Multiple sequence alignment - TraesCS7D01G428800

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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 TraesCS7D01G428800 chr7D 100.000 2510 0 0 1 2510 548893510 548896019 0.000000e+00 4636.0
1 TraesCS7D01G428800 chr7D 89.165 443 13 10 2102 2510 261872291 261871850 1.030000e-143 520.0
2 TraesCS7D01G428800 chr7D 88.079 453 17 17 2094 2510 89719766 89720217 1.040000e-138 503.0
3 TraesCS7D01G428800 chr7D 83.210 405 30 14 2134 2501 156212057 156212460 1.110000e-88 337.0
4 TraesCS7D01G428800 chr7D 84.286 140 19 3 1812 1950 185723898 185723761 1.570000e-27 134.0
5 TraesCS7D01G428800 chr7D 76.224 143 19 13 1975 2114 17126516 17126646 7.500000e-06 62.1
6 TraesCS7D01G428800 chr7A 92.853 1749 86 21 1 1738 634387018 634388738 0.000000e+00 2501.0
7 TraesCS7D01G428800 chr7B 89.084 1768 92 38 1 1714 592511200 592512920 0.000000e+00 2102.0
8 TraesCS7D01G428800 chr7B 85.294 68 8 2 1812 1878 633044590 633044656 4.480000e-08 69.4
9 TraesCS7D01G428800 chrUn 89.009 464 17 16 2081 2510 30132911 30132448 6.110000e-151 544.0
10 TraesCS7D01G428800 chr6D 88.938 452 15 12 2094 2510 426096508 426096959 2.210000e-145 525.0
11 TraesCS7D01G428800 chr6D 88.964 444 14 12 2102 2510 82576329 82575886 1.330000e-142 516.0
12 TraesCS7D01G428800 chr6D 87.500 424 27 17 2103 2510 83062906 83063319 1.360000e-127 466.0
13 TraesCS7D01G428800 chr3D 88.621 457 15 12 2091 2510 597148183 597148639 2.860000e-144 521.0
14 TraesCS7D01G428800 chr2D 88.914 442 15 16 2102 2510 429381093 429381533 4.790000e-142 514.0
15 TraesCS7D01G428800 chr2D 85.235 149 16 6 1814 1958 5666771 5666625 5.590000e-32 148.0
16 TraesCS7D01G428800 chr2D 85.833 120 15 2 1814 1932 6811054 6811172 2.620000e-25 126.0
17 TraesCS7D01G428800 chr5D 87.838 444 19 15 2102 2510 454492740 454492297 2.900000e-134 488.0
18 TraesCS7D01G428800 chr5D 87.162 444 22 6 2102 2510 543308592 543309035 2.920000e-129 472.0
19 TraesCS7D01G428800 chr5D 82.558 86 13 2 1812 1896 479526477 479526393 9.630000e-10 75.0
20 TraesCS7D01G428800 chr4D 87.528 441 21 14 2104 2510 416862808 416863248 1.750000e-131 479.0
21 TraesCS7D01G428800 chr4D 86.874 419 36 14 2100 2501 42263340 42262924 3.810000e-123 451.0
22 TraesCS7D01G428800 chr4D 77.778 117 15 11 2005 2114 435220517 435220405 7.500000e-06 62.1
23 TraesCS7D01G428800 chr4B 85.102 443 32 16 2102 2510 275373632 275374074 2.990000e-114 422.0
24 TraesCS7D01G428800 chr3B 85.330 409 44 6 2106 2502 602548203 602548607 2.320000e-110 409.0
25 TraesCS7D01G428800 chr3B 80.556 252 27 10 1811 2044 73027568 73027815 9.230000e-40 174.0
26 TraesCS7D01G428800 chr5A 76.303 595 66 37 1814 2347 709757618 709757038 5.360000e-62 248.0
27 TraesCS7D01G428800 chr5A 81.690 213 25 8 1810 2011 593759989 593759780 5.550000e-37 165.0
28 TraesCS7D01G428800 chr5A 79.051 253 32 10 1814 2047 673523298 673523048 1.200000e-33 154.0
29 TraesCS7D01G428800 chr5A 86.916 107 11 3 1941 2047 574305032 574304929 1.580000e-22 117.0
30 TraesCS7D01G428800 chr2B 80.251 319 45 12 1810 2114 759919183 759918869 9.040000e-55 224.0
31 TraesCS7D01G428800 chr3A 82.775 209 24 4 1814 2011 80491058 80491265 2.570000e-40 176.0
32 TraesCS7D01G428800 chr3A 80.258 233 28 9 1828 2044 180037386 180037156 2.580000e-35 159.0
33 TraesCS7D01G428800 chr5B 81.221 213 28 7 1811 2012 545933702 545933491 7.190000e-36 161.0
34 TraesCS7D01G428800 chr1A 76.807 332 41 23 1812 2114 530740127 530739803 1.200000e-33 154.0
35 TraesCS7D01G428800 chr6A 82.123 179 19 6 1844 2011 590119768 590119592 9.360000e-30 141.0
36 TraesCS7D01G428800 chr1D 87.097 124 12 4 1811 1932 325809727 325809848 1.210000e-28 137.0
37 TraesCS7D01G428800 chr4A 81.333 75 14 0 1809 1883 661018563 661018489 7.500000e-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 TraesCS7D01G428800 chr7D 548893510 548896019 2509 False 4636 4636 100.000 1 2510 1 chr7D.!!$F4 2509
1 TraesCS7D01G428800 chr7A 634387018 634388738 1720 False 2501 2501 92.853 1 1738 1 chr7A.!!$F1 1737
2 TraesCS7D01G428800 chr7B 592511200 592512920 1720 False 2102 2102 89.084 1 1714 1 chr7B.!!$F1 1713
3 TraesCS7D01G428800 chr5A 709757038 709757618 580 True 248 248 76.303 1814 2347 1 chr5A.!!$R4 533

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
673 713 1.00186 TCGTCAGTGACATGGATGCAA 59.998 47.619 22.66 0.0 32.09 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2211 2330 0.036765 ATAGAAGCCCGCAAACGTGA 60.037 50.0 0.0 0.0 37.7 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
135 139 6.255020 CACCGTTCCTTTGTAGACATGTATAC 59.745 42.308 21.11 21.11 0.00 1.47
303 320 4.184629 AGCATCCTGTAATCGAACTGTTC 58.815 43.478 10.48 10.48 0.00 3.18
335 355 1.195442 TTGGTCCAGTGCATCGGGTA 61.195 55.000 4.67 0.00 33.18 3.69
374 394 3.056465 GCCAAGAGAAGCTACTGTGTAGT 60.056 47.826 6.60 0.00 40.99 2.73
383 403 5.883503 AGCTACTGTGTAGTGAGTTACTC 57.116 43.478 5.27 5.27 40.89 2.59
673 713 1.001860 TCGTCAGTGACATGGATGCAA 59.998 47.619 22.66 0.00 32.09 4.08
690 730 6.071221 TGGATGCAAGCAAAGTCTCAAATTAT 60.071 34.615 0.00 0.00 0.00 1.28
810 850 1.424493 CGCCGACCTGAAGCATCTTC 61.424 60.000 0.00 0.00 0.00 2.87
859 899 4.314440 GACACCAGCCTGCGTGGA 62.314 66.667 14.92 0.00 38.57 4.02
860 900 4.626081 ACACCAGCCTGCGTGGAC 62.626 66.667 14.92 0.00 38.57 4.02
1029 1085 0.672889 TCGCCAAAATCTGCAAAGCA 59.327 45.000 0.00 0.00 36.92 3.91
1514 1570 0.905337 GGGCAGTACCAGTGAGACCT 60.905 60.000 0.00 0.00 42.05 3.85
1517 1573 1.187087 CAGTACCAGTGAGACCTCCC 58.813 60.000 0.00 0.00 0.00 4.30
1531 1587 1.897615 CTCCCTAGGACTACGGCCG 60.898 68.421 26.86 26.86 0.00 6.13
1540 1596 3.327754 CTACGGCCGTGTATGCGC 61.328 66.667 40.02 0.00 0.00 6.09
1546 1602 3.028019 CCGTGTATGCGCGCGTAT 61.028 61.111 34.26 34.26 46.15 3.06
1547 1603 2.459904 CGTGTATGCGCGCGTATC 59.540 61.111 35.74 25.35 41.81 2.24
1548 1604 2.290082 CGTGTATGCGCGCGTATCA 61.290 57.895 35.74 27.38 41.81 2.15
1549 1605 1.482955 GTGTATGCGCGCGTATCAG 59.517 57.895 35.74 4.79 0.00 2.90
1552 1608 1.065109 TATGCGCGCGTATCAGTGT 59.935 52.632 35.74 15.68 0.00 3.55
1553 1609 0.526739 TATGCGCGCGTATCAGTGTT 60.527 50.000 35.74 14.90 0.00 3.32
1554 1610 2.020016 GCGCGCGTATCAGTGTTG 59.980 61.111 32.35 0.00 0.00 3.33
1555 1611 2.020016 CGCGCGTATCAGTGTTGC 59.980 61.111 24.19 0.00 0.00 4.17
1556 1612 2.725699 CGCGCGTATCAGTGTTGCA 61.726 57.895 24.19 0.00 0.00 4.08
1557 1613 1.059369 GCGCGTATCAGTGTTGCAG 59.941 57.895 8.43 0.00 0.00 4.41
1558 1614 1.626654 GCGCGTATCAGTGTTGCAGT 61.627 55.000 8.43 0.00 0.00 4.40
1559 1615 0.366871 CGCGTATCAGTGTTGCAGTC 59.633 55.000 0.00 0.00 0.00 3.51
1593 1649 5.300539 CAGGTGTATCAGTATCAGTGTAGCT 59.699 44.000 0.00 0.00 0.00 3.32
1594 1650 5.300539 AGGTGTATCAGTATCAGTGTAGCTG 59.699 44.000 0.00 0.00 46.34 4.24
1595 1651 4.979197 GTGTATCAGTATCAGTGTAGCTGC 59.021 45.833 0.00 0.00 44.66 5.25
1672 1733 1.501604 GACCTCATACCCTCTCTCCCT 59.498 57.143 0.00 0.00 0.00 4.20
1676 1737 2.962421 CTCATACCCTCTCTCCCTGAAC 59.038 54.545 0.00 0.00 0.00 3.18
1689 1750 2.500098 TCCCTGAACATGCTACTACACC 59.500 50.000 0.00 0.00 0.00 4.16
1691 1752 3.704566 CCCTGAACATGCTACTACACCTA 59.295 47.826 0.00 0.00 0.00 3.08
1692 1753 4.441634 CCCTGAACATGCTACTACACCTAC 60.442 50.000 0.00 0.00 0.00 3.18
1738 1801 2.565841 CTGTAGCATTACTCCCAAGGC 58.434 52.381 0.00 0.00 35.50 4.35
1739 1802 1.134521 TGTAGCATTACTCCCAAGGCG 60.135 52.381 0.00 0.00 40.04 5.52
1740 1803 1.138266 GTAGCATTACTCCCAAGGCGA 59.862 52.381 0.00 0.00 40.04 5.54
1741 1804 0.618458 AGCATTACTCCCAAGGCGAA 59.382 50.000 0.00 0.00 40.04 4.70
1742 1805 1.212935 AGCATTACTCCCAAGGCGAAT 59.787 47.619 0.00 0.00 40.04 3.34
1743 1806 2.024414 GCATTACTCCCAAGGCGAATT 58.976 47.619 0.00 0.00 0.00 2.17
1744 1807 2.033424 GCATTACTCCCAAGGCGAATTC 59.967 50.000 0.00 0.00 0.00 2.17
1745 1808 2.413310 TTACTCCCAAGGCGAATTCC 57.587 50.000 0.00 0.00 0.00 3.01
1746 1809 1.580059 TACTCCCAAGGCGAATTCCT 58.420 50.000 0.00 0.00 38.31 3.36
1747 1810 1.580059 ACTCCCAAGGCGAATTCCTA 58.420 50.000 0.00 0.00 34.82 2.94
1748 1811 1.209747 ACTCCCAAGGCGAATTCCTAC 59.790 52.381 0.00 0.00 34.82 3.18
1749 1812 0.544697 TCCCAAGGCGAATTCCTACC 59.455 55.000 0.00 0.00 34.82 3.18
1750 1813 0.465642 CCCAAGGCGAATTCCTACCC 60.466 60.000 0.00 0.00 34.82 3.69
1751 1814 0.546598 CCAAGGCGAATTCCTACCCT 59.453 55.000 0.00 0.00 34.82 4.34
1752 1815 1.668419 CAAGGCGAATTCCTACCCTG 58.332 55.000 0.00 0.00 34.82 4.45
1753 1816 0.107165 AAGGCGAATTCCTACCCTGC 60.107 55.000 0.00 0.00 34.82 4.85
1754 1817 1.526225 GGCGAATTCCTACCCTGCC 60.526 63.158 0.00 1.10 0.00 4.85
1755 1818 1.527370 GCGAATTCCTACCCTGCCT 59.473 57.895 0.00 0.00 0.00 4.75
1756 1819 0.107165 GCGAATTCCTACCCTGCCTT 60.107 55.000 0.00 0.00 0.00 4.35
1757 1820 1.954927 CGAATTCCTACCCTGCCTTC 58.045 55.000 0.00 0.00 0.00 3.46
1758 1821 1.806623 CGAATTCCTACCCTGCCTTCG 60.807 57.143 0.00 0.00 0.00 3.79
1759 1822 0.546598 AATTCCTACCCTGCCTTCGG 59.453 55.000 0.00 0.00 0.00 4.30
1760 1823 0.326238 ATTCCTACCCTGCCTTCGGA 60.326 55.000 0.00 0.00 0.00 4.55
1761 1824 0.976073 TTCCTACCCTGCCTTCGGAG 60.976 60.000 0.00 0.00 0.00 4.63
1762 1825 1.381327 CCTACCCTGCCTTCGGAGA 60.381 63.158 0.00 0.00 0.00 3.71
1763 1826 1.677637 CCTACCCTGCCTTCGGAGAC 61.678 65.000 0.00 0.00 34.32 3.36
1764 1827 1.677637 CTACCCTGCCTTCGGAGACC 61.678 65.000 0.00 0.00 34.32 3.85
1765 1828 2.449967 TACCCTGCCTTCGGAGACCA 62.450 60.000 0.00 0.00 34.32 4.02
1766 1829 2.266055 CCTGCCTTCGGAGACCAC 59.734 66.667 0.00 0.00 34.32 4.16
1767 1830 2.286523 CCTGCCTTCGGAGACCACT 61.287 63.158 0.00 0.00 34.32 4.00
1768 1831 1.216710 CTGCCTTCGGAGACCACTC 59.783 63.158 0.00 0.00 41.94 3.51
1769 1832 2.182030 GCCTTCGGAGACCACTCG 59.818 66.667 0.00 0.00 43.44 4.18
1770 1833 2.182030 CCTTCGGAGACCACTCGC 59.818 66.667 0.00 0.00 43.44 5.03
1771 1834 2.182030 CTTCGGAGACCACTCGCC 59.818 66.667 0.00 0.00 43.44 5.54
1772 1835 3.358076 CTTCGGAGACCACTCGCCC 62.358 68.421 0.00 0.00 43.44 6.13
1773 1836 4.671590 TCGGAGACCACTCGCCCA 62.672 66.667 0.00 0.00 43.44 5.36
1774 1837 3.461773 CGGAGACCACTCGCCCAT 61.462 66.667 0.00 0.00 43.44 4.00
1775 1838 2.187946 GGAGACCACTCGCCCATG 59.812 66.667 0.00 0.00 43.44 3.66
1776 1839 2.512515 GAGACCACTCGCCCATGC 60.513 66.667 0.00 0.00 33.32 4.06
1777 1840 4.101448 AGACCACTCGCCCATGCC 62.101 66.667 0.00 0.00 0.00 4.40
1778 1841 4.101448 GACCACTCGCCCATGCCT 62.101 66.667 0.00 0.00 0.00 4.75
1779 1842 4.101448 ACCACTCGCCCATGCCTC 62.101 66.667 0.00 0.00 0.00 4.70
1780 1843 3.790437 CCACTCGCCCATGCCTCT 61.790 66.667 0.00 0.00 0.00 3.69
1781 1844 2.434843 CCACTCGCCCATGCCTCTA 61.435 63.158 0.00 0.00 0.00 2.43
1782 1845 1.068753 CACTCGCCCATGCCTCTAG 59.931 63.158 0.00 0.00 0.00 2.43
1783 1846 1.075970 ACTCGCCCATGCCTCTAGA 60.076 57.895 0.00 0.00 0.00 2.43
1784 1847 1.112315 ACTCGCCCATGCCTCTAGAG 61.112 60.000 13.18 13.18 0.00 2.43
1785 1848 0.825425 CTCGCCCATGCCTCTAGAGA 60.825 60.000 21.76 2.09 0.00 3.10
1786 1849 0.397114 TCGCCCATGCCTCTAGAGAA 60.397 55.000 21.76 9.34 0.00 2.87
1787 1850 0.683973 CGCCCATGCCTCTAGAGAAT 59.316 55.000 21.76 11.26 0.00 2.40
1788 1851 1.071385 CGCCCATGCCTCTAGAGAATT 59.929 52.381 21.76 1.99 0.00 2.17
1789 1852 2.777094 GCCCATGCCTCTAGAGAATTC 58.223 52.381 21.76 7.67 0.00 2.17
1790 1853 2.105477 GCCCATGCCTCTAGAGAATTCA 59.895 50.000 21.76 12.72 0.00 2.57
1791 1854 3.737850 CCCATGCCTCTAGAGAATTCAC 58.262 50.000 21.76 0.74 0.00 3.18
1792 1855 3.135348 CCCATGCCTCTAGAGAATTCACA 59.865 47.826 21.76 9.20 0.00 3.58
1793 1856 4.125703 CCATGCCTCTAGAGAATTCACAC 58.874 47.826 21.76 0.00 0.00 3.82
1794 1857 3.895232 TGCCTCTAGAGAATTCACACC 57.105 47.619 21.76 0.00 0.00 4.16
1795 1858 3.445008 TGCCTCTAGAGAATTCACACCT 58.555 45.455 21.76 1.97 0.00 4.00
1796 1859 3.196469 TGCCTCTAGAGAATTCACACCTG 59.804 47.826 21.76 0.73 0.00 4.00
1797 1860 3.196685 GCCTCTAGAGAATTCACACCTGT 59.803 47.826 21.76 0.00 0.00 4.00
1798 1861 4.753233 CCTCTAGAGAATTCACACCTGTG 58.247 47.826 21.76 0.00 46.91 3.66
1799 1862 4.180057 CTCTAGAGAATTCACACCTGTGC 58.820 47.826 15.05 0.00 45.25 4.57
1800 1863 2.936919 AGAGAATTCACACCTGTGCA 57.063 45.000 8.44 0.00 45.25 4.57
1801 1864 2.775890 AGAGAATTCACACCTGTGCAG 58.224 47.619 8.44 0.00 45.25 4.41
1802 1865 2.369860 AGAGAATTCACACCTGTGCAGA 59.630 45.455 8.44 0.00 45.25 4.26
1803 1866 2.481952 GAGAATTCACACCTGTGCAGAC 59.518 50.000 8.44 0.00 45.25 3.51
1804 1867 2.158769 AGAATTCACACCTGTGCAGACA 60.159 45.455 8.44 0.00 45.25 3.41
1858 1921 2.460669 CAGGAGGGGCTAAAAATTGCT 58.539 47.619 0.00 0.00 0.00 3.91
1859 1922 2.428530 CAGGAGGGGCTAAAAATTGCTC 59.571 50.000 0.00 0.00 0.00 4.26
1864 1927 2.456577 GGGCTAAAAATTGCTCCCTGA 58.543 47.619 0.00 0.00 0.00 3.86
1868 1931 1.269958 AAAAATTGCTCCCTGAGGGC 58.730 50.000 14.20 2.08 43.94 5.19
1894 1957 4.811761 GCTAAAGCGCGCGTTGGG 62.812 66.667 36.43 28.37 0.00 4.12
1895 1958 4.160635 CTAAAGCGCGCGTTGGGG 62.161 66.667 36.43 23.36 0.00 4.96
1896 1959 4.683721 TAAAGCGCGCGTTGGGGA 62.684 61.111 36.43 18.13 0.00 4.81
1906 1969 2.351276 GTTGGGGACGTGATGCCT 59.649 61.111 0.00 0.00 39.30 4.75
1915 1978 2.887568 GTGATGCCTCCAGTCGCG 60.888 66.667 0.00 0.00 0.00 5.87
1957 2020 4.428615 AACTTAAATACGGCGCAAACAT 57.571 36.364 10.83 0.00 0.00 2.71
1958 2021 5.548706 AACTTAAATACGGCGCAAACATA 57.451 34.783 10.83 0.00 0.00 2.29
1959 2022 5.548706 ACTTAAATACGGCGCAAACATAA 57.451 34.783 10.83 0.10 0.00 1.90
1960 2023 5.940595 ACTTAAATACGGCGCAAACATAAA 58.059 33.333 10.83 0.00 0.00 1.40
1961 2024 5.796437 ACTTAAATACGGCGCAAACATAAAC 59.204 36.000 10.83 0.00 0.00 2.01
1962 2025 2.445453 ATACGGCGCAAACATAAACG 57.555 45.000 10.83 1.96 0.00 3.60
2029 2114 0.340208 AACTACTAGGGCCTGCTCCT 59.660 55.000 18.53 0.00 38.36 3.69
2044 2129 3.518998 CCTCGCCGTCTCCATCGT 61.519 66.667 0.00 0.00 0.00 3.73
2047 2132 4.175489 CGCCGTCTCCATCGTCGT 62.175 66.667 0.00 0.00 0.00 4.34
2049 2134 1.445582 GCCGTCTCCATCGTCGTTT 60.446 57.895 0.00 0.00 0.00 3.60
2050 2135 1.411493 GCCGTCTCCATCGTCGTTTC 61.411 60.000 0.00 0.00 0.00 2.78
2053 2138 0.459759 GTCTCCATCGTCGTTTCCCC 60.460 60.000 0.00 0.00 0.00 4.81
2132 2245 3.095163 CTGCTGCATCCCTCCCCT 61.095 66.667 1.31 0.00 0.00 4.79
2139 2252 3.023735 ATCCCTCCCCTGGTTGGC 61.024 66.667 0.00 0.00 0.00 4.52
2188 2307 4.386245 GTCGCTGTCGAGGATCAC 57.614 61.111 0.00 0.00 46.46 3.06
2226 2345 3.660111 GCTCACGTTTGCGGGCTT 61.660 61.111 0.00 0.00 42.13 4.35
2228 2347 1.961277 CTCACGTTTGCGGGCTTCT 60.961 57.895 0.00 0.00 42.13 2.85
2265 2384 4.148825 GCTGCCGGACCATCTCGT 62.149 66.667 5.05 0.00 0.00 4.18
2266 2385 2.105128 CTGCCGGACCATCTCGTC 59.895 66.667 5.05 0.00 0.00 4.20
2267 2386 3.758088 CTGCCGGACCATCTCGTCG 62.758 68.421 5.05 0.00 33.30 5.12
2270 2389 4.907034 CGGACCATCTCGTCGCGG 62.907 72.222 6.13 0.00 33.30 6.46
2271 2390 3.823330 GGACCATCTCGTCGCGGT 61.823 66.667 6.13 0.00 33.30 5.68
2272 2391 2.475466 GGACCATCTCGTCGCGGTA 61.475 63.158 6.13 0.00 33.30 4.02
2282 2401 1.416813 CGTCGCGGTAGTAGTCGTCT 61.417 60.000 6.13 0.00 0.00 4.18
2287 2406 1.416813 CGGTAGTAGTCGTCTCGCGT 61.417 60.000 5.77 0.00 42.13 6.01
2292 2411 1.375140 TAGTCGTCTCGCGTCCACT 60.375 57.895 5.77 5.15 42.13 4.00
2294 2413 2.976350 TCGTCTCGCGTCCACTGT 60.976 61.111 5.77 0.00 42.13 3.55
2300 2419 4.814294 CGCGTCCACTGTAGGGCC 62.814 72.222 0.00 0.00 0.00 5.80
2302 2421 2.955881 GCGTCCACTGTAGGGCCTT 61.956 63.158 13.45 0.00 0.00 4.35
2308 2427 0.108615 CACTGTAGGGCCTTCTCGTG 60.109 60.000 13.45 14.36 0.00 4.35
2336 2461 0.592148 CGGCTATGTCCTCGTACTCC 59.408 60.000 0.00 0.00 0.00 3.85
2338 2463 0.592148 GCTATGTCCTCGTACTCCGG 59.408 60.000 0.00 0.00 37.11 5.14
2368 2493 4.821589 CTCCGGCTTGGGCTCGAC 62.822 72.222 0.00 0.00 38.76 4.20
2372 2497 4.821589 GGCTTGGGCTCGACGAGG 62.822 72.222 25.31 10.04 38.73 4.63
2373 2498 3.760035 GCTTGGGCTCGACGAGGA 61.760 66.667 25.31 0.00 35.22 3.71
2374 2499 2.182030 CTTGGGCTCGACGAGGAC 59.818 66.667 25.31 10.21 0.00 3.85
2375 2500 3.685214 CTTGGGCTCGACGAGGACG 62.685 68.421 25.31 2.09 45.75 4.79
2376 2501 4.710167 TGGGCTCGACGAGGACGA 62.710 66.667 25.31 4.02 42.66 4.20
2377 2502 3.437795 GGGCTCGACGAGGACGAA 61.438 66.667 25.31 0.00 42.66 3.85
2378 2503 2.100603 GGCTCGACGAGGACGAAG 59.899 66.667 25.31 0.16 42.66 3.79
2379 2504 2.577378 GCTCGACGAGGACGAAGC 60.577 66.667 25.31 7.11 42.66 3.86
2380 2505 2.276743 CTCGACGAGGACGAAGCG 60.277 66.667 17.27 0.00 42.66 4.68
2381 2506 3.720106 CTCGACGAGGACGAAGCGG 62.720 68.421 17.27 0.00 42.66 5.52
2382 2507 4.099170 CGACGAGGACGAAGCGGT 62.099 66.667 0.00 0.00 42.66 5.68
2383 2508 2.202453 GACGAGGACGAAGCGGTC 60.202 66.667 0.00 0.00 42.66 4.79
2425 2550 3.857854 CGCGCTCACAGGCATGTC 61.858 66.667 0.00 0.00 37.65 3.06
2426 2551 3.503363 GCGCTCACAGGCATGTCC 61.503 66.667 0.00 0.00 37.65 4.02
2434 2559 3.415087 AGGCATGTCCTGGGGCTC 61.415 66.667 7.76 0.00 45.54 4.70
2435 2560 4.512914 GGCATGTCCTGGGGCTCC 62.513 72.222 0.00 0.00 0.00 4.70
2436 2561 4.864334 GCATGTCCTGGGGCTCCG 62.864 72.222 0.00 0.00 35.24 4.63
2437 2562 4.181010 CATGTCCTGGGGCTCCGG 62.181 72.222 3.65 3.65 39.17 5.14
2443 2568 4.785453 CTGGGGCTCCGGCTTGAC 62.785 72.222 0.00 0.00 38.73 3.18
2455 2580 3.072468 CTTGACGGGGCGGAGGTA 61.072 66.667 0.00 0.00 0.00 3.08
2456 2581 3.072468 TTGACGGGGCGGAGGTAG 61.072 66.667 0.00 0.00 0.00 3.18
2461 2586 4.153330 GGGGCGGAGGTAGGGAGA 62.153 72.222 0.00 0.00 0.00 3.71
2462 2587 2.522193 GGGCGGAGGTAGGGAGAG 60.522 72.222 0.00 0.00 0.00 3.20
2463 2588 3.228017 GGCGGAGGTAGGGAGAGC 61.228 72.222 0.00 0.00 0.00 4.09
2464 2589 3.228017 GCGGAGGTAGGGAGAGCC 61.228 72.222 0.00 0.00 0.00 4.70
2465 2590 2.907917 CGGAGGTAGGGAGAGCCG 60.908 72.222 0.00 0.00 33.83 5.52
2466 2591 2.522193 GGAGGTAGGGAGAGCCGG 60.522 72.222 0.00 0.00 33.83 6.13
2467 2592 2.601868 GAGGTAGGGAGAGCCGGA 59.398 66.667 5.05 0.00 33.83 5.14
2468 2593 1.829096 GAGGTAGGGAGAGCCGGAC 60.829 68.421 5.05 0.00 33.83 4.79
2469 2594 3.217743 GGTAGGGAGAGCCGGACG 61.218 72.222 5.05 0.00 33.83 4.79
2470 2595 2.124403 GTAGGGAGAGCCGGACGA 60.124 66.667 5.05 0.00 33.83 4.20
2471 2596 2.188161 GTAGGGAGAGCCGGACGAG 61.188 68.421 5.05 0.00 33.83 4.18
2491 2616 4.816984 GCCGGACGAGGAGGAGGA 62.817 72.222 5.05 0.00 0.00 3.71
2492 2617 2.829458 CCGGACGAGGAGGAGGAC 60.829 72.222 0.00 0.00 0.00 3.85
2493 2618 3.203412 CGGACGAGGAGGAGGACG 61.203 72.222 0.00 0.00 0.00 4.79
2494 2619 3.519930 GGACGAGGAGGAGGACGC 61.520 72.222 0.00 0.00 0.00 5.19
2495 2620 3.519930 GACGAGGAGGAGGACGCC 61.520 72.222 0.00 0.00 39.70 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 67 0.934496 TTCAACTTTGCCGAGACGTG 59.066 50.000 0.00 0.00 0.00 4.49
110 114 3.399330 ACATGTCTACAAAGGAACGGTG 58.601 45.455 0.00 0.00 0.00 4.94
135 139 6.189677 TGAAATTACAAAGATAACAGCCGG 57.810 37.500 0.00 0.00 0.00 6.13
247 257 0.250467 ACACAGCATGAAACGAGGCT 60.250 50.000 0.00 0.00 39.69 4.58
303 320 1.576421 GACCAAACAAGCCTCAGCG 59.424 57.895 0.00 0.00 46.67 5.18
335 355 1.425066 TGGCAACAGATTCACCCTTCT 59.575 47.619 0.00 0.00 46.17 2.85
374 394 4.618460 GCTCCAGATTTGTCGAGTAACTCA 60.618 45.833 0.00 0.00 0.00 3.41
383 403 1.002366 CTTCGGCTCCAGATTTGTCG 58.998 55.000 0.00 0.00 0.00 4.35
673 713 6.640518 TCGAGGTATAATTTGAGACTTTGCT 58.359 36.000 0.00 0.00 0.00 3.91
690 730 0.177141 CCCCGAGCATTTTCGAGGTA 59.823 55.000 0.00 0.00 43.03 3.08
810 850 1.566018 GGTTTGGCTCTTGGTCGACG 61.566 60.000 9.92 0.00 0.00 5.12
858 898 3.325135 TCCTCTTTCTTTCTCCTGTGGTC 59.675 47.826 0.00 0.00 0.00 4.02
859 899 3.318313 TCCTCTTTCTTTCTCCTGTGGT 58.682 45.455 0.00 0.00 0.00 4.16
860 900 4.068599 GTTCCTCTTTCTTTCTCCTGTGG 58.931 47.826 0.00 0.00 0.00 4.17
861 901 3.743396 CGTTCCTCTTTCTTTCTCCTGTG 59.257 47.826 0.00 0.00 0.00 3.66
862 902 3.804063 GCGTTCCTCTTTCTTTCTCCTGT 60.804 47.826 0.00 0.00 0.00 4.00
1014 1070 3.188492 TGTGTGTGCTTTGCAGATTTTG 58.812 40.909 0.00 0.00 40.08 2.44
1514 1570 2.194056 CGGCCGTAGTCCTAGGGA 59.806 66.667 19.50 0.00 42.13 4.20
1517 1573 1.266175 CATACACGGCCGTAGTCCTAG 59.734 57.143 33.70 19.46 0.00 3.02
1531 1587 1.206745 ACTGATACGCGCGCATACAC 61.207 55.000 32.58 18.04 0.00 2.90
1540 1596 0.366871 GACTGCAACACTGATACGCG 59.633 55.000 3.53 3.53 0.00 6.01
1544 1600 3.068165 CCGGATAGACTGCAACACTGATA 59.932 47.826 0.00 0.00 0.00 2.15
1545 1601 2.159043 CCGGATAGACTGCAACACTGAT 60.159 50.000 0.00 0.00 0.00 2.90
1546 1602 1.204704 CCGGATAGACTGCAACACTGA 59.795 52.381 0.00 0.00 0.00 3.41
1547 1603 1.066858 ACCGGATAGACTGCAACACTG 60.067 52.381 9.46 0.00 0.00 3.66
1548 1604 1.267121 ACCGGATAGACTGCAACACT 58.733 50.000 9.46 0.00 0.00 3.55
1549 1605 2.000447 GAACCGGATAGACTGCAACAC 59.000 52.381 9.46 0.00 0.00 3.32
1552 1608 1.207089 CCTGAACCGGATAGACTGCAA 59.793 52.381 9.46 0.00 0.00 4.08
1553 1609 0.824109 CCTGAACCGGATAGACTGCA 59.176 55.000 9.46 0.00 0.00 4.41
1554 1610 0.824759 ACCTGAACCGGATAGACTGC 59.175 55.000 9.46 0.00 0.00 4.40
1555 1611 1.825474 ACACCTGAACCGGATAGACTG 59.175 52.381 9.46 4.71 0.00 3.51
1556 1612 2.233305 ACACCTGAACCGGATAGACT 57.767 50.000 9.46 0.00 0.00 3.24
1557 1613 3.635373 TGATACACCTGAACCGGATAGAC 59.365 47.826 9.46 0.00 0.00 2.59
1558 1614 3.889538 CTGATACACCTGAACCGGATAGA 59.110 47.826 9.46 0.00 0.00 1.98
1559 1615 3.637229 ACTGATACACCTGAACCGGATAG 59.363 47.826 9.46 2.54 0.00 2.08
1593 1649 4.040339 TCGGGAGATAATTATTGCTCTGCA 59.960 41.667 11.80 0.00 36.47 4.41
1594 1650 4.390297 GTCGGGAGATAATTATTGCTCTGC 59.610 45.833 11.80 5.73 43.27 4.26
1595 1651 4.932200 GGTCGGGAGATAATTATTGCTCTG 59.068 45.833 11.80 7.10 43.27 3.35
1672 1733 4.159693 CCTGTAGGTGTAGTAGCATGTTCA 59.840 45.833 0.00 0.00 0.00 3.18
1689 1750 2.223203 CGTGGTTCGTAGCTACCTGTAG 60.223 54.545 18.16 3.91 33.95 2.74
1691 1752 0.524862 CGTGGTTCGTAGCTACCTGT 59.475 55.000 18.16 0.00 33.95 4.00
1692 1753 3.324170 CGTGGTTCGTAGCTACCTG 57.676 57.895 18.16 5.39 33.95 4.00
1714 1777 4.040952 CCTTGGGAGTAATGCTACAGCTAT 59.959 45.833 2.44 0.00 42.66 2.97
1718 1781 2.565841 GCCTTGGGAGTAATGCTACAG 58.434 52.381 0.00 0.00 0.00 2.74
1738 1801 1.806623 CGAAGGCAGGGTAGGAATTCG 60.807 57.143 0.00 0.00 33.15 3.34
1739 1802 1.475213 CCGAAGGCAGGGTAGGAATTC 60.475 57.143 0.00 0.00 46.14 2.17
1740 1803 0.546598 CCGAAGGCAGGGTAGGAATT 59.453 55.000 0.00 0.00 46.14 2.17
1741 1804 2.221918 CCGAAGGCAGGGTAGGAAT 58.778 57.895 0.00 0.00 46.14 3.01
1742 1805 3.721868 CCGAAGGCAGGGTAGGAA 58.278 61.111 0.00 0.00 46.14 3.36
1754 1817 2.182030 GGCGAGTGGTCTCCGAAG 59.818 66.667 0.00 0.00 37.40 3.79
1755 1818 3.379445 GGGCGAGTGGTCTCCGAA 61.379 66.667 0.00 0.00 37.40 4.30
1756 1819 3.957435 ATGGGCGAGTGGTCTCCGA 62.957 63.158 0.00 0.00 37.40 4.55
1757 1820 3.461773 ATGGGCGAGTGGTCTCCG 61.462 66.667 0.00 0.00 37.40 4.63
1758 1821 2.187946 CATGGGCGAGTGGTCTCC 59.812 66.667 0.00 0.00 37.40 3.71
1759 1822 2.512515 GCATGGGCGAGTGGTCTC 60.513 66.667 0.00 0.00 37.35 3.36
1760 1823 4.101448 GGCATGGGCGAGTGGTCT 62.101 66.667 0.00 0.00 42.47 3.85
1761 1824 4.101448 AGGCATGGGCGAGTGGTC 62.101 66.667 0.00 0.00 42.47 4.02
1762 1825 4.101448 GAGGCATGGGCGAGTGGT 62.101 66.667 0.00 0.00 42.47 4.16
1763 1826 2.374830 CTAGAGGCATGGGCGAGTGG 62.375 65.000 0.00 0.00 42.47 4.00
1764 1827 1.068753 CTAGAGGCATGGGCGAGTG 59.931 63.158 0.00 0.00 42.47 3.51
1765 1828 1.075970 TCTAGAGGCATGGGCGAGT 60.076 57.895 0.00 0.00 42.47 4.18
1766 1829 0.825425 TCTCTAGAGGCATGGGCGAG 60.825 60.000 19.67 0.00 42.47 5.03
1767 1830 0.397114 TTCTCTAGAGGCATGGGCGA 60.397 55.000 19.67 0.00 42.47 5.54
1768 1831 0.683973 ATTCTCTAGAGGCATGGGCG 59.316 55.000 19.67 0.00 42.47 6.13
1769 1832 2.105477 TGAATTCTCTAGAGGCATGGGC 59.895 50.000 19.67 6.75 40.13 5.36
1770 1833 3.135348 TGTGAATTCTCTAGAGGCATGGG 59.865 47.826 19.67 0.00 0.00 4.00
1771 1834 4.125703 GTGTGAATTCTCTAGAGGCATGG 58.874 47.826 19.67 0.00 0.00 3.66
1772 1835 4.125703 GGTGTGAATTCTCTAGAGGCATG 58.874 47.826 19.67 0.00 0.00 4.06
1773 1836 4.036518 AGGTGTGAATTCTCTAGAGGCAT 58.963 43.478 19.67 9.42 0.00 4.40
1774 1837 3.196469 CAGGTGTGAATTCTCTAGAGGCA 59.804 47.826 19.67 10.05 0.00 4.75
1775 1838 3.196685 ACAGGTGTGAATTCTCTAGAGGC 59.803 47.826 19.67 7.71 0.00 4.70
1796 1859 4.245660 TGCTCTAAGTTATGTGTCTGCAC 58.754 43.478 0.00 0.00 45.44 4.57
1797 1860 4.535526 TGCTCTAAGTTATGTGTCTGCA 57.464 40.909 0.00 0.00 0.00 4.41
1798 1861 5.355596 AGATGCTCTAAGTTATGTGTCTGC 58.644 41.667 0.00 0.00 0.00 4.26
1799 1862 5.982516 GGAGATGCTCTAAGTTATGTGTCTG 59.017 44.000 0.00 0.00 0.00 3.51
1800 1863 5.658634 TGGAGATGCTCTAAGTTATGTGTCT 59.341 40.000 0.00 0.00 0.00 3.41
1801 1864 5.907207 TGGAGATGCTCTAAGTTATGTGTC 58.093 41.667 0.00 0.00 0.00 3.67
1802 1865 5.683509 GCTGGAGATGCTCTAAGTTATGTGT 60.684 44.000 0.00 0.00 0.00 3.72
1803 1866 4.749099 GCTGGAGATGCTCTAAGTTATGTG 59.251 45.833 0.00 0.00 0.00 3.21
1804 1867 4.202305 GGCTGGAGATGCTCTAAGTTATGT 60.202 45.833 0.00 0.00 0.00 2.29
1805 1868 4.314121 GGCTGGAGATGCTCTAAGTTATG 58.686 47.826 0.00 0.00 0.00 1.90
1806 1869 3.006323 CGGCTGGAGATGCTCTAAGTTAT 59.994 47.826 0.00 0.00 0.00 1.89
1807 1870 2.362397 CGGCTGGAGATGCTCTAAGTTA 59.638 50.000 0.00 0.00 0.00 2.24
1808 1871 1.137872 CGGCTGGAGATGCTCTAAGTT 59.862 52.381 0.00 0.00 0.00 2.66
1809 1872 0.749649 CGGCTGGAGATGCTCTAAGT 59.250 55.000 0.00 0.00 0.00 2.24
1810 1873 0.749649 ACGGCTGGAGATGCTCTAAG 59.250 55.000 0.00 0.00 0.00 2.18
1811 1874 1.134699 CAACGGCTGGAGATGCTCTAA 60.135 52.381 0.00 0.00 0.00 2.10
1812 1875 0.461548 CAACGGCTGGAGATGCTCTA 59.538 55.000 0.00 0.00 0.00 2.43
1838 1901 2.428530 GAGCAATTTTTAGCCCCTCCTG 59.571 50.000 0.00 0.00 0.00 3.86
1844 1907 2.428530 CTCAGGGAGCAATTTTTAGCCC 59.571 50.000 0.00 0.00 35.79 5.19
1889 1952 1.745489 GAGGCATCACGTCCCCAAC 60.745 63.158 0.00 0.00 0.00 3.77
1890 1953 2.668632 GAGGCATCACGTCCCCAA 59.331 61.111 0.00 0.00 0.00 4.12
1895 1958 1.517257 CGACTGGAGGCATCACGTC 60.517 63.158 0.00 4.99 0.00 4.34
1896 1959 2.573869 CGACTGGAGGCATCACGT 59.426 61.111 0.00 0.00 0.00 4.49
1897 1960 2.887568 GCGACTGGAGGCATCACG 60.888 66.667 0.00 1.52 0.00 4.35
1898 1961 2.887568 CGCGACTGGAGGCATCAC 60.888 66.667 0.00 0.00 0.00 3.06
1899 1962 4.147449 CCGCGACTGGAGGCATCA 62.147 66.667 8.23 0.00 0.00 3.07
1933 1996 5.755813 TGTTTGCGCCGTATTTAAGTTTTA 58.244 33.333 4.18 0.00 0.00 1.52
1938 2001 5.053545 CGTTTATGTTTGCGCCGTATTTAAG 60.054 40.000 4.18 0.00 0.00 1.85
1939 2002 4.787083 CGTTTATGTTTGCGCCGTATTTAA 59.213 37.500 4.18 0.00 0.00 1.52
1940 2003 4.332788 CGTTTATGTTTGCGCCGTATTTA 58.667 39.130 4.18 0.00 0.00 1.40
1957 2020 1.336148 ACTCACCGATGTTCGCGTTTA 60.336 47.619 5.77 0.00 38.82 2.01
1958 2021 0.599204 ACTCACCGATGTTCGCGTTT 60.599 50.000 5.77 0.00 38.82 3.60
1959 2022 0.599204 AACTCACCGATGTTCGCGTT 60.599 50.000 5.77 0.00 38.82 4.84
1960 2023 1.006571 AACTCACCGATGTTCGCGT 60.007 52.632 5.77 0.00 38.82 6.01
1961 2024 1.702299 GAACTCACCGATGTTCGCG 59.298 57.895 0.00 0.00 38.82 5.87
1964 2027 2.400399 TGAACGAACTCACCGATGTTC 58.600 47.619 0.00 0.00 39.15 3.18
2026 2111 3.209812 CGATGGAGACGGCGAGGA 61.210 66.667 16.62 0.00 0.00 3.71
2080 2165 0.801067 CTACACGCGGTTCTACAGCC 60.801 60.000 12.47 0.00 35.89 4.85
2081 2166 0.109412 ACTACACGCGGTTCTACAGC 60.109 55.000 12.47 0.00 35.94 4.40
2082 2167 1.789410 CGACTACACGCGGTTCTACAG 60.789 57.143 12.47 2.13 0.00 2.74
2083 2168 0.166597 CGACTACACGCGGTTCTACA 59.833 55.000 12.47 0.00 0.00 2.74
2084 2169 2.921996 CGACTACACGCGGTTCTAC 58.078 57.895 12.47 0.00 0.00 2.59
2108 2215 4.101448 GGATGCAGCAGGGACGGT 62.101 66.667 3.51 0.00 0.00 4.83
2201 2320 2.733593 AAACGTGAGCGCGAGGAC 60.734 61.111 12.10 0.15 42.83 3.85
2211 2330 0.036765 ATAGAAGCCCGCAAACGTGA 60.037 50.000 0.00 0.00 37.70 4.35
2216 2335 1.139058 GAGGAGATAGAAGCCCGCAAA 59.861 52.381 0.00 0.00 0.00 3.68
2225 2344 0.104934 GGGCCCTGGAGGAGATAGAA 60.105 60.000 17.04 0.00 38.24 2.10
2226 2345 1.549297 GGGCCCTGGAGGAGATAGA 59.451 63.158 17.04 0.00 38.24 1.98
2228 2347 2.201490 CGGGCCCTGGAGGAGATA 59.799 66.667 22.43 0.00 38.24 1.98
2248 2367 4.148825 ACGAGATGGTCCGGCAGC 62.149 66.667 0.00 0.00 0.00 5.25
2256 2375 0.462581 TACTACCGCGACGAGATGGT 60.463 55.000 8.23 2.77 38.51 3.55
2257 2376 0.235144 CTACTACCGCGACGAGATGG 59.765 60.000 8.23 0.00 0.00 3.51
2264 2383 0.300193 GAGACGACTACTACCGCGAC 59.700 60.000 8.23 0.00 0.00 5.19
2265 2384 1.142185 CGAGACGACTACTACCGCGA 61.142 60.000 8.23 0.00 0.00 5.87
2266 2385 1.272131 CGAGACGACTACTACCGCG 59.728 63.158 0.00 0.00 0.00 6.46
2267 2386 1.011352 GCGAGACGACTACTACCGC 60.011 63.158 2.70 2.70 0.00 5.68
2282 2401 3.755628 GCCCTACAGTGGACGCGA 61.756 66.667 15.93 0.00 0.00 5.87
2287 2406 0.970937 CGAGAAGGCCCTACAGTGGA 60.971 60.000 0.00 0.00 0.00 4.02
2292 2411 2.656069 GCCACGAGAAGGCCCTACA 61.656 63.158 0.00 0.00 46.50 2.74
2317 2442 0.592148 GGAGTACGAGGACATAGCCG 59.408 60.000 0.00 0.00 0.00 5.52
2324 2449 2.832201 CCCCCGGAGTACGAGGAC 60.832 72.222 0.73 0.00 44.25 3.85
2351 2476 4.821589 GTCGAGCCCAAGCCGGAG 62.822 72.222 5.05 0.00 41.25 4.63
2355 2480 4.821589 CCTCGTCGAGCCCAAGCC 62.822 72.222 17.02 0.00 41.25 4.35
2356 2481 3.760035 TCCTCGTCGAGCCCAAGC 61.760 66.667 17.02 0.00 40.32 4.01
2357 2482 2.182030 GTCCTCGTCGAGCCCAAG 59.818 66.667 17.02 2.97 0.00 3.61
2358 2483 3.744719 CGTCCTCGTCGAGCCCAA 61.745 66.667 17.02 0.00 0.00 4.12
2359 2484 4.710167 TCGTCCTCGTCGAGCCCA 62.710 66.667 17.02 0.00 38.33 5.36
2360 2485 3.398353 CTTCGTCCTCGTCGAGCCC 62.398 68.421 17.02 7.90 38.52 5.19
2361 2486 2.100603 CTTCGTCCTCGTCGAGCC 59.899 66.667 17.02 8.25 38.52 4.70
2362 2487 2.577378 GCTTCGTCCTCGTCGAGC 60.577 66.667 17.02 3.30 38.52 5.03
2363 2488 2.276743 CGCTTCGTCCTCGTCGAG 60.277 66.667 15.53 15.53 38.52 4.04
2364 2489 3.796443 CCGCTTCGTCCTCGTCGA 61.796 66.667 0.00 0.00 38.33 4.20
2365 2490 3.996744 GACCGCTTCGTCCTCGTCG 62.997 68.421 0.00 0.00 38.33 5.12
2366 2491 2.202453 GACCGCTTCGTCCTCGTC 60.202 66.667 0.00 0.00 38.33 4.20
2367 2492 4.099170 CGACCGCTTCGTCCTCGT 62.099 66.667 0.00 0.00 43.24 4.18
2408 2533 3.857854 GACATGCCTGTGAGCGCG 61.858 66.667 0.00 0.00 35.14 6.86
2409 2534 3.503363 GGACATGCCTGTGAGCGC 61.503 66.667 0.00 0.00 35.14 5.92
2418 2543 4.512914 GGAGCCCCAGGACATGCC 62.513 72.222 0.00 0.00 0.00 4.40
2419 2544 4.864334 CGGAGCCCCAGGACATGC 62.864 72.222 0.00 0.00 0.00 4.06
2420 2545 4.181010 CCGGAGCCCCAGGACATG 62.181 72.222 0.00 0.00 0.00 3.21
2426 2551 4.785453 GTCAAGCCGGAGCCCCAG 62.785 72.222 5.05 0.00 41.25 4.45
2438 2563 3.072468 TACCTCCGCCCCGTCAAG 61.072 66.667 0.00 0.00 0.00 3.02
2439 2564 3.072468 CTACCTCCGCCCCGTCAA 61.072 66.667 0.00 0.00 0.00 3.18
2444 2569 4.153330 TCTCCCTACCTCCGCCCC 62.153 72.222 0.00 0.00 0.00 5.80
2445 2570 2.522193 CTCTCCCTACCTCCGCCC 60.522 72.222 0.00 0.00 0.00 6.13
2446 2571 3.228017 GCTCTCCCTACCTCCGCC 61.228 72.222 0.00 0.00 0.00 6.13
2447 2572 3.228017 GGCTCTCCCTACCTCCGC 61.228 72.222 0.00 0.00 0.00 5.54
2448 2573 2.907917 CGGCTCTCCCTACCTCCG 60.908 72.222 0.00 0.00 0.00 4.63
2449 2574 2.522193 CCGGCTCTCCCTACCTCC 60.522 72.222 0.00 0.00 0.00 4.30
2450 2575 1.829096 GTCCGGCTCTCCCTACCTC 60.829 68.421 0.00 0.00 0.00 3.85
2451 2576 2.279408 GTCCGGCTCTCCCTACCT 59.721 66.667 0.00 0.00 0.00 3.08
2452 2577 3.217743 CGTCCGGCTCTCCCTACC 61.218 72.222 0.00 0.00 0.00 3.18
2453 2578 2.124403 TCGTCCGGCTCTCCCTAC 60.124 66.667 0.00 0.00 0.00 3.18
2454 2579 2.192443 CTCGTCCGGCTCTCCCTA 59.808 66.667 0.00 0.00 0.00 3.53
2474 2599 4.816984 TCCTCCTCCTCGTCCGGC 62.817 72.222 0.00 0.00 0.00 6.13
2475 2600 2.829458 GTCCTCCTCCTCGTCCGG 60.829 72.222 0.00 0.00 0.00 5.14
2476 2601 3.203412 CGTCCTCCTCCTCGTCCG 61.203 72.222 0.00 0.00 0.00 4.79
2477 2602 3.519930 GCGTCCTCCTCCTCGTCC 61.520 72.222 0.00 0.00 0.00 4.79
2478 2603 3.519930 GGCGTCCTCCTCCTCGTC 61.520 72.222 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.