Multiple sequence alignment - TraesCS1D01G127800

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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 TraesCS1D01G127800 chr1D 100.000 2849 0 0 1 2849 140786447 140783599 0.000000e+00 5262
1 TraesCS1D01G127800 chr1A 93.011 2547 82 37 104 2644 150005966 150008422 0.000000e+00 3629
2 TraesCS1D01G127800 chr1A 92.381 105 7 1 1 105 150005759 150005862 6.360000e-32 148
3 TraesCS1D01G127800 chr1B 96.761 1914 53 6 765 2672 197428133 197430043 0.000000e+00 3182
4 TraesCS1D01G127800 chr1B 94.714 700 31 4 1 699 197427445 197428139 0.000000e+00 1083
5 TraesCS1D01G127800 chr3D 78.493 637 115 17 1053 1678 59256674 59257299 5.720000e-107 398
6 TraesCS1D01G127800 chr3A 78.493 637 115 17 1053 1678 68120340 68120965 5.720000e-107 398
7 TraesCS1D01G127800 chr3B 78.179 637 117 17 1053 1678 94856272 94856897 1.240000e-103 387


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 TraesCS1D01G127800 chr1D 140783599 140786447 2848 True 5262.0 5262 100.0000 1 2849 1 chr1D.!!$R1 2848
1 TraesCS1D01G127800 chr1A 150005759 150008422 2663 False 1888.5 3629 92.6960 1 2644 2 chr1A.!!$F1 2643
2 TraesCS1D01G127800 chr1B 197427445 197430043 2598 False 2132.5 3182 95.7375 1 2672 2 chr1B.!!$F1 2671
3 TraesCS1D01G127800 chr3D 59256674 59257299 625 False 398.0 398 78.4930 1053 1678 1 chr3D.!!$F1 625
4 TraesCS1D01G127800 chr3A 68120340 68120965 625 False 398.0 398 78.4930 1053 1678 1 chr3A.!!$F1 625
5 TraesCS1D01G127800 chr3B 94856272 94856897 625 False 387.0 387 78.1790 1053 1678 1 chr3B.!!$F1 625

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
692 799 0.109723 TAAGCCGGCCTTTGTCTTGT 59.89 50.0 26.15 0.0 34.95 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2411 2608 0.442699 GTACAAGGCGTTACAGCTGC 59.557 55.0 15.27 0.0 37.29 5.25 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
30 31 8.702438 CCAAAACAAGCATTATTTTGTCTACTG 58.298 33.333 11.87 0.00 40.24 2.74
31 32 9.248291 CAAAACAAGCATTATTTTGTCTACTGT 57.752 29.630 0.00 0.00 38.13 3.55
89 90 3.508845 TTTCCTTGCTGCTACTTCCTT 57.491 42.857 0.00 0.00 0.00 3.36
270 376 4.408921 TGGATGGTTACTGGAAGGATACAG 59.591 45.833 0.00 0.00 39.30 2.74
289 395 2.089980 AGATCAAACCAGCTGCATGTC 58.910 47.619 8.66 7.04 0.00 3.06
308 414 5.330455 TGTCTGAATATGACACTCCAGTC 57.670 43.478 0.00 0.00 39.23 3.51
329 435 5.354234 AGTCTTGTGTGTTGAAAGTAAGTGG 59.646 40.000 0.00 0.00 0.00 4.00
349 455 4.219288 GTGGAGAAACTTGCATGAATCCTT 59.781 41.667 6.60 0.00 0.00 3.36
552 658 5.639506 TCTGTTTTATGTGCACTAGAAGAGC 59.360 40.000 19.41 2.33 32.26 4.09
557 663 1.136872 GTGCACTAGAAGAGCTCGCG 61.137 60.000 10.32 0.00 32.86 5.87
632 739 4.072131 GTGCAATGGTAGTTGAAGAGGAA 58.928 43.478 0.00 0.00 0.00 3.36
635 742 4.083271 GCAATGGTAGTTGAAGAGGAACAC 60.083 45.833 0.00 0.00 0.00 3.32
653 760 1.531149 CACAAGGGTAAGCGTCACAAG 59.469 52.381 0.00 0.00 0.00 3.16
688 795 1.530323 TTCTTAAGCCGGCCTTTGTC 58.470 50.000 26.15 0.00 34.95 3.18
692 799 0.109723 TAAGCCGGCCTTTGTCTTGT 59.890 50.000 26.15 0.00 34.95 3.16
693 800 0.755327 AAGCCGGCCTTTGTCTTGTT 60.755 50.000 26.15 3.11 0.00 2.83
694 801 0.109723 AGCCGGCCTTTGTCTTGTTA 59.890 50.000 26.15 0.00 0.00 2.41
695 802 1.173913 GCCGGCCTTTGTCTTGTTAT 58.826 50.000 18.11 0.00 0.00 1.89
696 803 1.544246 GCCGGCCTTTGTCTTGTTATT 59.456 47.619 18.11 0.00 0.00 1.40
697 804 2.750712 GCCGGCCTTTGTCTTGTTATTA 59.249 45.455 18.11 0.00 0.00 0.98
698 805 3.181500 GCCGGCCTTTGTCTTGTTATTAG 60.181 47.826 18.11 0.00 0.00 1.73
699 806 4.007659 CCGGCCTTTGTCTTGTTATTAGT 58.992 43.478 0.00 0.00 0.00 2.24
700 807 5.180271 CCGGCCTTTGTCTTGTTATTAGTA 58.820 41.667 0.00 0.00 0.00 1.82
701 808 5.820947 CCGGCCTTTGTCTTGTTATTAGTAT 59.179 40.000 0.00 0.00 0.00 2.12
702 809 6.987992 CCGGCCTTTGTCTTGTTATTAGTATA 59.012 38.462 0.00 0.00 0.00 1.47
703 810 7.496591 CCGGCCTTTGTCTTGTTATTAGTATAA 59.503 37.037 0.00 0.00 0.00 0.98
704 811 9.052759 CGGCCTTTGTCTTGTTATTAGTATAAT 57.947 33.333 0.00 0.00 0.00 1.28
729 836 6.801539 ATTACAGTACACACACAGAAATGG 57.198 37.500 0.00 0.00 0.00 3.16
730 837 4.415881 ACAGTACACACACAGAAATGGA 57.584 40.909 0.00 0.00 0.00 3.41
731 838 4.127171 ACAGTACACACACAGAAATGGAC 58.873 43.478 0.00 0.00 0.00 4.02
732 839 3.498397 CAGTACACACACAGAAATGGACC 59.502 47.826 0.00 0.00 0.00 4.46
733 840 2.727123 ACACACACAGAAATGGACCA 57.273 45.000 0.00 0.00 0.00 4.02
734 841 3.011566 ACACACACAGAAATGGACCAA 57.988 42.857 0.00 0.00 0.00 3.67
735 842 2.687935 ACACACACAGAAATGGACCAAC 59.312 45.455 0.00 0.00 0.00 3.77
736 843 2.951642 CACACACAGAAATGGACCAACT 59.048 45.455 0.00 0.00 0.00 3.16
737 844 4.133820 CACACACAGAAATGGACCAACTA 58.866 43.478 0.00 0.00 0.00 2.24
738 845 4.214119 CACACACAGAAATGGACCAACTAG 59.786 45.833 0.00 0.00 0.00 2.57
739 846 4.141482 ACACACAGAAATGGACCAACTAGT 60.141 41.667 0.00 0.00 0.00 2.57
740 847 5.071250 ACACACAGAAATGGACCAACTAGTA 59.929 40.000 0.00 0.00 0.00 1.82
741 848 5.639506 CACACAGAAATGGACCAACTAGTAG 59.360 44.000 0.00 0.00 0.00 2.57
742 849 5.307196 ACACAGAAATGGACCAACTAGTAGT 59.693 40.000 0.00 0.00 0.00 2.73
743 850 5.869888 CACAGAAATGGACCAACTAGTAGTC 59.130 44.000 14.70 14.70 0.00 2.59
744 851 5.103000 CAGAAATGGACCAACTAGTAGTCG 58.897 45.833 15.93 0.00 0.00 4.18
745 852 3.521947 AATGGACCAACTAGTAGTCGC 57.478 47.619 15.93 11.23 0.00 5.19
746 853 1.913778 TGGACCAACTAGTAGTCGCA 58.086 50.000 15.93 12.99 0.00 5.10
747 854 1.542915 TGGACCAACTAGTAGTCGCAC 59.457 52.381 15.93 6.76 0.00 5.34
748 855 1.817447 GGACCAACTAGTAGTCGCACT 59.183 52.381 15.93 0.00 0.00 4.40
749 856 3.012518 GGACCAACTAGTAGTCGCACTA 58.987 50.000 15.93 0.00 0.00 2.74
757 864 1.694639 GTAGTCGCACTACGCAAAGT 58.305 50.000 9.64 0.00 41.27 2.66
758 865 2.855180 GTAGTCGCACTACGCAAAGTA 58.145 47.619 9.64 0.00 41.27 2.24
759 866 1.694639 AGTCGCACTACGCAAAGTAC 58.305 50.000 0.00 0.00 42.60 2.73
760 867 0.712222 GTCGCACTACGCAAAGTACC 59.288 55.000 0.00 0.00 42.60 3.34
761 868 0.314618 TCGCACTACGCAAAGTACCA 59.685 50.000 0.00 0.00 42.60 3.25
762 869 1.141645 CGCACTACGCAAAGTACCAA 58.858 50.000 0.00 0.00 42.60 3.67
763 870 1.527736 CGCACTACGCAAAGTACCAAA 59.472 47.619 0.00 0.00 42.60 3.28
854 1035 1.435168 ACACTTTCTCTCTCCCCTCCT 59.565 52.381 0.00 0.00 0.00 3.69
856 1037 1.435168 ACTTTCTCTCTCCCCTCCTGT 59.565 52.381 0.00 0.00 0.00 4.00
894 1075 3.748048 TCTCGCTCAACAAAATTCCTCAG 59.252 43.478 0.00 0.00 0.00 3.35
1095 1280 1.526917 GCCCAAGCCGCAGATGTAT 60.527 57.895 0.00 0.00 0.00 2.29
1349 1540 1.753078 TCCTCACCGACTCCATCCG 60.753 63.158 0.00 0.00 0.00 4.18
1536 1727 1.511305 CGCTGGTGTCACCGTAGAT 59.489 57.895 17.27 0.00 42.58 1.98
1543 1734 0.613572 TGTCACCGTAGATCCCAGCA 60.614 55.000 0.00 0.00 0.00 4.41
1635 1826 2.343758 GTCGGCAGCCTCAAGACA 59.656 61.111 10.54 0.00 32.57 3.41
2162 2354 5.784390 ACTGTATATCATCCAGGCTCATCTT 59.216 40.000 0.00 0.00 0.00 2.40
2378 2575 2.006169 CTTGGTTTTGGTTGTTGGTGC 58.994 47.619 0.00 0.00 0.00 5.01
2411 2608 1.797211 GACGTGAGGATAGGGGCTCG 61.797 65.000 0.00 0.00 0.00 5.03
2448 2645 1.609208 ACTTGAGCGCCAAAGATTGT 58.391 45.000 22.45 9.69 33.76 2.71
2480 2677 0.833834 AGTGCTGGTGCTACTGGAGT 60.834 55.000 0.00 0.00 40.48 3.85
2499 2696 6.585416 TGGAGTAATTAACTACCGGGATTTC 58.415 40.000 6.32 0.00 38.42 2.17
2503 2700 8.087303 AGTAATTAACTACCGGGATTTCTCTT 57.913 34.615 6.32 0.00 36.36 2.85
2648 2845 4.091509 CACGGGATACAAGTTTCTTCGAAG 59.908 45.833 19.35 19.35 39.74 3.79
2652 2849 4.142881 GGATACAAGTTTCTTCGAAGCACC 60.143 45.833 20.56 1.72 0.00 5.01
2663 2860 1.601419 CGAAGCACCGGGGAGACTAA 61.601 60.000 8.67 0.00 0.00 2.24
2667 2864 1.807886 CACCGGGGAGACTAAGACG 59.192 63.158 6.32 0.00 0.00 4.18
2668 2865 0.964358 CACCGGGGAGACTAAGACGT 60.964 60.000 6.32 0.00 0.00 4.34
2669 2866 0.679321 ACCGGGGAGACTAAGACGTC 60.679 60.000 7.70 7.70 0.00 4.34
2671 2868 1.461559 CGGGGAGACTAAGACGTCTT 58.538 55.000 31.70 31.70 43.91 3.01
2672 2869 1.817447 CGGGGAGACTAAGACGTCTTT 59.183 52.381 33.82 18.74 43.91 2.52
2673 2870 2.230750 CGGGGAGACTAAGACGTCTTTT 59.769 50.000 33.82 21.75 43.91 2.27
2674 2871 3.586892 GGGGAGACTAAGACGTCTTTTG 58.413 50.000 33.82 26.66 43.91 2.44
2675 2872 3.006644 GGGGAGACTAAGACGTCTTTTGT 59.993 47.826 33.82 29.25 43.91 2.83
2676 2873 4.502777 GGGGAGACTAAGACGTCTTTTGTT 60.503 45.833 33.82 20.80 43.91 2.83
2677 2874 4.685165 GGGAGACTAAGACGTCTTTTGTTC 59.315 45.833 33.82 25.27 43.91 3.18
2678 2875 5.287226 GGAGACTAAGACGTCTTTTGTTCA 58.713 41.667 33.82 15.28 43.91 3.18
2679 2876 5.402867 GGAGACTAAGACGTCTTTTGTTCAG 59.597 44.000 33.82 24.85 43.91 3.02
2680 2877 6.145338 AGACTAAGACGTCTTTTGTTCAGA 57.855 37.500 33.82 13.85 41.27 3.27
2681 2878 6.750148 AGACTAAGACGTCTTTTGTTCAGAT 58.250 36.000 33.82 15.49 41.27 2.90
2682 2879 7.210873 AGACTAAGACGTCTTTTGTTCAGATT 58.789 34.615 33.82 14.84 41.27 2.40
2683 2880 7.711339 AGACTAAGACGTCTTTTGTTCAGATTT 59.289 33.333 33.82 9.97 41.27 2.17
2684 2881 8.209917 ACTAAGACGTCTTTTGTTCAGATTTT 57.790 30.769 33.82 8.90 37.40 1.82
2685 2882 8.122952 ACTAAGACGTCTTTTGTTCAGATTTTG 58.877 33.333 33.82 10.08 37.40 2.44
2686 2883 6.436843 AGACGTCTTTTGTTCAGATTTTGT 57.563 33.333 13.58 0.00 0.00 2.83
2687 2884 6.487103 AGACGTCTTTTGTTCAGATTTTGTC 58.513 36.000 13.58 0.00 0.00 3.18
2688 2885 5.578776 ACGTCTTTTGTTCAGATTTTGTCC 58.421 37.500 0.00 0.00 0.00 4.02
2689 2886 5.124776 ACGTCTTTTGTTCAGATTTTGTCCA 59.875 36.000 0.00 0.00 0.00 4.02
2690 2887 6.183360 ACGTCTTTTGTTCAGATTTTGTCCAT 60.183 34.615 0.00 0.00 0.00 3.41
2691 2888 6.697019 CGTCTTTTGTTCAGATTTTGTCCATT 59.303 34.615 0.00 0.00 0.00 3.16
2692 2889 7.222611 CGTCTTTTGTTCAGATTTTGTCCATTT 59.777 33.333 0.00 0.00 0.00 2.32
2693 2890 8.330302 GTCTTTTGTTCAGATTTTGTCCATTTG 58.670 33.333 0.00 0.00 0.00 2.32
2694 2891 8.256605 TCTTTTGTTCAGATTTTGTCCATTTGA 58.743 29.630 0.00 0.00 0.00 2.69
2695 2892 8.422973 TTTTGTTCAGATTTTGTCCATTTGAG 57.577 30.769 0.00 0.00 0.00 3.02
2696 2893 6.713762 TGTTCAGATTTTGTCCATTTGAGT 57.286 33.333 0.00 0.00 0.00 3.41
2697 2894 7.111247 TGTTCAGATTTTGTCCATTTGAGTT 57.889 32.000 0.00 0.00 0.00 3.01
2698 2895 6.979817 TGTTCAGATTTTGTCCATTTGAGTTG 59.020 34.615 0.00 0.00 0.00 3.16
2699 2896 6.713762 TCAGATTTTGTCCATTTGAGTTGT 57.286 33.333 0.00 0.00 0.00 3.32
2700 2897 7.111247 TCAGATTTTGTCCATTTGAGTTGTT 57.889 32.000 0.00 0.00 0.00 2.83
2701 2898 7.555087 TCAGATTTTGTCCATTTGAGTTGTTT 58.445 30.769 0.00 0.00 0.00 2.83
2702 2899 8.690884 TCAGATTTTGTCCATTTGAGTTGTTTA 58.309 29.630 0.00 0.00 0.00 2.01
2703 2900 9.480053 CAGATTTTGTCCATTTGAGTTGTTTAT 57.520 29.630 0.00 0.00 0.00 1.40
2707 2904 9.959749 TTTTGTCCATTTGAGTTGTTTATAGAC 57.040 29.630 0.00 0.00 0.00 2.59
2708 2905 7.359262 TGTCCATTTGAGTTGTTTATAGACG 57.641 36.000 0.00 0.00 0.00 4.18
2709 2906 6.128391 TGTCCATTTGAGTTGTTTATAGACGC 60.128 38.462 0.00 0.00 0.00 5.19
2710 2907 5.353123 TCCATTTGAGTTGTTTATAGACGCC 59.647 40.000 0.00 0.00 0.00 5.68
2711 2908 4.914312 TTTGAGTTGTTTATAGACGCCG 57.086 40.909 0.00 0.00 0.00 6.46
2712 2909 2.264813 TGAGTTGTTTATAGACGCCGC 58.735 47.619 0.00 0.00 0.00 6.53
2713 2910 1.254570 GAGTTGTTTATAGACGCCGCG 59.745 52.381 12.14 12.14 0.00 6.46
2714 2911 0.994263 GTTGTTTATAGACGCCGCGT 59.006 50.000 20.31 20.31 45.10 6.01
2723 2920 4.041917 ACGCCGCGTCCGACTTTA 62.042 61.111 13.85 0.00 33.69 1.85
2724 2921 2.581409 CGCCGCGTCCGACTTTAT 60.581 61.111 4.92 0.00 36.29 1.40
2725 2922 2.574222 CGCCGCGTCCGACTTTATC 61.574 63.158 4.92 0.00 36.29 1.75
2726 2923 1.226888 GCCGCGTCCGACTTTATCT 60.227 57.895 4.92 0.00 36.29 1.98
2727 2924 1.480219 GCCGCGTCCGACTTTATCTG 61.480 60.000 4.92 0.00 36.29 2.90
2728 2925 0.179145 CCGCGTCCGACTTTATCTGT 60.179 55.000 4.92 0.00 36.29 3.41
2729 2926 1.625616 CGCGTCCGACTTTATCTGTT 58.374 50.000 0.00 0.00 36.29 3.16
2730 2927 2.478370 CCGCGTCCGACTTTATCTGTTA 60.478 50.000 4.92 0.00 36.29 2.41
2731 2928 3.173599 CGCGTCCGACTTTATCTGTTAA 58.826 45.455 0.00 0.00 36.29 2.01
2732 2929 3.609373 CGCGTCCGACTTTATCTGTTAAA 59.391 43.478 0.00 0.00 36.29 1.52
2733 2930 4.266976 CGCGTCCGACTTTATCTGTTAAAT 59.733 41.667 0.00 0.00 36.29 1.40
2734 2931 5.220340 CGCGTCCGACTTTATCTGTTAAATT 60.220 40.000 0.00 0.00 36.29 1.82
2735 2932 6.540205 GCGTCCGACTTTATCTGTTAAATTT 58.460 36.000 0.00 0.00 0.00 1.82
2736 2933 6.464834 GCGTCCGACTTTATCTGTTAAATTTG 59.535 38.462 0.00 0.00 0.00 2.32
2737 2934 7.515643 CGTCCGACTTTATCTGTTAAATTTGT 58.484 34.615 0.00 0.00 0.00 2.83
2738 2935 7.477422 CGTCCGACTTTATCTGTTAAATTTGTG 59.523 37.037 0.00 0.00 0.00 3.33
2739 2936 8.287503 GTCCGACTTTATCTGTTAAATTTGTGT 58.712 33.333 0.00 0.00 0.00 3.72
2740 2937 8.842280 TCCGACTTTATCTGTTAAATTTGTGTT 58.158 29.630 0.00 0.00 0.00 3.32
2741 2938 8.901748 CCGACTTTATCTGTTAAATTTGTGTTG 58.098 33.333 0.00 0.00 0.00 3.33
2742 2939 8.901748 CGACTTTATCTGTTAAATTTGTGTTGG 58.098 33.333 0.00 0.00 0.00 3.77
2743 2940 9.744468 GACTTTATCTGTTAAATTTGTGTTGGT 57.256 29.630 0.00 0.00 0.00 3.67
2744 2941 9.744468 ACTTTATCTGTTAAATTTGTGTTGGTC 57.256 29.630 0.00 0.00 0.00 4.02
2745 2942 9.965824 CTTTATCTGTTAAATTTGTGTTGGTCT 57.034 29.630 0.00 0.00 0.00 3.85
2746 2943 9.743057 TTTATCTGTTAAATTTGTGTTGGTCTG 57.257 29.630 0.00 0.00 0.00 3.51
2747 2944 5.587289 TCTGTTAAATTTGTGTTGGTCTGC 58.413 37.500 0.00 0.00 0.00 4.26
2748 2945 5.359576 TCTGTTAAATTTGTGTTGGTCTGCT 59.640 36.000 0.00 0.00 0.00 4.24
2749 2946 5.587289 TGTTAAATTTGTGTTGGTCTGCTC 58.413 37.500 0.00 0.00 0.00 4.26
2750 2947 5.126222 TGTTAAATTTGTGTTGGTCTGCTCA 59.874 36.000 0.00 0.00 0.00 4.26
2751 2948 4.734398 AAATTTGTGTTGGTCTGCTCAA 57.266 36.364 0.00 0.00 0.00 3.02
2752 2949 3.715628 ATTTGTGTTGGTCTGCTCAAC 57.284 42.857 0.00 0.00 43.29 3.18
2753 2950 1.388547 TTGTGTTGGTCTGCTCAACC 58.611 50.000 0.00 3.84 42.58 3.77
2754 2951 0.813610 TGTGTTGGTCTGCTCAACCG 60.814 55.000 0.00 0.00 42.58 4.44
2755 2952 0.531974 GTGTTGGTCTGCTCAACCGA 60.532 55.000 0.00 0.97 42.58 4.69
2756 2953 2.235546 GTTGGTCTGCTCAACCGAC 58.764 57.895 7.17 7.17 42.48 4.79
2757 2954 1.070786 TTGGTCTGCTCAACCGACC 59.929 57.895 0.00 0.00 45.76 4.79
2758 2955 2.432628 GGTCTGCTCAACCGACCG 60.433 66.667 0.00 0.00 38.00 4.79
2759 2956 2.338984 GTCTGCTCAACCGACCGT 59.661 61.111 0.00 0.00 0.00 4.83
2760 2957 1.733399 GTCTGCTCAACCGACCGTC 60.733 63.158 0.00 0.00 0.00 4.79
2761 2958 2.432628 CTGCTCAACCGACCGTCC 60.433 66.667 0.00 0.00 0.00 4.79
2762 2959 3.934391 CTGCTCAACCGACCGTCCC 62.934 68.421 0.00 0.00 0.00 4.46
2763 2960 3.998672 GCTCAACCGACCGTCCCA 61.999 66.667 0.00 0.00 0.00 4.37
2764 2961 2.978824 CTCAACCGACCGTCCCAT 59.021 61.111 0.00 0.00 0.00 4.00
2765 2962 1.295423 CTCAACCGACCGTCCCATT 59.705 57.895 0.00 0.00 0.00 3.16
2766 2963 0.321298 CTCAACCGACCGTCCCATTT 60.321 55.000 0.00 0.00 0.00 2.32
2767 2964 0.975135 TCAACCGACCGTCCCATTTA 59.025 50.000 0.00 0.00 0.00 1.40
2768 2965 1.347050 TCAACCGACCGTCCCATTTAA 59.653 47.619 0.00 0.00 0.00 1.52
2769 2966 2.027007 TCAACCGACCGTCCCATTTAAT 60.027 45.455 0.00 0.00 0.00 1.40
2770 2967 2.320745 ACCGACCGTCCCATTTAATC 57.679 50.000 0.00 0.00 0.00 1.75
2771 2968 1.134310 ACCGACCGTCCCATTTAATCC 60.134 52.381 0.00 0.00 0.00 3.01
2772 2969 1.214367 CGACCGTCCCATTTAATCCG 58.786 55.000 0.00 0.00 0.00 4.18
2773 2970 0.942252 GACCGTCCCATTTAATCCGC 59.058 55.000 0.00 0.00 0.00 5.54
2774 2971 0.464916 ACCGTCCCATTTAATCCGCC 60.465 55.000 0.00 0.00 0.00 6.13
2775 2972 0.179029 CCGTCCCATTTAATCCGCCT 60.179 55.000 0.00 0.00 0.00 5.52
2776 2973 0.944386 CGTCCCATTTAATCCGCCTG 59.056 55.000 0.00 0.00 0.00 4.85
2777 2974 1.318576 GTCCCATTTAATCCGCCTGG 58.681 55.000 0.00 0.00 0.00 4.45
2778 2975 0.467290 TCCCATTTAATCCGCCTGGC 60.467 55.000 9.11 9.11 34.14 4.85
2779 2976 1.463553 CCCATTTAATCCGCCTGGCC 61.464 60.000 14.12 0.00 34.14 5.36
2780 2977 0.754957 CCATTTAATCCGCCTGGCCA 60.755 55.000 14.12 4.71 34.14 5.36
2781 2978 1.331214 CATTTAATCCGCCTGGCCAT 58.669 50.000 14.12 2.17 34.14 4.40
2782 2979 2.513753 CATTTAATCCGCCTGGCCATA 58.486 47.619 14.12 0.00 34.14 2.74
2783 2980 2.738587 TTTAATCCGCCTGGCCATAA 57.261 45.000 14.12 0.00 34.14 1.90
2784 2981 2.969821 TTAATCCGCCTGGCCATAAT 57.030 45.000 14.12 0.00 34.14 1.28
2785 2982 2.969821 TAATCCGCCTGGCCATAATT 57.030 45.000 14.12 9.92 34.14 1.40
2786 2983 2.086610 AATCCGCCTGGCCATAATTT 57.913 45.000 14.12 0.00 34.14 1.82
2787 2984 2.086610 ATCCGCCTGGCCATAATTTT 57.913 45.000 14.12 0.00 34.14 1.82
2788 2985 1.859302 TCCGCCTGGCCATAATTTTT 58.141 45.000 14.12 0.00 34.14 1.94
2814 3011 8.604640 TGCAAGAATGAAAATGCAAAAATAGA 57.395 26.923 0.00 0.00 45.04 1.98
2815 3012 9.053840 TGCAAGAATGAAAATGCAAAAATAGAA 57.946 25.926 0.00 0.00 45.04 2.10
2820 3017 9.281075 GAATGAAAATGCAAAAATAGAATTGGC 57.719 29.630 0.00 0.00 0.00 4.52
2821 3018 7.741027 TGAAAATGCAAAAATAGAATTGGCA 57.259 28.000 0.00 0.00 0.00 4.92
2822 3019 8.162878 TGAAAATGCAAAAATAGAATTGGCAA 57.837 26.923 0.68 0.68 0.00 4.52
2823 3020 8.794553 TGAAAATGCAAAAATAGAATTGGCAAT 58.205 25.926 6.96 6.96 0.00 3.56
2826 3023 9.452287 AAATGCAAAAATAGAATTGGCAATAGT 57.548 25.926 14.05 6.32 0.00 2.12
2827 3024 9.452287 AATGCAAAAATAGAATTGGCAATAGTT 57.548 25.926 14.05 0.49 0.00 2.24
2828 3025 8.477984 TGCAAAAATAGAATTGGCAATAGTTC 57.522 30.769 14.05 8.52 0.00 3.01
2829 3026 8.093307 TGCAAAAATAGAATTGGCAATAGTTCA 58.907 29.630 14.05 0.67 0.00 3.18
2830 3027 9.101655 GCAAAAATAGAATTGGCAATAGTTCAT 57.898 29.630 14.05 0.00 0.00 2.57
2832 3029 8.652810 AAAATAGAATTGGCAATAGTTCATGC 57.347 30.769 14.05 0.00 41.82 4.06
2833 3030 7.592885 AATAGAATTGGCAATAGTTCATGCT 57.407 32.000 14.05 0.00 42.20 3.79
2834 3031 5.258456 AGAATTGGCAATAGTTCATGCTG 57.742 39.130 14.05 0.00 42.20 4.41
2835 3032 4.951715 AGAATTGGCAATAGTTCATGCTGA 59.048 37.500 14.05 0.00 42.20 4.26
2836 3033 4.644103 ATTGGCAATAGTTCATGCTGAC 57.356 40.909 11.81 0.00 42.20 3.51
2837 3034 2.009051 TGGCAATAGTTCATGCTGACG 58.991 47.619 0.00 0.00 42.20 4.35
2838 3035 2.279741 GGCAATAGTTCATGCTGACGA 58.720 47.619 0.00 0.00 42.20 4.20
2839 3036 2.874701 GGCAATAGTTCATGCTGACGAT 59.125 45.455 0.00 0.00 42.20 3.73
2840 3037 3.303593 GGCAATAGTTCATGCTGACGATG 60.304 47.826 0.00 0.00 42.20 3.84
2841 3038 3.303593 GCAATAGTTCATGCTGACGATGG 60.304 47.826 0.00 0.00 39.46 3.51
2842 3039 3.827008 ATAGTTCATGCTGACGATGGT 57.173 42.857 0.00 0.00 0.00 3.55
2843 3040 1.730501 AGTTCATGCTGACGATGGTG 58.269 50.000 0.00 0.00 0.00 4.17
2844 3041 0.097674 GTTCATGCTGACGATGGTGC 59.902 55.000 0.00 0.00 0.00 5.01
2845 3042 0.036105 TTCATGCTGACGATGGTGCT 60.036 50.000 0.00 0.00 0.00 4.40
2846 3043 0.823460 TCATGCTGACGATGGTGCTA 59.177 50.000 0.00 0.00 0.00 3.49
2847 3044 1.202452 TCATGCTGACGATGGTGCTAG 60.202 52.381 0.00 0.00 0.00 3.42
2848 3045 0.531532 ATGCTGACGATGGTGCTAGC 60.532 55.000 8.10 8.10 0.00 3.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 3.508845 AAGGAAGTAGCAGCAAGGAAA 57.491 42.857 0.00 0.00 0.00 3.13
89 90 6.385443 AGTGGACTATAGATCCCAAGATGAA 58.615 40.000 6.78 0.00 35.12 2.57
178 284 1.135944 GCTTTGAGCCGCTTTCAGTAC 60.136 52.381 0.00 0.00 34.48 2.73
179 285 1.156736 GCTTTGAGCCGCTTTCAGTA 58.843 50.000 0.00 0.00 34.48 2.74
180 286 0.819259 TGCTTTGAGCCGCTTTCAGT 60.819 50.000 0.00 0.00 41.51 3.41
270 376 2.089980 AGACATGCAGCTGGTTTGATC 58.910 47.619 17.12 0.00 0.00 2.92
289 395 5.579904 CACAAGACTGGAGTGTCATATTCAG 59.420 44.000 0.00 0.00 39.27 3.02
308 414 5.584649 TCTCCACTTACTTTCAACACACAAG 59.415 40.000 0.00 0.00 0.00 3.16
349 455 8.726988 TCAATGTATATGAGATAATCGTCGTGA 58.273 33.333 0.00 0.00 0.00 4.35
632 739 0.466543 TGTGACGCTTACCCTTGTGT 59.533 50.000 0.00 0.00 0.00 3.72
635 742 1.798813 GTCTTGTGACGCTTACCCTTG 59.201 52.381 0.00 0.00 33.15 3.61
653 760 6.018262 GGCTTAAGAAATTTGGTGGTTTTGTC 60.018 38.462 6.67 0.00 0.00 3.18
703 810 8.946085 CCATTTCTGTGTGTGTACTGTAATAAT 58.054 33.333 0.00 0.00 0.00 1.28
704 811 8.151596 TCCATTTCTGTGTGTGTACTGTAATAA 58.848 33.333 0.00 0.00 0.00 1.40
705 812 7.601130 GTCCATTTCTGTGTGTGTACTGTAATA 59.399 37.037 0.00 0.00 0.00 0.98
706 813 6.426937 GTCCATTTCTGTGTGTGTACTGTAAT 59.573 38.462 0.00 0.00 0.00 1.89
707 814 5.756347 GTCCATTTCTGTGTGTGTACTGTAA 59.244 40.000 0.00 0.00 0.00 2.41
708 815 5.294356 GTCCATTTCTGTGTGTGTACTGTA 58.706 41.667 0.00 0.00 0.00 2.74
709 816 4.127171 GTCCATTTCTGTGTGTGTACTGT 58.873 43.478 0.00 0.00 0.00 3.55
710 817 3.498397 GGTCCATTTCTGTGTGTGTACTG 59.502 47.826 0.00 0.00 0.00 2.74
711 818 3.135712 TGGTCCATTTCTGTGTGTGTACT 59.864 43.478 0.00 0.00 0.00 2.73
712 819 3.472652 TGGTCCATTTCTGTGTGTGTAC 58.527 45.455 0.00 0.00 0.00 2.90
713 820 3.847671 TGGTCCATTTCTGTGTGTGTA 57.152 42.857 0.00 0.00 0.00 2.90
714 821 2.687935 GTTGGTCCATTTCTGTGTGTGT 59.312 45.455 0.00 0.00 0.00 3.72
715 822 2.951642 AGTTGGTCCATTTCTGTGTGTG 59.048 45.455 0.00 0.00 0.00 3.82
716 823 3.297134 AGTTGGTCCATTTCTGTGTGT 57.703 42.857 0.00 0.00 0.00 3.72
717 824 4.389374 ACTAGTTGGTCCATTTCTGTGTG 58.611 43.478 0.00 0.00 0.00 3.82
718 825 4.706842 ACTAGTTGGTCCATTTCTGTGT 57.293 40.909 0.00 0.00 0.00 3.72
719 826 5.794894 ACTACTAGTTGGTCCATTTCTGTG 58.205 41.667 0.00 0.00 0.00 3.66
720 827 5.336531 CGACTACTAGTTGGTCCATTTCTGT 60.337 44.000 17.34 0.00 0.00 3.41
721 828 5.103000 CGACTACTAGTTGGTCCATTTCTG 58.897 45.833 17.34 4.28 0.00 3.02
722 829 4.381718 GCGACTACTAGTTGGTCCATTTCT 60.382 45.833 17.34 0.00 30.15 2.52
723 830 3.864003 GCGACTACTAGTTGGTCCATTTC 59.136 47.826 17.34 2.38 30.15 2.17
724 831 3.259876 TGCGACTACTAGTTGGTCCATTT 59.740 43.478 17.34 0.00 30.15 2.32
725 832 2.829720 TGCGACTACTAGTTGGTCCATT 59.170 45.455 17.34 0.00 30.15 3.16
726 833 2.165845 GTGCGACTACTAGTTGGTCCAT 59.834 50.000 17.34 0.00 30.15 3.41
727 834 1.542915 GTGCGACTACTAGTTGGTCCA 59.457 52.381 17.34 14.30 30.15 4.02
728 835 1.817447 AGTGCGACTACTAGTTGGTCC 59.183 52.381 17.34 12.68 30.15 4.46
729 836 3.484886 CGTAGTGCGACTACTAGTTGGTC 60.485 52.174 18.19 9.45 46.68 4.02
730 837 2.417933 CGTAGTGCGACTACTAGTTGGT 59.582 50.000 18.19 0.18 46.68 3.67
731 838 2.790468 GCGTAGTGCGACTACTAGTTGG 60.790 54.545 18.19 0.00 46.68 3.77
732 839 2.159612 TGCGTAGTGCGACTACTAGTTG 60.160 50.000 18.19 0.59 46.68 3.16
733 840 2.079158 TGCGTAGTGCGACTACTAGTT 58.921 47.619 18.19 0.00 46.68 2.24
734 841 1.730501 TGCGTAGTGCGACTACTAGT 58.269 50.000 18.19 0.00 46.68 2.57
735 842 2.819422 TTGCGTAGTGCGACTACTAG 57.181 50.000 18.19 9.37 46.68 2.57
736 843 2.485426 ACTTTGCGTAGTGCGACTACTA 59.515 45.455 18.19 6.95 46.68 1.82
737 844 1.268899 ACTTTGCGTAGTGCGACTACT 59.731 47.619 18.19 7.74 46.68 2.57
744 851 3.824414 ATTTGGTACTTTGCGTAGTGC 57.176 42.857 1.12 0.00 46.70 4.40
745 852 8.120465 CCTAATAATTTGGTACTTTGCGTAGTG 58.880 37.037 1.12 0.00 0.00 2.74
746 853 7.825761 ACCTAATAATTTGGTACTTTGCGTAGT 59.174 33.333 0.00 0.00 31.50 2.73
747 854 8.120465 CACCTAATAATTTGGTACTTTGCGTAG 58.880 37.037 0.00 0.00 32.13 3.51
748 855 7.823310 TCACCTAATAATTTGGTACTTTGCGTA 59.177 33.333 0.00 0.00 32.13 4.42
749 856 6.655848 TCACCTAATAATTTGGTACTTTGCGT 59.344 34.615 0.00 0.00 32.13 5.24
750 857 7.079182 TCACCTAATAATTTGGTACTTTGCG 57.921 36.000 0.00 0.00 32.13 4.85
751 858 7.122204 ACCTCACCTAATAATTTGGTACTTTGC 59.878 37.037 0.00 0.00 32.13 3.68
752 859 8.575649 ACCTCACCTAATAATTTGGTACTTTG 57.424 34.615 0.00 0.00 32.13 2.77
755 862 9.901172 CTTTACCTCACCTAATAATTTGGTACT 57.099 33.333 0.00 0.00 32.13 2.73
756 863 8.618677 GCTTTACCTCACCTAATAATTTGGTAC 58.381 37.037 0.00 0.00 32.13 3.34
757 864 7.776500 GGCTTTACCTCACCTAATAATTTGGTA 59.224 37.037 0.00 0.00 34.51 3.25
758 865 6.605995 GGCTTTACCTCACCTAATAATTTGGT 59.394 38.462 0.00 0.00 34.51 3.67
759 866 6.605594 TGGCTTTACCTCACCTAATAATTTGG 59.394 38.462 0.00 0.00 40.22 3.28
760 867 7.639113 TGGCTTTACCTCACCTAATAATTTG 57.361 36.000 0.00 0.00 40.22 2.32
761 868 7.228706 CGATGGCTTTACCTCACCTAATAATTT 59.771 37.037 0.00 0.00 40.22 1.82
762 869 6.710744 CGATGGCTTTACCTCACCTAATAATT 59.289 38.462 0.00 0.00 40.22 1.40
763 870 6.231211 CGATGGCTTTACCTCACCTAATAAT 58.769 40.000 0.00 0.00 40.22 1.28
854 1035 4.762765 GCGAGAGAGATCTAATAAGGGACA 59.237 45.833 0.00 0.00 0.00 4.02
856 1037 5.221945 TGAGCGAGAGAGATCTAATAAGGGA 60.222 44.000 0.00 0.00 0.00 4.20
894 1075 4.200283 CGGTCAGGGAGCTCGAGC 62.200 72.222 30.01 30.01 42.49 5.03
1095 1280 3.536917 CGGTAGATGGGGCGCTGA 61.537 66.667 7.64 0.00 0.00 4.26
1635 1826 1.642762 ACCTGGATGCCCATCTTCTTT 59.357 47.619 0.00 0.00 42.59 2.52
2150 2342 2.706339 ACTGCTTAAGATGAGCCTGG 57.294 50.000 6.67 0.00 39.38 4.45
2378 2575 2.868331 CGTCACGTCACGTAGCCG 60.868 66.667 0.41 1.27 38.32 5.52
2411 2608 0.442699 GTACAAGGCGTTACAGCTGC 59.557 55.000 15.27 0.00 37.29 5.25
2448 2645 5.476599 AGCACCAGCACTTGATTAAACAATA 59.523 36.000 0.00 0.00 45.49 1.90
2480 2677 7.277396 CCAAGAGAAATCCCGGTAGTTAATTA 58.723 38.462 0.00 0.00 0.00 1.40
2499 2696 1.290203 ATATGCACGTTCGCCAAGAG 58.710 50.000 0.00 0.00 0.00 2.85
2503 2700 4.212425 CCTTAATTATATGCACGTTCGCCA 59.788 41.667 0.00 0.00 0.00 5.69
2648 2845 1.516423 GTCTTAGTCTCCCCGGTGC 59.484 63.158 0.00 0.00 0.00 5.01
2663 2860 6.436843 ACAAAATCTGAACAAAAGACGTCT 57.563 33.333 13.58 13.58 0.00 4.18
2667 2864 8.330302 CAAATGGACAAAATCTGAACAAAAGAC 58.670 33.333 0.00 0.00 0.00 3.01
2668 2865 8.256605 TCAAATGGACAAAATCTGAACAAAAGA 58.743 29.630 0.00 0.00 0.00 2.52
2669 2866 8.422973 TCAAATGGACAAAATCTGAACAAAAG 57.577 30.769 0.00 0.00 0.00 2.27
2671 2868 7.555087 ACTCAAATGGACAAAATCTGAACAAA 58.445 30.769 0.00 0.00 0.00 2.83
2672 2869 7.111247 ACTCAAATGGACAAAATCTGAACAA 57.889 32.000 0.00 0.00 0.00 2.83
2673 2870 6.713762 ACTCAAATGGACAAAATCTGAACA 57.286 33.333 0.00 0.00 0.00 3.18
2674 2871 6.980397 ACAACTCAAATGGACAAAATCTGAAC 59.020 34.615 0.00 0.00 0.00 3.18
2675 2872 7.111247 ACAACTCAAATGGACAAAATCTGAA 57.889 32.000 0.00 0.00 0.00 3.02
2676 2873 6.713762 ACAACTCAAATGGACAAAATCTGA 57.286 33.333 0.00 0.00 0.00 3.27
2677 2874 7.775397 AAACAACTCAAATGGACAAAATCTG 57.225 32.000 0.00 0.00 0.00 2.90
2681 2878 9.959749 GTCTATAAACAACTCAAATGGACAAAA 57.040 29.630 0.00 0.00 30.87 2.44
2682 2879 8.286800 CGTCTATAAACAACTCAAATGGACAAA 58.713 33.333 0.00 0.00 30.87 2.83
2683 2880 7.572353 GCGTCTATAAACAACTCAAATGGACAA 60.572 37.037 0.00 0.00 30.87 3.18
2684 2881 6.128391 GCGTCTATAAACAACTCAAATGGACA 60.128 38.462 0.00 0.00 30.87 4.02
2685 2882 6.248631 GCGTCTATAAACAACTCAAATGGAC 58.751 40.000 0.00 0.00 0.00 4.02
2686 2883 5.353123 GGCGTCTATAAACAACTCAAATGGA 59.647 40.000 0.00 0.00 0.00 3.41
2687 2884 5.569413 GGCGTCTATAAACAACTCAAATGG 58.431 41.667 0.00 0.00 0.00 3.16
2688 2885 5.255596 CGGCGTCTATAAACAACTCAAATG 58.744 41.667 0.00 0.00 0.00 2.32
2689 2886 4.201783 GCGGCGTCTATAAACAACTCAAAT 60.202 41.667 9.37 0.00 0.00 2.32
2690 2887 3.123959 GCGGCGTCTATAAACAACTCAAA 59.876 43.478 9.37 0.00 0.00 2.69
2691 2888 2.669434 GCGGCGTCTATAAACAACTCAA 59.331 45.455 9.37 0.00 0.00 3.02
2692 2889 2.264813 GCGGCGTCTATAAACAACTCA 58.735 47.619 9.37 0.00 0.00 3.41
2693 2890 1.254570 CGCGGCGTCTATAAACAACTC 59.745 52.381 15.36 0.00 0.00 3.01
2694 2891 1.274596 CGCGGCGTCTATAAACAACT 58.725 50.000 15.36 0.00 0.00 3.16
2695 2892 0.994263 ACGCGGCGTCTATAAACAAC 59.006 50.000 24.03 0.00 33.69 3.32
2696 2893 3.422122 ACGCGGCGTCTATAAACAA 57.578 47.368 24.03 0.00 33.69 2.83
2706 2903 3.346631 ATAAAGTCGGACGCGGCGT 62.347 57.895 29.85 29.85 45.10 5.68
2707 2904 2.574222 GATAAAGTCGGACGCGGCG 61.574 63.158 22.36 22.36 0.00 6.46
2708 2905 1.226888 AGATAAAGTCGGACGCGGC 60.227 57.895 12.47 7.53 0.00 6.53
2709 2906 0.179145 ACAGATAAAGTCGGACGCGG 60.179 55.000 12.47 0.00 0.00 6.46
2710 2907 1.625616 AACAGATAAAGTCGGACGCG 58.374 50.000 3.53 3.53 0.00 6.01
2711 2908 5.713822 ATTTAACAGATAAAGTCGGACGC 57.286 39.130 1.89 0.00 36.94 5.19
2712 2909 7.477422 CACAAATTTAACAGATAAAGTCGGACG 59.523 37.037 1.89 0.00 36.94 4.79
2713 2910 8.287503 ACACAAATTTAACAGATAAAGTCGGAC 58.712 33.333 0.00 0.00 36.94 4.79
2714 2911 8.385898 ACACAAATTTAACAGATAAAGTCGGA 57.614 30.769 0.00 0.00 36.94 4.55
2715 2912 8.901748 CAACACAAATTTAACAGATAAAGTCGG 58.098 33.333 0.00 0.00 36.94 4.79
2716 2913 8.901748 CCAACACAAATTTAACAGATAAAGTCG 58.098 33.333 0.00 0.00 36.94 4.18
2717 2914 9.744468 ACCAACACAAATTTAACAGATAAAGTC 57.256 29.630 0.00 0.00 36.94 3.01
2718 2915 9.744468 GACCAACACAAATTTAACAGATAAAGT 57.256 29.630 0.00 0.00 36.94 2.66
2719 2916 9.965824 AGACCAACACAAATTTAACAGATAAAG 57.034 29.630 0.00 0.00 36.94 1.85
2720 2917 9.743057 CAGACCAACACAAATTTAACAGATAAA 57.257 29.630 0.00 0.00 37.86 1.40
2721 2918 7.865385 GCAGACCAACACAAATTTAACAGATAA 59.135 33.333 0.00 0.00 0.00 1.75
2722 2919 7.230510 AGCAGACCAACACAAATTTAACAGATA 59.769 33.333 0.00 0.00 0.00 1.98
2723 2920 6.040842 AGCAGACCAACACAAATTTAACAGAT 59.959 34.615 0.00 0.00 0.00 2.90
2724 2921 5.359576 AGCAGACCAACACAAATTTAACAGA 59.640 36.000 0.00 0.00 0.00 3.41
2725 2922 5.591099 AGCAGACCAACACAAATTTAACAG 58.409 37.500 0.00 0.00 0.00 3.16
2726 2923 5.126222 TGAGCAGACCAACACAAATTTAACA 59.874 36.000 0.00 0.00 0.00 2.41
2727 2924 5.587289 TGAGCAGACCAACACAAATTTAAC 58.413 37.500 0.00 0.00 0.00 2.01
2728 2925 5.843673 TGAGCAGACCAACACAAATTTAA 57.156 34.783 0.00 0.00 0.00 1.52
2729 2926 5.451242 GGTTGAGCAGACCAACACAAATTTA 60.451 40.000 0.00 0.00 44.07 1.40
2730 2927 4.432712 GTTGAGCAGACCAACACAAATTT 58.567 39.130 0.00 0.00 42.40 1.82
2731 2928 3.181476 GGTTGAGCAGACCAACACAAATT 60.181 43.478 0.00 0.00 44.07 1.82
2732 2929 2.362077 GGTTGAGCAGACCAACACAAAT 59.638 45.455 0.00 0.00 44.07 2.32
2733 2930 1.748493 GGTTGAGCAGACCAACACAAA 59.252 47.619 0.00 0.00 44.07 2.83
2734 2931 1.388547 GGTTGAGCAGACCAACACAA 58.611 50.000 0.00 0.00 44.07 3.33
2735 2932 0.813610 CGGTTGAGCAGACCAACACA 60.814 55.000 0.00 0.00 44.07 3.72
2736 2933 0.531974 TCGGTTGAGCAGACCAACAC 60.532 55.000 0.00 0.00 44.07 3.32
2737 2934 0.531974 GTCGGTTGAGCAGACCAACA 60.532 55.000 0.00 0.00 44.07 3.33
2738 2935 2.235546 GTCGGTTGAGCAGACCAAC 58.764 57.895 0.00 0.00 42.18 3.77
2739 2936 4.771127 GTCGGTTGAGCAGACCAA 57.229 55.556 4.39 0.00 36.50 3.67
2742 2939 1.733399 GACGGTCGGTTGAGCAGAC 60.733 63.158 0.00 0.00 42.80 3.51
2743 2940 2.649034 GACGGTCGGTTGAGCAGA 59.351 61.111 0.00 0.00 42.80 4.26
2744 2941 2.432628 GGACGGTCGGTTGAGCAG 60.433 66.667 1.43 0.00 42.80 4.24
2745 2942 3.998672 GGGACGGTCGGTTGAGCA 61.999 66.667 1.43 0.00 42.80 4.26
2746 2943 2.798148 AATGGGACGGTCGGTTGAGC 62.798 60.000 1.43 0.00 39.25 4.26
2747 2944 0.321298 AAATGGGACGGTCGGTTGAG 60.321 55.000 1.43 0.00 0.00 3.02
2748 2945 0.975135 TAAATGGGACGGTCGGTTGA 59.025 50.000 1.43 0.00 0.00 3.18
2749 2946 1.810959 TTAAATGGGACGGTCGGTTG 58.189 50.000 1.43 0.00 0.00 3.77
2750 2947 2.635714 GATTAAATGGGACGGTCGGTT 58.364 47.619 1.43 0.00 0.00 4.44
2751 2948 1.134310 GGATTAAATGGGACGGTCGGT 60.134 52.381 1.43 0.00 0.00 4.69
2752 2949 1.589803 GGATTAAATGGGACGGTCGG 58.410 55.000 1.43 0.00 0.00 4.79
2753 2950 1.214367 CGGATTAAATGGGACGGTCG 58.786 55.000 1.43 0.00 0.00 4.79
2754 2951 0.942252 GCGGATTAAATGGGACGGTC 59.058 55.000 0.00 0.00 0.00 4.79
2755 2952 0.464916 GGCGGATTAAATGGGACGGT 60.465 55.000 0.00 0.00 0.00 4.83
2756 2953 0.179029 AGGCGGATTAAATGGGACGG 60.179 55.000 0.00 0.00 0.00 4.79
2757 2954 0.944386 CAGGCGGATTAAATGGGACG 59.056 55.000 0.00 0.00 0.00 4.79
2758 2955 1.318576 CCAGGCGGATTAAATGGGAC 58.681 55.000 0.00 0.00 0.00 4.46
2759 2956 0.467290 GCCAGGCGGATTAAATGGGA 60.467 55.000 0.00 0.00 0.00 4.37
2760 2957 1.463553 GGCCAGGCGGATTAAATGGG 61.464 60.000 5.00 0.00 0.00 4.00
2761 2958 0.754957 TGGCCAGGCGGATTAAATGG 60.755 55.000 0.00 0.00 0.00 3.16
2762 2959 1.331214 ATGGCCAGGCGGATTAAATG 58.669 50.000 13.05 0.00 0.00 2.32
2763 2960 2.969821 TATGGCCAGGCGGATTAAAT 57.030 45.000 13.05 0.00 0.00 1.40
2764 2961 2.738587 TTATGGCCAGGCGGATTAAA 57.261 45.000 13.05 0.00 0.00 1.52
2765 2962 2.969821 ATTATGGCCAGGCGGATTAA 57.030 45.000 13.05 3.03 0.00 1.40
2766 2963 2.969821 AATTATGGCCAGGCGGATTA 57.030 45.000 13.05 0.00 0.00 1.75
2767 2964 2.086610 AAATTATGGCCAGGCGGATT 57.913 45.000 13.05 3.84 0.00 3.01
2768 2965 2.086610 AAAATTATGGCCAGGCGGAT 57.913 45.000 13.05 2.32 0.00 4.18
2769 2966 1.859302 AAAAATTATGGCCAGGCGGA 58.141 45.000 13.05 0.00 0.00 5.54
2789 2986 8.604640 TCTATTTTTGCATTTTCATTCTTGCA 57.395 26.923 0.00 0.00 42.90 4.08
2794 2991 9.281075 GCCAATTCTATTTTTGCATTTTCATTC 57.719 29.630 0.00 0.00 0.00 2.67
2795 2992 8.794553 TGCCAATTCTATTTTTGCATTTTCATT 58.205 25.926 0.00 0.00 0.00 2.57
2796 2993 8.338072 TGCCAATTCTATTTTTGCATTTTCAT 57.662 26.923 0.00 0.00 0.00 2.57
2797 2994 7.741027 TGCCAATTCTATTTTTGCATTTTCA 57.259 28.000 0.00 0.00 0.00 2.69
2800 2997 9.452287 ACTATTGCCAATTCTATTTTTGCATTT 57.548 25.926 0.00 0.00 0.00 2.32
2801 2998 9.452287 AACTATTGCCAATTCTATTTTTGCATT 57.548 25.926 0.00 0.00 0.00 3.56
2802 2999 9.101655 GAACTATTGCCAATTCTATTTTTGCAT 57.898 29.630 0.00 0.00 0.00 3.96
2803 3000 8.093307 TGAACTATTGCCAATTCTATTTTTGCA 58.907 29.630 0.00 0.00 0.00 4.08
2804 3001 8.477984 TGAACTATTGCCAATTCTATTTTTGC 57.522 30.769 0.00 0.00 0.00 3.68
2806 3003 9.101655 GCATGAACTATTGCCAATTCTATTTTT 57.898 29.630 0.00 0.00 0.00 1.94
2807 3004 8.480501 AGCATGAACTATTGCCAATTCTATTTT 58.519 29.630 0.00 0.00 0.00 1.82
2808 3005 7.924412 CAGCATGAACTATTGCCAATTCTATTT 59.076 33.333 0.00 0.00 39.69 1.40
2809 3006 7.286087 TCAGCATGAACTATTGCCAATTCTATT 59.714 33.333 0.00 0.00 45.97 1.73
2810 3007 6.774170 TCAGCATGAACTATTGCCAATTCTAT 59.226 34.615 0.00 0.00 45.97 1.98
2811 3008 6.121590 TCAGCATGAACTATTGCCAATTCTA 58.878 36.000 0.00 0.00 45.97 2.10
2812 3009 4.951715 TCAGCATGAACTATTGCCAATTCT 59.048 37.500 0.00 0.00 45.97 2.40
2813 3010 5.252969 TCAGCATGAACTATTGCCAATTC 57.747 39.130 0.00 0.00 45.97 2.17
2828 3025 1.215244 CTAGCACCATCGTCAGCATG 58.785 55.000 0.00 0.00 37.54 4.06
2829 3026 0.531532 GCTAGCACCATCGTCAGCAT 60.532 55.000 10.63 0.00 0.00 3.79
2830 3027 1.153568 GCTAGCACCATCGTCAGCA 60.154 57.895 10.63 0.00 0.00 4.41
2831 3028 3.711348 GCTAGCACCATCGTCAGC 58.289 61.111 10.63 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.