Multiple sequence alignment - TraesCS1B01G081300

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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 TraesCS1B01G081300 chr1B 100.000 2732 0 0 1 2732 63888233 63890964 0.000000e+00 5046
1 TraesCS1B01G081300 chr1B 94.462 1860 94 7 1 1857 63613343 63615196 0.000000e+00 2856
2 TraesCS1B01G081300 chr1B 93.967 1840 104 6 15 1851 63807958 63809793 0.000000e+00 2776
3 TraesCS1B01G081300 chr1B 93.653 1859 98 7 1 1857 63758339 63760179 0.000000e+00 2761
4 TraesCS1B01G081300 chr1B 94.971 1710 80 5 143 1851 63479076 63480780 0.000000e+00 2676
5 TraesCS1B01G081300 chr1B 94.217 1712 85 8 143 1851 63467844 63469544 0.000000e+00 2601
6 TraesCS1B01G081300 chr1B 88.489 1390 128 22 417 1790 63201570 63202943 0.000000e+00 1652
7 TraesCS1B01G081300 chr1B 93.928 527 24 2 2214 2732 587270129 587269603 0.000000e+00 789
8 TraesCS1B01G081300 chr1A 92.595 1850 118 11 15 1857 43393098 43391261 0.000000e+00 2639
9 TraesCS1B01G081300 chr1A 92.204 1847 127 12 15 1857 43272477 43270644 0.000000e+00 2597
10 TraesCS1B01G081300 chr1A 88.000 400 45 3 96 493 43950538 43950936 1.150000e-128 470
11 TraesCS1B01G081300 chr1A 81.416 226 25 14 205 417 590863742 590863521 4.680000e-38 169
12 TraesCS1B01G081300 chr1D 91.628 1278 82 19 582 1856 44628791 44630046 0.000000e+00 1744
13 TraesCS1B01G081300 chr1D 93.121 1163 67 8 703 1856 43823094 43824252 0.000000e+00 1692
14 TraesCS1B01G081300 chr1D 95.000 320 14 2 1853 2171 31042564 31042882 4.060000e-138 501
15 TraesCS1B01G081300 chr7B 93.727 542 26 2 2199 2732 20014838 20015379 0.000000e+00 806
16 TraesCS1B01G081300 chr7B 92.634 543 31 3 2199 2732 724338676 724338134 0.000000e+00 773
17 TraesCS1B01G081300 chr7B 95.253 316 13 2 1856 2171 33793283 33792970 1.460000e-137 499
18 TraesCS1B01G081300 chr3B 94.497 527 21 2 2214 2732 309823883 309823357 0.000000e+00 806
19 TraesCS1B01G081300 chr2B 93.519 540 27 2 2199 2730 804750 804211 0.000000e+00 797
20 TraesCS1B01G081300 chr2B 93.738 527 25 2 2214 2732 158885176 158885702 0.000000e+00 784
21 TraesCS1B01G081300 chr2B 92.963 540 30 2 2201 2732 704883207 704882668 0.000000e+00 780
22 TraesCS1B01G081300 chr6B 93.738 527 24 3 2214 2732 157783947 157783422 0.000000e+00 782
23 TraesCS1B01G081300 chr6B 94.357 319 17 1 1853 2171 676230223 676230540 3.160000e-134 488
24 TraesCS1B01G081300 chr4B 92.804 542 31 2 2199 2732 331873092 331872551 0.000000e+00 778
25 TraesCS1B01G081300 chr6D 94.708 359 14 2 1853 2211 469776049 469776402 1.110000e-153 553
26 TraesCS1B01G081300 chr4D 94.671 319 16 1 1853 2171 401783807 401784124 6.800000e-136 494
27 TraesCS1B01G081300 chr5D 94.620 316 16 1 1856 2171 48840345 48840031 3.160000e-134 488
28 TraesCS1B01G081300 chr5B 94.620 316 15 2 1856 2171 535123294 535122981 3.160000e-134 488
29 TraesCS1B01G081300 chr3D 94.357 319 17 1 1853 2171 11406130 11406447 3.160000e-134 488
30 TraesCS1B01G081300 chr7D 94.322 317 16 2 1856 2171 30004219 30003904 4.090000e-133 484


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 TraesCS1B01G081300 chr1B 63888233 63890964 2731 False 5046 5046 100.000 1 2732 1 chr1B.!!$F7 2731
1 TraesCS1B01G081300 chr1B 63613343 63615196 1853 False 2856 2856 94.462 1 1857 1 chr1B.!!$F4 1856
2 TraesCS1B01G081300 chr1B 63807958 63809793 1835 False 2776 2776 93.967 15 1851 1 chr1B.!!$F6 1836
3 TraesCS1B01G081300 chr1B 63758339 63760179 1840 False 2761 2761 93.653 1 1857 1 chr1B.!!$F5 1856
4 TraesCS1B01G081300 chr1B 63479076 63480780 1704 False 2676 2676 94.971 143 1851 1 chr1B.!!$F3 1708
5 TraesCS1B01G081300 chr1B 63467844 63469544 1700 False 2601 2601 94.217 143 1851 1 chr1B.!!$F2 1708
6 TraesCS1B01G081300 chr1B 63201570 63202943 1373 False 1652 1652 88.489 417 1790 1 chr1B.!!$F1 1373
7 TraesCS1B01G081300 chr1B 587269603 587270129 526 True 789 789 93.928 2214 2732 1 chr1B.!!$R1 518
8 TraesCS1B01G081300 chr1A 43391261 43393098 1837 True 2639 2639 92.595 15 1857 1 chr1A.!!$R2 1842
9 TraesCS1B01G081300 chr1A 43270644 43272477 1833 True 2597 2597 92.204 15 1857 1 chr1A.!!$R1 1842
10 TraesCS1B01G081300 chr1D 44628791 44630046 1255 False 1744 1744 91.628 582 1856 1 chr1D.!!$F3 1274
11 TraesCS1B01G081300 chr1D 43823094 43824252 1158 False 1692 1692 93.121 703 1856 1 chr1D.!!$F2 1153
12 TraesCS1B01G081300 chr7B 20014838 20015379 541 False 806 806 93.727 2199 2732 1 chr7B.!!$F1 533
13 TraesCS1B01G081300 chr7B 724338134 724338676 542 True 773 773 92.634 2199 2732 1 chr7B.!!$R2 533
14 TraesCS1B01G081300 chr3B 309823357 309823883 526 True 806 806 94.497 2214 2732 1 chr3B.!!$R1 518
15 TraesCS1B01G081300 chr2B 804211 804750 539 True 797 797 93.519 2199 2730 1 chr2B.!!$R1 531
16 TraesCS1B01G081300 chr2B 158885176 158885702 526 False 784 784 93.738 2214 2732 1 chr2B.!!$F1 518
17 TraesCS1B01G081300 chr2B 704882668 704883207 539 True 780 780 92.963 2201 2732 1 chr2B.!!$R2 531
18 TraesCS1B01G081300 chr6B 157783422 157783947 525 True 782 782 93.738 2214 2732 1 chr6B.!!$R1 518
19 TraesCS1B01G081300 chr4B 331872551 331873092 541 True 778 778 92.804 2199 2732 1 chr4B.!!$R1 533

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
179 185 1.003866 GGCGAAATGAATGCGAGGTAC 60.004 52.381 0.0 0.0 0.0 3.34 F
271 277 1.247567 CATCAACCTGAAAACGGGCT 58.752 50.000 0.0 0.0 0.0 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1411 1441 0.031449 TATGCAACGCCGATCATCGA 59.969 50.0 9.16 0.0 43.74 3.59 R
2148 2184 0.255604 TATGACCGTCGTACTCCCCA 59.744 55.0 0.00 0.0 0.00 4.96 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
136 142 1.306568 GAACCCCTGGAGGAGCTCT 60.307 63.158 14.64 0.00 38.24 4.09
179 185 1.003866 GGCGAAATGAATGCGAGGTAC 60.004 52.381 0.00 0.00 0.00 3.34
271 277 1.247567 CATCAACCTGAAAACGGGCT 58.752 50.000 0.00 0.00 0.00 5.19
287 293 2.053116 CTGCGCGACACACAACAC 60.053 61.111 12.10 0.00 0.00 3.32
346 352 4.627058 TGCACGAATCTTAAAGACAGACA 58.373 39.130 0.00 0.00 0.00 3.41
451 457 7.812669 TGTAATGTTGTAGTCTGTAGATGTGTG 59.187 37.037 0.00 0.00 0.00 3.82
498 506 8.995027 TTATGCAATACCATACCTTCAAGATT 57.005 30.769 0.00 0.00 0.00 2.40
752 764 6.801539 AATGTACACACTCATTGTTCGATT 57.198 33.333 0.00 0.00 35.67 3.34
1000 1018 6.447162 CCATAGCTAACGAAGTCATGTATCA 58.553 40.000 0.00 0.00 45.00 2.15
1057 1087 7.937700 ATAACATCAAAGGGATAGAGAAGGA 57.062 36.000 0.00 0.00 33.95 3.36
1423 1453 0.512952 GGGAATTTCGATGATCGGCG 59.487 55.000 15.48 0.00 40.88 6.46
1491 1522 8.458052 ACACGATTTTGATTTTAGTGATGCATA 58.542 29.630 0.00 0.00 33.00 3.14
1529 1560 5.005740 TGCTATTCTGATCATATGTTGGGC 58.994 41.667 1.90 0.00 0.00 5.36
1609 1641 0.979665 CTGTGGGAGGAGAAGCTTGA 59.020 55.000 2.10 0.00 0.00 3.02
1666 1700 8.181904 AGCTTTCCTTTCAAATCTGTAATTCA 57.818 30.769 0.00 0.00 0.00 2.57
1686 1720 2.574006 TGAGGCTGTGCTCAGAAAAT 57.426 45.000 19.61 1.44 43.76 1.82
1695 1729 6.128742 GGCTGTGCTCAGAAAATTTTATGTTG 60.129 38.462 21.45 16.75 43.76 3.33
1832 1868 2.035321 TGCAACGGGAGAAAAACAATCC 59.965 45.455 0.00 0.00 0.00 3.01
1851 1887 7.112122 ACAATCCGATTATGCATATGTGGTAT 58.888 34.615 7.36 0.00 0.00 2.73
1857 1893 9.411801 CCGATTATGCATATGTGGTATAGATAC 57.588 37.037 7.36 0.00 0.00 2.24
1858 1894 9.965824 CGATTATGCATATGTGGTATAGATACA 57.034 33.333 7.36 0.00 34.98 2.29
1862 1898 6.852664 TGCATATGTGGTATAGATACAGACG 58.147 40.000 4.29 0.00 34.98 4.18
1863 1899 6.657541 TGCATATGTGGTATAGATACAGACGA 59.342 38.462 4.29 0.00 34.98 4.20
1864 1900 7.175990 TGCATATGTGGTATAGATACAGACGAA 59.824 37.037 4.29 0.00 34.98 3.85
1865 1901 7.485277 GCATATGTGGTATAGATACAGACGAAC 59.515 40.741 4.29 0.00 34.98 3.95
1866 1902 5.762825 TGTGGTATAGATACAGACGAACC 57.237 43.478 0.00 0.00 34.98 3.62
1867 1903 5.443283 TGTGGTATAGATACAGACGAACCT 58.557 41.667 0.00 0.00 34.98 3.50
1868 1904 6.594744 TGTGGTATAGATACAGACGAACCTA 58.405 40.000 0.00 0.00 34.98 3.08
1869 1905 7.056006 TGTGGTATAGATACAGACGAACCTAA 58.944 38.462 0.00 0.00 34.98 2.69
1870 1906 7.557358 TGTGGTATAGATACAGACGAACCTAAA 59.443 37.037 0.00 0.00 34.98 1.85
1871 1907 8.074972 GTGGTATAGATACAGACGAACCTAAAG 58.925 40.741 0.00 0.00 34.98 1.85
1872 1908 7.994911 TGGTATAGATACAGACGAACCTAAAGA 59.005 37.037 0.00 0.00 34.98 2.52
1873 1909 9.012161 GGTATAGATACAGACGAACCTAAAGAT 57.988 37.037 0.00 0.00 34.98 2.40
1877 1913 8.749026 AGATACAGACGAACCTAAAGATAAGA 57.251 34.615 0.00 0.00 0.00 2.10
1878 1914 9.186837 AGATACAGACGAACCTAAAGATAAGAA 57.813 33.333 0.00 0.00 0.00 2.52
1879 1915 9.968870 GATACAGACGAACCTAAAGATAAGAAT 57.031 33.333 0.00 0.00 0.00 2.40
1880 1916 9.751542 ATACAGACGAACCTAAAGATAAGAATG 57.248 33.333 0.00 0.00 0.00 2.67
1881 1917 7.837863 ACAGACGAACCTAAAGATAAGAATGA 58.162 34.615 0.00 0.00 0.00 2.57
1882 1918 8.478877 ACAGACGAACCTAAAGATAAGAATGAT 58.521 33.333 0.00 0.00 0.00 2.45
1883 1919 9.967346 CAGACGAACCTAAAGATAAGAATGATA 57.033 33.333 0.00 0.00 0.00 2.15
1886 1922 9.209175 ACGAACCTAAAGATAAGAATGATATGC 57.791 33.333 0.00 0.00 0.00 3.14
1887 1923 9.208022 CGAACCTAAAGATAAGAATGATATGCA 57.792 33.333 0.00 0.00 0.00 3.96
1894 1930 8.969260 AAGATAAGAATGATATGCAAGTGTGA 57.031 30.769 0.00 0.00 0.00 3.58
1895 1931 8.375608 AGATAAGAATGATATGCAAGTGTGAC 57.624 34.615 0.00 0.00 0.00 3.67
1896 1932 8.209584 AGATAAGAATGATATGCAAGTGTGACT 58.790 33.333 0.00 0.00 0.00 3.41
1897 1933 8.743085 ATAAGAATGATATGCAAGTGTGACTT 57.257 30.769 0.00 0.00 39.39 3.01
1909 1945 5.897377 AAGTGTGACTTGCAAAAAGTACT 57.103 34.783 0.00 0.03 37.00 2.73
1910 1946 6.995511 AAGTGTGACTTGCAAAAAGTACTA 57.004 33.333 0.00 0.00 37.00 1.82
1911 1947 6.995511 AGTGTGACTTGCAAAAAGTACTAA 57.004 33.333 0.00 0.00 0.00 2.24
1912 1948 7.568199 AGTGTGACTTGCAAAAAGTACTAAT 57.432 32.000 0.00 0.00 0.00 1.73
1913 1949 8.671384 AGTGTGACTTGCAAAAAGTACTAATA 57.329 30.769 0.00 0.00 0.00 0.98
1914 1950 9.116067 AGTGTGACTTGCAAAAAGTACTAATAA 57.884 29.630 0.00 0.00 0.00 1.40
1915 1951 9.893305 GTGTGACTTGCAAAAAGTACTAATAAT 57.107 29.630 0.00 0.00 0.00 1.28
1948 1984 9.748708 CTCTGTTGAGTTTTTGAAATGGAATAA 57.251 29.630 0.00 0.00 35.67 1.40
1949 1985 9.748708 TCTGTTGAGTTTTTGAAATGGAATAAG 57.251 29.630 0.00 0.00 0.00 1.73
1950 1986 8.885494 TGTTGAGTTTTTGAAATGGAATAAGG 57.115 30.769 0.00 0.00 0.00 2.69
1951 1987 8.700051 TGTTGAGTTTTTGAAATGGAATAAGGA 58.300 29.630 0.00 0.00 0.00 3.36
1952 1988 9.541143 GTTGAGTTTTTGAAATGGAATAAGGAA 57.459 29.630 0.00 0.00 0.00 3.36
1953 1989 9.762933 TTGAGTTTTTGAAATGGAATAAGGAAG 57.237 29.630 0.00 0.00 0.00 3.46
1954 1990 9.142014 TGAGTTTTTGAAATGGAATAAGGAAGA 57.858 29.630 0.00 0.00 0.00 2.87
1955 1991 9.981114 GAGTTTTTGAAATGGAATAAGGAAGAA 57.019 29.630 0.00 0.00 0.00 2.52
1956 1992 9.987272 AGTTTTTGAAATGGAATAAGGAAGAAG 57.013 29.630 0.00 0.00 0.00 2.85
1957 1993 9.764363 GTTTTTGAAATGGAATAAGGAAGAAGT 57.236 29.630 0.00 0.00 0.00 3.01
1960 1996 9.807921 TTTGAAATGGAATAAGGAAGAAGTACT 57.192 29.630 0.00 0.00 0.00 2.73
1961 1997 9.449719 TTGAAATGGAATAAGGAAGAAGTACTC 57.550 33.333 0.00 0.00 0.00 2.59
1962 1998 8.602424 TGAAATGGAATAAGGAAGAAGTACTCA 58.398 33.333 0.00 0.00 0.00 3.41
1963 1999 8.794335 AAATGGAATAAGGAAGAAGTACTCAC 57.206 34.615 0.00 0.00 0.00 3.51
1964 2000 6.928348 TGGAATAAGGAAGAAGTACTCACA 57.072 37.500 0.00 0.00 0.00 3.58
1965 2001 7.496346 TGGAATAAGGAAGAAGTACTCACAT 57.504 36.000 0.00 0.00 0.00 3.21
1966 2002 8.603898 TGGAATAAGGAAGAAGTACTCACATA 57.396 34.615 0.00 0.00 0.00 2.29
1967 2003 8.475639 TGGAATAAGGAAGAAGTACTCACATAC 58.524 37.037 0.00 0.00 0.00 2.39
1968 2004 7.927092 GGAATAAGGAAGAAGTACTCACATACC 59.073 40.741 0.00 0.00 0.00 2.73
1969 2005 7.973048 ATAAGGAAGAAGTACTCACATACCA 57.027 36.000 0.00 0.00 0.00 3.25
1970 2006 5.923733 AGGAAGAAGTACTCACATACCAG 57.076 43.478 0.00 0.00 0.00 4.00
1971 2007 5.334421 AGGAAGAAGTACTCACATACCAGT 58.666 41.667 0.00 0.00 0.00 4.00
1972 2008 5.780793 AGGAAGAAGTACTCACATACCAGTT 59.219 40.000 0.00 0.00 0.00 3.16
1973 2009 6.952358 AGGAAGAAGTACTCACATACCAGTTA 59.048 38.462 0.00 0.00 0.00 2.24
1974 2010 7.453752 AGGAAGAAGTACTCACATACCAGTTAA 59.546 37.037 0.00 0.00 0.00 2.01
1975 2011 7.544915 GGAAGAAGTACTCACATACCAGTTAAC 59.455 40.741 0.00 0.00 0.00 2.01
1976 2012 7.534723 AGAAGTACTCACATACCAGTTAACA 57.465 36.000 8.61 0.00 0.00 2.41
1977 2013 7.603651 AGAAGTACTCACATACCAGTTAACAG 58.396 38.462 8.61 0.00 0.00 3.16
1978 2014 7.450634 AGAAGTACTCACATACCAGTTAACAGA 59.549 37.037 8.61 0.00 0.00 3.41
1979 2015 7.719871 AGTACTCACATACCAGTTAACAGAT 57.280 36.000 8.61 0.00 0.00 2.90
1980 2016 8.818622 AGTACTCACATACCAGTTAACAGATA 57.181 34.615 8.61 0.00 0.00 1.98
1981 2017 9.251440 AGTACTCACATACCAGTTAACAGATAA 57.749 33.333 8.61 0.00 0.00 1.75
1982 2018 9.298774 GTACTCACATACCAGTTAACAGATAAC 57.701 37.037 8.61 0.00 43.56 1.89
2028 2064 9.481340 TCAGATAAATGAAGTGGATAATCGAAG 57.519 33.333 0.00 0.00 0.00 3.79
2029 2065 9.265901 CAGATAAATGAAGTGGATAATCGAAGT 57.734 33.333 0.00 0.00 0.00 3.01
2030 2066 9.838339 AGATAAATGAAGTGGATAATCGAAGTT 57.162 29.630 0.00 0.00 0.00 2.66
2033 2069 6.927294 ATGAAGTGGATAATCGAAGTTTCC 57.073 37.500 0.00 0.00 0.00 3.13
2034 2070 6.049955 TGAAGTGGATAATCGAAGTTTCCT 57.950 37.500 9.37 0.00 0.00 3.36
2035 2071 6.106673 TGAAGTGGATAATCGAAGTTTCCTC 58.893 40.000 9.37 6.68 0.00 3.71
2036 2072 5.677319 AGTGGATAATCGAAGTTTCCTCA 57.323 39.130 9.37 0.00 0.00 3.86
2037 2073 6.049955 AGTGGATAATCGAAGTTTCCTCAA 57.950 37.500 9.37 0.00 0.00 3.02
2038 2074 6.653989 AGTGGATAATCGAAGTTTCCTCAAT 58.346 36.000 9.37 0.00 0.00 2.57
2039 2075 7.112779 AGTGGATAATCGAAGTTTCCTCAATT 58.887 34.615 9.37 0.00 0.00 2.32
2040 2076 7.281100 AGTGGATAATCGAAGTTTCCTCAATTC 59.719 37.037 9.37 0.00 0.00 2.17
2041 2077 7.065803 GTGGATAATCGAAGTTTCCTCAATTCA 59.934 37.037 9.37 0.00 0.00 2.57
2042 2078 7.065803 TGGATAATCGAAGTTTCCTCAATTCAC 59.934 37.037 9.37 0.00 0.00 3.18
2043 2079 7.065803 GGATAATCGAAGTTTCCTCAATTCACA 59.934 37.037 0.00 0.00 0.00 3.58
2044 2080 6.633500 AATCGAAGTTTCCTCAATTCACAA 57.367 33.333 0.00 0.00 0.00 3.33
2045 2081 5.673337 TCGAAGTTTCCTCAATTCACAAG 57.327 39.130 0.00 0.00 0.00 3.16
2046 2082 5.364778 TCGAAGTTTCCTCAATTCACAAGA 58.635 37.500 0.00 0.00 0.00 3.02
2047 2083 5.466728 TCGAAGTTTCCTCAATTCACAAGAG 59.533 40.000 0.00 0.00 0.00 2.85
2048 2084 5.237344 CGAAGTTTCCTCAATTCACAAGAGT 59.763 40.000 0.00 0.00 0.00 3.24
2049 2085 6.238484 CGAAGTTTCCTCAATTCACAAGAGTT 60.238 38.462 0.00 0.00 0.00 3.01
2050 2086 6.382869 AGTTTCCTCAATTCACAAGAGTTG 57.617 37.500 0.00 0.00 41.36 3.16
2051 2087 5.888161 AGTTTCCTCAATTCACAAGAGTTGT 59.112 36.000 0.00 0.00 46.75 3.32
2064 2100 6.279513 ACAAGAGTTGTGAATGGTTTTTCA 57.720 33.333 0.00 0.00 43.48 2.69
2065 2101 6.696411 ACAAGAGTTGTGAATGGTTTTTCAA 58.304 32.000 0.00 0.00 43.48 2.69
2066 2102 7.158021 ACAAGAGTTGTGAATGGTTTTTCAAA 58.842 30.769 0.00 0.00 43.48 2.69
2067 2103 7.659390 ACAAGAGTTGTGAATGGTTTTTCAAAA 59.341 29.630 0.00 0.00 43.48 2.44
2068 2104 8.667463 CAAGAGTTGTGAATGGTTTTTCAAAAT 58.333 29.630 0.00 0.00 35.76 1.82
2069 2105 8.791327 AGAGTTGTGAATGGTTTTTCAAAATT 57.209 26.923 0.00 0.00 35.76 1.82
2070 2106 8.667463 AGAGTTGTGAATGGTTTTTCAAAATTG 58.333 29.630 0.00 0.00 35.76 2.32
2071 2107 8.334263 AGTTGTGAATGGTTTTTCAAAATTGT 57.666 26.923 0.00 0.00 35.76 2.71
2072 2108 8.235905 AGTTGTGAATGGTTTTTCAAAATTGTG 58.764 29.630 0.00 0.00 35.76 3.33
2073 2109 7.081526 TGTGAATGGTTTTTCAAAATTGTGG 57.918 32.000 0.00 0.00 37.36 4.17
2074 2110 6.094603 TGTGAATGGTTTTTCAAAATTGTGGG 59.905 34.615 0.00 0.00 37.36 4.61
2075 2111 6.317391 GTGAATGGTTTTTCAAAATTGTGGGA 59.683 34.615 0.00 0.00 37.36 4.37
2076 2112 6.541641 TGAATGGTTTTTCAAAATTGTGGGAG 59.458 34.615 0.00 0.00 32.82 4.30
2077 2113 5.683876 TGGTTTTTCAAAATTGTGGGAGA 57.316 34.783 0.00 0.00 0.00 3.71
2078 2114 6.054860 TGGTTTTTCAAAATTGTGGGAGAA 57.945 33.333 0.00 0.00 0.00 2.87
2079 2115 6.476378 TGGTTTTTCAAAATTGTGGGAGAAA 58.524 32.000 0.00 0.00 0.00 2.52
2080 2116 6.942576 TGGTTTTTCAAAATTGTGGGAGAAAA 59.057 30.769 0.00 0.00 34.36 2.29
2081 2117 7.120432 TGGTTTTTCAAAATTGTGGGAGAAAAG 59.880 33.333 0.00 0.00 36.64 2.27
2082 2118 7.120579 GGTTTTTCAAAATTGTGGGAGAAAAGT 59.879 33.333 0.00 0.00 36.64 2.66
2083 2119 8.511321 GTTTTTCAAAATTGTGGGAGAAAAGTT 58.489 29.630 0.00 0.00 36.64 2.66
2084 2120 7.841915 TTTCAAAATTGTGGGAGAAAAGTTC 57.158 32.000 0.00 0.00 0.00 3.01
2085 2121 6.790232 TCAAAATTGTGGGAGAAAAGTTCT 57.210 33.333 0.00 0.00 44.21 3.01
2086 2122 7.181569 TCAAAATTGTGGGAGAAAAGTTCTT 57.818 32.000 0.00 0.00 40.87 2.52
2087 2123 7.041107 TCAAAATTGTGGGAGAAAAGTTCTTG 58.959 34.615 0.00 0.00 40.87 3.02
2088 2124 4.590850 ATTGTGGGAGAAAAGTTCTTGC 57.409 40.909 0.00 0.00 40.87 4.01
2089 2125 2.306847 TGTGGGAGAAAAGTTCTTGCC 58.693 47.619 0.00 0.00 40.87 4.52
2090 2126 2.306847 GTGGGAGAAAAGTTCTTGCCA 58.693 47.619 0.00 0.00 40.87 4.92
2091 2127 2.034685 GTGGGAGAAAAGTTCTTGCCAC 59.965 50.000 11.97 11.97 40.87 5.01
2092 2128 2.306847 GGGAGAAAAGTTCTTGCCACA 58.693 47.619 0.00 0.00 40.87 4.17
2093 2129 2.893489 GGGAGAAAAGTTCTTGCCACAT 59.107 45.455 0.00 0.00 40.87 3.21
2094 2130 3.321968 GGGAGAAAAGTTCTTGCCACATT 59.678 43.478 0.00 0.00 40.87 2.71
2095 2131 4.202253 GGGAGAAAAGTTCTTGCCACATTT 60.202 41.667 0.00 0.00 40.87 2.32
2096 2132 4.984785 GGAGAAAAGTTCTTGCCACATTTC 59.015 41.667 0.00 0.00 40.87 2.17
2097 2133 4.610945 AGAAAAGTTCTTGCCACATTTCG 58.389 39.130 0.00 0.00 37.08 3.46
2098 2134 4.338118 AGAAAAGTTCTTGCCACATTTCGA 59.662 37.500 0.00 0.00 37.08 3.71
2099 2135 3.904136 AAGTTCTTGCCACATTTCGAG 57.096 42.857 0.00 0.00 0.00 4.04
2100 2136 2.154462 AGTTCTTGCCACATTTCGAGG 58.846 47.619 0.00 0.00 0.00 4.63
2101 2137 1.200020 GTTCTTGCCACATTTCGAGGG 59.800 52.381 0.00 0.00 0.00 4.30
2102 2138 0.322456 TCTTGCCACATTTCGAGGGG 60.322 55.000 0.00 0.00 0.00 4.79
2103 2139 1.304052 TTGCCACATTTCGAGGGGG 60.304 57.895 0.00 0.00 0.00 5.40
2104 2140 1.784301 TTGCCACATTTCGAGGGGGA 61.784 55.000 6.31 0.00 0.00 4.81
2105 2141 1.452108 GCCACATTTCGAGGGGGAG 60.452 63.158 6.31 0.00 0.00 4.30
2106 2142 1.910580 GCCACATTTCGAGGGGGAGA 61.911 60.000 6.31 0.00 0.00 3.71
2107 2143 0.618458 CCACATTTCGAGGGGGAGAA 59.382 55.000 0.00 0.00 0.00 2.87
2108 2144 1.004277 CCACATTTCGAGGGGGAGAAA 59.996 52.381 0.00 0.00 40.14 2.52
2109 2145 2.359900 CACATTTCGAGGGGGAGAAAG 58.640 52.381 0.00 0.00 39.36 2.62
2110 2146 2.027192 CACATTTCGAGGGGGAGAAAGA 60.027 50.000 0.00 0.00 39.36 2.52
2111 2147 2.642807 ACATTTCGAGGGGGAGAAAGAA 59.357 45.455 0.00 0.00 39.36 2.52
2112 2148 3.073946 ACATTTCGAGGGGGAGAAAGAAA 59.926 43.478 0.00 0.00 39.36 2.52
2113 2149 4.263949 ACATTTCGAGGGGGAGAAAGAAAT 60.264 41.667 0.00 0.00 39.36 2.17
2114 2150 5.045140 ACATTTCGAGGGGGAGAAAGAAATA 60.045 40.000 1.64 0.00 39.36 1.40
2115 2151 5.710409 TTTCGAGGGGGAGAAAGAAATAT 57.290 39.130 0.00 0.00 33.12 1.28
2116 2152 4.689612 TCGAGGGGGAGAAAGAAATATG 57.310 45.455 0.00 0.00 0.00 1.78
2117 2153 4.295201 TCGAGGGGGAGAAAGAAATATGA 58.705 43.478 0.00 0.00 0.00 2.15
2118 2154 4.345257 TCGAGGGGGAGAAAGAAATATGAG 59.655 45.833 0.00 0.00 0.00 2.90
2119 2155 4.345257 CGAGGGGGAGAAAGAAATATGAGA 59.655 45.833 0.00 0.00 0.00 3.27
2120 2156 5.012561 CGAGGGGGAGAAAGAAATATGAGAT 59.987 44.000 0.00 0.00 0.00 2.75
2121 2157 6.211584 CGAGGGGGAGAAAGAAATATGAGATA 59.788 42.308 0.00 0.00 0.00 1.98
2122 2158 7.093112 CGAGGGGGAGAAAGAAATATGAGATAT 60.093 40.741 0.00 0.00 0.00 1.63
2123 2159 8.156822 AGGGGGAGAAAGAAATATGAGATATC 57.843 38.462 0.00 0.00 0.00 1.63
2124 2160 7.183657 AGGGGGAGAAAGAAATATGAGATATCC 59.816 40.741 0.00 0.00 0.00 2.59
2125 2161 7.037297 GGGGGAGAAAGAAATATGAGATATCCA 60.037 40.741 0.00 0.00 0.00 3.41
2126 2162 8.555729 GGGGAGAAAGAAATATGAGATATCCAT 58.444 37.037 0.00 5.61 0.00 3.41
2127 2163 9.972106 GGGAGAAAGAAATATGAGATATCCATT 57.028 33.333 10.68 0.00 0.00 3.16
2145 2181 9.730705 ATATCCATTAATGAAGAATGTGATCGT 57.269 29.630 17.23 0.00 33.27 3.73
2146 2182 7.482654 TCCATTAATGAAGAATGTGATCGTC 57.517 36.000 17.23 0.00 33.27 4.20
2147 2183 7.275183 TCCATTAATGAAGAATGTGATCGTCT 58.725 34.615 17.23 0.00 33.27 4.18
2148 2184 7.770433 TCCATTAATGAAGAATGTGATCGTCTT 59.230 33.333 17.23 1.66 33.27 3.01
2149 2185 7.854422 CCATTAATGAAGAATGTGATCGTCTTG 59.146 37.037 17.23 0.00 33.27 3.02
2150 2186 5.808042 AATGAAGAATGTGATCGTCTTGG 57.192 39.130 5.73 0.00 0.00 3.61
2151 2187 3.599343 TGAAGAATGTGATCGTCTTGGG 58.401 45.455 5.73 0.00 0.00 4.12
2152 2188 2.698855 AGAATGTGATCGTCTTGGGG 57.301 50.000 0.00 0.00 0.00 4.96
2153 2189 2.187958 AGAATGTGATCGTCTTGGGGA 58.812 47.619 0.00 0.00 0.00 4.81
2154 2190 2.169352 AGAATGTGATCGTCTTGGGGAG 59.831 50.000 0.00 0.00 0.00 4.30
2155 2191 1.573108 ATGTGATCGTCTTGGGGAGT 58.427 50.000 0.00 0.00 0.00 3.85
2156 2192 2.225382 TGTGATCGTCTTGGGGAGTA 57.775 50.000 0.00 0.00 0.00 2.59
2157 2193 1.822990 TGTGATCGTCTTGGGGAGTAC 59.177 52.381 0.00 0.00 0.00 2.73
2158 2194 1.100510 TGATCGTCTTGGGGAGTACG 58.899 55.000 0.00 0.00 36.71 3.67
2159 2195 1.340308 TGATCGTCTTGGGGAGTACGA 60.340 52.381 0.00 0.00 46.98 3.43
2160 2196 1.065251 GATCGTCTTGGGGAGTACGAC 59.935 57.143 0.00 0.00 45.93 4.34
2161 2197 1.136147 CGTCTTGGGGAGTACGACG 59.864 63.158 0.00 0.00 40.92 5.12
2162 2198 1.509923 GTCTTGGGGAGTACGACGG 59.490 63.158 0.00 0.00 0.00 4.79
2163 2199 1.075482 TCTTGGGGAGTACGACGGT 59.925 57.895 0.00 0.00 0.00 4.83
2164 2200 0.962356 TCTTGGGGAGTACGACGGTC 60.962 60.000 0.00 0.00 0.00 4.79
2165 2201 1.228521 TTGGGGAGTACGACGGTCA 60.229 57.895 9.10 0.00 0.00 4.02
2166 2202 0.612732 TTGGGGAGTACGACGGTCAT 60.613 55.000 9.10 0.00 0.00 3.06
2167 2203 0.255604 TGGGGAGTACGACGGTCATA 59.744 55.000 9.10 0.00 0.00 2.15
2168 2204 1.340893 TGGGGAGTACGACGGTCATAA 60.341 52.381 9.10 0.00 0.00 1.90
2169 2205 1.959282 GGGGAGTACGACGGTCATAAT 59.041 52.381 9.10 0.00 0.00 1.28
2170 2206 3.149196 GGGGAGTACGACGGTCATAATA 58.851 50.000 9.10 0.00 0.00 0.98
2171 2207 3.057946 GGGGAGTACGACGGTCATAATAC 60.058 52.174 9.10 0.00 0.00 1.89
2172 2208 3.565482 GGGAGTACGACGGTCATAATACA 59.435 47.826 9.10 0.00 0.00 2.29
2173 2209 4.036734 GGGAGTACGACGGTCATAATACAA 59.963 45.833 9.10 0.00 0.00 2.41
2174 2210 5.450412 GGGAGTACGACGGTCATAATACAAA 60.450 44.000 9.10 0.00 0.00 2.83
2175 2211 5.684626 GGAGTACGACGGTCATAATACAAAG 59.315 44.000 9.10 0.00 0.00 2.77
2176 2212 6.441093 AGTACGACGGTCATAATACAAAGA 57.559 37.500 9.10 0.00 0.00 2.52
2177 2213 6.855836 AGTACGACGGTCATAATACAAAGAA 58.144 36.000 9.10 0.00 0.00 2.52
2178 2214 7.315142 AGTACGACGGTCATAATACAAAGAAA 58.685 34.615 9.10 0.00 0.00 2.52
2179 2215 7.977853 AGTACGACGGTCATAATACAAAGAAAT 59.022 33.333 9.10 0.00 0.00 2.17
2180 2216 9.236691 GTACGACGGTCATAATACAAAGAAATA 57.763 33.333 9.10 0.00 0.00 1.40
2181 2217 8.882415 ACGACGGTCATAATACAAAGAAATAT 57.118 30.769 9.10 0.00 0.00 1.28
2182 2218 8.761497 ACGACGGTCATAATACAAAGAAATATG 58.239 33.333 9.10 0.00 0.00 1.78
2183 2219 8.221100 CGACGGTCATAATACAAAGAAATATGG 58.779 37.037 9.10 0.00 0.00 2.74
2184 2220 8.391075 ACGGTCATAATACAAAGAAATATGGG 57.609 34.615 0.00 0.00 0.00 4.00
2185 2221 8.215050 ACGGTCATAATACAAAGAAATATGGGA 58.785 33.333 0.00 0.00 0.00 4.37
2186 2222 9.231297 CGGTCATAATACAAAGAAATATGGGAT 57.769 33.333 0.00 0.00 0.00 3.85
2206 2242 8.640063 TGGGATATCCATTAATGAAGAATGTG 57.360 34.615 23.27 0.00 41.46 3.21
2207 2243 8.447200 TGGGATATCCATTAATGAAGAATGTGA 58.553 33.333 23.27 3.34 41.46 3.58
2216 2252 8.706936 CATTAATGAAGAATGTGATCGGTAGAG 58.293 37.037 10.04 0.00 31.00 2.43
2220 2256 5.047306 TGAAGAATGTGATCGGTAGAGTGTT 60.047 40.000 0.00 0.00 0.00 3.32
2246 2282 6.879276 TCGTTATAAGGATCGAGATTCACT 57.121 37.500 3.76 0.00 0.00 3.41
2247 2283 7.974482 TCGTTATAAGGATCGAGATTCACTA 57.026 36.000 3.76 0.00 0.00 2.74
2255 2291 6.578023 AGGATCGAGATTCACTAAGAAAAGG 58.422 40.000 0.00 0.00 40.22 3.11
2462 2507 9.537852 AATGAATGCATATAACATTACCCTGAT 57.462 29.630 0.00 0.00 37.85 2.90
2503 2548 1.963515 GTTTTGGCAATGTCCAGTCCT 59.036 47.619 0.00 0.00 37.44 3.85
2616 2661 7.849804 ACTTGTGAAATATACAGCGAAATCT 57.150 32.000 0.00 0.00 0.00 2.40
2624 2669 9.107367 GAAATATACAGCGAAATCTACAATTGC 57.893 33.333 5.05 0.00 0.00 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 90 4.782156 AGAAGGGAGAGAGATGTCATTGTT 59.218 41.667 0.00 0.00 0.00 2.83
86 91 4.360889 AGAAGGGAGAGAGATGTCATTGT 58.639 43.478 0.00 0.00 0.00 2.71
136 142 0.695924 TTCCCATTCCTCTTCGGCAA 59.304 50.000 0.00 0.00 0.00 4.52
179 185 7.306283 CGTTTGTCTCTCTCAGAGTAGTTTTTG 60.306 40.741 0.36 0.00 42.83 2.44
271 277 3.568743 GGTGTTGTGTGTCGCGCA 61.569 61.111 8.75 0.00 35.54 6.09
287 293 3.499737 GGTGCATTCGCTCACGGG 61.500 66.667 0.00 0.00 40.63 5.28
752 764 9.507329 GGCTATACCTTGAAGATATGAAATCAA 57.493 33.333 0.00 0.00 34.51 2.57
1000 1018 2.158769 TGGCTTCTCTGTGAATGTGTGT 60.159 45.455 0.00 0.00 33.71 3.72
1057 1087 6.127054 TGGCTTTTGTATCTGCTACACTAGAT 60.127 38.462 0.00 0.00 40.06 1.98
1411 1441 0.031449 TATGCAACGCCGATCATCGA 59.969 50.000 9.16 0.00 43.74 3.59
1491 1522 9.736414 ATCAGAATAGCACAAGAAGCATATAAT 57.264 29.630 0.00 0.00 0.00 1.28
1529 1560 3.007182 ACCTGCAAGACCATTCAATTTGG 59.993 43.478 0.00 0.00 40.26 3.28
1666 1700 2.574006 TTTTCTGAGCACAGCCTCAT 57.426 45.000 6.24 0.00 40.77 2.90
1686 1720 8.389779 TCTCATACAAAGTGCTCAACATAAAA 57.610 30.769 0.00 0.00 0.00 1.52
1695 1729 4.992381 AACGTTCTCATACAAAGTGCTC 57.008 40.909 0.00 0.00 0.00 4.26
1832 1868 9.965824 TGTATCTATACCACATATGCATAATCG 57.034 33.333 11.13 5.12 32.33 3.34
1851 1887 9.842775 TCTTATCTTTAGGTTCGTCTGTATCTA 57.157 33.333 0.00 0.00 0.00 1.98
1857 1893 8.879342 ATCATTCTTATCTTTAGGTTCGTCTG 57.121 34.615 0.00 0.00 0.00 3.51
1860 1896 9.209175 GCATATCATTCTTATCTTTAGGTTCGT 57.791 33.333 0.00 0.00 0.00 3.85
1861 1897 9.208022 TGCATATCATTCTTATCTTTAGGTTCG 57.792 33.333 0.00 0.00 0.00 3.95
1868 1904 9.399797 TCACACTTGCATATCATTCTTATCTTT 57.600 29.630 0.00 0.00 0.00 2.52
1869 1905 8.834465 GTCACACTTGCATATCATTCTTATCTT 58.166 33.333 0.00 0.00 0.00 2.40
1870 1906 8.209584 AGTCACACTTGCATATCATTCTTATCT 58.790 33.333 0.00 0.00 0.00 1.98
1871 1907 8.375608 AGTCACACTTGCATATCATTCTTATC 57.624 34.615 0.00 0.00 0.00 1.75
1872 1908 8.743085 AAGTCACACTTGCATATCATTCTTAT 57.257 30.769 0.00 0.00 37.00 1.73
1887 1923 5.897377 AGTACTTTTTGCAAGTCACACTT 57.103 34.783 0.00 0.00 39.39 3.16
1888 1924 6.995511 TTAGTACTTTTTGCAAGTCACACT 57.004 33.333 0.00 4.91 0.00 3.55
1889 1925 9.893305 ATTATTAGTACTTTTTGCAAGTCACAC 57.107 29.630 0.00 0.00 0.00 3.82
1921 1957 6.773976 TCCATTTCAAAAACTCAACAGAGT 57.226 33.333 0.00 0.00 44.25 3.24
1922 1958 9.748708 TTATTCCATTTCAAAAACTCAACAGAG 57.251 29.630 0.00 0.00 35.49 3.35
1923 1959 9.748708 CTTATTCCATTTCAAAAACTCAACAGA 57.251 29.630 0.00 0.00 0.00 3.41
1924 1960 8.981647 CCTTATTCCATTTCAAAAACTCAACAG 58.018 33.333 0.00 0.00 0.00 3.16
1925 1961 8.700051 TCCTTATTCCATTTCAAAAACTCAACA 58.300 29.630 0.00 0.00 0.00 3.33
1926 1962 9.541143 TTCCTTATTCCATTTCAAAAACTCAAC 57.459 29.630 0.00 0.00 0.00 3.18
1927 1963 9.762933 CTTCCTTATTCCATTTCAAAAACTCAA 57.237 29.630 0.00 0.00 0.00 3.02
1928 1964 9.142014 TCTTCCTTATTCCATTTCAAAAACTCA 57.858 29.630 0.00 0.00 0.00 3.41
1929 1965 9.981114 TTCTTCCTTATTCCATTTCAAAAACTC 57.019 29.630 0.00 0.00 0.00 3.01
1930 1966 9.987272 CTTCTTCCTTATTCCATTTCAAAAACT 57.013 29.630 0.00 0.00 0.00 2.66
1931 1967 9.764363 ACTTCTTCCTTATTCCATTTCAAAAAC 57.236 29.630 0.00 0.00 0.00 2.43
1934 1970 9.807921 AGTACTTCTTCCTTATTCCATTTCAAA 57.192 29.630 0.00 0.00 0.00 2.69
1935 1971 9.449719 GAGTACTTCTTCCTTATTCCATTTCAA 57.550 33.333 0.00 0.00 0.00 2.69
1936 1972 8.602424 TGAGTACTTCTTCCTTATTCCATTTCA 58.398 33.333 0.00 0.00 0.00 2.69
1937 1973 8.884726 GTGAGTACTTCTTCCTTATTCCATTTC 58.115 37.037 0.00 0.00 0.00 2.17
1938 1974 8.383175 TGTGAGTACTTCTTCCTTATTCCATTT 58.617 33.333 0.00 0.00 0.00 2.32
1939 1975 7.918076 TGTGAGTACTTCTTCCTTATTCCATT 58.082 34.615 0.00 0.00 0.00 3.16
1940 1976 7.496346 TGTGAGTACTTCTTCCTTATTCCAT 57.504 36.000 0.00 0.00 0.00 3.41
1941 1977 6.928348 TGTGAGTACTTCTTCCTTATTCCA 57.072 37.500 0.00 0.00 0.00 3.53
1942 1978 7.927092 GGTATGTGAGTACTTCTTCCTTATTCC 59.073 40.741 0.00 0.00 0.00 3.01
1943 1979 8.475639 TGGTATGTGAGTACTTCTTCCTTATTC 58.524 37.037 0.00 0.00 0.00 1.75
1944 1980 8.375493 TGGTATGTGAGTACTTCTTCCTTATT 57.625 34.615 0.00 0.00 0.00 1.40
1945 1981 7.620094 ACTGGTATGTGAGTACTTCTTCCTTAT 59.380 37.037 0.00 0.00 0.00 1.73
1946 1982 6.952358 ACTGGTATGTGAGTACTTCTTCCTTA 59.048 38.462 0.00 0.00 0.00 2.69
1947 1983 5.780793 ACTGGTATGTGAGTACTTCTTCCTT 59.219 40.000 0.00 0.00 0.00 3.36
1948 1984 5.334421 ACTGGTATGTGAGTACTTCTTCCT 58.666 41.667 0.00 0.00 0.00 3.36
1949 1985 5.662674 ACTGGTATGTGAGTACTTCTTCC 57.337 43.478 0.00 0.00 0.00 3.46
1950 1986 8.086522 TGTTAACTGGTATGTGAGTACTTCTTC 58.913 37.037 7.22 0.00 0.00 2.87
1951 1987 7.959175 TGTTAACTGGTATGTGAGTACTTCTT 58.041 34.615 7.22 0.00 0.00 2.52
1952 1988 7.450634 TCTGTTAACTGGTATGTGAGTACTTCT 59.549 37.037 12.00 0.00 0.00 2.85
1953 1989 7.600065 TCTGTTAACTGGTATGTGAGTACTTC 58.400 38.462 12.00 0.00 0.00 3.01
1954 1990 7.534723 TCTGTTAACTGGTATGTGAGTACTT 57.465 36.000 12.00 0.00 0.00 2.24
1955 1991 7.719871 ATCTGTTAACTGGTATGTGAGTACT 57.280 36.000 12.00 0.00 0.00 2.73
1956 1992 9.298774 GTTATCTGTTAACTGGTATGTGAGTAC 57.701 37.037 12.00 0.47 37.74 2.73
1957 1993 9.251440 AGTTATCTGTTAACTGGTATGTGAGTA 57.749 33.333 12.00 0.00 46.96 2.59
1958 1994 8.135382 AGTTATCTGTTAACTGGTATGTGAGT 57.865 34.615 12.00 0.00 46.96 3.41
2002 2038 9.481340 CTTCGATTATCCACTTCATTTATCTGA 57.519 33.333 0.00 0.00 0.00 3.27
2003 2039 9.265901 ACTTCGATTATCCACTTCATTTATCTG 57.734 33.333 0.00 0.00 0.00 2.90
2004 2040 9.838339 AACTTCGATTATCCACTTCATTTATCT 57.162 29.630 0.00 0.00 0.00 1.98
2007 2043 8.889717 GGAAACTTCGATTATCCACTTCATTTA 58.110 33.333 0.00 0.00 0.00 1.40
2008 2044 7.611855 AGGAAACTTCGATTATCCACTTCATTT 59.388 33.333 9.00 0.00 37.44 2.32
2009 2045 7.112779 AGGAAACTTCGATTATCCACTTCATT 58.887 34.615 9.00 0.00 37.44 2.57
2010 2046 6.653989 AGGAAACTTCGATTATCCACTTCAT 58.346 36.000 9.00 0.00 37.44 2.57
2011 2047 6.049955 AGGAAACTTCGATTATCCACTTCA 57.950 37.500 9.00 0.00 37.44 3.02
2012 2048 6.106673 TGAGGAAACTTCGATTATCCACTTC 58.893 40.000 9.00 1.06 44.43 3.01
2013 2049 6.049955 TGAGGAAACTTCGATTATCCACTT 57.950 37.500 9.00 0.00 44.43 3.16
2014 2050 5.677319 TGAGGAAACTTCGATTATCCACT 57.323 39.130 9.00 0.00 44.43 4.00
2015 2051 6.927294 ATTGAGGAAACTTCGATTATCCAC 57.073 37.500 9.00 4.44 44.43 4.02
2016 2052 7.065803 GTGAATTGAGGAAACTTCGATTATCCA 59.934 37.037 9.00 0.00 44.43 3.41
2017 2053 7.065803 TGTGAATTGAGGAAACTTCGATTATCC 59.934 37.037 0.00 0.00 44.43 2.59
2018 2054 7.974675 TGTGAATTGAGGAAACTTCGATTATC 58.025 34.615 0.00 0.00 44.43 1.75
2019 2055 7.921786 TGTGAATTGAGGAAACTTCGATTAT 57.078 32.000 0.00 0.00 44.43 1.28
2020 2056 7.659799 TCTTGTGAATTGAGGAAACTTCGATTA 59.340 33.333 0.00 0.00 44.43 1.75
2021 2057 6.486657 TCTTGTGAATTGAGGAAACTTCGATT 59.513 34.615 0.00 0.00 44.43 3.34
2022 2058 5.997746 TCTTGTGAATTGAGGAAACTTCGAT 59.002 36.000 0.00 0.00 44.43 3.59
2023 2059 5.364778 TCTTGTGAATTGAGGAAACTTCGA 58.635 37.500 0.00 0.00 44.43 3.71
2024 2060 5.237344 ACTCTTGTGAATTGAGGAAACTTCG 59.763 40.000 0.00 0.00 44.43 3.79
2025 2061 6.625873 ACTCTTGTGAATTGAGGAAACTTC 57.374 37.500 0.00 0.00 44.43 3.01
2026 2062 6.378280 ACAACTCTTGTGAATTGAGGAAACTT 59.622 34.615 0.00 0.00 41.85 2.66
2027 2063 5.888161 ACAACTCTTGTGAATTGAGGAAACT 59.112 36.000 0.00 0.00 43.83 2.66
2028 2064 6.136541 ACAACTCTTGTGAATTGAGGAAAC 57.863 37.500 0.00 0.00 43.48 2.78
2041 2077 6.279513 TGAAAAACCATTCACAACTCTTGT 57.720 33.333 0.00 0.00 46.75 3.16
2042 2078 7.593875 TTTGAAAAACCATTCACAACTCTTG 57.406 32.000 0.00 0.00 38.95 3.02
2043 2079 8.791327 ATTTTGAAAAACCATTCACAACTCTT 57.209 26.923 0.00 0.00 38.95 2.85
2044 2080 8.667463 CAATTTTGAAAAACCATTCACAACTCT 58.333 29.630 0.00 0.00 38.95 3.24
2045 2081 8.450180 ACAATTTTGAAAAACCATTCACAACTC 58.550 29.630 0.00 0.00 38.95 3.01
2046 2082 8.235905 CACAATTTTGAAAAACCATTCACAACT 58.764 29.630 0.00 0.00 38.95 3.16
2047 2083 7.484324 CCACAATTTTGAAAAACCATTCACAAC 59.516 33.333 0.00 0.00 38.95 3.32
2048 2084 7.362401 CCCACAATTTTGAAAAACCATTCACAA 60.362 33.333 0.00 0.00 38.95 3.33
2049 2085 6.094603 CCCACAATTTTGAAAAACCATTCACA 59.905 34.615 0.00 0.00 38.95 3.58
2050 2086 6.317391 TCCCACAATTTTGAAAAACCATTCAC 59.683 34.615 0.00 0.00 38.95 3.18
2051 2087 6.418101 TCCCACAATTTTGAAAAACCATTCA 58.582 32.000 0.00 0.00 37.53 2.57
2052 2088 6.765512 TCTCCCACAATTTTGAAAAACCATTC 59.234 34.615 0.00 0.00 0.00 2.67
2053 2089 6.657875 TCTCCCACAATTTTGAAAAACCATT 58.342 32.000 0.00 0.00 0.00 3.16
2054 2090 6.245890 TCTCCCACAATTTTGAAAAACCAT 57.754 33.333 0.00 0.00 0.00 3.55
2055 2091 5.683876 TCTCCCACAATTTTGAAAAACCA 57.316 34.783 0.00 0.00 0.00 3.67
2056 2092 6.993786 TTTCTCCCACAATTTTGAAAAACC 57.006 33.333 0.00 0.00 0.00 3.27
2057 2093 8.039603 ACTTTTCTCCCACAATTTTGAAAAAC 57.960 30.769 0.00 0.00 34.46 2.43
2058 2094 8.628630 AACTTTTCTCCCACAATTTTGAAAAA 57.371 26.923 0.00 0.00 34.46 1.94
2059 2095 8.100164 AGAACTTTTCTCCCACAATTTTGAAAA 58.900 29.630 0.00 0.00 34.07 2.29
2060 2096 7.619965 AGAACTTTTCTCCCACAATTTTGAAA 58.380 30.769 0.00 0.00 34.07 2.69
2061 2097 7.181569 AGAACTTTTCTCCCACAATTTTGAA 57.818 32.000 0.00 0.00 34.07 2.69
2062 2098 6.790232 AGAACTTTTCTCCCACAATTTTGA 57.210 33.333 0.00 0.00 34.07 2.69
2063 2099 6.238184 GCAAGAACTTTTCTCCCACAATTTTG 60.238 38.462 0.00 0.00 39.61 2.44
2064 2100 5.817296 GCAAGAACTTTTCTCCCACAATTTT 59.183 36.000 0.00 0.00 39.61 1.82
2065 2101 5.359756 GCAAGAACTTTTCTCCCACAATTT 58.640 37.500 0.00 0.00 39.61 1.82
2066 2102 4.202253 GGCAAGAACTTTTCTCCCACAATT 60.202 41.667 0.00 0.00 39.61 2.32
2067 2103 3.321968 GGCAAGAACTTTTCTCCCACAAT 59.678 43.478 0.00 0.00 39.61 2.71
2068 2104 2.693074 GGCAAGAACTTTTCTCCCACAA 59.307 45.455 0.00 0.00 39.61 3.33
2069 2105 2.306847 GGCAAGAACTTTTCTCCCACA 58.693 47.619 0.00 0.00 39.61 4.17
2070 2106 2.034685 GTGGCAAGAACTTTTCTCCCAC 59.965 50.000 16.55 16.55 45.91 4.61
2071 2107 2.306847 GTGGCAAGAACTTTTCTCCCA 58.693 47.619 0.00 4.86 39.61 4.37
2072 2108 2.306847 TGTGGCAAGAACTTTTCTCCC 58.693 47.619 0.00 0.00 39.61 4.30
2073 2109 4.590850 AATGTGGCAAGAACTTTTCTCC 57.409 40.909 0.00 0.00 39.61 3.71
2074 2110 4.676924 CGAAATGTGGCAAGAACTTTTCTC 59.323 41.667 0.00 0.00 39.61 2.87
2075 2111 4.338118 TCGAAATGTGGCAAGAACTTTTCT 59.662 37.500 0.00 0.00 43.15 2.52
2076 2112 4.606961 TCGAAATGTGGCAAGAACTTTTC 58.393 39.130 0.00 0.00 37.88 2.29
2077 2113 4.499696 CCTCGAAATGTGGCAAGAACTTTT 60.500 41.667 0.00 0.00 0.00 2.27
2078 2114 3.004734 CCTCGAAATGTGGCAAGAACTTT 59.995 43.478 0.00 0.00 0.00 2.66
2079 2115 2.554032 CCTCGAAATGTGGCAAGAACTT 59.446 45.455 0.00 0.00 0.00 2.66
2080 2116 2.154462 CCTCGAAATGTGGCAAGAACT 58.846 47.619 0.00 0.00 0.00 3.01
2081 2117 1.200020 CCCTCGAAATGTGGCAAGAAC 59.800 52.381 0.00 0.00 0.00 3.01
2082 2118 1.533625 CCCTCGAAATGTGGCAAGAA 58.466 50.000 0.00 0.00 0.00 2.52
2083 2119 0.322456 CCCCTCGAAATGTGGCAAGA 60.322 55.000 0.00 0.00 0.00 3.02
2084 2120 1.315257 CCCCCTCGAAATGTGGCAAG 61.315 60.000 0.00 0.00 0.00 4.01
2085 2121 1.304052 CCCCCTCGAAATGTGGCAA 60.304 57.895 0.00 0.00 0.00 4.52
2086 2122 2.196997 CTCCCCCTCGAAATGTGGCA 62.197 60.000 0.00 0.00 0.00 4.92
2087 2123 1.452108 CTCCCCCTCGAAATGTGGC 60.452 63.158 0.00 0.00 0.00 5.01
2088 2124 0.618458 TTCTCCCCCTCGAAATGTGG 59.382 55.000 0.00 0.00 0.00 4.17
2089 2125 2.027192 TCTTTCTCCCCCTCGAAATGTG 60.027 50.000 0.00 0.00 0.00 3.21
2090 2126 2.266279 TCTTTCTCCCCCTCGAAATGT 58.734 47.619 0.00 0.00 0.00 2.71
2091 2127 3.350219 TTCTTTCTCCCCCTCGAAATG 57.650 47.619 0.00 0.00 0.00 2.32
2092 2128 4.592997 ATTTCTTTCTCCCCCTCGAAAT 57.407 40.909 0.00 0.00 0.00 2.17
2093 2129 5.190925 TCATATTTCTTTCTCCCCCTCGAAA 59.809 40.000 0.00 0.00 0.00 3.46
2094 2130 4.719773 TCATATTTCTTTCTCCCCCTCGAA 59.280 41.667 0.00 0.00 0.00 3.71
2095 2131 4.295201 TCATATTTCTTTCTCCCCCTCGA 58.705 43.478 0.00 0.00 0.00 4.04
2096 2132 4.345257 TCTCATATTTCTTTCTCCCCCTCG 59.655 45.833 0.00 0.00 0.00 4.63
2097 2133 5.896073 TCTCATATTTCTTTCTCCCCCTC 57.104 43.478 0.00 0.00 0.00 4.30
2098 2134 7.183657 GGATATCTCATATTTCTTTCTCCCCCT 59.816 40.741 2.05 0.00 0.00 4.79
2099 2135 7.037297 TGGATATCTCATATTTCTTTCTCCCCC 60.037 40.741 2.05 0.00 0.00 5.40
2100 2136 7.922382 TGGATATCTCATATTTCTTTCTCCCC 58.078 38.462 2.05 0.00 0.00 4.81
2101 2137 9.972106 AATGGATATCTCATATTTCTTTCTCCC 57.028 33.333 2.05 0.00 0.00 4.30
2119 2155 9.730705 ACGATCACATTCTTCATTAATGGATAT 57.269 29.630 15.36 1.14 38.41 1.63
2120 2156 9.208022 GACGATCACATTCTTCATTAATGGATA 57.792 33.333 15.36 0.00 38.41 2.59
2121 2157 7.935755 AGACGATCACATTCTTCATTAATGGAT 59.064 33.333 15.36 7.33 38.41 3.41
2122 2158 7.275183 AGACGATCACATTCTTCATTAATGGA 58.725 34.615 15.36 5.89 38.41 3.41
2123 2159 7.488187 AGACGATCACATTCTTCATTAATGG 57.512 36.000 15.36 0.63 38.41 3.16
2124 2160 7.854422 CCAAGACGATCACATTCTTCATTAATG 59.146 37.037 9.29 9.29 39.68 1.90
2125 2161 7.012704 CCCAAGACGATCACATTCTTCATTAAT 59.987 37.037 0.00 0.00 0.00 1.40
2126 2162 6.316140 CCCAAGACGATCACATTCTTCATTAA 59.684 38.462 0.00 0.00 0.00 1.40
2127 2163 5.817296 CCCAAGACGATCACATTCTTCATTA 59.183 40.000 0.00 0.00 0.00 1.90
2128 2164 4.637534 CCCAAGACGATCACATTCTTCATT 59.362 41.667 0.00 0.00 0.00 2.57
2129 2165 4.194640 CCCAAGACGATCACATTCTTCAT 58.805 43.478 0.00 0.00 0.00 2.57
2130 2166 3.599343 CCCAAGACGATCACATTCTTCA 58.401 45.455 0.00 0.00 0.00 3.02
2131 2167 2.939103 CCCCAAGACGATCACATTCTTC 59.061 50.000 0.00 0.00 0.00 2.87
2132 2168 2.571653 TCCCCAAGACGATCACATTCTT 59.428 45.455 0.00 0.00 0.00 2.52
2133 2169 2.169352 CTCCCCAAGACGATCACATTCT 59.831 50.000 0.00 0.00 0.00 2.40
2134 2170 2.093447 ACTCCCCAAGACGATCACATTC 60.093 50.000 0.00 0.00 0.00 2.67
2135 2171 1.909302 ACTCCCCAAGACGATCACATT 59.091 47.619 0.00 0.00 0.00 2.71
2136 2172 1.573108 ACTCCCCAAGACGATCACAT 58.427 50.000 0.00 0.00 0.00 3.21
2137 2173 1.822990 GTACTCCCCAAGACGATCACA 59.177 52.381 0.00 0.00 0.00 3.58
2138 2174 1.202268 CGTACTCCCCAAGACGATCAC 60.202 57.143 0.00 0.00 37.50 3.06
2139 2175 1.100510 CGTACTCCCCAAGACGATCA 58.899 55.000 0.00 0.00 37.50 2.92
2140 2176 1.065251 GTCGTACTCCCCAAGACGATC 59.935 57.143 0.00 0.00 45.13 3.69
2141 2177 1.101331 GTCGTACTCCCCAAGACGAT 58.899 55.000 0.00 0.00 45.13 3.73
2142 2178 2.559785 GTCGTACTCCCCAAGACGA 58.440 57.895 0.00 0.00 41.68 4.20
2143 2179 1.136147 CGTCGTACTCCCCAAGACG 59.864 63.158 1.99 1.99 46.32 4.18
2144 2180 1.246737 ACCGTCGTACTCCCCAAGAC 61.247 60.000 0.00 0.00 0.00 3.01
2145 2181 0.962356 GACCGTCGTACTCCCCAAGA 60.962 60.000 0.00 0.00 0.00 3.02
2146 2182 1.246056 TGACCGTCGTACTCCCCAAG 61.246 60.000 0.00 0.00 0.00 3.61
2147 2183 0.612732 ATGACCGTCGTACTCCCCAA 60.613 55.000 0.00 0.00 0.00 4.12
2148 2184 0.255604 TATGACCGTCGTACTCCCCA 59.744 55.000 0.00 0.00 0.00 4.96
2149 2185 1.392589 TTATGACCGTCGTACTCCCC 58.607 55.000 0.00 0.00 0.00 4.81
2150 2186 3.565482 TGTATTATGACCGTCGTACTCCC 59.435 47.826 0.00 0.00 0.00 4.30
2151 2187 4.818534 TGTATTATGACCGTCGTACTCC 57.181 45.455 0.00 0.00 0.00 3.85
2152 2188 6.489675 TCTTTGTATTATGACCGTCGTACTC 58.510 40.000 0.00 0.00 0.00 2.59
2153 2189 6.441093 TCTTTGTATTATGACCGTCGTACT 57.559 37.500 0.00 0.00 0.00 2.73
2154 2190 7.510428 TTTCTTTGTATTATGACCGTCGTAC 57.490 36.000 0.00 0.00 0.00 3.67
2155 2191 9.970395 ATATTTCTTTGTATTATGACCGTCGTA 57.030 29.630 0.00 0.00 0.00 3.43
2156 2192 8.761497 CATATTTCTTTGTATTATGACCGTCGT 58.239 33.333 0.00 0.00 0.00 4.34
2157 2193 8.221100 CCATATTTCTTTGTATTATGACCGTCG 58.779 37.037 0.00 0.00 0.00 5.12
2158 2194 8.504005 CCCATATTTCTTTGTATTATGACCGTC 58.496 37.037 0.00 0.00 0.00 4.79
2159 2195 8.215050 TCCCATATTTCTTTGTATTATGACCGT 58.785 33.333 0.00 0.00 0.00 4.83
2160 2196 8.615878 TCCCATATTTCTTTGTATTATGACCG 57.384 34.615 0.00 0.00 0.00 4.79
2182 2218 8.868522 TCACATTCTTCATTAATGGATATCCC 57.131 34.615 19.34 1.87 38.41 3.85
2185 2221 9.170734 CCGATCACATTCTTCATTAATGGATAT 57.829 33.333 15.36 1.14 38.41 1.63
2186 2222 8.156820 ACCGATCACATTCTTCATTAATGGATA 58.843 33.333 15.36 0.00 38.41 2.59
2187 2223 7.000472 ACCGATCACATTCTTCATTAATGGAT 59.000 34.615 15.36 7.33 38.41 3.41
2188 2224 6.356556 ACCGATCACATTCTTCATTAATGGA 58.643 36.000 15.36 5.89 38.41 3.41
2189 2225 6.624352 ACCGATCACATTCTTCATTAATGG 57.376 37.500 15.36 0.63 38.41 3.16
2190 2226 8.593492 TCTACCGATCACATTCTTCATTAATG 57.407 34.615 9.29 9.29 39.68 1.90
2191 2227 8.424918 ACTCTACCGATCACATTCTTCATTAAT 58.575 33.333 0.00 0.00 0.00 1.40
2192 2228 7.706607 CACTCTACCGATCACATTCTTCATTAA 59.293 37.037 0.00 0.00 0.00 1.40
2193 2229 7.147897 ACACTCTACCGATCACATTCTTCATTA 60.148 37.037 0.00 0.00 0.00 1.90
2194 2230 6.045318 CACTCTACCGATCACATTCTTCATT 58.955 40.000 0.00 0.00 0.00 2.57
2195 2231 5.127845 ACACTCTACCGATCACATTCTTCAT 59.872 40.000 0.00 0.00 0.00 2.57
2196 2232 4.462834 ACACTCTACCGATCACATTCTTCA 59.537 41.667 0.00 0.00 0.00 3.02
2197 2233 5.000012 ACACTCTACCGATCACATTCTTC 58.000 43.478 0.00 0.00 0.00 2.87
2206 2242 3.761311 ACGAGAAACACTCTACCGATC 57.239 47.619 0.00 0.00 42.92 3.69
2207 2243 5.831702 ATAACGAGAAACACTCTACCGAT 57.168 39.130 0.00 0.00 42.92 4.18
2209 2245 5.970023 CCTTATAACGAGAAACACTCTACCG 59.030 44.000 0.00 0.00 42.92 4.02
2247 2283 8.852894 TCCTAATACCCCTTTTATCCTTTTCTT 58.147 33.333 0.00 0.00 0.00 2.52
2255 2291 6.221659 CGACACTCCTAATACCCCTTTTATC 58.778 44.000 0.00 0.00 0.00 1.75
2462 2507 1.327303 ACCCGGTTACGTGAACTGTA 58.673 50.000 0.00 0.00 42.16 2.74
2503 2548 9.813826 TTGACTCCATTCTAGTGATCTATATCA 57.186 33.333 0.00 0.00 39.87 2.15
2616 2661 2.225491 GTGAAAGTCAGCGGCAATTGTA 59.775 45.455 7.40 0.00 0.00 2.41
2624 2669 0.588252 CCAAGTGTGAAAGTCAGCGG 59.412 55.000 0.00 0.00 0.00 5.52


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

AutoCloner maintained by Alex Coulton.