Multiple sequence alignment - TraesCS6B01G234800

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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 TraesCS6B01G234800 chr6B 100.000 3653 0 0 1 3653 394539958 394536306 0.00000 6746.0
1 TraesCS6B01G234800 chr6B 97.664 2740 61 3 1 2739 264848880 264851617 0.00000 4702.0
2 TraesCS6B01G234800 chr6B 100.000 30 0 0 2776 2805 394423860 394423889 0.00051 56.5
3 TraesCS6B01G234800 chr7B 98.800 2749 30 3 1 2748 716815491 716812745 0.00000 4891.0
4 TraesCS6B01G234800 chr7B 97.091 2750 75 5 1 2748 417295158 417292412 0.00000 4630.0
5 TraesCS6B01G234800 chr7B 99.225 645 4 1 3009 3653 742980538 742981181 0.00000 1162.0
6 TraesCS6B01G234800 chr5B 98.654 2749 34 3 1 2748 127838682 127835936 0.00000 4868.0
7 TraesCS6B01G234800 chr1B 98.322 2742 41 5 1 2739 338939593 338942332 0.00000 4804.0
8 TraesCS6B01G234800 chr1B 97.659 2734 61 3 1 2733 135080135 135082866 0.00000 4691.0
9 TraesCS6B01G234800 chr1B 96.520 2730 88 2 1 2730 286033607 286036329 0.00000 4508.0
10 TraesCS6B01G234800 chr3A 98.211 2739 47 2 1 2739 51918944 51921680 0.00000 4785.0
11 TraesCS6B01G234800 chr7D 96.217 2749 96 6 1 2748 306769689 306766948 0.00000 4494.0
12 TraesCS6B01G234800 chr7D 99.222 643 5 0 3009 3651 381989487 381990129 0.00000 1160.0
13 TraesCS6B01G234800 chr7D 98.605 645 9 0 3009 3653 626669684 626670328 0.00000 1142.0
14 TraesCS6B01G234800 chrUn 99.070 645 6 0 3009 3653 45118997 45118353 0.00000 1158.0
15 TraesCS6B01G234800 chrUn 98.915 645 7 0 3009 3653 222665518 222666162 0.00000 1153.0
16 TraesCS6B01G234800 chr5A 98.915 645 7 0 3009 3653 300084388 300083744 0.00000 1153.0
17 TraesCS6B01G234800 chr4D 98.915 645 7 0 3009 3653 123308544 123309188 0.00000 1153.0
18 TraesCS6B01G234800 chr3D 98.760 645 8 0 3009 3653 154773131 154773775 0.00000 1147.0
19 TraesCS6B01G234800 chr2A 98.605 645 9 0 3009 3653 735204054 735203410 0.00000 1142.0


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 TraesCS6B01G234800 chr6B 394536306 394539958 3652 True 6746 6746 100.000 1 3653 1 chr6B.!!$R1 3652
1 TraesCS6B01G234800 chr6B 264848880 264851617 2737 False 4702 4702 97.664 1 2739 1 chr6B.!!$F1 2738
2 TraesCS6B01G234800 chr7B 716812745 716815491 2746 True 4891 4891 98.800 1 2748 1 chr7B.!!$R2 2747
3 TraesCS6B01G234800 chr7B 417292412 417295158 2746 True 4630 4630 97.091 1 2748 1 chr7B.!!$R1 2747
4 TraesCS6B01G234800 chr7B 742980538 742981181 643 False 1162 1162 99.225 3009 3653 1 chr7B.!!$F1 644
5 TraesCS6B01G234800 chr5B 127835936 127838682 2746 True 4868 4868 98.654 1 2748 1 chr5B.!!$R1 2747
6 TraesCS6B01G234800 chr1B 338939593 338942332 2739 False 4804 4804 98.322 1 2739 1 chr1B.!!$F3 2738
7 TraesCS6B01G234800 chr1B 135080135 135082866 2731 False 4691 4691 97.659 1 2733 1 chr1B.!!$F1 2732
8 TraesCS6B01G234800 chr1B 286033607 286036329 2722 False 4508 4508 96.520 1 2730 1 chr1B.!!$F2 2729
9 TraesCS6B01G234800 chr3A 51918944 51921680 2736 False 4785 4785 98.211 1 2739 1 chr3A.!!$F1 2738
10 TraesCS6B01G234800 chr7D 306766948 306769689 2741 True 4494 4494 96.217 1 2748 1 chr7D.!!$R1 2747
11 TraesCS6B01G234800 chr7D 381989487 381990129 642 False 1160 1160 99.222 3009 3651 1 chr7D.!!$F1 642
12 TraesCS6B01G234800 chr7D 626669684 626670328 644 False 1142 1142 98.605 3009 3653 1 chr7D.!!$F2 644
13 TraesCS6B01G234800 chrUn 45118353 45118997 644 True 1158 1158 99.070 3009 3653 1 chrUn.!!$R1 644
14 TraesCS6B01G234800 chrUn 222665518 222666162 644 False 1153 1153 98.915 3009 3653 1 chrUn.!!$F1 644
15 TraesCS6B01G234800 chr5A 300083744 300084388 644 True 1153 1153 98.915 3009 3653 1 chr5A.!!$R1 644
16 TraesCS6B01G234800 chr4D 123308544 123309188 644 False 1153 1153 98.915 3009 3653 1 chr4D.!!$F1 644
17 TraesCS6B01G234800 chr3D 154773131 154773775 644 False 1147 1147 98.760 3009 3653 1 chr3D.!!$F1 644
18 TraesCS6B01G234800 chr2A 735203410 735204054 644 True 1142 1142 98.605 3009 3653 1 chr2A.!!$R1 644

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
354 357 4.226846 TGATCTTCTCTTGGGCTCTGATTT 59.773 41.667 0.0 0.0 0.0 2.17 F
846 849 5.567037 TCCTTCGGATTGTGGAATGATAT 57.433 39.130 0.0 0.0 0.0 1.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2288 2294 1.777878 TCTGTGCAAAGTTTCCCCCTA 59.222 47.619 3.21 0.0 0.00 3.53 R
2836 2848 0.818296 GGACAGTCACCTGCGACTAT 59.182 55.000 2.17 0.0 44.49 2.12 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
354 357 4.226846 TGATCTTCTCTTGGGCTCTGATTT 59.773 41.667 0.00 0.00 0.00 2.17
846 849 5.567037 TCCTTCGGATTGTGGAATGATAT 57.433 39.130 0.00 0.00 0.00 1.63
1733 1736 7.664318 CCACCTTAACTGGGTATGTATATTTCC 59.336 40.741 0.00 0.00 35.00 3.13
2288 2294 7.294720 TGATCAAGGGGTGGTAACTCATATTAT 59.705 37.037 0.00 0.00 37.61 1.28
2657 2669 2.938956 ATTGCAGTAGGATAGTGGCC 57.061 50.000 0.00 0.00 42.28 5.36
2735 2747 0.994247 TCAGGACCCCACTACTCGTA 59.006 55.000 0.00 0.00 0.00 3.43
2736 2748 1.101331 CAGGACCCCACTACTCGTAC 58.899 60.000 0.00 0.00 0.00 3.67
2737 2749 0.393537 AGGACCCCACTACTCGTACG 60.394 60.000 9.53 9.53 0.00 3.67
2738 2750 0.678048 GGACCCCACTACTCGTACGT 60.678 60.000 16.05 0.00 0.00 3.57
2741 2753 2.747446 GACCCCACTACTCGTACGTTTA 59.253 50.000 16.05 6.78 0.00 2.01
2742 2754 3.356290 ACCCCACTACTCGTACGTTTAT 58.644 45.455 16.05 2.03 0.00 1.40
2744 2756 3.489738 CCCCACTACTCGTACGTTTATGG 60.490 52.174 16.05 16.13 0.00 2.74
2745 2757 3.489738 CCCACTACTCGTACGTTTATGGG 60.490 52.174 23.01 23.01 38.46 4.00
2747 2759 4.380867 CCACTACTCGTACGTTTATGGGTT 60.381 45.833 16.05 0.00 30.04 4.11
2748 2760 5.163663 CCACTACTCGTACGTTTATGGGTTA 60.164 44.000 16.05 0.00 30.04 2.85
2749 2761 6.321717 CACTACTCGTACGTTTATGGGTTAA 58.678 40.000 16.05 0.00 30.04 2.01
2750 2762 6.251376 CACTACTCGTACGTTTATGGGTTAAC 59.749 42.308 16.05 0.00 30.04 2.01
2751 2763 4.494484 ACTCGTACGTTTATGGGTTAACC 58.506 43.478 16.85 16.85 40.81 2.85
2752 2764 4.220602 ACTCGTACGTTTATGGGTTAACCT 59.779 41.667 23.69 8.10 41.11 3.50
2753 2765 5.146010 TCGTACGTTTATGGGTTAACCTT 57.854 39.130 23.69 14.07 41.11 3.50
2754 2766 6.071616 ACTCGTACGTTTATGGGTTAACCTTA 60.072 38.462 23.69 13.74 41.11 2.69
2755 2767 6.872920 TCGTACGTTTATGGGTTAACCTTAT 58.127 36.000 23.69 19.10 41.11 1.73
2756 2768 6.756074 TCGTACGTTTATGGGTTAACCTTATG 59.244 38.462 23.69 12.02 41.11 1.90
2757 2769 6.018832 CGTACGTTTATGGGTTAACCTTATGG 60.019 42.308 23.69 10.10 41.11 2.74
2758 2770 6.064735 ACGTTTATGGGTTAACCTTATGGA 57.935 37.500 23.69 9.50 41.11 3.41
2759 2771 6.117488 ACGTTTATGGGTTAACCTTATGGAG 58.883 40.000 23.69 13.06 41.11 3.86
2760 2772 5.008316 CGTTTATGGGTTAACCTTATGGAGC 59.992 44.000 23.69 5.52 41.11 4.70
2761 2773 5.987019 TTATGGGTTAACCTTATGGAGCT 57.013 39.130 23.69 0.00 41.11 4.09
2762 2774 4.881157 ATGGGTTAACCTTATGGAGCTT 57.119 40.909 23.69 0.72 41.11 3.74
2763 2775 3.963129 TGGGTTAACCTTATGGAGCTTG 58.037 45.455 23.69 0.00 41.11 4.01
2764 2776 3.332485 TGGGTTAACCTTATGGAGCTTGT 59.668 43.478 23.69 0.00 41.11 3.16
2765 2777 3.694566 GGGTTAACCTTATGGAGCTTGTG 59.305 47.826 23.69 0.00 37.04 3.33
2766 2778 3.694566 GGTTAACCTTATGGAGCTTGTGG 59.305 47.826 17.83 0.00 37.04 4.17
2767 2779 2.514458 AACCTTATGGAGCTTGTGGG 57.486 50.000 0.81 0.00 37.04 4.61
2768 2780 1.372501 ACCTTATGGAGCTTGTGGGT 58.627 50.000 0.81 0.00 37.04 4.51
2769 2781 1.710809 ACCTTATGGAGCTTGTGGGTT 59.289 47.619 0.81 0.00 37.04 4.11
2770 2782 2.916934 ACCTTATGGAGCTTGTGGGTTA 59.083 45.455 0.81 0.00 37.04 2.85
2771 2783 3.332485 ACCTTATGGAGCTTGTGGGTTAA 59.668 43.478 0.81 0.00 37.04 2.01
2772 2784 3.694566 CCTTATGGAGCTTGTGGGTTAAC 59.305 47.826 0.00 0.00 34.57 2.01
2773 2785 2.215942 ATGGAGCTTGTGGGTTAACC 57.784 50.000 16.85 16.85 40.81 2.85
2774 2786 1.145571 TGGAGCTTGTGGGTTAACCT 58.854 50.000 23.69 2.05 41.11 3.50
2775 2787 1.497286 TGGAGCTTGTGGGTTAACCTT 59.503 47.619 23.69 2.00 41.11 3.50
2776 2788 1.886542 GGAGCTTGTGGGTTAACCTTG 59.113 52.381 23.69 10.63 41.11 3.61
2777 2789 2.488347 GGAGCTTGTGGGTTAACCTTGA 60.488 50.000 23.69 6.06 41.11 3.02
2778 2790 2.552743 GAGCTTGTGGGTTAACCTTGAC 59.447 50.000 23.69 17.17 41.11 3.18
2779 2791 2.174854 AGCTTGTGGGTTAACCTTGACT 59.825 45.455 23.69 11.22 41.11 3.41
2780 2792 3.393278 AGCTTGTGGGTTAACCTTGACTA 59.607 43.478 23.69 13.31 41.11 2.59
2781 2793 3.751698 GCTTGTGGGTTAACCTTGACTAG 59.248 47.826 23.69 20.86 41.11 2.57
2794 2806 3.529533 CTTGACTAGGAGATGCTTGTGG 58.470 50.000 0.00 0.00 0.00 4.17
2795 2807 2.820178 TGACTAGGAGATGCTTGTGGA 58.180 47.619 0.00 0.00 0.00 4.02
2796 2808 2.497675 TGACTAGGAGATGCTTGTGGAC 59.502 50.000 0.00 0.00 0.00 4.02
2797 2809 2.763448 GACTAGGAGATGCTTGTGGACT 59.237 50.000 0.00 0.00 0.00 3.85
2798 2810 3.954904 GACTAGGAGATGCTTGTGGACTA 59.045 47.826 0.00 0.00 0.00 2.59
2799 2811 4.353777 ACTAGGAGATGCTTGTGGACTAA 58.646 43.478 0.00 0.00 0.00 2.24
2800 2812 3.618690 AGGAGATGCTTGTGGACTAAC 57.381 47.619 0.00 0.00 0.00 2.34
2801 2813 2.237392 AGGAGATGCTTGTGGACTAACC 59.763 50.000 0.00 0.00 39.54 2.85
2802 2814 2.237392 GGAGATGCTTGTGGACTAACCT 59.763 50.000 0.00 0.00 39.86 3.50
2803 2815 3.307762 GGAGATGCTTGTGGACTAACCTT 60.308 47.826 0.00 0.00 39.86 3.50
2804 2816 3.679389 AGATGCTTGTGGACTAACCTTG 58.321 45.455 0.00 0.00 39.86 3.61
2805 2817 3.073062 AGATGCTTGTGGACTAACCTTGT 59.927 43.478 0.00 0.00 39.86 3.16
2806 2818 2.571212 TGCTTGTGGACTAACCTTGTG 58.429 47.619 0.00 0.00 39.86 3.33
2807 2819 1.880027 GCTTGTGGACTAACCTTGTGG 59.120 52.381 0.00 0.00 39.86 4.17
2808 2820 2.486548 GCTTGTGGACTAACCTTGTGGA 60.487 50.000 0.00 0.00 39.86 4.02
2809 2821 3.810743 GCTTGTGGACTAACCTTGTGGAT 60.811 47.826 0.00 0.00 39.86 3.41
2810 2822 3.417069 TGTGGACTAACCTTGTGGATG 57.583 47.619 0.00 0.00 39.86 3.51
2811 2823 2.084546 GTGGACTAACCTTGTGGATGC 58.915 52.381 0.00 0.00 39.86 3.91
2812 2824 1.985159 TGGACTAACCTTGTGGATGCT 59.015 47.619 0.00 0.00 39.86 3.79
2813 2825 3.055385 GTGGACTAACCTTGTGGATGCTA 60.055 47.826 0.00 0.00 39.86 3.49
2814 2826 3.585289 TGGACTAACCTTGTGGATGCTAA 59.415 43.478 0.00 0.00 39.86 3.09
2815 2827 4.227300 TGGACTAACCTTGTGGATGCTAAT 59.773 41.667 0.00 0.00 39.86 1.73
2816 2828 4.576463 GGACTAACCTTGTGGATGCTAATG 59.424 45.833 0.00 0.00 37.04 1.90
2817 2829 4.526970 ACTAACCTTGTGGATGCTAATGG 58.473 43.478 0.00 0.00 37.04 3.16
2818 2830 2.442236 ACCTTGTGGATGCTAATGGG 57.558 50.000 0.00 0.00 37.04 4.00
2819 2831 1.640670 ACCTTGTGGATGCTAATGGGT 59.359 47.619 0.00 0.00 37.04 4.51
2820 2832 2.301346 CCTTGTGGATGCTAATGGGTC 58.699 52.381 0.00 0.00 34.57 4.46
2821 2833 2.357050 CCTTGTGGATGCTAATGGGTCA 60.357 50.000 0.00 0.00 34.57 4.02
2822 2834 2.715749 TGTGGATGCTAATGGGTCAG 57.284 50.000 0.00 0.00 0.00 3.51
2823 2835 2.195727 TGTGGATGCTAATGGGTCAGA 58.804 47.619 0.00 0.00 0.00 3.27
2824 2836 2.779430 TGTGGATGCTAATGGGTCAGAT 59.221 45.455 0.00 0.00 0.00 2.90
2825 2837 3.181451 TGTGGATGCTAATGGGTCAGATC 60.181 47.826 0.00 0.00 0.00 2.75
2826 2838 3.047857 TGGATGCTAATGGGTCAGATCA 58.952 45.455 0.00 0.00 0.00 2.92
2827 2839 3.459227 TGGATGCTAATGGGTCAGATCAA 59.541 43.478 0.00 0.00 0.00 2.57
2828 2840 4.070716 GGATGCTAATGGGTCAGATCAAG 58.929 47.826 0.00 0.00 0.00 3.02
2829 2841 2.923121 TGCTAATGGGTCAGATCAAGC 58.077 47.619 0.00 0.00 0.00 4.01
2830 2842 2.507058 TGCTAATGGGTCAGATCAAGCT 59.493 45.455 0.00 0.00 0.00 3.74
2831 2843 3.054139 TGCTAATGGGTCAGATCAAGCTT 60.054 43.478 0.00 0.00 0.00 3.74
2832 2844 3.950395 GCTAATGGGTCAGATCAAGCTTT 59.050 43.478 0.00 0.00 0.00 3.51
2833 2845 4.036144 GCTAATGGGTCAGATCAAGCTTTC 59.964 45.833 0.00 0.00 0.00 2.62
2834 2846 4.313020 AATGGGTCAGATCAAGCTTTCT 57.687 40.909 0.00 0.00 0.00 2.52
2835 2847 3.340814 TGGGTCAGATCAAGCTTTCTC 57.659 47.619 0.00 0.00 0.00 2.87
2836 2848 2.639347 TGGGTCAGATCAAGCTTTCTCA 59.361 45.455 0.00 0.00 0.00 3.27
2837 2849 3.265221 TGGGTCAGATCAAGCTTTCTCAT 59.735 43.478 0.00 0.00 0.00 2.90
2838 2850 4.471025 TGGGTCAGATCAAGCTTTCTCATA 59.529 41.667 0.00 0.00 0.00 2.15
2839 2851 5.055812 GGGTCAGATCAAGCTTTCTCATAG 58.944 45.833 0.00 0.00 0.00 2.23
2840 2852 5.396213 GGGTCAGATCAAGCTTTCTCATAGT 60.396 44.000 0.00 0.00 0.00 2.12
2841 2853 5.752955 GGTCAGATCAAGCTTTCTCATAGTC 59.247 44.000 0.00 0.00 0.00 2.59
2842 2854 5.458452 GTCAGATCAAGCTTTCTCATAGTCG 59.542 44.000 0.00 0.00 0.00 4.18
2843 2855 4.208873 CAGATCAAGCTTTCTCATAGTCGC 59.791 45.833 0.00 0.00 0.00 5.19
2844 2856 3.592898 TCAAGCTTTCTCATAGTCGCA 57.407 42.857 0.00 0.00 0.00 5.10
2845 2857 3.515630 TCAAGCTTTCTCATAGTCGCAG 58.484 45.455 0.00 0.00 0.00 5.18
2846 2858 2.593346 AGCTTTCTCATAGTCGCAGG 57.407 50.000 0.00 0.00 0.00 4.85
2847 2859 1.827969 AGCTTTCTCATAGTCGCAGGT 59.172 47.619 0.00 0.00 0.00 4.00
2848 2860 1.929836 GCTTTCTCATAGTCGCAGGTG 59.070 52.381 0.00 0.00 0.00 4.00
2849 2861 2.417379 GCTTTCTCATAGTCGCAGGTGA 60.417 50.000 0.00 0.00 0.00 4.02
2850 2862 2.941453 TTCTCATAGTCGCAGGTGAC 57.059 50.000 4.86 4.86 39.21 3.67
2862 2874 3.068562 AGGTGACTGTCCCAGGTAC 57.931 57.895 14.89 2.48 41.13 3.34
2863 2875 0.190069 AGGTGACTGTCCCAGGTACA 59.810 55.000 14.89 0.00 41.13 2.90
2864 2876 0.320697 GGTGACTGTCCCAGGTACAC 59.679 60.000 5.17 0.00 35.51 2.90
2865 2877 1.045407 GTGACTGTCCCAGGTACACA 58.955 55.000 5.17 0.00 35.80 3.72
2866 2878 1.045407 TGACTGTCCCAGGTACACAC 58.955 55.000 5.17 0.00 35.51 3.82
2867 2879 1.045407 GACTGTCCCAGGTACACACA 58.955 55.000 0.00 0.00 35.51 3.72
2868 2880 1.623811 GACTGTCCCAGGTACACACAT 59.376 52.381 0.00 0.00 35.51 3.21
2869 2881 1.623811 ACTGTCCCAGGTACACACATC 59.376 52.381 0.00 0.00 35.51 3.06
2870 2882 1.623311 CTGTCCCAGGTACACACATCA 59.377 52.381 0.00 0.00 0.00 3.07
2871 2883 2.038426 CTGTCCCAGGTACACACATCAA 59.962 50.000 0.00 0.00 0.00 2.57
2872 2884 2.439880 TGTCCCAGGTACACACATCAAA 59.560 45.455 0.00 0.00 0.00 2.69
2873 2885 3.117851 TGTCCCAGGTACACACATCAAAA 60.118 43.478 0.00 0.00 0.00 2.44
2874 2886 4.079253 GTCCCAGGTACACACATCAAAAT 58.921 43.478 0.00 0.00 0.00 1.82
2875 2887 4.078537 TCCCAGGTACACACATCAAAATG 58.921 43.478 0.00 0.00 38.93 2.32
2876 2888 4.078537 CCCAGGTACACACATCAAAATGA 58.921 43.478 0.00 0.00 36.67 2.57
2877 2889 4.082787 CCCAGGTACACACATCAAAATGAC 60.083 45.833 0.00 0.00 36.67 3.06
2878 2890 4.518590 CCAGGTACACACATCAAAATGACA 59.481 41.667 0.00 0.00 36.67 3.58
2879 2891 5.009510 CCAGGTACACACATCAAAATGACAA 59.990 40.000 0.00 0.00 36.67 3.18
2880 2892 6.460814 CCAGGTACACACATCAAAATGACAAA 60.461 38.462 0.00 0.00 36.67 2.83
2881 2893 7.147312 CAGGTACACACATCAAAATGACAAAT 58.853 34.615 0.00 0.00 36.67 2.32
2882 2894 7.652909 CAGGTACACACATCAAAATGACAAATT 59.347 33.333 0.00 0.00 36.67 1.82
2883 2895 8.855110 AGGTACACACATCAAAATGACAAATTA 58.145 29.630 0.00 0.00 36.67 1.40
2884 2896 9.638239 GGTACACACATCAAAATGACAAATTAT 57.362 29.630 0.00 0.00 36.67 1.28
2886 2898 8.537049 ACACACATCAAAATGACAAATTATGG 57.463 30.769 0.00 0.00 36.67 2.74
2887 2899 7.603404 ACACACATCAAAATGACAAATTATGGG 59.397 33.333 0.00 0.00 36.67 4.00
2888 2900 7.818446 CACACATCAAAATGACAAATTATGGGA 59.182 33.333 0.00 0.00 36.67 4.37
2889 2901 8.036575 ACACATCAAAATGACAAATTATGGGAG 58.963 33.333 0.00 0.00 36.67 4.30
2890 2902 7.010738 CACATCAAAATGACAAATTATGGGAGC 59.989 37.037 0.00 0.00 36.67 4.70
2891 2903 5.976458 TCAAAATGACAAATTATGGGAGCC 58.024 37.500 0.00 0.00 0.00 4.70
2892 2904 5.483231 TCAAAATGACAAATTATGGGAGCCA 59.517 36.000 0.00 0.00 38.19 4.75
2893 2905 5.343307 AAATGACAAATTATGGGAGCCAC 57.657 39.130 0.00 0.00 35.80 5.01
2894 2906 3.448093 TGACAAATTATGGGAGCCACA 57.552 42.857 0.00 0.00 35.80 4.17
2895 2907 3.088532 TGACAAATTATGGGAGCCACAC 58.911 45.455 0.00 0.00 35.80 3.82
2896 2908 2.427095 GACAAATTATGGGAGCCACACC 59.573 50.000 0.00 0.00 35.80 4.16
2897 2909 2.225242 ACAAATTATGGGAGCCACACCA 60.225 45.455 0.00 0.00 41.76 4.17
2898 2910 2.143876 AATTATGGGAGCCACACCAC 57.856 50.000 0.00 0.00 40.05 4.16
2899 2911 0.998928 ATTATGGGAGCCACACCACA 59.001 50.000 0.00 0.00 40.05 4.17
2900 2912 0.327924 TTATGGGAGCCACACCACAG 59.672 55.000 0.00 0.00 40.05 3.66
2901 2913 0.840288 TATGGGAGCCACACCACAGT 60.840 55.000 0.00 0.00 40.05 3.55
2915 2927 5.296813 CACCACAGTGCCTTAAATAGAAC 57.703 43.478 0.00 0.00 37.14 3.01
2916 2928 5.003804 CACCACAGTGCCTTAAATAGAACT 58.996 41.667 0.00 0.00 37.14 3.01
2917 2929 5.122396 CACCACAGTGCCTTAAATAGAACTC 59.878 44.000 0.00 0.00 37.14 3.01
2918 2930 4.636206 CCACAGTGCCTTAAATAGAACTCC 59.364 45.833 0.00 0.00 0.00 3.85
2919 2931 4.636206 CACAGTGCCTTAAATAGAACTCCC 59.364 45.833 0.00 0.00 0.00 4.30
2920 2932 4.536489 ACAGTGCCTTAAATAGAACTCCCT 59.464 41.667 0.00 0.00 0.00 4.20
2921 2933 4.878397 CAGTGCCTTAAATAGAACTCCCTG 59.122 45.833 0.00 0.00 0.00 4.45
2922 2934 4.536489 AGTGCCTTAAATAGAACTCCCTGT 59.464 41.667 0.00 0.00 0.00 4.00
2923 2935 5.014228 AGTGCCTTAAATAGAACTCCCTGTT 59.986 40.000 0.00 0.00 42.38 3.16
2935 2947 5.941555 AACTCCCTGTTCTTAGACCATAG 57.058 43.478 0.00 0.00 32.63 2.23
2936 2948 4.290942 ACTCCCTGTTCTTAGACCATAGG 58.709 47.826 0.00 0.00 0.00 2.57
2937 2949 3.643792 CTCCCTGTTCTTAGACCATAGGG 59.356 52.174 8.85 8.85 43.75 3.53
2938 2950 3.654273 CCCTGTTCTTAGACCATAGGGA 58.346 50.000 9.37 0.00 44.90 4.20
2939 2951 3.643792 CCCTGTTCTTAGACCATAGGGAG 59.356 52.174 9.37 0.00 44.90 4.30
2940 2952 4.290942 CCTGTTCTTAGACCATAGGGAGT 58.709 47.826 0.00 0.00 38.05 3.85
2941 2953 4.100189 CCTGTTCTTAGACCATAGGGAGTG 59.900 50.000 0.00 0.00 38.05 3.51
2942 2954 4.030913 TGTTCTTAGACCATAGGGAGTGG 58.969 47.826 0.00 0.00 42.55 4.00
2949 2961 2.399580 ACCATAGGGAGTGGTCTTAGC 58.600 52.381 0.00 0.00 46.79 3.09
2950 2962 2.022918 ACCATAGGGAGTGGTCTTAGCT 60.023 50.000 0.00 0.00 46.79 3.32
2951 2963 3.206866 ACCATAGGGAGTGGTCTTAGCTA 59.793 47.826 0.00 0.00 46.79 3.32
2952 2964 3.829601 CCATAGGGAGTGGTCTTAGCTAG 59.170 52.174 0.00 0.00 35.59 3.42
2953 2965 2.463047 AGGGAGTGGTCTTAGCTAGG 57.537 55.000 0.00 0.00 0.00 3.02
2954 2966 1.930914 AGGGAGTGGTCTTAGCTAGGA 59.069 52.381 0.59 0.59 0.00 2.94
2955 2967 2.520549 AGGGAGTGGTCTTAGCTAGGAT 59.479 50.000 9.00 0.00 0.00 3.24
2956 2968 3.727923 AGGGAGTGGTCTTAGCTAGGATA 59.272 47.826 9.00 0.00 0.00 2.59
2957 2969 4.170251 AGGGAGTGGTCTTAGCTAGGATAA 59.830 45.833 9.00 0.00 0.00 1.75
2958 2970 5.088026 GGGAGTGGTCTTAGCTAGGATAAT 58.912 45.833 9.00 1.11 0.00 1.28
2959 2971 6.046881 AGGGAGTGGTCTTAGCTAGGATAATA 59.953 42.308 9.00 0.00 0.00 0.98
2960 2972 6.898521 GGGAGTGGTCTTAGCTAGGATAATAT 59.101 42.308 9.00 0.00 0.00 1.28
2961 2973 7.400627 GGGAGTGGTCTTAGCTAGGATAATATT 59.599 40.741 9.00 0.00 0.00 1.28
2962 2974 9.476928 GGAGTGGTCTTAGCTAGGATAATATTA 57.523 37.037 9.00 0.00 0.00 0.98
3402 3414 3.138468 AGGTGGCTCTAAACTCAGGTTTT 59.862 43.478 0.00 0.00 42.28 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
354 357 2.432444 CAAGGGCTTTCCGATTGTGTA 58.568 47.619 0.00 0.00 41.52 2.90
591 594 4.206244 AGACTAGGGATAAGCTGGATGT 57.794 45.455 0.00 0.00 0.00 3.06
592 595 4.159506 GCTAGACTAGGGATAAGCTGGATG 59.840 50.000 11.48 0.00 0.00 3.51
846 849 6.824958 AAATCACTACTATTAGGCCCTTCA 57.175 37.500 0.00 0.00 0.00 3.02
1733 1736 3.525268 AGCCAAAACTGTGAAAACCTG 57.475 42.857 0.00 0.00 0.00 4.00
2288 2294 1.777878 TCTGTGCAAAGTTTCCCCCTA 59.222 47.619 3.21 0.00 0.00 3.53
2430 2440 5.622346 AAAACATTAAACTGAAGGCCCAA 57.378 34.783 0.00 0.00 0.00 4.12
2657 2669 5.221382 CCATAATGCCTTTCAAATCCTCCTG 60.221 44.000 0.00 0.00 0.00 3.86
2735 2747 6.064735 TCCATAAGGTTAACCCATAAACGT 57.935 37.500 21.30 0.00 36.26 3.99
2736 2748 5.008316 GCTCCATAAGGTTAACCCATAAACG 59.992 44.000 21.30 6.81 36.26 3.60
2737 2749 6.127101 AGCTCCATAAGGTTAACCCATAAAC 58.873 40.000 21.30 4.70 36.42 2.01
2738 2750 6.335781 AGCTCCATAAGGTTAACCCATAAA 57.664 37.500 21.30 2.89 36.42 1.40
2741 2753 4.017499 ACAAGCTCCATAAGGTTAACCCAT 60.017 41.667 21.30 12.94 43.77 4.00
2742 2754 3.332485 ACAAGCTCCATAAGGTTAACCCA 59.668 43.478 21.30 9.97 43.77 4.51
2744 2756 3.694566 CCACAAGCTCCATAAGGTTAACC 59.305 47.826 17.41 17.41 43.77 2.85
2745 2757 3.694566 CCCACAAGCTCCATAAGGTTAAC 59.305 47.826 0.00 0.00 43.77 2.01
2747 2759 2.916934 ACCCACAAGCTCCATAAGGTTA 59.083 45.455 0.00 0.00 43.77 2.85
2748 2760 1.710809 ACCCACAAGCTCCATAAGGTT 59.289 47.619 0.00 0.00 46.50 3.50
2749 2761 1.372501 ACCCACAAGCTCCATAAGGT 58.627 50.000 0.00 0.00 37.29 3.50
2750 2762 2.514458 AACCCACAAGCTCCATAAGG 57.486 50.000 0.00 0.00 0.00 2.69
2751 2763 3.694566 GGTTAACCCACAAGCTCCATAAG 59.305 47.826 14.16 0.00 0.00 1.73
2752 2764 3.332485 AGGTTAACCCACAAGCTCCATAA 59.668 43.478 21.30 0.00 36.42 1.90
2753 2765 2.916934 AGGTTAACCCACAAGCTCCATA 59.083 45.455 21.30 0.00 36.42 2.74
2754 2766 1.710809 AGGTTAACCCACAAGCTCCAT 59.289 47.619 21.30 0.00 36.42 3.41
2755 2767 1.145571 AGGTTAACCCACAAGCTCCA 58.854 50.000 21.30 0.00 36.42 3.86
2756 2768 1.886542 CAAGGTTAACCCACAAGCTCC 59.113 52.381 21.30 0.00 32.78 4.70
2757 2769 2.552743 GTCAAGGTTAACCCACAAGCTC 59.447 50.000 21.30 0.91 32.78 4.09
2758 2770 2.174854 AGTCAAGGTTAACCCACAAGCT 59.825 45.455 21.30 9.25 35.33 3.74
2759 2771 2.583143 AGTCAAGGTTAACCCACAAGC 58.417 47.619 21.30 7.15 36.42 4.01
2760 2772 4.041198 TCCTAGTCAAGGTTAACCCACAAG 59.959 45.833 21.30 10.90 46.62 3.16
2761 2773 3.975312 TCCTAGTCAAGGTTAACCCACAA 59.025 43.478 21.30 1.78 46.62 3.33
2762 2774 3.581332 CTCCTAGTCAAGGTTAACCCACA 59.419 47.826 21.30 1.83 46.62 4.17
2763 2775 3.836562 TCTCCTAGTCAAGGTTAACCCAC 59.163 47.826 21.30 14.81 46.62 4.61
2764 2776 4.136341 TCTCCTAGTCAAGGTTAACCCA 57.864 45.455 21.30 2.61 46.62 4.51
2765 2777 4.683671 GCATCTCCTAGTCAAGGTTAACCC 60.684 50.000 21.30 5.76 46.62 4.11
2766 2778 4.162509 AGCATCTCCTAGTCAAGGTTAACC 59.837 45.833 17.41 17.41 46.62 2.85
2767 2779 5.346181 AGCATCTCCTAGTCAAGGTTAAC 57.654 43.478 0.00 0.00 46.62 2.01
2768 2780 5.248477 ACAAGCATCTCCTAGTCAAGGTTAA 59.752 40.000 0.00 0.00 46.62 2.01
2769 2781 4.777896 ACAAGCATCTCCTAGTCAAGGTTA 59.222 41.667 0.00 0.00 46.62 2.85
2770 2782 3.584848 ACAAGCATCTCCTAGTCAAGGTT 59.415 43.478 0.00 0.00 46.62 3.50
2771 2783 3.055530 CACAAGCATCTCCTAGTCAAGGT 60.056 47.826 0.00 0.00 46.62 3.50
2773 2785 3.196469 TCCACAAGCATCTCCTAGTCAAG 59.804 47.826 0.00 0.00 0.00 3.02
2774 2786 3.055819 GTCCACAAGCATCTCCTAGTCAA 60.056 47.826 0.00 0.00 0.00 3.18
2775 2787 2.497675 GTCCACAAGCATCTCCTAGTCA 59.502 50.000 0.00 0.00 0.00 3.41
2776 2788 2.763448 AGTCCACAAGCATCTCCTAGTC 59.237 50.000 0.00 0.00 0.00 2.59
2777 2789 2.826488 AGTCCACAAGCATCTCCTAGT 58.174 47.619 0.00 0.00 0.00 2.57
2778 2790 4.442192 GGTTAGTCCACAAGCATCTCCTAG 60.442 50.000 0.00 0.00 35.97 3.02
2779 2791 3.451178 GGTTAGTCCACAAGCATCTCCTA 59.549 47.826 0.00 0.00 35.97 2.94
2780 2792 2.237392 GGTTAGTCCACAAGCATCTCCT 59.763 50.000 0.00 0.00 35.97 3.69
2781 2793 2.237392 AGGTTAGTCCACAAGCATCTCC 59.763 50.000 0.00 0.00 39.02 3.71
2782 2794 3.618690 AGGTTAGTCCACAAGCATCTC 57.381 47.619 0.00 0.00 39.02 2.75
2783 2795 3.073062 ACAAGGTTAGTCCACAAGCATCT 59.927 43.478 0.00 0.00 39.02 2.90
2784 2796 3.189287 CACAAGGTTAGTCCACAAGCATC 59.811 47.826 0.00 0.00 39.02 3.91
2785 2797 3.149196 CACAAGGTTAGTCCACAAGCAT 58.851 45.455 0.00 0.00 39.02 3.79
2786 2798 2.571212 CACAAGGTTAGTCCACAAGCA 58.429 47.619 0.00 0.00 39.02 3.91
2787 2799 1.880027 CCACAAGGTTAGTCCACAAGC 59.120 52.381 0.00 0.00 39.02 4.01
2788 2800 3.485463 TCCACAAGGTTAGTCCACAAG 57.515 47.619 0.00 0.00 39.02 3.16
2789 2801 3.750371 CATCCACAAGGTTAGTCCACAA 58.250 45.455 0.00 0.00 39.02 3.33
2790 2802 2.552155 GCATCCACAAGGTTAGTCCACA 60.552 50.000 0.00 0.00 39.02 4.17
2791 2803 2.084546 GCATCCACAAGGTTAGTCCAC 58.915 52.381 0.00 0.00 39.02 4.02
2792 2804 1.985159 AGCATCCACAAGGTTAGTCCA 59.015 47.619 0.00 0.00 39.02 4.02
2793 2805 2.789409 AGCATCCACAAGGTTAGTCC 57.211 50.000 0.00 0.00 35.89 3.85
2794 2806 4.576463 CCATTAGCATCCACAAGGTTAGTC 59.424 45.833 0.00 0.00 35.89 2.59
2795 2807 4.526970 CCATTAGCATCCACAAGGTTAGT 58.473 43.478 0.00 0.00 35.89 2.24
2796 2808 3.885297 CCCATTAGCATCCACAAGGTTAG 59.115 47.826 0.00 0.00 35.89 2.34
2797 2809 3.268334 ACCCATTAGCATCCACAAGGTTA 59.732 43.478 0.00 0.00 35.89 2.85
2798 2810 2.042979 ACCCATTAGCATCCACAAGGTT 59.957 45.455 0.00 0.00 35.89 3.50
2799 2811 1.640670 ACCCATTAGCATCCACAAGGT 59.359 47.619 0.00 0.00 35.89 3.50
2800 2812 2.301346 GACCCATTAGCATCCACAAGG 58.699 52.381 0.00 0.00 0.00 3.61
2801 2813 2.947652 CTGACCCATTAGCATCCACAAG 59.052 50.000 0.00 0.00 0.00 3.16
2802 2814 2.575735 TCTGACCCATTAGCATCCACAA 59.424 45.455 0.00 0.00 0.00 3.33
2803 2815 2.195727 TCTGACCCATTAGCATCCACA 58.804 47.619 0.00 0.00 0.00 4.17
2804 2816 3.181451 TGATCTGACCCATTAGCATCCAC 60.181 47.826 0.00 0.00 0.00 4.02
2805 2817 3.047857 TGATCTGACCCATTAGCATCCA 58.952 45.455 0.00 0.00 0.00 3.41
2806 2818 3.777106 TGATCTGACCCATTAGCATCC 57.223 47.619 0.00 0.00 0.00 3.51
2807 2819 3.501445 GCTTGATCTGACCCATTAGCATC 59.499 47.826 0.00 0.00 0.00 3.91
2808 2820 3.137913 AGCTTGATCTGACCCATTAGCAT 59.862 43.478 0.00 0.00 0.00 3.79
2809 2821 2.507058 AGCTTGATCTGACCCATTAGCA 59.493 45.455 0.00 0.00 0.00 3.49
2810 2822 3.205784 AGCTTGATCTGACCCATTAGC 57.794 47.619 0.00 0.00 0.00 3.09
2811 2823 5.435291 AGAAAGCTTGATCTGACCCATTAG 58.565 41.667 0.00 0.00 0.00 1.73
2812 2824 5.045651 TGAGAAAGCTTGATCTGACCCATTA 60.046 40.000 5.38 0.00 0.00 1.90
2813 2825 4.263639 TGAGAAAGCTTGATCTGACCCATT 60.264 41.667 5.38 0.00 0.00 3.16
2814 2826 3.265221 TGAGAAAGCTTGATCTGACCCAT 59.735 43.478 5.38 0.00 0.00 4.00
2815 2827 2.639347 TGAGAAAGCTTGATCTGACCCA 59.361 45.455 5.38 0.00 0.00 4.51
2816 2828 3.340814 TGAGAAAGCTTGATCTGACCC 57.659 47.619 5.38 0.00 0.00 4.46
2817 2829 5.669477 ACTATGAGAAAGCTTGATCTGACC 58.331 41.667 5.38 0.00 0.00 4.02
2818 2830 5.458452 CGACTATGAGAAAGCTTGATCTGAC 59.542 44.000 5.38 0.00 0.00 3.51
2819 2831 5.586339 CGACTATGAGAAAGCTTGATCTGA 58.414 41.667 5.38 0.00 0.00 3.27
2820 2832 4.208873 GCGACTATGAGAAAGCTTGATCTG 59.791 45.833 5.38 2.77 0.00 2.90
2821 2833 4.142071 TGCGACTATGAGAAAGCTTGATCT 60.142 41.667 0.00 0.00 0.00 2.75
2822 2834 4.115516 TGCGACTATGAGAAAGCTTGATC 58.884 43.478 0.00 1.53 0.00 2.92
2823 2835 4.118410 CTGCGACTATGAGAAAGCTTGAT 58.882 43.478 0.00 0.00 0.00 2.57
2824 2836 3.515630 CTGCGACTATGAGAAAGCTTGA 58.484 45.455 0.00 0.00 0.00 3.02
2825 2837 2.606725 CCTGCGACTATGAGAAAGCTTG 59.393 50.000 0.00 0.00 0.00 4.01
2826 2838 2.234908 ACCTGCGACTATGAGAAAGCTT 59.765 45.455 0.00 0.00 0.00 3.74
2827 2839 1.827969 ACCTGCGACTATGAGAAAGCT 59.172 47.619 0.00 0.00 0.00 3.74
2828 2840 1.929836 CACCTGCGACTATGAGAAAGC 59.070 52.381 0.00 0.00 0.00 3.51
2829 2841 3.119316 AGTCACCTGCGACTATGAGAAAG 60.119 47.826 0.00 0.00 44.46 2.62
2830 2842 2.826128 AGTCACCTGCGACTATGAGAAA 59.174 45.455 0.00 0.00 44.46 2.52
2831 2843 2.164422 CAGTCACCTGCGACTATGAGAA 59.836 50.000 0.00 0.00 44.49 2.87
2832 2844 1.745653 CAGTCACCTGCGACTATGAGA 59.254 52.381 0.00 0.00 44.49 3.27
2833 2845 1.474478 ACAGTCACCTGCGACTATGAG 59.526 52.381 0.00 0.00 44.49 2.90
2834 2846 1.472878 GACAGTCACCTGCGACTATGA 59.527 52.381 0.00 0.00 44.49 2.15
2835 2847 1.469940 GGACAGTCACCTGCGACTATG 60.470 57.143 2.17 0.00 44.49 2.23
2836 2848 0.818296 GGACAGTCACCTGCGACTAT 59.182 55.000 2.17 0.00 44.49 2.12
2837 2849 1.248785 GGGACAGTCACCTGCGACTA 61.249 60.000 2.17 0.00 44.49 2.59
2839 2851 2.048127 GGGACAGTCACCTGCGAC 60.048 66.667 2.17 0.00 42.81 5.19
2840 2852 2.523168 TGGGACAGTCACCTGCGA 60.523 61.111 0.00 0.00 42.81 5.10
2851 2863 1.723288 TGATGTGTGTACCTGGGACA 58.277 50.000 7.92 7.92 0.00 4.02
2852 2864 2.851263 TTGATGTGTGTACCTGGGAC 57.149 50.000 0.79 0.79 0.00 4.46
2853 2865 3.866703 TTTTGATGTGTGTACCTGGGA 57.133 42.857 0.00 0.00 0.00 4.37
2854 2866 4.078537 TCATTTTGATGTGTGTACCTGGG 58.921 43.478 0.00 0.00 0.00 4.45
2855 2867 4.518590 TGTCATTTTGATGTGTGTACCTGG 59.481 41.667 0.00 0.00 0.00 4.45
2856 2868 5.687770 TGTCATTTTGATGTGTGTACCTG 57.312 39.130 0.00 0.00 0.00 4.00
2857 2869 6.707440 TTTGTCATTTTGATGTGTGTACCT 57.293 33.333 0.00 0.00 0.00 3.08
2858 2870 7.945033 AATTTGTCATTTTGATGTGTGTACC 57.055 32.000 0.00 0.00 0.00 3.34
2860 2872 9.636879 CCATAATTTGTCATTTTGATGTGTGTA 57.363 29.630 0.00 0.00 0.00 2.90
2861 2873 7.603404 CCCATAATTTGTCATTTTGATGTGTGT 59.397 33.333 0.00 0.00 0.00 3.72
2862 2874 7.818446 TCCCATAATTTGTCATTTTGATGTGTG 59.182 33.333 0.00 0.00 0.00 3.82
2863 2875 7.905265 TCCCATAATTTGTCATTTTGATGTGT 58.095 30.769 0.00 0.00 0.00 3.72
2864 2876 7.010738 GCTCCCATAATTTGTCATTTTGATGTG 59.989 37.037 0.00 0.00 0.00 3.21
2865 2877 7.043565 GCTCCCATAATTTGTCATTTTGATGT 58.956 34.615 0.00 0.00 0.00 3.06
2866 2878 6.480981 GGCTCCCATAATTTGTCATTTTGATG 59.519 38.462 0.00 0.00 0.00 3.07
2867 2879 6.156602 TGGCTCCCATAATTTGTCATTTTGAT 59.843 34.615 0.00 0.00 0.00 2.57
2868 2880 5.483231 TGGCTCCCATAATTTGTCATTTTGA 59.517 36.000 0.00 0.00 0.00 2.69
2869 2881 5.581874 GTGGCTCCCATAATTTGTCATTTTG 59.418 40.000 0.00 0.00 35.28 2.44
2870 2882 5.248020 TGTGGCTCCCATAATTTGTCATTTT 59.752 36.000 0.00 0.00 35.28 1.82
2871 2883 4.776837 TGTGGCTCCCATAATTTGTCATTT 59.223 37.500 0.00 0.00 35.28 2.32
2872 2884 4.160252 GTGTGGCTCCCATAATTTGTCATT 59.840 41.667 0.00 0.00 35.28 2.57
2873 2885 3.701040 GTGTGGCTCCCATAATTTGTCAT 59.299 43.478 0.00 0.00 35.28 3.06
2874 2886 3.088532 GTGTGGCTCCCATAATTTGTCA 58.911 45.455 0.00 0.00 35.28 3.58
2875 2887 2.427095 GGTGTGGCTCCCATAATTTGTC 59.573 50.000 0.00 0.00 35.28 3.18
2876 2888 2.225242 TGGTGTGGCTCCCATAATTTGT 60.225 45.455 0.00 0.00 35.28 2.83
2877 2889 2.166254 GTGGTGTGGCTCCCATAATTTG 59.834 50.000 1.15 0.00 35.28 2.32
2878 2890 2.225242 TGTGGTGTGGCTCCCATAATTT 60.225 45.455 1.15 0.00 35.28 1.82
2879 2891 1.357420 TGTGGTGTGGCTCCCATAATT 59.643 47.619 1.15 0.00 35.28 1.40
2880 2892 0.998928 TGTGGTGTGGCTCCCATAAT 59.001 50.000 1.15 0.00 35.28 1.28
2881 2893 0.327924 CTGTGGTGTGGCTCCCATAA 59.672 55.000 1.15 0.00 35.28 1.90
2882 2894 0.840288 ACTGTGGTGTGGCTCCCATA 60.840 55.000 1.15 0.00 35.28 2.74
2883 2895 2.156098 ACTGTGGTGTGGCTCCCAT 61.156 57.895 1.15 0.00 35.28 4.00
2884 2896 2.772191 ACTGTGGTGTGGCTCCCA 60.772 61.111 0.00 0.00 0.00 4.37
2885 2897 2.281761 CACTGTGGTGTGGCTCCC 60.282 66.667 0.00 0.00 38.54 4.30
2886 2898 2.980233 GCACTGTGGTGTGGCTCC 60.980 66.667 10.21 0.00 44.65 4.70
2890 2902 1.686355 TTTAAGGCACTGTGGTGTGG 58.314 50.000 10.21 0.00 44.65 4.17
2891 2903 4.323417 TCTATTTAAGGCACTGTGGTGTG 58.677 43.478 10.21 0.00 44.65 3.82
2892 2904 4.634012 TCTATTTAAGGCACTGTGGTGT 57.366 40.909 10.21 0.00 44.65 4.16
2893 2905 5.003804 AGTTCTATTTAAGGCACTGTGGTG 58.996 41.667 10.21 0.00 45.53 4.17
2894 2906 5.242795 AGTTCTATTTAAGGCACTGTGGT 57.757 39.130 10.21 0.00 40.86 4.16
2895 2907 4.636206 GGAGTTCTATTTAAGGCACTGTGG 59.364 45.833 10.21 0.00 40.86 4.17
2896 2908 4.636206 GGGAGTTCTATTTAAGGCACTGTG 59.364 45.833 2.76 2.76 40.86 3.66
2897 2909 4.536489 AGGGAGTTCTATTTAAGGCACTGT 59.464 41.667 0.00 0.00 40.86 3.55
2898 2910 4.878397 CAGGGAGTTCTATTTAAGGCACTG 59.122 45.833 0.00 0.00 40.86 3.66
2899 2911 5.014228 AACAGGGAGTTCTATTTAAGGCACT 59.986 40.000 0.00 0.00 36.02 4.40
2900 2912 4.844884 ACAGGGAGTTCTATTTAAGGCAC 58.155 43.478 0.00 0.00 0.00 5.01
2901 2913 5.514500 AACAGGGAGTTCTATTTAAGGCA 57.486 39.130 0.00 0.00 34.74 4.75
2913 2925 4.717280 CCTATGGTCTAAGAACAGGGAGTT 59.283 45.833 0.00 0.00 44.93 3.01
2914 2926 4.290942 CCTATGGTCTAAGAACAGGGAGT 58.709 47.826 0.00 0.00 30.70 3.85
2915 2927 3.643792 CCCTATGGTCTAAGAACAGGGAG 59.356 52.174 3.57 0.00 37.03 4.30
2916 2928 3.273886 TCCCTATGGTCTAAGAACAGGGA 59.726 47.826 7.57 7.57 40.14 4.20
2917 2929 3.643792 CTCCCTATGGTCTAAGAACAGGG 59.356 52.174 3.29 3.29 36.45 4.45
2918 2930 4.100189 CACTCCCTATGGTCTAAGAACAGG 59.900 50.000 0.00 0.00 30.70 4.00
2919 2931 4.100189 CCACTCCCTATGGTCTAAGAACAG 59.900 50.000 0.00 0.00 30.70 3.16
2920 2932 4.030913 CCACTCCCTATGGTCTAAGAACA 58.969 47.826 0.00 0.00 32.20 3.18
2921 2933 4.674281 CCACTCCCTATGGTCTAAGAAC 57.326 50.000 0.00 0.00 32.08 3.01
2930 2942 2.683768 AGCTAAGACCACTCCCTATGG 58.316 52.381 0.00 0.00 43.43 2.74
2931 2943 3.829601 CCTAGCTAAGACCACTCCCTATG 59.170 52.174 0.00 0.00 0.00 2.23
2932 2944 3.727923 TCCTAGCTAAGACCACTCCCTAT 59.272 47.826 0.00 0.00 0.00 2.57
2933 2945 3.128848 TCCTAGCTAAGACCACTCCCTA 58.871 50.000 0.00 0.00 0.00 3.53
2934 2946 1.930914 TCCTAGCTAAGACCACTCCCT 59.069 52.381 0.00 0.00 0.00 4.20
2935 2947 2.456073 TCCTAGCTAAGACCACTCCC 57.544 55.000 0.00 0.00 0.00 4.30
2936 2948 7.964666 ATATTATCCTAGCTAAGACCACTCC 57.035 40.000 0.00 0.00 0.00 3.85
3006 3018 9.936329 ACACATTTCCTTTTCCCTTATATGTAT 57.064 29.630 0.00 0.00 0.00 2.29
3007 3019 9.184523 CACACATTTCCTTTTCCCTTATATGTA 57.815 33.333 0.00 0.00 0.00 2.29
3025 3037 7.502226 TCAAACTTGATCTAGTTCCACACATTT 59.498 33.333 20.44 1.88 37.37 2.32
3294 3306 4.876107 GGTTCGAGAGCTTCCATTTCAATA 59.124 41.667 0.00 0.00 0.00 1.90


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

AutoCloner maintained by Alex Coulton.