Multiple sequence alignment - TraesCS6B01G243200

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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 TraesCS6B01G243200 chr6B 100.000 3062 0 0 1 3062 432489491 432486430 0.000000e+00 5655
1 TraesCS6B01G243200 chr6B 97.386 306 8 0 2757 3062 293106264 293105959 3.500000e-144 521
2 TraesCS6B01G243200 chr6D 95.700 2535 66 16 1 2507 271303197 271300678 0.000000e+00 4037
3 TraesCS6B01G243200 chr6D 92.045 88 3 4 2546 2632 271300283 271300199 1.490000e-23 121
4 TraesCS6B01G243200 chr7B 98.674 2262 24 2 1 2257 437929737 437931997 0.000000e+00 4006
5 TraesCS6B01G243200 chr7B 96.471 510 13 5 2263 2770 437932155 437932661 0.000000e+00 837
6 TraesCS6B01G243200 chr7B 97.377 305 8 0 2758 3062 558863900 558864204 1.260000e-143 520
7 TraesCS6B01G243200 chr6A 96.434 2103 59 5 279 2373 384686862 384688956 0.000000e+00 3454
8 TraesCS6B01G243200 chr6A 87.685 406 41 9 2369 2770 384689115 384689515 5.980000e-127 464
9 TraesCS6B01G243200 chr6A 93.191 235 16 0 2 236 384686349 384686583 2.260000e-91 346
10 TraesCS6B01G243200 chr3B 97.377 305 8 0 2757 3061 476292231 476291927 1.260000e-143 520
11 TraesCS6B01G243200 chr1A 97.377 305 8 0 2757 3061 108906936 108907240 1.260000e-143 520
12 TraesCS6B01G243200 chr1A 97.078 308 7 1 2754 3061 23771819 23771514 4.530000e-143 518
13 TraesCS6B01G243200 chr7A 97.068 307 9 0 2755 3061 281734732 281734426 4.530000e-143 518
14 TraesCS6B01G243200 chr3A 97.078 308 6 1 2754 3061 529072858 529072554 1.630000e-142 516
15 TraesCS6B01G243200 chr3A 96.463 311 11 0 2751 3061 413859958 413860268 5.850000e-142 514
16 TraesCS6B01G243200 chr5A 96.190 315 11 1 2747 3061 78538555 78538242 5.850000e-142 514


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 TraesCS6B01G243200 chr6B 432486430 432489491 3061 True 5655.000000 5655 100.000000 1 3062 1 chr6B.!!$R2 3061
1 TraesCS6B01G243200 chr6D 271300199 271303197 2998 True 2079.000000 4037 93.872500 1 2632 2 chr6D.!!$R1 2631
2 TraesCS6B01G243200 chr7B 437929737 437932661 2924 False 2421.500000 4006 97.572500 1 2770 2 chr7B.!!$F2 2769
3 TraesCS6B01G243200 chr6A 384686349 384689515 3166 False 1421.333333 3454 92.436667 2 2770 3 chr6A.!!$F1 2768

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
186 187 2.865551 CACAAACACCATTTGACTTGGC 59.134 45.455 6.4 0.0 37.81 4.52 F
1280 1527 0.249784 CTCCCTGTCATGCCATCTCG 60.250 60.000 0.0 0.0 0.00 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1611 1858 1.614525 ACCAGAGCATGCAGAGGGA 60.615 57.895 21.98 0.0 0.0 4.20 R
2983 3919 0.026803 GCTAAAGCGTGCGGAGAATG 59.973 55.000 0.00 0.0 0.0 2.67 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
126 127 4.320870 CCGGCCACTTTTTAGAGAACTTA 58.679 43.478 2.24 0.00 0.00 2.24
146 147 5.945784 ACTTATGCATGCTCTTTTGTTCCTA 59.054 36.000 20.33 0.00 0.00 2.94
186 187 2.865551 CACAAACACCATTTGACTTGGC 59.134 45.455 6.40 0.00 37.81 4.52
841 1087 5.550232 TGTTTTCATCATTCCATGTCTCG 57.450 39.130 0.00 0.00 0.00 4.04
1280 1527 0.249784 CTCCCTGTCATGCCATCTCG 60.250 60.000 0.00 0.00 0.00 4.04
1980 2227 5.643348 TGTTGATATCTTGAATGTCGCAAGT 59.357 36.000 3.98 0.00 42.49 3.16
2236 2486 8.060679 CGAATGTCAGATTGTCAATCAGTTATC 58.939 37.037 24.13 14.42 40.42 1.75
2770 3706 1.269569 GGCACAAACAACAAGCCCTAC 60.270 52.381 0.00 0.00 39.42 3.18
2771 3707 1.407258 GCACAAACAACAAGCCCTACA 59.593 47.619 0.00 0.00 0.00 2.74
2772 3708 2.159170 GCACAAACAACAAGCCCTACAA 60.159 45.455 0.00 0.00 0.00 2.41
2773 3709 3.443976 CACAAACAACAAGCCCTACAAC 58.556 45.455 0.00 0.00 0.00 3.32
2774 3710 3.093057 ACAAACAACAAGCCCTACAACA 58.907 40.909 0.00 0.00 0.00 3.33
2775 3711 3.511934 ACAAACAACAAGCCCTACAACAA 59.488 39.130 0.00 0.00 0.00 2.83
2776 3712 3.793797 AACAACAAGCCCTACAACAAC 57.206 42.857 0.00 0.00 0.00 3.32
2777 3713 2.729194 ACAACAAGCCCTACAACAACA 58.271 42.857 0.00 0.00 0.00 3.33
2778 3714 3.093057 ACAACAAGCCCTACAACAACAA 58.907 40.909 0.00 0.00 0.00 2.83
2779 3715 3.119280 ACAACAAGCCCTACAACAACAAC 60.119 43.478 0.00 0.00 0.00 3.32
2780 3716 2.729194 ACAAGCCCTACAACAACAACA 58.271 42.857 0.00 0.00 0.00 3.33
2781 3717 3.093057 ACAAGCCCTACAACAACAACAA 58.907 40.909 0.00 0.00 0.00 2.83
2782 3718 3.511934 ACAAGCCCTACAACAACAACAAA 59.488 39.130 0.00 0.00 0.00 2.83
2783 3719 4.111916 CAAGCCCTACAACAACAACAAAG 58.888 43.478 0.00 0.00 0.00 2.77
2784 3720 2.100749 AGCCCTACAACAACAACAAAGC 59.899 45.455 0.00 0.00 0.00 3.51
2785 3721 2.801699 GCCCTACAACAACAACAAAGCC 60.802 50.000 0.00 0.00 0.00 4.35
2786 3722 2.693074 CCCTACAACAACAACAAAGCCT 59.307 45.455 0.00 0.00 0.00 4.58
2787 3723 3.132111 CCCTACAACAACAACAAAGCCTT 59.868 43.478 0.00 0.00 0.00 4.35
2788 3724 4.382577 CCCTACAACAACAACAAAGCCTTT 60.383 41.667 0.00 0.00 0.00 3.11
2789 3725 5.163499 CCCTACAACAACAACAAAGCCTTTA 60.163 40.000 0.00 0.00 0.00 1.85
2790 3726 5.977129 CCTACAACAACAACAAAGCCTTTAG 59.023 40.000 0.00 0.00 0.00 1.85
2791 3727 5.400066 ACAACAACAACAAAGCCTTTAGT 57.600 34.783 0.00 0.00 0.00 2.24
2792 3728 5.407502 ACAACAACAACAAAGCCTTTAGTC 58.592 37.500 0.00 0.00 0.00 2.59
2793 3729 4.649088 ACAACAACAAAGCCTTTAGTCC 57.351 40.909 0.00 0.00 0.00 3.85
2794 3730 3.383505 ACAACAACAAAGCCTTTAGTCCC 59.616 43.478 0.00 0.00 0.00 4.46
2795 3731 3.306472 ACAACAAAGCCTTTAGTCCCA 57.694 42.857 0.00 0.00 0.00 4.37
2796 3732 3.637769 ACAACAAAGCCTTTAGTCCCAA 58.362 40.909 0.00 0.00 0.00 4.12
2797 3733 4.027437 ACAACAAAGCCTTTAGTCCCAAA 58.973 39.130 0.00 0.00 0.00 3.28
2798 3734 4.142026 ACAACAAAGCCTTTAGTCCCAAAC 60.142 41.667 0.00 0.00 0.00 2.93
2799 3735 3.637769 ACAAAGCCTTTAGTCCCAAACA 58.362 40.909 0.00 0.00 0.00 2.83
2800 3736 4.027437 ACAAAGCCTTTAGTCCCAAACAA 58.973 39.130 0.00 0.00 0.00 2.83
2801 3737 4.099419 ACAAAGCCTTTAGTCCCAAACAAG 59.901 41.667 0.00 0.00 0.00 3.16
2802 3738 3.595190 AGCCTTTAGTCCCAAACAAGT 57.405 42.857 0.00 0.00 0.00 3.16
2803 3739 3.910989 AGCCTTTAGTCCCAAACAAGTT 58.089 40.909 0.00 0.00 0.00 2.66
2804 3740 3.636764 AGCCTTTAGTCCCAAACAAGTTG 59.363 43.478 0.00 0.00 36.94 3.16
2813 3749 1.995376 CAAACAAGTTGGGGTAGGCT 58.005 50.000 7.96 0.00 33.18 4.58
2814 3750 3.149005 CAAACAAGTTGGGGTAGGCTA 57.851 47.619 7.96 0.00 33.18 3.93
2815 3751 3.081804 CAAACAAGTTGGGGTAGGCTAG 58.918 50.000 7.96 0.00 33.18 3.42
2816 3752 2.337359 ACAAGTTGGGGTAGGCTAGA 57.663 50.000 7.96 0.00 0.00 2.43
2817 3753 2.188817 ACAAGTTGGGGTAGGCTAGAG 58.811 52.381 7.96 0.00 0.00 2.43
2818 3754 1.486726 CAAGTTGGGGTAGGCTAGAGG 59.513 57.143 0.00 0.00 0.00 3.69
2819 3755 0.717196 AGTTGGGGTAGGCTAGAGGT 59.283 55.000 0.00 0.00 0.00 3.85
2820 3756 0.831307 GTTGGGGTAGGCTAGAGGTG 59.169 60.000 0.00 0.00 0.00 4.00
2821 3757 0.714180 TTGGGGTAGGCTAGAGGTGA 59.286 55.000 0.00 0.00 0.00 4.02
2822 3758 0.714180 TGGGGTAGGCTAGAGGTGAA 59.286 55.000 0.00 0.00 0.00 3.18
2823 3759 1.079825 TGGGGTAGGCTAGAGGTGAAA 59.920 52.381 0.00 0.00 0.00 2.69
2824 3760 1.485480 GGGGTAGGCTAGAGGTGAAAC 59.515 57.143 0.00 0.00 0.00 2.78
2839 3775 3.531538 GTGAAACCCATAAGATCTCGCA 58.468 45.455 0.00 0.00 0.00 5.10
2840 3776 3.938963 GTGAAACCCATAAGATCTCGCAA 59.061 43.478 0.00 0.00 0.00 4.85
2841 3777 3.938963 TGAAACCCATAAGATCTCGCAAC 59.061 43.478 0.00 0.00 0.00 4.17
2842 3778 2.622064 ACCCATAAGATCTCGCAACC 57.378 50.000 0.00 0.00 0.00 3.77
2843 3779 1.837439 ACCCATAAGATCTCGCAACCA 59.163 47.619 0.00 0.00 0.00 3.67
2844 3780 2.238646 ACCCATAAGATCTCGCAACCAA 59.761 45.455 0.00 0.00 0.00 3.67
2845 3781 2.614057 CCCATAAGATCTCGCAACCAAC 59.386 50.000 0.00 0.00 0.00 3.77
2846 3782 3.535561 CCATAAGATCTCGCAACCAACT 58.464 45.455 0.00 0.00 0.00 3.16
2847 3783 3.557595 CCATAAGATCTCGCAACCAACTC 59.442 47.826 0.00 0.00 0.00 3.01
2848 3784 2.839486 AAGATCTCGCAACCAACTCA 57.161 45.000 0.00 0.00 0.00 3.41
2849 3785 3.340814 AAGATCTCGCAACCAACTCAT 57.659 42.857 0.00 0.00 0.00 2.90
2850 3786 2.625737 AGATCTCGCAACCAACTCATG 58.374 47.619 0.00 0.00 0.00 3.07
2859 3795 3.942351 CCAACTCATGGCTCTGACA 57.058 52.632 0.00 0.00 43.80 3.58
2860 3796 1.446907 CCAACTCATGGCTCTGACAC 58.553 55.000 0.00 0.00 43.80 3.67
2861 3797 1.271001 CCAACTCATGGCTCTGACACA 60.271 52.381 0.00 0.00 43.80 3.72
2862 3798 2.617276 CCAACTCATGGCTCTGACACAT 60.617 50.000 0.00 0.00 43.80 3.21
2863 3799 2.398252 ACTCATGGCTCTGACACATG 57.602 50.000 9.42 9.42 42.44 3.21
2864 3800 1.065636 ACTCATGGCTCTGACACATGG 60.066 52.381 13.64 8.97 41.64 3.66
2865 3801 1.208776 CTCATGGCTCTGACACATGGA 59.791 52.381 13.64 4.22 41.64 3.41
2866 3802 1.841919 TCATGGCTCTGACACATGGAT 59.158 47.619 13.64 0.00 41.64 3.41
2867 3803 3.040477 TCATGGCTCTGACACATGGATA 58.960 45.455 13.64 0.00 41.64 2.59
2868 3804 3.070590 TCATGGCTCTGACACATGGATAG 59.929 47.826 13.64 0.00 41.64 2.08
2869 3805 1.139654 TGGCTCTGACACATGGATAGC 59.860 52.381 0.00 0.00 0.00 2.97
2870 3806 1.139654 GGCTCTGACACATGGATAGCA 59.860 52.381 0.00 0.00 0.00 3.49
2871 3807 2.420547 GGCTCTGACACATGGATAGCAA 60.421 50.000 0.00 0.00 0.00 3.91
2872 3808 2.871022 GCTCTGACACATGGATAGCAAG 59.129 50.000 0.00 0.00 0.00 4.01
2873 3809 2.871022 CTCTGACACATGGATAGCAAGC 59.129 50.000 0.00 0.00 0.00 4.01
2874 3810 2.502947 TCTGACACATGGATAGCAAGCT 59.497 45.455 0.00 0.00 0.00 3.74
2875 3811 3.054875 TCTGACACATGGATAGCAAGCTT 60.055 43.478 0.00 0.00 0.00 3.74
2876 3812 3.273434 TGACACATGGATAGCAAGCTTC 58.727 45.455 0.00 0.00 0.00 3.86
2877 3813 2.615912 GACACATGGATAGCAAGCTTCC 59.384 50.000 0.00 7.95 0.00 3.46
2878 3814 2.025981 ACACATGGATAGCAAGCTTCCA 60.026 45.455 20.33 20.33 43.37 3.53
2879 3815 2.357009 CACATGGATAGCAAGCTTCCAC 59.643 50.000 20.41 0.00 42.09 4.02
2880 3816 1.600957 CATGGATAGCAAGCTTCCACG 59.399 52.381 20.41 13.24 42.09 4.94
2881 3817 0.744414 TGGATAGCAAGCTTCCACGC 60.744 55.000 16.61 0.00 34.65 5.34
2882 3818 0.744414 GGATAGCAAGCTTCCACGCA 60.744 55.000 8.96 0.00 0.00 5.24
2883 3819 0.375106 GATAGCAAGCTTCCACGCAC 59.625 55.000 8.96 0.00 0.00 5.34
2884 3820 1.026718 ATAGCAAGCTTCCACGCACC 61.027 55.000 8.96 0.00 0.00 5.01
2885 3821 2.390306 TAGCAAGCTTCCACGCACCA 62.390 55.000 8.96 0.00 0.00 4.17
2886 3822 2.639286 CAAGCTTCCACGCACCAC 59.361 61.111 0.00 0.00 0.00 4.16
2887 3823 1.893808 CAAGCTTCCACGCACCACT 60.894 57.895 0.00 0.00 0.00 4.00
2888 3824 1.893808 AAGCTTCCACGCACCACTG 60.894 57.895 0.00 0.00 0.00 3.66
2889 3825 2.591715 GCTTCCACGCACCACTGT 60.592 61.111 0.00 0.00 0.00 3.55
2890 3826 2.607892 GCTTCCACGCACCACTGTC 61.608 63.158 0.00 0.00 0.00 3.51
2891 3827 1.961277 CTTCCACGCACCACTGTCC 60.961 63.158 0.00 0.00 0.00 4.02
2892 3828 2.658679 CTTCCACGCACCACTGTCCA 62.659 60.000 0.00 0.00 0.00 4.02
2893 3829 2.032528 CCACGCACCACTGTCCAT 59.967 61.111 0.00 0.00 0.00 3.41
2894 3830 1.188871 TCCACGCACCACTGTCCATA 61.189 55.000 0.00 0.00 0.00 2.74
2895 3831 0.740868 CCACGCACCACTGTCCATAG 60.741 60.000 0.00 0.00 0.00 2.23
2896 3832 1.079127 ACGCACCACTGTCCATAGC 60.079 57.895 0.00 0.00 0.00 2.97
2897 3833 1.219124 CGCACCACTGTCCATAGCT 59.781 57.895 0.00 0.00 0.00 3.32
2898 3834 0.459899 CGCACCACTGTCCATAGCTA 59.540 55.000 0.00 0.00 0.00 3.32
2899 3835 1.536922 CGCACCACTGTCCATAGCTAG 60.537 57.143 0.00 0.00 0.00 3.42
2900 3836 1.808133 GCACCACTGTCCATAGCTAGC 60.808 57.143 6.62 6.62 0.00 3.42
2901 3837 1.759445 CACCACTGTCCATAGCTAGCT 59.241 52.381 23.12 23.12 0.00 3.32
2902 3838 2.035632 ACCACTGTCCATAGCTAGCTC 58.964 52.381 23.26 7.00 0.00 4.09
2903 3839 2.315176 CCACTGTCCATAGCTAGCTCT 58.685 52.381 23.26 9.05 0.00 4.09
2904 3840 2.697751 CCACTGTCCATAGCTAGCTCTT 59.302 50.000 23.26 7.47 0.00 2.85
2905 3841 3.133721 CCACTGTCCATAGCTAGCTCTTT 59.866 47.826 23.26 4.57 0.00 2.52
2906 3842 4.118410 CACTGTCCATAGCTAGCTCTTTG 58.882 47.826 23.26 16.78 0.00 2.77
2907 3843 3.772025 ACTGTCCATAGCTAGCTCTTTGT 59.228 43.478 23.26 9.39 0.00 2.83
2908 3844 4.142049 ACTGTCCATAGCTAGCTCTTTGTC 60.142 45.833 23.26 12.44 0.00 3.18
2909 3845 3.181486 TGTCCATAGCTAGCTCTTTGTCG 60.181 47.826 23.26 6.37 0.00 4.35
2910 3846 3.066900 GTCCATAGCTAGCTCTTTGTCGA 59.933 47.826 23.26 8.50 0.00 4.20
2911 3847 3.891977 TCCATAGCTAGCTCTTTGTCGAT 59.108 43.478 23.26 3.19 0.00 3.59
2912 3848 5.048643 GTCCATAGCTAGCTCTTTGTCGATA 60.049 44.000 23.26 0.00 0.00 2.92
2913 3849 5.048643 TCCATAGCTAGCTCTTTGTCGATAC 60.049 44.000 23.26 0.00 0.00 2.24
2914 3850 5.048364 CCATAGCTAGCTCTTTGTCGATACT 60.048 44.000 23.26 0.00 0.00 2.12
2915 3851 4.561735 AGCTAGCTCTTTGTCGATACTC 57.438 45.455 12.68 0.00 0.00 2.59
2916 3852 3.316868 AGCTAGCTCTTTGTCGATACTCC 59.683 47.826 12.68 0.00 0.00 3.85
2917 3853 3.066900 GCTAGCTCTTTGTCGATACTCCA 59.933 47.826 7.70 0.00 0.00 3.86
2918 3854 4.440250 GCTAGCTCTTTGTCGATACTCCAA 60.440 45.833 7.70 0.00 0.00 3.53
2919 3855 4.744795 AGCTCTTTGTCGATACTCCAAT 57.255 40.909 0.00 0.00 0.00 3.16
2920 3856 5.091261 AGCTCTTTGTCGATACTCCAATT 57.909 39.130 0.00 0.00 0.00 2.32
2921 3857 5.112686 AGCTCTTTGTCGATACTCCAATTC 58.887 41.667 0.00 0.00 0.00 2.17
2922 3858 5.105146 AGCTCTTTGTCGATACTCCAATTCT 60.105 40.000 0.00 0.00 0.00 2.40
2923 3859 5.582665 GCTCTTTGTCGATACTCCAATTCTT 59.417 40.000 0.00 0.00 0.00 2.52
2924 3860 6.237969 GCTCTTTGTCGATACTCCAATTCTTC 60.238 42.308 0.00 0.00 0.00 2.87
2925 3861 6.697395 TCTTTGTCGATACTCCAATTCTTCA 58.303 36.000 0.00 0.00 0.00 3.02
2926 3862 6.813649 TCTTTGTCGATACTCCAATTCTTCAG 59.186 38.462 0.00 0.00 0.00 3.02
2927 3863 5.011090 TGTCGATACTCCAATTCTTCAGG 57.989 43.478 0.00 0.00 0.00 3.86
2928 3864 4.466370 TGTCGATACTCCAATTCTTCAGGT 59.534 41.667 0.00 0.00 0.00 4.00
2929 3865 5.044558 GTCGATACTCCAATTCTTCAGGTC 58.955 45.833 0.00 0.00 0.00 3.85
2930 3866 4.956700 TCGATACTCCAATTCTTCAGGTCT 59.043 41.667 0.00 0.00 0.00 3.85
2931 3867 5.067936 TCGATACTCCAATTCTTCAGGTCTC 59.932 44.000 0.00 0.00 0.00 3.36
2932 3868 5.068460 CGATACTCCAATTCTTCAGGTCTCT 59.932 44.000 0.00 0.00 0.00 3.10
2933 3869 4.817318 ACTCCAATTCTTCAGGTCTCTC 57.183 45.455 0.00 0.00 0.00 3.20
2934 3870 4.424842 ACTCCAATTCTTCAGGTCTCTCT 58.575 43.478 0.00 0.00 0.00 3.10
2935 3871 4.843516 ACTCCAATTCTTCAGGTCTCTCTT 59.156 41.667 0.00 0.00 0.00 2.85
2936 3872 6.019748 ACTCCAATTCTTCAGGTCTCTCTTA 58.980 40.000 0.00 0.00 0.00 2.10
2937 3873 6.498651 ACTCCAATTCTTCAGGTCTCTCTTAA 59.501 38.462 0.00 0.00 0.00 1.85
2938 3874 6.702329 TCCAATTCTTCAGGTCTCTCTTAAC 58.298 40.000 0.00 0.00 0.00 2.01
2939 3875 5.578727 CCAATTCTTCAGGTCTCTCTTAACG 59.421 44.000 0.00 0.00 0.00 3.18
2940 3876 4.785511 TTCTTCAGGTCTCTCTTAACGG 57.214 45.455 0.00 0.00 0.00 4.44
2941 3877 4.030314 TCTTCAGGTCTCTCTTAACGGA 57.970 45.455 0.00 0.00 0.00 4.69
2942 3878 3.757493 TCTTCAGGTCTCTCTTAACGGAC 59.243 47.826 0.00 0.00 0.00 4.79
2943 3879 3.436577 TCAGGTCTCTCTTAACGGACT 57.563 47.619 0.00 0.00 0.00 3.85
2944 3880 3.345414 TCAGGTCTCTCTTAACGGACTC 58.655 50.000 0.00 0.00 0.00 3.36
2945 3881 2.424246 CAGGTCTCTCTTAACGGACTCC 59.576 54.545 0.00 0.00 0.00 3.85
2946 3882 2.309458 AGGTCTCTCTTAACGGACTCCT 59.691 50.000 0.00 0.00 0.00 3.69
2947 3883 2.684374 GGTCTCTCTTAACGGACTCCTC 59.316 54.545 0.00 0.00 0.00 3.71
2948 3884 2.684374 GTCTCTCTTAACGGACTCCTCC 59.316 54.545 0.00 0.00 0.00 4.30
2949 3885 2.025898 CTCTCTTAACGGACTCCTCCC 58.974 57.143 0.00 0.00 31.93 4.30
2950 3886 1.356738 TCTCTTAACGGACTCCTCCCA 59.643 52.381 0.00 0.00 31.93 4.37
2951 3887 2.024273 TCTCTTAACGGACTCCTCCCAT 60.024 50.000 0.00 0.00 31.93 4.00
2952 3888 2.101582 CTCTTAACGGACTCCTCCCATG 59.898 54.545 0.00 0.00 31.93 3.66
2953 3889 1.831736 CTTAACGGACTCCTCCCATGT 59.168 52.381 0.00 0.00 31.93 3.21
2954 3890 1.481871 TAACGGACTCCTCCCATGTC 58.518 55.000 0.00 0.00 31.93 3.06
2955 3891 0.544357 AACGGACTCCTCCCATGTCA 60.544 55.000 0.00 0.00 31.93 3.58
2956 3892 0.544357 ACGGACTCCTCCCATGTCAA 60.544 55.000 0.00 0.00 31.93 3.18
2957 3893 0.613260 CGGACTCCTCCCATGTCAAA 59.387 55.000 0.00 0.00 31.93 2.69
2958 3894 1.210478 CGGACTCCTCCCATGTCAAAT 59.790 52.381 0.00 0.00 31.93 2.32
2959 3895 2.356125 CGGACTCCTCCCATGTCAAATT 60.356 50.000 0.00 0.00 31.93 1.82
2960 3896 3.282885 GGACTCCTCCCATGTCAAATTC 58.717 50.000 0.00 0.00 32.84 2.17
2961 3897 2.939103 GACTCCTCCCATGTCAAATTCG 59.061 50.000 0.00 0.00 0.00 3.34
2962 3898 2.292267 CTCCTCCCATGTCAAATTCGG 58.708 52.381 0.00 0.00 0.00 4.30
2963 3899 1.633432 TCCTCCCATGTCAAATTCGGT 59.367 47.619 0.00 0.00 0.00 4.69
2964 3900 2.017049 CCTCCCATGTCAAATTCGGTC 58.983 52.381 0.00 0.00 0.00 4.79
2965 3901 1.665679 CTCCCATGTCAAATTCGGTCG 59.334 52.381 0.00 0.00 0.00 4.79
2966 3902 1.276705 TCCCATGTCAAATTCGGTCGA 59.723 47.619 0.00 0.00 0.00 4.20
2967 3903 1.396996 CCCATGTCAAATTCGGTCGAC 59.603 52.381 7.13 7.13 0.00 4.20
2968 3904 1.396996 CCATGTCAAATTCGGTCGACC 59.603 52.381 25.28 25.28 0.00 4.79
2969 3905 1.396996 CATGTCAAATTCGGTCGACCC 59.603 52.381 28.52 12.33 0.00 4.46
2970 3906 0.682852 TGTCAAATTCGGTCGACCCT 59.317 50.000 28.52 11.00 0.00 4.34
2971 3907 1.076332 GTCAAATTCGGTCGACCCTG 58.924 55.000 28.52 15.81 0.00 4.45
2972 3908 0.672401 TCAAATTCGGTCGACCCTGC 60.672 55.000 28.52 4.12 0.00 4.85
2973 3909 1.376812 AAATTCGGTCGACCCTGCC 60.377 57.895 28.52 3.72 0.00 4.85
2974 3910 2.814913 AAATTCGGTCGACCCTGCCC 62.815 60.000 28.52 2.90 0.00 5.36
2978 3914 3.462678 GGTCGACCCTGCCCTCTC 61.463 72.222 24.75 0.00 0.00 3.20
2979 3915 2.363147 GTCGACCCTGCCCTCTCT 60.363 66.667 3.51 0.00 0.00 3.10
2980 3916 1.985116 GTCGACCCTGCCCTCTCTT 60.985 63.158 3.51 0.00 0.00 2.85
2981 3917 1.984570 TCGACCCTGCCCTCTCTTG 60.985 63.158 0.00 0.00 0.00 3.02
2982 3918 1.984570 CGACCCTGCCCTCTCTTGA 60.985 63.158 0.00 0.00 0.00 3.02
2983 3919 1.599576 GACCCTGCCCTCTCTTGAC 59.400 63.158 0.00 0.00 0.00 3.18
2984 3920 1.152030 ACCCTGCCCTCTCTTGACA 60.152 57.895 0.00 0.00 0.00 3.58
2985 3921 0.548682 ACCCTGCCCTCTCTTGACAT 60.549 55.000 0.00 0.00 0.00 3.06
2986 3922 0.622665 CCCTGCCCTCTCTTGACATT 59.377 55.000 0.00 0.00 0.00 2.71
2987 3923 1.407989 CCCTGCCCTCTCTTGACATTC 60.408 57.143 0.00 0.00 0.00 2.67
2988 3924 1.558756 CCTGCCCTCTCTTGACATTCT 59.441 52.381 0.00 0.00 0.00 2.40
2989 3925 2.419851 CCTGCCCTCTCTTGACATTCTC 60.420 54.545 0.00 0.00 0.00 2.87
2990 3926 1.556911 TGCCCTCTCTTGACATTCTCC 59.443 52.381 0.00 0.00 0.00 3.71
2991 3927 1.472376 GCCCTCTCTTGACATTCTCCG 60.472 57.143 0.00 0.00 0.00 4.63
2992 3928 1.472376 CCCTCTCTTGACATTCTCCGC 60.472 57.143 0.00 0.00 0.00 5.54
2993 3929 1.205655 CCTCTCTTGACATTCTCCGCA 59.794 52.381 0.00 0.00 0.00 5.69
2994 3930 2.266554 CTCTCTTGACATTCTCCGCAC 58.733 52.381 0.00 0.00 0.00 5.34
2995 3931 0.994995 CTCTTGACATTCTCCGCACG 59.005 55.000 0.00 0.00 0.00 5.34
2996 3932 1.014044 TCTTGACATTCTCCGCACGC 61.014 55.000 0.00 0.00 0.00 5.34
2997 3933 1.005037 TTGACATTCTCCGCACGCT 60.005 52.632 0.00 0.00 0.00 5.07
2998 3934 0.602638 TTGACATTCTCCGCACGCTT 60.603 50.000 0.00 0.00 0.00 4.68
2999 3935 0.602638 TGACATTCTCCGCACGCTTT 60.603 50.000 0.00 0.00 0.00 3.51
3000 3936 1.337354 TGACATTCTCCGCACGCTTTA 60.337 47.619 0.00 0.00 0.00 1.85
3001 3937 1.324736 GACATTCTCCGCACGCTTTAG 59.675 52.381 0.00 0.00 0.00 1.85
3002 3938 0.026803 CATTCTCCGCACGCTTTAGC 59.973 55.000 0.00 0.00 37.78 3.09
3003 3939 1.090052 ATTCTCCGCACGCTTTAGCC 61.090 55.000 0.00 0.00 37.91 3.93
3004 3940 3.554692 CTCCGCACGCTTTAGCCG 61.555 66.667 0.00 0.00 37.91 5.52
3005 3941 4.367023 TCCGCACGCTTTAGCCGT 62.367 61.111 0.00 0.00 37.91 5.68
3006 3942 3.849953 CCGCACGCTTTAGCCGTC 61.850 66.667 0.00 0.00 37.91 4.79
3007 3943 3.849953 CGCACGCTTTAGCCGTCC 61.850 66.667 0.00 0.00 37.91 4.79
3008 3944 3.849953 GCACGCTTTAGCCGTCCG 61.850 66.667 0.00 0.00 37.91 4.79
3009 3945 3.849953 CACGCTTTAGCCGTCCGC 61.850 66.667 0.00 0.00 37.91 5.54
3018 3954 3.264897 GCCGTCCGCTATGCACTG 61.265 66.667 0.00 0.00 0.00 3.66
3019 3955 2.586079 CCGTCCGCTATGCACTGG 60.586 66.667 0.00 0.00 0.00 4.00
3020 3956 2.494445 CGTCCGCTATGCACTGGA 59.506 61.111 0.00 0.00 0.00 3.86
3021 3957 1.589993 CGTCCGCTATGCACTGGAG 60.590 63.158 0.00 0.00 0.00 3.86
3022 3958 1.884926 GTCCGCTATGCACTGGAGC 60.885 63.158 0.00 0.00 0.00 4.70
3023 3959 2.060383 TCCGCTATGCACTGGAGCT 61.060 57.895 9.31 0.00 33.91 4.09
3024 3960 1.153289 CCGCTATGCACTGGAGCTT 60.153 57.895 9.31 0.00 33.91 3.74
3025 3961 1.156645 CCGCTATGCACTGGAGCTTC 61.157 60.000 9.31 0.00 33.91 3.86
3026 3962 0.179089 CGCTATGCACTGGAGCTTCT 60.179 55.000 9.31 0.00 33.91 2.85
3027 3963 1.297664 GCTATGCACTGGAGCTTCTG 58.702 55.000 0.00 0.00 33.28 3.02
3028 3964 1.950828 CTATGCACTGGAGCTTCTGG 58.049 55.000 3.68 0.00 34.99 3.86
3029 3965 1.483827 CTATGCACTGGAGCTTCTGGA 59.516 52.381 3.68 0.00 34.99 3.86
3030 3966 0.252479 ATGCACTGGAGCTTCTGGAG 59.748 55.000 3.68 0.00 34.99 3.86
3031 3967 1.078567 GCACTGGAGCTTCTGGAGG 60.079 63.158 3.68 0.00 0.00 4.30
3032 3968 1.078567 CACTGGAGCTTCTGGAGGC 60.079 63.158 3.68 0.00 0.00 4.70
3033 3969 2.297129 ACTGGAGCTTCTGGAGGCC 61.297 63.158 3.68 0.00 33.44 5.19
3034 3970 1.994507 CTGGAGCTTCTGGAGGCCT 60.995 63.158 3.86 3.86 33.44 5.19
3035 3971 2.254737 CTGGAGCTTCTGGAGGCCTG 62.255 65.000 12.00 0.00 33.44 4.85
3036 3972 2.124778 GAGCTTCTGGAGGCCTGC 60.125 66.667 18.95 18.95 33.44 4.85
3037 3973 4.093291 AGCTTCTGGAGGCCTGCG 62.093 66.667 20.39 14.23 33.44 5.18
3039 3975 4.093291 CTTCTGGAGGCCTGCGCT 62.093 66.667 20.39 0.00 34.44 5.92
3040 3976 4.399395 TTCTGGAGGCCTGCGCTG 62.399 66.667 20.39 12.20 34.44 5.18
3042 3978 4.399395 CTGGAGGCCTGCGCTGAA 62.399 66.667 20.39 0.00 34.44 3.02
3043 3979 3.694058 CTGGAGGCCTGCGCTGAAT 62.694 63.158 20.39 0.55 34.44 2.57
3044 3980 2.315781 CTGGAGGCCTGCGCTGAATA 62.316 60.000 20.39 0.00 34.44 1.75
3045 3981 1.072159 GGAGGCCTGCGCTGAATAT 59.928 57.895 12.00 0.00 34.44 1.28
3046 3982 1.233285 GGAGGCCTGCGCTGAATATG 61.233 60.000 12.00 0.00 34.44 1.78
3047 3983 1.849976 GAGGCCTGCGCTGAATATGC 61.850 60.000 12.00 9.73 34.44 3.14
3048 3984 2.641559 GCCTGCGCTGAATATGCC 59.358 61.111 16.65 0.00 0.00 4.40
3049 3985 2.912624 GCCTGCGCTGAATATGCCC 61.913 63.158 16.65 0.00 0.00 5.36
3050 3986 1.526686 CCTGCGCTGAATATGCCCA 60.527 57.895 16.65 0.00 0.00 5.36
3051 3987 1.102809 CCTGCGCTGAATATGCCCAA 61.103 55.000 16.65 0.00 0.00 4.12
3052 3988 0.740149 CTGCGCTGAATATGCCCAAA 59.260 50.000 9.73 0.00 0.00 3.28
3053 3989 0.455410 TGCGCTGAATATGCCCAAAC 59.545 50.000 9.73 0.00 0.00 2.93
3054 3990 0.249031 GCGCTGAATATGCCCAAACC 60.249 55.000 0.00 0.00 0.00 3.27
3055 3991 1.102154 CGCTGAATATGCCCAAACCA 58.898 50.000 0.00 0.00 0.00 3.67
3056 3992 1.682854 CGCTGAATATGCCCAAACCAT 59.317 47.619 0.00 0.00 0.00 3.55
3057 3993 2.287788 CGCTGAATATGCCCAAACCATC 60.288 50.000 0.00 0.00 0.00 3.51
3058 3994 2.961062 GCTGAATATGCCCAAACCATCT 59.039 45.455 0.00 0.00 0.00 2.90
3059 3995 3.005155 GCTGAATATGCCCAAACCATCTC 59.995 47.826 0.00 0.00 0.00 2.75
3060 3996 4.209538 CTGAATATGCCCAAACCATCTCA 58.790 43.478 0.00 0.00 0.00 3.27
3061 3997 4.209538 TGAATATGCCCAAACCATCTCAG 58.790 43.478 0.00 0.00 0.00 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
126 127 5.927281 AATAGGAACAAAAGAGCATGCAT 57.073 34.783 21.98 4.82 0.00 3.96
186 187 9.785982 TTCATCCTCTAGTCATCTATATATCCG 57.214 37.037 0.00 0.00 0.00 4.18
214 215 6.385649 TTTCAAATGTTCACAGGGTTCTAC 57.614 37.500 0.00 0.00 0.00 2.59
1280 1527 2.052782 ACGGGCAATGTTCCTAATCC 57.947 50.000 0.00 0.00 0.00 3.01
1611 1858 1.614525 ACCAGAGCATGCAGAGGGA 60.615 57.895 21.98 0.00 0.00 4.20
2257 2507 6.624352 CTGCAAGGCACATGTAGTATAAAT 57.376 37.500 0.00 0.00 35.19 1.40
2317 2723 0.320683 GGGAACTTTGCATTGTGCCC 60.321 55.000 17.00 17.00 44.16 5.36
2318 2724 0.320683 GGGGAACTTTGCATTGTGCC 60.321 55.000 7.83 7.83 44.23 5.01
2757 3692 2.729194 TGTTGTTGTAGGGCTTGTTGT 58.271 42.857 0.00 0.00 0.00 3.32
2770 3706 4.803613 GGACTAAAGGCTTTGTTGTTGTTG 59.196 41.667 22.32 0.00 0.00 3.33
2771 3707 4.142026 GGGACTAAAGGCTTTGTTGTTGTT 60.142 41.667 22.32 0.00 0.00 2.83
2772 3708 3.383505 GGGACTAAAGGCTTTGTTGTTGT 59.616 43.478 22.32 10.58 0.00 3.32
2773 3709 3.383185 TGGGACTAAAGGCTTTGTTGTTG 59.617 43.478 22.32 7.79 0.00 3.33
2774 3710 3.637769 TGGGACTAAAGGCTTTGTTGTT 58.362 40.909 22.32 1.84 0.00 2.83
2775 3711 3.306472 TGGGACTAAAGGCTTTGTTGT 57.694 42.857 22.32 16.69 0.00 3.32
2776 3712 4.142049 TGTTTGGGACTAAAGGCTTTGTTG 60.142 41.667 22.32 13.85 0.00 3.33
2777 3713 4.027437 TGTTTGGGACTAAAGGCTTTGTT 58.973 39.130 22.32 8.73 0.00 2.83
2778 3714 3.637769 TGTTTGGGACTAAAGGCTTTGT 58.362 40.909 22.32 16.86 0.00 2.83
2779 3715 4.099419 ACTTGTTTGGGACTAAAGGCTTTG 59.901 41.667 22.32 13.97 0.00 2.77
2780 3716 4.286707 ACTTGTTTGGGACTAAAGGCTTT 58.713 39.130 17.76 17.76 0.00 3.51
2781 3717 3.910989 ACTTGTTTGGGACTAAAGGCTT 58.089 40.909 0.00 0.00 0.00 4.35
2782 3718 3.595190 ACTTGTTTGGGACTAAAGGCT 57.405 42.857 0.00 0.00 0.00 4.58
2783 3719 3.977427 CAACTTGTTTGGGACTAAAGGC 58.023 45.455 0.00 0.00 0.00 4.35
2794 3730 1.995376 AGCCTACCCCAACTTGTTTG 58.005 50.000 0.00 0.00 34.63 2.93
2795 3731 2.983898 TCTAGCCTACCCCAACTTGTTT 59.016 45.455 0.00 0.00 0.00 2.83
2796 3732 2.572104 CTCTAGCCTACCCCAACTTGTT 59.428 50.000 0.00 0.00 0.00 2.83
2797 3733 2.188817 CTCTAGCCTACCCCAACTTGT 58.811 52.381 0.00 0.00 0.00 3.16
2798 3734 1.486726 CCTCTAGCCTACCCCAACTTG 59.513 57.143 0.00 0.00 0.00 3.16
2799 3735 1.080666 ACCTCTAGCCTACCCCAACTT 59.919 52.381 0.00 0.00 0.00 2.66
2800 3736 0.717196 ACCTCTAGCCTACCCCAACT 59.283 55.000 0.00 0.00 0.00 3.16
2801 3737 0.831307 CACCTCTAGCCTACCCCAAC 59.169 60.000 0.00 0.00 0.00 3.77
2802 3738 0.714180 TCACCTCTAGCCTACCCCAA 59.286 55.000 0.00 0.00 0.00 4.12
2803 3739 0.714180 TTCACCTCTAGCCTACCCCA 59.286 55.000 0.00 0.00 0.00 4.96
2804 3740 1.485480 GTTTCACCTCTAGCCTACCCC 59.515 57.143 0.00 0.00 0.00 4.95
2805 3741 1.485480 GGTTTCACCTCTAGCCTACCC 59.515 57.143 0.00 0.00 34.73 3.69
2806 3742 1.485480 GGGTTTCACCTCTAGCCTACC 59.515 57.143 0.00 0.00 38.64 3.18
2807 3743 2.185387 TGGGTTTCACCTCTAGCCTAC 58.815 52.381 0.00 0.00 38.64 3.18
2808 3744 2.634639 TGGGTTTCACCTCTAGCCTA 57.365 50.000 0.00 0.00 38.64 3.93
2809 3745 1.972588 ATGGGTTTCACCTCTAGCCT 58.027 50.000 0.00 0.00 38.64 4.58
2810 3746 3.454812 TCTTATGGGTTTCACCTCTAGCC 59.545 47.826 0.00 0.00 38.64 3.93
2811 3747 4.755266 TCTTATGGGTTTCACCTCTAGC 57.245 45.455 0.00 0.00 38.64 3.42
2812 3748 6.515862 CGAGATCTTATGGGTTTCACCTCTAG 60.516 46.154 0.00 0.00 38.64 2.43
2813 3749 5.302059 CGAGATCTTATGGGTTTCACCTCTA 59.698 44.000 0.00 0.00 38.64 2.43
2814 3750 4.100189 CGAGATCTTATGGGTTTCACCTCT 59.900 45.833 0.00 0.00 38.64 3.69
2815 3751 4.372656 CGAGATCTTATGGGTTTCACCTC 58.627 47.826 0.00 0.00 38.64 3.85
2816 3752 3.432326 GCGAGATCTTATGGGTTTCACCT 60.432 47.826 0.00 0.00 38.64 4.00
2817 3753 2.872858 GCGAGATCTTATGGGTTTCACC 59.127 50.000 0.00 0.00 37.60 4.02
2818 3754 3.531538 TGCGAGATCTTATGGGTTTCAC 58.468 45.455 0.00 0.00 0.00 3.18
2819 3755 3.904800 TGCGAGATCTTATGGGTTTCA 57.095 42.857 0.00 0.00 0.00 2.69
2820 3756 3.312697 GGTTGCGAGATCTTATGGGTTTC 59.687 47.826 0.00 0.00 0.00 2.78
2821 3757 3.279434 GGTTGCGAGATCTTATGGGTTT 58.721 45.455 0.00 0.00 0.00 3.27
2822 3758 2.238646 TGGTTGCGAGATCTTATGGGTT 59.761 45.455 0.00 0.00 0.00 4.11
2823 3759 1.837439 TGGTTGCGAGATCTTATGGGT 59.163 47.619 0.00 0.00 0.00 4.51
2824 3760 2.614057 GTTGGTTGCGAGATCTTATGGG 59.386 50.000 0.00 0.00 0.00 4.00
2825 3761 3.535561 AGTTGGTTGCGAGATCTTATGG 58.464 45.455 0.00 0.00 0.00 2.74
2826 3762 4.183865 TGAGTTGGTTGCGAGATCTTATG 58.816 43.478 0.00 0.00 0.00 1.90
2827 3763 4.471904 TGAGTTGGTTGCGAGATCTTAT 57.528 40.909 0.00 0.00 0.00 1.73
2828 3764 3.953712 TGAGTTGGTTGCGAGATCTTA 57.046 42.857 0.00 0.00 0.00 2.10
2829 3765 2.839486 TGAGTTGGTTGCGAGATCTT 57.161 45.000 0.00 0.00 0.00 2.40
2830 3766 2.625737 CATGAGTTGGTTGCGAGATCT 58.374 47.619 0.00 0.00 0.00 2.75
2831 3767 1.667724 CCATGAGTTGGTTGCGAGATC 59.332 52.381 0.00 0.00 40.99 2.75
2832 3768 1.742761 CCATGAGTTGGTTGCGAGAT 58.257 50.000 0.00 0.00 40.99 2.75
2833 3769 3.231734 CCATGAGTTGGTTGCGAGA 57.768 52.632 0.00 0.00 40.99 4.04
2842 3778 2.174363 TGTGTCAGAGCCATGAGTTG 57.826 50.000 0.00 0.00 0.00 3.16
2843 3779 2.617276 CCATGTGTCAGAGCCATGAGTT 60.617 50.000 9.81 0.00 38.56 3.01
2844 3780 1.065636 CCATGTGTCAGAGCCATGAGT 60.066 52.381 9.81 0.00 38.56 3.41
2845 3781 1.208776 TCCATGTGTCAGAGCCATGAG 59.791 52.381 9.81 2.75 38.56 2.90
2846 3782 1.278537 TCCATGTGTCAGAGCCATGA 58.721 50.000 9.81 0.00 38.56 3.07
2847 3783 2.343484 ATCCATGTGTCAGAGCCATG 57.657 50.000 0.00 3.21 36.56 3.66
2848 3784 2.224475 GCTATCCATGTGTCAGAGCCAT 60.224 50.000 0.00 0.00 0.00 4.40
2849 3785 1.139654 GCTATCCATGTGTCAGAGCCA 59.860 52.381 0.00 0.00 0.00 4.75
2850 3786 1.139654 TGCTATCCATGTGTCAGAGCC 59.860 52.381 0.00 0.00 0.00 4.70
2851 3787 2.609427 TGCTATCCATGTGTCAGAGC 57.391 50.000 0.00 0.00 0.00 4.09
2852 3788 2.871022 GCTTGCTATCCATGTGTCAGAG 59.129 50.000 0.00 0.00 0.00 3.35
2853 3789 2.502947 AGCTTGCTATCCATGTGTCAGA 59.497 45.455 0.00 0.00 0.00 3.27
2854 3790 2.915349 AGCTTGCTATCCATGTGTCAG 58.085 47.619 0.00 0.00 0.00 3.51
2855 3791 3.273434 GAAGCTTGCTATCCATGTGTCA 58.727 45.455 2.10 0.00 0.00 3.58
2856 3792 2.615912 GGAAGCTTGCTATCCATGTGTC 59.384 50.000 11.19 0.00 33.30 3.67
2857 3793 2.025981 TGGAAGCTTGCTATCCATGTGT 60.026 45.455 19.34 0.00 38.30 3.72
2858 3794 2.357009 GTGGAAGCTTGCTATCCATGTG 59.643 50.000 19.34 0.00 44.55 3.21
2859 3795 2.648059 GTGGAAGCTTGCTATCCATGT 58.352 47.619 19.34 0.00 44.55 3.21
2860 3796 1.600957 CGTGGAAGCTTGCTATCCATG 59.399 52.381 19.34 20.51 44.55 3.66
2861 3797 1.959042 CGTGGAAGCTTGCTATCCAT 58.041 50.000 19.34 0.00 44.55 3.41
2862 3798 0.744414 GCGTGGAAGCTTGCTATCCA 60.744 55.000 19.34 9.80 40.84 3.41
2863 3799 0.744414 TGCGTGGAAGCTTGCTATCC 60.744 55.000 19.34 6.99 38.13 2.59
2864 3800 0.375106 GTGCGTGGAAGCTTGCTATC 59.625 55.000 19.34 8.59 38.13 2.08
2865 3801 1.026718 GGTGCGTGGAAGCTTGCTAT 61.027 55.000 19.34 0.00 38.13 2.97
2866 3802 1.671054 GGTGCGTGGAAGCTTGCTA 60.671 57.895 19.34 2.82 38.13 3.49
2867 3803 2.980233 GGTGCGTGGAAGCTTGCT 60.980 61.111 19.34 0.00 38.13 3.91
2868 3804 3.286751 TGGTGCGTGGAAGCTTGC 61.287 61.111 11.58 11.58 38.13 4.01
2869 3805 1.893808 AGTGGTGCGTGGAAGCTTG 60.894 57.895 2.10 0.00 38.13 4.01
2870 3806 1.893808 CAGTGGTGCGTGGAAGCTT 60.894 57.895 0.00 0.00 38.13 3.74
2871 3807 2.281070 CAGTGGTGCGTGGAAGCT 60.281 61.111 0.00 0.00 38.13 3.74
2872 3808 2.591715 ACAGTGGTGCGTGGAAGC 60.592 61.111 0.00 0.00 37.71 3.86
2873 3809 1.961277 GGACAGTGGTGCGTGGAAG 60.961 63.158 0.00 0.00 0.00 3.46
2874 3810 2.050836 ATGGACAGTGGTGCGTGGAA 62.051 55.000 0.00 0.00 38.35 3.53
2875 3811 1.188871 TATGGACAGTGGTGCGTGGA 61.189 55.000 0.00 0.00 38.35 4.02
2876 3812 0.740868 CTATGGACAGTGGTGCGTGG 60.741 60.000 0.00 0.00 38.35 4.94
2877 3813 1.361668 GCTATGGACAGTGGTGCGTG 61.362 60.000 0.00 0.00 38.35 5.34
2878 3814 1.079127 GCTATGGACAGTGGTGCGT 60.079 57.895 0.00 0.00 38.35 5.24
2879 3815 0.459899 TAGCTATGGACAGTGGTGCG 59.540 55.000 0.00 0.00 38.35 5.34
2880 3816 1.808133 GCTAGCTATGGACAGTGGTGC 60.808 57.143 7.70 0.00 35.66 5.01
2881 3817 1.759445 AGCTAGCTATGGACAGTGGTG 59.241 52.381 17.69 0.00 0.00 4.17
2882 3818 2.035632 GAGCTAGCTATGGACAGTGGT 58.964 52.381 19.38 0.00 0.00 4.16
2883 3819 2.315176 AGAGCTAGCTATGGACAGTGG 58.685 52.381 19.38 0.00 0.00 4.00
2884 3820 4.118410 CAAAGAGCTAGCTATGGACAGTG 58.882 47.826 19.38 3.31 0.00 3.66
2885 3821 3.772025 ACAAAGAGCTAGCTATGGACAGT 59.228 43.478 19.38 6.89 0.00 3.55
2886 3822 4.367450 GACAAAGAGCTAGCTATGGACAG 58.633 47.826 19.38 6.25 0.00 3.51
2887 3823 3.181486 CGACAAAGAGCTAGCTATGGACA 60.181 47.826 19.38 0.00 0.00 4.02
2888 3824 3.066900 TCGACAAAGAGCTAGCTATGGAC 59.933 47.826 19.38 10.10 0.00 4.02
2889 3825 3.288092 TCGACAAAGAGCTAGCTATGGA 58.712 45.455 19.38 8.12 0.00 3.41
2890 3826 3.717400 TCGACAAAGAGCTAGCTATGG 57.283 47.619 19.38 13.23 0.00 2.74
2891 3827 6.007936 AGTATCGACAAAGAGCTAGCTATG 57.992 41.667 19.38 18.66 0.00 2.23
2892 3828 5.182380 GGAGTATCGACAAAGAGCTAGCTAT 59.818 44.000 19.38 12.73 34.37 2.97
2893 3829 4.515944 GGAGTATCGACAAAGAGCTAGCTA 59.484 45.833 19.38 0.00 34.37 3.32
2894 3830 3.316868 GGAGTATCGACAAAGAGCTAGCT 59.683 47.826 19.45 19.45 34.37 3.32
2895 3831 3.066900 TGGAGTATCGACAAAGAGCTAGC 59.933 47.826 6.62 6.62 34.37 3.42
2896 3832 4.902443 TGGAGTATCGACAAAGAGCTAG 57.098 45.455 0.00 0.00 34.37 3.42
2897 3833 5.854010 ATTGGAGTATCGACAAAGAGCTA 57.146 39.130 0.00 0.00 34.37 3.32
2898 3834 4.744795 ATTGGAGTATCGACAAAGAGCT 57.255 40.909 0.00 0.00 34.37 4.09
2899 3835 5.112686 AGAATTGGAGTATCGACAAAGAGC 58.887 41.667 0.00 0.00 34.37 4.09
2900 3836 6.813649 TGAAGAATTGGAGTATCGACAAAGAG 59.186 38.462 0.00 0.00 34.37 2.85
2901 3837 6.697395 TGAAGAATTGGAGTATCGACAAAGA 58.303 36.000 0.00 0.00 34.37 2.52
2902 3838 6.036517 CCTGAAGAATTGGAGTATCGACAAAG 59.963 42.308 0.00 0.00 34.37 2.77
2903 3839 5.874810 CCTGAAGAATTGGAGTATCGACAAA 59.125 40.000 0.00 0.00 34.37 2.83
2904 3840 5.046591 ACCTGAAGAATTGGAGTATCGACAA 60.047 40.000 0.00 0.00 34.37 3.18
2905 3841 4.466370 ACCTGAAGAATTGGAGTATCGACA 59.534 41.667 0.00 0.00 34.37 4.35
2906 3842 5.012328 ACCTGAAGAATTGGAGTATCGAC 57.988 43.478 0.00 0.00 34.37 4.20
2907 3843 4.956700 AGACCTGAAGAATTGGAGTATCGA 59.043 41.667 0.00 0.00 34.37 3.59
2908 3844 5.068460 AGAGACCTGAAGAATTGGAGTATCG 59.932 44.000 0.00 0.00 34.37 2.92
2909 3845 6.323739 AGAGAGACCTGAAGAATTGGAGTATC 59.676 42.308 0.00 0.00 0.00 2.24
2910 3846 6.201591 AGAGAGACCTGAAGAATTGGAGTAT 58.798 40.000 0.00 0.00 0.00 2.12
2911 3847 5.584913 AGAGAGACCTGAAGAATTGGAGTA 58.415 41.667 0.00 0.00 0.00 2.59
2912 3848 4.424842 AGAGAGACCTGAAGAATTGGAGT 58.575 43.478 0.00 0.00 0.00 3.85
2913 3849 5.419239 AAGAGAGACCTGAAGAATTGGAG 57.581 43.478 0.00 0.00 0.00 3.86
2914 3850 6.572509 CGTTAAGAGAGACCTGAAGAATTGGA 60.573 42.308 0.00 0.00 0.00 3.53
2915 3851 5.578727 CGTTAAGAGAGACCTGAAGAATTGG 59.421 44.000 0.00 0.00 0.00 3.16
2916 3852 5.578727 CCGTTAAGAGAGACCTGAAGAATTG 59.421 44.000 0.00 0.00 0.00 2.32
2917 3853 5.480772 TCCGTTAAGAGAGACCTGAAGAATT 59.519 40.000 0.00 0.00 0.00 2.17
2918 3854 5.017490 TCCGTTAAGAGAGACCTGAAGAAT 58.983 41.667 0.00 0.00 0.00 2.40
2919 3855 4.217983 GTCCGTTAAGAGAGACCTGAAGAA 59.782 45.833 0.00 0.00 0.00 2.52
2920 3856 3.757493 GTCCGTTAAGAGAGACCTGAAGA 59.243 47.826 0.00 0.00 0.00 2.87
2921 3857 3.759618 AGTCCGTTAAGAGAGACCTGAAG 59.240 47.826 0.00 0.00 0.00 3.02
2922 3858 3.757493 GAGTCCGTTAAGAGAGACCTGAA 59.243 47.826 0.00 0.00 0.00 3.02
2923 3859 3.345414 GAGTCCGTTAAGAGAGACCTGA 58.655 50.000 0.00 0.00 0.00 3.86
2924 3860 2.424246 GGAGTCCGTTAAGAGAGACCTG 59.576 54.545 0.00 0.00 0.00 4.00
2925 3861 2.309458 AGGAGTCCGTTAAGAGAGACCT 59.691 50.000 2.76 0.00 0.00 3.85
2926 3862 2.684374 GAGGAGTCCGTTAAGAGAGACC 59.316 54.545 2.76 0.00 0.00 3.85
2927 3863 2.684374 GGAGGAGTCCGTTAAGAGAGAC 59.316 54.545 2.76 0.00 31.37 3.36
2928 3864 2.356947 GGGAGGAGTCCGTTAAGAGAGA 60.357 54.545 2.76 0.00 45.05 3.10
2929 3865 2.025898 GGGAGGAGTCCGTTAAGAGAG 58.974 57.143 2.76 0.00 45.05 3.20
2930 3866 1.356738 TGGGAGGAGTCCGTTAAGAGA 59.643 52.381 2.76 0.00 45.05 3.10
2931 3867 1.848652 TGGGAGGAGTCCGTTAAGAG 58.151 55.000 2.76 0.00 45.05 2.85
2932 3868 2.108168 CATGGGAGGAGTCCGTTAAGA 58.892 52.381 2.76 0.00 45.05 2.10
2933 3869 1.831736 ACATGGGAGGAGTCCGTTAAG 59.168 52.381 2.76 0.00 45.05 1.85
2934 3870 1.829222 GACATGGGAGGAGTCCGTTAA 59.171 52.381 2.76 0.00 45.05 2.01
2935 3871 1.272816 TGACATGGGAGGAGTCCGTTA 60.273 52.381 2.76 0.00 45.05 3.18
2936 3872 0.544357 TGACATGGGAGGAGTCCGTT 60.544 55.000 2.76 0.00 45.05 4.44
2937 3873 0.544357 TTGACATGGGAGGAGTCCGT 60.544 55.000 2.76 0.00 45.05 4.69
2938 3874 0.613260 TTTGACATGGGAGGAGTCCG 59.387 55.000 2.76 0.00 45.05 4.79
2939 3875 3.282885 GAATTTGACATGGGAGGAGTCC 58.717 50.000 0.00 0.00 43.05 3.85
2940 3876 2.939103 CGAATTTGACATGGGAGGAGTC 59.061 50.000 0.00 0.00 0.00 3.36
2941 3877 2.356125 CCGAATTTGACATGGGAGGAGT 60.356 50.000 0.00 0.00 0.00 3.85
2942 3878 2.292267 CCGAATTTGACATGGGAGGAG 58.708 52.381 0.00 0.00 0.00 3.69
2943 3879 1.633432 ACCGAATTTGACATGGGAGGA 59.367 47.619 0.00 0.00 0.00 3.71
2944 3880 2.017049 GACCGAATTTGACATGGGAGG 58.983 52.381 0.00 0.00 0.00 4.30
2945 3881 1.665679 CGACCGAATTTGACATGGGAG 59.334 52.381 0.00 0.00 0.00 4.30
2946 3882 1.276705 TCGACCGAATTTGACATGGGA 59.723 47.619 0.00 0.00 0.00 4.37
2947 3883 1.396996 GTCGACCGAATTTGACATGGG 59.603 52.381 3.51 0.00 0.00 4.00
2948 3884 1.396996 GGTCGACCGAATTTGACATGG 59.603 52.381 20.85 0.00 33.04 3.66
2949 3885 1.396996 GGGTCGACCGAATTTGACATG 59.603 52.381 27.68 0.00 36.71 3.21
2950 3886 1.278127 AGGGTCGACCGAATTTGACAT 59.722 47.619 27.68 0.00 46.96 3.06
2951 3887 0.682852 AGGGTCGACCGAATTTGACA 59.317 50.000 27.68 0.00 46.96 3.58
2952 3888 1.076332 CAGGGTCGACCGAATTTGAC 58.924 55.000 27.68 11.57 46.96 3.18
2953 3889 0.672401 GCAGGGTCGACCGAATTTGA 60.672 55.000 27.68 0.00 46.96 2.69
2954 3890 1.644786 GGCAGGGTCGACCGAATTTG 61.645 60.000 27.68 19.51 46.96 2.32
2955 3891 1.376812 GGCAGGGTCGACCGAATTT 60.377 57.895 27.68 8.31 46.96 1.82
2956 3892 2.267961 GGCAGGGTCGACCGAATT 59.732 61.111 27.68 10.83 46.96 2.17
2957 3893 3.782443 GGGCAGGGTCGACCGAAT 61.782 66.667 27.68 13.81 46.96 3.34
2961 3897 3.462678 GAGAGGGCAGGGTCGACC 61.463 72.222 27.04 27.04 40.67 4.79
2962 3898 1.985116 AAGAGAGGGCAGGGTCGAC 60.985 63.158 7.13 7.13 0.00 4.20
2963 3899 1.984570 CAAGAGAGGGCAGGGTCGA 60.985 63.158 0.00 0.00 0.00 4.20
2964 3900 1.984570 TCAAGAGAGGGCAGGGTCG 60.985 63.158 0.00 0.00 0.00 4.79
2965 3901 1.194781 TGTCAAGAGAGGGCAGGGTC 61.195 60.000 0.00 0.00 0.00 4.46
2966 3902 0.548682 ATGTCAAGAGAGGGCAGGGT 60.549 55.000 0.00 0.00 0.00 4.34
2967 3903 0.622665 AATGTCAAGAGAGGGCAGGG 59.377 55.000 0.00 0.00 0.00 4.45
2968 3904 1.558756 AGAATGTCAAGAGAGGGCAGG 59.441 52.381 0.00 0.00 0.00 4.85
2969 3905 2.419851 GGAGAATGTCAAGAGAGGGCAG 60.420 54.545 0.00 0.00 0.00 4.85
2970 3906 1.556911 GGAGAATGTCAAGAGAGGGCA 59.443 52.381 0.00 0.00 0.00 5.36
2971 3907 1.472376 CGGAGAATGTCAAGAGAGGGC 60.472 57.143 0.00 0.00 0.00 5.19
2972 3908 1.472376 GCGGAGAATGTCAAGAGAGGG 60.472 57.143 0.00 0.00 0.00 4.30
2973 3909 1.205655 TGCGGAGAATGTCAAGAGAGG 59.794 52.381 0.00 0.00 0.00 3.69
2974 3910 2.266554 GTGCGGAGAATGTCAAGAGAG 58.733 52.381 0.00 0.00 0.00 3.20
2975 3911 1.402852 CGTGCGGAGAATGTCAAGAGA 60.403 52.381 0.00 0.00 0.00 3.10
2976 3912 0.994995 CGTGCGGAGAATGTCAAGAG 59.005 55.000 0.00 0.00 0.00 2.85
2977 3913 1.014044 GCGTGCGGAGAATGTCAAGA 61.014 55.000 0.00 0.00 0.00 3.02
2978 3914 1.016130 AGCGTGCGGAGAATGTCAAG 61.016 55.000 0.00 0.00 0.00 3.02
2979 3915 0.602638 AAGCGTGCGGAGAATGTCAA 60.603 50.000 0.00 0.00 0.00 3.18
2980 3916 0.602638 AAAGCGTGCGGAGAATGTCA 60.603 50.000 0.00 0.00 0.00 3.58
2981 3917 1.324736 CTAAAGCGTGCGGAGAATGTC 59.675 52.381 0.00 0.00 0.00 3.06
2982 3918 1.359848 CTAAAGCGTGCGGAGAATGT 58.640 50.000 0.00 0.00 0.00 2.71
2983 3919 0.026803 GCTAAAGCGTGCGGAGAATG 59.973 55.000 0.00 0.00 0.00 2.67
2984 3920 1.090052 GGCTAAAGCGTGCGGAGAAT 61.090 55.000 0.00 0.00 43.26 2.40
2985 3921 1.740296 GGCTAAAGCGTGCGGAGAA 60.740 57.895 0.00 0.00 43.26 2.87
2986 3922 2.125673 GGCTAAAGCGTGCGGAGA 60.126 61.111 0.00 0.00 43.26 3.71
2987 3923 3.554692 CGGCTAAAGCGTGCGGAG 61.555 66.667 0.00 0.00 43.26 4.63
2988 3924 4.367023 ACGGCTAAAGCGTGCGGA 62.367 61.111 0.00 0.00 43.26 5.54
2989 3925 3.849953 GACGGCTAAAGCGTGCGG 61.850 66.667 0.00 0.00 43.26 5.69
2990 3926 3.849953 GGACGGCTAAAGCGTGCG 61.850 66.667 0.00 1.74 43.26 5.34
2991 3927 3.849953 CGGACGGCTAAAGCGTGC 61.850 66.667 0.00 0.00 43.26 5.34
2992 3928 3.849953 GCGGACGGCTAAAGCGTG 61.850 66.667 0.00 0.00 43.26 5.34
3001 3937 3.264897 CAGTGCATAGCGGACGGC 61.265 66.667 0.00 0.00 41.69 5.68
3002 3938 2.586079 CCAGTGCATAGCGGACGG 60.586 66.667 0.00 0.00 41.69 4.79
3003 3939 1.589993 CTCCAGTGCATAGCGGACG 60.590 63.158 0.00 0.00 41.69 4.79
3004 3940 1.884926 GCTCCAGTGCATAGCGGAC 60.885 63.158 0.00 0.00 35.88 4.79
3005 3941 1.617018 AAGCTCCAGTGCATAGCGGA 61.617 55.000 0.00 0.00 41.19 5.54
3006 3942 1.153289 AAGCTCCAGTGCATAGCGG 60.153 57.895 0.00 0.00 41.19 5.52
3007 3943 0.179089 AGAAGCTCCAGTGCATAGCG 60.179 55.000 0.00 0.00 41.19 4.26
3008 3944 1.297664 CAGAAGCTCCAGTGCATAGC 58.702 55.000 0.00 0.00 36.48 2.97
3009 3945 1.483827 TCCAGAAGCTCCAGTGCATAG 59.516 52.381 0.00 0.00 34.99 2.23
3010 3946 1.483827 CTCCAGAAGCTCCAGTGCATA 59.516 52.381 0.00 0.00 34.99 3.14
3011 3947 0.252479 CTCCAGAAGCTCCAGTGCAT 59.748 55.000 0.00 0.00 34.99 3.96
3012 3948 1.675801 CTCCAGAAGCTCCAGTGCA 59.324 57.895 0.00 0.00 34.99 4.57
3013 3949 1.078567 CCTCCAGAAGCTCCAGTGC 60.079 63.158 0.00 0.00 0.00 4.40
3014 3950 1.078567 GCCTCCAGAAGCTCCAGTG 60.079 63.158 0.00 0.00 0.00 3.66
3015 3951 2.297129 GGCCTCCAGAAGCTCCAGT 61.297 63.158 0.00 0.00 0.00 4.00
3016 3952 1.994507 AGGCCTCCAGAAGCTCCAG 60.995 63.158 0.00 0.00 0.00 3.86
3017 3953 2.123632 AGGCCTCCAGAAGCTCCA 59.876 61.111 0.00 0.00 0.00 3.86
3018 3954 2.588989 CAGGCCTCCAGAAGCTCC 59.411 66.667 0.00 0.00 0.00 4.70
3019 3955 2.124778 GCAGGCCTCCAGAAGCTC 60.125 66.667 0.00 0.00 0.00 4.09
3020 3956 4.093291 CGCAGGCCTCCAGAAGCT 62.093 66.667 0.00 0.00 0.00 3.74
3022 3958 4.093291 AGCGCAGGCCTCCAGAAG 62.093 66.667 11.47 0.00 41.24 2.85
3023 3959 4.399395 CAGCGCAGGCCTCCAGAA 62.399 66.667 11.47 0.00 41.24 3.02
3025 3961 2.315781 TATTCAGCGCAGGCCTCCAG 62.316 60.000 11.47 0.00 41.24 3.86
3026 3962 1.699054 ATATTCAGCGCAGGCCTCCA 61.699 55.000 11.47 0.00 41.24 3.86
3027 3963 1.072159 ATATTCAGCGCAGGCCTCC 59.928 57.895 11.47 0.00 41.24 4.30
3028 3964 1.849976 GCATATTCAGCGCAGGCCTC 61.850 60.000 11.47 0.00 41.24 4.70
3029 3965 1.895707 GCATATTCAGCGCAGGCCT 60.896 57.895 11.47 0.00 41.24 5.19
3030 3966 2.641559 GCATATTCAGCGCAGGCC 59.358 61.111 11.47 0.00 41.24 5.19
3031 3967 2.641559 GGCATATTCAGCGCAGGC 59.358 61.111 11.47 0.29 40.37 4.85
3032 3968 3.348236 GGGCATATTCAGCGCAGG 58.652 61.111 11.47 0.20 43.54 4.85
3035 3971 0.249031 GGTTTGGGCATATTCAGCGC 60.249 55.000 0.00 0.00 44.24 5.92
3036 3972 1.102154 TGGTTTGGGCATATTCAGCG 58.898 50.000 0.00 0.00 0.00 5.18
3037 3973 2.961062 AGATGGTTTGGGCATATTCAGC 59.039 45.455 0.00 0.00 0.00 4.26
3038 3974 4.209538 TGAGATGGTTTGGGCATATTCAG 58.790 43.478 0.00 0.00 0.00 3.02
3039 3975 4.209538 CTGAGATGGTTTGGGCATATTCA 58.790 43.478 0.00 0.00 0.00 2.57
3040 3976 4.843220 CTGAGATGGTTTGGGCATATTC 57.157 45.455 0.00 0.00 0.00 1.75


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

AutoCloner maintained by Alex Coulton.