Multiple sequence alignment - TraesCS5A01G447500

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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 TraesCS5A01G447500 chr5A 100.000 2312 0 0 1 2312 627513101 627515412 0.000000e+00 4270
1 TraesCS5A01G447500 chr7D 96.197 2314 82 3 1 2311 113273583 113275893 0.000000e+00 3781
2 TraesCS5A01G447500 chr7D 92.259 1589 114 8 1 1583 442600974 442602559 0.000000e+00 2244
3 TraesCS5A01G447500 chr7D 94.809 732 31 5 1583 2311 442603660 442604387 0.000000e+00 1134
4 TraesCS5A01G447500 chr2A 94.351 2319 118 5 1 2311 536422428 536420115 0.000000e+00 3544
5 TraesCS5A01G447500 chr2A 93.403 1334 82 3 1 1329 473131419 473130087 0.000000e+00 1971
6 TraesCS5A01G447500 chr2A 88.601 965 96 8 1 962 454476416 454475463 0.000000e+00 1160
7 TraesCS5A01G447500 chr2A 87.759 964 105 7 1 962 447637886 447638838 0.000000e+00 1114
8 TraesCS5A01G447500 chr2A 87.520 633 75 4 1053 1683 454475982 454475352 0.000000e+00 728
9 TraesCS5A01G447500 chr2A 87.500 632 76 3 1053 1683 447638320 447638949 0.000000e+00 726
10 TraesCS5A01G447500 chr2A 91.211 421 34 2 1780 2198 447639026 447639445 9.270000e-159 569
11 TraesCS5A01G447500 chr2A 91.727 278 21 2 1924 2201 454475100 454474825 3.600000e-103 385
12 TraesCS5A01G447500 chr2A 94.595 111 5 1 2202 2311 454474787 454474677 1.100000e-38 171
13 TraesCS5A01G447500 chr2A 93.694 111 6 1 2202 2311 447639486 447639596 5.110000e-37 165
14 TraesCS5A01G447500 chr3B 92.684 2064 137 11 253 2311 583350937 583352991 0.000000e+00 2963
15 TraesCS5A01G447500 chr3B 95.279 233 11 0 1 233 583350659 583350891 1.010000e-98 370
16 TraesCS5A01G447500 chr6A 94.025 1205 71 1 4 1207 507400638 507399434 0.000000e+00 1825
17 TraesCS5A01G447500 chr6A 97.430 467 12 0 1845 2311 507399423 507398957 0.000000e+00 797
18 TraesCS5A01G447500 chr2D 88.889 1224 100 10 1005 2198 330084054 330085271 0.000000e+00 1474
19 TraesCS5A01G447500 chr2D 94.643 112 5 1 2198 2308 330085308 330085419 3.050000e-39 172
20 TraesCS5A01G447500 chr7B 87.565 965 90 14 1 962 383710951 383711888 0.000000e+00 1090
21 TraesCS5A01G447500 chr7B 88.018 651 72 6 1053 1700 383711369 383712016 0.000000e+00 765
22 TraesCS5A01G447500 chr7B 91.519 507 37 4 1697 2198 383712038 383712543 0.000000e+00 693
23 TraesCS5A01G447500 chr7B 92.241 116 7 2 2198 2311 383712579 383712694 1.840000e-36 163


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 TraesCS5A01G447500 chr5A 627513101 627515412 2311 False 4270.00 4270 100.00000 1 2312 1 chr5A.!!$F1 2311
1 TraesCS5A01G447500 chr7D 113273583 113275893 2310 False 3781.00 3781 96.19700 1 2311 1 chr7D.!!$F1 2310
2 TraesCS5A01G447500 chr7D 442600974 442604387 3413 False 1689.00 2244 93.53400 1 2311 2 chr7D.!!$F2 2310
3 TraesCS5A01G447500 chr2A 536420115 536422428 2313 True 3544.00 3544 94.35100 1 2311 1 chr2A.!!$R2 2310
4 TraesCS5A01G447500 chr2A 473130087 473131419 1332 True 1971.00 1971 93.40300 1 1329 1 chr2A.!!$R1 1328
5 TraesCS5A01G447500 chr2A 447637886 447639596 1710 False 643.50 1114 90.04100 1 2311 4 chr2A.!!$F1 2310
6 TraesCS5A01G447500 chr2A 454474677 454476416 1739 True 611.00 1160 90.61075 1 2311 4 chr2A.!!$R3 2310
7 TraesCS5A01G447500 chr3B 583350659 583352991 2332 False 1666.50 2963 93.98150 1 2311 2 chr3B.!!$F1 2310
8 TraesCS5A01G447500 chr6A 507398957 507400638 1681 True 1311.00 1825 95.72750 4 2311 2 chr6A.!!$R1 2307
9 TraesCS5A01G447500 chr2D 330084054 330085419 1365 False 823.00 1474 91.76600 1005 2308 2 chr2D.!!$F1 1303
10 TraesCS5A01G447500 chr7B 383710951 383712694 1743 False 677.75 1090 89.83575 1 2311 4 chr7B.!!$F1 2310

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
818 853 0.106967 TTACTGTGTGGCTGCAACCA 60.107 50.0 4.25 4.25 37.38 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2231 4125 1.062587 CTAGCTACATTGCAACGCCAC 59.937 52.381 0.0 0.0 34.99 5.01 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
81 82 1.225855 GTGTCTTCGTGCCATGTGAA 58.774 50.000 0.00 0.00 0.00 3.18
102 103 1.019278 CGCAACTCACGGCCTGTATT 61.019 55.000 0.00 0.00 0.00 1.89
114 115 3.253677 CGGCCTGTATTAACAACACCAAA 59.746 43.478 0.00 0.00 34.49 3.28
340 367 2.105649 TGTCTACTGATGTGGTTGGCAA 59.894 45.455 0.00 0.00 0.00 4.52
598 631 3.882131 GCCTCAAGCCCTTATGTGA 57.118 52.632 0.00 0.00 34.35 3.58
622 655 1.327690 ATCCAGCCTCGCCGTTCTAA 61.328 55.000 0.00 0.00 0.00 2.10
768 803 7.599630 TCAAAATTTATTTGGAAGAGCATGC 57.400 32.000 10.51 10.51 27.18 4.06
811 846 4.012374 CCATGATCTTTTACTGTGTGGCT 58.988 43.478 0.00 0.00 0.00 4.75
812 847 4.142534 CCATGATCTTTTACTGTGTGGCTG 60.143 45.833 0.00 0.00 0.00 4.85
814 849 2.340210 TCTTTTACTGTGTGGCTGCA 57.660 45.000 0.50 0.00 0.00 4.41
818 853 0.106967 TTACTGTGTGGCTGCAACCA 60.107 50.000 4.25 4.25 37.38 3.67
819 854 0.110295 TACTGTGTGGCTGCAACCAT 59.890 50.000 12.91 0.00 43.01 3.55
820 855 1.287815 CTGTGTGGCTGCAACCATG 59.712 57.895 12.91 0.00 43.01 3.66
821 856 2.149803 CTGTGTGGCTGCAACCATGG 62.150 60.000 12.91 11.19 43.01 3.66
822 857 3.304721 TGTGGCTGCAACCATGGC 61.305 61.111 12.91 0.10 43.01 4.40
823 858 2.993264 GTGGCTGCAACCATGGCT 60.993 61.111 12.91 0.00 43.01 4.75
825 860 2.277591 TGGCTGCAACCATGGCTTC 61.278 57.895 13.04 0.75 33.75 3.86
826 861 1.980772 GGCTGCAACCATGGCTTCT 60.981 57.895 13.04 0.00 0.00 2.85
827 862 0.680921 GGCTGCAACCATGGCTTCTA 60.681 55.000 13.04 0.00 0.00 2.10
828 863 1.396653 GCTGCAACCATGGCTTCTAT 58.603 50.000 13.04 0.00 0.00 1.98
831 866 2.756760 CTGCAACCATGGCTTCTATTGT 59.243 45.455 13.04 0.00 0.00 2.71
832 867 2.754552 TGCAACCATGGCTTCTATTGTC 59.245 45.455 13.04 5.06 0.00 3.18
834 869 3.382546 GCAACCATGGCTTCTATTGTCAT 59.617 43.478 13.04 0.00 0.00 3.06
836 871 5.067674 GCAACCATGGCTTCTATTGTCATTA 59.932 40.000 13.04 0.00 0.00 1.90
839 874 6.426587 ACCATGGCTTCTATTGTCATTAACT 58.573 36.000 13.04 0.00 0.00 2.24
841 876 7.148018 ACCATGGCTTCTATTGTCATTAACTTG 60.148 37.037 13.04 0.00 0.00 3.16
842 877 6.194796 TGGCTTCTATTGTCATTAACTTGC 57.805 37.500 0.00 0.00 0.00 4.01
844 879 5.125417 GGCTTCTATTGTCATTAACTTGCCA 59.875 40.000 0.00 0.00 34.82 4.92
845 880 6.183360 GGCTTCTATTGTCATTAACTTGCCAT 60.183 38.462 0.00 0.00 34.82 4.40
846 881 7.013274 GGCTTCTATTGTCATTAACTTGCCATA 59.987 37.037 0.00 0.00 34.82 2.74
847 882 7.857885 GCTTCTATTGTCATTAACTTGCCATAC 59.142 37.037 0.00 0.00 0.00 2.39
848 883 8.800370 TTCTATTGTCATTAACTTGCCATACA 57.200 30.769 0.00 0.00 0.00 2.29
849 884 8.208718 TCTATTGTCATTAACTTGCCATACAC 57.791 34.615 0.00 0.00 0.00 2.90
850 885 6.832520 ATTGTCATTAACTTGCCATACACA 57.167 33.333 0.00 0.00 0.00 3.72
852 887 5.555966 TGTCATTAACTTGCCATACACAGA 58.444 37.500 0.00 0.00 0.00 3.41
853 888 5.411361 TGTCATTAACTTGCCATACACAGAC 59.589 40.000 0.00 0.00 0.00 3.51
854 889 5.411361 GTCATTAACTTGCCATACACAGACA 59.589 40.000 0.00 0.00 0.00 3.41
855 890 5.643348 TCATTAACTTGCCATACACAGACAG 59.357 40.000 0.00 0.00 0.00 3.51
856 891 3.492102 AACTTGCCATACACAGACAGT 57.508 42.857 0.00 0.00 0.00 3.55
857 892 3.045601 ACTTGCCATACACAGACAGTC 57.954 47.619 0.00 0.00 0.00 3.51
858 893 2.634940 ACTTGCCATACACAGACAGTCT 59.365 45.455 0.00 0.00 0.00 3.24
870 905 3.982475 CAGACAGTCTGCAGAGTTTACA 58.018 45.455 21.67 0.00 37.72 2.41
873 908 4.811557 AGACAGTCTGCAGAGTTTACAAAC 59.188 41.667 21.67 4.79 39.17 2.93
874 909 4.513442 ACAGTCTGCAGAGTTTACAAACA 58.487 39.130 21.67 0.00 41.30 2.83
876 911 5.065218 ACAGTCTGCAGAGTTTACAAACAAG 59.935 40.000 21.67 8.76 41.30 3.16
877 912 5.294306 CAGTCTGCAGAGTTTACAAACAAGA 59.706 40.000 21.67 0.00 41.30 3.02
878 913 5.525378 AGTCTGCAGAGTTTACAAACAAGAG 59.475 40.000 18.89 0.00 41.30 2.85
879 914 5.294552 GTCTGCAGAGTTTACAAACAAGAGT 59.705 40.000 18.89 0.00 41.30 3.24
880 915 5.294306 TCTGCAGAGTTTACAAACAAGAGTG 59.706 40.000 13.74 0.00 41.30 3.51
881 916 4.201910 TGCAGAGTTTACAAACAAGAGTGC 60.202 41.667 7.53 8.19 41.30 4.40
884 919 5.739161 CAGAGTTTACAAACAAGAGTGCAAC 59.261 40.000 7.53 0.00 41.30 4.17
888 923 2.387757 ACAAACAAGAGTGCAACCCAT 58.612 42.857 0.00 0.00 37.80 4.00
889 924 3.561143 ACAAACAAGAGTGCAACCCATA 58.439 40.909 0.00 0.00 37.80 2.74
891 926 4.588528 ACAAACAAGAGTGCAACCCATAAT 59.411 37.500 0.00 0.00 37.80 1.28
893 928 6.266558 ACAAACAAGAGTGCAACCCATAATTA 59.733 34.615 0.00 0.00 37.80 1.40
895 930 6.455360 ACAAGAGTGCAACCCATAATTATG 57.545 37.500 17.11 17.11 37.80 1.90
896 931 6.186957 ACAAGAGTGCAACCCATAATTATGA 58.813 36.000 24.17 2.92 37.80 2.15
898 933 6.006275 AGAGTGCAACCCATAATTATGAGT 57.994 37.500 24.17 15.92 37.80 3.41
899 934 5.824624 AGAGTGCAACCCATAATTATGAGTG 59.175 40.000 24.17 18.28 37.80 3.51
900 935 5.754782 AGTGCAACCCATAATTATGAGTGA 58.245 37.500 24.17 5.13 37.80 3.41
901 936 6.367983 AGTGCAACCCATAATTATGAGTGAT 58.632 36.000 24.17 3.07 37.80 3.06
919 954 7.455891 TGAGTGATGATTATGGTATGATTGCT 58.544 34.615 0.00 0.00 0.00 3.91
920 955 7.389607 TGAGTGATGATTATGGTATGATTGCTG 59.610 37.037 0.00 0.00 0.00 4.41
940 975 7.828508 TGCTGGATTAATAATTCAGAGCAAT 57.171 32.000 22.08 0.00 45.68 3.56
957 992 8.046708 TCAGAGCAATAAAGCTATTTTACTGGA 58.953 33.333 0.00 0.00 46.75 3.86
958 993 8.677300 CAGAGCAATAAAGCTATTTTACTGGAA 58.323 33.333 0.00 0.00 46.75 3.53
959 994 9.243105 AGAGCAATAAAGCTATTTTACTGGAAA 57.757 29.630 0.00 0.00 46.75 3.13
960 995 9.855021 GAGCAATAAAGCTATTTTACTGGAAAA 57.145 29.630 0.00 0.00 46.75 2.29
961 996 9.860898 AGCAATAAAGCTATTTTACTGGAAAAG 57.139 29.630 3.90 0.00 44.50 2.27
962 997 8.595533 GCAATAAAGCTATTTTACTGGAAAAGC 58.404 33.333 3.90 2.65 40.34 3.51
964 999 4.965119 AGCTATTTTACTGGAAAAGCCG 57.035 40.909 3.90 0.00 40.34 5.52
966 1001 3.128764 GCTATTTTACTGGAAAAGCCGCT 59.871 43.478 3.90 0.00 40.34 5.52
968 1003 1.530323 TTTACTGGAAAAGCCGCTCC 58.470 50.000 0.00 0.00 40.66 4.70
970 1005 2.515996 TACTGGAAAAGCCGCTCCCG 62.516 60.000 0.00 0.00 40.66 5.14
988 1023 4.680237 CGCTCTTCACCGTGGCCA 62.680 66.667 0.00 0.00 0.00 5.36
990 1025 2.425592 CTCTTCACCGTGGCCACA 59.574 61.111 34.16 13.39 0.00 4.17
992 1027 2.978010 CTTCACCGTGGCCACACC 60.978 66.667 34.16 9.39 44.86 4.16
993 1028 4.572571 TTCACCGTGGCCACACCC 62.573 66.667 34.16 8.99 44.86 4.61
1001 1036 3.754472 GGCCACACCCCCATCCAT 61.754 66.667 0.00 0.00 0.00 3.41
1002 1037 2.442643 GCCACACCCCCATCCATG 60.443 66.667 0.00 0.00 0.00 3.66
1003 1038 2.442643 CCACACCCCCATCCATGC 60.443 66.667 0.00 0.00 0.00 4.06
1005 1040 4.127744 ACACCCCCATCCATGCCG 62.128 66.667 0.00 0.00 0.00 5.69
1008 1043 4.962836 CCCCCATCCATGCCGCTC 62.963 72.222 0.00 0.00 0.00 5.03
1009 1044 3.882326 CCCCATCCATGCCGCTCT 61.882 66.667 0.00 0.00 0.00 4.09
1010 1045 2.593725 CCCATCCATGCCGCTCTG 60.594 66.667 0.00 0.00 0.00 3.35
1244 1889 3.188460 TGCCGTTCTACAATTTTCTCTGC 59.812 43.478 0.00 0.00 0.00 4.26
1269 1914 1.267806 ACGATGTACAACTTCGACGGT 59.732 47.619 20.86 0.00 45.12 4.83
1293 1939 3.390521 CCGCCAGTGCTCCACCTA 61.391 66.667 0.00 0.00 34.49 3.08
1422 2068 6.150976 CACCATGATCTTTTACTTTGTGCCTA 59.849 38.462 0.00 0.00 0.00 3.93
1529 2175 7.455891 TGAGTGATGATTATGGTATGATTGCT 58.544 34.615 0.00 0.00 0.00 3.91
1623 3371 3.354089 ACTTCACCTGCAAATTGTTCG 57.646 42.857 0.00 0.00 0.00 3.95
1660 3408 5.546621 TCCAGAGGTTATATAAGCCACAC 57.453 43.478 18.68 9.74 34.40 3.82
1734 3521 4.697514 ACAGTTAGGCATGTAGTATGCAG 58.302 43.478 13.18 0.05 46.21 4.41
1816 3605 5.804692 ACACATTTGTATTAATTCGGCGA 57.195 34.783 4.99 4.99 32.60 5.54
1886 3677 3.328382 TCAGCGCACAGGTAGTTAATT 57.672 42.857 11.47 0.00 0.00 1.40
2034 3853 5.062528 TGTGTACAGAGCATTTCAATGTGA 58.937 37.500 0.00 0.00 38.65 3.58
2231 4125 6.771188 ACTTCTCACGAGTGAAATTACTTG 57.229 37.500 7.38 0.00 39.39 3.16
2311 4205 5.353394 AAGGTATTTGACGAGCTCCATTA 57.647 39.130 8.47 0.00 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 2.879233 ATGGCACGAAGACACGGGT 61.879 57.895 0.00 0.00 39.03 5.28
81 82 1.884075 TACAGGCCGTGAGTTGCGAT 61.884 55.000 10.01 0.00 0.00 4.58
313 340 3.173151 ACCACATCAGTAGACATGGACA 58.827 45.455 0.00 0.00 36.21 4.02
340 367 2.240279 GGAGCGAGTACCTATGGTGAT 58.760 52.381 0.00 0.00 36.19 3.06
591 624 4.693283 CGAGGCTGGATACTTTCACATAA 58.307 43.478 0.00 0.00 37.61 1.90
598 631 1.144057 CGGCGAGGCTGGATACTTT 59.856 57.895 0.00 0.00 37.61 2.66
622 655 9.647797 TGTACATCGTTGTTATAGAGAAAATGT 57.352 29.630 4.14 0.00 37.28 2.71
768 803 6.074544 TGGTGAAGTATAAAACCCAAAACG 57.925 37.500 0.00 0.00 31.30 3.60
811 846 2.754552 GACAATAGAAGCCATGGTTGCA 59.245 45.455 14.67 0.00 0.00 4.08
812 847 2.754552 TGACAATAGAAGCCATGGTTGC 59.245 45.455 14.67 5.91 0.00 4.17
814 849 6.891908 AGTTAATGACAATAGAAGCCATGGTT 59.108 34.615 14.67 3.81 0.00 3.67
818 853 6.183360 GGCAAGTTAATGACAATAGAAGCCAT 60.183 38.462 0.00 0.00 36.03 4.40
819 854 5.125417 GGCAAGTTAATGACAATAGAAGCCA 59.875 40.000 0.00 0.00 36.03 4.75
820 855 5.125417 TGGCAAGTTAATGACAATAGAAGCC 59.875 40.000 0.00 0.00 34.74 4.35
821 856 6.194796 TGGCAAGTTAATGACAATAGAAGC 57.805 37.500 0.00 0.00 34.74 3.86
822 857 8.892723 TGTATGGCAAGTTAATGACAATAGAAG 58.107 33.333 0.00 0.00 42.78 2.85
823 858 8.673711 GTGTATGGCAAGTTAATGACAATAGAA 58.326 33.333 0.00 0.00 42.78 2.10
825 860 7.984391 TGTGTATGGCAAGTTAATGACAATAG 58.016 34.615 0.00 0.00 42.78 1.73
826 861 7.826744 TCTGTGTATGGCAAGTTAATGACAATA 59.173 33.333 0.00 0.00 42.78 1.90
827 862 6.658816 TCTGTGTATGGCAAGTTAATGACAAT 59.341 34.615 0.00 0.00 42.78 2.71
828 863 6.000840 TCTGTGTATGGCAAGTTAATGACAA 58.999 36.000 0.00 0.00 42.78 3.18
831 866 5.555966 TGTCTGTGTATGGCAAGTTAATGA 58.444 37.500 0.00 0.00 0.00 2.57
832 867 5.412594 ACTGTCTGTGTATGGCAAGTTAATG 59.587 40.000 0.00 0.00 0.00 1.90
834 869 4.968259 ACTGTCTGTGTATGGCAAGTTAA 58.032 39.130 0.00 0.00 0.00 2.01
836 871 3.071602 AGACTGTCTGTGTATGGCAAGTT 59.928 43.478 10.00 0.00 0.00 2.66
839 874 2.871637 GCAGACTGTCTGTGTATGGCAA 60.872 50.000 31.76 0.00 45.94 4.52
841 876 1.338105 TGCAGACTGTCTGTGTATGGC 60.338 52.381 31.76 19.62 45.94 4.40
842 877 2.232208 TCTGCAGACTGTCTGTGTATGG 59.768 50.000 31.76 18.09 45.94 2.74
844 879 3.161067 ACTCTGCAGACTGTCTGTGTAT 58.839 45.455 31.76 15.78 45.94 2.29
845 880 2.587522 ACTCTGCAGACTGTCTGTGTA 58.412 47.619 31.76 20.14 45.94 2.90
846 881 1.407936 ACTCTGCAGACTGTCTGTGT 58.592 50.000 31.76 23.03 45.94 3.72
847 882 2.522836 AACTCTGCAGACTGTCTGTG 57.477 50.000 31.76 25.08 45.94 3.66
848 883 3.384789 TGTAAACTCTGCAGACTGTCTGT 59.615 43.478 31.76 16.98 45.94 3.41
849 884 3.982475 TGTAAACTCTGCAGACTGTCTG 58.018 45.455 28.91 28.91 46.90 3.51
850 885 4.672587 TTGTAAACTCTGCAGACTGTCT 57.327 40.909 13.74 4.06 0.00 3.41
852 887 4.513442 TGTTTGTAAACTCTGCAGACTGT 58.487 39.130 13.74 7.65 39.59 3.55
853 888 5.294306 TCTTGTTTGTAAACTCTGCAGACTG 59.706 40.000 13.74 6.89 39.59 3.51
854 889 5.428253 TCTTGTTTGTAAACTCTGCAGACT 58.572 37.500 13.74 0.15 39.59 3.24
855 890 5.294552 ACTCTTGTTTGTAAACTCTGCAGAC 59.705 40.000 13.74 3.66 39.59 3.51
856 891 5.294306 CACTCTTGTTTGTAAACTCTGCAGA 59.706 40.000 17.19 17.19 39.59 4.26
857 892 5.505286 CACTCTTGTTTGTAAACTCTGCAG 58.495 41.667 7.63 7.63 39.59 4.41
858 893 4.201910 GCACTCTTGTTTGTAAACTCTGCA 60.202 41.667 8.74 0.00 39.59 4.41
859 894 4.201910 TGCACTCTTGTTTGTAAACTCTGC 60.202 41.667 8.74 8.10 39.59 4.26
860 895 5.484173 TGCACTCTTGTTTGTAAACTCTG 57.516 39.130 8.74 0.50 39.59 3.35
861 896 5.163652 GGTTGCACTCTTGTTTGTAAACTCT 60.164 40.000 8.74 0.00 39.59 3.24
862 897 5.034797 GGTTGCACTCTTGTTTGTAAACTC 58.965 41.667 8.74 0.00 39.59 3.01
864 899 4.109766 GGGTTGCACTCTTGTTTGTAAAC 58.890 43.478 0.65 0.65 39.33 2.01
865 900 3.764434 TGGGTTGCACTCTTGTTTGTAAA 59.236 39.130 0.00 0.00 0.00 2.01
868 903 1.846007 TGGGTTGCACTCTTGTTTGT 58.154 45.000 0.00 0.00 0.00 2.83
869 904 4.582701 TTATGGGTTGCACTCTTGTTTG 57.417 40.909 0.00 0.00 0.00 2.93
870 905 5.806654 AATTATGGGTTGCACTCTTGTTT 57.193 34.783 0.00 0.00 0.00 2.83
873 908 6.319658 ACTCATAATTATGGGTTGCACTCTTG 59.680 38.462 22.80 0.00 44.66 3.02
874 909 6.319658 CACTCATAATTATGGGTTGCACTCTT 59.680 38.462 25.33 1.29 44.66 2.85
876 911 5.822519 TCACTCATAATTATGGGTTGCACTC 59.177 40.000 25.33 0.00 44.66 3.51
877 912 5.754782 TCACTCATAATTATGGGTTGCACT 58.245 37.500 25.33 3.38 44.66 4.40
878 913 6.262944 TCATCACTCATAATTATGGGTTGCAC 59.737 38.462 25.33 0.00 44.66 4.57
879 914 6.363882 TCATCACTCATAATTATGGGTTGCA 58.636 36.000 25.33 14.19 44.66 4.08
880 915 6.882610 TCATCACTCATAATTATGGGTTGC 57.117 37.500 25.33 0.00 44.66 4.17
893 928 8.107729 AGCAATCATACCATAATCATCACTCAT 58.892 33.333 0.00 0.00 0.00 2.90
895 930 7.148289 CCAGCAATCATACCATAATCATCACTC 60.148 40.741 0.00 0.00 0.00 3.51
896 931 6.657966 CCAGCAATCATACCATAATCATCACT 59.342 38.462 0.00 0.00 0.00 3.41
898 933 6.781943 TCCAGCAATCATACCATAATCATCA 58.218 36.000 0.00 0.00 0.00 3.07
899 934 7.876936 ATCCAGCAATCATACCATAATCATC 57.123 36.000 0.00 0.00 0.00 2.92
900 935 9.758021 TTAATCCAGCAATCATACCATAATCAT 57.242 29.630 0.00 0.00 0.00 2.45
901 936 9.758021 ATTAATCCAGCAATCATACCATAATCA 57.242 29.630 0.00 0.00 0.00 2.57
912 947 7.503230 TGCTCTGAATTATTAATCCAGCAATCA 59.497 33.333 0.00 0.00 31.31 2.57
930 965 8.677300 CCAGTAAAATAGCTTTATTGCTCTGAA 58.323 33.333 0.00 0.00 42.97 3.02
940 975 6.624204 GCGGCTTTTCCAGTAAAATAGCTTTA 60.624 38.462 0.00 0.00 36.49 1.85
972 1007 3.050275 GTGGCCACGGTGAAGAGC 61.050 66.667 22.49 4.06 0.00 4.09
973 1008 1.961277 GTGTGGCCACGGTGAAGAG 60.961 63.158 30.07 0.00 0.00 2.85
974 1009 2.110213 GTGTGGCCACGGTGAAGA 59.890 61.111 30.07 8.66 0.00 2.87
975 1010 2.978010 GGTGTGGCCACGGTGAAG 60.978 66.667 30.07 0.00 42.80 3.02
976 1011 4.572571 GGGTGTGGCCACGGTGAA 62.573 66.667 30.07 10.28 42.80 3.18
982 1017 4.759205 GGATGGGGGTGTGGCCAC 62.759 72.222 29.67 29.67 40.96 5.01
984 1019 3.754472 ATGGATGGGGGTGTGGCC 61.754 66.667 0.00 0.00 0.00 5.36
985 1020 2.442643 CATGGATGGGGGTGTGGC 60.443 66.667 0.00 0.00 0.00 5.01
986 1021 2.442643 GCATGGATGGGGGTGTGG 60.443 66.667 0.00 0.00 0.00 4.17
987 1022 2.442643 GGCATGGATGGGGGTGTG 60.443 66.667 0.00 0.00 0.00 3.82
988 1023 4.127744 CGGCATGGATGGGGGTGT 62.128 66.667 0.00 0.00 0.00 4.16
992 1027 3.882326 AGAGCGGCATGGATGGGG 61.882 66.667 1.45 0.00 0.00 4.96
993 1028 2.593725 CAGAGCGGCATGGATGGG 60.594 66.667 1.45 0.00 0.00 4.00
998 1033 2.825836 GGGAACAGAGCGGCATGG 60.826 66.667 1.45 0.00 0.00 3.66
1000 1035 1.841302 TTCAGGGAACAGAGCGGCAT 61.841 55.000 1.45 0.00 0.00 4.40
1001 1036 2.515979 TTCAGGGAACAGAGCGGCA 61.516 57.895 1.45 0.00 0.00 5.69
1002 1037 2.035442 GTTCAGGGAACAGAGCGGC 61.035 63.158 4.33 0.00 41.62 6.53
1003 1038 1.371183 TGTTCAGGGAACAGAGCGG 59.629 57.895 7.66 0.00 45.88 5.52
1010 1045 1.351017 TCTCATGGGTGTTCAGGGAAC 59.649 52.381 2.25 2.25 42.26 3.62
1125 1770 4.704540 TGTCCAACACCCATTAATGATGTC 59.295 41.667 17.23 8.94 33.71 3.06
1244 1889 4.442705 GTCGAAGTTGTACATCGTTGTTG 58.557 43.478 14.98 0.91 39.89 3.33
1293 1939 5.061179 GTGGATTATACAATGGCGTACCTT 58.939 41.667 0.00 0.00 36.63 3.50
1660 3408 1.265095 GTGTGACCAGCAGTGTGATTG 59.735 52.381 0.00 0.00 0.00 2.67
1769 3556 4.734398 TTGTCAAACCTGTCATGCTTTT 57.266 36.364 0.00 0.00 0.00 2.27
1843 3632 9.933723 CTGATCCATAACATATACATCACAGAA 57.066 33.333 0.00 0.00 0.00 3.02
2159 3978 9.077885 GCCAATTAATCATTACTGATCCCTTTA 57.922 33.333 0.00 0.00 41.34 1.85
2231 4125 1.062587 CTAGCTACATTGCAACGCCAC 59.937 52.381 0.00 0.00 34.99 5.01
2235 4129 3.871006 TCCAATCTAGCTACATTGCAACG 59.129 43.478 14.38 0.00 34.99 4.10


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

AutoCloner maintained by Alex Coulton.