Multiple sequence alignment - TraesCS6B01G234400

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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 TraesCS6B01G234400 chr6B 100.000 2235 0 0 1 2235 394415014 394417248 0 4128
1 TraesCS6B01G234400 chr6B 99.168 1442 11 1 794 2235 596602629 596604069 0 2595
2 TraesCS6B01G234400 chr6B 98.544 1442 20 1 794 2235 307027041 307025601 0 2545
3 TraesCS6B01G234400 chr6B 99.244 661 5 0 1 661 394524207 394524867 0 1194
4 TraesCS6B01G234400 chr6B 99.244 661 4 1 1 661 596582295 596582954 0 1192
5 TraesCS6B01G234400 chr6B 98.790 661 8 0 1 661 394446422 394445762 0 1177
6 TraesCS6B01G234400 chr7A 99.097 1440 12 1 794 2233 638508436 638509874 0 2586
7 TraesCS6B01G234400 chr7A 98.960 1443 14 1 794 2235 708244856 708243414 0 2580
8 TraesCS6B01G234400 chrUn 99.029 1442 13 1 794 2235 171007515 171006075 0 2584
9 TraesCS6B01G234400 chrUn 99.092 661 6 0 1 661 45111645 45110985 0 1188
10 TraesCS6B01G234400 chr1B 98.960 1442 13 2 794 2235 672540452 672539013 0 2579
11 TraesCS6B01G234400 chr1B 99.083 654 6 0 1 654 461428060 461427407 0 1175
12 TraesCS6B01G234400 chr1B 98.033 661 12 1 1 661 583596743 583596084 0 1147
13 TraesCS6B01G234400 chr4B 98.545 1443 19 2 794 2235 495567195 495565754 0 2547
14 TraesCS6B01G234400 chr7B 98.545 1443 17 3 794 2235 54050636 54052075 0 2545
15 TraesCS6B01G234400 chr7B 98.487 661 9 1 1 661 716857671 716857012 0 1164
16 TraesCS6B01G234400 chr7B 98.033 661 13 0 1 661 716893177 716892517 0 1149
17 TraesCS6B01G234400 chr2B 98.474 1442 22 0 794 2235 391226014 391227455 0 2542
18 TraesCS6B01G234400 chr5A 98.941 661 7 0 1 661 16587578 16586918 0 1182


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 TraesCS6B01G234400 chr6B 394415014 394417248 2234 False 4128 4128 100.000 1 2235 1 chr6B.!!$F1 2234
1 TraesCS6B01G234400 chr6B 596602629 596604069 1440 False 2595 2595 99.168 794 2235 1 chr6B.!!$F4 1441
2 TraesCS6B01G234400 chr6B 307025601 307027041 1440 True 2545 2545 98.544 794 2235 1 chr6B.!!$R1 1441
3 TraesCS6B01G234400 chr6B 394524207 394524867 660 False 1194 1194 99.244 1 661 1 chr6B.!!$F2 660
4 TraesCS6B01G234400 chr6B 596582295 596582954 659 False 1192 1192 99.244 1 661 1 chr6B.!!$F3 660
5 TraesCS6B01G234400 chr6B 394445762 394446422 660 True 1177 1177 98.790 1 661 1 chr6B.!!$R2 660
6 TraesCS6B01G234400 chr7A 638508436 638509874 1438 False 2586 2586 99.097 794 2233 1 chr7A.!!$F1 1439
7 TraesCS6B01G234400 chr7A 708243414 708244856 1442 True 2580 2580 98.960 794 2235 1 chr7A.!!$R1 1441
8 TraesCS6B01G234400 chrUn 171006075 171007515 1440 True 2584 2584 99.029 794 2235 1 chrUn.!!$R2 1441
9 TraesCS6B01G234400 chrUn 45110985 45111645 660 True 1188 1188 99.092 1 661 1 chrUn.!!$R1 660
10 TraesCS6B01G234400 chr1B 672539013 672540452 1439 True 2579 2579 98.960 794 2235 1 chr1B.!!$R3 1441
11 TraesCS6B01G234400 chr1B 461427407 461428060 653 True 1175 1175 99.083 1 654 1 chr1B.!!$R1 653
12 TraesCS6B01G234400 chr1B 583596084 583596743 659 True 1147 1147 98.033 1 661 1 chr1B.!!$R2 660
13 TraesCS6B01G234400 chr4B 495565754 495567195 1441 True 2547 2547 98.545 794 2235 1 chr4B.!!$R1 1441
14 TraesCS6B01G234400 chr7B 54050636 54052075 1439 False 2545 2545 98.545 794 2235 1 chr7B.!!$F1 1441
15 TraesCS6B01G234400 chr7B 716857012 716857671 659 True 1164 1164 98.487 1 661 1 chr7B.!!$R1 660
16 TraesCS6B01G234400 chr7B 716892517 716893177 660 True 1149 1149 98.033 1 661 1 chr7B.!!$R2 660
17 TraesCS6B01G234400 chr2B 391226014 391227455 1441 False 2542 2542 98.474 794 2235 1 chr2B.!!$F1 1441
18 TraesCS6B01G234400 chr5A 16586918 16587578 660 True 1182 1182 98.941 1 661 1 chr5A.!!$R1 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
729 731 0.89327 TCCAATTCCTGCACCAACGG 60.893 55.0 0.0 0.0 0.0 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1756 1760 2.856864 AGATTCCCCCTTTACCGGAAAT 59.143 45.455 9.46 0.0 39.07 2.17 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
162 164 6.803320 AGATTTCTCGTATGCATGTGTTTTTG 59.197 34.615 10.16 0.00 0.00 2.44
546 548 2.447244 ACTGTGAAAGCGAGAGAAGG 57.553 50.000 0.00 0.00 0.00 3.46
616 618 5.239087 ACGGAAACCAAAAATACTAAAGCGA 59.761 36.000 0.00 0.00 0.00 4.93
689 691 4.649088 AAAAGAGTTGTGCACCTAAACC 57.351 40.909 15.69 6.64 0.00 3.27
690 692 3.577805 AAGAGTTGTGCACCTAAACCT 57.422 42.857 15.69 8.67 0.00 3.50
691 693 2.851195 AGAGTTGTGCACCTAAACCTG 58.149 47.619 15.69 0.00 0.00 4.00
692 694 2.438021 AGAGTTGTGCACCTAAACCTGA 59.562 45.455 15.69 0.00 0.00 3.86
693 695 3.073062 AGAGTTGTGCACCTAAACCTGAT 59.927 43.478 15.69 0.00 0.00 2.90
694 696 3.412386 AGTTGTGCACCTAAACCTGATC 58.588 45.455 15.69 0.00 0.00 2.92
695 697 2.488153 GTTGTGCACCTAAACCTGATCC 59.512 50.000 15.69 0.00 0.00 3.36
696 698 1.702401 TGTGCACCTAAACCTGATCCA 59.298 47.619 15.69 0.00 0.00 3.41
697 699 2.107378 TGTGCACCTAAACCTGATCCAA 59.893 45.455 15.69 0.00 0.00 3.53
698 700 2.488153 GTGCACCTAAACCTGATCCAAC 59.512 50.000 5.22 0.00 0.00 3.77
699 701 2.092323 GCACCTAAACCTGATCCAACC 58.908 52.381 0.00 0.00 0.00 3.77
700 702 2.290960 GCACCTAAACCTGATCCAACCT 60.291 50.000 0.00 0.00 0.00 3.50
701 703 3.054655 GCACCTAAACCTGATCCAACCTA 60.055 47.826 0.00 0.00 0.00 3.08
702 704 4.566907 GCACCTAAACCTGATCCAACCTAA 60.567 45.833 0.00 0.00 0.00 2.69
703 705 5.186198 CACCTAAACCTGATCCAACCTAAG 58.814 45.833 0.00 0.00 0.00 2.18
704 706 4.850386 ACCTAAACCTGATCCAACCTAAGT 59.150 41.667 0.00 0.00 0.00 2.24
705 707 5.045797 ACCTAAACCTGATCCAACCTAAGTC 60.046 44.000 0.00 0.00 0.00 3.01
706 708 4.993705 AAACCTGATCCAACCTAAGTCA 57.006 40.909 0.00 0.00 0.00 3.41
707 709 5.520748 AAACCTGATCCAACCTAAGTCAT 57.479 39.130 0.00 0.00 0.00 3.06
708 710 4.494091 ACCTGATCCAACCTAAGTCATG 57.506 45.455 0.00 0.00 0.00 3.07
709 711 4.104086 ACCTGATCCAACCTAAGTCATGA 58.896 43.478 0.00 0.00 0.00 3.07
710 712 4.723789 ACCTGATCCAACCTAAGTCATGAT 59.276 41.667 0.00 0.00 0.00 2.45
711 713 5.163258 ACCTGATCCAACCTAAGTCATGATC 60.163 44.000 0.00 0.00 0.00 2.92
712 714 5.296151 TGATCCAACCTAAGTCATGATCC 57.704 43.478 0.00 0.00 0.00 3.36
713 715 4.721274 TGATCCAACCTAAGTCATGATCCA 59.279 41.667 0.00 0.00 0.00 3.41
714 716 5.191522 TGATCCAACCTAAGTCATGATCCAA 59.808 40.000 0.00 0.00 0.00 3.53
715 717 5.715439 TCCAACCTAAGTCATGATCCAAT 57.285 39.130 0.00 0.00 0.00 3.16
716 718 6.078456 TCCAACCTAAGTCATGATCCAATT 57.922 37.500 0.00 0.00 0.00 2.32
717 719 6.122277 TCCAACCTAAGTCATGATCCAATTC 58.878 40.000 0.00 0.00 0.00 2.17
718 720 5.300286 CCAACCTAAGTCATGATCCAATTCC 59.700 44.000 0.00 0.00 0.00 3.01
719 721 5.983333 ACCTAAGTCATGATCCAATTCCT 57.017 39.130 0.00 0.00 0.00 3.36
720 722 5.688807 ACCTAAGTCATGATCCAATTCCTG 58.311 41.667 0.00 0.00 0.00 3.86
721 723 4.518211 CCTAAGTCATGATCCAATTCCTGC 59.482 45.833 0.00 0.00 0.00 4.85
722 724 3.657398 AGTCATGATCCAATTCCTGCA 57.343 42.857 0.00 0.00 0.00 4.41
723 725 3.285484 AGTCATGATCCAATTCCTGCAC 58.715 45.455 0.00 0.00 0.00 4.57
724 726 2.360165 GTCATGATCCAATTCCTGCACC 59.640 50.000 0.00 0.00 0.00 5.01
725 727 2.025131 TCATGATCCAATTCCTGCACCA 60.025 45.455 0.00 0.00 0.00 4.17
726 728 2.601240 TGATCCAATTCCTGCACCAA 57.399 45.000 0.00 0.00 0.00 3.67
727 729 2.170166 TGATCCAATTCCTGCACCAAC 58.830 47.619 0.00 0.00 0.00 3.77
728 730 1.133025 GATCCAATTCCTGCACCAACG 59.867 52.381 0.00 0.00 0.00 4.10
729 731 0.893270 TCCAATTCCTGCACCAACGG 60.893 55.000 0.00 0.00 0.00 4.44
730 732 1.080569 CAATTCCTGCACCAACGGC 60.081 57.895 0.00 0.00 0.00 5.68
731 733 2.625823 AATTCCTGCACCAACGGCG 61.626 57.895 4.80 4.80 0.00 6.46
732 734 3.842925 ATTCCTGCACCAACGGCGT 62.843 57.895 6.77 6.77 0.00 5.68
733 735 4.555709 TCCTGCACCAACGGCGTT 62.556 61.111 21.19 21.19 0.00 4.84
734 736 4.326766 CCTGCACCAACGGCGTTG 62.327 66.667 38.10 38.10 42.49 4.10
735 737 3.582120 CTGCACCAACGGCGTTGT 61.582 61.111 40.12 28.82 41.41 3.32
736 738 2.203029 TGCACCAACGGCGTTGTA 60.203 55.556 40.12 25.29 41.41 2.41
737 739 1.573829 CTGCACCAACGGCGTTGTAT 61.574 55.000 40.12 29.30 41.41 2.29
738 740 1.154301 GCACCAACGGCGTTGTATG 60.154 57.895 40.12 36.09 41.41 2.39
739 741 1.847890 GCACCAACGGCGTTGTATGT 61.848 55.000 40.12 30.92 41.41 2.29
740 742 1.430479 CACCAACGGCGTTGTATGTA 58.570 50.000 40.12 0.00 41.41 2.29
741 743 2.004017 CACCAACGGCGTTGTATGTAT 58.996 47.619 40.12 21.35 41.41 2.29
742 744 3.188492 CACCAACGGCGTTGTATGTATA 58.812 45.455 40.12 0.00 41.41 1.47
743 745 3.805422 CACCAACGGCGTTGTATGTATAT 59.195 43.478 40.12 18.70 41.41 0.86
744 746 4.053295 ACCAACGGCGTTGTATGTATATC 58.947 43.478 40.12 0.00 41.41 1.63
745 747 4.202182 ACCAACGGCGTTGTATGTATATCT 60.202 41.667 40.12 14.02 41.41 1.98
746 748 4.149922 CCAACGGCGTTGTATGTATATCTG 59.850 45.833 40.12 22.51 41.41 2.90
747 749 4.841443 ACGGCGTTGTATGTATATCTGA 57.159 40.909 6.77 0.00 0.00 3.27
748 750 4.543692 ACGGCGTTGTATGTATATCTGAC 58.456 43.478 6.77 0.00 0.00 3.51
749 751 4.037089 ACGGCGTTGTATGTATATCTGACA 59.963 41.667 6.77 0.00 0.00 3.58
750 752 5.161358 CGGCGTTGTATGTATATCTGACAT 58.839 41.667 0.00 0.00 40.59 3.06
751 753 6.072342 ACGGCGTTGTATGTATATCTGACATA 60.072 38.462 6.77 0.00 38.47 2.29
752 754 6.469275 CGGCGTTGTATGTATATCTGACATAG 59.531 42.308 0.00 0.00 39.77 2.23
753 755 7.535997 GGCGTTGTATGTATATCTGACATAGA 58.464 38.462 0.00 0.00 39.77 1.98
754 756 7.485277 GGCGTTGTATGTATATCTGACATAGAC 59.515 40.741 0.00 1.05 39.77 2.59
755 757 7.216505 GCGTTGTATGTATATCTGACATAGACG 59.783 40.741 17.99 17.99 43.99 4.18
756 758 8.228464 CGTTGTATGTATATCTGACATAGACGT 58.772 37.037 16.06 0.00 40.79 4.34
757 759 9.331106 GTTGTATGTATATCTGACATAGACGTG 57.669 37.037 0.00 0.00 39.77 4.49
758 760 8.842358 TGTATGTATATCTGACATAGACGTGA 57.158 34.615 0.00 0.00 39.77 4.35
759 761 8.936864 TGTATGTATATCTGACATAGACGTGAG 58.063 37.037 0.00 0.00 39.77 3.51
760 762 9.152595 GTATGTATATCTGACATAGACGTGAGA 57.847 37.037 0.00 0.00 39.77 3.27
761 763 7.659652 TGTATATCTGACATAGACGTGAGAG 57.340 40.000 0.00 0.00 38.49 3.20
762 764 7.217906 TGTATATCTGACATAGACGTGAGAGT 58.782 38.462 0.00 0.00 38.49 3.24
763 765 8.365647 TGTATATCTGACATAGACGTGAGAGTA 58.634 37.037 0.00 0.00 38.49 2.59
764 766 5.994887 ATCTGACATAGACGTGAGAGTAC 57.005 43.478 0.00 0.00 38.49 2.73
765 767 5.087391 TCTGACATAGACGTGAGAGTACT 57.913 43.478 0.00 0.00 0.00 2.73
766 768 4.870991 TCTGACATAGACGTGAGAGTACTG 59.129 45.833 0.00 0.00 0.00 2.74
767 769 4.828829 TGACATAGACGTGAGAGTACTGA 58.171 43.478 0.00 0.00 0.00 3.41
768 770 4.630505 TGACATAGACGTGAGAGTACTGAC 59.369 45.833 0.00 0.00 0.00 3.51
769 771 4.576879 ACATAGACGTGAGAGTACTGACA 58.423 43.478 0.00 0.00 30.88 3.58
770 772 5.186942 ACATAGACGTGAGAGTACTGACAT 58.813 41.667 0.00 0.00 30.88 3.06
771 773 6.346896 ACATAGACGTGAGAGTACTGACATA 58.653 40.000 0.00 0.00 30.88 2.29
772 774 6.993308 ACATAGACGTGAGAGTACTGACATAT 59.007 38.462 0.00 0.00 30.88 1.78
773 775 5.743026 AGACGTGAGAGTACTGACATATG 57.257 43.478 0.00 0.00 30.88 1.78
774 776 5.429130 AGACGTGAGAGTACTGACATATGA 58.571 41.667 10.38 0.00 30.88 2.15
775 777 5.294799 AGACGTGAGAGTACTGACATATGAC 59.705 44.000 10.38 3.62 30.88 3.06
776 778 4.335874 ACGTGAGAGTACTGACATATGACC 59.664 45.833 10.38 1.31 30.88 4.02
777 779 4.261238 CGTGAGAGTACTGACATATGACCC 60.261 50.000 10.38 0.00 30.88 4.46
778 780 4.645136 GTGAGAGTACTGACATATGACCCA 59.355 45.833 10.38 3.60 30.88 4.51
779 781 5.127194 GTGAGAGTACTGACATATGACCCAA 59.873 44.000 10.38 0.00 30.88 4.12
780 782 5.360999 TGAGAGTACTGACATATGACCCAAG 59.639 44.000 10.38 0.00 0.00 3.61
781 783 5.273208 AGAGTACTGACATATGACCCAAGT 58.727 41.667 10.38 5.86 0.00 3.16
782 784 6.432581 AGAGTACTGACATATGACCCAAGTA 58.567 40.000 10.38 4.90 0.00 2.24
783 785 6.321690 AGAGTACTGACATATGACCCAAGTAC 59.678 42.308 18.16 18.16 0.00 2.73
784 786 6.195700 AGTACTGACATATGACCCAAGTACT 58.804 40.000 20.66 20.66 36.24 2.73
785 787 6.668283 AGTACTGACATATGACCCAAGTACTT 59.332 38.462 20.66 1.12 37.30 2.24
786 788 5.734720 ACTGACATATGACCCAAGTACTTG 58.265 41.667 25.79 25.79 40.13 3.16
787 789 5.483937 ACTGACATATGACCCAAGTACTTGA 59.516 40.000 32.50 15.96 42.93 3.02
788 790 6.156949 ACTGACATATGACCCAAGTACTTGAT 59.843 38.462 32.50 21.44 42.93 2.57
789 791 7.344612 ACTGACATATGACCCAAGTACTTGATA 59.655 37.037 32.50 22.28 42.93 2.15
790 792 8.262601 TGACATATGACCCAAGTACTTGATAT 57.737 34.615 32.50 23.27 42.93 1.63
791 793 9.374711 TGACATATGACCCAAGTACTTGATATA 57.625 33.333 32.50 22.76 42.93 0.86
792 794 9.640963 GACATATGACCCAAGTACTTGATATAC 57.359 37.037 32.50 19.22 42.93 1.47
1851 1855 3.966930 GACGACCCCCTCTGGCTCT 62.967 68.421 0.00 0.00 0.00 4.09
1904 1908 2.504367 CCTTTGTTCCTCGTCACCATT 58.496 47.619 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
162 164 2.107953 GGAGATGCGGAGGCTGTC 59.892 66.667 0.00 0.00 40.82 3.51
546 548 3.730715 CACCAGAACAACTTTTCGAATGC 59.269 43.478 0.00 0.00 0.00 3.56
667 669 4.709886 AGGTTTAGGTGCACAACTCTTTTT 59.290 37.500 20.43 0.00 0.00 1.94
668 670 4.097892 CAGGTTTAGGTGCACAACTCTTTT 59.902 41.667 20.43 0.00 0.00 2.27
669 671 3.632145 CAGGTTTAGGTGCACAACTCTTT 59.368 43.478 20.43 0.00 0.00 2.52
670 672 3.118038 TCAGGTTTAGGTGCACAACTCTT 60.118 43.478 20.43 2.65 0.00 2.85
671 673 2.438021 TCAGGTTTAGGTGCACAACTCT 59.562 45.455 20.43 8.91 0.00 3.24
672 674 2.846193 TCAGGTTTAGGTGCACAACTC 58.154 47.619 20.43 8.66 0.00 3.01
673 675 3.412386 GATCAGGTTTAGGTGCACAACT 58.588 45.455 20.43 10.07 0.00 3.16
674 676 2.488153 GGATCAGGTTTAGGTGCACAAC 59.512 50.000 20.43 14.20 0.00 3.32
675 677 2.107378 TGGATCAGGTTTAGGTGCACAA 59.893 45.455 20.43 1.73 0.00 3.33
676 678 1.702401 TGGATCAGGTTTAGGTGCACA 59.298 47.619 20.43 0.00 0.00 4.57
677 679 2.488153 GTTGGATCAGGTTTAGGTGCAC 59.512 50.000 8.80 8.80 0.00 4.57
678 680 2.554344 GGTTGGATCAGGTTTAGGTGCA 60.554 50.000 0.00 0.00 0.00 4.57
679 681 2.092323 GGTTGGATCAGGTTTAGGTGC 58.908 52.381 0.00 0.00 0.00 5.01
680 682 3.721087 AGGTTGGATCAGGTTTAGGTG 57.279 47.619 0.00 0.00 0.00 4.00
681 683 4.850386 ACTTAGGTTGGATCAGGTTTAGGT 59.150 41.667 0.00 0.00 0.00 3.08
682 684 5.045869 TGACTTAGGTTGGATCAGGTTTAGG 60.046 44.000 0.00 0.00 0.00 2.69
683 685 6.049955 TGACTTAGGTTGGATCAGGTTTAG 57.950 41.667 0.00 0.00 0.00 1.85
684 686 6.214615 TCATGACTTAGGTTGGATCAGGTTTA 59.785 38.462 0.00 0.00 0.00 2.01
685 687 4.993705 TGACTTAGGTTGGATCAGGTTT 57.006 40.909 0.00 0.00 0.00 3.27
686 688 4.536090 TCATGACTTAGGTTGGATCAGGTT 59.464 41.667 0.00 0.00 0.00 3.50
687 689 4.104086 TCATGACTTAGGTTGGATCAGGT 58.896 43.478 0.00 0.00 0.00 4.00
688 690 4.760530 TCATGACTTAGGTTGGATCAGG 57.239 45.455 0.00 0.00 0.00 3.86
689 691 5.163269 TGGATCATGACTTAGGTTGGATCAG 60.163 44.000 0.00 0.00 32.91 2.90
690 692 4.721274 TGGATCATGACTTAGGTTGGATCA 59.279 41.667 0.00 0.00 32.91 2.92
691 693 5.296151 TGGATCATGACTTAGGTTGGATC 57.704 43.478 0.00 0.00 0.00 3.36
692 694 5.715439 TTGGATCATGACTTAGGTTGGAT 57.285 39.130 0.00 0.00 0.00 3.41
693 695 5.715439 ATTGGATCATGACTTAGGTTGGA 57.285 39.130 0.00 0.00 0.00 3.53
694 696 5.300286 GGAATTGGATCATGACTTAGGTTGG 59.700 44.000 0.00 0.00 0.00 3.77
695 697 6.039047 CAGGAATTGGATCATGACTTAGGTTG 59.961 42.308 0.00 0.00 33.08 3.77
696 698 6.125029 CAGGAATTGGATCATGACTTAGGTT 58.875 40.000 0.00 0.00 33.08 3.50
697 699 5.688807 CAGGAATTGGATCATGACTTAGGT 58.311 41.667 0.00 0.00 33.08 3.08
698 700 4.518211 GCAGGAATTGGATCATGACTTAGG 59.482 45.833 0.00 0.00 33.08 2.69
699 701 5.008415 GTGCAGGAATTGGATCATGACTTAG 59.992 44.000 0.00 0.00 33.08 2.18
700 702 4.883585 GTGCAGGAATTGGATCATGACTTA 59.116 41.667 0.00 0.00 33.08 2.24
701 703 3.698040 GTGCAGGAATTGGATCATGACTT 59.302 43.478 0.00 0.00 33.08 3.01
702 704 3.285484 GTGCAGGAATTGGATCATGACT 58.715 45.455 0.00 0.00 33.08 3.41
703 705 2.360165 GGTGCAGGAATTGGATCATGAC 59.640 50.000 0.00 0.00 33.08 3.06
704 706 2.025131 TGGTGCAGGAATTGGATCATGA 60.025 45.455 0.00 0.00 32.79 3.07
705 707 2.380941 TGGTGCAGGAATTGGATCATG 58.619 47.619 0.00 0.00 32.79 3.07
706 708 2.762327 GTTGGTGCAGGAATTGGATCAT 59.238 45.455 0.00 0.00 38.12 2.45
707 709 2.170166 GTTGGTGCAGGAATTGGATCA 58.830 47.619 0.00 0.00 36.35 2.92
708 710 1.133025 CGTTGGTGCAGGAATTGGATC 59.867 52.381 0.00 0.00 0.00 3.36
709 711 1.176527 CGTTGGTGCAGGAATTGGAT 58.823 50.000 0.00 0.00 0.00 3.41
710 712 0.893270 CCGTTGGTGCAGGAATTGGA 60.893 55.000 0.00 0.00 0.00 3.53
711 713 1.586028 CCGTTGGTGCAGGAATTGG 59.414 57.895 0.00 0.00 0.00 3.16
712 714 1.080569 GCCGTTGGTGCAGGAATTG 60.081 57.895 0.00 0.00 0.00 2.32
713 715 2.625823 CGCCGTTGGTGCAGGAATT 61.626 57.895 0.00 0.00 0.00 2.17
714 716 3.055719 CGCCGTTGGTGCAGGAAT 61.056 61.111 0.00 0.00 0.00 3.01
715 717 4.555709 ACGCCGTTGGTGCAGGAA 62.556 61.111 0.00 0.00 36.54 3.36
716 718 4.555709 AACGCCGTTGGTGCAGGA 62.556 61.111 0.00 0.00 36.54 3.86
717 719 4.326766 CAACGCCGTTGGTGCAGG 62.327 66.667 21.73 0.00 39.56 4.85
718 720 1.573829 ATACAACGCCGTTGGTGCAG 61.574 55.000 30.86 8.00 46.50 4.41
719 721 1.598407 ATACAACGCCGTTGGTGCA 60.598 52.632 30.86 14.99 46.50 4.57
720 722 1.154301 CATACAACGCCGTTGGTGC 60.154 57.895 30.86 0.00 46.50 5.01
721 723 1.430479 TACATACAACGCCGTTGGTG 58.570 50.000 30.86 27.88 46.50 4.17
722 724 2.389962 ATACATACAACGCCGTTGGT 57.610 45.000 30.86 21.57 46.50 3.67
723 725 4.149922 CAGATATACATACAACGCCGTTGG 59.850 45.833 30.86 17.28 46.50 3.77
724 726 8.679056 ATGTCAGATATACATACAACGCCGTTG 61.679 40.741 26.95 26.95 38.45 4.10
725 727 4.980434 GTCAGATATACATACAACGCCGTT 59.020 41.667 0.00 0.00 0.00 4.44
726 728 4.037089 TGTCAGATATACATACAACGCCGT 59.963 41.667 0.00 0.00 0.00 5.68
727 729 4.542735 TGTCAGATATACATACAACGCCG 58.457 43.478 0.00 0.00 0.00 6.46
728 730 7.485277 GTCTATGTCAGATATACATACAACGCC 59.515 40.741 0.00 0.00 38.49 5.68
729 731 7.216505 CGTCTATGTCAGATATACATACAACGC 59.783 40.741 10.97 0.00 37.23 4.84
730 732 8.228464 ACGTCTATGTCAGATATACATACAACG 58.772 37.037 16.57 16.57 42.49 4.10
731 733 9.331106 CACGTCTATGTCAGATATACATACAAC 57.669 37.037 0.00 0.00 38.49 3.32
732 734 9.280174 TCACGTCTATGTCAGATATACATACAA 57.720 33.333 0.00 0.00 38.49 2.41
733 735 8.842358 TCACGTCTATGTCAGATATACATACA 57.158 34.615 0.00 0.00 38.49 2.29
734 736 9.152595 TCTCACGTCTATGTCAGATATACATAC 57.847 37.037 0.00 0.00 38.49 2.39
735 737 9.372369 CTCTCACGTCTATGTCAGATATACATA 57.628 37.037 0.00 0.00 38.49 2.29
736 738 7.880713 ACTCTCACGTCTATGTCAGATATACAT 59.119 37.037 0.00 0.00 40.57 2.29
737 739 7.217906 ACTCTCACGTCTATGTCAGATATACA 58.782 38.462 0.00 0.00 35.17 2.29
738 740 7.661127 ACTCTCACGTCTATGTCAGATATAC 57.339 40.000 0.00 0.00 35.17 1.47
739 741 8.586744 AGTACTCTCACGTCTATGTCAGATATA 58.413 37.037 0.00 0.00 35.17 0.86
740 742 7.386573 CAGTACTCTCACGTCTATGTCAGATAT 59.613 40.741 0.00 0.00 35.17 1.63
741 743 6.702282 CAGTACTCTCACGTCTATGTCAGATA 59.298 42.308 0.00 0.00 35.17 1.98
742 744 5.525745 CAGTACTCTCACGTCTATGTCAGAT 59.474 44.000 0.00 0.00 35.17 2.90
743 745 4.870991 CAGTACTCTCACGTCTATGTCAGA 59.129 45.833 0.00 0.00 0.00 3.27
744 746 4.870991 TCAGTACTCTCACGTCTATGTCAG 59.129 45.833 0.00 0.00 0.00 3.51
745 747 4.630505 GTCAGTACTCTCACGTCTATGTCA 59.369 45.833 0.00 0.00 0.00 3.58
746 748 4.630505 TGTCAGTACTCTCACGTCTATGTC 59.369 45.833 0.00 0.00 0.00 3.06
747 749 4.576879 TGTCAGTACTCTCACGTCTATGT 58.423 43.478 0.00 0.00 0.00 2.29
748 750 5.743026 ATGTCAGTACTCTCACGTCTATG 57.257 43.478 0.00 0.00 0.00 2.23
749 751 7.171848 GTCATATGTCAGTACTCTCACGTCTAT 59.828 40.741 1.90 0.00 0.00 1.98
750 752 6.479331 GTCATATGTCAGTACTCTCACGTCTA 59.521 42.308 1.90 0.00 0.00 2.59
751 753 5.294799 GTCATATGTCAGTACTCTCACGTCT 59.705 44.000 1.90 0.00 0.00 4.18
752 754 5.503498 GTCATATGTCAGTACTCTCACGTC 58.497 45.833 1.90 0.00 0.00 4.34
753 755 4.335874 GGTCATATGTCAGTACTCTCACGT 59.664 45.833 1.90 0.00 0.00 4.49
754 756 4.261238 GGGTCATATGTCAGTACTCTCACG 60.261 50.000 1.90 0.00 0.00 4.35
755 757 4.645136 TGGGTCATATGTCAGTACTCTCAC 59.355 45.833 1.90 0.00 0.00 3.51
756 758 4.867086 TGGGTCATATGTCAGTACTCTCA 58.133 43.478 1.90 0.00 0.00 3.27
757 759 5.361285 ACTTGGGTCATATGTCAGTACTCTC 59.639 44.000 1.90 0.00 0.00 3.20
758 760 5.273208 ACTTGGGTCATATGTCAGTACTCT 58.727 41.667 1.90 0.00 0.00 3.24
759 761 5.599999 ACTTGGGTCATATGTCAGTACTC 57.400 43.478 1.90 0.00 0.00 2.59
760 762 6.195700 AGTACTTGGGTCATATGTCAGTACT 58.804 40.000 17.80 17.80 36.24 2.73
761 763 6.466885 AGTACTTGGGTCATATGTCAGTAC 57.533 41.667 15.20 15.20 0.00 2.73
762 764 6.666113 TCAAGTACTTGGGTCATATGTCAGTA 59.334 38.462 30.35 7.02 40.78 2.74
763 765 5.483937 TCAAGTACTTGGGTCATATGTCAGT 59.516 40.000 30.35 0.17 40.78 3.41
764 766 5.977635 TCAAGTACTTGGGTCATATGTCAG 58.022 41.667 30.35 4.83 40.78 3.51
765 767 6.560003 ATCAAGTACTTGGGTCATATGTCA 57.440 37.500 30.35 10.98 40.78 3.58
766 768 9.640963 GTATATCAAGTACTTGGGTCATATGTC 57.359 37.037 30.35 18.68 40.78 3.06
767 769 9.154632 TGTATATCAAGTACTTGGGTCATATGT 57.845 33.333 30.35 17.66 40.78 2.29
768 770 9.645059 CTGTATATCAAGTACTTGGGTCATATG 57.355 37.037 30.35 13.21 40.78 1.78
769 771 9.601810 TCTGTATATCAAGTACTTGGGTCATAT 57.398 33.333 30.35 25.31 40.78 1.78
770 772 9.078990 CTCTGTATATCAAGTACTTGGGTCATA 57.921 37.037 30.35 21.47 40.78 2.15
771 773 7.565398 ACTCTGTATATCAAGTACTTGGGTCAT 59.435 37.037 30.35 20.22 40.78 3.06
772 774 6.895756 ACTCTGTATATCAAGTACTTGGGTCA 59.104 38.462 30.35 20.76 40.78 4.02
773 775 7.068348 TGACTCTGTATATCAAGTACTTGGGTC 59.932 40.741 30.35 19.58 40.78 4.46
774 776 6.895756 TGACTCTGTATATCAAGTACTTGGGT 59.104 38.462 30.35 22.27 40.78 4.51
775 777 7.348080 TGACTCTGTATATCAAGTACTTGGG 57.652 40.000 30.35 10.79 40.78 4.12
776 778 9.307121 CTTTGACTCTGTATATCAAGTACTTGG 57.693 37.037 30.35 15.52 40.78 3.61
777 779 9.307121 CCTTTGACTCTGTATATCAAGTACTTG 57.693 37.037 26.60 26.60 41.71 3.16
778 780 8.478877 CCCTTTGACTCTGTATATCAAGTACTT 58.521 37.037 1.12 1.12 34.04 2.24
779 781 7.620094 ACCCTTTGACTCTGTATATCAAGTACT 59.380 37.037 0.00 0.00 34.04 2.73
780 782 7.783042 ACCCTTTGACTCTGTATATCAAGTAC 58.217 38.462 0.00 0.00 34.04 2.73
781 783 7.618117 TGACCCTTTGACTCTGTATATCAAGTA 59.382 37.037 0.00 0.00 34.04 2.24
782 784 6.440647 TGACCCTTTGACTCTGTATATCAAGT 59.559 38.462 0.00 0.00 34.04 3.16
783 785 6.758886 GTGACCCTTTGACTCTGTATATCAAG 59.241 42.308 0.00 0.00 34.04 3.02
784 786 6.351881 GGTGACCCTTTGACTCTGTATATCAA 60.352 42.308 0.00 0.00 0.00 2.57
785 787 5.128827 GGTGACCCTTTGACTCTGTATATCA 59.871 44.000 0.00 0.00 0.00 2.15
786 788 5.128827 TGGTGACCCTTTGACTCTGTATATC 59.871 44.000 0.00 0.00 0.00 1.63
787 789 5.030147 TGGTGACCCTTTGACTCTGTATAT 58.970 41.667 0.00 0.00 0.00 0.86
788 790 4.222145 GTGGTGACCCTTTGACTCTGTATA 59.778 45.833 0.00 0.00 0.00 1.47
789 791 3.008049 GTGGTGACCCTTTGACTCTGTAT 59.992 47.826 0.00 0.00 0.00 2.29
790 792 2.367567 GTGGTGACCCTTTGACTCTGTA 59.632 50.000 0.00 0.00 0.00 2.74
791 793 1.141053 GTGGTGACCCTTTGACTCTGT 59.859 52.381 0.00 0.00 0.00 3.41
792 794 1.417890 AGTGGTGACCCTTTGACTCTG 59.582 52.381 0.00 0.00 0.00 3.35
845 847 4.373116 GCGGCGAACCCTCAGACA 62.373 66.667 12.98 0.00 0.00 3.41
1756 1760 2.856864 AGATTCCCCCTTTACCGGAAAT 59.143 45.455 9.46 0.00 39.07 2.17
1851 1855 3.964688 TCATCGAAATTACCTCTAGCCCA 59.035 43.478 0.00 0.00 0.00 5.36
1904 1908 3.308595 CGCGTCTCCTTATTGTTATTGCA 59.691 43.478 0.00 0.00 0.00 4.08


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

AutoCloner maintained by Alex Coulton.