Multiple sequence alignment - TraesCS2D01G242100

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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 TraesCS2D01G242100 chr2D 100.000 4937 0 0 1 4937 267702357 267707293 0.000000e+00 9118.0
1 TraesCS2D01G242100 chr2D 85.124 121 16 2 4813 4931 41913861 41913981 6.710000e-24 122.0
2 TraesCS2D01G242100 chr2B 93.989 4542 154 48 1 4455 273739616 273735107 0.000000e+00 6765.0
3 TraesCS2D01G242100 chr2B 85.833 120 6 3 4447 4566 273734659 273734551 3.120000e-22 117.0
4 TraesCS2D01G242100 chr2A 97.007 2005 49 7 2342 4342 352437502 352439499 0.000000e+00 3360.0
5 TraesCS2D01G242100 chr2A 96.358 1675 48 9 674 2343 352435756 352437422 0.000000e+00 2743.0
6 TraesCS2D01G242100 chr2A 96.746 676 7 4 1 661 352430074 352430749 0.000000e+00 1112.0
7 TraesCS2D01G242100 chr2A 91.557 379 20 3 4373 4744 352439848 352440221 3.410000e-141 512.0
8 TraesCS2D01G242100 chr2A 94.355 124 6 1 4808 4930 352440218 352440341 6.520000e-44 189.0
9 TraesCS2D01G242100 chr2A 86.441 59 6 2 4474 4530 512203309 512203251 4.130000e-06 63.9
10 TraesCS2D01G242100 chr5A 87.429 175 18 4 2220 2390 552384717 552384543 1.080000e-46 198.0
11 TraesCS2D01G242100 chr5A 86.207 116 15 1 4813 4927 439861115 439861000 1.870000e-24 124.0
12 TraesCS2D01G242100 chr4D 90.741 108 9 1 2218 2324 6805500 6805607 5.150000e-30 143.0
13 TraesCS2D01G242100 chr3D 88.496 113 10 3 4813 4924 145191996 145191886 3.100000e-27 134.0
14 TraesCS2D01G242100 chr3D 86.179 123 12 4 4808 4929 218257635 218257517 1.440000e-25 128.0
15 TraesCS2D01G242100 chr6A 86.066 122 13 4 4813 4931 537249715 537249835 1.440000e-25 128.0
16 TraesCS2D01G242100 chr5B 76.735 245 46 10 2219 2457 596671418 596671179 5.190000e-25 126.0
17 TraesCS2D01G242100 chr5B 86.726 113 13 2 4813 4923 706944783 706944671 1.870000e-24 124.0
18 TraesCS2D01G242100 chr1D 87.273 110 11 3 4813 4921 5414647 5414540 6.710000e-24 122.0
19 TraesCS2D01G242100 chr7A 90.217 92 8 1 4813 4903 9612290 9612381 8.680000e-23 119.0
20 TraesCS2D01G242100 chr3B 97.143 70 1 1 4741 4809 520448037 520447968 3.120000e-22 117.0
21 TraesCS2D01G242100 chr1A 92.593 81 5 1 4737 4816 313907552 313907472 1.120000e-21 115.0
22 TraesCS2D01G242100 chr5D 92.500 80 4 1 4741 4820 441356408 441356331 4.040000e-21 113.0
23 TraesCS2D01G242100 chr5D 93.243 74 4 1 4741 4813 74430205 74430278 1.880000e-19 108.0
24 TraesCS2D01G242100 chr1B 93.506 77 3 2 4738 4812 344044841 344044765 4.040000e-21 113.0
25 TraesCS2D01G242100 chr7D 92.500 80 3 3 4741 4817 184573430 184573351 1.450000e-20 111.0
26 TraesCS2D01G242100 chr7D 90.361 83 5 3 4734 4813 5307743 5307661 6.760000e-19 106.0
27 TraesCS2D01G242100 chr4B 94.444 72 2 1 4741 4812 45493400 45493331 5.220000e-20 110.0
28 TraesCS2D01G242100 chr4B 85.185 54 6 2 2249 2301 574005144 574005196 2.000000e-03 54.7
29 TraesCS2D01G242100 chr4A 90.476 84 5 3 4741 4822 683425807 683425889 1.880000e-19 108.0


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 TraesCS2D01G242100 chr2D 267702357 267707293 4936 False 9118 9118 100.00000 1 4937 1 chr2D.!!$F2 4936
1 TraesCS2D01G242100 chr2B 273734551 273739616 5065 True 3441 6765 89.91100 1 4566 2 chr2B.!!$R1 4565
2 TraesCS2D01G242100 chr2A 352435756 352440341 4585 False 1701 3360 94.81925 674 4930 4 chr2A.!!$F2 4256
3 TraesCS2D01G242100 chr2A 352430074 352430749 675 False 1112 1112 96.74600 1 661 1 chr2A.!!$F1 660

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
798 837 0.543749 CCTGTGATCTTCCTCCACCC 59.456 60.000 0.0 0.0 0.0 4.61 F
1120 1193 1.130561 CCTTCTCCAAATCGCCGAAAC 59.869 52.381 0.0 0.0 0.0 2.78 F
2169 2250 0.693049 CCAAGCTTCTACCCCAGTGT 59.307 55.000 0.0 0.0 0.0 3.55 F
2170 2251 1.073923 CCAAGCTTCTACCCCAGTGTT 59.926 52.381 0.0 0.0 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1957 2037 0.773644 AACTGCAGGTCCTTGTGGAT 59.226 50.0 19.93 0.0 45.29 3.41 R
2975 3140 0.834261 GCTACTCCCTCTGATCCCCC 60.834 65.0 0.00 0.0 0.00 5.40 R
3328 3494 0.103208 CATTCTCCGACCTTCTCCCG 59.897 60.0 0.00 0.0 0.00 5.14 R
4158 4334 5.948588 TGTCATCATGGGTTGATAAAAACG 58.051 37.5 0.00 0.0 43.40 3.60 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 5.798132 TGCATCACTGGGATATCATAGTTC 58.202 41.667 4.83 0.00 33.95 3.01
747 786 2.674796 AATCTCCTACGGCAGTTGTC 57.325 50.000 0.00 0.00 0.00 3.18
798 837 0.543749 CCTGTGATCTTCCTCCACCC 59.456 60.000 0.00 0.00 0.00 4.61
891 931 2.682952 GCATGATGCGATCTGGAAAG 57.317 50.000 0.00 0.00 31.71 2.62
917 957 4.457257 GGATGTTGAGGACTTTGGAAAGAG 59.543 45.833 6.13 0.00 39.31 2.85
926 966 6.610830 AGGACTTTGGAAAGAGTGGATTTTA 58.389 36.000 6.13 0.00 39.31 1.52
1120 1193 1.130561 CCTTCTCCAAATCGCCGAAAC 59.869 52.381 0.00 0.00 0.00 2.78
1191 1264 1.556373 TACCTGTCCGACGAGGGAGA 61.556 60.000 16.61 0.00 41.52 3.71
1193 1266 1.248785 CCTGTCCGACGAGGGAGAAA 61.249 60.000 0.00 0.00 41.52 2.52
1927 2007 9.586435 TTATATGTTGATTGACTGTACTGAGTG 57.414 33.333 6.77 0.00 0.00 3.51
1934 2014 4.521130 TGACTGTACTGAGTGGAACATC 57.479 45.455 6.77 0.00 44.52 3.06
1957 2037 3.525609 TGTCCTCCTAATGGTTATTGCCA 59.474 43.478 0.00 0.00 43.48 4.92
2169 2250 0.693049 CCAAGCTTCTACCCCAGTGT 59.307 55.000 0.00 0.00 0.00 3.55
2170 2251 1.073923 CCAAGCTTCTACCCCAGTGTT 59.926 52.381 0.00 0.00 0.00 3.32
2314 2396 5.391523 CGTTTGGATCGAAGCCAATTCTTTA 60.392 40.000 19.81 5.38 44.30 1.85
2348 2511 3.686916 ACCTCCAGCTTTCTAGTTCAC 57.313 47.619 0.00 0.00 0.00 3.18
2889 3054 4.761235 AAGACATGTCATGAGTTGCTTG 57.239 40.909 27.02 0.00 0.00 4.01
2975 3140 9.546909 CTCATAGTATAACTTGCAACTGTTTTG 57.453 33.333 9.10 0.00 0.00 2.44
3007 3172 5.104360 AGAGGGAGTAGCATCTTTTATTGCA 60.104 40.000 0.00 0.00 41.35 4.08
3066 3231 7.012044 TGCTCTAATCTGTGTCAAATCATGATG 59.988 37.037 9.46 0.00 40.97 3.07
3067 3232 7.226128 GCTCTAATCTGTGTCAAATCATGATGA 59.774 37.037 9.46 1.38 40.97 2.92
3068 3233 9.274206 CTCTAATCTGTGTCAAATCATGATGAT 57.726 33.333 9.46 1.25 40.97 2.45
3069 3234 9.052759 TCTAATCTGTGTCAAATCATGATGATG 57.947 33.333 9.46 11.75 40.97 3.07
3217 3382 9.716507 TTCTTTTTCTGAGTCTTTGAATTTACG 57.283 29.630 0.00 0.00 0.00 3.18
3328 3494 1.798283 TGTGATGCTGCATTTTTGGC 58.202 45.000 17.36 3.18 0.00 4.52
3364 3530 8.572185 TCGGAGAATGATTTTCAAATTGTGTAA 58.428 29.630 0.00 0.00 0.00 2.41
3423 3589 6.326323 TGCTACTCTTGATCATTGGTATGGTA 59.674 38.462 0.00 0.00 32.40 3.25
3820 3986 2.756207 TGCATTGACTGGTTGATGATGG 59.244 45.455 0.00 0.00 0.00 3.51
3839 4005 9.754382 GATGATGGCATCTTACATTTTTATGTT 57.246 29.630 26.49 0.00 45.93 2.71
4229 4407 6.312918 GTGATGTCTATTTCCTCGCTAAAACA 59.687 38.462 0.00 0.00 0.00 2.83
4272 4450 1.811359 CTTGCAGGCTGAGAGGAAAAG 59.189 52.381 20.86 5.61 0.00 2.27
4369 4549 0.760567 TGATATCTGAGCCGCTGGGT 60.761 55.000 0.00 0.00 35.46 4.51
4391 4888 5.182001 GGTTGTACTGAGATTCATGCAGTTT 59.818 40.000 8.01 0.00 42.40 2.66
4569 5522 9.717942 CTAATAAAGTGGCTATTGCTTCTATCT 57.282 33.333 0.00 0.00 39.59 1.98
4574 5527 5.835819 AGTGGCTATTGCTTCTATCTGTCTA 59.164 40.000 0.00 0.00 39.59 2.59
4586 5539 9.988815 GCTTCTATCTGTCTATCATCCTTTTTA 57.011 33.333 0.00 0.00 0.00 1.52
4622 5575 7.255801 CCCTGTGTTTGATGTTAATTAACCTGT 60.256 37.037 22.47 10.80 35.37 4.00
4626 5579 9.821662 GTGTTTGATGTTAATTAACCTGTAGTC 57.178 33.333 22.47 12.40 35.37 2.59
4661 5614 8.579863 GGTAATTAACCCGTAGTACATAGTGAT 58.420 37.037 0.38 0.00 43.16 3.06
4687 5640 5.658634 GGAAATTAAAGAGAAGCCCCTTGAT 59.341 40.000 0.00 0.00 0.00 2.57
4755 5708 1.961133 AAAATACTCCCTCCGTCCCA 58.039 50.000 0.00 0.00 0.00 4.37
4756 5709 2.191981 AAATACTCCCTCCGTCCCAT 57.808 50.000 0.00 0.00 0.00 4.00
4757 5710 3.339713 AAATACTCCCTCCGTCCCATA 57.660 47.619 0.00 0.00 0.00 2.74
4758 5711 3.339713 AATACTCCCTCCGTCCCATAA 57.660 47.619 0.00 0.00 0.00 1.90
4759 5712 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
4760 5713 4.687262 ATACTCCCTCCGTCCCATAATA 57.313 45.455 0.00 0.00 0.00 0.98
4761 5714 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
4762 5715 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
4763 5716 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
4764 5717 5.408824 ACTCCCTCCGTCCCATAATATAAA 58.591 41.667 0.00 0.00 0.00 1.40
4765 5718 5.247792 ACTCCCTCCGTCCCATAATATAAAC 59.752 44.000 0.00 0.00 0.00 2.01
4766 5719 5.408824 TCCCTCCGTCCCATAATATAAACT 58.591 41.667 0.00 0.00 0.00 2.66
4767 5720 5.247564 TCCCTCCGTCCCATAATATAAACTG 59.752 44.000 0.00 0.00 0.00 3.16
4768 5721 5.012768 CCCTCCGTCCCATAATATAAACTGT 59.987 44.000 0.00 0.00 0.00 3.55
4769 5722 6.211986 CCCTCCGTCCCATAATATAAACTGTA 59.788 42.308 0.00 0.00 0.00 2.74
4770 5723 7.321153 CCTCCGTCCCATAATATAAACTGTAG 58.679 42.308 0.00 0.00 0.00 2.74
4771 5724 7.039223 CCTCCGTCCCATAATATAAACTGTAGT 60.039 40.741 0.00 0.00 0.00 2.73
4772 5725 7.663827 TCCGTCCCATAATATAAACTGTAGTG 58.336 38.462 0.00 0.00 0.00 2.74
4773 5726 7.288389 TCCGTCCCATAATATAAACTGTAGTGT 59.712 37.037 0.00 0.00 0.00 3.55
4774 5727 7.597743 CCGTCCCATAATATAAACTGTAGTGTC 59.402 40.741 0.00 0.00 0.00 3.67
4775 5728 8.139350 CGTCCCATAATATAAACTGTAGTGTCA 58.861 37.037 0.00 0.00 0.00 3.58
4776 5729 9.826574 GTCCCATAATATAAACTGTAGTGTCAA 57.173 33.333 0.00 0.00 0.00 3.18
4782 5735 8.944212 AATATAAACTGTAGTGTCAAAAACGC 57.056 30.769 0.00 0.00 38.74 4.84
4784 5737 4.531659 AACTGTAGTGTCAAAAACGCTC 57.468 40.909 0.00 0.00 45.69 5.03
4785 5738 3.793559 ACTGTAGTGTCAAAAACGCTCT 58.206 40.909 0.00 0.00 45.69 4.09
4786 5739 4.189231 ACTGTAGTGTCAAAAACGCTCTT 58.811 39.130 0.00 0.00 45.69 2.85
4787 5740 5.353938 ACTGTAGTGTCAAAAACGCTCTTA 58.646 37.500 0.00 0.00 45.69 2.10
4788 5741 5.989777 ACTGTAGTGTCAAAAACGCTCTTAT 59.010 36.000 0.00 0.00 45.69 1.73
4789 5742 7.149973 ACTGTAGTGTCAAAAACGCTCTTATA 58.850 34.615 0.00 0.00 45.69 0.98
4790 5743 7.817962 ACTGTAGTGTCAAAAACGCTCTTATAT 59.182 33.333 0.00 0.00 45.69 0.86
4791 5744 8.542497 TGTAGTGTCAAAAACGCTCTTATATT 57.458 30.769 0.00 0.00 45.69 1.28
4792 5745 9.642327 TGTAGTGTCAAAAACGCTCTTATATTA 57.358 29.630 0.00 0.00 45.69 0.98
4795 5748 8.612619 AGTGTCAAAAACGCTCTTATATTATGG 58.387 33.333 0.00 0.00 45.69 2.74
4796 5749 7.855904 GTGTCAAAAACGCTCTTATATTATGGG 59.144 37.037 0.00 0.00 35.42 4.00
4797 5750 7.771361 TGTCAAAAACGCTCTTATATTATGGGA 59.229 33.333 0.00 0.00 0.00 4.37
4798 5751 8.068380 GTCAAAAACGCTCTTATATTATGGGAC 58.932 37.037 0.00 0.00 0.00 4.46
4799 5752 6.780706 AAAACGCTCTTATATTATGGGACG 57.219 37.500 0.00 0.00 0.00 4.79
4800 5753 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
4801 5754 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
4802 5755 4.158025 ACGCTCTTATATTATGGGACGGAG 59.842 45.833 0.00 0.00 0.00 4.63
4803 5756 4.440250 CGCTCTTATATTATGGGACGGAGG 60.440 50.000 0.00 0.00 0.00 4.30
4804 5757 4.141914 GCTCTTATATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
4805 5758 5.269991 CTCTTATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
4806 5759 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
4904 5858 9.736023 GAATCTGAATGTGATGTTATTTTACCC 57.264 33.333 0.00 0.00 0.00 3.69
4912 5866 7.296660 TGTGATGTTATTTTACCCGTTAAACG 58.703 34.615 0.00 0.00 42.11 3.60
4934 5888 9.667989 AAACGTTTTTAAAATGCTACTTACGAT 57.332 25.926 18.92 8.72 0.00 3.73
4935 5889 8.649810 ACGTTTTTAAAATGCTACTTACGATG 57.350 30.769 18.92 2.75 0.00 3.84
4936 5890 8.284693 ACGTTTTTAAAATGCTACTTACGATGT 58.715 29.630 18.92 3.26 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
798 837 0.972983 AGGAGGGAGACACACGATGG 60.973 60.000 0.00 0.00 0.00 3.51
839 879 1.866015 TCCACCATGATTCGAGACCT 58.134 50.000 0.00 0.00 0.00 3.85
891 931 4.021102 TCCAAAGTCCTCAACATCCTTC 57.979 45.455 0.00 0.00 0.00 3.46
926 966 7.481275 AAAAACGCAAATCTCAATGAAATGT 57.519 28.000 0.00 0.00 0.00 2.71
955 995 4.696877 ACGCAAATCTCAATGATTGTCTCA 59.303 37.500 4.93 0.00 43.99 3.27
956 996 5.026462 CACGCAAATCTCAATGATTGTCTC 58.974 41.667 4.93 0.00 43.99 3.36
1120 1193 0.826062 GGTGCTGAATGAATTGGGGG 59.174 55.000 0.00 0.00 0.00 5.40
1560 1638 0.175989 AAAGGAAAAACGGCCGCAAA 59.824 45.000 28.58 0.00 0.00 3.68
1927 2007 3.456277 ACCATTAGGAGGACAGATGTTCC 59.544 47.826 0.00 0.00 38.69 3.62
1934 2014 4.137543 GGCAATAACCATTAGGAGGACAG 58.862 47.826 0.00 0.00 38.69 3.51
1957 2037 0.773644 AACTGCAGGTCCTTGTGGAT 59.226 50.000 19.93 0.00 45.29 3.41
2015 2095 5.124645 CCTGAAGATGCTAGCAGAAATCTT 58.875 41.667 24.46 24.46 41.03 2.40
2216 2297 5.279456 GCCAATCCAAACAACCTCTAAATGT 60.279 40.000 0.00 0.00 0.00 2.71
2227 2308 1.814772 CTGGGCGCCAATCCAAACAA 61.815 55.000 30.85 0.00 30.80 2.83
2276 2358 1.271707 CCAAACGGTTCCCATGTACCT 60.272 52.381 0.00 0.00 30.14 3.08
2314 2396 2.283966 AGGTAGTCAGGGCACGCT 60.284 61.111 0.00 0.00 0.00 5.07
2425 2588 7.689812 GCTGTTTAGATATTGCATATGCTAACG 59.310 37.037 27.13 10.73 42.66 3.18
2514 2677 4.072839 GGCTCCAAACTACAGCTAAAAGT 58.927 43.478 0.00 0.00 33.38 2.66
2515 2678 4.327680 AGGCTCCAAACTACAGCTAAAAG 58.672 43.478 0.00 0.00 33.38 2.27
2621 2786 9.843334 GTCGTTAAACATTAATATTGGTCCAAA 57.157 29.630 8.75 0.00 0.00 3.28
2748 2913 7.284034 GGAGAATGTTATGATTGTTCCAGACAT 59.716 37.037 0.00 0.00 38.26 3.06
2975 3140 0.834261 GCTACTCCCTCTGATCCCCC 60.834 65.000 0.00 0.00 0.00 5.40
3007 3172 3.003689 CCAGTTCAAGAAACGCACTCATT 59.996 43.478 0.00 0.00 43.02 2.57
3015 3180 4.252971 TCTACTCCCAGTTCAAGAAACG 57.747 45.455 0.00 0.00 43.02 3.60
3096 3261 6.957631 TGGTACATCAGACCATAAATTCACT 58.042 36.000 0.00 0.00 42.15 3.41
3249 3415 9.979578 TCAGACAAATAGCAACAATAAAATTGT 57.020 25.926 0.00 0.00 0.00 2.71
3328 3494 0.103208 CATTCTCCGACCTTCTCCCG 59.897 60.000 0.00 0.00 0.00 5.14
3364 3530 8.171196 CGAGCATAAGCATATACGAAATCAATT 58.829 33.333 0.00 0.00 45.49 2.32
3374 3540 7.502339 CACTTTACACGAGCATAAGCATATAC 58.498 38.462 0.00 0.00 45.49 1.47
3423 3589 7.498900 TGAGATGAGTAGTGACAAAAACACAAT 59.501 33.333 0.00 0.00 40.25 2.71
3839 4005 6.599244 ACATTCTAAAGATGCGGATGAAAAGA 59.401 34.615 0.00 0.00 0.00 2.52
4158 4334 5.948588 TGTCATCATGGGTTGATAAAAACG 58.051 37.500 0.00 0.00 43.40 3.60
4229 4407 7.349412 AGAGTTTAGAGCGTACCTTTCATAT 57.651 36.000 0.00 0.00 0.00 1.78
4272 4450 8.554835 AGAAAAGAATGACTACTTTAGCTTCC 57.445 34.615 0.00 0.00 35.66 3.46
4315 4493 2.359214 TGAATGTTTAAAGCGCACCACA 59.641 40.909 11.47 5.20 0.00 4.17
4356 4536 1.741770 GTACAACCCAGCGGCTCAG 60.742 63.158 0.00 0.00 0.00 3.35
4369 4549 5.764686 ACAAACTGCATGAATCTCAGTACAA 59.235 36.000 0.00 0.00 39.86 2.41
4391 4888 7.704899 CGTCTGTATACCAATGAGAATACAACA 59.295 37.037 0.00 0.00 35.13 3.33
4595 5548 6.780522 AGGTTAATTAACATCAAACACAGGGT 59.219 34.615 25.59 0.00 37.92 4.34
4600 5553 9.821662 GACTACAGGTTAATTAACATCAAACAC 57.178 33.333 25.59 9.14 37.92 3.32
4601 5554 9.005777 GGACTACAGGTTAATTAACATCAAACA 57.994 33.333 25.59 6.79 37.92 2.83
4655 5608 8.211629 GGGCTTCTCTTTAATTTCCTATCACTA 58.788 37.037 0.00 0.00 0.00 2.74
4661 5614 6.011981 TCAAGGGGCTTCTCTTTAATTTCCTA 60.012 38.462 0.00 0.00 0.00 2.94
4687 5640 5.151454 ACCTTGGGTTGATTCACCAAAATA 58.849 37.500 9.33 0.00 43.12 1.40
4738 5691 3.339713 TTATGGGACGGAGGGAGTATT 57.660 47.619 0.00 0.00 0.00 1.89
4740 5693 4.687262 ATATTATGGGACGGAGGGAGTA 57.313 45.455 0.00 0.00 0.00 2.59
4741 5694 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
4742 5695 5.484290 AGTTTATATTATGGGACGGAGGGAG 59.516 44.000 0.00 0.00 0.00 4.30
4743 5696 5.247564 CAGTTTATATTATGGGACGGAGGGA 59.752 44.000 0.00 0.00 0.00 4.20
4744 5697 5.012768 ACAGTTTATATTATGGGACGGAGGG 59.987 44.000 0.00 0.00 0.00 4.30
4745 5698 6.110411 ACAGTTTATATTATGGGACGGAGG 57.890 41.667 0.00 0.00 0.00 4.30
4746 5699 7.813148 CACTACAGTTTATATTATGGGACGGAG 59.187 40.741 0.00 0.00 0.00 4.63
4747 5700 7.288389 ACACTACAGTTTATATTATGGGACGGA 59.712 37.037 0.00 0.00 0.00 4.69
4748 5701 7.439381 ACACTACAGTTTATATTATGGGACGG 58.561 38.462 0.00 0.00 0.00 4.79
4749 5702 8.139350 TGACACTACAGTTTATATTATGGGACG 58.861 37.037 0.00 0.00 0.00 4.79
4750 5703 9.826574 TTGACACTACAGTTTATATTATGGGAC 57.173 33.333 0.00 0.00 0.00 4.46
4757 5710 8.780249 AGCGTTTTTGACACTACAGTTTATATT 58.220 29.630 0.00 0.00 0.00 1.28
4758 5711 8.319143 AGCGTTTTTGACACTACAGTTTATAT 57.681 30.769 0.00 0.00 0.00 0.86
4759 5712 7.654520 AGAGCGTTTTTGACACTACAGTTTATA 59.345 33.333 0.00 0.00 0.00 0.98
4760 5713 6.482308 AGAGCGTTTTTGACACTACAGTTTAT 59.518 34.615 0.00 0.00 0.00 1.40
4761 5714 5.813672 AGAGCGTTTTTGACACTACAGTTTA 59.186 36.000 0.00 0.00 0.00 2.01
4762 5715 4.634443 AGAGCGTTTTTGACACTACAGTTT 59.366 37.500 0.00 0.00 0.00 2.66
4763 5716 4.189231 AGAGCGTTTTTGACACTACAGTT 58.811 39.130 0.00 0.00 0.00 3.16
4764 5717 3.793559 AGAGCGTTTTTGACACTACAGT 58.206 40.909 0.00 0.00 0.00 3.55
4765 5718 4.795970 AAGAGCGTTTTTGACACTACAG 57.204 40.909 0.00 0.00 0.00 2.74
4766 5719 8.542497 AATATAAGAGCGTTTTTGACACTACA 57.458 30.769 0.00 0.00 0.00 2.74
4769 5722 8.612619 CCATAATATAAGAGCGTTTTTGACACT 58.387 33.333 0.00 0.00 0.00 3.55
4770 5723 7.855904 CCCATAATATAAGAGCGTTTTTGACAC 59.144 37.037 0.00 0.00 0.00 3.67
4771 5724 7.771361 TCCCATAATATAAGAGCGTTTTTGACA 59.229 33.333 0.00 0.00 0.00 3.58
4772 5725 8.068380 GTCCCATAATATAAGAGCGTTTTTGAC 58.932 37.037 0.00 0.00 0.00 3.18
4773 5726 7.042321 CGTCCCATAATATAAGAGCGTTTTTGA 60.042 37.037 0.00 0.00 0.00 2.69
4774 5727 7.069569 CGTCCCATAATATAAGAGCGTTTTTG 58.930 38.462 0.00 0.00 0.00 2.44
4775 5728 6.204108 CCGTCCCATAATATAAGAGCGTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
4776 5729 5.699458 CCGTCCCATAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
4777 5730 5.011329 TCCGTCCCATAATATAAGAGCGTTT 59.989 40.000 0.00 0.00 0.00 3.60
4778 5731 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
4779 5732 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
4780 5733 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
4781 5734 4.141914 CCCTCCGTCCCATAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
4782 5735 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
4783 5736 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
4784 5737 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
4785 5738 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
4786 5739 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
4787 5740 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
4788 5741 3.400322 AGTACTCCCTCCGTCCCATAATA 59.600 47.826 0.00 0.00 0.00 0.98
4789 5742 2.179424 AGTACTCCCTCCGTCCCATAAT 59.821 50.000 0.00 0.00 0.00 1.28
4790 5743 1.572415 AGTACTCCCTCCGTCCCATAA 59.428 52.381 0.00 0.00 0.00 1.90
4791 5744 1.229131 AGTACTCCCTCCGTCCCATA 58.771 55.000 0.00 0.00 0.00 2.74
4792 5745 1.133544 GTAGTACTCCCTCCGTCCCAT 60.134 57.143 0.00 0.00 0.00 4.00
4793 5746 0.257039 GTAGTACTCCCTCCGTCCCA 59.743 60.000 0.00 0.00 0.00 4.37
4794 5747 0.257039 TGTAGTACTCCCTCCGTCCC 59.743 60.000 0.00 0.00 0.00 4.46
4795 5748 2.361643 ATGTAGTACTCCCTCCGTCC 57.638 55.000 0.00 0.00 0.00 4.79
4796 5749 4.909001 AGATATGTAGTACTCCCTCCGTC 58.091 47.826 0.00 0.00 0.00 4.79
4797 5750 4.997545 AGATATGTAGTACTCCCTCCGT 57.002 45.455 0.00 0.00 0.00 4.69
4798 5751 6.651975 AAAAGATATGTAGTACTCCCTCCG 57.348 41.667 0.00 0.00 0.00 4.63
4799 5752 9.761504 GTTTAAAAGATATGTAGTACTCCCTCC 57.238 37.037 0.00 0.00 0.00 4.30
4802 5755 9.322773 GGTGTTTAAAAGATATGTAGTACTCCC 57.677 37.037 0.00 0.00 0.00 4.30
4803 5756 9.880157 TGGTGTTTAAAAGATATGTAGTACTCC 57.120 33.333 0.00 0.00 0.00 3.85
4888 5842 7.709385 CGTTTAACGGGTAAAATAACATCAC 57.291 36.000 9.88 0.00 38.08 3.06


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

AutoCloner maintained by Alex Coulton.