Multiple sequence alignment - TraesCS6A01G310000

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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 TraesCS6A01G310000 chr6A 100.000 2318 0 0 1 2318 545883108 545885425 0.000000e+00 4281.0
1 TraesCS6A01G310000 chr6A 89.591 269 27 1 1947 2214 515545678 515545946 7.930000e-90 340.0
2 TraesCS6A01G310000 chr6B 95.997 1349 32 6 198 1536 599121733 599123069 0.000000e+00 2172.0
3 TraesCS6A01G310000 chr6B 95.567 564 15 3 1350 1910 599122976 599123532 0.000000e+00 894.0
4 TraesCS6A01G310000 chr6B 93.898 295 15 2 1933 2226 580307662 580307954 2.110000e-120 442.0
5 TraesCS6A01G310000 chr6B 91.156 147 8 3 36 177 599121602 599121748 6.540000e-46 195.0
6 TraesCS6A01G310000 chr6D 97.824 1195 20 2 341 1535 400088817 400090005 0.000000e+00 2058.0
7 TraesCS6A01G310000 chr6D 95.390 564 16 3 1350 1910 400089868 400090424 0.000000e+00 889.0
8 TraesCS6A01G310000 chr6D 93.312 314 10 5 1 305 400088507 400088818 9.770000e-124 453.0
9 TraesCS6A01G310000 chr2A 94.595 296 13 2 1933 2227 241962413 241962706 2.720000e-124 455.0
10 TraesCS6A01G310000 chr2A 91.667 312 12 4 1907 2216 771167051 771166752 9.900000e-114 420.0
11 TraesCS6A01G310000 chr2A 85.855 304 23 11 1907 2208 602796926 602797211 2.890000e-79 305.0
12 TraesCS6A01G310000 chr2A 100.000 44 0 0 554 597 595832087 595832130 5.310000e-12 82.4
13 TraesCS6A01G310000 chr2A 100.000 44 0 0 554 597 595872773 595872816 5.310000e-12 82.4
14 TraesCS6A01G310000 chr5A 94.576 295 12 3 1933 2226 630124068 630123777 9.770000e-124 453.0
15 TraesCS6A01G310000 chr5A 94.218 294 13 3 1933 2226 582978787 582979076 1.630000e-121 446.0
16 TraesCS6A01G310000 chr7D 94.539 293 12 3 1926 2217 18951412 18951123 1.260000e-122 449.0
17 TraesCS6A01G310000 chr7A 94.237 295 13 3 1933 2226 539055339 539055048 4.540000e-122 448.0
18 TraesCS6A01G310000 chr4A 93.421 304 15 4 1933 2233 146758554 146758253 1.630000e-121 446.0
19 TraesCS6A01G310000 chr1A 94.218 294 13 3 1933 2225 354954589 354954299 1.630000e-121 446.0
20 TraesCS6A01G310000 chr1A 95.390 282 10 3 1934 2213 549860400 549860680 1.630000e-121 446.0
21 TraesCS6A01G310000 chr1A 100.000 31 0 0 1910 1940 28936294 28936324 8.950000e-05 58.4
22 TraesCS6A01G310000 chr3A 87.662 308 26 4 1911 2217 727365350 727365054 4.740000e-92 348.0
23 TraesCS6A01G310000 chr3A 90.909 44 4 0 805 848 730116394 730116437 2.490000e-05 60.2
24 TraesCS6A01G310000 chr3B 88.636 44 5 0 805 848 807976563 807976520 1.000000e-03 54.7


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 TraesCS6A01G310000 chr6A 545883108 545885425 2317 False 4281.000000 4281 100.000000 1 2318 1 chr6A.!!$F2 2317
1 TraesCS6A01G310000 chr6B 599121602 599123532 1930 False 1087.000000 2172 94.240000 36 1910 3 chr6B.!!$F2 1874
2 TraesCS6A01G310000 chr6D 400088507 400090424 1917 False 1133.333333 2058 95.508667 1 1910 3 chr6D.!!$F1 1909

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
310 323 0.657368 GGAAACTCAACGCGCACAAG 60.657 55.0 5.73 0.77 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2232 2338 0.040067 AGCAAACAACGCAGCTTAGC 60.04 50.0 0.0 0.0 32.52 3.09 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
186 198 2.543777 TCGAACAAGACCCCTCAAAG 57.456 50.000 0.00 0.00 0.00 2.77
187 199 2.043992 TCGAACAAGACCCCTCAAAGA 58.956 47.619 0.00 0.00 0.00 2.52
192 204 5.592054 GAACAAGACCCCTCAAAGAAAAAG 58.408 41.667 0.00 0.00 0.00 2.27
215 227 6.593978 AGAAAAACTCAATCGAACGAGAATG 58.406 36.000 18.35 2.74 33.33 2.67
307 320 1.368850 GTGGAAACTCAACGCGCAC 60.369 57.895 5.73 0.00 0.00 5.34
308 321 1.815840 TGGAAACTCAACGCGCACA 60.816 52.632 5.73 0.00 0.00 4.57
309 322 1.353804 GGAAACTCAACGCGCACAA 59.646 52.632 5.73 0.00 0.00 3.33
310 323 0.657368 GGAAACTCAACGCGCACAAG 60.657 55.000 5.73 0.77 0.00 3.16
311 324 1.262166 GAAACTCAACGCGCACAAGC 61.262 55.000 5.73 0.00 37.42 4.01
312 325 1.987704 AAACTCAACGCGCACAAGCA 61.988 50.000 5.73 0.00 42.27 3.91
398 411 1.277495 TATGCGCGCATCGATCACAG 61.277 55.000 46.16 0.00 41.67 3.66
858 871 2.352422 GCCACCATCTCCTGCACA 59.648 61.111 0.00 0.00 0.00 4.57
1731 1837 2.876858 AGAGGGGAGGAGGGTGGT 60.877 66.667 0.00 0.00 0.00 4.16
1826 1932 1.153349 CTAGGCGGAACAAGAGGCC 60.153 63.158 0.00 0.00 45.91 5.19
1833 1939 1.219393 GAACAAGAGGCCGGAGAGG 59.781 63.158 5.05 0.00 44.97 3.69
1906 2012 4.323868 CCGTCGCTCTGTTTCTTTTACTAG 59.676 45.833 0.00 0.00 0.00 2.57
1908 2014 4.091655 GTCGCTCTGTTTCTTTTACTAGCC 59.908 45.833 0.00 0.00 0.00 3.93
1909 2015 4.021368 TCGCTCTGTTTCTTTTACTAGCCT 60.021 41.667 0.00 0.00 0.00 4.58
1910 2016 4.327627 CGCTCTGTTTCTTTTACTAGCCTC 59.672 45.833 0.00 0.00 0.00 4.70
1911 2017 5.483811 GCTCTGTTTCTTTTACTAGCCTCT 58.516 41.667 0.00 0.00 0.00 3.69
1912 2018 5.935206 GCTCTGTTTCTTTTACTAGCCTCTT 59.065 40.000 0.00 0.00 0.00 2.85
1913 2019 6.428465 GCTCTGTTTCTTTTACTAGCCTCTTT 59.572 38.462 0.00 0.00 0.00 2.52
1914 2020 7.572168 GCTCTGTTTCTTTTACTAGCCTCTTTG 60.572 40.741 0.00 0.00 0.00 2.77
1915 2021 6.710744 TCTGTTTCTTTTACTAGCCTCTTTGG 59.289 38.462 0.00 0.00 39.35 3.28
1916 2022 6.362248 TGTTTCTTTTACTAGCCTCTTTGGT 58.638 36.000 0.00 0.00 38.35 3.67
1917 2023 6.831868 TGTTTCTTTTACTAGCCTCTTTGGTT 59.168 34.615 0.00 0.00 38.35 3.67
1918 2024 7.340999 TGTTTCTTTTACTAGCCTCTTTGGTTT 59.659 33.333 0.00 0.00 38.35 3.27
1919 2025 6.877611 TCTTTTACTAGCCTCTTTGGTTTG 57.122 37.500 0.00 0.00 38.35 2.93
1920 2026 5.768164 TCTTTTACTAGCCTCTTTGGTTTGG 59.232 40.000 0.00 0.00 38.35 3.28
1921 2027 4.986054 TTACTAGCCTCTTTGGTTTGGA 57.014 40.909 0.00 0.00 38.35 3.53
1922 2028 3.425162 ACTAGCCTCTTTGGTTTGGAG 57.575 47.619 0.00 0.00 38.35 3.86
1923 2029 2.979678 ACTAGCCTCTTTGGTTTGGAGA 59.020 45.455 0.00 0.00 38.35 3.71
1924 2030 3.394606 ACTAGCCTCTTTGGTTTGGAGAA 59.605 43.478 0.00 0.00 38.35 2.87
1925 2031 3.312736 AGCCTCTTTGGTTTGGAGAAA 57.687 42.857 0.00 0.00 38.35 2.52
1926 2032 3.849527 AGCCTCTTTGGTTTGGAGAAAT 58.150 40.909 0.00 0.00 38.35 2.17
1927 2033 4.226384 AGCCTCTTTGGTTTGGAGAAATT 58.774 39.130 0.00 0.00 38.35 1.82
1928 2034 4.655649 AGCCTCTTTGGTTTGGAGAAATTT 59.344 37.500 0.00 0.00 38.35 1.82
1929 2035 4.991056 GCCTCTTTGGTTTGGAGAAATTTC 59.009 41.667 10.33 10.33 38.35 2.17
1930 2036 5.453198 GCCTCTTTGGTTTGGAGAAATTTCA 60.453 40.000 19.99 0.00 38.35 2.69
1931 2037 6.742363 GCCTCTTTGGTTTGGAGAAATTTCAT 60.742 38.462 19.99 5.50 38.35 2.57
1932 2038 7.525360 GCCTCTTTGGTTTGGAGAAATTTCATA 60.525 37.037 19.99 3.23 38.35 2.15
1933 2039 8.031277 CCTCTTTGGTTTGGAGAAATTTCATAG 58.969 37.037 19.99 2.85 0.00 2.23
1934 2040 7.895759 TCTTTGGTTTGGAGAAATTTCATAGG 58.104 34.615 19.99 0.00 0.00 2.57
1935 2041 7.728083 TCTTTGGTTTGGAGAAATTTCATAGGA 59.272 33.333 19.99 0.73 0.00 2.94
1936 2042 7.847711 TTGGTTTGGAGAAATTTCATAGGAA 57.152 32.000 19.99 5.63 0.00 3.36
1937 2043 8.434589 TTGGTTTGGAGAAATTTCATAGGAAT 57.565 30.769 19.99 0.00 31.93 3.01
1938 2044 8.434589 TGGTTTGGAGAAATTTCATAGGAATT 57.565 30.769 19.99 0.00 31.93 2.17
1939 2045 8.879227 TGGTTTGGAGAAATTTCATAGGAATTT 58.121 29.630 19.99 0.00 31.93 1.82
1940 2046 9.371136 GGTTTGGAGAAATTTCATAGGAATTTC 57.629 33.333 19.99 13.20 34.42 2.17
1941 2047 9.927668 GTTTGGAGAAATTTCATAGGAATTTCA 57.072 29.630 19.99 0.00 35.42 2.69
1998 2104 3.895704 TTTCCTTTAGAGCCCTTTGGT 57.104 42.857 0.00 0.00 0.00 3.67
1999 2105 3.895704 TTCCTTTAGAGCCCTTTGGTT 57.104 42.857 0.00 0.00 0.00 3.67
2000 2106 3.434940 TCCTTTAGAGCCCTTTGGTTC 57.565 47.619 0.00 0.00 41.91 3.62
2001 2107 2.714250 TCCTTTAGAGCCCTTTGGTTCA 59.286 45.455 0.00 0.00 43.89 3.18
2002 2108 3.333680 TCCTTTAGAGCCCTTTGGTTCAT 59.666 43.478 0.00 0.00 43.89 2.57
2003 2109 4.538490 TCCTTTAGAGCCCTTTGGTTCATA 59.462 41.667 0.00 0.00 43.89 2.15
2004 2110 5.014755 TCCTTTAGAGCCCTTTGGTTCATAA 59.985 40.000 0.00 0.00 43.89 1.90
2005 2111 5.714806 CCTTTAGAGCCCTTTGGTTCATAAA 59.285 40.000 0.00 1.05 43.89 1.40
2006 2112 6.210584 CCTTTAGAGCCCTTTGGTTCATAAAA 59.789 38.462 0.00 0.00 43.89 1.52
2007 2113 7.256154 CCTTTAGAGCCCTTTGGTTCATAAAAA 60.256 37.037 0.00 0.00 43.89 1.94
2008 2114 7.790782 TTAGAGCCCTTTGGTTCATAAAAAT 57.209 32.000 0.00 0.00 43.89 1.82
2009 2115 6.041423 AGAGCCCTTTGGTTCATAAAAATG 57.959 37.500 0.00 0.00 43.89 2.32
2010 2116 5.046376 AGAGCCCTTTGGTTCATAAAAATGG 60.046 40.000 0.00 0.00 43.89 3.16
2011 2117 4.843516 AGCCCTTTGGTTCATAAAAATGGA 59.156 37.500 0.00 0.00 0.00 3.41
2012 2118 5.488561 AGCCCTTTGGTTCATAAAAATGGAT 59.511 36.000 0.00 0.00 0.00 3.41
2013 2119 6.012596 AGCCCTTTGGTTCATAAAAATGGATT 60.013 34.615 0.00 0.00 0.00 3.01
2014 2120 6.316140 GCCCTTTGGTTCATAAAAATGGATTC 59.684 38.462 0.00 0.00 0.00 2.52
2015 2121 6.823182 CCCTTTGGTTCATAAAAATGGATTCC 59.177 38.462 0.00 0.00 0.00 3.01
2016 2122 7.311234 CCCTTTGGTTCATAAAAATGGATTCCT 60.311 37.037 3.95 0.00 0.00 3.36
2017 2123 8.757877 CCTTTGGTTCATAAAAATGGATTCCTA 58.242 33.333 3.95 0.00 0.00 2.94
2021 2127 8.923270 TGGTTCATAAAAATGGATTCCTATTCC 58.077 33.333 3.95 0.00 0.00 3.01
2022 2128 9.147732 GGTTCATAAAAATGGATTCCTATTCCT 57.852 33.333 3.95 0.00 34.17 3.36
2029 2135 9.813826 AAAAATGGATTCCTATTCCTACATAGG 57.186 33.333 3.95 0.00 45.32 2.57
2048 2154 3.493767 GGATTGGTTCCTATCCTCCAC 57.506 52.381 19.71 0.00 41.78 4.02
2049 2155 2.777692 GGATTGGTTCCTATCCTCCACA 59.222 50.000 19.71 0.00 41.78 4.17
2050 2156 3.395941 GGATTGGTTCCTATCCTCCACAT 59.604 47.826 19.71 0.00 41.78 3.21
2051 2157 4.141158 GGATTGGTTCCTATCCTCCACATT 60.141 45.833 19.71 0.00 41.78 2.71
2052 2158 4.946160 TTGGTTCCTATCCTCCACATTT 57.054 40.909 0.00 0.00 0.00 2.32
2053 2159 4.503714 TGGTTCCTATCCTCCACATTTC 57.496 45.455 0.00 0.00 0.00 2.17
2054 2160 3.849574 TGGTTCCTATCCTCCACATTTCA 59.150 43.478 0.00 0.00 0.00 2.69
2055 2161 4.478317 TGGTTCCTATCCTCCACATTTCAT 59.522 41.667 0.00 0.00 0.00 2.57
2056 2162 5.669904 TGGTTCCTATCCTCCACATTTCATA 59.330 40.000 0.00 0.00 0.00 2.15
2057 2163 6.183361 TGGTTCCTATCCTCCACATTTCATAG 60.183 42.308 0.00 0.00 0.00 2.23
2058 2164 6.234177 GTTCCTATCCTCCACATTTCATAGG 58.766 44.000 0.00 0.00 35.93 2.57
2059 2165 5.726560 TCCTATCCTCCACATTTCATAGGA 58.273 41.667 2.01 2.01 39.61 2.94
2060 2166 6.150332 TCCTATCCTCCACATTTCATAGGAA 58.850 40.000 3.47 0.00 39.17 3.36
2061 2167 6.619437 TCCTATCCTCCACATTTCATAGGAAA 59.381 38.462 4.85 4.85 46.36 3.13
2062 2168 7.128728 TCCTATCCTCCACATTTCATAGGAAAA 59.871 37.037 6.65 0.00 45.52 2.29
2063 2169 7.946776 CCTATCCTCCACATTTCATAGGAAAAT 59.053 37.037 6.65 0.00 45.52 1.82
2066 2172 9.713684 ATCCTCCACATTTCATAGGAAAATAAA 57.286 29.630 6.65 0.00 45.52 1.40
2067 2173 9.540538 TCCTCCACATTTCATAGGAAAATAAAA 57.459 29.630 6.65 0.00 45.52 1.52
2125 2231 5.801350 TCAACCAAATGACATCTCGATTC 57.199 39.130 0.00 0.00 0.00 2.52
2126 2232 4.635765 TCAACCAAATGACATCTCGATTCC 59.364 41.667 0.00 0.00 0.00 3.01
2127 2233 4.494091 ACCAAATGACATCTCGATTCCT 57.506 40.909 0.00 0.00 0.00 3.36
2128 2234 5.614324 ACCAAATGACATCTCGATTCCTA 57.386 39.130 0.00 0.00 0.00 2.94
2129 2235 6.179906 ACCAAATGACATCTCGATTCCTAT 57.820 37.500 0.00 0.00 0.00 2.57
2130 2236 6.595682 ACCAAATGACATCTCGATTCCTATT 58.404 36.000 0.00 0.00 0.00 1.73
2131 2237 6.708054 ACCAAATGACATCTCGATTCCTATTC 59.292 38.462 0.00 0.00 0.00 1.75
2132 2238 6.148480 CCAAATGACATCTCGATTCCTATTCC 59.852 42.308 0.00 0.00 0.00 3.01
2133 2239 6.678568 AATGACATCTCGATTCCTATTCCT 57.321 37.500 0.00 0.00 0.00 3.36
2134 2240 7.782897 AATGACATCTCGATTCCTATTCCTA 57.217 36.000 0.00 0.00 0.00 2.94
2135 2241 6.576662 TGACATCTCGATTCCTATTCCTAC 57.423 41.667 0.00 0.00 0.00 3.18
2136 2242 6.307776 TGACATCTCGATTCCTATTCCTACT 58.692 40.000 0.00 0.00 0.00 2.57
2137 2243 6.431543 TGACATCTCGATTCCTATTCCTACTC 59.568 42.308 0.00 0.00 0.00 2.59
2138 2244 6.307776 ACATCTCGATTCCTATTCCTACTCA 58.692 40.000 0.00 0.00 0.00 3.41
2139 2245 6.951198 ACATCTCGATTCCTATTCCTACTCAT 59.049 38.462 0.00 0.00 0.00 2.90
2140 2246 8.110271 ACATCTCGATTCCTATTCCTACTCATA 58.890 37.037 0.00 0.00 0.00 2.15
2141 2247 8.961634 CATCTCGATTCCTATTCCTACTCATAA 58.038 37.037 0.00 0.00 0.00 1.90
2142 2248 8.568676 TCTCGATTCCTATTCCTACTCATAAG 57.431 38.462 0.00 0.00 0.00 1.73
2143 2249 8.383947 TCTCGATTCCTATTCCTACTCATAAGA 58.616 37.037 0.00 0.00 0.00 2.10
2144 2250 9.184523 CTCGATTCCTATTCCTACTCATAAGAT 57.815 37.037 0.00 0.00 0.00 2.40
2145 2251 9.535170 TCGATTCCTATTCCTACTCATAAGATT 57.465 33.333 0.00 0.00 0.00 2.40
2150 2256 9.883293 TCCTATTCCTACTCATAAGATTTGAGA 57.117 33.333 7.63 0.00 42.63 3.27
2156 2262 8.568794 TCCTACTCATAAGATTTGAGATACACG 58.431 37.037 7.63 0.00 42.63 4.49
2157 2263 7.327275 CCTACTCATAAGATTTGAGATACACGC 59.673 40.741 7.63 0.00 42.63 5.34
2158 2264 5.986135 ACTCATAAGATTTGAGATACACGCC 59.014 40.000 7.63 0.00 42.63 5.68
2159 2265 5.912892 TCATAAGATTTGAGATACACGCCA 58.087 37.500 0.00 0.00 0.00 5.69
2160 2266 6.524734 TCATAAGATTTGAGATACACGCCAT 58.475 36.000 0.00 0.00 0.00 4.40
2161 2267 6.646653 TCATAAGATTTGAGATACACGCCATC 59.353 38.462 0.00 0.00 0.00 3.51
2162 2268 4.679373 AGATTTGAGATACACGCCATCT 57.321 40.909 0.00 0.00 35.43 2.90
2163 2269 4.626042 AGATTTGAGATACACGCCATCTC 58.374 43.478 12.30 12.30 45.76 2.75
2168 2274 3.321497 GAGATACACGCCATCTCATTCC 58.679 50.000 13.67 0.00 45.17 3.01
2169 2275 2.968574 AGATACACGCCATCTCATTCCT 59.031 45.455 0.00 0.00 0.00 3.36
2170 2276 4.152647 AGATACACGCCATCTCATTCCTA 58.847 43.478 0.00 0.00 0.00 2.94
2171 2277 2.604046 ACACGCCATCTCATTCCTAC 57.396 50.000 0.00 0.00 0.00 3.18
2172 2278 1.831106 ACACGCCATCTCATTCCTACA 59.169 47.619 0.00 0.00 0.00 2.74
2173 2279 2.236146 ACACGCCATCTCATTCCTACAA 59.764 45.455 0.00 0.00 0.00 2.41
2174 2280 3.270027 CACGCCATCTCATTCCTACAAA 58.730 45.455 0.00 0.00 0.00 2.83
2175 2281 3.689161 CACGCCATCTCATTCCTACAAAA 59.311 43.478 0.00 0.00 0.00 2.44
2176 2282 4.336433 CACGCCATCTCATTCCTACAAAAT 59.664 41.667 0.00 0.00 0.00 1.82
2177 2283 4.949856 ACGCCATCTCATTCCTACAAAATT 59.050 37.500 0.00 0.00 0.00 1.82
2178 2284 5.066505 ACGCCATCTCATTCCTACAAAATTC 59.933 40.000 0.00 0.00 0.00 2.17
2179 2285 5.506317 CGCCATCTCATTCCTACAAAATTCC 60.506 44.000 0.00 0.00 0.00 3.01
2180 2286 5.595952 GCCATCTCATTCCTACAAAATTCCT 59.404 40.000 0.00 0.00 0.00 3.36
2181 2287 6.772716 GCCATCTCATTCCTACAAAATTCCTA 59.227 38.462 0.00 0.00 0.00 2.94
2182 2288 7.449704 GCCATCTCATTCCTACAAAATTCCTAT 59.550 37.037 0.00 0.00 0.00 2.57
2183 2289 9.359653 CCATCTCATTCCTACAAAATTCCTATT 57.640 33.333 0.00 0.00 0.00 1.73
2185 2291 8.980481 TCTCATTCCTACAAAATTCCTATTCC 57.020 34.615 0.00 0.00 0.00 3.01
2186 2292 8.781951 TCTCATTCCTACAAAATTCCTATTCCT 58.218 33.333 0.00 0.00 0.00 3.36
2188 2294 9.847224 TCATTCCTACAAAATTCCTATTCCTAC 57.153 33.333 0.00 0.00 0.00 3.18
2189 2295 8.774586 CATTCCTACAAAATTCCTATTCCTACG 58.225 37.037 0.00 0.00 0.00 3.51
2190 2296 7.664552 TCCTACAAAATTCCTATTCCTACGA 57.335 36.000 0.00 0.00 0.00 3.43
2191 2297 8.258850 TCCTACAAAATTCCTATTCCTACGAT 57.741 34.615 0.00 0.00 0.00 3.73
2192 2298 9.370930 TCCTACAAAATTCCTATTCCTACGATA 57.629 33.333 0.00 0.00 0.00 2.92
2193 2299 9.991906 CCTACAAAATTCCTATTCCTACGATAA 57.008 33.333 0.00 0.00 0.00 1.75
2196 2302 9.503399 ACAAAATTCCTATTCCTACGATAATCC 57.497 33.333 0.00 0.00 0.00 3.01
2197 2303 9.726438 CAAAATTCCTATTCCTACGATAATCCT 57.274 33.333 0.00 0.00 0.00 3.24
2201 2307 8.763984 TTCCTATTCCTACGATAATCCTATCC 57.236 38.462 0.00 0.00 31.68 2.59
2202 2308 8.115490 TCCTATTCCTACGATAATCCTATCCT 57.885 38.462 0.00 0.00 31.68 3.24
2203 2309 9.234086 TCCTATTCCTACGATAATCCTATCCTA 57.766 37.037 0.00 0.00 31.68 2.94
2207 2313 9.937876 ATTCCTACGATAATCCTATCCTATGAA 57.062 33.333 0.00 0.00 31.68 2.57
2208 2314 8.749026 TCCTACGATAATCCTATCCTATGAAC 57.251 38.462 0.00 0.00 31.68 3.18
2209 2315 7.778853 TCCTACGATAATCCTATCCTATGAACC 59.221 40.741 0.00 0.00 31.68 3.62
2210 2316 7.560262 CCTACGATAATCCTATCCTATGAACCA 59.440 40.741 0.00 0.00 31.68 3.67
2211 2317 7.792364 ACGATAATCCTATCCTATGAACCAA 57.208 36.000 0.00 0.00 31.68 3.67
2212 2318 8.202461 ACGATAATCCTATCCTATGAACCAAA 57.798 34.615 0.00 0.00 31.68 3.28
2213 2319 8.656806 ACGATAATCCTATCCTATGAACCAAAA 58.343 33.333 0.00 0.00 31.68 2.44
2214 2320 9.155975 CGATAATCCTATCCTATGAACCAAAAG 57.844 37.037 0.00 0.00 31.68 2.27
2217 2323 7.698163 ATCCTATCCTATGAACCAAAAGAGT 57.302 36.000 0.00 0.00 0.00 3.24
2218 2324 8.798975 ATCCTATCCTATGAACCAAAAGAGTA 57.201 34.615 0.00 0.00 0.00 2.59
2219 2325 8.251383 TCCTATCCTATGAACCAAAAGAGTAG 57.749 38.462 0.00 0.00 0.00 2.57
2220 2326 6.931840 CCTATCCTATGAACCAAAAGAGTAGC 59.068 42.308 0.00 0.00 0.00 3.58
2221 2327 5.099042 TCCTATGAACCAAAAGAGTAGCC 57.901 43.478 0.00 0.00 0.00 3.93
2222 2328 4.783227 TCCTATGAACCAAAAGAGTAGCCT 59.217 41.667 0.00 0.00 0.00 4.58
2223 2329 5.250774 TCCTATGAACCAAAAGAGTAGCCTT 59.749 40.000 0.00 0.00 0.00 4.35
2224 2330 6.442564 TCCTATGAACCAAAAGAGTAGCCTTA 59.557 38.462 0.00 0.00 0.00 2.69
2225 2331 7.127339 TCCTATGAACCAAAAGAGTAGCCTTAT 59.873 37.037 0.00 0.00 0.00 1.73
2226 2332 7.442666 CCTATGAACCAAAAGAGTAGCCTTATC 59.557 40.741 0.00 0.00 0.00 1.75
2227 2333 6.374417 TGAACCAAAAGAGTAGCCTTATCT 57.626 37.500 0.00 0.00 0.00 1.98
2228 2334 6.173339 TGAACCAAAAGAGTAGCCTTATCTG 58.827 40.000 0.00 0.00 0.00 2.90
2229 2335 6.013725 TGAACCAAAAGAGTAGCCTTATCTGA 60.014 38.462 0.00 0.00 0.00 3.27
2230 2336 5.735766 ACCAAAAGAGTAGCCTTATCTGAC 58.264 41.667 0.00 0.00 0.00 3.51
2231 2337 5.485708 ACCAAAAGAGTAGCCTTATCTGACT 59.514 40.000 0.00 0.00 0.00 3.41
2232 2338 5.814705 CCAAAAGAGTAGCCTTATCTGACTG 59.185 44.000 0.00 0.00 0.00 3.51
2233 2339 4.664150 AAGAGTAGCCTTATCTGACTGC 57.336 45.455 0.00 0.00 0.00 4.40
2234 2340 3.909732 AGAGTAGCCTTATCTGACTGCT 58.090 45.455 0.00 0.00 36.11 4.24
2235 2341 5.055265 AGAGTAGCCTTATCTGACTGCTA 57.945 43.478 0.00 0.00 33.63 3.49
2236 2342 5.450453 AGAGTAGCCTTATCTGACTGCTAA 58.550 41.667 0.00 0.00 36.39 3.09
2237 2343 5.534654 AGAGTAGCCTTATCTGACTGCTAAG 59.465 44.000 0.00 0.00 36.39 2.18
2238 2344 3.467374 AGCCTTATCTGACTGCTAAGC 57.533 47.619 0.00 0.00 0.00 3.09
2239 2345 3.037549 AGCCTTATCTGACTGCTAAGCT 58.962 45.455 0.00 0.00 0.00 3.74
2240 2346 3.129871 GCCTTATCTGACTGCTAAGCTG 58.870 50.000 0.00 0.00 0.00 4.24
2241 2347 3.129871 CCTTATCTGACTGCTAAGCTGC 58.870 50.000 0.00 0.00 0.00 5.25
2242 2348 2.498807 TATCTGACTGCTAAGCTGCG 57.501 50.000 0.00 0.00 35.36 5.18
2243 2349 0.534412 ATCTGACTGCTAAGCTGCGT 59.466 50.000 0.00 0.00 35.36 5.24
2244 2350 0.318441 TCTGACTGCTAAGCTGCGTT 59.682 50.000 0.00 0.00 35.36 4.84
2245 2351 0.441533 CTGACTGCTAAGCTGCGTTG 59.558 55.000 0.00 0.00 35.36 4.10
2246 2352 0.249868 TGACTGCTAAGCTGCGTTGT 60.250 50.000 0.00 0.00 35.36 3.32
2247 2353 0.868406 GACTGCTAAGCTGCGTTGTT 59.132 50.000 0.00 0.00 35.36 2.83
2248 2354 1.264288 GACTGCTAAGCTGCGTTGTTT 59.736 47.619 0.00 0.00 35.36 2.83
2249 2355 1.002468 ACTGCTAAGCTGCGTTGTTTG 60.002 47.619 0.00 0.00 35.36 2.93
2250 2356 0.317770 TGCTAAGCTGCGTTGTTTGC 60.318 50.000 0.00 0.00 35.36 3.68
2251 2357 0.040067 GCTAAGCTGCGTTGTTTGCT 60.040 50.000 0.00 0.00 37.37 3.91
2252 2358 1.600413 GCTAAGCTGCGTTGTTTGCTT 60.600 47.619 0.00 0.00 45.94 3.91
2253 2359 2.731217 CTAAGCTGCGTTGTTTGCTTT 58.269 42.857 4.42 0.00 42.22 3.51
2254 2360 1.559831 AAGCTGCGTTGTTTGCTTTC 58.440 45.000 0.00 0.00 42.22 2.62
2255 2361 0.455410 AGCTGCGTTGTTTGCTTTCA 59.545 45.000 0.00 0.00 30.96 2.69
2256 2362 1.135141 AGCTGCGTTGTTTGCTTTCAA 60.135 42.857 0.00 0.00 30.96 2.69
2257 2363 1.658095 GCTGCGTTGTTTGCTTTCAAA 59.342 42.857 0.00 0.00 39.67 2.69
2258 2364 2.093467 GCTGCGTTGTTTGCTTTCAAAA 59.907 40.909 0.00 0.00 43.12 2.44
2259 2365 3.424170 GCTGCGTTGTTTGCTTTCAAAAA 60.424 39.130 0.00 0.00 43.12 1.94
2260 2366 4.319235 TGCGTTGTTTGCTTTCAAAAAG 57.681 36.364 0.00 0.00 43.12 2.27
2261 2367 3.990469 TGCGTTGTTTGCTTTCAAAAAGA 59.010 34.783 3.68 0.00 43.12 2.52
2262 2368 4.449068 TGCGTTGTTTGCTTTCAAAAAGAA 59.551 33.333 3.68 0.00 43.12 2.52
2263 2369 5.050091 TGCGTTGTTTGCTTTCAAAAAGAAA 60.050 32.000 3.68 0.00 43.12 2.52
2264 2370 5.848559 GCGTTGTTTGCTTTCAAAAAGAAAA 59.151 32.000 3.68 2.87 45.11 2.29
2265 2371 6.031314 GCGTTGTTTGCTTTCAAAAAGAAAAG 59.969 34.615 5.94 0.00 45.11 2.27
2266 2372 7.287229 CGTTGTTTGCTTTCAAAAAGAAAAGA 58.713 30.769 5.94 2.92 45.11 2.52
2267 2373 7.796197 CGTTGTTTGCTTTCAAAAAGAAAAGAA 59.204 29.630 10.01 10.01 45.11 2.52
2268 2374 9.444534 GTTGTTTGCTTTCAAAAAGAAAAGAAA 57.555 25.926 13.86 6.83 45.11 2.52
2275 2381 9.478019 GCTTTCAAAAAGAAAAGAAAAACTAGC 57.522 29.630 3.68 0.00 45.11 3.42
2278 2384 8.702163 TCAAAAAGAAAAGAAAAACTAGCTGG 57.298 30.769 0.00 0.00 0.00 4.85
2279 2385 7.763985 TCAAAAAGAAAAGAAAAACTAGCTGGG 59.236 33.333 0.85 0.00 0.00 4.45
2280 2386 4.855715 AGAAAAGAAAAACTAGCTGGGC 57.144 40.909 0.85 0.00 0.00 5.36
2281 2387 4.474394 AGAAAAGAAAAACTAGCTGGGCT 58.526 39.130 0.85 0.00 43.41 5.19
2282 2388 4.279420 AGAAAAGAAAAACTAGCTGGGCTG 59.721 41.667 0.85 0.00 40.10 4.85
2283 2389 2.959465 AGAAAAACTAGCTGGGCTGT 57.041 45.000 0.85 0.00 40.10 4.40
2284 2390 3.229697 AGAAAAACTAGCTGGGCTGTT 57.770 42.857 0.85 2.64 40.10 3.16
2285 2391 4.367039 AGAAAAACTAGCTGGGCTGTTA 57.633 40.909 0.85 0.00 40.10 2.41
2286 2392 4.327680 AGAAAAACTAGCTGGGCTGTTAG 58.672 43.478 0.85 0.00 40.10 2.34
2287 2393 2.115343 AAACTAGCTGGGCTGTTAGC 57.885 50.000 0.85 0.00 40.10 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 75 8.370940 TCTTCTTTCGATCATATATCTTGCCTT 58.629 33.333 0.00 0.00 0.00 4.35
186 198 7.638683 TCTCGTTCGATTGAGTTTTTCTTTTTC 59.361 33.333 12.52 0.00 33.88 2.29
187 199 7.469260 TCTCGTTCGATTGAGTTTTTCTTTTT 58.531 30.769 12.52 0.00 33.88 1.94
192 204 6.590357 TCATTCTCGTTCGATTGAGTTTTTC 58.410 36.000 12.52 0.00 33.88 2.29
215 227 3.242518 GCCGGTGAAGCAAGTTTAATTC 58.757 45.455 1.90 0.00 0.00 2.17
240 253 1.416401 GCTCAAGGTTATGGATCGGGA 59.584 52.381 0.00 0.00 0.00 5.14
323 336 1.061411 CGTGCTGCATCGACCATTG 59.939 57.895 5.27 0.00 0.00 2.82
858 871 2.845345 CCTGGCCAAGGGGTTCACT 61.845 63.158 7.01 0.00 43.15 3.41
1731 1837 1.672030 CATCCGCTGCAACACTCCA 60.672 57.895 0.00 0.00 0.00 3.86
1808 1914 1.153349 GGCCTCTTGTTCCGCCTAG 60.153 63.158 0.00 0.00 38.41 3.02
1826 1932 1.674764 ATGTCTGCTCTGCCTCTCCG 61.675 60.000 0.00 0.00 0.00 4.63
1906 2012 4.607293 AATTTCTCCAAACCAAAGAGGC 57.393 40.909 0.00 0.00 43.14 4.70
1908 2014 8.031277 CCTATGAAATTTCTCCAAACCAAAGAG 58.969 37.037 18.64 1.86 0.00 2.85
1909 2015 7.728083 TCCTATGAAATTTCTCCAAACCAAAGA 59.272 33.333 18.64 0.00 0.00 2.52
1910 2016 7.895759 TCCTATGAAATTTCTCCAAACCAAAG 58.104 34.615 18.64 2.57 0.00 2.77
1911 2017 7.847711 TCCTATGAAATTTCTCCAAACCAAA 57.152 32.000 18.64 0.00 0.00 3.28
1912 2018 7.847711 TTCCTATGAAATTTCTCCAAACCAA 57.152 32.000 18.64 0.00 0.00 3.67
1913 2019 8.434589 AATTCCTATGAAATTTCTCCAAACCA 57.565 30.769 18.64 0.00 33.32 3.67
1914 2020 9.371136 GAAATTCCTATGAAATTTCTCCAAACC 57.629 33.333 18.64 0.00 33.32 3.27
1915 2021 9.927668 TGAAATTCCTATGAAATTTCTCCAAAC 57.072 29.630 18.64 2.85 33.69 2.93
1976 2082 4.552674 ACCAAAGGGCTCTAAAGGAAAAA 58.447 39.130 5.94 0.00 37.90 1.94
1977 2083 4.193240 ACCAAAGGGCTCTAAAGGAAAA 57.807 40.909 5.94 0.00 37.90 2.29
1978 2084 3.895704 ACCAAAGGGCTCTAAAGGAAA 57.104 42.857 5.94 0.00 37.90 3.13
1979 2085 3.139397 TGAACCAAAGGGCTCTAAAGGAA 59.861 43.478 5.94 0.00 37.90 3.36
1980 2086 2.714250 TGAACCAAAGGGCTCTAAAGGA 59.286 45.455 5.94 0.00 37.90 3.36
1981 2087 3.154827 TGAACCAAAGGGCTCTAAAGG 57.845 47.619 0.00 0.00 37.90 3.11
1982 2088 6.834168 TTTATGAACCAAAGGGCTCTAAAG 57.166 37.500 0.00 0.00 37.90 1.85
1983 2089 7.604657 TTTTTATGAACCAAAGGGCTCTAAA 57.395 32.000 0.00 0.00 37.90 1.85
1984 2090 7.310361 CCATTTTTATGAACCAAAGGGCTCTAA 60.310 37.037 0.00 0.00 37.90 2.10
1985 2091 6.154363 CCATTTTTATGAACCAAAGGGCTCTA 59.846 38.462 0.00 0.00 37.90 2.43
1986 2092 5.046376 CCATTTTTATGAACCAAAGGGCTCT 60.046 40.000 0.00 0.00 37.90 4.09
1987 2093 5.046663 TCCATTTTTATGAACCAAAGGGCTC 60.047 40.000 0.00 0.00 37.90 4.70
1988 2094 4.843516 TCCATTTTTATGAACCAAAGGGCT 59.156 37.500 0.00 0.00 37.90 5.19
1989 2095 5.159273 TCCATTTTTATGAACCAAAGGGC 57.841 39.130 0.00 0.00 37.90 5.19
1990 2096 6.823182 GGAATCCATTTTTATGAACCAAAGGG 59.177 38.462 0.00 0.00 41.29 3.95
1991 2097 7.623630 AGGAATCCATTTTTATGAACCAAAGG 58.376 34.615 0.61 0.00 0.00 3.11
1995 2101 8.923270 GGAATAGGAATCCATTTTTATGAACCA 58.077 33.333 0.61 0.00 36.92 3.67
1996 2102 9.147732 AGGAATAGGAATCCATTTTTATGAACC 57.852 33.333 0.61 0.00 39.55 3.62
2029 2135 4.713792 ATGTGGAGGATAGGAACCAATC 57.286 45.455 0.00 0.00 34.11 2.67
2030 2136 5.044179 TGAAATGTGGAGGATAGGAACCAAT 60.044 40.000 0.00 0.00 34.11 3.16
2031 2137 4.290985 TGAAATGTGGAGGATAGGAACCAA 59.709 41.667 0.00 0.00 34.11 3.67
2032 2138 3.849574 TGAAATGTGGAGGATAGGAACCA 59.150 43.478 0.00 0.00 0.00 3.67
2033 2139 4.503714 TGAAATGTGGAGGATAGGAACC 57.496 45.455 0.00 0.00 0.00 3.62
2034 2140 6.043243 TCCTATGAAATGTGGAGGATAGGAAC 59.957 42.308 0.00 0.00 38.86 3.62
2035 2141 6.150332 TCCTATGAAATGTGGAGGATAGGAA 58.850 40.000 0.00 0.00 38.86 3.36
2036 2142 5.726560 TCCTATGAAATGTGGAGGATAGGA 58.273 41.667 0.00 0.00 39.29 2.94
2037 2143 6.439636 TTCCTATGAAATGTGGAGGATAGG 57.560 41.667 0.00 0.00 36.22 2.57
2038 2144 8.930846 ATTTTCCTATGAAATGTGGAGGATAG 57.069 34.615 0.00 0.00 40.08 2.08
2040 2146 9.713684 TTTATTTTCCTATGAAATGTGGAGGAT 57.286 29.630 0.00 0.00 40.08 3.24
2041 2147 9.540538 TTTTATTTTCCTATGAAATGTGGAGGA 57.459 29.630 0.00 0.00 40.08 3.71
2102 2208 5.447818 GGAATCGAGATGTCATTTGGTTGAC 60.448 44.000 0.00 0.00 45.05 3.18
2103 2209 4.635765 GGAATCGAGATGTCATTTGGTTGA 59.364 41.667 0.00 0.00 0.00 3.18
2104 2210 4.637534 AGGAATCGAGATGTCATTTGGTTG 59.362 41.667 0.00 0.00 0.00 3.77
2105 2211 4.848357 AGGAATCGAGATGTCATTTGGTT 58.152 39.130 0.00 0.00 0.00 3.67
2106 2212 4.494091 AGGAATCGAGATGTCATTTGGT 57.506 40.909 0.00 0.00 0.00 3.67
2107 2213 6.148480 GGAATAGGAATCGAGATGTCATTTGG 59.852 42.308 0.00 0.00 0.00 3.28
2108 2214 6.933521 AGGAATAGGAATCGAGATGTCATTTG 59.066 38.462 0.00 0.00 0.00 2.32
2109 2215 7.072263 AGGAATAGGAATCGAGATGTCATTT 57.928 36.000 0.00 0.00 0.00 2.32
2110 2216 6.678568 AGGAATAGGAATCGAGATGTCATT 57.321 37.500 0.00 0.00 0.00 2.57
2111 2217 6.951198 AGTAGGAATAGGAATCGAGATGTCAT 59.049 38.462 0.00 0.00 0.00 3.06
2112 2218 6.307776 AGTAGGAATAGGAATCGAGATGTCA 58.692 40.000 0.00 0.00 0.00 3.58
2113 2219 6.431543 TGAGTAGGAATAGGAATCGAGATGTC 59.568 42.308 0.00 0.00 0.00 3.06
2114 2220 6.307776 TGAGTAGGAATAGGAATCGAGATGT 58.692 40.000 0.00 0.00 0.00 3.06
2115 2221 6.825944 TGAGTAGGAATAGGAATCGAGATG 57.174 41.667 0.00 0.00 0.00 2.90
2116 2222 9.184523 CTTATGAGTAGGAATAGGAATCGAGAT 57.815 37.037 0.00 0.00 0.00 2.75
2117 2223 8.383947 TCTTATGAGTAGGAATAGGAATCGAGA 58.616 37.037 0.00 0.00 0.00 4.04
2118 2224 8.568676 TCTTATGAGTAGGAATAGGAATCGAG 57.431 38.462 0.00 0.00 0.00 4.04
2119 2225 9.535170 AATCTTATGAGTAGGAATAGGAATCGA 57.465 33.333 0.00 0.00 0.00 3.59
2124 2230 9.883293 TCTCAAATCTTATGAGTAGGAATAGGA 57.117 33.333 3.72 0.00 43.77 2.94
2130 2236 8.568794 CGTGTATCTCAAATCTTATGAGTAGGA 58.431 37.037 3.72 0.00 43.77 2.94
2131 2237 7.327275 GCGTGTATCTCAAATCTTATGAGTAGG 59.673 40.741 3.72 0.00 43.77 3.18
2132 2238 7.327275 GGCGTGTATCTCAAATCTTATGAGTAG 59.673 40.741 3.72 0.00 43.77 2.57
2133 2239 7.145985 GGCGTGTATCTCAAATCTTATGAGTA 58.854 38.462 3.72 0.00 43.77 2.59
2134 2240 5.986135 GGCGTGTATCTCAAATCTTATGAGT 59.014 40.000 3.72 0.00 43.77 3.41
2135 2241 5.985530 TGGCGTGTATCTCAAATCTTATGAG 59.014 40.000 0.00 0.00 44.53 2.90
2136 2242 5.912892 TGGCGTGTATCTCAAATCTTATGA 58.087 37.500 0.00 0.00 0.00 2.15
2137 2243 6.648310 AGATGGCGTGTATCTCAAATCTTATG 59.352 38.462 0.00 0.00 29.05 1.90
2138 2244 6.763355 AGATGGCGTGTATCTCAAATCTTAT 58.237 36.000 0.00 0.00 29.05 1.73
2139 2245 6.161855 AGATGGCGTGTATCTCAAATCTTA 57.838 37.500 0.00 0.00 29.05 2.10
2140 2246 5.028549 AGATGGCGTGTATCTCAAATCTT 57.971 39.130 0.00 0.00 29.05 2.40
2141 2247 4.626042 GAGATGGCGTGTATCTCAAATCT 58.374 43.478 15.88 0.00 46.22 2.40
2142 2248 4.981389 GAGATGGCGTGTATCTCAAATC 57.019 45.455 15.88 0.00 46.22 2.17
2147 2253 3.006323 AGGAATGAGATGGCGTGTATCTC 59.994 47.826 14.65 14.65 46.82 2.75
2148 2254 2.968574 AGGAATGAGATGGCGTGTATCT 59.031 45.455 0.00 0.00 37.59 1.98
2149 2255 3.393089 AGGAATGAGATGGCGTGTATC 57.607 47.619 0.00 0.00 0.00 2.24
2150 2256 3.641436 TGTAGGAATGAGATGGCGTGTAT 59.359 43.478 0.00 0.00 0.00 2.29
2151 2257 3.028130 TGTAGGAATGAGATGGCGTGTA 58.972 45.455 0.00 0.00 0.00 2.90
2152 2258 1.831106 TGTAGGAATGAGATGGCGTGT 59.169 47.619 0.00 0.00 0.00 4.49
2153 2259 2.602257 TGTAGGAATGAGATGGCGTG 57.398 50.000 0.00 0.00 0.00 5.34
2154 2260 3.627395 TTTGTAGGAATGAGATGGCGT 57.373 42.857 0.00 0.00 0.00 5.68
2155 2261 5.505173 AATTTTGTAGGAATGAGATGGCG 57.495 39.130 0.00 0.00 0.00 5.69
2156 2262 5.595952 AGGAATTTTGTAGGAATGAGATGGC 59.404 40.000 0.00 0.00 0.00 4.40
2157 2263 8.930846 ATAGGAATTTTGTAGGAATGAGATGG 57.069 34.615 0.00 0.00 0.00 3.51
2159 2265 9.579932 GGAATAGGAATTTTGTAGGAATGAGAT 57.420 33.333 0.00 0.00 0.00 2.75
2160 2266 8.781951 AGGAATAGGAATTTTGTAGGAATGAGA 58.218 33.333 0.00 0.00 0.00 3.27
2161 2267 8.986929 AGGAATAGGAATTTTGTAGGAATGAG 57.013 34.615 0.00 0.00 0.00 2.90
2162 2268 9.847224 GTAGGAATAGGAATTTTGTAGGAATGA 57.153 33.333 0.00 0.00 0.00 2.57
2163 2269 8.774586 CGTAGGAATAGGAATTTTGTAGGAATG 58.225 37.037 0.00 0.00 0.00 2.67
2164 2270 8.711170 TCGTAGGAATAGGAATTTTGTAGGAAT 58.289 33.333 0.00 0.00 0.00 3.01
2165 2271 8.081517 TCGTAGGAATAGGAATTTTGTAGGAA 57.918 34.615 0.00 0.00 0.00 3.36
2166 2272 7.664552 TCGTAGGAATAGGAATTTTGTAGGA 57.335 36.000 0.00 0.00 0.00 2.94
2167 2273 9.991906 TTATCGTAGGAATAGGAATTTTGTAGG 57.008 33.333 0.00 0.00 0.00 3.18
2170 2276 9.503399 GGATTATCGTAGGAATAGGAATTTTGT 57.497 33.333 0.00 0.00 0.00 2.83
2171 2277 9.726438 AGGATTATCGTAGGAATAGGAATTTTG 57.274 33.333 0.00 0.00 0.00 2.44
2175 2281 9.369672 GGATAGGATTATCGTAGGAATAGGAAT 57.630 37.037 1.23 0.00 37.20 3.01
2176 2282 8.566979 AGGATAGGATTATCGTAGGAATAGGAA 58.433 37.037 1.23 0.00 37.20 3.36
2177 2283 8.115490 AGGATAGGATTATCGTAGGAATAGGA 57.885 38.462 1.23 0.00 37.20 2.94
2181 2287 9.937876 TTCATAGGATAGGATTATCGTAGGAAT 57.062 33.333 14.87 0.00 44.20 3.01
2182 2288 9.186837 GTTCATAGGATAGGATTATCGTAGGAA 57.813 37.037 14.87 14.87 45.40 3.36
2183 2289 7.778853 GGTTCATAGGATAGGATTATCGTAGGA 59.221 40.741 7.24 7.24 41.67 2.94
2184 2290 7.560262 TGGTTCATAGGATAGGATTATCGTAGG 59.440 40.741 1.23 3.78 39.00 3.18
2185 2291 8.521170 TGGTTCATAGGATAGGATTATCGTAG 57.479 38.462 1.23 0.00 39.00 3.51
2186 2292 8.888836 TTGGTTCATAGGATAGGATTATCGTA 57.111 34.615 0.00 0.00 39.58 3.43
2187 2293 7.792364 TTGGTTCATAGGATAGGATTATCGT 57.208 36.000 0.00 0.00 37.20 3.73
2188 2294 9.155975 CTTTTGGTTCATAGGATAGGATTATCG 57.844 37.037 0.00 0.00 37.20 2.92
2191 2297 9.225682 ACTCTTTTGGTTCATAGGATAGGATTA 57.774 33.333 0.00 0.00 28.27 1.75
2192 2298 8.107196 ACTCTTTTGGTTCATAGGATAGGATT 57.893 34.615 0.00 0.00 28.27 3.01
2193 2299 7.698163 ACTCTTTTGGTTCATAGGATAGGAT 57.302 36.000 0.00 0.00 28.27 3.24
2194 2300 7.202011 GCTACTCTTTTGGTTCATAGGATAGGA 60.202 40.741 0.00 0.00 0.00 2.94
2195 2301 6.931840 GCTACTCTTTTGGTTCATAGGATAGG 59.068 42.308 0.00 0.00 0.00 2.57
2196 2302 6.931840 GGCTACTCTTTTGGTTCATAGGATAG 59.068 42.308 0.00 0.00 0.00 2.08
2197 2303 6.615726 AGGCTACTCTTTTGGTTCATAGGATA 59.384 38.462 0.00 0.00 0.00 2.59
2198 2304 5.430089 AGGCTACTCTTTTGGTTCATAGGAT 59.570 40.000 0.00 0.00 0.00 3.24
2199 2305 4.783227 AGGCTACTCTTTTGGTTCATAGGA 59.217 41.667 0.00 0.00 0.00 2.94
2200 2306 5.104259 AGGCTACTCTTTTGGTTCATAGG 57.896 43.478 0.00 0.00 0.00 2.57
2201 2307 8.207545 AGATAAGGCTACTCTTTTGGTTCATAG 58.792 37.037 0.00 0.00 0.00 2.23
2202 2308 7.987458 CAGATAAGGCTACTCTTTTGGTTCATA 59.013 37.037 0.00 0.00 0.00 2.15
2203 2309 6.825721 CAGATAAGGCTACTCTTTTGGTTCAT 59.174 38.462 0.00 0.00 0.00 2.57
2204 2310 6.013725 TCAGATAAGGCTACTCTTTTGGTTCA 60.014 38.462 0.00 0.00 0.00 3.18
2205 2311 6.314152 GTCAGATAAGGCTACTCTTTTGGTTC 59.686 42.308 0.00 0.00 0.00 3.62
2206 2312 6.013293 AGTCAGATAAGGCTACTCTTTTGGTT 60.013 38.462 0.00 0.00 0.00 3.67
2207 2313 5.485708 AGTCAGATAAGGCTACTCTTTTGGT 59.514 40.000 0.00 0.00 0.00 3.67
2208 2314 5.814705 CAGTCAGATAAGGCTACTCTTTTGG 59.185 44.000 0.00 0.00 0.00 3.28
2209 2315 5.293079 GCAGTCAGATAAGGCTACTCTTTTG 59.707 44.000 0.00 0.00 0.00 2.44
2210 2316 5.188751 AGCAGTCAGATAAGGCTACTCTTTT 59.811 40.000 0.00 0.00 32.09 2.27
2211 2317 4.714308 AGCAGTCAGATAAGGCTACTCTTT 59.286 41.667 0.00 0.00 32.09 2.52
2212 2318 4.285863 AGCAGTCAGATAAGGCTACTCTT 58.714 43.478 0.00 0.00 32.09 2.85
2213 2319 3.909732 AGCAGTCAGATAAGGCTACTCT 58.090 45.455 0.00 0.00 32.09 3.24
2214 2320 5.768317 CTTAGCAGTCAGATAAGGCTACTC 58.232 45.833 0.00 0.00 41.41 2.59
2215 2321 4.038642 GCTTAGCAGTCAGATAAGGCTACT 59.961 45.833 0.00 0.00 44.42 2.57
2216 2322 4.038642 AGCTTAGCAGTCAGATAAGGCTAC 59.961 45.833 7.07 0.00 44.42 3.58
2217 2323 4.038522 CAGCTTAGCAGTCAGATAAGGCTA 59.961 45.833 7.07 0.00 44.42 3.93
2218 2324 3.037549 AGCTTAGCAGTCAGATAAGGCT 58.962 45.455 7.07 0.00 44.42 4.58
2219 2325 3.129871 CAGCTTAGCAGTCAGATAAGGC 58.870 50.000 7.07 0.00 44.42 4.35
2220 2326 3.129871 GCAGCTTAGCAGTCAGATAAGG 58.870 50.000 7.07 0.00 44.42 2.69
2221 2327 2.793790 CGCAGCTTAGCAGTCAGATAAG 59.206 50.000 7.07 0.00 46.43 1.73
2222 2328 2.166459 ACGCAGCTTAGCAGTCAGATAA 59.834 45.455 7.07 0.00 0.00 1.75
2223 2329 1.751351 ACGCAGCTTAGCAGTCAGATA 59.249 47.619 7.07 0.00 0.00 1.98
2224 2330 0.534412 ACGCAGCTTAGCAGTCAGAT 59.466 50.000 7.07 0.00 0.00 2.90
2225 2331 0.318441 AACGCAGCTTAGCAGTCAGA 59.682 50.000 7.07 0.00 0.00 3.27
2226 2332 0.441533 CAACGCAGCTTAGCAGTCAG 59.558 55.000 7.07 0.00 0.00 3.51
2227 2333 0.249868 ACAACGCAGCTTAGCAGTCA 60.250 50.000 7.07 0.00 0.00 3.41
2228 2334 0.868406 AACAACGCAGCTTAGCAGTC 59.132 50.000 7.07 0.00 0.00 3.51
2229 2335 1.002468 CAAACAACGCAGCTTAGCAGT 60.002 47.619 7.07 0.20 0.00 4.40
2230 2336 1.678360 CAAACAACGCAGCTTAGCAG 58.322 50.000 7.07 0.00 0.00 4.24
2231 2337 0.317770 GCAAACAACGCAGCTTAGCA 60.318 50.000 7.07 0.00 0.00 3.49
2232 2338 0.040067 AGCAAACAACGCAGCTTAGC 60.040 50.000 0.00 0.00 32.52 3.09
2233 2339 2.405892 AAGCAAACAACGCAGCTTAG 57.594 45.000 0.00 0.00 44.73 2.18
2234 2340 2.098280 TGAAAGCAAACAACGCAGCTTA 59.902 40.909 0.00 0.00 45.73 3.09
2236 2342 0.455410 TGAAAGCAAACAACGCAGCT 59.545 45.000 0.00 0.00 39.37 4.24
2237 2343 1.276415 TTGAAAGCAAACAACGCAGC 58.724 45.000 0.00 0.00 0.00 5.25
2238 2344 3.987807 TTTTGAAAGCAAACAACGCAG 57.012 38.095 0.00 0.00 43.27 5.18
2239 2345 3.990469 TCTTTTTGAAAGCAAACAACGCA 59.010 34.783 0.00 0.00 43.27 5.24
2240 2346 4.576106 TCTTTTTGAAAGCAAACAACGC 57.424 36.364 0.00 0.00 43.27 4.84
2241 2347 7.287229 TCTTTTCTTTTTGAAAGCAAACAACG 58.713 30.769 0.00 0.00 44.40 4.10
2242 2348 9.444534 TTTCTTTTCTTTTTGAAAGCAAACAAC 57.555 25.926 0.00 0.00 44.40 3.32
2249 2355 9.478019 GCTAGTTTTTCTTTTCTTTTTGAAAGC 57.522 29.630 0.00 0.00 44.40 3.51
2252 2358 9.150348 CCAGCTAGTTTTTCTTTTCTTTTTGAA 57.850 29.630 0.00 0.00 0.00 2.69
2253 2359 7.763985 CCCAGCTAGTTTTTCTTTTCTTTTTGA 59.236 33.333 0.00 0.00 0.00 2.69
2254 2360 7.465916 GCCCAGCTAGTTTTTCTTTTCTTTTTG 60.466 37.037 0.00 0.00 0.00 2.44
2255 2361 6.538742 GCCCAGCTAGTTTTTCTTTTCTTTTT 59.461 34.615 0.00 0.00 0.00 1.94
2256 2362 6.049149 GCCCAGCTAGTTTTTCTTTTCTTTT 58.951 36.000 0.00 0.00 0.00 2.27
2257 2363 5.363868 AGCCCAGCTAGTTTTTCTTTTCTTT 59.636 36.000 0.00 0.00 36.99 2.52
2258 2364 4.895889 AGCCCAGCTAGTTTTTCTTTTCTT 59.104 37.500 0.00 0.00 36.99 2.52
2259 2365 4.279420 CAGCCCAGCTAGTTTTTCTTTTCT 59.721 41.667 0.00 0.00 36.40 2.52
2260 2366 4.038042 ACAGCCCAGCTAGTTTTTCTTTTC 59.962 41.667 0.00 0.00 36.40 2.29
2261 2367 3.960755 ACAGCCCAGCTAGTTTTTCTTTT 59.039 39.130 0.00 0.00 36.40 2.27
2262 2368 3.566351 ACAGCCCAGCTAGTTTTTCTTT 58.434 40.909 0.00 0.00 36.40 2.52
2263 2369 3.229697 ACAGCCCAGCTAGTTTTTCTT 57.770 42.857 0.00 0.00 36.40 2.52
2264 2370 2.959465 ACAGCCCAGCTAGTTTTTCT 57.041 45.000 0.00 0.00 36.40 2.52
2265 2371 3.119814 GCTAACAGCCCAGCTAGTTTTTC 60.120 47.826 8.82 0.00 36.40 2.29
2266 2372 2.820197 GCTAACAGCCCAGCTAGTTTTT 59.180 45.455 8.82 0.00 36.40 1.94
2267 2373 2.437413 GCTAACAGCCCAGCTAGTTTT 58.563 47.619 8.82 0.00 36.40 2.43
2268 2374 2.115343 GCTAACAGCCCAGCTAGTTT 57.885 50.000 8.82 0.00 36.40 2.66
2269 2375 3.863407 GCTAACAGCCCAGCTAGTT 57.137 52.632 0.00 8.64 36.40 2.24


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

AutoCloner maintained by Alex Coulton.