Multiple sequence alignment - TraesCS3A01G532300

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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 TraesCS3A01G532300 chr3A 100.000 2912 0 0 1 2912 745474481 745471570 0.000000e+00 5378.0
1 TraesCS3A01G532300 chr3A 92.149 968 70 4 1 964 745437445 745436480 0.000000e+00 1362.0
2 TraesCS3A01G532300 chr3A 94.595 37 2 0 2102 2138 37458141 37458105 1.130000e-04 58.4
3 TraesCS3A01G532300 chr3B 90.888 1756 116 23 1 1731 828780609 828782345 0.000000e+00 2316.0
4 TraesCS3A01G532300 chr3B 90.648 941 69 8 1 927 104323996 104323061 0.000000e+00 1232.0
5 TraesCS3A01G532300 chr3B 88.960 779 70 11 2139 2912 822457539 822458306 0.000000e+00 948.0
6 TraesCS3A01G532300 chr3B 88.832 779 71 11 2139 2912 822417678 822418445 0.000000e+00 942.0
7 TraesCS3A01G532300 chr3B 88.832 779 71 13 2139 2912 822488730 822489497 0.000000e+00 942.0
8 TraesCS3A01G532300 chr3B 89.959 737 51 10 924 1656 104321233 104320516 0.000000e+00 929.0
9 TraesCS3A01G532300 chr3B 88.333 780 73 11 2139 2912 822446580 822447347 0.000000e+00 920.0
10 TraesCS3A01G532300 chr3B 88.318 779 75 11 2139 2912 822485219 822485986 0.000000e+00 920.0
11 TraesCS3A01G532300 chr3B 88.205 780 74 11 2139 2912 822381300 822382067 0.000000e+00 915.0
12 TraesCS3A01G532300 chr3B 88.205 780 74 11 2139 2912 822409489 822410256 0.000000e+00 915.0
13 TraesCS3A01G532300 chr3B 88.288 777 72 12 2139 2909 822368128 822368891 0.000000e+00 913.0
14 TraesCS3A01G532300 chr3B 85.185 378 20 17 1654 2017 104319979 104319624 3.570000e-94 355.0
15 TraesCS3A01G532300 chr3B 93.478 92 2 4 1734 1825 828782488 828782575 1.820000e-27 134.0
16 TraesCS3A01G532300 chr3B 89.720 107 3 5 1911 2017 828782618 828782716 2.360000e-26 130.0
17 TraesCS3A01G532300 chr3B 93.333 60 4 0 2042 2101 828785399 828785458 4.000000e-14 89.8
18 TraesCS3A01G532300 chr3B 89.062 64 3 1 2042 2101 104276004 104275941 3.110000e-10 76.8
19 TraesCS3A01G532300 chrUn 92.045 968 71 4 1 964 199234104 199235069 0.000000e+00 1356.0
20 TraesCS3A01G532300 chr7A 95.436 723 33 0 2190 2912 134460481 134459759 0.000000e+00 1153.0
21 TraesCS3A01G532300 chr7A 89.481 770 64 15 2149 2912 461795905 461796663 0.000000e+00 957.0
22 TraesCS3A01G532300 chr7A 97.297 37 1 0 2102 2138 678137221 678137257 2.420000e-06 63.9
23 TraesCS3A01G532300 chr7A 97.297 37 1 0 2102 2138 678138447 678138483 2.420000e-06 63.9
24 TraesCS3A01G532300 chr3D 90.223 808 41 20 1262 2064 610789139 610788365 0.000000e+00 1020.0
25 TraesCS3A01G532300 chr3D 89.185 601 41 3 1 601 610791332 610790756 0.000000e+00 728.0
26 TraesCS3A01G532300 chr3D 87.344 482 35 10 589 1056 610789631 610789162 1.990000e-146 529.0
27 TraesCS3A01G532300 chr3D 80.539 334 16 15 1797 2101 610744169 610743856 8.180000e-51 211.0
28 TraesCS3A01G532300 chr3D 97.917 48 1 0 2049 2096 610788345 610788298 1.860000e-12 84.2
29 TraesCS3A01G532300 chr6D 91.033 736 47 4 1005 1731 273834175 273833450 0.000000e+00 976.0
30 TraesCS3A01G532300 chr6D 78.610 374 34 24 1734 2101 273833220 273832887 3.800000e-49 206.0
31 TraesCS3A01G532300 chr6B 92.352 693 38 2 1048 1731 435588620 435587934 0.000000e+00 972.0
32 TraesCS3A01G532300 chr6B 79.679 374 30 24 1734 2101 435587704 435587371 8.120000e-56 228.0
33 TraesCS3A01G532300 chr6A 91.775 693 42 2 1048 1731 391258804 391258118 0.000000e+00 950.0
34 TraesCS3A01G532300 chr6A 91.765 85 7 0 2017 2101 391257441 391257357 5.100000e-23 119.0
35 TraesCS3A01G532300 chr4A 97.436 39 1 0 2100 2138 603047675 603047637 1.870000e-07 67.6
36 TraesCS3A01G532300 chr4A 97.297 37 1 0 2102 2138 613152221 613152185 2.420000e-06 63.9
37 TraesCS3A01G532300 chr4A 97.297 37 1 0 2102 2138 722868431 722868395 2.420000e-06 63.9
38 TraesCS3A01G532300 chr5A 97.297 37 1 0 2102 2138 568116272 568116308 2.420000e-06 63.9


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 TraesCS3A01G532300 chr3A 745471570 745474481 2911 True 5378.000000 5378 100.000000 1 2912 1 chr3A.!!$R3 2911
1 TraesCS3A01G532300 chr3A 745436480 745437445 965 True 1362.000000 1362 92.149000 1 964 1 chr3A.!!$R2 963
2 TraesCS3A01G532300 chr3B 822457539 822458306 767 False 948.000000 948 88.960000 2139 2912 1 chr3B.!!$F6 773
3 TraesCS3A01G532300 chr3B 822417678 822418445 767 False 942.000000 942 88.832000 2139 2912 1 chr3B.!!$F4 773
4 TraesCS3A01G532300 chr3B 822485219 822489497 4278 False 931.000000 942 88.575000 2139 2912 2 chr3B.!!$F7 773
5 TraesCS3A01G532300 chr3B 822446580 822447347 767 False 920.000000 920 88.333000 2139 2912 1 chr3B.!!$F5 773
6 TraesCS3A01G532300 chr3B 822381300 822382067 767 False 915.000000 915 88.205000 2139 2912 1 chr3B.!!$F2 773
7 TraesCS3A01G532300 chr3B 822409489 822410256 767 False 915.000000 915 88.205000 2139 2912 1 chr3B.!!$F3 773
8 TraesCS3A01G532300 chr3B 822368128 822368891 763 False 913.000000 913 88.288000 2139 2909 1 chr3B.!!$F1 770
9 TraesCS3A01G532300 chr3B 104319624 104323996 4372 True 838.666667 1232 88.597333 1 2017 3 chr3B.!!$R2 2016
10 TraesCS3A01G532300 chr3B 828780609 828785458 4849 False 667.450000 2316 91.854750 1 2101 4 chr3B.!!$F8 2100
11 TraesCS3A01G532300 chrUn 199234104 199235069 965 False 1356.000000 1356 92.045000 1 964 1 chrUn.!!$F1 963
12 TraesCS3A01G532300 chr7A 134459759 134460481 722 True 1153.000000 1153 95.436000 2190 2912 1 chr7A.!!$R1 722
13 TraesCS3A01G532300 chr7A 461795905 461796663 758 False 957.000000 957 89.481000 2149 2912 1 chr7A.!!$F1 763
14 TraesCS3A01G532300 chr3D 610788298 610791332 3034 True 590.300000 1020 91.167250 1 2096 4 chr3D.!!$R2 2095
15 TraesCS3A01G532300 chr6D 273832887 273834175 1288 True 591.000000 976 84.821500 1005 2101 2 chr6D.!!$R1 1096
16 TraesCS3A01G532300 chr6B 435587371 435588620 1249 True 600.000000 972 86.015500 1048 2101 2 chr6B.!!$R1 1053
17 TraesCS3A01G532300 chr6A 391257357 391258804 1447 True 534.500000 950 91.770000 1048 2101 2 chr6A.!!$R1 1053

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
694 1850 0.036388 GCGGAGAGGGTGACATTTCA 60.036 55.0 0.0 0.0 0.0 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2103 8823 0.111446 TCCTGTGGGCGAAATTCCAA 59.889 50.0 0.0 0.0 34.47 3.53 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
79 80 2.849880 GCGCATGGCATTTTTCTCTA 57.150 45.000 0.30 0.00 42.87 2.43
109 110 8.292444 AGTATGGCAATTTTTGTTCTATAGCA 57.708 30.769 0.00 0.00 0.00 3.49
113 114 6.154192 TGGCAATTTTTGTTCTATAGCATGGA 59.846 34.615 0.00 0.00 0.00 3.41
218 223 6.567321 CGTTTCTCAGAGTGATTCTTTGCAAT 60.567 38.462 0.00 0.00 32.41 3.56
268 275 1.217882 AGCTTTGTTGAGGAACGTCG 58.782 50.000 0.00 0.00 34.49 5.12
394 401 8.160106 GTGGGAGGAGATATTTTCATTGACTAT 58.840 37.037 0.00 0.00 0.00 2.12
396 403 7.609532 GGGAGGAGATATTTTCATTGACTATGG 59.390 40.741 0.00 0.00 34.85 2.74
398 405 7.465116 AGGAGATATTTTCATTGACTATGGGG 58.535 38.462 0.00 0.00 34.85 4.96
404 411 1.134521 TCATTGACTATGGGGCGTCAC 60.135 52.381 0.00 0.00 39.64 3.67
453 460 0.103208 GTTGGCTCGACATCTCGGAT 59.897 55.000 0.00 0.00 40.58 4.18
474 481 2.104792 TGTGCTCATAGGGATAAGGTGC 59.895 50.000 0.00 0.00 0.00 5.01
501 508 6.569035 CGTGCGTGTACTTATAGGGATGAATA 60.569 42.308 0.00 0.00 0.00 1.75
502 509 7.321153 GTGCGTGTACTTATAGGGATGAATAT 58.679 38.462 0.00 0.00 0.00 1.28
503 510 8.464404 GTGCGTGTACTTATAGGGATGAATATA 58.536 37.037 0.00 0.00 0.00 0.86
639 1783 4.946784 AGTTGTCACAGATAATTTCGCC 57.053 40.909 0.00 0.00 0.00 5.54
694 1850 0.036388 GCGGAGAGGGTGACATTTCA 60.036 55.000 0.00 0.00 0.00 2.69
704 1860 6.324770 AGAGGGTGACATTTCAAACAATTTCT 59.675 34.615 0.00 0.00 31.90 2.52
760 1920 6.408869 TGAGACTAGCATGACAATTTCATCA 58.591 36.000 0.00 0.00 43.68 3.07
770 1930 8.186163 GCATGACAATTTCATCATAGAAGACAA 58.814 33.333 0.00 0.00 43.68 3.18
825 1987 0.811616 GATCAAACGGCTGCGAGGAT 60.812 55.000 0.00 0.00 0.00 3.24
982 3977 0.549169 TACAAAGGTAGCCCAGCCCT 60.549 55.000 0.00 0.00 0.00 5.19
983 3978 1.379044 CAAAGGTAGCCCAGCCCTG 60.379 63.158 0.00 0.00 0.00 4.45
987 3982 0.921256 AGGTAGCCCAGCCCTGAAAT 60.921 55.000 0.00 0.00 0.00 2.17
996 3991 1.009997 AGCCCTGAAATCCCAATCCA 58.990 50.000 0.00 0.00 0.00 3.41
997 3992 1.063417 AGCCCTGAAATCCCAATCCAG 60.063 52.381 0.00 0.00 0.00 3.86
999 3994 1.342275 CCCTGAAATCCCAATCCAGCA 60.342 52.381 0.00 0.00 0.00 4.41
1000 3995 1.753073 CCTGAAATCCCAATCCAGCAC 59.247 52.381 0.00 0.00 0.00 4.40
1002 3997 1.076841 TGAAATCCCAATCCAGCACCA 59.923 47.619 0.00 0.00 0.00 4.17
1012 4009 0.754957 TCCAGCACCAACAAACCCTG 60.755 55.000 0.00 0.00 0.00 4.45
1022 4019 0.996762 ACAAACCCTGGTCCCCAAGA 60.997 55.000 0.00 0.00 30.80 3.02
1640 4637 3.670377 GGTGCGCTTGAACCCCAC 61.670 66.667 9.73 0.00 34.88 4.61
1762 5543 4.842292 TGCAAGGCGAGCAGATAG 57.158 55.556 2.77 0.00 37.02 2.08
1763 5544 2.201927 TGCAAGGCGAGCAGATAGA 58.798 52.632 2.77 0.00 37.02 1.98
1764 5545 0.103755 TGCAAGGCGAGCAGATAGAG 59.896 55.000 2.77 0.00 37.02 2.43
1765 5546 0.387202 GCAAGGCGAGCAGATAGAGA 59.613 55.000 0.00 0.00 0.00 3.10
1825 5621 2.415776 AGCTAGGAGATAGACGTACGC 58.584 52.381 16.72 8.42 32.76 4.42
1853 5660 7.009357 CGTTCTTGTTTATCTTGGCTCTAGTAC 59.991 40.741 0.00 0.00 0.00 2.73
1856 5663 9.197306 TCTTGTTTATCTTGGCTCTAGTACATA 57.803 33.333 0.00 0.00 0.00 2.29
1858 5665 8.762481 TGTTTATCTTGGCTCTAGTACATAGA 57.238 34.615 0.00 0.00 38.23 1.98
1864 5671 9.989296 ATCTTGGCTCTAGTACATAGATAGATT 57.011 33.333 0.00 0.00 39.82 2.40
1865 5672 9.237187 TCTTGGCTCTAGTACATAGATAGATTG 57.763 37.037 0.00 0.00 39.82 2.67
1866 5673 7.397892 TGGCTCTAGTACATAGATAGATTGC 57.602 40.000 0.00 0.00 39.82 3.56
1867 5674 7.178573 TGGCTCTAGTACATAGATAGATTGCT 58.821 38.462 0.00 0.00 39.82 3.91
1868 5675 7.671819 TGGCTCTAGTACATAGATAGATTGCTT 59.328 37.037 0.00 0.00 39.82 3.91
1869 5676 9.179909 GGCTCTAGTACATAGATAGATTGCTTA 57.820 37.037 0.00 0.00 39.82 3.09
1969 5794 7.753580 GTGTGTGCCCATTTACTCTTTAATTAC 59.246 37.037 0.00 0.00 0.00 1.89
1982 5807 7.338710 ACTCTTTAATTACTGCCTTCATGCTA 58.661 34.615 0.00 0.00 0.00 3.49
1984 5809 6.542370 TCTTTAATTACTGCCTTCATGCTACC 59.458 38.462 0.00 0.00 0.00 3.18
2045 8730 3.313526 CAGCCCTGCACTATGTGAATTAC 59.686 47.826 1.52 0.00 35.23 1.89
2101 8821 5.499139 TTGAATTTCGAAAGTTGTGCTCT 57.501 34.783 16.80 0.00 0.00 4.09
2102 8822 4.847633 TGAATTTCGAAAGTTGTGCTCTG 58.152 39.130 16.80 0.00 0.00 3.35
2103 8823 4.335315 TGAATTTCGAAAGTTGTGCTCTGT 59.665 37.500 16.80 0.00 0.00 3.41
2104 8824 4.900635 ATTTCGAAAGTTGTGCTCTGTT 57.099 36.364 16.80 0.00 0.00 3.16
2105 8825 3.673746 TTCGAAAGTTGTGCTCTGTTG 57.326 42.857 0.00 0.00 0.00 3.33
2106 8826 1.939934 TCGAAAGTTGTGCTCTGTTGG 59.060 47.619 0.00 0.00 0.00 3.77
2107 8827 1.939934 CGAAAGTTGTGCTCTGTTGGA 59.060 47.619 0.00 0.00 0.00 3.53
2108 8828 2.354510 CGAAAGTTGTGCTCTGTTGGAA 59.645 45.455 0.00 0.00 0.00 3.53
2109 8829 3.003689 CGAAAGTTGTGCTCTGTTGGAAT 59.996 43.478 0.00 0.00 0.00 3.01
2110 8830 4.498009 CGAAAGTTGTGCTCTGTTGGAATT 60.498 41.667 0.00 0.00 0.00 2.17
2111 8831 5.343307 AAAGTTGTGCTCTGTTGGAATTT 57.657 34.783 0.00 0.00 0.00 1.82
2112 8832 4.574599 AGTTGTGCTCTGTTGGAATTTC 57.425 40.909 0.00 0.00 0.00 2.17
2113 8833 3.003689 AGTTGTGCTCTGTTGGAATTTCG 59.996 43.478 0.00 0.00 0.00 3.46
2114 8834 1.266718 TGTGCTCTGTTGGAATTTCGC 59.733 47.619 0.00 0.00 0.00 4.70
2115 8835 0.881118 TGCTCTGTTGGAATTTCGCC 59.119 50.000 0.00 0.00 0.00 5.54
2116 8836 0.171231 GCTCTGTTGGAATTTCGCCC 59.829 55.000 0.00 0.00 0.00 6.13
2117 8837 1.533625 CTCTGTTGGAATTTCGCCCA 58.466 50.000 0.00 0.00 0.00 5.36
2118 8838 1.200020 CTCTGTTGGAATTTCGCCCAC 59.800 52.381 0.00 0.00 31.11 4.61
2119 8839 0.958091 CTGTTGGAATTTCGCCCACA 59.042 50.000 0.00 0.00 31.11 4.17
2120 8840 0.958091 TGTTGGAATTTCGCCCACAG 59.042 50.000 0.00 0.00 31.11 3.66
2121 8841 0.243636 GTTGGAATTTCGCCCACAGG 59.756 55.000 0.00 0.00 31.11 4.00
2122 8842 0.111446 TTGGAATTTCGCCCACAGGA 59.889 50.000 0.00 0.00 33.47 3.86
2123 8843 0.331278 TGGAATTTCGCCCACAGGAT 59.669 50.000 0.00 0.00 33.47 3.24
2124 8844 1.025041 GGAATTTCGCCCACAGGATC 58.975 55.000 0.00 0.00 33.47 3.36
2125 8845 0.657840 GAATTTCGCCCACAGGATCG 59.342 55.000 0.00 0.00 33.47 3.69
2126 8846 0.251916 AATTTCGCCCACAGGATCGA 59.748 50.000 0.00 0.00 33.47 3.59
2127 8847 0.469917 ATTTCGCCCACAGGATCGAT 59.530 50.000 0.00 0.00 33.47 3.59
2128 8848 0.179084 TTTCGCCCACAGGATCGATC 60.179 55.000 17.36 17.36 33.47 3.69
2129 8849 1.326951 TTCGCCCACAGGATCGATCA 61.327 55.000 25.93 0.00 33.47 2.92
2130 8850 1.592669 CGCCCACAGGATCGATCAC 60.593 63.158 25.93 15.35 33.47 3.06
2131 8851 1.826024 GCCCACAGGATCGATCACT 59.174 57.895 25.93 17.23 33.47 3.41
2132 8852 0.179000 GCCCACAGGATCGATCACTT 59.821 55.000 25.93 8.92 33.47 3.16
2133 8853 1.808133 GCCCACAGGATCGATCACTTC 60.808 57.143 25.93 9.33 33.47 3.01
2134 8854 1.482182 CCCACAGGATCGATCACTTCA 59.518 52.381 25.93 0.00 33.47 3.02
2135 8855 2.093500 CCCACAGGATCGATCACTTCAA 60.093 50.000 25.93 0.00 33.47 2.69
2136 8856 3.599343 CCACAGGATCGATCACTTCAAA 58.401 45.455 25.93 0.00 0.00 2.69
2137 8857 4.194640 CCACAGGATCGATCACTTCAAAT 58.805 43.478 25.93 0.61 0.00 2.32
2141 8861 4.272018 CAGGATCGATCACTTCAAATGGTC 59.728 45.833 25.93 4.71 0.00 4.02
2254 8975 2.202388 GCGACCGTCGTTCGATGA 60.202 61.111 21.37 0.00 42.81 2.92
2369 9090 0.380733 CGTCAAGATCGTCATCCGGA 59.619 55.000 6.61 6.61 37.11 5.14
2556 9277 2.243810 ACCAGTGAAGGTGAGTCTCTC 58.756 52.381 0.65 0.00 41.30 3.20
2642 9363 2.501723 ACAAGGAGTCGGCATGTATCTT 59.498 45.455 0.00 0.00 0.00 2.40
2695 9416 4.131596 GTGTTTTCCACAGGTTACTAGCA 58.868 43.478 0.00 0.00 43.92 3.49
2853 13087 3.859650 TCGTCAACGAGTCAAGACC 57.140 52.632 0.22 0.00 44.22 3.85
2863 13098 1.205893 GAGTCAAGACCGGAGAAGCAT 59.794 52.381 9.46 0.00 0.00 3.79
2871 13106 1.405821 ACCGGAGAAGCATAGAAGACG 59.594 52.381 9.46 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 8.982685 CGTGTTGCAGTAGAGATAATTATCATT 58.017 33.333 24.00 14.93 35.17 2.57
45 46 1.975837 TGCGCTTAAGAAAATTGCCG 58.024 45.000 9.73 0.00 0.00 5.69
218 223 6.648192 ACCAAACATTGATTTTCCTTGTCAA 58.352 32.000 0.00 0.00 36.42 3.18
268 275 0.465460 TGAGCTGGTTTCACCACACC 60.465 55.000 0.00 0.00 44.79 4.16
342 349 4.997565 ACAAACATCACTGAAAACACTGG 58.002 39.130 0.00 0.00 0.00 4.00
404 411 2.905075 TGATATTGCCGAAGTCACCAG 58.095 47.619 0.00 0.00 0.00 4.00
453 460 2.104792 GCACCTTATCCCTATGAGCACA 59.895 50.000 0.00 0.00 0.00 4.57
474 481 1.118033 CCTATAAGTACACGCACGCG 58.882 55.000 10.36 10.36 46.03 6.01
656 1800 8.795842 TCTCCGCCAACTAAAAGATTATTTTA 57.204 30.769 0.00 0.00 0.00 1.52
661 1806 4.383770 CCCTCTCCGCCAACTAAAAGATTA 60.384 45.833 0.00 0.00 0.00 1.75
704 1860 5.594725 TCACCCTACAACTAAAATTGCAACA 59.405 36.000 0.00 0.00 32.47 3.33
825 1987 2.746269 CGAAGTAACTCCCAACGAACA 58.254 47.619 0.00 0.00 0.00 3.18
927 3920 3.430042 AAGAGGAAGCAGCTTTGATGA 57.570 42.857 9.62 0.00 0.00 2.92
964 3959 1.852626 AGGGCTGGGCTACCTTTGT 60.853 57.895 0.00 0.00 37.76 2.83
965 3960 1.379044 CAGGGCTGGGCTACCTTTG 60.379 63.158 0.00 0.00 37.76 2.77
982 3977 1.076841 TGGTGCTGGATTGGGATTTCA 59.923 47.619 0.00 0.00 0.00 2.69
983 3978 1.851304 TGGTGCTGGATTGGGATTTC 58.149 50.000 0.00 0.00 0.00 2.17
987 3982 0.187117 TTGTTGGTGCTGGATTGGGA 59.813 50.000 0.00 0.00 0.00 4.37
996 3991 1.309688 ACCAGGGTTTGTTGGTGCT 59.690 52.632 0.00 0.00 45.66 4.40
997 3992 3.948702 ACCAGGGTTTGTTGGTGC 58.051 55.556 0.00 0.00 45.66 5.01
1000 3995 4.191243 GGGACCAGGGTTTGTTGG 57.809 61.111 0.00 0.00 40.38 3.77
1124 4121 0.948623 TCATCGTGGTGAAGCGGTTG 60.949 55.000 3.70 0.00 0.00 3.77
1265 4262 1.443828 GCCCTCGTTCTGGATCTCC 59.556 63.158 0.00 0.00 0.00 3.71
1566 4563 0.799534 GCATTGATGCGCTTGTGGAC 60.800 55.000 9.73 0.00 44.67 4.02
1640 4637 1.810441 CTTCTCAGCAGCAGCCTCG 60.810 63.158 0.00 0.00 43.56 4.63
1673 5209 1.227556 GTGCCACTCCGTGACAAGT 60.228 57.895 0.00 0.00 35.23 3.16
1702 5247 1.064166 CCACATTCTTCATGGCCTCCT 60.064 52.381 3.32 0.00 37.17 3.69
1761 5542 3.509442 CATATCTCCTTGGCCTCTCTCT 58.491 50.000 3.32 0.00 0.00 3.10
1762 5543 2.028203 GCATATCTCCTTGGCCTCTCTC 60.028 54.545 3.32 0.00 0.00 3.20
1763 5544 1.977129 GCATATCTCCTTGGCCTCTCT 59.023 52.381 3.32 0.00 0.00 3.10
1764 5545 1.977129 AGCATATCTCCTTGGCCTCTC 59.023 52.381 3.32 0.00 0.00 3.20
1765 5546 1.977129 GAGCATATCTCCTTGGCCTCT 59.023 52.381 3.32 0.00 35.77 3.69
1825 5621 4.452455 AGAGCCAAGATAAACAAGAACGTG 59.548 41.667 0.00 0.00 0.00 4.49
1853 5660 6.370994 CCAGCCAGTTAAGCAATCTATCTATG 59.629 42.308 0.00 0.00 0.00 2.23
1856 5663 4.164988 ACCAGCCAGTTAAGCAATCTATCT 59.835 41.667 0.00 0.00 0.00 1.98
1858 5665 4.202441 CACCAGCCAGTTAAGCAATCTAT 58.798 43.478 0.00 0.00 0.00 1.98
1860 5667 2.224867 ACACCAGCCAGTTAAGCAATCT 60.225 45.455 0.00 0.00 0.00 2.40
1861 5668 2.162681 ACACCAGCCAGTTAAGCAATC 58.837 47.619 0.00 0.00 0.00 2.67
1862 5669 2.292828 ACACCAGCCAGTTAAGCAAT 57.707 45.000 0.00 0.00 0.00 3.56
1863 5670 2.778299 CTACACCAGCCAGTTAAGCAA 58.222 47.619 0.00 0.00 0.00 3.91
1864 5671 1.610624 GCTACACCAGCCAGTTAAGCA 60.611 52.381 0.00 0.00 45.23 3.91
1865 5672 1.087501 GCTACACCAGCCAGTTAAGC 58.912 55.000 0.00 0.00 45.23 3.09
1884 5691 6.233434 TGGATGCATGCTTAATTAGTCTAGG 58.767 40.000 20.33 0.00 0.00 3.02
1969 5794 1.679680 CCATTGGTAGCATGAAGGCAG 59.320 52.381 0.00 0.00 35.83 4.85
1997 5822 7.660030 ACACAGCCTTTGCCTAATAATAATT 57.340 32.000 0.00 0.00 38.69 1.40
1998 5823 7.341769 TGAACACAGCCTTTGCCTAATAATAAT 59.658 33.333 0.00 0.00 38.69 1.28
1999 5824 6.661377 TGAACACAGCCTTTGCCTAATAATAA 59.339 34.615 0.00 0.00 38.69 1.40
2026 6045 2.872245 CGGTAATTCACATAGTGCAGGG 59.128 50.000 0.00 0.00 32.98 4.45
2101 8821 0.958091 CTGTGGGCGAAATTCCAACA 59.042 50.000 0.00 0.00 34.47 3.33
2102 8822 0.243636 CCTGTGGGCGAAATTCCAAC 59.756 55.000 0.00 0.00 34.47 3.77
2103 8823 0.111446 TCCTGTGGGCGAAATTCCAA 59.889 50.000 0.00 0.00 34.47 3.53
2104 8824 0.331278 ATCCTGTGGGCGAAATTCCA 59.669 50.000 0.00 0.00 0.00 3.53
2105 8825 1.025041 GATCCTGTGGGCGAAATTCC 58.975 55.000 0.00 0.00 0.00 3.01
2106 8826 0.657840 CGATCCTGTGGGCGAAATTC 59.342 55.000 0.00 0.00 0.00 2.17
2107 8827 0.251916 TCGATCCTGTGGGCGAAATT 59.748 50.000 0.00 0.00 30.17 1.82
2108 8828 0.469917 ATCGATCCTGTGGGCGAAAT 59.530 50.000 0.00 0.00 34.81 2.17
2109 8829 0.179084 GATCGATCCTGTGGGCGAAA 60.179 55.000 14.76 0.00 34.81 3.46
2110 8830 1.326951 TGATCGATCCTGTGGGCGAA 61.327 55.000 22.31 0.00 34.81 4.70
2111 8831 1.756561 TGATCGATCCTGTGGGCGA 60.757 57.895 22.31 0.00 35.35 5.54
2112 8832 1.592669 GTGATCGATCCTGTGGGCG 60.593 63.158 22.31 0.00 0.00 6.13
2113 8833 0.179000 AAGTGATCGATCCTGTGGGC 59.821 55.000 22.31 4.51 0.00 5.36
2114 8834 1.482182 TGAAGTGATCGATCCTGTGGG 59.518 52.381 22.31 0.00 0.00 4.61
2115 8835 2.967599 TGAAGTGATCGATCCTGTGG 57.032 50.000 22.31 0.00 0.00 4.17
2116 8836 4.034858 CCATTTGAAGTGATCGATCCTGTG 59.965 45.833 22.31 9.51 0.00 3.66
2117 8837 4.194640 CCATTTGAAGTGATCGATCCTGT 58.805 43.478 22.31 7.21 0.00 4.00
2118 8838 4.194640 ACCATTTGAAGTGATCGATCCTG 58.805 43.478 22.31 7.91 0.00 3.86
2119 8839 4.446371 GACCATTTGAAGTGATCGATCCT 58.554 43.478 22.31 15.40 0.00 3.24
2120 8840 3.246226 CGACCATTTGAAGTGATCGATCC 59.754 47.826 22.31 13.44 0.00 3.36
2121 8841 4.112634 TCGACCATTTGAAGTGATCGATC 58.887 43.478 18.72 18.72 32.61 3.69
2122 8842 4.115516 CTCGACCATTTGAAGTGATCGAT 58.884 43.478 7.62 0.00 36.61 3.59
2123 8843 3.056821 ACTCGACCATTTGAAGTGATCGA 60.057 43.478 6.96 6.96 35.92 3.59
2124 8844 3.254060 ACTCGACCATTTGAAGTGATCG 58.746 45.455 0.00 0.00 0.00 3.69
2125 8845 4.690748 TCAACTCGACCATTTGAAGTGATC 59.309 41.667 0.00 0.00 0.00 2.92
2126 8846 4.641396 TCAACTCGACCATTTGAAGTGAT 58.359 39.130 0.00 0.00 0.00 3.06
2127 8847 4.066646 TCAACTCGACCATTTGAAGTGA 57.933 40.909 0.00 0.00 0.00 3.41
2128 8848 4.776743 CTTCAACTCGACCATTTGAAGTG 58.223 43.478 17.82 3.96 45.89 3.16
2131 8851 2.552315 GGCTTCAACTCGACCATTTGAA 59.448 45.455 6.59 6.59 37.00 2.69
2132 8852 2.151202 GGCTTCAACTCGACCATTTGA 58.849 47.619 0.00 0.00 0.00 2.69
2133 8853 1.135972 CGGCTTCAACTCGACCATTTG 60.136 52.381 0.00 0.00 0.00 2.32
2134 8854 1.156736 CGGCTTCAACTCGACCATTT 58.843 50.000 0.00 0.00 0.00 2.32
2135 8855 1.298859 GCGGCTTCAACTCGACCATT 61.299 55.000 0.00 0.00 0.00 3.16
2136 8856 1.741770 GCGGCTTCAACTCGACCAT 60.742 57.895 0.00 0.00 0.00 3.55
2137 8857 2.357034 GCGGCTTCAACTCGACCA 60.357 61.111 0.00 0.00 0.00 4.02
2141 8861 3.414700 AAGCGCGGCTTCAACTCG 61.415 61.111 8.83 0.00 46.77 4.18
2254 8975 1.878656 CGTCTCCCTCCTTGTCGCTT 61.879 60.000 0.00 0.00 0.00 4.68
2369 9090 3.808174 GCACGACTCCTTGACTTTAACTT 59.192 43.478 0.00 0.00 0.00 2.66
2556 9277 2.171237 TGTAGAGACATGGCCTCATTGG 59.829 50.000 16.41 0.00 39.35 3.16
2642 9363 0.911769 CTTCACCATCCACCCTAGCA 59.088 55.000 0.00 0.00 0.00 3.49
2775 9498 2.684881 AGTCAAATTGCCGGCTAGATTG 59.315 45.455 29.70 25.96 0.00 2.67
2853 13087 2.455032 CACGTCTTCTATGCTTCTCCG 58.545 52.381 0.00 0.00 0.00 4.63
2863 13098 6.183360 CCATAATCTTGACTCCACGTCTTCTA 60.183 42.308 0.00 0.00 43.25 2.10
2871 13106 5.860941 TCTCTCCATAATCTTGACTCCAC 57.139 43.478 0.00 0.00 0.00 4.02
2886 13122 8.442632 CAAGATTATTGCTAACAATCTCTCCA 57.557 34.615 8.19 0.00 43.08 3.86


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

AutoCloner maintained by Alex Coulton.