Multiple sequence alignment - TraesCS6B01G194500

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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 TraesCS6B01G194500 chr6B 100.000 4931 0 0 1 4931 229282375 229277445 0.000000e+00 9106.0
1 TraesCS6B01G194500 chr6B 89.855 69 6 1 4529 4596 229277781 229277713 2.450000e-13 87.9
2 TraesCS6B01G194500 chr6B 89.855 69 6 1 4595 4663 229277847 229277780 2.450000e-13 87.9
3 TraesCS6B01G194500 chr6D 98.212 4194 67 8 405 4596 131707402 131703215 0.000000e+00 7323.0
4 TraesCS6B01G194500 chr6D 97.805 410 5 3 1 408 131707856 131707449 0.000000e+00 704.0
5 TraesCS6B01G194500 chr6D 91.870 246 13 5 4598 4839 131703279 131703037 2.200000e-88 337.0
6 TraesCS6B01G194500 chr6D 96.403 139 3 1 1 137 131708085 131707947 1.380000e-55 228.0
7 TraesCS6B01G194500 chr6D 80.916 131 22 3 4792 4919 102490623 102490493 3.140000e-17 100.0
8 TraesCS6B01G194500 chr6A 97.222 4211 93 12 405 4596 170523934 170519729 0.000000e+00 7107.0
9 TraesCS6B01G194500 chr6A 97.059 408 8 2 1 406 170524388 170523983 0.000000e+00 684.0
10 TraesCS6B01G194500 chr6A 87.500 344 22 8 4598 4931 170519794 170519462 1.300000e-100 377.0
11 TraesCS6B01G194500 chr6A 100.000 29 0 0 419 447 170523861 170523833 2.000000e-03 54.7
12 TraesCS6B01G194500 chr2D 88.329 694 78 3 2337 3029 33366326 33367017 0.000000e+00 830.0
13 TraesCS6B01G194500 chr2D 86.331 695 95 0 2335 3029 33229610 33230304 0.000000e+00 758.0
14 TraesCS6B01G194500 chr2D 82.791 738 112 10 3188 3919 33309738 33310466 0.000000e+00 645.0
15 TraesCS6B01G194500 chr2D 83.741 695 90 6 2335 3029 33309061 33309732 1.940000e-178 636.0
16 TraesCS6B01G194500 chr2D 82.449 735 120 6 3188 3919 33230310 33231038 6.960000e-178 634.0
17 TraesCS6B01G194500 chr2D 78.921 593 116 7 2645 3231 33228996 33229585 1.290000e-105 394.0
18 TraesCS6B01G194500 chr2D 77.676 327 63 5 3280 3605 33365412 33365729 1.810000e-44 191.0
19 TraesCS6B01G194500 chr2B 87.050 695 90 0 2335 3029 55179156 55179850 0.000000e+00 785.0
20 TraesCS6B01G194500 chr2B 83.685 711 107 6 3212 3919 55179883 55180587 0.000000e+00 662.0
21 TraesCS6B01G194500 chr2B 81.929 736 123 5 3188 3918 55691827 55692557 9.070000e-172 614.0
22 TraesCS6B01G194500 chr2B 80.284 563 100 9 2645 3200 521977567 521977009 9.880000e-112 414.0
23 TraesCS6B01G194500 chr2B 83.904 292 43 2 3212 3502 55497539 55497827 4.860000e-70 276.0
24 TraesCS6B01G194500 chr2A 86.043 695 97 0 2335 3029 36385435 36386129 0.000000e+00 747.0
25 TraesCS6B01G194500 chr2A 83.099 710 109 8 3212 3919 36386162 36386862 1.940000e-178 636.0
26 TraesCS6B01G194500 chr2A 79.328 595 114 7 2645 3233 36384821 36385412 4.590000e-110 409.0
27 TraesCS6B01G194500 chr4D 94.425 287 14 1 1 285 34700685 34700971 1.630000e-119 440.0
28 TraesCS6B01G194500 chr4A 84.146 328 33 9 11 334 567677104 567676792 2.890000e-77 300.0
29 TraesCS6B01G194500 chr4B 87.845 181 13 3 426 606 49748505 49748676 2.330000e-48 204.0
30 TraesCS6B01G194500 chr7A 81.679 131 22 2 4792 4920 81636304 81636434 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 TraesCS6B01G194500 chr6B 229277445 229282375 4930 True 9106.000000 9106 100.000000 1 4931 1 chr6B.!!$R1 4930
1 TraesCS6B01G194500 chr6D 131703037 131708085 5048 True 2148.000000 7323 96.072500 1 4839 4 chr6D.!!$R2 4838
2 TraesCS6B01G194500 chr6A 170519462 170524388 4926 True 2055.675000 7107 95.445250 1 4931 4 chr6A.!!$R1 4930
3 TraesCS6B01G194500 chr2D 33309061 33310466 1405 False 640.500000 645 83.266000 2335 3919 2 chr2D.!!$F2 1584
4 TraesCS6B01G194500 chr2D 33228996 33231038 2042 False 595.333333 758 82.567000 2335 3919 3 chr2D.!!$F1 1584
5 TraesCS6B01G194500 chr2D 33365412 33367017 1605 False 510.500000 830 83.002500 2337 3605 2 chr2D.!!$F3 1268
6 TraesCS6B01G194500 chr2B 55179156 55180587 1431 False 723.500000 785 85.367500 2335 3919 2 chr2B.!!$F3 1584
7 TraesCS6B01G194500 chr2B 55691827 55692557 730 False 614.000000 614 81.929000 3188 3918 1 chr2B.!!$F2 730
8 TraesCS6B01G194500 chr2B 521977009 521977567 558 True 414.000000 414 80.284000 2645 3200 1 chr2B.!!$R1 555
9 TraesCS6B01G194500 chr2A 36384821 36386862 2041 False 597.333333 747 82.823333 2335 3919 3 chr2A.!!$F1 1584

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
349 581 0.032615 TTCTGGTTGTTTGTGGGGCT 60.033 50.000 0.00 0.00 0.00 5.19 F
1170 1471 0.385974 GTGACGTTCATTGTGCTGCC 60.386 55.000 0.00 0.00 0.00 4.85 F
1795 2096 3.359033 TCTCATAAGGCAGCTGCAAATT 58.641 40.909 37.63 28.66 44.36 1.82 F
3456 3768 4.299485 GGGGAGAGGAGGAGAAAAGATTA 58.701 47.826 0.00 0.00 0.00 1.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2205 2506 2.573915 TGTGTGACCATTATGCCCAGTA 59.426 45.455 0.0 0.0 0.00 2.74 R
3088 3392 0.474660 ACCTTCTCAGACCCCTTGCT 60.475 55.000 0.0 0.0 0.00 3.91 R
3468 3780 1.078759 CACACGCAAGAGTCCGATCC 61.079 60.000 0.0 0.0 39.86 3.36 R
4747 5063 0.323542 AACAACAACAACACGGGGGA 60.324 50.000 0.0 0.0 0.00 4.81 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
349 581 0.032615 TTCTGGTTGTTTGTGGGGCT 60.033 50.000 0.00 0.00 0.00 5.19
350 582 0.032615 TCTGGTTGTTTGTGGGGCTT 60.033 50.000 0.00 0.00 0.00 4.35
459 741 1.076549 TTGTTGGGGCTTAGCTGGG 59.923 57.895 3.59 0.00 0.00 4.45
921 1222 7.700022 ATGAGAAAAAGAATGGAGAGAAAGG 57.300 36.000 0.00 0.00 0.00 3.11
948 1249 5.467063 CAGTCTTTCTTGTTACTGGGACTTC 59.533 44.000 0.00 0.00 36.53 3.01
960 1261 0.908198 GGGACTTCCTGCATGAGAGT 59.092 55.000 0.00 6.55 35.95 3.24
1170 1471 0.385974 GTGACGTTCATTGTGCTGCC 60.386 55.000 0.00 0.00 0.00 4.85
1795 2096 3.359033 TCTCATAAGGCAGCTGCAAATT 58.641 40.909 37.63 28.66 44.36 1.82
2202 2503 4.586001 AGCACACCAAAGTTTGATGAAGAT 59.414 37.500 17.14 4.68 0.00 2.40
2205 2506 7.039504 AGCACACCAAAGTTTGATGAAGATAAT 60.040 33.333 17.14 0.00 0.00 1.28
2769 3070 7.047891 AGTATGAACTTGTTCAAGTTGTCTCA 58.952 34.615 27.99 21.27 42.57 3.27
2823 3124 5.356426 GTGCCACTTGTGAAAATAAAAGGT 58.644 37.500 1.89 0.00 0.00 3.50
2850 3151 7.234187 TGTTAGCTTATTTATGCAGTCGAAG 57.766 36.000 0.00 0.00 0.00 3.79
3088 3392 7.638444 TGGTTCATCCAGTGGAATTAATTCTA 58.362 34.615 23.85 17.47 41.93 2.10
3206 3513 7.040062 GCATCATACTCCATCTACTGTAGAAGT 60.040 40.741 20.40 19.68 43.40 3.01
3225 3532 6.725364 AGAAGTTGTGGATGTTAATGAGGAT 58.275 36.000 0.00 0.00 0.00 3.24
3456 3768 4.299485 GGGGAGAGGAGGAGAAAAGATTA 58.701 47.826 0.00 0.00 0.00 1.75
3468 3780 9.157104 GAGGAGAAAAGATTAACTGGTAAAGAG 57.843 37.037 0.00 0.00 0.00 2.85
3705 4017 4.870123 TGAATTTGTGGAGATTGTTGGG 57.130 40.909 0.00 0.00 0.00 4.12
4010 4322 2.457598 TCTATCGAAGTTGGGCAGTCT 58.542 47.619 0.00 0.00 0.00 3.24
4157 4469 2.558378 CTGCAGCAGCTTTCTATAGCA 58.442 47.619 10.14 0.00 43.68 3.49
4210 4522 1.133009 AGTCTCAAGTGTCACCCCTCT 60.133 52.381 0.00 0.00 0.00 3.69
4354 4666 4.889409 GGAAGTTTTGGCTCATCCATGATA 59.111 41.667 0.00 0.00 46.04 2.15
4368 4680 2.439135 CCATGATACACCCATCACAGGA 59.561 50.000 0.00 0.00 37.74 3.86
4417 4730 5.907866 TTGTTCCCGTTTCTTCTTTCTTT 57.092 34.783 0.00 0.00 0.00 2.52
4421 4734 6.096282 TGTTCCCGTTTCTTCTTTCTTTGATT 59.904 34.615 0.00 0.00 0.00 2.57
4455 4768 2.380084 CCAGTCTTTAGCGCTGGTAA 57.620 50.000 22.90 10.61 43.42 2.85
4532 4845 3.444034 GGACTAGATTTTTGGTCCTTGGC 59.556 47.826 0.00 0.00 43.30 4.52
4533 4846 4.336280 GACTAGATTTTTGGTCCTTGGCT 58.664 43.478 0.00 0.00 0.00 4.75
4534 4847 4.740902 ACTAGATTTTTGGTCCTTGGCTT 58.259 39.130 0.00 0.00 0.00 4.35
4535 4848 4.767409 ACTAGATTTTTGGTCCTTGGCTTC 59.233 41.667 0.00 0.00 0.00 3.86
4536 4849 3.849527 AGATTTTTGGTCCTTGGCTTCT 58.150 40.909 0.00 0.00 0.00 2.85
4537 4850 4.998051 AGATTTTTGGTCCTTGGCTTCTA 58.002 39.130 0.00 0.00 0.00 2.10
4538 4851 4.767409 AGATTTTTGGTCCTTGGCTTCTAC 59.233 41.667 0.00 0.00 0.00 2.59
4539 4852 2.178912 TTTGGTCCTTGGCTTCTACG 57.821 50.000 0.00 0.00 0.00 3.51
4540 4853 1.053424 TTGGTCCTTGGCTTCTACGT 58.947 50.000 0.00 0.00 0.00 3.57
4541 4854 0.320374 TGGTCCTTGGCTTCTACGTG 59.680 55.000 0.00 0.00 0.00 4.49
4542 4855 0.320697 GGTCCTTGGCTTCTACGTGT 59.679 55.000 0.00 0.00 0.00 4.49
4543 4856 1.270678 GGTCCTTGGCTTCTACGTGTT 60.271 52.381 0.00 0.00 0.00 3.32
4544 4857 1.798813 GTCCTTGGCTTCTACGTGTTG 59.201 52.381 0.00 0.00 0.00 3.33
4545 4858 0.517316 CCTTGGCTTCTACGTGTTGC 59.483 55.000 0.00 0.00 0.00 4.17
4546 4859 1.225855 CTTGGCTTCTACGTGTTGCA 58.774 50.000 0.00 0.00 0.00 4.08
4547 4860 1.806542 CTTGGCTTCTACGTGTTGCAT 59.193 47.619 0.00 0.00 0.00 3.96
4548 4861 1.155889 TGGCTTCTACGTGTTGCATG 58.844 50.000 0.00 0.00 0.00 4.06
4549 4862 1.156736 GGCTTCTACGTGTTGCATGT 58.843 50.000 0.00 0.00 37.38 3.21
4550 4863 1.535462 GGCTTCTACGTGTTGCATGTT 59.465 47.619 0.00 0.00 35.12 2.71
4551 4864 2.031157 GGCTTCTACGTGTTGCATGTTT 60.031 45.455 0.00 0.00 35.12 2.83
4552 4865 3.226347 GCTTCTACGTGTTGCATGTTTC 58.774 45.455 0.00 0.00 35.12 2.78
4553 4866 3.303725 GCTTCTACGTGTTGCATGTTTCA 60.304 43.478 0.00 0.00 35.12 2.69
4554 4867 4.457810 CTTCTACGTGTTGCATGTTTCAG 58.542 43.478 0.00 0.00 35.12 3.02
4555 4868 2.223144 TCTACGTGTTGCATGTTTCAGC 59.777 45.455 0.00 0.00 35.12 4.26
4556 4869 0.737804 ACGTGTTGCATGTTTCAGCA 59.262 45.000 0.00 0.00 39.32 4.41
4557 4870 1.268692 ACGTGTTGCATGTTTCAGCAG 60.269 47.619 0.00 0.00 42.39 4.24
4558 4871 1.268692 CGTGTTGCATGTTTCAGCAGT 60.269 47.619 0.00 0.00 42.39 4.40
4559 4872 2.121786 GTGTTGCATGTTTCAGCAGTG 58.878 47.619 0.00 0.00 42.39 3.66
4560 4873 1.067364 TGTTGCATGTTTCAGCAGTGG 59.933 47.619 0.00 0.00 42.39 4.00
4561 4874 1.337703 GTTGCATGTTTCAGCAGTGGA 59.662 47.619 0.00 0.00 42.39 4.02
4562 4875 1.241165 TGCATGTTTCAGCAGTGGAG 58.759 50.000 0.00 0.00 35.51 3.86
4563 4876 1.202794 TGCATGTTTCAGCAGTGGAGA 60.203 47.619 0.00 0.00 35.51 3.71
4564 4877 2.089980 GCATGTTTCAGCAGTGGAGAT 58.910 47.619 0.00 0.00 0.00 2.75
4565 4878 2.490903 GCATGTTTCAGCAGTGGAGATT 59.509 45.455 0.00 0.00 0.00 2.40
4566 4879 3.427233 GCATGTTTCAGCAGTGGAGATTC 60.427 47.826 0.00 0.00 0.00 2.52
4567 4880 3.777106 TGTTTCAGCAGTGGAGATTCT 57.223 42.857 0.00 0.00 0.00 2.40
4568 4881 4.890158 TGTTTCAGCAGTGGAGATTCTA 57.110 40.909 0.00 0.00 0.00 2.10
4569 4882 4.569943 TGTTTCAGCAGTGGAGATTCTAC 58.430 43.478 0.00 0.00 0.00 2.59
4570 4883 4.040339 TGTTTCAGCAGTGGAGATTCTACA 59.960 41.667 0.00 0.00 29.47 2.74
4571 4884 5.181748 GTTTCAGCAGTGGAGATTCTACAT 58.818 41.667 0.97 0.00 29.47 2.29
4572 4885 4.397481 TCAGCAGTGGAGATTCTACATG 57.603 45.455 0.97 3.34 29.47 3.21
4573 4886 4.026052 TCAGCAGTGGAGATTCTACATGA 58.974 43.478 0.97 0.00 29.47 3.07
4574 4887 4.652881 TCAGCAGTGGAGATTCTACATGAT 59.347 41.667 0.97 0.00 29.47 2.45
4575 4888 4.750598 CAGCAGTGGAGATTCTACATGATG 59.249 45.833 0.97 6.96 29.47 3.07
4576 4889 4.408270 AGCAGTGGAGATTCTACATGATGT 59.592 41.667 0.97 2.65 29.47 3.06
4577 4890 4.510711 GCAGTGGAGATTCTACATGATGTG 59.489 45.833 8.61 0.00 29.47 3.21
4578 4891 5.668471 CAGTGGAGATTCTACATGATGTGT 58.332 41.667 8.61 0.00 44.95 3.72
4579 4892 6.111382 CAGTGGAGATTCTACATGATGTGTT 58.889 40.000 8.61 0.00 42.29 3.32
4580 4893 6.596888 CAGTGGAGATTCTACATGATGTGTTT 59.403 38.462 8.61 0.00 42.29 2.83
4581 4894 7.765819 CAGTGGAGATTCTACATGATGTGTTTA 59.234 37.037 8.61 0.00 42.29 2.01
4582 4895 7.984050 AGTGGAGATTCTACATGATGTGTTTAG 59.016 37.037 8.61 0.00 42.29 1.85
4583 4896 7.225538 GTGGAGATTCTACATGATGTGTTTAGG 59.774 40.741 8.61 0.00 42.29 2.69
4584 4897 6.708054 GGAGATTCTACATGATGTGTTTAGGG 59.292 42.308 8.61 0.00 42.29 3.53
4585 4898 7.200434 AGATTCTACATGATGTGTTTAGGGT 57.800 36.000 8.61 0.00 42.29 4.34
4586 4899 8.319057 AGATTCTACATGATGTGTTTAGGGTA 57.681 34.615 8.61 0.00 42.29 3.69
4587 4900 8.424918 AGATTCTACATGATGTGTTTAGGGTAG 58.575 37.037 8.61 0.00 42.29 3.18
4588 4901 7.490657 TTCTACATGATGTGTTTAGGGTAGT 57.509 36.000 8.61 0.00 42.29 2.73
4589 4902 8.598202 TTCTACATGATGTGTTTAGGGTAGTA 57.402 34.615 8.61 0.00 42.29 1.82
4590 4903 8.777578 TCTACATGATGTGTTTAGGGTAGTAT 57.222 34.615 8.61 0.00 42.29 2.12
4591 4904 8.857098 TCTACATGATGTGTTTAGGGTAGTATC 58.143 37.037 8.61 0.00 42.29 2.24
4592 4905 7.432148 ACATGATGTGTTTAGGGTAGTATCA 57.568 36.000 0.00 0.00 38.01 2.15
4593 4906 7.500992 ACATGATGTGTTTAGGGTAGTATCAG 58.499 38.462 0.00 0.00 38.01 2.90
4594 4907 7.125811 ACATGATGTGTTTAGGGTAGTATCAGT 59.874 37.037 0.00 0.00 38.01 3.41
4595 4908 7.490657 TGATGTGTTTAGGGTAGTATCAGTT 57.509 36.000 0.00 0.00 0.00 3.16
4596 4909 7.327975 TGATGTGTTTAGGGTAGTATCAGTTG 58.672 38.462 0.00 0.00 0.00 3.16
4597 4910 6.045072 TGTGTTTAGGGTAGTATCAGTTGG 57.955 41.667 0.00 0.00 0.00 3.77
4650 4963 8.390921 TGGAGATTCTTTTAAGATGGGTTTAGT 58.609 33.333 0.00 0.00 34.49 2.24
4699 5014 4.012374 CTCTATGTGTTGGGATGCTTTGT 58.988 43.478 0.00 0.00 0.00 2.83
4708 5023 1.546029 GGGATGCTTTGTTTGAGGTCC 59.454 52.381 0.00 0.00 0.00 4.46
4712 5027 3.569194 TGCTTTGTTTGAGGTCCAGTA 57.431 42.857 0.00 0.00 0.00 2.74
4747 5063 3.746045 TTGCTTCTCGTGTCCTTTAGT 57.254 42.857 0.00 0.00 0.00 2.24
4819 5141 7.830739 TGGCTTCTTAGATTCAAAGGATTTTC 58.169 34.615 0.00 0.00 35.03 2.29
4868 5190 5.708697 CCTTAGAAAATTTTCCTACGGTGGT 59.291 40.000 24.01 7.80 37.92 4.16
4878 5200 3.404899 TCCTACGGTGGTTGTTTGATTC 58.595 45.455 0.00 0.00 0.00 2.52
4881 5203 3.641437 ACGGTGGTTGTTTGATTCATG 57.359 42.857 0.00 0.00 0.00 3.07
4903 5225 7.785985 TCATGGGATTGAATCCTACATGATTTT 59.214 33.333 27.65 6.25 45.22 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 268 4.801891 ACAGCACATATTTTCTGCACAAG 58.198 39.130 0.00 0.0 33.06 3.16
349 581 4.705023 GCTATTCCTTGGTTCCAGCTAAAA 59.295 41.667 0.00 0.0 0.00 1.52
350 582 4.270008 GCTATTCCTTGGTTCCAGCTAAA 58.730 43.478 0.00 0.0 0.00 1.85
459 741 2.119495 TCATTAGCCTCTTCCTGGGTC 58.881 52.381 0.00 0.0 36.60 4.46
544 843 9.791820 CAATCTAAAATGAAATGTGTGCATAGA 57.208 29.630 0.00 0.0 34.39 1.98
921 1222 5.236695 GTCCCAGTAACAAGAAAGACTGTTC 59.763 44.000 0.00 0.0 38.08 3.18
948 1249 1.833630 TCCTAACCACTCTCATGCAGG 59.166 52.381 0.00 0.0 0.00 4.85
960 1261 7.872138 AGAATCAATATCCAAACTCCTAACCA 58.128 34.615 0.00 0.0 0.00 3.67
1170 1471 3.187700 CTCTCCATTAACCTTCGTTCCG 58.812 50.000 0.00 0.0 33.17 4.30
1315 1616 6.095440 GCTTCTCCCACTAATTTAAATGCTGA 59.905 38.462 0.39 0.0 0.00 4.26
1563 1864 5.473504 ACAACGGATAGCTTTCTTCAACATT 59.526 36.000 4.10 0.0 0.00 2.71
1795 2096 4.615513 TCTTCCCCCTTCTTTTTGTTTGA 58.384 39.130 0.00 0.0 0.00 2.69
1941 2242 3.458044 TCACTATCAGTGGTGGTCTCT 57.542 47.619 6.48 0.0 45.94 3.10
2202 2503 5.104318 TGTGTGACCATTATGCCCAGTATTA 60.104 40.000 0.00 0.0 0.00 0.98
2205 2506 2.573915 TGTGTGACCATTATGCCCAGTA 59.426 45.455 0.00 0.0 0.00 2.74
2707 3008 1.220206 CAGCATCCGAACTCCAGCT 59.780 57.895 0.00 0.0 0.00 4.24
2769 3070 2.699954 CTAGTGCCGGTTGTGAAATCT 58.300 47.619 1.90 0.0 0.00 2.40
2823 3124 8.035165 TCGACTGCATAAATAAGCTAACAAAA 57.965 30.769 0.00 0.0 0.00 2.44
3088 3392 0.474660 ACCTTCTCAGACCCCTTGCT 60.475 55.000 0.00 0.0 0.00 3.91
3206 3513 6.720309 TCAGAATCCTCATTAACATCCACAA 58.280 36.000 0.00 0.0 0.00 3.33
3225 3532 1.634973 TCCTGGACAATGCCATCAGAA 59.365 47.619 0.00 0.0 37.30 3.02
3456 3768 3.442076 AGTCCGATCCTCTTTACCAGTT 58.558 45.455 0.00 0.0 0.00 3.16
3468 3780 1.078759 CACACGCAAGAGTCCGATCC 61.079 60.000 0.00 0.0 39.86 3.36
3588 3900 6.183360 GGAAGCGAGGGATTATTTCATATTCG 60.183 42.308 0.00 0.0 0.00 3.34
3705 4017 3.165058 TGTATGGACGAATCAGTCTGC 57.835 47.619 0.00 0.0 40.76 4.26
4010 4322 5.121611 CCAATGCAACAATGTTAGAGACGTA 59.878 40.000 0.00 0.0 0.00 3.57
4210 4522 3.306917 TCGATTACACGAGCAGGAAAA 57.693 42.857 0.00 0.0 37.37 2.29
4354 4666 4.668925 ACCTCCTGTGATGGGTGT 57.331 55.556 0.00 0.0 0.00 4.16
4368 4680 2.027745 CACCTGCTACACTTCATCACCT 60.028 50.000 0.00 0.0 0.00 4.00
4417 4730 3.229293 TGGAATGAAACCAGCACAATCA 58.771 40.909 0.00 0.0 33.22 2.57
4531 4844 2.969443 AACATGCAACACGTAGAAGC 57.031 45.000 0.00 0.0 0.00 3.86
4532 4845 4.457810 CTGAAACATGCAACACGTAGAAG 58.542 43.478 0.00 0.0 0.00 2.85
4533 4846 3.303725 GCTGAAACATGCAACACGTAGAA 60.304 43.478 0.00 0.0 0.00 2.10
4534 4847 2.223144 GCTGAAACATGCAACACGTAGA 59.777 45.455 0.00 0.0 0.00 2.59
4535 4848 2.032117 TGCTGAAACATGCAACACGTAG 60.032 45.455 0.00 0.0 36.15 3.51
4536 4849 1.943340 TGCTGAAACATGCAACACGTA 59.057 42.857 0.00 0.0 36.15 3.57
4537 4850 0.737804 TGCTGAAACATGCAACACGT 59.262 45.000 0.00 0.0 36.15 4.49
4538 4851 1.268692 ACTGCTGAAACATGCAACACG 60.269 47.619 0.00 0.0 38.81 4.49
4539 4852 2.121786 CACTGCTGAAACATGCAACAC 58.878 47.619 0.00 0.0 38.81 3.32
4540 4853 1.067364 CCACTGCTGAAACATGCAACA 59.933 47.619 0.00 0.0 38.81 3.33
4541 4854 1.337703 TCCACTGCTGAAACATGCAAC 59.662 47.619 0.00 0.0 38.81 4.17
4542 4855 1.610038 CTCCACTGCTGAAACATGCAA 59.390 47.619 0.00 0.0 38.81 4.08
4543 4856 1.202794 TCTCCACTGCTGAAACATGCA 60.203 47.619 0.00 0.0 37.63 3.96
4544 4857 1.527034 TCTCCACTGCTGAAACATGC 58.473 50.000 0.00 0.0 0.00 4.06
4545 4858 4.008330 AGAATCTCCACTGCTGAAACATG 58.992 43.478 0.00 0.0 0.00 3.21
4546 4859 4.298103 AGAATCTCCACTGCTGAAACAT 57.702 40.909 0.00 0.0 0.00 2.71
4547 4860 3.777106 AGAATCTCCACTGCTGAAACA 57.223 42.857 0.00 0.0 0.00 2.83
4548 4861 4.569943 TGTAGAATCTCCACTGCTGAAAC 58.430 43.478 0.00 0.0 0.00 2.78
4549 4862 4.890158 TGTAGAATCTCCACTGCTGAAA 57.110 40.909 0.00 0.0 0.00 2.69
4550 4863 4.467438 TCATGTAGAATCTCCACTGCTGAA 59.533 41.667 0.00 0.0 0.00 3.02
4551 4864 4.026052 TCATGTAGAATCTCCACTGCTGA 58.974 43.478 0.00 0.0 0.00 4.26
4552 4865 4.397481 TCATGTAGAATCTCCACTGCTG 57.603 45.455 0.00 0.0 0.00 4.41
4553 4866 4.408270 ACATCATGTAGAATCTCCACTGCT 59.592 41.667 0.00 0.0 0.00 4.24
4554 4867 4.510711 CACATCATGTAGAATCTCCACTGC 59.489 45.833 0.00 0.0 0.00 4.40
4555 4868 5.668471 ACACATCATGTAGAATCTCCACTG 58.332 41.667 0.00 0.0 40.88 3.66
4556 4869 5.946942 ACACATCATGTAGAATCTCCACT 57.053 39.130 0.00 0.0 40.88 4.00
4557 4870 6.992063 AAACACATCATGTAGAATCTCCAC 57.008 37.500 0.00 0.0 42.31 4.02
4558 4871 7.275183 CCTAAACACATCATGTAGAATCTCCA 58.725 38.462 0.00 0.0 42.31 3.86
4559 4872 6.708054 CCCTAAACACATCATGTAGAATCTCC 59.292 42.308 0.00 0.0 42.31 3.71
4560 4873 7.275920 ACCCTAAACACATCATGTAGAATCTC 58.724 38.462 0.00 0.0 42.31 2.75
4561 4874 7.200434 ACCCTAAACACATCATGTAGAATCT 57.800 36.000 0.00 0.0 42.31 2.40
4562 4875 8.204836 ACTACCCTAAACACATCATGTAGAATC 58.795 37.037 0.00 0.0 42.31 2.52
4563 4876 8.090788 ACTACCCTAAACACATCATGTAGAAT 57.909 34.615 0.00 0.0 42.31 2.40
4564 4877 7.490657 ACTACCCTAAACACATCATGTAGAA 57.509 36.000 0.00 0.0 42.31 2.10
4565 4878 8.777578 ATACTACCCTAAACACATCATGTAGA 57.222 34.615 0.00 0.0 42.31 2.59
4566 4879 8.638873 TGATACTACCCTAAACACATCATGTAG 58.361 37.037 0.00 0.0 42.31 2.74
4567 4880 8.541899 TGATACTACCCTAAACACATCATGTA 57.458 34.615 0.00 0.0 42.31 2.29
4568 4881 7.125811 ACTGATACTACCCTAAACACATCATGT 59.874 37.037 0.00 0.0 46.42 3.21
4569 4882 7.500992 ACTGATACTACCCTAAACACATCATG 58.499 38.462 0.00 0.0 0.00 3.07
4570 4883 7.676683 ACTGATACTACCCTAAACACATCAT 57.323 36.000 0.00 0.0 0.00 2.45
4571 4884 7.327975 CAACTGATACTACCCTAAACACATCA 58.672 38.462 0.00 0.0 0.00 3.07
4572 4885 6.761714 CCAACTGATACTACCCTAAACACATC 59.238 42.308 0.00 0.0 0.00 3.06
4573 4886 6.650120 CCAACTGATACTACCCTAAACACAT 58.350 40.000 0.00 0.0 0.00 3.21
4574 4887 5.570034 GCCAACTGATACTACCCTAAACACA 60.570 44.000 0.00 0.0 0.00 3.72
4575 4888 4.874396 GCCAACTGATACTACCCTAAACAC 59.126 45.833 0.00 0.0 0.00 3.32
4576 4889 4.781087 AGCCAACTGATACTACCCTAAACA 59.219 41.667 0.00 0.0 0.00 2.83
4577 4890 5.354842 AGCCAACTGATACTACCCTAAAC 57.645 43.478 0.00 0.0 0.00 2.01
4578 4891 5.724854 AGAAGCCAACTGATACTACCCTAAA 59.275 40.000 0.00 0.0 0.00 1.85
4579 4892 5.278061 AGAAGCCAACTGATACTACCCTAA 58.722 41.667 0.00 0.0 0.00 2.69
4580 4893 4.880164 AGAAGCCAACTGATACTACCCTA 58.120 43.478 0.00 0.0 0.00 3.53
4581 4894 3.725634 AGAAGCCAACTGATACTACCCT 58.274 45.455 0.00 0.0 0.00 4.34
4582 4895 4.499357 CGTAGAAGCCAACTGATACTACCC 60.499 50.000 0.00 0.0 0.00 3.69
4583 4896 4.097589 ACGTAGAAGCCAACTGATACTACC 59.902 45.833 0.00 0.0 0.00 3.18
4584 4897 5.035443 CACGTAGAAGCCAACTGATACTAC 58.965 45.833 0.00 0.0 0.00 2.73
4585 4898 4.703575 ACACGTAGAAGCCAACTGATACTA 59.296 41.667 0.00 0.0 0.00 1.82
4586 4899 3.510360 ACACGTAGAAGCCAACTGATACT 59.490 43.478 0.00 0.0 0.00 2.12
4587 4900 3.846360 ACACGTAGAAGCCAACTGATAC 58.154 45.455 0.00 0.0 0.00 2.24
4588 4901 4.242475 CAACACGTAGAAGCCAACTGATA 58.758 43.478 0.00 0.0 0.00 2.15
4589 4902 3.067106 CAACACGTAGAAGCCAACTGAT 58.933 45.455 0.00 0.0 0.00 2.90
4590 4903 2.479837 CAACACGTAGAAGCCAACTGA 58.520 47.619 0.00 0.0 0.00 3.41
4591 4904 1.069906 GCAACACGTAGAAGCCAACTG 60.070 52.381 0.00 0.0 0.00 3.16
4592 4905 1.226746 GCAACACGTAGAAGCCAACT 58.773 50.000 0.00 0.0 0.00 3.16
4593 4906 0.941542 TGCAACACGTAGAAGCCAAC 59.058 50.000 0.00 0.0 0.00 3.77
4594 4907 1.535028 CATGCAACACGTAGAAGCCAA 59.465 47.619 0.00 0.0 0.00 4.52
4595 4908 1.155889 CATGCAACACGTAGAAGCCA 58.844 50.000 0.00 0.0 0.00 4.75
4596 4909 1.156736 ACATGCAACACGTAGAAGCC 58.843 50.000 0.00 0.0 0.00 4.35
4597 4910 2.969443 AACATGCAACACGTAGAAGC 57.031 45.000 0.00 0.0 0.00 3.86
4650 4963 1.279496 AGGCTGGAACTGATACTGCA 58.721 50.000 1.73 0.0 0.00 4.41
4699 5014 3.686016 GCAAGGAATACTGGACCTCAAA 58.314 45.455 0.00 0.0 33.16 2.69
4708 5023 3.564511 CAAACCAACGCAAGGAATACTG 58.435 45.455 0.00 0.0 46.39 2.74
4712 5027 1.039856 AGCAAACCAACGCAAGGAAT 58.960 45.000 0.00 0.0 46.39 3.01
4747 5063 0.323542 AACAACAACAACACGGGGGA 60.324 50.000 0.00 0.0 0.00 4.81
4794 5116 7.451255 TGAAAATCCTTTGAATCTAAGAAGCCA 59.549 33.333 6.03 0.0 0.00 4.75
4862 5184 2.352617 CCCATGAATCAAACAACCACCG 60.353 50.000 0.00 0.0 0.00 4.94


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

AutoCloner maintained by Alex Coulton.