Multiple sequence alignment - TraesCS4A01G307700

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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 TraesCS4A01G307700 chr4A 100.000 2498 0 0 1 2498 601337817 601340314 0.000000e+00 4614
1 TraesCS4A01G307700 chr4B 93.194 2292 122 13 1 2280 6083831 6086100 0.000000e+00 3338
2 TraesCS4A01G307700 chr4B 90.987 233 15 3 2267 2498 6086734 6086961 2.410000e-80 309
3 TraesCS4A01G307700 chr2A 79.024 1311 250 22 211 1509 2876437 2877734 0.000000e+00 874
4 TraesCS4A01G307700 chr5A 77.422 1497 286 33 42 1498 563508960 563507476 0.000000e+00 845
5 TraesCS4A01G307700 chr5A 77.303 1498 286 33 42 1498 563499708 563498224 0.000000e+00 833
6 TraesCS4A01G307700 chr5A 77.288 1497 288 32 42 1498 563518220 563516736 0.000000e+00 833
7 TraesCS4A01G307700 chr5A 77.684 1304 267 18 222 1515 563441762 563440473 0.000000e+00 774
8 TraesCS4A01G307700 chr5A 77.574 1311 250 26 214 1498 563547754 563546462 0.000000e+00 752
9 TraesCS4A01G307700 chr2B 77.062 1491 297 31 34 1498 6914706 6913235 0.000000e+00 817
10 TraesCS4A01G307700 chr5D 77.769 1291 262 20 211 1492 445319576 445318302 0.000000e+00 771


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 TraesCS4A01G307700 chr4A 601337817 601340314 2497 False 4614.0 4614 100.0000 1 2498 1 chr4A.!!$F1 2497
1 TraesCS4A01G307700 chr4B 6083831 6086961 3130 False 1823.5 3338 92.0905 1 2498 2 chr4B.!!$F1 2497
2 TraesCS4A01G307700 chr2A 2876437 2877734 1297 False 874.0 874 79.0240 211 1509 1 chr2A.!!$F1 1298
3 TraesCS4A01G307700 chr5A 563507476 563508960 1484 True 845.0 845 77.4220 42 1498 1 chr5A.!!$R3 1456
4 TraesCS4A01G307700 chr5A 563498224 563499708 1484 True 833.0 833 77.3030 42 1498 1 chr5A.!!$R2 1456
5 TraesCS4A01G307700 chr5A 563516736 563518220 1484 True 833.0 833 77.2880 42 1498 1 chr5A.!!$R4 1456
6 TraesCS4A01G307700 chr5A 563440473 563441762 1289 True 774.0 774 77.6840 222 1515 1 chr5A.!!$R1 1293
7 TraesCS4A01G307700 chr5A 563546462 563547754 1292 True 752.0 752 77.5740 214 1498 1 chr5A.!!$R5 1284
8 TraesCS4A01G307700 chr2B 6913235 6914706 1471 True 817.0 817 77.0620 34 1498 1 chr2B.!!$R1 1464
9 TraesCS4A01G307700 chr5D 445318302 445319576 1274 True 771.0 771 77.7690 211 1492 1 chr5D.!!$R1 1281

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
906 943 0.238289 GACACAATTGGCACCACGAG 59.762 55.0 10.83 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2022 2062 0.251354 ACAGTCATGTAGGCAGCTGG 59.749 55.0 17.12 0.0 38.09 4.85 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
22 23 4.854399 CCGTTGTATTTGTCTTTCTTGCA 58.146 39.130 0.00 0.00 0.00 4.08
32 33 5.227569 TGTCTTTCTTGCATTCCTCTACA 57.772 39.130 0.00 0.00 0.00 2.74
39 40 5.907207 TCTTGCATTCCTCTACATGTACTC 58.093 41.667 0.08 0.00 0.00 2.59
53 54 5.438833 ACATGTACTCCAGGTCTAGTAGTC 58.561 45.833 0.00 0.00 30.97 2.59
95 96 1.524621 CCCGCAGACTGGCCAATAG 60.525 63.158 7.01 0.00 0.00 1.73
253 263 0.948623 TCCGGCACATCTTCACAACG 60.949 55.000 0.00 0.00 0.00 4.10
279 289 1.156095 CAAACTTCCCCAAGGGCCT 59.844 57.895 0.00 0.00 43.94 5.19
448 458 0.553612 AGAATGGCCTCCTCCCCTTT 60.554 55.000 3.32 0.00 0.00 3.11
559 569 2.128507 CGTGGACCCTAGCCTCCTC 61.129 68.421 5.71 2.05 0.00 3.71
682 704 1.893801 AGGAGGCTAAATATCGACCCG 59.106 52.381 0.00 0.00 0.00 5.28
761 798 7.607607 TGATCGAGAAGAAAAAGATCAATGGAA 59.392 33.333 4.23 0.00 42.95 3.53
762 799 7.133891 TCGAGAAGAAAAAGATCAATGGAAC 57.866 36.000 0.00 0.00 0.00 3.62
785 822 4.620589 TGTGTTTGTATTAACGGGGAGA 57.379 40.909 0.00 0.00 0.00 3.71
904 941 1.285641 GGACACAATTGGCACCACG 59.714 57.895 10.83 0.00 28.57 4.94
905 942 1.169661 GGACACAATTGGCACCACGA 61.170 55.000 10.83 0.00 28.57 4.35
906 943 0.238289 GACACAATTGGCACCACGAG 59.762 55.000 10.83 0.00 0.00 4.18
939 976 7.017950 TGGATCTTCTATATCCTTGCCAAGAAT 59.982 37.037 5.89 0.00 42.94 2.40
1071 1108 3.134804 TGGTCTATCTAAAAGCTGCCCTC 59.865 47.826 0.00 0.00 0.00 4.30
1107 1144 3.616219 GTTGTACCCATCAGCACCAATA 58.384 45.455 0.00 0.00 0.00 1.90
1129 1166 1.005037 CGCAAGACAGTGGCTACCA 60.005 57.895 0.00 0.00 43.02 3.25
1293 1330 0.822164 AGCTGGTGTATGTACCGTCC 59.178 55.000 0.00 0.00 43.87 4.79
1458 1495 8.709386 AGCTATCTTGTACACTACAAATGAAG 57.291 34.615 0.00 0.00 46.90 3.02
1561 1600 6.712095 TCCATCATGGATGCTTTATTACAGAC 59.288 38.462 0.66 0.00 42.67 3.51
1565 1604 7.062322 TCATGGATGCTTTATTACAGACCATT 58.938 34.615 0.00 0.00 35.89 3.16
1685 1724 5.529430 TGACCACGTGAGATGTTTGTAAAAT 59.471 36.000 19.30 0.00 0.00 1.82
1690 1729 7.330946 CCACGTGAGATGTTTGTAAAATCTCTA 59.669 37.037 19.30 5.10 44.37 2.43
1711 1750 9.720874 TCTCTAGTATATATGAGGCATCCAAAT 57.279 33.333 0.00 0.00 0.00 2.32
1739 1778 1.775385 TCGATGCATACTCTGGGTCA 58.225 50.000 0.00 0.00 0.00 4.02
1759 1798 4.806247 GTCATGTACTTCATCCTTTCTCCG 59.194 45.833 0.00 0.00 34.09 4.63
1761 1800 4.884668 TGTACTTCATCCTTTCTCCGTT 57.115 40.909 0.00 0.00 0.00 4.44
1781 1820 1.210155 GGTCTCGTTGCCACAATGC 59.790 57.895 0.00 0.00 0.00 3.56
1806 1845 4.673580 GCACTATTGTTTGCAGATGTGAGG 60.674 45.833 0.00 0.00 38.68 3.86
1809 1848 3.500448 TTGTTTGCAGATGTGAGGGTA 57.500 42.857 0.00 0.00 0.00 3.69
1820 1859 5.939883 CAGATGTGAGGGTACAATTCAGAAA 59.060 40.000 0.00 0.00 33.69 2.52
1821 1860 6.093219 CAGATGTGAGGGTACAATTCAGAAAG 59.907 42.308 0.00 0.00 33.69 2.62
1823 1862 5.935945 TGTGAGGGTACAATTCAGAAAGAA 58.064 37.500 0.00 0.00 41.28 2.52
1826 1865 7.013274 TGTGAGGGTACAATTCAGAAAGAAAAG 59.987 37.037 0.00 0.00 40.22 2.27
1830 1869 7.014326 AGGGTACAATTCAGAAAGAAAAGAACC 59.986 37.037 0.00 0.00 40.22 3.62
1885 1925 6.475727 TCTTATTCGCTTACCAATCTTCTTCG 59.524 38.462 0.00 0.00 0.00 3.79
1894 1934 5.629079 ACCAATCTTCTTCGTTTGATTCC 57.371 39.130 0.00 0.00 0.00 3.01
1930 1970 6.109359 TCTTTCTTCTTATTCTGGCAGTAGC 58.891 40.000 15.27 0.00 41.10 3.58
1948 1988 4.471386 AGTAGCTACAACATCCTGGTTCAT 59.529 41.667 25.28 0.00 0.00 2.57
1962 2002 5.488919 TCCTGGTTCATCATAAGTTCTTCCT 59.511 40.000 0.00 0.00 0.00 3.36
1963 2003 6.012508 TCCTGGTTCATCATAAGTTCTTCCTT 60.013 38.462 0.00 0.00 0.00 3.36
1964 2004 6.317391 CCTGGTTCATCATAAGTTCTTCCTTC 59.683 42.308 0.00 0.00 0.00 3.46
1965 2005 6.778821 TGGTTCATCATAAGTTCTTCCTTCA 58.221 36.000 0.00 0.00 0.00 3.02
1966 2006 6.655003 TGGTTCATCATAAGTTCTTCCTTCAC 59.345 38.462 0.00 0.00 0.00 3.18
1967 2007 6.655003 GGTTCATCATAAGTTCTTCCTTCACA 59.345 38.462 0.00 0.00 0.00 3.58
1968 2008 7.174946 GGTTCATCATAAGTTCTTCCTTCACAA 59.825 37.037 0.00 0.00 0.00 3.33
1969 2009 8.567948 GTTCATCATAAGTTCTTCCTTCACAAA 58.432 33.333 0.00 0.00 0.00 2.83
1970 2010 8.868522 TCATCATAAGTTCTTCCTTCACAAAT 57.131 30.769 0.00 0.00 0.00 2.32
1971 2011 8.733458 TCATCATAAGTTCTTCCTTCACAAATG 58.267 33.333 0.00 0.00 0.00 2.32
1972 2012 8.517878 CATCATAAGTTCTTCCTTCACAAATGT 58.482 33.333 0.00 0.00 0.00 2.71
1973 2013 8.099364 TCATAAGTTCTTCCTTCACAAATGTC 57.901 34.615 0.00 0.00 0.00 3.06
1974 2014 5.424121 AAGTTCTTCCTTCACAAATGTCG 57.576 39.130 0.00 0.00 0.00 4.35
1975 2015 3.251004 AGTTCTTCCTTCACAAATGTCGC 59.749 43.478 0.00 0.00 0.00 5.19
1976 2016 2.844946 TCTTCCTTCACAAATGTCGCA 58.155 42.857 0.00 0.00 0.00 5.10
1977 2017 3.210227 TCTTCCTTCACAAATGTCGCAA 58.790 40.909 0.00 0.00 0.00 4.85
1978 2018 3.003275 TCTTCCTTCACAAATGTCGCAAC 59.997 43.478 0.00 0.00 0.00 4.17
1979 2019 2.293170 TCCTTCACAAATGTCGCAACA 58.707 42.857 0.00 0.00 40.38 3.33
1980 2020 2.685388 TCCTTCACAAATGTCGCAACAA 59.315 40.909 0.00 0.00 39.30 2.83
1999 2039 9.777843 CGCAACAAAAGATCAAGTTTAATTTAC 57.222 29.630 0.00 0.00 0.00 2.01
2009 2049 9.916397 GATCAAGTTTAATTTACGTAGATGTGG 57.084 33.333 0.00 0.00 0.00 4.17
2022 2062 2.420642 AGATGTGGATGCATATCACGC 58.579 47.619 22.56 16.60 34.90 5.34
2030 2070 2.901292 GCATATCACGCCAGCTGCC 61.901 63.158 8.66 0.00 36.24 4.85
2035 2075 1.976132 ATCACGCCAGCTGCCTACAT 61.976 55.000 8.66 0.00 36.24 2.29
2041 2081 0.251354 CCAGCTGCCTACATGACTGT 59.749 55.000 8.66 0.00 39.49 3.55
2078 2119 4.070552 GCTGCCCTCGTCTTCCGT 62.071 66.667 0.00 0.00 37.94 4.69
2082 2123 3.823330 CCCTCGTCTTCCGTCCCG 61.823 72.222 0.00 0.00 37.94 5.14
2119 2160 1.868251 GCGTCGGAGCTTCTGTACG 60.868 63.158 6.96 6.96 33.02 3.67
2142 2183 3.640498 TGATTTGGGATGTTGTGAAAGCA 59.360 39.130 0.00 0.00 0.00 3.91
2146 2187 0.244721 GGATGTTGTGAAAGCAGGCC 59.755 55.000 0.00 0.00 0.00 5.19
2156 2197 3.068881 AGCAGGCCGTAGCTTCAA 58.931 55.556 13.60 0.00 38.01 2.69
2159 2200 1.362406 GCAGGCCGTAGCTTCAACTC 61.362 60.000 10.13 0.00 39.73 3.01
2161 2202 2.453638 GGCCGTAGCTTCAACTCGC 61.454 63.158 0.00 0.00 39.73 5.03
2167 2208 2.611518 GTAGCTTCAACTCGCTGTGAT 58.388 47.619 0.00 0.00 37.05 3.06
2181 2222 3.684305 CGCTGTGATCACCATAGTTCAAA 59.316 43.478 22.85 0.00 36.50 2.69
2193 2234 9.268268 TCACCATAGTTCAAAAGTACTTAACAG 57.732 33.333 17.73 9.63 0.00 3.16
2208 2249 8.517878 AGTACTTAACAGTCACGAATAAGCTAA 58.482 33.333 0.00 0.00 34.06 3.09
2214 2255 7.667043 ACAGTCACGAATAAGCTAATTCAAA 57.333 32.000 0.00 0.00 35.93 2.69
2216 2257 8.177663 ACAGTCACGAATAAGCTAATTCAAATG 58.822 33.333 0.00 0.00 35.93 2.32
2260 2308 0.322997 TTTAGGCCACCCATTCACGG 60.323 55.000 5.01 0.00 0.00 4.94
2280 2328 6.711194 TCACGGGAAATGTACTTGAATTTGTA 59.289 34.615 0.00 0.00 0.00 2.41
2293 2988 8.863872 ACTTGAATTTGTAGTAACAGGCTTAT 57.136 30.769 0.00 0.00 36.83 1.73
2312 3008 6.638468 GGCTTATCTAGTGCAAACAAATATGC 59.362 38.462 0.00 0.00 42.86 3.14
2334 3030 7.643528 TGCGCATCTAAGTATTCTTTAGATG 57.356 36.000 21.81 21.81 40.16 2.90
2335 3031 7.433680 TGCGCATCTAAGTATTCTTTAGATGA 58.566 34.615 26.80 12.10 39.95 2.92
2376 3072 6.097129 ACATGTCCATGCATACATTTTGATCA 59.903 34.615 11.60 0.00 42.39 2.92
2382 3078 6.406065 CCATGCATACATTTTGATCAGTTGGA 60.406 38.462 0.00 0.00 32.87 3.53
2417 3113 8.372521 CCATTAAACGATGCAACTGTTATTTTC 58.627 33.333 0.00 0.00 0.00 2.29
2422 3118 6.734137 ACGATGCAACTGTTATTTTCAAGAA 58.266 32.000 0.00 0.00 0.00 2.52
2438 3134 4.300803 TCAAGAATGCATTGCAGTTCAAC 58.699 39.130 18.59 10.42 43.65 3.18
2439 3135 4.038282 TCAAGAATGCATTGCAGTTCAACT 59.962 37.500 18.59 12.04 43.65 3.16
2457 3153 5.097529 TCAACTGTAAGGAAAGCGTATACG 58.902 41.667 20.87 20.87 39.30 3.06
2477 3173 3.380004 ACGCAATTGTTCCTTTGTCTTCA 59.620 39.130 7.40 0.00 0.00 3.02
2479 3175 4.984161 CGCAATTGTTCCTTTGTCTTCATT 59.016 37.500 7.40 0.00 0.00 2.57
2481 3177 6.808212 CGCAATTGTTCCTTTGTCTTCATTAT 59.192 34.615 7.40 0.00 0.00 1.28
2482 3178 7.967854 CGCAATTGTTCCTTTGTCTTCATTATA 59.032 33.333 7.40 0.00 0.00 0.98
2483 3179 9.807649 GCAATTGTTCCTTTGTCTTCATTATAT 57.192 29.630 7.40 0.00 0.00 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 4.884961 ACCTGGAGTACATGTAGAGGAAT 58.115 43.478 19.77 0.00 0.00 3.01
32 33 4.408270 TCGACTACTAGACCTGGAGTACAT 59.592 45.833 0.00 0.00 0.00 2.29
39 40 3.542648 TGTGATCGACTACTAGACCTGG 58.457 50.000 0.00 0.00 0.00 4.45
53 54 1.332686 CACTGATTGGCCATGTGATCG 59.667 52.381 6.09 5.91 0.00 3.69
185 186 3.897239 TGTGCCTTTGGGGAATATGTAG 58.103 45.455 0.00 0.00 37.23 2.74
253 263 1.104577 TGGGGAAGTTTGCGTGGTTC 61.105 55.000 0.00 0.00 0.00 3.62
279 289 1.442769 GAAGATGGCTGCAAACTCGA 58.557 50.000 0.50 0.00 0.00 4.04
417 427 1.480954 GGCCATTCTCTACCTTGTCGA 59.519 52.381 0.00 0.00 0.00 4.20
448 458 1.342819 GTGCTTGCCATGTGGGTAAAA 59.657 47.619 0.54 0.00 41.02 1.52
682 704 2.287769 GCCTCATCAAGCTTTCTCTCC 58.712 52.381 0.00 0.00 0.00 3.71
761 798 4.653868 TCCCCGTTAATACAAACACATGT 58.346 39.130 0.00 0.00 37.32 3.21
762 799 4.938832 TCTCCCCGTTAATACAAACACATG 59.061 41.667 0.00 0.00 0.00 3.21
764 801 4.620589 TCTCCCCGTTAATACAAACACA 57.379 40.909 0.00 0.00 0.00 3.72
774 811 0.971386 ACGCTCTTTCTCCCCGTTAA 59.029 50.000 0.00 0.00 0.00 2.01
776 813 1.004918 CACGCTCTTTCTCCCCGTT 60.005 57.895 0.00 0.00 0.00 4.44
785 822 2.146342 CAGAACATCCACACGCTCTTT 58.854 47.619 0.00 0.00 0.00 2.52
904 941 6.070309 AGGATATAGAAGATCCATGGCAACTC 60.070 42.308 6.96 1.12 44.71 3.01
905 942 5.789575 AGGATATAGAAGATCCATGGCAACT 59.210 40.000 6.96 3.01 44.71 3.16
906 943 6.059787 AGGATATAGAAGATCCATGGCAAC 57.940 41.667 6.96 0.41 44.71 4.17
939 976 7.100409 TGTGTATGATTGAAACGATGTTAGGA 58.900 34.615 0.00 0.00 0.00 2.94
1071 1108 3.374678 GGTACAACCTGAGAGTCTCGTAG 59.625 52.174 15.34 7.96 34.73 3.51
1107 1144 1.536073 TAGCCACTGTCTTGCGCTCT 61.536 55.000 9.73 0.00 0.00 4.09
1129 1166 2.827800 CCACTCGGCATGATATCAGT 57.172 50.000 11.78 0.00 0.00 3.41
1279 1316 2.028748 ACTTGTGGGACGGTACATACAC 60.029 50.000 0.00 0.00 0.00 2.90
1458 1495 4.914983 TCAGGATCATCATAAGCCCATTC 58.085 43.478 0.00 0.00 0.00 2.67
1520 1559 5.550232 TGATGGATGCGTTATTCATATGC 57.450 39.130 0.00 0.00 35.03 3.14
1556 1595 9.528489 AACCAAACATATAACTTAATGGTCTGT 57.472 29.630 0.00 0.00 38.90 3.41
1596 1635 9.288576 CATGAGGAATATAATAACTTCCAAGCA 57.711 33.333 5.15 1.59 40.77 3.91
1685 1724 9.720874 ATTTGGATGCCTCATATATACTAGAGA 57.279 33.333 0.00 0.00 0.00 3.10
1711 1750 7.342026 ACCCAGAGTATGCATCGATGTATAATA 59.658 37.037 29.98 18.16 37.17 0.98
1717 1756 2.036475 GACCCAGAGTATGCATCGATGT 59.964 50.000 25.47 10.33 0.00 3.06
1739 1778 5.178797 CAACGGAGAAAGGATGAAGTACAT 58.821 41.667 0.00 0.00 42.47 2.29
1759 1798 1.098712 TTGTGGCAACGAGACCCAAC 61.099 55.000 0.00 0.00 42.51 3.77
1761 1800 0.888736 CATTGTGGCAACGAGACCCA 60.889 55.000 0.00 0.00 42.51 4.51
1800 1839 5.560722 TCTTTCTGAATTGTACCCTCACA 57.439 39.130 0.00 0.00 0.00 3.58
1806 1845 7.941919 AGGTTCTTTTCTTTCTGAATTGTACC 58.058 34.615 0.00 0.00 34.24 3.34
1809 1848 9.725019 AAAAAGGTTCTTTTCTTTCTGAATTGT 57.275 25.926 6.16 0.00 34.24 2.71
1873 1913 4.651994 CGGAATCAAACGAAGAAGATTGG 58.348 43.478 0.00 0.00 31.35 3.16
1885 1925 6.619801 AGATAATACCTTGCGGAATCAAAC 57.380 37.500 0.00 0.00 0.00 2.93
1917 1957 3.981071 TGTTGTAGCTACTGCCAGAAT 57.019 42.857 23.84 0.00 40.80 2.40
1926 1966 4.202245 TGAACCAGGATGTTGTAGCTAC 57.798 45.455 17.30 17.30 0.00 3.58
1927 1967 4.469586 TGATGAACCAGGATGTTGTAGCTA 59.530 41.667 0.00 0.00 0.00 3.32
1930 1970 7.050377 ACTTATGATGAACCAGGATGTTGTAG 58.950 38.462 0.00 0.00 0.00 2.74
1948 1988 7.095229 CGACATTTGTGAAGGAAGAACTTATGA 60.095 37.037 0.00 0.00 0.00 2.15
1962 2002 4.738124 TCTTTTGTTGCGACATTTGTGAA 58.262 34.783 7.83 0.00 35.29 3.18
1963 2003 4.362932 TCTTTTGTTGCGACATTTGTGA 57.637 36.364 7.83 0.09 35.29 3.58
1964 2004 4.739228 TGATCTTTTGTTGCGACATTTGTG 59.261 37.500 7.83 0.00 35.29 3.33
1965 2005 4.930963 TGATCTTTTGTTGCGACATTTGT 58.069 34.783 7.83 0.00 35.29 2.83
1966 2006 5.459762 ACTTGATCTTTTGTTGCGACATTTG 59.540 36.000 7.83 1.18 35.29 2.32
1967 2007 5.591099 ACTTGATCTTTTGTTGCGACATTT 58.409 33.333 7.83 0.00 35.29 2.32
1968 2008 5.186996 ACTTGATCTTTTGTTGCGACATT 57.813 34.783 7.83 0.00 35.29 2.71
1969 2009 4.836125 ACTTGATCTTTTGTTGCGACAT 57.164 36.364 7.83 0.00 35.29 3.06
1970 2010 4.630894 AACTTGATCTTTTGTTGCGACA 57.369 36.364 1.50 1.50 0.00 4.35
1971 2011 7.623268 ATTAAACTTGATCTTTTGTTGCGAC 57.377 32.000 0.00 0.00 0.00 5.19
1972 2012 8.641499 AAATTAAACTTGATCTTTTGTTGCGA 57.359 26.923 0.00 0.00 0.00 5.10
1973 2013 9.777843 GTAAATTAAACTTGATCTTTTGTTGCG 57.222 29.630 0.00 0.00 0.00 4.85
1974 2014 9.777843 CGTAAATTAAACTTGATCTTTTGTTGC 57.222 29.630 0.00 0.00 0.00 4.17
1999 2039 3.609807 CGTGATATGCATCCACATCTACG 59.390 47.826 23.44 17.93 29.91 3.51
2009 2049 0.516001 CAGCTGGCGTGATATGCATC 59.484 55.000 0.19 0.00 0.00 3.91
2022 2062 0.251354 ACAGTCATGTAGGCAGCTGG 59.749 55.000 17.12 0.00 38.09 4.85
2055 2096 3.450115 GACGAGGGCAGCGTAGGT 61.450 66.667 3.88 0.00 42.77 3.08
2119 2160 3.989817 GCTTTCACAACATCCCAAATCAC 59.010 43.478 0.00 0.00 0.00 3.06
2142 2183 1.215647 CGAGTTGAAGCTACGGCCT 59.784 57.895 0.00 0.00 39.73 5.19
2146 2187 0.710567 CACAGCGAGTTGAAGCTACG 59.289 55.000 0.00 0.00 42.52 3.51
2156 2197 2.103373 ACTATGGTGATCACAGCGAGT 58.897 47.619 26.47 18.94 46.03 4.18
2159 2200 2.892374 TGAACTATGGTGATCACAGCG 58.108 47.619 26.47 13.74 46.03 5.18
2161 2202 6.808008 ACTTTTGAACTATGGTGATCACAG 57.192 37.500 26.47 17.52 0.00 3.66
2167 2208 9.268268 CTGTTAAGTACTTTTGAACTATGGTGA 57.732 33.333 14.49 0.00 0.00 4.02
2181 2222 7.376615 AGCTTATTCGTGACTGTTAAGTACTT 58.623 34.615 13.68 13.68 36.52 2.24
2193 2234 8.895932 AACATTTGAATTAGCTTATTCGTGAC 57.104 30.769 21.58 4.14 37.34 3.67
2239 2280 1.889829 CGTGAATGGGTGGCCTAAAAA 59.110 47.619 3.32 0.00 0.00 1.94
2242 2283 1.301623 CCGTGAATGGGTGGCCTAA 59.698 57.895 3.32 0.00 0.00 2.69
2243 2284 2.675242 CCCGTGAATGGGTGGCCTA 61.675 63.158 3.32 0.00 44.76 3.93
2244 2285 4.047125 CCCGTGAATGGGTGGCCT 62.047 66.667 3.32 0.00 44.76 5.19
2280 2328 5.677319 TTGCACTAGATAAGCCTGTTACT 57.323 39.130 0.00 0.00 0.00 2.24
2293 2988 3.438434 TGCGCATATTTGTTTGCACTAGA 59.562 39.130 5.66 0.00 38.80 2.43
2312 3008 9.631452 TCATCATCTAAAGAATACTTAGATGCG 57.369 33.333 20.35 15.65 39.89 4.73
2333 3029 6.149973 GGACATGTTGACTTCAAGAATCATCA 59.850 38.462 0.00 0.00 36.39 3.07
2334 3030 6.149973 TGGACATGTTGACTTCAAGAATCATC 59.850 38.462 0.00 0.00 36.39 2.92
2335 3031 6.005823 TGGACATGTTGACTTCAAGAATCAT 58.994 36.000 0.00 0.00 36.39 2.45
2376 3072 5.564651 CGTTTAATGGCTGAACAATCCAACT 60.565 40.000 0.00 0.00 33.04 3.16
2382 3078 4.082300 TGCATCGTTTAATGGCTGAACAAT 60.082 37.500 0.00 0.00 0.00 2.71
2417 3113 4.149922 CAGTTGAACTGCAATGCATTCTTG 59.850 41.667 12.89 0.91 39.62 3.02
2457 3153 9.807649 ATATAATGAAGACAAAGGAACAATTGC 57.192 29.630 5.05 0.00 31.94 3.56


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

AutoCloner maintained by Alex Coulton.