Multiple sequence alignment - TraesCS6B01G300200

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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 TraesCS6B01G300200 chr6B 100.000 4649 0 0 1 4649 538363580 538368228 0.000000e+00 8586.0
1 TraesCS6B01G300200 chr6B 90.909 132 11 1 2240 2371 538365692 538365822 4.780000e-40 176.0
2 TraesCS6B01G300200 chr6B 90.909 132 11 1 2113 2243 538365819 538365950 4.780000e-40 176.0
3 TraesCS6B01G300200 chr6B 100.000 47 0 0 81 127 586518757 586518803 2.300000e-13 87.9
4 TraesCS6B01G300200 chr6D 94.430 3878 119 32 1 3826 357002631 357006463 0.000000e+00 5875.0
5 TraesCS6B01G300200 chr6D 83.432 507 21 15 4176 4649 357007126 357007602 3.350000e-111 412.0
6 TraesCS6B01G300200 chr6D 84.345 313 20 16 3838 4136 357006566 357006863 3.540000e-71 279.0
7 TraesCS6B01G300200 chr6D 93.798 129 8 0 2113 2241 357004874 357005002 1.320000e-45 195.0
8 TraesCS6B01G300200 chr6D 92.126 127 9 1 2245 2371 357004752 357004877 1.330000e-40 178.0
9 TraesCS6B01G300200 chr6A 94.772 1951 70 16 1897 3826 499398876 499400815 0.000000e+00 3009.0
10 TraesCS6B01G300200 chr6A 91.444 1870 86 25 1 1821 499397031 499398875 0.000000e+00 2499.0
11 TraesCS6B01G300200 chr6A 89.619 289 17 5 1 278 499393988 499394274 5.720000e-94 355.0
12 TraesCS6B01G300200 chr6A 84.709 327 27 10 3863 4168 499400926 499401250 5.840000e-79 305.0
13 TraesCS6B01G300200 chr6A 82.507 383 28 11 4171 4541 499401407 499401762 2.720000e-77 300.0
14 TraesCS6B01G300200 chr6A 90.909 132 11 1 2240 2371 499399092 499399222 4.780000e-40 176.0
15 TraesCS6B01G300200 chr6A 90.299 134 8 1 2113 2241 499399219 499399352 2.220000e-38 171.0
16 TraesCS6B01G300200 chr6A 90.588 85 4 1 4533 4613 499401781 499401865 4.920000e-20 110.0
17 TraesCS6B01G300200 chr3D 77.536 276 39 9 3174 3427 484823068 484823342 1.350000e-30 145.0
18 TraesCS6B01G300200 chr3B 76.449 276 42 12 3174 3427 647680761 647681035 1.360000e-25 128.0
19 TraesCS6B01G300200 chr3A 76.449 276 42 12 3174 3427 627864914 627865188 1.360000e-25 128.0
20 TraesCS6B01G300200 chr2B 86.441 118 15 1 3140 3257 792990341 792990225 1.360000e-25 128.0
21 TraesCS6B01G300200 chr2D 85.833 120 12 5 3140 3257 644095603 644095719 6.320000e-24 122.0
22 TraesCS6B01G300200 chr2A 85.593 118 16 1 3140 3257 769223002 769223118 6.320000e-24 122.0
23 TraesCS6B01G300200 chr4D 88.462 78 9 0 3174 3251 89537784 89537707 1.380000e-15 95.3


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 TraesCS6B01G300200 chr6B 538363580 538368228 4648 False 2979.333333 8586 93.939333 1 4649 3 chr6B.!!$F2 4648
1 TraesCS6B01G300200 chr6D 357002631 357007602 4971 False 1387.800000 5875 89.626200 1 4649 5 chr6D.!!$F1 4648
2 TraesCS6B01G300200 chr6A 499393988 499401865 7877 False 865.625000 3009 89.355875 1 4613 8 chr6A.!!$F1 4612

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
365 3432 0.036671 ACCCCGTCTCCGTTCATTTC 60.037 55.000 0.00 0.00 0.00 2.17 F
500 3573 0.105709 GGAGGGAGAGAGGGGAGAAG 60.106 65.000 0.00 0.00 0.00 2.85 F
1591 4726 0.253044 GGCTCAGCCCATGTAAGTCA 59.747 55.000 3.37 0.00 44.06 3.41 F
1739 4876 1.453015 AAGGCGAGTTGGTGCACAA 60.453 52.632 20.43 3.78 36.54 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2262 5401 0.686789 TTCTGCTCCTGCTGCACTTA 59.313 50.0 0.0 0.0 40.48 2.24 R
2366 5510 1.356124 AGCTTGATGTGGACTGACCT 58.644 50.0 0.0 0.0 39.86 3.85 R
2648 5792 0.677731 TGCCAACATAGGTGCTGCTC 60.678 55.0 0.0 0.0 0.00 4.26 R
3701 6851 0.175302 AGAGCAGGCGAGATGAACAG 59.825 55.0 0.0 0.0 0.00 3.16 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
41 43 3.194116 CCCATGACACCTTTTCATTCCAG 59.806 47.826 0.00 0.00 30.98 3.86
42 44 4.081406 CCATGACACCTTTTCATTCCAGA 58.919 43.478 0.00 0.00 30.98 3.86
52 57 6.324770 ACCTTTTCATTCCAGAAGTTCATTGT 59.675 34.615 5.50 0.00 0.00 2.71
91 99 1.754226 TCCCAACACAAAGTGCCTTTC 59.246 47.619 0.00 0.00 36.98 2.62
117 125 3.317150 GCTTTTCACCATGTAACTTGCC 58.683 45.455 0.00 0.00 0.00 4.52
149 3207 3.699894 CCTCACCGGAGCAGCAGT 61.700 66.667 9.46 0.00 39.96 4.40
175 3233 1.739562 CACCTCAAGACCAGAGCGC 60.740 63.158 0.00 0.00 0.00 5.92
256 3323 2.515996 TTTTGGGGAGCCGCGAGTAG 62.516 60.000 8.23 0.00 0.00 2.57
257 3324 3.949885 TTGGGGAGCCGCGAGTAGA 62.950 63.158 8.23 0.00 0.00 2.59
258 3325 3.597728 GGGGAGCCGCGAGTAGAG 61.598 72.222 8.23 0.00 0.00 2.43
259 3326 2.829458 GGGAGCCGCGAGTAGAGT 60.829 66.667 8.23 0.00 0.00 3.24
260 3327 1.525535 GGGAGCCGCGAGTAGAGTA 60.526 63.158 8.23 0.00 0.00 2.59
261 3328 1.648174 GGAGCCGCGAGTAGAGTAC 59.352 63.158 8.23 0.00 0.00 2.73
262 3329 1.648174 GAGCCGCGAGTAGAGTACC 59.352 63.158 8.23 0.00 0.00 3.34
263 3330 1.077930 AGCCGCGAGTAGAGTACCA 60.078 57.895 8.23 0.00 0.00 3.25
264 3331 1.096386 AGCCGCGAGTAGAGTACCAG 61.096 60.000 8.23 0.00 0.00 4.00
265 3332 1.375098 GCCGCGAGTAGAGTACCAGT 61.375 60.000 8.23 0.00 0.00 4.00
266 3333 1.945387 CCGCGAGTAGAGTACCAGTA 58.055 55.000 8.23 0.00 0.00 2.74
365 3432 0.036671 ACCCCGTCTCCGTTCATTTC 60.037 55.000 0.00 0.00 0.00 2.17
432 3499 1.822186 ACGCCCAAACACACAGGAC 60.822 57.895 0.00 0.00 0.00 3.85
470 3543 4.569943 CGGAGAGATAGAGAGAGAAGAGG 58.430 52.174 0.00 0.00 0.00 3.69
490 3563 2.520741 GAGGGAGCGGAGGGAGAG 60.521 72.222 0.00 0.00 0.00 3.20
491 3564 3.024356 AGGGAGCGGAGGGAGAGA 61.024 66.667 0.00 0.00 0.00 3.10
492 3565 2.520741 GGGAGCGGAGGGAGAGAG 60.521 72.222 0.00 0.00 0.00 3.20
493 3566 2.520741 GGAGCGGAGGGAGAGAGG 60.521 72.222 0.00 0.00 0.00 3.69
494 3567 2.520741 GAGCGGAGGGAGAGAGGG 60.521 72.222 0.00 0.00 0.00 4.30
495 3568 4.150454 AGCGGAGGGAGAGAGGGG 62.150 72.222 0.00 0.00 0.00 4.79
496 3569 4.144727 GCGGAGGGAGAGAGGGGA 62.145 72.222 0.00 0.00 0.00 4.81
497 3570 2.197324 CGGAGGGAGAGAGGGGAG 59.803 72.222 0.00 0.00 0.00 4.30
498 3571 2.387772 CGGAGGGAGAGAGGGGAGA 61.388 68.421 0.00 0.00 0.00 3.71
499 3572 1.939082 CGGAGGGAGAGAGGGGAGAA 61.939 65.000 0.00 0.00 0.00 2.87
500 3573 0.105709 GGAGGGAGAGAGGGGAGAAG 60.106 65.000 0.00 0.00 0.00 2.85
501 3574 0.759060 GAGGGAGAGAGGGGAGAAGC 60.759 65.000 0.00 0.00 0.00 3.86
502 3575 1.228215 AGGGAGAGAGGGGAGAAGCT 61.228 60.000 0.00 0.00 0.00 3.74
503 3576 0.759060 GGGAGAGAGGGGAGAAGCTC 60.759 65.000 0.00 0.00 0.00 4.09
504 3577 0.261696 GGAGAGAGGGGAGAAGCTCT 59.738 60.000 0.00 0.00 40.22 4.09
527 3600 4.532126 TGTGGAGAAATCCAGAGCTTAGAA 59.468 41.667 0.00 0.00 41.00 2.10
638 3732 1.861575 GATCCGTTCTTGAGCCGATTC 59.138 52.381 0.00 0.00 0.00 2.52
640 3734 1.275291 TCCGTTCTTGAGCCGATTCTT 59.725 47.619 0.00 0.00 0.00 2.52
659 3753 1.518325 TTTGATTTTCTGAGCCGCGA 58.482 45.000 8.23 0.00 0.00 5.87
688 3782 1.221840 GCTTTGGATCTCGAGGCCA 59.778 57.895 19.70 19.70 0.00 5.36
736 3830 2.202388 CCTCGTTGCTGCATTGCG 60.202 61.111 1.84 9.19 35.36 4.85
828 3922 5.359756 GCCAGAAAATTCCAGTTTCTTTGT 58.640 37.500 0.00 0.00 41.47 2.83
839 3934 2.949644 AGTTTCTTTGTGTTTCTCCGGG 59.050 45.455 0.00 0.00 0.00 5.73
864 3959 2.348059 GCGTGCTTCAGATCTTTCTCAG 59.652 50.000 0.00 0.00 0.00 3.35
872 3969 7.230108 TGCTTCAGATCTTTCTCAGAAAAATGT 59.770 33.333 0.48 0.00 34.16 2.71
1374 4488 2.867109 CCAAGGATGTGGTGAAGACT 57.133 50.000 0.00 0.00 33.63 3.24
1410 4524 1.296523 AGGATCACCTTCCCCATCTCT 59.703 52.381 0.00 0.00 45.36 3.10
1525 4660 0.320771 GTGATTCTCCGGTGCAGTGT 60.321 55.000 0.00 0.00 0.00 3.55
1591 4726 0.253044 GGCTCAGCCCATGTAAGTCA 59.747 55.000 3.37 0.00 44.06 3.41
1598 4733 4.012374 CAGCCCATGTAAGTCAATCTTGT 58.988 43.478 0.00 0.00 37.56 3.16
1622 4757 2.865551 GGTTGCTTGAACACATGGTTTG 59.134 45.455 0.00 0.00 40.63 2.93
1649 4784 8.934023 AATTCCTTCTTTGTTCTGTTACCATA 57.066 30.769 0.00 0.00 0.00 2.74
1663 4798 7.436933 TCTGTTACCATAGCATCAAGATGTAG 58.563 38.462 11.35 0.54 40.80 2.74
1664 4799 7.069950 TCTGTTACCATAGCATCAAGATGTAGT 59.930 37.037 11.35 5.30 40.80 2.73
1665 4800 8.245195 TGTTACCATAGCATCAAGATGTAGTA 57.755 34.615 11.35 2.61 40.80 1.82
1706 4843 8.211629 AGTCATACTTTTCCTTGTGAGTTAGTT 58.788 33.333 0.00 0.00 0.00 2.24
1732 4869 2.397751 CCTATGCAAGGCGAGTTGG 58.602 57.895 0.00 0.00 38.97 3.77
1738 4875 2.186160 CAAGGCGAGTTGGTGCACA 61.186 57.895 20.43 1.62 0.00 4.57
1739 4876 1.453015 AAGGCGAGTTGGTGCACAA 60.453 52.632 20.43 3.78 36.54 3.33
1930 5069 9.372369 ACTACATTCCTTTAAGAAGAAGAATCG 57.628 33.333 0.00 0.00 34.71 3.34
1947 5086 9.810545 AGAAGAATCGGAAAAATAAACAACAAA 57.189 25.926 0.00 0.00 0.00 2.83
2002 5141 7.349598 ACCTTTATTGATTGCTAGTCCTGAAT 58.650 34.615 0.00 0.00 0.00 2.57
2186 5325 1.534028 CGTTGATGCGGTGCAATAAC 58.466 50.000 0.00 3.81 43.62 1.89
2262 5401 3.707102 GTCCTGGGCTACTCATTCTTAGT 59.293 47.826 0.00 0.00 0.00 2.24
2268 5412 5.051153 GGGCTACTCATTCTTAGTAAGTGC 58.949 45.833 9.71 3.60 0.00 4.40
2301 5445 5.698089 CAGAAGCTGAACTCAACTGTTGATA 59.302 40.000 22.28 9.48 34.55 2.15
2302 5446 6.370994 CAGAAGCTGAACTCAACTGTTGATAT 59.629 38.462 22.28 14.39 34.55 1.63
2648 5792 8.139521 TCATCTCTGATGATTTTTCTCATTCG 57.860 34.615 6.19 0.00 36.01 3.34
2976 6120 1.097547 ATGCACTCAATACCAGCCGC 61.098 55.000 0.00 0.00 0.00 6.53
3031 6175 0.037303 CTGGCATGGTCCACTCACTT 59.963 55.000 0.00 0.00 31.74 3.16
3082 6229 3.809279 GCAAAGGAAAGGAACCAAACATG 59.191 43.478 0.00 0.00 0.00 3.21
3169 6316 5.046014 TCTGCTTCTGAAGAATAAAGCTCCT 60.046 40.000 21.06 0.00 43.48 3.69
3262 6409 4.838486 CAGCTCGTCGCCTCGGTC 62.838 72.222 0.00 0.00 40.39 4.79
3274 6421 2.362120 TCGGTCGACCCTTCCCTC 60.362 66.667 28.52 1.35 0.00 4.30
3280 6427 4.452733 GACCCTTCCCTCGGCGTG 62.453 72.222 6.85 3.87 0.00 5.34
3630 6780 2.625790 TGATTTGGGCCAACTGTTGTAC 59.374 45.455 20.79 10.38 0.00 2.90
3701 6851 5.126067 ACATATCACTGCCTTTATGGACAC 58.874 41.667 0.00 0.00 38.35 3.67
3766 6920 2.092375 TCTCCTGCTAGCTACTACTGCA 60.092 50.000 17.23 4.73 0.00 4.41
3789 6944 2.799017 TGATGGCTGTCAGCATTTTCT 58.201 42.857 25.68 3.71 44.75 2.52
3826 6984 0.469331 TCTGTGTCGAACCTGGGAGT 60.469 55.000 0.00 0.00 0.00 3.85
3827 6985 0.393077 CTGTGTCGAACCTGGGAGTT 59.607 55.000 0.00 0.00 0.00 3.01
3861 7110 7.990541 TTGATATACAACAATCAAATGCTGC 57.009 32.000 0.00 0.00 38.74 5.25
3944 7193 2.111384 TCAGAGGAAGTACTGCCCATC 58.889 52.381 17.09 8.65 34.57 3.51
3945 7194 1.139853 CAGAGGAAGTACTGCCCATCC 59.860 57.143 17.09 9.35 0.00 3.51
3988 7251 2.357009 GTGTCCCATGCTAGCTTGATTG 59.643 50.000 27.31 16.64 0.00 2.67
3998 7261 3.623510 GCTAGCTTGATTGTAGTTCCCAC 59.376 47.826 7.70 0.00 0.00 4.61
4000 7263 4.307032 AGCTTGATTGTAGTTCCCACAT 57.693 40.909 0.00 0.00 0.00 3.21
4006 7269 6.575244 TGATTGTAGTTCCCACATATTCCT 57.425 37.500 0.00 0.00 0.00 3.36
4035 7299 7.525158 TTTAGGGGAAGTTCCAAGATATTCT 57.475 36.000 23.33 9.13 38.64 2.40
4038 7302 5.492524 AGGGGAAGTTCCAAGATATTCTGAA 59.507 40.000 23.33 0.00 38.64 3.02
4076 7342 1.376649 ATCTGCTTCCCTGGACCTTT 58.623 50.000 0.00 0.00 0.00 3.11
4077 7343 0.401738 TCTGCTTCCCTGGACCTTTG 59.598 55.000 0.00 0.00 0.00 2.77
4092 7363 5.065914 GGACCTTTGCTGCATATCTTGATA 58.934 41.667 1.84 0.00 0.00 2.15
4103 7374 5.174395 GCATATCTTGATAATCTCCGCTGT 58.826 41.667 0.00 0.00 0.00 4.40
4214 7820 1.761711 TGGGTAATCTTGGGTTCCCA 58.238 50.000 6.46 6.46 41.96 4.37
4240 7846 2.743928 GAGAAGCACCGCACCAGG 60.744 66.667 0.00 0.00 37.30 4.45
4243 7849 4.586235 AAGCACCGCACCAGGCTT 62.586 61.111 0.00 0.00 41.44 4.35
4432 8062 1.637478 GATTGAAACCCGCCGCGTAA 61.637 55.000 12.58 0.00 0.00 3.18
4456 8094 2.907407 GCCCTGGCCGCCTATTTC 60.907 66.667 11.61 0.00 34.56 2.17
4521 8164 3.702048 GGCCGTAGCACCACTCCA 61.702 66.667 0.00 0.00 42.56 3.86
4528 8171 1.621814 GTAGCACCACTCCACCTACAA 59.378 52.381 0.00 0.00 0.00 2.41
4529 8172 0.396811 AGCACCACTCCACCTACAAC 59.603 55.000 0.00 0.00 0.00 3.32
4530 8173 0.107831 GCACCACTCCACCTACAACA 59.892 55.000 0.00 0.00 0.00 3.33
4531 8174 1.271379 GCACCACTCCACCTACAACAT 60.271 52.381 0.00 0.00 0.00 2.71
4613 8284 5.250543 TCCTTGACCTCTGAATTTACATGGA 59.749 40.000 0.00 0.00 0.00 3.41
4614 8285 5.945784 CCTTGACCTCTGAATTTACATGGAA 59.054 40.000 0.00 0.00 0.00 3.53
4615 8286 6.604795 CCTTGACCTCTGAATTTACATGGAAT 59.395 38.462 0.00 0.00 0.00 3.01
4616 8287 7.201767 CCTTGACCTCTGAATTTACATGGAATC 60.202 40.741 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 11 0.996583 GTGTCATGGGGTTTAGGGGA 59.003 55.000 0.00 0.00 0.00 4.81
91 99 4.074970 AGTTACATGGTGAAAAGCCTCTG 58.925 43.478 0.00 0.00 0.00 3.35
117 125 1.302832 GAGGTGAGGTGGTTGCAGG 60.303 63.158 0.00 0.00 0.00 4.85
149 3207 1.056660 GGTCTTGAGGTGAGGTTGGA 58.943 55.000 0.00 0.00 0.00 3.53
263 3330 2.487265 CCTTTCAAGGTGTGCAGGTACT 60.487 50.000 0.00 0.00 41.41 2.73
264 3331 1.880027 CCTTTCAAGGTGTGCAGGTAC 59.120 52.381 0.00 0.00 41.41 3.34
265 3332 2.270352 CCTTTCAAGGTGTGCAGGTA 57.730 50.000 0.00 0.00 41.41 3.08
266 3333 3.116091 CCTTTCAAGGTGTGCAGGT 57.884 52.632 0.00 0.00 41.41 4.00
365 3432 2.486663 GGGCCGCGGGGAAATAAAG 61.487 63.158 29.38 0.00 34.06 1.85
432 3499 2.814341 CGCTGCAGCTCCTGTGAG 60.814 66.667 34.22 14.00 41.84 3.51
470 3543 4.144727 TCCCTCCGCTCCCTCTCC 62.145 72.222 0.00 0.00 0.00 3.71
490 3563 0.616111 TCCACAGAGCTTCTCCCCTC 60.616 60.000 0.00 0.00 0.00 4.30
491 3564 0.617249 CTCCACAGAGCTTCTCCCCT 60.617 60.000 0.00 0.00 32.13 4.79
492 3565 0.616111 TCTCCACAGAGCTTCTCCCC 60.616 60.000 0.00 0.00 40.22 4.81
493 3566 1.270907 TTCTCCACAGAGCTTCTCCC 58.729 55.000 0.00 0.00 40.22 4.30
494 3567 3.530535 GATTTCTCCACAGAGCTTCTCC 58.469 50.000 0.00 0.00 40.22 3.71
495 3568 3.055530 TGGATTTCTCCACAGAGCTTCTC 60.056 47.826 0.00 0.00 46.95 2.87
496 3569 2.909006 TGGATTTCTCCACAGAGCTTCT 59.091 45.455 0.00 0.00 46.95 2.85
497 3570 3.055530 TCTGGATTTCTCCACAGAGCTTC 60.056 47.826 0.00 0.00 46.95 3.86
498 3571 2.909006 TCTGGATTTCTCCACAGAGCTT 59.091 45.455 0.00 0.00 46.95 3.74
499 3572 2.500910 CTCTGGATTTCTCCACAGAGCT 59.499 50.000 7.50 0.00 46.95 4.09
500 3573 2.903798 CTCTGGATTTCTCCACAGAGC 58.096 52.381 7.50 0.00 46.95 4.09
502 3575 2.544721 AGCTCTGGATTTCTCCACAGA 58.455 47.619 1.62 0.00 46.95 3.41
503 3576 3.347077 AAGCTCTGGATTTCTCCACAG 57.653 47.619 0.00 0.00 46.95 3.66
504 3577 4.096681 TCTAAGCTCTGGATTTCTCCACA 58.903 43.478 0.00 0.00 46.95 4.17
527 3600 3.144193 CCTCGCTCGCCTTCCTCT 61.144 66.667 0.00 0.00 0.00 3.69
638 3732 2.095768 TCGCGGCTCAGAAAATCAAAAG 60.096 45.455 6.13 0.00 0.00 2.27
640 3734 1.518325 TCGCGGCTCAGAAAATCAAA 58.482 45.000 6.13 0.00 0.00 2.69
688 3782 2.893398 GAGGATTCACGCTCGGGT 59.107 61.111 0.00 0.00 0.00 5.28
717 3811 2.956194 CAATGCAGCAACGAGGCA 59.044 55.556 0.00 0.00 42.43 4.75
736 3830 2.134933 GTCCGGATCTGGGGAGGAC 61.135 68.421 20.82 7.16 43.55 3.85
795 3889 3.056891 GGAATTTTCTGGCGAATTGGTGA 60.057 43.478 0.00 0.00 0.00 4.02
797 3891 2.896685 TGGAATTTTCTGGCGAATTGGT 59.103 40.909 0.00 0.00 0.00 3.67
799 3893 4.178545 ACTGGAATTTTCTGGCGAATTG 57.821 40.909 0.00 0.00 0.00 2.32
839 3934 3.567797 GATCTGAAGCACGCGGCC 61.568 66.667 12.47 0.00 46.50 6.13
864 3959 7.041440 CCCCAACTAAACAAATGGACATTTTTC 60.041 37.037 7.51 0.00 38.84 2.29
872 3969 5.586155 TCTACCCCAACTAAACAAATGGA 57.414 39.130 0.00 0.00 34.82 3.41
1374 4488 2.346541 CCTGCTGCACTCCTCGAGA 61.347 63.158 15.71 0.00 33.32 4.04
1525 4660 0.771127 CCCTGTCCCTCCTCACAAAA 59.229 55.000 0.00 0.00 0.00 2.44
1591 4726 3.953612 TGTTCAAGCAACCAGACAAGATT 59.046 39.130 0.00 0.00 33.51 2.40
1598 4733 1.955778 CCATGTGTTCAAGCAACCAGA 59.044 47.619 0.00 0.00 33.51 3.86
1622 4757 6.264518 TGGTAACAGAACAAAGAAGGAATTCC 59.735 38.462 17.31 17.31 46.17 3.01
1706 4843 1.675714 CGCCTTGCATAGGTCAGTCAA 60.676 52.381 14.04 0.00 46.61 3.18
1730 4867 9.853555 CACTAAATAGAATAAATTTGTGCACCA 57.146 29.630 15.69 0.00 0.00 4.17
1846 4985 3.434024 CCCATGAGTGCACAGGAATATGA 60.434 47.826 21.04 0.00 0.00 2.15
1947 5086 1.285078 GTGGGGAAGCCCTTAGATTGT 59.715 52.381 2.01 0.00 44.66 2.71
2002 5141 3.814504 AGCTCCCTTCTCAATTTGGAA 57.185 42.857 0.00 0.00 0.00 3.53
2182 5321 8.272173 TGCCTAGCTTATTCTGGTAAAAGTTAT 58.728 33.333 0.00 0.00 0.00 1.89
2186 5325 6.073548 CGATGCCTAGCTTATTCTGGTAAAAG 60.074 42.308 0.00 0.00 0.00 2.27
2262 5401 0.686789 TTCTGCTCCTGCTGCACTTA 59.313 50.000 0.00 0.00 40.48 2.24
2294 5438 9.593134 GGTAAAAATTAATGCACCATATCAACA 57.407 29.630 0.00 0.00 0.00 3.33
2322 5466 7.215719 ACTGCACACGATATCTAGCTTATTA 57.784 36.000 0.00 0.00 0.00 0.98
2366 5510 1.356124 AGCTTGATGTGGACTGACCT 58.644 50.000 0.00 0.00 39.86 3.85
2648 5792 0.677731 TGCCAACATAGGTGCTGCTC 60.678 55.000 0.00 0.00 0.00 4.26
2976 6120 2.753966 CCGCCTTCCTGAATGCACG 61.754 63.158 7.71 0.00 32.54 5.34
3031 6175 0.828022 AGGTGGACACTTGTTCGTCA 59.172 50.000 2.13 0.00 33.66 4.35
3082 6229 2.416893 GAGGCTTGTTGACGAGAATTCC 59.583 50.000 0.65 0.00 0.00 3.01
3289 6436 1.008206 AGGATCACCTTCTCCTGCTCT 59.992 52.381 0.00 0.00 45.36 4.09
3361 6508 4.681978 GCCTGGAACGCCGACAGT 62.682 66.667 0.00 0.00 36.79 3.55
3630 6780 5.233476 ACAACAATAATACATACCAGTCGCG 59.767 40.000 0.00 0.00 0.00 5.87
3701 6851 0.175302 AGAGCAGGCGAGATGAACAG 59.825 55.000 0.00 0.00 0.00 3.16
3756 6910 4.194640 ACAGCCATCAATTGCAGTAGTAG 58.805 43.478 0.00 0.00 0.00 2.57
3757 6911 4.191544 GACAGCCATCAATTGCAGTAGTA 58.808 43.478 0.00 0.00 0.00 1.82
3758 6912 3.012518 GACAGCCATCAATTGCAGTAGT 58.987 45.455 0.00 0.00 0.00 2.73
3766 6920 4.222145 AGAAAATGCTGACAGCCATCAATT 59.778 37.500 24.33 13.69 41.51 2.32
3789 6944 3.244422 ACAGATCCTAGAAAACGTGGCAA 60.244 43.478 0.00 0.00 0.00 4.52
3841 7090 6.601217 TGTAGGCAGCATTTGATTGTTGTATA 59.399 34.615 0.00 0.00 31.24 1.47
3857 7106 3.399330 TCAGTTTACACTTGTAGGCAGC 58.601 45.455 0.00 0.00 0.00 5.25
3858 7107 6.649141 TGTAATCAGTTTACACTTGTAGGCAG 59.351 38.462 0.58 0.00 44.08 4.85
3859 7108 6.526526 TGTAATCAGTTTACACTTGTAGGCA 58.473 36.000 0.58 0.00 44.08 4.75
3860 7109 6.872020 TCTGTAATCAGTTTACACTTGTAGGC 59.128 38.462 0.58 0.00 44.08 3.93
3861 7110 9.436957 AATCTGTAATCAGTTTACACTTGTAGG 57.563 33.333 0.58 0.00 44.08 3.18
3981 7244 7.056635 AGGAATATGTGGGAACTACAATCAAG 58.943 38.462 0.00 0.00 0.00 3.02
4035 7299 9.276590 CAGATATGCAAGATAAACCACTATTCA 57.723 33.333 0.00 0.00 0.00 2.57
4038 7302 7.456725 AGCAGATATGCAAGATAAACCACTAT 58.543 34.615 15.82 0.00 37.25 2.12
4076 7342 5.173664 CGGAGATTATCAAGATATGCAGCA 58.826 41.667 0.00 0.00 0.00 4.41
4077 7343 4.033817 GCGGAGATTATCAAGATATGCAGC 59.966 45.833 0.00 0.00 0.00 5.25
4092 7363 1.333636 CCCCTCAGACAGCGGAGATT 61.334 60.000 0.00 0.00 38.43 2.40
4168 7618 4.163458 AGCAATCTGGTTCGAGGGTTATTA 59.837 41.667 0.00 0.00 0.00 0.98
4174 7778 1.373570 GAAGCAATCTGGTTCGAGGG 58.626 55.000 3.11 0.00 43.62 4.30
4236 7842 3.058160 CTTCGTGCCCAAGCCTGG 61.058 66.667 0.00 0.00 43.10 4.45
4240 7846 0.733909 GAAATGCTTCGTGCCCAAGC 60.734 55.000 4.78 4.78 45.59 4.01
4241 7847 0.109132 GGAAATGCTTCGTGCCCAAG 60.109 55.000 1.30 0.00 42.00 3.61
4242 7848 0.825425 TGGAAATGCTTCGTGCCCAA 60.825 50.000 1.30 0.00 42.00 4.12
4243 7849 0.825425 TTGGAAATGCTTCGTGCCCA 60.825 50.000 1.30 0.00 42.00 5.36
4244 7850 0.388520 GTTGGAAATGCTTCGTGCCC 60.389 55.000 1.30 0.00 42.00 5.36
4245 7851 0.598065 AGTTGGAAATGCTTCGTGCC 59.402 50.000 1.30 0.00 42.00 5.01
4246 7852 1.401539 GGAGTTGGAAATGCTTCGTGC 60.402 52.381 0.00 0.00 43.25 5.34
4247 7853 1.135972 CGGAGTTGGAAATGCTTCGTG 60.136 52.381 0.00 0.00 31.77 4.35
4248 7854 1.156736 CGGAGTTGGAAATGCTTCGT 58.843 50.000 0.00 0.00 31.77 3.85
4249 7855 1.156736 ACGGAGTTGGAAATGCTTCG 58.843 50.000 0.00 0.00 37.78 3.79
4316 7926 4.796495 GGGGATCACCACGCCACC 62.796 72.222 9.87 0.00 42.91 4.61
4322 7932 3.400599 ATTCGGCGGGGATCACCAC 62.401 63.158 16.00 3.53 42.91 4.16
4323 7933 3.087253 ATTCGGCGGGGATCACCA 61.087 61.111 16.00 0.00 42.91 4.17
4324 7934 2.280865 GATTCGGCGGGGATCACC 60.281 66.667 2.96 2.96 39.11 4.02
4325 7935 0.880718 GAAGATTCGGCGGGGATCAC 60.881 60.000 7.21 0.00 0.00 3.06
4453 8091 3.330998 GGGAAGAGGGAGGAAGAAAGAAA 59.669 47.826 0.00 0.00 0.00 2.52
4454 8092 2.913617 GGGAAGAGGGAGGAAGAAAGAA 59.086 50.000 0.00 0.00 0.00 2.52
4455 8093 2.552367 GGGAAGAGGGAGGAAGAAAGA 58.448 52.381 0.00 0.00 0.00 2.52
4456 8094 1.562008 GGGGAAGAGGGAGGAAGAAAG 59.438 57.143 0.00 0.00 0.00 2.62
4521 8164 2.188817 GTCCTCCTCCATGTTGTAGGT 58.811 52.381 0.00 0.00 0.00 3.08
4528 8171 0.339859 TGGCTAGTCCTCCTCCATGT 59.660 55.000 0.00 0.00 35.26 3.21
4529 8172 1.047002 CTGGCTAGTCCTCCTCCATG 58.953 60.000 0.00 0.00 35.26 3.66
4530 8173 0.762461 GCTGGCTAGTCCTCCTCCAT 60.762 60.000 0.00 0.00 35.26 3.41
4531 8174 1.381872 GCTGGCTAGTCCTCCTCCA 60.382 63.158 0.00 0.00 35.26 3.86
4613 8284 4.952262 CATGTGTTTCTCGTCATGGATT 57.048 40.909 0.00 0.00 35.47 3.01


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

AutoCloner maintained by Alex Coulton.