Multiple sequence alignment - TraesCS4A01G015100

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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 TraesCS4A01G015100 chr4A 100.000 2360 0 0 1 2360 9483293 9485652 0.000000e+00 4359
1 TraesCS4A01G015100 chr4D 92.249 1316 66 18 554 1845 459301973 459300670 0.000000e+00 1832
2 TraesCS4A01G015100 chr4D 93.195 338 14 2 2023 2360 459300691 459300363 2.730000e-134 488
3 TraesCS4A01G015100 chr4B 90.323 1333 73 26 542 1845 573521416 573520111 0.000000e+00 1696
4 TraesCS4A01G015100 chr4B 97.487 199 5 0 2162 2360 573510469 573510271 8.080000e-90 340
5 TraesCS4A01G015100 chr4B 97.802 182 4 0 1844 2025 193970498 193970679 4.900000e-82 315
6 TraesCS4A01G015100 chr6D 95.941 542 21 1 2 542 451147362 451147903 0.000000e+00 878
7 TraesCS4A01G015100 chr6D 95.596 545 23 1 2 545 451596731 451596187 0.000000e+00 872
8 TraesCS4A01G015100 chr6D 95.564 541 23 1 2 541 397851061 397850521 0.000000e+00 865
9 TraesCS4A01G015100 chr6D 95.387 542 24 1 2 542 386033030 386032489 0.000000e+00 861
10 TraesCS4A01G015100 chr5A 95.290 552 24 2 1 550 673329120 673328569 0.000000e+00 874
11 TraesCS4A01G015100 chr5A 95.572 542 24 0 1 542 639811344 639811885 0.000000e+00 869
12 TraesCS4A01G015100 chr5A 95.556 540 24 0 1 540 608323074 608323613 0.000000e+00 865
13 TraesCS4A01G015100 chr5A 97.297 185 4 1 1844 2028 585407174 585407357 1.760000e-81 313
14 TraesCS4A01G015100 chr3D 95.926 540 21 1 2 540 368602763 368602224 0.000000e+00 874
15 TraesCS4A01G015100 chr5D 95.556 540 23 1 2 540 426354696 426354157 0.000000e+00 863
16 TraesCS4A01G015100 chr6B 97.814 183 4 0 1844 2026 171060779 171060961 1.360000e-82 316
17 TraesCS4A01G015100 chr5B 97.312 186 4 1 1844 2028 660145804 660145619 4.900000e-82 315
18 TraesCS4A01G015100 chr5B 95.361 194 8 1 1831 2024 233689263 233689071 8.190000e-80 307
19 TraesCS4A01G015100 chr7A 96.809 188 5 1 1844 2031 237522910 237522724 1.760000e-81 313
20 TraesCS4A01G015100 chr3A 96.809 188 5 1 1842 2029 585241157 585241343 1.760000e-81 313
21 TraesCS4A01G015100 chr1B 93.365 211 8 6 1844 2049 397427463 397427254 8.190000e-80 307
22 TraesCS4A01G015100 chr2A 96.648 179 6 0 1846 2024 692453079 692453257 4.930000e-77 298


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 TraesCS4A01G015100 chr4A 9483293 9485652 2359 False 4359 4359 100.000 1 2360 1 chr4A.!!$F1 2359
1 TraesCS4A01G015100 chr4D 459300363 459301973 1610 True 1160 1832 92.722 554 2360 2 chr4D.!!$R1 1806
2 TraesCS4A01G015100 chr4B 573520111 573521416 1305 True 1696 1696 90.323 542 1845 1 chr4B.!!$R2 1303
3 TraesCS4A01G015100 chr6D 451147362 451147903 541 False 878 878 95.941 2 542 1 chr6D.!!$F1 540
4 TraesCS4A01G015100 chr6D 451596187 451596731 544 True 872 872 95.596 2 545 1 chr6D.!!$R3 543
5 TraesCS4A01G015100 chr6D 397850521 397851061 540 True 865 865 95.564 2 541 1 chr6D.!!$R2 539
6 TraesCS4A01G015100 chr6D 386032489 386033030 541 True 861 861 95.387 2 542 1 chr6D.!!$R1 540
7 TraesCS4A01G015100 chr5A 673328569 673329120 551 True 874 874 95.290 1 550 1 chr5A.!!$R1 549
8 TraesCS4A01G015100 chr5A 639811344 639811885 541 False 869 869 95.572 1 542 1 chr5A.!!$F3 541
9 TraesCS4A01G015100 chr5A 608323074 608323613 539 False 865 865 95.556 1 540 1 chr5A.!!$F2 539
10 TraesCS4A01G015100 chr3D 368602224 368602763 539 True 874 874 95.926 2 540 1 chr3D.!!$R1 538
11 TraesCS4A01G015100 chr5D 426354157 426354696 539 True 863 863 95.556 2 540 1 chr5D.!!$R1 538

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
925 939 0.034059 ATAAAGATCGCCAGCCTCGG 59.966 55.0 0.0 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1986 2019 0.111253 AGTGGTAAAGCTGCTGCCTT 59.889 50.0 12.44 8.34 40.8 4.35 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
349 351 1.682684 ACAAACACGGCCCAACCAA 60.683 52.632 0.00 0.00 39.03 3.67
406 408 2.817839 GCCCCACAAGTCAGTTAATGGT 60.818 50.000 0.00 0.00 0.00 3.55
432 434 3.740044 CGGCAAACGTCTGTTATGAAT 57.260 42.857 0.00 0.00 37.31 2.57
454 456 9.283768 TGAATATTTGTGAGAGTTTCAGCTAAA 57.716 29.630 0.00 0.00 36.21 1.85
478 480 4.444164 GGAATGGGGAAAAGTGAGCAAAAA 60.444 41.667 0.00 0.00 0.00 1.94
482 484 6.240549 TGGGGAAAAGTGAGCAAAAATTTA 57.759 33.333 0.00 0.00 0.00 1.40
490 492 5.587289 AGTGAGCAAAAATTTAAAGCGTGA 58.413 33.333 0.00 0.00 0.00 4.35
491 493 6.039616 AGTGAGCAAAAATTTAAAGCGTGAA 58.960 32.000 0.00 0.00 0.00 3.18
512 514 6.037172 GTGAAGAAAACTGAGCACAACTAAGA 59.963 38.462 0.00 0.00 30.25 2.10
517 519 9.120538 AGAAAACTGAGCACAACTAAGAAATTA 57.879 29.630 0.00 0.00 30.25 1.40
564 568 0.107165 GAAATGGGCGGTAGGCTCTT 60.107 55.000 0.00 0.00 44.88 2.85
588 592 2.168521 CCCTACAGAGCCAAGAAATCGA 59.831 50.000 0.00 0.00 0.00 3.59
612 616 1.263484 GAAGATCATGGACGCATGCAG 59.737 52.381 19.57 12.98 32.87 4.41
613 619 0.466963 AGATCATGGACGCATGCAGA 59.533 50.000 19.57 5.51 32.87 4.26
655 661 2.202336 CGCGCGTACGTACCTTCA 60.202 61.111 24.19 0.00 42.83 3.02
662 668 1.580704 CGTACGTACCTTCAATCGCAC 59.419 52.381 19.67 0.00 0.00 5.34
666 672 1.438651 GTACCTTCAATCGCACTGCA 58.561 50.000 1.11 0.00 0.00 4.41
671 677 2.098607 CCTTCAATCGCACTGCATCAAT 59.901 45.455 1.11 0.00 0.00 2.57
672 678 3.360533 CTTCAATCGCACTGCATCAATC 58.639 45.455 1.11 0.00 0.00 2.67
674 680 2.610833 TCAATCGCACTGCATCAATCTC 59.389 45.455 1.11 0.00 0.00 2.75
676 682 0.462581 TCGCACTGCATCAATCTCCC 60.463 55.000 1.11 0.00 0.00 4.30
678 684 1.022735 GCACTGCATCAATCTCCCAG 58.977 55.000 0.00 0.00 0.00 4.45
679 685 1.407851 GCACTGCATCAATCTCCCAGA 60.408 52.381 0.00 0.00 0.00 3.86
680 686 2.748798 GCACTGCATCAATCTCCCAGAT 60.749 50.000 0.00 0.00 36.28 2.90
681 687 3.495629 GCACTGCATCAATCTCCCAGATA 60.496 47.826 0.00 0.00 32.89 1.98
691 704 3.616721 CCCAGATACGCCTCCGGG 61.617 72.222 0.00 0.00 39.22 5.73
697 710 2.036733 CAGATACGCCTCCGGGAATTAA 59.963 50.000 0.00 0.00 39.22 1.40
698 711 2.299297 AGATACGCCTCCGGGAATTAAG 59.701 50.000 0.00 0.00 39.22 1.85
699 712 1.488390 TACGCCTCCGGGAATTAAGT 58.512 50.000 0.00 0.00 39.22 2.24
741 754 2.908940 GATTCCAGGGGCGCATGG 60.909 66.667 26.87 26.87 37.97 3.66
776 789 3.683587 CTCGCTGTCGCACGATCCA 62.684 63.158 0.00 0.00 37.72 3.41
783 796 1.000394 TGTCGCACGATCCAGAGAAAA 60.000 47.619 0.00 0.00 0.00 2.29
787 800 1.734465 GCACGATCCAGAGAAAAGTGG 59.266 52.381 0.00 0.00 34.87 4.00
789 802 1.002366 CGATCCAGAGAAAAGTGGCG 58.998 55.000 0.00 0.00 33.43 5.69
801 814 2.511373 GTGGCGACGCATCCATCA 60.511 61.111 23.09 6.12 41.67 3.07
818 831 0.537143 TCACCTGTTGACCATGGCAC 60.537 55.000 13.04 7.03 0.00 5.01
824 837 1.965930 TTGACCATGGCACGCACTC 60.966 57.895 13.04 0.00 0.00 3.51
825 838 2.046892 GACCATGGCACGCACTCT 60.047 61.111 13.04 0.00 0.00 3.24
876 890 1.153745 CGGCGCTAGCTTCAGACTT 60.154 57.895 13.93 0.00 44.37 3.01
918 932 0.666274 CCGCGCTATAAAGATCGCCA 60.666 55.000 5.56 0.00 44.12 5.69
919 933 0.710567 CGCGCTATAAAGATCGCCAG 59.289 55.000 5.56 0.00 44.12 4.85
921 935 1.071605 CGCTATAAAGATCGCCAGCC 58.928 55.000 0.00 0.00 0.00 4.85
924 938 2.600731 CTATAAAGATCGCCAGCCTCG 58.399 52.381 0.00 0.00 0.00 4.63
925 939 0.034059 ATAAAGATCGCCAGCCTCGG 59.966 55.000 0.00 0.00 0.00 4.63
967 981 2.297701 ACGACAAGAAAACTGCACCAT 58.702 42.857 0.00 0.00 0.00 3.55
1044 1058 4.070552 GCGGTCCTCGTCCTGCTT 62.071 66.667 0.00 0.00 41.72 3.91
1237 1251 2.345991 GCCTCGGCACCAACTACA 59.654 61.111 2.41 0.00 41.49 2.74
1394 1408 1.796355 CGAGCACTCGTACGTGTGG 60.796 63.158 36.87 23.82 46.99 4.17
1448 1462 5.007385 ACTCCGCTGAATAATCTACGTTT 57.993 39.130 0.00 0.00 0.00 3.60
1452 1466 3.493503 CGCTGAATAATCTACGTTTCCCC 59.506 47.826 0.00 0.00 0.00 4.81
1573 1591 0.529992 ACAGTAGCGCCGGAATAAGC 60.530 55.000 5.05 1.31 0.00 3.09
1574 1592 0.529773 CAGTAGCGCCGGAATAAGCA 60.530 55.000 5.05 0.00 0.00 3.91
1575 1593 0.177141 AGTAGCGCCGGAATAAGCAA 59.823 50.000 5.05 0.00 0.00 3.91
1576 1594 0.582005 GTAGCGCCGGAATAAGCAAG 59.418 55.000 5.05 0.00 0.00 4.01
1577 1595 0.177141 TAGCGCCGGAATAAGCAAGT 59.823 50.000 5.05 0.00 0.00 3.16
1578 1596 1.090052 AGCGCCGGAATAAGCAAGTC 61.090 55.000 5.05 0.00 0.00 3.01
1582 1600 2.762360 CGGAATAAGCAAGTCCGCA 58.238 52.632 13.76 0.00 46.91 5.69
1585 1603 1.398390 GGAATAAGCAAGTCCGCACAG 59.602 52.381 0.00 0.00 0.00 3.66
1614 1642 2.433970 TGTCATCACTGCCCGAATGATA 59.566 45.455 0.00 0.00 31.83 2.15
1706 1734 8.586273 CACTATAATTCCAGCGTCAAATTTTTG 58.414 33.333 0.00 0.00 39.48 2.44
1723 1751 9.250624 CAAATTTTTGAACATGGCAAATCAAAT 57.749 25.926 19.52 9.81 40.36 2.32
1725 1753 6.939132 TTTTGAACATGGCAAATCAAATGT 57.061 29.167 19.52 4.57 40.36 2.71
1774 1802 7.596494 CCGATGATGGCAAATTTAGTTGATAT 58.404 34.615 0.00 0.00 0.00 1.63
1845 1878 5.739161 GCTCGTGAACTAAATTTGCCATAAG 59.261 40.000 0.00 0.00 0.00 1.73
1846 1879 6.189677 TCGTGAACTAAATTTGCCATAAGG 57.810 37.500 0.00 0.00 38.23 2.69
1847 1880 5.124776 TCGTGAACTAAATTTGCCATAAGGG 59.875 40.000 0.00 0.00 40.85 3.95
1864 1897 2.045045 GCAGCCCCAGTGCATGTA 60.045 61.111 0.00 0.00 40.86 2.29
1865 1898 2.117156 GCAGCCCCAGTGCATGTAG 61.117 63.158 0.00 0.00 40.86 2.74
1866 1899 2.117156 CAGCCCCAGTGCATGTAGC 61.117 63.158 0.00 0.00 45.96 3.58
1867 1900 2.273449 GCCCCAGTGCATGTAGCT 59.727 61.111 0.00 0.00 45.94 3.32
1868 1901 1.821332 GCCCCAGTGCATGTAGCTC 60.821 63.158 0.00 0.00 45.94 4.09
1869 1902 1.153086 CCCCAGTGCATGTAGCTCC 60.153 63.158 0.00 0.00 45.94 4.70
1870 1903 1.153086 CCCAGTGCATGTAGCTCCC 60.153 63.158 0.00 0.00 45.94 4.30
1871 1904 1.522355 CCAGTGCATGTAGCTCCCG 60.522 63.158 0.00 0.00 45.94 5.14
1872 1905 2.176273 CAGTGCATGTAGCTCCCGC 61.176 63.158 0.00 0.00 45.94 6.13
1874 1907 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
1875 1908 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
1876 1909 1.450312 GCATGTAGCTCCCGCTTGT 60.450 57.895 0.00 0.00 46.47 3.16
1877 1910 1.709147 GCATGTAGCTCCCGCTTGTG 61.709 60.000 0.00 0.00 46.47 3.33
1878 1911 1.450312 ATGTAGCTCCCGCTTGTGC 60.450 57.895 0.00 0.00 46.47 4.57
1879 1912 2.047274 GTAGCTCCCGCTTGTGCA 60.047 61.111 0.00 0.00 46.47 4.57
1880 1913 2.103042 GTAGCTCCCGCTTGTGCAG 61.103 63.158 0.00 0.00 46.47 4.41
1881 1914 3.315142 TAGCTCCCGCTTGTGCAGG 62.315 63.158 0.00 0.00 46.47 4.85
1883 1916 4.335647 CTCCCGCTTGTGCAGGGT 62.336 66.667 7.78 0.00 46.04 4.34
1884 1917 4.329545 TCCCGCTTGTGCAGGGTC 62.330 66.667 7.78 0.00 46.04 4.46
1885 1918 4.335647 CCCGCTTGTGCAGGGTCT 62.336 66.667 0.00 0.00 43.24 3.85
1886 1919 3.052082 CCGCTTGTGCAGGGTCTG 61.052 66.667 0.00 0.00 39.64 3.51
1887 1920 3.052082 CGCTTGTGCAGGGTCTGG 61.052 66.667 0.00 0.00 39.64 3.86
1888 1921 2.674380 GCTTGTGCAGGGTCTGGG 60.674 66.667 0.00 0.00 39.41 4.45
1889 1922 2.034687 CTTGTGCAGGGTCTGGGG 59.965 66.667 0.00 0.00 31.21 4.96
1890 1923 2.449518 TTGTGCAGGGTCTGGGGA 60.450 61.111 0.00 0.00 31.21 4.81
1891 1924 2.067932 CTTGTGCAGGGTCTGGGGAA 62.068 60.000 0.00 0.00 31.21 3.97
1892 1925 2.067932 TTGTGCAGGGTCTGGGGAAG 62.068 60.000 0.00 0.00 31.21 3.46
1893 1926 2.935481 TGCAGGGTCTGGGGAAGG 60.935 66.667 0.00 0.00 31.21 3.46
1894 1927 3.732849 GCAGGGTCTGGGGAAGGG 61.733 72.222 0.00 0.00 31.21 3.95
1895 1928 2.204151 CAGGGTCTGGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
1896 1929 2.125225 AGGGTCTGGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
1897 1930 3.015753 GGGTCTGGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
1898 1931 3.400054 GGTCTGGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
1899 1932 2.284405 GTCTGGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
1900 1933 2.284405 TCTGGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
1901 1934 3.400054 CTGGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
1902 1935 4.257810 TGGGGAAGGGTCCGACCA 62.258 66.667 19.43 0.00 46.04 4.02
1903 1936 3.714001 GGGGAAGGGTCCGACCAC 61.714 72.222 19.43 8.70 46.04 4.16
1904 1937 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
1905 1938 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
1906 1939 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
1907 1940 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
1908 1941 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
1909 1942 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
1910 1943 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
1920 1953 3.934068 ACCACTTTGGGTCTATTGTACG 58.066 45.455 0.00 0.00 43.37 3.67
1921 1954 2.676342 CCACTTTGGGTCTATTGTACGC 59.324 50.000 0.00 0.00 32.67 4.42
1922 1955 2.676342 CACTTTGGGTCTATTGTACGCC 59.324 50.000 0.00 0.00 0.00 5.68
1923 1956 1.931172 CTTTGGGTCTATTGTACGCCG 59.069 52.381 0.00 0.00 0.00 6.46
1924 1957 0.460635 TTGGGTCTATTGTACGCCGC 60.461 55.000 0.00 0.00 0.00 6.53
1925 1958 1.593479 GGGTCTATTGTACGCCGCC 60.593 63.158 0.00 0.00 0.00 6.13
1926 1959 1.440476 GGTCTATTGTACGCCGCCT 59.560 57.895 0.00 0.00 0.00 5.52
1927 1960 0.179092 GGTCTATTGTACGCCGCCTT 60.179 55.000 0.00 0.00 0.00 4.35
1928 1961 1.648504 GTCTATTGTACGCCGCCTTT 58.351 50.000 0.00 0.00 0.00 3.11
1929 1962 1.591619 GTCTATTGTACGCCGCCTTTC 59.408 52.381 0.00 0.00 0.00 2.62
1930 1963 0.935196 CTATTGTACGCCGCCTTTCC 59.065 55.000 0.00 0.00 0.00 3.13
1931 1964 0.462403 TATTGTACGCCGCCTTTCCC 60.462 55.000 0.00 0.00 0.00 3.97
1932 1965 2.193087 ATTGTACGCCGCCTTTCCCT 62.193 55.000 0.00 0.00 0.00 4.20
1933 1966 1.543065 TTGTACGCCGCCTTTCCCTA 61.543 55.000 0.00 0.00 0.00 3.53
1934 1967 1.520120 GTACGCCGCCTTTCCCTAC 60.520 63.158 0.00 0.00 0.00 3.18
1935 1968 1.983481 TACGCCGCCTTTCCCTACA 60.983 57.895 0.00 0.00 0.00 2.74
1936 1969 1.332144 TACGCCGCCTTTCCCTACAT 61.332 55.000 0.00 0.00 0.00 2.29
1937 1970 1.451387 CGCCGCCTTTCCCTACATT 60.451 57.895 0.00 0.00 0.00 2.71
1938 1971 1.029947 CGCCGCCTTTCCCTACATTT 61.030 55.000 0.00 0.00 0.00 2.32
1939 1972 0.738975 GCCGCCTTTCCCTACATTTC 59.261 55.000 0.00 0.00 0.00 2.17
1940 1973 1.682087 GCCGCCTTTCCCTACATTTCT 60.682 52.381 0.00 0.00 0.00 2.52
1941 1974 2.017049 CCGCCTTTCCCTACATTTCTG 58.983 52.381 0.00 0.00 0.00 3.02
1942 1975 2.618045 CCGCCTTTCCCTACATTTCTGT 60.618 50.000 0.00 0.00 39.49 3.41
1943 1976 3.370103 CCGCCTTTCCCTACATTTCTGTA 60.370 47.826 0.00 0.00 36.79 2.74
1944 1977 4.258543 CGCCTTTCCCTACATTTCTGTAA 58.741 43.478 0.00 0.00 37.41 2.41
1945 1978 4.332819 CGCCTTTCCCTACATTTCTGTAAG 59.667 45.833 0.00 0.00 37.41 2.34
1946 1979 5.497474 GCCTTTCCCTACATTTCTGTAAGA 58.503 41.667 0.00 0.00 44.68 2.10
1958 1991 3.685139 TCTGTAAGAGGCAGTTTCCAG 57.315 47.619 0.00 0.00 38.67 3.86
1959 1992 2.303022 TCTGTAAGAGGCAGTTTCCAGG 59.697 50.000 0.00 0.00 38.67 4.45
1960 1993 2.303022 CTGTAAGAGGCAGTTTCCAGGA 59.697 50.000 0.00 0.00 34.07 3.86
1961 1994 2.038557 TGTAAGAGGCAGTTTCCAGGAC 59.961 50.000 0.00 0.00 0.00 3.85
1962 1995 1.439543 AAGAGGCAGTTTCCAGGACT 58.560 50.000 0.00 0.00 0.00 3.85
1963 1996 1.439543 AGAGGCAGTTTCCAGGACTT 58.560 50.000 0.00 0.00 0.00 3.01
1964 1997 1.072965 AGAGGCAGTTTCCAGGACTTG 59.927 52.381 0.00 0.00 0.00 3.16
1965 1998 1.072331 GAGGCAGTTTCCAGGACTTGA 59.928 52.381 0.00 0.00 0.00 3.02
1966 1999 1.494721 AGGCAGTTTCCAGGACTTGAA 59.505 47.619 0.00 0.00 0.00 2.69
1967 2000 2.108952 AGGCAGTTTCCAGGACTTGAAT 59.891 45.455 0.00 0.00 0.00 2.57
1968 2001 2.489722 GGCAGTTTCCAGGACTTGAATC 59.510 50.000 0.00 0.00 0.00 2.52
1969 2002 2.489722 GCAGTTTCCAGGACTTGAATCC 59.510 50.000 0.00 0.00 39.28 3.01
1970 2003 2.744202 CAGTTTCCAGGACTTGAATCCG 59.256 50.000 0.00 0.00 44.22 4.18
1971 2004 2.372172 AGTTTCCAGGACTTGAATCCGT 59.628 45.455 0.00 0.00 44.22 4.69
1972 2005 2.472695 TTCCAGGACTTGAATCCGTG 57.527 50.000 0.00 0.00 44.22 4.94
1973 2006 1.639722 TCCAGGACTTGAATCCGTGA 58.360 50.000 0.00 0.00 44.22 4.35
1974 2007 1.275291 TCCAGGACTTGAATCCGTGAC 59.725 52.381 0.00 0.00 44.22 3.67
1975 2008 1.676014 CCAGGACTTGAATCCGTGACC 60.676 57.143 0.00 0.00 44.22 4.02
1976 2009 1.276421 CAGGACTTGAATCCGTGACCT 59.724 52.381 0.00 0.00 44.22 3.85
1977 2010 1.550976 AGGACTTGAATCCGTGACCTC 59.449 52.381 0.00 0.00 44.22 3.85
1978 2011 1.275291 GGACTTGAATCCGTGACCTCA 59.725 52.381 0.00 0.00 0.00 3.86
1979 2012 2.093447 GGACTTGAATCCGTGACCTCAT 60.093 50.000 0.00 0.00 0.00 2.90
1980 2013 2.932614 GACTTGAATCCGTGACCTCATG 59.067 50.000 0.00 0.00 0.00 3.07
1991 2024 2.154139 ACCTCATGGTCACAAGGCA 58.846 52.632 0.00 0.00 44.78 4.75
1992 2025 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.00 44.78 4.85
1993 2026 1.310933 CCTCATGGTCACAAGGCAGC 61.311 60.000 0.00 0.00 0.00 5.25
1994 2027 0.607217 CTCATGGTCACAAGGCAGCA 60.607 55.000 0.00 0.00 0.00 4.41
1995 2028 0.607217 TCATGGTCACAAGGCAGCAG 60.607 55.000 0.00 0.00 0.00 4.24
1996 2029 1.975407 ATGGTCACAAGGCAGCAGC 60.975 57.895 0.00 0.00 41.10 5.25
1997 2030 2.282040 GGTCACAAGGCAGCAGCT 60.282 61.111 0.00 0.00 41.70 4.24
1998 2031 1.900498 GGTCACAAGGCAGCAGCTT 60.900 57.895 0.00 0.00 41.70 3.74
1999 2032 1.458639 GGTCACAAGGCAGCAGCTTT 61.459 55.000 0.00 0.00 41.17 3.51
2000 2033 1.238439 GTCACAAGGCAGCAGCTTTA 58.762 50.000 0.00 0.00 38.07 1.85
2001 2034 1.068954 GTCACAAGGCAGCAGCTTTAC 60.069 52.381 0.00 0.00 38.07 2.01
2002 2035 0.242017 CACAAGGCAGCAGCTTTACC 59.758 55.000 0.00 0.00 38.07 2.85
2003 2036 0.178992 ACAAGGCAGCAGCTTTACCA 60.179 50.000 0.00 0.00 38.07 3.25
2004 2037 0.242017 CAAGGCAGCAGCTTTACCAC 59.758 55.000 0.00 0.00 38.07 4.16
2005 2038 0.111253 AAGGCAGCAGCTTTACCACT 59.889 50.000 0.00 0.00 38.40 4.00
2006 2039 0.607489 AGGCAGCAGCTTTACCACTG 60.607 55.000 0.00 0.00 41.70 3.66
2010 2043 2.870372 CAGCTTTACCACTGCGCC 59.130 61.111 4.18 0.00 0.00 6.53
2011 2044 1.965930 CAGCTTTACCACTGCGCCA 60.966 57.895 4.18 0.00 0.00 5.69
2012 2045 1.228124 AGCTTTACCACTGCGCCAA 60.228 52.632 4.18 0.00 0.00 4.52
2013 2046 1.210155 GCTTTACCACTGCGCCAAG 59.790 57.895 4.18 0.00 0.00 3.61
2014 2047 1.875963 CTTTACCACTGCGCCAAGG 59.124 57.895 4.18 6.21 0.00 3.61
2015 2048 2.200170 CTTTACCACTGCGCCAAGGC 62.200 60.000 4.18 0.00 37.85 4.35
2016 2049 2.690653 TTTACCACTGCGCCAAGGCT 62.691 55.000 4.18 0.00 39.32 4.58
2017 2050 3.605749 TACCACTGCGCCAAGGCTC 62.606 63.158 4.18 1.20 39.32 4.70
2029 2062 3.069778 AGGCTCCCCTTCGTGAAC 58.930 61.111 0.00 0.00 38.74 3.18
2030 2063 1.536662 AGGCTCCCCTTCGTGAACT 60.537 57.895 0.00 0.00 38.74 3.01
2031 2064 0.252103 AGGCTCCCCTTCGTGAACTA 60.252 55.000 0.00 0.00 38.74 2.24
2032 2065 0.611714 GGCTCCCCTTCGTGAACTAA 59.388 55.000 0.00 0.00 0.00 2.24
2033 2066 1.002773 GGCTCCCCTTCGTGAACTAAA 59.997 52.381 0.00 0.00 0.00 1.85
2034 2067 2.355818 GGCTCCCCTTCGTGAACTAAAT 60.356 50.000 0.00 0.00 0.00 1.40
2035 2068 3.344515 GCTCCCCTTCGTGAACTAAATT 58.655 45.455 0.00 0.00 0.00 1.82
2036 2069 3.756963 GCTCCCCTTCGTGAACTAAATTT 59.243 43.478 0.00 0.00 0.00 1.82
2037 2070 4.379499 GCTCCCCTTCGTGAACTAAATTTG 60.379 45.833 0.00 0.00 0.00 2.32
2038 2071 4.721132 TCCCCTTCGTGAACTAAATTTGT 58.279 39.130 0.00 0.00 0.00 2.83
2191 2224 5.344743 TGTCTACCTTCAATCTCCACATC 57.655 43.478 0.00 0.00 0.00 3.06
2192 2225 4.162320 TGTCTACCTTCAATCTCCACATCC 59.838 45.833 0.00 0.00 0.00 3.51
2193 2226 4.407296 GTCTACCTTCAATCTCCACATCCT 59.593 45.833 0.00 0.00 0.00 3.24
2194 2227 3.641434 ACCTTCAATCTCCACATCCTG 57.359 47.619 0.00 0.00 0.00 3.86
2195 2228 2.240667 ACCTTCAATCTCCACATCCTGG 59.759 50.000 0.00 0.00 42.29 4.45
2287 2320 2.107141 CGATCTTCGGGGGACTGC 59.893 66.667 0.00 0.00 36.00 4.40
2292 2325 1.186917 TCTTCGGGGGACTGCGTAAA 61.187 55.000 0.00 0.00 36.33 2.01
2321 2354 1.917273 TCCGGCTAAAATCGTTCTCG 58.083 50.000 0.00 0.00 38.55 4.04
2326 2359 2.603560 GGCTAAAATCGTTCTCGTCCTG 59.396 50.000 0.00 0.00 38.33 3.86
2331 2364 5.744666 AAAATCGTTCTCGTCCTGAAAAA 57.255 34.783 0.00 0.00 38.33 1.94
2338 2371 0.320421 TCGTCCTGAAAAAGCCCGAG 60.320 55.000 0.00 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
349 351 2.281070 CTGTGGCTGTGGCTTCGT 60.281 61.111 0.00 0.00 38.73 3.85
432 434 7.450074 TCCTTTAGCTGAAACTCTCACAAATA 58.550 34.615 0.00 0.00 0.00 1.40
454 456 1.428912 TGCTCACTTTTCCCCATTCCT 59.571 47.619 0.00 0.00 0.00 3.36
478 480 5.915196 GCTCAGTTTTCTTCACGCTTTAAAT 59.085 36.000 0.00 0.00 0.00 1.40
482 484 2.682856 TGCTCAGTTTTCTTCACGCTTT 59.317 40.909 0.00 0.00 0.00 3.51
490 492 7.391148 TTTCTTAGTTGTGCTCAGTTTTCTT 57.609 32.000 0.00 0.00 0.00 2.52
491 493 7.573968 ATTTCTTAGTTGTGCTCAGTTTTCT 57.426 32.000 0.00 0.00 0.00 2.52
512 514 3.756082 TTCCATCTGTGCCCCTAATTT 57.244 42.857 0.00 0.00 0.00 1.82
517 519 1.133668 GCTTATTCCATCTGTGCCCCT 60.134 52.381 0.00 0.00 0.00 4.79
564 568 0.902984 TTCTTGGCTCTGTAGGGCGA 60.903 55.000 0.00 0.00 0.00 5.54
588 592 0.538584 TGCGTCCATGATCTTCAGCT 59.461 50.000 0.00 0.00 0.00 4.24
612 616 3.092301 CCATCTTTTCCAGGGAAAGGTC 58.908 50.000 19.01 0.00 43.75 3.85
613 619 2.823152 GCCATCTTTTCCAGGGAAAGGT 60.823 50.000 19.01 10.35 43.75 3.50
655 661 1.945394 GGAGATTGATGCAGTGCGATT 59.055 47.619 11.20 0.00 0.00 3.34
662 668 3.324117 CGTATCTGGGAGATTGATGCAG 58.676 50.000 0.00 0.00 36.20 4.41
666 672 2.564947 GAGGCGTATCTGGGAGATTGAT 59.435 50.000 0.00 0.00 36.20 2.57
671 677 1.528542 CGGAGGCGTATCTGGGAGA 60.529 63.158 0.00 0.00 0.00 3.71
672 678 2.565645 CCGGAGGCGTATCTGGGAG 61.566 68.421 0.00 0.00 46.14 4.30
691 704 4.811557 CAGGGGATGACGAGAACTTAATTC 59.188 45.833 0.00 0.00 37.62 2.17
697 710 1.617947 GCCAGGGGATGACGAGAACT 61.618 60.000 0.00 0.00 0.00 3.01
698 711 1.153349 GCCAGGGGATGACGAGAAC 60.153 63.158 0.00 0.00 0.00 3.01
699 712 2.367202 GGCCAGGGGATGACGAGAA 61.367 63.158 0.00 0.00 0.00 2.87
741 754 0.179119 GAGGCCAGTTTGATGCATGC 60.179 55.000 11.82 11.82 0.00 4.06
742 755 0.099968 CGAGGCCAGTTTGATGCATG 59.900 55.000 2.46 0.00 0.00 4.06
743 756 1.660560 GCGAGGCCAGTTTGATGCAT 61.661 55.000 5.01 0.00 0.00 3.96
744 757 2.334946 GCGAGGCCAGTTTGATGCA 61.335 57.895 5.01 0.00 0.00 3.96
745 758 2.042831 AGCGAGGCCAGTTTGATGC 61.043 57.895 5.01 0.00 0.00 3.91
748 761 1.301716 GACAGCGAGGCCAGTTTGA 60.302 57.895 5.01 0.00 0.00 2.69
776 789 0.320771 ATGCGTCGCCACTTTTCTCT 60.321 50.000 15.88 0.00 0.00 3.10
783 796 2.202932 GATGGATGCGTCGCCACT 60.203 61.111 15.88 0.00 36.92 4.00
787 800 2.202932 AGGTGATGGATGCGTCGC 60.203 61.111 11.10 11.10 0.00 5.19
789 802 0.729116 CAACAGGTGATGGATGCGTC 59.271 55.000 0.00 0.00 0.00 5.19
801 814 1.600636 CGTGCCATGGTCAACAGGT 60.601 57.895 14.67 0.00 0.00 4.00
856 870 1.874466 GTCTGAAGCTAGCGCCGAC 60.874 63.158 9.55 13.21 36.60 4.79
921 935 3.830192 GCCTTTGCATGCCCCGAG 61.830 66.667 16.68 7.43 37.47 4.63
945 959 2.610374 TGGTGCAGTTTTCTTGTCGTAC 59.390 45.455 0.00 0.00 0.00 3.67
999 1013 1.117994 CAGCCTGCAGAGACCTCATA 58.882 55.000 17.39 0.00 0.00 2.15
1089 1103 4.063967 ATGCCGTTCAGGTCGCGA 62.064 61.111 3.71 3.71 43.70 5.87
1394 1408 4.736896 GCCTCGGACCGTCACACC 62.737 72.222 14.79 0.00 0.00 4.16
1448 1462 1.553248 GCACATACTATATGCCGGGGA 59.447 52.381 2.18 0.00 33.06 4.81
1452 1466 2.938451 CCCATGCACATACTATATGCCG 59.062 50.000 0.00 0.00 38.63 5.69
1557 1571 0.582005 CTTGCTTATTCCGGCGCTAC 59.418 55.000 7.64 0.00 0.00 3.58
1774 1802 2.289631 ACTGAGACGGATTTGACATGCA 60.290 45.455 0.00 0.00 0.00 3.96
1818 1851 3.304391 GGCAAATTTAGTTCACGAGCACA 60.304 43.478 0.00 0.00 0.00 4.57
1846 1879 3.643595 TACATGCACTGGGGCTGCC 62.644 63.158 11.05 11.05 33.36 4.85
1847 1880 2.045045 TACATGCACTGGGGCTGC 60.045 61.111 0.00 0.00 35.03 5.25
1848 1881 2.117156 GCTACATGCACTGGGGCTG 61.117 63.158 0.00 0.00 42.31 4.85
1849 1882 2.262774 GAGCTACATGCACTGGGGCT 62.263 60.000 13.29 13.29 45.94 5.19
1850 1883 1.821332 GAGCTACATGCACTGGGGC 60.821 63.158 0.00 0.00 45.94 5.80
1851 1884 1.153086 GGAGCTACATGCACTGGGG 60.153 63.158 0.00 0.00 45.94 4.96
1852 1885 1.153086 GGGAGCTACATGCACTGGG 60.153 63.158 0.00 0.00 45.94 4.45
1853 1886 1.522355 CGGGAGCTACATGCACTGG 60.522 63.158 0.00 0.00 45.94 4.00
1854 1887 4.115279 CGGGAGCTACATGCACTG 57.885 61.111 0.00 0.00 45.94 3.66
1869 1902 3.052082 CAGACCCTGCACAAGCGG 61.052 66.667 0.00 0.00 46.23 5.52
1870 1903 3.052082 CCAGACCCTGCACAAGCG 61.052 66.667 0.00 0.00 46.23 4.68
1871 1904 2.674380 CCCAGACCCTGCACAAGC 60.674 66.667 0.00 0.00 42.57 4.01
1872 1905 2.034687 CCCCAGACCCTGCACAAG 59.965 66.667 0.00 0.00 0.00 3.16
1873 1906 2.067932 CTTCCCCAGACCCTGCACAA 62.068 60.000 0.00 0.00 0.00 3.33
1874 1907 2.449518 TTCCCCAGACCCTGCACA 60.450 61.111 0.00 0.00 0.00 4.57
1875 1908 2.352805 CTTCCCCAGACCCTGCAC 59.647 66.667 0.00 0.00 0.00 4.57
1876 1909 2.935481 CCTTCCCCAGACCCTGCA 60.935 66.667 0.00 0.00 0.00 4.41
1877 1910 3.732849 CCCTTCCCCAGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
1878 1911 2.204151 ACCCTTCCCCAGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
1879 1912 2.125225 GACCCTTCCCCAGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
1880 1913 3.015753 GGACCCTTCCCCAGACCC 61.016 72.222 0.00 0.00 35.57 4.46
1881 1914 3.400054 CGGACCCTTCCCCAGACC 61.400 72.222 0.00 0.00 38.99 3.85
1882 1915 2.284405 TCGGACCCTTCCCCAGAC 60.284 66.667 0.00 0.00 38.99 3.51
1883 1916 2.284405 GTCGGACCCTTCCCCAGA 60.284 66.667 0.00 0.00 38.99 3.86
1884 1917 3.400054 GGTCGGACCCTTCCCCAG 61.400 72.222 16.55 0.00 38.99 4.45
1885 1918 4.257810 TGGTCGGACCCTTCCCCA 62.258 66.667 23.81 0.69 38.99 4.96
1886 1919 3.714001 GTGGTCGGACCCTTCCCC 61.714 72.222 23.81 0.00 38.99 4.81
1887 1920 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
1888 1921 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
1889 1922 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
1890 1923 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
1891 1924 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
1892 1925 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
1893 1926 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
1894 1927 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
1899 1932 3.867216 GCGTACAATAGACCCAAAGTGGT 60.867 47.826 0.00 0.00 42.79 4.16
1900 1933 2.676342 GCGTACAATAGACCCAAAGTGG 59.324 50.000 0.00 0.00 37.25 4.00
1901 1934 2.676342 GGCGTACAATAGACCCAAAGTG 59.324 50.000 0.00 0.00 0.00 3.16
1902 1935 2.675889 CGGCGTACAATAGACCCAAAGT 60.676 50.000 0.00 0.00 0.00 2.66
1903 1936 1.931172 CGGCGTACAATAGACCCAAAG 59.069 52.381 0.00 0.00 0.00 2.77
1904 1937 2.008045 GCGGCGTACAATAGACCCAAA 61.008 52.381 9.37 0.00 0.00 3.28
1905 1938 0.460635 GCGGCGTACAATAGACCCAA 60.461 55.000 9.37 0.00 0.00 4.12
1906 1939 1.142314 GCGGCGTACAATAGACCCA 59.858 57.895 9.37 0.00 0.00 4.51
1907 1940 1.593479 GGCGGCGTACAATAGACCC 60.593 63.158 9.37 0.00 0.00 4.46
1908 1941 0.179092 AAGGCGGCGTACAATAGACC 60.179 55.000 9.37 0.00 0.00 3.85
1909 1942 1.591619 GAAAGGCGGCGTACAATAGAC 59.408 52.381 9.37 0.00 0.00 2.59
1910 1943 1.472026 GGAAAGGCGGCGTACAATAGA 60.472 52.381 9.37 0.00 0.00 1.98
1911 1944 0.935196 GGAAAGGCGGCGTACAATAG 59.065 55.000 9.37 0.00 0.00 1.73
1912 1945 0.462403 GGGAAAGGCGGCGTACAATA 60.462 55.000 9.37 0.00 0.00 1.90
1913 1946 1.747745 GGGAAAGGCGGCGTACAAT 60.748 57.895 9.37 0.00 0.00 2.71
1914 1947 1.543065 TAGGGAAAGGCGGCGTACAA 61.543 55.000 9.37 0.00 0.00 2.41
1915 1948 1.983481 TAGGGAAAGGCGGCGTACA 60.983 57.895 9.37 0.00 0.00 2.90
1916 1949 1.520120 GTAGGGAAAGGCGGCGTAC 60.520 63.158 9.37 1.56 0.00 3.67
1917 1950 1.332144 ATGTAGGGAAAGGCGGCGTA 61.332 55.000 9.37 0.00 0.00 4.42
1918 1951 2.193087 AATGTAGGGAAAGGCGGCGT 62.193 55.000 9.37 0.00 0.00 5.68
1919 1952 1.029947 AAATGTAGGGAAAGGCGGCG 61.030 55.000 0.51 0.51 0.00 6.46
1920 1953 0.738975 GAAATGTAGGGAAAGGCGGC 59.261 55.000 0.00 0.00 0.00 6.53
1921 1954 2.017049 CAGAAATGTAGGGAAAGGCGG 58.983 52.381 0.00 0.00 0.00 6.13
1922 1955 2.711542 ACAGAAATGTAGGGAAAGGCG 58.288 47.619 0.00 0.00 0.00 5.52
1923 1956 5.497474 TCTTACAGAAATGTAGGGAAAGGC 58.503 41.667 0.00 0.00 0.00 4.35
1924 1957 6.116126 CCTCTTACAGAAATGTAGGGAAAGG 58.884 44.000 0.00 0.00 0.00 3.11
1925 1958 5.586643 GCCTCTTACAGAAATGTAGGGAAAG 59.413 44.000 0.00 0.00 0.00 2.62
1926 1959 5.013704 TGCCTCTTACAGAAATGTAGGGAAA 59.986 40.000 0.00 0.00 0.00 3.13
1927 1960 4.534500 TGCCTCTTACAGAAATGTAGGGAA 59.466 41.667 0.00 0.00 0.00 3.97
1928 1961 4.101114 TGCCTCTTACAGAAATGTAGGGA 58.899 43.478 0.00 0.00 0.00 4.20
1929 1962 4.080863 ACTGCCTCTTACAGAAATGTAGGG 60.081 45.833 0.00 0.66 38.55 3.53
1930 1963 5.091261 ACTGCCTCTTACAGAAATGTAGG 57.909 43.478 0.00 0.00 38.55 3.18
1931 1964 6.092807 GGAAACTGCCTCTTACAGAAATGTAG 59.907 42.308 0.00 0.00 38.55 2.74
1932 1965 5.938125 GGAAACTGCCTCTTACAGAAATGTA 59.062 40.000 0.00 0.00 38.55 2.29
1933 1966 4.762251 GGAAACTGCCTCTTACAGAAATGT 59.238 41.667 0.00 0.00 38.55 2.71
1934 1967 4.761739 TGGAAACTGCCTCTTACAGAAATG 59.238 41.667 0.00 0.00 38.55 2.32
1935 1968 4.985538 TGGAAACTGCCTCTTACAGAAAT 58.014 39.130 0.00 0.00 38.55 2.17
1936 1969 4.389374 CTGGAAACTGCCTCTTACAGAAA 58.611 43.478 0.00 0.00 38.55 2.52
1937 1970 3.244561 CCTGGAAACTGCCTCTTACAGAA 60.245 47.826 3.23 0.00 38.55 3.02
1938 1971 2.303022 CCTGGAAACTGCCTCTTACAGA 59.697 50.000 3.23 0.00 38.55 3.41
1939 1972 2.303022 TCCTGGAAACTGCCTCTTACAG 59.697 50.000 0.00 0.00 41.08 2.74
1940 1973 2.038557 GTCCTGGAAACTGCCTCTTACA 59.961 50.000 0.00 0.00 0.00 2.41
1941 1974 2.303311 AGTCCTGGAAACTGCCTCTTAC 59.697 50.000 0.00 0.00 0.00 2.34
1942 1975 2.621070 AGTCCTGGAAACTGCCTCTTA 58.379 47.619 0.00 0.00 0.00 2.10
1943 1976 1.439543 AGTCCTGGAAACTGCCTCTT 58.560 50.000 0.00 0.00 0.00 2.85
1944 1977 1.072965 CAAGTCCTGGAAACTGCCTCT 59.927 52.381 0.00 0.00 0.00 3.69
1945 1978 1.072331 TCAAGTCCTGGAAACTGCCTC 59.928 52.381 0.00 0.00 0.00 4.70
1946 1979 1.140312 TCAAGTCCTGGAAACTGCCT 58.860 50.000 0.00 0.00 0.00 4.75
1947 1980 1.981256 TTCAAGTCCTGGAAACTGCC 58.019 50.000 0.00 0.00 0.00 4.85
1948 1981 2.489722 GGATTCAAGTCCTGGAAACTGC 59.510 50.000 0.00 0.00 35.32 4.40
1949 1982 2.744202 CGGATTCAAGTCCTGGAAACTG 59.256 50.000 0.00 0.00 36.07 3.16
1950 1983 2.372172 ACGGATTCAAGTCCTGGAAACT 59.628 45.455 0.00 0.00 36.07 2.66
1951 1984 2.484264 CACGGATTCAAGTCCTGGAAAC 59.516 50.000 0.00 0.00 36.07 2.78
1952 1985 2.370519 TCACGGATTCAAGTCCTGGAAA 59.629 45.455 0.00 0.00 36.07 3.13
1953 1986 1.974957 TCACGGATTCAAGTCCTGGAA 59.025 47.619 0.00 0.00 36.07 3.53
1954 1987 1.275291 GTCACGGATTCAAGTCCTGGA 59.725 52.381 0.00 0.00 36.07 3.86
1955 1988 1.676014 GGTCACGGATTCAAGTCCTGG 60.676 57.143 0.00 0.00 36.07 4.45
1956 1989 1.276421 AGGTCACGGATTCAAGTCCTG 59.724 52.381 0.00 0.00 36.07 3.86
1957 1990 1.550976 GAGGTCACGGATTCAAGTCCT 59.449 52.381 0.00 0.00 36.07 3.85
1958 1991 1.275291 TGAGGTCACGGATTCAAGTCC 59.725 52.381 0.00 0.00 34.82 3.85
1959 1992 2.743636 TGAGGTCACGGATTCAAGTC 57.256 50.000 0.00 0.00 0.00 3.01
1960 1993 2.355108 CCATGAGGTCACGGATTCAAGT 60.355 50.000 0.00 0.00 29.05 3.16
1961 1994 2.283298 CCATGAGGTCACGGATTCAAG 58.717 52.381 0.00 0.00 29.05 3.02
1962 1995 2.401583 CCATGAGGTCACGGATTCAA 57.598 50.000 0.00 0.00 29.05 2.69
1974 2007 1.310933 GCTGCCTTGTGACCATGAGG 61.311 60.000 0.00 0.00 42.21 3.86
1975 2008 0.607217 TGCTGCCTTGTGACCATGAG 60.607 55.000 0.00 0.00 0.00 2.90
1976 2009 0.607217 CTGCTGCCTTGTGACCATGA 60.607 55.000 0.00 0.00 0.00 3.07
1977 2010 1.880894 CTGCTGCCTTGTGACCATG 59.119 57.895 0.00 0.00 0.00 3.66
1978 2011 1.975407 GCTGCTGCCTTGTGACCAT 60.975 57.895 3.85 0.00 0.00 3.55
1979 2012 2.595463 GCTGCTGCCTTGTGACCA 60.595 61.111 3.85 0.00 0.00 4.02
1980 2013 1.458639 AAAGCTGCTGCCTTGTGACC 61.459 55.000 12.44 0.00 40.80 4.02
1981 2014 1.068954 GTAAAGCTGCTGCCTTGTGAC 60.069 52.381 12.44 0.00 40.80 3.67
1982 2015 1.238439 GTAAAGCTGCTGCCTTGTGA 58.762 50.000 12.44 0.00 40.80 3.58
1983 2016 0.242017 GGTAAAGCTGCTGCCTTGTG 59.758 55.000 12.44 0.00 40.80 3.33
1984 2017 0.178992 TGGTAAAGCTGCTGCCTTGT 60.179 50.000 12.44 0.00 40.80 3.16
1985 2018 0.242017 GTGGTAAAGCTGCTGCCTTG 59.758 55.000 12.44 0.00 40.80 3.61
1986 2019 0.111253 AGTGGTAAAGCTGCTGCCTT 59.889 50.000 12.44 8.34 40.80 4.35
1987 2020 0.607489 CAGTGGTAAAGCTGCTGCCT 60.607 55.000 12.44 2.45 40.80 4.75
1988 2021 1.878775 CAGTGGTAAAGCTGCTGCC 59.121 57.895 12.44 7.07 40.80 4.85
1993 2026 1.514678 TTGGCGCAGTGGTAAAGCTG 61.515 55.000 10.83 0.00 35.93 4.24
1994 2027 1.228124 TTGGCGCAGTGGTAAAGCT 60.228 52.632 10.83 0.00 0.00 3.74
1995 2028 1.210155 CTTGGCGCAGTGGTAAAGC 59.790 57.895 10.83 0.00 0.00 3.51
1996 2029 1.875963 CCTTGGCGCAGTGGTAAAG 59.124 57.895 10.83 0.71 0.00 1.85
1997 2030 2.265182 GCCTTGGCGCAGTGGTAAA 61.265 57.895 10.83 0.00 0.00 2.01
1998 2031 2.671619 GCCTTGGCGCAGTGGTAA 60.672 61.111 10.83 0.00 0.00 2.85
1999 2032 3.605749 GAGCCTTGGCGCAGTGGTA 62.606 63.158 10.83 0.00 0.00 3.25
2008 2041 4.035102 ACGAAGGGGAGCCTTGGC 62.035 66.667 2.97 2.97 0.00 4.52
2009 2042 2.045926 CACGAAGGGGAGCCTTGG 60.046 66.667 0.00 0.00 0.00 3.61
2010 2043 0.955919 GTTCACGAAGGGGAGCCTTG 60.956 60.000 0.00 0.00 0.00 3.61
2011 2044 1.128188 AGTTCACGAAGGGGAGCCTT 61.128 55.000 0.00 0.00 0.00 4.35
2012 2045 0.252103 TAGTTCACGAAGGGGAGCCT 60.252 55.000 0.00 0.00 0.00 4.58
2013 2046 0.611714 TTAGTTCACGAAGGGGAGCC 59.388 55.000 0.00 0.00 0.00 4.70
2014 2047 2.467566 TTTAGTTCACGAAGGGGAGC 57.532 50.000 0.00 0.00 0.00 4.70
2015 2048 4.760204 ACAAATTTAGTTCACGAAGGGGAG 59.240 41.667 0.00 0.00 0.00 4.30
2016 2049 4.721132 ACAAATTTAGTTCACGAAGGGGA 58.279 39.130 0.00 0.00 0.00 4.81
2017 2050 4.517453 TGACAAATTTAGTTCACGAAGGGG 59.483 41.667 0.00 0.00 0.00 4.79
2018 2051 5.682943 TGACAAATTTAGTTCACGAAGGG 57.317 39.130 0.00 0.00 0.00 3.95
2019 2052 9.672086 TTTTATGACAAATTTAGTTCACGAAGG 57.328 29.630 0.00 0.00 0.00 3.46
2143 2176 6.483307 GCACAATCTCCTACTAATGCATTGTA 59.517 38.462 22.27 18.40 32.54 2.41
2191 2224 6.003950 TCACCTATGTTTTCTTCTTTCCAGG 58.996 40.000 0.00 0.00 0.00 4.45
2192 2225 7.693969 ATCACCTATGTTTTCTTCTTTCCAG 57.306 36.000 0.00 0.00 0.00 3.86
2193 2226 7.944554 AGAATCACCTATGTTTTCTTCTTTCCA 59.055 33.333 0.00 0.00 30.32 3.53
2194 2227 8.341892 AGAATCACCTATGTTTTCTTCTTTCC 57.658 34.615 0.00 0.00 30.32 3.13
2195 2228 9.003658 TGAGAATCACCTATGTTTTCTTCTTTC 57.996 33.333 0.00 0.00 42.56 2.62
2196 2229 8.924511 TGAGAATCACCTATGTTTTCTTCTTT 57.075 30.769 0.00 0.00 42.56 2.52
2277 2310 1.606885 TAGGTTTACGCAGTCCCCCG 61.607 60.000 0.00 0.00 43.93 5.73
2287 2320 1.662122 GCCGGATGTGTTAGGTTTACG 59.338 52.381 5.05 0.00 0.00 3.18
2292 2325 3.706600 TTTTAGCCGGATGTGTTAGGT 57.293 42.857 5.05 0.00 0.00 3.08
2321 2354 1.587043 GCCTCGGGCTTTTTCAGGAC 61.587 60.000 7.58 0.00 46.69 3.85
2338 2371 1.594331 AGTCTTCGACTTTTGTGGCC 58.406 50.000 0.00 0.00 40.28 5.36


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

AutoCloner maintained by Alex Coulton.