Multiple sequence alignment - TraesCS3A01G250200

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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 TraesCS3A01G250200 chr3A 100.000 6631 0 0 995 7625 468588494 468581864 0.000000e+00 12246.0
1 TraesCS3A01G250200 chr3A 100.000 727 0 0 1 727 468589488 468588762 0.000000e+00 1343.0
2 TraesCS3A01G250200 chr3D 96.959 6675 134 30 995 7623 350827380 350820729 0.000000e+00 11138.0
3 TraesCS3A01G250200 chr3D 93.767 738 13 14 1 727 350828141 350827426 0.000000e+00 1077.0
4 TraesCS3A01G250200 chr3B 95.626 3612 108 21 995 4600 449287603 449284036 0.000000e+00 5749.0
5 TraesCS3A01G250200 chr3B 92.361 1728 83 21 5696 7404 449282756 449281059 0.000000e+00 2414.0
6 TraesCS3A01G250200 chr3B 95.687 881 29 8 4815 5692 449283797 449282923 0.000000e+00 1408.0
7 TraesCS3A01G250200 chr3B 92.349 745 18 17 1 727 449288372 449287649 0.000000e+00 1024.0
8 TraesCS3A01G250200 chr3B 96.644 149 4 1 4669 4816 449284039 449283891 5.910000e-61 246.0
9 TraesCS3A01G250200 chr3B 87.678 211 24 2 7405 7614 449279415 449279206 2.130000e-60 244.0
10 TraesCS3A01G250200 chr5D 97.368 38 1 0 5424 5461 337898750 337898713 1.780000e-06 65.8


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 TraesCS3A01G250200 chr3A 468581864 468589488 7624 True 6794.5 12246 100.000000 1 7625 2 chr3A.!!$R1 7624
1 TraesCS3A01G250200 chr3D 350820729 350828141 7412 True 6107.5 11138 95.363000 1 7623 2 chr3D.!!$R1 7622
2 TraesCS3A01G250200 chr3B 449279206 449288372 9166 True 1847.5 5749 93.390833 1 7614 6 chr3B.!!$R1 7613

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
268 270 1.078848 GCAGCGACCTCCACAGAAT 60.079 57.895 0.00 0.0 0.00 2.40 F
1701 1720 0.827368 AGAAGACCTTCCTCATCGCC 59.173 55.000 6.17 0.0 40.33 5.54 F
2489 2508 2.110213 GGGACAGTGACGGTGCAA 59.890 61.111 9.65 0.0 0.00 4.08 F
2795 2820 0.180171 TCCACCAGTGCATAATCCGG 59.820 55.000 0.00 0.0 0.00 5.14 F
3833 3861 0.740737 ACAAGTTGCAACCTCAGTGC 59.259 50.000 25.62 0.0 0.00 4.40 F
4001 4044 2.923629 ACCCAGGGCTAGAAATTTACCA 59.076 45.455 4.91 0.0 0.00 3.25 F
4462 4510 3.736094 TCCTTCAACCCATGGAGTCTAT 58.264 45.455 15.22 0.0 32.07 1.98 F
5935 6251 1.128200 TGGACTACGGATTCCATGGG 58.872 55.000 13.02 0.0 36.96 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2266 2285 0.917333 AACCCACCCACCCGTATCAT 60.917 55.000 0.00 0.00 0.00 2.45 R
2528 2547 0.587768 CGGCAATCGCATTAGCATCA 59.412 50.000 0.00 0.00 42.27 3.07 R
3810 3838 2.620115 ACTGAGGTTGCAACTTGTGATG 59.380 45.455 27.64 14.07 0.00 3.07 R
4599 4647 2.990740 ATAACACTTGAAGGGGGCAA 57.009 45.000 0.00 0.00 0.00 4.52 R
5260 5413 7.080099 CACATCATCACCAAACACTTTCTTAG 58.920 38.462 0.00 0.00 0.00 2.18 R
5828 6144 8.663167 TCCAGTCAGTGAATTGATATGGATAAT 58.337 33.333 0.00 0.00 39.19 1.28 R
6308 6626 0.249741 CCCTGCGTAATAAGACGGGG 60.250 60.000 0.00 0.00 43.13 5.73 R
7399 7736 1.227704 CTGTTACCCACGTGCCACA 60.228 57.895 10.91 8.44 0.00 4.17 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
35 36 4.742201 CGGTCACTGACGCCCCAG 62.742 72.222 3.04 0.00 39.93 4.45
57 58 1.263356 CAGTTCGACCTTCCTACCCA 58.737 55.000 0.00 0.00 0.00 4.51
73 74 3.105782 CACGACGAGTGTGCGCAT 61.106 61.111 15.91 0.00 45.51 4.73
74 75 1.799916 CACGACGAGTGTGCGCATA 60.800 57.895 15.91 8.59 45.51 3.14
75 76 1.514228 ACGACGAGTGTGCGCATAG 60.514 57.895 15.91 1.01 33.86 2.23
77 78 2.509336 ACGAGTGTGCGCATAGGC 60.509 61.111 15.91 4.57 33.86 3.93
78 79 3.264897 CGAGTGTGCGCATAGGCC 61.265 66.667 15.91 0.00 36.38 5.19
79 80 2.187946 GAGTGTGCGCATAGGCCT 59.812 61.111 15.91 11.78 36.38 5.19
268 270 1.078848 GCAGCGACCTCCACAGAAT 60.079 57.895 0.00 0.00 0.00 2.40
365 380 2.571096 GCGTCGTCTCGTCGTCTG 60.571 66.667 9.80 0.00 40.04 3.51
368 383 1.132232 GTCGTCTCGTCGTCTGGAC 59.868 63.158 0.00 0.00 42.48 4.02
553 572 2.126307 CGCCCACGTCACTCTGAG 60.126 66.667 2.45 2.45 33.53 3.35
594 613 3.330720 CCACCTCACTCCCACCCC 61.331 72.222 0.00 0.00 0.00 4.95
595 614 2.529136 CACCTCACTCCCACCCCA 60.529 66.667 0.00 0.00 0.00 4.96
596 615 2.529389 ACCTCACTCCCACCCCAC 60.529 66.667 0.00 0.00 0.00 4.61
597 616 3.330720 CCTCACTCCCACCCCACC 61.331 72.222 0.00 0.00 0.00 4.61
598 617 3.330720 CTCACTCCCACCCCACCC 61.331 72.222 0.00 0.00 0.00 4.61
599 618 4.995058 TCACTCCCACCCCACCCC 62.995 72.222 0.00 0.00 0.00 4.95
606 625 4.039092 CACCCCACCCCAGCTGAG 62.039 72.222 17.39 8.86 0.00 3.35
623 642 2.039624 GGGGACAGCTGAGGAGGA 59.960 66.667 23.35 0.00 0.00 3.71
625 644 1.305718 GGGACAGCTGAGGAGGAGT 60.306 63.158 23.35 0.00 0.00 3.85
675 694 2.482864 GCCAACCAAACCAAATCACAG 58.517 47.619 0.00 0.00 0.00 3.66
712 731 2.573869 CGCTCTTCTCGCCAGGAA 59.426 61.111 0.00 0.00 0.00 3.36
1701 1720 0.827368 AGAAGACCTTCCTCATCGCC 59.173 55.000 6.17 0.00 40.33 5.54
1725 1744 3.965258 TGCCACCCGCAGACCATT 61.965 61.111 0.00 0.00 44.64 3.16
1908 1927 3.345808 CACGGCGTCAAGGTGGTG 61.346 66.667 10.85 0.00 0.00 4.17
2262 2281 4.771590 ATACGTGGTTAAGAGTTCGTGA 57.228 40.909 0.00 0.00 33.70 4.35
2266 2285 4.022935 ACGTGGTTAAGAGTTCGTGATACA 60.023 41.667 0.00 0.00 0.00 2.29
2275 2294 4.023107 AGAGTTCGTGATACATGATACGGG 60.023 45.833 0.00 0.00 37.18 5.28
2310 2329 5.104776 AGTGGCCGAGCATATATTGTCATAT 60.105 40.000 0.00 0.00 0.00 1.78
2312 2331 6.201044 GTGGCCGAGCATATATTGTCATATAC 59.799 42.308 0.00 0.00 31.75 1.47
2313 2332 6.098266 TGGCCGAGCATATATTGTCATATACT 59.902 38.462 0.00 0.00 31.75 2.12
2314 2333 7.286775 TGGCCGAGCATATATTGTCATATACTA 59.713 37.037 0.00 0.00 31.75 1.82
2315 2334 7.810282 GGCCGAGCATATATTGTCATATACTAG 59.190 40.741 0.00 0.00 31.75 2.57
2316 2335 8.353684 GCCGAGCATATATTGTCATATACTAGT 58.646 37.037 0.00 0.00 31.75 2.57
2317 2336 9.670719 CCGAGCATATATTGTCATATACTAGTG 57.329 37.037 5.39 0.00 31.75 2.74
2489 2508 2.110213 GGGACAGTGACGGTGCAA 59.890 61.111 9.65 0.00 0.00 4.08
2795 2820 0.180171 TCCACCAGTGCATAATCCGG 59.820 55.000 0.00 0.00 0.00 5.14
2840 2865 6.806249 GTCGCAATTTTAAATGATGTTCTGGA 59.194 34.615 0.00 0.00 0.00 3.86
2963 2988 4.634443 ACCCAATCTTTAGCATGTACGTTC 59.366 41.667 0.00 0.00 0.00 3.95
3288 3313 1.478288 GCCCCTATTGATCAAGCTGCT 60.478 52.381 14.54 0.00 0.00 4.24
3787 3815 3.055819 TCTGCTCTGATGGTACTGTTTCC 60.056 47.826 0.00 0.00 0.00 3.13
3810 3838 4.502282 CACGCTCTGTCAATATGAGAGTTC 59.498 45.833 4.68 0.00 38.72 3.01
3833 3861 0.740737 ACAAGTTGCAACCTCAGTGC 59.259 50.000 25.62 0.00 0.00 4.40
3957 4000 6.849502 TCATTTTCTTGCAGCTTCTAATCTG 58.150 36.000 0.00 0.00 0.00 2.90
3962 4005 6.915544 TCTTGCAGCTTCTAATCTGTTATG 57.084 37.500 0.00 0.00 33.09 1.90
4001 4044 2.923629 ACCCAGGGCTAGAAATTTACCA 59.076 45.455 4.91 0.00 0.00 3.25
4046 4089 6.763610 AGAAAAATCTATACTGCCTCCTTTCG 59.236 38.462 0.00 0.00 0.00 3.46
4116 4159 5.670485 TGTTATAGTATCCAGCCACACAAG 58.330 41.667 0.00 0.00 0.00 3.16
4336 4381 4.589908 AGTAACTTACTTGGAAGCATGGG 58.410 43.478 0.00 0.00 34.86 4.00
4362 4407 4.843728 TGTTGAGTTCACTGAGGAAAGTT 58.156 39.130 0.00 0.00 0.00 2.66
4363 4408 5.253330 TGTTGAGTTCACTGAGGAAAGTTT 58.747 37.500 0.00 0.00 0.00 2.66
4364 4409 6.411376 TGTTGAGTTCACTGAGGAAAGTTTA 58.589 36.000 0.00 0.00 0.00 2.01
4428 4476 8.184192 CAGAATGTTGTGTGATTACCTTATTCC 58.816 37.037 0.00 0.00 0.00 3.01
4462 4510 3.736094 TCCTTCAACCCATGGAGTCTAT 58.264 45.455 15.22 0.00 32.07 1.98
4599 4647 7.831193 ACTTTGTCTACTTGATCCTTATGCAAT 59.169 33.333 0.00 0.00 0.00 3.56
4647 4695 8.260818 ACTAATATATGATGTATGCTGGTCCAC 58.739 37.037 0.00 0.00 0.00 4.02
4882 5027 6.913170 TCTGAACCTAATTGAGAAATTGTGC 58.087 36.000 0.00 0.00 26.12 4.57
4898 5043 5.886960 ATTGTGCTCTGGTAATTTCAGAC 57.113 39.130 6.99 5.96 36.46 3.51
5124 5276 4.816048 TCTCATCCAGTGGTAGGTATCT 57.184 45.455 9.54 0.00 0.00 1.98
5319 5472 5.123186 CGAACCATGGCTTTAATGTTGAGTA 59.877 40.000 13.04 0.00 0.00 2.59
5322 5475 6.717289 ACCATGGCTTTAATGTTGAGTACTA 58.283 36.000 13.04 0.00 0.00 1.82
5632 5785 7.016153 TGGAGGTACTTGATGTTACTCATTT 57.984 36.000 0.00 0.00 41.55 2.32
5935 6251 1.128200 TGGACTACGGATTCCATGGG 58.872 55.000 13.02 0.00 36.96 4.00
6013 6329 5.412594 TGAAAGCAAGGTAAGCATGTCTAAG 59.587 40.000 0.00 0.00 0.00 2.18
6018 6334 5.355350 GCAAGGTAAGCATGTCTAAGTCAAT 59.645 40.000 0.00 0.00 0.00 2.57
6028 6344 6.314896 GCATGTCTAAGTCAATCTACTGCTTT 59.685 38.462 0.00 0.00 0.00 3.51
6030 6346 7.658179 TGTCTAAGTCAATCTACTGCTTTTG 57.342 36.000 0.00 0.00 0.00 2.44
6167 6483 2.300723 AGAAAATGGCAAAGCAGATGCA 59.699 40.909 7.68 0.00 45.60 3.96
6291 6609 4.473199 CAACTCAATGCACATGAACTGAG 58.527 43.478 0.00 6.61 37.04 3.35
6297 6615 5.997129 TCAATGCACATGAACTGAGAAGTTA 59.003 36.000 0.00 0.00 31.35 2.24
6300 6618 4.515191 TGCACATGAACTGAGAAGTTAACC 59.485 41.667 0.00 0.00 31.35 2.85
6301 6619 4.757149 GCACATGAACTGAGAAGTTAACCT 59.243 41.667 0.00 0.00 31.35 3.50
6302 6620 5.239525 GCACATGAACTGAGAAGTTAACCTT 59.760 40.000 0.00 0.00 35.59 3.50
6308 6626 6.761714 TGAACTGAGAAGTTAACCTTGTTCTC 59.238 38.462 20.42 20.42 43.49 2.87
6314 6632 2.038164 AGTTAACCTTGTTCTCCCCGTC 59.962 50.000 0.88 0.00 0.00 4.79
6453 6771 4.657013 TGGCCAACAACATGTACTGATAA 58.343 39.130 0.61 0.00 0.00 1.75
6476 6794 1.606224 CCAAAGCCTTCACACATTGCC 60.606 52.381 0.00 0.00 0.00 4.52
7009 7334 2.544486 GCCAACAACTGCTCAAAGAAGG 60.544 50.000 0.00 0.00 0.00 3.46
7029 7354 3.205282 AGGGTTAAATTATCAGCCTGCCT 59.795 43.478 2.25 0.00 37.04 4.75
7155 7487 5.183904 ACCTAAAGCAAAATACTCTGCCTTG 59.816 40.000 0.00 0.00 39.47 3.61
7207 7539 7.594758 TGTTTTAAAGAGGCGAAGAATGAATTG 59.405 33.333 0.00 0.00 0.00 2.32
7345 7679 3.281341 TGGCTAAAATCACACAAAGCG 57.719 42.857 0.00 0.00 0.00 4.68
7347 7681 2.606795 GGCTAAAATCACACAAAGCGCA 60.607 45.455 11.47 0.00 0.00 6.09
7399 7736 2.887152 GAGCAAAGACACCCAAACTGAT 59.113 45.455 0.00 0.00 0.00 2.90
7579 9559 7.867921 ACTAATTATGGTTAGGGTGATCACAA 58.132 34.615 26.47 10.39 36.27 3.33
7593 9574 0.107410 TCACAAAGTTGCCTCGGTGT 60.107 50.000 0.00 0.00 0.00 4.16
7615 9596 3.073678 CAAAGGCAACAAAATTAGGGCC 58.926 45.455 0.00 0.00 41.65 5.80
7623 9604 0.323087 AAAATTAGGGCCTCGGCGTT 60.323 50.000 10.74 0.00 43.06 4.84
7624 9605 0.542805 AAATTAGGGCCTCGGCGTTA 59.457 50.000 10.74 0.00 43.06 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 0.108281 GTAGGAAGGTCGAACTGGGC 60.108 60.000 2.28 0.00 0.00 5.36
57 58 1.514228 CTATGCGCACACTCGTCGT 60.514 57.895 14.90 0.00 0.00 4.34
72 73 1.221840 CGTGAGTTGCCAGGCCTAT 59.778 57.895 3.98 0.00 0.00 2.57
73 74 2.662596 CGTGAGTTGCCAGGCCTA 59.337 61.111 3.98 0.00 0.00 3.93
268 270 4.715523 CCCTCCCGCCGCAGAAAA 62.716 66.667 0.00 0.00 0.00 2.29
355 357 1.433879 GATGGGTCCAGACGACGAG 59.566 63.158 0.00 0.00 42.99 4.18
365 380 0.035458 GACGATGGATGGATGGGTCC 59.965 60.000 0.00 0.00 45.31 4.46
368 383 1.271054 GGAAGACGATGGATGGATGGG 60.271 57.143 0.00 0.00 0.00 4.00
427 446 2.252260 CACAGAAACGGGCAAGCG 59.748 61.111 0.00 0.00 0.00 4.68
602 621 1.305633 TCCTCAGCTGTCCCCTCAG 60.306 63.158 14.67 1.13 38.35 3.35
603 622 1.305633 CTCCTCAGCTGTCCCCTCA 60.306 63.158 14.67 0.00 0.00 3.86
604 623 2.063378 CCTCCTCAGCTGTCCCCTC 61.063 68.421 14.67 0.00 0.00 4.30
605 624 2.040278 CCTCCTCAGCTGTCCCCT 59.960 66.667 14.67 0.00 0.00 4.79
606 625 2.039624 TCCTCCTCAGCTGTCCCC 59.960 66.667 14.67 0.00 0.00 4.81
607 626 0.033011 TACTCCTCCTCAGCTGTCCC 60.033 60.000 14.67 0.00 0.00 4.46
608 627 1.398692 CTACTCCTCCTCAGCTGTCC 58.601 60.000 14.67 0.00 0.00 4.02
609 628 0.744281 GCTACTCCTCCTCAGCTGTC 59.256 60.000 14.67 0.00 0.00 3.51
610 629 0.686112 GGCTACTCCTCCTCAGCTGT 60.686 60.000 14.67 0.00 34.41 4.40
615 634 0.683504 GGTTCGGCTACTCCTCCTCA 60.684 60.000 0.00 0.00 0.00 3.86
617 636 1.753463 CGGTTCGGCTACTCCTCCT 60.753 63.158 0.00 0.00 0.00 3.69
618 637 1.318158 TTCGGTTCGGCTACTCCTCC 61.318 60.000 0.00 0.00 0.00 4.30
623 642 2.126189 GCGTTCGGTTCGGCTACT 60.126 61.111 0.00 0.00 0.00 2.57
675 694 0.608308 GGTGTGGCTTGGTTAGGGAC 60.608 60.000 0.00 0.00 0.00 4.46
1725 1744 2.125952 CGCGTCTGGCAGATGTCA 60.126 61.111 31.32 3.61 43.84 3.58
1908 1927 1.451028 GAGCAGGTCAGTGGCCATC 60.451 63.158 17.90 7.22 0.00 3.51
2197 2216 3.569210 TGAGTGGGTGGGGTGCTG 61.569 66.667 0.00 0.00 0.00 4.41
2201 2220 1.368268 ATTTGGTGAGTGGGTGGGGT 61.368 55.000 0.00 0.00 0.00 4.95
2243 2262 3.655276 ATCACGAACTCTTAACCACGT 57.345 42.857 0.00 0.00 34.40 4.49
2244 2263 4.478699 TGTATCACGAACTCTTAACCACG 58.521 43.478 0.00 0.00 0.00 4.94
2245 2264 6.097356 TCATGTATCACGAACTCTTAACCAC 58.903 40.000 0.00 0.00 0.00 4.16
2247 2266 7.113124 CGTATCATGTATCACGAACTCTTAACC 59.887 40.741 0.00 0.00 36.53 2.85
2248 2267 7.113124 CCGTATCATGTATCACGAACTCTTAAC 59.887 40.741 10.95 0.00 36.53 2.01
2262 2281 1.697432 CCACCCACCCGTATCATGTAT 59.303 52.381 0.00 0.00 0.00 2.29
2266 2285 0.917333 AACCCACCCACCCGTATCAT 60.917 55.000 0.00 0.00 0.00 2.45
2275 2294 2.035155 GGCCACTAACCCACCCAC 59.965 66.667 0.00 0.00 0.00 4.61
2489 2508 0.612174 TGTCGAAGTAGGGCAGCTCT 60.612 55.000 0.00 0.00 0.00 4.09
2528 2547 0.587768 CGGCAATCGCATTAGCATCA 59.412 50.000 0.00 0.00 42.27 3.07
2795 2820 5.030295 CGACATAATTTGACATGAAGCACC 58.970 41.667 0.00 0.00 0.00 5.01
2840 2865 1.404035 GTCCACCTGAAAGCGTTGTTT 59.596 47.619 0.00 0.00 0.00 2.83
3288 3313 4.999469 AATGGTCCATACATGATAGCCA 57.001 40.909 4.33 0.23 0.00 4.75
3787 3815 4.039151 ACTCTCATATTGACAGAGCGTG 57.961 45.455 0.00 0.00 0.00 5.34
3810 3838 2.620115 ACTGAGGTTGCAACTTGTGATG 59.380 45.455 27.64 14.07 0.00 3.07
3833 3861 5.292765 TGAACAACTGAGCTGAAAGAGTAG 58.707 41.667 0.00 0.00 34.07 2.57
3900 3935 8.509690 CCTAATTGCTCCATCACACTTAATATG 58.490 37.037 0.00 0.00 0.00 1.78
3981 4024 3.288092 GTGGTAAATTTCTAGCCCTGGG 58.712 50.000 8.86 8.86 0.00 4.45
4046 4089 3.250040 ACACCACTAAAATCTGAACGCAC 59.750 43.478 0.00 0.00 0.00 5.34
4116 4159 3.261580 GCTAACCCAATTTCCATGCAAC 58.738 45.455 0.00 0.00 0.00 4.17
4336 4381 6.038714 ACTTTCCTCAGTGAACTCAACATTTC 59.961 38.462 0.00 0.00 0.00 2.17
4428 4476 4.141688 GGGTTGAAGGATAGGTAACCTGAG 60.142 50.000 0.00 0.00 40.40 3.35
4462 4510 5.472478 GCATATCTCATCAATGCCTTCTTCA 59.528 40.000 0.00 0.00 40.06 3.02
4599 4647 2.990740 ATAACACTTGAAGGGGGCAA 57.009 45.000 0.00 0.00 0.00 4.52
4882 5027 8.420222 AGTATGAGATGTCTGAAATTACCAGAG 58.580 37.037 9.85 0.00 40.88 3.35
5260 5413 7.080099 CACATCATCACCAAACACTTTCTTAG 58.920 38.462 0.00 0.00 0.00 2.18
5671 5824 9.841295 ACAAGTTAGAAAAGTAGTTCAACCATA 57.159 29.630 0.00 0.00 0.00 2.74
5828 6144 8.663167 TCCAGTCAGTGAATTGATATGGATAAT 58.337 33.333 0.00 0.00 39.19 1.28
6013 6329 4.229876 GCAACCAAAAGCAGTAGATTGAC 58.770 43.478 0.00 0.00 0.00 3.18
6167 6483 3.297134 ACCTTCAGGACATTGTTGTGT 57.703 42.857 0.00 0.00 35.79 3.72
6291 6609 3.072211 CGGGGAGAACAAGGTTAACTTC 58.928 50.000 5.42 1.50 37.29 3.01
6297 6615 1.137697 AAGACGGGGAGAACAAGGTT 58.862 50.000 0.00 0.00 0.00 3.50
6300 6618 4.110482 CGTAATAAGACGGGGAGAACAAG 58.890 47.826 0.00 0.00 39.19 3.16
6301 6619 3.676873 GCGTAATAAGACGGGGAGAACAA 60.677 47.826 0.00 0.00 43.13 2.83
6302 6620 2.159198 GCGTAATAAGACGGGGAGAACA 60.159 50.000 0.00 0.00 43.13 3.18
6308 6626 0.249741 CCCTGCGTAATAAGACGGGG 60.250 60.000 0.00 0.00 43.13 5.73
6453 6771 3.555586 GCAATGTGTGAAGGCTTTGGAAT 60.556 43.478 0.00 0.00 0.00 3.01
6525 6843 1.145377 GTTGTCCACACGACCTGGT 59.855 57.895 0.00 0.00 41.18 4.00
6777 7098 3.350163 AATGGGGAGGCAGTGGGG 61.350 66.667 0.00 0.00 0.00 4.96
6778 7099 2.276740 GAATGGGGAGGCAGTGGG 59.723 66.667 0.00 0.00 0.00 4.61
6779 7100 2.276740 GGAATGGGGAGGCAGTGG 59.723 66.667 0.00 0.00 0.00 4.00
7009 7334 5.828328 ACTAAGGCAGGCTGATAATTTAACC 59.172 40.000 20.86 6.28 0.00 2.85
7029 7354 5.427157 TGCTTGGTAAGATGATACCCACTAA 59.573 40.000 1.32 0.00 43.97 2.24
7207 7539 8.401490 AGGGTGATAAATATGCAAGAAATCTC 57.599 34.615 0.00 0.00 0.00 2.75
7399 7736 1.227704 CTGTTACCCACGTGCCACA 60.228 57.895 10.91 8.44 0.00 4.17
7593 9574 3.244387 GGCCCTAATTTTGTTGCCTTTGA 60.244 43.478 0.00 0.00 35.99 2.69


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

AutoCloner maintained by Alex Coulton.