Multiple sequence alignment - TraesCS3B01G272700

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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 TraesCS3B01G272700 chr3B 100.000 2738 0 0 1 2738 439334824 439332087 0.000000e+00 5057
1 TraesCS3B01G272700 chr3B 93.266 594 39 1 1 594 448776501 448777093 0.000000e+00 874
2 TraesCS3B01G272700 chr3B 71.212 462 119 11 1092 1546 90858382 90858836 1.340000e-18 104
3 TraesCS3B01G272700 chr3D 93.919 2039 81 17 718 2738 340416104 340414091 0.000000e+00 3038
4 TraesCS3B01G272700 chr3D 92.114 596 44 1 1 596 288677137 288677729 0.000000e+00 837
5 TraesCS3B01G272700 chr3D 91.429 595 50 1 1 595 496690027 496690620 0.000000e+00 815
6 TraesCS3B01G272700 chr3D 71.584 461 119 10 1092 1546 58080799 58081253 6.200000e-22 115
7 TraesCS3B01G272700 chr3A 92.385 2101 88 26 671 2738 464319429 464321490 0.000000e+00 2928
8 TraesCS3B01G272700 chr3A 71.304 460 119 10 1093 1546 66907967 66908419 3.730000e-19 106
9 TraesCS3B01G272700 chr5B 96.141 596 23 0 1 596 330792082 330792677 0.000000e+00 974
10 TraesCS3B01G272700 chr5A 94.622 595 32 0 1 595 328959956 328960550 0.000000e+00 922
11 TraesCS3B01G272700 chr5A 91.980 586 46 1 1 585 474378383 474377798 0.000000e+00 821
12 TraesCS3B01G272700 chr4D 92.568 592 42 2 1 592 488794015 488793426 0.000000e+00 848
13 TraesCS3B01G272700 chr4B 92.256 594 45 1 1 594 173351152 173351744 0.000000e+00 841
14 TraesCS3B01G272700 chr5D 91.319 599 50 2 1 597 271705433 271706031 0.000000e+00 817
15 TraesCS3B01G272700 chr1B 79.921 508 83 13 1095 1594 649368730 649369226 3.350000e-94 355
16 TraesCS3B01G272700 chr1A 79.800 500 80 15 1104 1594 562784804 562785291 7.260000e-91 344
17 TraesCS3B01G272700 chr1D 78.937 508 85 16 1095 1593 469587034 469587528 2.630000e-85 326


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 TraesCS3B01G272700 chr3B 439332087 439334824 2737 True 5057 5057 100.000 1 2738 1 chr3B.!!$R1 2737
1 TraesCS3B01G272700 chr3B 448776501 448777093 592 False 874 874 93.266 1 594 1 chr3B.!!$F2 593
2 TraesCS3B01G272700 chr3D 340414091 340416104 2013 True 3038 3038 93.919 718 2738 1 chr3D.!!$R1 2020
3 TraesCS3B01G272700 chr3D 288677137 288677729 592 False 837 837 92.114 1 596 1 chr3D.!!$F2 595
4 TraesCS3B01G272700 chr3D 496690027 496690620 593 False 815 815 91.429 1 595 1 chr3D.!!$F3 594
5 TraesCS3B01G272700 chr3A 464319429 464321490 2061 False 2928 2928 92.385 671 2738 1 chr3A.!!$F2 2067
6 TraesCS3B01G272700 chr5B 330792082 330792677 595 False 974 974 96.141 1 596 1 chr5B.!!$F1 595
7 TraesCS3B01G272700 chr5A 328959956 328960550 594 False 922 922 94.622 1 595 1 chr5A.!!$F1 594
8 TraesCS3B01G272700 chr5A 474377798 474378383 585 True 821 821 91.980 1 585 1 chr5A.!!$R1 584
9 TraesCS3B01G272700 chr4D 488793426 488794015 589 True 848 848 92.568 1 592 1 chr4D.!!$R1 591
10 TraesCS3B01G272700 chr4B 173351152 173351744 592 False 841 841 92.256 1 594 1 chr4B.!!$F1 593
11 TraesCS3B01G272700 chr5D 271705433 271706031 598 False 817 817 91.319 1 597 1 chr5D.!!$F1 596

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
633 637 0.109272 GTGGAGATTCTCGTGTGCGA 60.109 55.0 7.57 0.0 45.79 5.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2263 2281 0.664761 CTGTTCCACACTTGCACCAG 59.335 55.0 0.0 0.0 0.0 4.0 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
166 169 1.806542 GCAAGCAAAGTCAGGAATCGA 59.193 47.619 0.00 0.00 0.00 3.59
266 269 2.158769 TCAATACCGCAGCTTGGATGAT 60.159 45.455 8.75 0.00 0.00 2.45
299 303 0.995024 AGGGAATGGTGGACAGGAAG 59.005 55.000 0.00 0.00 0.00 3.46
505 509 1.385528 TGTAATGGCGCGAGAGTAGA 58.614 50.000 12.10 0.00 0.00 2.59
549 553 4.082136 TGTGGCGTTGTTTAAACCTTCTTT 60.082 37.500 15.59 0.00 0.00 2.52
556 560 9.027129 GCGTTGTTTAAACCTTCTTTCTTAATT 57.973 29.630 15.59 0.00 0.00 1.40
609 613 1.358759 AAAAAGTTCTGCACGGCCG 59.641 52.632 26.86 26.86 0.00 6.13
610 614 1.381165 AAAAAGTTCTGCACGGCCGT 61.381 50.000 28.70 28.70 0.00 5.68
611 615 1.381165 AAAAGTTCTGCACGGCCGTT 61.381 50.000 32.11 9.86 0.00 4.44
612 616 2.058829 AAAGTTCTGCACGGCCGTTG 62.059 55.000 32.11 24.32 0.00 4.10
613 617 4.683334 GTTCTGCACGGCCGTTGC 62.683 66.667 32.27 32.27 0.00 4.17
622 626 2.746277 GGCCGTTGCGTGGAGATT 60.746 61.111 0.00 0.00 38.85 2.40
623 627 2.750888 GGCCGTTGCGTGGAGATTC 61.751 63.158 0.00 0.00 38.85 2.52
624 628 1.741770 GCCGTTGCGTGGAGATTCT 60.742 57.895 0.00 0.00 0.00 2.40
625 629 1.696832 GCCGTTGCGTGGAGATTCTC 61.697 60.000 5.03 5.03 0.00 2.87
626 630 1.413767 CCGTTGCGTGGAGATTCTCG 61.414 60.000 7.57 0.00 0.00 4.04
627 631 0.732880 CGTTGCGTGGAGATTCTCGT 60.733 55.000 7.57 0.00 0.00 4.18
628 632 0.716108 GTTGCGTGGAGATTCTCGTG 59.284 55.000 7.57 1.50 0.00 4.35
629 633 0.317160 TTGCGTGGAGATTCTCGTGT 59.683 50.000 7.57 0.00 0.00 4.49
630 634 0.388520 TGCGTGGAGATTCTCGTGTG 60.389 55.000 7.57 0.00 0.00 3.82
631 635 1.687494 GCGTGGAGATTCTCGTGTGC 61.687 60.000 7.57 5.53 0.00 4.57
632 636 1.406219 CGTGGAGATTCTCGTGTGCG 61.406 60.000 7.57 4.17 39.92 5.34
633 637 0.109272 GTGGAGATTCTCGTGTGCGA 60.109 55.000 7.57 0.00 45.79 5.10
634 638 0.109272 TGGAGATTCTCGTGTGCGAC 60.109 55.000 7.57 0.00 42.81 5.19
635 639 0.802607 GGAGATTCTCGTGTGCGACC 60.803 60.000 7.57 0.00 42.81 4.79
636 640 1.134530 GAGATTCTCGTGTGCGACCG 61.135 60.000 0.00 0.00 42.81 4.79
637 641 2.789203 GATTCTCGTGTGCGACCGC 61.789 63.158 7.53 7.53 42.81 5.68
659 663 2.125310 CGCTCCCGCACACCATTA 60.125 61.111 0.00 0.00 35.30 1.90
660 664 1.743623 CGCTCCCGCACACCATTAA 60.744 57.895 0.00 0.00 35.30 1.40
661 665 1.302383 CGCTCCCGCACACCATTAAA 61.302 55.000 0.00 0.00 35.30 1.52
662 666 1.102978 GCTCCCGCACACCATTAAAT 58.897 50.000 0.00 0.00 35.78 1.40
663 667 1.065551 GCTCCCGCACACCATTAAATC 59.934 52.381 0.00 0.00 35.78 2.17
664 668 2.364632 CTCCCGCACACCATTAAATCA 58.635 47.619 0.00 0.00 0.00 2.57
665 669 2.951642 CTCCCGCACACCATTAAATCAT 59.048 45.455 0.00 0.00 0.00 2.45
666 670 2.948979 TCCCGCACACCATTAAATCATC 59.051 45.455 0.00 0.00 0.00 2.92
667 671 2.687425 CCCGCACACCATTAAATCATCA 59.313 45.455 0.00 0.00 0.00 3.07
668 672 3.489059 CCCGCACACCATTAAATCATCAC 60.489 47.826 0.00 0.00 0.00 3.06
669 673 3.353524 CGCACACCATTAAATCATCACG 58.646 45.455 0.00 0.00 0.00 4.35
700 704 3.332034 ACGCACCATTAACCTTACTCAC 58.668 45.455 0.00 0.00 0.00 3.51
701 705 2.347452 CGCACCATTAACCTTACTCACG 59.653 50.000 0.00 0.00 0.00 4.35
702 706 2.095372 GCACCATTAACCTTACTCACGC 59.905 50.000 0.00 0.00 0.00 5.34
703 707 3.331150 CACCATTAACCTTACTCACGCA 58.669 45.455 0.00 0.00 0.00 5.24
704 708 3.749088 CACCATTAACCTTACTCACGCAA 59.251 43.478 0.00 0.00 0.00 4.85
705 709 4.394920 CACCATTAACCTTACTCACGCAAT 59.605 41.667 0.00 0.00 0.00 3.56
706 710 4.394920 ACCATTAACCTTACTCACGCAATG 59.605 41.667 0.00 0.00 0.00 2.82
707 711 4.342772 CATTAACCTTACTCACGCAATGC 58.657 43.478 0.00 0.00 0.00 3.56
708 712 1.890876 AACCTTACTCACGCAATGCA 58.109 45.000 5.91 0.00 0.00 3.96
709 713 1.156736 ACCTTACTCACGCAATGCAC 58.843 50.000 5.91 0.00 0.00 4.57
710 714 1.270839 ACCTTACTCACGCAATGCACT 60.271 47.619 5.91 0.00 0.00 4.40
711 715 1.394917 CCTTACTCACGCAATGCACTC 59.605 52.381 5.91 0.00 0.00 3.51
712 716 1.394917 CTTACTCACGCAATGCACTCC 59.605 52.381 5.91 0.00 0.00 3.85
713 717 0.735978 TACTCACGCAATGCACTCCG 60.736 55.000 5.91 0.00 0.00 4.63
736 740 1.202510 GCATTGCGGCCCATTTCATTA 60.203 47.619 0.00 0.00 0.00 1.90
758 762 2.088763 CGCACAGCATCGTCTCGTT 61.089 57.895 0.00 0.00 0.00 3.85
901 906 0.811915 CGTCGGCCTCCCTATATCAG 59.188 60.000 0.00 0.00 0.00 2.90
917 922 3.246112 AGCCAACACTACCCGCCA 61.246 61.111 0.00 0.00 0.00 5.69
943 948 0.739813 GATCACACGCACTACCACCC 60.740 60.000 0.00 0.00 0.00 4.61
965 973 1.548357 GCTCTCTCCTGCAACCTCCA 61.548 60.000 0.00 0.00 0.00 3.86
1029 1037 3.071459 GAGCGGCATTGTCGTCGTG 62.071 63.158 12.79 0.00 31.29 4.35
1546 1554 3.927481 GACAAGGTGCTCCTGCCCC 62.927 68.421 8.37 0.00 44.35 5.80
1620 1628 1.478654 GCCAAGACCAAGAAGGGTGAA 60.479 52.381 0.00 0.00 42.53 3.18
1811 1820 3.384467 TCAATGTGCATAGACTCGATGGA 59.616 43.478 0.00 0.00 0.00 3.41
1938 1947 7.950512 TGTGATTGAATTTATGTGTTTGAGGT 58.049 30.769 0.00 0.00 0.00 3.85
1976 1985 3.408634 ACGCAGTGCATTTTAAGTACCT 58.591 40.909 16.83 0.00 42.51 3.08
2011 2020 2.358247 ACATGGTCCCGTTGCGAC 60.358 61.111 0.00 0.00 0.00 5.19
2023 2032 1.006832 GTTGCGACTTGAGTGTGTGT 58.993 50.000 0.00 0.00 0.00 3.72
2031 2040 4.569162 CGACTTGAGTGTGTGTCCTTTTTA 59.431 41.667 0.00 0.00 0.00 1.52
2032 2041 5.236478 CGACTTGAGTGTGTGTCCTTTTTAT 59.764 40.000 0.00 0.00 0.00 1.40
2049 2059 2.584492 TATCAGATCACTGTGGTGCG 57.416 50.000 8.11 0.00 43.81 5.34
2079 2089 0.597637 CTGTCGTCTGTCGGTGCTTT 60.598 55.000 0.00 0.00 40.32 3.51
2080 2090 0.669619 TGTCGTCTGTCGGTGCTTTA 59.330 50.000 0.00 0.00 40.32 1.85
2081 2091 1.058404 GTCGTCTGTCGGTGCTTTAC 58.942 55.000 0.00 0.00 40.32 2.01
2082 2092 0.956633 TCGTCTGTCGGTGCTTTACT 59.043 50.000 0.00 0.00 40.32 2.24
2083 2093 1.068748 TCGTCTGTCGGTGCTTTACTC 60.069 52.381 0.00 0.00 40.32 2.59
2084 2094 1.335597 CGTCTGTCGGTGCTTTACTCA 60.336 52.381 0.00 0.00 35.71 3.41
2085 2095 2.059541 GTCTGTCGGTGCTTTACTCAC 58.940 52.381 0.00 0.00 0.00 3.51
2086 2096 1.060713 CTGTCGGTGCTTTACTCACG 58.939 55.000 0.00 0.00 35.39 4.35
2087 2097 0.386476 TGTCGGTGCTTTACTCACGT 59.614 50.000 0.00 0.00 35.39 4.49
2088 2098 1.202440 TGTCGGTGCTTTACTCACGTT 60.202 47.619 0.00 0.00 35.39 3.99
2089 2099 1.862827 GTCGGTGCTTTACTCACGTTT 59.137 47.619 0.00 0.00 35.39 3.60
2090 2100 2.286025 GTCGGTGCTTTACTCACGTTTT 59.714 45.455 0.00 0.00 35.39 2.43
2091 2101 2.937799 TCGGTGCTTTACTCACGTTTTT 59.062 40.909 0.00 0.00 35.39 1.94
2170 2184 6.515512 TTAGGATAAGATTTTAGCTGCCCT 57.484 37.500 0.00 0.00 0.00 5.19
2182 2196 2.659428 AGCTGCCCTATTGATTTGGAC 58.341 47.619 0.00 0.00 0.00 4.02
2189 2203 3.063452 CCCTATTGATTTGGACGTGTTCG 59.937 47.826 0.00 0.00 43.34 3.95
2219 2233 4.602340 AATGGGATGATAGTACACGTCC 57.398 45.455 13.81 13.81 40.33 4.79
2245 2259 6.645003 AGTTTTCGGTTTTGGATTTATCAAGC 59.355 34.615 0.00 0.00 0.00 4.01
2263 2281 1.160137 GCGATGGGTAATCATGGAGC 58.840 55.000 0.00 0.00 34.68 4.70
2370 2388 5.292765 AGTCGATTCTATTGCATAGTGGTG 58.707 41.667 0.00 0.00 34.47 4.17
2400 2424 7.969536 TTGTACGAGTACTATACACCCTATC 57.030 40.000 15.71 0.00 37.00 2.08
2401 2425 6.467677 TGTACGAGTACTATACACCCTATCC 58.532 44.000 13.13 0.00 37.00 2.59
2595 2639 1.813513 CCCTGTAACTCTGTTGGCAG 58.186 55.000 0.00 0.00 43.87 4.85
2646 2690 8.650714 CGTACTACGTATAGCAGTATCATACAA 58.349 37.037 0.00 0.00 36.74 2.41
2720 2764 4.202959 GCACGTCGCTTTCAATTATCAATG 59.797 41.667 0.00 0.00 37.77 2.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
166 169 2.590114 GGAACAGTAGGTGGGCCGT 61.590 63.158 0.00 0.00 40.50 5.68
266 269 2.037367 CCCTCACCGAGACCCTCA 59.963 66.667 0.00 0.00 0.00 3.86
299 303 3.307242 GGATTCGCTACGGATATGAATGC 59.693 47.826 0.00 0.00 31.83 3.56
505 509 4.202212 ACAAAGCGGCAAGAAAATAAAGGT 60.202 37.500 1.45 0.00 0.00 3.50
561 565 7.984050 TGAAACAAGGCAAAAGATTTGTCATTA 59.016 29.630 9.76 0.00 32.97 1.90
596 600 4.683334 GCAACGGCCGTGCAGAAC 62.683 66.667 34.95 13.95 0.00 3.01
605 609 2.746277 AATCTCCACGCAACGGCC 60.746 61.111 0.00 0.00 36.38 6.13
606 610 1.696832 GAGAATCTCCACGCAACGGC 61.697 60.000 0.00 0.00 0.00 5.68
607 611 1.413767 CGAGAATCTCCACGCAACGG 61.414 60.000 4.47 0.00 0.00 4.44
608 612 0.732880 ACGAGAATCTCCACGCAACG 60.733 55.000 4.47 0.00 0.00 4.10
609 613 0.716108 CACGAGAATCTCCACGCAAC 59.284 55.000 4.47 0.00 0.00 4.17
610 614 0.317160 ACACGAGAATCTCCACGCAA 59.683 50.000 4.47 0.00 0.00 4.85
611 615 0.388520 CACACGAGAATCTCCACGCA 60.389 55.000 4.47 0.00 0.00 5.24
612 616 1.687494 GCACACGAGAATCTCCACGC 61.687 60.000 4.47 0.00 0.00 5.34
613 617 1.406219 CGCACACGAGAATCTCCACG 61.406 60.000 4.47 0.00 43.93 4.94
614 618 0.109272 TCGCACACGAGAATCTCCAC 60.109 55.000 4.47 0.00 45.12 4.02
615 619 2.263153 TCGCACACGAGAATCTCCA 58.737 52.632 4.47 0.00 45.12 3.86
644 648 2.364632 TGATTTAATGGTGTGCGGGAG 58.635 47.619 0.00 0.00 0.00 4.30
645 649 2.498644 TGATTTAATGGTGTGCGGGA 57.501 45.000 0.00 0.00 0.00 5.14
646 650 2.687425 TGATGATTTAATGGTGTGCGGG 59.313 45.455 0.00 0.00 0.00 6.13
647 651 3.694734 GTGATGATTTAATGGTGTGCGG 58.305 45.455 0.00 0.00 0.00 5.69
648 652 3.063316 TCGTGATGATTTAATGGTGTGCG 59.937 43.478 0.00 0.00 0.00 5.34
649 653 4.342772 GTCGTGATGATTTAATGGTGTGC 58.657 43.478 0.00 0.00 0.00 4.57
650 654 4.328712 TCGTCGTGATGATTTAATGGTGTG 59.671 41.667 0.00 0.00 0.00 3.82
651 655 4.500127 TCGTCGTGATGATTTAATGGTGT 58.500 39.130 0.00 0.00 0.00 4.16
652 656 5.610338 CGATCGTCGTGATGATTTAATGGTG 60.610 44.000 7.03 0.00 37.47 4.17
653 657 4.444388 CGATCGTCGTGATGATTTAATGGT 59.556 41.667 7.03 0.00 37.47 3.55
654 658 4.143326 CCGATCGTCGTGATGATTTAATGG 60.143 45.833 15.09 1.50 38.40 3.16
655 659 4.444388 ACCGATCGTCGTGATGATTTAATG 59.556 41.667 15.09 0.00 38.40 1.90
656 660 4.617959 ACCGATCGTCGTGATGATTTAAT 58.382 39.130 15.09 0.00 38.40 1.40
657 661 4.036567 ACCGATCGTCGTGATGATTTAA 57.963 40.909 15.09 0.00 38.40 1.52
658 662 3.703286 ACCGATCGTCGTGATGATTTA 57.297 42.857 15.09 0.00 38.40 1.40
659 663 2.579207 ACCGATCGTCGTGATGATTT 57.421 45.000 15.09 0.00 38.40 2.17
660 664 2.601504 CGTACCGATCGTCGTGATGATT 60.602 50.000 15.09 0.00 38.40 2.57
661 665 1.070108 CGTACCGATCGTCGTGATGAT 60.070 52.381 15.09 4.28 38.40 2.45
662 666 0.302589 CGTACCGATCGTCGTGATGA 59.697 55.000 15.09 0.00 38.40 2.92
663 667 1.260198 GCGTACCGATCGTCGTGATG 61.260 60.000 15.09 0.00 38.40 3.07
664 668 1.010350 GCGTACCGATCGTCGTGAT 60.010 57.895 15.09 0.00 38.40 3.06
665 669 2.389809 TGCGTACCGATCGTCGTGA 61.390 57.895 15.09 4.75 38.40 4.35
666 670 2.098871 TGCGTACCGATCGTCGTG 59.901 61.111 15.09 0.49 38.40 4.35
667 671 2.099062 GTGCGTACCGATCGTCGT 59.901 61.111 15.09 8.31 38.40 4.34
668 672 2.649975 GGTGCGTACCGATCGTCG 60.650 66.667 15.09 15.78 37.19 5.12
713 717 3.668980 AAATGGGCCGCAATGCAGC 62.669 57.895 4.61 4.61 0.00 5.25
726 730 2.787723 GCTGTGCGACGTAATGAAATGG 60.788 50.000 0.00 0.00 0.00 3.16
736 740 2.805353 GACGATGCTGTGCGACGT 60.805 61.111 11.73 11.73 42.66 4.34
758 762 1.447140 GGAATGTGCGCTACGACCA 60.447 57.895 9.73 0.00 0.00 4.02
826 830 2.126189 GTCTGACGGTGCGTACCC 60.126 66.667 17.62 4.49 44.53 3.69
901 906 2.045340 ATGGCGGGTAGTGTTGGC 60.045 61.111 0.00 0.00 0.00 4.52
917 922 0.530744 AGTGCGTGTGATCGGTACAT 59.469 50.000 0.00 0.00 0.00 2.29
943 948 2.125350 GTTGCAGGAGAGAGCGGG 60.125 66.667 0.00 0.00 0.00 6.13
965 973 1.531423 CTGGTGCTGCTCTGAACAAT 58.469 50.000 0.00 0.00 0.00 2.71
1317 1325 3.017581 AGGATGTGGGCCTGGACC 61.018 66.667 13.16 13.16 33.59 4.46
1601 1609 2.508526 CTTCACCCTTCTTGGTCTTGG 58.491 52.381 0.00 0.00 36.12 3.61
1811 1820 6.544928 AAGAAACACCAAAGACAAGGAAAT 57.455 33.333 0.00 0.00 0.00 2.17
1938 1947 6.454583 GCACTGCGTCGTTATTAACATTCTTA 60.455 38.462 7.31 0.00 0.00 2.10
1969 1978 2.829720 TCAATCGCACTACCAGGTACTT 59.170 45.455 0.00 0.00 34.60 2.24
1976 1985 3.394674 TGTCTTTCAATCGCACTACCA 57.605 42.857 0.00 0.00 0.00 3.25
2011 2020 6.483307 TCTGATAAAAAGGACACACACTCAAG 59.517 38.462 0.00 0.00 0.00 3.02
2023 2032 6.126863 ACCACAGTGATCTGATAAAAAGGA 57.873 37.500 0.62 0.00 43.76 3.36
2049 2059 1.204312 GACGACAGTCTTTTGCCGC 59.796 57.895 0.00 0.00 43.80 6.53
2148 2162 7.814693 ATAGGGCAGCTAAAATCTTATCCTA 57.185 36.000 0.00 0.00 0.00 2.94
2170 2184 3.124466 CAGCGAACACGTCCAAATCAATA 59.876 43.478 0.00 0.00 0.00 1.90
2182 2196 1.662876 CCATTTTGACCAGCGAACACG 60.663 52.381 0.00 0.00 0.00 4.49
2189 2203 4.210331 ACTATCATCCCATTTTGACCAGC 58.790 43.478 0.00 0.00 0.00 4.85
2219 2233 7.359181 GCTTGATAAATCCAAAACCGAAAACTG 60.359 37.037 0.00 0.00 0.00 3.16
2245 2259 2.420642 CAGCTCCATGATTACCCATCG 58.579 52.381 0.00 0.00 34.08 3.84
2263 2281 0.664761 CTGTTCCACACTTGCACCAG 59.335 55.000 0.00 0.00 0.00 4.00
2370 2388 5.398711 GTGTATAGTACTCGTACAATGCAGC 59.601 44.000 17.71 5.94 38.48 5.25
2497 2541 2.761465 CCTGGGAGGGAAGGCCATC 61.761 68.421 5.01 0.92 44.15 3.51
2523 2567 1.890489 TCTCCGTCTCCGATGAAAACA 59.110 47.619 0.00 0.00 35.63 2.83
2646 2690 5.243060 TCCGTATATGACAACGATGAATCCT 59.757 40.000 0.00 0.00 41.55 3.24


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

AutoCloner maintained by Alex Coulton.