Multiple sequence alignment - TraesCS3B01G486300

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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 TraesCS3B01G486300 chr3B 100.000 2591 0 0 1 2591 732858389 732855799 0.000000e+00 4785.0
1 TraesCS3B01G486300 chr3B 88.304 684 63 14 955 1633 732845773 732845102 0.000000e+00 804.0
2 TraesCS3B01G486300 chr3B 86.043 609 57 16 997 1591 733257668 733257074 1.690000e-176 628.0
3 TraesCS3B01G486300 chr3B 87.308 520 51 5 1072 1579 733270959 733271475 4.810000e-162 580.0
4 TraesCS3B01G486300 chr3B 86.093 302 27 8 1643 1942 732844888 732844600 6.960000e-81 311.0
5 TraesCS3B01G486300 chr3B 74.515 361 54 20 160 515 732846733 732846406 3.500000e-24 122.0
6 TraesCS3B01G486300 chr3B 96.825 63 2 0 2 64 732842848 732842786 3.530000e-19 106.0
7 TraesCS3B01G486300 chr3B 88.732 71 7 1 2488 2558 732838234 732838165 4.590000e-13 86.1
8 TraesCS3B01G486300 chr3D 86.816 1881 164 42 519 2359 552425256 552423420 0.000000e+00 2023.0
9 TraesCS3B01G486300 chr3D 88.584 1638 133 26 975 2591 552416926 552415322 0.000000e+00 1940.0
10 TraesCS3B01G486300 chr3D 87.771 646 62 8 948 1591 552289501 552288871 0.000000e+00 739.0
11 TraesCS3B01G486300 chr3D 86.334 622 59 20 990 1591 552576292 552575677 0.000000e+00 654.0
12 TraesCS3B01G486300 chr3D 86.312 621 52 17 990 1591 552609844 552609238 0.000000e+00 645.0
13 TraesCS3B01G486300 chr3D 86.047 172 16 4 2 165 552290856 552290685 7.370000e-41 178.0
14 TraesCS3B01G486300 chr3D 80.000 115 15 6 13 119 552419319 552419205 7.690000e-11 78.7
15 TraesCS3B01G486300 chr3A 87.241 1787 134 38 713 2453 688916137 688914399 0.000000e+00 1951.0
16 TraesCS3B01G486300 chr3A 87.592 814 60 21 975 1765 688907727 688906932 0.000000e+00 905.0
17 TraesCS3B01G486300 chr3A 88.152 633 48 17 975 1591 688899018 688898397 0.000000e+00 728.0
18 TraesCS3B01G486300 chr3A 87.055 618 50 14 990 1591 688987048 688986445 0.000000e+00 671.0
19 TraesCS3B01G486300 chr3A 86.893 618 51 13 990 1591 688978039 688977436 0.000000e+00 665.0
20 TraesCS3B01G486300 chr3A 88.411 535 47 9 1072 1591 689002907 689003441 4.710000e-177 630.0
21 TraesCS3B01G486300 chr3A 89.666 329 29 2 1796 2119 688906932 688906604 5.160000e-112 414.0
22 TraesCS3B01G486300 chr3A 84.677 124 17 1 184 305 688899962 688899839 3.500000e-24 122.0
23 TraesCS3B01G486300 chr3A 90.000 70 3 2 214 279 688908582 688908513 1.280000e-13 87.9
24 TraesCS3B01G486300 chr3A 78.030 132 13 6 2456 2586 688914371 688914255 4.630000e-08 69.4


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 TraesCS3B01G486300 chr3B 732855799 732858389 2590 True 4785.000000 4785 100.00000 1 2591 1 chr3B.!!$R2 2590
1 TraesCS3B01G486300 chr3B 733257074 733257668 594 True 628.000000 628 86.04300 997 1591 1 chr3B.!!$R3 594
2 TraesCS3B01G486300 chr3B 733270959 733271475 516 False 580.000000 580 87.30800 1072 1579 1 chr3B.!!$F1 507
3 TraesCS3B01G486300 chr3B 732842786 732846733 3947 True 335.750000 804 86.43425 2 1942 4 chr3B.!!$R4 1940
4 TraesCS3B01G486300 chr3D 552423420 552425256 1836 True 2023.000000 2023 86.81600 519 2359 1 chr3D.!!$R1 1840
5 TraesCS3B01G486300 chr3D 552415322 552419319 3997 True 1009.350000 1940 84.29200 13 2591 2 chr3D.!!$R5 2578
6 TraesCS3B01G486300 chr3D 552575677 552576292 615 True 654.000000 654 86.33400 990 1591 1 chr3D.!!$R2 601
7 TraesCS3B01G486300 chr3D 552609238 552609844 606 True 645.000000 645 86.31200 990 1591 1 chr3D.!!$R3 601
8 TraesCS3B01G486300 chr3D 552288871 552290856 1985 True 458.500000 739 86.90900 2 1591 2 chr3D.!!$R4 1589
9 TraesCS3B01G486300 chr3A 688914255 688916137 1882 True 1010.200000 1951 82.63550 713 2586 2 chr3A.!!$R5 1873
10 TraesCS3B01G486300 chr3A 688986445 688987048 603 True 671.000000 671 87.05500 990 1591 1 chr3A.!!$R2 601
11 TraesCS3B01G486300 chr3A 688977436 688978039 603 True 665.000000 665 86.89300 990 1591 1 chr3A.!!$R1 601
12 TraesCS3B01G486300 chr3A 689002907 689003441 534 False 630.000000 630 88.41100 1072 1591 1 chr3A.!!$F1 519
13 TraesCS3B01G486300 chr3A 688906604 688908582 1978 True 468.966667 905 89.08600 214 2119 3 chr3A.!!$R4 1905
14 TraesCS3B01G486300 chr3A 688898397 688899962 1565 True 425.000000 728 86.41450 184 1591 2 chr3A.!!$R3 1407

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
488 2007 0.033894 TCTGCCATGCATGTGTGGAT 60.034 50.0 24.58 0.0 38.13 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2037 4624 0.249868 ACAACTGCTTGCTGCGTCTA 60.25 50.0 0.0 0.0 46.63 2.59 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
28 29 1.740585 AGCTGCTCTACACGTAGACAG 59.259 52.381 20.62 20.62 40.35 3.51
30 31 1.740585 CTGCTCTACACGTAGACAGCT 59.259 52.381 15.42 0.00 37.28 4.24
64 65 2.844122 AACGCGCAAAGAAAGAAAGT 57.156 40.000 5.73 0.00 0.00 2.66
65 66 2.844122 ACGCGCAAAGAAAGAAAGTT 57.156 40.000 5.73 0.00 0.00 2.66
68 69 2.394708 GCGCAAAGAAAGAAAGTTCCC 58.605 47.619 0.30 0.00 0.00 3.97
69 70 2.034685 GCGCAAAGAAAGAAAGTTCCCT 59.965 45.455 0.30 0.00 0.00 4.20
75 83 6.603095 CAAAGAAAGAAAGTTCCCTATCGTG 58.397 40.000 0.00 0.00 0.00 4.35
94 103 1.153489 CACACCTGGAGGCTCATCG 60.153 63.158 17.69 4.63 39.32 3.84
134 1407 3.324846 AGGTATCATCCATGTGTACGCAT 59.675 43.478 16.16 16.16 0.00 4.73
149 1422 3.488048 GCATGGTTTTTGCGTGCTA 57.512 47.368 0.00 0.00 33.25 3.49
150 1423 1.777101 GCATGGTTTTTGCGTGCTAA 58.223 45.000 0.00 0.00 33.25 3.09
154 1427 4.236935 CATGGTTTTTGCGTGCTAAGAAT 58.763 39.130 0.00 0.00 0.00 2.40
158 1431 5.861251 TGGTTTTTGCGTGCTAAGAATAATG 59.139 36.000 0.00 0.00 0.00 1.90
204 1536 1.542030 AGAGTCGTCGTTGCTGATCTT 59.458 47.619 0.00 0.00 0.00 2.40
205 1537 1.651138 GAGTCGTCGTTGCTGATCTTG 59.349 52.381 0.00 0.00 0.00 3.02
211 1543 2.158449 GTCGTTGCTGATCTTGACAAGG 59.842 50.000 15.13 0.32 0.00 3.61
265 1637 4.180057 CCTTGCTTTGTTTAACACTGCAA 58.820 39.130 24.37 24.37 41.14 4.08
283 1655 3.181488 TGCAACATTGTCCTTGTGAGTTG 60.181 43.478 0.00 0.00 38.24 3.16
284 1656 3.181487 GCAACATTGTCCTTGTGAGTTGT 60.181 43.478 0.00 0.00 37.69 3.32
369 1842 6.842163 AGGCTTGTATAAACATTTTCTGTCG 58.158 36.000 0.00 0.00 36.98 4.35
373 1846 6.397831 TGTATAAACATTTTCTGTCGTCCG 57.602 37.500 0.00 0.00 36.98 4.79
389 1863 2.427410 CGACAAGCAGCCGTTTGC 60.427 61.111 0.00 0.48 44.41 3.68
390 1864 2.050077 GACAAGCAGCCGTTTGCC 60.050 61.111 4.93 0.00 45.18 4.52
414 1888 3.819188 GCTGGAGCCGGATTTCAG 58.181 61.111 5.05 12.81 34.31 3.02
433 1907 8.757982 ATTTCAGTAATCCAGCAAGAATATGT 57.242 30.769 0.00 0.00 0.00 2.29
443 1918 7.988737 TCCAGCAAGAATATGTGTAAAATCAG 58.011 34.615 0.00 0.00 0.00 2.90
448 1923 7.429340 GCAAGAATATGTGTAAAATCAGAACCG 59.571 37.037 0.00 0.00 0.00 4.44
449 1924 8.450964 CAAGAATATGTGTAAAATCAGAACCGT 58.549 33.333 0.00 0.00 0.00 4.83
450 1925 7.974675 AGAATATGTGTAAAATCAGAACCGTG 58.025 34.615 0.00 0.00 0.00 4.94
458 1933 2.568623 ATCAGAACCGTGGCTTCTTT 57.431 45.000 2.32 0.00 0.00 2.52
461 1936 3.811083 TCAGAACCGTGGCTTCTTTTTA 58.189 40.909 2.32 0.00 0.00 1.52
465 1942 3.934457 ACCGTGGCTTCTTTTTAATGG 57.066 42.857 0.00 0.00 0.00 3.16
479 1956 2.804986 TAATGGAGTTCTGCCATGCA 57.195 45.000 0.00 0.00 45.11 3.96
482 1959 0.038599 TGGAGTTCTGCCATGCATGT 59.961 50.000 24.58 4.62 38.13 3.21
483 1960 0.454600 GGAGTTCTGCCATGCATGTG 59.545 55.000 24.58 16.68 38.13 3.21
486 1963 0.108992 GTTCTGCCATGCATGTGTGG 60.109 55.000 24.58 12.75 38.13 4.17
488 2007 0.033894 TCTGCCATGCATGTGTGGAT 60.034 50.000 24.58 0.00 38.13 3.41
502 2029 4.758688 TGTGTGGATAAGTGATGCTGTAG 58.241 43.478 0.00 0.00 0.00 2.74
511 2038 7.119846 GGATAAGTGATGCTGTAGACAAAGTTT 59.880 37.037 0.00 0.00 0.00 2.66
515 2042 5.932303 GTGATGCTGTAGACAAAGTTTAGGA 59.068 40.000 0.00 0.00 0.00 2.94
516 2043 5.932303 TGATGCTGTAGACAAAGTTTAGGAC 59.068 40.000 0.00 0.00 0.00 3.85
517 2044 5.546621 TGCTGTAGACAAAGTTTAGGACT 57.453 39.130 0.00 0.00 41.47 3.85
583 2358 3.366440 GGTGCAAGTACCTATCTACCG 57.634 52.381 0.00 0.00 37.74 4.02
585 2360 3.243334 GGTGCAAGTACCTATCTACCGTC 60.243 52.174 0.00 0.00 37.74 4.79
586 2361 2.954318 TGCAAGTACCTATCTACCGTCC 59.046 50.000 0.00 0.00 0.00 4.79
587 2362 2.954318 GCAAGTACCTATCTACCGTCCA 59.046 50.000 0.00 0.00 0.00 4.02
588 2363 3.243334 GCAAGTACCTATCTACCGTCCAC 60.243 52.174 0.00 0.00 0.00 4.02
589 2364 3.220674 AGTACCTATCTACCGTCCACC 57.779 52.381 0.00 0.00 0.00 4.61
594 2369 1.717791 TATCTACCGTCCACCGCACG 61.718 60.000 0.00 0.00 36.99 5.34
613 2432 1.263217 CGTACGTGCCTGCTTTCTTTT 59.737 47.619 7.22 0.00 0.00 2.27
614 2433 2.661979 CGTACGTGCCTGCTTTCTTTTC 60.662 50.000 7.22 0.00 0.00 2.29
615 2434 1.680338 ACGTGCCTGCTTTCTTTTCT 58.320 45.000 0.00 0.00 0.00 2.52
617 2436 1.603802 CGTGCCTGCTTTCTTTTCTCA 59.396 47.619 0.00 0.00 0.00 3.27
618 2437 2.350197 CGTGCCTGCTTTCTTTTCTCAG 60.350 50.000 0.00 0.00 0.00 3.35
619 2438 2.880890 GTGCCTGCTTTCTTTTCTCAGA 59.119 45.455 0.00 0.00 0.00 3.27
620 2439 3.505293 GTGCCTGCTTTCTTTTCTCAGAT 59.495 43.478 0.00 0.00 0.00 2.90
621 2440 3.504906 TGCCTGCTTTCTTTTCTCAGATG 59.495 43.478 0.00 0.00 0.00 2.90
623 2442 3.425892 CCTGCTTTCTTTTCTCAGATGCG 60.426 47.826 0.00 0.00 0.00 4.73
630 2651 4.108336 TCTTTTCTCAGATGCGATCGAAG 58.892 43.478 21.57 9.31 0.00 3.79
632 2653 3.510388 TTCTCAGATGCGATCGAAGTT 57.490 42.857 21.57 0.00 0.00 2.66
642 2663 2.660236 GCGATCGAAGTTGTACGTTTCT 59.340 45.455 21.57 0.00 0.00 2.52
645 2666 5.004156 GCGATCGAAGTTGTACGTTTCTATT 59.996 40.000 21.57 0.00 0.00 1.73
684 2725 4.567959 CGATCTCACACATGTTCAGCATTA 59.432 41.667 0.00 0.00 35.19 1.90
686 2727 3.679502 TCTCACACATGTTCAGCATTACG 59.320 43.478 0.00 0.00 35.19 3.18
709 2753 7.640852 ACGTTGCATTGCGGTTTAATTATATA 58.359 30.769 3.84 0.00 0.00 0.86
738 2782 4.998788 TCAACTGTCGGATGAATCACTAG 58.001 43.478 0.00 0.00 0.00 2.57
809 2869 9.326413 GCATAAACAACTAGTAATCCAGTACAT 57.674 33.333 0.00 0.00 0.00 2.29
904 2976 9.732130 ATAAATATTAGTTCAAGCATCCCTCTC 57.268 33.333 0.00 0.00 0.00 3.20
950 3234 0.109532 TTCCACCGTCCAAATCAGCA 59.890 50.000 0.00 0.00 0.00 4.41
955 3239 0.674581 CCGTCCAAATCAGCAGAGCA 60.675 55.000 0.00 0.00 0.00 4.26
959 3243 1.627329 TCCAAATCAGCAGAGCAGAGT 59.373 47.619 0.00 0.00 0.00 3.24
971 3266 4.757594 CAGAGCAGAGTAGAGCAATCTTT 58.242 43.478 0.00 0.00 0.00 2.52
972 3267 4.805192 CAGAGCAGAGTAGAGCAATCTTTC 59.195 45.833 0.00 0.00 0.00 2.62
973 3268 4.711355 AGAGCAGAGTAGAGCAATCTTTCT 59.289 41.667 0.00 0.00 0.00 2.52
974 3269 5.187576 AGAGCAGAGTAGAGCAATCTTTCTT 59.812 40.000 0.00 0.00 0.00 2.52
975 3270 5.418676 AGCAGAGTAGAGCAATCTTTCTTC 58.581 41.667 0.00 0.00 0.00 2.87
976 3271 5.187576 AGCAGAGTAGAGCAATCTTTCTTCT 59.812 40.000 0.00 0.00 0.00 2.85
977 3272 5.874261 GCAGAGTAGAGCAATCTTTCTTCTT 59.126 40.000 0.00 0.00 0.00 2.52
994 3289 6.202516 TCTTCTTCTTCTTCTTCGATCTCC 57.797 41.667 0.00 0.00 0.00 3.71
995 3290 5.949354 TCTTCTTCTTCTTCTTCGATCTCCT 59.051 40.000 0.00 0.00 0.00 3.69
1022 3317 1.695597 CCAAGATCCAGCCCCTCCT 60.696 63.158 0.00 0.00 0.00 3.69
1026 3321 4.804420 ATCCAGCCCCTCCTCGCA 62.804 66.667 0.00 0.00 0.00 5.10
1089 3396 4.697756 GGCAGGCAGGCGTACACA 62.698 66.667 0.00 0.00 33.57 3.72
1401 3726 1.296392 CAGGATCAACGGGTGCTCA 59.704 57.895 0.00 0.00 0.00 4.26
1596 3931 2.125912 CGCTCCTTGTGACCCTCG 60.126 66.667 0.00 0.00 0.00 4.63
1756 4317 3.671716 AGGGTTTTTCACGACCATAGTC 58.328 45.455 0.00 0.00 37.68 2.59
1821 4401 1.271163 GGGTGTGTTCGATTTCCAGGA 60.271 52.381 0.00 0.00 0.00 3.86
1925 4505 6.426937 CCAATATAAGACTTTATGGTCCCACG 59.573 42.308 0.00 0.00 36.95 4.94
2016 4600 2.173964 GCTGACACACACAAAAACGTC 58.826 47.619 0.00 0.00 0.00 4.34
2053 4640 1.374758 GGTAGACGCAGCAAGCAGT 60.375 57.895 0.00 0.99 46.13 4.40
2063 4653 2.212652 CAGCAAGCAGTTGTCACACTA 58.787 47.619 0.00 0.00 35.92 2.74
2073 4664 5.733091 GCAGTTGTCACACTAAAAATGCTCA 60.733 40.000 0.00 0.00 39.70 4.26
2082 4674 6.252441 CACACTAAAAATGCTCACACGAAAAA 59.748 34.615 0.00 0.00 0.00 1.94
2120 4715 1.134175 ACCACAACTTCAACGCAAAGG 59.866 47.619 0.00 0.00 0.00 3.11
2154 4753 3.181493 GCATCAACATCAGCCTACCAAAG 60.181 47.826 0.00 0.00 0.00 2.77
2156 4755 2.161855 CAACATCAGCCTACCAAAGCA 58.838 47.619 0.00 0.00 0.00 3.91
2180 4779 3.677648 GTGCCACTGCCAGCCTTG 61.678 66.667 0.00 0.00 36.33 3.61
2209 4808 9.667107 AAACTCAGTCAATTTATCGAGGAAATA 57.333 29.630 8.14 0.00 0.00 1.40
2211 4810 8.696374 ACTCAGTCAATTTATCGAGGAAATAGA 58.304 33.333 8.14 3.22 0.00 1.98
2242 4841 0.669619 TGTACAACGAGCGGAAGACA 59.330 50.000 0.00 0.00 0.00 3.41
2244 4843 2.129607 GTACAACGAGCGGAAGACAAA 58.870 47.619 0.00 0.00 0.00 2.83
2272 4871 1.166129 GACGGCGATGGAGATAGCTA 58.834 55.000 16.62 0.00 31.27 3.32
2314 4913 0.897863 AGCAGCAGACCGTCTCTCTT 60.898 55.000 0.00 0.00 0.00 2.85
2317 4916 1.137825 GCAGACCGTCTCTCTTCCG 59.862 63.158 0.00 0.00 0.00 4.30
2334 4933 1.530655 CGCCCTCCCAAAAGGTTGT 60.531 57.895 0.00 0.00 36.75 3.32
2390 4990 3.004752 AGTGGTGGCCAATATGAACTC 57.995 47.619 7.24 0.00 34.18 3.01
2490 6199 1.734477 CTCGTCTGCCAGTTGACCG 60.734 63.158 0.00 0.00 0.00 4.79
2496 6205 0.523072 CTGCCAGTTGACCGGAAATG 59.477 55.000 9.46 1.63 0.00 2.32
2522 6231 3.228453 TCCACGTCTAGTTCTGACCTTT 58.772 45.455 0.00 0.00 0.00 3.11
2537 6246 4.026744 TGACCTTTTCAAACCACCAATCA 58.973 39.130 0.00 0.00 0.00 2.57
2546 6255 2.671070 CACCAATCAGGCCCGTCT 59.329 61.111 0.00 0.00 43.14 4.18
2558 6267 2.505819 AGGCCCGTCTATTTCATCAAGT 59.494 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
28 29 2.473984 GCGTTTATGGTATGGTACGAGC 59.526 50.000 0.00 0.00 0.00 5.03
30 31 2.730069 CGCGTTTATGGTATGGTACGA 58.270 47.619 0.00 0.00 0.00 3.43
68 69 0.179100 CCTCCAGGTGTGCACGATAG 60.179 60.000 13.13 2.21 46.19 2.08
69 70 1.897423 CCTCCAGGTGTGCACGATA 59.103 57.895 13.13 0.00 0.00 2.92
75 83 1.451028 GATGAGCCTCCAGGTGTGC 60.451 63.158 0.00 0.00 37.57 4.57
94 103 4.508461 ACCTACCGTATTTTGCAAAACC 57.492 40.909 26.05 17.81 0.00 3.27
134 1407 5.440234 TTATTCTTAGCACGCAAAAACCA 57.560 34.783 0.00 0.00 0.00 3.67
137 1410 9.449550 CATATCATTATTCTTAGCACGCAAAAA 57.550 29.630 0.00 0.00 0.00 1.94
145 1418 8.717821 GCGTAAACCATATCATTATTCTTAGCA 58.282 33.333 0.00 0.00 0.00 3.49
149 1422 7.228507 TGCAGCGTAAACCATATCATTATTCTT 59.771 33.333 0.00 0.00 0.00 2.52
150 1423 6.710295 TGCAGCGTAAACCATATCATTATTCT 59.290 34.615 0.00 0.00 0.00 2.40
154 1427 6.875948 AATGCAGCGTAAACCATATCATTA 57.124 33.333 0.00 0.00 0.00 1.90
158 1431 6.086222 CCAATAATGCAGCGTAAACCATATC 58.914 40.000 0.00 0.00 0.00 1.63
211 1543 1.850755 TGGGAGGTTGGGAGGGAAC 60.851 63.158 0.00 0.00 0.00 3.62
265 1637 4.275936 GCTTACAACTCACAAGGACAATGT 59.724 41.667 0.00 0.00 0.00 2.71
283 1655 8.496751 GCTGCTACCACTAATTAATTAGCTTAC 58.503 37.037 27.71 16.28 42.66 2.34
284 1656 8.429641 AGCTGCTACCACTAATTAATTAGCTTA 58.570 33.333 27.71 17.56 42.66 3.09
325 1798 4.183865 CCTCTGATCGAGTATGTGCAAAA 58.816 43.478 11.76 0.00 38.11 2.44
327 1800 2.481969 GCCTCTGATCGAGTATGTGCAA 60.482 50.000 11.76 0.00 38.11 4.08
329 1802 1.339610 AGCCTCTGATCGAGTATGTGC 59.660 52.381 11.76 8.37 38.11 4.57
330 1803 3.181482 ACAAGCCTCTGATCGAGTATGTG 60.181 47.826 11.76 7.82 38.11 3.21
334 1807 6.320418 TGTTTATACAAGCCTCTGATCGAGTA 59.680 38.462 11.76 0.00 38.11 2.59
335 1808 5.127194 TGTTTATACAAGCCTCTGATCGAGT 59.873 40.000 11.76 0.00 38.11 4.18
336 1809 5.592054 TGTTTATACAAGCCTCTGATCGAG 58.408 41.667 7.37 7.37 39.57 4.04
337 1810 5.592104 TGTTTATACAAGCCTCTGATCGA 57.408 39.130 0.00 0.00 0.00 3.59
338 1811 6.851222 AATGTTTATACAAGCCTCTGATCG 57.149 37.500 0.00 0.00 37.91 3.69
339 1812 8.897752 AGAAAATGTTTATACAAGCCTCTGATC 58.102 33.333 0.00 0.00 37.91 2.92
340 1813 8.680903 CAGAAAATGTTTATACAAGCCTCTGAT 58.319 33.333 10.07 0.00 37.91 2.90
352 1825 6.636666 GTCGGACGACAGAAAATGTTTATA 57.363 37.500 18.86 0.00 44.17 0.98
373 1846 2.050077 GGCAAACGGCTGCTTGTC 60.050 61.111 10.26 3.95 44.01 3.18
428 1902 5.065988 GCCACGGTTCTGATTTTACACATAT 59.934 40.000 0.00 0.00 0.00 1.78
433 1907 3.134574 AGCCACGGTTCTGATTTTACA 57.865 42.857 0.00 0.00 0.00 2.41
443 1918 4.022676 TCCATTAAAAAGAAGCCACGGTTC 60.023 41.667 0.00 0.00 39.92 3.62
448 1923 6.152379 CAGAACTCCATTAAAAAGAAGCCAC 58.848 40.000 0.00 0.00 0.00 5.01
449 1924 5.278957 GCAGAACTCCATTAAAAAGAAGCCA 60.279 40.000 0.00 0.00 0.00 4.75
450 1925 5.164233 GCAGAACTCCATTAAAAAGAAGCC 58.836 41.667 0.00 0.00 0.00 4.35
458 1933 3.429492 TGCATGGCAGAACTCCATTAAA 58.571 40.909 0.00 0.00 42.11 1.52
461 1936 1.754803 CATGCATGGCAGAACTCCATT 59.245 47.619 19.40 0.00 43.65 3.16
465 1942 1.135489 CACACATGCATGGCAGAACTC 60.135 52.381 29.41 0.00 43.65 3.01
479 1956 4.226427 ACAGCATCACTTATCCACACAT 57.774 40.909 0.00 0.00 0.00 3.21
482 1959 4.466015 TGTCTACAGCATCACTTATCCACA 59.534 41.667 0.00 0.00 0.00 4.17
483 1960 5.011090 TGTCTACAGCATCACTTATCCAC 57.989 43.478 0.00 0.00 0.00 4.02
486 1963 7.602517 AACTTTGTCTACAGCATCACTTATC 57.397 36.000 0.00 0.00 0.00 1.75
488 2007 7.602644 CCTAAACTTTGTCTACAGCATCACTTA 59.397 37.037 0.00 0.00 0.00 2.24
502 2029 4.455877 CCATGGACAGTCCTAAACTTTGTC 59.544 45.833 20.82 0.00 37.46 3.18
511 2038 2.901192 TCGTTTTCCATGGACAGTCCTA 59.099 45.455 20.82 7.61 37.46 2.94
515 2042 2.632996 TCTCTCGTTTTCCATGGACAGT 59.367 45.455 15.91 0.00 0.00 3.55
516 2043 3.319137 TCTCTCGTTTTCCATGGACAG 57.681 47.619 15.91 6.27 0.00 3.51
517 2044 3.762407 TTCTCTCGTTTTCCATGGACA 57.238 42.857 15.91 4.83 0.00 4.02
580 2355 4.347453 GTACGTGCGGTGGACGGT 62.347 66.667 14.99 3.97 44.51 4.83
583 2358 3.101428 CACGTACGTGCGGTGGAC 61.101 66.667 32.93 1.30 39.39 4.02
594 2369 2.548480 AGAAAAGAAAGCAGGCACGTAC 59.452 45.455 0.00 0.00 0.00 3.67
613 2432 2.164422 ACAACTTCGATCGCATCTGAGA 59.836 45.455 11.09 0.00 0.00 3.27
614 2433 2.534298 ACAACTTCGATCGCATCTGAG 58.466 47.619 11.09 3.85 0.00 3.35
615 2434 2.654749 ACAACTTCGATCGCATCTGA 57.345 45.000 11.09 0.00 0.00 3.27
617 2436 2.159421 ACGTACAACTTCGATCGCATCT 60.159 45.455 11.09 0.00 0.00 2.90
618 2437 2.182825 ACGTACAACTTCGATCGCATC 58.817 47.619 11.09 0.00 0.00 3.91
619 2438 2.273370 ACGTACAACTTCGATCGCAT 57.727 45.000 11.09 0.00 0.00 4.73
620 2439 2.054687 AACGTACAACTTCGATCGCA 57.945 45.000 11.09 0.00 0.00 5.10
621 2440 2.660236 AGAAACGTACAACTTCGATCGC 59.340 45.455 11.09 0.00 0.00 4.58
623 2442 8.689069 GGATAATAGAAACGTACAACTTCGATC 58.311 37.037 0.00 0.00 0.00 3.69
632 2653 9.878667 TCTGAAAATGGATAATAGAAACGTACA 57.121 29.630 0.00 0.00 0.00 2.90
642 2663 8.096414 TGAGATCGCATCTGAAAATGGATAATA 58.904 33.333 0.00 0.00 40.38 0.98
645 2666 5.698089 GTGAGATCGCATCTGAAAATGGATA 59.302 40.000 1.41 0.00 40.38 2.59
655 2676 2.547826 ACATGTGTGAGATCGCATCTG 58.452 47.619 1.41 1.25 40.38 2.90
657 2678 2.931969 TGAACATGTGTGAGATCGCATC 59.068 45.455 1.41 0.25 38.74 3.91
684 2725 2.715737 ATTAAACCGCAATGCAACGT 57.284 40.000 5.91 0.00 0.00 3.99
686 2727 8.789881 TGTATATAATTAAACCGCAATGCAAC 57.210 30.769 5.91 0.00 0.00 4.17
709 2753 2.104111 TCATCCGACAGTTGAAACCTGT 59.896 45.455 0.00 0.00 0.00 4.00
809 2869 6.037281 CGCGCTTAGGATAGATAGAATAGTGA 59.963 42.308 5.56 0.00 0.00 3.41
817 2877 3.729462 GCTCACGCGCTTAGGATAGATAG 60.729 52.174 5.73 0.00 0.00 2.08
819 2879 1.068194 GCTCACGCGCTTAGGATAGAT 60.068 52.381 5.73 0.00 0.00 1.98
850 2910 3.800531 GCCGGATTAGTTAAAGGCAGTA 58.199 45.455 5.05 0.00 43.65 2.74
883 2943 9.601810 TTATAGAGAGGGATGCTTGAACTAATA 57.398 33.333 0.00 0.00 0.00 0.98
885 2945 7.914427 TTATAGAGAGGGATGCTTGAACTAA 57.086 36.000 0.00 0.00 0.00 2.24
903 2975 6.157994 AGTGGTTGGCTTCACCTATTTATAGA 59.842 38.462 0.00 0.00 40.22 1.98
904 2976 6.260936 CAGTGGTTGGCTTCACCTATTTATAG 59.739 42.308 3.30 0.00 40.22 1.31
932 3004 0.321564 CTGCTGATTTGGACGGTGGA 60.322 55.000 0.00 0.00 0.00 4.02
950 3234 4.711355 AGAAAGATTGCTCTACTCTGCTCT 59.289 41.667 0.00 0.00 0.00 4.09
955 3239 7.480760 AGAAGAAGAAAGATTGCTCTACTCT 57.519 36.000 0.00 0.00 0.00 3.24
959 3243 8.592809 AGAAGAAGAAGAAGAAAGATTGCTCTA 58.407 33.333 0.00 0.00 0.00 2.43
971 3266 5.949354 AGGAGATCGAAGAAGAAGAAGAAGA 59.051 40.000 0.00 0.00 43.58 2.87
972 3267 6.035843 CAGGAGATCGAAGAAGAAGAAGAAG 58.964 44.000 0.00 0.00 43.58 2.85
973 3268 5.478679 ACAGGAGATCGAAGAAGAAGAAGAA 59.521 40.000 0.00 0.00 43.58 2.52
974 3269 5.013547 ACAGGAGATCGAAGAAGAAGAAGA 58.986 41.667 0.00 0.00 43.58 2.87
975 3270 5.323371 ACAGGAGATCGAAGAAGAAGAAG 57.677 43.478 0.00 0.00 43.58 2.85
976 3271 4.142578 CGACAGGAGATCGAAGAAGAAGAA 60.143 45.833 0.00 0.00 43.58 2.52
977 3272 3.375610 CGACAGGAGATCGAAGAAGAAGA 59.624 47.826 0.00 0.00 43.58 2.87
994 3289 0.178767 TGGATCTTGGCCATCGACAG 59.821 55.000 6.09 0.00 0.00 3.51
995 3290 0.178767 CTGGATCTTGGCCATCGACA 59.821 55.000 6.09 1.51 34.33 4.35
1089 3396 0.036952 CCAGCGACTTCATCCACACT 60.037 55.000 0.00 0.00 0.00 3.55
1164 3471 1.080705 GCAGCCGTAGTTGTCGACT 60.081 57.895 17.92 0.00 42.55 4.18
1200 3507 2.184322 GCGCGGTCCATGAGAAGA 59.816 61.111 8.83 0.00 0.00 2.87
1596 3931 4.525100 AGACCTGAACCTGAACTAGAAGAC 59.475 45.833 0.00 0.00 0.00 3.01
1756 4317 8.349245 TGTATAACCTTGTTTCATTGTGTTGAG 58.651 33.333 0.00 0.00 0.00 3.02
1821 4401 7.550551 CACAAACTGAGGATAACACATAGACAT 59.449 37.037 0.00 0.00 0.00 3.06
1925 4505 3.696051 TGGTGCCTCTCAATTTATTCTGC 59.304 43.478 0.00 0.00 0.00 4.26
1975 4559 0.251832 TCTTCTCCAAGAGGCCGACT 60.252 55.000 0.00 0.00 33.38 4.18
2016 4600 2.360553 CAGTGAGTAGTGACTGGCTG 57.639 55.000 9.14 0.00 36.69 4.85
2037 4624 0.249868 ACAACTGCTTGCTGCGTCTA 60.250 50.000 0.00 0.00 46.63 2.59
2053 4640 5.577835 GTGTGAGCATTTTTAGTGTGACAA 58.422 37.500 0.00 0.00 0.00 3.18
2082 4674 3.320826 GTGGTGTGCCCTATTGAACTTTT 59.679 43.478 0.00 0.00 0.00 2.27
2154 4753 4.012895 CAGTGGCACGGACGTTGC 62.013 66.667 12.67 2.01 0.00 4.17
2180 4779 8.475331 TCCTCGATAAATTGACTGAGTTTAAC 57.525 34.615 0.00 0.00 0.00 2.01
2242 4841 2.540515 CATCGCCGTCTCTGTGTATTT 58.459 47.619 0.00 0.00 0.00 1.40
2244 4843 0.385751 CCATCGCCGTCTCTGTGTAT 59.614 55.000 0.00 0.00 0.00 2.29
2272 4871 0.467290 TTGCTCCTTTTCAAGCCGGT 60.467 50.000 1.90 0.00 37.73 5.28
2285 4884 3.497932 CTGCTGCTCGCTTGCTCC 61.498 66.667 0.00 0.00 40.11 4.70
2314 4913 2.466186 AACCTTTTGGGAGGGCGGA 61.466 57.895 0.00 0.00 46.08 5.54
2317 4916 2.003937 TTACAACCTTTTGGGAGGGC 57.996 50.000 0.00 0.00 46.08 5.19
2334 4933 5.290493 ACATCTCAGCCGGTGAATTATTA 57.710 39.130 1.90 0.00 33.60 0.98
2390 4990 3.447918 TTTTCTCCGGTTATAGGCTCG 57.552 47.619 0.00 0.00 0.00 5.03
2453 5053 2.192187 TGTGCTGTCGCCAATTGCA 61.192 52.632 0.00 0.00 41.33 4.08
2454 5054 1.730547 GTGTGCTGTCGCCAATTGC 60.731 57.895 0.00 0.00 34.43 3.56
2490 6199 1.523758 AGACGTGGAGTTGCATTTCC 58.476 50.000 9.48 9.48 0.00 3.13
2496 6205 2.030185 TCAGAACTAGACGTGGAGTTGC 60.030 50.000 14.67 7.92 36.04 4.17
2522 6231 1.337118 GGCCTGATTGGTGGTTTGAA 58.663 50.000 0.00 0.00 38.35 2.69
2537 6246 2.505819 ACTTGATGAAATAGACGGGCCT 59.494 45.455 0.84 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.