Multiple sequence alignment - TraesCS7B01G083700

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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 TraesCS7B01G083700 chr7B 100.000 4113 0 0 1 4113 94312561 94308449 0.000000e+00 7596.0
1 TraesCS7B01G083700 chr7D 92.368 1782 66 25 2323 4077 133225454 133223716 0.000000e+00 2473.0
2 TraesCS7B01G083700 chr7D 91.592 1665 88 13 688 2325 133227136 133225497 0.000000e+00 2252.0
3 TraesCS7B01G083700 chr7D 92.996 671 29 11 1 659 133227798 133227134 0.000000e+00 963.0
4 TraesCS7B01G083700 chr7A 89.815 1787 73 33 2323 4055 131833800 131832069 0.000000e+00 2191.0
5 TraesCS7B01G083700 chr7A 92.303 1546 81 11 1 1513 131836204 131834664 0.000000e+00 2161.0
6 TraesCS7B01G083700 chr7A 89.867 829 46 17 1535 2325 131834671 131833843 0.000000e+00 1031.0
7 TraesCS7B01G083700 chr7A 93.103 58 4 0 4055 4112 340980929 340980872 7.330000e-13 86.1
8 TraesCS7B01G083700 chr3B 77.168 1730 264 71 554 2220 785428004 785426343 0.000000e+00 885.0
9 TraesCS7B01G083700 chr3B 75.396 1833 335 72 1536 3330 785463820 785462066 0.000000e+00 780.0
10 TraesCS7B01G083700 chr3B 79.815 540 70 23 1561 2073 785468597 785468070 1.410000e-94 357.0
11 TraesCS7B01G083700 chr6A 78.138 709 114 24 2437 3113 552832981 552832282 2.960000e-111 412.0
12 TraesCS7B01G083700 chr6A 78.000 300 53 10 1025 1316 552833334 552833040 4.230000e-40 176.0
13 TraesCS7B01G083700 chr6D 78.788 297 56 6 1025 1316 407208866 407208572 4.200000e-45 193.0
14 TraesCS7B01G083700 chr6D 82.209 163 29 0 1025 1187 406345708 406345546 1.540000e-29 141.0
15 TraesCS7B01G083700 chr6B 78.451 297 57 7 1025 1316 611349223 611348929 1.950000e-43 187.0
16 TraesCS7B01G083700 chr6B 89.655 58 3 3 4055 4110 106843941 106843885 2.050000e-08 71.3
17 TraesCS7B01G083700 chr5B 91.228 57 4 1 4054 4109 371391803 371391859 4.410000e-10 76.8
18 TraesCS7B01G083700 chr3D 89.831 59 5 1 4055 4112 300934803 300934745 1.590000e-09 75.0
19 TraesCS7B01G083700 chr2D 89.831 59 4 2 4055 4112 621434832 621434889 1.590000e-09 75.0
20 TraesCS7B01G083700 chr3A 89.655 58 5 1 4054 4110 463125008 463124951 5.700000e-09 73.1
21 TraesCS7B01G083700 chr3A 89.474 57 5 1 4056 4111 23664145 23664089 2.050000e-08 71.3
22 TraesCS7B01G083700 chr3A 88.525 61 4 3 4054 4112 428326632 428326573 2.050000e-08 71.3
23 TraesCS7B01G083700 chr1D 87.931 58 6 1 4054 4110 120014005 120013948 2.650000e-07 67.6


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 TraesCS7B01G083700 chr7B 94308449 94312561 4112 True 7596.000000 7596 100.000000 1 4113 1 chr7B.!!$R1 4112
1 TraesCS7B01G083700 chr7D 133223716 133227798 4082 True 1896.000000 2473 92.318667 1 4077 3 chr7D.!!$R1 4076
2 TraesCS7B01G083700 chr7A 131832069 131836204 4135 True 1794.333333 2191 90.661667 1 4055 3 chr7A.!!$R2 4054
3 TraesCS7B01G083700 chr3B 785426343 785428004 1661 True 885.000000 885 77.168000 554 2220 1 chr3B.!!$R1 1666
4 TraesCS7B01G083700 chr3B 785462066 785463820 1754 True 780.000000 780 75.396000 1536 3330 1 chr3B.!!$R2 1794
5 TraesCS7B01G083700 chr3B 785468070 785468597 527 True 357.000000 357 79.815000 1561 2073 1 chr3B.!!$R3 512
6 TraesCS7B01G083700 chr6A 552832282 552833334 1052 True 294.000000 412 78.069000 1025 3113 2 chr6A.!!$R1 2088

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
261 279 0.107654 CGGCCCCTTTCTCGAATTCT 60.108 55.0 3.52 0.0 0.00 2.40 F
1705 1819 0.321830 TGTGTAGGGTTTTAGCGCCC 60.322 55.0 2.29 0.0 45.16 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2076 2195 0.034574 AGCAACTTGACACCACCACA 60.035 50.000 0.0 0.0 0.0 4.17 R
3535 3765 1.002624 CCAGAGCCTTTTACCGCCA 60.003 57.895 0.0 0.0 0.0 5.69 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
261 279 0.107654 CGGCCCCTTTCTCGAATTCT 60.108 55.000 3.52 0.00 0.00 2.40
274 292 0.647925 GAATTCTTCGTCTCTGGCGC 59.352 55.000 0.00 0.00 0.00 6.53
278 296 3.997064 CTTCGTCTCTGGCGCAGGG 62.997 68.421 10.83 4.90 32.35 4.45
366 390 8.207545 TGTTTAACAAAGTTTAATTCCATGGCT 58.792 29.630 6.96 0.00 0.00 4.75
401 425 2.037913 CTCGCATCTTGCTGCTGCTC 62.038 60.000 17.00 0.00 42.25 4.26
476 508 1.075659 GCTTTGCTCCAAGAGGGGT 59.924 57.895 0.00 0.00 37.86 4.95
530 562 1.338579 GCACTCTGCCATATCTAGCCC 60.339 57.143 0.00 0.00 37.42 5.19
533 565 0.542938 TCTGCCATATCTAGCCCGCT 60.543 55.000 0.00 0.00 0.00 5.52
543 575 1.112113 CTAGCCCGCTTCTTGGACTA 58.888 55.000 0.00 0.00 0.00 2.59
566 598 8.557029 ACTAGTAAAAGAAAGTTCATGTTTCCG 58.443 33.333 0.00 0.00 34.93 4.30
593 625 2.579201 CCAGCCATCTCGGTTCGT 59.421 61.111 0.00 0.00 36.97 3.85
608 640 2.160417 GGTTCGTGCTCATTTCTTCCTG 59.840 50.000 0.00 0.00 0.00 3.86
636 668 2.171940 GCAGCGTGCGAGTTCTTG 59.828 61.111 0.00 0.00 31.71 3.02
686 718 3.655276 ACTGTAATCGTCTCGGTGTTT 57.345 42.857 0.00 0.00 0.00 2.83
687 719 3.572584 ACTGTAATCGTCTCGGTGTTTC 58.427 45.455 0.00 0.00 0.00 2.78
770 804 2.375174 TGCTCCTTTATGGTGGTCTTGT 59.625 45.455 0.00 0.00 37.07 3.16
774 808 4.588899 TCCTTTATGGTGGTCTTGTCATG 58.411 43.478 0.00 0.00 37.07 3.07
779 817 1.492599 TGGTGGTCTTGTCATGTTGGA 59.507 47.619 0.00 0.00 0.00 3.53
871 909 7.379797 CGTACTGTTAATATGAGTCACCATGAG 59.620 40.741 0.00 0.00 0.00 2.90
892 930 6.104665 TGAGATTCTGAATGTGCTACTTCAG 58.895 40.000 7.78 13.27 46.27 3.02
911 949 1.202698 AGTCCTTCAGCTGTGTGAACC 60.203 52.381 14.67 0.00 32.88 3.62
939 982 6.036844 GGAAATTTTACCCGAGAGTGATGTAC 59.963 42.308 0.00 0.00 0.00 2.90
970 1013 6.683974 CCTGAAACAGGTGGATTATACAAG 57.316 41.667 9.36 0.00 45.82 3.16
1119 1167 2.203422 CCCCGGGTTTGCAAGTCA 60.203 61.111 21.85 0.00 0.00 3.41
1377 1434 7.444487 TGATGCTTTCCTCATGAGATTTGATAG 59.556 37.037 24.62 16.07 0.00 2.08
1390 1447 6.503217 TGAGATTTGATAGCCTAGATGGGAAT 59.497 38.462 0.00 0.00 36.00 3.01
1513 1585 3.978855 GCTTTCGTGCGGAATAAGTTTTT 59.021 39.130 0.00 0.00 33.85 1.94
1568 1645 0.955919 GACAAGGTGTAGTGGCAGGC 60.956 60.000 0.00 0.00 0.00 4.85
1624 1703 0.824759 GGATCACTGAGGCGGTTAGT 59.175 55.000 0.00 0.00 0.00 2.24
1705 1819 0.321830 TGTGTAGGGTTTTAGCGCCC 60.322 55.000 2.29 0.00 45.16 6.13
1733 1848 1.659098 GAAAATGAACGGCGAGATCGT 59.341 47.619 16.62 7.46 43.14 3.73
1783 1898 3.245371 ACCCAAATCTCTGAGAAATGCCA 60.245 43.478 12.00 0.00 0.00 4.92
1923 2042 9.227777 GTATTTGTCTTTACACAATAAGGTCCT 57.772 33.333 0.00 0.00 36.16 3.85
2037 2156 8.545420 CAATTGCATAAATGAAAATGGAGTAGC 58.455 33.333 0.00 0.00 0.00 3.58
2075 2194 7.360946 GCGTCAATCCATAAATACAGGGTTATC 60.361 40.741 0.00 0.00 0.00 1.75
2076 2195 7.878127 CGTCAATCCATAAATACAGGGTTATCT 59.122 37.037 0.00 0.00 0.00 1.98
2118 2237 3.142174 GCACAATAATACTCCTCTGGCC 58.858 50.000 0.00 0.00 0.00 5.36
2121 2240 3.983410 ACAATAATACTCCTCTGGCCCAT 59.017 43.478 0.00 0.00 0.00 4.00
2166 2285 2.616376 GTTGCGAACATGGTGCCATATA 59.384 45.455 3.07 0.00 34.91 0.86
2211 2330 7.756722 CAGAAGAACATGTTCAAAATGGTATCC 59.243 37.037 33.92 8.85 41.84 2.59
2222 2341 3.444955 TGGTATCCCCAACCATCCA 57.555 52.632 0.00 0.00 42.10 3.41
2238 2357 5.930135 ACCATCCACCAACTCTATACAATC 58.070 41.667 0.00 0.00 0.00 2.67
2272 2391 4.141528 CCCTGGCTCTGATCTATTTTCTGT 60.142 45.833 0.00 0.00 0.00 3.41
2352 2517 4.353383 CCCTACTAAGCAAGGGTTATCC 57.647 50.000 0.00 0.00 46.45 2.59
2365 2530 7.680310 AGCAAGGGTTATCCATCATAGTAGTAT 59.320 37.037 0.00 0.00 38.24 2.12
2430 2603 4.868450 TTTTGTTCAACTGTACTGACCG 57.132 40.909 6.77 0.00 0.00 4.79
2431 2604 2.519377 TGTTCAACTGTACTGACCGG 57.481 50.000 0.00 0.00 0.00 5.28
3124 3331 1.988107 TCTCCATGAACCAAGCCTTCT 59.012 47.619 0.00 0.00 0.00 2.85
3152 3359 5.583854 TCATCAATAAGCTGTCAAGAGAAGC 59.416 40.000 0.00 0.00 37.20 3.86
3158 3365 2.139118 GCTGTCAAGAGAAGCGAAGTT 58.861 47.619 0.00 0.00 0.00 2.66
3170 3377 2.263741 CGAAGTTTGCCTGCCTGCT 61.264 57.895 0.00 0.00 0.00 4.24
3200 3422 1.299562 CTCCTGCTGCTGCTGTCTTG 61.300 60.000 17.00 3.94 40.48 3.02
3240 3462 2.839486 AGCATCTTCTTCCGTGTTCA 57.161 45.000 0.00 0.00 0.00 3.18
3329 3558 5.827797 AGTGAGCTTGTCTGGAATGTAAAAA 59.172 36.000 0.00 0.00 0.00 1.94
3413 3642 4.036352 TGCGTGTGGTAATTTTTCGTTTC 58.964 39.130 0.00 0.00 0.00 2.78
3487 3717 4.577246 GCGAGGCGCGGAGAAGAT 62.577 66.667 13.53 0.00 44.55 2.40
3494 3724 1.215382 CGCGGAGAAGATGTGACCA 59.785 57.895 0.00 0.00 0.00 4.02
3495 3725 1.078759 CGCGGAGAAGATGTGACCAC 61.079 60.000 0.00 0.00 0.00 4.16
3500 3730 2.613977 GGAGAAGATGTGACCACACCTG 60.614 54.545 4.83 0.00 45.05 4.00
3501 3731 1.160137 GAAGATGTGACCACACCTGC 58.840 55.000 4.83 0.00 45.05 4.85
3502 3732 0.767375 AAGATGTGACCACACCTGCT 59.233 50.000 4.83 0.00 45.05 4.24
3503 3733 0.035881 AGATGTGACCACACCTGCTG 59.964 55.000 4.83 0.00 45.05 4.41
3504 3734 1.580845 GATGTGACCACACCTGCTGC 61.581 60.000 4.83 0.00 45.05 5.25
3505 3735 2.060567 ATGTGACCACACCTGCTGCT 62.061 55.000 4.83 0.00 45.05 4.24
3535 3765 1.981636 CAGGAGCTGCTGGAGAAGT 59.018 57.895 26.30 0.00 0.00 3.01
3661 3902 2.366167 CAGAGGAGGGCCAGAGGA 59.634 66.667 6.18 0.00 36.29 3.71
3662 3903 1.761667 CAGAGGAGGGCCAGAGGAG 60.762 68.421 6.18 0.00 36.29 3.69
3663 3904 2.445654 GAGGAGGGCCAGAGGAGG 60.446 72.222 6.18 0.00 36.29 4.30
3664 3905 4.101077 AGGAGGGCCAGAGGAGGG 62.101 72.222 6.18 0.00 36.29 4.30
3753 3994 6.171921 AGATTTTGTCCTGAGATCTTGTGAG 58.828 40.000 0.00 0.00 0.00 3.51
3788 4033 0.882042 CTTGTTGTCAGACGCAGGCT 60.882 55.000 0.00 0.00 0.00 4.58
3920 4176 3.994853 GCTTTGCGGCTTTGGGCT 61.995 61.111 0.00 0.00 41.46 5.19
3952 4208 4.374702 GCACGCACGCCACAAGAG 62.375 66.667 0.00 0.00 0.00 2.85
3953 4209 3.716006 CACGCACGCCACAAGAGG 61.716 66.667 0.00 0.00 0.00 3.69
3986 4242 3.010144 CCAGTGGGATGGGAAGGG 58.990 66.667 0.00 0.00 36.64 3.95
3987 4243 1.619363 CCAGTGGGATGGGAAGGGA 60.619 63.158 0.00 0.00 36.64 4.20
4011 4267 3.902112 ACTGGGGTGTTGCCAGGG 61.902 66.667 0.00 0.00 39.65 4.45
4015 4271 4.912395 GGGTGTTGCCAGGGTGCA 62.912 66.667 0.00 0.00 40.07 4.57
4052 4308 2.473984 GCACACTTTTCAATGCTCTTGC 59.526 45.455 0.00 0.00 35.16 4.01
4058 4314 1.755179 TTCAATGCTCTTGCTAGGCC 58.245 50.000 0.00 0.00 40.48 5.19
4060 4316 1.004628 TCAATGCTCTTGCTAGGCCAA 59.995 47.619 5.01 0.00 40.48 4.52
4068 4324 0.251165 TTGCTAGGCCAACTCCAACC 60.251 55.000 5.01 0.00 0.00 3.77
4072 4328 1.785353 TAGGCCAACTCCAACCCACC 61.785 60.000 5.01 0.00 0.00 4.61
4077 4333 2.009882 AACTCCAACCCACCACCCA 61.010 57.895 0.00 0.00 0.00 4.51
4078 4334 1.585651 AACTCCAACCCACCACCCAA 61.586 55.000 0.00 0.00 0.00 4.12
4079 4335 1.231641 CTCCAACCCACCACCCAAA 59.768 57.895 0.00 0.00 0.00 3.28
4080 4336 0.178935 CTCCAACCCACCACCCAAAT 60.179 55.000 0.00 0.00 0.00 2.32
4081 4337 0.470833 TCCAACCCACCACCCAAATG 60.471 55.000 0.00 0.00 0.00 2.32
4082 4338 1.479368 CCAACCCACCACCCAAATGG 61.479 60.000 0.00 0.00 46.10 3.16
4106 4362 4.745751 CGCGTCCGTTTGGGGCTA 62.746 66.667 0.00 0.00 38.70 3.93
4107 4363 2.358984 GCGTCCGTTTGGGGCTAA 60.359 61.111 0.00 0.00 38.70 3.09
4108 4364 1.967494 GCGTCCGTTTGGGGCTAAA 60.967 57.895 0.00 0.00 38.70 1.85
4109 4365 1.871077 CGTCCGTTTGGGGCTAAAC 59.129 57.895 7.52 7.52 38.70 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
103 105 3.118665 CGGCCTTTCCATCCATGATTTTT 60.119 43.478 0.00 0.00 34.01 1.94
240 258 2.552231 AATTCGAGAAAGGGGCCGGG 62.552 60.000 2.18 0.00 0.00 5.73
261 279 4.069232 CCCTGCGCCAGAGACGAA 62.069 66.667 4.18 0.00 32.44 3.85
274 292 1.964552 CAGATCTAAAGCAGCCCCTG 58.035 55.000 0.00 0.00 34.12 4.45
278 296 0.933796 GACGCAGATCTAAAGCAGCC 59.066 55.000 0.00 0.00 0.00 4.85
366 390 1.733402 CGAGCACCAACCAAAAGCCA 61.733 55.000 0.00 0.00 0.00 4.75
401 425 1.482593 ACCTATCCAAGAAGCAGACGG 59.517 52.381 0.00 0.00 0.00 4.79
408 440 6.096001 CCAAATCAGGAAACCTATCCAAGAAG 59.904 42.308 0.00 0.00 42.27 2.85
512 544 1.261480 CGGGCTAGATATGGCAGAGT 58.739 55.000 0.00 0.00 0.00 3.24
530 562 6.424207 ACTTTCTTTTACTAGTCCAAGAAGCG 59.576 38.462 20.58 18.41 36.77 4.68
533 565 9.847224 ATGAACTTTCTTTTACTAGTCCAAGAA 57.153 29.630 18.88 18.88 34.23 2.52
543 575 6.206498 GCGGAAACATGAACTTTCTTTTACT 58.794 36.000 0.00 0.00 0.00 2.24
566 598 2.771762 ATGGCTGGGAGAGGAGGC 60.772 66.667 0.00 0.00 35.37 4.70
593 625 5.827797 ACAAAACTACAGGAAGAAATGAGCA 59.172 36.000 0.00 0.00 0.00 4.26
608 640 1.120437 GCACGCTGCAACAAAACTAC 58.880 50.000 0.00 0.00 44.26 2.73
667 699 3.834610 AGAAACACCGAGACGATTACAG 58.165 45.455 0.00 0.00 0.00 2.74
686 718 7.450323 AGGACGATAAAATTCCAAGGAAAAAGA 59.550 33.333 5.52 0.00 37.69 2.52
687 719 7.602753 AGGACGATAAAATTCCAAGGAAAAAG 58.397 34.615 5.52 0.00 37.69 2.27
892 930 1.230324 GGTTCACACAGCTGAAGGAC 58.770 55.000 23.35 13.63 30.63 3.85
911 949 5.001232 TCACTCTCGGGTAAAATTTCCTTG 58.999 41.667 0.00 0.00 0.00 3.61
963 1006 6.051074 CAGGACTGATCATGCAACTTGTATA 58.949 40.000 0.00 0.00 28.30 1.47
970 1013 2.408271 TCCAGGACTGATCATGCAAC 57.592 50.000 0.00 0.00 35.23 4.17
1119 1167 3.083997 GAGACCACCCGGCTCCAT 61.084 66.667 0.00 0.00 34.57 3.41
1530 1602 7.392393 ACCTTGTCACAACCTAAACCATATTAC 59.608 37.037 0.00 0.00 0.00 1.89
1568 1645 5.209977 CAATCACACAGCCATGATATTTCG 58.790 41.667 0.00 0.00 34.41 3.46
1705 1819 2.450160 GCCGTTCATTTTCTTATGGCG 58.550 47.619 0.00 0.00 33.42 5.69
1709 1823 4.209288 CGATCTCGCCGTTCATTTTCTTAT 59.791 41.667 0.00 0.00 0.00 1.73
1733 1848 1.338020 CGTCCGATCATGTCATCCAGA 59.662 52.381 0.00 0.00 0.00 3.86
1783 1898 6.294120 CGTATTATCATTCATGCCCATGTTGT 60.294 38.462 8.02 2.94 39.72 3.32
1987 2106 8.420374 TGAATCAATAGTTTACGAGCCTTTAG 57.580 34.615 0.00 0.00 0.00 1.85
2037 2156 2.032550 GGATTGACGCACTGGAATGATG 59.967 50.000 0.00 0.00 0.00 3.07
2075 2194 0.381801 GCAACTTGACACCACCACAG 59.618 55.000 0.00 0.00 0.00 3.66
2076 2195 0.034574 AGCAACTTGACACCACCACA 60.035 50.000 0.00 0.00 0.00 4.17
2118 2237 7.854557 TCATCACTATCAGAAAACAGAATGG 57.145 36.000 0.00 0.00 43.62 3.16
2121 2240 8.853077 ACATTCATCACTATCAGAAAACAGAA 57.147 30.769 0.00 0.00 0.00 3.02
2181 2300 6.128661 CCATTTTGAACATGTTCTTCTGCATG 60.129 38.462 32.57 23.71 45.61 4.06
2211 2330 0.405585 AGAGTTGGTGGATGGTTGGG 59.594 55.000 0.00 0.00 0.00 4.12
2222 2341 5.129485 CAGTGGAGGATTGTATAGAGTTGGT 59.871 44.000 0.00 0.00 0.00 3.67
2238 2357 4.106925 GCCAGGGAGCAGTGGAGG 62.107 72.222 0.00 0.00 35.67 4.30
2272 2391 6.109156 TGAGTTCCTAACATTTAGCACAGA 57.891 37.500 0.00 0.00 0.00 3.41
2340 2504 6.115448 ACTACTATGATGGATAACCCTTGC 57.885 41.667 0.00 0.00 35.38 4.01
2390 2559 9.125026 GAACAAAATATTATGGACAGGATCACT 57.875 33.333 0.00 0.00 0.00 3.41
2430 2603 3.314357 ACTTAGAAAAGCAAACACGGTCC 59.686 43.478 0.00 0.00 36.05 4.46
2431 2604 4.279659 CACTTAGAAAAGCAAACACGGTC 58.720 43.478 0.00 0.00 36.05 4.79
3040 3243 1.516423 GCCGTAGAACCTCACCTCC 59.484 63.158 0.00 0.00 0.00 4.30
3124 3331 7.389232 TCTCTTGACAGCTTATTGATGAAGAA 58.611 34.615 0.00 0.00 35.75 2.52
3152 3359 1.799258 AAGCAGGCAGGCAAACTTCG 61.799 55.000 0.00 0.00 35.83 3.79
3158 3365 2.522436 AAGCAAGCAGGCAGGCAA 60.522 55.556 9.31 0.00 35.83 4.52
3170 3377 1.529948 AGCAGGAGCAAGCAAGCAA 60.530 52.632 3.19 0.00 45.49 3.91
3240 3462 6.985645 ACAATTTGACACAATTACAAGCACAT 59.014 30.769 2.79 0.00 0.00 3.21
3329 3558 5.830991 TCTATGTTTTAAGCACCACAGGTTT 59.169 36.000 0.00 0.00 31.02 3.27
3413 3642 3.683822 GTGATCCAGAGCTTCAGAAACAG 59.316 47.826 0.00 0.00 0.00 3.16
3460 3690 4.609018 CGCCTCGCCGATGGGATT 62.609 66.667 0.00 0.00 34.06 3.01
3478 3708 1.673033 GGTGTGGTCACATCTTCTCCG 60.673 57.143 7.08 0.00 45.45 4.63
3487 3717 2.203195 GCAGCAGGTGTGGTCACA 60.203 61.111 0.66 0.00 45.45 3.58
3501 3731 4.584518 TGCCACCACCACCAGCAG 62.585 66.667 0.00 0.00 0.00 4.24
3502 3732 4.584518 CTGCCACCACCACCAGCA 62.585 66.667 0.00 0.00 0.00 4.41
3504 3734 3.557903 CTCCTGCCACCACCACCAG 62.558 68.421 0.00 0.00 0.00 4.00
3505 3735 3.569210 CTCCTGCCACCACCACCA 61.569 66.667 0.00 0.00 0.00 4.17
3535 3765 1.002624 CCAGAGCCTTTTACCGCCA 60.003 57.895 0.00 0.00 0.00 5.69
3618 3859 1.805428 AAAAAGCGCATTGGCCGACT 61.805 50.000 11.47 0.00 36.38 4.18
3620 3861 1.372748 CAAAAAGCGCATTGGCCGA 60.373 52.632 11.47 0.00 36.38 5.54
3753 3994 4.716977 AGACACCCCCTCCGTCCC 62.717 72.222 0.00 0.00 0.00 4.46
3906 4162 2.420890 CAAAGCCCAAAGCCGCAA 59.579 55.556 0.00 0.00 45.47 4.85
3913 4169 2.656055 GCATCGCCAAAGCCCAAA 59.344 55.556 0.00 0.00 34.57 3.28
3914 4170 3.746889 CGCATCGCCAAAGCCCAA 61.747 61.111 0.00 0.00 34.57 4.12
3944 4200 0.107312 CCCATCAGAGCCTCTTGTGG 60.107 60.000 13.00 13.00 0.00 4.17
3946 4202 1.606531 GCCCATCAGAGCCTCTTGT 59.393 57.895 0.00 0.00 0.00 3.16
3948 4204 1.557269 AACGCCCATCAGAGCCTCTT 61.557 55.000 0.00 0.00 0.00 2.85
3949 4205 1.965754 GAACGCCCATCAGAGCCTCT 61.966 60.000 0.00 0.00 0.00 3.69
3950 4206 1.522580 GAACGCCCATCAGAGCCTC 60.523 63.158 0.00 0.00 0.00 4.70
3951 4207 2.586792 GAACGCCCATCAGAGCCT 59.413 61.111 0.00 0.00 0.00 4.58
3952 4208 2.514824 GGAACGCCCATCAGAGCC 60.515 66.667 0.00 0.00 34.14 4.70
3985 4241 4.729918 CACCCCAGTGGCTGCTCC 62.730 72.222 2.61 0.00 40.55 4.70
4015 4271 2.350514 GCCTGGTGCTCAGAGCTT 59.649 61.111 23.15 0.00 46.18 3.74
4052 4308 0.322546 GTGGGTTGGAGTTGGCCTAG 60.323 60.000 3.32 0.00 0.00 3.02
4058 4314 1.530655 GGGTGGTGGGTTGGAGTTG 60.531 63.158 0.00 0.00 0.00 3.16
4060 4316 1.585651 TTTGGGTGGTGGGTTGGAGT 61.586 55.000 0.00 0.00 0.00 3.85
4089 4345 4.745751 TAGCCCCAAACGGACGCG 62.746 66.667 3.53 3.53 0.00 6.01
4090 4346 1.967494 TTTAGCCCCAAACGGACGC 60.967 57.895 0.00 0.00 0.00 5.19
4091 4347 1.871077 GTTTAGCCCCAAACGGACG 59.129 57.895 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.