Multiple sequence alignment - TraesCS5B01G166700

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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 TraesCS5B01G166700 chr5B 100.000 2625 0 0 1 2625 308924037 308921413 0.000000e+00 4848.0
1 TraesCS5B01G166700 chr5B 79.144 187 29 4 1505 1691 559760328 559760504 1.280000e-23 121.0
2 TraesCS5B01G166700 chr5D 88.800 2000 111 53 1 1931 273115810 273113855 0.000000e+00 2348.0
3 TraesCS5B01G166700 chr5D 86.777 484 62 2 2143 2625 273113640 273113158 2.970000e-149 538.0
4 TraesCS5B01G166700 chr5D 81.959 194 30 4 1505 1697 52068573 52068762 2.700000e-35 159.0
5 TraesCS5B01G166700 chr5D 95.000 40 1 1 1581 1620 352699092 352699054 7.840000e-06 62.1
6 TraesCS5B01G166700 chr5A 91.098 1539 81 29 1 1505 362416245 362414729 0.000000e+00 2032.0
7 TraesCS5B01G166700 chr5A 90.000 50 5 0 1644 1693 692755971 692756020 6.060000e-07 65.8
8 TraesCS5B01G166700 chr6B 84.416 154 19 4 2475 2625 715387107 715387258 2.110000e-31 147.0
9 TraesCS5B01G166700 chr6B 79.592 98 11 5 2000 2089 515780736 515780832 7.840000e-06 62.1
10 TraesCS5B01G166700 chr2D 78.632 234 37 9 1506 1738 34239236 34239457 2.720000e-30 143.0
11 TraesCS5B01G166700 chr2D 77.000 200 41 5 2429 2625 637578716 637578519 2.760000e-20 110.0
12 TraesCS5B01G166700 chr3D 82.707 133 14 4 1559 1691 8288094 8288217 2.760000e-20 110.0
13 TraesCS5B01G166700 chr4A 79.518 166 23 3 1532 1697 674359630 674359784 9.930000e-20 108.0
14 TraesCS5B01G166700 chr2A 78.788 165 32 3 2463 2625 762470167 762470330 9.930000e-20 108.0
15 TraesCS5B01G166700 chr3B 81.022 137 22 4 2489 2623 367667338 367667472 3.570000e-19 106.0
16 TraesCS5B01G166700 chr7B 79.433 141 24 5 2488 2625 509136797 509136659 7.730000e-16 95.3
17 TraesCS5B01G166700 chr7B 90.476 63 5 1 2173 2234 699932755 699932817 6.020000e-12 82.4
18 TraesCS5B01G166700 chr7B 100.000 33 0 0 1587 1619 478890008 478890040 7.840000e-06 62.1


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 TraesCS5B01G166700 chr5B 308921413 308924037 2624 True 4848 4848 100.0000 1 2625 1 chr5B.!!$R1 2624
1 TraesCS5B01G166700 chr5D 273113158 273115810 2652 True 1443 2348 87.7885 1 2625 2 chr5D.!!$R2 2624
2 TraesCS5B01G166700 chr5A 362414729 362416245 1516 True 2032 2032 91.0980 1 1505 1 chr5A.!!$R1 1504

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
553 568 0.680921 ATTGTAACCGCTGGCTGCAT 60.681 50.0 16.76 4.55 43.06 3.96 F
566 581 0.955178 GCTGCATAGCTCGAGTAGGA 59.045 55.0 15.13 2.17 46.57 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1584 1650 0.030101 TTGCCGTGCTTGCAAACTAC 59.970 50.0 0.0 0.0 45.11 2.73 R
1947 2038 0.047176 TCCTCCTCCTCCTCCTCTCT 59.953 60.0 0.0 0.0 0.00 3.10 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
45 53 3.058016 ACACATTGGCGAGTTTCTGATTG 60.058 43.478 0.00 0.00 0.00 2.67
143 153 3.254014 TTCGGGTTCGTCGTCGGAC 62.254 63.158 4.81 4.81 44.07 4.79
173 183 1.307097 GCTACTCGTACGACCATCCT 58.693 55.000 15.28 0.00 0.00 3.24
392 402 2.031870 ACGATCGAAGGTCCATGATGA 58.968 47.619 24.34 0.00 0.00 2.92
413 423 3.535561 ACCTTGTTTCCTGCTCATATCG 58.464 45.455 0.00 0.00 0.00 2.92
429 439 6.458888 GCTCATATCGAAGATCGTCATGGATA 60.459 42.308 9.37 8.00 45.12 2.59
451 461 2.301009 TGATCCATGATGATCGGAGTGG 59.699 50.000 0.00 1.73 43.34 4.00
553 568 0.680921 ATTGTAACCGCTGGCTGCAT 60.681 50.000 16.76 4.55 43.06 3.96
566 581 0.955178 GCTGCATAGCTCGAGTAGGA 59.045 55.000 15.13 2.17 46.57 2.94
567 582 1.543802 GCTGCATAGCTCGAGTAGGAT 59.456 52.381 15.13 0.00 46.57 3.24
568 583 2.415357 GCTGCATAGCTCGAGTAGGATC 60.415 54.545 15.13 0.00 46.57 3.36
569 584 2.816672 CTGCATAGCTCGAGTAGGATCA 59.183 50.000 15.13 4.96 0.00 2.92
570 585 3.425659 TGCATAGCTCGAGTAGGATCAT 58.574 45.455 15.13 0.00 0.00 2.45
593 608 8.549731 TCATATCATATCGGTAGAGGAAGTAGT 58.450 37.037 0.00 0.00 0.00 2.73
602 617 6.266558 TCGGTAGAGGAAGTAGTAGTAGTAGG 59.733 46.154 0.00 0.00 0.00 3.18
605 626 6.178607 AGAGGAAGTAGTAGTAGTAGGAGC 57.821 45.833 0.00 0.00 0.00 4.70
608 629 4.516321 GGAAGTAGTAGTAGTAGGAGCAGC 59.484 50.000 0.00 0.00 0.00 5.25
664 689 4.322804 CGTGTTGTCGAAGATGGTAGTAAC 59.677 45.833 0.00 0.00 40.67 2.50
668 693 5.496133 TGTCGAAGATGGTAGTAACTAGC 57.504 43.478 0.00 0.00 40.67 3.42
670 695 5.296283 TGTCGAAGATGGTAGTAACTAGCTC 59.704 44.000 0.00 0.00 40.67 4.09
686 711 4.962995 ACTAGCTCTGATTAACCTGGCTAA 59.037 41.667 0.00 0.00 31.81 3.09
687 712 5.604650 ACTAGCTCTGATTAACCTGGCTAAT 59.395 40.000 2.06 2.06 31.81 1.73
688 713 4.712476 AGCTCTGATTAACCTGGCTAATG 58.288 43.478 7.07 0.00 0.00 1.90
689 714 3.817647 GCTCTGATTAACCTGGCTAATGG 59.182 47.826 7.07 1.28 0.00 3.16
747 776 1.949525 CTCATGGCAGGGAAATTACCG 59.050 52.381 0.00 0.00 0.00 4.02
770 799 2.104859 CCCAGACATGAGCAGCACG 61.105 63.158 0.00 0.00 0.00 5.34
794 823 8.458052 ACGAGCTCTATGTATCTTATCAATCAG 58.542 37.037 12.85 0.00 0.00 2.90
795 824 8.458052 CGAGCTCTATGTATCTTATCAATCAGT 58.542 37.037 12.85 0.00 0.00 3.41
829 859 9.635520 GTATATGTATGTATATGTAATCGCCCC 57.364 37.037 0.00 0.00 0.00 5.80
885 921 2.828877 TGTTACCTGAACCACGACTTG 58.171 47.619 0.00 0.00 37.22 3.16
896 933 5.236478 TGAACCACGACTTGAAAGAAATCTC 59.764 40.000 0.00 0.00 0.00 2.75
898 935 3.437049 CCACGACTTGAAAGAAATCTCCC 59.563 47.826 0.00 0.00 0.00 4.30
901 938 4.021719 ACGACTTGAAAGAAATCTCCCGTA 60.022 41.667 0.00 0.00 0.00 4.02
1291 1344 1.290955 CCGTGGAAACGTCAGGCTA 59.709 57.895 0.00 0.00 0.00 3.93
1348 1402 7.819900 TGTTCTAACAGAAAGAAAGAGATAGGC 59.180 37.037 0.00 0.00 35.75 3.93
1410 1468 3.057019 TGTACGTGACTGCATGTTCTTC 58.943 45.455 0.00 0.00 41.35 2.87
1433 1493 7.202016 TCTTTTACCGGGTGTACGTATATAG 57.798 40.000 10.66 0.00 0.00 1.31
1434 1494 6.770785 TCTTTTACCGGGTGTACGTATATAGT 59.229 38.462 10.66 0.00 0.00 2.12
1435 1495 7.934665 TCTTTTACCGGGTGTACGTATATAGTA 59.065 37.037 10.66 0.00 0.00 1.82
1436 1496 7.429636 TTTACCGGGTGTACGTATATAGTAC 57.570 40.000 10.66 12.03 43.34 2.73
1530 1596 7.709149 AAAATCTGACTGGGATTTTTAGGAG 57.291 36.000 8.13 0.00 45.36 3.69
1534 1600 5.488919 TCTGACTGGGATTTTTAGGAGTGAT 59.511 40.000 0.00 0.00 0.00 3.06
1536 1602 7.182026 TCTGACTGGGATTTTTAGGAGTGATAA 59.818 37.037 0.00 0.00 0.00 1.75
1541 1607 8.752005 TGGGATTTTTAGGAGTGATAAATCTG 57.248 34.615 0.00 0.00 36.16 2.90
1544 1610 8.552034 GGATTTTTAGGAGTGATAAATCTGACG 58.448 37.037 0.00 0.00 36.16 4.35
1555 1621 7.281774 AGTGATAAATCTGACGCTTTTCATGAT 59.718 33.333 0.00 0.00 0.00 2.45
1556 1622 7.375280 GTGATAAATCTGACGCTTTTCATGATG 59.625 37.037 0.00 0.00 0.00 3.07
1568 1634 6.144402 CGCTTTTCATGATGGTTTATATTGGC 59.856 38.462 0.00 0.00 0.00 4.52
1570 1636 4.764679 TCATGATGGTTTATATTGGCGC 57.235 40.909 0.00 0.00 0.00 6.53
1578 1644 3.426159 GGTTTATATTGGCGCGATGATGG 60.426 47.826 12.10 0.00 0.00 3.51
1579 1645 1.368641 TATATTGGCGCGATGATGGC 58.631 50.000 12.10 0.00 0.00 4.40
1584 1650 1.659335 GGCGCGATGATGGCAAATG 60.659 57.895 12.10 0.00 0.00 2.32
1600 1666 2.704725 AATGTAGTTTGCAAGCACGG 57.295 45.000 16.04 0.00 0.00 4.94
1610 1676 0.785979 GCAAGCACGGCAATTTTCTG 59.214 50.000 0.00 0.00 0.00 3.02
1614 1680 1.267806 AGCACGGCAATTTTCTGACAG 59.732 47.619 0.00 0.00 0.00 3.51
1665 1731 7.265495 CGTATTTGTCATGTTCGTCAACTAAAC 59.735 37.037 0.00 0.00 33.17 2.01
1666 1732 6.671614 TTTGTCATGTTCGTCAACTAAACT 57.328 33.333 0.00 0.00 33.17 2.66
1669 1735 4.904154 GTCATGTTCGTCAACTAAACTTGC 59.096 41.667 0.00 0.00 33.17 4.01
1677 1743 3.125316 GTCAACTAAACTTGCCATCCTCG 59.875 47.826 0.00 0.00 0.00 4.63
1680 1746 3.600388 ACTAAACTTGCCATCCTCGAAG 58.400 45.455 0.00 0.00 0.00 3.79
1685 1751 2.224523 ACTTGCCATCCTCGAAGAACAA 60.225 45.455 0.00 0.00 34.09 2.83
1693 1759 5.464168 CATCCTCGAAGAACAAAATTTGCT 58.536 37.500 5.52 0.00 34.09 3.91
1696 1762 6.611381 TCCTCGAAGAACAAAATTTGCTATG 58.389 36.000 5.52 0.00 34.09 2.23
1699 1765 7.361713 CCTCGAAGAACAAAATTTGCTATGGTA 60.362 37.037 5.52 0.00 34.09 3.25
1783 1872 4.379082 GGAATAACTGGGTGTTGTAAAGCG 60.379 45.833 0.00 0.00 39.55 4.68
1784 1873 2.047002 AACTGGGTGTTGTAAAGCGT 57.953 45.000 0.00 0.00 37.52 5.07
1795 1884 5.398122 GTGTTGTAAAGCGTGTACGTACTTA 59.602 40.000 25.12 12.71 42.22 2.24
1796 1885 6.088085 GTGTTGTAAAGCGTGTACGTACTTAT 59.912 38.462 25.12 7.29 42.22 1.73
1797 1886 6.087952 TGTTGTAAAGCGTGTACGTACTTATG 59.912 38.462 25.12 13.09 42.22 1.90
1798 1887 5.094812 TGTAAAGCGTGTACGTACTTATGG 58.905 41.667 25.12 11.33 42.22 2.74
1799 1888 4.439305 AAAGCGTGTACGTACTTATGGA 57.561 40.909 25.12 2.11 42.22 3.41
1800 1889 4.439305 AAGCGTGTACGTACTTATGGAA 57.561 40.909 25.12 1.36 42.22 3.53
1809 1898 4.510571 ACGTACTTATGGAAATGGGTGTC 58.489 43.478 0.00 0.00 0.00 3.67
1813 1902 3.333680 ACTTATGGAAATGGGTGTCAGGT 59.666 43.478 0.00 0.00 0.00 4.00
1819 1908 2.137177 AATGGGTGTCAGGTTCCCCG 62.137 60.000 0.00 0.00 40.20 5.73
1822 1911 2.814835 GGTGTCAGGTTCCCCGTGT 61.815 63.158 0.00 0.00 35.12 4.49
1856 1945 2.227865 ACCAACATTCGATGAAAACCGG 59.772 45.455 0.00 0.00 0.00 5.28
1857 1946 2.250188 CAACATTCGATGAAAACCGGC 58.750 47.619 0.00 0.00 0.00 6.13
1858 1947 1.529226 ACATTCGATGAAAACCGGCA 58.471 45.000 0.00 0.00 0.00 5.69
1866 1955 2.762535 TGAAAACCGGCAAAAACCAA 57.237 40.000 0.00 0.00 0.00 3.67
1868 1957 2.233922 TGAAAACCGGCAAAAACCAAGA 59.766 40.909 0.00 0.00 0.00 3.02
1869 1958 2.303163 AAACCGGCAAAAACCAAGAC 57.697 45.000 0.00 0.00 0.00 3.01
1874 1963 3.056891 ACCGGCAAAAACCAAGACATATG 60.057 43.478 0.00 0.00 0.00 1.78
1875 1964 3.510719 CGGCAAAAACCAAGACATATGG 58.489 45.455 7.80 0.00 43.84 2.74
1877 1966 4.321601 CGGCAAAAACCAAGACATATGGAA 60.322 41.667 7.80 0.00 40.56 3.53
1878 1967 4.929211 GGCAAAAACCAAGACATATGGAAC 59.071 41.667 7.80 0.00 40.56 3.62
1880 1969 5.510520 GCAAAAACCAAGACATATGGAACCA 60.511 40.000 7.80 0.00 40.56 3.67
1881 1970 6.700352 CAAAAACCAAGACATATGGAACCAT 58.300 36.000 7.80 11.20 40.56 3.55
1882 1971 7.578571 GCAAAAACCAAGACATATGGAACCATA 60.579 37.037 14.70 14.70 40.56 2.74
1883 1972 8.310382 CAAAAACCAAGACATATGGAACCATAA 58.690 33.333 16.02 2.47 41.53 1.90
1916 2007 4.686554 GCTTTCGTTAAGAGACAGACACAT 59.313 41.667 4.59 0.00 35.80 3.21
1920 2011 5.939457 TCGTTAAGAGACAGACACATACAG 58.061 41.667 0.00 0.00 0.00 2.74
1928 2019 5.185454 AGACAGACACATACAGAGAGAGAG 58.815 45.833 0.00 0.00 0.00 3.20
1929 2020 5.045942 AGACAGACACATACAGAGAGAGAGA 60.046 44.000 0.00 0.00 0.00 3.10
1930 2021 5.185454 ACAGACACATACAGAGAGAGAGAG 58.815 45.833 0.00 0.00 0.00 3.20
1931 2022 5.045942 ACAGACACATACAGAGAGAGAGAGA 60.046 44.000 0.00 0.00 0.00 3.10
1932 2023 5.525012 CAGACACATACAGAGAGAGAGAGAG 59.475 48.000 0.00 0.00 0.00 3.20
1933 2024 5.189736 AGACACATACAGAGAGAGAGAGAGT 59.810 44.000 0.00 0.00 0.00 3.24
1934 2025 6.382859 AGACACATACAGAGAGAGAGAGAGTA 59.617 42.308 0.00 0.00 0.00 2.59
1935 2026 6.953101 ACACATACAGAGAGAGAGAGAGTAA 58.047 40.000 0.00 0.00 0.00 2.24
1936 2027 7.047891 ACACATACAGAGAGAGAGAGAGTAAG 58.952 42.308 0.00 0.00 0.00 2.34
1937 2028 7.093068 ACACATACAGAGAGAGAGAGAGTAAGA 60.093 40.741 0.00 0.00 0.00 2.10
1938 2029 7.439356 CACATACAGAGAGAGAGAGAGTAAGAG 59.561 44.444 0.00 0.00 0.00 2.85
1939 2030 7.344612 ACATACAGAGAGAGAGAGAGTAAGAGA 59.655 40.741 0.00 0.00 0.00 3.10
1940 2031 6.227298 ACAGAGAGAGAGAGAGTAAGAGAG 57.773 45.833 0.00 0.00 0.00 3.20
1941 2032 5.958380 ACAGAGAGAGAGAGAGTAAGAGAGA 59.042 44.000 0.00 0.00 0.00 3.10
1942 2033 6.097554 ACAGAGAGAGAGAGAGTAAGAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
1943 2034 6.322456 CAGAGAGAGAGAGAGTAAGAGAGAGA 59.678 46.154 0.00 0.00 0.00 3.10
1944 2035 6.549364 AGAGAGAGAGAGAGTAAGAGAGAGAG 59.451 46.154 0.00 0.00 0.00 3.20
1945 2036 6.436027 AGAGAGAGAGAGTAAGAGAGAGAGA 58.564 44.000 0.00 0.00 0.00 3.10
1946 2037 6.549364 AGAGAGAGAGAGTAAGAGAGAGAGAG 59.451 46.154 0.00 0.00 0.00 3.20
1947 2038 6.436027 AGAGAGAGAGTAAGAGAGAGAGAGA 58.564 44.000 0.00 0.00 0.00 3.10
1948 2039 6.549364 AGAGAGAGAGTAAGAGAGAGAGAGAG 59.451 46.154 0.00 0.00 0.00 3.20
1949 2040 6.436027 AGAGAGAGTAAGAGAGAGAGAGAGA 58.564 44.000 0.00 0.00 0.00 3.10
1950 2041 6.549364 AGAGAGAGTAAGAGAGAGAGAGAGAG 59.451 46.154 0.00 0.00 0.00 3.20
1951 2042 6.436027 AGAGAGTAAGAGAGAGAGAGAGAGA 58.564 44.000 0.00 0.00 0.00 3.10
1952 2043 6.549364 AGAGAGTAAGAGAGAGAGAGAGAGAG 59.451 46.154 0.00 0.00 0.00 3.20
1961 2052 2.370189 GAGAGAGAGAGAGGAGGAGGAG 59.630 59.091 0.00 0.00 0.00 3.69
1964 2055 1.421646 GAGAGAGAGGAGGAGGAGGAG 59.578 61.905 0.00 0.00 0.00 3.69
1973 2064 2.766229 GAGGAGGAGGACCAGGCC 60.766 72.222 0.00 0.00 38.94 5.19
2003 2098 3.704512 GACTAAACTAGGCGGTTCTAGC 58.295 50.000 0.00 0.00 40.13 3.42
2004 2099 3.094572 ACTAAACTAGGCGGTTCTAGCA 58.905 45.455 0.00 0.00 40.13 3.49
2005 2100 3.512724 ACTAAACTAGGCGGTTCTAGCAA 59.487 43.478 0.00 0.00 40.13 3.91
2006 2101 3.629142 AAACTAGGCGGTTCTAGCAAT 57.371 42.857 0.00 0.00 40.13 3.56
2007 2102 2.604046 ACTAGGCGGTTCTAGCAATG 57.396 50.000 0.00 0.00 40.13 2.82
2008 2103 1.831736 ACTAGGCGGTTCTAGCAATGT 59.168 47.619 0.00 0.00 40.13 2.71
2009 2104 2.159085 ACTAGGCGGTTCTAGCAATGTC 60.159 50.000 0.00 0.00 40.13 3.06
2010 2105 0.460284 AGGCGGTTCTAGCAATGTCG 60.460 55.000 0.00 0.00 36.08 4.35
2011 2106 0.459585 GGCGGTTCTAGCAATGTCGA 60.460 55.000 0.00 0.00 36.08 4.20
2012 2107 1.355971 GCGGTTCTAGCAATGTCGAA 58.644 50.000 0.00 0.00 34.19 3.71
2013 2108 1.933853 GCGGTTCTAGCAATGTCGAAT 59.066 47.619 0.00 0.00 34.19 3.34
2014 2109 3.120792 GCGGTTCTAGCAATGTCGAATA 58.879 45.455 0.00 0.00 34.19 1.75
2015 2110 3.182572 GCGGTTCTAGCAATGTCGAATAG 59.817 47.826 0.00 0.00 34.19 1.73
2016 2111 3.182572 CGGTTCTAGCAATGTCGAATAGC 59.817 47.826 0.00 0.00 0.00 2.97
2017 2112 3.182572 GGTTCTAGCAATGTCGAATAGCG 59.817 47.826 0.00 0.00 42.69 4.26
2030 2125 5.922739 TCGAATAGCGACATTGCATATTT 57.077 34.783 0.00 0.00 45.59 1.40
2039 2134 5.745294 GCGACATTGCATATTTTGAGAATGT 59.255 36.000 0.00 0.00 40.17 2.71
2047 2142 9.624697 TTGCATATTTTGAGAATGTCACTTAAC 57.375 29.630 0.00 0.00 33.71 2.01
2049 2144 9.624697 GCATATTTTGAGAATGTCACTTAACAA 57.375 29.630 0.00 0.00 33.71 2.83
2065 2160 6.693545 CACTTAACAACATTTTAGGTCGCAAA 59.306 34.615 0.00 0.00 0.00 3.68
2066 2161 7.221067 CACTTAACAACATTTTAGGTCGCAAAA 59.779 33.333 0.00 0.00 0.00 2.44
2067 2162 7.923878 ACTTAACAACATTTTAGGTCGCAAAAT 59.076 29.630 0.00 0.00 36.31 1.82
2068 2163 9.400638 CTTAACAACATTTTAGGTCGCAAAATA 57.599 29.630 0.00 0.00 34.61 1.40
2069 2164 9.915629 TTAACAACATTTTAGGTCGCAAAATAT 57.084 25.926 0.00 0.00 34.61 1.28
2072 2167 9.515020 ACAACATTTTAGGTCGCAAAATATATG 57.485 29.630 0.00 0.00 34.61 1.78
2073 2168 9.515020 CAACATTTTAGGTCGCAAAATATATGT 57.485 29.630 0.00 0.00 34.61 2.29
2166 2325 8.581057 AAGAGTAGTTGATAATTATCGTGCTG 57.419 34.615 18.35 0.00 35.48 4.41
2169 2328 8.526218 AGTAGTTGATAATTATCGTGCTGATG 57.474 34.615 18.35 0.00 37.99 3.07
2208 2367 7.850193 AGATTAAATTCAGCTTAAATTGCCCA 58.150 30.769 4.92 0.00 0.00 5.36
2218 2377 8.099537 TCAGCTTAAATTGCCCAATAAATTTGA 58.900 29.630 0.00 0.00 36.80 2.69
2230 2389 7.390162 GCCCAATAAATTTGAAGGAAATGACAA 59.610 33.333 0.00 0.00 34.30 3.18
2231 2390 9.282569 CCCAATAAATTTGAAGGAAATGACAAA 57.717 29.630 0.00 0.00 34.30 2.83
2240 2399 9.837525 TTTGAAGGAAATGACAAAAACAAAATG 57.162 25.926 0.00 0.00 30.94 2.32
2242 2401 9.224267 TGAAGGAAATGACAAAAACAAAATGAA 57.776 25.926 0.00 0.00 0.00 2.57
2244 2403 8.212317 AGGAAATGACAAAAACAAAATGAAGG 57.788 30.769 0.00 0.00 0.00 3.46
2245 2404 6.912051 GGAAATGACAAAAACAAAATGAAGGC 59.088 34.615 0.00 0.00 0.00 4.35
2246 2405 6.375945 AATGACAAAAACAAAATGAAGGCC 57.624 33.333 0.00 0.00 0.00 5.19
2247 2406 3.868077 TGACAAAAACAAAATGAAGGCCG 59.132 39.130 0.00 0.00 0.00 6.13
2249 2408 1.877637 AAAACAAAATGAAGGCCGCC 58.122 45.000 0.00 0.00 0.00 6.13
2250 2409 0.755686 AAACAAAATGAAGGCCGCCA 59.244 45.000 13.15 0.00 0.00 5.69
2320 2479 1.173913 TGGATGGCGATCGACGATAT 58.826 50.000 21.57 5.46 45.77 1.63
2326 2485 1.396543 GCGATCGACGATATGGCGAC 61.397 60.000 21.57 7.68 45.77 5.19
2332 2491 1.799403 CGACGATATGGCGACTCTACT 59.201 52.381 0.00 0.00 34.83 2.57
2333 2492 2.223611 CGACGATATGGCGACTCTACTT 59.776 50.000 0.00 0.00 34.83 2.24
2334 2493 3.556513 GACGATATGGCGACTCTACTTG 58.443 50.000 0.00 0.00 34.83 3.16
2383 2542 3.375299 AGCATCTAAAATCACAACTCGCC 59.625 43.478 0.00 0.00 0.00 5.54
2394 2553 1.004745 ACAACTCGCCAATTCCATCCT 59.995 47.619 0.00 0.00 0.00 3.24
2395 2554 1.672881 CAACTCGCCAATTCCATCCTC 59.327 52.381 0.00 0.00 0.00 3.71
2403 2562 1.134946 CAATTCCATCCTCCAAACGCC 59.865 52.381 0.00 0.00 0.00 5.68
2425 2584 2.244651 GGACACGCACAGACGCTTT 61.245 57.895 0.00 0.00 36.19 3.51
2456 2615 3.562557 GTCACCGGACAACACACTAAAAT 59.437 43.478 9.46 0.00 43.73 1.82
2460 2619 3.364565 CCGGACAACACACTAAAATTCCG 60.365 47.826 0.00 0.00 43.51 4.30
2461 2620 3.364565 CGGACAACACACTAAAATTCCGG 60.365 47.826 0.00 0.00 40.85 5.14
2467 2626 3.142951 CACACTAAAATTCCGGTCCACA 58.857 45.455 0.00 0.00 0.00 4.17
2469 2628 4.217550 CACACTAAAATTCCGGTCCACAAT 59.782 41.667 0.00 0.00 0.00 2.71
2471 2630 3.687698 ACTAAAATTCCGGTCCACAATCG 59.312 43.478 0.00 0.00 0.00 3.34
2473 2632 0.393808 AATTCCGGTCCACAATCGGG 60.394 55.000 0.00 0.00 43.54 5.14
2517 2676 6.317391 TCAAATCCATACGATTACATGCAACA 59.683 34.615 0.00 0.00 40.47 3.33
2533 2692 8.630054 ACATGCAACATAAACCTAGTCTAAAA 57.370 30.769 0.00 0.00 0.00 1.52
2534 2693 9.243105 ACATGCAACATAAACCTAGTCTAAAAT 57.757 29.630 0.00 0.00 0.00 1.82
2537 2696 9.290988 TGCAACATAAACCTAGTCTAAAATTGA 57.709 29.630 0.00 0.00 0.00 2.57
2543 2702 4.756502 ACCTAGTCTAAAATTGAGCCGAC 58.243 43.478 0.00 0.00 0.00 4.79
2560 2719 1.282930 GACGACCGTCCTTGCTGTTC 61.283 60.000 11.13 0.00 39.08 3.18
2565 2724 1.961277 CGTCCTTGCTGTTCCGCTT 60.961 57.895 0.00 0.00 0.00 4.68
2572 2731 0.537143 TGCTGTTCCGCTTTGTCCAT 60.537 50.000 0.00 0.00 0.00 3.41
2582 2741 0.798776 CTTTGTCCATGTCTGACGGC 59.201 55.000 2.98 0.00 35.46 5.68
2583 2742 0.605319 TTTGTCCATGTCTGACGGCC 60.605 55.000 2.98 0.00 35.46 6.13
2588 2747 4.457496 ATGTCTGACGGCCGGCTG 62.457 66.667 34.65 33.73 0.00 4.85
2614 2773 2.030562 AAAGTGGAGGTGCGGTCG 59.969 61.111 0.00 0.00 0.00 4.79
2615 2774 2.803817 AAAGTGGAGGTGCGGTCGT 61.804 57.895 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 53 3.128764 GGCCAGCAAATACAGTAGGTTTC 59.871 47.826 0.00 0.00 0.00 2.78
143 153 0.443088 ACGAGTAGCAGTCGACTTCG 59.557 55.000 26.62 26.62 43.33 3.79
173 183 1.429930 TGTACAGCTCCTGGTGGAAA 58.570 50.000 0.00 0.00 45.14 3.13
337 347 3.508840 GGGAAATGCCGTCGCCTG 61.509 66.667 0.00 0.00 37.63 4.85
392 402 3.197766 TCGATATGAGCAGGAAACAAGGT 59.802 43.478 0.00 0.00 0.00 3.50
394 404 5.111989 TCTTCGATATGAGCAGGAAACAAG 58.888 41.667 0.00 0.00 0.00 3.16
397 407 4.384247 CGATCTTCGATATGAGCAGGAAAC 59.616 45.833 0.00 0.00 43.74 2.78
429 439 3.055312 CCACTCCGATCATCATGGATCAT 60.055 47.826 11.15 0.00 43.07 2.45
478 488 7.823745 ATTTCCTGGCGTCAAATAAGATAAT 57.176 32.000 0.00 0.00 0.00 1.28
553 568 7.600752 CGATATGATATGATCCTACTCGAGCTA 59.399 40.741 13.61 3.50 0.00 3.32
566 581 9.567776 CTACTTCCTCTACCGATATGATATGAT 57.432 37.037 0.00 0.00 0.00 2.45
567 582 8.549731 ACTACTTCCTCTACCGATATGATATGA 58.450 37.037 0.00 0.00 0.00 2.15
568 583 8.740123 ACTACTTCCTCTACCGATATGATATG 57.260 38.462 0.00 0.00 0.00 1.78
570 585 9.044646 ACTACTACTTCCTCTACCGATATGATA 57.955 37.037 0.00 0.00 0.00 2.15
593 608 5.661458 GATGTTTTGCTGCTCCTACTACTA 58.339 41.667 0.00 0.00 0.00 1.82
602 617 2.421424 AGAATCCGATGTTTTGCTGCTC 59.579 45.455 0.00 0.00 0.00 4.26
605 626 6.912591 GGTTATTAGAATCCGATGTTTTGCTG 59.087 38.462 0.00 0.00 0.00 4.41
608 629 7.241663 TCGGTTATTAGAATCCGATGTTTTG 57.758 36.000 0.97 0.00 45.49 2.44
664 689 5.537300 TTAGCCAGGTTAATCAGAGCTAG 57.463 43.478 0.00 0.00 33.31 3.42
668 693 5.296151 TCCATTAGCCAGGTTAATCAGAG 57.704 43.478 5.58 0.00 0.00 3.35
670 695 4.763793 CCATCCATTAGCCAGGTTAATCAG 59.236 45.833 5.58 1.68 0.00 2.90
829 859 5.125356 TGATATACCAGTTGCAACATCAGG 58.875 41.667 30.11 25.02 0.00 3.86
885 921 6.737254 TGAAACATACGGGAGATTTCTTTC 57.263 37.500 0.00 0.00 31.86 2.62
896 933 3.500982 CATGCAAGTTGAAACATACGGG 58.499 45.455 7.16 0.00 0.00 5.28
898 935 3.361644 GTGCATGCAAGTTGAAACATACG 59.638 43.478 24.58 0.00 0.00 3.06
901 938 3.068448 TCAGTGCATGCAAGTTGAAACAT 59.932 39.130 24.58 0.00 0.00 2.71
1027 1064 2.030027 TGGAAGGTGACACAGGAGAT 57.970 50.000 8.08 0.00 0.00 2.75
1091 1143 3.120060 CCGCTTCTGGTGAAAGAAAGATG 60.120 47.826 0.00 0.00 35.79 2.90
1291 1344 5.707298 CCACAGAAAAATATCACTCCTGTGT 59.293 40.000 15.51 0.00 44.84 3.72
1338 1392 3.767673 TCCACAGTTAACGCCTATCTCTT 59.232 43.478 0.00 0.00 0.00 2.85
1348 1402 3.260475 TCCATCCATCCACAGTTAACG 57.740 47.619 0.00 0.00 0.00 3.18
1410 1468 6.970484 ACTATATACGTACACCCGGTAAAAG 58.030 40.000 0.00 0.00 32.72 2.27
1433 1493 9.414295 TGTTTCCATATAAGCGTATGTATGTAC 57.586 33.333 2.09 0.00 31.55 2.90
1434 1494 9.984190 TTGTTTCCATATAAGCGTATGTATGTA 57.016 29.630 2.09 0.00 31.55 2.29
1435 1495 8.896320 TTGTTTCCATATAAGCGTATGTATGT 57.104 30.769 2.09 0.00 31.55 2.29
1444 1504 8.801715 ATAGCAATTTTGTTTCCATATAAGCG 57.198 30.769 0.00 0.00 0.00 4.68
1516 1581 8.556589 TCAGATTTATCACTCCTAAAAATCCCA 58.443 33.333 0.00 0.00 37.29 4.37
1517 1582 8.841300 GTCAGATTTATCACTCCTAAAAATCCC 58.159 37.037 0.00 0.00 37.29 3.85
1529 1595 6.595326 TCATGAAAAGCGTCAGATTTATCACT 59.405 34.615 0.00 0.00 34.53 3.41
1530 1596 6.775088 TCATGAAAAGCGTCAGATTTATCAC 58.225 36.000 0.00 0.00 34.53 3.06
1534 1600 5.647658 ACCATCATGAAAAGCGTCAGATTTA 59.352 36.000 0.00 0.00 34.53 1.40
1536 1602 4.012374 ACCATCATGAAAAGCGTCAGATT 58.988 39.130 0.00 0.00 0.00 2.40
1541 1607 7.379529 CCAATATAAACCATCATGAAAAGCGTC 59.620 37.037 0.00 0.00 0.00 5.19
1544 1610 6.144402 CGCCAATATAAACCATCATGAAAAGC 59.856 38.462 0.00 0.00 0.00 3.51
1555 1621 2.839975 TCATCGCGCCAATATAAACCA 58.160 42.857 0.00 0.00 0.00 3.67
1556 1622 3.426159 CCATCATCGCGCCAATATAAACC 60.426 47.826 0.00 0.00 0.00 3.27
1568 1634 1.599071 ACTACATTTGCCATCATCGCG 59.401 47.619 0.00 0.00 0.00 5.87
1584 1650 0.030101 TTGCCGTGCTTGCAAACTAC 59.970 50.000 0.00 0.00 45.11 2.73
1638 1704 4.748102 AGTTGACGAACATGACAAATACGT 59.252 37.500 0.00 0.00 34.17 3.57
1647 1713 4.024387 GGCAAGTTTAGTTGACGAACATGA 60.024 41.667 0.00 0.00 34.17 3.07
1665 1731 2.099141 TGTTCTTCGAGGATGGCAAG 57.901 50.000 0.00 0.00 0.00 4.01
1666 1732 2.559698 TTGTTCTTCGAGGATGGCAA 57.440 45.000 0.00 2.15 0.00 4.52
1669 1735 4.622740 GCAAATTTTGTTCTTCGAGGATGG 59.377 41.667 10.65 0.00 0.00 3.51
1739 1805 8.655935 ATTCCCATGTTTTCTTTCAGATAGTT 57.344 30.769 0.00 0.00 0.00 2.24
1742 1808 9.753674 AGTTATTCCCATGTTTTCTTTCAGATA 57.246 29.630 0.00 0.00 0.00 1.98
1757 1846 3.825908 ACAACACCCAGTTATTCCCAT 57.174 42.857 0.00 0.00 38.74 4.00
1761 1850 4.214758 ACGCTTTACAACACCCAGTTATTC 59.785 41.667 0.00 0.00 38.74 1.75
1768 1857 2.211806 GTACACGCTTTACAACACCCA 58.788 47.619 0.00 0.00 0.00 4.51
1783 1872 5.292589 CACCCATTTCCATAAGTACGTACAC 59.707 44.000 26.55 4.23 0.00 2.90
1784 1873 5.046448 ACACCCATTTCCATAAGTACGTACA 60.046 40.000 26.55 8.35 0.00 2.90
1795 1884 2.557452 GGAACCTGACACCCATTTCCAT 60.557 50.000 0.00 0.00 37.06 3.41
1796 1885 1.203001 GGAACCTGACACCCATTTCCA 60.203 52.381 0.00 0.00 37.06 3.53
1797 1886 1.545841 GGAACCTGACACCCATTTCC 58.454 55.000 0.00 0.00 32.74 3.13
1813 1902 4.468765 TTTCGTATGATAACACGGGGAA 57.531 40.909 0.00 0.00 38.66 3.97
1819 1908 7.215568 CGAATGTTGGTTTTCGTATGATAACAC 59.784 37.037 16.82 9.83 39.77 3.32
1822 1911 7.598189 TCGAATGTTGGTTTTCGTATGATAA 57.402 32.000 5.15 0.00 43.81 1.75
1846 1935 2.990066 TGGTTTTTGCCGGTTTTCAT 57.010 40.000 1.90 0.00 0.00 2.57
1852 1941 1.408969 ATGTCTTGGTTTTTGCCGGT 58.591 45.000 1.90 0.00 0.00 5.28
1856 1945 4.929211 GGTTCCATATGTCTTGGTTTTTGC 59.071 41.667 1.24 0.00 35.64 3.68
1857 1946 6.095432 TGGTTCCATATGTCTTGGTTTTTG 57.905 37.500 1.24 0.00 35.64 2.44
1858 1947 6.933514 ATGGTTCCATATGTCTTGGTTTTT 57.066 33.333 2.14 0.00 35.64 1.94
1916 2007 7.123383 TCTCTCTTACTCTCTCTCTCTCTGTA 58.877 42.308 0.00 0.00 0.00 2.74
1920 2011 6.547880 TCTCTCTCTCTTACTCTCTCTCTCTC 59.452 46.154 0.00 0.00 0.00 3.20
1928 2019 6.239176 CCTCTCTCTCTCTCTCTCTTACTCTC 60.239 50.000 0.00 0.00 0.00 3.20
1929 2020 5.600484 CCTCTCTCTCTCTCTCTCTTACTCT 59.400 48.000 0.00 0.00 0.00 3.24
1930 2021 5.598830 TCCTCTCTCTCTCTCTCTCTTACTC 59.401 48.000 0.00 0.00 0.00 2.59
1931 2022 5.529289 TCCTCTCTCTCTCTCTCTCTTACT 58.471 45.833 0.00 0.00 0.00 2.24
1932 2023 5.221541 CCTCCTCTCTCTCTCTCTCTCTTAC 60.222 52.000 0.00 0.00 0.00 2.34
1933 2024 4.901849 CCTCCTCTCTCTCTCTCTCTCTTA 59.098 50.000 0.00 0.00 0.00 2.10
1934 2025 3.713764 CCTCCTCTCTCTCTCTCTCTCTT 59.286 52.174 0.00 0.00 0.00 2.85
1935 2026 3.051803 TCCTCCTCTCTCTCTCTCTCTCT 60.052 52.174 0.00 0.00 0.00 3.10
1936 2027 3.309296 TCCTCCTCTCTCTCTCTCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
1937 2028 3.312890 CTCCTCCTCTCTCTCTCTCTCT 58.687 54.545 0.00 0.00 0.00 3.10
1938 2029 2.370189 CCTCCTCCTCTCTCTCTCTCTC 59.630 59.091 0.00 0.00 0.00 3.20
1939 2030 2.022035 TCCTCCTCCTCTCTCTCTCTCT 60.022 54.545 0.00 0.00 0.00 3.10
1940 2031 2.370189 CTCCTCCTCCTCTCTCTCTCTC 59.630 59.091 0.00 0.00 0.00 3.20
1941 2032 2.412591 CTCCTCCTCCTCTCTCTCTCT 58.587 57.143 0.00 0.00 0.00 3.10
1942 2033 1.421646 CCTCCTCCTCCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
1943 2034 1.010793 TCCTCCTCCTCCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
1944 2035 1.421646 CTCCTCCTCCTCCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
1945 2036 1.522900 CTCCTCCTCCTCCTCTCTCT 58.477 60.000 0.00 0.00 0.00 3.10
1946 2037 0.478507 CCTCCTCCTCCTCCTCTCTC 59.521 65.000 0.00 0.00 0.00 3.20
1947 2038 0.047176 TCCTCCTCCTCCTCCTCTCT 59.953 60.000 0.00 0.00 0.00 3.10
1948 2039 0.185175 GTCCTCCTCCTCCTCCTCTC 59.815 65.000 0.00 0.00 0.00 3.20
1949 2040 1.293683 GGTCCTCCTCCTCCTCCTCT 61.294 65.000 0.00 0.00 0.00 3.69
1950 2041 1.231928 GGTCCTCCTCCTCCTCCTC 59.768 68.421 0.00 0.00 0.00 3.71
1951 2042 1.547755 TGGTCCTCCTCCTCCTCCT 60.548 63.158 0.00 0.00 34.23 3.69
1952 2043 1.075600 CTGGTCCTCCTCCTCCTCC 60.076 68.421 0.00 0.00 34.23 4.30
1975 2066 1.419107 GCCTAGTTTAGTCGGTGCGC 61.419 60.000 0.00 0.00 0.00 6.09
1976 2067 1.138047 CGCCTAGTTTAGTCGGTGCG 61.138 60.000 0.00 0.00 34.52 5.34
1977 2068 0.804933 CCGCCTAGTTTAGTCGGTGC 60.805 60.000 0.00 0.00 35.75 5.01
1980 2071 1.475682 AGAACCGCCTAGTTTAGTCGG 59.524 52.381 4.23 4.23 45.04 4.79
1996 2091 4.042398 TCGCTATTCGACATTGCTAGAAC 58.958 43.478 0.00 0.00 43.16 3.01
1997 2092 4.301637 TCGCTATTCGACATTGCTAGAA 57.698 40.909 0.00 0.00 43.16 2.10
1998 2093 3.982576 TCGCTATTCGACATTGCTAGA 57.017 42.857 0.00 2.36 43.16 2.43
2008 2103 5.922739 AAATATGCAATGTCGCTATTCGA 57.077 34.783 0.00 0.00 46.29 3.71
2009 2104 6.135400 TCAAAATATGCAATGTCGCTATTCG 58.865 36.000 0.00 0.00 40.15 3.34
2010 2105 7.355017 TCTCAAAATATGCAATGTCGCTATTC 58.645 34.615 0.00 0.00 0.00 1.75
2011 2106 7.263100 TCTCAAAATATGCAATGTCGCTATT 57.737 32.000 0.00 0.00 0.00 1.73
2012 2107 6.866010 TCTCAAAATATGCAATGTCGCTAT 57.134 33.333 0.00 0.00 0.00 2.97
2013 2108 6.676237 TTCTCAAAATATGCAATGTCGCTA 57.324 33.333 0.00 0.00 0.00 4.26
2014 2109 5.565592 TTCTCAAAATATGCAATGTCGCT 57.434 34.783 0.00 0.00 0.00 4.93
2015 2110 5.745294 ACATTCTCAAAATATGCAATGTCGC 59.255 36.000 0.00 0.00 37.55 5.19
2016 2111 7.372634 GACATTCTCAAAATATGCAATGTCG 57.627 36.000 6.80 0.00 42.62 4.35
2017 2112 7.972277 AGTGACATTCTCAAAATATGCAATGTC 59.028 33.333 13.29 13.29 46.48 3.06
2018 2113 7.833786 AGTGACATTCTCAAAATATGCAATGT 58.166 30.769 0.00 0.00 41.34 2.71
2019 2114 8.697846 AAGTGACATTCTCAAAATATGCAATG 57.302 30.769 0.00 0.00 36.15 2.82
2021 2116 9.624697 GTTAAGTGACATTCTCAAAATATGCAA 57.375 29.630 0.00 0.00 0.00 4.08
2022 2117 8.791675 TGTTAAGTGACATTCTCAAAATATGCA 58.208 29.630 0.00 0.00 0.00 3.96
2023 2118 9.624697 TTGTTAAGTGACATTCTCAAAATATGC 57.375 29.630 0.00 0.00 0.00 3.14
2039 2134 5.527951 TGCGACCTAAAATGTTGTTAAGTGA 59.472 36.000 0.00 0.00 0.00 3.41
2047 2142 9.515020 ACATATATTTTGCGACCTAAAATGTTG 57.485 29.630 0.00 0.00 38.01 3.33
2218 2377 8.676401 CCTTCATTTTGTTTTTGTCATTTCCTT 58.324 29.630 0.00 0.00 0.00 3.36
2230 2389 1.139853 TGGCGGCCTTCATTTTGTTTT 59.860 42.857 21.46 0.00 0.00 2.43
2231 2390 0.755686 TGGCGGCCTTCATTTTGTTT 59.244 45.000 21.46 0.00 0.00 2.83
2234 2393 1.361793 CAATGGCGGCCTTCATTTTG 58.638 50.000 21.46 10.09 31.95 2.44
2236 2395 1.899617 CCAATGGCGGCCTTCATTT 59.100 52.632 21.46 3.44 31.95 2.32
2247 2406 1.094785 AATACAGTGTCGCCAATGGC 58.905 50.000 15.52 15.52 46.75 4.40
2249 2408 4.153296 TGTGTAAATACAGTGTCGCCAATG 59.847 41.667 0.00 0.00 42.24 2.82
2250 2409 4.153475 GTGTGTAAATACAGTGTCGCCAAT 59.847 41.667 0.00 0.00 36.78 3.16
2256 2415 4.695455 AGGCATGTGTGTAAATACAGTGTC 59.305 41.667 0.00 0.00 36.78 3.67
2369 2528 2.890311 TGGAATTGGCGAGTTGTGATTT 59.110 40.909 0.00 0.00 0.00 2.17
2381 2540 1.134946 CGTTTGGAGGATGGAATTGGC 59.865 52.381 0.00 0.00 0.00 4.52
2383 2542 1.134946 GGCGTTTGGAGGATGGAATTG 59.865 52.381 0.00 0.00 0.00 2.32
2410 2569 2.168621 CGAAAGCGTCTGTGCGTG 59.831 61.111 0.00 0.00 40.67 5.34
2434 2593 2.228138 TTAGTGTGTTGTCCGGTGAC 57.772 50.000 0.00 0.00 42.12 3.67
2436 2595 4.533222 GAATTTTAGTGTGTTGTCCGGTG 58.467 43.478 0.00 0.00 0.00 4.94
2440 2599 3.566742 ACCGGAATTTTAGTGTGTTGTCC 59.433 43.478 9.46 0.00 0.00 4.02
2456 2615 0.903924 TACCCGATTGTGGACCGGAA 60.904 55.000 9.46 0.00 45.58 4.30
2460 2619 0.616891 AAGGTACCCGATTGTGGACC 59.383 55.000 8.74 0.00 0.00 4.46
2461 2620 3.832615 ATAAGGTACCCGATTGTGGAC 57.167 47.619 8.74 0.00 0.00 4.02
2467 2626 6.895782 TGATTCAGAAATAAGGTACCCGATT 58.104 36.000 8.74 5.64 0.00 3.34
2469 2628 5.943349 TGATTCAGAAATAAGGTACCCGA 57.057 39.130 8.74 0.00 0.00 5.14
2471 2630 8.519799 TTTGATGATTCAGAAATAAGGTACCC 57.480 34.615 8.74 0.00 32.27 3.69
2479 2638 9.777297 TCGTATGGATTTGATGATTCAGAAATA 57.223 29.630 6.47 0.00 32.27 1.40
2484 2643 8.992073 TGTAATCGTATGGATTTGATGATTCAG 58.008 33.333 0.00 0.00 42.77 3.02
2485 2644 8.900983 TGTAATCGTATGGATTTGATGATTCA 57.099 30.769 0.00 0.00 42.77 2.57
2488 2647 7.391275 TGCATGTAATCGTATGGATTTGATGAT 59.609 33.333 0.00 0.00 42.77 2.45
2504 2663 8.438676 AGACTAGGTTTATGTTGCATGTAATC 57.561 34.615 0.00 0.00 0.00 1.75
2517 2676 7.494952 GTCGGCTCAATTTTAGACTAGGTTTAT 59.505 37.037 0.00 0.00 0.00 1.40
2533 2692 2.181021 GACGGTCGTCGGCTCAAT 59.819 61.111 7.77 0.00 45.10 2.57
2543 2702 2.027625 GGAACAGCAAGGACGGTCG 61.028 63.158 1.43 0.00 0.00 4.79
2555 2714 1.197721 GACATGGACAAAGCGGAACAG 59.802 52.381 0.00 0.00 0.00 3.16
2560 2719 0.798776 GTCAGACATGGACAAAGCGG 59.201 55.000 0.00 0.00 35.36 5.52
2565 2724 1.003839 GGCCGTCAGACATGGACAA 60.004 57.895 0.41 0.00 39.46 3.18
2586 2745 0.035630 CTCCACTTTGAGGGGCTCAG 60.036 60.000 0.00 0.00 39.16 3.35
2588 2747 1.301293 CCTCCACTTTGAGGGGCTC 59.699 63.158 0.00 0.00 46.85 4.70
2597 2756 2.030562 CGACCGCACCTCCACTTT 59.969 61.111 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.