Multiple sequence alignment - TraesCS3B01G387200

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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 TraesCS3B01G387200 chr3B 100.000 3059 0 0 1 3059 607815298 607818356 0.000000e+00 5650.0
1 TraesCS3B01G387200 chr3B 95.589 2743 86 9 1 2727 821050052 821052775 0.000000e+00 4362.0
2 TraesCS3B01G387200 chr7A 98.616 2746 21 2 1 2731 706441112 706443855 0.000000e+00 4844.0
3 TraesCS3B01G387200 chr7A 98.362 2748 29 2 1 2732 694028209 694030956 0.000000e+00 4811.0
4 TraesCS3B01G387200 chr7B 98.175 2740 31 2 1 2725 581347581 581344846 0.000000e+00 4765.0
5 TraesCS3B01G387200 chr7B 96.040 2197 74 6 535 2730 297120954 297118770 0.000000e+00 3563.0
6 TraesCS3B01G387200 chr7B 93.841 552 18 2 1 537 297141774 297141224 0.000000e+00 817.0
7 TraesCS3B01G387200 chr1A 98.369 2697 29 1 1 2682 58021787 58024483 0.000000e+00 4723.0
8 TraesCS3B01G387200 chr1A 98.522 2571 22 2 1 2556 58027053 58024484 0.000000e+00 4523.0
9 TraesCS3B01G387200 chr1A 94.678 1071 30 9 1659 2727 487468228 487469273 0.000000e+00 1637.0
10 TraesCS3B01G387200 chr1A 87.952 166 5 1 1 151 487468069 487468234 6.740000e-42 182.0
11 TraesCS3B01G387200 chr1A 97.143 35 0 1 760 793 487467997 487468031 1.180000e-04 58.4
12 TraesCS3B01G387200 chr1B 93.204 2163 115 9 1 2140 499020727 499018574 0.000000e+00 3151.0
13 TraesCS3B01G387200 chr6B 86.074 1946 199 38 804 2727 654600210 654602105 0.000000e+00 2026.0
14 TraesCS3B01G387200 chrUn 94.132 1193 39 8 1469 2655 94940007 94938840 0.000000e+00 1786.0
15 TraesCS3B01G387200 chr5B 95.238 1071 24 9 1659 2727 491653972 491652927 0.000000e+00 1670.0
16 TraesCS3B01G387200 chr5B 89.157 166 3 1 1 151 491654131 491653966 3.110000e-45 193.0
17 TraesCS3B01G387200 chr4D 90.058 1026 88 8 806 1828 506088862 506087848 0.000000e+00 1317.0
18 TraesCS3B01G387200 chr4D 91.468 586 40 3 162 738 506089458 506088874 0.000000e+00 797.0
19 TraesCS3B01G387200 chr4D 92.763 304 15 1 2428 2731 366217973 366218269 1.680000e-117 433.0


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 TraesCS3B01G387200 chr3B 607815298 607818356 3058 False 5650.0 5650 100.000000 1 3059 1 chr3B.!!$F1 3058
1 TraesCS3B01G387200 chr3B 821050052 821052775 2723 False 4362.0 4362 95.589000 1 2727 1 chr3B.!!$F2 2726
2 TraesCS3B01G387200 chr7A 706441112 706443855 2743 False 4844.0 4844 98.616000 1 2731 1 chr7A.!!$F2 2730
3 TraesCS3B01G387200 chr7A 694028209 694030956 2747 False 4811.0 4811 98.362000 1 2732 1 chr7A.!!$F1 2731
4 TraesCS3B01G387200 chr7B 581344846 581347581 2735 True 4765.0 4765 98.175000 1 2725 1 chr7B.!!$R3 2724
5 TraesCS3B01G387200 chr7B 297118770 297120954 2184 True 3563.0 3563 96.040000 535 2730 1 chr7B.!!$R1 2195
6 TraesCS3B01G387200 chr7B 297141224 297141774 550 True 817.0 817 93.841000 1 537 1 chr7B.!!$R2 536
7 TraesCS3B01G387200 chr1A 58021787 58024483 2696 False 4723.0 4723 98.369000 1 2682 1 chr1A.!!$F1 2681
8 TraesCS3B01G387200 chr1A 58024484 58027053 2569 True 4523.0 4523 98.522000 1 2556 1 chr1A.!!$R1 2555
9 TraesCS3B01G387200 chr1A 487467997 487469273 1276 False 625.8 1637 93.257667 1 2727 3 chr1A.!!$F2 2726
10 TraesCS3B01G387200 chr1B 499018574 499020727 2153 True 3151.0 3151 93.204000 1 2140 1 chr1B.!!$R1 2139
11 TraesCS3B01G387200 chr6B 654600210 654602105 1895 False 2026.0 2026 86.074000 804 2727 1 chr6B.!!$F1 1923
12 TraesCS3B01G387200 chrUn 94938840 94940007 1167 True 1786.0 1786 94.132000 1469 2655 1 chrUn.!!$R1 1186
13 TraesCS3B01G387200 chr5B 491652927 491654131 1204 True 931.5 1670 92.197500 1 2727 2 chr5B.!!$R1 2726
14 TraesCS3B01G387200 chr4D 506087848 506089458 1610 True 1057.0 1317 90.763000 162 1828 2 chr4D.!!$R1 1666

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
217 306 3.517296 TCTAACCCATGGCTTCAAACA 57.483 42.857 6.09 0.0 0.0 2.83 F
427 516 5.475719 CATTCCTCACTTAGAACAACCGTA 58.524 41.667 0.00 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1922 2026 5.165961 AGATAAGTGCACACCAACAGTAT 57.834 39.13 21.04 3.2 0.00 2.12 R
2194 2335 5.627780 GGCCAAGTTACATTAAAGTGTTTCG 59.372 40.00 0.00 0.0 33.62 3.46 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
217 306 3.517296 TCTAACCCATGGCTTCAAACA 57.483 42.857 6.09 0.00 0.00 2.83
240 329 8.732746 ACAGAAACTTTCTTTAGTTCTTAGCA 57.267 30.769 0.92 0.00 38.11 3.49
427 516 5.475719 CATTCCTCACTTAGAACAACCGTA 58.524 41.667 0.00 0.00 0.00 4.02
1922 2026 6.310941 TCCCAATTACCACAGATCAAAGAAA 58.689 36.000 0.00 0.00 0.00 2.52
2124 2233 5.416952 CCTGTGAAGTTTAGAAGATGGCAAT 59.583 40.000 0.00 0.00 0.00 3.56
2194 2335 5.163713 GGAAGTAGATCTTTTGATGTGTGGC 60.164 44.000 0.00 0.00 39.67 5.01
2722 2869 5.659463 CAATTTGAGTCTCCAACCAAACAA 58.341 37.500 0.00 0.00 33.65 2.83
2727 2874 0.631753 TCTCCAACCAAACAACCCCA 59.368 50.000 0.00 0.00 0.00 4.96
2752 2899 2.938253 CGCGAGCTTGAAGCAACA 59.062 55.556 20.45 0.00 45.56 3.33
2753 2900 1.279539 CGCGAGCTTGAAGCAACAA 59.720 52.632 20.45 0.00 45.56 2.83
2754 2901 0.723790 CGCGAGCTTGAAGCAACAAG 60.724 55.000 20.45 15.36 45.56 3.16
2755 2902 0.386478 GCGAGCTTGAAGCAACAAGG 60.386 55.000 20.45 2.68 45.56 3.61
2756 2903 0.386478 CGAGCTTGAAGCAACAAGGC 60.386 55.000 20.45 13.38 45.56 4.35
2757 2904 0.386478 GAGCTTGAAGCAACAAGGCG 60.386 55.000 20.45 2.14 45.56 5.52
2758 2905 1.372128 GCTTGAAGCAACAAGGCGG 60.372 57.895 13.09 1.86 44.87 6.13
2759 2906 1.372128 CTTGAAGCAACAAGGCGGC 60.372 57.895 0.00 0.00 42.17 6.53
2760 2907 2.753931 CTTGAAGCAACAAGGCGGCC 62.754 60.000 12.11 12.11 42.17 6.13
2761 2908 3.294493 GAAGCAACAAGGCGGCCA 61.294 61.111 23.09 0.00 39.27 5.36
2762 2909 3.558099 GAAGCAACAAGGCGGCCAC 62.558 63.158 23.09 2.97 39.27 5.01
2763 2910 4.892965 AGCAACAAGGCGGCCACA 62.893 61.111 23.09 0.00 39.27 4.17
2764 2911 3.683937 GCAACAAGGCGGCCACAT 61.684 61.111 23.09 3.74 0.00 3.21
2765 2912 2.339556 GCAACAAGGCGGCCACATA 61.340 57.895 23.09 0.00 0.00 2.29
2766 2913 1.872197 GCAACAAGGCGGCCACATAA 61.872 55.000 23.09 0.00 0.00 1.90
2767 2914 0.817013 CAACAAGGCGGCCACATAAT 59.183 50.000 23.09 0.00 0.00 1.28
2768 2915 2.020720 CAACAAGGCGGCCACATAATA 58.979 47.619 23.09 0.00 0.00 0.98
2769 2916 2.622942 CAACAAGGCGGCCACATAATAT 59.377 45.455 23.09 0.00 0.00 1.28
2770 2917 3.780804 ACAAGGCGGCCACATAATATA 57.219 42.857 23.09 0.00 0.00 0.86
2771 2918 4.301072 ACAAGGCGGCCACATAATATAT 57.699 40.909 23.09 0.00 0.00 0.86
2772 2919 5.429681 ACAAGGCGGCCACATAATATATA 57.570 39.130 23.09 0.00 0.00 0.86
2773 2920 5.428253 ACAAGGCGGCCACATAATATATAG 58.572 41.667 23.09 0.00 0.00 1.31
2774 2921 5.045869 ACAAGGCGGCCACATAATATATAGT 60.046 40.000 23.09 0.00 0.00 2.12
2775 2922 5.023533 AGGCGGCCACATAATATATAGTG 57.976 43.478 23.09 6.10 0.00 2.74
2781 2928 3.802139 CCACATAATATATAGTGGCGGCG 59.198 47.826 15.06 0.51 44.25 6.46
2782 2929 3.245284 CACATAATATATAGTGGCGGCGC 59.755 47.826 26.17 26.17 0.00 6.53
2783 2930 2.197792 TAATATATAGTGGCGGCGCG 57.802 50.000 26.95 0.00 0.00 6.86
2784 2931 0.528924 AATATATAGTGGCGGCGCGA 59.471 50.000 26.95 20.92 0.00 5.87
2785 2932 0.100682 ATATATAGTGGCGGCGCGAG 59.899 55.000 26.95 3.39 0.00 5.03
2786 2933 1.929806 TATATAGTGGCGGCGCGAGG 61.930 60.000 26.95 0.03 0.00 4.63
2807 2954 4.934797 GGGTTACCCTAATAATACCCCC 57.065 50.000 14.22 0.00 41.34 5.40
2808 2955 3.264193 GGGTTACCCTAATAATACCCCCG 59.736 52.174 14.22 0.00 41.34 5.73
2809 2956 3.307691 GGTTACCCTAATAATACCCCCGC 60.308 52.174 0.00 0.00 0.00 6.13
2810 2957 1.365293 ACCCTAATAATACCCCCGCC 58.635 55.000 0.00 0.00 0.00 6.13
2811 2958 0.251073 CCCTAATAATACCCCCGCCG 59.749 60.000 0.00 0.00 0.00 6.46
2812 2959 0.392060 CCTAATAATACCCCCGCCGC 60.392 60.000 0.00 0.00 0.00 6.53
2813 2960 0.392060 CTAATAATACCCCCGCCGCC 60.392 60.000 0.00 0.00 0.00 6.13
2814 2961 2.169937 TAATAATACCCCCGCCGCCG 62.170 60.000 0.00 0.00 0.00 6.46
2831 2978 4.489771 GGGTCACCGGGCCTGATG 62.490 72.222 15.09 6.28 0.00 3.07
2832 2979 4.489771 GGTCACCGGGCCTGATGG 62.490 72.222 15.09 7.78 0.00 3.51
2833 2980 4.489771 GTCACCGGGCCTGATGGG 62.490 72.222 15.09 0.00 38.36 4.00
2843 2990 1.895707 CCTGATGGGCCGAATCAGC 60.896 63.158 29.14 13.28 46.44 4.26
2844 2991 2.203056 TGATGGGCCGAATCAGCG 60.203 61.111 14.14 0.00 30.61 5.18
2845 2992 2.108976 GATGGGCCGAATCAGCGA 59.891 61.111 11.25 0.00 0.00 4.93
2846 2993 1.302033 GATGGGCCGAATCAGCGAT 60.302 57.895 11.25 0.00 0.00 4.58
2847 2994 0.886490 GATGGGCCGAATCAGCGATT 60.886 55.000 11.25 3.90 34.71 3.34
2848 2995 0.466189 ATGGGCCGAATCAGCGATTT 60.466 50.000 0.00 0.00 31.89 2.17
2849 2996 1.095228 TGGGCCGAATCAGCGATTTC 61.095 55.000 0.00 0.00 31.89 2.17
2850 2997 1.095228 GGGCCGAATCAGCGATTTCA 61.095 55.000 0.00 0.00 31.89 2.69
2851 2998 0.732571 GGCCGAATCAGCGATTTCAA 59.267 50.000 5.48 0.00 31.89 2.69
2852 2999 1.531883 GGCCGAATCAGCGATTTCAAC 60.532 52.381 5.48 0.00 31.89 3.18
2853 3000 1.531883 GCCGAATCAGCGATTTCAACC 60.532 52.381 5.48 0.00 31.89 3.77
2854 3001 2.009774 CCGAATCAGCGATTTCAACCT 58.990 47.619 5.48 0.00 31.89 3.50
2855 3002 2.030946 CCGAATCAGCGATTTCAACCTC 59.969 50.000 5.48 0.00 31.89 3.85
2856 3003 2.932614 CGAATCAGCGATTTCAACCTCT 59.067 45.455 5.48 0.00 31.89 3.69
2857 3004 3.372206 CGAATCAGCGATTTCAACCTCTT 59.628 43.478 5.48 0.00 31.89 2.85
2858 3005 4.493220 CGAATCAGCGATTTCAACCTCTTC 60.493 45.833 5.48 0.00 31.89 2.87
2859 3006 2.699954 TCAGCGATTTCAACCTCTTCC 58.300 47.619 0.00 0.00 0.00 3.46
2860 3007 2.303022 TCAGCGATTTCAACCTCTTCCT 59.697 45.455 0.00 0.00 0.00 3.36
2861 3008 2.675348 CAGCGATTTCAACCTCTTCCTC 59.325 50.000 0.00 0.00 0.00 3.71
2862 3009 2.010497 GCGATTTCAACCTCTTCCTCC 58.990 52.381 0.00 0.00 0.00 4.30
2863 3010 2.271800 CGATTTCAACCTCTTCCTCCG 58.728 52.381 0.00 0.00 0.00 4.63
2864 3011 2.010497 GATTTCAACCTCTTCCTCCGC 58.990 52.381 0.00 0.00 0.00 5.54
2865 3012 1.056660 TTTCAACCTCTTCCTCCGCT 58.943 50.000 0.00 0.00 0.00 5.52
2866 3013 0.608640 TTCAACCTCTTCCTCCGCTC 59.391 55.000 0.00 0.00 0.00 5.03
2867 3014 0.541998 TCAACCTCTTCCTCCGCTCA 60.542 55.000 0.00 0.00 0.00 4.26
2868 3015 0.108424 CAACCTCTTCCTCCGCTCAG 60.108 60.000 0.00 0.00 0.00 3.35
2869 3016 1.261238 AACCTCTTCCTCCGCTCAGG 61.261 60.000 0.00 0.00 42.97 3.86
2870 3017 2.498726 CTCTTCCTCCGCTCAGGC 59.501 66.667 0.00 0.00 40.77 4.85
2871 3018 2.038007 TCTTCCTCCGCTCAGGCT 59.962 61.111 0.00 0.00 40.77 4.58
2872 3019 2.015227 CTCTTCCTCCGCTCAGGCTC 62.015 65.000 0.00 0.00 40.77 4.70
2873 3020 3.423162 CTTCCTCCGCTCAGGCTCG 62.423 68.421 0.00 0.00 40.77 5.03
2874 3021 3.938637 TTCCTCCGCTCAGGCTCGA 62.939 63.158 0.00 0.00 40.77 4.04
2875 3022 3.452786 CCTCCGCTCAGGCTCGAA 61.453 66.667 0.00 0.00 40.77 3.71
2876 3023 2.573869 CTCCGCTCAGGCTCGAAA 59.426 61.111 0.00 0.00 40.77 3.46
2877 3024 1.079819 CTCCGCTCAGGCTCGAAAA 60.080 57.895 0.00 0.00 40.77 2.29
2878 3025 1.355066 CTCCGCTCAGGCTCGAAAAC 61.355 60.000 0.00 0.00 40.77 2.43
2879 3026 1.667830 CCGCTCAGGCTCGAAAACA 60.668 57.895 0.00 0.00 36.09 2.83
2880 3027 1.227999 CCGCTCAGGCTCGAAAACAA 61.228 55.000 0.00 0.00 36.09 2.83
2881 3028 0.586319 CGCTCAGGCTCGAAAACAAA 59.414 50.000 0.00 0.00 36.09 2.83
2882 3029 1.002900 CGCTCAGGCTCGAAAACAAAA 60.003 47.619 0.00 0.00 36.09 2.44
2883 3030 2.540769 CGCTCAGGCTCGAAAACAAAAA 60.541 45.455 0.00 0.00 36.09 1.94
2884 3031 2.789339 GCTCAGGCTCGAAAACAAAAAC 59.211 45.455 0.00 0.00 35.22 2.43
2885 3032 3.733684 GCTCAGGCTCGAAAACAAAAACA 60.734 43.478 0.00 0.00 35.22 2.83
2886 3033 4.420168 CTCAGGCTCGAAAACAAAAACAA 58.580 39.130 0.00 0.00 0.00 2.83
2887 3034 4.810790 TCAGGCTCGAAAACAAAAACAAA 58.189 34.783 0.00 0.00 0.00 2.83
2888 3035 5.230942 TCAGGCTCGAAAACAAAAACAAAA 58.769 33.333 0.00 0.00 0.00 2.44
2889 3036 5.872070 TCAGGCTCGAAAACAAAAACAAAAT 59.128 32.000 0.00 0.00 0.00 1.82
2890 3037 7.036220 TCAGGCTCGAAAACAAAAACAAAATA 58.964 30.769 0.00 0.00 0.00 1.40
2891 3038 7.009723 TCAGGCTCGAAAACAAAAACAAAATAC 59.990 33.333 0.00 0.00 0.00 1.89
2892 3039 7.010091 CAGGCTCGAAAACAAAAACAAAATACT 59.990 33.333 0.00 0.00 0.00 2.12
2893 3040 7.547722 AGGCTCGAAAACAAAAACAAAATACTT 59.452 29.630 0.00 0.00 0.00 2.24
2894 3041 8.172484 GGCTCGAAAACAAAAACAAAATACTTT 58.828 29.630 0.00 0.00 0.00 2.66
2895 3042 9.536558 GCTCGAAAACAAAAACAAAATACTTTT 57.463 25.926 0.00 0.00 0.00 2.27
2901 3048 9.980780 AAACAAAAACAAAATACTTTTCATCCG 57.019 25.926 0.00 0.00 0.00 4.18
2902 3049 8.710835 ACAAAAACAAAATACTTTTCATCCGT 57.289 26.923 0.00 0.00 0.00 4.69
2903 3050 9.157104 ACAAAAACAAAATACTTTTCATCCGTT 57.843 25.926 0.00 0.00 0.00 4.44
2907 3054 8.980143 AACAAAATACTTTTCATCCGTTATGG 57.020 30.769 0.00 0.00 36.15 2.74
2908 3055 7.033185 ACAAAATACTTTTCATCCGTTATGGC 58.967 34.615 0.00 0.00 37.80 4.40
2909 3056 6.767524 AAATACTTTTCATCCGTTATGGCA 57.232 33.333 0.00 0.00 37.80 4.92
2910 3057 5.751243 ATACTTTTCATCCGTTATGGCAC 57.249 39.130 0.00 0.00 37.80 5.01
2911 3058 2.752903 ACTTTTCATCCGTTATGGCACC 59.247 45.455 0.00 0.00 37.80 5.01
2912 3059 1.757682 TTTCATCCGTTATGGCACCC 58.242 50.000 0.00 0.00 37.80 4.61
2913 3060 0.621082 TTCATCCGTTATGGCACCCA 59.379 50.000 0.00 0.00 38.19 4.51
2914 3061 0.180171 TCATCCGTTATGGCACCCAG 59.820 55.000 0.00 0.00 36.75 4.45
2915 3062 0.819259 CATCCGTTATGGCACCCAGG 60.819 60.000 0.00 0.00 36.75 4.45
2916 3063 2.624674 ATCCGTTATGGCACCCAGGC 62.625 60.000 0.00 0.00 36.75 4.85
2924 3071 3.291611 GCACCCAGGCCTCAAATG 58.708 61.111 0.00 0.00 0.00 2.32
2925 3072 3.010413 GCACCCAGGCCTCAAATGC 62.010 63.158 0.00 7.22 0.00 3.56
2926 3073 2.361610 ACCCAGGCCTCAAATGCG 60.362 61.111 0.00 0.00 0.00 4.73
2927 3074 2.045045 CCCAGGCCTCAAATGCGA 60.045 61.111 0.00 0.00 0.00 5.10
2928 3075 1.678635 CCCAGGCCTCAAATGCGAA 60.679 57.895 0.00 0.00 0.00 4.70
2929 3076 1.250154 CCCAGGCCTCAAATGCGAAA 61.250 55.000 0.00 0.00 0.00 3.46
2930 3077 0.819582 CCAGGCCTCAAATGCGAAAT 59.180 50.000 0.00 0.00 0.00 2.17
2931 3078 1.470285 CCAGGCCTCAAATGCGAAATG 60.470 52.381 0.00 0.00 0.00 2.32
2932 3079 1.203052 CAGGCCTCAAATGCGAAATGT 59.797 47.619 0.00 0.00 0.00 2.71
2933 3080 2.423185 CAGGCCTCAAATGCGAAATGTA 59.577 45.455 0.00 0.00 0.00 2.29
2934 3081 3.067180 CAGGCCTCAAATGCGAAATGTAT 59.933 43.478 0.00 0.00 0.00 2.29
2935 3082 3.316308 AGGCCTCAAATGCGAAATGTATC 59.684 43.478 0.00 0.00 0.00 2.24
2936 3083 3.316308 GGCCTCAAATGCGAAATGTATCT 59.684 43.478 0.00 0.00 0.00 1.98
2937 3084 4.531332 GCCTCAAATGCGAAATGTATCTC 58.469 43.478 0.00 0.00 0.00 2.75
2938 3085 4.274459 GCCTCAAATGCGAAATGTATCTCT 59.726 41.667 0.00 0.00 0.00 3.10
2939 3086 5.559799 GCCTCAAATGCGAAATGTATCTCTC 60.560 44.000 0.00 0.00 0.00 3.20
2940 3087 5.332883 CCTCAAATGCGAAATGTATCTCTCG 60.333 44.000 0.00 0.00 0.00 4.04
2945 3092 1.789464 CGAAATGTATCTCTCGCCTGC 59.211 52.381 0.00 0.00 0.00 4.85
2946 3093 2.139118 GAAATGTATCTCTCGCCTGCC 58.861 52.381 0.00 0.00 0.00 4.85
2947 3094 1.418334 AATGTATCTCTCGCCTGCCT 58.582 50.000 0.00 0.00 0.00 4.75
2948 3095 0.965439 ATGTATCTCTCGCCTGCCTC 59.035 55.000 0.00 0.00 0.00 4.70
2949 3096 0.106469 TGTATCTCTCGCCTGCCTCT 60.106 55.000 0.00 0.00 0.00 3.69
2950 3097 0.596082 GTATCTCTCGCCTGCCTCTC 59.404 60.000 0.00 0.00 0.00 3.20
2951 3098 0.476338 TATCTCTCGCCTGCCTCTCT 59.524 55.000 0.00 0.00 0.00 3.10
2952 3099 1.108727 ATCTCTCGCCTGCCTCTCTG 61.109 60.000 0.00 0.00 0.00 3.35
2953 3100 2.757508 TCTCGCCTGCCTCTCTGG 60.758 66.667 0.00 0.00 39.35 3.86
2966 3113 4.089239 TCTGGCGCCCGCACAATA 62.089 61.111 26.77 0.19 44.11 1.90
2967 3114 3.576356 CTGGCGCCCGCACAATAG 61.576 66.667 26.77 8.02 44.11 1.73
2973 3120 2.828549 CCCGCACAATAGGGTGGC 60.829 66.667 0.00 0.00 42.67 5.01
2974 3121 2.828549 CCGCACAATAGGGTGGCC 60.829 66.667 0.00 0.00 39.19 5.36
2975 3122 2.828549 CGCACAATAGGGTGGCCC 60.829 66.667 0.00 0.00 45.90 5.80
2984 3131 2.601299 GGGTGGCCCATTAGGTCC 59.399 66.667 0.00 0.00 44.65 4.46
2985 3132 2.601299 GGTGGCCCATTAGGTCCC 59.399 66.667 0.00 0.00 40.85 4.46
2986 3133 2.192175 GTGGCCCATTAGGTCCCG 59.808 66.667 0.00 0.00 40.85 5.14
2987 3134 2.285818 TGGCCCATTAGGTCCCGT 60.286 61.111 0.00 0.00 40.85 5.28
2988 3135 1.926489 TGGCCCATTAGGTCCCGTT 60.926 57.895 0.00 0.00 40.85 4.44
2989 3136 1.153025 GGCCCATTAGGTCCCGTTC 60.153 63.158 0.00 0.00 38.26 3.95
2990 3137 1.523032 GCCCATTAGGTCCCGTTCG 60.523 63.158 0.00 0.00 38.26 3.95
2991 3138 1.145377 CCCATTAGGTCCCGTTCGG 59.855 63.158 4.08 4.08 0.00 4.30
2992 3139 1.619807 CCCATTAGGTCCCGTTCGGT 61.620 60.000 10.36 0.00 0.00 4.69
2993 3140 0.251073 CCATTAGGTCCCGTTCGGTT 59.749 55.000 10.36 0.00 0.00 4.44
2994 3141 1.648504 CATTAGGTCCCGTTCGGTTC 58.351 55.000 10.36 2.97 0.00 3.62
2995 3142 1.066716 CATTAGGTCCCGTTCGGTTCA 60.067 52.381 10.36 0.00 0.00 3.18
2996 3143 1.269012 TTAGGTCCCGTTCGGTTCAT 58.731 50.000 10.36 3.47 0.00 2.57
2997 3144 1.269012 TAGGTCCCGTTCGGTTCATT 58.731 50.000 10.36 0.00 0.00 2.57
2998 3145 0.036671 AGGTCCCGTTCGGTTCATTC 60.037 55.000 10.36 0.00 0.00 2.67
2999 3146 1.356527 GGTCCCGTTCGGTTCATTCG 61.357 60.000 10.36 0.00 0.00 3.34
3000 3147 0.668401 GTCCCGTTCGGTTCATTCGT 60.668 55.000 10.36 0.00 0.00 3.85
3001 3148 0.668096 TCCCGTTCGGTTCATTCGTG 60.668 55.000 10.36 0.00 0.00 4.35
3002 3149 0.668096 CCCGTTCGGTTCATTCGTGA 60.668 55.000 10.36 0.00 0.00 4.35
3003 3150 1.141645 CCGTTCGGTTCATTCGTGAA 58.858 50.000 2.82 0.00 0.00 3.18
3004 3151 1.136446 CCGTTCGGTTCATTCGTGAAC 60.136 52.381 11.73 11.73 45.31 3.18
3005 3152 1.790623 CGTTCGGTTCATTCGTGAACT 59.209 47.619 17.66 0.00 45.34 3.01
3007 3154 3.657537 CGGTTCATTCGTGAACTGC 57.342 52.632 17.66 4.90 44.81 4.40
3008 3155 0.865111 CGGTTCATTCGTGAACTGCA 59.135 50.000 17.66 0.00 44.81 4.41
3009 3156 1.136252 CGGTTCATTCGTGAACTGCAG 60.136 52.381 13.48 13.48 44.81 4.41
3010 3157 1.197721 GGTTCATTCGTGAACTGCAGG 59.802 52.381 19.93 0.00 45.34 4.85
3011 3158 2.143122 GTTCATTCGTGAACTGCAGGA 58.857 47.619 19.93 1.59 43.38 3.86
3017 3164 3.624326 TCGTGAACTGCAGGAATTTTG 57.376 42.857 19.93 1.48 38.36 2.44
3018 3165 2.053627 CGTGAACTGCAGGAATTTTGC 58.946 47.619 19.93 8.48 41.86 3.68
3025 3172 3.557228 TGCAGGAATTTTGCAGGTTTT 57.443 38.095 12.81 0.00 45.89 2.43
3026 3173 3.204526 TGCAGGAATTTTGCAGGTTTTG 58.795 40.909 12.81 0.00 45.89 2.44
3027 3174 3.118482 TGCAGGAATTTTGCAGGTTTTGA 60.118 39.130 12.81 0.00 45.89 2.69
3028 3175 4.067192 GCAGGAATTTTGCAGGTTTTGAT 58.933 39.130 10.08 0.00 41.17 2.57
3029 3176 4.152938 GCAGGAATTTTGCAGGTTTTGATC 59.847 41.667 10.08 0.00 41.17 2.92
3030 3177 4.386652 CAGGAATTTTGCAGGTTTTGATCG 59.613 41.667 0.00 0.00 0.00 3.69
3031 3178 4.280677 AGGAATTTTGCAGGTTTTGATCGA 59.719 37.500 0.00 0.00 0.00 3.59
3032 3179 4.987912 GGAATTTTGCAGGTTTTGATCGAA 59.012 37.500 0.00 0.00 0.00 3.71
3033 3180 5.465056 GGAATTTTGCAGGTTTTGATCGAAA 59.535 36.000 3.86 3.86 0.00 3.46
3034 3181 6.147656 GGAATTTTGCAGGTTTTGATCGAAAT 59.852 34.615 11.31 0.00 0.00 2.17
3035 3182 6.710692 ATTTTGCAGGTTTTGATCGAAATC 57.289 33.333 11.31 10.80 0.00 2.17
3036 3183 4.844998 TTGCAGGTTTTGATCGAAATCA 57.155 36.364 18.88 9.14 40.18 2.57
3055 3202 9.807386 CGAAATCAAAAGTTAAAGAGTATTCGT 57.193 29.630 0.00 0.00 31.59 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 78 0.238289 GCACACATGCCGGTATATGC 59.762 55.000 11.02 14.10 46.97 3.14
427 516 4.985538 TCAAGGTACCAAATGCTCTTTCT 58.014 39.130 15.94 0.00 0.00 2.52
1922 2026 5.165961 AGATAAGTGCACACCAACAGTAT 57.834 39.130 21.04 3.20 0.00 2.12
2124 2233 9.362151 ACAAGTTCATCTCCTAAATACCAAAAA 57.638 29.630 0.00 0.00 0.00 1.94
2194 2335 5.627780 GGCCAAGTTACATTAAAGTGTTTCG 59.372 40.000 0.00 0.00 33.62 3.46
2727 2874 3.357079 CAAGCTCGCGCACCCTTT 61.357 61.111 8.75 0.00 39.10 3.11
2733 2880 2.971959 TTGCTTCAAGCTCGCGCA 60.972 55.556 11.57 0.00 42.97 6.09
2734 2881 2.500582 GTTGCTTCAAGCTCGCGC 60.501 61.111 11.57 0.00 42.97 6.86
2735 2882 0.723790 CTTGTTGCTTCAAGCTCGCG 60.724 55.000 11.57 0.00 42.97 5.87
2736 2883 0.386478 CCTTGTTGCTTCAAGCTCGC 60.386 55.000 11.57 1.28 42.97 5.03
2737 2884 0.386478 GCCTTGTTGCTTCAAGCTCG 60.386 55.000 11.57 0.00 42.97 5.03
2738 2885 0.386478 CGCCTTGTTGCTTCAAGCTC 60.386 55.000 11.57 4.62 42.97 4.09
2739 2886 1.656441 CGCCTTGTTGCTTCAAGCT 59.344 52.632 11.57 0.00 42.97 3.74
2740 2887 1.372128 CCGCCTTGTTGCTTCAAGC 60.372 57.895 1.04 1.04 42.16 4.01
2741 2888 1.372128 GCCGCCTTGTTGCTTCAAG 60.372 57.895 12.26 12.26 42.86 3.02
2742 2889 2.727544 GCCGCCTTGTTGCTTCAA 59.272 55.556 0.00 0.00 0.00 2.69
2743 2890 3.294493 GGCCGCCTTGTTGCTTCA 61.294 61.111 0.71 0.00 0.00 3.02
2744 2891 3.294493 TGGCCGCCTTGTTGCTTC 61.294 61.111 11.61 0.00 0.00 3.86
2745 2892 3.605664 GTGGCCGCCTTGTTGCTT 61.606 61.111 11.61 0.00 0.00 3.91
2746 2893 2.762969 TATGTGGCCGCCTTGTTGCT 62.763 55.000 15.15 0.00 0.00 3.91
2747 2894 1.872197 TTATGTGGCCGCCTTGTTGC 61.872 55.000 15.15 0.00 0.00 4.17
2748 2895 0.817013 ATTATGTGGCCGCCTTGTTG 59.183 50.000 15.15 0.00 0.00 3.33
2749 2896 2.428544 TATTATGTGGCCGCCTTGTT 57.571 45.000 15.15 0.00 0.00 2.83
2750 2897 2.656947 ATATTATGTGGCCGCCTTGT 57.343 45.000 15.15 0.00 0.00 3.16
2751 2898 5.294306 CACTATATATTATGTGGCCGCCTTG 59.706 44.000 15.15 0.00 0.00 3.61
2752 2899 5.428253 CACTATATATTATGTGGCCGCCTT 58.572 41.667 15.15 3.74 0.00 4.35
2753 2900 4.141711 CCACTATATATTATGTGGCCGCCT 60.142 45.833 15.15 6.58 42.55 5.52
2754 2901 4.127171 CCACTATATATTATGTGGCCGCC 58.873 47.826 15.15 1.04 42.55 6.13
2760 2907 3.245284 GCGCCGCCACTATATATTATGTG 59.755 47.826 0.00 0.00 0.00 3.21
2761 2908 3.454375 GCGCCGCCACTATATATTATGT 58.546 45.455 0.00 0.00 0.00 2.29
2762 2909 2.471370 CGCGCCGCCACTATATATTATG 59.529 50.000 2.28 0.00 0.00 1.90
2763 2910 2.359848 TCGCGCCGCCACTATATATTAT 59.640 45.455 2.28 0.00 0.00 1.28
2764 2911 1.744522 TCGCGCCGCCACTATATATTA 59.255 47.619 2.28 0.00 0.00 0.98
2765 2912 0.528924 TCGCGCCGCCACTATATATT 59.471 50.000 2.28 0.00 0.00 1.28
2766 2913 0.100682 CTCGCGCCGCCACTATATAT 59.899 55.000 2.28 0.00 0.00 0.86
2767 2914 1.504900 CTCGCGCCGCCACTATATA 59.495 57.895 2.28 0.00 0.00 0.86
2768 2915 2.258591 CTCGCGCCGCCACTATAT 59.741 61.111 2.28 0.00 0.00 0.86
2769 2916 3.973516 CCTCGCGCCGCCACTATA 61.974 66.667 2.28 0.00 0.00 1.31
2788 2935 3.307691 GGCGGGGGTATTATTAGGGTAAC 60.308 52.174 0.00 0.00 0.00 2.50
2789 2936 2.912295 GGCGGGGGTATTATTAGGGTAA 59.088 50.000 0.00 0.00 0.00 2.85
2790 2937 2.550175 GGCGGGGGTATTATTAGGGTA 58.450 52.381 0.00 0.00 0.00 3.69
2791 2938 1.365293 GGCGGGGGTATTATTAGGGT 58.635 55.000 0.00 0.00 0.00 4.34
2792 2939 0.251073 CGGCGGGGGTATTATTAGGG 59.749 60.000 0.00 0.00 0.00 3.53
2793 2940 0.392060 GCGGCGGGGGTATTATTAGG 60.392 60.000 9.78 0.00 0.00 2.69
2794 2941 0.392060 GGCGGCGGGGGTATTATTAG 60.392 60.000 9.78 0.00 0.00 1.73
2795 2942 1.678724 GGCGGCGGGGGTATTATTA 59.321 57.895 9.78 0.00 0.00 0.98
2796 2943 2.433004 GGCGGCGGGGGTATTATT 59.567 61.111 9.78 0.00 0.00 1.40
2797 2944 4.011517 CGGCGGCGGGGGTATTAT 62.012 66.667 25.36 0.00 0.00 1.28
2814 2961 4.489771 CATCAGGCCCGGTGACCC 62.490 72.222 0.00 0.00 0.00 4.46
2815 2962 4.489771 CCATCAGGCCCGGTGACC 62.490 72.222 0.00 0.00 0.00 4.02
2816 2963 4.489771 CCCATCAGGCCCGGTGAC 62.490 72.222 0.00 0.00 0.00 3.67
2825 2972 1.895707 GCTGATTCGGCCCATCAGG 60.896 63.158 28.83 17.06 45.45 3.86
2827 2974 2.043604 ATCGCTGATTCGGCCCATCA 62.044 55.000 11.82 11.06 31.00 3.07
2828 2975 0.886490 AATCGCTGATTCGGCCCATC 60.886 55.000 11.82 0.00 31.00 3.51
2829 2976 0.466189 AAATCGCTGATTCGGCCCAT 60.466 50.000 11.82 1.67 30.29 4.00
2830 2977 1.077787 AAATCGCTGATTCGGCCCA 60.078 52.632 11.82 0.00 30.29 5.36
2831 2978 1.095228 TGAAATCGCTGATTCGGCCC 61.095 55.000 11.82 0.00 30.29 5.80
2832 2979 0.732571 TTGAAATCGCTGATTCGGCC 59.267 50.000 11.82 0.00 30.29 6.13
2833 2980 1.531883 GGTTGAAATCGCTGATTCGGC 60.532 52.381 7.45 7.45 30.29 5.54
2834 2981 2.009774 AGGTTGAAATCGCTGATTCGG 58.990 47.619 4.63 0.00 30.29 4.30
2835 2982 2.932614 AGAGGTTGAAATCGCTGATTCG 59.067 45.455 4.63 0.00 30.29 3.34
2836 2983 4.201861 GGAAGAGGTTGAAATCGCTGATTC 60.202 45.833 4.63 0.00 30.29 2.52
2837 2984 3.691609 GGAAGAGGTTGAAATCGCTGATT 59.308 43.478 0.00 0.00 33.25 2.57
2838 2985 3.054802 AGGAAGAGGTTGAAATCGCTGAT 60.055 43.478 0.00 0.00 0.00 2.90
2839 2986 2.303022 AGGAAGAGGTTGAAATCGCTGA 59.697 45.455 0.00 0.00 0.00 4.26
2840 2987 2.675348 GAGGAAGAGGTTGAAATCGCTG 59.325 50.000 0.00 0.00 0.00 5.18
2841 2988 2.355209 GGAGGAAGAGGTTGAAATCGCT 60.355 50.000 0.00 0.00 0.00 4.93
2842 2989 2.010497 GGAGGAAGAGGTTGAAATCGC 58.990 52.381 0.00 0.00 0.00 4.58
2843 2990 2.271800 CGGAGGAAGAGGTTGAAATCG 58.728 52.381 0.00 0.00 0.00 3.34
2844 2991 2.010497 GCGGAGGAAGAGGTTGAAATC 58.990 52.381 0.00 0.00 0.00 2.17
2845 2992 1.630878 AGCGGAGGAAGAGGTTGAAAT 59.369 47.619 0.00 0.00 0.00 2.17
2846 2993 1.002087 GAGCGGAGGAAGAGGTTGAAA 59.998 52.381 0.00 0.00 0.00 2.69
2847 2994 0.608640 GAGCGGAGGAAGAGGTTGAA 59.391 55.000 0.00 0.00 0.00 2.69
2848 2995 0.541998 TGAGCGGAGGAAGAGGTTGA 60.542 55.000 0.00 0.00 0.00 3.18
2849 2996 0.108424 CTGAGCGGAGGAAGAGGTTG 60.108 60.000 0.00 0.00 0.00 3.77
2850 2997 1.261238 CCTGAGCGGAGGAAGAGGTT 61.261 60.000 0.00 0.00 34.69 3.50
2851 2998 1.684049 CCTGAGCGGAGGAAGAGGT 60.684 63.158 0.00 0.00 34.69 3.85
2852 2999 3.087666 GCCTGAGCGGAGGAAGAGG 62.088 68.421 8.16 0.00 34.69 3.69
2853 3000 2.015227 GAGCCTGAGCGGAGGAAGAG 62.015 65.000 8.16 0.00 46.67 2.85
2854 3001 2.038007 AGCCTGAGCGGAGGAAGA 59.962 61.111 8.16 0.00 46.67 2.87
2855 3002 2.498726 GAGCCTGAGCGGAGGAAG 59.501 66.667 8.16 0.00 46.67 3.46
2856 3003 3.452786 CGAGCCTGAGCGGAGGAA 61.453 66.667 8.16 0.00 46.67 3.36
2857 3004 3.938637 TTCGAGCCTGAGCGGAGGA 62.939 63.158 8.16 0.00 46.67 3.71
2858 3005 2.507110 TTTTCGAGCCTGAGCGGAGG 62.507 60.000 0.00 0.00 46.67 4.30
2859 3006 1.079819 TTTTCGAGCCTGAGCGGAG 60.080 57.895 0.00 0.00 46.67 4.63
2860 3007 1.374252 GTTTTCGAGCCTGAGCGGA 60.374 57.895 0.00 0.00 46.67 5.54
2861 3008 1.227999 TTGTTTTCGAGCCTGAGCGG 61.228 55.000 0.00 0.00 46.67 5.52
2862 3009 0.586319 TTTGTTTTCGAGCCTGAGCG 59.414 50.000 0.00 0.00 46.67 5.03
2863 3010 2.774439 TTTTGTTTTCGAGCCTGAGC 57.226 45.000 0.00 0.00 40.32 4.26
2864 3011 4.027572 TGTTTTTGTTTTCGAGCCTGAG 57.972 40.909 0.00 0.00 0.00 3.35
2865 3012 4.442375 TTGTTTTTGTTTTCGAGCCTGA 57.558 36.364 0.00 0.00 0.00 3.86
2866 3013 5.523013 TTTTGTTTTTGTTTTCGAGCCTG 57.477 34.783 0.00 0.00 0.00 4.85
2867 3014 7.039270 AGTATTTTGTTTTTGTTTTCGAGCCT 58.961 30.769 0.00 0.00 0.00 4.58
2868 3015 7.229228 AGTATTTTGTTTTTGTTTTCGAGCC 57.771 32.000 0.00 0.00 0.00 4.70
2881 3028 9.418045 CCATAACGGATGAAAAGTATTTTGTTT 57.582 29.630 1.40 0.00 43.27 2.83
2882 3029 7.544217 GCCATAACGGATGAAAAGTATTTTGTT 59.456 33.333 1.40 0.00 43.27 2.83
2883 3030 7.033185 GCCATAACGGATGAAAAGTATTTTGT 58.967 34.615 1.40 0.00 43.27 2.83
2884 3031 7.009174 GTGCCATAACGGATGAAAAGTATTTTG 59.991 37.037 1.40 0.00 43.27 2.44
2885 3032 7.033185 GTGCCATAACGGATGAAAAGTATTTT 58.967 34.615 1.40 0.00 45.21 1.82
2886 3033 6.405397 GGTGCCATAACGGATGAAAAGTATTT 60.405 38.462 1.40 0.00 36.92 1.40
2887 3034 5.067283 GGTGCCATAACGGATGAAAAGTATT 59.933 40.000 1.40 0.00 37.82 1.89
2888 3035 4.578928 GGTGCCATAACGGATGAAAAGTAT 59.421 41.667 1.40 0.00 37.82 2.12
2889 3036 3.942748 GGTGCCATAACGGATGAAAAGTA 59.057 43.478 1.40 0.00 37.82 2.24
2890 3037 2.752903 GGTGCCATAACGGATGAAAAGT 59.247 45.455 1.40 0.00 37.82 2.66
2891 3038 2.099098 GGGTGCCATAACGGATGAAAAG 59.901 50.000 1.40 0.00 37.82 2.27
2892 3039 2.096248 GGGTGCCATAACGGATGAAAA 58.904 47.619 1.40 0.00 37.82 2.29
2893 3040 1.004862 TGGGTGCCATAACGGATGAAA 59.995 47.619 1.40 0.00 37.82 2.69
2894 3041 0.621082 TGGGTGCCATAACGGATGAA 59.379 50.000 1.40 0.00 37.82 2.57
2895 3042 0.180171 CTGGGTGCCATAACGGATGA 59.820 55.000 1.40 0.00 37.82 2.92
2896 3043 0.819259 CCTGGGTGCCATAACGGATG 60.819 60.000 0.00 0.00 36.56 3.51
2897 3044 1.531748 CCTGGGTGCCATAACGGAT 59.468 57.895 0.00 0.00 36.56 4.18
2898 3045 2.994699 CCTGGGTGCCATAACGGA 59.005 61.111 0.00 0.00 36.56 4.69
2899 3046 2.828549 GCCTGGGTGCCATAACGG 60.829 66.667 0.00 0.00 30.82 4.44
2907 3054 3.010413 GCATTTGAGGCCTGGGTGC 62.010 63.158 12.00 11.83 0.00 5.01
2908 3055 2.703798 CGCATTTGAGGCCTGGGTG 61.704 63.158 12.00 4.65 0.00 4.61
2909 3056 2.361610 CGCATTTGAGGCCTGGGT 60.362 61.111 12.00 0.00 0.00 4.51
2910 3057 1.250154 TTTCGCATTTGAGGCCTGGG 61.250 55.000 12.00 4.49 0.00 4.45
2911 3058 0.819582 ATTTCGCATTTGAGGCCTGG 59.180 50.000 12.00 0.00 0.00 4.45
2912 3059 1.203052 ACATTTCGCATTTGAGGCCTG 59.797 47.619 12.00 0.00 0.00 4.85
2913 3060 1.549203 ACATTTCGCATTTGAGGCCT 58.451 45.000 3.86 3.86 0.00 5.19
2914 3061 3.316308 AGATACATTTCGCATTTGAGGCC 59.684 43.478 0.00 0.00 0.00 5.19
2915 3062 4.274459 AGAGATACATTTCGCATTTGAGGC 59.726 41.667 0.00 0.00 0.00 4.70
2916 3063 5.332883 CGAGAGATACATTTCGCATTTGAGG 60.333 44.000 0.00 0.00 0.00 3.86
2917 3064 5.664262 CGAGAGATACATTTCGCATTTGAG 58.336 41.667 0.00 0.00 0.00 3.02
2918 3065 5.641777 CGAGAGATACATTTCGCATTTGA 57.358 39.130 0.00 0.00 0.00 2.69
2925 3072 1.789464 GCAGGCGAGAGATACATTTCG 59.211 52.381 0.00 0.00 36.23 3.46
2926 3073 2.139118 GGCAGGCGAGAGATACATTTC 58.861 52.381 0.00 0.00 0.00 2.17
2927 3074 1.765314 AGGCAGGCGAGAGATACATTT 59.235 47.619 0.00 0.00 0.00 2.32
2928 3075 1.342819 GAGGCAGGCGAGAGATACATT 59.657 52.381 0.00 0.00 0.00 2.71
2929 3076 0.965439 GAGGCAGGCGAGAGATACAT 59.035 55.000 0.00 0.00 0.00 2.29
2930 3077 0.106469 AGAGGCAGGCGAGAGATACA 60.106 55.000 0.00 0.00 0.00 2.29
2931 3078 0.596082 GAGAGGCAGGCGAGAGATAC 59.404 60.000 0.00 0.00 0.00 2.24
2932 3079 0.476338 AGAGAGGCAGGCGAGAGATA 59.524 55.000 0.00 0.00 0.00 1.98
2933 3080 1.108727 CAGAGAGGCAGGCGAGAGAT 61.109 60.000 0.00 0.00 0.00 2.75
2934 3081 1.752310 CAGAGAGGCAGGCGAGAGA 60.752 63.158 0.00 0.00 0.00 3.10
2935 3082 2.784356 CCAGAGAGGCAGGCGAGAG 61.784 68.421 0.00 0.00 0.00 3.20
2936 3083 2.757508 CCAGAGAGGCAGGCGAGA 60.758 66.667 0.00 0.00 0.00 4.04
2949 3096 4.089239 TATTGTGCGGGCGCCAGA 62.089 61.111 31.49 12.59 41.09 3.86
2950 3097 3.576356 CTATTGTGCGGGCGCCAG 61.576 66.667 30.85 27.00 41.09 4.85
2954 3101 3.202001 CACCCTATTGTGCGGGCG 61.202 66.667 0.00 0.00 44.63 6.13
2955 3102 2.828549 CCACCCTATTGTGCGGGC 60.829 66.667 0.00 0.00 44.63 6.13
2956 3103 2.828549 GCCACCCTATTGTGCGGG 60.829 66.667 0.00 0.00 46.26 6.13
2957 3104 2.828549 GGCCACCCTATTGTGCGG 60.829 66.667 0.00 0.00 34.85 5.69
2958 3105 2.828549 GGGCCACCCTATTGTGCG 60.829 66.667 4.39 0.00 41.34 5.34
2959 3106 0.687427 AATGGGCCACCCTATTGTGC 60.687 55.000 9.28 0.00 45.70 4.57
2960 3107 2.586425 CTAATGGGCCACCCTATTGTG 58.414 52.381 9.28 0.00 45.70 3.33
2961 3108 1.499007 CCTAATGGGCCACCCTATTGT 59.501 52.381 9.28 0.00 45.70 2.71
2962 3109 1.499007 ACCTAATGGGCCACCCTATTG 59.501 52.381 9.28 0.00 45.70 1.90
2963 3110 1.780919 GACCTAATGGGCCACCCTATT 59.219 52.381 9.28 0.29 45.70 1.73
2964 3111 1.446016 GACCTAATGGGCCACCCTAT 58.554 55.000 9.28 0.00 45.70 2.57
2965 3112 2.939780 GACCTAATGGGCCACCCTA 58.060 57.895 9.28 0.00 45.70 3.53
2966 3113 3.755467 GACCTAATGGGCCACCCT 58.245 61.111 9.28 0.00 45.70 4.34
2972 3119 1.523032 CGAACGGGACCTAATGGGC 60.523 63.158 0.00 0.00 41.93 5.36
2973 3120 1.145377 CCGAACGGGACCTAATGGG 59.855 63.158 5.25 0.00 38.47 4.00
2974 3121 0.251073 AACCGAACGGGACCTAATGG 59.749 55.000 17.44 0.00 39.97 3.16
2975 3122 1.066716 TGAACCGAACGGGACCTAATG 60.067 52.381 17.44 0.00 39.97 1.90
2976 3123 1.269012 TGAACCGAACGGGACCTAAT 58.731 50.000 17.44 0.00 39.97 1.73
2977 3124 1.269012 ATGAACCGAACGGGACCTAA 58.731 50.000 17.44 0.00 39.97 2.69
2978 3125 1.205417 GAATGAACCGAACGGGACCTA 59.795 52.381 17.44 0.10 39.97 3.08
2979 3126 0.036671 GAATGAACCGAACGGGACCT 60.037 55.000 17.44 1.84 39.97 3.85
2980 3127 1.356527 CGAATGAACCGAACGGGACC 61.357 60.000 17.44 6.53 39.97 4.46
2981 3128 0.668401 ACGAATGAACCGAACGGGAC 60.668 55.000 17.44 10.75 39.97 4.46
2982 3129 0.668096 CACGAATGAACCGAACGGGA 60.668 55.000 17.44 1.63 39.97 5.14
2983 3130 0.668096 TCACGAATGAACCGAACGGG 60.668 55.000 17.44 0.00 43.62 5.28
2984 3131 1.141645 TTCACGAATGAACCGAACGG 58.858 50.000 11.83 11.83 40.01 4.44
2992 3139 2.542020 TCCTGCAGTTCACGAATGAA 57.458 45.000 13.81 0.00 42.73 2.57
2993 3140 2.542020 TTCCTGCAGTTCACGAATGA 57.458 45.000 13.81 0.00 0.00 2.57
2994 3141 3.837213 AATTCCTGCAGTTCACGAATG 57.163 42.857 13.81 0.00 32.98 2.67
2995 3142 4.549458 CAAAATTCCTGCAGTTCACGAAT 58.451 39.130 13.81 10.83 33.70 3.34
2996 3143 3.795150 GCAAAATTCCTGCAGTTCACGAA 60.795 43.478 13.81 8.85 39.69 3.85
2997 3144 2.287547 GCAAAATTCCTGCAGTTCACGA 60.288 45.455 13.81 0.00 39.69 4.35
2998 3145 2.053627 GCAAAATTCCTGCAGTTCACG 58.946 47.619 13.81 0.00 39.69 4.35
2999 3146 3.096489 TGCAAAATTCCTGCAGTTCAC 57.904 42.857 13.81 0.00 44.67 3.18
3006 3153 3.465871 TCAAAACCTGCAAAATTCCTGC 58.534 40.909 5.70 5.70 40.35 4.85
3007 3154 4.386652 CGATCAAAACCTGCAAAATTCCTG 59.613 41.667 0.00 0.00 0.00 3.86
3008 3155 4.280677 TCGATCAAAACCTGCAAAATTCCT 59.719 37.500 0.00 0.00 0.00 3.36
3009 3156 4.555262 TCGATCAAAACCTGCAAAATTCC 58.445 39.130 0.00 0.00 0.00 3.01
3010 3157 6.523676 TTTCGATCAAAACCTGCAAAATTC 57.476 33.333 0.00 0.00 0.00 2.17
3011 3158 6.705381 TGATTTCGATCAAAACCTGCAAAATT 59.295 30.769 0.00 0.00 0.00 1.82
3012 3159 6.222389 TGATTTCGATCAAAACCTGCAAAAT 58.778 32.000 0.00 0.00 0.00 1.82
3013 3160 5.595885 TGATTTCGATCAAAACCTGCAAAA 58.404 33.333 0.00 0.00 0.00 2.44
3014 3161 5.193663 TGATTTCGATCAAAACCTGCAAA 57.806 34.783 0.00 0.00 0.00 3.68
3015 3162 4.844998 TGATTTCGATCAAAACCTGCAA 57.155 36.364 0.00 0.00 0.00 4.08
3016 3163 4.844998 TTGATTTCGATCAAAACCTGCA 57.155 36.364 0.00 0.00 37.59 4.41
3029 3176 9.807386 ACGAATACTCTTTAACTTTTGATTTCG 57.193 29.630 0.00 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.