Multiple sequence alignment - TraesCS4D01G174900

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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 TraesCS4D01G174900 chr4D 100.000 2896 0 0 1 2896 303072531 303075426 0.000000e+00 5349.0
1 TraesCS4D01G174900 chr4D 93.843 2810 146 10 7 2813 130443547 130440762 0.000000e+00 4205.0
2 TraesCS4D01G174900 chr2D 94.636 2815 137 10 4 2813 634063679 634060874 0.000000e+00 4349.0
3 TraesCS4D01G174900 chr2D 93.682 2833 161 13 1 2821 538070028 538072854 0.000000e+00 4224.0
4 TraesCS4D01G174900 chr3D 94.425 2816 140 11 1 2813 542834073 542836874 0.000000e+00 4314.0
5 TraesCS4D01G174900 chr3D 94.018 2825 144 12 1 2818 543498734 543501540 0.000000e+00 4257.0
6 TraesCS4D01G174900 chr7D 94.076 2819 147 13 1 2814 116647583 116650386 0.000000e+00 4263.0
7 TraesCS4D01G174900 chr5A 93.712 2815 166 9 1 2813 469234787 469231982 0.000000e+00 4207.0
8 TraesCS4D01G174900 chr3B 93.492 2812 169 9 4 2808 754209947 754207143 0.000000e+00 4167.0
9 TraesCS4D01G174900 chr1A 93.404 2820 163 10 4 2812 47184696 47181889 0.000000e+00 4156.0
10 TraesCS4D01G174900 chr4B 96.386 83 3 0 2814 2896 377794757 377794839 1.400000e-28 137.0
11 TraesCS4D01G174900 chr2A 93.617 47 2 1 2850 2896 760341134 760341089 5.180000e-08 69.4


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 TraesCS4D01G174900 chr4D 303072531 303075426 2895 False 5349 5349 100.000 1 2896 1 chr4D.!!$F1 2895
1 TraesCS4D01G174900 chr4D 130440762 130443547 2785 True 4205 4205 93.843 7 2813 1 chr4D.!!$R1 2806
2 TraesCS4D01G174900 chr2D 634060874 634063679 2805 True 4349 4349 94.636 4 2813 1 chr2D.!!$R1 2809
3 TraesCS4D01G174900 chr2D 538070028 538072854 2826 False 4224 4224 93.682 1 2821 1 chr2D.!!$F1 2820
4 TraesCS4D01G174900 chr3D 542834073 542836874 2801 False 4314 4314 94.425 1 2813 1 chr3D.!!$F1 2812
5 TraesCS4D01G174900 chr3D 543498734 543501540 2806 False 4257 4257 94.018 1 2818 1 chr3D.!!$F2 2817
6 TraesCS4D01G174900 chr7D 116647583 116650386 2803 False 4263 4263 94.076 1 2814 1 chr7D.!!$F1 2813
7 TraesCS4D01G174900 chr5A 469231982 469234787 2805 True 4207 4207 93.712 1 2813 1 chr5A.!!$R1 2812
8 TraesCS4D01G174900 chr3B 754207143 754209947 2804 True 4167 4167 93.492 4 2808 1 chr3B.!!$R1 2804
9 TraesCS4D01G174900 chr1A 47181889 47184696 2807 True 4156 4156 93.404 4 2812 1 chr1A.!!$R1 2808

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
324 327 1.003580 TGGCCTCTGTGAGTTCAATCC 59.996 52.381 3.32 0.0 0.00 3.01 F
1512 1524 0.329596 GCCTCTTGGTTCTCCCATGT 59.670 55.000 0.00 0.0 44.74 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1586 1598 0.034574 CATGGACGGGGTCAAATGGA 60.035 55.0 0.0 0.0 33.68 3.41 R
2867 2916 0.035036 TGGCCGGTTTTCGATACACA 59.965 50.0 1.9 0.0 42.43 3.72 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 1.847328 AAAATCGGCGGGAGGATTTT 58.153 45.000 7.21 8.71 44.02 1.82
251 254 2.738521 GCGTCGGTGCACATCACT 60.739 61.111 20.43 0.00 44.98 3.41
324 327 1.003580 TGGCCTCTGTGAGTTCAATCC 59.996 52.381 3.32 0.00 0.00 3.01
328 332 1.912043 CTCTGTGAGTTCAATCCCCCT 59.088 52.381 0.00 0.00 0.00 4.79
357 362 6.427441 TCTCTGTTCCTTCTTGCTAGATCTA 58.573 40.000 1.69 1.69 0.00 1.98
362 367 5.782893 TCCTTCTTGCTAGATCTAAGCTC 57.217 43.478 18.72 5.38 0.00 4.09
456 461 2.362169 GCGGTTGCAATTTGTGGTAT 57.638 45.000 0.59 0.00 42.15 2.73
516 521 8.921205 AGTAGTAGAGTTTGAAGTTGAACCTTA 58.079 33.333 0.00 0.00 0.00 2.69
540 545 3.667960 GCTTGTGTTGATTCGTGCTTAGG 60.668 47.826 0.00 0.00 0.00 2.69
553 558 4.629634 TCGTGCTTAGGTATGTGATTTGTG 59.370 41.667 0.00 0.00 0.00 3.33
573 578 1.136891 GGCTATTGGTGGTCCATTTGC 59.863 52.381 0.00 6.90 43.91 3.68
706 715 5.419788 TGTATGCTTCTGCTTTCATGGATTT 59.580 36.000 0.00 0.00 40.48 2.17
723 732 3.754323 GGATTTTCCGGTATGTTGTGTGA 59.246 43.478 0.00 0.00 0.00 3.58
850 859 1.448119 CGAGGACTCGCAGCCTATGA 61.448 60.000 8.93 0.00 46.50 2.15
1236 1248 1.221840 CCTTAGTGGCGCCTCATGT 59.778 57.895 29.70 11.07 0.00 3.21
1349 1361 3.496870 CCACCATTGCCTACTCCTAATCC 60.497 52.174 0.00 0.00 0.00 3.01
1389 1401 4.010349 GTTTCATTCTTAGGACCACCCAG 58.990 47.826 0.00 0.00 37.41 4.45
1512 1524 0.329596 GCCTCTTGGTTCTCCCATGT 59.670 55.000 0.00 0.00 44.74 3.21
1530 1542 1.151413 TGTTAGACTTCCCTGGGACCT 59.849 52.381 16.85 14.93 0.00 3.85
1539 1551 2.675423 CTGGGACCTCGGACGTCA 60.675 66.667 18.91 0.00 31.55 4.35
1633 1645 0.325203 AGGAAGAGAGGAGGCCTGAC 60.325 60.000 12.00 1.98 31.76 3.51
1646 1658 1.743321 GCCTGACGGAGGAGGAGATG 61.743 65.000 6.93 0.00 46.33 2.90
1861 1875 0.179468 ACGCTTACAGGGTGTTGTGT 59.821 50.000 0.00 0.00 40.09 3.72
1874 1888 0.952984 GTTGTGTCTCAGGAGCTGGC 60.953 60.000 0.00 0.00 31.51 4.85
1987 2017 4.609947 TGACGACGTACATTTTGTGTAGT 58.390 39.130 0.00 0.00 43.70 2.73
2011 2041 7.669722 AGTTAGGGCTCAAAAACTATTTGATGA 59.330 33.333 4.28 0.00 37.72 2.92
2073 2103 1.210155 GATGGTGAACTTGCGGTGC 59.790 57.895 0.00 0.00 0.00 5.01
2082 2112 1.141881 CTTGCGGTGCTAGGACGAT 59.858 57.895 8.41 0.00 0.00 3.73
2328 2369 2.978156 AGTTCATGGGAAGAAGCCAA 57.022 45.000 0.00 0.00 32.62 4.52
2364 2405 5.087391 TCGTATAGCAACAACACCCATAA 57.913 39.130 0.00 0.00 0.00 1.90
2386 2427 0.741221 GGTTCAAGACTAGGCAGGCG 60.741 60.000 0.00 0.00 33.60 5.52
2407 2448 2.413837 GCAGAACAAGCTTACTCCGAA 58.586 47.619 0.00 0.00 0.00 4.30
2447 2491 1.667236 CAGTGTTGACAGTGGCAAGA 58.333 50.000 12.94 8.38 42.16 3.02
2477 2521 3.139077 GTCAAGGTGGATCGTCAGTTTT 58.861 45.455 0.00 0.00 0.00 2.43
2510 2554 3.902881 AGAACTTCATCATCTTCGCCT 57.097 42.857 0.00 0.00 0.00 5.52
2570 2614 1.271926 GGTGTGGGTAAGCTCACCAAT 60.272 52.381 8.72 0.00 45.29 3.16
2636 2680 1.295357 CCGTGTTCATGTGCCGCTTA 61.295 55.000 0.00 0.00 0.00 3.09
2679 2727 4.386652 ACAAAGTACACTTGCGTATTACCG 59.613 41.667 7.44 0.00 36.12 4.02
2702 2750 0.813210 GCAGGGACACTAGATGCAGC 60.813 60.000 0.00 0.00 36.88 5.25
2707 2755 1.065854 GGACACTAGATGCAGCCAACT 60.066 52.381 0.00 0.00 0.00 3.16
2734 2783 6.653020 ACAAGTTGCAGATGATGTATTAGGA 58.347 36.000 1.81 0.00 0.00 2.94
2735 2784 7.285566 ACAAGTTGCAGATGATGTATTAGGAT 58.714 34.615 1.81 0.00 0.00 3.24
2759 2808 2.151502 TTTTGTTCAACCAGGCTGGA 57.848 45.000 38.99 15.41 40.96 3.86
2782 2831 2.094026 TGAGAAGTGTATGCGATGCAGT 60.094 45.455 0.00 0.00 43.65 4.40
2808 2857 2.296658 GCAAACGGCAACCAAACAG 58.703 52.632 0.00 0.00 43.97 3.16
2821 2870 0.542702 CAAACAGGCCCTTGGTGGAT 60.543 55.000 0.00 0.00 38.35 3.41
2822 2871 0.251787 AAACAGGCCCTTGGTGGATC 60.252 55.000 0.00 0.00 38.35 3.36
2823 2872 2.124570 CAGGCCCTTGGTGGATCG 60.125 66.667 0.00 0.00 38.35 3.69
2824 2873 3.411517 AGGCCCTTGGTGGATCGG 61.412 66.667 0.00 0.00 38.35 4.18
2825 2874 3.407967 GGCCCTTGGTGGATCGGA 61.408 66.667 0.00 0.00 38.35 4.55
2826 2875 2.674754 GCCCTTGGTGGATCGGAA 59.325 61.111 0.00 0.00 38.35 4.30
2827 2876 1.452108 GCCCTTGGTGGATCGGAAG 60.452 63.158 0.00 0.00 38.35 3.46
2842 2891 2.950309 TCGGAAGAGAGGAAGGAATACG 59.050 50.000 0.00 0.00 34.84 3.06
2843 2892 2.688958 CGGAAGAGAGGAAGGAATACGT 59.311 50.000 0.00 0.00 0.00 3.57
2844 2893 3.489398 CGGAAGAGAGGAAGGAATACGTG 60.489 52.174 0.00 0.00 0.00 4.49
2845 2894 3.181474 GGAAGAGAGGAAGGAATACGTGG 60.181 52.174 0.00 0.00 0.00 4.94
2846 2895 2.389715 AGAGAGGAAGGAATACGTGGG 58.610 52.381 0.00 0.00 0.00 4.61
2847 2896 2.024273 AGAGAGGAAGGAATACGTGGGA 60.024 50.000 0.00 0.00 0.00 4.37
2848 2897 2.362717 GAGAGGAAGGAATACGTGGGAG 59.637 54.545 0.00 0.00 0.00 4.30
2849 2898 2.024273 AGAGGAAGGAATACGTGGGAGA 60.024 50.000 0.00 0.00 0.00 3.71
2850 2899 2.764572 GAGGAAGGAATACGTGGGAGAA 59.235 50.000 0.00 0.00 0.00 2.87
2851 2900 3.178865 AGGAAGGAATACGTGGGAGAAA 58.821 45.455 0.00 0.00 0.00 2.52
2852 2901 3.780850 AGGAAGGAATACGTGGGAGAAAT 59.219 43.478 0.00 0.00 0.00 2.17
2853 2902 4.966805 AGGAAGGAATACGTGGGAGAAATA 59.033 41.667 0.00 0.00 0.00 1.40
2854 2903 5.055144 GGAAGGAATACGTGGGAGAAATAC 58.945 45.833 0.00 0.00 0.00 1.89
2855 2904 5.163332 GGAAGGAATACGTGGGAGAAATACT 60.163 44.000 0.00 0.00 0.00 2.12
2856 2905 6.041296 GGAAGGAATACGTGGGAGAAATACTA 59.959 42.308 0.00 0.00 0.00 1.82
2857 2906 7.256225 GGAAGGAATACGTGGGAGAAATACTAT 60.256 40.741 0.00 0.00 0.00 2.12
2858 2907 6.994221 AGGAATACGTGGGAGAAATACTATG 58.006 40.000 0.00 0.00 0.00 2.23
2859 2908 6.014499 AGGAATACGTGGGAGAAATACTATGG 60.014 42.308 0.00 0.00 0.00 2.74
2860 2909 5.740290 ATACGTGGGAGAAATACTATGGG 57.260 43.478 0.00 0.00 0.00 4.00
2861 2910 2.104281 ACGTGGGAGAAATACTATGGGC 59.896 50.000 0.00 0.00 0.00 5.36
2862 2911 2.767505 GTGGGAGAAATACTATGGGCG 58.232 52.381 0.00 0.00 0.00 6.13
2863 2912 1.697432 TGGGAGAAATACTATGGGCGG 59.303 52.381 0.00 0.00 0.00 6.13
2864 2913 1.975680 GGGAGAAATACTATGGGCGGA 59.024 52.381 0.00 0.00 0.00 5.54
2865 2914 2.028020 GGGAGAAATACTATGGGCGGAG 60.028 54.545 0.00 0.00 0.00 4.63
2866 2915 2.028020 GGAGAAATACTATGGGCGGAGG 60.028 54.545 0.00 0.00 0.00 4.30
2867 2916 2.633481 GAGAAATACTATGGGCGGAGGT 59.367 50.000 0.00 0.00 0.00 3.85
2868 2917 2.368875 AGAAATACTATGGGCGGAGGTG 59.631 50.000 0.00 0.00 0.00 4.00
2869 2918 1.802553 AATACTATGGGCGGAGGTGT 58.197 50.000 0.00 0.00 0.00 4.16
2870 2919 1.048601 ATACTATGGGCGGAGGTGTG 58.951 55.000 0.00 0.00 0.00 3.82
2871 2920 0.324923 TACTATGGGCGGAGGTGTGT 60.325 55.000 0.00 0.00 0.00 3.72
2872 2921 0.324923 ACTATGGGCGGAGGTGTGTA 60.325 55.000 0.00 0.00 0.00 2.90
2873 2922 1.048601 CTATGGGCGGAGGTGTGTAT 58.951 55.000 0.00 0.00 0.00 2.29
2874 2923 1.000955 CTATGGGCGGAGGTGTGTATC 59.999 57.143 0.00 0.00 0.00 2.24
2875 2924 2.028125 ATGGGCGGAGGTGTGTATCG 62.028 60.000 0.00 0.00 0.00 2.92
2876 2925 2.420568 GGGCGGAGGTGTGTATCGA 61.421 63.158 0.00 0.00 0.00 3.59
2877 2926 1.514087 GGCGGAGGTGTGTATCGAA 59.486 57.895 0.00 0.00 0.00 3.71
2878 2927 0.108520 GGCGGAGGTGTGTATCGAAA 60.109 55.000 0.00 0.00 0.00 3.46
2879 2928 1.673626 GGCGGAGGTGTGTATCGAAAA 60.674 52.381 0.00 0.00 0.00 2.29
2880 2929 1.392510 GCGGAGGTGTGTATCGAAAAC 59.607 52.381 0.00 0.00 0.00 2.43
2881 2930 1.997606 CGGAGGTGTGTATCGAAAACC 59.002 52.381 0.00 0.00 0.00 3.27
2882 2931 1.997606 GGAGGTGTGTATCGAAAACCG 59.002 52.381 0.00 0.00 35.99 4.44
2883 2932 1.997606 GAGGTGTGTATCGAAAACCGG 59.002 52.381 0.00 0.00 39.14 5.28
2884 2933 0.445043 GGTGTGTATCGAAAACCGGC 59.555 55.000 0.00 0.00 39.14 6.13
2885 2934 0.445043 GTGTGTATCGAAAACCGGCC 59.555 55.000 0.00 0.00 39.14 6.13
2886 2935 0.035036 TGTGTATCGAAAACCGGCCA 59.965 50.000 0.00 0.00 39.14 5.36
2887 2936 1.158434 GTGTATCGAAAACCGGCCAA 58.842 50.000 0.00 0.00 39.14 4.52
2888 2937 1.536331 GTGTATCGAAAACCGGCCAAA 59.464 47.619 0.00 0.00 39.14 3.28
2889 2938 2.162809 GTGTATCGAAAACCGGCCAAAT 59.837 45.455 0.00 0.00 39.14 2.32
2890 2939 3.374678 GTGTATCGAAAACCGGCCAAATA 59.625 43.478 0.00 0.00 39.14 1.40
2891 2940 3.374678 TGTATCGAAAACCGGCCAAATAC 59.625 43.478 0.00 3.42 39.14 1.89
2892 2941 1.166989 TCGAAAACCGGCCAAATACC 58.833 50.000 0.00 0.00 39.14 2.73
2893 2942 0.171679 CGAAAACCGGCCAAATACCC 59.828 55.000 0.00 0.00 33.91 3.69
2894 2943 0.171679 GAAAACCGGCCAAATACCCG 59.828 55.000 0.00 0.00 43.97 5.28
2895 2944 0.540133 AAAACCGGCCAAATACCCGT 60.540 50.000 0.00 0.00 42.87 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
140 142 0.840722 AACGGAGGGAGAATGGTGGT 60.841 55.000 0.00 0.00 0.00 4.16
246 249 3.329542 ATCAACGCCGGCCAGTGAT 62.330 57.895 23.46 22.65 0.00 3.06
251 254 2.435938 GAAGATCAACGCCGGCCA 60.436 61.111 23.46 2.06 0.00 5.36
324 327 3.329225 AGAAGGAACAGAGAGAAAAGGGG 59.671 47.826 0.00 0.00 0.00 4.79
328 332 5.041191 AGCAAGAAGGAACAGAGAGAAAA 57.959 39.130 0.00 0.00 0.00 2.29
362 367 4.802248 GCATCTAGATCAAACCCTAGCTGG 60.802 50.000 1.03 0.00 32.64 4.85
456 461 3.011818 CACATGCTTGAACATCTAGCCA 58.988 45.455 6.60 1.40 43.03 4.75
516 521 1.881973 AGCACGAATCAACACAAGCAT 59.118 42.857 0.00 0.00 0.00 3.79
540 545 5.450412 CCACCAATAGCCACAAATCACATAC 60.450 44.000 0.00 0.00 0.00 2.39
573 578 5.522456 ACATCTACAACAAACAACATGCTG 58.478 37.500 0.00 0.00 0.00 4.41
706 715 3.874543 GCATATCACACAACATACCGGAA 59.125 43.478 9.46 0.00 0.00 4.30
723 732 3.002656 GCACGCATTGACAGTAAGCATAT 59.997 43.478 0.00 0.00 0.00 1.78
850 859 1.355381 TGAATCAGGTGCCATCTTGGT 59.645 47.619 0.00 0.00 40.46 3.67
1236 1248 3.708403 ATGGAGCAAGTGTTCTCATCA 57.292 42.857 0.00 0.00 0.00 3.07
1450 1462 2.032528 CAGTTGCCAGCCCGAAGA 59.967 61.111 0.00 0.00 0.00 2.87
1512 1524 1.618888 CGAGGTCCCAGGGAAGTCTAA 60.619 57.143 10.89 0.00 31.38 2.10
1586 1598 0.034574 CATGGACGGGGTCAAATGGA 60.035 55.000 0.00 0.00 33.68 3.41
1633 1645 2.315176 AGACATTCATCTCCTCCTCCG 58.685 52.381 0.00 0.00 0.00 4.63
1646 1658 3.918591 CAGTCATGCTGCAAAAGACATTC 59.081 43.478 24.81 7.68 38.52 2.67
1829 1843 2.884997 TAAGCGTCGGCCATGGCAAT 62.885 55.000 36.56 16.38 44.11 3.56
1847 1861 1.691976 CCTGAGACACAACACCCTGTA 59.308 52.381 0.00 0.00 0.00 2.74
1861 1875 1.075674 CCTAGGCCAGCTCCTGAGA 60.076 63.158 5.01 0.00 37.01 3.27
1874 1888 4.462133 TCTAGTAGTAGTGCTTGCCTAGG 58.538 47.826 3.67 3.67 0.00 3.02
1987 2017 8.593945 ATCATCAAATAGTTTTTGAGCCCTAA 57.406 30.769 13.15 0.00 41.13 2.69
2011 2041 6.327386 ACCACCTCACCAAAATATACAGAT 57.673 37.500 0.00 0.00 0.00 2.90
2073 2103 3.958798 TCCAAAAGAGGGTATCGTCCTAG 59.041 47.826 0.00 0.00 34.21 3.02
2082 2112 2.041081 CCACCACATCCAAAAGAGGGTA 59.959 50.000 0.00 0.00 0.00 3.69
2364 2405 1.630878 CCTGCCTAGTCTTGAACCCTT 59.369 52.381 0.00 0.00 0.00 3.95
2386 2427 1.079503 CGGAGTAAGCTTGTTCTGCC 58.920 55.000 9.86 7.58 0.00 4.85
2424 2468 0.815213 GCCACTGTCAACACTGCTGA 60.815 55.000 0.00 0.00 0.00 4.26
2447 2491 1.444933 TCCACCTTGACACCTCCAAT 58.555 50.000 0.00 0.00 0.00 3.16
2477 2521 2.158769 TGAAGTTCTTCAGCTTCAGCCA 60.159 45.455 10.67 0.00 44.01 4.75
2570 2614 4.102838 TGTTGTGCTTACCTTGTACCCTAA 59.897 41.667 0.00 0.00 0.00 2.69
2636 2680 0.469705 TTGGTTGTCTGCATTGGCCT 60.470 50.000 3.32 0.00 40.13 5.19
2679 2727 2.216898 GCATCTAGTGTCCCTGCATTC 58.783 52.381 0.00 0.00 33.13 2.67
2707 2755 8.892723 CCTAATACATCATCTGCAACTTGTTTA 58.107 33.333 0.00 0.00 0.00 2.01
2734 2783 5.511202 CCAGCCTGGTTGAACAAAAACATAT 60.511 40.000 12.54 0.00 31.35 1.78
2735 2784 4.202202 CCAGCCTGGTTGAACAAAAACATA 60.202 41.667 12.54 0.00 31.35 2.29
2745 2794 1.704628 TCTCAATCCAGCCTGGTTGAA 59.295 47.619 21.26 13.61 37.22 2.69
2759 2808 3.534554 TGCATCGCATACACTTCTCAAT 58.465 40.909 0.00 0.00 31.71 2.57
2782 2831 1.508632 GTTGCCGTTTGCTAGAGTGA 58.491 50.000 0.00 0.00 42.00 3.41
2808 2857 2.893682 CTTCCGATCCACCAAGGGCC 62.894 65.000 0.00 0.00 38.24 5.80
2821 2870 2.950309 CGTATTCCTTCCTCTCTTCCGA 59.050 50.000 0.00 0.00 0.00 4.55
2822 2871 2.688958 ACGTATTCCTTCCTCTCTTCCG 59.311 50.000 0.00 0.00 0.00 4.30
2823 2872 3.181474 CCACGTATTCCTTCCTCTCTTCC 60.181 52.174 0.00 0.00 0.00 3.46
2824 2873 3.181474 CCCACGTATTCCTTCCTCTCTTC 60.181 52.174 0.00 0.00 0.00 2.87
2825 2874 2.766828 CCCACGTATTCCTTCCTCTCTT 59.233 50.000 0.00 0.00 0.00 2.85
2826 2875 2.024273 TCCCACGTATTCCTTCCTCTCT 60.024 50.000 0.00 0.00 0.00 3.10
2827 2876 2.362717 CTCCCACGTATTCCTTCCTCTC 59.637 54.545 0.00 0.00 0.00 3.20
2828 2877 2.024273 TCTCCCACGTATTCCTTCCTCT 60.024 50.000 0.00 0.00 0.00 3.69
2829 2878 2.385803 TCTCCCACGTATTCCTTCCTC 58.614 52.381 0.00 0.00 0.00 3.71
2830 2879 2.544844 TCTCCCACGTATTCCTTCCT 57.455 50.000 0.00 0.00 0.00 3.36
2831 2880 3.622166 TTTCTCCCACGTATTCCTTCC 57.378 47.619 0.00 0.00 0.00 3.46
2832 2881 5.915175 AGTATTTCTCCCACGTATTCCTTC 58.085 41.667 0.00 0.00 0.00 3.46
2833 2882 5.952347 AGTATTTCTCCCACGTATTCCTT 57.048 39.130 0.00 0.00 0.00 3.36
2834 2883 6.014499 CCATAGTATTTCTCCCACGTATTCCT 60.014 42.308 0.00 0.00 0.00 3.36
2835 2884 6.164176 CCATAGTATTTCTCCCACGTATTCC 58.836 44.000 0.00 0.00 0.00 3.01
2836 2885 6.164176 CCCATAGTATTTCTCCCACGTATTC 58.836 44.000 0.00 0.00 0.00 1.75
2837 2886 5.512576 GCCCATAGTATTTCTCCCACGTATT 60.513 44.000 0.00 0.00 0.00 1.89
2838 2887 4.020485 GCCCATAGTATTTCTCCCACGTAT 60.020 45.833 0.00 0.00 0.00 3.06
2839 2888 3.322828 GCCCATAGTATTTCTCCCACGTA 59.677 47.826 0.00 0.00 0.00 3.57
2840 2889 2.104281 GCCCATAGTATTTCTCCCACGT 59.896 50.000 0.00 0.00 0.00 4.49
2841 2890 2.767505 GCCCATAGTATTTCTCCCACG 58.232 52.381 0.00 0.00 0.00 4.94
2842 2891 2.550208 CCGCCCATAGTATTTCTCCCAC 60.550 54.545 0.00 0.00 0.00 4.61
2843 2892 1.697432 CCGCCCATAGTATTTCTCCCA 59.303 52.381 0.00 0.00 0.00 4.37
2844 2893 1.975680 TCCGCCCATAGTATTTCTCCC 59.024 52.381 0.00 0.00 0.00 4.30
2845 2894 2.028020 CCTCCGCCCATAGTATTTCTCC 60.028 54.545 0.00 0.00 0.00 3.71
2846 2895 2.633481 ACCTCCGCCCATAGTATTTCTC 59.367 50.000 0.00 0.00 0.00 2.87
2847 2896 2.368875 CACCTCCGCCCATAGTATTTCT 59.631 50.000 0.00 0.00 0.00 2.52
2848 2897 2.104281 ACACCTCCGCCCATAGTATTTC 59.896 50.000 0.00 0.00 0.00 2.17
2849 2898 2.124411 ACACCTCCGCCCATAGTATTT 58.876 47.619 0.00 0.00 0.00 1.40
2850 2899 1.416401 CACACCTCCGCCCATAGTATT 59.584 52.381 0.00 0.00 0.00 1.89
2851 2900 1.048601 CACACCTCCGCCCATAGTAT 58.951 55.000 0.00 0.00 0.00 2.12
2852 2901 0.324923 ACACACCTCCGCCCATAGTA 60.325 55.000 0.00 0.00 0.00 1.82
2853 2902 0.324923 TACACACCTCCGCCCATAGT 60.325 55.000 0.00 0.00 0.00 2.12
2854 2903 1.000955 GATACACACCTCCGCCCATAG 59.999 57.143 0.00 0.00 0.00 2.23
2855 2904 1.045407 GATACACACCTCCGCCCATA 58.955 55.000 0.00 0.00 0.00 2.74
2856 2905 1.830145 GATACACACCTCCGCCCAT 59.170 57.895 0.00 0.00 0.00 4.00
2857 2906 2.717044 CGATACACACCTCCGCCCA 61.717 63.158 0.00 0.00 0.00 5.36
2858 2907 1.952102 TTCGATACACACCTCCGCCC 61.952 60.000 0.00 0.00 0.00 6.13
2859 2908 0.108520 TTTCGATACACACCTCCGCC 60.109 55.000 0.00 0.00 0.00 6.13
2860 2909 1.392510 GTTTTCGATACACACCTCCGC 59.607 52.381 0.00 0.00 0.00 5.54
2861 2910 1.997606 GGTTTTCGATACACACCTCCG 59.002 52.381 0.00 0.00 0.00 4.63
2862 2911 1.997606 CGGTTTTCGATACACACCTCC 59.002 52.381 0.00 0.00 42.43 4.30
2863 2912 1.997606 CCGGTTTTCGATACACACCTC 59.002 52.381 0.00 0.00 42.43 3.85
2864 2913 1.942586 GCCGGTTTTCGATACACACCT 60.943 52.381 1.90 0.00 42.43 4.00
2865 2914 0.445043 GCCGGTTTTCGATACACACC 59.555 55.000 1.90 0.00 42.43 4.16
2866 2915 0.445043 GGCCGGTTTTCGATACACAC 59.555 55.000 1.90 0.00 42.43 3.82
2867 2916 0.035036 TGGCCGGTTTTCGATACACA 59.965 50.000 1.90 0.00 42.43 3.72
2868 2917 1.158434 TTGGCCGGTTTTCGATACAC 58.842 50.000 1.90 0.00 42.43 2.90
2869 2918 1.893544 TTTGGCCGGTTTTCGATACA 58.106 45.000 1.90 0.00 42.43 2.29
2870 2919 3.242837 GGTATTTGGCCGGTTTTCGATAC 60.243 47.826 1.90 4.96 42.43 2.24
2871 2920 2.944349 GGTATTTGGCCGGTTTTCGATA 59.056 45.455 1.90 0.00 42.43 2.92
2872 2921 1.746787 GGTATTTGGCCGGTTTTCGAT 59.253 47.619 1.90 0.00 42.43 3.59
2873 2922 1.166989 GGTATTTGGCCGGTTTTCGA 58.833 50.000 1.90 0.00 42.43 3.71
2874 2923 0.171679 GGGTATTTGGCCGGTTTTCG 59.828 55.000 1.90 0.00 38.88 3.46
2875 2924 0.171679 CGGGTATTTGGCCGGTTTTC 59.828 55.000 1.90 0.00 0.00 2.29
2876 2925 0.540133 ACGGGTATTTGGCCGGTTTT 60.540 50.000 1.90 0.00 36.35 2.43
2877 2926 1.075305 ACGGGTATTTGGCCGGTTT 59.925 52.632 1.90 0.00 36.35 3.27
2878 2927 2.758434 ACGGGTATTTGGCCGGTT 59.242 55.556 1.90 0.00 36.35 4.44


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

AutoCloner maintained by Alex Coulton.