Multiple sequence alignment - TraesCS5B01G423200

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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 TraesCS5B01G423200 chr5B 100.000 4772 0 0 1 4772 599656314 599651543 0.000000e+00 8813.0
1 TraesCS5B01G423200 chr5D 94.614 4846 151 41 1 4772 487291675 487286866 0.000000e+00 7402.0
2 TraesCS5B01G423200 chr5A 94.761 2825 113 13 204 3019 607684098 607681300 0.000000e+00 4364.0
3 TraesCS5B01G423200 chr5A 87.697 1463 101 32 3043 4473 607681314 607679899 0.000000e+00 1631.0
4 TraesCS5B01G423200 chr5A 82.727 220 25 5 4560 4772 607679844 607679631 2.930000e-42 183.0
5 TraesCS5B01G423200 chr1A 85.000 440 41 17 8 441 121136524 121136104 1.590000e-114 424.0
6 TraesCS5B01G423200 chr4B 84.946 372 38 11 8 377 187734521 187734166 1.260000e-95 361.0
7 TraesCS5B01G423200 chr2B 85.061 328 35 11 1 328 489351715 489352028 5.960000e-84 322.0
8 TraesCS5B01G423200 chr7D 85.714 126 11 4 307 426 590518835 590518711 5.010000e-25 126.0
9 TraesCS5B01G423200 chr4A 85.000 120 18 0 333 452 446607085 446607204 6.490000e-24 122.0
10 TraesCS5B01G423200 chr6B 87.356 87 10 1 282 368 505705736 505705821 1.090000e-16 99.0
11 TraesCS5B01G423200 chr7B 86.207 87 11 1 282 368 558893635 558893550 5.080000e-15 93.5


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 TraesCS5B01G423200 chr5B 599651543 599656314 4771 True 8813.000000 8813 100.000 1 4772 1 chr5B.!!$R1 4771
1 TraesCS5B01G423200 chr5D 487286866 487291675 4809 True 7402.000000 7402 94.614 1 4772 1 chr5D.!!$R1 4771
2 TraesCS5B01G423200 chr5A 607679631 607684098 4467 True 2059.333333 4364 88.395 204 4772 3 chr5A.!!$R1 4568

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
570 571 1.835483 CTCAACTGTGCCACGCTGAC 61.835 60.000 0.0 0.0 0.0 3.51 F
1155 1170 0.846427 TTGGGAGAGGGGACAGCATT 60.846 55.000 0.0 0.0 0.0 3.56 F
1674 1689 1.073284 ACTGGTTGTGGGGTATGTGAC 59.927 52.381 0.0 0.0 0.0 3.67 F
2872 2888 2.277084 GACTGGTATGTAAACTGCCGG 58.723 52.381 0.0 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2047 2062 2.911723 CGTCTGTAGAACAAGAGCGAAG 59.088 50.000 0.0 0.0 0.00 3.79 R
2984 3000 2.006888 CTACATCGTGAACCGGCAAAT 58.993 47.619 0.0 0.0 37.11 2.32 R
3429 3470 2.002586 CTGAAGACACCGTTAGCATGG 58.997 52.381 0.0 0.0 34.78 3.66 R
4595 4695 0.039165 CAAGTTCCTCAAAAGCGGCC 60.039 55.000 0.0 0.0 0.00 6.13 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
43 44 7.010160 AGGTAAGTTTCTTTGATTCATTCCCA 58.990 34.615 0.00 0.00 0.00 4.37
50 51 8.929746 GTTTCTTTGATTCATTCCCAATTTCTC 58.070 33.333 0.00 0.00 0.00 2.87
86 87 4.635223 TGCCTATTCATCTGTCAGTATGC 58.365 43.478 0.00 0.00 34.76 3.14
278 279 3.507233 TCTCCAAGCTTTTGTAATGGCTG 59.493 43.478 0.00 0.00 35.08 4.85
503 504 6.183360 CGGATGGATCGACTGCTATCTTAATA 60.183 42.308 0.00 0.00 0.00 0.98
504 505 7.548097 GGATGGATCGACTGCTATCTTAATAA 58.452 38.462 0.00 0.00 0.00 1.40
505 506 8.200792 GGATGGATCGACTGCTATCTTAATAAT 58.799 37.037 0.00 0.00 0.00 1.28
553 554 2.490991 AGGTTCAGTTTACGGTTGCTC 58.509 47.619 0.00 0.00 0.00 4.26
570 571 1.835483 CTCAACTGTGCCACGCTGAC 61.835 60.000 0.00 0.00 0.00 3.51
584 585 5.929992 GCCACGCTGACCTTATGTTATAATA 59.070 40.000 0.00 0.00 0.00 0.98
617 618 9.997172 AGAAAGATAACCATTAAAGGGAGAATT 57.003 29.630 1.17 0.00 0.00 2.17
699 707 3.806625 AATCAACTGCAGTGCAAAAGT 57.193 38.095 22.49 11.04 38.41 2.66
757 766 5.350504 TGATTCAAACAAATGTTGGTGGT 57.649 34.783 0.00 0.00 38.44 4.16
814 829 3.934457 AAAACAGAAAATACCAGGGCG 57.066 42.857 0.00 0.00 0.00 6.13
870 885 7.093640 TGTCTAGGTTACGACCAGACATAATTT 60.094 37.037 18.34 0.00 46.80 1.82
887 902 6.650390 ACATAATTTGTGTCTTGCCCAAATTC 59.350 34.615 11.53 0.00 43.78 2.17
896 911 3.953612 TCTTGCCCAAATTCGCTTCATAT 59.046 39.130 0.00 0.00 0.00 1.78
1134 1149 2.158534 TGGTGTATGGCAAAGAAGTGGT 60.159 45.455 0.00 0.00 0.00 4.16
1155 1170 0.846427 TTGGGAGAGGGGACAGCATT 60.846 55.000 0.00 0.00 0.00 3.56
1296 1311 1.134699 CCATGTGATGCGGAGTACACT 60.135 52.381 11.34 0.00 34.81 3.55
1606 1621 6.549736 TGCAGACAAGTATATAGACCAGCTTA 59.450 38.462 0.00 0.00 0.00 3.09
1674 1689 1.073284 ACTGGTTGTGGGGTATGTGAC 59.927 52.381 0.00 0.00 0.00 3.67
1693 1708 6.287525 TGTGACTGTCTCATTGTTGAATACA 58.712 36.000 9.51 0.00 34.12 2.29
1817 1832 7.158021 ACCTGTTGAAGAAAAATGTTTTGACA 58.842 30.769 0.00 0.00 0.00 3.58
2047 2062 6.659242 TGGTCTCCATAAAAATTCTGAACCTC 59.341 38.462 0.00 0.00 0.00 3.85
2440 2455 7.067494 ACTGTTCTAGCTTTGTCTTCAATTTGT 59.933 33.333 0.00 0.00 33.32 2.83
2872 2888 2.277084 GACTGGTATGTAAACTGCCGG 58.723 52.381 0.00 0.00 0.00 6.13
2984 3000 5.163943 GCTTTTCGCAACAAACCTTTTTACA 60.164 36.000 0.00 0.00 38.92 2.41
3139 3160 6.650807 GTGTGTGAAGATAGAAGGATGTGAAA 59.349 38.462 0.00 0.00 0.00 2.69
3167 3188 7.667043 TCATTAAAATCTTCGTGTGCTAACT 57.333 32.000 0.00 0.00 0.00 2.24
3213 3251 4.398319 TCACCTGGGAAACTCTTCAATTC 58.602 43.478 0.00 0.00 32.75 2.17
3241 3279 6.311935 GCTGTTGTTAAATGATGATGTGCATT 59.688 34.615 0.00 0.00 37.34 3.56
3284 3322 4.037446 TGCTTTTGGAAATACGAGTTTGCT 59.963 37.500 0.00 0.00 31.59 3.91
3346 3387 3.211045 AGTTGCCGAGAAGCTTGTTTTA 58.789 40.909 2.10 0.00 0.00 1.52
3429 3470 3.392616 ACCCAAGGACATATGACCTCATC 59.607 47.826 24.10 3.91 39.21 2.92
3525 3566 7.307396 CGGTAGAACTTGTTGGCTGATATTATG 60.307 40.741 0.00 0.00 0.00 1.90
3532 3573 7.776969 ACTTGTTGGCTGATATTATGTGATCTT 59.223 33.333 0.00 0.00 0.00 2.40
3621 3669 3.183754 CGCAGTTATAATCCGTGACACA 58.816 45.455 6.37 0.00 0.00 3.72
3627 3675 6.535150 CAGTTATAATCCGTGACACAGTTGAT 59.465 38.462 6.37 0.00 0.00 2.57
3677 3725 3.558674 CCATGAGGTGGGAGACAAC 57.441 57.895 0.00 0.00 44.79 3.32
3811 3859 4.274147 TCTCGCTTCTCTTCAGGATAACT 58.726 43.478 0.00 0.00 0.00 2.24
3820 3868 5.548056 TCTCTTCAGGATAACTTTTGTCCCT 59.452 40.000 0.00 0.00 41.44 4.20
3851 3899 3.671459 TCGTTGCAAGTACACATTAGACG 59.329 43.478 0.00 0.00 0.00 4.18
3894 3945 3.070018 CAAGCCAGTGACAAACTAGAGG 58.930 50.000 0.00 0.00 36.83 3.69
3895 3946 2.609747 AGCCAGTGACAAACTAGAGGA 58.390 47.619 0.00 0.00 36.83 3.71
3896 3947 2.564947 AGCCAGTGACAAACTAGAGGAG 59.435 50.000 0.00 0.00 36.83 3.69
3897 3948 2.563179 GCCAGTGACAAACTAGAGGAGA 59.437 50.000 0.00 0.00 36.83 3.71
3898 3949 3.367910 GCCAGTGACAAACTAGAGGAGAG 60.368 52.174 0.00 0.00 36.83 3.20
3899 3950 3.829601 CCAGTGACAAACTAGAGGAGAGT 59.170 47.826 0.00 0.00 36.83 3.24
3900 3951 5.010933 CCAGTGACAAACTAGAGGAGAGTA 58.989 45.833 0.00 0.00 36.83 2.59
3901 3952 5.477291 CCAGTGACAAACTAGAGGAGAGTAA 59.523 44.000 0.00 0.00 36.83 2.24
3979 4030 8.963130 TGCTGTATTCTTGTTTATTTTTGTTCG 58.037 29.630 0.00 0.00 0.00 3.95
4004 4055 9.694520 CGTGTTGTATCTTAGAAATTCATGAAG 57.305 33.333 14.54 0.00 0.00 3.02
4148 4216 3.325753 GCTGCCCTCCACCTGTCT 61.326 66.667 0.00 0.00 0.00 3.41
4179 4247 1.270147 CCAGCGGCCAGGTAGTAATAC 60.270 57.143 2.24 0.00 0.00 1.89
4264 4334 1.800315 GACGACGACACCCGACATG 60.800 63.158 0.00 0.00 41.76 3.21
4265 4335 2.191354 GACGACGACACCCGACATGA 62.191 60.000 0.00 0.00 41.76 3.07
4267 4337 0.457853 CGACGACACCCGACATGAAT 60.458 55.000 0.00 0.00 41.76 2.57
4368 4455 0.535335 GACCAACGTAGAGGCCATCA 59.465 55.000 5.01 0.00 0.00 3.07
4384 4471 2.621998 CCATCATCTCCAATCACAAGGC 59.378 50.000 0.00 0.00 0.00 4.35
4387 4474 2.092753 TCATCTCCAATCACAAGGCCTC 60.093 50.000 5.23 0.00 0.00 4.70
4404 4491 2.677902 GCCTCGGTGATGTTGAAGATGA 60.678 50.000 0.00 0.00 0.00 2.92
4435 4522 1.817099 GGAGCTCCGGCAAGACATG 60.817 63.158 19.06 0.00 41.70 3.21
4451 4538 0.254178 CATGGGTACTGCTCCAGCTT 59.746 55.000 0.00 0.00 42.66 3.74
4491 4586 6.615088 TCTTTCTTGCAGCACTCATAATTTC 58.385 36.000 0.00 0.00 0.00 2.17
4498 4593 5.824429 GCAGCACTCATAATTTCTGCATAA 58.176 37.500 7.10 0.00 44.36 1.90
4514 4609 7.615582 TCTGCATAAACTTGTAAATCCTCTG 57.384 36.000 0.00 0.00 0.00 3.35
4517 4613 6.599244 TGCATAAACTTGTAAATCCTCTGGAG 59.401 38.462 0.00 0.00 34.05 3.86
4527 4623 2.859165 TCCTCTGGAGCGAACAATTT 57.141 45.000 0.00 0.00 0.00 1.82
4534 4630 5.972935 TCTGGAGCGAACAATTTATGACTA 58.027 37.500 0.00 0.00 0.00 2.59
4535 4631 6.042777 TCTGGAGCGAACAATTTATGACTAG 58.957 40.000 0.00 0.00 0.00 2.57
4537 4633 4.570772 GGAGCGAACAATTTATGACTAGCA 59.429 41.667 0.00 0.00 0.00 3.49
4542 4638 5.276395 CGAACAATTTATGACTAGCACCTCG 60.276 44.000 0.00 0.00 0.00 4.63
4549 4645 0.171455 GACTAGCACCTCGACTGTGG 59.829 60.000 11.22 0.04 34.27 4.17
4550 4646 0.539901 ACTAGCACCTCGACTGTGGT 60.540 55.000 16.46 16.46 45.54 4.16
4551 4647 0.603569 CTAGCACCTCGACTGTGGTT 59.396 55.000 17.19 0.00 41.32 3.67
4553 4649 0.532862 AGCACCTCGACTGTGGTTTG 60.533 55.000 8.75 0.00 41.32 2.93
4555 4651 1.539496 GCACCTCGACTGTGGTTTGTA 60.539 52.381 11.22 0.00 39.92 2.41
4556 4652 2.828877 CACCTCGACTGTGGTTTGTAA 58.171 47.619 2.98 0.00 39.92 2.41
4557 4653 2.800544 CACCTCGACTGTGGTTTGTAAG 59.199 50.000 2.98 0.00 39.92 2.34
4558 4654 1.798813 CCTCGACTGTGGTTTGTAAGC 59.201 52.381 0.00 0.00 0.00 3.09
4559 4655 2.479837 CTCGACTGTGGTTTGTAAGCA 58.520 47.619 0.00 0.00 36.38 3.91
4565 4665 7.718525 TCGACTGTGGTTTGTAAGCATATATA 58.281 34.615 0.00 0.00 41.44 0.86
4573 4673 9.806448 TGGTTTGTAAGCATATATATTGACCAT 57.194 29.630 0.00 0.00 33.29 3.55
4614 4714 0.039165 GGCCGCTTTTGAGGAACTTG 60.039 55.000 0.00 0.00 41.55 3.16
4633 4740 7.917505 GGAACTTGAGCCTAATTATTGTTGATG 59.082 37.037 0.00 0.00 0.00 3.07
4662 4769 9.450807 CTTTGTCCTTGTGTTTGAACTAATTAG 57.549 33.333 11.05 11.05 0.00 1.73
4668 4775 6.909550 TGTGTTTGAACTAATTAGGCCAAT 57.090 33.333 16.73 0.00 0.00 3.16
4669 4776 7.296628 TGTGTTTGAACTAATTAGGCCAATT 57.703 32.000 16.73 11.64 40.10 2.32
4670 4777 8.410673 TGTGTTTGAACTAATTAGGCCAATTA 57.589 30.769 16.73 12.16 37.93 1.40
4700 4807 8.754230 TCAAGCTAATTATCATCATTCTCTCG 57.246 34.615 0.00 0.00 0.00 4.04
4710 4817 4.281941 TCATCATTCTCTCGATTAGGGTGG 59.718 45.833 0.00 0.00 0.00 4.61
4716 4823 0.462047 CTCGATTAGGGTGGTGTGGC 60.462 60.000 0.00 0.00 0.00 5.01
4718 4825 2.045340 ATTAGGGTGGTGTGGCGC 60.045 61.111 0.00 0.00 0.00 6.53
4753 4860 2.662156 GCGGTCGAAAACAAGACTAGAG 59.338 50.000 0.00 0.00 37.52 2.43
4756 4863 3.554337 GGTCGAAAACAAGACTAGAGCCA 60.554 47.826 0.00 0.00 37.52 4.75
4766 4873 3.622630 AGACTAGAGCCATCGTACTTGT 58.377 45.455 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 6.894103 AGGCAATGACCTAAATGAGAGAAATT 59.106 34.615 0.00 0.00 38.67 1.82
50 51 7.664731 AGATGAATAGGCAATGACCTAAATGAG 59.335 37.037 7.35 0.00 45.35 2.90
86 87 6.535865 TGGTTTATTTATGCTACCACAGTACG 59.464 38.462 0.00 0.00 34.13 3.67
427 428 1.799933 AACAAATTGTTGGGCAGGGA 58.200 45.000 10.91 0.00 39.45 4.20
428 429 2.220313 CAAACAAATTGTTGGGCAGGG 58.780 47.619 12.50 0.00 40.14 4.45
503 504 9.720667 GTTCTTTGCAATTTGCTTTTCTTAATT 57.279 25.926 21.19 0.00 45.31 1.40
504 505 8.344831 GGTTCTTTGCAATTTGCTTTTCTTAAT 58.655 29.630 21.19 0.00 45.31 1.40
505 506 7.552330 AGGTTCTTTGCAATTTGCTTTTCTTAA 59.448 29.630 21.19 3.71 45.31 1.85
510 511 6.260714 CCTAAGGTTCTTTGCAATTTGCTTTT 59.739 34.615 21.19 7.42 45.31 2.27
553 554 2.633657 GTCAGCGTGGCACAGTTG 59.366 61.111 19.09 17.14 41.80 3.16
757 766 7.039993 TGACTATGTAACTTCTCAGTGTAGCAA 60.040 37.037 0.00 0.00 31.60 3.91
814 829 8.024145 TCCTCAGTTAAGGGATTATTCTCTTC 57.976 38.462 3.02 0.00 38.32 2.87
870 885 0.313672 GCGAATTTGGGCAAGACACA 59.686 50.000 0.00 0.00 0.00 3.72
1134 1149 1.065410 TGCTGTCCCCTCTCCCAAAA 61.065 55.000 0.00 0.00 0.00 2.44
1155 1170 1.672030 CTCATTCACCACAGCCGCA 60.672 57.895 0.00 0.00 0.00 5.69
1296 1311 2.672961 CCTCGCAAGGAGTGTAATCA 57.327 50.000 0.00 0.00 46.67 2.57
1576 1591 5.279056 GGTCTATATACTTGTCTGCACCCTC 60.279 48.000 0.00 0.00 0.00 4.30
1606 1621 5.396436 CCTCGGTAATTGGGATAACAGAAGT 60.396 44.000 0.00 0.00 0.00 3.01
1674 1689 7.416817 TGTTTGTGTATTCAACAATGAGACAG 58.583 34.615 0.00 0.00 40.63 3.51
1693 1708 7.122501 TGTGGTTATCATTGAGCATATGTTTGT 59.877 33.333 4.29 0.00 0.00 2.83
1817 1832 6.757897 TTATCTTTTGGAGCGAATGACATT 57.242 33.333 0.00 0.00 0.00 2.71
2033 2048 4.646572 AGAGCGAAGAGGTTCAGAATTTT 58.353 39.130 0.00 0.00 32.36 1.82
2047 2062 2.911723 CGTCTGTAGAACAAGAGCGAAG 59.088 50.000 0.00 0.00 0.00 3.79
2872 2888 4.775236 AGTATGAAACCAGGAGAGCAATC 58.225 43.478 0.00 0.00 0.00 2.67
2973 2989 4.141914 TGAACCGGCAAATGTAAAAAGGTT 60.142 37.500 0.00 0.00 42.62 3.50
2984 3000 2.006888 CTACATCGTGAACCGGCAAAT 58.993 47.619 0.00 0.00 37.11 2.32
3096 3117 5.468409 CACACACAACAATACATGAGTACCA 59.532 40.000 0.00 0.00 31.96 3.25
3213 3251 5.284424 CACATCATCATTTAACAACAGCACG 59.716 40.000 0.00 0.00 0.00 5.34
3241 3279 3.806521 GCACAACAACAAATACATGGCAA 59.193 39.130 0.00 0.00 0.00 4.52
3284 3322 5.604758 AGAAGTAGAACTGCTGCATATCA 57.395 39.130 1.31 0.00 31.34 2.15
3429 3470 2.002586 CTGAAGACACCGTTAGCATGG 58.997 52.381 0.00 0.00 34.78 3.66
3621 3669 4.074970 CCACCTTTACAAGAGCATCAACT 58.925 43.478 0.00 0.00 37.82 3.16
3627 3675 4.431416 TTTCTCCACCTTTACAAGAGCA 57.569 40.909 0.00 0.00 0.00 4.26
3811 3859 1.452145 GAACGCTGCCAGGGACAAAA 61.452 55.000 16.43 0.00 31.91 2.44
3820 3868 3.179869 CTTGCAACGAACGCTGCCA 62.180 57.895 17.47 7.90 36.48 4.92
3851 3899 2.987821 GTTCTTCAGTTCTCTACACGCC 59.012 50.000 0.00 0.00 0.00 5.68
4004 4055 2.485814 GGAAACAGCAATGTCTCTCCAC 59.514 50.000 0.00 0.00 0.00 4.02
4179 4247 3.008375 CCCATGGGTGATGTCCACTATAG 59.992 52.174 23.93 0.00 45.03 1.31
4221 4291 3.710722 AGCCTCCGCTCACCTTGG 61.711 66.667 0.00 0.00 43.95 3.61
4259 4329 6.149633 GGGGCGTATCAAAAATATTCATGTC 58.850 40.000 0.00 0.00 0.00 3.06
4261 4331 6.083098 TGGGGCGTATCAAAAATATTCATG 57.917 37.500 0.00 0.00 0.00 3.07
4264 4334 4.558697 GCCTGGGGCGTATCAAAAATATTC 60.559 45.833 0.00 0.00 39.62 1.75
4265 4335 3.320826 GCCTGGGGCGTATCAAAAATATT 59.679 43.478 0.00 0.00 39.62 1.28
4267 4337 2.303175 GCCTGGGGCGTATCAAAAATA 58.697 47.619 0.00 0.00 39.62 1.40
4368 4455 1.134280 CGAGGCCTTGTGATTGGAGAT 60.134 52.381 6.77 0.00 0.00 2.75
4384 4471 2.932614 GTCATCTTCAACATCACCGAGG 59.067 50.000 0.00 0.00 0.00 4.63
4387 4474 1.660607 CGGTCATCTTCAACATCACCG 59.339 52.381 0.00 0.00 39.38 4.94
4435 4522 1.308783 GCAAAGCTGGAGCAGTACCC 61.309 60.000 0.65 0.00 45.16 3.69
4468 4555 6.527023 CAGAAATTATGAGTGCTGCAAGAAAG 59.473 38.462 2.77 0.00 34.07 2.62
4470 4557 5.620654 GCAGAAATTATGAGTGCTGCAAGAA 60.621 40.000 12.66 0.00 45.78 2.52
4472 4559 4.103357 GCAGAAATTATGAGTGCTGCAAG 58.897 43.478 12.66 0.00 45.78 4.01
4491 4586 6.599244 TCCAGAGGATTTACAAGTTTATGCAG 59.401 38.462 0.00 0.00 0.00 4.41
4498 4593 3.260884 TCGCTCCAGAGGATTTACAAGTT 59.739 43.478 0.00 0.00 0.00 2.66
4509 4604 4.034510 GTCATAAATTGTTCGCTCCAGAGG 59.965 45.833 0.00 0.00 0.00 3.69
4510 4605 4.872691 AGTCATAAATTGTTCGCTCCAGAG 59.127 41.667 0.00 0.00 0.00 3.35
4511 4606 4.832248 AGTCATAAATTGTTCGCTCCAGA 58.168 39.130 0.00 0.00 0.00 3.86
4514 4609 4.570772 TGCTAGTCATAAATTGTTCGCTCC 59.429 41.667 0.00 0.00 0.00 4.70
4517 4613 4.332819 AGGTGCTAGTCATAAATTGTTCGC 59.667 41.667 0.00 0.00 0.00 4.70
4527 4623 2.683362 CACAGTCGAGGTGCTAGTCATA 59.317 50.000 4.40 0.00 0.00 2.15
4534 4630 0.532862 CAAACCACAGTCGAGGTGCT 60.533 55.000 10.83 0.00 36.09 4.40
4535 4631 0.814010 ACAAACCACAGTCGAGGTGC 60.814 55.000 10.83 0.00 36.09 5.01
4537 4633 2.805657 GCTTACAAACCACAGTCGAGGT 60.806 50.000 0.00 0.00 37.77 3.85
4555 4651 9.404848 CTGGATTCATGGTCAATATATATGCTT 57.595 33.333 0.00 0.00 0.00 3.91
4556 4652 7.501559 GCTGGATTCATGGTCAATATATATGCT 59.498 37.037 0.00 0.00 0.00 3.79
4557 4653 7.283807 TGCTGGATTCATGGTCAATATATATGC 59.716 37.037 0.00 0.00 0.00 3.14
4558 4654 8.618677 GTGCTGGATTCATGGTCAATATATATG 58.381 37.037 0.00 0.00 0.00 1.78
4559 4655 7.496920 CGTGCTGGATTCATGGTCAATATATAT 59.503 37.037 0.00 0.00 0.00 0.86
4565 4665 2.019249 CGTGCTGGATTCATGGTCAAT 58.981 47.619 0.00 0.00 0.00 2.57
4573 4673 1.291184 CGTTCAGCGTGCTGGATTCA 61.291 55.000 20.78 0.00 43.75 2.57
4574 4674 1.421485 CGTTCAGCGTGCTGGATTC 59.579 57.895 20.78 1.54 43.75 2.52
4595 4695 0.039165 CAAGTTCCTCAAAAGCGGCC 60.039 55.000 0.00 0.00 0.00 6.13
4614 4714 9.294030 CAAAGAACATCAACAATAATTAGGCTC 57.706 33.333 0.00 0.00 0.00 4.70
4633 4740 5.709966 AGTTCAAACACAAGGACAAAGAAC 58.290 37.500 0.00 0.00 34.61 3.01
4700 4807 2.112815 GCGCCACACCACCCTAATC 61.113 63.158 0.00 0.00 0.00 1.75


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

AutoCloner maintained by Alex Coulton.