Multiple sequence alignment - TraesCS7D01G214600

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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 TraesCS7D01G214600 chr7D 100.000 2710 0 0 1 2710 174331715 174334424 0.000000e+00 5005.0
1 TraesCS7D01G214600 chr7D 98.592 1065 14 1 1 1065 394232575 394233638 0.000000e+00 1882.0
2 TraesCS7D01G214600 chr7D 98.402 1064 16 1 1 1063 491832838 491833901 0.000000e+00 1869.0
3 TraesCS7D01G214600 chr1D 98.590 1064 14 1 1 1063 79780162 79781225 0.000000e+00 1881.0
4 TraesCS7D01G214600 chr1D 98.496 1064 15 1 1 1063 236042259 236041196 0.000000e+00 1875.0
5 TraesCS7D01G214600 chr1D 98.404 1065 16 1 1 1064 453665850 453666914 0.000000e+00 1871.0
6 TraesCS7D01G214600 chr1D 78.261 138 30 0 1421 1558 405057203 405057340 3.720000e-14 89.8
7 TraesCS7D01G214600 chr3D 98.126 1067 15 4 1 1065 166967902 166966839 0.000000e+00 1855.0
8 TraesCS7D01G214600 chr3D 98.026 1064 20 1 1 1063 360350036 360348973 0.000000e+00 1847.0
9 TraesCS7D01G214600 chr5D 97.930 1063 22 0 1 1063 532618040 532616978 0.000000e+00 1842.0
10 TraesCS7D01G214600 chr5D 79.096 177 37 0 1401 1577 487952625 487952801 3.660000e-24 122.0
11 TraesCS7D01G214600 chr5D 78.531 177 38 0 1401 1577 534573177 534573001 1.700000e-22 117.0
12 TraesCS7D01G214600 chr6D 97.934 1065 17 5 1 1063 121262931 121261870 0.000000e+00 1840.0
13 TraesCS7D01G214600 chr7B 93.642 692 41 2 1064 1753 138757192 138757882 0.000000e+00 1031.0
14 TraesCS7D01G214600 chr7B 95.556 315 14 0 2396 2710 138863838 138864152 3.110000e-139 505.0
15 TraesCS7D01G214600 chr7B 83.658 257 23 6 1789 2029 138757876 138758129 9.760000e-55 224.0
16 TraesCS7D01G214600 chr7B 86.087 115 9 4 2121 2230 138862077 138862189 1.700000e-22 117.0
17 TraesCS7D01G214600 chr7A 94.921 315 16 0 2396 2710 176284689 176285003 6.740000e-136 494.0
18 TraesCS7D01G214600 chr7A 83.841 328 45 4 2391 2710 1524364 1524037 3.390000e-79 305.0
19 TraesCS7D01G214600 chr7A 88.703 239 23 3 1064 1302 176284191 176284425 3.410000e-74 289.0
20 TraesCS7D01G214600 chr4B 82.765 528 52 11 1064 1576 602212135 602211632 4.140000e-118 435.0
21 TraesCS7D01G214600 chr4B 86.792 53 6 1 1613 1664 602294359 602294307 1.050000e-04 58.4
22 TraesCS7D01G214600 chr2A 88.889 108 10 2 2604 2710 528170785 528170679 6.090000e-27 132.0
23 TraesCS7D01G214600 chr5B 79.661 177 36 0 1401 1577 600550789 600550965 7.880000e-26 128.0
24 TraesCS7D01G214600 chr2D 87.850 107 13 0 2604 2710 603693277 603693171 2.830000e-25 126.0
25 TraesCS7D01G214600 chr5A 79.096 177 37 0 1401 1577 608655756 608655932 3.660000e-24 122.0
26 TraesCS7D01G214600 chr2B 87.037 108 12 2 2604 2710 734460287 734460181 1.320000e-23 121.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G214600 chr7D 174331715 174334424 2709 False 5005.0 5005 100.0000 1 2710 1 chr7D.!!$F1 2709
1 TraesCS7D01G214600 chr7D 394232575 394233638 1063 False 1882.0 1882 98.5920 1 1065 1 chr7D.!!$F2 1064
2 TraesCS7D01G214600 chr7D 491832838 491833901 1063 False 1869.0 1869 98.4020 1 1063 1 chr7D.!!$F3 1062
3 TraesCS7D01G214600 chr1D 79780162 79781225 1063 False 1881.0 1881 98.5900 1 1063 1 chr1D.!!$F1 1062
4 TraesCS7D01G214600 chr1D 236041196 236042259 1063 True 1875.0 1875 98.4960 1 1063 1 chr1D.!!$R1 1062
5 TraesCS7D01G214600 chr1D 453665850 453666914 1064 False 1871.0 1871 98.4040 1 1064 1 chr1D.!!$F3 1063
6 TraesCS7D01G214600 chr3D 166966839 166967902 1063 True 1855.0 1855 98.1260 1 1065 1 chr3D.!!$R1 1064
7 TraesCS7D01G214600 chr3D 360348973 360350036 1063 True 1847.0 1847 98.0260 1 1063 1 chr3D.!!$R2 1062
8 TraesCS7D01G214600 chr5D 532616978 532618040 1062 True 1842.0 1842 97.9300 1 1063 1 chr5D.!!$R1 1062
9 TraesCS7D01G214600 chr6D 121261870 121262931 1061 True 1840.0 1840 97.9340 1 1063 1 chr6D.!!$R1 1062
10 TraesCS7D01G214600 chr7B 138757192 138758129 937 False 627.5 1031 88.6500 1064 2029 2 chr7B.!!$F1 965
11 TraesCS7D01G214600 chr7B 138862077 138864152 2075 False 311.0 505 90.8215 2121 2710 2 chr7B.!!$F2 589
12 TraesCS7D01G214600 chr7A 176284191 176285003 812 False 391.5 494 91.8120 1064 2710 2 chr7A.!!$F1 1646
13 TraesCS7D01G214600 chr4B 602211632 602212135 503 True 435.0 435 82.7650 1064 1576 1 chr4B.!!$R1 512

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
975 976 0.685097 GCTACGGGGCTTGGATATGA 59.315 55.0 0.0 0.0 0.0 2.15 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1906 1940 0.234625 GTGATTGCGAGCGTGTTTGA 59.765 50.0 0.0 0.0 0.0 2.69 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
562 563 2.625737 CAGAACAAGATCTGCGATGGT 58.374 47.619 0.00 0.00 40.31 3.55
975 976 0.685097 GCTACGGGGCTTGGATATGA 59.315 55.000 0.00 0.00 0.00 2.15
1046 1049 4.017867 CCTGGAAAATTGAGTTAGGGGGTA 60.018 45.833 0.00 0.00 0.00 3.69
1093 1096 5.416952 CCTATTGTCTGCAAAACCAGAGATT 59.583 40.000 0.00 0.00 42.14 2.40
1125 1128 1.197721 CACAAGGCGGAATCTGTTCAC 59.802 52.381 0.00 0.00 36.01 3.18
1126 1129 0.443869 CAAGGCGGAATCTGTTCACG 59.556 55.000 0.00 0.00 36.01 4.35
1136 1139 4.382320 TGTTCACGGCCGCCTACC 62.382 66.667 28.58 10.41 0.00 3.18
1153 1156 4.280929 GCCTACCACAAACTCAAGGAAATT 59.719 41.667 0.00 0.00 0.00 1.82
1163 1166 3.499918 ACTCAAGGAAATTCTCAAGTGCG 59.500 43.478 0.00 0.00 0.00 5.34
1167 1170 1.168714 GAAATTCTCAAGTGCGGCCT 58.831 50.000 0.00 0.00 0.00 5.19
1343 1346 0.605589 ACCAGCTGAAGAAGGTCTCG 59.394 55.000 17.39 0.00 33.14 4.04
1573 1591 1.301558 GGAGAGGATGCAGATGCCG 60.302 63.158 1.72 0.00 41.18 5.69
1604 1622 2.117156 CCAGGCGCAGGAGGAAATG 61.117 63.158 10.83 0.00 0.00 2.32
1631 1649 1.272490 CTGCCTTCAGACAAGACGGTA 59.728 52.381 0.00 0.00 42.95 4.02
1661 1679 6.150809 TGTTTGATGCAGTTGCTTATGTATGA 59.849 34.615 5.62 0.00 42.66 2.15
1688 1706 1.067916 CACCCTGTTTGTTGCTGCC 59.932 57.895 0.00 0.00 0.00 4.85
1704 1722 4.960938 TGCTGCCTATTATTTGATCGTCT 58.039 39.130 0.00 0.00 0.00 4.18
1735 1755 2.936498 AGTATCAGGTTTGCGTGTATGC 59.064 45.455 0.00 0.00 32.77 3.14
1749 1769 1.484653 TGTATGCTGTTGTCCGCCTAT 59.515 47.619 0.00 0.00 0.00 2.57
1751 1771 0.179045 ATGCTGTTGTCCGCCTATCC 60.179 55.000 0.00 0.00 0.00 2.59
1752 1772 1.220749 GCTGTTGTCCGCCTATCCA 59.779 57.895 0.00 0.00 0.00 3.41
1753 1773 1.090052 GCTGTTGTCCGCCTATCCAC 61.090 60.000 0.00 0.00 0.00 4.02
1755 1775 0.981183 TGTTGTCCGCCTATCCACTT 59.019 50.000 0.00 0.00 0.00 3.16
1756 1776 1.066430 TGTTGTCCGCCTATCCACTTC 60.066 52.381 0.00 0.00 0.00 3.01
1757 1777 1.207329 GTTGTCCGCCTATCCACTTCT 59.793 52.381 0.00 0.00 0.00 2.85
1758 1778 1.112113 TGTCCGCCTATCCACTTCTC 58.888 55.000 0.00 0.00 0.00 2.87
1759 1779 0.389757 GTCCGCCTATCCACTTCTCC 59.610 60.000 0.00 0.00 0.00 3.71
1760 1780 0.261991 TCCGCCTATCCACTTCTCCT 59.738 55.000 0.00 0.00 0.00 3.69
1761 1781 0.390860 CCGCCTATCCACTTCTCCTG 59.609 60.000 0.00 0.00 0.00 3.86
1762 1782 1.115467 CGCCTATCCACTTCTCCTGT 58.885 55.000 0.00 0.00 0.00 4.00
1763 1783 2.307768 CGCCTATCCACTTCTCCTGTA 58.692 52.381 0.00 0.00 0.00 2.74
1764 1784 2.294791 CGCCTATCCACTTCTCCTGTAG 59.705 54.545 0.00 0.00 0.00 2.74
1765 1785 3.301274 GCCTATCCACTTCTCCTGTAGT 58.699 50.000 0.00 0.00 0.00 2.73
1766 1786 4.471548 GCCTATCCACTTCTCCTGTAGTA 58.528 47.826 0.00 0.00 0.00 1.82
1767 1787 4.278919 GCCTATCCACTTCTCCTGTAGTAC 59.721 50.000 0.00 0.00 0.00 2.73
1768 1788 4.515944 CCTATCCACTTCTCCTGTAGTACG 59.484 50.000 0.00 0.00 0.00 3.67
1769 1789 2.719739 TCCACTTCTCCTGTAGTACGG 58.280 52.381 1.77 1.77 0.00 4.02
1770 1790 2.040813 TCCACTTCTCCTGTAGTACGGT 59.959 50.000 8.32 0.00 0.00 4.83
1771 1791 2.824341 CCACTTCTCCTGTAGTACGGTT 59.176 50.000 8.32 0.00 0.00 4.44
1772 1792 3.119566 CCACTTCTCCTGTAGTACGGTTC 60.120 52.174 8.32 0.00 0.00 3.62
1773 1793 3.757493 CACTTCTCCTGTAGTACGGTTCT 59.243 47.826 8.32 0.00 0.00 3.01
1774 1794 4.940046 CACTTCTCCTGTAGTACGGTTCTA 59.060 45.833 8.32 0.00 0.00 2.10
1775 1795 4.940654 ACTTCTCCTGTAGTACGGTTCTAC 59.059 45.833 15.52 15.52 38.45 2.59
1776 1796 4.558226 TCTCCTGTAGTACGGTTCTACA 57.442 45.455 21.40 21.40 43.30 2.74
1777 1797 4.910195 TCTCCTGTAGTACGGTTCTACAA 58.090 43.478 22.45 11.97 44.32 2.41
1778 1798 4.697352 TCTCCTGTAGTACGGTTCTACAAC 59.303 45.833 22.45 4.63 44.32 3.32
1779 1799 4.655963 TCCTGTAGTACGGTTCTACAACT 58.344 43.478 22.45 6.65 44.32 3.16
1780 1800 4.456911 TCCTGTAGTACGGTTCTACAACTG 59.543 45.833 22.45 15.76 44.32 3.16
1781 1801 4.456911 CCTGTAGTACGGTTCTACAACTGA 59.543 45.833 22.45 5.71 44.32 3.41
1782 1802 5.048504 CCTGTAGTACGGTTCTACAACTGAA 60.049 44.000 22.45 5.14 44.32 3.02
1783 1803 6.349944 CCTGTAGTACGGTTCTACAACTGAAT 60.350 42.308 22.45 0.00 44.32 2.57
1784 1804 7.148188 CCTGTAGTACGGTTCTACAACTGAATA 60.148 40.741 22.45 4.01 44.32 1.75
1785 1805 8.109705 TGTAGTACGGTTCTACAACTGAATAA 57.890 34.615 20.78 0.00 42.81 1.40
1786 1806 8.239314 TGTAGTACGGTTCTACAACTGAATAAG 58.761 37.037 20.78 0.00 42.81 1.73
1787 1807 7.458409 AGTACGGTTCTACAACTGAATAAGA 57.542 36.000 0.00 0.00 40.95 2.10
1788 1808 7.311408 AGTACGGTTCTACAACTGAATAAGAC 58.689 38.462 0.00 0.00 40.95 3.01
1789 1809 5.476614 ACGGTTCTACAACTGAATAAGACC 58.523 41.667 0.00 0.00 40.95 3.85
1790 1810 5.245526 ACGGTTCTACAACTGAATAAGACCT 59.754 40.000 0.00 0.00 40.95 3.85
1791 1811 5.577164 CGGTTCTACAACTGAATAAGACCTG 59.423 44.000 0.00 0.00 40.95 4.00
1792 1812 5.351740 GGTTCTACAACTGAATAAGACCTGC 59.648 44.000 0.00 0.00 32.50 4.85
1793 1813 5.086104 TCTACAACTGAATAAGACCTGCC 57.914 43.478 0.00 0.00 0.00 4.85
1794 1814 3.788227 ACAACTGAATAAGACCTGCCA 57.212 42.857 0.00 0.00 0.00 4.92
1795 1815 4.307032 ACAACTGAATAAGACCTGCCAT 57.693 40.909 0.00 0.00 0.00 4.40
1796 1816 5.435686 ACAACTGAATAAGACCTGCCATA 57.564 39.130 0.00 0.00 0.00 2.74
1797 1817 6.006275 ACAACTGAATAAGACCTGCCATAT 57.994 37.500 0.00 0.00 0.00 1.78
1798 1818 7.136822 ACAACTGAATAAGACCTGCCATATA 57.863 36.000 0.00 0.00 0.00 0.86
1855 1878 5.333952 GCAAAATTTCATGTTTTGATCGCCA 60.334 36.000 18.93 0.00 45.02 5.69
1880 1903 6.811253 TGTTTGCGACATCTTTTAAGGTAT 57.189 33.333 0.00 0.00 32.00 2.73
1883 1906 8.231837 TGTTTGCGACATCTTTTAAGGTATAAC 58.768 33.333 0.00 0.00 32.00 1.89
1884 1907 8.448615 GTTTGCGACATCTTTTAAGGTATAACT 58.551 33.333 0.00 0.00 0.00 2.24
1887 1910 6.511282 GCGACATCTTTTAAGGTATAACTGGC 60.511 42.308 0.00 0.00 0.00 4.85
1888 1911 6.018180 CGACATCTTTTAAGGTATAACTGGCC 60.018 42.308 0.00 0.00 0.00 5.36
1891 1914 5.751586 TCTTTTAAGGTATAACTGGCCAGG 58.248 41.667 35.42 18.18 0.00 4.45
1893 1916 4.765813 TTAAGGTATAACTGGCCAGGTC 57.234 45.455 35.42 18.33 0.00 3.85
1906 1940 0.957395 CCAGGTCGCAAAGCAGACAT 60.957 55.000 13.03 6.04 35.22 3.06
1914 1948 2.046313 GCAAAGCAGACATCAAACACG 58.954 47.619 0.00 0.00 0.00 4.49
1916 1950 1.597742 AAGCAGACATCAAACACGCT 58.402 45.000 0.00 0.00 0.00 5.07
1925 1959 0.234625 TCAAACACGCTCGCAATCAC 59.765 50.000 0.00 0.00 0.00 3.06
1937 1971 2.945008 TCGCAATCACCATTGGATCTTC 59.055 45.455 10.37 0.00 40.03 2.87
1945 1979 4.701651 TCACCATTGGATCTTCACACATTC 59.298 41.667 10.37 0.00 0.00 2.67
1946 1980 3.691118 ACCATTGGATCTTCACACATTCG 59.309 43.478 10.37 0.00 0.00 3.34
1947 1981 3.940852 CCATTGGATCTTCACACATTCGA 59.059 43.478 0.00 0.00 0.00 3.71
1950 1984 6.405065 CCATTGGATCTTCACACATTCGATTT 60.405 38.462 0.00 0.00 0.00 2.17
1960 1994 5.801444 TCACACATTCGATTTTTGATGATGC 59.199 36.000 0.00 0.00 0.00 3.91
1976 2010 4.296621 TGATGCTCCATAATCCCAGATG 57.703 45.455 0.00 0.00 0.00 2.90
1977 2011 3.009805 TGATGCTCCATAATCCCAGATGG 59.990 47.826 0.00 0.00 43.51 3.51
1980 2014 1.005215 CTCCATAATCCCAGATGGCCC 59.995 57.143 0.00 0.00 42.13 5.80
1983 2017 0.401738 ATAATCCCAGATGGCCCGTG 59.598 55.000 0.00 0.00 0.00 4.94
1987 2021 4.082523 CCAGATGGCCCGTGTCGT 62.083 66.667 0.00 0.00 0.00 4.34
2019 2053 3.735746 GCAGGTTTGTTCACTACAATTGC 59.264 43.478 5.05 0.00 45.72 3.56
2022 2056 6.042143 CAGGTTTGTTCACTACAATTGCTTT 58.958 36.000 5.05 0.00 45.72 3.51
2042 2076 4.815040 TTTTTAGATGTTTCGGCGTGAA 57.185 36.364 6.85 0.00 33.85 3.18
2043 2077 4.398549 TTTTAGATGTTTCGGCGTGAAG 57.601 40.909 6.85 0.00 37.99 3.02
2044 2078 3.306917 TTAGATGTTTCGGCGTGAAGA 57.693 42.857 6.85 2.26 37.99 2.87
2045 2079 2.386661 AGATGTTTCGGCGTGAAGAT 57.613 45.000 6.85 7.43 37.99 2.40
2046 2080 2.271800 AGATGTTTCGGCGTGAAGATC 58.728 47.619 19.68 19.68 37.99 2.75
2047 2081 0.999406 ATGTTTCGGCGTGAAGATCG 59.001 50.000 6.85 0.00 37.99 3.69
2048 2082 0.319211 TGTTTCGGCGTGAAGATCGT 60.319 50.000 6.85 0.00 37.99 3.73
2049 2083 0.788391 GTTTCGGCGTGAAGATCGTT 59.212 50.000 6.85 0.00 37.99 3.85
2050 2084 1.193874 GTTTCGGCGTGAAGATCGTTT 59.806 47.619 6.85 0.00 37.99 3.60
2051 2085 1.504359 TTCGGCGTGAAGATCGTTTT 58.496 45.000 6.85 0.00 31.44 2.43
2052 2086 1.065358 TCGGCGTGAAGATCGTTTTC 58.935 50.000 6.85 0.00 0.00 2.29
2053 2087 0.787787 CGGCGTGAAGATCGTTTTCA 59.212 50.000 0.00 0.00 32.44 2.69
2054 2088 1.201812 CGGCGTGAAGATCGTTTTCAG 60.202 52.381 0.00 0.00 35.39 3.02
2055 2089 1.798813 GGCGTGAAGATCGTTTTCAGT 59.201 47.619 0.00 0.00 35.39 3.41
2056 2090 2.159827 GGCGTGAAGATCGTTTTCAGTC 60.160 50.000 0.00 0.00 35.39 3.51
2057 2091 2.475111 GCGTGAAGATCGTTTTCAGTCA 59.525 45.455 0.00 0.00 35.39 3.41
2058 2092 3.661936 GCGTGAAGATCGTTTTCAGTCAC 60.662 47.826 0.00 0.00 35.39 3.67
2059 2093 3.120991 CGTGAAGATCGTTTTCAGTCACC 60.121 47.826 0.00 0.00 35.39 4.02
2060 2094 4.058817 GTGAAGATCGTTTTCAGTCACCT 58.941 43.478 0.00 0.00 35.39 4.00
2061 2095 4.150804 GTGAAGATCGTTTTCAGTCACCTC 59.849 45.833 0.00 0.00 35.39 3.85
2062 2096 2.947852 AGATCGTTTTCAGTCACCTCG 58.052 47.619 0.00 0.00 0.00 4.63
2063 2097 2.557056 AGATCGTTTTCAGTCACCTCGA 59.443 45.455 0.00 0.00 0.00 4.04
2064 2098 2.875087 TCGTTTTCAGTCACCTCGAA 57.125 45.000 0.00 0.00 0.00 3.71
2065 2099 2.739292 TCGTTTTCAGTCACCTCGAAG 58.261 47.619 0.00 0.00 0.00 3.79
2066 2100 1.792949 CGTTTTCAGTCACCTCGAAGG 59.207 52.381 0.00 0.00 42.49 3.46
2084 2118 9.685828 CCTCGAAGGTTTCAAATATAAAACAAA 57.314 29.630 9.29 0.00 37.16 2.83
2106 2140 9.696917 ACAAAAACATCTCATTTACCATCTTTC 57.303 29.630 0.00 0.00 0.00 2.62
2107 2141 9.695526 CAAAAACATCTCATTTACCATCTTTCA 57.304 29.630 0.00 0.00 0.00 2.69
2112 2146 9.553064 ACATCTCATTTACCATCTTTCATAGAC 57.447 33.333 0.00 0.00 35.19 2.59
2113 2147 9.775854 CATCTCATTTACCATCTTTCATAGACT 57.224 33.333 0.00 0.00 35.19 3.24
2116 2150 9.202273 CTCATTTACCATCTTTCATAGACTAGC 57.798 37.037 0.00 0.00 35.19 3.42
2117 2151 8.704668 TCATTTACCATCTTTCATAGACTAGCA 58.295 33.333 0.00 0.00 35.19 3.49
2118 2152 8.986847 CATTTACCATCTTTCATAGACTAGCAG 58.013 37.037 0.00 0.00 35.19 4.24
2119 2153 4.954875 ACCATCTTTCATAGACTAGCAGC 58.045 43.478 0.00 0.00 35.19 5.25
2138 2172 4.677584 CAGCAGTAGGATTAGGATATCGC 58.322 47.826 0.00 0.00 0.00 4.58
2176 2210 9.866655 AATAGAAATAGCAGGATAAATGTCCAA 57.133 29.630 0.00 0.00 40.90 3.53
2183 2217 7.100458 AGCAGGATAAATGTCCAAATGTTAC 57.900 36.000 0.00 0.00 40.90 2.50
2189 2223 8.616076 GGATAAATGTCCAAATGTTACTCTCTG 58.384 37.037 0.00 0.00 38.20 3.35
2217 2256 5.704515 ACATGTTGATAGCTTATCCAGATGC 59.295 40.000 0.00 0.00 35.99 3.91
2221 2260 5.144692 TGATAGCTTATCCAGATGCTCAC 57.855 43.478 0.00 0.00 37.02 3.51
2224 2263 1.506493 CTTATCCAGATGCTCACGGC 58.494 55.000 0.00 0.00 42.22 5.68
2228 2267 0.036732 TCCAGATGCTCACGGCTTTT 59.963 50.000 0.00 0.00 42.39 2.27
2229 2268 0.449388 CCAGATGCTCACGGCTTTTC 59.551 55.000 0.00 0.00 42.39 2.29
2230 2269 1.159285 CAGATGCTCACGGCTTTTCA 58.841 50.000 0.00 0.00 42.39 2.69
2231 2270 1.536766 CAGATGCTCACGGCTTTTCAA 59.463 47.619 0.00 0.00 42.39 2.69
2241 3547 4.987912 TCACGGCTTTTCAATTTCCAAATC 59.012 37.500 0.00 0.00 0.00 2.17
2248 3554 1.824230 TCAATTTCCAAATCCCCGCAG 59.176 47.619 0.00 0.00 0.00 5.18
2289 3753 5.302360 ACTTTCTGTACATTTTACAGCGGA 58.698 37.500 0.00 0.00 43.30 5.54
2290 3754 5.938125 ACTTTCTGTACATTTTACAGCGGAT 59.062 36.000 0.00 0.00 43.30 4.18
2291 3755 6.092259 ACTTTCTGTACATTTTACAGCGGATC 59.908 38.462 0.00 0.00 43.30 3.36
2292 3756 4.109766 TCTGTACATTTTACAGCGGATCG 58.890 43.478 0.00 0.00 43.30 3.69
2293 3757 3.852286 TGTACATTTTACAGCGGATCGT 58.148 40.909 0.00 0.00 0.00 3.73
2294 3758 3.615056 TGTACATTTTACAGCGGATCGTG 59.385 43.478 0.00 0.00 0.00 4.35
2296 3760 3.331150 ACATTTTACAGCGGATCGTGAA 58.669 40.909 0.00 0.00 0.00 3.18
2297 3761 3.938963 ACATTTTACAGCGGATCGTGAAT 59.061 39.130 0.00 0.00 0.00 2.57
2298 3762 4.201812 ACATTTTACAGCGGATCGTGAATG 60.202 41.667 0.00 0.00 0.00 2.67
2299 3763 1.286501 TTACAGCGGATCGTGAATGC 58.713 50.000 0.00 0.00 0.00 3.56
2300 3764 0.174617 TACAGCGGATCGTGAATGCA 59.825 50.000 0.00 0.00 0.00 3.96
2301 3765 1.349627 CAGCGGATCGTGAATGCAC 59.650 57.895 0.00 0.00 41.67 4.57
2302 3766 1.079197 AGCGGATCGTGAATGCACA 60.079 52.632 4.29 0.00 45.41 4.57
2303 3767 0.673333 AGCGGATCGTGAATGCACAA 60.673 50.000 4.29 0.00 45.41 3.33
2304 3768 0.247814 GCGGATCGTGAATGCACAAG 60.248 55.000 4.29 0.00 45.41 3.16
2305 3769 1.358877 CGGATCGTGAATGCACAAGA 58.641 50.000 4.29 0.00 45.41 3.02
2306 3770 1.731709 CGGATCGTGAATGCACAAGAA 59.268 47.619 4.29 0.00 45.41 2.52
2307 3771 2.159430 CGGATCGTGAATGCACAAGAAA 59.841 45.455 4.29 0.00 45.41 2.52
2308 3772 3.364864 CGGATCGTGAATGCACAAGAAAA 60.365 43.478 4.29 0.00 45.41 2.29
2310 3774 5.163513 GGATCGTGAATGCACAAGAAAAAT 58.836 37.500 4.29 0.00 45.41 1.82
2327 3791 9.027129 CAAGAAAAATATGATGTATGGCAACTG 57.973 33.333 0.00 0.00 37.61 3.16
2328 3792 7.205297 AGAAAAATATGATGTATGGCAACTGC 58.795 34.615 0.00 0.00 41.14 4.40
2329 3793 6.720112 AAAATATGATGTATGGCAACTGCT 57.280 33.333 1.06 0.00 41.70 4.24
2356 3820 5.408604 ACTTTCTGTACATTTTACAGCGGAG 59.591 40.000 0.00 5.70 43.30 4.63
2358 3822 5.339008 TCTGTACATTTTACAGCGGAGAT 57.661 39.130 0.00 0.00 43.30 2.75
2360 3824 5.127194 TCTGTACATTTTACAGCGGAGATCT 59.873 40.000 0.00 0.00 43.30 2.75
2373 3837 3.993081 GCGGAGATCTGTGATTTCTATGG 59.007 47.826 0.00 0.00 0.00 2.74
2376 3840 4.502259 GGAGATCTGTGATTTCTATGGCGT 60.502 45.833 0.00 0.00 0.00 5.68
2377 3841 4.626042 AGATCTGTGATTTCTATGGCGTC 58.374 43.478 0.00 0.00 0.00 5.19
2378 3842 2.809446 TCTGTGATTTCTATGGCGTCG 58.191 47.619 0.00 0.00 0.00 5.12
2379 3843 1.258982 CTGTGATTTCTATGGCGTCGC 59.741 52.381 9.22 9.22 0.00 5.19
2380 3844 1.134818 TGTGATTTCTATGGCGTCGCT 60.135 47.619 18.11 0.00 0.00 4.93
2381 3845 1.933853 GTGATTTCTATGGCGTCGCTT 59.066 47.619 18.11 7.79 0.00 4.68
2382 3846 2.033662 GTGATTTCTATGGCGTCGCTTC 60.034 50.000 18.11 1.39 0.00 3.86
2386 3850 1.141881 CTATGGCGTCGCTTCACCT 59.858 57.895 18.11 0.00 0.00 4.00
2387 3851 1.148157 CTATGGCGTCGCTTCACCTG 61.148 60.000 18.11 0.00 0.00 4.00
2390 3854 2.126071 GCGTCGCTTCACCTGCTA 60.126 61.111 10.68 0.00 0.00 3.49
2392 3856 1.483424 GCGTCGCTTCACCTGCTATC 61.483 60.000 10.68 0.00 0.00 2.08
2394 3858 1.846541 GTCGCTTCACCTGCTATCTC 58.153 55.000 0.00 0.00 0.00 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
437 438 2.184579 TCGGTTGTGTGCACGACA 59.815 55.556 20.40 14.40 45.38 4.35
532 533 3.580458 AGATCTTGTTCTGGTAGTGCTGT 59.420 43.478 0.00 0.00 0.00 4.40
858 859 1.214589 CCCACGACCAGGTAAGACG 59.785 63.158 0.00 0.00 0.00 4.18
1026 1028 4.703575 GTGTACCCCCTAACTCAATTTTCC 59.296 45.833 0.00 0.00 0.00 3.13
1046 1049 4.379243 CGAGGCTTGCTCCGGTGT 62.379 66.667 0.00 0.00 0.00 4.16
1093 1096 1.077787 CCTTGTGCCGGCCATTAGA 60.078 57.895 26.77 0.00 0.00 2.10
1125 1128 3.428282 GTTTGTGGTAGGCGGCCG 61.428 66.667 24.05 24.05 0.00 6.13
1126 1129 2.033602 AGTTTGTGGTAGGCGGCC 59.966 61.111 12.11 12.11 0.00 6.13
1136 1139 6.694411 CACTTGAGAATTTCCTTGAGTTTGTG 59.306 38.462 0.00 0.00 0.00 3.33
1153 1156 0.320421 GTTGTAGGCCGCACTTGAGA 60.320 55.000 11.25 0.00 0.00 3.27
1163 1166 2.359478 CACCGGTGGTTGTAGGCC 60.359 66.667 27.57 0.00 31.02 5.19
1343 1346 2.604046 AGAATCCAGGCGTCATGTAC 57.396 50.000 0.00 0.00 0.00 2.90
1467 1485 2.069473 CCAAGCTCTTAGCGTGTAGGC 61.069 57.143 12.63 0.00 46.83 3.93
1471 1489 1.376037 GCCCAAGCTCTTAGCGTGT 60.376 57.895 12.63 0.00 46.83 4.49
1573 1591 1.529309 GCCTGGAATCTCCACCTCC 59.471 63.158 0.00 0.00 42.67 4.30
1591 1609 2.768492 GCCAGCATTTCCTCCTGCG 61.768 63.158 0.00 0.00 43.17 5.18
1619 1637 1.177256 ACACCGCTACCGTCTTGTCT 61.177 55.000 0.00 0.00 0.00 3.41
1631 1649 0.311790 CAACTGCATCAAACACCGCT 59.688 50.000 0.00 0.00 0.00 5.52
1661 1679 3.133365 AAACAGGGTGGCCTCGCTT 62.133 57.895 20.63 10.37 0.00 4.68
1704 1722 7.064134 CACGCAAACCTGATACTCAACTTTATA 59.936 37.037 0.00 0.00 0.00 0.98
1721 1739 1.001815 ACAACAGCATACACGCAAACC 60.002 47.619 0.00 0.00 0.00 3.27
1725 1743 1.288419 CGGACAACAGCATACACGCA 61.288 55.000 0.00 0.00 0.00 5.24
1735 1755 0.537188 AGTGGATAGGCGGACAACAG 59.463 55.000 0.00 0.00 0.00 3.16
1749 1769 2.040813 ACCGTACTACAGGAGAAGTGGA 59.959 50.000 0.00 0.00 0.00 4.02
1751 1771 3.757493 AGAACCGTACTACAGGAGAAGTG 59.243 47.826 0.00 0.00 0.00 3.16
1752 1772 4.031636 AGAACCGTACTACAGGAGAAGT 57.968 45.455 0.00 0.00 0.00 3.01
1753 1773 4.940046 TGTAGAACCGTACTACAGGAGAAG 59.060 45.833 0.00 0.00 43.12 2.85
1755 1775 4.558226 TGTAGAACCGTACTACAGGAGA 57.442 45.455 0.00 0.00 43.12 3.71
1756 1776 4.699257 AGTTGTAGAACCGTACTACAGGAG 59.301 45.833 0.00 0.00 46.62 3.69
1757 1777 4.456911 CAGTTGTAGAACCGTACTACAGGA 59.543 45.833 0.00 0.00 46.62 3.86
1758 1778 4.456911 TCAGTTGTAGAACCGTACTACAGG 59.543 45.833 0.00 0.00 46.62 4.00
1759 1779 5.618056 TCAGTTGTAGAACCGTACTACAG 57.382 43.478 0.00 0.00 46.62 2.74
1760 1780 6.579666 ATTCAGTTGTAGAACCGTACTACA 57.420 37.500 0.00 0.00 45.24 2.74
1761 1781 8.454106 TCTTATTCAGTTGTAGAACCGTACTAC 58.546 37.037 0.00 0.00 40.13 2.73
1762 1782 8.454106 GTCTTATTCAGTTGTAGAACCGTACTA 58.546 37.037 0.00 0.00 31.81 1.82
1763 1783 7.311408 GTCTTATTCAGTTGTAGAACCGTACT 58.689 38.462 0.00 0.00 31.81 2.73
1764 1784 6.529477 GGTCTTATTCAGTTGTAGAACCGTAC 59.471 42.308 0.00 0.00 31.81 3.67
1765 1785 6.435277 AGGTCTTATTCAGTTGTAGAACCGTA 59.565 38.462 0.00 0.00 31.81 4.02
1766 1786 5.245526 AGGTCTTATTCAGTTGTAGAACCGT 59.754 40.000 0.00 0.00 31.81 4.83
1767 1787 5.577164 CAGGTCTTATTCAGTTGTAGAACCG 59.423 44.000 0.00 0.00 31.81 4.44
1768 1788 5.351740 GCAGGTCTTATTCAGTTGTAGAACC 59.648 44.000 0.00 0.00 31.81 3.62
1769 1789 5.351740 GGCAGGTCTTATTCAGTTGTAGAAC 59.648 44.000 0.00 0.00 0.00 3.01
1770 1790 5.012664 TGGCAGGTCTTATTCAGTTGTAGAA 59.987 40.000 0.00 0.00 0.00 2.10
1771 1791 4.530553 TGGCAGGTCTTATTCAGTTGTAGA 59.469 41.667 0.00 0.00 0.00 2.59
1772 1792 4.832248 TGGCAGGTCTTATTCAGTTGTAG 58.168 43.478 0.00 0.00 0.00 2.74
1773 1793 4.901197 TGGCAGGTCTTATTCAGTTGTA 57.099 40.909 0.00 0.00 0.00 2.41
1774 1794 3.788227 TGGCAGGTCTTATTCAGTTGT 57.212 42.857 0.00 0.00 0.00 3.32
1775 1795 8.627208 AATATATGGCAGGTCTTATTCAGTTG 57.373 34.615 0.00 0.00 0.00 3.16
1776 1796 9.646522 AAAATATATGGCAGGTCTTATTCAGTT 57.353 29.630 0.00 0.00 0.00 3.16
1777 1797 9.071276 CAAAATATATGGCAGGTCTTATTCAGT 57.929 33.333 0.00 0.00 0.00 3.41
1778 1798 8.025445 GCAAAATATATGGCAGGTCTTATTCAG 58.975 37.037 0.00 0.00 0.00 3.02
1779 1799 7.725397 AGCAAAATATATGGCAGGTCTTATTCA 59.275 33.333 0.00 0.00 0.00 2.57
1780 1800 8.115490 AGCAAAATATATGGCAGGTCTTATTC 57.885 34.615 0.00 0.00 0.00 1.75
1781 1801 8.482852 AAGCAAAATATATGGCAGGTCTTATT 57.517 30.769 0.00 0.00 0.00 1.40
1782 1802 7.177392 GGAAGCAAAATATATGGCAGGTCTTAT 59.823 37.037 0.00 0.00 0.00 1.73
1783 1803 6.490040 GGAAGCAAAATATATGGCAGGTCTTA 59.510 38.462 0.00 0.00 0.00 2.10
1784 1804 5.302823 GGAAGCAAAATATATGGCAGGTCTT 59.697 40.000 0.00 0.00 0.00 3.01
1785 1805 4.829492 GGAAGCAAAATATATGGCAGGTCT 59.171 41.667 0.00 0.00 0.00 3.85
1786 1806 4.829492 AGGAAGCAAAATATATGGCAGGTC 59.171 41.667 0.00 2.51 0.00 3.85
1787 1807 4.586001 CAGGAAGCAAAATATATGGCAGGT 59.414 41.667 0.00 0.00 0.00 4.00
1788 1808 4.586001 ACAGGAAGCAAAATATATGGCAGG 59.414 41.667 0.00 0.00 0.00 4.85
1789 1809 5.779529 ACAGGAAGCAAAATATATGGCAG 57.220 39.130 0.00 0.00 0.00 4.85
1790 1810 6.605194 TGTTACAGGAAGCAAAATATATGGCA 59.395 34.615 0.00 0.00 0.00 4.92
1791 1811 7.038154 TGTTACAGGAAGCAAAATATATGGC 57.962 36.000 0.00 0.00 0.00 4.40
1798 1818 8.694540 TGCATATAATGTTACAGGAAGCAAAAT 58.305 29.630 0.00 0.00 0.00 1.82
1833 1853 6.857777 TTGGCGATCAAAACATGAAATTTT 57.142 29.167 0.00 0.00 42.54 1.82
1843 1863 3.438373 GCAAACATTGGCGATCAAAAC 57.562 42.857 0.00 0.00 39.05 2.43
1869 1892 5.506708 ACCTGGCCAGTTATACCTTAAAAG 58.493 41.667 30.63 12.65 0.00 2.27
1873 1896 2.696707 CGACCTGGCCAGTTATACCTTA 59.303 50.000 30.63 0.00 0.00 2.69
1875 1898 1.120530 CGACCTGGCCAGTTATACCT 58.879 55.000 30.63 4.22 0.00 3.08
1880 1903 0.605319 CTTTGCGACCTGGCCAGTTA 60.605 55.000 30.63 9.56 0.00 2.24
1883 1906 3.741476 GCTTTGCGACCTGGCCAG 61.741 66.667 26.87 26.87 0.00 4.85
1884 1907 4.577677 TGCTTTGCGACCTGGCCA 62.578 61.111 4.71 4.71 0.00 5.36
1887 1910 0.957395 ATGTCTGCTTTGCGACCTGG 60.957 55.000 0.00 0.00 33.64 4.45
1888 1911 0.445436 GATGTCTGCTTTGCGACCTG 59.555 55.000 10.23 0.00 33.64 4.00
1891 1914 2.286950 TGTTTGATGTCTGCTTTGCGAC 60.287 45.455 0.00 0.00 34.56 5.19
1893 1916 2.046313 GTGTTTGATGTCTGCTTTGCG 58.954 47.619 0.00 0.00 0.00 4.85
1906 1940 0.234625 GTGATTGCGAGCGTGTTTGA 59.765 50.000 0.00 0.00 0.00 2.69
1914 1948 1.002033 GATCCAATGGTGATTGCGAGC 60.002 52.381 0.00 0.00 38.14 5.03
1916 1950 2.715749 AGATCCAATGGTGATTGCGA 57.284 45.000 0.00 0.00 38.14 5.10
1925 1959 3.940852 TCGAATGTGTGAAGATCCAATGG 59.059 43.478 0.00 0.00 0.00 3.16
1937 1971 5.803461 AGCATCATCAAAAATCGAATGTGTG 59.197 36.000 0.00 0.00 0.00 3.82
1945 1979 6.805271 GGATTATGGAGCATCATCAAAAATCG 59.195 38.462 0.00 0.00 36.25 3.34
1946 1980 7.095270 GGGATTATGGAGCATCATCAAAAATC 58.905 38.462 0.00 0.00 36.25 2.17
1947 1981 6.555738 TGGGATTATGGAGCATCATCAAAAAT 59.444 34.615 0.00 0.00 36.25 1.82
1950 1984 5.064314 TGGGATTATGGAGCATCATCAAA 57.936 39.130 0.00 0.00 36.25 2.69
1960 1994 1.005215 GGGCCATCTGGGATTATGGAG 59.995 57.143 4.39 0.00 44.62 3.86
1987 2021 1.034838 ACAAACCTGCAAGCACGGAA 61.035 50.000 14.56 0.00 0.00 4.30
2022 2056 4.059511 TCTTCACGCCGAAACATCTAAAA 58.940 39.130 0.00 0.00 31.71 1.52
2029 2063 0.319211 ACGATCTTCACGCCGAAACA 60.319 50.000 0.00 0.00 31.71 2.83
2030 2064 0.788391 AACGATCTTCACGCCGAAAC 59.212 50.000 0.00 0.00 31.71 2.78
2031 2065 1.504359 AAACGATCTTCACGCCGAAA 58.496 45.000 0.00 0.00 31.71 3.46
2032 2066 1.458064 GAAAACGATCTTCACGCCGAA 59.542 47.619 0.00 0.00 0.00 4.30
2033 2067 1.065358 GAAAACGATCTTCACGCCGA 58.935 50.000 0.00 0.00 0.00 5.54
2034 2068 0.787787 TGAAAACGATCTTCACGCCG 59.212 50.000 0.00 0.00 0.00 6.46
2035 2069 1.798813 ACTGAAAACGATCTTCACGCC 59.201 47.619 0.00 0.00 0.00 5.68
2036 2070 2.475111 TGACTGAAAACGATCTTCACGC 59.525 45.455 0.00 0.00 0.00 5.34
2037 2071 3.120991 GGTGACTGAAAACGATCTTCACG 60.121 47.826 0.00 0.00 35.56 4.35
2038 2072 4.058817 AGGTGACTGAAAACGATCTTCAC 58.941 43.478 0.00 2.49 41.13 3.18
2039 2073 4.307432 GAGGTGACTGAAAACGATCTTCA 58.693 43.478 0.00 0.00 44.43 3.02
2040 2074 3.365220 CGAGGTGACTGAAAACGATCTTC 59.635 47.826 0.00 0.00 44.43 2.87
2041 2075 3.005472 TCGAGGTGACTGAAAACGATCTT 59.995 43.478 0.00 0.00 44.43 2.40
2042 2076 2.557056 TCGAGGTGACTGAAAACGATCT 59.443 45.455 0.00 0.00 44.43 2.75
2043 2077 2.942710 TCGAGGTGACTGAAAACGATC 58.057 47.619 0.00 0.00 44.43 3.69
2044 2078 3.318017 CTTCGAGGTGACTGAAAACGAT 58.682 45.455 0.00 0.00 44.43 3.73
2045 2079 2.545113 CCTTCGAGGTGACTGAAAACGA 60.545 50.000 0.00 0.00 44.43 3.85
2046 2080 1.792949 CCTTCGAGGTGACTGAAAACG 59.207 52.381 0.00 0.00 44.43 3.60
2058 2092 9.685828 TTTGTTTTATATTTGAAACCTTCGAGG 57.314 29.630 2.02 0.03 42.49 4.63
2080 2114 9.696917 GAAAGATGGTAAATGAGATGTTTTTGT 57.303 29.630 0.00 0.00 0.00 2.83
2081 2115 9.695526 TGAAAGATGGTAAATGAGATGTTTTTG 57.304 29.630 0.00 0.00 0.00 2.44
2086 2120 9.553064 GTCTATGAAAGATGGTAAATGAGATGT 57.447 33.333 0.00 0.00 36.36 3.06
2087 2121 9.775854 AGTCTATGAAAGATGGTAAATGAGATG 57.224 33.333 0.00 0.00 36.36 2.90
2090 2124 9.202273 GCTAGTCTATGAAAGATGGTAAATGAG 57.798 37.037 0.00 0.00 36.36 2.90
2091 2125 8.704668 TGCTAGTCTATGAAAGATGGTAAATGA 58.295 33.333 0.00 0.00 36.36 2.57
2092 2126 8.893219 TGCTAGTCTATGAAAGATGGTAAATG 57.107 34.615 0.00 0.00 36.36 2.32
2093 2127 7.659390 GCTGCTAGTCTATGAAAGATGGTAAAT 59.341 37.037 0.00 0.00 36.36 1.40
2094 2128 6.986817 GCTGCTAGTCTATGAAAGATGGTAAA 59.013 38.462 0.00 0.00 36.36 2.01
2095 2129 6.098266 TGCTGCTAGTCTATGAAAGATGGTAA 59.902 38.462 0.00 0.00 36.36 2.85
2096 2130 5.598417 TGCTGCTAGTCTATGAAAGATGGTA 59.402 40.000 0.00 0.00 36.36 3.25
2097 2131 4.406972 TGCTGCTAGTCTATGAAAGATGGT 59.593 41.667 0.00 0.00 36.36 3.55
2098 2132 4.953667 TGCTGCTAGTCTATGAAAGATGG 58.046 43.478 0.00 0.00 36.36 3.51
2099 2133 5.599732 ACTGCTGCTAGTCTATGAAAGATG 58.400 41.667 0.00 0.00 36.36 2.90
2100 2134 5.867903 ACTGCTGCTAGTCTATGAAAGAT 57.132 39.130 0.00 0.00 36.36 2.40
2101 2135 5.300539 CCTACTGCTGCTAGTCTATGAAAGA 59.699 44.000 0.00 0.00 32.19 2.52
2102 2136 5.300539 TCCTACTGCTGCTAGTCTATGAAAG 59.699 44.000 0.00 0.00 32.19 2.62
2103 2137 5.201243 TCCTACTGCTGCTAGTCTATGAAA 58.799 41.667 0.00 0.00 32.19 2.69
2104 2138 4.793201 TCCTACTGCTGCTAGTCTATGAA 58.207 43.478 0.00 0.00 32.19 2.57
2105 2139 4.439253 TCCTACTGCTGCTAGTCTATGA 57.561 45.455 0.00 0.00 32.19 2.15
2106 2140 5.720371 AATCCTACTGCTGCTAGTCTATG 57.280 43.478 0.00 0.00 32.19 2.23
2107 2141 5.949354 CCTAATCCTACTGCTGCTAGTCTAT 59.051 44.000 0.00 0.00 32.19 1.98
2108 2142 5.073280 TCCTAATCCTACTGCTGCTAGTCTA 59.927 44.000 0.00 0.00 32.19 2.59
2109 2143 4.141135 TCCTAATCCTACTGCTGCTAGTCT 60.141 45.833 0.00 0.00 32.19 3.24
2110 2144 4.145807 TCCTAATCCTACTGCTGCTAGTC 58.854 47.826 0.00 0.00 32.19 2.59
2111 2145 4.186077 TCCTAATCCTACTGCTGCTAGT 57.814 45.455 0.00 5.63 34.71 2.57
2112 2146 6.238621 CGATATCCTAATCCTACTGCTGCTAG 60.239 46.154 0.00 0.00 0.00 3.42
2113 2147 5.590663 CGATATCCTAATCCTACTGCTGCTA 59.409 44.000 0.00 0.00 0.00 3.49
2114 2148 4.400884 CGATATCCTAATCCTACTGCTGCT 59.599 45.833 0.00 0.00 0.00 4.24
2115 2149 4.677584 CGATATCCTAATCCTACTGCTGC 58.322 47.826 0.00 0.00 0.00 5.25
2116 2150 4.440802 GGCGATATCCTAATCCTACTGCTG 60.441 50.000 0.00 0.00 0.00 4.41
2117 2151 3.702045 GGCGATATCCTAATCCTACTGCT 59.298 47.826 0.00 0.00 0.00 4.24
2118 2152 3.181474 GGGCGATATCCTAATCCTACTGC 60.181 52.174 0.00 0.00 0.00 4.40
2119 2153 3.385111 GGGGCGATATCCTAATCCTACTG 59.615 52.174 0.00 0.00 0.00 2.74
2183 2217 5.911752 AGCTATCAACATGTTACCAGAGAG 58.088 41.667 11.53 11.71 0.00 3.20
2189 2223 7.217200 TCTGGATAAGCTATCAACATGTTACC 58.783 38.462 11.53 3.40 36.91 2.85
2200 2239 4.172505 CGTGAGCATCTGGATAAGCTATC 58.827 47.826 0.00 0.00 37.48 2.08
2203 2242 1.069823 CCGTGAGCATCTGGATAAGCT 59.930 52.381 0.00 0.00 40.60 3.74
2206 2245 3.686622 GCCGTGAGCATCTGGATAA 57.313 52.632 0.00 0.00 42.97 1.75
2217 2256 3.641437 TGGAAATTGAAAAGCCGTGAG 57.359 42.857 0.00 0.00 0.00 3.51
2221 2260 3.684305 GGGATTTGGAAATTGAAAAGCCG 59.316 43.478 8.22 0.00 39.65 5.52
2224 2263 3.684305 GCGGGGATTTGGAAATTGAAAAG 59.316 43.478 0.00 0.00 0.00 2.27
2228 2267 1.824230 CTGCGGGGATTTGGAAATTGA 59.176 47.619 0.00 0.00 0.00 2.57
2229 2268 1.740043 GCTGCGGGGATTTGGAAATTG 60.740 52.381 0.00 0.00 0.00 2.32
2230 2269 0.536724 GCTGCGGGGATTTGGAAATT 59.463 50.000 0.00 0.00 0.00 1.82
2231 2270 0.614415 TGCTGCGGGGATTTGGAAAT 60.614 50.000 0.00 0.00 0.00 2.17
2248 3554 1.809619 TTGAGTATCGCGGCAGTGC 60.810 57.895 6.55 6.55 38.61 4.40
2289 3753 7.537715 TCATATTTTTCTTGTGCATTCACGAT 58.462 30.769 0.00 0.00 46.01 3.73
2290 3754 6.907741 TCATATTTTTCTTGTGCATTCACGA 58.092 32.000 0.00 0.00 46.01 4.35
2291 3755 7.274033 ACATCATATTTTTCTTGTGCATTCACG 59.726 33.333 0.00 0.00 46.01 4.35
2292 3756 8.470040 ACATCATATTTTTCTTGTGCATTCAC 57.530 30.769 0.00 0.00 43.40 3.18
2296 3760 7.654520 GCCATACATCATATTTTTCTTGTGCAT 59.345 33.333 0.00 0.00 0.00 3.96
2297 3761 6.979817 GCCATACATCATATTTTTCTTGTGCA 59.020 34.615 0.00 0.00 0.00 4.57
2298 3762 6.979817 TGCCATACATCATATTTTTCTTGTGC 59.020 34.615 0.00 0.00 0.00 4.57
2299 3763 8.810427 GTTGCCATACATCATATTTTTCTTGTG 58.190 33.333 0.00 0.00 0.00 3.33
2300 3764 8.752187 AGTTGCCATACATCATATTTTTCTTGT 58.248 29.630 0.00 0.00 0.00 3.16
2301 3765 9.027129 CAGTTGCCATACATCATATTTTTCTTG 57.973 33.333 0.00 0.00 0.00 3.02
2302 3766 7.707893 GCAGTTGCCATACATCATATTTTTCTT 59.292 33.333 0.00 0.00 34.31 2.52
2303 3767 7.069085 AGCAGTTGCCATACATCATATTTTTCT 59.931 33.333 0.00 0.00 43.38 2.52
2304 3768 7.168637 CAGCAGTTGCCATACATCATATTTTTC 59.831 37.037 0.00 0.00 43.38 2.29
2305 3769 6.982141 CAGCAGTTGCCATACATCATATTTTT 59.018 34.615 0.00 0.00 43.38 1.94
2306 3770 6.321945 TCAGCAGTTGCCATACATCATATTTT 59.678 34.615 0.00 0.00 43.38 1.82
2307 3771 5.829391 TCAGCAGTTGCCATACATCATATTT 59.171 36.000 0.00 0.00 43.38 1.40
2308 3772 5.379187 TCAGCAGTTGCCATACATCATATT 58.621 37.500 0.00 0.00 43.38 1.28
2310 3774 4.420522 TCAGCAGTTGCCATACATCATA 57.579 40.909 0.00 0.00 43.38 2.15
2327 3791 6.578919 GCTGTAAAATGTACAGAAAGTTCAGC 59.421 38.462 14.44 16.23 45.69 4.26
2328 3792 6.792250 CGCTGTAAAATGTACAGAAAGTTCAG 59.208 38.462 14.44 5.49 45.69 3.02
2329 3793 6.293190 CCGCTGTAAAATGTACAGAAAGTTCA 60.293 38.462 14.44 0.00 45.69 3.18
2356 3820 3.426859 CGACGCCATAGAAATCACAGATC 59.573 47.826 0.00 0.00 0.00 2.75
2358 3822 2.809446 CGACGCCATAGAAATCACAGA 58.191 47.619 0.00 0.00 0.00 3.41
2360 3824 1.134818 AGCGACGCCATAGAAATCACA 60.135 47.619 17.79 0.00 0.00 3.58
2373 3837 1.483424 GATAGCAGGTGAAGCGACGC 61.483 60.000 13.03 13.03 37.01 5.19
2376 3840 0.747255 GGAGATAGCAGGTGAAGCGA 59.253 55.000 0.00 0.00 37.01 4.93
2377 3841 0.249657 GGGAGATAGCAGGTGAAGCG 60.250 60.000 0.00 0.00 37.01 4.68
2378 3842 0.249657 CGGGAGATAGCAGGTGAAGC 60.250 60.000 0.00 0.00 0.00 3.86
2379 3843 1.339610 CTCGGGAGATAGCAGGTGAAG 59.660 57.143 0.00 0.00 38.80 3.02
2380 3844 1.403814 CTCGGGAGATAGCAGGTGAA 58.596 55.000 0.00 0.00 38.80 3.18
2381 3845 1.109920 GCTCGGGAGATAGCAGGTGA 61.110 60.000 0.00 0.00 38.80 4.02
2382 3846 1.112315 AGCTCGGGAGATAGCAGGTG 61.112 60.000 0.00 0.00 38.80 4.00
2386 3850 2.556459 GCGAGCTCGGGAGATAGCA 61.556 63.158 35.10 0.00 43.34 3.49
2387 3851 2.257067 GCGAGCTCGGGAGATAGC 59.743 66.667 35.10 13.88 38.19 2.97
2551 4080 4.717629 CGCCGACGAGCTGGTGAA 62.718 66.667 5.94 0.00 43.93 3.18


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

AutoCloner maintained by Alex Coulton.