Multiple sequence alignment - TraesCS3A01G360100

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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 TraesCS3A01G360100 chr3A 100.000 2611 0 0 1 2611 608108108 608105498 0.000000e+00 4822
1 TraesCS3A01G360100 chr5A 93.718 1369 83 3 1 1367 234456036 234454669 0.000000e+00 2049
2 TraesCS3A01G360100 chr5A 84.180 1536 218 20 1 1525 524229712 524228191 0.000000e+00 1467
3 TraesCS3A01G360100 chr5A 90.519 770 48 10 1867 2611 234439306 234438537 0.000000e+00 994
4 TraesCS3A01G360100 chr5A 92.225 463 34 1 1363 1825 234439991 234439531 0.000000e+00 654
5 TraesCS3A01G360100 chr1D 75.138 1633 319 69 56 1652 404220880 404219299 0.000000e+00 686
6 TraesCS3A01G360100 chr1D 74.540 1630 332 69 57 1652 33554491 33556071 3.670000e-178 634
7 TraesCS3A01G360100 chr3D 75.061 1632 321 71 56 1652 520170722 520172302 0.000000e+00 680
8 TraesCS3A01G360100 chr3D 74.647 1629 334 64 56 1652 584736482 584738063 0.000000e+00 647
9 TraesCS3A01G360100 chr3D 74.538 1622 338 61 56 1648 40536266 40537841 2.830000e-179 638
10 TraesCS3A01G360100 chr5D 73.668 1633 323 72 56 1652 520971819 520973380 3.820000e-148 534


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 TraesCS3A01G360100 chr3A 608105498 608108108 2610 True 4822 4822 100.000 1 2611 1 chr3A.!!$R1 2610
1 TraesCS3A01G360100 chr5A 234454669 234456036 1367 True 2049 2049 93.718 1 1367 1 chr5A.!!$R1 1366
2 TraesCS3A01G360100 chr5A 524228191 524229712 1521 True 1467 1467 84.180 1 1525 1 chr5A.!!$R2 1524
3 TraesCS3A01G360100 chr5A 234438537 234439991 1454 True 824 994 91.372 1363 2611 2 chr5A.!!$R3 1248
4 TraesCS3A01G360100 chr1D 404219299 404220880 1581 True 686 686 75.138 56 1652 1 chr1D.!!$R1 1596
5 TraesCS3A01G360100 chr1D 33554491 33556071 1580 False 634 634 74.540 57 1652 1 chr1D.!!$F1 1595
6 TraesCS3A01G360100 chr3D 520170722 520172302 1580 False 680 680 75.061 56 1652 1 chr3D.!!$F2 1596
7 TraesCS3A01G360100 chr3D 584736482 584738063 1581 False 647 647 74.647 56 1652 1 chr3D.!!$F3 1596
8 TraesCS3A01G360100 chr3D 40536266 40537841 1575 False 638 638 74.538 56 1648 1 chr3D.!!$F1 1592
9 TraesCS3A01G360100 chr5D 520971819 520973380 1561 False 534 534 73.668 56 1652 1 chr5D.!!$F1 1596

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
533 536 0.667993 TTCAGCGTTGAAAAGCCAGG 59.332 50.0 12.63 0.0 40.26 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1620 1664 0.179073 CTCCATGCCAACCGGTAGAG 60.179 60.0 8.0 0.0 33.28 2.43 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
36 37 6.240894 TCACTCTATTTTCAGATGGCAACTT 58.759 36.000 0.00 0.00 37.61 2.66
76 77 4.459089 GACCAGTCAGGCCGGCTC 62.459 72.222 28.56 16.85 43.14 4.70
169 171 2.141517 CATACACTGCAGGCTATCAGC 58.858 52.381 19.93 2.07 41.46 4.26
170 172 1.194218 TACACTGCAGGCTATCAGCA 58.806 50.000 19.93 6.48 44.75 4.41
284 286 0.921896 ATTCCAGACAGACCCATGGG 59.078 55.000 30.23 30.23 42.03 4.00
313 316 3.627952 TCCCGCTACCACCGCAAA 61.628 61.111 0.00 0.00 0.00 3.68
352 355 4.612264 TTAGAAGGGTTCTTTGCTACGT 57.388 40.909 0.00 0.00 41.14 3.57
376 379 1.020437 GCCAGAAGAACTATGCAGGC 58.980 55.000 0.00 0.00 0.00 4.85
396 399 4.161565 AGGCGATTATGTCAAACCAGACTA 59.838 41.667 0.00 0.00 39.27 2.59
533 536 0.667993 TTCAGCGTTGAAAAGCCAGG 59.332 50.000 12.63 0.00 40.26 4.45
672 675 0.719465 CCGGAATTTTCGGTCAGTCG 59.281 55.000 8.03 0.00 42.33 4.18
763 766 3.753815 TGGATTTGACTGAATGCAGACA 58.246 40.909 8.02 4.39 45.17 3.41
779 782 4.100963 TGCAGACAATGGTACTATCGGATT 59.899 41.667 0.00 0.00 0.00 3.01
905 909 7.915397 CGACCCTTTGATTTTTGTATTATCCTG 59.085 37.037 0.00 0.00 0.00 3.86
929 933 3.562609 GGCAACTAATTGGTCCCCTAACA 60.563 47.826 0.00 0.00 36.23 2.41
1111 1115 2.754552 TGGAAGTTACATGATGCCTTGC 59.245 45.455 0.00 1.97 0.00 4.01
1221 1225 1.979308 TCTCGGTATTGTGTTCCCCAA 59.021 47.619 0.00 0.00 0.00 4.12
1286 1291 6.808704 GGGTTCTTATGAAAATCTGTTTGCTC 59.191 38.462 0.00 0.00 33.52 4.26
1329 1334 3.559069 CTTGTGTCATCCATATTGCCCT 58.441 45.455 0.00 0.00 0.00 5.19
1409 1414 4.039366 ACCGAGCCTAATTACATTCCTCTC 59.961 45.833 0.00 0.00 0.00 3.20
1413 1418 6.334102 AGCCTAATTACATTCCTCTCTACG 57.666 41.667 0.00 0.00 0.00 3.51
1419 1424 3.889520 ACATTCCTCTCTACGGTTTCC 57.110 47.619 0.00 0.00 0.00 3.13
1468 1512 2.275418 CAAATCCCCTCCCGGTGG 59.725 66.667 0.00 1.60 0.00 4.61
1500 1544 3.684788 GCACACAATATCGAAGGTGAAGT 59.315 43.478 13.66 3.93 35.33 3.01
1597 1641 5.237815 TCTTGCACCATCGGACAATATATC 58.762 41.667 0.00 0.00 0.00 1.63
1620 1664 4.067896 TGAGGAAGATTGACTCAGCAAAC 58.932 43.478 0.00 0.00 36.41 2.93
1658 1702 7.201857 GCATGGAGCTATCCTTATGTTCTTTTT 60.202 37.037 0.00 0.00 46.80 1.94
1724 1768 0.035534 TGTATGCGCCAAGGTCATGT 60.036 50.000 4.18 0.00 0.00 3.21
1733 1777 4.188462 CGCCAAGGTCATGTTTACTATCA 58.812 43.478 0.00 0.00 0.00 2.15
1753 1797 9.436957 ACTATCAGTCATTTCAGTTTTATCGTT 57.563 29.630 0.00 0.00 0.00 3.85
1758 1802 7.962373 CAGTCATTTCAGTTTTATCGTTATGCA 59.038 33.333 0.00 0.00 0.00 3.96
1759 1803 7.962918 AGTCATTTCAGTTTTATCGTTATGCAC 59.037 33.333 0.00 0.00 0.00 4.57
1763 1807 6.176975 TCAGTTTTATCGTTATGCACCAAG 57.823 37.500 0.00 0.00 0.00 3.61
1811 1855 7.984422 ATGATGTGTCTGAACAAATCTACAA 57.016 32.000 9.48 0.00 46.40 2.41
1812 1856 7.800155 TGATGTGTCTGAACAAATCTACAAA 57.200 32.000 9.48 0.00 46.40 2.83
1814 1858 9.500785 TGATGTGTCTGAACAAATCTACAAATA 57.499 29.630 9.48 0.00 46.40 1.40
1815 1859 9.760660 GATGTGTCTGAACAAATCTACAAATAC 57.239 33.333 2.18 0.00 43.94 1.89
1842 1886 9.887629 TTTTATTTTTGCATATCCACATCATGT 57.112 25.926 0.00 0.00 0.00 3.21
1843 1887 9.531942 TTTATTTTTGCATATCCACATCATGTC 57.468 29.630 0.00 0.00 0.00 3.06
1844 1888 5.518848 TTTTGCATATCCACATCATGTCC 57.481 39.130 0.00 0.00 0.00 4.02
1845 1889 3.144657 TGCATATCCACATCATGTCCC 57.855 47.619 0.00 0.00 0.00 4.46
1846 1890 2.224843 TGCATATCCACATCATGTCCCC 60.225 50.000 0.00 0.00 0.00 4.81
1847 1891 2.881403 GCATATCCACATCATGTCCCCC 60.881 54.545 0.00 0.00 0.00 5.40
1863 1907 3.489513 CCCCATCCTCCCCGGTTC 61.490 72.222 0.00 0.00 0.00 3.62
1864 1908 2.366972 CCCATCCTCCCCGGTTCT 60.367 66.667 0.00 0.00 0.00 3.01
1865 1909 2.746375 CCCATCCTCCCCGGTTCTG 61.746 68.421 0.00 0.00 0.00 3.02
1872 2099 1.070758 CCTCCCCGGTTCTGATATGTG 59.929 57.143 0.00 0.00 0.00 3.21
1878 2105 2.291465 CCGGTTCTGATATGTGCAATGG 59.709 50.000 0.00 0.00 0.00 3.16
1897 2124 1.451028 GAGGAGGAGCACATGCCAC 60.451 63.158 0.00 0.00 43.38 5.01
1936 2163 1.007849 GGACGCGTGTGCCATTTTT 60.008 52.632 20.70 0.00 38.08 1.94
1950 2177 7.816995 GTGTGCCATTTTTCATCTTATTACCAA 59.183 33.333 0.00 0.00 0.00 3.67
1954 2181 8.250332 GCCATTTTTCATCTTATTACCAACTCA 58.750 33.333 0.00 0.00 0.00 3.41
1981 2208 4.153117 CAGCTAGCTCGTTCAATCAAAACT 59.847 41.667 16.15 0.00 0.00 2.66
1984 2211 4.133856 AGCTCGTTCAATCAAAACTTCG 57.866 40.909 0.00 0.00 0.00 3.79
1990 2217 4.668177 CGTTCAATCAAAACTTCGCGGTAT 60.668 41.667 6.13 0.00 0.00 2.73
2010 2237 1.526917 GAAGGACCCATCGGCCATG 60.527 63.158 2.24 5.85 0.00 3.66
2012 2239 0.986019 AAGGACCCATCGGCCATGTA 60.986 55.000 2.24 0.00 0.00 2.29
2013 2240 1.071471 GGACCCATCGGCCATGTAG 59.929 63.158 2.24 2.63 0.00 2.74
2014 2241 1.407656 GGACCCATCGGCCATGTAGA 61.408 60.000 2.24 0.00 0.00 2.59
2034 2262 7.918643 TGTAGACACATTGTATGTATGCATTG 58.081 34.615 3.54 0.00 42.70 2.82
2055 2283 1.501741 CACCGGGCGACAATTCAAG 59.498 57.895 6.32 0.00 0.00 3.02
2077 2305 2.436911 TCACATATCTCAGCACATGCCT 59.563 45.455 0.00 0.00 43.38 4.75
2119 2347 1.875488 AGTTATCCCGGGTTGCTACT 58.125 50.000 22.86 14.65 0.00 2.57
2132 2360 4.322801 GGGTTGCTACTAATATGCCGAGAT 60.323 45.833 0.00 0.00 0.00 2.75
2146 2374 4.203226 TGCCGAGATAAATAACCATGCAA 58.797 39.130 0.00 0.00 0.00 4.08
2148 2376 4.036262 GCCGAGATAAATAACCATGCAACA 59.964 41.667 0.00 0.00 0.00 3.33
2180 2408 5.468746 GGAACACTTGACTGTGCTAACATTA 59.531 40.000 0.00 0.00 41.30 1.90
2188 2416 5.104569 TGACTGTGCTAACATTATCATCCCA 60.105 40.000 0.00 0.00 35.22 4.37
2189 2417 5.126067 ACTGTGCTAACATTATCATCCCAC 58.874 41.667 0.00 0.00 35.22 4.61
2190 2418 5.109500 TGTGCTAACATTATCATCCCACA 57.891 39.130 0.00 0.00 0.00 4.17
2201 2429 4.598036 ATCATCCCACATTTTCCAGTCT 57.402 40.909 0.00 0.00 0.00 3.24
2212 2440 6.825213 CACATTTTCCAGTCTCCATCTAATCA 59.175 38.462 0.00 0.00 0.00 2.57
2216 2444 6.373005 TTCCAGTCTCCATCTAATCAACAA 57.627 37.500 0.00 0.00 0.00 2.83
2229 2480 7.129109 TCTAATCAACAACCTTAAAGCTTCG 57.871 36.000 0.00 0.00 0.00 3.79
2235 2486 0.608308 ACCTTAAAGCTTCGCCCACC 60.608 55.000 0.00 0.00 0.00 4.61
2238 2489 0.322187 TTAAAGCTTCGCCCACCCTC 60.322 55.000 0.00 0.00 0.00 4.30
2270 2521 3.000041 TGTTTCGCCATGATGTAGACAC 59.000 45.455 0.00 0.00 0.00 3.67
2271 2522 3.000041 GTTTCGCCATGATGTAGACACA 59.000 45.455 0.00 0.00 39.52 3.72
2380 2631 0.030638 ACGCACAAGCCAAACATCAC 59.969 50.000 0.00 0.00 37.52 3.06
2385 2636 3.374745 CACAAGCCAAACATCACAGAAC 58.625 45.455 0.00 0.00 0.00 3.01
2404 2655 3.469008 ACTGCTAGCACACAACAGTAA 57.531 42.857 14.93 0.00 39.69 2.24
2413 2664 4.102649 GCACACAACAGTAAGGTTCAAAC 58.897 43.478 0.00 0.00 0.00 2.93
2433 2684 3.660865 ACTTAATTGTCGGAGTCCACAC 58.339 45.455 10.49 5.63 0.00 3.82
2456 2707 5.176958 ACTTACGTCTTACACAATGAACAGC 59.823 40.000 0.00 0.00 0.00 4.40
2476 2727 4.999950 CAGCCTAAACATGACTGTCTTCTT 59.000 41.667 9.51 1.86 33.36 2.52
2525 2776 6.986817 GTCTTGAACTAGTACATGGCATACAT 59.013 38.462 0.00 0.00 41.57 2.29
2582 2834 4.157817 CGCAAGCTCAATTGTGCC 57.842 55.556 24.73 11.73 34.24 5.01
2592 2844 3.181493 GCTCAATTGTGCCAATTCTCGAT 60.181 43.478 19.39 0.00 0.00 3.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
76 77 1.068588 TGTCGTGACCTCTTGTTCTGG 59.931 52.381 0.00 0.00 0.00 3.86
169 171 5.226396 TCCGGCAAGTCAATAAACATTTTG 58.774 37.500 0.00 0.00 0.00 2.44
170 172 5.461032 TCCGGCAAGTCAATAAACATTTT 57.539 34.783 0.00 0.00 0.00 1.82
211 213 1.005215 CCCTCTGCCTTCTGTCCAAAT 59.995 52.381 0.00 0.00 0.00 2.32
313 316 5.950758 TCTAATTGTTGGCAAACATACGT 57.049 34.783 7.67 0.00 45.54 3.57
352 355 1.405526 GCATAGTTCTTCTGGCGGTGA 60.406 52.381 0.00 0.00 0.00 4.02
376 379 8.712363 CCATAATAGTCTGGTTTGACATAATCG 58.288 37.037 0.00 0.00 39.27 3.34
533 536 5.220491 GGTCGATTAGCTCATCTTCAACAAC 60.220 44.000 6.34 0.00 0.00 3.32
672 675 5.348997 GCCGAAGATGTGGATAGCTATTTAC 59.651 44.000 7.87 10.49 0.00 2.01
731 734 2.744202 AGTCAAATCCAATCGTCTGTGC 59.256 45.455 0.00 0.00 0.00 4.57
735 738 4.095483 GCATTCAGTCAAATCCAATCGTCT 59.905 41.667 0.00 0.00 0.00 4.18
763 766 9.268282 AGGTAATCATAATCCGATAGTACCATT 57.732 33.333 7.80 0.00 32.26 3.16
779 782 7.936847 GGATTGACACCAATGTAGGTAATCATA 59.063 37.037 0.00 0.00 42.66 2.15
794 797 2.655090 TGCTTTCTGGATTGACACCA 57.345 45.000 0.00 0.00 35.96 4.17
929 933 6.705863 AGAACTGCAAAGAAGAATTGAAGT 57.294 33.333 0.00 0.00 46.39 3.01
972 976 5.065218 CCAGAAAACTACAATCCATCCTTCG 59.935 44.000 0.00 0.00 0.00 3.79
1221 1225 2.127651 TGAGGTAACAGAAAGGGGGT 57.872 50.000 0.00 0.00 41.41 4.95
1257 1261 8.792633 CAAACAGATTTTCATAAGAACCCACTA 58.207 33.333 0.00 0.00 32.39 2.74
1286 1291 3.373439 GCTCCAGTTTCATTACTGCTCAG 59.627 47.826 0.00 0.00 43.31 3.35
1413 1418 5.482163 TTCAAAAGGATTCCATGGAAACC 57.518 39.130 35.34 35.34 44.30 3.27
1468 1512 4.033932 TCGATATTGTGTGCTGTGTAATGC 59.966 41.667 0.00 0.00 0.00 3.56
1500 1544 0.319211 CACTCGTACAGCGTTTCCCA 60.319 55.000 0.00 0.00 42.13 4.37
1620 1664 0.179073 CTCCATGCCAACCGGTAGAG 60.179 60.000 8.00 0.00 33.28 2.43
1658 1702 9.656323 AGACATATATCTAGGGTGTAAAGTGAA 57.344 33.333 0.00 0.00 0.00 3.18
1679 1723 8.942338 TTTGCTACGATGAAATAAGTAGACAT 57.058 30.769 5.75 0.00 38.90 3.06
1712 1756 5.186198 ACTGATAGTAAACATGACCTTGGC 58.814 41.667 0.00 0.00 0.00 4.52
1717 1761 8.492673 TGAAATGACTGATAGTAAACATGACC 57.507 34.615 0.00 0.00 0.00 4.02
1733 1777 7.962918 GTGCATAACGATAAAACTGAAATGACT 59.037 33.333 0.00 0.00 0.00 3.41
1759 1803 7.390718 AGAAGTTTAGTACCAACTAATGCTTGG 59.609 37.037 8.17 0.32 45.37 3.61
1770 1814 9.431887 GACACATCATAAGAAGTTTAGTACCAA 57.568 33.333 0.00 0.00 0.00 3.67
1773 1817 9.856488 TCAGACACATCATAAGAAGTTTAGTAC 57.144 33.333 0.00 0.00 0.00 2.73
1825 1869 2.224843 GGGGACATGATGTGGATATGCA 60.225 50.000 1.23 0.00 0.00 3.96
1826 1870 2.440409 GGGGACATGATGTGGATATGC 58.560 52.381 1.23 0.00 0.00 3.14
1827 1871 3.077484 GGGGGACATGATGTGGATATG 57.923 52.381 1.23 0.00 0.00 1.78
1846 1890 3.489513 GAACCGGGGAGGATGGGG 61.490 72.222 6.32 0.00 45.00 4.96
1847 1891 2.366972 AGAACCGGGGAGGATGGG 60.367 66.667 6.32 0.00 45.00 4.00
1848 1892 1.056700 ATCAGAACCGGGGAGGATGG 61.057 60.000 6.32 0.00 45.00 3.51
1849 1893 1.717032 TATCAGAACCGGGGAGGATG 58.283 55.000 6.32 0.00 45.00 3.51
1850 1894 2.260822 CATATCAGAACCGGGGAGGAT 58.739 52.381 6.32 6.29 45.00 3.24
1851 1895 1.062428 ACATATCAGAACCGGGGAGGA 60.062 52.381 6.32 0.00 45.00 3.71
1853 1897 1.541233 GCACATATCAGAACCGGGGAG 60.541 57.143 6.32 0.00 0.00 4.30
1854 1898 0.468226 GCACATATCAGAACCGGGGA 59.532 55.000 6.32 0.00 0.00 4.81
1855 1899 0.180171 TGCACATATCAGAACCGGGG 59.820 55.000 6.32 0.00 0.00 5.73
1856 1900 2.036958 TTGCACATATCAGAACCGGG 57.963 50.000 6.32 0.00 0.00 5.73
1857 1901 2.291465 CCATTGCACATATCAGAACCGG 59.709 50.000 0.00 0.00 0.00 5.28
1858 1902 2.291465 CCCATTGCACATATCAGAACCG 59.709 50.000 0.00 0.00 0.00 4.44
1859 1903 3.554934 TCCCATTGCACATATCAGAACC 58.445 45.455 0.00 0.00 0.00 3.62
1860 1904 3.567164 CCTCCCATTGCACATATCAGAAC 59.433 47.826 0.00 0.00 0.00 3.01
1861 1905 3.459227 TCCTCCCATTGCACATATCAGAA 59.541 43.478 0.00 0.00 0.00 3.02
1862 1906 3.047857 TCCTCCCATTGCACATATCAGA 58.952 45.455 0.00 0.00 0.00 3.27
1863 1907 3.409570 CTCCTCCCATTGCACATATCAG 58.590 50.000 0.00 0.00 0.00 2.90
1864 1908 2.107031 CCTCCTCCCATTGCACATATCA 59.893 50.000 0.00 0.00 0.00 2.15
1865 1909 2.373169 TCCTCCTCCCATTGCACATATC 59.627 50.000 0.00 0.00 0.00 1.63
1872 2099 1.452833 GTGCTCCTCCTCCCATTGC 60.453 63.158 0.00 0.00 0.00 3.56
1878 2105 2.191641 GGCATGTGCTCCTCCTCC 59.808 66.667 4.84 0.00 41.70 4.30
1897 2124 2.602257 TGTATGTGAGAAGATGGGCG 57.398 50.000 0.00 0.00 0.00 6.13
1936 2163 7.665559 AGCTGTTTTGAGTTGGTAATAAGATGA 59.334 33.333 0.00 0.00 0.00 2.92
1950 2177 2.821991 ACGAGCTAGCTGTTTTGAGT 57.178 45.000 24.99 7.38 0.00 3.41
1954 2181 4.065088 TGATTGAACGAGCTAGCTGTTTT 58.935 39.130 24.99 11.88 0.00 2.43
1958 2185 4.153117 AGTTTTGATTGAACGAGCTAGCTG 59.847 41.667 24.99 16.61 32.38 4.24
1981 2208 1.035139 GGGTCCTTCTATACCGCGAA 58.965 55.000 8.23 0.00 36.57 4.70
1984 2211 1.067776 CGATGGGTCCTTCTATACCGC 60.068 57.143 0.00 0.00 36.57 5.68
1990 2217 0.399949 ATGGCCGATGGGTCCTTCTA 60.400 55.000 0.00 0.00 36.99 2.10
2010 2237 8.141835 TCAATGCATACATACAATGTGTCTAC 57.858 34.615 0.00 0.00 44.60 2.59
2012 2239 6.238566 GCTCAATGCATACATACAATGTGTCT 60.239 38.462 0.00 0.00 42.03 3.41
2013 2240 5.911280 GCTCAATGCATACATACAATGTGTC 59.089 40.000 0.00 0.00 42.03 3.67
2014 2241 5.824429 GCTCAATGCATACATACAATGTGT 58.176 37.500 0.00 0.00 42.03 3.72
2034 2262 2.746277 AATTGTCGCCCGGTGCTC 60.746 61.111 12.26 6.67 38.05 4.26
2055 2283 2.547211 GGCATGTGCTGAGATATGTGAC 59.453 50.000 4.84 0.00 41.70 3.67
2119 2347 7.826744 TGCATGGTTATTTATCTCGGCATATTA 59.173 33.333 0.00 0.00 0.00 0.98
2132 2360 4.972514 TCGCATGTTGCATGGTTATTTA 57.027 36.364 10.59 0.00 45.36 1.40
2146 2374 3.055819 AGTCAAGTGTTCCTATCGCATGT 60.056 43.478 0.00 0.00 0.00 3.21
2148 2376 3.055819 ACAGTCAAGTGTTCCTATCGCAT 60.056 43.478 0.00 0.00 0.00 4.73
2180 2408 4.530875 GAGACTGGAAAATGTGGGATGAT 58.469 43.478 0.00 0.00 0.00 2.45
2188 2416 6.962182 TGATTAGATGGAGACTGGAAAATGT 58.038 36.000 0.00 0.00 0.00 2.71
2189 2417 7.337689 TGTTGATTAGATGGAGACTGGAAAATG 59.662 37.037 0.00 0.00 0.00 2.32
2190 2418 7.405292 TGTTGATTAGATGGAGACTGGAAAAT 58.595 34.615 0.00 0.00 0.00 1.82
2201 2429 7.175104 AGCTTTAAGGTTGTTGATTAGATGGA 58.825 34.615 0.00 0.00 0.00 3.41
2235 2486 3.944250 AAACATGGCGGGGCAGAGG 62.944 63.158 0.00 0.00 0.00 3.69
2238 2489 3.814268 CGAAACATGGCGGGGCAG 61.814 66.667 0.00 0.00 0.00 4.85
2270 2521 2.700371 TGGGTATGCCTCTGACATAGTG 59.300 50.000 0.00 0.00 30.85 2.74
2271 2522 3.046283 TGGGTATGCCTCTGACATAGT 57.954 47.619 0.00 0.00 30.85 2.12
2355 2606 2.943690 TGTTTGGCTTGTGCGTAAACTA 59.056 40.909 15.12 5.26 42.27 2.24
2369 2620 1.610522 AGCAGTTCTGTGATGTTTGGC 59.389 47.619 1.78 0.00 0.00 4.52
2380 2631 2.212652 TGTTGTGTGCTAGCAGTTCTG 58.787 47.619 20.03 0.00 0.00 3.02
2385 2636 2.738846 CCTTACTGTTGTGTGCTAGCAG 59.261 50.000 20.03 7.02 0.00 4.24
2404 2655 5.374071 ACTCCGACAATTAAGTTTGAACCT 58.626 37.500 0.00 0.00 0.00 3.50
2413 2664 3.926616 AGTGTGGACTCCGACAATTAAG 58.073 45.455 2.90 0.00 0.00 1.85
2456 2707 9.653287 TTATGTAAGAAGACAGTCATGTTTAGG 57.347 33.333 2.66 0.00 40.68 2.69
2493 2744 7.383687 CCATGTACTAGTTCAAGACAAACCTA 58.616 38.462 6.27 0.00 0.00 3.08
2501 2752 6.538945 TGTATGCCATGTACTAGTTCAAGA 57.461 37.500 6.27 0.00 0.00 3.02
2549 2800 2.989881 GCGCCCCAACTAAAGTGGC 61.990 63.158 0.00 0.92 38.74 5.01
2581 2833 1.262417 CATCACGGCATCGAGAATTGG 59.738 52.381 0.00 0.00 39.23 3.16
2582 2834 1.935873 ACATCACGGCATCGAGAATTG 59.064 47.619 0.00 0.00 39.23 2.32
2592 2844 3.514777 GACTGAAGACATCACGGCA 57.485 52.632 0.00 0.00 33.47 5.69


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

AutoCloner maintained by Alex Coulton.