Multiple sequence alignment - TraesCS3B01G175800

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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 TraesCS3B01G175800 chr3B 100.000 2675 0 0 1 2675 177917671 177914997 0.000000e+00 4940.0
1 TraesCS3B01G175800 chr3B 88.377 1781 193 3 1 1768 177088311 177086532 0.000000e+00 2130.0
2 TraesCS3B01G175800 chr3B 75.345 941 204 21 737 1667 177078258 177077336 6.840000e-116 427.0
3 TraesCS3B01G175800 chr3D 93.599 1781 100 3 1 1768 123779524 123777745 0.000000e+00 2645.0
4 TraesCS3B01G175800 chr3D 89.021 1594 162 2 1 1581 123689664 123688071 0.000000e+00 1962.0
5 TraesCS3B01G175800 chr3D 74.663 742 166 16 724 1458 123684550 123683824 2.590000e-80 309.0
6 TraesCS3B01G175800 chr3A 91.314 1888 137 12 1 1864 131425362 131423478 0.000000e+00 2553.0
7 TraesCS3B01G175800 chr3A 88.472 1787 188 6 1 1769 131343892 131345678 0.000000e+00 2143.0
8 TraesCS3B01G175800 chr3A 75.263 950 213 18 724 1666 131349660 131350594 1.470000e-117 433.0
9 TraesCS3B01G175800 chr4B 92.547 738 33 2 1938 2675 245789335 245788620 0.000000e+00 1038.0
10 TraesCS3B01G175800 chr7A 88.753 738 60 3 1938 2675 671748069 671748783 0.000000e+00 881.0
11 TraesCS3B01G175800 chr7A 80.833 240 38 6 1127 1362 652339868 652340103 5.880000e-42 182.0
12 TraesCS3B01G175800 chr7B 88.211 738 65 9 1938 2675 15080952 15081667 0.000000e+00 861.0
13 TraesCS3B01G175800 chr6A 88.076 738 64 5 1938 2675 212164375 212165088 0.000000e+00 854.0
14 TraesCS3B01G175800 chr6A 87.534 738 70 10 1938 2675 568007387 568006672 0.000000e+00 833.0
15 TraesCS3B01G175800 chr5B 90.794 630 56 1 2046 2675 278241880 278242507 0.000000e+00 841.0
16 TraesCS3B01G175800 chr2B 90.794 630 56 1 2046 2675 128338397 128339024 0.000000e+00 841.0
17 TraesCS3B01G175800 chr6B 87.669 738 67 13 1938 2675 680512121 680511408 0.000000e+00 837.0
18 TraesCS3B01G175800 chr6B 90.000 630 61 1 2046 2675 47228110 47228737 0.000000e+00 813.0
19 TraesCS3B01G175800 chr5A 76.103 544 123 6 2056 2596 169293234 169293773 7.290000e-71 278.0
20 TraesCS3B01G175800 chr1B 92.647 68 5 0 1869 1936 119098965 119098898 6.090000e-17 99.0
21 TraesCS3B01G175800 chr1D 87.879 66 8 0 1869 1934 75655304 75655239 7.940000e-11 78.7


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 TraesCS3B01G175800 chr3B 177914997 177917671 2674 True 4940.0 4940 100.0000 1 2675 1 chr3B.!!$R3 2674
1 TraesCS3B01G175800 chr3B 177086532 177088311 1779 True 2130.0 2130 88.3770 1 1768 1 chr3B.!!$R2 1767
2 TraesCS3B01G175800 chr3B 177077336 177078258 922 True 427.0 427 75.3450 737 1667 1 chr3B.!!$R1 930
3 TraesCS3B01G175800 chr3D 123777745 123779524 1779 True 2645.0 2645 93.5990 1 1768 1 chr3D.!!$R1 1767
4 TraesCS3B01G175800 chr3D 123683824 123689664 5840 True 1135.5 1962 81.8420 1 1581 2 chr3D.!!$R2 1580
5 TraesCS3B01G175800 chr3A 131423478 131425362 1884 True 2553.0 2553 91.3140 1 1864 1 chr3A.!!$R1 1863
6 TraesCS3B01G175800 chr3A 131343892 131350594 6702 False 1288.0 2143 81.8675 1 1769 2 chr3A.!!$F1 1768
7 TraesCS3B01G175800 chr4B 245788620 245789335 715 True 1038.0 1038 92.5470 1938 2675 1 chr4B.!!$R1 737
8 TraesCS3B01G175800 chr7A 671748069 671748783 714 False 881.0 881 88.7530 1938 2675 1 chr7A.!!$F2 737
9 TraesCS3B01G175800 chr7B 15080952 15081667 715 False 861.0 861 88.2110 1938 2675 1 chr7B.!!$F1 737
10 TraesCS3B01G175800 chr6A 212164375 212165088 713 False 854.0 854 88.0760 1938 2675 1 chr6A.!!$F1 737
11 TraesCS3B01G175800 chr6A 568006672 568007387 715 True 833.0 833 87.5340 1938 2675 1 chr6A.!!$R1 737
12 TraesCS3B01G175800 chr5B 278241880 278242507 627 False 841.0 841 90.7940 2046 2675 1 chr5B.!!$F1 629
13 TraesCS3B01G175800 chr2B 128338397 128339024 627 False 841.0 841 90.7940 2046 2675 1 chr2B.!!$F1 629
14 TraesCS3B01G175800 chr6B 680511408 680512121 713 True 837.0 837 87.6690 1938 2675 1 chr6B.!!$R1 737
15 TraesCS3B01G175800 chr6B 47228110 47228737 627 False 813.0 813 90.0000 2046 2675 1 chr6B.!!$F1 629
16 TraesCS3B01G175800 chr5A 169293234 169293773 539 False 278.0 278 76.1030 2056 2596 1 chr5A.!!$F1 540

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
53 54 0.322277 AGACAATGGCAGCTCACTGG 60.322 55.000 0.0 0.0 44.63 4.00 F
1113 1131 1.068250 GGGTCTCGCCTATCTGCAC 59.932 63.158 0.0 0.0 37.43 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1378 1396 0.040058 TGGCTCCCAAACTGCATCAT 59.960 50.000 0.0 0.0 0.0 2.45 R
2107 2141 1.638589 TCCCAATCAACCCCTCGAATT 59.361 47.619 0.0 0.0 0.0 2.17 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
49 50 1.348696 TCTCAAGACAATGGCAGCTCA 59.651 47.619 0.00 0.00 0.00 4.26
53 54 0.322277 AGACAATGGCAGCTCACTGG 60.322 55.000 0.00 0.00 44.63 4.00
119 120 1.302285 CATCTGGGGCAAGTCAGCT 59.698 57.895 0.00 0.00 34.17 4.24
304 305 2.070039 CCCGATTGAGTGGGGGCTA 61.070 63.158 0.00 0.00 41.94 3.93
397 410 1.619654 CATTGGACAAGGTGCAAGGA 58.380 50.000 9.18 0.00 45.54 3.36
451 464 1.081175 CGACGAAGACTGCAGAGCA 60.081 57.895 23.35 0.00 36.92 4.26
674 690 7.042456 GCTTTGCTTCTTTGATACTGATATCGA 60.042 37.037 0.00 0.00 40.26 3.59
1113 1131 1.068250 GGGTCTCGCCTATCTGCAC 59.932 63.158 0.00 0.00 37.43 4.57
1375 1393 3.003173 CGGGGAGAAGGAGCACCA 61.003 66.667 2.07 0.00 38.94 4.17
1378 1396 1.201429 GGGGAGAAGGAGCACCAAGA 61.201 60.000 2.07 0.00 38.94 3.02
1381 1399 1.556911 GGAGAAGGAGCACCAAGATGA 59.443 52.381 2.07 0.00 38.94 2.92
1384 1402 1.674962 GAAGGAGCACCAAGATGATGC 59.325 52.381 2.07 0.00 37.08 3.91
1386 1404 1.022735 GGAGCACCAAGATGATGCAG 58.977 55.000 0.00 0.00 40.08 4.41
1544 1562 0.979709 TGCATCCAGGACCAGGAGAG 60.980 60.000 11.77 7.66 38.83 3.20
1681 1699 5.072872 ACATATTCTGATTCCTGAAGGAGGG 59.927 44.000 0.00 0.00 46.36 4.30
1742 1769 7.775120 ACTGAATCTGTGTTCTCATTTGTTTT 58.225 30.769 0.00 0.00 0.00 2.43
1743 1770 8.253113 ACTGAATCTGTGTTCTCATTTGTTTTT 58.747 29.630 0.00 0.00 0.00 1.94
1753 1780 9.883142 TGTTCTCATTTGTTTTTAGTTCCAAAT 57.117 25.926 0.00 0.00 37.86 2.32
1811 1839 3.249799 TGTACACTGTGCAAATTTCCTCG 59.750 43.478 7.90 0.00 0.00 4.63
1812 1840 2.571212 ACACTGTGCAAATTTCCTCGA 58.429 42.857 7.90 0.00 0.00 4.04
1814 1842 3.569701 ACACTGTGCAAATTTCCTCGATT 59.430 39.130 7.90 0.00 0.00 3.34
1834 1862 5.008019 CGATTGATTGTTGTAGGGATTCAGG 59.992 44.000 0.00 0.00 0.00 3.86
1837 1865 4.080356 TGATTGTTGTAGGGATTCAGGGAG 60.080 45.833 0.00 0.00 0.00 4.30
1841 1869 2.478292 TGTAGGGATTCAGGGAGGTTC 58.522 52.381 0.00 0.00 0.00 3.62
1842 1870 1.769465 GTAGGGATTCAGGGAGGTTCC 59.231 57.143 0.00 0.00 35.23 3.62
1844 1872 1.226311 GGGATTCAGGGAGGTTCCAT 58.774 55.000 0.00 0.00 38.64 3.41
1845 1873 1.570979 GGGATTCAGGGAGGTTCCATT 59.429 52.381 0.00 0.00 38.64 3.16
1847 1875 3.399305 GGGATTCAGGGAGGTTCCATTAT 59.601 47.826 0.00 0.00 38.64 1.28
1857 1885 5.714806 GGGAGGTTCCATTATGAAGAAACAA 59.285 40.000 0.00 0.00 38.64 2.83
1859 1887 7.093333 GGGAGGTTCCATTATGAAGAAACAATT 60.093 37.037 0.00 0.00 38.64 2.32
1861 1889 9.358872 GAGGTTCCATTATGAAGAAACAATTTC 57.641 33.333 0.00 0.00 39.96 2.17
1877 1905 7.755582 AACAATTTCTTATAGCGAAAATGCC 57.244 32.000 11.52 0.00 35.64 4.40
1878 1906 5.971202 ACAATTTCTTATAGCGAAAATGCCG 59.029 36.000 11.52 0.00 35.64 5.69
1879 1907 6.183360 ACAATTTCTTATAGCGAAAATGCCGA 60.183 34.615 11.52 0.00 35.64 5.54
1880 1908 5.804692 TTTCTTATAGCGAAAATGCCGAA 57.195 34.783 0.00 0.00 34.65 4.30
1881 1909 6.371809 TTTCTTATAGCGAAAATGCCGAAT 57.628 33.333 0.00 0.00 34.65 3.34
1882 1910 5.591643 TCTTATAGCGAAAATGCCGAATC 57.408 39.130 0.00 0.00 34.65 2.52
1883 1911 2.949714 ATAGCGAAAATGCCGAATCG 57.050 45.000 0.00 0.00 38.28 3.34
1884 1912 1.929230 TAGCGAAAATGCCGAATCGA 58.071 45.000 3.36 0.00 37.48 3.59
1885 1913 0.652592 AGCGAAAATGCCGAATCGAG 59.347 50.000 3.36 0.00 37.48 4.04
1886 1914 0.316196 GCGAAAATGCCGAATCGAGG 60.316 55.000 3.36 0.00 37.48 4.63
1898 1926 3.219928 TCGAGGCCGAGCTCCATC 61.220 66.667 8.47 1.11 40.30 3.51
1899 1927 3.531207 CGAGGCCGAGCTCCATCA 61.531 66.667 8.47 0.00 38.22 3.07
1900 1928 2.903357 GAGGCCGAGCTCCATCAA 59.097 61.111 8.47 0.00 0.00 2.57
1901 1929 1.227497 GAGGCCGAGCTCCATCAAG 60.227 63.158 8.47 0.00 0.00 3.02
1902 1930 2.203126 GGCCGAGCTCCATCAAGG 60.203 66.667 8.47 3.22 39.47 3.61
1903 1931 2.899339 GCCGAGCTCCATCAAGGC 60.899 66.667 8.47 10.27 37.29 4.35
1904 1932 2.203126 CCGAGCTCCATCAAGGCC 60.203 66.667 8.47 0.00 37.29 5.19
1905 1933 2.739996 CCGAGCTCCATCAAGGCCT 61.740 63.158 8.47 0.00 37.29 5.19
1906 1934 1.222936 CGAGCTCCATCAAGGCCTT 59.777 57.895 13.78 13.78 37.29 4.35
1907 1935 0.465705 CGAGCTCCATCAAGGCCTTA 59.534 55.000 20.00 7.41 37.29 2.69
1908 1936 1.134401 CGAGCTCCATCAAGGCCTTAA 60.134 52.381 20.00 3.30 37.29 1.85
1909 1937 2.486191 CGAGCTCCATCAAGGCCTTAAT 60.486 50.000 20.00 6.46 37.29 1.40
1910 1938 3.560105 GAGCTCCATCAAGGCCTTAATT 58.440 45.455 20.00 2.59 37.29 1.40
1911 1939 3.956848 GAGCTCCATCAAGGCCTTAATTT 59.043 43.478 20.00 0.00 37.29 1.82
1912 1940 4.356436 AGCTCCATCAAGGCCTTAATTTT 58.644 39.130 20.00 0.00 37.29 1.82
1913 1941 4.161001 AGCTCCATCAAGGCCTTAATTTTG 59.839 41.667 20.00 5.46 37.29 2.44
1914 1942 4.160252 GCTCCATCAAGGCCTTAATTTTGA 59.840 41.667 20.00 11.74 37.29 2.69
1915 1943 5.337491 GCTCCATCAAGGCCTTAATTTTGAA 60.337 40.000 20.00 0.00 37.29 2.69
1916 1944 6.678568 TCCATCAAGGCCTTAATTTTGAAA 57.321 33.333 20.00 0.00 37.29 2.69
1917 1945 7.072263 TCCATCAAGGCCTTAATTTTGAAAA 57.928 32.000 20.00 0.00 37.29 2.29
1918 1946 7.688343 TCCATCAAGGCCTTAATTTTGAAAAT 58.312 30.769 20.00 0.00 37.29 1.82
1919 1947 8.162746 TCCATCAAGGCCTTAATTTTGAAAATT 58.837 29.630 20.00 18.56 37.29 1.82
1920 1948 8.795513 CCATCAAGGCCTTAATTTTGAAAATTT 58.204 29.630 20.00 6.02 33.71 1.82
1921 1949 9.830294 CATCAAGGCCTTAATTTTGAAAATTTC 57.170 29.630 20.00 8.14 33.71 2.17
1922 1950 8.970859 TCAAGGCCTTAATTTTGAAAATTTCA 57.029 26.923 20.00 4.03 38.04 2.69
2003 2031 4.017591 TGTGTTGGAGGGGATGACAATATT 60.018 41.667 0.00 0.00 0.00 1.28
2011 2039 6.408434 GGAGGGGATGACAATATTTTGCAAAT 60.408 38.462 13.65 6.06 36.22 2.32
2025 2053 9.826574 ATATTTTGCAAATCTATGCTGACATTT 57.173 25.926 13.65 0.00 46.54 2.32
2026 2054 7.966246 TTTTGCAAATCTATGCTGACATTTT 57.034 28.000 13.65 0.00 46.54 1.82
2027 2055 7.585286 TTTGCAAATCTATGCTGACATTTTC 57.415 32.000 8.05 0.00 46.54 2.29
2028 2056 6.270156 TGCAAATCTATGCTGACATTTTCA 57.730 33.333 0.67 0.00 46.54 2.69
2029 2057 6.689554 TGCAAATCTATGCTGACATTTTCAA 58.310 32.000 0.67 0.00 46.54 2.69
2030 2058 6.587226 TGCAAATCTATGCTGACATTTTCAAC 59.413 34.615 0.67 0.00 46.54 3.18
2031 2059 6.810182 GCAAATCTATGCTGACATTTTCAACT 59.190 34.615 0.00 0.00 43.06 3.16
2032 2060 7.201410 GCAAATCTATGCTGACATTTTCAACTG 60.201 37.037 0.00 0.00 43.06 3.16
2033 2061 7.458409 AATCTATGCTGACATTTTCAACTGT 57.542 32.000 0.00 0.00 37.74 3.55
2034 2062 6.486253 TCTATGCTGACATTTTCAACTGTC 57.514 37.500 3.66 3.66 41.69 3.51
2041 2069 6.075762 TGACATTTTCAACTGTCAGATTGG 57.924 37.500 6.91 0.00 45.01 3.16
2042 2070 5.593909 TGACATTTTCAACTGTCAGATTGGT 59.406 36.000 6.91 1.31 45.01 3.67
2043 2071 6.076981 ACATTTTCAACTGTCAGATTGGTC 57.923 37.500 6.91 0.00 0.00 4.02
2044 2072 5.593909 ACATTTTCAACTGTCAGATTGGTCA 59.406 36.000 6.91 0.00 0.00 4.02
2105 2139 3.344515 GGGGTTCCAGTCAGTTATTCAC 58.655 50.000 0.00 0.00 0.00 3.18
2107 2141 3.244770 GGGTTCCAGTCAGTTATTCACCA 60.245 47.826 0.00 0.00 0.00 4.17
2165 2411 8.135529 CCAAGTATGTTCGTAGATGTGATTCTA 58.864 37.037 0.00 0.00 35.04 2.10
2185 2616 6.924913 TCTAGATTAGGCAGTAATGCATCT 57.075 37.500 17.97 17.52 36.33 2.90
2226 2659 5.352293 CGCTGCTGAATGCTAATATATCCAA 59.648 40.000 0.00 0.00 43.37 3.53
2307 3072 7.038154 TGGACAAACATCGAAGAAGATTTTT 57.962 32.000 0.00 0.00 43.58 1.94
2486 3252 5.684704 TGGTCTTTGGCAGGAGATTATTAG 58.315 41.667 6.03 0.00 0.00 1.73
2645 3791 2.969950 CAAGGGTATGGGTCGATCCTAA 59.030 50.000 17.40 0.20 36.25 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 2.111878 GTGTGGCTCAGCACCAGT 59.888 61.111 0.00 0.00 38.04 4.00
53 54 2.740055 CTCCGTGTGGCTCAGCAC 60.740 66.667 0.00 0.00 34.14 4.40
76 77 3.131396 CTGCAAGAACTCGGTACTGTTT 58.869 45.455 0.64 0.00 34.07 2.83
119 120 1.141019 GCTCCGAGTACCGCATCAA 59.859 57.895 0.00 0.00 36.84 2.57
257 258 2.032681 GAACCCGTCCAAGCAGCT 59.967 61.111 0.00 0.00 0.00 4.24
263 264 4.973055 CGGCGTGAACCCGTCCAA 62.973 66.667 0.00 0.00 40.84 3.53
375 388 0.187117 TTGCACCTTGTCCAATGGGA 59.813 50.000 0.00 0.00 42.29 4.37
379 392 1.145738 AGTCCTTGCACCTTGTCCAAT 59.854 47.619 0.00 0.00 0.00 3.16
397 410 0.036306 CCTGGGCGTTGTAAGGAAGT 59.964 55.000 0.00 0.00 30.92 3.01
674 690 2.977580 TCCTGAATCTCCATAGCAGCAT 59.022 45.455 0.00 0.00 0.00 3.79
1113 1131 2.084610 TGCAGTCCTCACATTCTTCG 57.915 50.000 0.00 0.00 0.00 3.79
1224 1242 0.647925 GCGCCGAGTTGAATTCTCTC 59.352 55.000 7.05 12.70 0.00 3.20
1225 1243 0.247736 AGCGCCGAGTTGAATTCTCT 59.752 50.000 2.29 5.30 0.00 3.10
1281 1299 2.136878 CAGCCCGGATAGCCACTCT 61.137 63.158 0.73 0.00 0.00 3.24
1303 1321 2.047179 GTCGGCCTTCCTGGTGAC 60.047 66.667 0.00 0.00 38.35 3.67
1375 1393 2.097825 GCTCCCAAACTGCATCATCTT 58.902 47.619 0.00 0.00 0.00 2.40
1378 1396 0.040058 TGGCTCCCAAACTGCATCAT 59.960 50.000 0.00 0.00 0.00 2.45
1381 1399 1.033746 CGATGGCTCCCAAACTGCAT 61.034 55.000 0.00 0.00 36.95 3.96
1384 1402 0.251916 TACCGATGGCTCCCAAACTG 59.748 55.000 0.00 0.00 36.95 3.16
1386 1404 0.252197 AGTACCGATGGCTCCCAAAC 59.748 55.000 0.00 0.00 36.95 2.93
1544 1562 0.962356 CCCCATTGATGGCCTATCGC 60.962 60.000 3.32 0.00 46.70 4.58
1717 1743 6.949352 AACAAATGAGAACACAGATTCAGT 57.051 33.333 0.00 0.00 0.00 3.41
1780 1807 2.043411 GCACAGTGTACAAATGCGTTG 58.957 47.619 10.46 0.00 43.43 4.10
1784 1812 5.333263 GGAAATTTGCACAGTGTACAAATGC 60.333 40.000 27.36 22.24 38.19 3.56
1796 1824 5.162794 CAATCAATCGAGGAAATTTGCACA 58.837 37.500 12.54 0.00 0.00 4.57
1799 1827 5.634859 ACAACAATCAATCGAGGAAATTTGC 59.365 36.000 0.68 0.68 0.00 3.68
1806 1834 3.772572 TCCCTACAACAATCAATCGAGGA 59.227 43.478 0.00 0.00 0.00 3.71
1811 1839 5.300286 CCCTGAATCCCTACAACAATCAATC 59.700 44.000 0.00 0.00 0.00 2.67
1812 1840 5.044179 TCCCTGAATCCCTACAACAATCAAT 60.044 40.000 0.00 0.00 0.00 2.57
1814 1842 3.849574 TCCCTGAATCCCTACAACAATCA 59.150 43.478 0.00 0.00 0.00 2.57
1834 1862 6.834168 TTGTTTCTTCATAATGGAACCTCC 57.166 37.500 0.00 0.00 36.96 4.30
1857 1885 6.371809 TTCGGCATTTTCGCTATAAGAAAT 57.628 33.333 4.50 0.00 37.43 2.17
1859 1887 5.333035 CGATTCGGCATTTTCGCTATAAGAA 60.333 40.000 0.00 0.00 0.00 2.52
1861 1889 4.149922 TCGATTCGGCATTTTCGCTATAAG 59.850 41.667 6.18 0.00 0.00 1.73
1862 1890 4.052608 TCGATTCGGCATTTTCGCTATAA 58.947 39.130 6.18 0.00 0.00 0.98
1864 1892 2.476619 CTCGATTCGGCATTTTCGCTAT 59.523 45.455 6.18 0.00 0.00 2.97
1865 1893 1.858458 CTCGATTCGGCATTTTCGCTA 59.142 47.619 6.18 0.00 0.00 4.26
1866 1894 0.652592 CTCGATTCGGCATTTTCGCT 59.347 50.000 6.18 0.00 0.00 4.93
1867 1895 0.316196 CCTCGATTCGGCATTTTCGC 60.316 55.000 6.18 0.00 0.00 4.70
1868 1896 0.316196 GCCTCGATTCGGCATTTTCG 60.316 55.000 9.17 0.00 46.77 3.46
1869 1897 3.533913 GCCTCGATTCGGCATTTTC 57.466 52.632 9.17 0.00 46.77 2.29
1876 1904 3.832720 GAGCTCGGCCTCGATTCGG 62.833 68.421 6.18 0.00 45.04 4.30
1877 1905 2.354072 GAGCTCGGCCTCGATTCG 60.354 66.667 0.00 0.00 45.04 3.34
1878 1906 2.028337 GGAGCTCGGCCTCGATTC 59.972 66.667 7.83 0.00 45.04 2.52
1879 1907 2.093537 GATGGAGCTCGGCCTCGATT 62.094 60.000 7.83 0.00 45.04 3.34
1880 1908 2.522923 ATGGAGCTCGGCCTCGAT 60.523 61.111 7.83 0.00 45.04 3.59
1881 1909 3.219928 GATGGAGCTCGGCCTCGA 61.220 66.667 7.83 0.00 43.86 4.04
1882 1910 2.967929 CTTGATGGAGCTCGGCCTCG 62.968 65.000 7.83 0.00 32.57 4.63
1883 1911 1.227497 CTTGATGGAGCTCGGCCTC 60.227 63.158 7.83 2.27 0.00 4.70
1884 1912 2.739996 CCTTGATGGAGCTCGGCCT 61.740 63.158 7.83 0.00 38.35 5.19
1885 1913 2.203126 CCTTGATGGAGCTCGGCC 60.203 66.667 7.83 0.00 38.35 6.13
1886 1914 2.899339 GCCTTGATGGAGCTCGGC 60.899 66.667 11.57 11.57 38.35 5.54
1887 1915 2.203126 GGCCTTGATGGAGCTCGG 60.203 66.667 7.83 2.99 38.35 4.63
1888 1916 0.465705 TAAGGCCTTGATGGAGCTCG 59.534 55.000 28.77 0.00 38.35 5.03
1889 1917 2.717639 TTAAGGCCTTGATGGAGCTC 57.282 50.000 28.77 4.71 38.35 4.09
1890 1918 3.677156 AATTAAGGCCTTGATGGAGCT 57.323 42.857 28.77 6.92 38.35 4.09
1891 1919 4.160252 TCAAAATTAAGGCCTTGATGGAGC 59.840 41.667 28.77 0.00 38.35 4.70
1892 1920 5.920193 TCAAAATTAAGGCCTTGATGGAG 57.080 39.130 28.77 16.88 38.35 3.86
1893 1921 6.678568 TTTCAAAATTAAGGCCTTGATGGA 57.321 33.333 28.77 19.09 38.35 3.41
1894 1922 7.926674 ATTTTCAAAATTAAGGCCTTGATGG 57.073 32.000 28.77 17.25 39.35 3.51
1895 1923 9.830294 GAAATTTTCAAAATTAAGGCCTTGATG 57.170 29.630 28.77 15.04 0.00 3.07
1896 1924 9.571816 TGAAATTTTCAAAATTAAGGCCTTGAT 57.428 25.926 28.77 22.62 36.59 2.57
1897 1925 8.970859 TGAAATTTTCAAAATTAAGGCCTTGA 57.029 26.923 28.77 21.20 36.59 3.02
1920 1948 9.513906 TCCTGACATGTAAAAGTATGAATTTGA 57.486 29.630 0.00 0.00 0.00 2.69
1973 2001 3.611025 TCCCCTCCAACACAAAGAATT 57.389 42.857 0.00 0.00 0.00 2.17
2003 2031 7.153315 TGAAAATGTCAGCATAGATTTGCAAA 58.847 30.769 15.44 15.44 45.23 3.68
2011 2039 6.486253 GACAGTTGAAAATGTCAGCATAGA 57.514 37.500 16.37 0.00 44.21 1.98
2025 2053 5.375773 TGAATGACCAATCTGACAGTTGAA 58.624 37.500 15.21 5.44 0.00 2.69
2026 2054 4.971939 TGAATGACCAATCTGACAGTTGA 58.028 39.130 15.21 0.00 0.00 3.18
2027 2055 5.240183 AGTTGAATGACCAATCTGACAGTTG 59.760 40.000 1.59 6.58 0.00 3.16
2028 2056 5.240183 CAGTTGAATGACCAATCTGACAGTT 59.760 40.000 1.59 0.00 32.28 3.16
2029 2057 4.758674 CAGTTGAATGACCAATCTGACAGT 59.241 41.667 1.59 0.00 32.28 3.55
2030 2058 4.758674 ACAGTTGAATGACCAATCTGACAG 59.241 41.667 0.00 0.00 33.52 3.51
2031 2059 4.717877 ACAGTTGAATGACCAATCTGACA 58.282 39.130 0.00 0.00 33.52 3.58
2032 2060 4.756642 TGACAGTTGAATGACCAATCTGAC 59.243 41.667 0.00 0.00 33.52 3.51
2033 2061 4.971939 TGACAGTTGAATGACCAATCTGA 58.028 39.130 0.00 0.00 33.52 3.27
2034 2062 4.999311 TCTGACAGTTGAATGACCAATCTG 59.001 41.667 1.59 0.00 34.47 2.90
2035 2063 5.233083 TCTGACAGTTGAATGACCAATCT 57.767 39.130 1.59 0.00 0.00 2.40
2036 2064 6.320171 CAATCTGACAGTTGAATGACCAATC 58.680 40.000 1.59 0.00 0.00 2.67
2037 2065 5.184479 CCAATCTGACAGTTGAATGACCAAT 59.816 40.000 15.21 0.00 0.00 3.16
2038 2066 4.520111 CCAATCTGACAGTTGAATGACCAA 59.480 41.667 15.21 0.00 0.00 3.67
2039 2067 4.074259 CCAATCTGACAGTTGAATGACCA 58.926 43.478 15.21 0.00 0.00 4.02
2040 2068 3.119708 GCCAATCTGACAGTTGAATGACC 60.120 47.826 15.21 0.00 0.00 4.02
2041 2069 3.119708 GGCCAATCTGACAGTTGAATGAC 60.120 47.826 15.21 2.72 0.00 3.06
2042 2070 3.084039 GGCCAATCTGACAGTTGAATGA 58.916 45.455 15.21 0.00 0.00 2.57
2043 2071 2.821378 TGGCCAATCTGACAGTTGAATG 59.179 45.455 0.61 4.79 0.00 2.67
2044 2072 2.821969 GTGGCCAATCTGACAGTTGAAT 59.178 45.455 7.24 0.00 0.00 2.57
2105 2139 1.750778 CCAATCAACCCCTCGAATTGG 59.249 52.381 8.06 8.06 0.00 3.16
2107 2141 1.638589 TCCCAATCAACCCCTCGAATT 59.361 47.619 0.00 0.00 0.00 2.17
2428 3194 5.127491 CAACTTCCACCACCACTTAGTTAA 58.873 41.667 0.00 0.00 0.00 2.01
2486 3252 6.274579 GTGTCTCTACCAAGGTATTTAGCTC 58.725 44.000 0.00 0.00 32.81 4.09


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

AutoCloner maintained by Alex Coulton.