Multiple sequence alignment - TraesCS4A01G044800

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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 TraesCS4A01G044800 chr4A 100.000 5489 0 0 1 5489 37052292 37046804 0.000000e+00 10137
1 TraesCS4A01G044800 chr4A 91.200 125 10 1 3143 3267 67512883 67512760 9.460000e-38 169
2 TraesCS4A01G044800 chr4B 97.816 4579 80 13 261 4832 527291603 527296168 0.000000e+00 7884
3 TraesCS4A01G044800 chr4B 83.568 639 31 29 4856 5467 527296299 527296890 1.050000e-146 531
4 TraesCS4A01G044800 chr4B 95.215 209 8 1 1 209 527291393 527291599 4.100000e-86 329
5 TraesCS4A01G044800 chr4D 98.406 3764 50 7 1 3759 429477178 429480936 0.000000e+00 6610
6 TraesCS4A01G044800 chr4D 95.041 1089 26 13 3744 4832 429480982 429482042 0.000000e+00 1687
7 TraesCS4A01G044800 chr4D 90.835 491 17 10 4856 5319 429482177 429482666 2.790000e-177 632
8 TraesCS4A01G044800 chr3D 80.913 854 117 18 2070 2907 105428549 105427726 2.790000e-177 632
9 TraesCS4A01G044800 chr7B 88.163 245 20 2 1850 2094 52946870 52947105 3.240000e-72 283
10 TraesCS4A01G044800 chr7B 87.347 245 22 2 1850 2094 52957600 52957835 7.010000e-69 272
11 TraesCS4A01G044800 chr7B 87.347 245 22 2 1850 2094 52982831 52982596 7.010000e-69 272
12 TraesCS4A01G044800 chr7B 91.200 125 10 1 3143 3267 52981939 52981816 9.460000e-38 169
13 TraesCS4A01G044800 chr7B 90.400 125 11 1 3143 3267 52947760 52947883 4.400000e-36 163


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 TraesCS4A01G044800 chr4A 37046804 37052292 5488 True 10137.000000 10137 100.000000 1 5489 1 chr4A.!!$R1 5488
1 TraesCS4A01G044800 chr4B 527291393 527296890 5497 False 2914.666667 7884 92.199667 1 5467 3 chr4B.!!$F1 5466
2 TraesCS4A01G044800 chr4D 429477178 429482666 5488 False 2976.333333 6610 94.760667 1 5319 3 chr4D.!!$F1 5318
3 TraesCS4A01G044800 chr3D 105427726 105428549 823 True 632.000000 632 80.913000 2070 2907 1 chr3D.!!$R1 837
4 TraesCS4A01G044800 chr7B 52946870 52947883 1013 False 223.000000 283 89.281500 1850 3267 2 chr7B.!!$F2 1417
5 TraesCS4A01G044800 chr7B 52981816 52982831 1015 True 220.500000 272 89.273500 1850 3267 2 chr7B.!!$R1 1417

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
510 512 0.109412 GCTCACATTTGCAGCTGTCC 60.109 55.000 16.64 0.0 0.00 4.02 F
861 865 2.423538 GCCCAACTAGTGCAACCTTATG 59.576 50.000 0.00 0.0 37.80 1.90 F
1446 1450 4.120589 AGTTTCTCCACGTTCTTCAAGAC 58.879 43.478 0.00 0.0 0.00 3.01 F
3363 3825 3.273434 GCTAATTGTGCTCCACATGAGA 58.727 45.455 0.00 0.0 44.16 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1841 1845 3.273434 GCAGCATCTGTCATGTAAAGGA 58.727 45.455 0.00 0.0 33.43 3.36 R
3171 3632 4.414337 ACCATGCTTCCATCTCTAACTC 57.586 45.455 0.00 0.0 0.00 3.01 R
3627 4090 0.908910 ACATGTACATCCGAGGGCAA 59.091 50.000 5.07 0.0 0.00 4.52 R
5140 5775 0.253044 TTGTCCACTGCCTATCCAGC 59.747 55.000 0.00 0.0 36.29 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
40 41 8.988934 TGTTACTTTCATTTGTAGCTAACTCAG 58.011 33.333 0.00 0.00 0.00 3.35
148 149 5.067283 GGTTTCAGTTGGTACTTTGATGTGT 59.933 40.000 0.00 0.00 30.26 3.72
149 150 5.749596 TTCAGTTGGTACTTTGATGTGTG 57.250 39.130 0.00 0.00 30.26 3.82
150 151 4.776349 TCAGTTGGTACTTTGATGTGTGT 58.224 39.130 0.00 0.00 30.26 3.72
235 236 9.394477 GTTAGTTGTTTCCTTATTTTAGCAGTG 57.606 33.333 0.00 0.00 0.00 3.66
238 239 7.502561 AGTTGTTTCCTTATTTTAGCAGTGAGT 59.497 33.333 0.00 0.00 0.00 3.41
244 245 6.264292 TCCTTATTTTAGCAGTGAGTTTTGCA 59.736 34.615 0.00 0.00 42.67 4.08
253 254 5.818857 AGCAGTGAGTTTTGCAAAATCAATT 59.181 32.000 26.24 17.17 42.67 2.32
422 424 1.209019 CTCAGTTGCTGCCAGTAGGAT 59.791 52.381 0.00 0.00 36.89 3.24
510 512 0.109412 GCTCACATTTGCAGCTGTCC 60.109 55.000 16.64 0.00 0.00 4.02
680 684 4.008074 ACCAATGTTGTCTGATTCGTCT 57.992 40.909 0.00 0.00 0.00 4.18
861 865 2.423538 GCCCAACTAGTGCAACCTTATG 59.576 50.000 0.00 0.00 37.80 1.90
1446 1450 4.120589 AGTTTCTCCACGTTCTTCAAGAC 58.879 43.478 0.00 0.00 0.00 3.01
1751 1755 5.473066 AATTGCATTGGATAAGGCCATAC 57.527 39.130 5.01 0.00 42.60 2.39
1811 1815 6.534475 TGCCTCAATTAAAATCTCTGCAAT 57.466 33.333 0.00 0.00 0.00 3.56
1832 1836 8.267183 TGCAATATCCAATCTGAGTTTCTCTTA 58.733 33.333 0.00 0.00 0.00 2.10
1833 1837 8.555361 GCAATATCCAATCTGAGTTTCTCTTAC 58.445 37.037 0.00 0.00 0.00 2.34
1836 1840 9.995003 ATATCCAATCTGAGTTTCTCTTACATC 57.005 33.333 0.00 0.00 0.00 3.06
1837 1841 6.644347 TCCAATCTGAGTTTCTCTTACATCC 58.356 40.000 0.00 0.00 0.00 3.51
1840 1844 7.148340 CCAATCTGAGTTTCTCTTACATCCAAC 60.148 40.741 0.00 0.00 0.00 3.77
1841 1845 6.672266 TCTGAGTTTCTCTTACATCCAACT 57.328 37.500 0.00 0.00 0.00 3.16
2421 2576 5.972107 GCATGGATGATAGTGCCTTAAAT 57.028 39.130 0.00 0.00 0.00 1.40
3269 3730 5.916318 TGTCTTGACAAAGCAAAATCCATT 58.084 33.333 0.44 0.00 33.06 3.16
3363 3825 3.273434 GCTAATTGTGCTCCACATGAGA 58.727 45.455 0.00 0.00 44.16 3.27
3627 4090 5.852282 AAGCTATGAACACCAACTTTGTT 57.148 34.783 0.00 0.00 39.94 2.83
3628 4091 5.852282 AGCTATGAACACCAACTTTGTTT 57.148 34.783 0.00 0.00 37.31 2.83
3764 4288 2.171003 TCATCTTCGAGTTCTGGCTCA 58.829 47.619 0.00 0.00 35.33 4.26
3961 4485 6.380190 GTTGTTTACATATTTGCGGGTAACA 58.620 36.000 0.00 0.00 39.74 2.41
3989 4513 2.854963 TGATATTGCATGTCAGGAGCC 58.145 47.619 0.00 0.00 0.00 4.70
4005 4529 4.819630 CAGGAGCCACTACAAAAAGTAACA 59.180 41.667 0.00 0.00 30.92 2.41
4098 4622 3.758023 TGTGGATCAATTGCTACACTTGG 59.242 43.478 21.91 0.00 0.00 3.61
4162 4686 1.745653 GTGCTTTTCCAGGCCTGATAC 59.254 52.381 34.91 16.41 0.00 2.24
4493 5017 2.012673 CATCTTGCTGCAGTAGGAACC 58.987 52.381 19.86 0.00 32.86 3.62
4497 5021 1.741770 GCTGCAGTAGGAACCCGTG 60.742 63.158 16.64 0.00 0.00 4.94
4548 5072 3.347216 AGTAGTACATTGCCTTGCCAAG 58.653 45.455 2.52 0.00 0.00 3.61
4701 5225 9.607988 TTATGGTAAATTATGTGAGTGTAGGTG 57.392 33.333 0.00 0.00 0.00 4.00
4792 5316 6.798427 AAGAGATATGCTTGGTAGAGTGAA 57.202 37.500 0.00 0.00 0.00 3.18
4880 5515 6.925610 TTACATCACTGCATCCATAAAGAC 57.074 37.500 0.00 0.00 0.00 3.01
4898 5533 3.052082 CAGTGCAACCGCCCTCTG 61.052 66.667 0.00 0.00 37.80 3.35
4901 5536 1.302192 GTGCAACCGCCCTCTGTTA 60.302 57.895 0.00 0.00 37.32 2.41
5021 5656 4.892934 TCATTGGTTTTCTGCACTTAACCT 59.107 37.500 16.01 0.15 40.50 3.50
5050 5685 4.568152 TTTAAAACAAGACCTGCTCTGC 57.432 40.909 0.00 0.00 0.00 4.26
5051 5686 1.322442 AAAACAAGACCTGCTCTGCC 58.678 50.000 0.00 0.00 0.00 4.85
5103 5738 4.645535 TGGATCTGTTCAGTTGAGGAAAG 58.354 43.478 0.00 0.00 0.00 2.62
5130 5765 6.907853 AGGAAGACGATCATGATAGATTGA 57.092 37.500 21.00 0.00 34.22 2.57
5140 5775 8.604890 CGATCATGATAGATTGATGAATGAAGG 58.395 37.037 8.54 0.00 32.84 3.46
5141 5776 7.683437 TCATGATAGATTGATGAATGAAGGC 57.317 36.000 0.00 0.00 0.00 4.35
5142 5777 7.459234 TCATGATAGATTGATGAATGAAGGCT 58.541 34.615 0.00 0.00 0.00 4.58
5143 5778 7.390718 TCATGATAGATTGATGAATGAAGGCTG 59.609 37.037 0.00 0.00 0.00 4.85
5144 5779 6.002082 TGATAGATTGATGAATGAAGGCTGG 58.998 40.000 0.00 0.00 0.00 4.85
5145 5780 4.515028 AGATTGATGAATGAAGGCTGGA 57.485 40.909 0.00 0.00 0.00 3.86
5146 5781 5.063017 AGATTGATGAATGAAGGCTGGAT 57.937 39.130 0.00 0.00 0.00 3.41
5319 5982 8.956426 GGAGTAGAGATTTCCACAGATATCTAG 58.044 40.741 4.54 2.95 39.88 2.43
5320 5983 8.348285 AGTAGAGATTTCCACAGATATCTAGC 57.652 38.462 4.54 0.00 39.88 3.42
5321 5984 6.603940 AGAGATTTCCACAGATATCTAGCC 57.396 41.667 4.54 0.00 39.88 3.93
5322 5985 5.483583 AGAGATTTCCACAGATATCTAGCCC 59.516 44.000 4.54 0.00 39.88 5.19
5334 5997 7.668052 ACAGATATCTAGCCCTTAAGTCAGTAG 59.332 40.741 4.54 0.00 0.00 2.57
5353 6016 5.700832 CAGTAGTGCCACTTCATTGAAACTA 59.299 40.000 1.02 2.69 0.00 2.24
5358 6021 6.435277 AGTGCCACTTCATTGAAACTATGATT 59.565 34.615 0.01 0.00 32.43 2.57
5359 6022 7.039504 AGTGCCACTTCATTGAAACTATGATTT 60.040 33.333 0.01 0.00 32.43 2.17
5360 6023 8.243426 GTGCCACTTCATTGAAACTATGATTTA 58.757 33.333 0.01 0.00 32.43 1.40
5361 6024 8.970020 TGCCACTTCATTGAAACTATGATTTAT 58.030 29.630 0.01 0.00 32.43 1.40
5362 6025 9.455847 GCCACTTCATTGAAACTATGATTTATC 57.544 33.333 0.01 0.00 32.43 1.75
5385 6048 7.769272 TCTAAAGCCAACAACATTTTCTTTG 57.231 32.000 0.00 0.00 0.00 2.77
5386 6049 7.551585 TCTAAAGCCAACAACATTTTCTTTGA 58.448 30.769 0.00 0.00 0.00 2.69
5388 6051 7.628769 AAAGCCAACAACATTTTCTTTGATT 57.371 28.000 0.00 0.00 0.00 2.57
5389 6052 7.628769 AAGCCAACAACATTTTCTTTGATTT 57.371 28.000 0.00 0.00 0.00 2.17
5391 6054 8.907222 AGCCAACAACATTTTCTTTGATTTAT 57.093 26.923 0.00 0.00 0.00 1.40
5467 6130 5.975693 TTTGGAACCCTTGTCACAATATC 57.024 39.130 0.00 0.00 0.00 1.63
5468 6131 4.927267 TGGAACCCTTGTCACAATATCT 57.073 40.909 0.00 0.00 0.00 1.98
5469 6132 5.255397 TGGAACCCTTGTCACAATATCTT 57.745 39.130 0.00 0.00 0.00 2.40
5470 6133 5.253330 TGGAACCCTTGTCACAATATCTTC 58.747 41.667 0.00 0.00 0.00 2.87
5471 6134 4.332819 GGAACCCTTGTCACAATATCTTCG 59.667 45.833 0.00 0.00 0.00 3.79
5472 6135 4.553330 ACCCTTGTCACAATATCTTCGT 57.447 40.909 0.00 0.00 0.00 3.85
5473 6136 4.504858 ACCCTTGTCACAATATCTTCGTC 58.495 43.478 0.00 0.00 0.00 4.20
5474 6137 3.871594 CCCTTGTCACAATATCTTCGTCC 59.128 47.826 0.00 0.00 0.00 4.79
5475 6138 3.871594 CCTTGTCACAATATCTTCGTCCC 59.128 47.826 0.00 0.00 0.00 4.46
5476 6139 4.503910 CTTGTCACAATATCTTCGTCCCA 58.496 43.478 0.00 0.00 0.00 4.37
5477 6140 4.545208 TGTCACAATATCTTCGTCCCAA 57.455 40.909 0.00 0.00 0.00 4.12
5478 6141 4.900684 TGTCACAATATCTTCGTCCCAAA 58.099 39.130 0.00 0.00 0.00 3.28
5479 6142 5.496556 TGTCACAATATCTTCGTCCCAAAT 58.503 37.500 0.00 0.00 0.00 2.32
5480 6143 5.943416 TGTCACAATATCTTCGTCCCAAATT 59.057 36.000 0.00 0.00 0.00 1.82
5481 6144 7.106890 TGTCACAATATCTTCGTCCCAAATTA 58.893 34.615 0.00 0.00 0.00 1.40
5482 6145 7.065324 TGTCACAATATCTTCGTCCCAAATTAC 59.935 37.037 0.00 0.00 0.00 1.89
5483 6146 7.280205 GTCACAATATCTTCGTCCCAAATTACT 59.720 37.037 0.00 0.00 0.00 2.24
5484 6147 7.827236 TCACAATATCTTCGTCCCAAATTACTT 59.173 33.333 0.00 0.00 0.00 2.24
5485 6148 7.910162 CACAATATCTTCGTCCCAAATTACTTG 59.090 37.037 0.00 0.00 34.52 3.16
5486 6149 7.610305 ACAATATCTTCGTCCCAAATTACTTGT 59.390 33.333 0.00 0.00 32.65 3.16
5487 6150 7.787725 ATATCTTCGTCCCAAATTACTTGTC 57.212 36.000 0.00 0.00 32.65 3.18
5488 6151 3.991773 TCTTCGTCCCAAATTACTTGTCG 59.008 43.478 0.00 0.00 32.65 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
148 149 7.860918 TTAAACCTGTATAAACACACACACA 57.139 32.000 0.00 0.00 0.00 3.72
149 150 9.389570 GAATTAAACCTGTATAAACACACACAC 57.610 33.333 0.00 0.00 0.00 3.82
150 151 8.569641 GGAATTAAACCTGTATAAACACACACA 58.430 33.333 0.00 0.00 0.00 3.72
235 236 5.007921 AGGCACAATTGATTTTGCAAAACTC 59.992 36.000 26.05 21.79 36.66 3.01
238 239 4.497674 GCAGGCACAATTGATTTTGCAAAA 60.498 37.500 25.76 25.76 36.66 2.44
244 245 4.282703 AGAAGAGCAGGCACAATTGATTTT 59.717 37.500 13.59 0.00 0.00 1.82
253 254 1.675801 CCTGAGAAGAGCAGGCACA 59.324 57.895 0.00 0.00 45.66 4.57
422 424 1.081242 GGACGTAGCGACACCGAAA 60.081 57.895 0.00 0.00 38.22 3.46
680 684 4.773013 AGTTTCACTTCTCGGGTAAACAA 58.227 39.130 0.00 0.00 31.02 2.83
776 780 6.791887 ATGACAGTAACACATCAAGACAAG 57.208 37.500 0.00 0.00 0.00 3.16
861 865 5.352293 TGAATGATGCTCAGTACACATTGTC 59.648 40.000 0.00 0.00 0.00 3.18
1446 1450 3.304659 CCATTCACTTGTGAGGTTTTCCG 60.305 47.826 3.61 0.00 46.35 4.30
1811 1815 8.424918 GGATGTAAGAGAAACTCAGATTGGATA 58.575 37.037 0.00 0.00 32.06 2.59
1832 1836 5.013079 TCTGTCATGTAAAGGAGTTGGATGT 59.987 40.000 0.00 0.00 0.00 3.06
1833 1837 5.491070 TCTGTCATGTAAAGGAGTTGGATG 58.509 41.667 0.00 0.00 0.00 3.51
1836 1840 4.095483 GCATCTGTCATGTAAAGGAGTTGG 59.905 45.833 0.00 0.00 0.00 3.77
1837 1841 4.940046 AGCATCTGTCATGTAAAGGAGTTG 59.060 41.667 0.00 0.00 0.00 3.16
1840 1844 3.311871 GCAGCATCTGTCATGTAAAGGAG 59.688 47.826 0.00 0.00 33.43 3.69
1841 1845 3.273434 GCAGCATCTGTCATGTAAAGGA 58.727 45.455 0.00 0.00 33.43 3.36
3171 3632 4.414337 ACCATGCTTCCATCTCTAACTC 57.586 45.455 0.00 0.00 0.00 3.01
3269 3730 5.649395 CCAGCACTTTGGAGATAAGAAATCA 59.351 40.000 0.00 0.00 40.87 2.57
3329 3790 3.728718 CACAATTAGCCACAAACGACAAC 59.271 43.478 0.00 0.00 0.00 3.32
3330 3791 3.793801 GCACAATTAGCCACAAACGACAA 60.794 43.478 0.00 0.00 0.00 3.18
3363 3825 1.066143 CGGTAAGCATCAGAACCAGGT 60.066 52.381 0.00 0.00 32.04 4.00
3436 3899 6.598064 GTGTAAGTACCAACTCCAATGCTTAT 59.402 38.462 0.00 0.00 33.75 1.73
3627 4090 0.908910 ACATGTACATCCGAGGGCAA 59.091 50.000 5.07 0.00 0.00 4.52
3628 4091 0.908910 AACATGTACATCCGAGGGCA 59.091 50.000 5.07 0.00 0.00 5.36
3764 4288 9.561069 GGTAATATCAACCTCAATTGTATGACT 57.439 33.333 5.13 0.98 33.97 3.41
3961 4485 7.455891 TCCTGACATGCAATATCATTATGTCT 58.544 34.615 14.40 0.00 44.77 3.41
3989 4513 6.485313 TGGGATCACTGTTACTTTTTGTAGTG 59.515 38.462 0.00 0.00 35.29 2.74
4005 4529 5.758790 CCATTCAGATATCTGGGATCACT 57.241 43.478 28.30 4.44 43.91 3.41
4098 4622 6.674694 ATCATAGAGCAGAATGAACAACAC 57.325 37.500 0.00 0.00 39.69 3.32
4531 5055 2.159379 GCTACTTGGCAAGGCAATGTAC 60.159 50.000 29.26 7.66 0.00 2.90
4532 5056 2.091541 GCTACTTGGCAAGGCAATGTA 58.908 47.619 29.26 12.48 0.00 2.29
4701 5225 4.982295 GGGAGTTGCAACATTAACAGAAAC 59.018 41.667 30.11 0.00 0.00 2.78
4792 5316 4.946157 ACAGATTCTTCGAGCAATGGAAAT 59.054 37.500 0.00 0.00 0.00 2.17
4898 5533 4.600692 AAAAATCAGGGTTGGCACTAAC 57.399 40.909 0.00 0.00 0.00 2.34
4901 5536 3.573967 CAGTAAAAATCAGGGTTGGCACT 59.426 43.478 0.00 0.00 0.00 4.40
4941 5576 4.326826 TCTGAAATCCAAAGCACTACTGG 58.673 43.478 0.00 0.00 0.00 4.00
4942 5577 6.259608 CCTATCTGAAATCCAAAGCACTACTG 59.740 42.308 0.00 0.00 0.00 2.74
5021 5656 7.382898 AGCAGGTCTTGTTTTAAAACTTTTCA 58.617 30.769 26.76 8.12 39.59 2.69
5051 5686 2.082231 CTCCACTGCTTCCATCACTTG 58.918 52.381 0.00 0.00 0.00 3.16
5103 5738 3.760580 ATCATGATCGTCTTCCTTCCC 57.239 47.619 1.18 0.00 0.00 3.97
5130 5765 2.444388 TGCCTATCCAGCCTTCATTCAT 59.556 45.455 0.00 0.00 0.00 2.57
5140 5775 0.253044 TTGTCCACTGCCTATCCAGC 59.747 55.000 0.00 0.00 36.29 4.85
5141 5776 1.556911 ACTTGTCCACTGCCTATCCAG 59.443 52.381 0.00 0.00 38.78 3.86
5142 5777 1.278985 CACTTGTCCACTGCCTATCCA 59.721 52.381 0.00 0.00 0.00 3.41
5143 5778 1.555075 TCACTTGTCCACTGCCTATCC 59.445 52.381 0.00 0.00 0.00 2.59
5144 5779 3.055819 TCTTCACTTGTCCACTGCCTATC 60.056 47.826 0.00 0.00 0.00 2.08
5145 5780 2.906389 TCTTCACTTGTCCACTGCCTAT 59.094 45.455 0.00 0.00 0.00 2.57
5146 5781 2.300152 CTCTTCACTTGTCCACTGCCTA 59.700 50.000 0.00 0.00 0.00 3.93
5319 5982 1.278127 TGGCACTACTGACTTAAGGGC 59.722 52.381 7.53 0.00 38.98 5.19
5320 5983 2.567615 AGTGGCACTACTGACTTAAGGG 59.432 50.000 20.61 0.00 0.00 3.95
5321 5984 3.963428 AGTGGCACTACTGACTTAAGG 57.037 47.619 20.61 0.00 0.00 2.69
5322 5985 4.883083 TGAAGTGGCACTACTGACTTAAG 58.117 43.478 22.37 0.00 0.00 1.85
5334 5997 5.627499 TCATAGTTTCAATGAAGTGGCAC 57.373 39.130 10.29 10.29 30.52 5.01
5359 6022 9.474920 CAAAGAAAATGTTGTTGGCTTTAGATA 57.525 29.630 0.00 0.00 0.00 1.98
5360 6023 8.203485 TCAAAGAAAATGTTGTTGGCTTTAGAT 58.797 29.630 0.00 0.00 0.00 1.98
5361 6024 7.551585 TCAAAGAAAATGTTGTTGGCTTTAGA 58.448 30.769 0.00 0.00 0.00 2.10
5362 6025 7.769272 TCAAAGAAAATGTTGTTGGCTTTAG 57.231 32.000 0.00 0.00 0.00 1.85
5363 6026 8.729805 AATCAAAGAAAATGTTGTTGGCTTTA 57.270 26.923 0.00 0.00 0.00 1.85
5366 6029 8.907222 ATAAATCAAAGAAAATGTTGTTGGCT 57.093 26.923 0.00 0.00 0.00 4.75
5384 6047 7.395772 TCAAACTGGTTGGCATTAGATAAATCA 59.604 33.333 5.47 0.00 37.85 2.57
5385 6048 7.771183 TCAAACTGGTTGGCATTAGATAAATC 58.229 34.615 5.47 0.00 37.85 2.17
5386 6049 7.716799 TCAAACTGGTTGGCATTAGATAAAT 57.283 32.000 5.47 0.00 37.85 1.40
5388 6051 7.118723 AGATCAAACTGGTTGGCATTAGATAA 58.881 34.615 5.47 0.00 37.85 1.75
5389 6052 6.662755 AGATCAAACTGGTTGGCATTAGATA 58.337 36.000 5.47 0.00 37.85 1.98
5391 6054 4.922206 AGATCAAACTGGTTGGCATTAGA 58.078 39.130 5.47 0.00 37.85 2.10
5394 6057 3.771216 AGAGATCAAACTGGTTGGCATT 58.229 40.909 5.47 0.00 37.85 3.56
5395 6058 3.446442 AGAGATCAAACTGGTTGGCAT 57.554 42.857 5.47 0.00 37.85 4.40
5396 6059 2.957402 AGAGATCAAACTGGTTGGCA 57.043 45.000 5.47 0.00 37.85 4.92
5397 6060 3.149196 TGAAGAGATCAAACTGGTTGGC 58.851 45.455 5.47 0.00 37.85 4.52
5440 6103 2.758423 GTGACAAGGGTTCCAAAACTGT 59.242 45.455 0.00 0.00 35.61 3.55
5467 6130 4.322101 CGACAAGTAATTTGGGACGAAG 57.678 45.455 0.00 0.00 41.25 3.79


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

AutoCloner maintained by Alex Coulton.