Multiple sequence alignment - TraesCS6B01G309000

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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 TraesCS6B01G309000 chr6B 100.000 2405 0 0 1 2405 553374178 553371774 0.000000e+00 4442
1 TraesCS6B01G309000 chr6D 90.544 1692 96 27 1 1672 368304993 368306640 0.000000e+00 2180
2 TraesCS6B01G309000 chr6D 91.803 366 16 3 2044 2405 368306772 368307127 4.620000e-137 497
3 TraesCS6B01G309000 chr6A 90.549 1693 95 30 3 1672 508850881 508852531 0.000000e+00 2180
4 TraesCS6B01G309000 chr6A 93.132 364 22 2 2044 2405 508852663 508853025 4.550000e-147 531
5 TraesCS6B01G309000 chr6A 94.286 70 4 0 1675 1744 508852564 508852633 9.090000e-20 108
6 TraesCS6B01G309000 chr2B 99.617 261 1 0 1742 2002 644871754 644872014 6.020000e-131 477
7 TraesCS6B01G309000 chr2B 97.417 271 6 1 1733 2002 34146299 34146569 6.060000e-126 460
8 TraesCS6B01G309000 chr2B 96.283 269 8 2 1734 2002 729520357 729520091 7.890000e-120 440
9 TraesCS6B01G309000 chr5B 97.786 271 5 1 1742 2012 247282961 247283230 1.300000e-127 466
10 TraesCS6B01G309000 chr1B 95.374 281 12 1 1723 2002 410815323 410815043 1.700000e-121 446
11 TraesCS6B01G309000 chr7B 97.318 261 7 0 1742 2002 85305817 85306077 6.100000e-121 444
12 TraesCS6B01G309000 chr4A 96.935 261 8 0 1742 2002 632239000 632239260 2.840000e-119 438
13 TraesCS6B01G309000 chr1A 96.935 261 8 0 1742 2002 319336059 319336319 2.840000e-119 438
14 TraesCS6B01G309000 chr4B 95.273 275 11 2 1742 2015 620197577 620197304 3.670000e-118 435


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 TraesCS6B01G309000 chr6B 553371774 553374178 2404 True 4442.000000 4442 100.000000 1 2405 1 chr6B.!!$R1 2404
1 TraesCS6B01G309000 chr6D 368304993 368307127 2134 False 1338.500000 2180 91.173500 1 2405 2 chr6D.!!$F1 2404
2 TraesCS6B01G309000 chr6A 508850881 508853025 2144 False 939.666667 2180 92.655667 3 2405 3 chr6A.!!$F1 2402

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
947 992 0.114168 AGTGGCTGCCCAAACCAATA 59.886 50.0 17.53 0.0 44.33 1.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2099 2180 0.108898 CTGTGCTGACGAGGAGGAAG 60.109 60.0 0.0 0.0 0.0 3.46 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
68 77 3.053693 CCTCTCTTTCCCTCTCTCTCTCA 60.054 52.174 0.00 0.00 0.00 3.27
91 100 4.790962 GCTGCTGCCTGCCTGCTA 62.791 66.667 3.85 0.00 42.00 3.49
92 101 2.192443 CTGCTGCCTGCCTGCTAT 59.808 61.111 0.00 0.00 42.00 2.97
93 102 2.124445 TGCTGCCTGCCTGCTATG 60.124 61.111 0.00 0.00 42.00 2.23
94 103 3.593794 GCTGCCTGCCTGCTATGC 61.594 66.667 0.00 0.00 35.71 3.14
95 104 2.905880 CTGCCTGCCTGCTATGCC 60.906 66.667 0.00 0.00 0.00 4.40
96 105 4.511246 TGCCTGCCTGCTATGCCC 62.511 66.667 0.00 0.00 0.00 5.36
98 107 3.812544 CCTGCCTGCTATGCCCCA 61.813 66.667 0.00 0.00 0.00 4.96
99 108 2.203308 CTGCCTGCTATGCCCCAG 60.203 66.667 0.00 0.00 0.00 4.45
100 109 4.511246 TGCCTGCTATGCCCCAGC 62.511 66.667 0.00 0.00 39.56 4.85
185 199 0.470268 GTCGATAAGAGCCCCCTCCT 60.470 60.000 0.00 0.00 38.96 3.69
276 290 2.480419 GCCAAAGATTATCACCGATCCG 59.520 50.000 0.00 0.00 0.00 4.18
287 301 1.389106 CACCGATCCGTCGTTTCTTTC 59.611 52.381 0.00 0.00 46.25 2.62
301 315 0.324368 TCTTTCCCTCTAGCGCCAGA 60.324 55.000 5.20 5.20 0.00 3.86
305 319 0.324368 TCCCTCTAGCGCCAGAAGAA 60.324 55.000 7.05 0.00 0.00 2.52
308 322 1.205893 CCTCTAGCGCCAGAAGAACTT 59.794 52.381 7.05 0.00 0.00 2.66
364 378 0.179124 CTTGGAGTAGACGCCAGCTC 60.179 60.000 5.26 0.00 46.25 4.09
452 470 7.939039 TGAATCAGTCCTTGTTTATCTTTCTGT 59.061 33.333 0.00 0.00 0.00 3.41
457 475 7.862873 CAGTCCTTGTTTATCTTTCTGTTTTCC 59.137 37.037 0.00 0.00 0.00 3.13
470 488 8.489489 TCTTTCTGTTTTCCTGCATAGATAGAT 58.511 33.333 0.00 0.00 0.00 1.98
471 489 8.442632 TTTCTGTTTTCCTGCATAGATAGATG 57.557 34.615 0.00 0.00 0.00 2.90
560 580 5.047847 GTGTAGCTTGCGTCTGGATATTTA 58.952 41.667 0.00 0.00 0.00 1.40
561 581 5.696724 GTGTAGCTTGCGTCTGGATATTTAT 59.303 40.000 0.00 0.00 0.00 1.40
609 629 4.622260 TCGATTGCCATGGATCTCAATA 57.378 40.909 18.40 0.00 30.19 1.90
612 632 4.155462 CGATTGCCATGGATCTCAATAAGG 59.845 45.833 18.40 5.03 30.19 2.69
619 639 6.766944 GCCATGGATCTCAATAAGGATCATAG 59.233 42.308 18.40 0.00 39.82 2.23
684 706 2.551459 CTCCACAAGCCAAGAACTCAAG 59.449 50.000 0.00 0.00 0.00 3.02
685 707 2.092429 TCCACAAGCCAAGAACTCAAGT 60.092 45.455 0.00 0.00 0.00 3.16
686 708 3.135712 TCCACAAGCCAAGAACTCAAGTA 59.864 43.478 0.00 0.00 0.00 2.24
687 709 4.074970 CCACAAGCCAAGAACTCAAGTAT 58.925 43.478 0.00 0.00 0.00 2.12
690 712 5.122396 CACAAGCCAAGAACTCAAGTATACC 59.878 44.000 0.00 0.00 0.00 2.73
691 713 5.221843 ACAAGCCAAGAACTCAAGTATACCA 60.222 40.000 0.00 0.00 0.00 3.25
735 757 7.851387 TGTTTTATAACGGCATGTAGATTGA 57.149 32.000 0.00 0.00 37.06 2.57
738 760 9.730420 GTTTTATAACGGCATGTAGATTGATTT 57.270 29.630 0.00 0.00 0.00 2.17
748 777 7.009540 GGCATGTAGATTGATTTAGTTTGTTGC 59.990 37.037 0.00 0.00 0.00 4.17
754 783 8.807667 AGATTGATTTAGTTTGTTGCTTTCTG 57.192 30.769 0.00 0.00 0.00 3.02
792 830 4.783227 AGGCTATTCACCTCAGGAGTAAAA 59.217 41.667 0.00 0.00 28.76 1.52
821 859 1.284657 CCTCTGTTCTGCATGCTACG 58.715 55.000 20.33 7.54 0.00 3.51
837 875 2.282820 GCTACGACTGCAGATTTGTAGC 59.717 50.000 27.84 27.84 45.22 3.58
841 879 4.115516 ACGACTGCAGATTTGTAGCATAG 58.884 43.478 23.35 0.00 40.30 2.23
887 925 5.116180 CAAGGTGTCTCTGTAAAACACTCA 58.884 41.667 5.02 0.00 42.26 3.41
947 992 0.114168 AGTGGCTGCCCAAACCAATA 59.886 50.000 17.53 0.00 44.33 1.90
1086 1131 0.603975 GAAGCAGCGGTGAAGAGGTT 60.604 55.000 20.69 1.91 0.00 3.50
1092 1137 1.966451 CGGTGAAGAGGTTGTGCCC 60.966 63.158 0.00 0.00 38.26 5.36
1107 1152 2.496817 CCCGCGAGAAAGAGGAGG 59.503 66.667 8.23 0.00 32.51 4.30
1110 1155 2.052690 CGCGAGAAAGAGGAGGGGA 61.053 63.158 0.00 0.00 0.00 4.81
1311 1356 1.341802 CGTTCGATCAAGCAGCGAC 59.658 57.895 0.00 0.00 33.33 5.19
1314 1359 0.798389 TTCGATCAAGCAGCGACGAG 60.798 55.000 0.00 0.00 33.33 4.18
1317 1362 0.456824 GATCAAGCAGCGACGAGTCA 60.457 55.000 0.00 0.00 0.00 3.41
1320 1365 2.925262 AAGCAGCGACGAGTCAGCT 61.925 57.895 13.69 13.69 38.99 4.24
1450 1499 1.267261 CCGTACAATTTTCGGTGCCAA 59.733 47.619 0.00 0.00 39.51 4.52
1460 1509 2.100631 CGGTGCCAAGTAGCCTTCG 61.101 63.158 0.00 0.00 0.00 3.79
1566 1615 2.973945 AGAACACCTACGGAATCTTGC 58.026 47.619 0.00 0.00 0.00 4.01
1569 1618 1.135083 ACACCTACGGAATCTTGCTCG 60.135 52.381 0.00 0.00 0.00 5.03
1592 1641 5.012328 GCTGTTGTAGGCTGATTACTACT 57.988 43.478 0.00 0.00 40.11 2.57
1593 1642 4.806247 GCTGTTGTAGGCTGATTACTACTG 59.194 45.833 0.00 0.00 40.11 2.74
1637 1686 5.468540 TTGTAGCAGAGCTTTACTTGAGA 57.531 39.130 0.00 0.00 40.44 3.27
1655 1704 5.537300 TGAGAACAACTAGGGATGATAGC 57.463 43.478 0.00 0.00 0.00 2.97
1672 1721 7.095774 GGATGATAGCATTGCAATTTTGATCAC 60.096 37.037 9.83 10.30 34.11 3.06
1673 1722 6.631962 TGATAGCATTGCAATTTTGATCACA 58.368 32.000 9.83 0.95 0.00 3.58
1696 1775 9.669353 CACATATCCAAGCAGTTTTATGTATTC 57.331 33.333 0.00 0.00 31.13 1.75
1701 1780 6.719370 TCCAAGCAGTTTTATGTATTCTTGGT 59.281 34.615 14.82 0.00 45.61 3.67
1704 1783 7.759489 AGCAGTTTTATGTATTCTTGGTTCA 57.241 32.000 0.00 0.00 0.00 3.18
1733 1812 5.309638 TGGTTCGTCAATCTTATCCAAACA 58.690 37.500 0.00 0.00 0.00 2.83
1745 1824 7.435068 TCTTATCCAAACAAAACTGCTACTC 57.565 36.000 0.00 0.00 0.00 2.59
1746 1825 6.430000 TCTTATCCAAACAAAACTGCTACTCC 59.570 38.462 0.00 0.00 0.00 3.85
1747 1826 3.219281 TCCAAACAAAACTGCTACTCCC 58.781 45.455 0.00 0.00 0.00 4.30
1748 1827 3.117663 TCCAAACAAAACTGCTACTCCCT 60.118 43.478 0.00 0.00 0.00 4.20
1749 1828 3.253432 CCAAACAAAACTGCTACTCCCTC 59.747 47.826 0.00 0.00 0.00 4.30
1750 1829 2.861147 ACAAAACTGCTACTCCCTCC 57.139 50.000 0.00 0.00 0.00 4.30
1751 1830 2.054799 ACAAAACTGCTACTCCCTCCA 58.945 47.619 0.00 0.00 0.00 3.86
1752 1831 2.644798 ACAAAACTGCTACTCCCTCCAT 59.355 45.455 0.00 0.00 0.00 3.41
1753 1832 3.074538 ACAAAACTGCTACTCCCTCCATT 59.925 43.478 0.00 0.00 0.00 3.16
1754 1833 3.636153 AAACTGCTACTCCCTCCATTC 57.364 47.619 0.00 0.00 0.00 2.67
1755 1834 1.501582 ACTGCTACTCCCTCCATTCC 58.498 55.000 0.00 0.00 0.00 3.01
1756 1835 1.273838 ACTGCTACTCCCTCCATTCCA 60.274 52.381 0.00 0.00 0.00 3.53
1757 1836 2.053244 CTGCTACTCCCTCCATTCCAT 58.947 52.381 0.00 0.00 0.00 3.41
1758 1837 3.242867 CTGCTACTCCCTCCATTCCATA 58.757 50.000 0.00 0.00 0.00 2.74
1759 1838 3.648067 CTGCTACTCCCTCCATTCCATAA 59.352 47.826 0.00 0.00 0.00 1.90
1760 1839 4.242811 TGCTACTCCCTCCATTCCATAAT 58.757 43.478 0.00 0.00 0.00 1.28
1761 1840 4.042062 TGCTACTCCCTCCATTCCATAATG 59.958 45.833 0.00 0.00 41.90 1.90
1762 1841 4.042187 GCTACTCCCTCCATTCCATAATGT 59.958 45.833 0.00 0.00 40.84 2.71
1763 1842 5.248477 GCTACTCCCTCCATTCCATAATGTA 59.752 44.000 0.00 0.00 40.84 2.29
1764 1843 5.832539 ACTCCCTCCATTCCATAATGTAG 57.167 43.478 0.00 0.00 40.84 2.74
1765 1844 5.227593 ACTCCCTCCATTCCATAATGTAGT 58.772 41.667 0.00 0.00 40.84 2.73
1766 1845 5.072329 ACTCCCTCCATTCCATAATGTAGTG 59.928 44.000 0.00 0.00 40.84 2.74
1767 1846 4.074970 CCCTCCATTCCATAATGTAGTGC 58.925 47.826 0.00 0.00 40.84 4.40
1768 1847 4.074970 CCTCCATTCCATAATGTAGTGCC 58.925 47.826 0.00 0.00 40.84 5.01
1769 1848 4.202503 CCTCCATTCCATAATGTAGTGCCT 60.203 45.833 0.00 0.00 40.84 4.75
1770 1849 5.013079 CCTCCATTCCATAATGTAGTGCCTA 59.987 44.000 0.00 0.00 40.84 3.93
1771 1850 6.296662 CCTCCATTCCATAATGTAGTGCCTAT 60.297 42.308 0.00 0.00 40.84 2.57
1772 1851 7.092891 CCTCCATTCCATAATGTAGTGCCTATA 60.093 40.741 0.00 0.00 40.84 1.31
1773 1852 7.851228 TCCATTCCATAATGTAGTGCCTATAG 58.149 38.462 0.00 0.00 40.84 1.31
1774 1853 7.678171 TCCATTCCATAATGTAGTGCCTATAGA 59.322 37.037 0.00 0.00 40.84 1.98
1775 1854 8.489489 CCATTCCATAATGTAGTGCCTATAGAT 58.511 37.037 0.00 0.00 40.84 1.98
1776 1855 9.896645 CATTCCATAATGTAGTGCCTATAGATT 57.103 33.333 0.00 0.00 38.15 2.40
1789 1868 9.905713 AGTGCCTATAGATTTTTATGAAAGTCA 57.094 29.630 0.00 0.00 34.85 3.41
1805 1884 5.861222 AAAGTCAAACTTTGCCAACTTTG 57.139 34.783 14.50 1.84 45.83 2.77
1806 1885 4.799564 AGTCAAACTTTGCCAACTTTGA 57.200 36.364 5.68 5.68 31.68 2.69
1807 1886 4.494484 AGTCAAACTTTGCCAACTTTGAC 58.506 39.130 21.64 21.64 46.84 3.18
1808 1887 3.616821 GTCAAACTTTGCCAACTTTGACC 59.383 43.478 19.93 9.30 43.35 4.02
1809 1888 3.259374 TCAAACTTTGCCAACTTTGACCA 59.741 39.130 5.68 0.00 29.66 4.02
1810 1889 3.971245 AACTTTGCCAACTTTGACCAA 57.029 38.095 0.00 0.00 0.00 3.67
1811 1890 3.525268 ACTTTGCCAACTTTGACCAAG 57.475 42.857 0.00 0.00 38.64 3.61
1813 1892 2.957491 TTGCCAACTTTGACCAAGTG 57.043 45.000 0.00 0.00 45.77 3.16
1814 1893 1.846007 TGCCAACTTTGACCAAGTGT 58.154 45.000 0.00 0.00 45.77 3.55
1815 1894 3.006112 TGCCAACTTTGACCAAGTGTA 57.994 42.857 0.00 0.00 45.77 2.90
1816 1895 3.561143 TGCCAACTTTGACCAAGTGTAT 58.439 40.909 0.00 0.00 45.77 2.29
1817 1896 4.720046 TGCCAACTTTGACCAAGTGTATA 58.280 39.130 0.00 0.00 45.77 1.47
1818 1897 4.759693 TGCCAACTTTGACCAAGTGTATAG 59.240 41.667 0.00 0.00 45.77 1.31
1819 1898 5.001232 GCCAACTTTGACCAAGTGTATAGA 58.999 41.667 0.00 0.00 45.77 1.98
1820 1899 5.122396 GCCAACTTTGACCAAGTGTATAGAG 59.878 44.000 0.00 0.00 45.77 2.43
1821 1900 6.464222 CCAACTTTGACCAAGTGTATAGAGA 58.536 40.000 0.00 0.00 45.77 3.10
1822 1901 6.934645 CCAACTTTGACCAAGTGTATAGAGAA 59.065 38.462 0.00 0.00 45.77 2.87
1823 1902 7.444183 CCAACTTTGACCAAGTGTATAGAGAAA 59.556 37.037 0.00 0.00 45.77 2.52
1824 1903 8.836413 CAACTTTGACCAAGTGTATAGAGAAAA 58.164 33.333 0.00 0.00 45.77 2.29
1825 1904 9.574516 AACTTTGACCAAGTGTATAGAGAAAAT 57.425 29.630 0.00 0.00 45.77 1.82
1826 1905 9.574516 ACTTTGACCAAGTGTATAGAGAAAATT 57.425 29.630 0.00 0.00 44.70 1.82
1827 1906 9.831737 CTTTGACCAAGTGTATAGAGAAAATTG 57.168 33.333 0.00 0.00 0.00 2.32
1828 1907 8.918202 TTGACCAAGTGTATAGAGAAAATTGT 57.082 30.769 0.00 0.00 0.00 2.71
1829 1908 8.547967 TGACCAAGTGTATAGAGAAAATTGTC 57.452 34.615 0.00 0.00 0.00 3.18
1830 1909 8.375506 TGACCAAGTGTATAGAGAAAATTGTCT 58.624 33.333 0.00 0.00 34.85 3.41
1831 1910 9.871238 GACCAAGTGTATAGAGAAAATTGTCTA 57.129 33.333 0.00 2.91 37.44 2.59
1832 1911 9.654663 ACCAAGTGTATAGAGAAAATTGTCTAC 57.345 33.333 0.00 0.00 36.11 2.59
1833 1912 9.653287 CCAAGTGTATAGAGAAAATTGTCTACA 57.347 33.333 0.00 0.00 36.11 2.74
1843 1922 9.950496 AGAGAAAATTGTCTACATCTACAACAT 57.050 29.630 0.00 0.00 38.35 2.71
1845 1924 9.725019 AGAAAATTGTCTACATCTACAACATCA 57.275 29.630 0.00 0.00 38.35 3.07
1849 1928 8.846943 ATTGTCTACATCTACAACATCAAACA 57.153 30.769 0.00 0.00 38.35 2.83
1850 1929 8.846943 TTGTCTACATCTACAACATCAAACAT 57.153 30.769 0.00 0.00 30.88 2.71
1851 1930 9.936759 TTGTCTACATCTACAACATCAAACATA 57.063 29.630 0.00 0.00 30.88 2.29
1876 1955 8.812147 ATACATTCTGAAAATATAACTCGCGA 57.188 30.769 9.26 9.26 0.00 5.87
1877 1956 7.715265 ACATTCTGAAAATATAACTCGCGAT 57.285 32.000 10.36 0.00 0.00 4.58
1878 1957 7.567571 ACATTCTGAAAATATAACTCGCGATG 58.432 34.615 10.36 6.65 0.00 3.84
1879 1958 7.224753 ACATTCTGAAAATATAACTCGCGATGT 59.775 33.333 10.36 7.38 0.00 3.06
1880 1959 8.699749 CATTCTGAAAATATAACTCGCGATGTA 58.300 33.333 10.36 5.17 0.00 2.29
1881 1960 8.812147 TTCTGAAAATATAACTCGCGATGTAT 57.188 30.769 10.36 12.81 0.00 2.29
1882 1961 8.449085 TCTGAAAATATAACTCGCGATGTATC 57.551 34.615 10.36 0.00 0.00 2.24
1883 1962 7.541091 TCTGAAAATATAACTCGCGATGTATCC 59.459 37.037 10.36 0.00 0.00 2.59
1884 1963 7.149307 TGAAAATATAACTCGCGATGTATCCA 58.851 34.615 10.36 1.40 0.00 3.41
1885 1964 7.328493 TGAAAATATAACTCGCGATGTATCCAG 59.672 37.037 10.36 0.00 0.00 3.86
1886 1965 5.899120 ATATAACTCGCGATGTATCCAGT 57.101 39.130 10.36 0.00 0.00 4.00
1887 1966 2.209838 AACTCGCGATGTATCCAGTG 57.790 50.000 10.36 0.00 0.00 3.66
1888 1967 1.389555 ACTCGCGATGTATCCAGTGA 58.610 50.000 10.36 0.00 0.00 3.41
1889 1968 1.957177 ACTCGCGATGTATCCAGTGAT 59.043 47.619 10.36 0.00 34.87 3.06
1890 1969 2.287849 ACTCGCGATGTATCCAGTGATG 60.288 50.000 10.36 0.00 32.18 3.07
1891 1970 1.681264 TCGCGATGTATCCAGTGATGT 59.319 47.619 3.71 0.00 32.18 3.06
1892 1971 2.054363 CGCGATGTATCCAGTGATGTC 58.946 52.381 0.00 0.00 32.18 3.06
1893 1972 2.408050 GCGATGTATCCAGTGATGTCC 58.592 52.381 0.00 0.00 32.18 4.02
1894 1973 2.224042 GCGATGTATCCAGTGATGTCCA 60.224 50.000 0.00 0.00 32.18 4.02
1895 1974 3.555795 GCGATGTATCCAGTGATGTCCAT 60.556 47.826 0.00 0.00 32.18 3.41
1896 1975 4.635223 CGATGTATCCAGTGATGTCCATT 58.365 43.478 0.00 0.00 32.18 3.16
1897 1976 5.059161 CGATGTATCCAGTGATGTCCATTT 58.941 41.667 0.00 0.00 32.18 2.32
1898 1977 5.049886 CGATGTATCCAGTGATGTCCATTTG 60.050 44.000 0.00 0.00 32.18 2.32
1899 1978 5.434182 TGTATCCAGTGATGTCCATTTGA 57.566 39.130 0.00 0.00 32.18 2.69
1900 1979 6.005066 TGTATCCAGTGATGTCCATTTGAT 57.995 37.500 0.00 0.00 32.18 2.57
1901 1980 7.135591 TGTATCCAGTGATGTCCATTTGATA 57.864 36.000 0.00 0.00 32.18 2.15
1902 1981 7.748677 TGTATCCAGTGATGTCCATTTGATAT 58.251 34.615 0.00 0.00 32.18 1.63
1903 1982 8.219868 TGTATCCAGTGATGTCCATTTGATATT 58.780 33.333 0.00 0.00 32.18 1.28
1904 1983 7.756395 ATCCAGTGATGTCCATTTGATATTC 57.244 36.000 0.00 0.00 0.00 1.75
1905 1984 6.903516 TCCAGTGATGTCCATTTGATATTCT 58.096 36.000 0.00 0.00 0.00 2.40
1906 1985 8.033178 TCCAGTGATGTCCATTTGATATTCTA 57.967 34.615 0.00 0.00 0.00 2.10
1907 1986 8.152898 TCCAGTGATGTCCATTTGATATTCTAG 58.847 37.037 0.00 0.00 0.00 2.43
1908 1987 8.152898 CCAGTGATGTCCATTTGATATTCTAGA 58.847 37.037 0.00 0.00 0.00 2.43
1909 1988 9.722184 CAGTGATGTCCATTTGATATTCTAGAT 57.278 33.333 0.00 0.00 0.00 1.98
1910 1989 9.722184 AGTGATGTCCATTTGATATTCTAGATG 57.278 33.333 0.00 0.00 0.00 2.90
1911 1990 9.499479 GTGATGTCCATTTGATATTCTAGATGT 57.501 33.333 0.00 0.00 0.00 3.06
1914 1993 9.950496 ATGTCCATTTGATATTCTAGATGTACC 57.050 33.333 0.00 0.00 0.00 3.34
1915 1994 9.159254 TGTCCATTTGATATTCTAGATGTACCT 57.841 33.333 0.00 0.00 0.00 3.08
1954 2033 9.912634 AGATATGGTCAAAGTTTGTAATGTTTG 57.087 29.630 15.08 0.00 0.00 2.93
1955 2034 9.906660 GATATGGTCAAAGTTTGTAATGTTTGA 57.093 29.630 15.08 0.00 36.74 2.69
1962 2041 8.439286 TCAAAGTTTGTAATGTTTGACTTTTGC 58.561 29.630 15.08 0.00 35.75 3.68
1963 2042 7.897575 AAGTTTGTAATGTTTGACTTTTGCA 57.102 28.000 0.00 0.00 0.00 4.08
1964 2043 7.897575 AGTTTGTAATGTTTGACTTTTGCAA 57.102 28.000 0.00 0.00 0.00 4.08
1965 2044 8.316640 AGTTTGTAATGTTTGACTTTTGCAAA 57.683 26.923 8.05 8.05 33.22 3.68
1966 2045 8.778358 AGTTTGTAATGTTTGACTTTTGCAAAA 58.222 25.926 22.61 22.61 37.03 2.44
1967 2046 9.387123 GTTTGTAATGTTTGACTTTTGCAAAAA 57.613 25.926 23.92 8.29 37.03 1.94
1969 2048 9.766277 TTGTAATGTTTGACTTTTGCAAAAATC 57.234 25.926 22.90 22.90 37.03 2.17
1970 2049 9.160496 TGTAATGTTTGACTTTTGCAAAAATCT 57.840 25.926 27.69 13.35 37.03 2.40
1975 2054 9.474920 TGTTTGACTTTTGCAAAAATCTATAGG 57.525 29.630 27.69 15.71 37.03 2.57
1976 2055 8.435430 GTTTGACTTTTGCAAAAATCTATAGGC 58.565 33.333 27.69 16.81 37.03 3.93
1977 2056 7.225784 TGACTTTTGCAAAAATCTATAGGCA 57.774 32.000 27.69 18.92 0.00 4.75
1978 2057 7.090173 TGACTTTTGCAAAAATCTATAGGCAC 58.910 34.615 27.69 12.10 0.00 5.01
1979 2058 7.039784 TGACTTTTGCAAAAATCTATAGGCACT 60.040 33.333 27.69 1.15 46.37 4.40
1993 2072 3.194005 AGGCACTACATTATGGAACGG 57.806 47.619 0.00 0.00 36.02 4.44
1994 2073 2.769663 AGGCACTACATTATGGAACGGA 59.230 45.455 0.00 0.00 36.02 4.69
1995 2074 3.131396 GGCACTACATTATGGAACGGAG 58.869 50.000 0.00 0.00 0.00 4.63
1996 2075 3.131396 GCACTACATTATGGAACGGAGG 58.869 50.000 0.00 0.00 0.00 4.30
1997 2076 3.728845 CACTACATTATGGAACGGAGGG 58.271 50.000 0.00 0.00 0.00 4.30
1998 2077 3.386726 CACTACATTATGGAACGGAGGGA 59.613 47.826 0.00 0.00 0.00 4.20
1999 2078 3.641906 ACTACATTATGGAACGGAGGGAG 59.358 47.826 0.00 0.00 0.00 4.30
2000 2079 2.478292 ACATTATGGAACGGAGGGAGT 58.522 47.619 0.00 0.00 0.00 3.85
2001 2080 3.649843 ACATTATGGAACGGAGGGAGTA 58.350 45.455 0.00 0.00 0.00 2.59
2002 2081 3.387050 ACATTATGGAACGGAGGGAGTAC 59.613 47.826 0.00 0.00 0.00 2.73
2003 2082 3.393426 TTATGGAACGGAGGGAGTACT 57.607 47.619 0.00 0.00 0.00 2.73
2087 2166 0.537143 AAGCCATCGTGCCAAGTTGA 60.537 50.000 3.87 0.00 0.00 3.18
2099 2180 1.137513 CAAGTTGAGGGACGACGAAC 58.862 55.000 0.00 0.00 37.91 3.95
2116 2197 0.318762 AACTTCCTCCTCGTCAGCAC 59.681 55.000 0.00 0.00 0.00 4.40
2166 2247 5.710513 AACTGATGCATTGTGTGTGTAAT 57.289 34.783 0.00 0.00 0.00 1.89
2179 2260 5.867174 TGTGTGTGTAATGTGATGTAGTAGC 59.133 40.000 0.00 0.00 0.00 3.58
2190 2271 6.118852 TGTGATGTAGTAGCCATTGCATTTA 58.881 36.000 0.00 0.00 41.13 1.40
2198 2279 3.019564 AGCCATTGCATTTAGACAGTCC 58.980 45.455 0.00 0.00 41.13 3.85
2231 2312 5.455326 GCATATCATCTACTCCCAACCAACT 60.455 44.000 0.00 0.00 0.00 3.16
2355 2440 3.217743 CGTCGAGGAGGTAGGGGC 61.218 72.222 0.00 0.00 0.00 5.80
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
185 199 2.118233 TATGTGGCGTGTGGGAAGCA 62.118 55.000 0.00 0.00 0.00 3.91
276 290 2.260481 CGCTAGAGGGAAAGAAACGAC 58.740 52.381 0.00 0.00 0.00 4.34
287 301 0.179097 GTTCTTCTGGCGCTAGAGGG 60.179 60.000 28.18 21.59 0.00 4.30
339 353 1.355066 GCGTCTACTCCAAGCAGCAC 61.355 60.000 0.00 0.00 0.00 4.40
364 378 0.321122 GAGGAACTGACCTGCCACAG 60.321 60.000 0.00 0.00 41.55 3.66
560 580 5.142061 TGCAAATTCAGATCAAGCAACAT 57.858 34.783 0.00 0.00 0.00 2.71
561 581 4.587584 TGCAAATTCAGATCAAGCAACA 57.412 36.364 0.00 0.00 0.00 3.33
690 712 6.683974 ACAAGCTAGCTACATAACCAAATG 57.316 37.500 19.70 10.29 0.00 2.32
691 713 7.703058 AAACAAGCTAGCTACATAACCAAAT 57.297 32.000 19.70 0.00 0.00 2.32
698 720 7.170320 GCCGTTATAAAACAAGCTAGCTACATA 59.830 37.037 19.70 7.79 35.16 2.29
704 726 4.609691 TGCCGTTATAAAACAAGCTAGC 57.390 40.909 6.62 6.62 36.16 3.42
735 757 9.476202 GGATTAACAGAAAGCAACAAACTAAAT 57.524 29.630 0.00 0.00 0.00 1.40
738 760 7.575414 TGGATTAACAGAAAGCAACAAACTA 57.425 32.000 0.00 0.00 0.00 2.24
792 830 6.449698 CATGCAGAACAGAGGTTACAATTTT 58.550 36.000 0.00 0.00 37.36 1.82
795 833 3.441572 GCATGCAGAACAGAGGTTACAAT 59.558 43.478 14.21 0.00 37.36 2.71
804 842 1.546029 AGTCGTAGCATGCAGAACAGA 59.454 47.619 21.98 12.78 0.00 3.41
812 850 1.293924 AATCTGCAGTCGTAGCATGC 58.706 50.000 14.67 10.51 41.82 4.06
821 859 4.125703 AGCTATGCTACAAATCTGCAGTC 58.874 43.478 14.67 0.00 40.18 3.51
841 879 5.760253 TGTGCTAAGATAATCCAGCTAAAGC 59.240 40.000 0.00 0.00 42.49 3.51
933 978 7.651808 CAAGAACTATATATTGGTTTGGGCAG 58.348 38.462 0.00 0.00 0.00 4.85
947 992 2.877168 GCAGCAGCAGCAAGAACTATAT 59.123 45.455 4.63 0.00 45.49 0.86
980 1025 0.535780 TGGTTGGTTCAGCTCAGCAG 60.536 55.000 0.00 0.00 0.00 4.24
981 1026 0.106769 TTGGTTGGTTCAGCTCAGCA 60.107 50.000 0.00 0.00 0.00 4.41
982 1027 1.068055 CATTGGTTGGTTCAGCTCAGC 60.068 52.381 0.00 0.00 0.00 4.26
983 1028 1.542915 CCATTGGTTGGTTCAGCTCAG 59.457 52.381 0.00 0.00 40.99 3.35
984 1029 1.619654 CCATTGGTTGGTTCAGCTCA 58.380 50.000 0.00 0.00 40.99 4.26
985 1030 0.890683 CCCATTGGTTGGTTCAGCTC 59.109 55.000 1.20 0.00 44.83 4.09
1086 1131 2.048222 CTCTTTCTCGCGGGCACA 60.048 61.111 6.13 0.00 0.00 4.57
1092 1137 1.605058 TTCCCCTCCTCTTTCTCGCG 61.605 60.000 0.00 0.00 0.00 5.87
1107 1152 4.722700 TGCTTCTGCGGCCTTCCC 62.723 66.667 0.00 0.00 43.34 3.97
1110 1155 1.968540 GAAGTGCTTCTGCGGCCTT 60.969 57.895 0.00 0.00 43.34 4.35
1311 1356 1.202463 CCATTGGTCCTAGCTGACTCG 60.202 57.143 0.00 0.00 35.54 4.18
1314 1359 0.912486 ACCCATTGGTCCTAGCTGAC 59.088 55.000 0.00 0.00 43.06 3.51
1418 1463 0.808125 TTGTACGGTGATTGGCATGC 59.192 50.000 9.90 9.90 0.00 4.06
1431 1476 2.031508 ACTTGGCACCGAAAATTGTACG 60.032 45.455 0.00 0.00 0.00 3.67
1432 1477 3.636282 ACTTGGCACCGAAAATTGTAC 57.364 42.857 0.00 0.00 0.00 2.90
1450 1499 6.870971 TTGAAACAAATTACGAAGGCTACT 57.129 33.333 0.00 0.00 0.00 2.57
1507 1556 4.371855 TTTGCGTCCACATAAACAAACA 57.628 36.364 0.00 0.00 0.00 2.83
1510 1559 4.938080 ACATTTTGCGTCCACATAAACAA 58.062 34.783 0.00 0.00 0.00 2.83
1566 1615 0.176680 ATCAGCCTACAACAGCCGAG 59.823 55.000 0.00 0.00 0.00 4.63
1569 1618 3.268023 AGTAATCAGCCTACAACAGCC 57.732 47.619 0.00 0.00 0.00 4.85
1591 1640 4.697352 ACAAGCAGACCAAAATACTAGCAG 59.303 41.667 0.00 0.00 0.00 4.24
1592 1641 4.651778 ACAAGCAGACCAAAATACTAGCA 58.348 39.130 0.00 0.00 0.00 3.49
1593 1642 5.629079 AACAAGCAGACCAAAATACTAGC 57.371 39.130 0.00 0.00 0.00 3.42
1637 1686 4.823989 GCAATGCTATCATCCCTAGTTGTT 59.176 41.667 0.00 0.00 31.27 2.83
1655 1704 8.426881 TTGGATATGTGATCAAAATTGCAATG 57.573 30.769 13.82 1.94 0.00 2.82
1696 1775 3.926616 ACGAACCAGAGTATGAACCAAG 58.073 45.455 0.00 0.00 0.00 3.61
1701 1780 5.661056 AGATTGACGAACCAGAGTATGAA 57.339 39.130 0.00 0.00 0.00 2.57
1704 1783 6.323996 TGGATAAGATTGACGAACCAGAGTAT 59.676 38.462 0.00 0.00 0.00 2.12
1733 1812 3.308473 GGAATGGAGGGAGTAGCAGTTTT 60.308 47.826 0.00 0.00 0.00 2.43
1763 1842 9.905713 TGACTTTCATAAAAATCTATAGGCACT 57.094 29.630 0.00 0.00 46.37 4.40
1772 1851 9.045223 GGCAAAGTTTGACTTTCATAAAAATCT 57.955 29.630 19.82 0.00 44.47 2.40
1773 1852 8.825745 TGGCAAAGTTTGACTTTCATAAAAATC 58.174 29.630 21.83 0.00 44.47 2.17
1774 1853 8.729805 TGGCAAAGTTTGACTTTCATAAAAAT 57.270 26.923 21.83 0.00 44.47 1.82
1775 1854 8.447053 GTTGGCAAAGTTTGACTTTCATAAAAA 58.553 29.630 21.83 2.22 44.47 1.94
1776 1855 7.821846 AGTTGGCAAAGTTTGACTTTCATAAAA 59.178 29.630 21.83 2.93 44.47 1.52
1777 1856 7.327214 AGTTGGCAAAGTTTGACTTTCATAAA 58.673 30.769 21.83 3.66 44.47 1.40
1778 1857 6.872920 AGTTGGCAAAGTTTGACTTTCATAA 58.127 32.000 21.83 4.37 44.47 1.90
1779 1858 6.463995 AGTTGGCAAAGTTTGACTTTCATA 57.536 33.333 21.83 0.00 44.47 2.15
1780 1859 5.343307 AGTTGGCAAAGTTTGACTTTCAT 57.657 34.783 21.83 1.69 44.47 2.57
1781 1860 4.799564 AGTTGGCAAAGTTTGACTTTCA 57.200 36.364 21.83 0.00 44.47 2.69
1789 1868 3.971245 TGGTCAAAGTTGGCAAAGTTT 57.029 38.095 0.00 0.42 39.10 2.66
1790 1869 3.860641 CTTGGTCAAAGTTGGCAAAGTT 58.139 40.909 0.00 0.00 38.66 2.66
1791 1870 3.525268 CTTGGTCAAAGTTGGCAAAGT 57.475 42.857 0.00 0.00 38.66 2.66
1801 1880 9.831737 CAATTTTCTCTATACACTTGGTCAAAG 57.168 33.333 0.00 0.00 42.07 2.77
1802 1881 9.349713 ACAATTTTCTCTATACACTTGGTCAAA 57.650 29.630 0.00 0.00 0.00 2.69
1803 1882 8.918202 ACAATTTTCTCTATACACTTGGTCAA 57.082 30.769 0.00 0.00 0.00 3.18
1804 1883 8.375506 AGACAATTTTCTCTATACACTTGGTCA 58.624 33.333 0.00 0.00 0.00 4.02
1805 1884 8.779354 AGACAATTTTCTCTATACACTTGGTC 57.221 34.615 0.00 0.00 0.00 4.02
1806 1885 9.654663 GTAGACAATTTTCTCTATACACTTGGT 57.345 33.333 0.00 0.00 0.00 3.67
1807 1886 9.653287 TGTAGACAATTTTCTCTATACACTTGG 57.347 33.333 0.00 0.00 0.00 3.61
1817 1896 9.950496 ATGTTGTAGATGTAGACAATTTTCTCT 57.050 29.630 0.00 0.00 37.84 3.10
1819 1898 9.725019 TGATGTTGTAGATGTAGACAATTTTCT 57.275 29.630 0.00 0.00 37.84 2.52
1823 1902 9.283768 TGTTTGATGTTGTAGATGTAGACAATT 57.716 29.630 0.00 0.00 37.84 2.32
1824 1903 8.846943 TGTTTGATGTTGTAGATGTAGACAAT 57.153 30.769 0.00 0.00 37.84 2.71
1825 1904 8.846943 ATGTTTGATGTTGTAGATGTAGACAA 57.153 30.769 0.00 0.00 33.23 3.18
1850 1929 9.902196 TCGCGAGTTATATTTTCAGAATGTATA 57.098 29.630 3.71 0.00 37.40 1.47
1851 1930 8.812147 TCGCGAGTTATATTTTCAGAATGTAT 57.188 30.769 3.71 0.00 37.40 2.29
1852 1931 8.699749 CATCGCGAGTTATATTTTCAGAATGTA 58.300 33.333 16.66 0.00 37.40 2.29
1853 1932 7.224753 ACATCGCGAGTTATATTTTCAGAATGT 59.775 33.333 16.66 4.48 37.40 2.71
1854 1933 7.567571 ACATCGCGAGTTATATTTTCAGAATG 58.432 34.615 16.66 3.78 37.54 2.67
1855 1934 7.715265 ACATCGCGAGTTATATTTTCAGAAT 57.285 32.000 16.66 0.00 0.00 2.40
1856 1935 8.812147 ATACATCGCGAGTTATATTTTCAGAA 57.188 30.769 16.66 0.00 0.00 3.02
1857 1936 7.541091 GGATACATCGCGAGTTATATTTTCAGA 59.459 37.037 16.66 0.00 0.00 3.27
1858 1937 7.328493 TGGATACATCGCGAGTTATATTTTCAG 59.672 37.037 16.66 0.00 46.17 3.02
1859 1938 7.149307 TGGATACATCGCGAGTTATATTTTCA 58.851 34.615 16.66 6.98 46.17 2.69
1860 1939 7.576750 TGGATACATCGCGAGTTATATTTTC 57.423 36.000 16.66 2.22 46.17 2.29
1878 1957 8.627208 AATATCAAATGGACATCACTGGATAC 57.373 34.615 0.00 0.00 30.87 2.24
1879 1958 8.663167 AGAATATCAAATGGACATCACTGGATA 58.337 33.333 0.00 0.00 30.87 2.59
1880 1959 7.524290 AGAATATCAAATGGACATCACTGGAT 58.476 34.615 0.00 0.00 0.00 3.41
1881 1960 6.903516 AGAATATCAAATGGACATCACTGGA 58.096 36.000 0.00 0.00 0.00 3.86
1882 1961 8.152898 TCTAGAATATCAAATGGACATCACTGG 58.847 37.037 0.00 0.00 0.00 4.00
1883 1962 9.722184 ATCTAGAATATCAAATGGACATCACTG 57.278 33.333 0.00 0.00 0.00 3.66
1884 1963 9.722184 CATCTAGAATATCAAATGGACATCACT 57.278 33.333 0.00 0.00 0.00 3.41
1885 1964 9.499479 ACATCTAGAATATCAAATGGACATCAC 57.501 33.333 0.00 0.00 0.00 3.06
1888 1967 9.950496 GGTACATCTAGAATATCAAATGGACAT 57.050 33.333 0.00 0.00 31.03 3.06
1889 1968 9.159254 AGGTACATCTAGAATATCAAATGGACA 57.841 33.333 0.00 0.00 31.03 4.02
1928 2007 9.912634 CAAACATTACAAACTTTGACCATATCT 57.087 29.630 8.55 0.00 0.00 1.98
1929 2008 9.906660 TCAAACATTACAAACTTTGACCATATC 57.093 29.630 8.55 0.00 29.66 1.63
1930 2009 9.691362 GTCAAACATTACAAACTTTGACCATAT 57.309 29.630 8.55 0.00 43.35 1.78
1935 2014 9.739786 CAAAAGTCAAACATTACAAACTTTGAC 57.260 29.630 8.55 12.19 46.84 3.18
1936 2015 8.439286 GCAAAAGTCAAACATTACAAACTTTGA 58.561 29.630 8.55 0.00 37.12 2.69
1937 2016 8.226448 TGCAAAAGTCAAACATTACAAACTTTG 58.774 29.630 0.00 0.00 37.12 2.77
1938 2017 8.316640 TGCAAAAGTCAAACATTACAAACTTT 57.683 26.923 0.00 0.00 38.27 2.66
1939 2018 7.897575 TGCAAAAGTCAAACATTACAAACTT 57.102 28.000 0.00 0.00 0.00 2.66
1940 2019 7.897575 TTGCAAAAGTCAAACATTACAAACT 57.102 28.000 0.00 0.00 0.00 2.66
1941 2020 8.941127 TTTTGCAAAAGTCAAACATTACAAAC 57.059 26.923 20.46 0.00 33.66 2.93
1943 2022 9.766277 GATTTTTGCAAAAGTCAAACATTACAA 57.234 25.926 31.15 12.48 35.47 2.41
1944 2023 9.160496 AGATTTTTGCAAAAGTCAAACATTACA 57.840 25.926 34.74 15.56 37.17 2.41
1949 2028 9.474920 CCTATAGATTTTTGCAAAAGTCAAACA 57.525 29.630 34.74 22.58 37.17 2.83
1950 2029 8.435430 GCCTATAGATTTTTGCAAAAGTCAAAC 58.565 33.333 34.74 20.44 37.17 2.93
1951 2030 8.147058 TGCCTATAGATTTTTGCAAAAGTCAAA 58.853 29.630 34.74 26.42 37.17 2.69
1952 2031 7.598493 GTGCCTATAGATTTTTGCAAAAGTCAA 59.402 33.333 34.74 23.52 37.17 3.18
1953 2032 7.039784 AGTGCCTATAGATTTTTGCAAAAGTCA 60.040 33.333 34.74 25.12 37.17 3.41
1954 2033 7.315890 AGTGCCTATAGATTTTTGCAAAAGTC 58.684 34.615 29.81 29.81 35.58 3.01
1955 2034 7.232118 AGTGCCTATAGATTTTTGCAAAAGT 57.768 32.000 22.78 20.72 0.00 2.66
1956 2035 8.243426 TGTAGTGCCTATAGATTTTTGCAAAAG 58.757 33.333 22.78 10.71 0.00 2.27
1957 2036 8.116651 TGTAGTGCCTATAGATTTTTGCAAAA 57.883 30.769 20.46 20.46 0.00 2.44
1958 2037 7.695480 TGTAGTGCCTATAGATTTTTGCAAA 57.305 32.000 8.05 8.05 0.00 3.68
1959 2038 7.880160 ATGTAGTGCCTATAGATTTTTGCAA 57.120 32.000 0.00 0.00 0.00 4.08
1960 2039 7.880160 AATGTAGTGCCTATAGATTTTTGCA 57.120 32.000 0.00 0.00 0.00 4.08
1961 2040 9.831737 CATAATGTAGTGCCTATAGATTTTTGC 57.168 33.333 0.00 0.00 0.00 3.68
1965 2044 9.726438 GTTCCATAATGTAGTGCCTATAGATTT 57.274 33.333 0.00 0.00 0.00 2.17
1966 2045 8.035394 CGTTCCATAATGTAGTGCCTATAGATT 58.965 37.037 0.00 0.00 0.00 2.40
1967 2046 7.363880 CCGTTCCATAATGTAGTGCCTATAGAT 60.364 40.741 0.00 0.00 0.00 1.98
1968 2047 6.071560 CCGTTCCATAATGTAGTGCCTATAGA 60.072 42.308 0.00 0.00 0.00 1.98
1969 2048 6.071560 TCCGTTCCATAATGTAGTGCCTATAG 60.072 42.308 0.00 0.00 0.00 1.31
1970 2049 5.776208 TCCGTTCCATAATGTAGTGCCTATA 59.224 40.000 0.00 0.00 0.00 1.31
1971 2050 4.591498 TCCGTTCCATAATGTAGTGCCTAT 59.409 41.667 0.00 0.00 0.00 2.57
1972 2051 3.962063 TCCGTTCCATAATGTAGTGCCTA 59.038 43.478 0.00 0.00 0.00 3.93
1973 2052 2.769663 TCCGTTCCATAATGTAGTGCCT 59.230 45.455 0.00 0.00 0.00 4.75
1974 2053 3.131396 CTCCGTTCCATAATGTAGTGCC 58.869 50.000 0.00 0.00 0.00 5.01
1975 2054 3.131396 CCTCCGTTCCATAATGTAGTGC 58.869 50.000 0.00 0.00 0.00 4.40
1976 2055 3.386726 TCCCTCCGTTCCATAATGTAGTG 59.613 47.826 0.00 0.00 0.00 2.74
1977 2056 3.641906 CTCCCTCCGTTCCATAATGTAGT 59.358 47.826 0.00 0.00 0.00 2.73
1978 2057 3.641906 ACTCCCTCCGTTCCATAATGTAG 59.358 47.826 0.00 0.00 0.00 2.74
1979 2058 3.649843 ACTCCCTCCGTTCCATAATGTA 58.350 45.455 0.00 0.00 0.00 2.29
1980 2059 2.478292 ACTCCCTCCGTTCCATAATGT 58.522 47.619 0.00 0.00 0.00 2.71
1981 2060 3.641906 AGTACTCCCTCCGTTCCATAATG 59.358 47.826 0.00 0.00 0.00 1.90
1982 2061 3.924922 AGTACTCCCTCCGTTCCATAAT 58.075 45.455 0.00 0.00 0.00 1.28
1983 2062 3.393426 AGTACTCCCTCCGTTCCATAA 57.607 47.619 0.00 0.00 0.00 1.90
1984 2063 3.718434 TCTAGTACTCCCTCCGTTCCATA 59.282 47.826 0.00 0.00 0.00 2.74
1985 2064 2.512896 TCTAGTACTCCCTCCGTTCCAT 59.487 50.000 0.00 0.00 0.00 3.41
1986 2065 1.918262 TCTAGTACTCCCTCCGTTCCA 59.082 52.381 0.00 0.00 0.00 3.53
1987 2066 2.725221 TCTAGTACTCCCTCCGTTCC 57.275 55.000 0.00 0.00 0.00 3.62
1988 2067 9.850198 ATATATAATCTAGTACTCCCTCCGTTC 57.150 37.037 0.00 0.00 0.00 3.95
1989 2068 9.629878 CATATATAATCTAGTACTCCCTCCGTT 57.370 37.037 0.00 0.00 0.00 4.44
1990 2069 8.780003 ACATATATAATCTAGTACTCCCTCCGT 58.220 37.037 0.00 0.00 0.00 4.69
1991 2070 9.629878 AACATATATAATCTAGTACTCCCTCCG 57.370 37.037 0.00 0.00 0.00 4.63
1994 2073 9.629878 CCGAACATATATAATCTAGTACTCCCT 57.370 37.037 0.00 0.00 0.00 4.20
1995 2074 9.624373 TCCGAACATATATAATCTAGTACTCCC 57.376 37.037 0.00 0.00 0.00 4.30
2059 2138 2.100916 GGCACGATGGCTTCTAGAGTAA 59.899 50.000 0.00 0.00 40.14 2.24
2065 2144 0.613260 ACTTGGCACGATGGCTTCTA 59.387 50.000 0.00 0.00 44.10 2.10
2087 2166 1.249469 GGAGGAAGTTCGTCGTCCCT 61.249 60.000 17.01 0.00 43.72 4.20
2099 2180 0.108898 CTGTGCTGACGAGGAGGAAG 60.109 60.000 0.00 0.00 0.00 3.46
2116 2197 0.363512 CAAGTTCGCACGATCGTCTG 59.636 55.000 19.84 13.78 0.00 3.51
2166 2247 3.625649 TGCAATGGCTACTACATCACA 57.374 42.857 0.00 0.00 41.91 3.58
2179 2260 4.946157 AGAAGGACTGTCTAAATGCAATGG 59.054 41.667 7.85 0.00 0.00 3.16
2198 2279 6.127647 GGGAGTAGATGATATGCAGAGAGAAG 60.128 46.154 0.00 0.00 0.00 2.85
2231 2312 2.349755 GGGAGCGCTGGTTGGTTA 59.650 61.111 18.48 0.00 0.00 2.85
2343 2428 2.758737 CGAACGCCCCTACCTCCT 60.759 66.667 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.