Multiple sequence alignment - TraesCS5B01G138000

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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 TraesCS5B01G138000 chr5B 100.000 2213 0 0 1 2213 261355456 261357668 0.000000e+00 4087.0
1 TraesCS5B01G138000 chr5B 97.111 450 11 1 1764 2213 257834841 257834394 0.000000e+00 758.0
2 TraesCS5B01G138000 chr5B 96.222 450 15 1 1764 2213 258004802 258005249 0.000000e+00 736.0
3 TraesCS5B01G138000 chr2A 97.282 1766 41 5 1 1765 78753835 78755594 0.000000e+00 2988.0
4 TraesCS5B01G138000 chr2D 93.363 1778 82 9 17 1764 253815602 253813831 0.000000e+00 2597.0
5 TraesCS5B01G138000 chr2D 86.231 581 78 2 770 1349 356534595 356534016 1.440000e-176 628.0
6 TraesCS5B01G138000 chr5A 91.534 567 48 0 721 1287 52407237 52406671 0.000000e+00 782.0
7 TraesCS5B01G138000 chr5A 92.578 256 15 2 1509 1764 52406671 52406420 4.490000e-97 364.0
8 TraesCS5B01G138000 chr6D 88.326 651 54 9 1135 1765 386109370 386110018 0.000000e+00 761.0
9 TraesCS5B01G138000 chr6D 88.014 559 64 2 770 1327 76007439 76007995 0.000000e+00 658.0
10 TraesCS5B01G138000 chr6D 86.792 371 37 9 1837 2204 256573049 256573410 9.520000e-109 403.0
11 TraesCS5B01G138000 chr6D 94.340 53 3 0 1765 1817 299191331 299191279 5.060000e-12 82.4
12 TraesCS5B01G138000 chr1B 87.519 649 52 10 1135 1765 163739281 163739918 0.000000e+00 723.0
13 TraesCS5B01G138000 chr1B 87.599 379 40 5 1831 2204 184476603 184476227 1.210000e-117 433.0
14 TraesCS5B01G138000 chr1B 94.340 53 3 0 1765 1817 510799162 510799110 5.060000e-12 82.4
15 TraesCS5B01G138000 chr6B 87.270 652 55 10 1135 1767 637476648 637477290 0.000000e+00 719.0
16 TraesCS5B01G138000 chr6B 93.304 448 25 4 1764 2211 191962849 191963291 0.000000e+00 656.0
17 TraesCS5B01G138000 chr6B 92.086 139 8 3 4 140 707970541 707970678 2.240000e-45 193.0
18 TraesCS5B01G138000 chr6A 86.565 655 55 12 1135 1767 307677039 307676396 0.000000e+00 691.0
19 TraesCS5B01G138000 chr6A 100.000 29 0 0 1765 1793 534660779 534660751 1.000000e-03 54.7
20 TraesCS5B01G138000 chr7D 85.217 690 80 9 763 1435 379613459 379614143 0.000000e+00 689.0
21 TraesCS5B01G138000 chr7D 86.724 580 75 2 770 1348 118446679 118447257 0.000000e+00 643.0
22 TraesCS5B01G138000 chr4B 86.244 647 61 11 1135 1764 49943474 49944109 0.000000e+00 676.0
23 TraesCS5B01G138000 chr4B 85.379 383 33 9 408 771 53326565 53326943 2.070000e-100 375.0
24 TraesCS5B01G138000 chr4B 88.235 272 28 4 420 691 647662641 647662908 2.740000e-84 322.0
25 TraesCS5B01G138000 chr4B 90.714 140 12 1 1 140 53326404 53326542 3.750000e-43 185.0
26 TraesCS5B01G138000 chr4D 87.456 566 71 0 770 1335 443715005 443714440 0.000000e+00 652.0
27 TraesCS5B01G138000 chr3D 86.575 581 75 3 770 1349 455015364 455014786 2.400000e-179 638.0
28 TraesCS5B01G138000 chr7B 86.472 377 34 8 408 771 253593681 253593309 4.430000e-107 398.0
29 TraesCS5B01G138000 chr7B 90.714 140 12 1 1 140 253593842 253593704 3.750000e-43 185.0
30 TraesCS5B01G138000 chr4A 93.050 259 18 0 1506 1764 242512269 242512527 1.600000e-101 379.0
31 TraesCS5B01G138000 chr7A 86.207 116 8 5 33 140 629095433 629095318 3.860000e-23 119.0


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 TraesCS5B01G138000 chr5B 261355456 261357668 2212 False 4087.0 4087 100.0000 1 2213 1 chr5B.!!$F2 2212
1 TraesCS5B01G138000 chr2A 78753835 78755594 1759 False 2988.0 2988 97.2820 1 1765 1 chr2A.!!$F1 1764
2 TraesCS5B01G138000 chr2D 253813831 253815602 1771 True 2597.0 2597 93.3630 17 1764 1 chr2D.!!$R1 1747
3 TraesCS5B01G138000 chr2D 356534016 356534595 579 True 628.0 628 86.2310 770 1349 1 chr2D.!!$R2 579
4 TraesCS5B01G138000 chr5A 52406420 52407237 817 True 573.0 782 92.0560 721 1764 2 chr5A.!!$R1 1043
5 TraesCS5B01G138000 chr6D 386109370 386110018 648 False 761.0 761 88.3260 1135 1765 1 chr6D.!!$F3 630
6 TraesCS5B01G138000 chr6D 76007439 76007995 556 False 658.0 658 88.0140 770 1327 1 chr6D.!!$F1 557
7 TraesCS5B01G138000 chr1B 163739281 163739918 637 False 723.0 723 87.5190 1135 1765 1 chr1B.!!$F1 630
8 TraesCS5B01G138000 chr6B 637476648 637477290 642 False 719.0 719 87.2700 1135 1767 1 chr6B.!!$F2 632
9 TraesCS5B01G138000 chr6A 307676396 307677039 643 True 691.0 691 86.5650 1135 1767 1 chr6A.!!$R1 632
10 TraesCS5B01G138000 chr7D 379613459 379614143 684 False 689.0 689 85.2170 763 1435 1 chr7D.!!$F2 672
11 TraesCS5B01G138000 chr7D 118446679 118447257 578 False 643.0 643 86.7240 770 1348 1 chr7D.!!$F1 578
12 TraesCS5B01G138000 chr4B 49943474 49944109 635 False 676.0 676 86.2440 1135 1764 1 chr4B.!!$F1 629
13 TraesCS5B01G138000 chr4B 53326404 53326943 539 False 280.0 375 88.0465 1 771 2 chr4B.!!$F3 770
14 TraesCS5B01G138000 chr4D 443714440 443715005 565 True 652.0 652 87.4560 770 1335 1 chr4D.!!$R1 565
15 TraesCS5B01G138000 chr3D 455014786 455015364 578 True 638.0 638 86.5750 770 1349 1 chr3D.!!$R1 579
16 TraesCS5B01G138000 chr7B 253593309 253593842 533 True 291.5 398 88.5930 1 771 2 chr7B.!!$R1 770

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
732 749 2.679355 TTTGTTTTCATCGAGGCACG 57.321 45.0 0.0 0.0 44.09 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1962 2015 0.107848 ATAGCAAGGACCCGGTTTCG 60.108 55.0 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
732 749 2.679355 TTTGTTTTCATCGAGGCACG 57.321 45.000 0.00 0.00 44.09 5.34
800 824 3.005554 AGACTGCAAAAGATCATCCACG 58.994 45.455 0.00 0.00 0.00 4.94
864 888 4.449068 AGAAACATTTGCTACAGACGACAG 59.551 41.667 0.00 0.00 0.00 3.51
1157 1182 4.574674 TGGAGAAAGGTCAAGCATATGT 57.425 40.909 4.29 0.00 0.00 2.29
1189 1214 1.915141 ATGCACTTTCAAGGGACTGG 58.085 50.000 0.00 0.00 40.86 4.00
1337 1368 6.071784 AAGATCATCTTGTGCATTTAACTGCA 60.072 34.615 15.75 15.75 41.47 4.41
1381 1428 5.713025 TGAAATGGCTATGCTGAAAGAAAC 58.287 37.500 0.00 0.00 34.07 2.78
1767 1820 3.454375 CGCAACGGGTCATCTAGTAAAT 58.546 45.455 0.00 0.00 0.00 1.40
1768 1821 4.613944 CGCAACGGGTCATCTAGTAAATA 58.386 43.478 0.00 0.00 0.00 1.40
1769 1822 5.227908 CGCAACGGGTCATCTAGTAAATAT 58.772 41.667 0.00 0.00 0.00 1.28
1770 1823 6.384224 CGCAACGGGTCATCTAGTAAATATA 58.616 40.000 0.00 0.00 0.00 0.86
1771 1824 6.864685 CGCAACGGGTCATCTAGTAAATATAA 59.135 38.462 0.00 0.00 0.00 0.98
1772 1825 7.061905 CGCAACGGGTCATCTAGTAAATATAAG 59.938 40.741 0.00 0.00 0.00 1.73
1773 1826 8.086522 GCAACGGGTCATCTAGTAAATATAAGA 58.913 37.037 0.00 0.00 0.00 2.10
1774 1827 9.627395 CAACGGGTCATCTAGTAAATATAAGAG 57.373 37.037 0.00 0.00 0.00 2.85
1775 1828 7.828712 ACGGGTCATCTAGTAAATATAAGAGC 58.171 38.462 0.00 0.00 0.00 4.09
1776 1829 7.450634 ACGGGTCATCTAGTAAATATAAGAGCA 59.549 37.037 0.00 0.00 0.00 4.26
1777 1830 7.755822 CGGGTCATCTAGTAAATATAAGAGCAC 59.244 40.741 0.00 0.00 0.00 4.40
1778 1831 8.808092 GGGTCATCTAGTAAATATAAGAGCACT 58.192 37.037 0.00 0.00 0.00 4.40
1794 1847 5.971763 AGAGCACTTAGATCACTAAAGTGG 58.028 41.667 21.53 10.79 45.65 4.00
1795 1848 5.482175 AGAGCACTTAGATCACTAAAGTGGT 59.518 40.000 23.22 23.22 45.65 4.16
1796 1849 6.014156 AGAGCACTTAGATCACTAAAGTGGTT 60.014 38.462 23.55 15.84 45.65 3.67
1797 1850 7.178628 AGAGCACTTAGATCACTAAAGTGGTTA 59.821 37.037 23.55 0.00 45.65 2.85
1798 1851 7.852263 AGCACTTAGATCACTAAAGTGGTTAT 58.148 34.615 20.05 0.00 45.65 1.89
1799 1852 7.766278 AGCACTTAGATCACTAAAGTGGTTATG 59.234 37.037 20.05 5.84 45.65 1.90
1800 1853 7.549488 GCACTTAGATCACTAAAGTGGTTATGT 59.451 37.037 21.53 6.33 45.65 2.29
1805 1858 8.475331 AGATCACTAAAGTGGTTATGTAAACG 57.525 34.615 10.11 0.00 45.65 3.60
1806 1859 6.470557 TCACTAAAGTGGTTATGTAAACGC 57.529 37.500 10.11 0.00 45.65 4.84
1807 1860 6.225318 TCACTAAAGTGGTTATGTAAACGCT 58.775 36.000 10.11 0.00 44.90 5.07
1808 1861 6.366877 TCACTAAAGTGGTTATGTAAACGCTC 59.633 38.462 10.11 0.00 42.42 5.03
1809 1862 6.367969 CACTAAAGTGGTTATGTAAACGCTCT 59.632 38.462 4.51 0.00 42.42 4.09
1810 1863 6.932960 ACTAAAGTGGTTATGTAAACGCTCTT 59.067 34.615 4.51 4.86 42.42 2.85
1811 1864 8.090214 ACTAAAGTGGTTATGTAAACGCTCTTA 58.910 33.333 4.51 5.56 42.42 2.10
1812 1865 7.916914 AAAGTGGTTATGTAAACGCTCTTAT 57.083 32.000 4.51 0.00 42.42 1.73
1814 1867 9.609346 AAAGTGGTTATGTAAACGCTCTTATAT 57.391 29.630 4.51 0.00 42.42 0.86
1815 1868 9.609346 AAGTGGTTATGTAAACGCTCTTATATT 57.391 29.630 4.51 0.00 42.42 1.28
1816 1869 9.609346 AGTGGTTATGTAAACGCTCTTATATTT 57.391 29.630 0.00 0.00 39.34 1.40
1848 1901 7.809546 TGTACAGAGAGAGTACTATCCATTG 57.190 40.000 13.82 11.74 41.76 2.82
1849 1902 6.773200 TGTACAGAGAGAGTACTATCCATTGG 59.227 42.308 13.82 0.00 41.76 3.16
1850 1903 6.019656 ACAGAGAGAGTACTATCCATTGGA 57.980 41.667 13.82 8.08 35.25 3.53
1851 1904 6.619464 ACAGAGAGAGTACTATCCATTGGAT 58.381 40.000 21.53 21.53 45.40 3.41
1852 1905 6.493115 ACAGAGAGAGTACTATCCATTGGATG 59.507 42.308 25.47 17.58 43.06 3.51
1853 1906 6.493115 CAGAGAGAGTACTATCCATTGGATGT 59.507 42.308 25.47 21.40 43.06 3.06
1854 1907 6.719370 AGAGAGAGTACTATCCATTGGATGTC 59.281 42.308 25.47 14.32 43.06 3.06
1855 1908 6.377080 AGAGAGTACTATCCATTGGATGTCA 58.623 40.000 25.47 7.38 43.06 3.58
1856 1909 6.841229 AGAGAGTACTATCCATTGGATGTCAA 59.159 38.462 25.47 7.03 43.06 3.18
1857 1910 7.345653 AGAGAGTACTATCCATTGGATGTCAAA 59.654 37.037 25.47 6.68 43.06 2.69
1858 1911 7.275920 AGAGTACTATCCATTGGATGTCAAAC 58.724 38.462 25.47 15.92 43.06 2.93
1859 1912 7.126421 AGAGTACTATCCATTGGATGTCAAACT 59.874 37.037 25.47 19.43 43.06 2.66
1860 1913 7.050377 AGTACTATCCATTGGATGTCAAACTG 58.950 38.462 25.47 9.32 43.06 3.16
1861 1914 6.065976 ACTATCCATTGGATGTCAAACTGA 57.934 37.500 25.47 3.94 43.06 3.41
1862 1915 6.666678 ACTATCCATTGGATGTCAAACTGAT 58.333 36.000 25.47 0.70 43.06 2.90
1863 1916 5.847111 ATCCATTGGATGTCAAACTGATG 57.153 39.130 17.52 0.00 41.43 3.07
1864 1917 4.920999 TCCATTGGATGTCAAACTGATGA 58.079 39.130 0.00 0.00 39.05 2.92
1865 1918 5.323581 TCCATTGGATGTCAAACTGATGAA 58.676 37.500 0.00 0.00 39.05 2.57
1866 1919 5.416639 TCCATTGGATGTCAAACTGATGAAG 59.583 40.000 0.00 0.00 39.05 3.02
1867 1920 5.184479 CCATTGGATGTCAAACTGATGAAGT 59.816 40.000 0.00 0.00 42.60 3.01
1868 1921 5.694231 TTGGATGTCAAACTGATGAAGTG 57.306 39.130 0.00 0.00 39.81 3.16
1869 1922 4.971939 TGGATGTCAAACTGATGAAGTGA 58.028 39.130 0.00 0.00 39.81 3.41
1870 1923 5.563592 TGGATGTCAAACTGATGAAGTGAT 58.436 37.500 0.00 0.00 39.81 3.06
1871 1924 5.645067 TGGATGTCAAACTGATGAAGTGATC 59.355 40.000 0.00 0.00 39.81 2.92
1872 1925 5.645067 GGATGTCAAACTGATGAAGTGATCA 59.355 40.000 0.00 0.00 43.67 2.92
1873 1926 5.929697 TGTCAAACTGATGAAGTGATCAC 57.070 39.130 18.47 18.47 41.93 3.06
1874 1927 5.614308 TGTCAAACTGATGAAGTGATCACT 58.386 37.500 22.89 22.89 41.93 3.41
1875 1928 5.467735 TGTCAAACTGATGAAGTGATCACTG 59.532 40.000 28.52 16.81 41.93 3.66
1876 1929 4.999311 TCAAACTGATGAAGTGATCACTGG 59.001 41.667 28.52 15.71 41.93 4.00
1877 1930 3.623906 ACTGATGAAGTGATCACTGGG 57.376 47.619 28.52 16.02 41.93 4.45
1878 1931 2.909006 ACTGATGAAGTGATCACTGGGT 59.091 45.455 28.52 16.61 41.93 4.51
1879 1932 3.268330 CTGATGAAGTGATCACTGGGTG 58.732 50.000 28.52 12.97 41.93 4.61
1880 1933 2.905736 TGATGAAGTGATCACTGGGTGA 59.094 45.455 28.52 8.40 46.90 4.02
1881 1934 8.217949 AACTGATGAAGTGATCACTGGGTGAT 62.218 42.308 28.52 13.03 46.44 3.06
1890 1943 2.269023 TCACTGGGTGATGGATCAAGT 58.731 47.619 0.00 0.00 37.67 3.16
1891 1944 3.449918 TCACTGGGTGATGGATCAAGTA 58.550 45.455 0.00 0.00 37.67 2.24
1892 1945 4.040047 TCACTGGGTGATGGATCAAGTAT 58.960 43.478 0.00 0.00 37.67 2.12
1893 1946 5.215845 TCACTGGGTGATGGATCAAGTATA 58.784 41.667 0.00 0.00 37.67 1.47
1894 1947 5.070446 TCACTGGGTGATGGATCAAGTATAC 59.930 44.000 0.00 0.00 37.67 1.47
1895 1948 5.070981 CACTGGGTGATGGATCAAGTATACT 59.929 44.000 0.00 0.00 38.75 2.12
1896 1949 5.667626 ACTGGGTGATGGATCAAGTATACTT 59.332 40.000 12.50 12.50 38.75 2.24
1897 1950 8.380052 CACTGGGTGATGGATCAAGTATACTTG 61.380 44.444 31.44 31.44 43.92 3.16
1968 2021 9.706691 TCTAGATTGATTAATATGACCGAAACC 57.293 33.333 0.00 0.00 0.00 3.27
1969 2022 7.421530 AGATTGATTAATATGACCGAAACCG 57.578 36.000 0.00 0.00 0.00 4.44
1978 2031 3.053896 CCGAAACCGGGTCCTTGC 61.054 66.667 6.32 0.00 43.22 4.01
1979 2032 2.032071 CGAAACCGGGTCCTTGCT 59.968 61.111 6.32 0.00 0.00 3.91
1980 2033 1.294138 CGAAACCGGGTCCTTGCTA 59.706 57.895 6.32 0.00 0.00 3.49
1981 2034 0.107848 CGAAACCGGGTCCTTGCTAT 60.108 55.000 6.32 0.00 0.00 2.97
1982 2035 1.137479 CGAAACCGGGTCCTTGCTATA 59.863 52.381 6.32 0.00 0.00 1.31
1983 2036 2.558378 GAAACCGGGTCCTTGCTATAC 58.442 52.381 6.32 0.00 0.00 1.47
1984 2037 1.875488 AACCGGGTCCTTGCTATACT 58.125 50.000 6.32 0.00 0.00 2.12
1985 2038 1.875488 ACCGGGTCCTTGCTATACTT 58.125 50.000 6.32 0.00 0.00 2.24
1986 2039 1.761198 ACCGGGTCCTTGCTATACTTC 59.239 52.381 6.32 0.00 0.00 3.01
1987 2040 2.040178 CCGGGTCCTTGCTATACTTCT 58.960 52.381 0.00 0.00 0.00 2.85
1988 2041 2.224066 CCGGGTCCTTGCTATACTTCTG 60.224 54.545 0.00 0.00 0.00 3.02
1989 2042 2.431057 CGGGTCCTTGCTATACTTCTGT 59.569 50.000 0.00 0.00 0.00 3.41
1990 2043 3.118738 CGGGTCCTTGCTATACTTCTGTT 60.119 47.826 0.00 0.00 0.00 3.16
1991 2044 4.623171 CGGGTCCTTGCTATACTTCTGTTT 60.623 45.833 0.00 0.00 0.00 2.83
1992 2045 5.394883 CGGGTCCTTGCTATACTTCTGTTTA 60.395 44.000 0.00 0.00 0.00 2.01
1993 2046 6.049790 GGGTCCTTGCTATACTTCTGTTTAG 58.950 44.000 0.00 0.00 33.01 1.85
1994 2047 6.351966 GGGTCCTTGCTATACTTCTGTTTAGT 60.352 42.308 0.00 0.00 32.64 2.24
1995 2048 7.147776 GGGTCCTTGCTATACTTCTGTTTAGTA 60.148 40.741 0.00 0.00 32.64 1.82
1996 2049 8.255905 GGTCCTTGCTATACTTCTGTTTAGTAA 58.744 37.037 0.00 0.00 33.86 2.24
1997 2050 9.649167 GTCCTTGCTATACTTCTGTTTAGTAAA 57.351 33.333 0.00 0.00 34.27 2.01
2034 2087 2.641197 GTTGGCAACCAATCTCCGT 58.359 52.632 19.57 0.00 45.80 4.69
2035 2088 0.521735 GTTGGCAACCAATCTCCGTC 59.478 55.000 19.57 0.00 45.80 4.79
2036 2089 0.953471 TTGGCAACCAATCTCCGTCG 60.953 55.000 0.00 0.00 38.75 5.12
2037 2090 1.079405 GGCAACCAATCTCCGTCGA 60.079 57.895 0.00 0.00 0.00 4.20
2038 2091 0.462047 GGCAACCAATCTCCGTCGAT 60.462 55.000 0.00 0.00 0.00 3.59
2039 2092 0.931005 GCAACCAATCTCCGTCGATC 59.069 55.000 0.00 0.00 0.00 3.69
2040 2093 1.739035 GCAACCAATCTCCGTCGATCA 60.739 52.381 0.00 0.00 0.00 2.92
2041 2094 1.927174 CAACCAATCTCCGTCGATCAC 59.073 52.381 0.00 0.00 0.00 3.06
2042 2095 0.460311 ACCAATCTCCGTCGATCACC 59.540 55.000 0.00 0.00 0.00 4.02
2043 2096 0.747255 CCAATCTCCGTCGATCACCT 59.253 55.000 0.00 0.00 0.00 4.00
2044 2097 1.137086 CCAATCTCCGTCGATCACCTT 59.863 52.381 0.00 0.00 0.00 3.50
2045 2098 2.196749 CAATCTCCGTCGATCACCTTG 58.803 52.381 0.00 0.00 0.00 3.61
2046 2099 1.763968 ATCTCCGTCGATCACCTTGA 58.236 50.000 0.00 0.00 0.00 3.02
2047 2100 1.763968 TCTCCGTCGATCACCTTGAT 58.236 50.000 0.00 0.00 40.34 2.57
2048 2101 2.100197 TCTCCGTCGATCACCTTGATT 58.900 47.619 0.00 0.00 37.20 2.57
2049 2102 2.159240 TCTCCGTCGATCACCTTGATTG 60.159 50.000 0.00 0.00 37.20 2.67
2050 2103 1.548719 TCCGTCGATCACCTTGATTGT 59.451 47.619 0.00 0.00 37.20 2.71
2051 2104 1.927174 CCGTCGATCACCTTGATTGTC 59.073 52.381 0.00 0.00 37.20 3.18
2052 2105 1.583856 CGTCGATCACCTTGATTGTCG 59.416 52.381 8.11 8.11 41.01 4.35
2053 2106 2.731027 CGTCGATCACCTTGATTGTCGA 60.731 50.000 14.22 6.71 45.81 4.20
2054 2107 3.250744 GTCGATCACCTTGATTGTCGAA 58.749 45.455 2.78 0.00 37.20 3.71
2055 2108 3.865745 GTCGATCACCTTGATTGTCGAAT 59.134 43.478 2.78 0.00 37.20 3.34
2056 2109 4.330074 GTCGATCACCTTGATTGTCGAATT 59.670 41.667 2.78 0.00 37.20 2.17
2057 2110 4.329801 TCGATCACCTTGATTGTCGAATTG 59.670 41.667 3.80 0.00 37.20 2.32
2058 2111 4.329801 CGATCACCTTGATTGTCGAATTGA 59.670 41.667 0.00 0.00 37.20 2.57
2059 2112 5.551760 ATCACCTTGATTGTCGAATTGAC 57.448 39.130 0.00 0.00 37.64 3.18
2060 2113 5.248640 ATCACCTTGATTGTCGAATTGACT 58.751 37.500 1.95 0.00 38.03 3.41
2061 2114 5.352569 ATCACCTTGATTGTCGAATTGACTC 59.647 40.000 1.95 0.00 38.03 3.36
2062 2115 7.568325 ATCACCTTGATTGTCGAATTGACTCC 61.568 42.308 1.95 0.00 38.03 3.85
2063 2116 9.635155 ATCACCTTGATTGTCGAATTGACTCCT 62.635 40.741 1.95 0.00 38.03 3.69
2072 2125 6.154451 GTCGAATTGACTCCTTTTAGTGAC 57.846 41.667 0.00 0.00 44.58 3.67
2073 2126 5.120363 GTCGAATTGACTCCTTTTAGTGACC 59.880 44.000 0.00 0.00 44.58 4.02
2074 2127 4.091509 CGAATTGACTCCTTTTAGTGACCG 59.908 45.833 0.00 0.00 0.00 4.79
2075 2128 2.450609 TGACTCCTTTTAGTGACCGC 57.549 50.000 0.00 0.00 0.00 5.68
2076 2129 1.968493 TGACTCCTTTTAGTGACCGCT 59.032 47.619 0.00 0.00 0.00 5.52
2077 2130 2.029290 TGACTCCTTTTAGTGACCGCTC 60.029 50.000 0.00 0.00 0.00 5.03
2078 2131 1.275573 ACTCCTTTTAGTGACCGCTCC 59.724 52.381 0.00 0.00 0.00 4.70
2079 2132 1.275291 CTCCTTTTAGTGACCGCTCCA 59.725 52.381 0.00 0.00 0.00 3.86
2080 2133 1.001633 TCCTTTTAGTGACCGCTCCAC 59.998 52.381 0.00 0.00 34.89 4.02
2081 2134 1.439679 CTTTTAGTGACCGCTCCACC 58.560 55.000 0.00 0.00 35.23 4.61
2082 2135 1.002087 CTTTTAGTGACCGCTCCACCT 59.998 52.381 0.00 0.00 35.23 4.00
2083 2136 0.606604 TTTAGTGACCGCTCCACCTC 59.393 55.000 0.00 0.00 35.23 3.85
2084 2137 1.255667 TTAGTGACCGCTCCACCTCC 61.256 60.000 0.00 0.00 35.23 4.30
2085 2138 2.435120 TAGTGACCGCTCCACCTCCA 62.435 60.000 0.00 0.00 35.23 3.86
2086 2139 2.997315 TGACCGCTCCACCTCCAG 60.997 66.667 0.00 0.00 0.00 3.86
2087 2140 2.997897 GACCGCTCCACCTCCAGT 60.998 66.667 0.00 0.00 0.00 4.00
2088 2141 1.681327 GACCGCTCCACCTCCAGTA 60.681 63.158 0.00 0.00 0.00 2.74
2089 2142 1.668101 GACCGCTCCACCTCCAGTAG 61.668 65.000 0.00 0.00 0.00 2.57
2105 2158 7.841956 CCTCCAGTAGGTATTACCATCTTATG 58.158 42.308 15.19 4.98 41.95 1.90
2106 2159 7.674348 CCTCCAGTAGGTATTACCATCTTATGA 59.326 40.741 15.19 7.72 41.95 2.15
2107 2160 9.090103 CTCCAGTAGGTATTACCATCTTATGAA 57.910 37.037 15.19 0.00 41.95 2.57
2108 2161 8.867097 TCCAGTAGGTATTACCATCTTATGAAC 58.133 37.037 15.19 0.09 41.95 3.18
2109 2162 8.647796 CCAGTAGGTATTACCATCTTATGAACA 58.352 37.037 15.19 0.00 41.95 3.18
2129 2182 8.809159 TGAACAAAAGAAATTAATTCGCATGA 57.191 26.923 0.10 0.00 43.15 3.07
2130 2183 9.421806 TGAACAAAAGAAATTAATTCGCATGAT 57.578 25.926 0.10 0.00 43.15 2.45
2133 2186 9.421806 ACAAAAGAAATTAATTCGCATGATTCA 57.578 25.926 0.10 0.00 43.15 2.57
2137 2190 9.806203 AAGAAATTAATTCGCATGATTCATTGA 57.194 25.926 0.10 0.00 43.15 2.57
2138 2191 9.806203 AGAAATTAATTCGCATGATTCATTGAA 57.194 25.926 0.10 11.48 43.15 2.69
2141 2194 5.961395 AATTCGCATGATTCATTGAAAGC 57.039 34.783 12.59 5.07 0.00 3.51
2142 2195 3.425577 TCGCATGATTCATTGAAAGCC 57.574 42.857 2.68 0.00 0.00 4.35
2143 2196 2.754002 TCGCATGATTCATTGAAAGCCA 59.246 40.909 2.68 3.00 0.00 4.75
2144 2197 3.113322 CGCATGATTCATTGAAAGCCAG 58.887 45.455 2.68 0.00 0.00 4.85
2145 2198 3.181494 CGCATGATTCATTGAAAGCCAGA 60.181 43.478 2.68 0.00 0.00 3.86
2146 2199 4.499188 CGCATGATTCATTGAAAGCCAGAT 60.499 41.667 2.68 0.00 0.00 2.90
2147 2200 5.357257 GCATGATTCATTGAAAGCCAGATT 58.643 37.500 2.68 0.00 0.00 2.40
2148 2201 6.509656 GCATGATTCATTGAAAGCCAGATTA 58.490 36.000 2.68 0.00 0.00 1.75
2149 2202 6.982141 GCATGATTCATTGAAAGCCAGATTAA 59.018 34.615 2.68 0.00 0.00 1.40
2150 2203 7.656137 GCATGATTCATTGAAAGCCAGATTAAT 59.344 33.333 2.68 0.00 0.00 1.40
2151 2204 8.978539 CATGATTCATTGAAAGCCAGATTAATG 58.021 33.333 2.68 0.00 0.00 1.90
2152 2205 8.296211 TGATTCATTGAAAGCCAGATTAATGA 57.704 30.769 2.68 0.00 34.00 2.57
2153 2206 8.751242 TGATTCATTGAAAGCCAGATTAATGAA 58.249 29.630 2.68 11.20 44.00 2.57
2154 2207 8.937634 ATTCATTGAAAGCCAGATTAATGAAC 57.062 30.769 11.07 0.00 43.22 3.18
2155 2208 7.707624 TCATTGAAAGCCAGATTAATGAACT 57.292 32.000 0.00 0.00 33.20 3.01
2156 2209 7.765307 TCATTGAAAGCCAGATTAATGAACTC 58.235 34.615 0.00 0.00 33.20 3.01
2157 2210 6.515272 TTGAAAGCCAGATTAATGAACTCC 57.485 37.500 0.00 0.00 0.00 3.85
2158 2211 4.949856 TGAAAGCCAGATTAATGAACTCCC 59.050 41.667 0.00 0.00 0.00 4.30
2159 2212 4.870021 AAGCCAGATTAATGAACTCCCT 57.130 40.909 0.00 0.00 0.00 4.20
2160 2213 4.870021 AGCCAGATTAATGAACTCCCTT 57.130 40.909 0.00 0.00 0.00 3.95
2161 2214 4.530875 AGCCAGATTAATGAACTCCCTTG 58.469 43.478 0.00 0.00 0.00 3.61
2162 2215 3.067320 GCCAGATTAATGAACTCCCTTGC 59.933 47.826 0.00 0.00 0.00 4.01
2163 2216 3.633986 CCAGATTAATGAACTCCCTTGCC 59.366 47.826 0.00 0.00 0.00 4.52
2164 2217 4.272489 CAGATTAATGAACTCCCTTGCCA 58.728 43.478 0.00 0.00 0.00 4.92
2165 2218 4.891756 CAGATTAATGAACTCCCTTGCCAT 59.108 41.667 0.00 0.00 0.00 4.40
2166 2219 6.064060 CAGATTAATGAACTCCCTTGCCATA 58.936 40.000 0.00 0.00 0.00 2.74
2167 2220 6.016777 CAGATTAATGAACTCCCTTGCCATAC 60.017 42.308 0.00 0.00 0.00 2.39
2168 2221 5.450818 TTAATGAACTCCCTTGCCATACT 57.549 39.130 0.00 0.00 0.00 2.12
2169 2222 4.322057 AATGAACTCCCTTGCCATACTT 57.678 40.909 0.00 0.00 0.00 2.24
2170 2223 5.450818 AATGAACTCCCTTGCCATACTTA 57.549 39.130 0.00 0.00 0.00 2.24
2171 2224 4.216411 TGAACTCCCTTGCCATACTTAC 57.784 45.455 0.00 0.00 0.00 2.34
2172 2225 3.585289 TGAACTCCCTTGCCATACTTACA 59.415 43.478 0.00 0.00 0.00 2.41
2173 2226 4.227300 TGAACTCCCTTGCCATACTTACAT 59.773 41.667 0.00 0.00 0.00 2.29
2174 2227 4.862641 ACTCCCTTGCCATACTTACATT 57.137 40.909 0.00 0.00 0.00 2.71
2175 2228 5.193099 ACTCCCTTGCCATACTTACATTT 57.807 39.130 0.00 0.00 0.00 2.32
2176 2229 5.193679 ACTCCCTTGCCATACTTACATTTC 58.806 41.667 0.00 0.00 0.00 2.17
2177 2230 4.532834 TCCCTTGCCATACTTACATTTCC 58.467 43.478 0.00 0.00 0.00 3.13
2178 2231 3.636764 CCCTTGCCATACTTACATTTCCC 59.363 47.826 0.00 0.00 0.00 3.97
2179 2232 4.536765 CCTTGCCATACTTACATTTCCCT 58.463 43.478 0.00 0.00 0.00 4.20
2180 2233 4.339247 CCTTGCCATACTTACATTTCCCTG 59.661 45.833 0.00 0.00 0.00 4.45
2181 2234 4.853468 TGCCATACTTACATTTCCCTGA 57.147 40.909 0.00 0.00 0.00 3.86
2182 2235 4.780815 TGCCATACTTACATTTCCCTGAG 58.219 43.478 0.00 0.00 0.00 3.35
2183 2236 4.227300 TGCCATACTTACATTTCCCTGAGT 59.773 41.667 0.00 0.00 0.00 3.41
2184 2237 5.193679 GCCATACTTACATTTCCCTGAGTT 58.806 41.667 0.00 0.00 0.00 3.01
2185 2238 6.069905 TGCCATACTTACATTTCCCTGAGTTA 60.070 38.462 0.00 0.00 0.00 2.24
2186 2239 6.826741 GCCATACTTACATTTCCCTGAGTTAA 59.173 38.462 0.00 0.00 0.00 2.01
2187 2240 7.502561 GCCATACTTACATTTCCCTGAGTTAAT 59.497 37.037 0.00 0.00 0.00 1.40
2194 2247 9.802039 TTACATTTCCCTGAGTTAATAGTTTGT 57.198 29.630 0.00 0.00 0.00 2.83
2195 2248 8.110860 ACATTTCCCTGAGTTAATAGTTTGTG 57.889 34.615 0.00 0.00 0.00 3.33
2196 2249 7.724061 ACATTTCCCTGAGTTAATAGTTTGTGT 59.276 33.333 0.00 0.00 0.00 3.72
2197 2250 8.576442 CATTTCCCTGAGTTAATAGTTTGTGTT 58.424 33.333 0.00 0.00 0.00 3.32
2198 2251 9.802039 ATTTCCCTGAGTTAATAGTTTGTGTTA 57.198 29.630 0.00 0.00 0.00 2.41
2199 2252 9.629878 TTTCCCTGAGTTAATAGTTTGTGTTAA 57.370 29.630 0.00 0.00 0.00 2.01
2200 2253 9.629878 TTCCCTGAGTTAATAGTTTGTGTTAAA 57.370 29.630 0.00 0.00 0.00 1.52
2201 2254 9.280174 TCCCTGAGTTAATAGTTTGTGTTAAAG 57.720 33.333 0.00 0.00 0.00 1.85
2202 2255 8.512138 CCCTGAGTTAATAGTTTGTGTTAAAGG 58.488 37.037 0.00 0.00 0.00 3.11
2203 2256 9.063615 CCTGAGTTAATAGTTTGTGTTAAAGGT 57.936 33.333 0.00 0.00 0.00 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 0.689412 CCCTCCTCCCTTCCTCTGTC 60.689 65.000 0.00 0.00 0.00 3.51
36 37 6.381801 CCAAGAAACAGACAACCACATATTC 58.618 40.000 0.00 0.00 0.00 1.75
46 47 2.172505 TCTCCAGCCAAGAAACAGACAA 59.827 45.455 0.00 0.00 0.00 3.18
245 246 9.620259 ATTATTTGGAGGAGATAGAAAGTGAAC 57.380 33.333 0.00 0.00 0.00 3.18
732 749 3.518634 TGCTGGTTTGGAGTTTTTGTC 57.481 42.857 0.00 0.00 0.00 3.18
800 824 2.038557 AGTGATTAGGTGTGGTGGTGTC 59.961 50.000 0.00 0.00 0.00 3.67
1157 1182 3.451141 AAGTGCATTTGAAGGCGAAAA 57.549 38.095 0.00 0.00 38.81 2.29
1189 1214 4.946478 ATATTGAGTAGACAGTCAGGCC 57.054 45.455 2.66 0.00 35.53 5.19
1337 1368 0.613853 AGGCATGCCAGCAAATGACT 60.614 50.000 37.18 10.88 37.32 3.41
1784 1837 6.367969 AGAGCGTTTACATAACCACTTTAGTG 59.632 38.462 2.86 2.86 45.23 2.74
1785 1838 6.461640 AGAGCGTTTACATAACCACTTTAGT 58.538 36.000 0.00 0.00 0.00 2.24
1786 1839 6.963049 AGAGCGTTTACATAACCACTTTAG 57.037 37.500 0.00 0.00 0.00 1.85
1788 1841 7.916914 ATAAGAGCGTTTACATAACCACTTT 57.083 32.000 0.00 0.00 0.00 2.66
1789 1842 9.609346 AATATAAGAGCGTTTACATAACCACTT 57.391 29.630 0.00 0.00 0.00 3.16
1790 1843 9.609346 AAATATAAGAGCGTTTACATAACCACT 57.391 29.630 0.00 0.00 0.00 4.00
1822 1875 9.508642 CAATGGATAGTACTCTCTCTGTACATA 57.491 37.037 0.00 0.00 41.76 2.29
1823 1876 7.450014 CCAATGGATAGTACTCTCTCTGTACAT 59.550 40.741 0.00 0.00 41.76 2.29
1824 1877 6.773200 CCAATGGATAGTACTCTCTCTGTACA 59.227 42.308 0.00 0.00 41.76 2.90
1825 1878 6.999272 TCCAATGGATAGTACTCTCTCTGTAC 59.001 42.308 0.00 0.00 40.19 2.90
1826 1879 7.150447 TCCAATGGATAGTACTCTCTCTGTA 57.850 40.000 0.00 0.00 0.00 2.74
1827 1880 6.019656 TCCAATGGATAGTACTCTCTCTGT 57.980 41.667 0.00 0.00 0.00 3.41
1828 1881 6.493115 ACATCCAATGGATAGTACTCTCTCTG 59.507 42.308 15.31 1.76 40.98 3.35
1829 1882 6.619464 ACATCCAATGGATAGTACTCTCTCT 58.381 40.000 15.31 0.00 40.98 3.10
1830 1883 6.491745 TGACATCCAATGGATAGTACTCTCTC 59.508 42.308 15.31 3.28 40.98 3.20
1831 1884 6.377080 TGACATCCAATGGATAGTACTCTCT 58.623 40.000 15.31 0.00 40.98 3.10
1832 1885 6.656632 TGACATCCAATGGATAGTACTCTC 57.343 41.667 15.31 0.00 40.98 3.20
1833 1886 7.126421 AGTTTGACATCCAATGGATAGTACTCT 59.874 37.037 15.31 7.29 40.98 3.24
1834 1887 7.225538 CAGTTTGACATCCAATGGATAGTACTC 59.774 40.741 15.31 5.48 40.98 2.59
1835 1888 7.050377 CAGTTTGACATCCAATGGATAGTACT 58.950 38.462 15.31 12.04 40.98 2.73
1836 1889 7.047891 TCAGTTTGACATCCAATGGATAGTAC 58.952 38.462 15.31 10.26 40.98 2.73
1837 1890 7.194112 TCAGTTTGACATCCAATGGATAGTA 57.806 36.000 15.31 0.99 40.98 1.82
1838 1891 6.065976 TCAGTTTGACATCCAATGGATAGT 57.934 37.500 15.31 14.67 40.98 2.12
1839 1892 6.769341 TCATCAGTTTGACATCCAATGGATAG 59.231 38.462 15.31 11.65 40.98 2.08
1840 1893 6.661777 TCATCAGTTTGACATCCAATGGATA 58.338 36.000 15.31 0.00 40.98 2.59
1841 1894 5.512298 TCATCAGTTTGACATCCAATGGAT 58.488 37.500 9.36 9.36 44.21 3.41
1842 1895 4.920999 TCATCAGTTTGACATCCAATGGA 58.079 39.130 3.67 3.67 34.23 3.41
1843 1896 5.184479 ACTTCATCAGTTTGACATCCAATGG 59.816 40.000 0.00 0.00 34.23 3.16
1844 1897 6.072342 TCACTTCATCAGTTTGACATCCAATG 60.072 38.462 0.00 0.00 34.23 2.82
1845 1898 6.005823 TCACTTCATCAGTTTGACATCCAAT 58.994 36.000 0.00 0.00 34.23 3.16
1846 1899 5.375773 TCACTTCATCAGTTTGACATCCAA 58.624 37.500 0.00 0.00 30.92 3.53
1847 1900 4.971939 TCACTTCATCAGTTTGACATCCA 58.028 39.130 0.00 0.00 30.92 3.41
1848 1901 5.645067 TGATCACTTCATCAGTTTGACATCC 59.355 40.000 0.00 0.00 30.92 3.51
1849 1902 6.370994 AGTGATCACTTCATCAGTTTGACATC 59.629 38.462 22.89 0.00 38.83 3.06
1850 1903 6.148976 CAGTGATCACTTCATCAGTTTGACAT 59.851 38.462 25.84 0.00 40.20 3.06
1851 1904 5.467735 CAGTGATCACTTCATCAGTTTGACA 59.532 40.000 25.84 0.00 40.20 3.58
1852 1905 5.106791 CCAGTGATCACTTCATCAGTTTGAC 60.107 44.000 25.84 0.00 40.20 3.18
1853 1906 4.999311 CCAGTGATCACTTCATCAGTTTGA 59.001 41.667 25.84 0.00 40.20 2.69
1854 1907 4.155462 CCCAGTGATCACTTCATCAGTTTG 59.845 45.833 25.84 11.06 40.20 2.93
1855 1908 4.202503 ACCCAGTGATCACTTCATCAGTTT 60.203 41.667 25.84 0.00 40.20 2.66
1856 1909 3.328931 ACCCAGTGATCACTTCATCAGTT 59.671 43.478 25.84 0.00 40.20 3.16
1857 1910 2.909006 ACCCAGTGATCACTTCATCAGT 59.091 45.455 25.84 13.20 40.20 3.41
1858 1911 3.055602 TCACCCAGTGATCACTTCATCAG 60.056 47.826 25.84 13.07 40.20 2.90
1859 1912 2.905736 TCACCCAGTGATCACTTCATCA 59.094 45.455 25.84 7.49 40.20 3.07
1860 1913 3.616956 TCACCCAGTGATCACTTCATC 57.383 47.619 25.84 0.00 40.20 2.92
1870 1923 2.269023 ACTTGATCCATCACCCAGTGA 58.731 47.619 0.00 0.00 46.90 3.41
1871 1924 2.795231 ACTTGATCCATCACCCAGTG 57.205 50.000 0.00 0.00 36.36 3.66
1872 1925 5.219739 AGTATACTTGATCCATCACCCAGT 58.780 41.667 0.00 0.00 36.36 4.00
1873 1926 5.815233 AGTATACTTGATCCATCACCCAG 57.185 43.478 0.00 0.00 36.36 4.45
1942 1995 9.706691 GGTTTCGGTCATATTAATCAATCTAGA 57.293 33.333 0.00 0.00 0.00 2.43
1943 1996 8.648097 CGGTTTCGGTCATATTAATCAATCTAG 58.352 37.037 0.00 0.00 0.00 2.43
1944 1997 8.528917 CGGTTTCGGTCATATTAATCAATCTA 57.471 34.615 0.00 0.00 0.00 1.98
1945 1998 7.421530 CGGTTTCGGTCATATTAATCAATCT 57.578 36.000 0.00 0.00 0.00 2.40
1962 2015 0.107848 ATAGCAAGGACCCGGTTTCG 60.108 55.000 0.00 0.00 0.00 3.46
1963 2016 2.169978 AGTATAGCAAGGACCCGGTTTC 59.830 50.000 0.00 0.00 0.00 2.78
1964 2017 2.193993 AGTATAGCAAGGACCCGGTTT 58.806 47.619 0.00 0.00 0.00 3.27
1965 2018 1.875488 AGTATAGCAAGGACCCGGTT 58.125 50.000 0.00 0.00 0.00 4.44
1966 2019 1.761198 GAAGTATAGCAAGGACCCGGT 59.239 52.381 0.00 0.00 0.00 5.28
1967 2020 2.040178 AGAAGTATAGCAAGGACCCGG 58.960 52.381 0.00 0.00 0.00 5.73
1968 2021 2.431057 ACAGAAGTATAGCAAGGACCCG 59.569 50.000 0.00 0.00 0.00 5.28
1969 2022 4.489306 AACAGAAGTATAGCAAGGACCC 57.511 45.455 0.00 0.00 0.00 4.46
1970 2023 6.641474 ACTAAACAGAAGTATAGCAAGGACC 58.359 40.000 0.00 0.00 0.00 4.46
1971 2024 9.649167 TTTACTAAACAGAAGTATAGCAAGGAC 57.351 33.333 0.00 0.00 29.86 3.85
2015 2068 0.893727 ACGGAGATTGGTTGCCAACC 60.894 55.000 19.89 19.89 46.95 3.77
2016 2069 0.521735 GACGGAGATTGGTTGCCAAC 59.478 55.000 0.00 0.00 46.95 3.77
2018 2071 1.375396 CGACGGAGATTGGTTGCCA 60.375 57.895 0.00 0.00 0.00 4.92
2019 2072 0.462047 ATCGACGGAGATTGGTTGCC 60.462 55.000 0.00 0.00 0.00 4.52
2020 2073 0.931005 GATCGACGGAGATTGGTTGC 59.069 55.000 0.00 0.00 0.00 4.17
2021 2074 1.927174 GTGATCGACGGAGATTGGTTG 59.073 52.381 0.00 0.00 0.00 3.77
2022 2075 1.134788 GGTGATCGACGGAGATTGGTT 60.135 52.381 0.00 0.00 0.00 3.67
2023 2076 0.460311 GGTGATCGACGGAGATTGGT 59.540 55.000 0.00 0.00 0.00 3.67
2024 2077 0.747255 AGGTGATCGACGGAGATTGG 59.253 55.000 0.00 0.00 0.00 3.16
2025 2078 2.159240 TCAAGGTGATCGACGGAGATTG 60.159 50.000 0.00 0.00 0.00 2.67
2026 2079 2.100197 TCAAGGTGATCGACGGAGATT 58.900 47.619 0.00 0.00 0.00 2.40
2027 2080 1.763968 TCAAGGTGATCGACGGAGAT 58.236 50.000 0.00 0.00 0.00 2.75
2028 2081 1.763968 ATCAAGGTGATCGACGGAGA 58.236 50.000 0.00 0.00 29.59 3.71
2029 2082 2.196749 CAATCAAGGTGATCGACGGAG 58.803 52.381 0.00 0.00 35.76 4.63
2030 2083 1.548719 ACAATCAAGGTGATCGACGGA 59.451 47.619 0.00 0.00 35.76 4.69
2031 2084 1.927174 GACAATCAAGGTGATCGACGG 59.073 52.381 0.00 0.00 35.76 4.79
2032 2085 1.583856 CGACAATCAAGGTGATCGACG 59.416 52.381 0.00 0.00 35.76 5.12
2033 2086 2.876091 TCGACAATCAAGGTGATCGAC 58.124 47.619 0.00 0.00 35.76 4.20
2034 2087 3.586100 TTCGACAATCAAGGTGATCGA 57.414 42.857 0.00 0.00 35.76 3.59
2035 2088 4.329801 TCAATTCGACAATCAAGGTGATCG 59.670 41.667 0.00 0.00 35.76 3.69
2036 2089 5.563842 GTCAATTCGACAATCAAGGTGATC 58.436 41.667 0.00 0.00 44.69 2.92
2037 2090 5.551760 GTCAATTCGACAATCAAGGTGAT 57.448 39.130 0.00 0.00 44.69 3.06
2049 2102 5.120363 GGTCACTAAAAGGAGTCAATTCGAC 59.880 44.000 0.00 1.22 45.77 4.20
2050 2103 5.235516 GGTCACTAAAAGGAGTCAATTCGA 58.764 41.667 0.00 0.00 0.00 3.71
2051 2104 4.091509 CGGTCACTAAAAGGAGTCAATTCG 59.908 45.833 0.00 0.00 0.00 3.34
2052 2105 4.142881 GCGGTCACTAAAAGGAGTCAATTC 60.143 45.833 0.00 0.00 0.00 2.17
2053 2106 3.751698 GCGGTCACTAAAAGGAGTCAATT 59.248 43.478 0.00 0.00 0.00 2.32
2054 2107 3.008049 AGCGGTCACTAAAAGGAGTCAAT 59.992 43.478 0.00 0.00 0.00 2.57
2055 2108 2.367567 AGCGGTCACTAAAAGGAGTCAA 59.632 45.455 0.00 0.00 0.00 3.18
2056 2109 1.968493 AGCGGTCACTAAAAGGAGTCA 59.032 47.619 0.00 0.00 0.00 3.41
2057 2110 2.608268 GAGCGGTCACTAAAAGGAGTC 58.392 52.381 10.30 0.00 0.00 3.36
2058 2111 1.275573 GGAGCGGTCACTAAAAGGAGT 59.724 52.381 17.59 0.00 0.00 3.85
2059 2112 1.275291 TGGAGCGGTCACTAAAAGGAG 59.725 52.381 17.59 0.00 0.00 3.69
2060 2113 1.001633 GTGGAGCGGTCACTAAAAGGA 59.998 52.381 17.59 0.00 32.78 3.36
2061 2114 1.439679 GTGGAGCGGTCACTAAAAGG 58.560 55.000 17.59 0.00 32.78 3.11
2062 2115 1.002087 AGGTGGAGCGGTCACTAAAAG 59.998 52.381 17.59 0.00 35.61 2.27
2063 2116 1.001633 GAGGTGGAGCGGTCACTAAAA 59.998 52.381 17.59 0.00 35.61 1.52
2064 2117 0.606604 GAGGTGGAGCGGTCACTAAA 59.393 55.000 17.59 0.00 35.61 1.85
2065 2118 1.255667 GGAGGTGGAGCGGTCACTAA 61.256 60.000 17.59 0.00 35.61 2.24
2066 2119 1.681327 GGAGGTGGAGCGGTCACTA 60.681 63.158 17.59 0.00 35.61 2.74
2067 2120 2.997897 GGAGGTGGAGCGGTCACT 60.998 66.667 17.59 10.99 35.61 3.41
2068 2121 3.302347 CTGGAGGTGGAGCGGTCAC 62.302 68.421 17.59 12.12 34.61 3.67
2069 2122 2.435120 TACTGGAGGTGGAGCGGTCA 62.435 60.000 17.59 0.00 0.00 4.02
2070 2123 1.668101 CTACTGGAGGTGGAGCGGTC 61.668 65.000 5.93 5.93 0.00 4.79
2071 2124 1.682684 CTACTGGAGGTGGAGCGGT 60.683 63.158 0.00 0.00 0.00 5.68
2072 2125 2.427245 CCTACTGGAGGTGGAGCGG 61.427 68.421 0.00 0.00 40.98 5.52
2073 2126 3.211288 CCTACTGGAGGTGGAGCG 58.789 66.667 0.00 0.00 40.98 5.03
2081 2134 8.651589 TCATAAGATGGTAATACCTACTGGAG 57.348 38.462 11.16 4.26 39.58 3.86
2082 2135 8.867097 GTTCATAAGATGGTAATACCTACTGGA 58.133 37.037 11.16 6.39 39.58 3.86
2083 2136 8.647796 TGTTCATAAGATGGTAATACCTACTGG 58.352 37.037 11.16 4.53 39.58 4.00
2103 2156 9.421806 TCATGCGAATTAATTTCTTTTGTTCAT 57.578 25.926 1.43 0.00 31.73 2.57
2104 2157 8.809159 TCATGCGAATTAATTTCTTTTGTTCA 57.191 26.923 1.43 0.00 31.73 3.18
2107 2160 9.421806 TGAATCATGCGAATTAATTTCTTTTGT 57.578 25.926 1.43 0.00 31.73 2.83
2111 2164 9.806203 TCAATGAATCATGCGAATTAATTTCTT 57.194 25.926 1.43 0.00 31.73 2.52
2112 2165 9.806203 TTCAATGAATCATGCGAATTAATTTCT 57.194 25.926 1.43 0.00 31.73 2.52
2115 2168 8.545420 GCTTTCAATGAATCATGCGAATTAATT 58.455 29.630 0.00 0.00 0.00 1.40
2116 2169 7.170320 GGCTTTCAATGAATCATGCGAATTAAT 59.830 33.333 0.00 0.00 0.00 1.40
2117 2170 6.476380 GGCTTTCAATGAATCATGCGAATTAA 59.524 34.615 0.00 0.00 0.00 1.40
2118 2171 5.978919 GGCTTTCAATGAATCATGCGAATTA 59.021 36.000 0.00 0.00 0.00 1.40
2119 2172 4.807304 GGCTTTCAATGAATCATGCGAATT 59.193 37.500 0.00 0.00 0.00 2.17
2120 2173 4.142116 TGGCTTTCAATGAATCATGCGAAT 60.142 37.500 0.00 0.00 0.00 3.34
2121 2174 3.193056 TGGCTTTCAATGAATCATGCGAA 59.807 39.130 0.00 0.36 0.00 4.70
2122 2175 2.754002 TGGCTTTCAATGAATCATGCGA 59.246 40.909 0.00 0.00 0.00 5.10
2123 2176 3.113322 CTGGCTTTCAATGAATCATGCG 58.887 45.455 0.00 0.00 0.00 4.73
2124 2177 4.380841 TCTGGCTTTCAATGAATCATGC 57.619 40.909 0.00 0.00 0.00 4.06
2125 2178 8.978539 CATTAATCTGGCTTTCAATGAATCATG 58.021 33.333 0.00 0.00 0.00 3.07
2126 2179 8.920174 TCATTAATCTGGCTTTCAATGAATCAT 58.080 29.630 0.00 0.00 31.41 2.45
2127 2180 8.296211 TCATTAATCTGGCTTTCAATGAATCA 57.704 30.769 0.00 0.00 31.41 2.57
2128 2181 9.028185 GTTCATTAATCTGGCTTTCAATGAATC 57.972 33.333 9.86 0.00 41.65 2.52
2129 2182 8.755977 AGTTCATTAATCTGGCTTTCAATGAAT 58.244 29.630 9.86 0.01 41.65 2.57
2130 2183 8.125978 AGTTCATTAATCTGGCTTTCAATGAA 57.874 30.769 0.00 0.00 39.05 2.57
2131 2184 7.148018 GGAGTTCATTAATCTGGCTTTCAATGA 60.148 37.037 0.00 0.00 32.22 2.57
2132 2185 6.976925 GGAGTTCATTAATCTGGCTTTCAATG 59.023 38.462 0.00 0.00 0.00 2.82
2133 2186 6.097412 GGGAGTTCATTAATCTGGCTTTCAAT 59.903 38.462 0.00 0.00 0.00 2.57
2134 2187 5.418840 GGGAGTTCATTAATCTGGCTTTCAA 59.581 40.000 0.00 0.00 0.00 2.69
2135 2188 4.949856 GGGAGTTCATTAATCTGGCTTTCA 59.050 41.667 0.00 0.00 0.00 2.69
2136 2189 5.196695 AGGGAGTTCATTAATCTGGCTTTC 58.803 41.667 0.00 0.00 0.00 2.62
2137 2190 5.198602 AGGGAGTTCATTAATCTGGCTTT 57.801 39.130 0.00 0.00 0.00 3.51
2138 2191 4.870021 AGGGAGTTCATTAATCTGGCTT 57.130 40.909 0.00 0.00 0.00 4.35
2139 2192 4.530875 CAAGGGAGTTCATTAATCTGGCT 58.469 43.478 0.00 0.00 0.00 4.75
2140 2193 3.067320 GCAAGGGAGTTCATTAATCTGGC 59.933 47.826 0.00 0.00 0.00 4.85
2141 2194 3.633986 GGCAAGGGAGTTCATTAATCTGG 59.366 47.826 0.00 0.00 0.00 3.86
2142 2195 4.272489 TGGCAAGGGAGTTCATTAATCTG 58.728 43.478 0.00 0.00 0.00 2.90
2143 2196 4.591321 TGGCAAGGGAGTTCATTAATCT 57.409 40.909 0.00 0.00 0.00 2.40
2144 2197 6.064717 AGTATGGCAAGGGAGTTCATTAATC 58.935 40.000 0.00 0.00 0.00 1.75
2145 2198 6.018433 AGTATGGCAAGGGAGTTCATTAAT 57.982 37.500 0.00 0.00 0.00 1.40
2146 2199 5.450818 AGTATGGCAAGGGAGTTCATTAA 57.549 39.130 0.00 0.00 0.00 1.40
2147 2200 5.450818 AAGTATGGCAAGGGAGTTCATTA 57.549 39.130 0.00 0.00 0.00 1.90
2148 2201 4.322057 AAGTATGGCAAGGGAGTTCATT 57.678 40.909 0.00 0.00 0.00 2.57
2149 2202 4.227300 TGTAAGTATGGCAAGGGAGTTCAT 59.773 41.667 0.00 0.00 0.00 2.57
2150 2203 3.585289 TGTAAGTATGGCAAGGGAGTTCA 59.415 43.478 0.00 0.00 0.00 3.18
2151 2204 4.216411 TGTAAGTATGGCAAGGGAGTTC 57.784 45.455 0.00 0.00 0.00 3.01
2152 2205 4.862641 ATGTAAGTATGGCAAGGGAGTT 57.137 40.909 0.00 0.00 0.00 3.01
2153 2206 4.862641 AATGTAAGTATGGCAAGGGAGT 57.137 40.909 0.00 0.00 0.00 3.85
2154 2207 4.580580 GGAAATGTAAGTATGGCAAGGGAG 59.419 45.833 0.00 0.00 0.00 4.30
2155 2208 4.532834 GGAAATGTAAGTATGGCAAGGGA 58.467 43.478 0.00 0.00 0.00 4.20
2156 2209 3.636764 GGGAAATGTAAGTATGGCAAGGG 59.363 47.826 0.00 0.00 0.00 3.95
2157 2210 4.339247 CAGGGAAATGTAAGTATGGCAAGG 59.661 45.833 0.00 0.00 0.00 3.61
2158 2211 5.192927 TCAGGGAAATGTAAGTATGGCAAG 58.807 41.667 0.00 0.00 0.00 4.01
2159 2212 5.186256 TCAGGGAAATGTAAGTATGGCAA 57.814 39.130 0.00 0.00 0.00 4.52
2160 2213 4.227300 ACTCAGGGAAATGTAAGTATGGCA 59.773 41.667 0.00 0.00 0.00 4.92
2161 2214 4.781934 ACTCAGGGAAATGTAAGTATGGC 58.218 43.478 0.00 0.00 0.00 4.40
2162 2215 8.980481 ATTAACTCAGGGAAATGTAAGTATGG 57.020 34.615 0.00 0.00 0.00 2.74
2168 2221 9.802039 ACAAACTATTAACTCAGGGAAATGTAA 57.198 29.630 0.00 0.00 0.00 2.41
2169 2222 9.226606 CACAAACTATTAACTCAGGGAAATGTA 57.773 33.333 0.00 0.00 0.00 2.29
2170 2223 7.724061 ACACAAACTATTAACTCAGGGAAATGT 59.276 33.333 0.00 0.00 0.00 2.71
2171 2224 8.110860 ACACAAACTATTAACTCAGGGAAATG 57.889 34.615 0.00 0.00 0.00 2.32
2172 2225 8.706322 AACACAAACTATTAACTCAGGGAAAT 57.294 30.769 0.00 0.00 0.00 2.17
2173 2226 9.629878 TTAACACAAACTATTAACTCAGGGAAA 57.370 29.630 0.00 0.00 0.00 3.13
2174 2227 9.629878 TTTAACACAAACTATTAACTCAGGGAA 57.370 29.630 0.00 0.00 0.00 3.97
2175 2228 9.280174 CTTTAACACAAACTATTAACTCAGGGA 57.720 33.333 0.00 0.00 0.00 4.20
2176 2229 8.512138 CCTTTAACACAAACTATTAACTCAGGG 58.488 37.037 0.00 0.00 0.00 4.45
2177 2230 9.063615 ACCTTTAACACAAACTATTAACTCAGG 57.936 33.333 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.