Multiple sequence alignment - TraesCS7B01G231800

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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 TraesCS7B01G231800 chr7B 100.000 2756 0 0 1 2756 434836643 434839398 0.000000e+00 5090.0
1 TraesCS7B01G231800 chr7D 94.528 1389 43 15 1 1369 418960362 418961737 0.000000e+00 2113.0
2 TraesCS7B01G231800 chr7D 93.216 1253 42 10 1367 2603 418961865 418963090 0.000000e+00 1803.0
3 TraesCS7B01G231800 chr7D 91.803 61 2 2 2613 2671 225833187 225833128 6.330000e-12 82.4
4 TraesCS7B01G231800 chr7A 91.807 415 17 4 1553 1956 514671436 514671028 1.850000e-156 562.0
5 TraesCS7B01G231800 chr7A 92.072 391 24 6 887 1273 514672295 514671908 6.710000e-151 544.0
6 TraesCS7B01G231800 chr7A 92.040 201 14 2 1367 1566 514671652 514671453 5.810000e-72 281.0
7 TraesCS7B01G231800 chr7A 86.726 226 20 6 1983 2198 514671031 514670806 2.740000e-60 243.0
8 TraesCS7B01G231800 chr7A 82.374 278 39 5 2337 2610 514670721 514670450 1.650000e-57 233.0
9 TraesCS7B01G231800 chr7A 94.444 54 2 1 2606 2659 48103068 48103120 6.330000e-12 82.4
10 TraesCS7B01G231800 chr2D 98.077 52 1 0 2613 2664 619562343 619562394 1.050000e-14 91.6
11 TraesCS7B01G231800 chr2D 94.000 50 3 0 2620 2669 585736606 585736557 2.940000e-10 76.8
12 TraesCS7B01G231800 chr6B 100.000 48 0 0 2613 2660 622737694 622737741 3.780000e-14 89.8
13 TraesCS7B01G231800 chr3B 96.154 52 2 0 2613 2664 681562715 681562664 4.890000e-13 86.1
14 TraesCS7B01G231800 chr2B 97.959 49 1 0 2613 2661 216462808 216462856 4.890000e-13 86.1
15 TraesCS7B01G231800 chr2A 97.959 49 1 0 2613 2661 559118410 559118458 4.890000e-13 86.1
16 TraesCS7B01G231800 chr1A 97.959 49 1 0 2613 2661 106228075 106228123 4.890000e-13 86.1


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 TraesCS7B01G231800 chr7B 434836643 434839398 2755 False 5090.0 5090 100.0000 1 2756 1 chr7B.!!$F1 2755
1 TraesCS7B01G231800 chr7D 418960362 418963090 2728 False 1958.0 2113 93.8720 1 2603 2 chr7D.!!$F1 2602
2 TraesCS7B01G231800 chr7A 514670450 514672295 1845 True 372.6 562 89.0038 887 2610 5 chr7A.!!$R1 1723

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
157 173 1.069022 CACATACGCCCAATATGCAGC 60.069 52.381 0.0 0.0 33.99 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1924 2168 0.106519 GTGCCAGGTTCCCTATGCAT 60.107 55.0 3.79 3.79 40.78 3.96 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
22 23 3.819564 AGGCTGCGAACTATTGTATCA 57.180 42.857 0.00 0.00 0.00 2.15
157 173 1.069022 CACATACGCCCAATATGCAGC 60.069 52.381 0.00 0.00 33.99 5.25
168 184 4.384427 CCCAATATGCAGCATTCCCTTTTT 60.384 41.667 14.58 0.00 0.00 1.94
243 259 6.648725 GCAGGTTTACTTATTTTGCATTTGGA 59.351 34.615 0.00 0.00 0.00 3.53
244 260 7.360017 GCAGGTTTACTTATTTTGCATTTGGAC 60.360 37.037 0.00 0.00 0.00 4.02
261 277 8.712363 GCATTTGGACTTTTCTATTTTCCTTTC 58.288 33.333 0.00 0.00 0.00 2.62
401 417 9.453325 GAACTTTTCGTTTTGGATACACAAATA 57.547 29.630 0.00 0.00 41.22 1.40
415 431 9.573133 GGATACACAAATATTTCTGTTGGAAAG 57.427 33.333 13.35 0.00 45.61 2.62
419 435 7.933033 ACACAAATATTTCTGTTGGAAAGCATT 59.067 29.630 3.51 0.00 45.61 3.56
589 605 6.929049 TGTGAACAGTTCTACCAAACTCTATG 59.071 38.462 14.51 0.00 37.38 2.23
696 712 9.683069 GTTTTCAATCATGTTGATGTCTTTACT 57.317 29.630 10.27 0.00 37.15 2.24
846 862 2.857186 AAAACACATCAAATGGGCCC 57.143 45.000 17.59 17.59 37.11 5.80
859 875 3.652057 ATGGGCCCTATATGATTTCGG 57.348 47.619 25.70 0.00 0.00 4.30
860 876 2.626785 TGGGCCCTATATGATTTCGGA 58.373 47.619 25.70 0.00 0.00 4.55
864 881 4.263331 GGGCCCTATATGATTTCGGAGAAA 60.263 45.833 17.04 0.00 45.90 2.52
1012 1032 2.586245 CTCCAATGGCGCTCCTCA 59.414 61.111 7.64 0.00 0.00 3.86
1635 1867 3.569902 CGGCCCCGTAACAAGAAC 58.430 61.111 0.00 0.00 34.35 3.01
1918 2162 4.319118 GCTTTCGATTGCTTAGGCTGTATC 60.319 45.833 0.00 0.00 39.59 2.24
1919 2163 4.400529 TTCGATTGCTTAGGCTGTATCA 57.599 40.909 0.00 0.00 39.59 2.15
1920 2164 3.717707 TCGATTGCTTAGGCTGTATCAC 58.282 45.455 0.00 0.00 39.59 3.06
1922 2166 3.492383 CGATTGCTTAGGCTGTATCACTG 59.508 47.826 0.00 0.00 39.59 3.66
1923 2167 3.981071 TTGCTTAGGCTGTATCACTGT 57.019 42.857 0.00 0.00 39.59 3.55
1924 2168 5.601662 GATTGCTTAGGCTGTATCACTGTA 58.398 41.667 0.00 0.00 39.59 2.74
2023 2270 7.730364 TTTTCTCACCTTCTCTGTTACATTC 57.270 36.000 0.00 0.00 0.00 2.67
2117 2364 9.251440 TCTATAGGTTCTTGTCTAAGCTGTTAA 57.749 33.333 0.00 0.00 36.22 2.01
2226 2482 9.152595 CATATGATGACTGAAGTGGATGATAAG 57.847 37.037 0.00 0.00 0.00 1.73
2244 2500 6.678878 TGATAAGAGTGTCAGTAGTGTTGTC 58.321 40.000 0.00 0.00 0.00 3.18
2305 2563 2.545742 CCTGCCTGTTTTACAAGTTGCC 60.546 50.000 1.81 0.00 0.00 4.52
2351 2611 8.652810 ATGTTTTGACTCTTTTGAAAGGATTG 57.347 30.769 3.83 0.00 36.67 2.67
2450 2710 5.994054 TCAAGATCAAAGTTCTTCACCTCTG 59.006 40.000 0.00 0.00 31.11 3.35
2455 2715 6.834168 TCAAAGTTCTTCACCTCTGTTTTT 57.166 33.333 0.00 0.00 0.00 1.94
2473 2733 3.557228 TTTTTGGCAGCATGGTCTTTT 57.443 38.095 0.00 0.00 35.86 2.27
2474 2734 4.679373 TTTTTGGCAGCATGGTCTTTTA 57.321 36.364 0.00 0.00 35.86 1.52
2477 2737 2.016318 TGGCAGCATGGTCTTTTATCG 58.984 47.619 0.00 0.00 35.86 2.92
2575 2835 4.406648 TGTACAGCATCCTACATTCCTG 57.593 45.455 0.00 0.00 0.00 3.86
2605 2865 5.048083 GGATGCACCTTGAACAATCTGTAAA 60.048 40.000 0.00 0.00 35.41 2.01
2610 2870 6.590357 CACCTTGAACAATCTGTAAACTACG 58.410 40.000 0.00 0.00 0.00 3.51
2611 2871 5.178809 ACCTTGAACAATCTGTAAACTACGC 59.821 40.000 0.00 0.00 0.00 4.42
2612 2872 5.408604 CCTTGAACAATCTGTAAACTACGCT 59.591 40.000 0.00 0.00 0.00 5.07
2613 2873 6.588756 CCTTGAACAATCTGTAAACTACGCTA 59.411 38.462 0.00 0.00 0.00 4.26
2614 2874 6.939551 TGAACAATCTGTAAACTACGCTAC 57.060 37.500 0.00 0.00 0.00 3.58
2615 2875 6.684686 TGAACAATCTGTAAACTACGCTACT 58.315 36.000 0.00 0.00 0.00 2.57
2616 2876 7.149973 TGAACAATCTGTAAACTACGCTACTT 58.850 34.615 0.00 0.00 0.00 2.24
2617 2877 7.327761 TGAACAATCTGTAAACTACGCTACTTC 59.672 37.037 0.00 0.00 0.00 3.01
2618 2878 6.098017 ACAATCTGTAAACTACGCTACTTCC 58.902 40.000 0.00 0.00 0.00 3.46
2619 2879 6.071503 ACAATCTGTAAACTACGCTACTTCCT 60.072 38.462 0.00 0.00 0.00 3.36
2620 2880 5.557891 TCTGTAAACTACGCTACTTCCTC 57.442 43.478 0.00 0.00 0.00 3.71
2621 2881 4.397417 TCTGTAAACTACGCTACTTCCTCC 59.603 45.833 0.00 0.00 0.00 4.30
2622 2882 2.935481 AAACTACGCTACTTCCTCCG 57.065 50.000 0.00 0.00 0.00 4.63
2623 2883 1.831580 AACTACGCTACTTCCTCCGT 58.168 50.000 0.00 0.00 37.68 4.69
2624 2884 1.377536 ACTACGCTACTTCCTCCGTC 58.622 55.000 0.00 0.00 35.36 4.79
2625 2885 0.662085 CTACGCTACTTCCTCCGTCC 59.338 60.000 0.00 0.00 35.36 4.79
2626 2886 1.091771 TACGCTACTTCCTCCGTCCG 61.092 60.000 0.00 0.00 35.36 4.79
2627 2887 2.806237 GCTACTTCCTCCGTCCGG 59.194 66.667 0.00 0.00 0.00 5.14
2628 2888 1.751927 GCTACTTCCTCCGTCCGGA 60.752 63.158 0.00 0.00 42.90 5.14
2629 2889 1.318158 GCTACTTCCTCCGTCCGGAA 61.318 60.000 5.23 0.00 44.66 4.30
2630 2890 1.400737 CTACTTCCTCCGTCCGGAAT 58.599 55.000 5.23 0.00 44.66 3.01
2631 2891 1.755380 CTACTTCCTCCGTCCGGAATT 59.245 52.381 5.23 0.00 44.66 2.17
2632 2892 1.856629 ACTTCCTCCGTCCGGAATTA 58.143 50.000 5.23 0.00 44.66 1.40
2633 2893 1.755380 ACTTCCTCCGTCCGGAATTAG 59.245 52.381 5.23 3.15 44.66 1.73
2634 2894 1.755380 CTTCCTCCGTCCGGAATTAGT 59.245 52.381 5.23 0.00 44.66 2.24
2635 2895 1.856629 TCCTCCGTCCGGAATTAGTT 58.143 50.000 5.23 0.00 44.66 2.24
2636 2896 1.479323 TCCTCCGTCCGGAATTAGTTG 59.521 52.381 5.23 0.00 44.66 3.16
2637 2897 1.479323 CCTCCGTCCGGAATTAGTTGA 59.521 52.381 5.23 0.00 44.66 3.18
2638 2898 2.537401 CTCCGTCCGGAATTAGTTGAC 58.463 52.381 5.23 0.00 44.66 3.18
2639 2899 1.135315 TCCGTCCGGAATTAGTTGACG 60.135 52.381 5.23 1.97 46.05 4.35
2640 2900 0.643820 CGTCCGGAATTAGTTGACGC 59.356 55.000 5.23 0.00 41.71 5.19
2641 2901 1.734707 CGTCCGGAATTAGTTGACGCT 60.735 52.381 5.23 0.00 41.71 5.07
2642 2902 1.925185 GTCCGGAATTAGTTGACGCTC 59.075 52.381 5.23 0.00 0.00 5.03
2643 2903 1.546923 TCCGGAATTAGTTGACGCTCA 59.453 47.619 0.00 0.00 0.00 4.26
2644 2904 2.028839 TCCGGAATTAGTTGACGCTCAA 60.029 45.455 0.00 0.00 33.32 3.02
2645 2905 2.739913 CCGGAATTAGTTGACGCTCAAA 59.260 45.455 0.00 0.00 38.22 2.69
2646 2906 3.424433 CCGGAATTAGTTGACGCTCAAAC 60.424 47.826 0.00 0.00 38.22 2.93
2647 2907 3.720920 CGGAATTAGTTGACGCTCAAACG 60.721 47.826 2.65 0.00 38.22 3.60
2648 2908 3.424433 GGAATTAGTTGACGCTCAAACGG 60.424 47.826 2.65 0.00 38.22 4.44
2649 2909 2.512485 TTAGTTGACGCTCAAACGGA 57.488 45.000 2.65 0.00 38.22 4.69
2650 2910 2.736144 TAGTTGACGCTCAAACGGAT 57.264 45.000 2.65 0.00 38.22 4.18
2651 2911 1.148310 AGTTGACGCTCAAACGGATG 58.852 50.000 2.65 0.00 38.22 3.51
2652 2912 0.865769 GTTGACGCTCAAACGGATGT 59.134 50.000 2.65 0.00 38.22 3.06
2653 2913 2.063266 GTTGACGCTCAAACGGATGTA 58.937 47.619 2.65 0.00 38.22 2.29
2654 2914 2.665649 TGACGCTCAAACGGATGTAT 57.334 45.000 0.00 0.00 37.37 2.29
2655 2915 2.536365 TGACGCTCAAACGGATGTATC 58.464 47.619 0.00 0.00 37.37 2.24
2656 2916 2.165641 TGACGCTCAAACGGATGTATCT 59.834 45.455 0.00 0.00 37.37 1.98
2657 2917 3.379057 TGACGCTCAAACGGATGTATCTA 59.621 43.478 0.00 0.00 37.37 1.98
2658 2918 3.966154 ACGCTCAAACGGATGTATCTAG 58.034 45.455 0.00 0.00 37.37 2.43
2659 2919 3.630769 ACGCTCAAACGGATGTATCTAGA 59.369 43.478 0.00 0.00 37.37 2.43
2660 2920 3.975670 CGCTCAAACGGATGTATCTAGAC 59.024 47.826 0.00 0.00 0.00 2.59
2661 2921 4.497507 CGCTCAAACGGATGTATCTAGACA 60.498 45.833 0.00 0.00 0.00 3.41
2662 2922 5.533482 GCTCAAACGGATGTATCTAGACAT 58.467 41.667 0.00 0.00 42.82 3.06
2663 2923 6.567891 CGCTCAAACGGATGTATCTAGACATA 60.568 42.308 0.00 0.00 40.18 2.29
2664 2924 6.804295 GCTCAAACGGATGTATCTAGACATAG 59.196 42.308 0.00 0.00 40.18 2.23
2665 2925 7.215719 TCAAACGGATGTATCTAGACATAGG 57.784 40.000 0.00 0.00 40.18 2.57
2666 2926 6.208797 TCAAACGGATGTATCTAGACATAGGG 59.791 42.308 0.00 0.00 40.18 3.53
2667 2927 5.516059 ACGGATGTATCTAGACATAGGGA 57.484 43.478 0.00 0.00 40.18 4.20
2668 2928 5.502079 ACGGATGTATCTAGACATAGGGAG 58.498 45.833 0.00 0.00 40.18 4.30
2669 2929 5.014333 ACGGATGTATCTAGACATAGGGAGT 59.986 44.000 0.00 0.00 40.18 3.85
2670 2930 6.215023 ACGGATGTATCTAGACATAGGGAGTA 59.785 42.308 0.00 0.00 40.18 2.59
2671 2931 6.539464 CGGATGTATCTAGACATAGGGAGTAC 59.461 46.154 0.00 0.00 40.18 2.73
2672 2932 7.403671 GGATGTATCTAGACATAGGGAGTACA 58.596 42.308 0.00 0.00 40.18 2.90
2673 2933 8.056400 GGATGTATCTAGACATAGGGAGTACAT 58.944 40.741 8.77 8.77 40.18 2.29
2674 2934 9.469097 GATGTATCTAGACATAGGGAGTACATT 57.531 37.037 9.89 0.00 40.18 2.71
2675 2935 9.830186 ATGTATCTAGACATAGGGAGTACATTT 57.170 33.333 0.00 0.00 38.29 2.32
2676 2936 9.656323 TGTATCTAGACATAGGGAGTACATTTT 57.344 33.333 0.00 0.00 0.00 1.82
2680 2940 9.710818 TCTAGACATAGGGAGTACATTTTAACT 57.289 33.333 0.00 0.00 0.00 2.24
2681 2941 9.968870 CTAGACATAGGGAGTACATTTTAACTC 57.031 37.037 0.00 0.00 41.16 3.01
2682 2942 7.490000 AGACATAGGGAGTACATTTTAACTCG 58.510 38.462 0.00 0.00 42.51 4.18
2683 2943 7.123847 AGACATAGGGAGTACATTTTAACTCGT 59.876 37.037 0.00 0.00 42.51 4.18
2684 2944 7.039882 ACATAGGGAGTACATTTTAACTCGTG 58.960 38.462 0.00 0.00 42.51 4.35
2685 2945 5.479124 AGGGAGTACATTTTAACTCGTGT 57.521 39.130 0.00 0.00 42.51 4.49
2686 2946 6.594788 AGGGAGTACATTTTAACTCGTGTA 57.405 37.500 0.00 0.00 42.51 2.90
2687 2947 6.628185 AGGGAGTACATTTTAACTCGTGTAG 58.372 40.000 0.00 0.00 42.51 2.74
2688 2948 6.210185 AGGGAGTACATTTTAACTCGTGTAGT 59.790 38.462 0.00 0.00 42.51 2.73
2690 2950 7.062722 GGGAGTACATTTTAACTCGTGTAGTTC 59.937 40.741 0.00 0.00 45.64 3.01
2691 2951 7.596248 GGAGTACATTTTAACTCGTGTAGTTCA 59.404 37.037 0.00 0.00 45.64 3.18
2692 2952 8.290663 AGTACATTTTAACTCGTGTAGTTCAC 57.709 34.615 0.00 0.00 45.64 3.18
2732 2992 9.995003 TTAAAACCATGTCAATAAATTTGAGCT 57.005 25.926 0.00 0.00 0.00 4.09
2733 2993 8.907222 AAAACCATGTCAATAAATTTGAGCTT 57.093 26.923 0.00 0.00 0.00 3.74
2734 2994 7.894376 AACCATGTCAATAAATTTGAGCTTG 57.106 32.000 0.00 0.29 0.00 4.01
2735 2995 6.996509 ACCATGTCAATAAATTTGAGCTTGT 58.003 32.000 0.00 0.00 0.00 3.16
2736 2996 7.444299 ACCATGTCAATAAATTTGAGCTTGTT 58.556 30.769 0.00 0.00 0.00 2.83
2737 2997 7.933033 ACCATGTCAATAAATTTGAGCTTGTTT 59.067 29.630 0.00 0.00 0.00 2.83
2738 2998 8.776470 CCATGTCAATAAATTTGAGCTTGTTTT 58.224 29.630 0.00 0.00 0.00 2.43
2741 3001 8.538856 TGTCAATAAATTTGAGCTTGTTTTTCG 58.461 29.630 0.00 0.00 0.00 3.46
2742 3002 7.527183 GTCAATAAATTTGAGCTTGTTTTTCGC 59.473 33.333 0.00 0.00 0.00 4.70
2743 3003 4.436365 AAATTTGAGCTTGTTTTTCGCG 57.564 36.364 0.00 0.00 0.00 5.87
2744 3004 2.553079 TTTGAGCTTGTTTTTCGCGT 57.447 40.000 5.77 0.00 0.00 6.01
2745 3005 2.553079 TTGAGCTTGTTTTTCGCGTT 57.447 40.000 5.77 0.00 0.00 4.84
2746 3006 1.821336 TGAGCTTGTTTTTCGCGTTG 58.179 45.000 5.77 0.00 0.00 4.10
2747 3007 0.498511 GAGCTTGTTTTTCGCGTTGC 59.501 50.000 5.77 0.31 0.00 4.17
2748 3008 0.179150 AGCTTGTTTTTCGCGTTGCA 60.179 45.000 5.77 0.00 0.00 4.08
2749 3009 0.044246 GCTTGTTTTTCGCGTTGCAC 60.044 50.000 5.77 0.00 0.00 4.57
2750 3010 0.223513 CTTGTTTTTCGCGTTGCACG 59.776 50.000 5.77 4.61 45.88 5.34
2751 3011 0.454620 TTGTTTTTCGCGTTGCACGT 60.455 45.000 5.77 0.00 44.73 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
198 214 9.733219 AACCTGCAAATAAAACAAATCAAAATG 57.267 25.926 0.00 0.00 0.00 2.32
231 247 8.835439 GGAAAATAGAAAAGTCCAAATGCAAAA 58.165 29.630 0.00 0.00 0.00 2.44
236 252 9.987272 AGAAAGGAAAATAGAAAAGTCCAAATG 57.013 29.630 0.00 0.00 0.00 2.32
823 839 4.262851 GGGCCCATTTGATGTGTTTTAGTT 60.263 41.667 19.95 0.00 0.00 2.24
824 840 3.260632 GGGCCCATTTGATGTGTTTTAGT 59.739 43.478 19.95 0.00 0.00 2.24
834 850 5.653769 CGAAATCATATAGGGCCCATTTGAT 59.346 40.000 27.56 24.20 0.00 2.57
864 881 4.706962 CCTTTCTAGTGCTAGGCCATTTTT 59.293 41.667 5.01 0.00 34.06 1.94
1335 1389 2.895242 AGCAAAATTCAGCTCCCTCT 57.105 45.000 0.00 0.00 36.00 3.69
1389 1590 8.632679 TCAACATATGCCATCCTTAATTCTTTC 58.367 33.333 1.58 0.00 0.00 2.62
1428 1629 5.004345 GTCACAATTGGTTCAAAGTTCAACG 59.996 40.000 10.83 0.00 0.00 4.10
1635 1867 2.677875 GCTGGGCCTGTTCCCTTG 60.678 66.667 12.33 0.00 46.67 3.61
1918 2162 3.470709 CAGGTTCCCTATGCATACAGTG 58.529 50.000 1.16 0.00 29.64 3.66
1919 2163 2.439507 CCAGGTTCCCTATGCATACAGT 59.560 50.000 1.16 0.00 29.64 3.55
1920 2164 2.811873 GCCAGGTTCCCTATGCATACAG 60.812 54.545 1.16 0.00 32.84 2.74
1922 2166 1.142870 TGCCAGGTTCCCTATGCATAC 59.857 52.381 1.16 0.00 36.23 2.39
1923 2167 1.142870 GTGCCAGGTTCCCTATGCATA 59.857 52.381 6.20 6.20 40.78 3.14
1924 2168 0.106519 GTGCCAGGTTCCCTATGCAT 60.107 55.000 3.79 3.79 40.78 3.96
2023 2270 3.926616 ACTTAATTCAGGAGTCACACGG 58.073 45.455 0.00 0.00 0.00 4.94
2094 2341 8.763601 AGATTAACAGCTTAGACAAGAACCTAT 58.236 33.333 0.00 0.00 33.20 2.57
2140 2392 5.972107 AAGTGCAGACTGAAGCAAATAAT 57.028 34.783 6.65 0.00 43.20 1.28
2179 2435 0.248012 TTGCTTGGCAATGCAGGATG 59.752 50.000 18.79 0.00 43.99 3.51
2226 2482 4.519730 AGGTAGACAACACTACTGACACTC 59.480 45.833 0.00 0.00 41.45 3.51
2244 2500 8.041323 ACAAAACATACCATAGACAAGAGGTAG 58.959 37.037 0.00 0.00 39.74 3.18
2331 2591 5.850557 TGCAATCCTTTCAAAAGAGTCAA 57.149 34.783 4.06 0.00 38.28 3.18
2455 2715 3.119531 CGATAAAAGACCATGCTGCCAAA 60.120 43.478 0.00 0.00 0.00 3.28
2467 2727 9.490663 CCTATTGTTTTGTGATCGATAAAAGAC 57.509 33.333 0.00 0.00 0.00 3.01
2473 2733 8.554835 TTCAACCTATTGTTTTGTGATCGATA 57.445 30.769 0.00 0.00 37.11 2.92
2474 2734 7.390440 TCTTCAACCTATTGTTTTGTGATCGAT 59.610 33.333 0.00 0.00 37.11 3.59
2477 2737 8.099364 TCTCTTCAACCTATTGTTTTGTGATC 57.901 34.615 0.00 0.00 37.11 2.92
2575 2835 0.955428 TTCAAGGTGCATCCGACAGC 60.955 55.000 0.00 0.00 41.99 4.40
2605 2865 1.377536 GACGGAGGAAGTAGCGTAGT 58.622 55.000 0.00 0.00 0.00 2.73
2610 2870 1.318158 TTCCGGACGGAGGAAGTAGC 61.318 60.000 13.64 0.00 46.06 3.58
2611 2871 2.877975 TTCCGGACGGAGGAAGTAG 58.122 57.895 13.64 0.00 46.06 2.57
2616 2876 1.479323 CAACTAATTCCGGACGGAGGA 59.521 52.381 13.64 0.22 46.06 3.71
2617 2877 1.479323 TCAACTAATTCCGGACGGAGG 59.521 52.381 13.64 8.21 46.06 4.30
2618 2878 2.537401 GTCAACTAATTCCGGACGGAG 58.463 52.381 13.64 3.57 46.06 4.63
2619 2879 1.135315 CGTCAACTAATTCCGGACGGA 60.135 52.381 1.83 9.76 45.36 4.69
2620 2880 1.274596 CGTCAACTAATTCCGGACGG 58.725 55.000 1.83 3.96 45.36 4.79
2622 2882 1.925185 GAGCGTCAACTAATTCCGGAC 59.075 52.381 1.83 0.00 0.00 4.79
2623 2883 1.546923 TGAGCGTCAACTAATTCCGGA 59.453 47.619 0.00 0.00 0.00 5.14
2624 2884 2.004583 TGAGCGTCAACTAATTCCGG 57.995 50.000 0.00 0.00 0.00 5.14
2625 2885 3.720920 CGTTTGAGCGTCAACTAATTCCG 60.721 47.826 0.76 0.00 35.89 4.30
2626 2886 3.424433 CCGTTTGAGCGTCAACTAATTCC 60.424 47.826 0.76 0.00 35.89 3.01
2627 2887 3.430895 TCCGTTTGAGCGTCAACTAATTC 59.569 43.478 0.76 0.00 35.89 2.17
2628 2888 3.395639 TCCGTTTGAGCGTCAACTAATT 58.604 40.909 0.76 0.00 35.89 1.40
2629 2889 3.034721 TCCGTTTGAGCGTCAACTAAT 57.965 42.857 0.76 0.00 35.89 1.73
2630 2890 2.512485 TCCGTTTGAGCGTCAACTAA 57.488 45.000 0.76 0.00 35.89 2.24
2631 2891 2.288579 ACATCCGTTTGAGCGTCAACTA 60.289 45.455 0.76 0.00 35.89 2.24
2632 2892 1.148310 CATCCGTTTGAGCGTCAACT 58.852 50.000 0.76 0.00 35.89 3.16
2633 2893 0.865769 ACATCCGTTTGAGCGTCAAC 59.134 50.000 0.76 0.00 35.89 3.18
2634 2894 2.442212 TACATCCGTTTGAGCGTCAA 57.558 45.000 0.00 0.00 34.03 3.18
2635 2895 2.165641 AGATACATCCGTTTGAGCGTCA 59.834 45.455 0.00 0.00 0.00 4.35
2636 2896 2.810650 AGATACATCCGTTTGAGCGTC 58.189 47.619 0.00 0.00 0.00 5.19
2637 2897 2.961526 AGATACATCCGTTTGAGCGT 57.038 45.000 0.00 0.00 0.00 5.07
2638 2898 3.975670 GTCTAGATACATCCGTTTGAGCG 59.024 47.826 0.00 0.00 0.00 5.03
2639 2899 4.933330 TGTCTAGATACATCCGTTTGAGC 58.067 43.478 0.00 0.00 0.00 4.26
2640 2900 7.309177 CCTATGTCTAGATACATCCGTTTGAG 58.691 42.308 0.00 0.00 40.52 3.02
2641 2901 6.208797 CCCTATGTCTAGATACATCCGTTTGA 59.791 42.308 0.00 0.00 40.52 2.69
2642 2902 6.208797 TCCCTATGTCTAGATACATCCGTTTG 59.791 42.308 0.00 0.00 40.52 2.93
2643 2903 6.312529 TCCCTATGTCTAGATACATCCGTTT 58.687 40.000 0.00 0.00 40.52 3.60
2644 2904 5.888901 TCCCTATGTCTAGATACATCCGTT 58.111 41.667 0.00 0.00 40.52 4.44
2645 2905 5.014333 ACTCCCTATGTCTAGATACATCCGT 59.986 44.000 0.00 0.00 40.52 4.69
2646 2906 5.502079 ACTCCCTATGTCTAGATACATCCG 58.498 45.833 0.00 0.00 40.52 4.18
2647 2907 7.403671 TGTACTCCCTATGTCTAGATACATCC 58.596 42.308 0.00 0.00 40.52 3.51
2648 2908 9.469097 AATGTACTCCCTATGTCTAGATACATC 57.531 37.037 9.24 0.00 40.52 3.06
2649 2909 9.830186 AAATGTACTCCCTATGTCTAGATACAT 57.170 33.333 0.00 0.00 42.62 2.29
2650 2910 9.656323 AAAATGTACTCCCTATGTCTAGATACA 57.344 33.333 0.00 0.00 0.00 2.29
2654 2914 9.710818 AGTTAAAATGTACTCCCTATGTCTAGA 57.289 33.333 0.00 0.00 0.00 2.43
2655 2915 9.968870 GAGTTAAAATGTACTCCCTATGTCTAG 57.031 37.037 0.00 0.00 35.78 2.43
2656 2916 8.627403 CGAGTTAAAATGTACTCCCTATGTCTA 58.373 37.037 0.00 0.00 37.98 2.59
2657 2917 7.123847 ACGAGTTAAAATGTACTCCCTATGTCT 59.876 37.037 0.00 0.00 37.98 3.41
2658 2918 7.222224 CACGAGTTAAAATGTACTCCCTATGTC 59.778 40.741 0.00 0.00 37.98 3.06
2659 2919 7.039882 CACGAGTTAAAATGTACTCCCTATGT 58.960 38.462 0.00 0.00 37.98 2.29
2660 2920 7.039882 ACACGAGTTAAAATGTACTCCCTATG 58.960 38.462 0.00 0.00 37.98 2.23
2661 2921 7.179076 ACACGAGTTAAAATGTACTCCCTAT 57.821 36.000 0.00 0.00 37.98 2.57
2662 2922 6.594788 ACACGAGTTAAAATGTACTCCCTA 57.405 37.500 0.00 0.00 37.98 3.53
2663 2923 5.479124 ACACGAGTTAAAATGTACTCCCT 57.521 39.130 0.00 0.00 37.98 4.20
2664 2924 6.393171 ACTACACGAGTTAAAATGTACTCCC 58.607 40.000 0.00 0.00 37.98 4.30
2706 2966 9.995003 AGCTCAAATTTATTGACATGGTTTTAA 57.005 25.926 0.00 0.00 0.00 1.52
2707 2967 9.995003 AAGCTCAAATTTATTGACATGGTTTTA 57.005 25.926 0.00 0.00 0.00 1.52
2708 2968 8.776470 CAAGCTCAAATTTATTGACATGGTTTT 58.224 29.630 0.00 0.00 0.00 2.43
2709 2969 7.933033 ACAAGCTCAAATTTATTGACATGGTTT 59.067 29.630 0.00 0.00 0.00 3.27
2710 2970 7.444299 ACAAGCTCAAATTTATTGACATGGTT 58.556 30.769 0.00 0.00 0.00 3.67
2711 2971 6.996509 ACAAGCTCAAATTTATTGACATGGT 58.003 32.000 0.00 0.00 0.00 3.55
2712 2972 7.894376 AACAAGCTCAAATTTATTGACATGG 57.106 32.000 0.00 0.00 0.00 3.66
2715 2975 8.538856 CGAAAAACAAGCTCAAATTTATTGACA 58.461 29.630 10.03 0.00 0.00 3.58
2716 2976 7.527183 GCGAAAAACAAGCTCAAATTTATTGAC 59.473 33.333 10.03 0.00 0.00 3.18
2717 2977 7.563270 GCGAAAAACAAGCTCAAATTTATTGA 58.437 30.769 10.03 0.00 0.00 2.57
2718 2978 6.512647 CGCGAAAAACAAGCTCAAATTTATTG 59.487 34.615 0.00 0.00 0.00 1.90
2719 2979 6.200097 ACGCGAAAAACAAGCTCAAATTTATT 59.800 30.769 15.93 0.00 0.00 1.40
2720 2980 5.689961 ACGCGAAAAACAAGCTCAAATTTAT 59.310 32.000 15.93 0.00 0.00 1.40
2721 2981 5.038033 ACGCGAAAAACAAGCTCAAATTTA 58.962 33.333 15.93 0.00 0.00 1.40
2722 2982 3.862845 ACGCGAAAAACAAGCTCAAATTT 59.137 34.783 15.93 0.00 0.00 1.82
2723 2983 3.443976 ACGCGAAAAACAAGCTCAAATT 58.556 36.364 15.93 0.00 0.00 1.82
2724 2984 3.078594 ACGCGAAAAACAAGCTCAAAT 57.921 38.095 15.93 0.00 0.00 2.32
2725 2985 2.553079 ACGCGAAAAACAAGCTCAAA 57.447 40.000 15.93 0.00 0.00 2.69
2726 2986 2.181205 CAACGCGAAAAACAAGCTCAA 58.819 42.857 15.93 0.00 0.00 3.02
2727 2987 1.821336 CAACGCGAAAAACAAGCTCA 58.179 45.000 15.93 0.00 0.00 4.26
2728 2988 0.498511 GCAACGCGAAAAACAAGCTC 59.501 50.000 15.93 0.00 0.00 4.09
2729 2989 0.179150 TGCAACGCGAAAAACAAGCT 60.179 45.000 15.93 0.00 0.00 3.74
2730 2990 0.044246 GTGCAACGCGAAAAACAAGC 60.044 50.000 15.93 5.02 0.00 4.01


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

AutoCloner maintained by Alex Coulton.