Multiple sequence alignment - TraesCS7B01G402500

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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 TraesCS7B01G402500 chr7B 100.000 2213 0 0 1 2213 669997490 669999702 0.000000e+00 4087
1 TraesCS7B01G402500 chr7B 91.588 1807 136 11 7 1805 504999643 504997845 0.000000e+00 2481
2 TraesCS7B01G402500 chr7B 79.015 467 62 20 1358 1805 138607693 138607244 1.000000e-73 287
3 TraesCS7B01G402500 chr7B 95.513 156 6 1 2058 2213 588411209 588411055 4.720000e-62 248
4 TraesCS7B01G402500 chr7B 76.496 468 76 21 1364 1805 743286674 743286215 7.950000e-55 224
5 TraesCS7B01G402500 chr7B 83.453 139 19 3 1680 1816 593125828 593125964 2.310000e-25 126
6 TraesCS7B01G402500 chr3A 93.591 1810 101 12 1 1804 715534969 715536769 0.000000e+00 2686
7 TraesCS7B01G402500 chr3A 87.500 128 14 1 1680 1805 701214146 701214019 1.770000e-31 147
8 TraesCS7B01G402500 chr7D 93.326 1813 105 10 1 1805 451485947 451484143 0.000000e+00 2663
9 TraesCS7B01G402500 chr7D 86.275 255 32 2 1806 2058 326062265 326062518 7.780000e-70 274
10 TraesCS7B01G402500 chr4D 94.001 1717 75 14 1 1711 16322082 16320388 0.000000e+00 2575
11 TraesCS7B01G402500 chr4D 93.194 1719 86 16 1 1711 16297161 16295466 0.000000e+00 2497
12 TraesCS7B01G402500 chr1D 93.256 1631 85 10 1 1628 21732553 21730945 0.000000e+00 2379
13 TraesCS7B01G402500 chr1B 92.022 1617 105 7 1 1612 127991452 127993049 0.000000e+00 2250
14 TraesCS7B01G402500 chr2D 92.862 1457 89 9 212 1665 564389304 564387860 0.000000e+00 2100
15 TraesCS7B01G402500 chr5D 91.823 1382 93 14 368 1745 528156921 528158286 0.000000e+00 1908
16 TraesCS7B01G402500 chr6A 90.525 1256 100 8 1 1241 31919004 31920255 0.000000e+00 1642
17 TraesCS7B01G402500 chr6A 84.585 253 38 1 1806 2058 414845745 414845494 1.310000e-62 250
18 TraesCS7B01G402500 chr6B 90.182 1100 97 5 719 1810 6146166 6145070 0.000000e+00 1423
19 TraesCS7B01G402500 chr6B 89.020 1102 108 5 719 1812 79150643 79149547 0.000000e+00 1352
20 TraesCS7B01G402500 chr6B 91.285 677 48 5 1135 1805 620274151 620273480 0.000000e+00 913
21 TraesCS7B01G402500 chr6B 95.513 156 6 1 2058 2213 413896652 413896498 4.720000e-62 248
22 TraesCS7B01G402500 chr6B 94.872 156 5 3 2058 2213 381644825 381644673 7.900000e-60 241
23 TraesCS7B01G402500 chr6B 94.268 157 8 1 2057 2213 468651374 468651529 2.840000e-59 239
24 TraesCS7B01G402500 chr1A 91.509 848 57 9 966 1809 3813899 3814735 0.000000e+00 1153
25 TraesCS7B01G402500 chr4A 88.142 253 30 0 1806 2058 277915472 277915220 3.570000e-78 302
26 TraesCS7B01G402500 chr4A 85.938 128 16 2 1680 1805 617121643 617121770 3.830000e-28 135
27 TraesCS7B01G402500 chr2B 85.606 264 36 2 1796 2058 232191126 232190864 2.160000e-70 276
28 TraesCS7B01G402500 chr2B 94.839 155 8 0 2059 2213 366703881 366703727 2.200000e-60 243
29 TraesCS7B01G402500 chr2B 94.872 156 6 2 2058 2213 740176933 740176780 2.200000e-60 243
30 TraesCS7B01G402500 chr2B 81.423 253 47 0 1806 2058 263478037 263478289 8.010000e-50 207
31 TraesCS7B01G402500 chr7A 85.356 239 32 2 1822 2058 365047722 365047485 6.100000e-61 244
32 TraesCS7B01G402500 chr5B 94.839 155 8 0 2059 2213 514835088 514834934 2.200000e-60 243
33 TraesCS7B01G402500 chr5B 94.839 155 7 1 2059 2213 125211525 125211678 7.900000e-60 241
34 TraesCS7B01G402500 chr3B 94.231 156 8 1 2058 2213 146900954 146900800 1.020000e-58 237
35 TraesCS7B01G402500 chr3D 83.399 253 42 0 1806 2058 342711375 342711123 3.670000e-58 235
36 TraesCS7B01G402500 chr3D 80.952 252 47 1 1807 2058 613029156 613028906 4.820000e-47 198
37 TraesCS7B01G402500 chr4B 84.388 237 36 1 1822 2058 454341102 454340867 4.750000e-57 231
38 TraesCS7B01G402500 chr2A 86.719 128 15 2 1680 1805 441111418 441111545 8.240000e-30 141


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 TraesCS7B01G402500 chr7B 669997490 669999702 2212 False 4087 4087 100.000 1 2213 1 chr7B.!!$F2 2212
1 TraesCS7B01G402500 chr7B 504997845 504999643 1798 True 2481 2481 91.588 7 1805 1 chr7B.!!$R2 1798
2 TraesCS7B01G402500 chr3A 715534969 715536769 1800 False 2686 2686 93.591 1 1804 1 chr3A.!!$F1 1803
3 TraesCS7B01G402500 chr7D 451484143 451485947 1804 True 2663 2663 93.326 1 1805 1 chr7D.!!$R1 1804
4 TraesCS7B01G402500 chr4D 16320388 16322082 1694 True 2575 2575 94.001 1 1711 1 chr4D.!!$R2 1710
5 TraesCS7B01G402500 chr4D 16295466 16297161 1695 True 2497 2497 93.194 1 1711 1 chr4D.!!$R1 1710
6 TraesCS7B01G402500 chr1D 21730945 21732553 1608 True 2379 2379 93.256 1 1628 1 chr1D.!!$R1 1627
7 TraesCS7B01G402500 chr1B 127991452 127993049 1597 False 2250 2250 92.022 1 1612 1 chr1B.!!$F1 1611
8 TraesCS7B01G402500 chr2D 564387860 564389304 1444 True 2100 2100 92.862 212 1665 1 chr2D.!!$R1 1453
9 TraesCS7B01G402500 chr5D 528156921 528158286 1365 False 1908 1908 91.823 368 1745 1 chr5D.!!$F1 1377
10 TraesCS7B01G402500 chr6A 31919004 31920255 1251 False 1642 1642 90.525 1 1241 1 chr6A.!!$F1 1240
11 TraesCS7B01G402500 chr6B 6145070 6146166 1096 True 1423 1423 90.182 719 1810 1 chr6B.!!$R1 1091
12 TraesCS7B01G402500 chr6B 79149547 79150643 1096 True 1352 1352 89.020 719 1812 1 chr6B.!!$R2 1093
13 TraesCS7B01G402500 chr6B 620273480 620274151 671 True 913 913 91.285 1135 1805 1 chr6B.!!$R5 670
14 TraesCS7B01G402500 chr1A 3813899 3814735 836 False 1153 1153 91.509 966 1809 1 chr1A.!!$F1 843

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
161 163 0.60478 TCTTCTCCTCCGTCGTCGTT 60.605 55.0 0.71 0.0 35.01 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1807 1846 0.038166 TGAAGACAATGCCCCTCCAC 59.962 55.0 0.0 0.0 0.0 4.02 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
33 34 6.830838 TGAGCTCTATGATTGAAGTGTCTCTA 59.169 38.462 16.19 0.00 0.00 2.43
72 74 5.984926 TCTGAACAATTTCACATTTGCTTCC 59.015 36.000 0.00 0.00 36.79 3.46
95 97 5.581085 CCCTGATAAGTAAGGTCTGTTTTCG 59.419 44.000 0.00 0.00 0.00 3.46
116 118 4.036027 TCGTTTACAGGTAGAAGATAGCGG 59.964 45.833 0.00 0.00 0.00 5.52
117 119 4.201990 CGTTTACAGGTAGAAGATAGCGGT 60.202 45.833 0.00 0.00 0.00 5.68
157 159 2.131776 AAGATCTTCTCCTCCGTCGT 57.868 50.000 0.88 0.00 0.00 4.34
161 163 0.604780 TCTTCTCCTCCGTCGTCGTT 60.605 55.000 0.71 0.00 35.01 3.85
237 239 2.359900 GCATCCGTCCATCTCAAAAGT 58.640 47.619 0.00 0.00 0.00 2.66
278 280 9.897744 CAGCTAATTAACTTGTCTTTTCATCAA 57.102 29.630 0.00 0.00 0.00 2.57
341 349 5.124457 TGCTAGCTGATTCTTGGTGAAAATC 59.876 40.000 17.23 0.00 38.29 2.17
386 399 8.715191 AGAGAGTCTTGTAGCAATTATTCTTG 57.285 34.615 0.00 0.00 0.00 3.02
398 411 6.378280 AGCAATTATTCTTGGAGTAAACCAGG 59.622 38.462 0.00 0.00 41.19 4.45
516 529 8.070034 TCCCAAACTTAACGATGAGATACTAA 57.930 34.615 0.00 0.00 0.00 2.24
696 712 1.482593 AGACTTCGCCTATTCCCTGTG 59.517 52.381 0.00 0.00 0.00 3.66
705 721 3.826729 GCCTATTCCCTGTGTTCAAAAGT 59.173 43.478 0.00 0.00 0.00 2.66
727 743 6.472887 AGTAGTGGGAATCGATTTTCTGAAA 58.527 36.000 12.81 0.00 0.00 2.69
738 754 5.048083 TCGATTTTCTGAAATCCTTGGTTGG 60.048 40.000 3.31 0.00 45.39 3.77
859 875 7.892778 TGTATGTAGCAAAACGACAAGATAA 57.107 32.000 0.00 0.00 37.44 1.75
896 913 4.020128 AGCTAGGGTATGCATTTAGTAGGC 60.020 45.833 3.54 2.34 0.00 3.93
990 1014 6.734137 AGAATGCGAACTAACATGTTTTCAA 58.266 32.000 17.78 7.06 0.00 2.69
1000 1024 4.927978 ACATGTTTTCAATTTCCCGACA 57.072 36.364 0.00 0.00 0.00 4.35
1028 1052 0.171455 GAGGTGATCGACGCAGACTT 59.829 55.000 0.00 0.00 0.00 3.01
1032 1056 0.817654 TGATCGACGCAGACTTCCAT 59.182 50.000 0.00 0.00 0.00 3.41
1072 1097 1.342174 TCTTTAACAACTCGGAGGCGT 59.658 47.619 10.23 2.86 0.00 5.68
1086 1111 2.076863 GAGGCGTACTTTGCTGTGAAT 58.923 47.619 0.00 0.00 0.00 2.57
1114 1139 3.441163 GACCGCGTAACACAGATGATTA 58.559 45.455 4.92 0.00 0.00 1.75
1312 1338 6.868622 ACATCTAGAGAAGTGGTCATGTTAC 58.131 40.000 0.00 0.00 0.00 2.50
1412 1440 5.288232 CGTGATCTCTTTGAGTTGAGATGTC 59.712 44.000 9.79 0.00 46.37 3.06
1486 1514 6.222389 TCTTTTATTTTGCCTTGGATGTGTG 58.778 36.000 0.00 0.00 0.00 3.82
1493 1521 2.100584 TGCCTTGGATGTGTGTTGTTTC 59.899 45.455 0.00 0.00 0.00 2.78
1510 1538 6.440010 TGTTGTTTCCCATCCATGAATATTGT 59.560 34.615 0.00 0.00 0.00 2.71
1567 1603 0.252197 GTAGCGTGGGGGAAGAATGT 59.748 55.000 0.00 0.00 0.00 2.71
1607 1643 2.761786 TAGTAGTAGCGTGGGGGAAT 57.238 50.000 0.00 0.00 0.00 3.01
1749 1785 2.621998 GCGTCTTAGTAGTAGCATGGGA 59.378 50.000 0.00 0.00 0.00 4.37
1751 1787 4.441079 GCGTCTTAGTAGTAGCATGGGAAA 60.441 45.833 0.00 0.00 0.00 3.13
1752 1788 5.282510 CGTCTTAGTAGTAGCATGGGAAAG 58.717 45.833 0.00 0.00 0.00 2.62
1754 1790 4.714802 TCTTAGTAGTAGCATGGGAAAGCA 59.285 41.667 0.00 0.00 0.00 3.91
1805 1844 9.829507 CTACTAGTAGTGCTTTTCCTAGTAGTA 57.170 37.037 20.01 15.41 45.55 1.82
1807 1846 7.774625 ACTAGTAGTGCTTTTCCTAGTAGTAGG 59.225 40.741 16.56 16.56 43.57 3.18
1808 1847 6.492274 AGTAGTGCTTTTCCTAGTAGTAGGT 58.508 40.000 20.89 4.32 45.75 3.08
1810 1849 4.466726 AGTGCTTTTCCTAGTAGTAGGTGG 59.533 45.833 20.89 11.62 45.75 4.61
1811 1850 4.465305 GTGCTTTTCCTAGTAGTAGGTGGA 59.535 45.833 20.89 10.01 45.75 4.02
1812 1851 4.710375 TGCTTTTCCTAGTAGTAGGTGGAG 59.290 45.833 20.89 16.71 45.75 3.86
1813 1852 4.099727 GCTTTTCCTAGTAGTAGGTGGAGG 59.900 50.000 20.89 10.89 45.75 4.30
1814 1853 3.967467 TTCCTAGTAGTAGGTGGAGGG 57.033 52.381 20.89 0.00 45.75 4.30
1815 1854 2.141911 TCCTAGTAGTAGGTGGAGGGG 58.858 57.143 20.89 0.00 45.75 4.79
1816 1855 1.480869 CCTAGTAGTAGGTGGAGGGGC 60.481 61.905 14.72 0.00 41.15 5.80
1817 1856 1.217183 CTAGTAGTAGGTGGAGGGGCA 59.783 57.143 0.00 0.00 0.00 5.36
1818 1857 0.642710 AGTAGTAGGTGGAGGGGCAT 59.357 55.000 0.00 0.00 0.00 4.40
1819 1858 1.009675 AGTAGTAGGTGGAGGGGCATT 59.990 52.381 0.00 0.00 0.00 3.56
1820 1859 1.141053 GTAGTAGGTGGAGGGGCATTG 59.859 57.143 0.00 0.00 0.00 2.82
1821 1860 0.550147 AGTAGGTGGAGGGGCATTGT 60.550 55.000 0.00 0.00 0.00 2.71
1822 1861 0.107165 GTAGGTGGAGGGGCATTGTC 60.107 60.000 0.00 0.00 0.00 3.18
1823 1862 0.253160 TAGGTGGAGGGGCATTGTCT 60.253 55.000 0.00 0.00 0.00 3.41
1824 1863 1.142688 AGGTGGAGGGGCATTGTCTT 61.143 55.000 0.00 0.00 0.00 3.01
1825 1864 0.681243 GGTGGAGGGGCATTGTCTTC 60.681 60.000 0.00 0.00 0.00 2.87
1826 1865 0.038166 GTGGAGGGGCATTGTCTTCA 59.962 55.000 0.00 0.00 0.00 3.02
1827 1866 1.002069 TGGAGGGGCATTGTCTTCAT 58.998 50.000 0.00 0.00 0.00 2.57
1828 1867 1.064463 TGGAGGGGCATTGTCTTCATC 60.064 52.381 0.00 0.00 0.00 2.92
1829 1868 1.685148 GAGGGGCATTGTCTTCATCC 58.315 55.000 0.00 0.00 0.00 3.51
1830 1869 0.107017 AGGGGCATTGTCTTCATCCG 60.107 55.000 0.00 0.00 0.00 4.18
1831 1870 0.107214 GGGGCATTGTCTTCATCCGA 60.107 55.000 0.00 0.00 0.00 4.55
1832 1871 1.303309 GGGCATTGTCTTCATCCGAG 58.697 55.000 0.00 0.00 0.00 4.63
1833 1872 0.659957 GGCATTGTCTTCATCCGAGC 59.340 55.000 0.00 0.00 0.00 5.03
1834 1873 1.661341 GCATTGTCTTCATCCGAGCT 58.339 50.000 0.00 0.00 0.00 4.09
1835 1874 1.596727 GCATTGTCTTCATCCGAGCTC 59.403 52.381 2.73 2.73 0.00 4.09
1836 1875 1.857217 CATTGTCTTCATCCGAGCTCG 59.143 52.381 29.06 29.06 39.44 5.03
1837 1876 0.888619 TTGTCTTCATCCGAGCTCGT 59.111 50.000 32.41 14.48 37.74 4.18
1838 1877 0.171231 TGTCTTCATCCGAGCTCGTG 59.829 55.000 32.41 24.88 37.74 4.35
1839 1878 0.171455 GTCTTCATCCGAGCTCGTGT 59.829 55.000 32.41 18.79 37.74 4.49
1840 1879 0.452184 TCTTCATCCGAGCTCGTGTC 59.548 55.000 32.41 0.00 37.74 3.67
1841 1880 0.453793 CTTCATCCGAGCTCGTGTCT 59.546 55.000 32.41 12.62 37.74 3.41
1842 1881 0.888619 TTCATCCGAGCTCGTGTCTT 59.111 50.000 32.41 11.02 37.74 3.01
1843 1882 0.452184 TCATCCGAGCTCGTGTCTTC 59.548 55.000 32.41 0.00 37.74 2.87
1844 1883 0.453793 CATCCGAGCTCGTGTCTTCT 59.546 55.000 32.41 7.77 37.74 2.85
1845 1884 0.453793 ATCCGAGCTCGTGTCTTCTG 59.546 55.000 32.41 15.89 37.74 3.02
1846 1885 0.889638 TCCGAGCTCGTGTCTTCTGT 60.890 55.000 32.41 0.00 37.74 3.41
1847 1886 0.039074 CCGAGCTCGTGTCTTCTGTT 60.039 55.000 32.41 0.00 37.74 3.16
1848 1887 1.603172 CCGAGCTCGTGTCTTCTGTTT 60.603 52.381 32.41 0.00 37.74 2.83
1849 1888 1.716581 CGAGCTCGTGTCTTCTGTTTC 59.283 52.381 27.79 0.00 34.11 2.78
1850 1889 1.716581 GAGCTCGTGTCTTCTGTTTCG 59.283 52.381 0.00 0.00 0.00 3.46
1851 1890 1.067212 AGCTCGTGTCTTCTGTTTCGT 59.933 47.619 0.00 0.00 0.00 3.85
1852 1891 1.859080 GCTCGTGTCTTCTGTTTCGTT 59.141 47.619 0.00 0.00 0.00 3.85
1853 1892 2.097347 GCTCGTGTCTTCTGTTTCGTTC 60.097 50.000 0.00 0.00 0.00 3.95
1854 1893 3.113322 CTCGTGTCTTCTGTTTCGTTCA 58.887 45.455 0.00 0.00 0.00 3.18
1855 1894 3.513662 TCGTGTCTTCTGTTTCGTTCAA 58.486 40.909 0.00 0.00 0.00 2.69
1856 1895 3.550275 TCGTGTCTTCTGTTTCGTTCAAG 59.450 43.478 0.00 0.00 0.00 3.02
1857 1896 3.306166 CGTGTCTTCTGTTTCGTTCAAGT 59.694 43.478 0.00 0.00 0.00 3.16
1858 1897 4.201685 CGTGTCTTCTGTTTCGTTCAAGTT 60.202 41.667 0.00 0.00 0.00 2.66
1859 1898 5.022021 GTGTCTTCTGTTTCGTTCAAGTTG 58.978 41.667 0.00 0.00 0.00 3.16
1860 1899 4.932799 TGTCTTCTGTTTCGTTCAAGTTGA 59.067 37.500 0.08 0.08 0.00 3.18
1861 1900 5.163893 TGTCTTCTGTTTCGTTCAAGTTGAC 60.164 40.000 4.68 0.39 0.00 3.18
1862 1901 4.932799 TCTTCTGTTTCGTTCAAGTTGACA 59.067 37.500 4.68 0.00 0.00 3.58
1863 1902 5.584649 TCTTCTGTTTCGTTCAAGTTGACAT 59.415 36.000 4.68 0.00 0.00 3.06
1864 1903 5.403897 TCTGTTTCGTTCAAGTTGACATC 57.596 39.130 4.68 0.00 0.00 3.06
1865 1904 5.116180 TCTGTTTCGTTCAAGTTGACATCT 58.884 37.500 4.68 0.00 0.00 2.90
1866 1905 5.584649 TCTGTTTCGTTCAAGTTGACATCTT 59.415 36.000 4.68 0.00 0.00 2.40
1867 1906 5.568482 TGTTTCGTTCAAGTTGACATCTTG 58.432 37.500 16.87 16.87 42.25 3.02
1868 1907 3.878086 TCGTTCAAGTTGACATCTTGC 57.122 42.857 17.81 7.34 41.13 4.01
1869 1908 3.466836 TCGTTCAAGTTGACATCTTGCT 58.533 40.909 17.81 0.00 41.13 3.91
1870 1909 3.494626 TCGTTCAAGTTGACATCTTGCTC 59.505 43.478 17.81 12.76 41.13 4.26
1871 1910 3.364366 CGTTCAAGTTGACATCTTGCTCC 60.364 47.826 17.81 9.25 41.13 4.70
1872 1911 3.777106 TCAAGTTGACATCTTGCTCCT 57.223 42.857 17.81 0.00 41.13 3.69
1873 1912 3.668447 TCAAGTTGACATCTTGCTCCTC 58.332 45.455 17.81 0.00 41.13 3.71
1874 1913 2.746362 CAAGTTGACATCTTGCTCCTCC 59.254 50.000 12.18 0.00 36.38 4.30
1875 1914 2.264455 AGTTGACATCTTGCTCCTCCT 58.736 47.619 0.00 0.00 0.00 3.69
1876 1915 2.235898 AGTTGACATCTTGCTCCTCCTC 59.764 50.000 0.00 0.00 0.00 3.71
1877 1916 1.198713 TGACATCTTGCTCCTCCTCC 58.801 55.000 0.00 0.00 0.00 4.30
1878 1917 0.103937 GACATCTTGCTCCTCCTCCG 59.896 60.000 0.00 0.00 0.00 4.63
1879 1918 0.616111 ACATCTTGCTCCTCCTCCGT 60.616 55.000 0.00 0.00 0.00 4.69
1880 1919 0.179089 CATCTTGCTCCTCCTCCGTG 60.179 60.000 0.00 0.00 0.00 4.94
1881 1920 1.333636 ATCTTGCTCCTCCTCCGTGG 61.334 60.000 0.00 0.00 37.10 4.94
1882 1921 1.984570 CTTGCTCCTCCTCCGTGGA 60.985 63.158 0.00 0.00 43.86 4.02
1883 1922 2.232298 CTTGCTCCTCCTCCGTGGAC 62.232 65.000 0.00 0.00 40.56 4.02
1884 1923 2.363147 GCTCCTCCTCCGTGGACT 60.363 66.667 0.00 0.00 40.56 3.85
1885 1924 1.076923 GCTCCTCCTCCGTGGACTA 60.077 63.158 0.00 0.00 40.56 2.59
1886 1925 0.468400 GCTCCTCCTCCGTGGACTAT 60.468 60.000 0.00 0.00 40.56 2.12
1887 1926 1.611519 CTCCTCCTCCGTGGACTATC 58.388 60.000 0.00 0.00 40.56 2.08
1888 1927 0.185416 TCCTCCTCCGTGGACTATCC 59.815 60.000 0.00 0.00 40.56 2.59
1889 1928 0.106167 CCTCCTCCGTGGACTATCCA 60.106 60.000 0.00 0.00 45.98 3.41
1918 1957 4.960332 TCTATACCCCCATAGATCCTTGG 58.040 47.826 4.82 4.82 33.53 3.61
1919 1958 3.963525 ATACCCCCATAGATCCTTGGA 57.036 47.619 12.10 0.00 34.81 3.53
1920 1959 2.843909 ACCCCCATAGATCCTTGGAT 57.156 50.000 12.10 1.18 34.81 3.41
1921 1960 3.095299 ACCCCCATAGATCCTTGGATT 57.905 47.619 12.10 0.00 34.81 3.01
1922 1961 3.417010 ACCCCCATAGATCCTTGGATTT 58.583 45.455 12.10 0.81 34.81 2.17
1923 1962 3.140895 ACCCCCATAGATCCTTGGATTTG 59.859 47.826 12.10 3.15 34.81 2.32
1924 1963 3.160269 CCCCATAGATCCTTGGATTTGC 58.840 50.000 12.10 0.00 34.81 3.68
1925 1964 3.436906 CCCCATAGATCCTTGGATTTGCA 60.437 47.826 12.10 0.00 34.81 4.08
1926 1965 4.217510 CCCATAGATCCTTGGATTTGCAA 58.782 43.478 12.10 0.00 34.81 4.08
1927 1966 4.038402 CCCATAGATCCTTGGATTTGCAAC 59.962 45.833 12.10 0.00 34.81 4.17
1928 1967 4.646040 CCATAGATCCTTGGATTTGCAACA 59.354 41.667 0.00 0.00 34.81 3.33
1929 1968 5.303589 CCATAGATCCTTGGATTTGCAACAT 59.696 40.000 0.00 0.00 34.81 2.71
1930 1969 6.491062 CCATAGATCCTTGGATTTGCAACATA 59.509 38.462 0.00 0.00 34.81 2.29
1931 1970 7.309012 CCATAGATCCTTGGATTTGCAACATAG 60.309 40.741 0.00 0.00 34.81 2.23
1932 1971 5.513233 AGATCCTTGGATTTGCAACATAGT 58.487 37.500 0.00 0.00 0.00 2.12
1933 1972 5.359009 AGATCCTTGGATTTGCAACATAGTG 59.641 40.000 0.00 0.00 0.00 2.74
1934 1973 4.406456 TCCTTGGATTTGCAACATAGTGT 58.594 39.130 0.00 0.00 0.00 3.55
1935 1974 4.458989 TCCTTGGATTTGCAACATAGTGTC 59.541 41.667 0.00 0.00 0.00 3.67
1936 1975 4.218200 CCTTGGATTTGCAACATAGTGTCA 59.782 41.667 0.00 0.00 0.00 3.58
1937 1976 5.105635 CCTTGGATTTGCAACATAGTGTCAT 60.106 40.000 0.00 0.00 0.00 3.06
1938 1977 6.095300 CCTTGGATTTGCAACATAGTGTCATA 59.905 38.462 0.00 0.00 0.00 2.15
1939 1978 6.435430 TGGATTTGCAACATAGTGTCATAC 57.565 37.500 0.00 0.00 0.00 2.39
1940 1979 5.942826 TGGATTTGCAACATAGTGTCATACA 59.057 36.000 0.00 0.00 0.00 2.29
1941 1980 6.432472 TGGATTTGCAACATAGTGTCATACAA 59.568 34.615 0.00 0.00 0.00 2.41
1942 1981 7.040132 TGGATTTGCAACATAGTGTCATACAAA 60.040 33.333 0.00 0.00 0.00 2.83
1943 1982 7.485913 GGATTTGCAACATAGTGTCATACAAAG 59.514 37.037 0.00 0.00 0.00 2.77
1944 1983 5.295431 TGCAACATAGTGTCATACAAAGC 57.705 39.130 0.00 0.00 0.00 3.51
1945 1984 5.003160 TGCAACATAGTGTCATACAAAGCT 58.997 37.500 0.00 0.00 0.00 3.74
1946 1985 5.122239 TGCAACATAGTGTCATACAAAGCTC 59.878 40.000 0.00 0.00 0.00 4.09
1947 1986 5.352569 GCAACATAGTGTCATACAAAGCTCT 59.647 40.000 0.00 0.00 0.00 4.09
1948 1987 6.456181 GCAACATAGTGTCATACAAAGCTCTC 60.456 42.308 0.00 0.00 0.00 3.20
1949 1988 5.665459 ACATAGTGTCATACAAAGCTCTCC 58.335 41.667 0.00 0.00 0.00 3.71
1950 1989 3.618690 AGTGTCATACAAAGCTCTCCC 57.381 47.619 0.00 0.00 0.00 4.30
1951 1990 2.237392 AGTGTCATACAAAGCTCTCCCC 59.763 50.000 0.00 0.00 0.00 4.81
1952 1991 2.027192 GTGTCATACAAAGCTCTCCCCA 60.027 50.000 0.00 0.00 0.00 4.96
1953 1992 2.846206 TGTCATACAAAGCTCTCCCCAT 59.154 45.455 0.00 0.00 0.00 4.00
1954 1993 3.118261 TGTCATACAAAGCTCTCCCCATC 60.118 47.826 0.00 0.00 0.00 3.51
1955 1994 3.135530 GTCATACAAAGCTCTCCCCATCT 59.864 47.826 0.00 0.00 0.00 2.90
1956 1995 3.135348 TCATACAAAGCTCTCCCCATCTG 59.865 47.826 0.00 0.00 0.00 2.90
1957 1996 1.661463 ACAAAGCTCTCCCCATCTGA 58.339 50.000 0.00 0.00 0.00 3.27
1958 1997 1.558756 ACAAAGCTCTCCCCATCTGAG 59.441 52.381 0.00 0.00 0.00 3.35
1959 1998 1.558756 CAAAGCTCTCCCCATCTGAGT 59.441 52.381 0.00 0.00 0.00 3.41
1960 1999 1.494960 AAGCTCTCCCCATCTGAGTC 58.505 55.000 0.00 0.00 0.00 3.36
1961 2000 0.636101 AGCTCTCCCCATCTGAGTCT 59.364 55.000 0.00 0.00 0.00 3.24
1962 2001 1.008206 AGCTCTCCCCATCTGAGTCTT 59.992 52.381 0.00 0.00 0.00 3.01
1963 2002 1.412343 GCTCTCCCCATCTGAGTCTTC 59.588 57.143 0.00 0.00 0.00 2.87
1964 2003 2.744760 CTCTCCCCATCTGAGTCTTCA 58.255 52.381 0.00 0.00 0.00 3.02
1981 2020 6.192234 GTCTTCAGACGACATACCTTTAGA 57.808 41.667 2.15 0.00 35.12 2.10
1982 2021 6.797454 GTCTTCAGACGACATACCTTTAGAT 58.203 40.000 2.15 0.00 35.12 1.98
1983 2022 6.913673 GTCTTCAGACGACATACCTTTAGATC 59.086 42.308 2.15 0.00 35.12 2.75
1984 2023 6.829298 TCTTCAGACGACATACCTTTAGATCT 59.171 38.462 0.00 0.00 0.00 2.75
1985 2024 7.991460 TCTTCAGACGACATACCTTTAGATCTA 59.009 37.037 0.00 0.00 0.00 1.98
1986 2025 7.493743 TCAGACGACATACCTTTAGATCTAC 57.506 40.000 0.67 0.00 0.00 2.59
1987 2026 6.485984 TCAGACGACATACCTTTAGATCTACC 59.514 42.308 0.67 0.00 0.00 3.18
1988 2027 6.262496 CAGACGACATACCTTTAGATCTACCA 59.738 42.308 0.67 0.00 0.00 3.25
1989 2028 6.832384 AGACGACATACCTTTAGATCTACCAA 59.168 38.462 0.67 0.00 0.00 3.67
1990 2029 7.341256 AGACGACATACCTTTAGATCTACCAAA 59.659 37.037 0.67 0.00 0.00 3.28
1991 2030 7.844009 ACGACATACCTTTAGATCTACCAAAA 58.156 34.615 0.67 0.00 0.00 2.44
1992 2031 8.316214 ACGACATACCTTTAGATCTACCAAAAA 58.684 33.333 0.67 0.00 0.00 1.94
2015 2054 8.807667 AAAAATAGCATGAAACAAGAACAGAG 57.192 30.769 0.00 0.00 0.00 3.35
2016 2055 6.506500 AATAGCATGAAACAAGAACAGAGG 57.493 37.500 0.00 0.00 0.00 3.69
2017 2056 4.090761 AGCATGAAACAAGAACAGAGGA 57.909 40.909 0.00 0.00 0.00 3.71
2018 2057 4.660168 AGCATGAAACAAGAACAGAGGAT 58.340 39.130 0.00 0.00 0.00 3.24
2019 2058 5.809001 AGCATGAAACAAGAACAGAGGATA 58.191 37.500 0.00 0.00 0.00 2.59
2020 2059 6.421485 AGCATGAAACAAGAACAGAGGATAT 58.579 36.000 0.00 0.00 0.00 1.63
2021 2060 6.888632 AGCATGAAACAAGAACAGAGGATATT 59.111 34.615 0.00 0.00 0.00 1.28
2022 2061 7.395489 AGCATGAAACAAGAACAGAGGATATTT 59.605 33.333 0.00 0.00 0.00 1.40
2023 2062 7.699812 GCATGAAACAAGAACAGAGGATATTTC 59.300 37.037 0.00 0.00 0.00 2.17
2024 2063 7.687941 TGAAACAAGAACAGAGGATATTTCC 57.312 36.000 0.00 0.00 42.96 3.13
2043 2082 1.882198 CGTGATGCGGTGATCAAAAC 58.118 50.000 0.00 0.00 34.11 2.43
2044 2083 1.786575 CGTGATGCGGTGATCAAAACG 60.787 52.381 0.00 4.04 34.11 3.60
2045 2084 1.196808 GTGATGCGGTGATCAAAACGT 59.803 47.619 14.56 1.96 34.11 3.99
2046 2085 1.463056 TGATGCGGTGATCAAAACGTC 59.537 47.619 14.56 10.15 29.11 4.34
2047 2086 0.802494 ATGCGGTGATCAAAACGTCC 59.198 50.000 14.56 3.24 0.00 4.79
2048 2087 1.131826 GCGGTGATCAAAACGTCCG 59.868 57.895 14.10 14.10 40.72 4.79
2049 2088 1.785321 CGGTGATCAAAACGTCCGG 59.215 57.895 11.32 0.00 35.25 5.14
2050 2089 1.632046 CGGTGATCAAAACGTCCGGG 61.632 60.000 11.32 0.00 35.25 5.73
2051 2090 0.320946 GGTGATCAAAACGTCCGGGA 60.321 55.000 0.00 0.00 0.00 5.14
2052 2091 1.076332 GTGATCAAAACGTCCGGGAG 58.924 55.000 0.00 0.00 0.00 4.30
2053 2092 0.682852 TGATCAAAACGTCCGGGAGT 59.317 50.000 0.00 0.00 0.00 3.85
2054 2093 1.894466 TGATCAAAACGTCCGGGAGTA 59.106 47.619 0.00 0.00 0.00 2.59
2055 2094 2.498481 TGATCAAAACGTCCGGGAGTAT 59.502 45.455 0.00 0.00 0.00 2.12
2056 2095 3.700539 TGATCAAAACGTCCGGGAGTATA 59.299 43.478 0.00 0.00 0.00 1.47
2057 2096 4.342951 TGATCAAAACGTCCGGGAGTATAT 59.657 41.667 0.00 0.00 0.00 0.86
2058 2097 4.741321 TCAAAACGTCCGGGAGTATATT 57.259 40.909 0.00 0.00 0.00 1.28
2059 2098 4.435425 TCAAAACGTCCGGGAGTATATTG 58.565 43.478 0.00 8.83 0.00 1.90
2060 2099 4.160065 TCAAAACGTCCGGGAGTATATTGA 59.840 41.667 0.00 10.80 0.00 2.57
2061 2100 4.950205 AAACGTCCGGGAGTATATTGAT 57.050 40.909 0.00 0.00 0.00 2.57
2062 2101 6.040729 TCAAAACGTCCGGGAGTATATTGATA 59.959 38.462 0.00 0.00 0.00 2.15
2063 2102 5.382618 AACGTCCGGGAGTATATTGATAC 57.617 43.478 0.00 0.00 38.63 2.24
2064 2103 3.438087 ACGTCCGGGAGTATATTGATACG 59.562 47.826 0.00 1.16 42.50 3.06
2065 2104 3.438087 CGTCCGGGAGTATATTGATACGT 59.562 47.826 0.00 0.00 42.50 3.57
2066 2105 4.436584 CGTCCGGGAGTATATTGATACGTC 60.437 50.000 0.00 0.00 42.50 4.34
2067 2106 4.699257 GTCCGGGAGTATATTGATACGTCT 59.301 45.833 0.00 0.00 42.50 4.18
2068 2107 4.940046 TCCGGGAGTATATTGATACGTCTC 59.060 45.833 0.00 0.00 42.50 3.36
2069 2108 4.096081 CCGGGAGTATATTGATACGTCTCC 59.904 50.000 0.00 0.00 42.50 3.71
2070 2109 4.698780 CGGGAGTATATTGATACGTCTCCA 59.301 45.833 14.01 0.00 42.50 3.86
2071 2110 5.182570 CGGGAGTATATTGATACGTCTCCAA 59.817 44.000 14.01 7.77 42.50 3.53
2072 2111 6.388278 GGGAGTATATTGATACGTCTCCAAC 58.612 44.000 14.01 0.29 42.50 3.77
2073 2112 6.015688 GGGAGTATATTGATACGTCTCCAACA 60.016 42.308 14.01 0.00 42.50 3.33
2074 2113 7.309867 GGGAGTATATTGATACGTCTCCAACAT 60.310 40.741 14.01 5.37 42.50 2.71
2075 2114 8.737175 GGAGTATATTGATACGTCTCCAACATA 58.263 37.037 8.76 1.66 42.50 2.29
2182 2221 2.580962 GGACTACCCTAGTAACCGAGG 58.419 57.143 0.00 0.00 39.59 4.63
2185 2224 3.547247 CCCTAGTAACCGAGGGCC 58.453 66.667 0.00 0.00 45.32 5.80
2186 2225 2.138831 CCCTAGTAACCGAGGGCCC 61.139 68.421 16.46 16.46 45.32 5.80
2187 2226 1.382146 CCTAGTAACCGAGGGCCCA 60.382 63.158 27.56 0.00 30.32 5.36
2188 2227 1.400530 CCTAGTAACCGAGGGCCCAG 61.401 65.000 27.56 17.88 30.32 4.45
2189 2228 0.686769 CTAGTAACCGAGGGCCCAGT 60.687 60.000 27.56 15.96 0.00 4.00
2190 2229 0.974010 TAGTAACCGAGGGCCCAGTG 60.974 60.000 27.56 14.03 0.00 3.66
2191 2230 3.712907 TAACCGAGGGCCCAGTGC 61.713 66.667 27.56 9.34 40.16 4.40
2200 2239 3.359002 GCCCAGTGCCAGTTTCTG 58.641 61.111 0.00 0.00 0.00 3.02
2201 2240 1.228245 GCCCAGTGCCAGTTTCTGA 60.228 57.895 0.00 0.00 32.44 3.27
2202 2241 0.610232 GCCCAGTGCCAGTTTCTGAT 60.610 55.000 0.00 0.00 32.44 2.90
2203 2242 1.915141 CCCAGTGCCAGTTTCTGATT 58.085 50.000 0.00 0.00 32.44 2.57
2204 2243 2.242043 CCCAGTGCCAGTTTCTGATTT 58.758 47.619 0.00 0.00 32.44 2.17
2205 2244 2.629617 CCCAGTGCCAGTTTCTGATTTT 59.370 45.455 0.00 0.00 32.44 1.82
2206 2245 3.070015 CCCAGTGCCAGTTTCTGATTTTT 59.930 43.478 0.00 0.00 32.44 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
72 74 6.164176 ACGAAAACAGACCTTACTTATCAGG 58.836 40.000 0.00 0.00 36.10 3.86
95 97 5.259832 ACCGCTATCTTCTACCTGTAAAC 57.740 43.478 0.00 0.00 0.00 2.01
116 118 6.426937 TCTTTGCACATACCTTCAAACTCTAC 59.573 38.462 0.00 0.00 0.00 2.59
117 119 6.530120 TCTTTGCACATACCTTCAAACTCTA 58.470 36.000 0.00 0.00 0.00 2.43
161 163 2.250939 CCCAACAGCTTTGTCGCGA 61.251 57.895 3.71 3.71 34.40 5.87
278 280 6.190587 CCTTTCCAATTACTCAAGGAGGAAT 58.809 40.000 0.00 0.00 44.25 3.01
280 282 4.018415 CCCTTTCCAATTACTCAAGGAGGA 60.018 45.833 0.00 0.00 36.84 3.71
281 283 4.273318 CCCTTTCCAATTACTCAAGGAGG 58.727 47.826 0.00 0.00 36.84 4.30
282 284 4.018415 TCCCCTTTCCAATTACTCAAGGAG 60.018 45.833 0.00 0.00 36.84 3.69
341 349 4.368315 TCTACATACATACAGGCAAAGCG 58.632 43.478 0.00 0.00 0.00 4.68
386 399 3.542648 GAATACTGCCCTGGTTTACTCC 58.457 50.000 0.00 0.00 0.00 3.85
398 411 7.761704 ACTCACAATATATCATCGAATACTGCC 59.238 37.037 0.00 0.00 0.00 4.85
460 473 3.677121 GCATACCTTCAGATGCTCATACG 59.323 47.826 0.00 0.00 44.15 3.06
462 475 4.262765 CCTGCATACCTTCAGATGCTCATA 60.263 45.833 8.20 0.00 46.98 2.15
696 712 6.496338 AATCGATTCCCACTACTTTTGAAC 57.504 37.500 4.39 0.00 0.00 3.18
705 721 7.553881 GATTTCAGAAAATCGATTCCCACTA 57.446 36.000 11.83 0.00 40.91 2.74
727 743 2.587307 AGGGAAATAGCCAACCAAGGAT 59.413 45.455 0.00 0.00 0.00 3.24
738 754 4.144297 TGTTGCATGGATAGGGAAATAGC 58.856 43.478 0.00 0.00 0.00 2.97
841 857 7.041712 TGTTCATGTTATCTTGTCGTTTTGCTA 60.042 33.333 0.00 0.00 0.00 3.49
843 859 5.912396 TGTTCATGTTATCTTGTCGTTTTGC 59.088 36.000 0.00 0.00 0.00 3.68
859 875 3.958798 ACCCTAGCTATACGTGTTCATGT 59.041 43.478 0.00 3.20 0.00 3.21
896 913 5.090652 TGAATCTTCAAAACGGAAAGACG 57.909 39.130 0.00 0.00 35.48 4.18
1000 1024 2.507944 GATCACCTCTGCGCCCAT 59.492 61.111 4.18 0.00 0.00 4.00
1056 1081 1.538047 AGTACGCCTCCGAGTTGTTA 58.462 50.000 0.00 0.00 38.29 2.41
1072 1097 2.695359 GTCGGGATTCACAGCAAAGTA 58.305 47.619 0.00 0.00 0.00 2.24
1101 1126 5.698741 TCACCTGGATAATCATCTGTGTT 57.301 39.130 0.00 0.00 32.20 3.32
1114 1139 1.748244 CGGCATCACAATCACCTGGAT 60.748 52.381 0.00 0.00 38.05 3.41
1199 1224 0.819259 GCAACCTCAAGACAGTGGCA 60.819 55.000 0.00 0.00 30.45 4.92
1245 1271 2.032681 ACCTTGGCAACCTCGAGC 59.967 61.111 6.99 0.00 0.00 5.03
1312 1338 1.086696 CTAGCATTCCACCACCAACG 58.913 55.000 0.00 0.00 0.00 4.10
1350 1376 0.463654 ACATGCACACAACCGTCACT 60.464 50.000 0.00 0.00 0.00 3.41
1486 1514 6.877236 ACAATATTCATGGATGGGAAACAAC 58.123 36.000 0.00 0.00 0.00 3.32
1607 1643 8.473358 TTCTAAGTACTAGTAGCATGCCATTA 57.527 34.615 15.66 0.34 0.00 1.90
1752 1788 6.363577 TGTTTCTTTATAGCAGTAGCATGC 57.636 37.500 10.51 10.51 46.88 4.06
1754 1790 6.456988 GCGTTGTTTCTTTATAGCAGTAGCAT 60.457 38.462 0.00 0.00 45.49 3.79
1770 1809 4.483311 AGCACTACTAGTAGCGTTGTTTC 58.517 43.478 26.54 6.39 36.66 2.78
1773 1812 4.516365 AAAGCACTACTAGTAGCGTTGT 57.484 40.909 26.54 10.36 36.66 3.32
1805 1844 1.142688 AAGACAATGCCCCTCCACCT 61.143 55.000 0.00 0.00 0.00 4.00
1807 1846 0.038166 TGAAGACAATGCCCCTCCAC 59.962 55.000 0.00 0.00 0.00 4.02
1808 1847 1.002069 ATGAAGACAATGCCCCTCCA 58.998 50.000 0.00 0.00 0.00 3.86
1810 1849 1.685148 GGATGAAGACAATGCCCCTC 58.315 55.000 0.00 0.00 0.00 4.30
1811 1850 0.107017 CGGATGAAGACAATGCCCCT 60.107 55.000 0.00 0.00 0.00 4.79
1812 1851 0.107214 TCGGATGAAGACAATGCCCC 60.107 55.000 0.00 0.00 0.00 5.80
1813 1852 1.303309 CTCGGATGAAGACAATGCCC 58.697 55.000 0.00 0.00 0.00 5.36
1814 1853 0.659957 GCTCGGATGAAGACAATGCC 59.340 55.000 0.00 0.00 0.00 4.40
1815 1854 1.596727 GAGCTCGGATGAAGACAATGC 59.403 52.381 0.00 0.00 0.00 3.56
1816 1855 1.857217 CGAGCTCGGATGAAGACAATG 59.143 52.381 28.40 0.00 35.37 2.82
1817 1856 1.478510 ACGAGCTCGGATGAAGACAAT 59.521 47.619 36.93 11.25 44.95 2.71
1818 1857 0.888619 ACGAGCTCGGATGAAGACAA 59.111 50.000 36.93 0.00 44.95 3.18
1819 1858 0.171231 CACGAGCTCGGATGAAGACA 59.829 55.000 36.93 0.00 44.95 3.41
1820 1859 0.171455 ACACGAGCTCGGATGAAGAC 59.829 55.000 36.93 0.00 44.95 3.01
1821 1860 0.452184 GACACGAGCTCGGATGAAGA 59.548 55.000 36.93 0.00 44.95 2.87
1822 1861 0.453793 AGACACGAGCTCGGATGAAG 59.546 55.000 36.93 21.29 44.95 3.02
1823 1862 0.888619 AAGACACGAGCTCGGATGAA 59.111 50.000 36.93 0.00 44.95 2.57
1824 1863 0.452184 GAAGACACGAGCTCGGATGA 59.548 55.000 36.93 0.00 44.95 2.92
1825 1864 0.453793 AGAAGACACGAGCTCGGATG 59.546 55.000 36.93 28.68 44.95 3.51
1826 1865 0.453793 CAGAAGACACGAGCTCGGAT 59.546 55.000 36.93 25.49 44.95 4.18
1827 1866 0.889638 ACAGAAGACACGAGCTCGGA 60.890 55.000 36.93 0.00 44.95 4.55
1828 1867 0.039074 AACAGAAGACACGAGCTCGG 60.039 55.000 36.93 27.29 44.95 4.63
1829 1868 1.716581 GAAACAGAAGACACGAGCTCG 59.283 52.381 33.45 33.45 46.33 5.03
1830 1869 1.716581 CGAAACAGAAGACACGAGCTC 59.283 52.381 2.73 2.73 0.00 4.09
1831 1870 1.067212 ACGAAACAGAAGACACGAGCT 59.933 47.619 0.00 0.00 0.00 4.09
1832 1871 1.488527 ACGAAACAGAAGACACGAGC 58.511 50.000 0.00 0.00 0.00 5.03
1833 1872 3.113322 TGAACGAAACAGAAGACACGAG 58.887 45.455 0.00 0.00 0.00 4.18
1834 1873 3.153676 TGAACGAAACAGAAGACACGA 57.846 42.857 0.00 0.00 0.00 4.35
1835 1874 3.306166 ACTTGAACGAAACAGAAGACACG 59.694 43.478 0.00 0.00 0.00 4.49
1836 1875 4.859629 ACTTGAACGAAACAGAAGACAC 57.140 40.909 0.00 0.00 0.00 3.67
1837 1876 4.932799 TCAACTTGAACGAAACAGAAGACA 59.067 37.500 0.00 0.00 0.00 3.41
1838 1877 5.163893 TGTCAACTTGAACGAAACAGAAGAC 60.164 40.000 0.00 0.00 0.00 3.01
1839 1878 4.932799 TGTCAACTTGAACGAAACAGAAGA 59.067 37.500 0.00 0.00 0.00 2.87
1840 1879 5.216566 TGTCAACTTGAACGAAACAGAAG 57.783 39.130 0.00 0.00 0.00 2.85
1841 1880 5.584649 AGATGTCAACTTGAACGAAACAGAA 59.415 36.000 0.00 0.00 0.00 3.02
1842 1881 5.116180 AGATGTCAACTTGAACGAAACAGA 58.884 37.500 0.00 0.00 0.00 3.41
1843 1882 5.409643 AGATGTCAACTTGAACGAAACAG 57.590 39.130 0.00 0.00 0.00 3.16
1844 1883 5.568482 CAAGATGTCAACTTGAACGAAACA 58.432 37.500 15.79 0.00 44.92 2.83
1845 1884 4.437820 GCAAGATGTCAACTTGAACGAAAC 59.562 41.667 22.94 3.53 44.92 2.78
1846 1885 4.335315 AGCAAGATGTCAACTTGAACGAAA 59.665 37.500 22.94 0.00 44.92 3.46
1847 1886 3.876914 AGCAAGATGTCAACTTGAACGAA 59.123 39.130 22.94 0.00 44.92 3.85
1848 1887 3.466836 AGCAAGATGTCAACTTGAACGA 58.533 40.909 22.94 0.00 44.92 3.85
1849 1888 3.364366 GGAGCAAGATGTCAACTTGAACG 60.364 47.826 22.94 1.12 44.92 3.95
1850 1889 3.817647 AGGAGCAAGATGTCAACTTGAAC 59.182 43.478 22.94 15.43 44.92 3.18
1851 1890 4.067896 GAGGAGCAAGATGTCAACTTGAA 58.932 43.478 22.94 0.00 44.92 2.69
1852 1891 3.557898 GGAGGAGCAAGATGTCAACTTGA 60.558 47.826 22.94 0.00 44.92 3.02
1853 1892 2.746362 GGAGGAGCAAGATGTCAACTTG 59.254 50.000 16.36 16.36 44.92 3.16
1854 1893 2.641815 AGGAGGAGCAAGATGTCAACTT 59.358 45.455 0.00 0.00 0.00 2.66
1855 1894 2.235898 GAGGAGGAGCAAGATGTCAACT 59.764 50.000 0.00 0.00 0.00 3.16
1856 1895 2.626840 GAGGAGGAGCAAGATGTCAAC 58.373 52.381 0.00 0.00 0.00 3.18
1857 1896 1.556911 GGAGGAGGAGCAAGATGTCAA 59.443 52.381 0.00 0.00 0.00 3.18
1858 1897 1.198713 GGAGGAGGAGCAAGATGTCA 58.801 55.000 0.00 0.00 0.00 3.58
1859 1898 0.103937 CGGAGGAGGAGCAAGATGTC 59.896 60.000 0.00 0.00 0.00 3.06
1860 1899 0.616111 ACGGAGGAGGAGCAAGATGT 60.616 55.000 0.00 0.00 0.00 3.06
1861 1900 0.179089 CACGGAGGAGGAGCAAGATG 60.179 60.000 0.00 0.00 0.00 2.90
1862 1901 1.333636 CCACGGAGGAGGAGCAAGAT 61.334 60.000 0.00 0.00 41.22 2.40
1863 1902 1.984570 CCACGGAGGAGGAGCAAGA 60.985 63.158 0.00 0.00 41.22 3.02
1864 1903 1.984570 TCCACGGAGGAGGAGCAAG 60.985 63.158 0.00 0.00 43.07 4.01
1865 1904 2.119611 TCCACGGAGGAGGAGCAA 59.880 61.111 0.00 0.00 43.07 3.91
1896 1935 4.615201 TCCAAGGATCTATGGGGGTATAGA 59.385 45.833 14.67 0.00 42.20 1.98
1897 1936 4.960332 TCCAAGGATCTATGGGGGTATAG 58.040 47.826 14.67 0.00 37.31 1.31
1898 1937 5.584864 ATCCAAGGATCTATGGGGGTATA 57.415 43.478 14.67 0.00 37.31 1.47
1899 1938 3.963525 TCCAAGGATCTATGGGGGTAT 57.036 47.619 14.67 0.00 37.31 2.73
1900 1939 3.963525 ATCCAAGGATCTATGGGGGTA 57.036 47.619 14.67 0.00 37.31 3.69
1901 1940 2.843909 ATCCAAGGATCTATGGGGGT 57.156 50.000 14.67 2.74 37.31 4.95
1902 1941 3.771216 CAAATCCAAGGATCTATGGGGG 58.229 50.000 14.67 0.28 37.31 5.40
1903 1942 3.160269 GCAAATCCAAGGATCTATGGGG 58.840 50.000 14.67 1.49 37.31 4.96
1904 1943 3.836146 TGCAAATCCAAGGATCTATGGG 58.164 45.455 14.67 2.27 37.31 4.00
1905 1944 4.646040 TGTTGCAAATCCAAGGATCTATGG 59.354 41.667 0.00 10.10 38.09 2.74
1906 1945 5.840243 TGTTGCAAATCCAAGGATCTATG 57.160 39.130 0.00 3.98 33.08 2.23
1907 1946 7.230108 CACTATGTTGCAAATCCAAGGATCTAT 59.770 37.037 0.00 0.00 33.08 1.98
1908 1947 6.543465 CACTATGTTGCAAATCCAAGGATCTA 59.457 38.462 0.00 0.00 33.08 1.98
1909 1948 5.359009 CACTATGTTGCAAATCCAAGGATCT 59.641 40.000 0.00 0.00 33.08 2.75
1910 1949 5.126061 ACACTATGTTGCAAATCCAAGGATC 59.874 40.000 0.00 0.00 33.08 3.36
1911 1950 5.018809 ACACTATGTTGCAAATCCAAGGAT 58.981 37.500 0.00 0.00 36.23 3.24
1912 1951 4.406456 ACACTATGTTGCAAATCCAAGGA 58.594 39.130 0.00 0.00 0.00 3.36
1913 1952 4.218200 TGACACTATGTTGCAAATCCAAGG 59.782 41.667 0.00 0.00 0.00 3.61
1914 1953 5.375417 TGACACTATGTTGCAAATCCAAG 57.625 39.130 0.00 0.00 0.00 3.61
1915 1954 5.981088 ATGACACTATGTTGCAAATCCAA 57.019 34.783 0.00 0.00 0.00 3.53
1916 1955 5.942826 TGTATGACACTATGTTGCAAATCCA 59.057 36.000 0.00 0.00 0.00 3.41
1917 1956 6.435430 TGTATGACACTATGTTGCAAATCC 57.565 37.500 0.00 0.00 0.00 3.01
1918 1957 7.008628 GCTTTGTATGACACTATGTTGCAAATC 59.991 37.037 0.00 0.00 0.00 2.17
1919 1958 6.808212 GCTTTGTATGACACTATGTTGCAAAT 59.192 34.615 0.00 0.00 0.00 2.32
1920 1959 6.016360 AGCTTTGTATGACACTATGTTGCAAA 60.016 34.615 0.00 0.00 0.00 3.68
1921 1960 5.473162 AGCTTTGTATGACACTATGTTGCAA 59.527 36.000 0.00 0.00 0.00 4.08
1922 1961 5.003160 AGCTTTGTATGACACTATGTTGCA 58.997 37.500 0.00 0.00 0.00 4.08
1923 1962 5.352569 AGAGCTTTGTATGACACTATGTTGC 59.647 40.000 0.00 0.00 0.00 4.17
1924 1963 6.036517 GGAGAGCTTTGTATGACACTATGTTG 59.963 42.308 0.00 0.00 0.00 3.33
1925 1964 6.109359 GGAGAGCTTTGTATGACACTATGTT 58.891 40.000 0.00 0.00 0.00 2.71
1926 1965 5.395768 GGGAGAGCTTTGTATGACACTATGT 60.396 44.000 0.00 0.00 0.00 2.29
1927 1966 5.053145 GGGAGAGCTTTGTATGACACTATG 58.947 45.833 0.00 0.00 0.00 2.23
1928 1967 4.101741 GGGGAGAGCTTTGTATGACACTAT 59.898 45.833 0.00 0.00 0.00 2.12
1929 1968 3.451178 GGGGAGAGCTTTGTATGACACTA 59.549 47.826 0.00 0.00 0.00 2.74
1930 1969 2.237392 GGGGAGAGCTTTGTATGACACT 59.763 50.000 0.00 0.00 0.00 3.55
1931 1970 2.027192 TGGGGAGAGCTTTGTATGACAC 60.027 50.000 0.00 0.00 0.00 3.67
1932 1971 2.265367 TGGGGAGAGCTTTGTATGACA 58.735 47.619 0.00 0.00 0.00 3.58
1933 1972 3.135530 AGATGGGGAGAGCTTTGTATGAC 59.864 47.826 0.00 0.00 0.00 3.06
1934 1973 3.135348 CAGATGGGGAGAGCTTTGTATGA 59.865 47.826 0.00 0.00 0.00 2.15
1935 1974 3.135348 TCAGATGGGGAGAGCTTTGTATG 59.865 47.826 0.00 0.00 0.00 2.39
1936 1975 3.387962 TCAGATGGGGAGAGCTTTGTAT 58.612 45.455 0.00 0.00 0.00 2.29
1937 1976 2.768527 CTCAGATGGGGAGAGCTTTGTA 59.231 50.000 0.00 0.00 34.24 2.41
1938 1977 1.558756 CTCAGATGGGGAGAGCTTTGT 59.441 52.381 0.00 0.00 34.24 2.83
1939 1978 1.558756 ACTCAGATGGGGAGAGCTTTG 59.441 52.381 0.00 0.00 36.26 2.77
1940 1979 1.836802 GACTCAGATGGGGAGAGCTTT 59.163 52.381 0.00 0.00 36.26 3.51
1941 1980 1.008206 AGACTCAGATGGGGAGAGCTT 59.992 52.381 0.00 0.00 36.26 3.74
1942 1981 0.636101 AGACTCAGATGGGGAGAGCT 59.364 55.000 0.00 0.00 36.26 4.09
1943 1982 1.412343 GAAGACTCAGATGGGGAGAGC 59.588 57.143 0.00 0.00 36.26 4.09
1944 1983 2.744760 TGAAGACTCAGATGGGGAGAG 58.255 52.381 0.00 0.00 36.26 3.20
1945 1984 2.928036 TGAAGACTCAGATGGGGAGA 57.072 50.000 0.00 0.00 36.26 3.71
1955 1994 3.687125 AGGTATGTCGTCTGAAGACTCA 58.313 45.455 21.23 8.89 42.66 3.41
1956 1995 4.705337 AAGGTATGTCGTCTGAAGACTC 57.295 45.455 21.23 12.82 42.66 3.36
1957 1996 5.944599 TCTAAAGGTATGTCGTCTGAAGACT 59.055 40.000 21.23 11.40 42.66 3.24
1958 1997 6.192234 TCTAAAGGTATGTCGTCTGAAGAC 57.808 41.667 15.45 15.45 41.47 3.01
1959 1998 6.829298 AGATCTAAAGGTATGTCGTCTGAAGA 59.171 38.462 0.00 0.00 0.00 2.87
1960 1999 7.033530 AGATCTAAAGGTATGTCGTCTGAAG 57.966 40.000 0.00 0.00 0.00 3.02
1961 2000 7.013083 GGTAGATCTAAAGGTATGTCGTCTGAA 59.987 40.741 3.40 0.00 0.00 3.02
1962 2001 6.485984 GGTAGATCTAAAGGTATGTCGTCTGA 59.514 42.308 3.40 0.00 0.00 3.27
1963 2002 6.262496 TGGTAGATCTAAAGGTATGTCGTCTG 59.738 42.308 3.40 0.00 0.00 3.51
1964 2003 6.363065 TGGTAGATCTAAAGGTATGTCGTCT 58.637 40.000 3.40 0.00 0.00 4.18
1965 2004 6.630444 TGGTAGATCTAAAGGTATGTCGTC 57.370 41.667 3.40 0.00 0.00 4.20
1966 2005 7.414222 TTTGGTAGATCTAAAGGTATGTCGT 57.586 36.000 3.40 0.00 0.00 4.34
1967 2006 8.712285 TTTTTGGTAGATCTAAAGGTATGTCG 57.288 34.615 3.40 0.00 0.00 4.35
1990 2029 7.869429 CCTCTGTTCTTGTTTCATGCTATTTTT 59.131 33.333 0.00 0.00 0.00 1.94
1991 2030 7.231317 TCCTCTGTTCTTGTTTCATGCTATTTT 59.769 33.333 0.00 0.00 0.00 1.82
1992 2031 6.716628 TCCTCTGTTCTTGTTTCATGCTATTT 59.283 34.615 0.00 0.00 0.00 1.40
1993 2032 6.240894 TCCTCTGTTCTTGTTTCATGCTATT 58.759 36.000 0.00 0.00 0.00 1.73
1994 2033 5.809001 TCCTCTGTTCTTGTTTCATGCTAT 58.191 37.500 0.00 0.00 0.00 2.97
1995 2034 5.227569 TCCTCTGTTCTTGTTTCATGCTA 57.772 39.130 0.00 0.00 0.00 3.49
1996 2035 4.090761 TCCTCTGTTCTTGTTTCATGCT 57.909 40.909 0.00 0.00 0.00 3.79
1997 2036 6.690194 ATATCCTCTGTTCTTGTTTCATGC 57.310 37.500 0.00 0.00 0.00 4.06
1998 2037 8.186821 GGAAATATCCTCTGTTCTTGTTTCATG 58.813 37.037 0.00 0.00 42.93 3.07
1999 2038 7.066284 CGGAAATATCCTCTGTTCTTGTTTCAT 59.934 37.037 0.00 0.00 44.17 2.57
2000 2039 6.371548 CGGAAATATCCTCTGTTCTTGTTTCA 59.628 38.462 0.00 0.00 44.17 2.69
2001 2040 6.371825 ACGGAAATATCCTCTGTTCTTGTTTC 59.628 38.462 0.00 0.00 44.17 2.78
2002 2041 6.149474 CACGGAAATATCCTCTGTTCTTGTTT 59.851 38.462 0.00 0.00 44.17 2.83
2003 2042 5.643777 CACGGAAATATCCTCTGTTCTTGTT 59.356 40.000 0.00 0.00 44.17 2.83
2004 2043 5.046591 TCACGGAAATATCCTCTGTTCTTGT 60.047 40.000 0.00 0.00 44.17 3.16
2005 2044 5.419542 TCACGGAAATATCCTCTGTTCTTG 58.580 41.667 0.00 0.00 44.17 3.02
2006 2045 5.677319 TCACGGAAATATCCTCTGTTCTT 57.323 39.130 0.00 0.00 44.17 2.52
2007 2046 5.605534 CATCACGGAAATATCCTCTGTTCT 58.394 41.667 0.00 0.00 44.17 3.01
2008 2047 4.212214 GCATCACGGAAATATCCTCTGTTC 59.788 45.833 0.00 0.00 44.17 3.18
2009 2048 4.130118 GCATCACGGAAATATCCTCTGTT 58.870 43.478 0.00 0.00 44.17 3.16
2010 2049 3.733337 GCATCACGGAAATATCCTCTGT 58.267 45.455 0.00 0.00 44.17 3.41
2011 2050 2.733552 CGCATCACGGAAATATCCTCTG 59.266 50.000 0.00 0.00 44.17 3.35
2012 2051 3.032017 CGCATCACGGAAATATCCTCT 57.968 47.619 0.00 0.00 44.17 3.69
2024 2063 1.786575 CGTTTTGATCACCGCATCACG 60.787 52.381 0.00 0.00 43.15 4.35
2025 2064 1.196808 ACGTTTTGATCACCGCATCAC 59.803 47.619 0.00 0.00 32.28 3.06
2026 2065 1.463056 GACGTTTTGATCACCGCATCA 59.537 47.619 0.00 0.00 0.00 3.07
2027 2066 1.202031 GGACGTTTTGATCACCGCATC 60.202 52.381 0.00 0.00 0.00 3.91
2028 2067 0.802494 GGACGTTTTGATCACCGCAT 59.198 50.000 0.00 0.00 0.00 4.73
2029 2068 1.561717 CGGACGTTTTGATCACCGCA 61.562 55.000 7.18 0.00 34.36 5.69
2030 2069 1.131826 CGGACGTTTTGATCACCGC 59.868 57.895 7.18 2.23 34.36 5.68
2031 2070 1.632046 CCCGGACGTTTTGATCACCG 61.632 60.000 0.73 12.02 40.03 4.94
2032 2071 0.320946 TCCCGGACGTTTTGATCACC 60.321 55.000 0.73 0.00 0.00 4.02
2033 2072 1.076332 CTCCCGGACGTTTTGATCAC 58.924 55.000 0.73 0.00 0.00 3.06
2034 2073 0.682852 ACTCCCGGACGTTTTGATCA 59.317 50.000 0.73 0.00 0.00 2.92
2035 2074 2.660189 TACTCCCGGACGTTTTGATC 57.340 50.000 0.73 0.00 0.00 2.92
2036 2075 4.950205 ATATACTCCCGGACGTTTTGAT 57.050 40.909 0.73 0.00 0.00 2.57
2037 2076 4.160065 TCAATATACTCCCGGACGTTTTGA 59.840 41.667 0.73 7.25 0.00 2.69
2038 2077 4.435425 TCAATATACTCCCGGACGTTTTG 58.565 43.478 0.73 5.13 0.00 2.44
2039 2078 4.741321 TCAATATACTCCCGGACGTTTT 57.259 40.909 0.73 0.00 0.00 2.43
2040 2079 4.950205 ATCAATATACTCCCGGACGTTT 57.050 40.909 0.73 0.00 0.00 3.60
2041 2080 4.083110 CGTATCAATATACTCCCGGACGTT 60.083 45.833 0.73 0.00 36.58 3.99
2042 2081 3.438087 CGTATCAATATACTCCCGGACGT 59.562 47.826 0.73 1.09 36.58 4.34
2043 2082 3.438087 ACGTATCAATATACTCCCGGACG 59.562 47.826 0.73 1.82 36.58 4.79
2044 2083 4.699257 AGACGTATCAATATACTCCCGGAC 59.301 45.833 0.73 0.00 36.58 4.79
2045 2084 4.914983 AGACGTATCAATATACTCCCGGA 58.085 43.478 0.73 0.00 36.58 5.14
2046 2085 4.096081 GGAGACGTATCAATATACTCCCGG 59.904 50.000 12.92 0.00 36.58 5.73
2047 2086 4.698780 TGGAGACGTATCAATATACTCCCG 59.301 45.833 12.92 0.00 36.58 5.14
2048 2087 6.015688 TGTTGGAGACGTATCAATATACTCCC 60.016 42.308 12.92 0.00 36.58 4.30
2049 2088 6.978338 TGTTGGAGACGTATCAATATACTCC 58.022 40.000 12.92 9.63 36.58 3.85
2162 2201 2.580962 CCTCGGTTACTAGGGTAGTCC 58.419 57.143 0.00 0.00 40.14 3.85
2163 2202 2.580962 CCCTCGGTTACTAGGGTAGTC 58.419 57.143 12.98 0.00 46.45 2.59
2164 2203 2.744352 CCCTCGGTTACTAGGGTAGT 57.256 55.000 12.98 0.00 46.45 2.73
2169 2208 1.382146 TGGGCCCTCGGTTACTAGG 60.382 63.158 25.70 0.00 0.00 3.02
2170 2209 0.686769 ACTGGGCCCTCGGTTACTAG 60.687 60.000 25.70 11.12 0.00 2.57
2171 2210 0.974010 CACTGGGCCCTCGGTTACTA 60.974 60.000 25.70 0.00 0.00 1.82
2172 2211 2.122056 ACTGGGCCCTCGGTTACT 59.878 61.111 25.70 0.00 0.00 2.24
2173 2212 2.267961 CACTGGGCCCTCGGTTAC 59.732 66.667 25.70 0.00 0.00 2.50
2174 2213 3.712907 GCACTGGGCCCTCGGTTA 61.713 66.667 25.70 0.00 36.11 2.85
2183 2222 0.610232 ATCAGAAACTGGCACTGGGC 60.610 55.000 0.00 0.00 43.74 5.36
2184 2223 1.915141 AATCAGAAACTGGCACTGGG 58.085 50.000 3.37 0.00 33.19 4.45
2185 2224 4.326504 AAAAATCAGAAACTGGCACTGG 57.673 40.909 3.37 0.00 33.19 4.00


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

AutoCloner maintained by Alex Coulton.