Multiple sequence alignment - TraesCS6B01G270000

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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 TraesCS6B01G270000 chr6B 100.000 2279 0 0 1 2279 485874514 485876792 0.000000e+00 4209.0
1 TraesCS6B01G270000 chr6B 90.164 61 6 0 1809 1869 93568431 93568371 1.880000e-11 80.5
2 TraesCS6B01G270000 chr6A 90.489 1472 89 15 812 2279 473739018 473737594 0.000000e+00 1895.0
3 TraesCS6B01G270000 chr6A 86.842 456 39 10 1 438 473742414 473741962 7.320000e-135 490.0
4 TraesCS6B01G270000 chr6A 86.824 296 21 5 417 694 473739315 473739020 4.730000e-82 315.0
5 TraesCS6B01G270000 chr6D 87.552 715 42 14 2 694 334342065 334341376 0.000000e+00 784.0
6 TraesCS6B01G270000 chr6D 87.812 681 29 23 812 1482 334341374 334340738 0.000000e+00 749.0
7 TraesCS6B01G270000 chr6D 94.872 351 12 3 1929 2279 334340719 334340375 5.540000e-151 544.0


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 TraesCS6B01G270000 chr6B 485874514 485876792 2278 False 4209.000000 4209 100.000000 1 2279 1 chr6B.!!$F1 2278
1 TraesCS6B01G270000 chr6A 473737594 473742414 4820 True 900.000000 1895 88.051667 1 2279 3 chr6A.!!$R1 2278
2 TraesCS6B01G270000 chr6D 334340375 334342065 1690 True 692.333333 784 90.078667 2 2279 3 chr6D.!!$R1 2277

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
883 3589 1.020333 TTTATTTCGTCCGGGTGGCG 61.02 55.0 0.0 1.62 36.51 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1957 4692 0.310543 GACGCAACCTGCAAATCACA 59.689 50.0 0.0 0.0 45.36 3.58 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
60 62 3.853355 AATTTGGTCAAAATGTGGGCA 57.147 38.095 0.00 0.00 38.52 5.36
64 66 3.634397 TGGTCAAAATGTGGGCAAAAA 57.366 38.095 0.00 0.00 0.00 1.94
122 124 9.014297 GTTCAAAGGCCATATATTAAGTAGCAT 57.986 33.333 5.01 0.00 0.00 3.79
170 184 8.663209 AATGCATCCTAGTCTCTATGAATACT 57.337 34.615 0.00 0.00 0.00 2.12
175 189 5.701750 TCCTAGTCTCTATGAATACTGACGC 59.298 44.000 0.00 0.00 0.00 5.19
237 251 5.186215 TGCAGCATATGGATAATTTGGATGG 59.814 40.000 4.56 0.00 0.00 3.51
259 273 4.202111 GGGGTGACAATTATTAGCGCAAAT 60.202 41.667 11.47 0.31 0.00 2.32
260 274 5.009210 GGGGTGACAATTATTAGCGCAAATA 59.991 40.000 11.47 0.00 0.00 1.40
332 346 6.860790 TTTTTAAGTTGGGGTTCCATATCC 57.139 37.500 0.00 0.00 43.63 2.59
377 395 4.363999 AGTTCGCTCAAGATATTTCTCGG 58.636 43.478 0.00 0.00 0.00 4.63
577 3282 3.902063 CGCACGTCGCATTCCTCG 61.902 66.667 9.95 0.00 42.60 4.63
622 3328 4.692155 CCATGCTGATATGATACGCTTGAA 59.308 41.667 0.00 0.00 0.00 2.69
624 3330 6.293571 CCATGCTGATATGATACGCTTGAAAA 60.294 38.462 0.00 0.00 0.00 2.29
625 3331 6.866010 TGCTGATATGATACGCTTGAAAAT 57.134 33.333 0.00 0.00 0.00 1.82
627 3333 6.482973 TGCTGATATGATACGCTTGAAAATGA 59.517 34.615 0.00 0.00 0.00 2.57
628 3334 7.173735 TGCTGATATGATACGCTTGAAAATGAT 59.826 33.333 0.00 0.00 0.00 2.45
684 3390 6.724905 AGTAACAAGTAGGATCAGTACTGGTT 59.275 38.462 22.48 21.93 43.87 3.67
694 3400 7.970102 AGGATCAGTACTGGTTTAAGTTTGTA 58.030 34.615 22.48 0.00 0.00 2.41
695 3401 7.876582 AGGATCAGTACTGGTTTAAGTTTGTAC 59.123 37.037 22.48 0.00 0.00 2.90
696 3402 7.876582 GGATCAGTACTGGTTTAAGTTTGTACT 59.123 37.037 22.48 0.00 40.48 2.73
697 3403 8.828688 ATCAGTACTGGTTTAAGTTTGTACTC 57.171 34.615 22.48 0.00 38.62 2.59
698 3404 8.015185 TCAGTACTGGTTTAAGTTTGTACTCT 57.985 34.615 22.48 0.00 38.62 3.24
699 3405 8.139989 TCAGTACTGGTTTAAGTTTGTACTCTC 58.860 37.037 22.48 0.00 38.62 3.20
700 3406 8.142551 CAGTACTGGTTTAAGTTTGTACTCTCT 58.857 37.037 15.49 0.00 38.62 3.10
701 3407 8.358895 AGTACTGGTTTAAGTTTGTACTCTCTC 58.641 37.037 0.00 0.00 36.80 3.20
702 3408 7.362802 ACTGGTTTAAGTTTGTACTCTCTCT 57.637 36.000 0.00 0.00 31.99 3.10
703 3409 7.210873 ACTGGTTTAAGTTTGTACTCTCTCTG 58.789 38.462 0.00 0.00 31.99 3.35
704 3410 7.120923 TGGTTTAAGTTTGTACTCTCTCTGT 57.879 36.000 0.00 0.00 31.99 3.41
705 3411 7.208080 TGGTTTAAGTTTGTACTCTCTCTGTC 58.792 38.462 0.00 0.00 31.99 3.51
706 3412 7.069578 TGGTTTAAGTTTGTACTCTCTCTGTCT 59.930 37.037 0.00 0.00 31.99 3.41
707 3413 7.382759 GGTTTAAGTTTGTACTCTCTCTGTCTG 59.617 40.741 0.00 0.00 31.99 3.51
708 3414 7.818997 TTAAGTTTGTACTCTCTCTGTCTGA 57.181 36.000 0.00 0.00 31.99 3.27
709 3415 6.716934 AAGTTTGTACTCTCTCTGTCTGAA 57.283 37.500 0.00 0.00 31.99 3.02
710 3416 6.716934 AGTTTGTACTCTCTCTGTCTGAAA 57.283 37.500 0.00 0.00 0.00 2.69
711 3417 7.113658 AGTTTGTACTCTCTCTGTCTGAAAA 57.886 36.000 0.00 0.00 0.00 2.29
712 3418 7.556844 AGTTTGTACTCTCTCTGTCTGAAAAA 58.443 34.615 0.00 0.00 0.00 1.94
734 3440 8.922931 AAAAATTTGTCCCAAGCTTATCATTT 57.077 26.923 0.00 0.00 0.00 2.32
741 3447 9.693739 TTGTCCCAAGCTTATCATTTAAATAGA 57.306 29.630 0.00 1.98 0.00 1.98
742 3448 9.866655 TGTCCCAAGCTTATCATTTAAATAGAT 57.133 29.630 0.00 8.86 0.00 1.98
764 3470 8.417780 AGATATATCTGACGCTAATTTGATGC 57.582 34.615 14.60 0.00 35.42 3.91
765 3471 8.256605 AGATATATCTGACGCTAATTTGATGCT 58.743 33.333 14.60 0.00 35.42 3.79
766 3472 9.521503 GATATATCTGACGCTAATTTGATGCTA 57.478 33.333 5.42 0.00 0.00 3.49
767 3473 7.824704 ATATCTGACGCTAATTTGATGCTAG 57.175 36.000 0.00 0.00 0.00 3.42
768 3474 5.262588 TCTGACGCTAATTTGATGCTAGA 57.737 39.130 0.00 0.00 0.00 2.43
769 3475 5.847304 TCTGACGCTAATTTGATGCTAGAT 58.153 37.500 0.00 0.00 0.00 1.98
770 3476 6.981722 TCTGACGCTAATTTGATGCTAGATA 58.018 36.000 0.00 0.00 0.00 1.98
771 3477 6.863645 TCTGACGCTAATTTGATGCTAGATAC 59.136 38.462 0.00 0.00 0.00 2.24
772 3478 6.512297 TGACGCTAATTTGATGCTAGATACA 58.488 36.000 0.00 0.00 0.00 2.29
773 3479 7.154656 TGACGCTAATTTGATGCTAGATACAT 58.845 34.615 0.00 0.00 0.00 2.29
774 3480 7.329471 TGACGCTAATTTGATGCTAGATACATC 59.671 37.037 0.00 0.00 43.46 3.06
784 3490 7.445121 TGATGCTAGATACATCACTTTAAGGG 58.555 38.462 7.26 0.00 46.77 3.95
785 3491 7.290014 TGATGCTAGATACATCACTTTAAGGGA 59.710 37.037 0.00 0.00 46.77 4.20
786 3492 6.817184 TGCTAGATACATCACTTTAAGGGAC 58.183 40.000 0.00 0.00 25.25 4.46
787 3493 6.382859 TGCTAGATACATCACTTTAAGGGACA 59.617 38.462 0.00 0.00 25.25 4.02
788 3494 7.093068 TGCTAGATACATCACTTTAAGGGACAA 60.093 37.037 0.00 0.00 25.25 3.18
789 3495 7.769044 GCTAGATACATCACTTTAAGGGACAAA 59.231 37.037 0.00 0.00 25.25 2.83
790 3496 7.923414 AGATACATCACTTTAAGGGACAAAC 57.077 36.000 0.00 0.00 25.25 2.93
791 3497 7.690256 AGATACATCACTTTAAGGGACAAACT 58.310 34.615 0.00 0.00 25.25 2.66
792 3498 8.164070 AGATACATCACTTTAAGGGACAAACTT 58.836 33.333 0.00 0.00 25.25 2.66
793 3499 8.706322 ATACATCACTTTAAGGGACAAACTTT 57.294 30.769 0.00 0.00 25.25 2.66
794 3500 7.418337 ACATCACTTTAAGGGACAAACTTTT 57.582 32.000 0.00 0.00 25.25 2.27
795 3501 7.847096 ACATCACTTTAAGGGACAAACTTTTT 58.153 30.769 0.00 0.00 25.25 1.94
820 3526 4.363991 ACGGAGGGAGTAACGAGTATAT 57.636 45.455 0.00 0.00 0.00 0.86
877 3583 5.475719 TGGCTAGATATTTATTTCGTCCGG 58.524 41.667 0.00 0.00 0.00 5.14
878 3584 4.868734 GGCTAGATATTTATTTCGTCCGGG 59.131 45.833 0.00 0.00 0.00 5.73
879 3585 5.476614 GCTAGATATTTATTTCGTCCGGGT 58.523 41.667 0.00 0.00 0.00 5.28
880 3586 5.347907 GCTAGATATTTATTTCGTCCGGGTG 59.652 44.000 0.00 0.00 0.00 4.61
881 3587 4.638304 AGATATTTATTTCGTCCGGGTGG 58.362 43.478 0.00 0.00 0.00 4.61
882 3588 1.385528 ATTTATTTCGTCCGGGTGGC 58.614 50.000 0.00 0.00 34.14 5.01
883 3589 1.020333 TTTATTTCGTCCGGGTGGCG 61.020 55.000 0.00 1.62 36.51 5.69
884 3590 2.169937 TTATTTCGTCCGGGTGGCGT 62.170 55.000 0.00 0.00 36.55 5.68
885 3591 2.839043 TATTTCGTCCGGGTGGCGTG 62.839 60.000 0.00 0.00 36.55 5.34
932 3638 3.186730 CGTCGTCGAGGAGAGCGA 61.187 66.667 8.30 0.00 39.71 4.93
1101 3829 3.377656 TCCTTCGTGCAGGAGGTC 58.622 61.111 16.12 0.00 38.11 3.85
1299 4030 1.067060 CGCAGGTTGGTCGATCTATGA 59.933 52.381 0.00 0.00 0.00 2.15
1303 4034 4.557695 GCAGGTTGGTCGATCTATGACTAG 60.558 50.000 0.00 0.00 36.58 2.57
1371 4102 3.181501 ACCACAAAGAACATCAACACGTG 60.182 43.478 15.48 15.48 0.00 4.49
1417 4149 4.634349 TGCACGTAACGTTCAGTAAATC 57.366 40.909 2.82 0.00 38.32 2.17
1440 4172 4.099403 CGTCTGCTCGCACATGAT 57.901 55.556 0.00 0.00 0.00 2.45
1446 4178 2.553602 TCTGCTCGCACATGATTTGTTT 59.446 40.909 0.00 0.00 36.00 2.83
1467 4199 6.320672 TGTTTCGTTTACCTTTTCCACCATAA 59.679 34.615 0.00 0.00 0.00 1.90
1486 4218 5.905331 CCATAATATAGTCATGGGCTCCCTA 59.095 44.000 6.50 0.00 36.38 3.53
1549 4281 3.071892 TGTCACGGTAGGTTCATTTCCTT 59.928 43.478 0.00 0.00 36.60 3.36
1562 4294 7.554476 AGGTTCATTTCCTTATTCAAGCTCTAC 59.446 37.037 0.00 0.00 30.18 2.59
1568 4300 5.050490 TCCTTATTCAAGCTCTACGAATGC 58.950 41.667 9.62 0.00 31.94 3.56
1684 4417 7.451255 ACATGTAGATTTGTTTCTCCATCCAAA 59.549 33.333 0.00 0.00 0.00 3.28
1700 4433 8.614469 TCCATCCAAAATAATTTCAACAAACC 57.386 30.769 0.00 0.00 0.00 3.27
1702 4435 7.172361 CCATCCAAAATAATTTCAACAAACCGT 59.828 33.333 0.00 0.00 0.00 4.83
1704 4437 6.018669 TCCAAAATAATTTCAACAAACCGTGC 60.019 34.615 0.00 0.00 0.00 5.34
1708 4441 7.546778 AATAATTTCAACAAACCGTGCTTTT 57.453 28.000 0.00 0.00 0.00 2.27
1709 4442 5.871465 AATTTCAACAAACCGTGCTTTTT 57.129 30.435 0.00 0.00 0.00 1.94
1710 4443 6.969828 AATTTCAACAAACCGTGCTTTTTA 57.030 29.167 0.00 0.00 0.00 1.52
1711 4444 7.546778 AATTTCAACAAACCGTGCTTTTTAT 57.453 28.000 0.00 0.00 0.00 1.40
1712 4445 6.969828 TTTCAACAAACCGTGCTTTTTATT 57.030 29.167 0.00 0.00 0.00 1.40
1736 4469 5.464389 TGACTCATATCGTTGCATCAAGATG 59.536 40.000 5.70 5.70 41.60 2.90
1742 4475 5.663795 ATCGTTGCATCAAGATGATACAC 57.336 39.130 13.93 3.50 41.20 2.90
1761 4494 1.136305 ACATGTACTTCATCCGTCCGG 59.864 52.381 0.00 0.00 34.09 5.14
1762 4495 1.136305 CATGTACTTCATCCGTCCGGT 59.864 52.381 0.00 0.00 34.09 5.28
1764 4497 2.658285 TGTACTTCATCCGTCCGGTAT 58.342 47.619 0.00 0.00 36.47 2.73
1768 4501 4.741321 ACTTCATCCGTCCGGTATTAAA 57.259 40.909 0.00 0.00 36.47 1.52
1771 4504 4.675976 TCATCCGTCCGGTATTAAATGT 57.324 40.909 0.00 0.00 36.47 2.71
1774 4507 1.523934 CCGTCCGGTATTAAATGTCGC 59.476 52.381 0.00 0.00 0.00 5.19
1780 4513 4.936411 TCCGGTATTAAATGTCGCTCAAAA 59.064 37.500 0.00 0.00 0.00 2.44
1796 4529 5.363939 GCTCAAAAGGATGTATCTAGCAGT 58.636 41.667 0.00 0.00 0.00 4.40
1797 4530 6.516718 GCTCAAAAGGATGTATCTAGCAGTA 58.483 40.000 0.00 0.00 0.00 2.74
1798 4531 6.422400 GCTCAAAAGGATGTATCTAGCAGTAC 59.578 42.308 0.00 0.00 0.00 2.73
1819 4552 8.321716 CAGTACTAGAATAAATGTCGCTCAAAC 58.678 37.037 0.00 0.00 0.00 2.93
1820 4553 8.033038 AGTACTAGAATAAATGTCGCTCAAACA 58.967 33.333 0.00 0.00 0.00 2.83
1821 4554 7.295952 ACTAGAATAAATGTCGCTCAAACAG 57.704 36.000 0.00 0.00 0.00 3.16
1822 4555 7.097192 ACTAGAATAAATGTCGCTCAAACAGA 58.903 34.615 0.00 0.00 0.00 3.41
1831 4564 5.582550 TGTCGCTCAAACAGATGTATCTAG 58.417 41.667 0.00 0.00 34.85 2.43
1832 4565 4.442733 GTCGCTCAAACAGATGTATCTAGC 59.557 45.833 0.00 0.00 34.85 3.42
1833 4566 4.339530 TCGCTCAAACAGATGTATCTAGCT 59.660 41.667 10.27 0.00 33.49 3.32
1834 4567 4.679197 CGCTCAAACAGATGTATCTAGCTC 59.321 45.833 10.27 0.00 33.49 4.09
1839 4572 7.487484 TCAAACAGATGTATCTAGCTCTGAAG 58.513 38.462 5.49 0.00 38.74 3.02
1844 4577 4.815040 TGTATCTAGCTCTGAAGTACGC 57.185 45.455 0.00 0.00 0.00 4.42
1845 4578 4.452825 TGTATCTAGCTCTGAAGTACGCT 58.547 43.478 0.00 0.00 36.56 5.07
1856 4589 6.918569 GCTCTGAAGTACGCTTAGATAAATCA 59.081 38.462 0.00 0.00 34.61 2.57
1858 4591 7.997482 TCTGAAGTACGCTTAGATAAATCAGT 58.003 34.615 0.00 0.00 34.61 3.41
1867 4600 6.414890 GCTTAGATAAATCAGTTTGAGCGAC 58.585 40.000 0.00 0.00 0.00 5.19
1882 4615 1.274167 AGCGACAGTTATTTCCGGACA 59.726 47.619 1.83 0.00 0.00 4.02
1887 4620 2.236395 ACAGTTATTTCCGGACAGAGGG 59.764 50.000 1.83 0.00 0.00 4.30
1895 4628 1.143277 TCCGGACAGAGGGAGTAGATC 59.857 57.143 0.00 0.00 0.00 2.75
1896 4629 1.133761 CCGGACAGAGGGAGTAGATCA 60.134 57.143 0.00 0.00 0.00 2.92
1909 4642 7.358263 AGGGAGTAGATCATAAGAGAAGACAA 58.642 38.462 0.00 0.00 0.00 3.18
1916 4649 5.977489 TCATAAGAGAAGACAAGGTTCGA 57.023 39.130 0.00 0.00 0.00 3.71
1920 4653 7.713507 TCATAAGAGAAGACAAGGTTCGAAAAA 59.286 33.333 0.00 0.00 0.00 1.94
2015 4750 8.410141 AGTTAACAAGCTAGCTAGAGTGATAAG 58.590 37.037 25.15 6.84 0.00 1.73
2063 4798 1.796459 GTCCAAAGTTGTATGCGTCGT 59.204 47.619 0.00 0.00 0.00 4.34
2074 4809 0.108804 ATGCGTCGTAGTGGAAGTGG 60.109 55.000 0.00 0.00 0.00 4.00
2096 4831 3.058639 GTGTTTTCCAGATCTGTGCAGTC 60.059 47.826 21.11 7.79 0.00 3.51
2162 4897 1.130373 GGTGTGTATGTTGGTGATGCG 59.870 52.381 0.00 0.00 0.00 4.73
2192 4927 8.563732 GTTCATCTTCATTTATCTTAAGGAGCC 58.436 37.037 1.85 0.00 0.00 4.70
2211 4946 4.273318 AGCCCTCTTCATAAAATGTGTCC 58.727 43.478 0.00 0.00 0.00 4.02
2219 4954 4.068599 TCATAAAATGTGTCCGTTGCTCA 58.931 39.130 0.00 0.00 0.00 4.26
2221 4956 0.951558 AAATGTGTCCGTTGCTCACC 59.048 50.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
132 134 9.162764 GACTAGGATGCATTTTTAGTTTCTGTA 57.837 33.333 15.47 0.00 0.00 2.74
134 136 8.273780 AGACTAGGATGCATTTTTAGTTTCTG 57.726 34.615 15.47 0.00 0.00 3.02
170 184 0.178068 GCAGGAGGAATAAGGCGTCA 59.822 55.000 0.00 0.00 0.00 4.35
175 189 2.808202 CGTGGATGCAGGAGGAATAAGG 60.808 54.545 0.00 0.00 0.00 2.69
237 251 4.364415 TTTGCGCTAATAATTGTCACCC 57.636 40.909 9.73 0.00 0.00 4.61
282 296 9.977762 AAACCGTATGTCGAAATTTATAAGTTC 57.022 29.630 0.00 0.00 42.86 3.01
344 358 3.141002 TGAGCGAACTATACGGAACAC 57.859 47.619 0.00 0.00 0.00 3.32
346 360 4.025015 TCTTGAGCGAACTATACGGAAC 57.975 45.455 0.00 0.00 0.00 3.62
347 361 4.913335 ATCTTGAGCGAACTATACGGAA 57.087 40.909 0.00 0.00 0.00 4.30
348 362 6.570672 AATATCTTGAGCGAACTATACGGA 57.429 37.500 0.00 0.00 0.00 4.69
349 363 7.085116 AGAAATATCTTGAGCGAACTATACGG 58.915 38.462 0.00 0.00 29.15 4.02
350 364 7.006653 CGAGAAATATCTTGAGCGAACTATACG 59.993 40.741 0.00 0.00 39.14 3.06
351 365 7.271653 CCGAGAAATATCTTGAGCGAACTATAC 59.728 40.741 0.00 0.00 39.14 1.47
352 366 7.306213 CCGAGAAATATCTTGAGCGAACTATA 58.694 38.462 0.00 0.00 39.14 1.31
353 367 6.153067 CCGAGAAATATCTTGAGCGAACTAT 58.847 40.000 0.00 0.00 39.14 2.12
377 395 1.815817 ATGCCGTGTTCAAAAGGGCC 61.816 55.000 8.88 0.00 45.84 5.80
486 3175 2.177531 GCGAGTGAGCGTTACGGA 59.822 61.111 6.94 0.00 0.00 4.69
515 3211 5.787494 AGGGCTTATCTCCTGCAGATATTTA 59.213 40.000 17.39 0.00 42.68 1.40
591 3296 1.066645 CATATCAGCATGGCGAGGCTA 60.067 52.381 7.76 0.00 37.01 3.93
652 3358 8.508883 ACTGATCCTACTTGTTACTAGTAGTG 57.491 38.462 24.28 18.00 42.19 2.74
656 3362 7.556996 CCAGTACTGATCCTACTTGTTACTAGT 59.443 40.741 24.68 0.00 0.00 2.57
678 3384 7.147707 ACAGAGAGAGTACAAACTTAAACCAGT 60.148 37.037 0.00 0.00 35.56 4.00
684 3390 7.818997 TCAGACAGAGAGAGTACAAACTTAA 57.181 36.000 0.00 0.00 35.56 1.85
716 3422 9.866655 ATCTATTTAAATGATAAGCTTGGGACA 57.133 29.630 9.86 4.29 0.00 4.02
738 3444 9.521503 GCATCAAATTAGCGTCAGATATATCTA 57.478 33.333 14.92 0.00 34.85 1.98
739 3445 8.256605 AGCATCAAATTAGCGTCAGATATATCT 58.743 33.333 9.57 9.57 37.72 1.98
740 3446 8.417780 AGCATCAAATTAGCGTCAGATATATC 57.582 34.615 4.42 4.42 0.00 1.63
741 3447 9.526713 CTAGCATCAAATTAGCGTCAGATATAT 57.473 33.333 0.00 0.00 0.00 0.86
742 3448 8.739972 TCTAGCATCAAATTAGCGTCAGATATA 58.260 33.333 0.00 0.00 0.00 0.86
743 3449 7.606349 TCTAGCATCAAATTAGCGTCAGATAT 58.394 34.615 0.00 0.00 0.00 1.63
744 3450 6.981722 TCTAGCATCAAATTAGCGTCAGATA 58.018 36.000 0.00 0.00 0.00 1.98
745 3451 5.847304 TCTAGCATCAAATTAGCGTCAGAT 58.153 37.500 0.00 0.00 0.00 2.90
746 3452 5.262588 TCTAGCATCAAATTAGCGTCAGA 57.737 39.130 0.00 0.00 0.00 3.27
747 3453 6.642540 TGTATCTAGCATCAAATTAGCGTCAG 59.357 38.462 0.00 0.00 0.00 3.51
748 3454 6.512297 TGTATCTAGCATCAAATTAGCGTCA 58.488 36.000 0.00 0.00 0.00 4.35
749 3455 7.329471 TGATGTATCTAGCATCAAATTAGCGTC 59.671 37.037 8.54 0.00 46.49 5.19
750 3456 7.154656 TGATGTATCTAGCATCAAATTAGCGT 58.845 34.615 8.54 0.00 46.49 5.07
751 3457 7.586714 TGATGTATCTAGCATCAAATTAGCG 57.413 36.000 8.54 0.00 46.49 4.26
760 3466 7.600752 GTCCCTTAAAGTGATGTATCTAGCATC 59.399 40.741 2.77 2.77 42.10 3.91
761 3467 7.071196 TGTCCCTTAAAGTGATGTATCTAGCAT 59.929 37.037 0.00 0.00 0.00 3.79
762 3468 6.382859 TGTCCCTTAAAGTGATGTATCTAGCA 59.617 38.462 0.00 0.00 0.00 3.49
763 3469 6.817184 TGTCCCTTAAAGTGATGTATCTAGC 58.183 40.000 0.00 0.00 0.00 3.42
764 3470 9.099454 GTTTGTCCCTTAAAGTGATGTATCTAG 57.901 37.037 0.00 0.00 0.00 2.43
765 3471 8.822805 AGTTTGTCCCTTAAAGTGATGTATCTA 58.177 33.333 0.00 0.00 0.00 1.98
766 3472 7.690256 AGTTTGTCCCTTAAAGTGATGTATCT 58.310 34.615 0.00 0.00 0.00 1.98
767 3473 7.923414 AGTTTGTCCCTTAAAGTGATGTATC 57.077 36.000 0.00 0.00 0.00 2.24
768 3474 8.706322 AAAGTTTGTCCCTTAAAGTGATGTAT 57.294 30.769 0.00 0.00 0.00 2.29
769 3475 8.528044 AAAAGTTTGTCCCTTAAAGTGATGTA 57.472 30.769 0.00 0.00 0.00 2.29
770 3476 7.418337 AAAAGTTTGTCCCTTAAAGTGATGT 57.582 32.000 0.00 0.00 0.00 3.06
792 3498 3.132925 CGTTACTCCCTCCGTTGAAAAA 58.867 45.455 0.00 0.00 0.00 1.94
793 3499 2.364970 TCGTTACTCCCTCCGTTGAAAA 59.635 45.455 0.00 0.00 0.00 2.29
794 3500 1.962807 TCGTTACTCCCTCCGTTGAAA 59.037 47.619 0.00 0.00 0.00 2.69
795 3501 1.542915 CTCGTTACTCCCTCCGTTGAA 59.457 52.381 0.00 0.00 0.00 2.69
796 3502 1.171308 CTCGTTACTCCCTCCGTTGA 58.829 55.000 0.00 0.00 0.00 3.18
797 3503 0.886563 ACTCGTTACTCCCTCCGTTG 59.113 55.000 0.00 0.00 0.00 4.10
798 3504 2.496899 TACTCGTTACTCCCTCCGTT 57.503 50.000 0.00 0.00 0.00 4.44
799 3505 2.725221 ATACTCGTTACTCCCTCCGT 57.275 50.000 0.00 0.00 0.00 4.69
800 3506 3.119919 GCATATACTCGTTACTCCCTCCG 60.120 52.174 0.00 0.00 0.00 4.63
801 3507 3.825014 TGCATATACTCGTTACTCCCTCC 59.175 47.826 0.00 0.00 0.00 4.30
802 3508 4.613167 CGTGCATATACTCGTTACTCCCTC 60.613 50.000 0.00 0.00 0.00 4.30
803 3509 3.252701 CGTGCATATACTCGTTACTCCCT 59.747 47.826 0.00 0.00 0.00 4.20
804 3510 3.562505 CGTGCATATACTCGTTACTCCC 58.437 50.000 0.00 0.00 0.00 4.30
805 3511 2.978489 GCGTGCATATACTCGTTACTCC 59.022 50.000 0.00 0.00 0.00 3.85
806 3512 2.978489 GGCGTGCATATACTCGTTACTC 59.022 50.000 0.00 0.00 0.00 2.59
807 3513 2.603892 CGGCGTGCATATACTCGTTACT 60.604 50.000 0.00 0.00 0.00 2.24
808 3514 1.712350 CGGCGTGCATATACTCGTTAC 59.288 52.381 0.00 0.00 0.00 2.50
809 3515 1.927268 GCGGCGTGCATATACTCGTTA 60.927 52.381 9.37 0.00 45.45 3.18
810 3516 1.213094 GCGGCGTGCATATACTCGTT 61.213 55.000 9.37 0.00 45.45 3.85
881 3587 3.818121 TATATGGGGCCGCACACGC 62.818 63.158 26.68 0.00 38.22 5.34
882 3588 1.227704 TTATATGGGGCCGCACACG 60.228 57.895 26.68 0.00 39.67 4.49
883 3589 1.503818 CGTTATATGGGGCCGCACAC 61.504 60.000 26.68 17.30 0.00 3.82
884 3590 1.227704 CGTTATATGGGGCCGCACA 60.228 57.895 26.68 15.53 0.00 4.57
885 3591 0.816421 AACGTTATATGGGGCCGCAC 60.816 55.000 26.68 11.05 0.00 5.34
886 3592 0.533308 GAACGTTATATGGGGCCGCA 60.533 55.000 26.32 26.32 0.00 5.69
887 3593 1.562575 CGAACGTTATATGGGGCCGC 61.563 60.000 14.01 14.01 0.00 6.53
888 3594 1.562575 GCGAACGTTATATGGGGCCG 61.563 60.000 0.00 0.00 0.00 6.13
889 3595 1.232621 GGCGAACGTTATATGGGGCC 61.233 60.000 0.00 0.00 0.00 5.80
932 3638 3.450115 GGAGGACGTACGCAGGCT 61.450 66.667 16.72 0.00 0.00 4.58
1218 3946 2.992689 TTGGACTCCACGGCGCTA 60.993 61.111 6.90 0.00 30.78 4.26
1272 4003 0.591170 CGACCAACCTGCGTCATTTT 59.409 50.000 0.00 0.00 0.00 1.82
1299 4030 4.443598 GCGGAAGGAAAGAATGATCCTAGT 60.444 45.833 0.00 0.00 45.33 2.57
1303 4034 2.615912 CTGCGGAAGGAAAGAATGATCC 59.384 50.000 0.00 0.00 35.88 3.36
1338 4069 5.931294 TGTTCTTTGTGGTGGAGTTGTATA 58.069 37.500 0.00 0.00 0.00 1.47
1434 4166 7.436970 GGAAAAGGTAAACGAAACAAATCATGT 59.563 33.333 0.00 0.00 46.82 3.21
1440 4172 5.047519 TGGTGGAAAAGGTAAACGAAACAAA 60.048 36.000 0.00 0.00 0.00 2.83
1446 4178 9.550406 CTATATTATGGTGGAAAAGGTAAACGA 57.450 33.333 0.00 0.00 0.00 3.85
1467 4199 6.780198 TTTTTAGGGAGCCCATGACTATAT 57.220 37.500 8.53 0.00 38.92 0.86
1549 4281 6.983890 TGTTATGCATTCGTAGAGCTTGAATA 59.016 34.615 3.54 0.00 38.43 1.75
1620 4352 8.105197 ACACATCATGTTATGGTATCTATGCAT 58.895 33.333 3.79 3.79 38.98 3.96
1628 4360 8.704668 TGTAAGAGACACATCATGTTATGGTAT 58.295 33.333 0.00 0.00 43.56 2.73
1684 4417 7.546778 AAAAGCACGGTTTGTTGAAATTATT 57.453 28.000 0.00 0.00 0.00 1.40
1700 4433 6.705782 ACGATATGAGTCAATAAAAAGCACG 58.294 36.000 0.00 0.00 0.00 5.34
1702 4435 6.966632 GCAACGATATGAGTCAATAAAAAGCA 59.033 34.615 0.00 0.00 0.00 3.91
1704 4437 9.162793 GATGCAACGATATGAGTCAATAAAAAG 57.837 33.333 0.00 0.00 0.00 2.27
1708 4441 7.710475 TCTTGATGCAACGATATGAGTCAATAA 59.290 33.333 0.00 0.00 30.32 1.40
1709 4442 7.209475 TCTTGATGCAACGATATGAGTCAATA 58.791 34.615 0.00 0.00 30.32 1.90
1710 4443 6.051074 TCTTGATGCAACGATATGAGTCAAT 58.949 36.000 0.00 0.00 30.32 2.57
1711 4444 5.418676 TCTTGATGCAACGATATGAGTCAA 58.581 37.500 0.00 0.00 0.00 3.18
1712 4445 5.009854 TCTTGATGCAACGATATGAGTCA 57.990 39.130 0.00 0.00 0.00 3.41
1736 4469 4.982916 GGACGGATGAAGTACATGTGTATC 59.017 45.833 9.11 4.19 39.56 2.24
1742 4475 1.136305 ACCGGACGGATGAAGTACATG 59.864 52.381 18.80 0.00 39.56 3.21
1761 4494 7.472543 ACATCCTTTTGAGCGACATTTAATAC 58.527 34.615 0.00 0.00 0.00 1.89
1762 4495 7.624360 ACATCCTTTTGAGCGACATTTAATA 57.376 32.000 0.00 0.00 0.00 0.98
1764 4497 5.957842 ACATCCTTTTGAGCGACATTTAA 57.042 34.783 0.00 0.00 0.00 1.52
1768 4501 5.028549 AGATACATCCTTTTGAGCGACAT 57.971 39.130 0.00 0.00 0.00 3.06
1771 4504 4.099419 TGCTAGATACATCCTTTTGAGCGA 59.901 41.667 0.00 0.00 0.00 4.93
1774 4507 7.721402 AGTACTGCTAGATACATCCTTTTGAG 58.279 38.462 0.00 0.00 0.00 3.02
1796 4529 8.248253 TCTGTTTGAGCGACATTTATTCTAGTA 58.752 33.333 0.00 0.00 0.00 1.82
1797 4530 7.097192 TCTGTTTGAGCGACATTTATTCTAGT 58.903 34.615 0.00 0.00 0.00 2.57
1798 4531 7.525688 TCTGTTTGAGCGACATTTATTCTAG 57.474 36.000 0.00 0.00 0.00 2.43
1807 4540 5.016051 AGATACATCTGTTTGAGCGACAT 57.984 39.130 0.00 0.00 35.42 3.06
1819 4552 6.598525 CGTACTTCAGAGCTAGATACATCTG 58.401 44.000 1.88 0.00 40.42 2.90
1820 4553 5.180492 GCGTACTTCAGAGCTAGATACATCT 59.820 44.000 0.00 0.00 40.86 2.90
1821 4554 5.180492 AGCGTACTTCAGAGCTAGATACATC 59.820 44.000 0.00 0.00 38.29 3.06
1822 4555 5.067273 AGCGTACTTCAGAGCTAGATACAT 58.933 41.667 0.00 0.00 38.29 2.29
1831 4564 6.918569 TGATTTATCTAAGCGTACTTCAGAGC 59.081 38.462 0.00 0.00 37.33 4.09
1832 4565 8.132362 ACTGATTTATCTAAGCGTACTTCAGAG 58.868 37.037 0.00 0.00 37.33 3.35
1833 4566 7.997482 ACTGATTTATCTAAGCGTACTTCAGA 58.003 34.615 0.00 0.00 37.33 3.27
1834 4567 8.635877 AACTGATTTATCTAAGCGTACTTCAG 57.364 34.615 0.00 0.00 37.33 3.02
1839 4572 7.338462 GCTCAAACTGATTTATCTAAGCGTAC 58.662 38.462 0.00 0.00 0.00 3.67
1844 4577 7.276658 ACTGTCGCTCAAACTGATTTATCTAAG 59.723 37.037 0.00 0.00 0.00 2.18
1845 4578 7.097192 ACTGTCGCTCAAACTGATTTATCTAA 58.903 34.615 0.00 0.00 0.00 2.10
1856 4589 3.432252 CGGAAATAACTGTCGCTCAAACT 59.568 43.478 0.00 0.00 0.00 2.66
1858 4591 2.739913 CCGGAAATAACTGTCGCTCAAA 59.260 45.455 0.00 0.00 0.00 2.69
1867 4600 2.500098 TCCCTCTGTCCGGAAATAACTG 59.500 50.000 5.23 0.00 0.00 3.16
1882 4615 7.147213 TGTCTTCTCTTATGATCTACTCCCTCT 60.147 40.741 0.00 0.00 0.00 3.69
1887 4620 8.232913 ACCTTGTCTTCTCTTATGATCTACTC 57.767 38.462 0.00 0.00 0.00 2.59
1895 4628 7.421530 TTTTCGAACCTTGTCTTCTCTTATG 57.578 36.000 0.00 0.00 0.00 1.90
1950 4685 3.354948 ACCTGCAAATCACATAGAGCA 57.645 42.857 0.00 0.00 0.00 4.26
1951 4686 3.733077 GCAACCTGCAAATCACATAGAGC 60.733 47.826 0.00 0.00 44.26 4.09
1952 4687 3.486375 CGCAACCTGCAAATCACATAGAG 60.486 47.826 0.00 0.00 45.36 2.43
1953 4688 2.419673 CGCAACCTGCAAATCACATAGA 59.580 45.455 0.00 0.00 45.36 1.98
1954 4689 2.162208 ACGCAACCTGCAAATCACATAG 59.838 45.455 0.00 0.00 45.36 2.23
1955 4690 2.158559 ACGCAACCTGCAAATCACATA 58.841 42.857 0.00 0.00 45.36 2.29
1956 4691 0.961019 ACGCAACCTGCAAATCACAT 59.039 45.000 0.00 0.00 45.36 3.21
1957 4692 0.310543 GACGCAACCTGCAAATCACA 59.689 50.000 0.00 0.00 45.36 3.58
1958 4693 0.387239 GGACGCAACCTGCAAATCAC 60.387 55.000 0.00 0.00 45.36 3.06
1959 4694 1.523154 GGGACGCAACCTGCAAATCA 61.523 55.000 0.00 0.00 45.36 2.57
1960 4695 1.212751 GGGACGCAACCTGCAAATC 59.787 57.895 0.00 0.00 45.36 2.17
1977 4712 6.506500 AGCTTGTTAACTTCAGATTCATGG 57.493 37.500 7.22 0.00 0.00 3.66
2063 4798 3.456644 TCTGGAAAACACCACTTCCACTA 59.543 43.478 0.00 0.00 44.87 2.74
2074 4809 2.880890 ACTGCACAGATCTGGAAAACAC 59.119 45.455 26.08 8.02 34.19 3.32
2096 4831 5.233957 TGACAAAGACAAATATCGGCATG 57.766 39.130 0.00 0.00 0.00 4.06
2192 4927 5.631026 CAACGGACACATTTTATGAAGAGG 58.369 41.667 0.00 0.00 0.00 3.69
2211 4946 1.941975 TCATGCATATGGTGAGCAACG 59.058 47.619 0.00 0.00 42.15 4.10


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

AutoCloner maintained by Alex Coulton.