Multiple sequence alignment - TraesCS3A01G216700

Loading Multiple Alignment...

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 TraesCS3A01G216700 chr3A 100.000 2975 0 0 1 2975 395556330 395553356 0.000000e+00 5494
1 TraesCS3A01G216700 chr3A 93.146 817 39 1 1 817 1742979 1743778 0.000000e+00 1182
2 TraesCS3A01G216700 chr3A 96.802 688 22 0 1 688 656431807 656432494 0.000000e+00 1149
3 TraesCS3A01G216700 chr3D 96.002 1726 47 8 819 2534 297912158 297910445 0.000000e+00 2785
4 TraesCS3A01G216700 chr3D 92.079 303 17 2 2594 2891 297910450 297910150 1.280000e-113 420
5 TraesCS3A01G216700 chr3B 93.640 1651 51 16 819 2456 392976382 392977991 0.000000e+00 2418
6 TraesCS3A01G216700 chr3B 92.325 443 25 7 2443 2883 392978829 392979264 3.260000e-174 621
7 TraesCS3A01G216700 chr7A 95.012 822 34 6 1 817 553041514 553042333 0.000000e+00 1284
8 TraesCS3A01G216700 chr7A 90.977 798 41 16 1 780 202749460 202748676 0.000000e+00 1046
9 TraesCS3A01G216700 chr7A 90.013 791 59 12 38 817 34137728 34136947 0.000000e+00 1005
10 TraesCS3A01G216700 chr6A 93.969 829 41 7 1 822 106477578 106476752 0.000000e+00 1245
11 TraesCS3A01G216700 chr6A 91.373 823 41 17 1 817 572160735 572159937 0.000000e+00 1099
12 TraesCS3A01G216700 chr4A 93.712 827 45 6 1 821 574160017 574160842 0.000000e+00 1232
13 TraesCS3A01G216700 chr2A 93.301 821 46 7 1 815 83211924 83212741 0.000000e+00 1203
14 TraesCS3A01G216700 chr2A 93.196 823 47 8 1 817 745425318 745424499 0.000000e+00 1201
15 TraesCS3A01G216700 chr2A 94.260 784 36 7 45 821 155748534 155747753 0.000000e+00 1190
16 TraesCS3A01G216700 chr5A 89.493 828 49 21 1 821 120755753 120754957 0.000000e+00 1013


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 TraesCS3A01G216700 chr3A 395553356 395556330 2974 True 5494.0 5494 100.0000 1 2975 1 chr3A.!!$R1 2974
1 TraesCS3A01G216700 chr3A 1742979 1743778 799 False 1182.0 1182 93.1460 1 817 1 chr3A.!!$F1 816
2 TraesCS3A01G216700 chr3A 656431807 656432494 687 False 1149.0 1149 96.8020 1 688 1 chr3A.!!$F2 687
3 TraesCS3A01G216700 chr3D 297910150 297912158 2008 True 1602.5 2785 94.0405 819 2891 2 chr3D.!!$R1 2072
4 TraesCS3A01G216700 chr3B 392976382 392979264 2882 False 1519.5 2418 92.9825 819 2883 2 chr3B.!!$F1 2064
5 TraesCS3A01G216700 chr7A 553041514 553042333 819 False 1284.0 1284 95.0120 1 817 1 chr7A.!!$F1 816
6 TraesCS3A01G216700 chr7A 202748676 202749460 784 True 1046.0 1046 90.9770 1 780 1 chr7A.!!$R2 779
7 TraesCS3A01G216700 chr7A 34136947 34137728 781 True 1005.0 1005 90.0130 38 817 1 chr7A.!!$R1 779
8 TraesCS3A01G216700 chr6A 106476752 106477578 826 True 1245.0 1245 93.9690 1 822 1 chr6A.!!$R1 821
9 TraesCS3A01G216700 chr6A 572159937 572160735 798 True 1099.0 1099 91.3730 1 817 1 chr6A.!!$R2 816
10 TraesCS3A01G216700 chr4A 574160017 574160842 825 False 1232.0 1232 93.7120 1 821 1 chr4A.!!$F1 820
11 TraesCS3A01G216700 chr2A 83211924 83212741 817 False 1203.0 1203 93.3010 1 815 1 chr2A.!!$F1 814
12 TraesCS3A01G216700 chr2A 745424499 745425318 819 True 1201.0 1201 93.1960 1 817 1 chr2A.!!$R2 816
13 TraesCS3A01G216700 chr2A 155747753 155748534 781 True 1190.0 1190 94.2600 45 821 1 chr2A.!!$R1 776
14 TraesCS3A01G216700 chr5A 120754957 120755753 796 True 1013.0 1013 89.4930 1 821 1 chr5A.!!$R1 820

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
846 894 0.317603 GCAAGCGCACATGATGGATC 60.318 55.0 11.47 0.0 38.36 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2274 2339 0.244994 CTCCACTGTGAGGAAGGACG 59.755 60.0 9.86 0.0 34.08 4.79 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
24 25 1.226603 GTCGTTCCAGAGCGCGTAT 60.227 57.895 8.43 0.00 34.98 3.06
397 402 3.001026 GTCGATCTTCACGTCAGACGATA 59.999 47.826 29.53 13.42 46.05 2.92
707 755 2.699576 TATCTTAGCGCGGCTGCTGG 62.700 60.000 22.96 16.79 46.70 4.85
708 756 4.819761 CTTAGCGCGGCTGCTGGA 62.820 66.667 22.96 13.59 46.70 3.86
709 757 4.819761 TTAGCGCGGCTGCTGGAG 62.820 66.667 22.96 0.14 46.70 3.86
817 865 2.042831 GCGGCTGTTGGAGATGCTT 61.043 57.895 0.00 0.00 0.00 3.91
822 870 2.819608 GGCTGTTGGAGATGCTTTTACA 59.180 45.455 0.00 0.00 0.00 2.41
823 871 3.255642 GGCTGTTGGAGATGCTTTTACAA 59.744 43.478 0.00 0.00 0.00 2.41
824 872 4.261994 GGCTGTTGGAGATGCTTTTACAAA 60.262 41.667 0.00 0.00 0.00 2.83
846 894 0.317603 GCAAGCGCACATGATGGATC 60.318 55.000 11.47 0.00 38.36 3.36
913 961 1.444553 GCGTGCTCTAGCTGTTCGT 60.445 57.895 0.00 0.00 42.66 3.85
926 974 2.478894 GCTGTTCGTTTTGATCCTCGAA 59.521 45.455 7.08 7.08 39.41 3.71
1020 1068 2.507854 GGCCGCCTCCTACATAGCA 61.508 63.158 0.71 0.00 0.00 3.49
1021 1069 1.301009 GCCGCCTCCTACATAGCAC 60.301 63.158 0.00 0.00 0.00 4.40
1429 1477 2.883888 GCCCAAATCTACAGCCTTTCCA 60.884 50.000 0.00 0.00 0.00 3.53
1495 1543 2.689034 AGCCCCTTTCCTCCCTCG 60.689 66.667 0.00 0.00 0.00 4.63
1586 1634 3.207354 GGACGGATCCGCAAGAGA 58.793 61.111 33.62 0.00 44.19 3.10
1991 2045 3.387374 AGATAGAAGGATCACAGTGCCTG 59.613 47.826 0.74 1.16 37.52 4.85
1992 2046 0.617413 AGAAGGATCACAGTGCCTGG 59.383 55.000 0.74 0.00 35.51 4.45
1993 2047 1.001641 AAGGATCACAGTGCCTGGC 60.002 57.895 12.87 12.87 35.51 4.85
2011 2065 1.151450 CGGCCATCCCCAGCTTTAT 59.849 57.895 2.24 0.00 0.00 1.40
2049 2103 4.006989 TGCATTTAGTTGACGCAGGTATT 58.993 39.130 0.00 0.00 0.00 1.89
2113 2177 1.167851 TCCCTTGATCTTTGCTTGCG 58.832 50.000 0.00 0.00 0.00 4.85
2115 2179 0.241749 CCTTGATCTTTGCTTGCGCA 59.758 50.000 5.66 5.66 46.24 6.09
2185 2250 6.042777 TCTCAGAATCACGATGTAATGGAAC 58.957 40.000 0.00 0.00 0.00 3.62
2203 2268 4.966168 TGGAACTGGGCATAACTGATACTA 59.034 41.667 0.00 0.00 0.00 1.82
2256 2321 4.098349 GCCATGGTTCATTGCATCTCTTTA 59.902 41.667 14.67 0.00 33.51 1.85
2274 2339 7.717568 TCTCTTTAGACATTCTACTATGTGCC 58.282 38.462 0.00 0.00 38.80 5.01
2299 2364 0.615331 TCCTCACAGTGGAGATTGGC 59.385 55.000 0.00 0.00 37.05 4.52
2379 2444 2.433838 CAGAGGACCAGCGCACAG 60.434 66.667 11.47 0.00 0.00 3.66
2436 2503 0.930310 CACAAGTATACAGCGCGCAT 59.070 50.000 35.10 23.29 0.00 4.73
2569 3487 1.227263 CAGACGCCAAGGATACCGG 60.227 63.158 0.00 0.00 37.17 5.28
2589 3507 2.906939 GCATGTTCCTGCACGCACA 61.907 57.895 0.00 0.00 41.87 4.57
2661 3579 1.003355 CTGGGACGGCATCTGTTGT 60.003 57.895 0.00 0.00 0.00 3.32
2671 3589 2.646930 GCATCTGTTGTCATCCATGGA 58.353 47.619 18.88 18.88 0.00 3.41
2760 3683 2.185350 CGTGCCGGCTCAAGAGAT 59.815 61.111 29.70 0.00 0.00 2.75
2829 3752 2.251642 GGGCGAGCAGTTGAAACGT 61.252 57.895 0.00 0.00 0.00 3.99
2836 3759 1.139058 AGCAGTTGAAACGTGAGGTCT 59.861 47.619 0.00 0.00 0.00 3.85
2843 3766 1.340248 GAAACGTGAGGTCTGAGTGGA 59.660 52.381 0.00 0.00 0.00 4.02
2844 3767 1.410004 AACGTGAGGTCTGAGTGGAA 58.590 50.000 0.00 0.00 0.00 3.53
2872 3795 0.106149 ACTTCTTTCGTCGGTGCCTT 59.894 50.000 0.00 0.00 0.00 4.35
2886 3809 2.029918 GGTGCCTTTTCCACAACATCTC 60.030 50.000 0.00 0.00 34.94 2.75
2891 3814 0.109532 TTTCCACAACATCTCGGGCA 59.890 50.000 0.00 0.00 0.00 5.36
2892 3815 0.109532 TTCCACAACATCTCGGGCAA 59.890 50.000 0.00 0.00 0.00 4.52
2893 3816 0.109532 TCCACAACATCTCGGGCAAA 59.890 50.000 0.00 0.00 0.00 3.68
2894 3817 1.176527 CCACAACATCTCGGGCAAAT 58.823 50.000 0.00 0.00 0.00 2.32
2895 3818 1.133025 CCACAACATCTCGGGCAAATC 59.867 52.381 0.00 0.00 0.00 2.17
2896 3819 2.086869 CACAACATCTCGGGCAAATCT 58.913 47.619 0.00 0.00 0.00 2.40
2897 3820 2.489329 CACAACATCTCGGGCAAATCTT 59.511 45.455 0.00 0.00 0.00 2.40
2898 3821 3.689161 CACAACATCTCGGGCAAATCTTA 59.311 43.478 0.00 0.00 0.00 2.10
2899 3822 3.941483 ACAACATCTCGGGCAAATCTTAG 59.059 43.478 0.00 0.00 0.00 2.18
2900 3823 3.199880 ACATCTCGGGCAAATCTTAGG 57.800 47.619 0.00 0.00 0.00 2.69
2901 3824 1.876156 CATCTCGGGCAAATCTTAGGC 59.124 52.381 0.00 0.00 0.00 3.93
2902 3825 0.908910 TCTCGGGCAAATCTTAGGCA 59.091 50.000 0.00 0.00 0.00 4.75
2903 3826 1.017387 CTCGGGCAAATCTTAGGCAC 58.983 55.000 0.00 0.00 0.00 5.01
2904 3827 0.393808 TCGGGCAAATCTTAGGCACC 60.394 55.000 0.00 0.00 0.00 5.01
2905 3828 0.679640 CGGGCAAATCTTAGGCACCA 60.680 55.000 0.00 0.00 0.00 4.17
2906 3829 0.817654 GGGCAAATCTTAGGCACCAC 59.182 55.000 0.00 0.00 0.00 4.16
2907 3830 1.544724 GGCAAATCTTAGGCACCACA 58.455 50.000 0.00 0.00 0.00 4.17
2908 3831 1.892474 GGCAAATCTTAGGCACCACAA 59.108 47.619 0.00 0.00 0.00 3.33
2909 3832 2.352715 GGCAAATCTTAGGCACCACAAC 60.353 50.000 0.00 0.00 0.00 3.32
2910 3833 2.352715 GCAAATCTTAGGCACCACAACC 60.353 50.000 0.00 0.00 0.00 3.77
2911 3834 3.157087 CAAATCTTAGGCACCACAACCT 58.843 45.455 0.00 0.00 40.24 3.50
2912 3835 2.789409 ATCTTAGGCACCACAACCTC 57.211 50.000 0.00 0.00 37.50 3.85
2913 3836 1.729586 TCTTAGGCACCACAACCTCT 58.270 50.000 0.00 0.00 37.50 3.69
2914 3837 2.897350 TCTTAGGCACCACAACCTCTA 58.103 47.619 0.00 0.00 37.50 2.43
2915 3838 3.244582 TCTTAGGCACCACAACCTCTAA 58.755 45.455 0.00 0.00 37.50 2.10
2916 3839 3.260884 TCTTAGGCACCACAACCTCTAAG 59.739 47.826 0.00 0.00 37.50 2.18
2917 3840 1.729586 AGGCACCACAACCTCTAAGA 58.270 50.000 0.00 0.00 0.00 2.10
2918 3841 1.625818 AGGCACCACAACCTCTAAGAG 59.374 52.381 0.00 0.00 0.00 2.85
2919 3842 1.443802 GCACCACAACCTCTAAGAGC 58.556 55.000 0.00 0.00 0.00 4.09
2920 3843 1.270839 GCACCACAACCTCTAAGAGCA 60.271 52.381 0.00 0.00 0.00 4.26
2921 3844 2.616510 GCACCACAACCTCTAAGAGCAT 60.617 50.000 0.00 0.00 0.00 3.79
2922 3845 3.265791 CACCACAACCTCTAAGAGCATC 58.734 50.000 0.00 0.00 0.00 3.91
2947 3870 3.211963 GCGGGCAGCAAATCCGAT 61.212 61.111 11.59 0.00 45.96 4.18
2948 3871 3.025619 CGGGCAGCAAATCCGATC 58.974 61.111 1.81 0.00 45.96 3.69
2949 3872 2.546494 CGGGCAGCAAATCCGATCC 61.546 63.158 1.81 0.00 45.96 3.36
2950 3873 2.196245 GGGCAGCAAATCCGATCCC 61.196 63.158 0.00 0.00 0.00 3.85
2951 3874 1.152881 GGCAGCAAATCCGATCCCT 60.153 57.895 0.00 0.00 0.00 4.20
2952 3875 1.169034 GGCAGCAAATCCGATCCCTC 61.169 60.000 0.00 0.00 0.00 4.30
2953 3876 0.464373 GCAGCAAATCCGATCCCTCA 60.464 55.000 0.00 0.00 0.00 3.86
2954 3877 2.018644 GCAGCAAATCCGATCCCTCAA 61.019 52.381 0.00 0.00 0.00 3.02
2955 3878 2.368439 CAGCAAATCCGATCCCTCAAA 58.632 47.619 0.00 0.00 0.00 2.69
2956 3879 2.098117 CAGCAAATCCGATCCCTCAAAC 59.902 50.000 0.00 0.00 0.00 2.93
2957 3880 2.091541 GCAAATCCGATCCCTCAAACA 58.908 47.619 0.00 0.00 0.00 2.83
2958 3881 2.689983 GCAAATCCGATCCCTCAAACAT 59.310 45.455 0.00 0.00 0.00 2.71
2959 3882 3.131046 GCAAATCCGATCCCTCAAACATT 59.869 43.478 0.00 0.00 0.00 2.71
2960 3883 4.734695 GCAAATCCGATCCCTCAAACATTC 60.735 45.833 0.00 0.00 0.00 2.67
2961 3884 2.309528 TCCGATCCCTCAAACATTCG 57.690 50.000 0.00 0.00 0.00 3.34
2962 3885 1.134521 TCCGATCCCTCAAACATTCGG 60.135 52.381 2.89 2.89 45.62 4.30
2963 3886 1.134521 CCGATCCCTCAAACATTCGGA 60.135 52.381 3.17 0.00 46.84 4.55
2964 3887 2.485479 CCGATCCCTCAAACATTCGGAT 60.485 50.000 3.17 0.00 46.84 4.18
2965 3888 2.545526 CGATCCCTCAAACATTCGGATG 59.454 50.000 0.88 0.88 39.25 3.51
2966 3889 1.750193 TCCCTCAAACATTCGGATGC 58.250 50.000 2.75 0.00 36.72 3.91
2967 3890 0.378257 CCCTCAAACATTCGGATGCG 59.622 55.000 2.75 0.00 36.72 4.73
2968 3891 1.086696 CCTCAAACATTCGGATGCGT 58.913 50.000 6.49 0.00 36.72 5.24
2969 3892 1.062587 CCTCAAACATTCGGATGCGTC 59.937 52.381 6.49 0.00 36.72 5.19
2970 3893 2.002586 CTCAAACATTCGGATGCGTCT 58.997 47.619 6.49 0.00 36.72 4.18
2971 3894 1.731709 TCAAACATTCGGATGCGTCTG 59.268 47.619 8.58 8.58 36.72 3.51
2972 3895 0.447801 AAACATTCGGATGCGTCTGC 59.552 50.000 10.09 0.00 43.20 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
200 205 2.511829 CTCGCTCGTCCTCCTCGA 60.512 66.667 0.00 0.00 35.96 4.04
318 323 4.388499 AATGCCTTCCGCCGACGT 62.388 61.111 0.00 0.00 37.70 4.34
798 846 2.437359 GCATCTCCAACAGCCGCT 60.437 61.111 0.00 0.00 0.00 5.52
802 850 4.503741 TTGTAAAAGCATCTCCAACAGC 57.496 40.909 0.00 0.00 0.00 4.40
817 865 1.067669 TGTGCGCTTGCCATTTGTAAA 59.932 42.857 9.73 0.00 38.03 2.01
822 870 0.533491 ATCATGTGCGCTTGCCATTT 59.467 45.000 9.73 0.00 38.03 2.32
823 871 0.179121 CATCATGTGCGCTTGCCATT 60.179 50.000 9.73 0.00 38.03 3.16
824 872 1.435925 CATCATGTGCGCTTGCCAT 59.564 52.632 9.73 2.64 38.03 4.40
846 894 1.211818 GCTCGCTAGCCACTTGATCG 61.212 60.000 9.66 0.00 43.40 3.69
878 926 3.058913 GCACGCGTGATAACAAAAATTCC 59.941 43.478 41.19 15.23 0.00 3.01
913 961 4.843728 AGTTATGGCTTCGAGGATCAAAA 58.156 39.130 0.00 0.00 33.17 2.44
926 974 3.118738 CCCGTCTTTGACTAGTTATGGCT 60.119 47.826 0.00 0.00 0.00 4.75
1020 1068 1.519719 GGCGAGGATGAGCAAGAGT 59.480 57.895 0.00 0.00 34.54 3.24
1021 1069 1.591059 CGGCGAGGATGAGCAAGAG 60.591 63.158 0.00 0.00 34.54 2.85
1078 1126 1.107538 CCGCGACTAGGGATGAAGGA 61.108 60.000 8.23 0.00 34.27 3.36
1512 1560 3.459063 CCGACGAGGAGGAACCCC 61.459 72.222 0.00 0.00 45.00 4.95
1586 1634 0.604511 CGTAAAGGGCCCTGAAACGT 60.605 55.000 31.27 14.36 0.00 3.99
1992 2046 2.983725 ATAAAGCTGGGGATGGCCGC 62.984 60.000 0.00 0.00 46.73 6.53
1993 2047 0.468029 AATAAAGCTGGGGATGGCCG 60.468 55.000 0.00 0.00 33.83 6.13
2074 2135 8.928733 CAAGGGATTCACAGTTAATGAAAAATG 58.071 33.333 0.00 0.00 39.43 2.32
2113 2177 0.652071 GTGCCAAGCAAAACAACTGC 59.348 50.000 0.00 0.00 41.47 4.40
2115 2179 2.483538 GGATGTGCCAAGCAAAACAACT 60.484 45.455 0.00 0.00 41.47 3.16
2118 2182 1.117994 TGGATGTGCCAAGCAAAACA 58.882 45.000 0.00 0.00 45.87 2.83
2185 2250 8.958119 TTTTTACTAGTATCAGTTATGCCCAG 57.042 34.615 2.79 0.00 0.00 4.45
2203 2268 7.067494 GCAACTCCATCATCCACTATTTTTACT 59.933 37.037 0.00 0.00 0.00 2.24
2242 2307 8.659925 AGTAGAATGTCTAAAGAGATGCAATG 57.340 34.615 0.00 0.00 33.14 2.82
2256 2321 3.068307 GGACGGCACATAGTAGAATGTCT 59.932 47.826 0.00 0.00 38.01 3.41
2274 2339 0.244994 CTCCACTGTGAGGAAGGACG 59.755 60.000 9.86 0.00 34.08 4.79
2299 2364 5.281376 CGCACACAACGATAAATTGAAGAAG 59.719 40.000 0.00 0.00 0.00 2.85
2344 2409 1.669115 GGCGTGTGTGTGCTCTGAT 60.669 57.895 0.00 0.00 0.00 2.90
2538 3456 4.360027 GTCTGTGCGTGCAGTGCG 62.360 66.667 11.20 0.00 37.70 5.34
2544 3462 4.374702 CTTGGCGTCTGTGCGTGC 62.375 66.667 0.00 0.00 35.06 5.34
2545 3463 3.716006 CCTTGGCGTCTGTGCGTG 61.716 66.667 0.00 0.00 35.06 5.34
2546 3464 1.884075 TATCCTTGGCGTCTGTGCGT 61.884 55.000 0.00 0.00 35.06 5.24
2547 3465 1.153647 TATCCTTGGCGTCTGTGCG 60.154 57.895 0.00 0.00 35.06 5.34
2569 3487 4.120331 GCGTGCAGGAACATGCCC 62.120 66.667 11.29 0.00 45.03 5.36
2661 3579 1.319614 TGACGCGACTCCATGGATGA 61.320 55.000 16.63 0.00 0.00 2.92
2760 3683 2.046411 AATCCATGTGACGCCGCA 60.046 55.556 0.00 0.00 37.19 5.69
2822 3745 1.068588 CCACTCAGACCTCACGTTTCA 59.931 52.381 0.00 0.00 0.00 2.69
2858 3781 0.464013 TGGAAAAGGCACCGACGAAA 60.464 50.000 0.00 0.00 0.00 3.46
2865 3788 1.963515 AGATGTTGTGGAAAAGGCACC 59.036 47.619 0.00 0.00 0.00 5.01
2872 3795 0.109532 TGCCCGAGATGTTGTGGAAA 59.890 50.000 0.00 0.00 0.00 3.13
2886 3809 0.679640 TGGTGCCTAAGATTTGCCCG 60.680 55.000 0.00 0.00 0.00 6.13
2891 3814 3.074538 AGAGGTTGTGGTGCCTAAGATTT 59.925 43.478 0.00 0.00 34.81 2.17
2892 3815 2.644798 AGAGGTTGTGGTGCCTAAGATT 59.355 45.455 0.00 0.00 34.81 2.40
2893 3816 2.269940 AGAGGTTGTGGTGCCTAAGAT 58.730 47.619 0.00 0.00 34.81 2.40
2894 3817 1.729586 AGAGGTTGTGGTGCCTAAGA 58.270 50.000 0.00 0.00 34.81 2.10
2895 3818 3.260884 TCTTAGAGGTTGTGGTGCCTAAG 59.739 47.826 0.00 0.00 36.24 2.18
2896 3819 3.244582 TCTTAGAGGTTGTGGTGCCTAA 58.755 45.455 0.00 0.00 34.81 2.69
2897 3820 2.832129 CTCTTAGAGGTTGTGGTGCCTA 59.168 50.000 0.41 0.00 34.81 3.93
2898 3821 1.625818 CTCTTAGAGGTTGTGGTGCCT 59.374 52.381 0.41 0.00 37.91 4.75
2899 3822 1.946283 GCTCTTAGAGGTTGTGGTGCC 60.946 57.143 11.54 0.00 0.00 5.01
2900 3823 1.270839 TGCTCTTAGAGGTTGTGGTGC 60.271 52.381 11.54 0.00 0.00 5.01
2901 3824 2.839486 TGCTCTTAGAGGTTGTGGTG 57.161 50.000 11.54 0.00 0.00 4.17
2902 3825 3.177228 AGATGCTCTTAGAGGTTGTGGT 58.823 45.455 11.54 0.00 0.00 4.16
2903 3826 3.902881 AGATGCTCTTAGAGGTTGTGG 57.097 47.619 11.54 0.00 0.00 4.17
2904 3827 4.355437 CGTAGATGCTCTTAGAGGTTGTG 58.645 47.826 11.54 0.00 0.00 3.33
2905 3828 3.381908 CCGTAGATGCTCTTAGAGGTTGT 59.618 47.826 11.54 0.00 0.00 3.32
2906 3829 3.797184 GCCGTAGATGCTCTTAGAGGTTG 60.797 52.174 11.54 0.00 0.00 3.77
2907 3830 2.362717 GCCGTAGATGCTCTTAGAGGTT 59.637 50.000 11.54 0.00 0.00 3.50
2908 3831 1.957877 GCCGTAGATGCTCTTAGAGGT 59.042 52.381 11.54 0.00 0.00 3.85
2909 3832 1.271102 GGCCGTAGATGCTCTTAGAGG 59.729 57.143 11.54 0.00 0.00 3.69
2910 3833 1.068885 CGGCCGTAGATGCTCTTAGAG 60.069 57.143 19.50 4.63 0.00 2.43
2911 3834 0.952280 CGGCCGTAGATGCTCTTAGA 59.048 55.000 19.50 0.00 0.00 2.10
2912 3835 0.664767 GCGGCCGTAGATGCTCTTAG 60.665 60.000 28.70 0.00 0.00 2.18
2913 3836 1.362717 GCGGCCGTAGATGCTCTTA 59.637 57.895 28.70 0.00 0.00 2.10
2914 3837 2.107141 GCGGCCGTAGATGCTCTT 59.893 61.111 28.70 0.00 0.00 2.85
2915 3838 4.271816 CGCGGCCGTAGATGCTCT 62.272 66.667 28.70 0.00 0.00 4.09
2930 3853 3.186390 GATCGGATTTGCTGCCCGC 62.186 63.158 9.74 0.00 42.70 6.13
2931 3854 2.546494 GGATCGGATTTGCTGCCCG 61.546 63.158 8.49 8.49 44.22 6.13
2932 3855 2.196245 GGGATCGGATTTGCTGCCC 61.196 63.158 0.00 0.00 0.00 5.36
2933 3856 1.152881 AGGGATCGGATTTGCTGCC 60.153 57.895 0.00 0.00 0.00 4.85
2934 3857 0.464373 TGAGGGATCGGATTTGCTGC 60.464 55.000 0.00 0.00 0.00 5.25
2935 3858 2.042686 TTGAGGGATCGGATTTGCTG 57.957 50.000 0.00 0.00 0.00 4.41
2936 3859 2.290896 TGTTTGAGGGATCGGATTTGCT 60.291 45.455 0.00 0.00 0.00 3.91
2937 3860 2.091541 TGTTTGAGGGATCGGATTTGC 58.908 47.619 0.00 0.00 0.00 3.68
2938 3861 4.496341 CGAATGTTTGAGGGATCGGATTTG 60.496 45.833 0.00 0.00 0.00 2.32
2939 3862 3.627577 CGAATGTTTGAGGGATCGGATTT 59.372 43.478 0.00 0.00 0.00 2.17
2940 3863 3.206150 CGAATGTTTGAGGGATCGGATT 58.794 45.455 0.00 0.00 0.00 3.01
2941 3864 2.838736 CGAATGTTTGAGGGATCGGAT 58.161 47.619 0.00 0.00 0.00 4.18
2942 3865 2.309528 CGAATGTTTGAGGGATCGGA 57.690 50.000 0.00 0.00 0.00 4.55
2943 3866 1.299541 CCGAATGTTTGAGGGATCGG 58.700 55.000 0.00 0.00 43.08 4.18
2944 3867 2.309528 TCCGAATGTTTGAGGGATCG 57.690 50.000 0.00 0.00 0.00 3.69
2945 3868 2.291741 GCATCCGAATGTTTGAGGGATC 59.708 50.000 0.00 0.00 35.37 3.36
2946 3869 2.301346 GCATCCGAATGTTTGAGGGAT 58.699 47.619 0.00 0.00 37.99 3.85
2947 3870 1.750193 GCATCCGAATGTTTGAGGGA 58.250 50.000 0.00 0.00 35.18 4.20
2948 3871 0.378257 CGCATCCGAATGTTTGAGGG 59.622 55.000 0.00 0.00 35.18 4.30
2949 3872 1.062587 GACGCATCCGAATGTTTGAGG 59.937 52.381 0.00 0.00 38.29 3.86
2950 3873 2.002586 AGACGCATCCGAATGTTTGAG 58.997 47.619 0.00 0.00 38.29 3.02
2951 3874 1.731709 CAGACGCATCCGAATGTTTGA 59.268 47.619 0.00 0.00 38.29 2.69
2952 3875 1.791555 GCAGACGCATCCGAATGTTTG 60.792 52.381 0.00 0.00 38.36 2.93
2953 3876 0.447801 GCAGACGCATCCGAATGTTT 59.552 50.000 0.00 0.00 38.36 2.83
2954 3877 1.695893 CGCAGACGCATCCGAATGTT 61.696 55.000 0.00 0.00 38.40 2.71
2955 3878 2.167219 CGCAGACGCATCCGAATGT 61.167 57.895 0.00 0.00 38.40 2.71
2956 3879 2.622629 CGCAGACGCATCCGAATG 59.377 61.111 0.00 0.00 38.40 2.67
2957 3880 2.586079 CCGCAGACGCATCCGAAT 60.586 61.111 0.00 0.00 38.40 3.34


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

AutoCloner maintained by Alex Coulton.