Multiple sequence alignment - TraesCS7B01G016800

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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 TraesCS7B01G016800 chr7B 100.000 3488 0 0 1 3488 14725927 14729414 0.000000e+00 6442.0
1 TraesCS7B01G016800 chrUn 98.341 1808 23 3 777 2582 84310720 84308918 0.000000e+00 3166.0
2 TraesCS7B01G016800 chrUn 92.559 1774 84 21 778 2503 82570453 82568680 0.000000e+00 2501.0
3 TraesCS7B01G016800 chrUn 83.929 728 106 8 1586 2305 9331494 9330770 0.000000e+00 686.0
4 TraesCS7B01G016800 chrUn 97.980 99 2 0 2611 2709 84308919 84308821 4.630000e-39 172.0
5 TraesCS7B01G016800 chrUn 73.381 556 111 29 1737 2281 103930367 103929838 4.630000e-39 172.0
6 TraesCS7B01G016800 chrUn 72.549 561 119 28 1731 2281 104016312 104016847 2.170000e-32 150.0
7 TraesCS7B01G016800 chr7D 92.382 1851 92 25 778 2586 71839185 71837342 0.000000e+00 2591.0
8 TraesCS7B01G016800 chr7D 92.968 711 34 9 1 711 622500297 622499603 0.000000e+00 1022.0
9 TraesCS7B01G016800 chr7D 85.077 717 70 20 1 715 372963528 372964209 0.000000e+00 697.0
10 TraesCS7B01G016800 chr7D 84.530 724 59 26 1 719 633923587 633924262 0.000000e+00 667.0
11 TraesCS7B01G016800 chr3D 95.524 715 30 2 1 715 582613364 582614076 0.000000e+00 1142.0
12 TraesCS7B01G016800 chr2B 95.125 718 31 4 1 717 752942546 752941832 0.000000e+00 1129.0
13 TraesCS7B01G016800 chr7A 94.159 719 37 4 1 718 51366206 51365492 0.000000e+00 1090.0
14 TraesCS7B01G016800 chr4B 92.116 761 47 7 2737 3485 12254244 12255003 0.000000e+00 1061.0
15 TraesCS7B01G016800 chr4B 86.371 587 68 12 2740 3324 60555615 60556191 6.350000e-177 630.0
16 TraesCS7B01G016800 chr1D 93.724 717 28 5 1 713 54173324 54174027 0.000000e+00 1059.0
17 TraesCS7B01G016800 chr1D 93.617 47 1 2 663 709 9796560 9796604 6.250000e-08 69.4
18 TraesCS7B01G016800 chr6B 92.053 755 54 6 2736 3488 290894685 290893935 0.000000e+00 1057.0
19 TraesCS7B01G016800 chr6B 72.993 548 111 29 1745 2281 56201253 56201774 1.300000e-34 158.0
20 TraesCS7B01G016800 chr5B 91.053 760 57 5 2740 3488 234173345 234172586 0.000000e+00 1016.0
21 TraesCS7B01G016800 chr5B 89.934 755 66 7 2740 3488 565687617 565688367 0.000000e+00 965.0
22 TraesCS7B01G016800 chr5B 86.172 687 86 8 2741 3425 83611773 83611094 0.000000e+00 734.0
23 TraesCS7B01G016800 chr5D 86.321 753 89 8 2740 3483 256483785 256484532 0.000000e+00 808.0
24 TraesCS7B01G016800 chr1B 90.625 608 50 6 2737 3340 429704492 429705096 0.000000e+00 800.0
25 TraesCS7B01G016800 chr1B 86.857 175 22 1 2131 2305 689851870 689851697 9.880000e-46 195.0
26 TraesCS7B01G016800 chr6D 85.317 756 91 14 2737 3483 72402765 72402021 0.000000e+00 763.0
27 TraesCS7B01G016800 chr3B 84.906 742 103 7 2740 3480 595374704 595375437 0.000000e+00 741.0
28 TraesCS7B01G016800 chr1A 85.755 702 55 16 1 698 243618463 243617803 0.000000e+00 701.0
29 TraesCS7B01G016800 chr6A 73.455 550 109 27 1743 2281 31364121 31363598 4.630000e-39 172.0


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 TraesCS7B01G016800 chr7B 14725927 14729414 3487 False 6442 6442 100.0000 1 3488 1 chr7B.!!$F1 3487
1 TraesCS7B01G016800 chrUn 82568680 82570453 1773 True 2501 2501 92.5590 778 2503 1 chrUn.!!$R2 1725
2 TraesCS7B01G016800 chrUn 84308821 84310720 1899 True 1669 3166 98.1605 777 2709 2 chrUn.!!$R4 1932
3 TraesCS7B01G016800 chrUn 9330770 9331494 724 True 686 686 83.9290 1586 2305 1 chrUn.!!$R1 719
4 TraesCS7B01G016800 chr7D 71837342 71839185 1843 True 2591 2591 92.3820 778 2586 1 chr7D.!!$R1 1808
5 TraesCS7B01G016800 chr7D 622499603 622500297 694 True 1022 1022 92.9680 1 711 1 chr7D.!!$R2 710
6 TraesCS7B01G016800 chr7D 372963528 372964209 681 False 697 697 85.0770 1 715 1 chr7D.!!$F1 714
7 TraesCS7B01G016800 chr7D 633923587 633924262 675 False 667 667 84.5300 1 719 1 chr7D.!!$F2 718
8 TraesCS7B01G016800 chr3D 582613364 582614076 712 False 1142 1142 95.5240 1 715 1 chr3D.!!$F1 714
9 TraesCS7B01G016800 chr2B 752941832 752942546 714 True 1129 1129 95.1250 1 717 1 chr2B.!!$R1 716
10 TraesCS7B01G016800 chr7A 51365492 51366206 714 True 1090 1090 94.1590 1 718 1 chr7A.!!$R1 717
11 TraesCS7B01G016800 chr4B 12254244 12255003 759 False 1061 1061 92.1160 2737 3485 1 chr4B.!!$F1 748
12 TraesCS7B01G016800 chr4B 60555615 60556191 576 False 630 630 86.3710 2740 3324 1 chr4B.!!$F2 584
13 TraesCS7B01G016800 chr1D 54173324 54174027 703 False 1059 1059 93.7240 1 713 1 chr1D.!!$F2 712
14 TraesCS7B01G016800 chr6B 290893935 290894685 750 True 1057 1057 92.0530 2736 3488 1 chr6B.!!$R1 752
15 TraesCS7B01G016800 chr5B 234172586 234173345 759 True 1016 1016 91.0530 2740 3488 1 chr5B.!!$R2 748
16 TraesCS7B01G016800 chr5B 565687617 565688367 750 False 965 965 89.9340 2740 3488 1 chr5B.!!$F1 748
17 TraesCS7B01G016800 chr5B 83611094 83611773 679 True 734 734 86.1720 2741 3425 1 chr5B.!!$R1 684
18 TraesCS7B01G016800 chr5D 256483785 256484532 747 False 808 808 86.3210 2740 3483 1 chr5D.!!$F1 743
19 TraesCS7B01G016800 chr1B 429704492 429705096 604 False 800 800 90.6250 2737 3340 1 chr1B.!!$F1 603
20 TraesCS7B01G016800 chr6D 72402021 72402765 744 True 763 763 85.3170 2737 3483 1 chr6D.!!$R1 746
21 TraesCS7B01G016800 chr3B 595374704 595375437 733 False 741 741 84.9060 2740 3480 1 chr3B.!!$F1 740
22 TraesCS7B01G016800 chr1A 243617803 243618463 660 True 701 701 85.7550 1 698 1 chr1A.!!$R1 697

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
743 770 0.387622 TTACTCGAAGCACCGAACCG 60.388 55.0 2.29 0.0 38.17 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2582 2669 0.034896 ATGTGACGGTCTCAACCACC 59.965 55.0 15.85 0.0 46.86 4.61 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
63 65 2.098443 GTGTTCTTTTTGCTGGAACCGA 59.902 45.455 0.00 0.00 38.68 4.69
165 168 4.876107 TGGAACCGATCTATTCTTTTGCTC 59.124 41.667 5.96 0.00 0.00 4.26
170 173 4.806247 CCGATCTATTCTTTTGCTCGAAGT 59.194 41.667 0.00 0.00 0.00 3.01
327 336 1.065854 GTAGGACACCAGATGCAAGCT 60.066 52.381 0.00 0.00 0.00 3.74
385 394 1.683365 GGGATGCTGCAACCATGGT 60.683 57.895 27.08 13.00 0.00 3.55
610 630 1.210722 GAGCGAGGAGGGGATTTTTCT 59.789 52.381 0.00 0.00 0.00 2.52
611 631 1.636003 AGCGAGGAGGGGATTTTTCTT 59.364 47.619 0.00 0.00 0.00 2.52
612 632 2.041755 AGCGAGGAGGGGATTTTTCTTT 59.958 45.455 0.00 0.00 0.00 2.52
662 689 2.864343 GTGTGTCGGTATCCAATGCTAC 59.136 50.000 0.00 0.00 0.00 3.58
719 746 1.718757 CGCCTAGCAGTGCCCATTTC 61.719 60.000 12.58 0.00 0.00 2.17
720 747 0.680921 GCCTAGCAGTGCCCATTTCA 60.681 55.000 12.58 0.00 0.00 2.69
721 748 1.098050 CCTAGCAGTGCCCATTTCAC 58.902 55.000 12.58 0.00 34.80 3.18
722 749 1.614051 CCTAGCAGTGCCCATTTCACA 60.614 52.381 12.58 0.00 36.93 3.58
723 750 2.161855 CTAGCAGTGCCCATTTCACAA 58.838 47.619 12.58 0.00 36.93 3.33
724 751 1.636148 AGCAGTGCCCATTTCACAAT 58.364 45.000 12.58 0.00 36.93 2.71
725 752 1.972795 AGCAGTGCCCATTTCACAATT 59.027 42.857 12.58 0.00 36.93 2.32
726 753 3.164268 AGCAGTGCCCATTTCACAATTA 58.836 40.909 12.58 0.00 36.93 1.40
727 754 3.056607 AGCAGTGCCCATTTCACAATTAC 60.057 43.478 12.58 0.00 36.93 1.89
728 755 3.056607 GCAGTGCCCATTTCACAATTACT 60.057 43.478 2.85 0.00 36.93 2.24
729 756 4.737054 CAGTGCCCATTTCACAATTACTC 58.263 43.478 0.00 0.00 36.93 2.59
730 757 3.440173 AGTGCCCATTTCACAATTACTCG 59.560 43.478 0.00 0.00 36.93 4.18
731 758 3.438781 GTGCCCATTTCACAATTACTCGA 59.561 43.478 0.00 0.00 34.73 4.04
732 759 4.075682 TGCCCATTTCACAATTACTCGAA 58.924 39.130 0.00 0.00 0.00 3.71
733 760 4.155826 TGCCCATTTCACAATTACTCGAAG 59.844 41.667 0.00 0.00 0.00 3.79
734 761 4.662145 CCCATTTCACAATTACTCGAAGC 58.338 43.478 0.00 0.00 0.00 3.86
735 762 4.155826 CCCATTTCACAATTACTCGAAGCA 59.844 41.667 0.00 0.00 0.00 3.91
736 763 5.088739 CCATTTCACAATTACTCGAAGCAC 58.911 41.667 0.00 0.00 0.00 4.40
737 764 4.742438 TTTCACAATTACTCGAAGCACC 57.258 40.909 0.00 0.00 0.00 5.01
738 765 2.333926 TCACAATTACTCGAAGCACCG 58.666 47.619 0.00 0.00 0.00 4.94
739 766 2.029739 TCACAATTACTCGAAGCACCGA 60.030 45.455 0.73 0.73 37.03 4.69
740 767 2.734606 CACAATTACTCGAAGCACCGAA 59.265 45.455 2.29 0.00 38.17 4.30
741 768 2.735134 ACAATTACTCGAAGCACCGAAC 59.265 45.455 2.29 0.00 38.17 3.95
742 769 2.005971 ATTACTCGAAGCACCGAACC 57.994 50.000 2.29 0.00 38.17 3.62
743 770 0.387622 TTACTCGAAGCACCGAACCG 60.388 55.000 2.29 0.00 38.17 4.44
744 771 1.236616 TACTCGAAGCACCGAACCGA 61.237 55.000 2.29 0.00 38.17 4.69
745 772 1.153823 CTCGAAGCACCGAACCGAT 60.154 57.895 2.29 0.00 38.17 4.18
746 773 1.140407 CTCGAAGCACCGAACCGATC 61.140 60.000 2.29 0.00 38.17 3.69
767 794 2.346597 TTCGGTTGAACCCAATGCC 58.653 52.632 9.08 0.00 33.75 4.40
768 795 1.182385 TTCGGTTGAACCCAATGCCC 61.182 55.000 9.08 0.00 33.75 5.36
769 796 1.905843 CGGTTGAACCCAATGCCCA 60.906 57.895 9.08 0.00 33.75 5.36
770 797 1.876497 CGGTTGAACCCAATGCCCAG 61.876 60.000 9.08 0.00 33.75 4.45
771 798 1.293179 GTTGAACCCAATGCCCAGC 59.707 57.895 0.00 0.00 34.39 4.85
772 799 1.912763 TTGAACCCAATGCCCAGCC 60.913 57.895 0.00 0.00 0.00 4.85
773 800 2.037847 GAACCCAATGCCCAGCCT 59.962 61.111 0.00 0.00 0.00 4.58
774 801 2.284112 AACCCAATGCCCAGCCTG 60.284 61.111 0.00 0.00 0.00 4.85
775 802 2.786512 GAACCCAATGCCCAGCCTGA 62.787 60.000 0.00 0.00 0.00 3.86
792 819 2.574824 CCTGATGCCCCATGATGATAGA 59.425 50.000 0.00 0.00 0.00 1.98
2324 2410 2.280052 GCATCGGCTGGAGAGAGC 60.280 66.667 0.00 0.00 38.34 4.09
2358 2444 2.502295 GCCATTGAGAGGATGATGGAC 58.498 52.381 5.46 0.00 41.20 4.02
2433 2519 2.325857 GATGGCATCAACGAGCGC 59.674 61.111 22.23 0.00 0.00 5.92
2475 2561 3.447229 TCAGTGATTTGGTCGCTCTCATA 59.553 43.478 0.00 0.00 45.69 2.15
2478 2564 5.122239 CAGTGATTTGGTCGCTCTCATAAAA 59.878 40.000 0.00 0.00 45.69 1.52
2520 2607 7.739498 TCCATATCTGTTTGATGATGATGTG 57.261 36.000 0.00 0.00 36.65 3.21
2532 2619 5.355910 TGATGATGATGTGGTTGTCATCTTG 59.644 40.000 14.27 0.00 46.83 3.02
2534 2621 3.144657 TGATGTGGTTGTCATCTTGCT 57.855 42.857 7.30 0.00 41.30 3.91
2535 2622 2.815503 TGATGTGGTTGTCATCTTGCTG 59.184 45.455 7.30 0.00 41.30 4.41
2536 2623 2.636647 TGTGGTTGTCATCTTGCTGA 57.363 45.000 0.00 0.00 0.00 4.26
2537 2624 3.144657 TGTGGTTGTCATCTTGCTGAT 57.855 42.857 0.00 0.00 35.40 2.90
2538 2625 3.489355 TGTGGTTGTCATCTTGCTGATT 58.511 40.909 0.00 0.00 32.05 2.57
2539 2626 3.890756 TGTGGTTGTCATCTTGCTGATTT 59.109 39.130 0.00 0.00 32.05 2.17
2540 2627 4.232221 GTGGTTGTCATCTTGCTGATTTG 58.768 43.478 0.00 0.00 32.05 2.32
2541 2628 3.256383 TGGTTGTCATCTTGCTGATTTGG 59.744 43.478 0.00 0.00 32.05 3.28
2545 2632 5.125100 TGTCATCTTGCTGATTTGGTTTC 57.875 39.130 0.00 0.00 32.05 2.78
2546 2633 4.828939 TGTCATCTTGCTGATTTGGTTTCT 59.171 37.500 0.00 0.00 32.05 2.52
2559 2646 7.651808 TGATTTGGTTTCTTTTCTCTCATGTC 58.348 34.615 0.00 0.00 0.00 3.06
2580 2667 7.141100 TGTCGAATAAAGGAATCCTGTTTTC 57.859 36.000 0.90 7.59 32.13 2.29
2581 2668 6.150474 TGTCGAATAAAGGAATCCTGTTTTCC 59.850 38.462 14.42 5.08 42.51 3.13
2582 2669 5.353123 TCGAATAAAGGAATCCTGTTTTCCG 59.647 40.000 14.42 10.68 45.99 4.30
2583 2670 5.448632 CGAATAAAGGAATCCTGTTTTCCGG 60.449 44.000 14.42 0.00 45.99 5.14
2584 2671 2.971901 AAGGAATCCTGTTTTCCGGT 57.028 45.000 0.90 0.00 45.99 5.28
2585 2672 2.200373 AGGAATCCTGTTTTCCGGTG 57.800 50.000 0.00 0.00 45.99 4.94
2586 2673 1.173913 GGAATCCTGTTTTCCGGTGG 58.826 55.000 0.00 0.00 33.79 4.61
2587 2674 1.546998 GGAATCCTGTTTTCCGGTGGT 60.547 52.381 0.00 0.00 33.79 4.16
2588 2675 2.235891 GAATCCTGTTTTCCGGTGGTT 58.764 47.619 0.00 0.00 0.00 3.67
2589 2676 1.616159 ATCCTGTTTTCCGGTGGTTG 58.384 50.000 0.00 0.00 0.00 3.77
2590 2677 0.547075 TCCTGTTTTCCGGTGGTTGA 59.453 50.000 0.00 0.00 0.00 3.18
2591 2678 0.951558 CCTGTTTTCCGGTGGTTGAG 59.048 55.000 0.00 0.00 0.00 3.02
2592 2679 1.476110 CCTGTTTTCCGGTGGTTGAGA 60.476 52.381 0.00 0.00 0.00 3.27
2593 2680 1.602377 CTGTTTTCCGGTGGTTGAGAC 59.398 52.381 0.00 0.00 0.00 3.36
2594 2681 0.949397 GTTTTCCGGTGGTTGAGACC 59.051 55.000 0.00 0.00 46.71 3.85
2603 2690 3.906660 GGTTGAGACCGTCACATGA 57.093 52.632 0.00 0.00 35.91 3.07
2604 2691 2.163818 GGTTGAGACCGTCACATGAA 57.836 50.000 0.00 0.00 35.91 2.57
2605 2692 1.798813 GGTTGAGACCGTCACATGAAC 59.201 52.381 0.00 0.00 35.91 3.18
2606 2693 2.479837 GTTGAGACCGTCACATGAACA 58.520 47.619 0.00 0.00 33.71 3.18
2607 2694 2.869801 GTTGAGACCGTCACATGAACAA 59.130 45.455 0.00 0.00 33.71 2.83
2608 2695 2.754472 TGAGACCGTCACATGAACAAG 58.246 47.619 0.00 0.00 0.00 3.16
2609 2696 2.069273 GAGACCGTCACATGAACAAGG 58.931 52.381 0.00 0.00 0.00 3.61
2697 2784 3.240011 TCCCCACCGCACCGTTTA 61.240 61.111 0.00 0.00 0.00 2.01
2709 2796 4.504826 CCGCACCGTTTATGTTTTCTTTTT 59.495 37.500 0.00 0.00 0.00 1.94
2710 2797 5.331980 CCGCACCGTTTATGTTTTCTTTTTC 60.332 40.000 0.00 0.00 0.00 2.29
2711 2798 5.457473 CGCACCGTTTATGTTTTCTTTTTCT 59.543 36.000 0.00 0.00 0.00 2.52
2712 2799 6.020201 CGCACCGTTTATGTTTTCTTTTTCTT 60.020 34.615 0.00 0.00 0.00 2.52
2713 2800 7.463515 CGCACCGTTTATGTTTTCTTTTTCTTT 60.464 33.333 0.00 0.00 0.00 2.52
2714 2801 8.172484 GCACCGTTTATGTTTTCTTTTTCTTTT 58.828 29.630 0.00 0.00 0.00 2.27
2777 2864 0.902984 ACGTGTGGCATCTAGTGGGA 60.903 55.000 0.00 0.00 0.00 4.37
2880 2969 3.029810 GTGTGTGGCACAATCGCA 58.970 55.556 23.90 13.35 46.28 5.10
2961 3050 1.382629 CCTTCCAACCCCATTCCGT 59.617 57.895 0.00 0.00 0.00 4.69
2968 3058 3.727258 CCCCATTCCGTCCTGCCA 61.727 66.667 0.00 0.00 0.00 4.92
3011 3101 2.024273 TCCCCTACCTTCATCGTCTTCT 60.024 50.000 0.00 0.00 0.00 2.85
3059 3151 0.965439 GATCTCTAGCGCCTCACCAT 59.035 55.000 2.29 0.00 0.00 3.55
3129 3233 2.300437 CTCCTCCTGTTTCTCGTCCTTT 59.700 50.000 0.00 0.00 0.00 3.11
3130 3234 2.299297 TCCTCCTGTTTCTCGTCCTTTC 59.701 50.000 0.00 0.00 0.00 2.62
3160 3265 8.292448 GTCTAGAAAAGTGAAATTGCAGATTGA 58.708 33.333 0.00 0.00 0.00 2.57
3186 3291 0.753262 ACATGGCGACTAGATCCACC 59.247 55.000 0.00 0.00 31.94 4.61
3240 3346 6.155910 TGTGTATTCAAATATGCCCACCAAAT 59.844 34.615 0.00 0.00 0.00 2.32
3293 3399 3.857157 TGAGCTAAGTTTCTGGGTTGT 57.143 42.857 0.00 0.00 0.00 3.32
3350 3460 7.282224 CGTATGAATCACTAAAATCAGGGGAAA 59.718 37.037 0.00 0.00 0.00 3.13
3467 3577 7.065324 GCTGCCACAATATAGTGTTGTTAGTTA 59.935 37.037 2.43 0.00 37.69 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
139 142 4.487714 AAAGAATAGATCGGTTCCAGCA 57.512 40.909 8.82 0.00 0.00 4.41
165 168 6.202937 TGTAGCAAAAACAATACCAACTTCG 58.797 36.000 0.00 0.00 0.00 3.79
170 173 6.975772 GTCAGTTGTAGCAAAAACAATACCAA 59.024 34.615 0.00 0.00 38.95 3.67
385 394 0.606130 TGCTTCCAGCTTGCGATTCA 60.606 50.000 0.00 0.00 42.97 2.57
464 476 2.437002 GGGATTGCGTAACGGCCA 60.437 61.111 2.24 0.00 0.00 5.36
624 651 2.095415 CACACGTGACCGTCAGATCTAA 60.095 50.000 25.01 0.00 46.28 2.10
719 746 2.333926 TCGGTGCTTCGAGTAATTGTG 58.666 47.619 0.00 0.00 34.82 3.33
720 747 2.735134 GTTCGGTGCTTCGAGTAATTGT 59.265 45.455 2.66 0.00 40.42 2.71
721 748 2.093783 GGTTCGGTGCTTCGAGTAATTG 59.906 50.000 2.66 0.00 40.42 2.32
722 749 2.344025 GGTTCGGTGCTTCGAGTAATT 58.656 47.619 2.66 0.00 40.42 1.40
723 750 1.734707 CGGTTCGGTGCTTCGAGTAAT 60.735 52.381 2.66 0.00 40.42 1.89
724 751 0.387622 CGGTTCGGTGCTTCGAGTAA 60.388 55.000 2.66 0.00 40.42 2.24
725 752 1.210931 CGGTTCGGTGCTTCGAGTA 59.789 57.895 2.66 0.00 40.42 2.59
726 753 1.874345 ATCGGTTCGGTGCTTCGAGT 61.874 55.000 2.66 0.00 40.42 4.18
727 754 1.140407 GATCGGTTCGGTGCTTCGAG 61.140 60.000 2.66 0.00 40.42 4.04
728 755 1.153901 GATCGGTTCGGTGCTTCGA 60.154 57.895 0.00 0.00 37.38 3.71
729 756 2.505498 CGATCGGTTCGGTGCTTCG 61.505 63.158 7.38 0.00 44.28 3.79
730 757 3.384927 CGATCGGTTCGGTGCTTC 58.615 61.111 7.38 0.00 44.28 3.86
749 776 1.182385 GGGCATTGGGTTCAACCGAA 61.182 55.000 6.46 6.46 40.26 4.30
750 777 1.605165 GGGCATTGGGTTCAACCGA 60.605 57.895 0.00 0.00 39.83 4.69
751 778 1.876497 CTGGGCATTGGGTTCAACCG 61.876 60.000 0.00 0.00 39.83 4.44
752 779 1.974543 CTGGGCATTGGGTTCAACC 59.025 57.895 0.00 0.00 35.48 3.77
753 780 1.293179 GCTGGGCATTGGGTTCAAC 59.707 57.895 0.00 0.00 35.48 3.18
754 781 1.912763 GGCTGGGCATTGGGTTCAA 60.913 57.895 0.00 0.00 37.28 2.69
755 782 2.283821 GGCTGGGCATTGGGTTCA 60.284 61.111 0.00 0.00 0.00 3.18
756 783 2.037847 AGGCTGGGCATTGGGTTC 59.962 61.111 0.00 0.00 0.00 3.62
757 784 2.172229 ATCAGGCTGGGCATTGGGTT 62.172 55.000 15.73 0.00 0.00 4.11
758 785 2.629498 ATCAGGCTGGGCATTGGGT 61.629 57.895 15.73 0.00 0.00 4.51
759 786 2.131709 CATCAGGCTGGGCATTGGG 61.132 63.158 15.73 0.00 0.00 4.12
760 787 2.792947 GCATCAGGCTGGGCATTGG 61.793 63.158 21.69 4.49 40.25 3.16
761 788 2.792947 GGCATCAGGCTGGGCATTG 61.793 63.158 25.68 13.40 44.01 2.82
762 789 2.443390 GGCATCAGGCTGGGCATT 60.443 61.111 25.68 2.59 44.01 3.56
763 790 4.534824 GGGCATCAGGCTGGGCAT 62.535 66.667 25.68 7.71 44.01 4.40
766 793 3.829226 ATGGGGCATCAGGCTGGG 61.829 66.667 15.73 8.68 44.01 4.45
767 794 2.367586 ATCATGGGGCATCAGGCTGG 62.368 60.000 15.73 0.00 44.01 4.85
768 795 1.153061 ATCATGGGGCATCAGGCTG 59.847 57.895 8.58 8.58 44.01 4.85
769 796 1.153061 CATCATGGGGCATCAGGCT 59.847 57.895 0.00 0.00 44.01 4.58
770 797 0.251653 ATCATCATGGGGCATCAGGC 60.252 55.000 0.00 0.00 43.74 4.85
771 798 2.574824 TCTATCATCATGGGGCATCAGG 59.425 50.000 0.00 0.00 0.00 3.86
772 799 3.607741 GTCTATCATCATGGGGCATCAG 58.392 50.000 0.00 0.00 0.00 2.90
773 800 2.306805 GGTCTATCATCATGGGGCATCA 59.693 50.000 0.00 0.00 0.00 3.07
774 801 2.306805 TGGTCTATCATCATGGGGCATC 59.693 50.000 0.00 0.00 0.00 3.91
775 802 2.040813 GTGGTCTATCATCATGGGGCAT 59.959 50.000 0.00 0.00 0.00 4.40
2310 2396 2.253403 TACTCGCTCTCTCCAGCCGA 62.253 60.000 0.00 0.00 35.84 5.54
2324 2410 0.532862 AATGGCGGCCTTGATACTCG 60.533 55.000 21.46 0.00 0.00 4.18
2478 2564 9.347240 AGATATGGAATTCAAATTCAGAACGAT 57.653 29.630 15.35 2.54 45.10 3.73
2507 2594 5.823209 GATGACAACCACATCATCATCAA 57.177 39.130 8.91 0.00 46.98 2.57
2520 2607 3.256631 ACCAAATCAGCAAGATGACAACC 59.743 43.478 0.00 0.00 36.96 3.77
2532 2619 6.076981 TGAGAGAAAAGAAACCAAATCAGC 57.923 37.500 0.00 0.00 0.00 4.26
2534 2621 7.520453 CGACATGAGAGAAAAGAAACCAAATCA 60.520 37.037 0.00 0.00 0.00 2.57
2535 2622 6.798959 CGACATGAGAGAAAAGAAACCAAATC 59.201 38.462 0.00 0.00 0.00 2.17
2536 2623 6.486657 TCGACATGAGAGAAAAGAAACCAAAT 59.513 34.615 0.00 0.00 0.00 2.32
2537 2624 5.820423 TCGACATGAGAGAAAAGAAACCAAA 59.180 36.000 0.00 0.00 0.00 3.28
2538 2625 5.364778 TCGACATGAGAGAAAAGAAACCAA 58.635 37.500 0.00 0.00 0.00 3.67
2539 2626 4.956085 TCGACATGAGAGAAAAGAAACCA 58.044 39.130 0.00 0.00 0.00 3.67
2540 2627 5.924475 TTCGACATGAGAGAAAAGAAACC 57.076 39.130 0.00 0.00 0.00 3.27
2541 2628 9.535270 CTTTATTCGACATGAGAGAAAAGAAAC 57.465 33.333 0.00 0.00 0.00 2.78
2545 2632 7.834068 TCCTTTATTCGACATGAGAGAAAAG 57.166 36.000 0.00 11.02 0.00 2.27
2546 2633 8.792830 ATTCCTTTATTCGACATGAGAGAAAA 57.207 30.769 0.00 2.89 0.00 2.29
2559 2646 5.448632 CCGGAAAACAGGATTCCTTTATTCG 60.449 44.000 1.28 0.74 43.43 3.34
2582 2669 0.034896 ATGTGACGGTCTCAACCACC 59.965 55.000 15.85 0.00 46.86 4.61
2583 2670 1.148310 CATGTGACGGTCTCAACCAC 58.852 55.000 15.85 3.04 46.86 4.16
2584 2671 1.044611 TCATGTGACGGTCTCAACCA 58.955 50.000 15.85 2.95 46.86 3.67
2585 2672 1.798813 GTTCATGTGACGGTCTCAACC 59.201 52.381 15.85 2.53 42.66 3.77
2586 2673 2.479837 TGTTCATGTGACGGTCTCAAC 58.520 47.619 15.85 10.71 0.00 3.18
2587 2674 2.900716 TGTTCATGTGACGGTCTCAA 57.099 45.000 15.85 0.00 0.00 3.02
2588 2675 2.547855 CCTTGTTCATGTGACGGTCTCA 60.548 50.000 14.46 14.46 0.00 3.27
2589 2676 2.069273 CCTTGTTCATGTGACGGTCTC 58.931 52.381 9.88 6.47 0.00 3.36
2590 2677 1.878102 GCCTTGTTCATGTGACGGTCT 60.878 52.381 9.88 0.00 0.00 3.85
2591 2678 0.517316 GCCTTGTTCATGTGACGGTC 59.483 55.000 0.00 0.00 0.00 4.79
2592 2679 0.889186 GGCCTTGTTCATGTGACGGT 60.889 55.000 0.00 0.00 0.00 4.83
2593 2680 0.888736 TGGCCTTGTTCATGTGACGG 60.889 55.000 3.32 0.00 0.00 4.79
2594 2681 0.518636 CTGGCCTTGTTCATGTGACG 59.481 55.000 3.32 0.00 0.00 4.35
2595 2682 0.242017 GCTGGCCTTGTTCATGTGAC 59.758 55.000 3.32 0.00 0.00 3.67
2596 2683 1.236616 CGCTGGCCTTGTTCATGTGA 61.237 55.000 3.32 0.00 0.00 3.58
2597 2684 1.210931 CGCTGGCCTTGTTCATGTG 59.789 57.895 3.32 0.00 0.00 3.21
2598 2685 2.629656 GCGCTGGCCTTGTTCATGT 61.630 57.895 3.32 0.00 0.00 3.21
2599 2686 2.144833 TTGCGCTGGCCTTGTTCATG 62.145 55.000 9.73 0.00 38.85 3.07
2600 2687 1.462731 TTTGCGCTGGCCTTGTTCAT 61.463 50.000 9.73 0.00 38.85 2.57
2601 2688 2.124060 TTTGCGCTGGCCTTGTTCA 61.124 52.632 9.73 0.00 38.85 3.18
2602 2689 1.661509 GTTTGCGCTGGCCTTGTTC 60.662 57.895 9.73 0.00 38.85 3.18
2603 2690 1.675720 AAGTTTGCGCTGGCCTTGTT 61.676 50.000 9.73 0.00 38.85 2.83
2604 2691 1.675720 AAAGTTTGCGCTGGCCTTGT 61.676 50.000 9.73 0.00 38.85 3.16
2605 2692 1.067916 AAAGTTTGCGCTGGCCTTG 59.932 52.632 9.73 0.00 38.85 3.61
2606 2693 1.067916 CAAAGTTTGCGCTGGCCTT 59.932 52.632 9.73 2.51 38.85 4.35
2607 2694 2.730094 CAAAGTTTGCGCTGGCCT 59.270 55.556 9.73 0.00 38.85 5.19
2608 2695 2.356194 CCAAAGTTTGCGCTGGCC 60.356 61.111 9.73 0.00 38.85 5.36
2609 2696 2.356194 CCCAAAGTTTGCGCTGGC 60.356 61.111 9.73 0.00 40.52 4.85
2717 2804 9.046296 CGTCCTTTAATAAAGCTGATGTTCTAT 57.954 33.333 7.22 0.00 37.18 1.98
2718 2805 7.011109 GCGTCCTTTAATAAAGCTGATGTTCTA 59.989 37.037 7.22 0.00 37.18 2.10
2719 2806 6.183360 GCGTCCTTTAATAAAGCTGATGTTCT 60.183 38.462 7.22 0.00 37.18 3.01
2720 2807 5.965918 GCGTCCTTTAATAAAGCTGATGTTC 59.034 40.000 7.22 0.00 37.18 3.18
2721 2808 5.163652 GGCGTCCTTTAATAAAGCTGATGTT 60.164 40.000 7.22 0.00 37.18 2.71
2722 2809 4.335594 GGCGTCCTTTAATAAAGCTGATGT 59.664 41.667 7.22 0.00 37.18 3.06
2723 2810 4.552767 CGGCGTCCTTTAATAAAGCTGATG 60.553 45.833 7.22 6.96 37.18 3.07
2724 2811 3.560068 CGGCGTCCTTTAATAAAGCTGAT 59.440 43.478 7.22 0.00 37.18 2.90
2725 2812 2.933906 CGGCGTCCTTTAATAAAGCTGA 59.066 45.455 7.22 0.00 37.18 4.26
2726 2813 2.933906 TCGGCGTCCTTTAATAAAGCTG 59.066 45.455 6.85 2.76 37.18 4.24
2727 2814 3.255969 TCGGCGTCCTTTAATAAAGCT 57.744 42.857 6.85 0.00 37.18 3.74
2728 2815 5.235831 AGTTATCGGCGTCCTTTAATAAAGC 59.764 40.000 6.85 0.00 37.18 3.51
2729 2816 6.646636 CAGTTATCGGCGTCCTTTAATAAAG 58.353 40.000 6.85 5.80 38.24 1.85
2730 2817 5.006941 GCAGTTATCGGCGTCCTTTAATAAA 59.993 40.000 6.85 0.00 0.00 1.40
2731 2818 4.508861 GCAGTTATCGGCGTCCTTTAATAA 59.491 41.667 6.85 0.00 0.00 1.40
2732 2819 4.053295 GCAGTTATCGGCGTCCTTTAATA 58.947 43.478 6.85 0.00 0.00 0.98
2733 2820 2.870411 GCAGTTATCGGCGTCCTTTAAT 59.130 45.455 6.85 0.00 0.00 1.40
2734 2821 2.273557 GCAGTTATCGGCGTCCTTTAA 58.726 47.619 6.85 0.00 0.00 1.52
2735 2822 1.472026 GGCAGTTATCGGCGTCCTTTA 60.472 52.381 6.85 0.00 35.70 1.85
2880 2969 4.430765 GATCGCCCGGACGTGTGT 62.431 66.667 10.78 0.00 0.00 3.72
2934 3023 4.344865 GTTGGAAGGCAGGCCGGA 62.345 66.667 5.05 0.00 41.95 5.14
2961 3050 2.359169 GGAGACGATGGTGGCAGGA 61.359 63.158 0.00 0.00 0.00 3.86
2968 3058 1.475392 CGAGAGGTAGGAGACGATGGT 60.475 57.143 0.00 0.00 0.00 3.55
3038 3128 1.143073 TGGTGAGGCGCTAGAGATCTA 59.857 52.381 7.64 0.00 0.00 1.98
3082 3186 2.093106 AGATCGACCTGTTAGCTCGTT 58.907 47.619 0.00 0.00 0.00 3.85
3129 3233 7.995289 TGCAATTTCACTTTTCTAGACAAAGA 58.005 30.769 22.96 10.24 35.54 2.52
3130 3234 8.131100 TCTGCAATTTCACTTTTCTAGACAAAG 58.869 33.333 18.16 18.16 37.29 2.77
3160 3265 0.108804 CTAGTCGCCATGTTCGTGGT 60.109 55.000 11.93 0.00 41.47 4.16
3228 3334 2.178580 CTGGTGTAATTTGGTGGGCAT 58.821 47.619 0.00 0.00 0.00 4.40
3240 3346 5.894298 AGAATATGGCAGATCTGGTGTAA 57.106 39.130 23.89 0.00 0.00 2.41
3282 3388 0.820871 GCACCAACACAACCCAGAAA 59.179 50.000 0.00 0.00 0.00 2.52
3293 3399 2.412870 CATCAACTACTCGCACCAACA 58.587 47.619 0.00 0.00 0.00 3.33
3328 3434 7.237982 TCTTTTCCCCTGATTTTAGTGATTCA 58.762 34.615 0.00 0.00 0.00 2.57
3350 3460 3.510459 CACCCAAATCCCTCCTTTTCTT 58.490 45.455 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.