Multiple sequence alignment - TraesCS1A01G401600

Loading Multiple Alignment...

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 TraesCS1A01G401600 chr1A 100.000 1903 0 0 1 1903 565020642 565022544 0.000000e+00 3515
1 TraesCS1A01G401600 chr1A 99.461 1856 4 2 1 1856 565084822 565086671 0.000000e+00 3367
2 TraesCS1A01G401600 chr1A 86.337 1193 137 15 647 1823 565009390 565010572 0.000000e+00 1277
3 TraesCS1A01G401600 chr1A 100.000 662 0 0 2076 2737 565022717 565023378 0.000000e+00 1223
4 TraesCS1A01G401600 chr1A 92.926 622 43 1 2117 2737 565086886 565087507 0.000000e+00 904
5 TraesCS1A01G401600 chrUn 100.000 386 0 0 1246 1631 480646711 480647096 0.000000e+00 713
6 TraesCS1A01G401600 chr6A 91.630 227 18 1 2512 2737 436785758 436785984 2.050000e-81 313
7 TraesCS1A01G401600 chr5B 79.004 462 80 13 1 458 692390910 692390462 1.590000e-77 300
8 TraesCS1A01G401600 chr5B 79.612 309 45 13 2099 2403 344283175 344282881 3.570000e-49 206
9 TraesCS1A01G401600 chr5B 81.092 238 34 6 2099 2336 344284892 344284666 2.170000e-41 180
10 TraesCS1A01G401600 chr2A 89.868 227 22 1 2512 2737 430567975 430568201 9.590000e-75 291
11 TraesCS1A01G401600 chr2A 89.427 227 23 1 2512 2737 386929015 386928789 4.460000e-73 285
12 TraesCS1A01G401600 chr2A 88.106 227 25 2 2512 2737 390352153 390351928 4.490000e-68 268
13 TraesCS1A01G401600 chr2A 81.413 269 42 7 2129 2392 62473138 62473403 2.140000e-51 213
14 TraesCS1A01G401600 chr7A 89.427 227 21 3 2512 2737 559942418 559942194 1.600000e-72 283
15 TraesCS1A01G401600 chr7A 89.083 229 22 3 2512 2737 56755421 56755649 5.770000e-72 281
16 TraesCS1A01G401600 chr5A 88.546 227 25 1 2512 2737 156875483 156875257 9.660000e-70 274
17 TraesCS1A01G401600 chr5A 85.263 190 22 3 2099 2287 675534470 675534654 1.000000e-44 191
18 TraesCS1A01G401600 chr5D 88.496 226 22 3 2516 2737 515378423 515378648 1.250000e-68 270
19 TraesCS1A01G401600 chr5D 79.545 308 47 12 2099 2403 300951132 300951426 3.570000e-49 206
20 TraesCS1A01G401600 chr6B 79.530 298 50 9 2099 2392 716581655 716581945 4.620000e-48 202
21 TraesCS1A01G401600 chr4D 79.355 310 42 18 2099 2402 10637202 10636909 5.980000e-47 198
22 TraesCS1A01G401600 chr4D 85.567 194 23 2 2095 2287 427731990 427732179 5.980000e-47 198


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 TraesCS1A01G401600 chr1A 565020642 565023378 2736 False 2369.0 3515 100.0000 1 2737 2 chr1A.!!$F2 2736
1 TraesCS1A01G401600 chr1A 565084822 565087507 2685 False 2135.5 3367 96.1935 1 2737 2 chr1A.!!$F3 2736
2 TraesCS1A01G401600 chr1A 565009390 565010572 1182 False 1277.0 1277 86.3370 647 1823 1 chr1A.!!$F1 1176

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
902 904 7.126879 TCCTATAGATGGATGAGCAGCAAATAT 59.873 37.037 0.0 0.0 0.0 1.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2592 2608 0.179116 CTGATGTCCTGTCAGCCGAG 60.179 60.0 0.0 0.0 36.95 4.63 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
902 904 7.126879 TCCTATAGATGGATGAGCAGCAAATAT 59.873 37.037 0.00 0.00 0.00 1.28
903 905 8.427276 CCTATAGATGGATGAGCAGCAAATATA 58.573 37.037 0.00 0.00 0.00 0.86
904 906 9.999660 CTATAGATGGATGAGCAGCAAATATAT 57.000 33.333 0.00 0.00 0.00 0.86
1631 1647 4.854399 AGACATCTCGATCGATCAAGTTC 58.146 43.478 24.40 13.40 0.00 3.01
1856 1872 5.649557 TCATCACCATTTTATTTTCGCCTG 58.350 37.500 0.00 0.00 0.00 4.85
1857 1873 4.448537 TCACCATTTTATTTTCGCCTGG 57.551 40.909 0.00 0.00 0.00 4.45
1858 1874 3.829601 TCACCATTTTATTTTCGCCTGGT 59.170 39.130 0.00 0.00 35.98 4.00
1859 1875 4.282195 TCACCATTTTATTTTCGCCTGGTT 59.718 37.500 0.00 0.00 33.39 3.67
1860 1876 4.994217 CACCATTTTATTTTCGCCTGGTTT 59.006 37.500 0.00 0.00 33.39 3.27
1861 1877 6.015350 TCACCATTTTATTTTCGCCTGGTTTA 60.015 34.615 0.00 0.00 33.39 2.01
1862 1878 6.647067 CACCATTTTATTTTCGCCTGGTTTAA 59.353 34.615 0.00 0.00 33.39 1.52
1863 1879 7.333174 CACCATTTTATTTTCGCCTGGTTTAAT 59.667 33.333 0.00 0.00 33.39 1.40
1864 1880 7.880713 ACCATTTTATTTTCGCCTGGTTTAATT 59.119 29.630 0.00 0.00 31.69 1.40
1865 1881 8.726068 CCATTTTATTTTCGCCTGGTTTAATTT 58.274 29.630 0.00 0.00 0.00 1.82
1869 1885 6.795098 ATTTTCGCCTGGTTTAATTTTTCC 57.205 33.333 0.00 0.00 0.00 3.13
1870 1886 5.538849 TTTCGCCTGGTTTAATTTTTCCT 57.461 34.783 0.00 0.00 0.00 3.36
1871 1887 4.776795 TCGCCTGGTTTAATTTTTCCTC 57.223 40.909 0.00 0.00 0.00 3.71
1872 1888 4.145807 TCGCCTGGTTTAATTTTTCCTCA 58.854 39.130 0.00 0.00 0.00 3.86
1873 1889 4.022676 TCGCCTGGTTTAATTTTTCCTCAC 60.023 41.667 0.00 0.00 0.00 3.51
1874 1890 4.566004 GCCTGGTTTAATTTTTCCTCACC 58.434 43.478 0.00 0.00 0.00 4.02
1875 1891 4.283467 GCCTGGTTTAATTTTTCCTCACCT 59.717 41.667 0.00 0.00 0.00 4.00
1876 1892 5.566826 GCCTGGTTTAATTTTTCCTCACCTC 60.567 44.000 0.00 0.00 0.00 3.85
1877 1893 5.047306 CCTGGTTTAATTTTTCCTCACCTCC 60.047 44.000 0.00 0.00 0.00 4.30
1878 1894 4.836175 TGGTTTAATTTTTCCTCACCTCCC 59.164 41.667 0.00 0.00 0.00 4.30
1879 1895 4.836175 GGTTTAATTTTTCCTCACCTCCCA 59.164 41.667 0.00 0.00 0.00 4.37
1880 1896 5.279306 GGTTTAATTTTTCCTCACCTCCCAC 60.279 44.000 0.00 0.00 0.00 4.61
1881 1897 2.604912 ATTTTTCCTCACCTCCCACC 57.395 50.000 0.00 0.00 0.00 4.61
1882 1898 1.227249 TTTTTCCTCACCTCCCACCA 58.773 50.000 0.00 0.00 0.00 4.17
1883 1899 0.476771 TTTTCCTCACCTCCCACCAC 59.523 55.000 0.00 0.00 0.00 4.16
1884 1900 1.423794 TTTCCTCACCTCCCACCACC 61.424 60.000 0.00 0.00 0.00 4.61
1885 1901 3.330720 CCTCACCTCCCACCACCC 61.331 72.222 0.00 0.00 0.00 4.61
1886 1902 3.330720 CTCACCTCCCACCACCCC 61.331 72.222 0.00 0.00 0.00 4.95
1887 1903 4.194497 TCACCTCCCACCACCCCA 62.194 66.667 0.00 0.00 0.00 4.96
1888 1904 2.941025 CACCTCCCACCACCCCAT 60.941 66.667 0.00 0.00 0.00 4.00
1889 1905 2.614013 ACCTCCCACCACCCCATC 60.614 66.667 0.00 0.00 0.00 3.51
1890 1906 3.420482 CCTCCCACCACCCCATCC 61.420 72.222 0.00 0.00 0.00 3.51
1891 1907 3.420482 CTCCCACCACCCCATCCC 61.420 72.222 0.00 0.00 0.00 3.85
1892 1908 4.293696 TCCCACCACCCCATCCCA 62.294 66.667 0.00 0.00 0.00 4.37
1893 1909 4.060667 CCCACCACCCCATCCCAC 62.061 72.222 0.00 0.00 0.00 4.61
1894 1910 2.941025 CCACCACCCCATCCCACT 60.941 66.667 0.00 0.00 0.00 4.00
1895 1911 2.547595 CCACCACCCCATCCCACTT 61.548 63.158 0.00 0.00 0.00 3.16
1896 1912 1.304381 CACCACCCCATCCCACTTG 60.304 63.158 0.00 0.00 0.00 3.16
1897 1913 1.465188 ACCACCCCATCCCACTTGA 60.465 57.895 0.00 0.00 0.00 3.02
1898 1914 0.850883 ACCACCCCATCCCACTTGAT 60.851 55.000 0.00 0.00 0.00 2.57
1899 1915 0.396139 CCACCCCATCCCACTTGATG 60.396 60.000 0.00 0.00 41.47 3.07
1900 1916 1.039233 CACCCCATCCCACTTGATGC 61.039 60.000 0.00 0.00 40.66 3.91
1901 1917 1.456331 CCCCATCCCACTTGATGCC 60.456 63.158 0.00 0.00 40.66 4.40
1902 1918 1.456331 CCCATCCCACTTGATGCCC 60.456 63.158 0.00 0.00 40.66 5.36
2092 2108 3.508474 CCCCACACACACACACAC 58.492 61.111 0.00 0.00 0.00 3.82
2093 2109 1.377856 CCCCACACACACACACACA 60.378 57.895 0.00 0.00 0.00 3.72
2094 2110 1.653094 CCCCACACACACACACACAC 61.653 60.000 0.00 0.00 0.00 3.82
2095 2111 1.653094 CCCACACACACACACACACC 61.653 60.000 0.00 0.00 0.00 4.16
2096 2112 0.957888 CCACACACACACACACACCA 60.958 55.000 0.00 0.00 0.00 4.17
2097 2113 0.877743 CACACACACACACACACCAA 59.122 50.000 0.00 0.00 0.00 3.67
2098 2114 1.472082 CACACACACACACACACCAAT 59.528 47.619 0.00 0.00 0.00 3.16
2099 2115 2.094803 CACACACACACACACACCAATT 60.095 45.455 0.00 0.00 0.00 2.32
2100 2116 3.127721 CACACACACACACACACCAATTA 59.872 43.478 0.00 0.00 0.00 1.40
2101 2117 3.759086 ACACACACACACACACCAATTAA 59.241 39.130 0.00 0.00 0.00 1.40
2102 2118 4.218635 ACACACACACACACACCAATTAAA 59.781 37.500 0.00 0.00 0.00 1.52
2103 2119 5.164233 CACACACACACACACCAATTAAAA 58.836 37.500 0.00 0.00 0.00 1.52
2104 2120 5.809562 CACACACACACACACCAATTAAAAT 59.190 36.000 0.00 0.00 0.00 1.82
2105 2121 6.975197 CACACACACACACACCAATTAAAATA 59.025 34.615 0.00 0.00 0.00 1.40
2106 2122 6.975772 ACACACACACACACCAATTAAAATAC 59.024 34.615 0.00 0.00 0.00 1.89
2107 2123 6.419413 CACACACACACACCAATTAAAATACC 59.581 38.462 0.00 0.00 0.00 2.73
2108 2124 6.096987 ACACACACACACCAATTAAAATACCA 59.903 34.615 0.00 0.00 0.00 3.25
2109 2125 6.980978 CACACACACACCAATTAAAATACCAA 59.019 34.615 0.00 0.00 0.00 3.67
2110 2126 7.492669 CACACACACACCAATTAAAATACCAAA 59.507 33.333 0.00 0.00 0.00 3.28
2111 2127 8.207545 ACACACACACCAATTAAAATACCAAAT 58.792 29.630 0.00 0.00 0.00 2.32
2112 2128 8.707839 CACACACACCAATTAAAATACCAAATC 58.292 33.333 0.00 0.00 0.00 2.17
2113 2129 8.646900 ACACACACCAATTAAAATACCAAATCT 58.353 29.630 0.00 0.00 0.00 2.40
2114 2130 9.139174 CACACACCAATTAAAATACCAAATCTC 57.861 33.333 0.00 0.00 0.00 2.75
2115 2131 8.865090 ACACACCAATTAAAATACCAAATCTCA 58.135 29.630 0.00 0.00 0.00 3.27
2157 2173 2.340731 TGGTGCTTCCTTTGGTAGGTA 58.659 47.619 0.00 0.00 45.03 3.08
2212 2228 8.592998 GGTAATTAAGAATTAGATATCGCACCG 58.407 37.037 0.00 0.00 34.23 4.94
2223 2239 4.941873 AGATATCGCACCGTATATGTGAGA 59.058 41.667 11.99 11.99 44.62 3.27
2231 2247 5.223382 CACCGTATATGTGAGATCACCTTC 58.777 45.833 10.34 0.00 45.88 3.46
2312 2328 6.317893 ACCTTAGTAACAAATTGCTAATCCCG 59.682 38.462 0.00 0.00 40.75 5.14
2470 2486 0.699981 TAAAGGGGTGTTGGTAGGCC 59.300 55.000 0.00 0.00 0.00 5.19
2472 2488 3.643554 GGGGTGTTGGTAGGCCGT 61.644 66.667 0.00 0.00 37.67 5.68
2479 2495 4.578898 TGGTAGGCCGTATGCGCG 62.579 66.667 0.00 0.00 42.61 6.86
2487 2503 2.246397 CGTATGCGCGCATCCTTG 59.754 61.111 46.16 29.66 37.82 3.61
2497 2513 4.751539 CATCCTTGCAAAGCGACG 57.248 55.556 0.00 0.00 44.44 5.12
2544 2560 2.070783 GCCTCGTCGTTAAATTGTGGA 58.929 47.619 0.00 0.00 0.00 4.02
2555 2571 3.559238 AAATTGTGGAAGTAGCTTGCG 57.441 42.857 0.00 0.00 34.53 4.85
2560 2576 0.034756 TGGAAGTAGCTTGCGCTTCA 59.965 50.000 22.94 13.15 46.47 3.02
2579 2595 1.073923 CAAGTAGCTCTTTGGGGGTGT 59.926 52.381 0.00 0.00 33.63 4.16
2592 2608 1.153229 GGGTGTGAGGCCGTATTCC 60.153 63.158 0.00 0.00 0.00 3.01
2604 2620 0.249073 CGTATTCCTCGGCTGACAGG 60.249 60.000 4.26 0.00 0.00 4.00
2607 2623 0.904865 ATTCCTCGGCTGACAGGACA 60.905 55.000 4.26 0.00 38.61 4.02
2637 2653 3.349927 TCTGTCATTGAGCAAATCCTGG 58.650 45.455 0.00 0.00 0.00 4.45
2676 2693 5.631119 TGCTACCTCTTTTTAGGCTTCTTT 58.369 37.500 0.00 0.00 40.62 2.52
2690 2707 2.618053 CTTCTTTCCGTGGCGATTAGT 58.382 47.619 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
905 907 9.392259 CACAAATCTATCATATACATGGCATCT 57.608 33.333 0.00 0.00 32.61 2.90
1244 1246 6.873605 AGAGACATTGATGAAAACGTGACATA 59.126 34.615 0.00 0.00 0.00 2.29
1631 1647 5.043903 ACAATCGTTATGAGGATGAAGTCG 58.956 41.667 0.00 0.00 31.18 4.18
1856 1872 4.836175 TGGGAGGTGAGGAAAAATTAAACC 59.164 41.667 0.00 0.00 0.00 3.27
1857 1873 5.279306 GGTGGGAGGTGAGGAAAAATTAAAC 60.279 44.000 0.00 0.00 0.00 2.01
1858 1874 4.836175 GGTGGGAGGTGAGGAAAAATTAAA 59.164 41.667 0.00 0.00 0.00 1.52
1859 1875 4.140900 TGGTGGGAGGTGAGGAAAAATTAA 60.141 41.667 0.00 0.00 0.00 1.40
1860 1876 3.399644 TGGTGGGAGGTGAGGAAAAATTA 59.600 43.478 0.00 0.00 0.00 1.40
1861 1877 2.178984 TGGTGGGAGGTGAGGAAAAATT 59.821 45.455 0.00 0.00 0.00 1.82
1862 1878 1.786441 TGGTGGGAGGTGAGGAAAAAT 59.214 47.619 0.00 0.00 0.00 1.82
1863 1879 1.133606 GTGGTGGGAGGTGAGGAAAAA 60.134 52.381 0.00 0.00 0.00 1.94
1864 1880 0.476771 GTGGTGGGAGGTGAGGAAAA 59.523 55.000 0.00 0.00 0.00 2.29
1865 1881 1.423794 GGTGGTGGGAGGTGAGGAAA 61.424 60.000 0.00 0.00 0.00 3.13
1866 1882 1.846124 GGTGGTGGGAGGTGAGGAA 60.846 63.158 0.00 0.00 0.00 3.36
1867 1883 2.203938 GGTGGTGGGAGGTGAGGA 60.204 66.667 0.00 0.00 0.00 3.71
1868 1884 3.330720 GGGTGGTGGGAGGTGAGG 61.331 72.222 0.00 0.00 0.00 3.86
1869 1885 3.330720 GGGGTGGTGGGAGGTGAG 61.331 72.222 0.00 0.00 0.00 3.51
1870 1886 3.515383 ATGGGGTGGTGGGAGGTGA 62.515 63.158 0.00 0.00 0.00 4.02
1871 1887 2.941025 ATGGGGTGGTGGGAGGTG 60.941 66.667 0.00 0.00 0.00 4.00
1872 1888 2.614013 GATGGGGTGGTGGGAGGT 60.614 66.667 0.00 0.00 0.00 3.85
1873 1889 3.420482 GGATGGGGTGGTGGGAGG 61.420 72.222 0.00 0.00 0.00 4.30
1874 1890 3.420482 GGGATGGGGTGGTGGGAG 61.420 72.222 0.00 0.00 0.00 4.30
1875 1891 4.293696 TGGGATGGGGTGGTGGGA 62.294 66.667 0.00 0.00 0.00 4.37
1876 1892 4.060667 GTGGGATGGGGTGGTGGG 62.061 72.222 0.00 0.00 0.00 4.61
1877 1893 2.547595 AAGTGGGATGGGGTGGTGG 61.548 63.158 0.00 0.00 0.00 4.61
1878 1894 1.304381 CAAGTGGGATGGGGTGGTG 60.304 63.158 0.00 0.00 0.00 4.17
1879 1895 0.850883 ATCAAGTGGGATGGGGTGGT 60.851 55.000 0.00 0.00 0.00 4.16
1880 1896 0.396139 CATCAAGTGGGATGGGGTGG 60.396 60.000 0.00 0.00 40.75 4.61
1881 1897 1.039233 GCATCAAGTGGGATGGGGTG 61.039 60.000 5.43 0.00 43.85 4.61
1882 1898 1.307647 GCATCAAGTGGGATGGGGT 59.692 57.895 5.43 0.00 43.85 4.95
1883 1899 1.456331 GGCATCAAGTGGGATGGGG 60.456 63.158 5.43 0.00 43.85 4.96
1884 1900 1.456331 GGGCATCAAGTGGGATGGG 60.456 63.158 5.43 0.00 43.85 4.00
1885 1901 4.265206 GGGCATCAAGTGGGATGG 57.735 61.111 5.43 0.00 43.85 3.51
2075 2091 1.377856 TGTGTGTGTGTGTGTGGGG 60.378 57.895 0.00 0.00 0.00 4.96
2076 2092 1.653094 GGTGTGTGTGTGTGTGTGGG 61.653 60.000 0.00 0.00 0.00 4.61
2077 2093 0.957888 TGGTGTGTGTGTGTGTGTGG 60.958 55.000 0.00 0.00 0.00 4.17
2078 2094 0.877743 TTGGTGTGTGTGTGTGTGTG 59.122 50.000 0.00 0.00 0.00 3.82
2079 2095 1.832883 ATTGGTGTGTGTGTGTGTGT 58.167 45.000 0.00 0.00 0.00 3.72
2080 2096 2.937469 AATTGGTGTGTGTGTGTGTG 57.063 45.000 0.00 0.00 0.00 3.82
2081 2097 5.392767 TTTTAATTGGTGTGTGTGTGTGT 57.607 34.783 0.00 0.00 0.00 3.72
2082 2098 6.419413 GGTATTTTAATTGGTGTGTGTGTGTG 59.581 38.462 0.00 0.00 0.00 3.82
2083 2099 6.096987 TGGTATTTTAATTGGTGTGTGTGTGT 59.903 34.615 0.00 0.00 0.00 3.72
2084 2100 6.507900 TGGTATTTTAATTGGTGTGTGTGTG 58.492 36.000 0.00 0.00 0.00 3.82
2085 2101 6.716934 TGGTATTTTAATTGGTGTGTGTGT 57.283 33.333 0.00 0.00 0.00 3.72
2086 2102 8.600449 ATTTGGTATTTTAATTGGTGTGTGTG 57.400 30.769 0.00 0.00 0.00 3.82
2087 2103 8.646900 AGATTTGGTATTTTAATTGGTGTGTGT 58.353 29.630 0.00 0.00 0.00 3.72
2088 2104 9.139174 GAGATTTGGTATTTTAATTGGTGTGTG 57.861 33.333 0.00 0.00 0.00 3.82
2089 2105 8.865090 TGAGATTTGGTATTTTAATTGGTGTGT 58.135 29.630 0.00 0.00 0.00 3.72
2090 2106 9.874205 ATGAGATTTGGTATTTTAATTGGTGTG 57.126 29.630 0.00 0.00 0.00 3.82
2123 2139 5.045286 AGGAAGCACCAAATAAGATCTCACT 60.045 40.000 0.00 0.00 42.04 3.41
2125 2141 5.441718 AGGAAGCACCAAATAAGATCTCA 57.558 39.130 0.00 0.00 42.04 3.27
2201 2217 5.231265 TCTCACATATACGGTGCGATATC 57.769 43.478 0.00 0.00 36.22 1.63
2223 2239 8.875168 CCTATGTCTATCTTTTAGGAAGGTGAT 58.125 37.037 0.00 0.00 32.79 3.06
2258 2274 7.083858 TCTGATTTTGTTTTGGAAGCTTATCG 58.916 34.615 0.00 0.00 0.00 2.92
2264 2280 8.470002 AGGTATATCTGATTTTGTTTTGGAAGC 58.530 33.333 0.00 0.00 0.00 3.86
2287 2303 6.317893 CGGGATTAGCAATTTGTTACTAAGGT 59.682 38.462 0.00 0.00 0.00 3.50
2437 2453 8.701895 CAACACCCCTTTAATAGTAGAGATGTA 58.298 37.037 0.00 0.00 0.00 2.29
2470 2486 2.246397 CAAGGATGCGCGCATACG 59.754 61.111 41.73 29.02 41.94 3.06
2485 2501 2.327592 CACAGCGTCGCTTTGCAA 59.672 55.556 19.06 0.00 36.40 4.08
2529 2545 5.857822 AGCTACTTCCACAATTTAACGAC 57.142 39.130 0.00 0.00 0.00 4.34
2555 2571 2.087646 CCCCAAAGAGCTACTTGAAGC 58.912 52.381 8.50 0.00 43.11 3.86
2560 2576 1.073923 CACACCCCCAAAGAGCTACTT 59.926 52.381 0.00 0.00 40.98 2.24
2592 2608 0.179116 CTGATGTCCTGTCAGCCGAG 60.179 60.000 0.00 0.00 36.95 4.63
2622 2638 2.097825 GCTGACCAGGATTTGCTCAAT 58.902 47.619 0.00 0.00 0.00 2.57
2642 2658 3.051081 AGAGGTAGCAACAGCTTCAAG 57.949 47.619 0.00 0.00 39.77 3.02
2657 2673 4.072839 CGGAAAGAAGCCTAAAAAGAGGT 58.927 43.478 0.00 0.00 39.02 3.85
2695 2712 1.388475 CGAACAAGCGCGCTTTAAGC 61.388 55.000 41.48 27.71 38.02 3.09
2706 2723 1.375326 AGGAACCCCTCGAACAAGC 59.625 57.895 0.00 0.00 38.86 4.01


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

AutoCloner maintained by Alex Coulton.