Multiple sequence alignment - TraesCS3D01G197300

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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 TraesCS3D01G197300 chr3D 100.000 2828 0 0 1 2828 202649730 202652557 0.000000e+00 5223
1 TraesCS3D01G197300 chr3D 95.041 121 6 0 2708 2828 68250970 68251090 1.030000e-44 191
2 TraesCS3D01G197300 chr1B 98.786 2718 26 3 1 2711 683734143 683731426 0.000000e+00 4830
3 TraesCS3D01G197300 chr1B 96.610 118 4 0 2711 2828 42588690 42588807 2.220000e-46 196
4 TraesCS3D01G197300 chrUn 98.713 2720 26 4 1 2711 223706935 223704216 0.000000e+00 4820
5 TraesCS3D01G197300 chrUn 98.382 2720 35 4 1 2711 40085858 40088577 0.000000e+00 4771
6 TraesCS3D01G197300 chr2A 98.676 2720 26 5 1 2711 605912878 605910160 0.000000e+00 4815
7 TraesCS3D01G197300 chr6D 98.636 2713 35 2 1 2711 430481760 430484472 0.000000e+00 4804
8 TraesCS3D01G197300 chr7B 98.566 2719 31 4 1 2711 698140159 698142877 0.000000e+00 4798
9 TraesCS3D01G197300 chr1A 98.526 2713 37 3 1 2711 278500834 278503545 0.000000e+00 4785
10 TraesCS3D01G197300 chr2D 98.452 2713 33 4 1 2711 634995175 634997880 0.000000e+00 4769
11 TraesCS3D01G197300 chr5B 98.307 2717 39 4 1 2711 713082219 713079504 0.000000e+00 4756
12 TraesCS3D01G197300 chr7D 96.610 118 4 0 2711 2828 323931185 323931068 2.220000e-46 196
13 TraesCS3D01G197300 chr7D 95.041 121 6 0 2708 2828 250514520 250514640 1.030000e-44 191
14 TraesCS3D01G197300 chr7D 95.041 121 6 0 2708 2828 326529188 326529308 1.030000e-44 191
15 TraesCS3D01G197300 chr4D 96.610 118 4 0 2711 2828 229909203 229909086 2.220000e-46 196
16 TraesCS3D01G197300 chr3B 96.581 117 4 0 2712 2828 733935085 733935201 7.990000e-46 195
17 TraesCS3D01G197300 chr3B 96.581 117 4 0 2712 2828 734003114 734003230 7.990000e-46 195
18 TraesCS3D01G197300 chr1D 95.763 118 5 0 2711 2828 132126109 132125992 1.030000e-44 191


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 TraesCS3D01G197300 chr3D 202649730 202652557 2827 False 5223 5223 100.000 1 2828 1 chr3D.!!$F2 2827
1 TraesCS3D01G197300 chr1B 683731426 683734143 2717 True 4830 4830 98.786 1 2711 1 chr1B.!!$R1 2710
2 TraesCS3D01G197300 chrUn 223704216 223706935 2719 True 4820 4820 98.713 1 2711 1 chrUn.!!$R1 2710
3 TraesCS3D01G197300 chrUn 40085858 40088577 2719 False 4771 4771 98.382 1 2711 1 chrUn.!!$F1 2710
4 TraesCS3D01G197300 chr2A 605910160 605912878 2718 True 4815 4815 98.676 1 2711 1 chr2A.!!$R1 2710
5 TraesCS3D01G197300 chr6D 430481760 430484472 2712 False 4804 4804 98.636 1 2711 1 chr6D.!!$F1 2710
6 TraesCS3D01G197300 chr7B 698140159 698142877 2718 False 4798 4798 98.566 1 2711 1 chr7B.!!$F1 2710
7 TraesCS3D01G197300 chr1A 278500834 278503545 2711 False 4785 4785 98.526 1 2711 1 chr1A.!!$F1 2710
8 TraesCS3D01G197300 chr2D 634995175 634997880 2705 False 4769 4769 98.452 1 2711 1 chr2D.!!$F1 2710
9 TraesCS3D01G197300 chr5B 713079504 713082219 2715 True 4756 4756 98.307 1 2711 1 chr5B.!!$R1 2710

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
569 570 2.545946 GCTCGGGAATTGAGACTTATGC 59.454 50.0 0.0 0.0 35.43 3.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1862 1870 1.476085 AGGAGTCAACTGAGCATCTCG 59.524 52.381 0.0 0.0 34.92 4.04 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
111 112 7.341769 CCTATTATTCAAACCACAAAGGATCCA 59.658 37.037 15.82 0.00 41.22 3.41
170 171 5.191522 TGACATCAATACTCCTTTCCATGGA 59.808 40.000 11.44 11.44 0.00 3.41
525 526 7.838079 TTGATCAAGAAGGAAATCCAAAAGA 57.162 32.000 3.38 0.00 38.89 2.52
569 570 2.545946 GCTCGGGAATTGAGACTTATGC 59.454 50.000 0.00 0.00 35.43 3.14
1014 1017 2.906389 AGAGCAGATGGTCCAACTACAA 59.094 45.455 8.34 0.00 43.11 2.41
1124 1127 3.547567 CTGGTGCCTCTTCTTCCAG 57.452 57.895 0.00 0.00 39.41 3.86
1291 1294 4.100808 AGAGAAGCTCATCCGCTAGAAATT 59.899 41.667 0.00 0.00 39.86 1.82
1514 1517 1.742761 AATGACAAGATGAGGTGCCG 58.257 50.000 0.00 0.00 0.00 5.69
1862 1870 2.258726 GGTATTCAATCCCGCCGCC 61.259 63.158 0.00 0.00 0.00 6.13
1918 1926 6.669154 AGGAAGATGGCTTATTCCAAAATTCA 59.331 34.615 23.60 0.00 44.11 2.57
2453 2467 7.671302 CACATATTATATTAGCCGCCTATCCT 58.329 38.462 0.00 0.00 0.00 3.24
2670 2684 0.400594 CCTCAACTTCCCCGGTCTTT 59.599 55.000 0.00 0.00 0.00 2.52
2711 2725 1.172180 AAACTCGTCCCACGTACGGA 61.172 55.000 21.06 4.26 43.14 4.69
2712 2726 1.580845 AACTCGTCCCACGTACGGAG 61.581 60.000 21.06 16.50 43.14 4.63
2713 2727 1.742880 CTCGTCCCACGTACGGAGA 60.743 63.158 21.06 10.05 43.14 3.71
2714 2728 1.300971 CTCGTCCCACGTACGGAGAA 61.301 60.000 21.06 0.00 43.14 2.87
2715 2729 1.154150 CGTCCCACGTACGGAGAAC 60.154 63.158 21.06 11.11 36.74 3.01
2716 2730 1.213799 GTCCCACGTACGGAGAACC 59.786 63.158 21.06 0.00 0.00 3.62
2717 2731 1.978617 TCCCACGTACGGAGAACCC 60.979 63.158 21.06 0.00 0.00 4.11
2727 2741 3.782443 GAGAACCCGGGCCGACAT 61.782 66.667 30.79 12.71 0.00 3.06
2728 2742 4.096003 AGAACCCGGGCCGACATG 62.096 66.667 30.79 15.10 0.00 3.21
2729 2743 4.090588 GAACCCGGGCCGACATGA 62.091 66.667 30.79 0.00 0.00 3.07
2730 2744 4.404098 AACCCGGGCCGACATGAC 62.404 66.667 30.79 0.00 0.00 3.06
2732 2746 3.151710 CCCGGGCCGACATGACTA 61.152 66.667 30.79 0.00 0.00 2.59
2733 2747 2.417516 CCGGGCCGACATGACTAG 59.582 66.667 30.79 2.47 0.00 2.57
2734 2748 2.423898 CCGGGCCGACATGACTAGT 61.424 63.158 30.79 0.00 0.00 2.57
2735 2749 1.065928 CGGGCCGACATGACTAGTC 59.934 63.158 24.41 16.32 0.00 2.59
2744 2758 4.445452 GACATGACTAGTCGTAAACCCA 57.555 45.455 17.18 0.00 0.00 4.51
2745 2759 4.813027 GACATGACTAGTCGTAAACCCAA 58.187 43.478 17.18 0.00 0.00 4.12
2746 2760 4.817517 ACATGACTAGTCGTAAACCCAAG 58.182 43.478 17.18 5.40 0.00 3.61
2747 2761 3.947910 TGACTAGTCGTAAACCCAAGG 57.052 47.619 17.85 0.00 0.00 3.61
2748 2762 3.233507 TGACTAGTCGTAAACCCAAGGT 58.766 45.455 17.85 0.00 37.65 3.50
2749 2763 3.006110 TGACTAGTCGTAAACCCAAGGTG 59.994 47.826 17.85 0.00 35.34 4.00
2750 2764 2.301009 ACTAGTCGTAAACCCAAGGTGG 59.699 50.000 0.00 0.00 35.34 4.61
2751 2765 0.250597 AGTCGTAAACCCAAGGTGGC 60.251 55.000 0.00 0.00 35.34 5.01
2752 2766 0.535553 GTCGTAAACCCAAGGTGGCA 60.536 55.000 0.00 0.00 35.34 4.92
2753 2767 0.535553 TCGTAAACCCAAGGTGGCAC 60.536 55.000 9.70 9.70 35.34 5.01
2754 2768 0.536460 CGTAAACCCAAGGTGGCACT 60.536 55.000 18.45 0.26 35.34 4.40
2755 2769 1.270947 CGTAAACCCAAGGTGGCACTA 60.271 52.381 18.45 0.00 35.34 2.74
2756 2770 2.811136 CGTAAACCCAAGGTGGCACTAA 60.811 50.000 18.45 0.00 35.34 2.24
2757 2771 1.699730 AAACCCAAGGTGGCACTAAC 58.300 50.000 18.45 0.33 35.34 2.34
2758 2772 0.850784 AACCCAAGGTGGCACTAACT 59.149 50.000 18.45 3.06 35.34 2.24
2759 2773 0.850784 ACCCAAGGTGGCACTAACTT 59.149 50.000 18.45 9.63 35.79 2.66
2760 2774 2.059490 ACCCAAGGTGGCACTAACTTA 58.941 47.619 18.45 0.00 35.79 2.24
2761 2775 2.647802 ACCCAAGGTGGCACTAACTTAT 59.352 45.455 18.45 0.00 35.79 1.73
2762 2776 3.847780 ACCCAAGGTGGCACTAACTTATA 59.152 43.478 18.45 0.00 35.79 0.98
2763 2777 4.080526 ACCCAAGGTGGCACTAACTTATAG 60.081 45.833 18.45 7.03 35.79 1.31
2764 2778 4.451900 CCAAGGTGGCACTAACTTATAGG 58.548 47.826 18.45 6.59 0.00 2.57
2765 2779 4.451900 CAAGGTGGCACTAACTTATAGGG 58.548 47.826 18.45 0.00 0.00 3.53
2766 2780 3.732595 AGGTGGCACTAACTTATAGGGT 58.267 45.455 18.45 0.00 0.00 4.34
2767 2781 3.710165 AGGTGGCACTAACTTATAGGGTC 59.290 47.826 18.45 0.00 0.00 4.46
2768 2782 3.453353 GGTGGCACTAACTTATAGGGTCA 59.547 47.826 18.45 0.00 28.91 4.02
2769 2783 4.443034 GGTGGCACTAACTTATAGGGTCAG 60.443 50.000 18.45 0.00 32.67 3.51
2770 2784 3.709653 TGGCACTAACTTATAGGGTCAGG 59.290 47.826 0.00 0.00 28.19 3.86
2771 2785 3.494573 GGCACTAACTTATAGGGTCAGGC 60.495 52.174 0.00 0.00 0.00 4.85
2772 2786 3.134081 GCACTAACTTATAGGGTCAGGCA 59.866 47.826 0.00 0.00 0.00 4.75
2773 2787 4.202367 GCACTAACTTATAGGGTCAGGCAT 60.202 45.833 0.00 0.00 0.00 4.40
2774 2788 5.011738 GCACTAACTTATAGGGTCAGGCATA 59.988 44.000 0.00 0.00 0.00 3.14
2775 2789 6.456501 CACTAACTTATAGGGTCAGGCATAC 58.543 44.000 0.00 0.00 0.00 2.39
2776 2790 6.041637 CACTAACTTATAGGGTCAGGCATACA 59.958 42.308 0.00 0.00 0.00 2.29
2777 2791 6.787957 ACTAACTTATAGGGTCAGGCATACAT 59.212 38.462 0.00 0.00 0.00 2.29
2778 2792 5.489792 ACTTATAGGGTCAGGCATACATG 57.510 43.478 0.00 0.00 0.00 3.21
2779 2793 5.155161 ACTTATAGGGTCAGGCATACATGA 58.845 41.667 0.00 0.00 0.00 3.07
2780 2794 5.012148 ACTTATAGGGTCAGGCATACATGAC 59.988 44.000 0.00 2.00 44.10 3.06
2784 2798 1.959042 GTCAGGCATACATGACCCAG 58.041 55.000 0.00 0.00 39.94 4.45
2785 2799 0.181114 TCAGGCATACATGACCCAGC 59.819 55.000 0.00 0.00 36.08 4.85
2786 2800 0.107066 CAGGCATACATGACCCAGCA 60.107 55.000 0.00 0.00 36.08 4.41
2787 2801 0.625316 AGGCATACATGACCCAGCAA 59.375 50.000 0.00 0.00 36.08 3.91
2788 2802 1.216175 AGGCATACATGACCCAGCAAT 59.784 47.619 0.00 0.00 36.08 3.56
2789 2803 1.338973 GGCATACATGACCCAGCAATG 59.661 52.381 0.00 0.00 0.00 2.82
2790 2804 1.269413 GCATACATGACCCAGCAATGC 60.269 52.381 0.00 0.00 0.00 3.56
2791 2805 2.025898 CATACATGACCCAGCAATGCA 58.974 47.619 8.35 0.00 0.00 3.96
2792 2806 1.462616 TACATGACCCAGCAATGCAC 58.537 50.000 8.35 0.00 0.00 4.57
2793 2807 1.138036 CATGACCCAGCAATGCACG 59.862 57.895 8.35 0.00 0.00 5.34
2794 2808 1.303561 ATGACCCAGCAATGCACGT 60.304 52.632 8.35 0.00 0.00 4.49
2795 2809 1.588824 ATGACCCAGCAATGCACGTG 61.589 55.000 12.28 12.28 0.00 4.49
2796 2810 2.203337 ACCCAGCAATGCACGTGT 60.203 55.556 18.38 0.00 0.00 4.49
2797 2811 2.187599 GACCCAGCAATGCACGTGTC 62.188 60.000 18.38 10.14 0.00 3.67
2798 2812 2.174107 CCAGCAATGCACGTGTCG 59.826 61.111 18.38 4.41 0.00 4.35
2799 2813 2.174107 CAGCAATGCACGTGTCGG 59.826 61.111 18.38 5.88 0.00 4.79
2800 2814 2.280797 AGCAATGCACGTGTCGGT 60.281 55.556 18.38 6.00 0.00 4.69
2801 2815 2.173382 GCAATGCACGTGTCGGTC 59.827 61.111 18.38 0.00 0.00 4.79
2802 2816 2.603247 GCAATGCACGTGTCGGTCA 61.603 57.895 18.38 6.33 0.00 4.02
2803 2817 1.911293 GCAATGCACGTGTCGGTCAT 61.911 55.000 18.38 8.58 0.00 3.06
2804 2818 0.095245 CAATGCACGTGTCGGTCATC 59.905 55.000 18.38 0.00 0.00 2.92
2805 2819 0.320334 AATGCACGTGTCGGTCATCA 60.320 50.000 18.38 3.95 0.00 3.07
2806 2820 0.320334 ATGCACGTGTCGGTCATCAA 60.320 50.000 18.38 0.00 0.00 2.57
2807 2821 0.943835 TGCACGTGTCGGTCATCAAG 60.944 55.000 18.38 0.00 0.00 3.02
2808 2822 1.626654 GCACGTGTCGGTCATCAAGG 61.627 60.000 18.38 0.00 0.00 3.61
2809 2823 0.319555 CACGTGTCGGTCATCAAGGT 60.320 55.000 7.58 0.00 0.00 3.50
2810 2824 1.068125 CACGTGTCGGTCATCAAGGTA 60.068 52.381 7.58 0.00 0.00 3.08
2811 2825 1.822990 ACGTGTCGGTCATCAAGGTAT 59.177 47.619 0.00 0.00 0.00 2.73
2812 2826 2.193447 CGTGTCGGTCATCAAGGTATG 58.807 52.381 0.00 0.00 0.00 2.39
2813 2827 2.159296 CGTGTCGGTCATCAAGGTATGA 60.159 50.000 0.00 0.00 43.67 2.15
2814 2828 3.674955 CGTGTCGGTCATCAAGGTATGAA 60.675 47.826 0.00 0.00 42.54 2.57
2815 2829 3.617263 GTGTCGGTCATCAAGGTATGAAC 59.383 47.826 0.00 0.00 42.54 3.18
2827 2841 2.547826 GGTATGAACCCAAGTCGTAGC 58.452 52.381 0.00 0.00 40.21 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
111 112 5.046529 CGAGAAGATTGGACGATGAAAGAT 58.953 41.667 0.00 0.00 0.00 2.40
569 570 7.333921 AGCTCATGAGACTCTTTTAGTGAAATG 59.666 37.037 27.04 0.00 39.07 2.32
822 825 6.943718 TGTTACTTTCCCTATGGTTTTCGAAT 59.056 34.615 0.00 0.00 0.00 3.34
1514 1517 1.774894 TTCTATATGGGGGTGCCCGC 61.775 60.000 16.39 16.39 46.66 6.13
1862 1870 1.476085 AGGAGTCAACTGAGCATCTCG 59.524 52.381 0.00 0.00 34.92 4.04
1918 1926 4.956075 CCAAAGTTCCTTACCCTTATGCAT 59.044 41.667 3.79 3.79 0.00 3.96
2453 2467 1.679981 TTCCATCCCAGTCCATTCCA 58.320 50.000 0.00 0.00 0.00 3.53
2670 2684 2.434843 CCTCATACAGCTCGGGCCA 61.435 63.158 2.00 0.00 39.73 5.36
2711 2725 4.096003 CATGTCGGCCCGGGTTCT 62.096 66.667 24.63 0.00 0.00 3.01
2712 2726 4.090588 TCATGTCGGCCCGGGTTC 62.091 66.667 24.63 14.17 0.00 3.62
2713 2727 4.404098 GTCATGTCGGCCCGGGTT 62.404 66.667 24.63 0.00 0.00 4.11
2714 2728 3.968837 TAGTCATGTCGGCCCGGGT 62.969 63.158 24.63 0.00 0.00 5.28
2715 2729 3.151710 TAGTCATGTCGGCCCGGG 61.152 66.667 19.09 19.09 0.00 5.73
2716 2730 2.351336 GACTAGTCATGTCGGCCCGG 62.351 65.000 18.20 0.00 0.00 5.73
2717 2731 1.065928 GACTAGTCATGTCGGCCCG 59.934 63.158 18.20 0.00 0.00 6.13
2723 2737 4.445452 TGGGTTTACGACTAGTCATGTC 57.555 45.455 22.37 8.28 0.00 3.06
2724 2738 4.322499 CCTTGGGTTTACGACTAGTCATGT 60.322 45.833 22.37 14.86 0.00 3.21
2725 2739 4.181578 CCTTGGGTTTACGACTAGTCATG 58.818 47.826 22.37 9.72 0.00 3.07
2726 2740 3.836562 ACCTTGGGTTTACGACTAGTCAT 59.163 43.478 22.37 10.40 27.29 3.06
2727 2741 3.006110 CACCTTGGGTTTACGACTAGTCA 59.994 47.826 22.37 0.95 31.02 3.41
2728 2742 3.582780 CACCTTGGGTTTACGACTAGTC 58.417 50.000 13.18 13.18 31.02 2.59
2729 2743 2.301009 CCACCTTGGGTTTACGACTAGT 59.699 50.000 0.00 0.00 31.02 2.57
2730 2744 2.933928 GCCACCTTGGGTTTACGACTAG 60.934 54.545 0.00 0.00 38.19 2.57
2731 2745 1.002315 GCCACCTTGGGTTTACGACTA 59.998 52.381 0.00 0.00 38.19 2.59
2732 2746 0.250597 GCCACCTTGGGTTTACGACT 60.251 55.000 0.00 0.00 38.19 4.18
2733 2747 0.535553 TGCCACCTTGGGTTTACGAC 60.536 55.000 0.00 0.00 38.19 4.34
2734 2748 0.535553 GTGCCACCTTGGGTTTACGA 60.536 55.000 0.00 0.00 38.19 3.43
2735 2749 0.536460 AGTGCCACCTTGGGTTTACG 60.536 55.000 0.00 0.00 38.19 3.18
2736 2750 2.555325 GTTAGTGCCACCTTGGGTTTAC 59.445 50.000 0.00 0.00 38.19 2.01
2737 2751 2.444010 AGTTAGTGCCACCTTGGGTTTA 59.556 45.455 0.00 0.00 38.19 2.01
2738 2752 1.216930 AGTTAGTGCCACCTTGGGTTT 59.783 47.619 0.00 0.00 38.19 3.27
2739 2753 0.850784 AGTTAGTGCCACCTTGGGTT 59.149 50.000 0.00 0.00 38.19 4.11
2740 2754 0.850784 AAGTTAGTGCCACCTTGGGT 59.149 50.000 0.00 0.00 38.19 4.51
2741 2755 2.871096 TAAGTTAGTGCCACCTTGGG 57.129 50.000 0.00 0.00 38.19 4.12
2742 2756 4.451900 CCTATAAGTTAGTGCCACCTTGG 58.548 47.826 0.00 0.00 41.55 3.61
2743 2757 4.080526 ACCCTATAAGTTAGTGCCACCTTG 60.081 45.833 0.00 0.00 0.00 3.61
2744 2758 4.109320 ACCCTATAAGTTAGTGCCACCTT 58.891 43.478 0.00 0.00 0.00 3.50
2745 2759 3.710165 GACCCTATAAGTTAGTGCCACCT 59.290 47.826 0.00 0.00 0.00 4.00
2746 2760 3.453353 TGACCCTATAAGTTAGTGCCACC 59.547 47.826 0.00 0.00 0.00 4.61
2747 2761 4.443034 CCTGACCCTATAAGTTAGTGCCAC 60.443 50.000 0.00 0.00 0.00 5.01
2748 2762 3.709653 CCTGACCCTATAAGTTAGTGCCA 59.290 47.826 0.00 0.00 0.00 4.92
2749 2763 3.494573 GCCTGACCCTATAAGTTAGTGCC 60.495 52.174 0.00 0.00 0.00 5.01
2750 2764 3.134081 TGCCTGACCCTATAAGTTAGTGC 59.866 47.826 0.00 0.00 0.00 4.40
2751 2765 5.552870 ATGCCTGACCCTATAAGTTAGTG 57.447 43.478 0.00 0.00 0.00 2.74
2752 2766 6.141083 TGTATGCCTGACCCTATAAGTTAGT 58.859 40.000 0.00 0.00 0.00 2.24
2753 2767 6.665992 TGTATGCCTGACCCTATAAGTTAG 57.334 41.667 0.00 0.00 0.00 2.34
2754 2768 6.785466 TCATGTATGCCTGACCCTATAAGTTA 59.215 38.462 0.00 0.00 0.00 2.24
2755 2769 5.606749 TCATGTATGCCTGACCCTATAAGTT 59.393 40.000 0.00 0.00 0.00 2.66
2756 2770 5.012148 GTCATGTATGCCTGACCCTATAAGT 59.988 44.000 7.79 0.00 35.23 2.24
2757 2771 5.482908 GTCATGTATGCCTGACCCTATAAG 58.517 45.833 7.79 0.00 35.23 1.73
2758 2772 5.483685 GTCATGTATGCCTGACCCTATAA 57.516 43.478 7.79 0.00 35.23 0.98
2765 2779 1.959042 CTGGGTCATGTATGCCTGAC 58.041 55.000 10.09 10.09 38.83 3.51
2766 2780 0.181114 GCTGGGTCATGTATGCCTGA 59.819 55.000 0.00 0.00 0.00 3.86
2767 2781 0.107066 TGCTGGGTCATGTATGCCTG 60.107 55.000 0.00 0.00 0.00 4.85
2768 2782 0.625316 TTGCTGGGTCATGTATGCCT 59.375 50.000 0.00 0.00 0.00 4.75
2769 2783 1.338973 CATTGCTGGGTCATGTATGCC 59.661 52.381 0.00 0.00 0.00 4.40
2770 2784 1.269413 GCATTGCTGGGTCATGTATGC 60.269 52.381 0.16 0.00 0.00 3.14
2771 2785 2.025898 TGCATTGCTGGGTCATGTATG 58.974 47.619 10.49 0.00 0.00 2.39
2772 2786 2.026641 GTGCATTGCTGGGTCATGTAT 58.973 47.619 10.49 0.00 0.00 2.29
2773 2787 1.462616 GTGCATTGCTGGGTCATGTA 58.537 50.000 10.49 0.00 0.00 2.29
2774 2788 1.588824 CGTGCATTGCTGGGTCATGT 61.589 55.000 10.49 0.00 0.00 3.21
2775 2789 1.138036 CGTGCATTGCTGGGTCATG 59.862 57.895 10.49 0.00 0.00 3.07
2776 2790 1.303561 ACGTGCATTGCTGGGTCAT 60.304 52.632 10.49 0.00 0.00 3.06
2777 2791 2.112928 ACGTGCATTGCTGGGTCA 59.887 55.556 10.49 0.00 0.00 4.02
2778 2792 2.187599 GACACGTGCATTGCTGGGTC 62.188 60.000 17.22 17.03 33.01 4.46
2779 2793 2.203337 ACACGTGCATTGCTGGGT 60.203 55.556 17.22 6.86 0.00 4.51
2780 2794 2.562912 GACACGTGCATTGCTGGG 59.437 61.111 17.22 6.20 0.00 4.45
2781 2795 2.174107 CGACACGTGCATTGCTGG 59.826 61.111 17.22 4.18 0.00 4.85
2782 2796 2.174107 CCGACACGTGCATTGCTG 59.826 61.111 17.22 5.11 0.00 4.41
2783 2797 2.280797 ACCGACACGTGCATTGCT 60.281 55.556 17.22 0.00 0.00 3.91
2784 2798 1.911293 ATGACCGACACGTGCATTGC 61.911 55.000 17.22 0.46 0.00 3.56
2785 2799 0.095245 GATGACCGACACGTGCATTG 59.905 55.000 17.22 4.37 0.00 2.82
2786 2800 0.320334 TGATGACCGACACGTGCATT 60.320 50.000 17.22 0.00 0.00 3.56
2787 2801 0.320334 TTGATGACCGACACGTGCAT 60.320 50.000 17.22 10.48 0.00 3.96
2788 2802 0.943835 CTTGATGACCGACACGTGCA 60.944 55.000 17.22 5.25 0.00 4.57
2789 2803 1.626654 CCTTGATGACCGACACGTGC 61.627 60.000 17.22 7.72 0.00 5.34
2790 2804 0.319555 ACCTTGATGACCGACACGTG 60.320 55.000 15.48 15.48 0.00 4.49
2791 2805 1.250328 TACCTTGATGACCGACACGT 58.750 50.000 0.00 0.00 0.00 4.49
2792 2806 2.159296 TCATACCTTGATGACCGACACG 60.159 50.000 0.00 0.00 30.75 4.49
2793 2807 3.520290 TCATACCTTGATGACCGACAC 57.480 47.619 0.00 0.00 30.75 3.67
2794 2808 3.369052 GGTTCATACCTTGATGACCGACA 60.369 47.826 0.00 0.00 41.53 4.35
2795 2809 3.195661 GGTTCATACCTTGATGACCGAC 58.804 50.000 0.00 0.00 41.53 4.79
2796 2810 2.169769 GGGTTCATACCTTGATGACCGA 59.830 50.000 0.00 0.00 44.38 4.69
2797 2811 2.093181 TGGGTTCATACCTTGATGACCG 60.093 50.000 0.00 0.00 44.38 4.79
2798 2812 3.644966 TGGGTTCATACCTTGATGACC 57.355 47.619 0.00 0.00 44.38 4.02
2799 2813 4.589908 ACTTGGGTTCATACCTTGATGAC 58.410 43.478 0.00 0.00 44.38 3.06
2800 2814 4.622933 CGACTTGGGTTCATACCTTGATGA 60.623 45.833 0.00 0.00 44.38 2.92
2801 2815 3.623060 CGACTTGGGTTCATACCTTGATG 59.377 47.826 0.00 0.00 44.38 3.07
2802 2816 3.263425 ACGACTTGGGTTCATACCTTGAT 59.737 43.478 0.00 0.00 44.38 2.57
2803 2817 2.635915 ACGACTTGGGTTCATACCTTGA 59.364 45.455 0.00 0.00 44.38 3.02
2804 2818 3.053831 ACGACTTGGGTTCATACCTTG 57.946 47.619 0.00 0.00 44.38 3.61
2805 2819 3.369157 GCTACGACTTGGGTTCATACCTT 60.369 47.826 0.00 0.00 44.38 3.50
2806 2820 2.167900 GCTACGACTTGGGTTCATACCT 59.832 50.000 0.00 0.00 44.38 3.08
2807 2821 2.547826 GCTACGACTTGGGTTCATACC 58.452 52.381 0.00 0.00 44.22 2.73


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

AutoCloner maintained by Alex Coulton.