAG 59.935 33.333 21.22 11.83 43.28 3.02
1829 1875 6.908870 AAACAAAAAGAGGTCATTTTGAGC 57.091 33.333 21.22 1.82 43.28 4.26
1836 1882 1.063031 GGTCATTTTGAGCGCTTTGC 58.937 50.000 13.26 0.00 46.98 3.68
1849 1895 4.019919 GCGCTTTGCTGAAATGATTAGA 57.980 40.909 0.00 0.00 41.73 2.10
1850 1896 3.788163 GCGCTTTGCTGAAATGATTAGAC 59.212 43.478 0.00 0.00 41.73 2.59
1851 1897 4.346129 CGCTTTGCTGAAATGATTAGACC 58.654 43.478 0.00 0.00 0.00 3.85
1852 1898 4.095483 CGCTTTGCTGAAATGATTAGACCT 59.905 41.667 0.00 0.00 0.00 3.85
1853 1899 5.294306 CGCTTTGCTGAAATGATTAGACCTA 59.706 40.000 0.00 0.00 0.00 3.08
1854 1900 6.017605 CGCTTTGCTGAAATGATTAGACCTAT 60.018 38.462 0.00 0.00 0.00 2.57
1855 1901 7.358830 GCTTTGCTGAAATGATTAGACCTATC 58.641 38.462 0.00 0.00 0.00 2.08
1856 1902 7.228308 GCTTTGCTGAAATGATTAGACCTATCT 59.772 37.037 0.00 0.00 39.15 1.98
1857 1903 9.118300 CTTTGCTGAAATGATTAGACCTATCTT 57.882 33.333 0.00 0.00 36.29 2.40
1858 1904 9.466497 TTTGCTGAAATGATTAGACCTATCTTT 57.534 29.630 0.00 0.00 36.29 2.52
1859 1905 9.466497 TTGCTGAAATGATTAGACCTATCTTTT 57.534 29.630 0.00 0.00 36.29 2.27
1860 1906 9.466497 TGCTGAAATGATTAGACCTATCTTTTT 57.534 29.630 0.00 0.00 36.29 1.94
1861 1907 9.727627 GCTGAAATGATTAGACCTATCTTTTTG 57.272 33.333 0.00 0.00 36.29 2.44
1862 1908 9.727627 CTGAAATGATTAGACCTATCTTTTTGC 57.272 33.333 0.00 0.00 36.29 3.68
1863 1909 8.397906 TGAAATGATTAGACCTATCTTTTTGCG 58.602 33.333 0.00 0.00 36.29 4.85
1864 1910 7.865706 AATGATTAGACCTATCTTTTTGCGT 57.134 32.000 0.00 0.00 36.29 5.24
1865 1911 8.958119 AATGATTAGACCTATCTTTTTGCGTA 57.042 30.769 0.00 0.00 36.29 4.42
1866 1912 9.561069 AATGATTAGACCTATCTTTTTGCGTAT 57.439 29.630 0.00 0.00 36.29 3.06
1867 1913 8.365399 TGATTAGACCTATCTTTTTGCGTATG 57.635 34.615 0.00 0.00 36.29 2.39
1868 1914 6.598753 TTAGACCTATCTTTTTGCGTATGC 57.401 37.500 0.00 0.00 37.79 3.14
1869 1915 4.743151 TAGACCTATCTTTTTGCGTATGCG 59.257 41.667 1.78 0.00 39.25 4.73
1870 1916 5.680408 TAGACCTATCTTTTTGCGTATGCGT 60.680 40.000 4.81 0.00 39.25 5.24
1871 1917 7.122483 TAGACCTATCTTTTTGCGTATGCGTT 61.122 38.462 4.81 0.00 39.25 4.84
1872 1918 8.532277 TAGACCTATCTTTTTGCGTATGCGTTT 61.532 37.037 4.81 0.00 39.25 3.60
1883 1929 4.141680 GCGTATGCGTTTAACTGATATGC 58.858 43.478 4.81 9.87 40.81 3.14
1884 1930 4.084537 GCGTATGCGTTTAACTGATATGCT 60.085 41.667 4.81 0.00 40.81 3.79
1885 1931 5.599715 CGTATGCGTTTAACTGATATGCTC 58.400 41.667 0.00 0.00 0.00 4.26
1886 1932 5.174943 CGTATGCGTTTAACTGATATGCTCA 59.825 40.000 0.00 0.00 0.00 4.26
1950 1996 8.434733 ACTAATAAAAGAAAGATACCGGAAGC 57.565 34.615 9.46 0.00 0.00 3.86
1951 1997 8.265764 ACTAATAAAAGAAAGATACCGGAAGCT 58.734 33.333 9.46 0.00 0.00 3.74
1952 1998 6.927294 ATAAAAGAAAGATACCGGAAGCTG 57.073 37.500 9.46 0.00 0.00 4.24
1953 1999 4.553330 AAAGAAAGATACCGGAAGCTGA 57.447 40.909 9.46 0.00 0.00 4.26
1954 2000 4.553330 AAGAAAGATACCGGAAGCTGAA 57.447 40.909 9.46 0.00 0.00 3.02
1955 2001 4.553330 AGAAAGATACCGGAAGCTGAAA 57.447 40.909 9.46 0.00 0.00 2.69
1956 2002 5.104259 AGAAAGATACCGGAAGCTGAAAT 57.896 39.130 9.46 0.00 0.00 2.17
1957 2003 5.501156 AGAAAGATACCGGAAGCTGAAATT 58.499 37.500 9.46 0.00 0.00 1.82
1958 2004 5.946377 AGAAAGATACCGGAAGCTGAAATTT 59.054 36.000 9.46 0.00 0.00 1.82
1959 2005 5.819825 AAGATACCGGAAGCTGAAATTTC 57.180 39.130 9.46 11.41 0.00 2.17
1960 2006 4.200092 AGATACCGGAAGCTGAAATTTCC 58.800 43.478 9.46 1.15 39.56 3.13
1961 2007 2.286365 ACCGGAAGCTGAAATTTCCA 57.714 45.000 9.46 3.32 42.39 3.53
1962 2008 1.886542 ACCGGAAGCTGAAATTTCCAC 59.113 47.619 9.46 7.50 42.39 4.02
1963 2009 1.202348 CCGGAAGCTGAAATTTCCACC 59.798 52.381 15.48 9.98 42.39 4.61
1964 2010 1.885887 CGGAAGCTGAAATTTCCACCA 59.114 47.619 15.48 0.00 42.39 4.17
1965 2011 2.493278 CGGAAGCTGAAATTTCCACCAT 59.507 45.455 15.48 0.00 42.39 3.55
1966 2012 3.674138 CGGAAGCTGAAATTTCCACCATG 60.674 47.826 15.48 0.00 42.39 3.66
1967 2013 3.259123 GGAAGCTGAAATTTCCACCATGT 59.741 43.478 15.48 0.00 41.97 3.21
1968 2014 4.262592 GGAAGCTGAAATTTCCACCATGTT 60.263 41.667 15.48 0.14 41.97 2.71
1969 2015 4.961438 AGCTGAAATTTCCACCATGTTT 57.039 36.364 15.48 0.00 0.00 2.83
1970 2016 4.634199 AGCTGAAATTTCCACCATGTTTG 58.366 39.130 15.48 0.00 0.00 2.93
1971 2017 3.187022 GCTGAAATTTCCACCATGTTTGC 59.813 43.478 15.48 1.67 0.00 3.68
1972 2018 4.634199 CTGAAATTTCCACCATGTTTGCT 58.366 39.130 15.48 0.00 0.00 3.91
1973 2019 5.782047 CTGAAATTTCCACCATGTTTGCTA 58.218 37.500 15.48 0.00 0.00 3.49
1974 2020 6.166984 TGAAATTTCCACCATGTTTGCTAA 57.833 33.333 15.48 0.00 0.00 3.09
1975 2021 6.767456 TGAAATTTCCACCATGTTTGCTAAT 58.233 32.000 15.48 0.00 0.00 1.73
1976 2022 7.222872 TGAAATTTCCACCATGTTTGCTAATT 58.777 30.769 15.48 0.00 0.00 1.40
1977 2023 8.370940 TGAAATTTCCACCATGTTTGCTAATTA 58.629 29.630 15.48 0.00 0.00 1.40
1978 2024 9.382275 GAAATTTCCACCATGTTTGCTAATTAT 57.618 29.630 6.95 0.00 0.00 1.28
1980 2026 9.816354 AATTTCCACCATGTTTGCTAATTATAC 57.184 29.630 0.00 0.00 0.00 1.47
1981 2027 8.588290 TTTCCACCATGTTTGCTAATTATACT 57.412 30.769 0.00 0.00 0.00 2.12
1982 2028 8.588290 TTCCACCATGTTTGCTAATTATACTT 57.412 30.769 0.00 0.00 0.00 2.24
1983 2029 8.588290 TCCACCATGTTTGCTAATTATACTTT 57.412 30.769 0.00 0.00 0.00 2.66
1984 2030 9.030452 TCCACCATGTTTGCTAATTATACTTTT 57.970 29.630 0.00 0.00 0.00 2.27
1992 2038 9.797556 GTTTGCTAATTATACTTTTAAGGGTGG 57.202 33.333 0.00 0.00 0.00 4.61
1993 2039 9.756571 TTTGCTAATTATACTTTTAAGGGTGGA 57.243 29.630 0.00 0.00 0.00 4.02
1994 2040 9.756571 TTGCTAATTATACTTTTAAGGGTGGAA 57.243 29.630 0.00 0.00 0.00 3.53
1995 2041 9.930158 TGCTAATTATACTTTTAAGGGTGGAAT 57.070 29.630 0.00 0.00 0.00 3.01
2013 2059 6.945636 TGGAATACCAAAGAAGTTAGGAGA 57.054 37.500 0.00 0.00 43.91 3.71
2014 2060 7.510675 TGGAATACCAAAGAAGTTAGGAGAT 57.489 36.000 0.00 0.00 43.91 2.75
2015 2061 7.565680 TGGAATACCAAAGAAGTTAGGAGATC 58.434 38.462 0.00 0.00 43.91 2.75
2016 2062 6.993308 GGAATACCAAAGAAGTTAGGAGATCC 59.007 42.308 0.00 0.00 35.97 3.36
2017 2063 7.365652 GGAATACCAAAGAAGTTAGGAGATCCA 60.366 40.741 0.92 0.00 35.71 3.41
2018 2064 5.428184 ACCAAAGAAGTTAGGAGATCCAG 57.572 43.478 0.92 0.00 38.89 3.86
2019 2065 4.226168 ACCAAAGAAGTTAGGAGATCCAGG 59.774 45.833 0.92 0.00 38.89 4.45
2020 2066 4.471386 CCAAAGAAGTTAGGAGATCCAGGA 59.529 45.833 0.92 0.00 38.89 3.86
2021 2067 5.396213 CCAAAGAAGTTAGGAGATCCAGGAG 60.396 48.000 0.92 0.00 38.89 3.69
2022 2068 4.618378 AGAAGTTAGGAGATCCAGGAGT 57.382 45.455 0.92 0.00 38.89 3.85
2023 2069 5.735733 AGAAGTTAGGAGATCCAGGAGTA 57.264 43.478 0.92 0.00 38.89 2.59
2024 2070 5.451354 AGAAGTTAGGAGATCCAGGAGTAC 58.549 45.833 0.92 0.00 38.89 2.73
2025 2071 4.187506 AGTTAGGAGATCCAGGAGTACC 57.812 50.000 0.92 0.00 38.89 3.34
2026 2072 3.117054 AGTTAGGAGATCCAGGAGTACCC 60.117 52.174 0.92 0.00 38.89 3.69
2027 2073 1.319947 AGGAGATCCAGGAGTACCCA 58.680 55.000 0.92 0.00 38.89 4.51
2028 2074 1.062810 AGGAGATCCAGGAGTACCCAC 60.063 57.143 0.92 0.00 38.89 4.61
2029 2075 1.062810 GGAGATCCAGGAGTACCCACT 60.063 57.143 0.00 0.00 37.41 4.00
2030 2076 2.177233 GGAGATCCAGGAGTACCCACTA 59.823 54.545 0.00 0.00 37.41 2.74
2031 2077 3.181416 GGAGATCCAGGAGTACCCACTAT 60.181 52.174 0.00 0.00 37.41 2.12
2032 2078 4.044317 GGAGATCCAGGAGTACCCACTATA 59.956 50.000 0.00 0.00 37.41 1.31
2033 2079 5.000570 AGATCCAGGAGTACCCACTATAC 57.999 47.826 0.00 0.00 34.21 1.47
2034 2080 3.607490 TCCAGGAGTACCCACTATACC 57.393 52.381 3.60 0.00 34.21 2.73
2035 2081 2.860679 TCCAGGAGTACCCACTATACCA 59.139 50.000 3.60 0.00 34.21 3.25
2036 2082 3.469771 TCCAGGAGTACCCACTATACCAT 59.530 47.826 3.60 0.00 34.21 3.55
2037 2083 3.578716 CCAGGAGTACCCACTATACCATG 59.421 52.174 3.60 0.00 34.21 3.66
2038 2084 3.006967 CAGGAGTACCCACTATACCATGC 59.993 52.174 3.60 0.00 34.21 4.06
2039 2085 3.116707 AGGAGTACCCACTATACCATGCT 60.117 47.826 3.60 0.00 34.21 3.79
2040 2086 3.258622 GGAGTACCCACTATACCATGCTC 59.741 52.174 0.00 0.00 34.21 4.26
2041 2087 3.240302 AGTACCCACTATACCATGCTCC 58.760 50.000 0.00 0.00 31.45 4.70
2042 2088 2.190398 ACCCACTATACCATGCTCCA 57.810 50.000 0.00 0.00 0.00 3.86
2043 2089 2.706350 ACCCACTATACCATGCTCCAT 58.294 47.619 0.00 0.00 0.00 3.41
2044 2090 3.056080 ACCCACTATACCATGCTCCATT 58.944 45.455 0.00 0.00 0.00 3.16
2045 2091 4.239495 ACCCACTATACCATGCTCCATTA 58.761 43.478 0.00 0.00 0.00 1.90
2046 2092 4.663120 ACCCACTATACCATGCTCCATTAA 59.337 41.667 0.00 0.00 0.00 1.40
2047 2093 5.133660 ACCCACTATACCATGCTCCATTAAA 59.866 40.000 0.00 0.00 0.00 1.52
2048 2094 6.068010 CCCACTATACCATGCTCCATTAAAA 58.932 40.000 0.00 0.00 0.00 1.52
2049 2095 6.207417 CCCACTATACCATGCTCCATTAAAAG 59.793 42.308 0.00 0.00 0.00 2.27
2050 2096 6.207417 CCACTATACCATGCTCCATTAAAAGG 59.793 42.308 0.00 0.00 0.00 3.11
2051 2097 6.998074 CACTATACCATGCTCCATTAAAAGGA 59.002 38.462 0.68 0.68 0.00 3.36
2052 2098 7.502226 CACTATACCATGCTCCATTAAAAGGAA 59.498 37.037 2.15 0.00 34.08 3.36
2053 2099 8.227507 ACTATACCATGCTCCATTAAAAGGAAT 58.772 33.333 2.15 0.00 34.08 3.01
2054 2100 7.919385 ATACCATGCTCCATTAAAAGGAATT 57.081 32.000 2.15 0.00 34.08 2.17
2056 2102 7.919385 ACCATGCTCCATTAAAAGGAATTAT 57.081 32.000 2.15 0.00 34.08 1.28
2057 2103 7.729116 ACCATGCTCCATTAAAAGGAATTATG 58.271 34.615 2.15 6.40 34.08 1.90
2058 2104 7.345392 ACCATGCTCCATTAAAAGGAATTATGT 59.655 33.333 2.15 0.00 34.08 2.29
2059 2105 8.206189 CCATGCTCCATTAAAAGGAATTATGTT 58.794 33.333 2.15 0.00 34.08 2.71
2062 2108 9.693739 TGCTCCATTAAAAGGAATTATGTTAGA 57.306 29.630 2.15 0.00 34.08 2.10
2074 2120 9.686683 AGGAATTATGTTAGAACTGCTTTATGT 57.313 29.630 0.00 0.00 0.00 2.29
2075 2121 9.722056 GGAATTATGTTAGAACTGCTTTATGTG 57.278 33.333 0.00 0.00 0.00 3.21
2079 2125 7.928307 ATGTTAGAACTGCTTTATGTGATGT 57.072 32.000 0.00 0.00 0.00 3.06
2080 2126 7.744087 TGTTAGAACTGCTTTATGTGATGTT 57.256 32.000 0.00 0.00 0.00 2.71
2081 2127 7.584108 TGTTAGAACTGCTTTATGTGATGTTG 58.416 34.615 0.00 0.00 0.00 3.33
2082 2128 5.633830 AGAACTGCTTTATGTGATGTTGG 57.366 39.130 0.00 0.00 0.00 3.77
2083 2129 5.316167 AGAACTGCTTTATGTGATGTTGGA 58.684 37.500 0.00 0.00 0.00 3.53
2084 2130 5.413833 AGAACTGCTTTATGTGATGTTGGAG 59.586 40.000 0.00 0.00 0.00 3.86
2085 2131 3.441572 ACTGCTTTATGTGATGTTGGAGC 59.558 43.478 0.00 0.00 0.00 4.70
2086 2132 3.689347 TGCTTTATGTGATGTTGGAGCT 58.311 40.909 0.00 0.00 0.00 4.09
2087 2133 3.441222 TGCTTTATGTGATGTTGGAGCTG 59.559 43.478 0.00 0.00 0.00 4.24
2088 2134 3.181493 GCTTTATGTGATGTTGGAGCTGG 60.181 47.826 0.00 0.00 0.00 4.85
2089 2135 3.719268 TTATGTGATGTTGGAGCTGGT 57.281 42.857 0.00 0.00 0.00 4.00
2090 2136 1.830279 ATGTGATGTTGGAGCTGGTG 58.170 50.000 0.00 0.00 0.00 4.17
2091 2137 0.473755 TGTGATGTTGGAGCTGGTGT 59.526 50.000 0.00 0.00 0.00 4.16
2092 2138 1.133823 TGTGATGTTGGAGCTGGTGTT 60.134 47.619 0.00 0.00 0.00 3.32
2093 2139 2.105649 TGTGATGTTGGAGCTGGTGTTA 59.894 45.455 0.00 0.00 0.00 2.41
2094 2140 2.744202 GTGATGTTGGAGCTGGTGTTAG 59.256 50.000 0.00 0.00 0.00 2.34
2095 2141 2.371841 TGATGTTGGAGCTGGTGTTAGT 59.628 45.455 0.00 0.00 0.00 2.24
2096 2142 2.254546 TGTTGGAGCTGGTGTTAGTG 57.745 50.000 0.00 0.00 0.00 2.74
2097 2143 1.488812 TGTTGGAGCTGGTGTTAGTGT 59.511 47.619 0.00 0.00 0.00 3.55
2098 2144 2.092646 TGTTGGAGCTGGTGTTAGTGTT 60.093 45.455 0.00 0.00 0.00 3.32
2099 2145 3.134985 TGTTGGAGCTGGTGTTAGTGTTA 59.865 43.478 0.00 0.00 0.00 2.41
2100 2146 4.202419 TGTTGGAGCTGGTGTTAGTGTTAT 60.202 41.667 0.00 0.00 0.00 1.89
2101 2147 3.937814 TGGAGCTGGTGTTAGTGTTATG 58.062 45.455 0.00 0.00 0.00 1.90
2102 2148 2.678336 GGAGCTGGTGTTAGTGTTATGC 59.322 50.000 0.00 0.00 0.00 3.14
2103 2149 2.678336 GAGCTGGTGTTAGTGTTATGCC 59.322 50.000 0.00 0.00 0.00 4.40
2104 2150 2.305927 AGCTGGTGTTAGTGTTATGCCT 59.694 45.455 0.00 0.00 0.00 4.75
2105 2151 2.678336 GCTGGTGTTAGTGTTATGCCTC 59.322 50.000 0.00 0.00 0.00 4.70
2106 2152 3.619979 GCTGGTGTTAGTGTTATGCCTCT 60.620 47.826 0.00 0.00 0.00 3.69
2107 2153 4.184629 CTGGTGTTAGTGTTATGCCTCTC 58.815 47.826 0.00 0.00 0.00 3.20
2108 2154 3.838317 TGGTGTTAGTGTTATGCCTCTCT 59.162 43.478 0.00 0.00 0.00 3.10
2109 2155 4.081642 TGGTGTTAGTGTTATGCCTCTCTC 60.082 45.833 0.00 0.00 0.00 3.20
2110 2156 4.160626 GGTGTTAGTGTTATGCCTCTCTCT 59.839 45.833 0.00 0.00 0.00 3.10
2111 2157 5.337652 GGTGTTAGTGTTATGCCTCTCTCTT 60.338 44.000 0.00 0.00 0.00 2.85
2112 2158 6.166982 GTGTTAGTGTTATGCCTCTCTCTTT 58.833 40.000 0.00 0.00 0.00 2.52
2113 2159 7.321153 GTGTTAGTGTTATGCCTCTCTCTTTA 58.679 38.462 0.00 0.00 0.00 1.85
2114 2160 7.982354 GTGTTAGTGTTATGCCTCTCTCTTTAT 59.018 37.037 0.00 0.00 0.00 1.40
2115 2161 9.197306 TGTTAGTGTTATGCCTCTCTCTTTATA 57.803 33.333 0.00 0.00 0.00 0.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 9.793259 ACTTAAAAGGATAATTGAAGTGACTCA 57.207 29.630 0.00 0.00 0.00 3.41
75 76 2.325583 TTCTTGACCAAACTGCGAGT 57.674 45.000 0.00 0.00 0.00 4.18
246 248 4.776349 TCGGAATAGCAGCCAAAATCTTA 58.224 39.130 0.00 0.00 0.00 2.10
275 277 8.062065 ACTTTTCATTGGCTTCGGAATAATAA 57.938 30.769 0.00 0.00 0.00 1.40
382 406 8.085909 CCTGGTTCCGAAACATAATTACTTTTT 58.914 33.333 0.00 0.00 37.10 1.94
383 407 7.599171 CCTGGTTCCGAAACATAATTACTTTT 58.401 34.615 0.00 0.00 37.10 2.27
384 408 6.349860 GCCTGGTTCCGAAACATAATTACTTT 60.350 38.462 0.00 0.00 37.10 2.66
385 409 5.124936 GCCTGGTTCCGAAACATAATTACTT 59.875 40.000 0.00 0.00 37.10 2.24
386 410 4.638865 GCCTGGTTCCGAAACATAATTACT 59.361 41.667 0.00 0.00 37.10 2.24
467 491 7.589958 TGTCAATTTTGTACCAAAGGTGTAT 57.410 32.000 0.00 0.00 36.19 2.29
575 599 4.939052 TGCGGAACTCCCAAAAATTTTA 57.061 36.364 3.34 0.00 34.14 1.52
593 617 2.743752 CCGTGCTTCCAGACATGCG 61.744 63.158 0.00 0.00 0.00 4.73
877 901 4.095782 GCCATCGCACTGTAAAAATAGGAA 59.904 41.667 0.00 0.00 34.03 3.36
1229 1255 1.356398 TCGGCCATTTCCCCTACTTTT 59.644 47.619 2.24 0.00 0.00 2.27
1441 1475 0.037734 AAATTCCGCGGGTCCTTTCT 59.962 50.000 27.83 0.00 0.00 2.52
1491 1525 7.750229 TCTTGTTGCTTCATAAGAGTGAATT 57.250 32.000 0.00 0.00 37.47 2.17
1809 1855 3.426525 GCGCTCAAAATGACCTCTTTTTG 59.573 43.478 15.40 15.40 45.00 2.44
1828 1874 3.788163 GTCTAATCATTTCAGCAAAGCGC 59.212 43.478 0.00 0.00 42.91 5.92
1829 1875 4.095483 AGGTCTAATCATTTCAGCAAAGCG 59.905 41.667 0.00 0.00 0.00 4.68
1830 1876 5.573337 AGGTCTAATCATTTCAGCAAAGC 57.427 39.130 0.00 0.00 0.00 3.51
1831 1877 8.674263 AGATAGGTCTAATCATTTCAGCAAAG 57.326 34.615 0.00 0.00 31.36 2.77
1832 1878 9.466497 AAAGATAGGTCTAATCATTTCAGCAAA 57.534 29.630 0.00 0.00 33.30 3.68
1833 1879 9.466497 AAAAGATAGGTCTAATCATTTCAGCAA 57.534 29.630 0.00 0.00 33.30 3.91
1834 1880 9.466497 AAAAAGATAGGTCTAATCATTTCAGCA 57.534 29.630 0.00 0.00 33.30 4.41
1835 1881 9.727627 CAAAAAGATAGGTCTAATCATTTCAGC 57.272 33.333 0.00 0.00 33.30 4.26
1836 1882 9.727627 GCAAAAAGATAGGTCTAATCATTTCAG 57.272 33.333 0.00 0.00 33.30 3.02
1837 1883 8.397906 CGCAAAAAGATAGGTCTAATCATTTCA 58.602 33.333 0.00 0.00 33.30 2.69
1838 1884 8.398665 ACGCAAAAAGATAGGTCTAATCATTTC 58.601 33.333 0.00 0.00 33.30 2.17
1839 1885 8.281212 ACGCAAAAAGATAGGTCTAATCATTT 57.719 30.769 0.00 0.00 33.30 2.32
1840 1886 7.865706 ACGCAAAAAGATAGGTCTAATCATT 57.134 32.000 0.00 0.00 33.30 2.57
1841 1887 8.993121 CATACGCAAAAAGATAGGTCTAATCAT 58.007 33.333 0.00 0.00 33.30 2.45
1842 1888 7.042051 GCATACGCAAAAAGATAGGTCTAATCA 60.042 37.037 0.00 0.00 38.36 2.57
1843 1889 7.291567 GCATACGCAAAAAGATAGGTCTAATC 58.708 38.462 0.00 0.00 38.36 1.75
1844 1890 6.073765 CGCATACGCAAAAAGATAGGTCTAAT 60.074 38.462 0.00 0.00 38.40 1.73
1845 1891 5.233476 CGCATACGCAAAAAGATAGGTCTAA 59.767 40.000 0.00 0.00 38.40 2.10
1846 1892 4.743151 CGCATACGCAAAAAGATAGGTCTA 59.257 41.667 0.00 0.00 38.40 2.59
1847 1893 3.555956 CGCATACGCAAAAAGATAGGTCT 59.444 43.478 0.00 0.00 38.40 3.85
1848 1894 3.308866 ACGCATACGCAAAAAGATAGGTC 59.691 43.478 0.00 0.00 45.53 3.85
1849 1895 3.267483 ACGCATACGCAAAAAGATAGGT 58.733 40.909 0.00 0.00 45.53 3.08
1850 1896 3.944422 ACGCATACGCAAAAAGATAGG 57.056 42.857 0.00 0.00 45.53 2.57
1851 1897 6.959311 AGTTAAACGCATACGCAAAAAGATAG 59.041 34.615 0.00 0.00 45.53 2.08
1852 1898 6.739100 CAGTTAAACGCATACGCAAAAAGATA 59.261 34.615 0.00 0.00 45.53 1.98
1853 1899 5.567534 CAGTTAAACGCATACGCAAAAAGAT 59.432 36.000 0.00 0.00 45.53 2.40
1854 1900 4.907010 CAGTTAAACGCATACGCAAAAAGA 59.093 37.500 0.00 0.00 45.53 2.52
1855 1901 4.907010 TCAGTTAAACGCATACGCAAAAAG 59.093 37.500 0.00 0.00 45.53 2.27
1856 1902 4.845387 TCAGTTAAACGCATACGCAAAAA 58.155 34.783 0.00 0.00 45.53 1.94
1857 1903 4.469625 TCAGTTAAACGCATACGCAAAA 57.530 36.364 0.00 0.00 45.53 2.44
1858 1904 4.671880 ATCAGTTAAACGCATACGCAAA 57.328 36.364 0.00 0.00 45.53 3.68
1859 1905 5.733299 CATATCAGTTAAACGCATACGCAA 58.267 37.500 0.00 0.00 45.53 4.85
1860 1906 4.318475 GCATATCAGTTAAACGCATACGCA 60.318 41.667 0.00 0.00 45.53 5.24
1861 1907 4.084537 AGCATATCAGTTAAACGCATACGC 60.085 41.667 0.00 0.00 45.53 4.42
1862 1908 5.174943 TGAGCATATCAGTTAAACGCATACG 59.825 40.000 0.00 0.00 38.22 3.06
1863 1909 6.525121 TGAGCATATCAGTTAAACGCATAC 57.475 37.500 0.00 0.00 32.77 2.39
1876 1922 7.336176 GCATAAGGATTCATTCTGAGCATATCA 59.664 37.037 1.20 0.00 36.21 2.15
1877 1923 7.553402 AGCATAAGGATTCATTCTGAGCATATC 59.447 37.037 1.20 0.00 0.00 1.63
1878 1924 7.403671 AGCATAAGGATTCATTCTGAGCATAT 58.596 34.615 1.20 0.00 0.00 1.78
1879 1925 6.776744 AGCATAAGGATTCATTCTGAGCATA 58.223 36.000 1.20 0.00 0.00 3.14
1880 1926 5.632118 AGCATAAGGATTCATTCTGAGCAT 58.368 37.500 1.20 0.00 0.00 3.79
1881 1927 5.045012 AGCATAAGGATTCATTCTGAGCA 57.955 39.130 1.20 0.00 0.00 4.26
1882 1928 6.709846 ACTTAGCATAAGGATTCATTCTGAGC 59.290 38.462 1.20 0.00 0.00 4.26
1883 1929 9.941325 ATACTTAGCATAAGGATTCATTCTGAG 57.059 33.333 1.20 0.00 0.00 3.35
1924 1970 9.538508 GCTTCCGGTATCTTTCTTTTATTAGTA 57.461 33.333 0.00 0.00 0.00 1.82
1925 1971 8.265764 AGCTTCCGGTATCTTTCTTTTATTAGT 58.734 33.333 0.00 0.00 0.00 2.24
1926 1972 8.552034 CAGCTTCCGGTATCTTTCTTTTATTAG 58.448 37.037 0.00 0.00 0.00 1.73
1927 1973 8.262227 TCAGCTTCCGGTATCTTTCTTTTATTA 58.738 33.333 0.00 0.00 0.00 0.98
1928 1974 7.110155 TCAGCTTCCGGTATCTTTCTTTTATT 58.890 34.615 0.00 0.00 0.00 1.40
1929 1975 6.650120 TCAGCTTCCGGTATCTTTCTTTTAT 58.350 36.000 0.00 0.00 0.00 1.40
1930 1976 6.045072 TCAGCTTCCGGTATCTTTCTTTTA 57.955 37.500 0.00 0.00 0.00 1.52
1931 1977 4.906618 TCAGCTTCCGGTATCTTTCTTTT 58.093 39.130 0.00 0.00 0.00 2.27
1932 1978 4.553330 TCAGCTTCCGGTATCTTTCTTT 57.447 40.909 0.00 0.00 0.00 2.52
1933 1979 4.553330 TTCAGCTTCCGGTATCTTTCTT 57.447 40.909 0.00 0.00 0.00 2.52
1934 1980 4.553330 TTTCAGCTTCCGGTATCTTTCT 57.447 40.909 0.00 0.00 0.00 2.52
1935 1981 5.819825 AATTTCAGCTTCCGGTATCTTTC 57.180 39.130 0.00 0.00 0.00 2.62
1936 1982 5.125578 GGAAATTTCAGCTTCCGGTATCTTT 59.874 40.000 19.49 0.00 32.23 2.52
1937 1983 4.640647 GGAAATTTCAGCTTCCGGTATCTT 59.359 41.667 19.49 0.00 32.23 2.40
1938 1984 4.200092 GGAAATTTCAGCTTCCGGTATCT 58.800 43.478 19.49 0.00 32.23 1.98
1939 1985 3.945285 TGGAAATTTCAGCTTCCGGTATC 59.055 43.478 19.49 0.00 43.52 2.24
1940 1986 3.694566 GTGGAAATTTCAGCTTCCGGTAT 59.305 43.478 19.49 0.00 43.52 2.73
1941 1987 3.078837 GTGGAAATTTCAGCTTCCGGTA 58.921 45.455 19.49 0.00 43.52 4.02
1942 1988 1.886542 GTGGAAATTTCAGCTTCCGGT 59.113 47.619 19.49 0.00 43.52 5.28
1943 1989 1.202348 GGTGGAAATTTCAGCTTCCGG 59.798 52.381 19.49 0.00 43.52 5.14
1944 1990 1.885887 TGGTGGAAATTTCAGCTTCCG 59.114 47.619 19.49 0.00 43.52 4.30
1945 1991 3.259123 ACATGGTGGAAATTTCAGCTTCC 59.741 43.478 19.49 12.95 41.37 3.46
1946 1992 4.525912 ACATGGTGGAAATTTCAGCTTC 57.474 40.909 19.49 2.75 34.15 3.86
1947 1993 4.961438 AACATGGTGGAAATTTCAGCTT 57.039 36.364 19.49 10.30 34.15 3.74
1948 1994 4.634199 CAAACATGGTGGAAATTTCAGCT 58.366 39.130 19.49 4.10 34.15 4.24
1949 1995 3.187022 GCAAACATGGTGGAAATTTCAGC 59.813 43.478 19.49 14.45 0.00 4.26
1950 1996 4.634199 AGCAAACATGGTGGAAATTTCAG 58.366 39.130 19.49 4.85 0.00 3.02
1951 1997 4.686191 AGCAAACATGGTGGAAATTTCA 57.314 36.364 19.49 3.64 0.00 2.69
1952 1998 7.671495 AATTAGCAAACATGGTGGAAATTTC 57.329 32.000 9.83 9.83 0.00 2.17
1954 2000 9.816354 GTATAATTAGCAAACATGGTGGAAATT 57.184 29.630 0.00 1.04 0.00 1.82
1955 2001 9.200817 AGTATAATTAGCAAACATGGTGGAAAT 57.799 29.630 0.00 0.00 0.00 2.17
1956 2002 8.588290 AGTATAATTAGCAAACATGGTGGAAA 57.412 30.769 0.00 0.00 0.00 3.13
1957 2003 8.588290 AAGTATAATTAGCAAACATGGTGGAA 57.412 30.769 0.00 0.00 0.00 3.53
1958 2004 8.588290 AAAGTATAATTAGCAAACATGGTGGA 57.412 30.769 0.00 0.00 0.00 4.02
1966 2012 9.797556 CCACCCTTAAAAGTATAATTAGCAAAC 57.202 33.333 0.00 0.00 0.00 2.93
1967 2013 9.756571 TCCACCCTTAAAAGTATAATTAGCAAA 57.243 29.630 0.00 0.00 0.00 3.68
1968 2014 9.756571 TTCCACCCTTAAAAGTATAATTAGCAA 57.243 29.630 0.00 0.00 0.00 3.91
1969 2015 9.930158 ATTCCACCCTTAAAAGTATAATTAGCA 57.070 29.630 0.00 0.00 0.00 3.49
1989 2035 6.708285 TCTCCTAACTTCTTTGGTATTCCAC 58.292 40.000 0.00 0.00 44.22 4.02
1990 2036 6.945636 TCTCCTAACTTCTTTGGTATTCCA 57.054 37.500 0.00 0.00 42.66 3.53
1991 2037 6.993308 GGATCTCCTAACTTCTTTGGTATTCC 59.007 42.308 0.00 0.00 0.00 3.01
1992 2038 7.565680 TGGATCTCCTAACTTCTTTGGTATTC 58.434 38.462 0.00 0.00 36.82 1.75
1993 2039 7.366011 CCTGGATCTCCTAACTTCTTTGGTATT 60.366 40.741 0.00 0.00 36.82 1.89
1994 2040 6.100424 CCTGGATCTCCTAACTTCTTTGGTAT 59.900 42.308 0.00 0.00 36.82 2.73
1995 2041 5.425539 CCTGGATCTCCTAACTTCTTTGGTA 59.574 44.000 0.00 0.00 36.82 3.25
1996 2042 4.226168 CCTGGATCTCCTAACTTCTTTGGT 59.774 45.833 0.00 0.00 36.82 3.67
1997 2043 4.471386 TCCTGGATCTCCTAACTTCTTTGG 59.529 45.833 0.00 0.00 36.82 3.28
1998 2044 5.188751 ACTCCTGGATCTCCTAACTTCTTTG 59.811 44.000 0.00 0.00 36.82 2.77
1999 2045 5.346270 ACTCCTGGATCTCCTAACTTCTTT 58.654 41.667 0.00 0.00 36.82 2.52
2000 2046 4.954089 ACTCCTGGATCTCCTAACTTCTT 58.046 43.478 0.00 0.00 36.82 2.52
2001 2047 4.618378 ACTCCTGGATCTCCTAACTTCT 57.382 45.455 0.00 0.00 36.82 2.85
2002 2048 4.585581 GGTACTCCTGGATCTCCTAACTTC 59.414 50.000 0.00 0.00 36.82 3.01
2003 2049 4.548669 GGTACTCCTGGATCTCCTAACTT 58.451 47.826 0.00 0.00 36.82 2.66
2004 2050 3.117054 GGGTACTCCTGGATCTCCTAACT 60.117 52.174 0.00 0.00 36.82 2.24
2005 2051 3.232662 GGGTACTCCTGGATCTCCTAAC 58.767 54.545 0.00 0.00 36.82 2.34
2006 2052 2.863238 TGGGTACTCCTGGATCTCCTAA 59.137 50.000 0.00 0.00 36.82 2.69
2007 2053 2.177233 GTGGGTACTCCTGGATCTCCTA 59.823 54.545 0.00 0.00 36.82 2.94
2008 2054 1.062810 GTGGGTACTCCTGGATCTCCT 60.063 57.143 0.00 0.00 36.82 3.69
2009 2055 1.062810 AGTGGGTACTCCTGGATCTCC 60.063 57.143 0.00 0.00 36.20 3.71
2010 2056 2.463047 AGTGGGTACTCCTGGATCTC 57.537 55.000 0.00 0.00 36.20 2.75
2011 2057 4.202695 GGTATAGTGGGTACTCCTGGATCT 60.203 50.000 0.00 0.00 38.36 2.75
2012 2058 4.087907 GGTATAGTGGGTACTCCTGGATC 58.912 52.174 0.00 0.00 38.36 3.36
2013 2059 3.469771 TGGTATAGTGGGTACTCCTGGAT 59.530 47.826 0.00 0.00 38.36 3.41
2014 2060 2.860679 TGGTATAGTGGGTACTCCTGGA 59.139 50.000 0.00 0.00 38.36 3.86
2015 2061 3.323774 TGGTATAGTGGGTACTCCTGG 57.676 52.381 0.00 0.00 38.36 4.45
2016 2062 3.006967 GCATGGTATAGTGGGTACTCCTG 59.993 52.174 0.00 0.00 38.36 3.86
2017 2063 3.116707 AGCATGGTATAGTGGGTACTCCT 60.117 47.826 0.00 0.00 38.36 3.69
2018 2064 3.240302 AGCATGGTATAGTGGGTACTCC 58.760 50.000 0.00 0.00 38.36 3.85
2019 2065 3.258622 GGAGCATGGTATAGTGGGTACTC 59.741 52.174 0.00 0.00 38.36 2.59
2020 2066 3.240302 GGAGCATGGTATAGTGGGTACT 58.760 50.000 0.00 0.00 40.99 2.73
2021 2067 2.969950 TGGAGCATGGTATAGTGGGTAC 59.030 50.000 0.00 0.00 0.00 3.34
2022 2068 3.338110 TGGAGCATGGTATAGTGGGTA 57.662 47.619 0.00 0.00 0.00 3.69
2023 2069 2.190398 TGGAGCATGGTATAGTGGGT 57.810 50.000 0.00 0.00 0.00 4.51
2024 2070 3.795688 AATGGAGCATGGTATAGTGGG 57.204 47.619 0.00 0.00 0.00 4.61
2025 2071 6.207417 CCTTTTAATGGAGCATGGTATAGTGG 59.793 42.308 0.00 0.00 0.00 4.00
2026 2072 6.998074 TCCTTTTAATGGAGCATGGTATAGTG 59.002 38.462 0.00 0.00 0.00 2.74
2027 2073 7.149202 TCCTTTTAATGGAGCATGGTATAGT 57.851 36.000 0.00 0.00 0.00 2.12
2028 2074 8.641498 ATTCCTTTTAATGGAGCATGGTATAG 57.359 34.615 0.00 0.00 34.76 1.31
2030 2076 7.919385 AATTCCTTTTAATGGAGCATGGTAT 57.081 32.000 0.00 0.00 34.76 2.73
2031 2077 8.859090 CATAATTCCTTTTAATGGAGCATGGTA 58.141 33.333 0.00 0.00 34.76 3.25
2032 2078 7.345392 ACATAATTCCTTTTAATGGAGCATGGT 59.655 33.333 0.00 0.00 34.76 3.55
2033 2079 7.729116 ACATAATTCCTTTTAATGGAGCATGG 58.271 34.615 15.14 5.86 34.76 3.66
2036 2082 9.693739 TCTAACATAATTCCTTTTAATGGAGCA 57.306 29.630 0.00 0.00 34.76 4.26
2048 2094 9.686683 ACATAAAGCAGTTCTAACATAATTCCT 57.313 29.630 0.00 0.00 0.00 3.36
2049 2095 9.722056 CACATAAAGCAGTTCTAACATAATTCC 57.278 33.333 0.00 0.00 0.00 3.01
2053 2099 9.448438 ACATCACATAAAGCAGTTCTAACATAA 57.552 29.630 0.00 0.00 0.00 1.90
2054 2100 9.448438 AACATCACATAAAGCAGTTCTAACATA 57.552 29.630 0.00 0.00 0.00 2.29
2055 2101 7.928307 ACATCACATAAAGCAGTTCTAACAT 57.072 32.000 0.00 0.00 0.00 2.71
2056 2102 7.308529 CCAACATCACATAAAGCAGTTCTAACA 60.309 37.037 0.00 0.00 0.00 2.41
2057 2103 7.023575 CCAACATCACATAAAGCAGTTCTAAC 58.976 38.462 0.00 0.00 0.00 2.34
2058 2104 6.939730 TCCAACATCACATAAAGCAGTTCTAA 59.060 34.615 0.00 0.00 0.00 2.10
2059 2105 6.472016 TCCAACATCACATAAAGCAGTTCTA 58.528 36.000 0.00 0.00 0.00 2.10
2060 2106 5.316167 TCCAACATCACATAAAGCAGTTCT 58.684 37.500 0.00 0.00 0.00 3.01
2061 2107 5.627499 TCCAACATCACATAAAGCAGTTC 57.373 39.130 0.00 0.00 0.00 3.01
2062 2108 4.082571 GCTCCAACATCACATAAAGCAGTT 60.083 41.667 0.00 0.00 0.00 3.16
2063 2109 3.441572 GCTCCAACATCACATAAAGCAGT 59.558 43.478 0.00 0.00 0.00 4.40
2064 2110 3.693085 AGCTCCAACATCACATAAAGCAG 59.307 43.478 0.00 0.00 0.00 4.24
2065 2111 3.441222 CAGCTCCAACATCACATAAAGCA 59.559 43.478 0.00 0.00 0.00 3.91
2066 2112 3.181493 CCAGCTCCAACATCACATAAAGC 60.181 47.826 0.00 0.00 0.00 3.51
2067 2113 4.012374 ACCAGCTCCAACATCACATAAAG 58.988 43.478 0.00 0.00 0.00 1.85
2068 2114 3.758023 CACCAGCTCCAACATCACATAAA 59.242 43.478 0.00 0.00 0.00 1.40
2069 2115 3.244875 ACACCAGCTCCAACATCACATAA 60.245 43.478 0.00 0.00 0.00 1.90
2070 2116 2.305635 ACACCAGCTCCAACATCACATA 59.694 45.455 0.00 0.00 0.00 2.29
2071 2117 1.074405 ACACCAGCTCCAACATCACAT 59.926 47.619 0.00 0.00 0.00 3.21
2072 2118 0.473755 ACACCAGCTCCAACATCACA 59.526 50.000 0.00 0.00 0.00 3.58
2073 2119 1.609208 AACACCAGCTCCAACATCAC 58.391 50.000 0.00 0.00 0.00 3.06
2074 2120 2.371841 ACTAACACCAGCTCCAACATCA 59.628 45.455 0.00 0.00 0.00 3.07
2075 2121 2.744202 CACTAACACCAGCTCCAACATC 59.256 50.000 0.00 0.00 0.00 3.06
2076 2122 2.106511 ACACTAACACCAGCTCCAACAT 59.893 45.455 0.00 0.00 0.00 2.71
2077 2123 1.488812 ACACTAACACCAGCTCCAACA 59.511 47.619 0.00 0.00 0.00 3.33
2078 2124 2.256117 ACACTAACACCAGCTCCAAC 57.744 50.000 0.00 0.00 0.00 3.77
2079 2125 4.323417 CATAACACTAACACCAGCTCCAA 58.677 43.478 0.00 0.00 0.00 3.53
2080 2126 3.868369 GCATAACACTAACACCAGCTCCA 60.868 47.826 0.00 0.00 0.00 3.86
2081 2127 2.678336 GCATAACACTAACACCAGCTCC 59.322 50.000 0.00 0.00 0.00 4.70
2082 2128 2.678336 GGCATAACACTAACACCAGCTC 59.322 50.000 0.00 0.00 0.00 4.09
2083 2129 2.305927 AGGCATAACACTAACACCAGCT 59.694 45.455 0.00 0.00 0.00 4.24
2084 2130 2.678336 GAGGCATAACACTAACACCAGC 59.322 50.000 0.00 0.00 0.00 4.85
2085 2131 4.081420 AGAGAGGCATAACACTAACACCAG 60.081 45.833 0.00 0.00 0.00 4.00
2086 2132 3.838317 AGAGAGGCATAACACTAACACCA 59.162 43.478 0.00 0.00 0.00 4.17
2087 2133 4.160626 AGAGAGAGGCATAACACTAACACC 59.839 45.833 0.00 0.00 0.00 4.16
2088 2134 5.331876 AGAGAGAGGCATAACACTAACAC 57.668 43.478 0.00 0.00 0.00 3.32
2089 2135 6.360370 AAAGAGAGAGGCATAACACTAACA 57.640 37.500 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.