Multiple sequence alignment - TraesCS5A01G263000

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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 TraesCS5A01G263000 chr5A 100.000 2759 0 0 1 2759 476064939 476062181 0.000000e+00 5096.0
1 TraesCS5A01G263000 chr5A 90.026 1534 131 17 416 1945 651581933 651580418 0.000000e+00 1965.0
2 TraesCS5A01G263000 chr5A 88.889 630 46 17 1954 2571 669591787 669592404 0.000000e+00 754.0
3 TraesCS5A01G263000 chr5A 92.124 419 33 0 1 419 697888503 697888921 2.370000e-165 592.0
4 TraesCS5A01G263000 chr4A 96.907 1552 22 6 416 1942 491457302 491455752 0.000000e+00 2577.0
5 TraesCS5A01G263000 chr4A 98.568 419 6 0 1 419 491457819 491457401 0.000000e+00 741.0
6 TraesCS5A01G263000 chr5D 96.999 1533 32 5 416 1945 354744929 354743408 0.000000e+00 2564.0
7 TraesCS5A01G263000 chr5D 97.139 1398 36 3 416 1811 547845426 547846821 0.000000e+00 2357.0
8 TraesCS5A01G263000 chr5D 98.341 422 7 0 1 422 354745446 354745025 0.000000e+00 741.0
9 TraesCS5A01G263000 chr5D 98.329 419 7 0 1 419 547844909 547845327 0.000000e+00 736.0
10 TraesCS5A01G263000 chr5D 90.909 418 38 0 1 418 292728065 292727648 1.860000e-156 562.0
11 TraesCS5A01G263000 chr7D 96.991 1529 35 6 416 1940 449769733 449768212 0.000000e+00 2558.0
12 TraesCS5A01G263000 chr7D 98.341 422 7 0 1 422 449770250 449769829 0.000000e+00 741.0
13 TraesCS5A01G263000 chr7D 88.525 61 4 3 1884 1942 623706596 623706655 1.370000e-08 71.3
14 TraesCS5A01G263000 chr7D 85.714 63 9 0 1884 1946 18709330 18709392 1.770000e-07 67.6
15 TraesCS5A01G263000 chr2A 97.459 1417 36 0 416 1832 23467443 23468859 0.000000e+00 2418.0
16 TraesCS5A01G263000 chr2A 97.842 417 9 0 3 419 23466928 23467344 0.000000e+00 721.0
17 TraesCS5A01G263000 chr2A 97.340 188 5 0 2572 2759 717741523 717741710 1.230000e-83 320.0
18 TraesCS5A01G263000 chr1B 94.907 1551 54 6 416 1942 497827377 497828926 0.000000e+00 2403.0
19 TraesCS5A01G263000 chr1B 97.613 419 9 1 1 419 497826861 497827278 0.000000e+00 717.0
20 TraesCS5A01G263000 chr1B 90.215 419 41 0 1 419 494555912 494555494 5.190000e-152 547.0
21 TraesCS5A01G263000 chr1B 89.976 419 42 0 1 419 414555831 414556249 2.420000e-150 542.0
22 TraesCS5A01G263000 chr6B 90.253 1539 132 17 416 1945 132658881 132657352 0.000000e+00 1995.0
23 TraesCS5A01G263000 chr4B 89.785 1537 138 18 416 1942 502275976 502277503 0.000000e+00 1951.0
24 TraesCS5A01G263000 chr4B 89.206 630 44 16 1954 2571 481850274 481850891 0.000000e+00 765.0
25 TraesCS5A01G263000 chr4B 89.223 631 42 17 1954 2571 481864360 481864977 0.000000e+00 765.0
26 TraesCS5A01G263000 chr4B 88.730 630 47 17 1954 2571 175556013 175556630 0.000000e+00 749.0
27 TraesCS5A01G263000 chr4B 90.692 419 39 0 1 419 502275459 502275877 2.400000e-155 558.0
28 TraesCS5A01G263000 chr4B 82.857 420 68 4 2 419 101882969 101883386 9.330000e-100 374.0
29 TraesCS5A01G263000 chr2D 89.446 1535 154 3 416 1942 573649304 573650838 0.000000e+00 1930.0
30 TraesCS5A01G263000 chr2D 83.698 503 45 19 2087 2571 575960320 575959837 9.070000e-120 440.0
31 TraesCS5A01G263000 chr4D 89.313 1544 147 13 416 1945 398866732 398868271 0.000000e+00 1921.0
32 TraesCS5A01G263000 chr1A 95.652 644 16 5 1944 2577 97862972 97863613 0.000000e+00 1024.0
33 TraesCS5A01G263000 chr1A 88.730 630 47 17 1954 2571 74101038 74101655 0.000000e+00 749.0
34 TraesCS5A01G263000 chr1A 97.861 187 4 0 2573 2759 534114115 534114301 9.530000e-85 324.0
35 TraesCS5A01G263000 chr1A 97.326 187 5 0 2573 2759 109896923 109896737 4.430000e-83 318.0
36 TraesCS5A01G263000 chr1A 97.326 187 5 0 2573 2759 132345513 132345699 4.430000e-83 318.0
37 TraesCS5A01G263000 chr1A 97.326 187 5 0 2573 2759 132352296 132352482 4.430000e-83 318.0
38 TraesCS5A01G263000 chr1A 97.326 187 5 0 2573 2759 287151440 287151626 4.430000e-83 318.0
39 TraesCS5A01G263000 chrUn 89.206 630 44 16 1954 2571 340056482 340055865 0.000000e+00 765.0
40 TraesCS5A01G263000 chrUn 97.326 187 5 0 2573 2759 267820596 267820410 4.430000e-83 318.0
41 TraesCS5A01G263000 chr7B 88.730 630 47 17 1954 2571 517844903 517844286 0.000000e+00 749.0
42 TraesCS5A01G263000 chr7B 87.420 628 58 17 1954 2571 20561978 20562594 0.000000e+00 702.0
43 TraesCS5A01G263000 chr1D 98.341 422 7 0 1 422 417748315 417747894 0.000000e+00 741.0
44 TraesCS5A01G263000 chr3D 97.867 422 9 0 1 422 14357581 14357160 0.000000e+00 730.0
45 TraesCS5A01G263000 chr3D 91.408 419 36 0 1 419 55372699 55373117 2.380000e-160 575.0
46 TraesCS5A01G263000 chr2B 97.867 422 9 0 1 422 232836961 232836540 0.000000e+00 730.0
47 TraesCS5A01G263000 chr3B 95.498 422 19 0 1 422 485536736 485536315 0.000000e+00 675.0
48 TraesCS5A01G263000 chr5B 90.931 419 38 0 1 419 607481538 607481956 5.160000e-157 564.0
49 TraesCS5A01G263000 chr6A 97.326 187 5 0 2573 2759 342718620 342718434 4.430000e-83 318.0
50 TraesCS5A01G263000 chr6A 94.554 202 10 1 2559 2759 540094330 540094531 7.420000e-81 311.0
51 TraesCS5A01G263000 chr6A 94.215 121 7 0 299 419 610215096 610215216 4.690000e-43 185.0
52 TraesCS5A01G263000 chr6D 79.714 419 83 2 2 419 245241491 245241074 4.470000e-78 302.0


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 TraesCS5A01G263000 chr5A 476062181 476064939 2758 True 5096.0 5096 100.0000 1 2759 1 chr5A.!!$R1 2758
1 TraesCS5A01G263000 chr5A 651580418 651581933 1515 True 1965.0 1965 90.0260 416 1945 1 chr5A.!!$R2 1529
2 TraesCS5A01G263000 chr5A 669591787 669592404 617 False 754.0 754 88.8890 1954 2571 1 chr5A.!!$F1 617
3 TraesCS5A01G263000 chr4A 491455752 491457819 2067 True 1659.0 2577 97.7375 1 1942 2 chr4A.!!$R1 1941
4 TraesCS5A01G263000 chr5D 354743408 354745446 2038 True 1652.5 2564 97.6700 1 1945 2 chr5D.!!$R2 1944
5 TraesCS5A01G263000 chr5D 547844909 547846821 1912 False 1546.5 2357 97.7340 1 1811 2 chr5D.!!$F1 1810
6 TraesCS5A01G263000 chr7D 449768212 449770250 2038 True 1649.5 2558 97.6660 1 1940 2 chr7D.!!$R1 1939
7 TraesCS5A01G263000 chr2A 23466928 23468859 1931 False 1569.5 2418 97.6505 3 1832 2 chr2A.!!$F2 1829
8 TraesCS5A01G263000 chr1B 497826861 497828926 2065 False 1560.0 2403 96.2600 1 1942 2 chr1B.!!$F2 1941
9 TraesCS5A01G263000 chr6B 132657352 132658881 1529 True 1995.0 1995 90.2530 416 1945 1 chr6B.!!$R1 1529
10 TraesCS5A01G263000 chr4B 502275459 502277503 2044 False 1254.5 1951 90.2385 1 1942 2 chr4B.!!$F5 1941
11 TraesCS5A01G263000 chr4B 481850274 481850891 617 False 765.0 765 89.2060 1954 2571 1 chr4B.!!$F3 617
12 TraesCS5A01G263000 chr4B 481864360 481864977 617 False 765.0 765 89.2230 1954 2571 1 chr4B.!!$F4 617
13 TraesCS5A01G263000 chr4B 175556013 175556630 617 False 749.0 749 88.7300 1954 2571 1 chr4B.!!$F2 617
14 TraesCS5A01G263000 chr2D 573649304 573650838 1534 False 1930.0 1930 89.4460 416 1942 1 chr2D.!!$F1 1526
15 TraesCS5A01G263000 chr4D 398866732 398868271 1539 False 1921.0 1921 89.3130 416 1945 1 chr4D.!!$F1 1529
16 TraesCS5A01G263000 chr1A 97862972 97863613 641 False 1024.0 1024 95.6520 1944 2577 1 chr1A.!!$F2 633
17 TraesCS5A01G263000 chr1A 74101038 74101655 617 False 749.0 749 88.7300 1954 2571 1 chr1A.!!$F1 617
18 TraesCS5A01G263000 chrUn 340055865 340056482 617 True 765.0 765 89.2060 1954 2571 1 chrUn.!!$R2 617
19 TraesCS5A01G263000 chr7B 517844286 517844903 617 True 749.0 749 88.7300 1954 2571 1 chr7B.!!$R1 617
20 TraesCS5A01G263000 chr7B 20561978 20562594 616 False 702.0 702 87.4200 1954 2571 1 chr7B.!!$F1 617

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
790 900 2.003301 GCTGGGAGAGTCGAATCAAAC 58.997 52.381 16.1 5.97 0.0 2.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2717 2921 2.017782 CGAGCTAGTCAAGTAGAGGCA 58.982 52.381 0.0 0.0 0.0 4.75 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
343 344 5.994250 AGTTGATATCTCTTTTGGCTGCTA 58.006 37.500 3.98 0.00 0.00 3.49
394 395 7.913789 TGTTAAAGAGGCCAAGTATTTCTCTA 58.086 34.615 5.01 0.00 34.15 2.43
790 900 2.003301 GCTGGGAGAGTCGAATCAAAC 58.997 52.381 16.10 5.97 0.00 2.93
815 925 8.879759 ACGTGTTACAACAATAAGATATCAAGG 58.120 33.333 5.32 0.00 41.21 3.61
1268 1382 1.813513 ATGGCGGTCACTTCTTTGAG 58.186 50.000 0.00 0.00 0.00 3.02
1678 1794 4.276642 TGGTTTGGCTACATTATGCATCA 58.723 39.130 0.19 0.00 0.00 3.07
1751 1867 5.674525 TGCATCGAGGAATGTTAGAAGAAT 58.325 37.500 0.00 0.00 0.00 2.40
1942 2130 2.925162 GAAATCTCAGGACCGGCCCG 62.925 65.000 0.00 0.00 37.37 6.13
2035 2224 9.726438 AAAACATAGTCTGACTTTTGCTAGTAT 57.274 29.630 16.53 0.00 0.00 2.12
2172 2363 9.211485 GTAAAAACTTACAGTAGATGCCAGTAA 57.789 33.333 0.00 0.00 0.00 2.24
2263 2456 9.599866 TCATCTTATCAAAATGACAAGACGTAT 57.400 29.630 3.41 0.00 41.99 3.06
2515 2718 5.104817 CCCATCCAAAAACATAGGCTCAATT 60.105 40.000 0.00 0.00 0.00 2.32
2524 2728 4.950050 ACATAGGCTCAATTCCTTAGACG 58.050 43.478 0.00 0.00 35.21 4.18
2587 2791 9.836864 AAATCTAAAAATGAAGGAAATATGCCC 57.163 29.630 0.00 0.00 0.00 5.36
2588 2792 8.788238 ATCTAAAAATGAAGGAAATATGCCCT 57.212 30.769 0.00 0.00 0.00 5.19
2589 2793 9.881773 ATCTAAAAATGAAGGAAATATGCCCTA 57.118 29.630 0.00 0.00 31.36 3.53
2590 2794 9.354673 TCTAAAAATGAAGGAAATATGCCCTAG 57.645 33.333 0.00 0.00 31.36 3.02
2591 2795 9.354673 CTAAAAATGAAGGAAATATGCCCTAGA 57.645 33.333 0.00 0.00 31.36 2.43
2592 2796 8.608185 AAAAATGAAGGAAATATGCCCTAGAA 57.392 30.769 0.00 0.00 31.36 2.10
2593 2797 7.830099 AAATGAAGGAAATATGCCCTAGAAG 57.170 36.000 0.00 0.00 31.36 2.85
2594 2798 4.718961 TGAAGGAAATATGCCCTAGAAGC 58.281 43.478 0.00 0.00 31.36 3.86
2595 2799 4.165950 TGAAGGAAATATGCCCTAGAAGCA 59.834 41.667 9.47 9.47 45.94 3.91
2596 2800 4.796110 AGGAAATATGCCCTAGAAGCAA 57.204 40.909 10.87 2.88 44.83 3.91
2597 2801 5.330648 AGGAAATATGCCCTAGAAGCAAT 57.669 39.130 10.87 4.71 44.83 3.56
2598 2802 6.454223 AGGAAATATGCCCTAGAAGCAATA 57.546 37.500 10.87 5.75 44.83 1.90
2599 2803 6.852404 AGGAAATATGCCCTAGAAGCAATAA 58.148 36.000 10.87 2.07 44.83 1.40
2600 2804 7.473593 AGGAAATATGCCCTAGAAGCAATAAT 58.526 34.615 10.87 3.97 44.83 1.28
2601 2805 8.614814 AGGAAATATGCCCTAGAAGCAATAATA 58.385 33.333 10.87 1.10 44.83 0.98
2602 2806 9.243105 GGAAATATGCCCTAGAAGCAATAATAA 57.757 33.333 10.87 0.00 44.83 1.40
2605 2809 9.813826 AATATGCCCTAGAAGCAATAATAAAGT 57.186 29.630 10.87 0.00 44.83 2.66
2606 2810 9.813826 ATATGCCCTAGAAGCAATAATAAAGTT 57.186 29.630 10.87 0.00 44.83 2.66
2608 2812 9.813826 ATGCCCTAGAAGCAATAATAAAGTTAT 57.186 29.630 10.87 0.00 44.83 1.89
2609 2813 9.640952 TGCCCTAGAAGCAATAATAAAGTTATT 57.359 29.630 5.08 2.11 37.28 1.40
2668 2872 6.757897 TCAAGCTGGAATTGTATTAACTGG 57.242 37.500 0.00 0.00 0.00 4.00
2669 2873 6.480763 TCAAGCTGGAATTGTATTAACTGGA 58.519 36.000 0.00 0.00 0.00 3.86
2670 2874 6.945435 TCAAGCTGGAATTGTATTAACTGGAA 59.055 34.615 0.00 0.00 0.00 3.53
2671 2875 7.450014 TCAAGCTGGAATTGTATTAACTGGAAA 59.550 33.333 0.00 0.00 0.00 3.13
2672 2876 7.158099 AGCTGGAATTGTATTAACTGGAAAC 57.842 36.000 0.00 0.00 0.00 2.78
2673 2877 6.719370 AGCTGGAATTGTATTAACTGGAAACA 59.281 34.615 0.00 0.00 39.59 2.83
2674 2878 7.397192 AGCTGGAATTGTATTAACTGGAAACAT 59.603 33.333 0.00 0.00 41.51 2.71
2675 2879 8.682710 GCTGGAATTGTATTAACTGGAAACATA 58.317 33.333 0.00 0.00 41.51 2.29
2707 2911 8.705134 TGTGTGAATACATAGACAAACTAAACG 58.295 33.333 0.00 0.00 39.39 3.60
2708 2912 8.706035 GTGTGAATACATAGACAAACTAAACGT 58.294 33.333 0.00 0.00 39.39 3.99
2709 2913 8.918658 TGTGAATACATAGACAAACTAAACGTC 58.081 33.333 0.00 0.00 34.56 4.34
2710 2914 8.918658 GTGAATACATAGACAAACTAAACGTCA 58.081 33.333 0.00 0.00 34.56 4.35
2711 2915 8.918658 TGAATACATAGACAAACTAAACGTCAC 58.081 33.333 0.00 0.00 34.56 3.67
2712 2916 9.136952 GAATACATAGACAAACTAAACGTCACT 57.863 33.333 0.00 0.00 34.56 3.41
2714 2918 9.784680 ATACATAGACAAACTAAACGTCACTAG 57.215 33.333 0.00 0.00 34.56 2.57
2715 2919 7.655490 ACATAGACAAACTAAACGTCACTAGT 58.345 34.615 0.00 0.00 34.56 2.57
2716 2920 8.786898 ACATAGACAAACTAAACGTCACTAGTA 58.213 33.333 0.00 0.00 34.56 1.82
2717 2921 9.784680 CATAGACAAACTAAACGTCACTAGTAT 57.215 33.333 0.00 0.00 34.56 2.12
2718 2922 9.784680 ATAGACAAACTAAACGTCACTAGTATG 57.215 33.333 0.00 0.00 34.56 2.39
2719 2923 6.585322 AGACAAACTAAACGTCACTAGTATGC 59.415 38.462 0.00 0.00 31.92 3.14
2720 2924 5.636543 ACAAACTAAACGTCACTAGTATGCC 59.363 40.000 0.00 0.00 0.00 4.40
2721 2925 5.656213 AACTAAACGTCACTAGTATGCCT 57.344 39.130 0.00 0.00 0.00 4.75
2722 2926 5.246145 ACTAAACGTCACTAGTATGCCTC 57.754 43.478 0.00 0.00 0.00 4.70
2723 2927 4.948621 ACTAAACGTCACTAGTATGCCTCT 59.051 41.667 0.00 0.00 0.00 3.69
2724 2928 6.118170 ACTAAACGTCACTAGTATGCCTCTA 58.882 40.000 0.00 0.00 0.00 2.43
2725 2929 4.897025 AACGTCACTAGTATGCCTCTAC 57.103 45.455 0.00 0.00 0.00 2.59
2726 2930 4.153673 ACGTCACTAGTATGCCTCTACT 57.846 45.455 0.00 0.00 36.04 2.57
2727 2931 4.525024 ACGTCACTAGTATGCCTCTACTT 58.475 43.478 0.00 0.00 33.96 2.24
2728 2932 4.335874 ACGTCACTAGTATGCCTCTACTTG 59.664 45.833 0.00 0.00 33.96 3.16
2729 2933 4.575236 CGTCACTAGTATGCCTCTACTTGA 59.425 45.833 0.00 0.18 33.96 3.02
2730 2934 5.504337 CGTCACTAGTATGCCTCTACTTGAC 60.504 48.000 0.00 10.24 36.75 3.18
2731 2935 5.591067 GTCACTAGTATGCCTCTACTTGACT 59.409 44.000 0.00 0.00 36.95 3.41
2732 2936 6.766944 GTCACTAGTATGCCTCTACTTGACTA 59.233 42.308 0.00 0.00 36.95 2.59
2733 2937 6.993308 TCACTAGTATGCCTCTACTTGACTAG 59.007 42.308 0.00 0.00 40.35 2.57
2734 2938 5.766174 ACTAGTATGCCTCTACTTGACTAGC 59.234 44.000 0.00 0.00 38.86 3.42
2735 2939 4.798882 AGTATGCCTCTACTTGACTAGCT 58.201 43.478 0.00 0.00 0.00 3.32
2736 2940 4.825085 AGTATGCCTCTACTTGACTAGCTC 59.175 45.833 0.00 0.00 0.00 4.09
2737 2941 2.017782 TGCCTCTACTTGACTAGCTCG 58.982 52.381 0.00 0.00 0.00 5.03
2738 2942 2.018515 GCCTCTACTTGACTAGCTCGT 58.981 52.381 0.00 0.00 0.00 4.18
2739 2943 2.424246 GCCTCTACTTGACTAGCTCGTT 59.576 50.000 0.00 0.00 0.00 3.85
2740 2944 3.732471 GCCTCTACTTGACTAGCTCGTTG 60.732 52.174 0.00 0.00 0.00 4.10
2741 2945 3.690139 CCTCTACTTGACTAGCTCGTTGA 59.310 47.826 0.00 0.00 0.00 3.18
2742 2946 4.336993 CCTCTACTTGACTAGCTCGTTGAT 59.663 45.833 0.00 0.00 0.00 2.57
2743 2947 5.487153 TCTACTTGACTAGCTCGTTGATC 57.513 43.478 0.00 0.00 0.00 2.92
2744 2948 3.138205 ACTTGACTAGCTCGTTGATCG 57.862 47.619 0.00 0.00 41.41 3.69
2745 2949 2.747989 ACTTGACTAGCTCGTTGATCGA 59.252 45.455 0.00 0.00 46.83 3.59
2757 2961 5.006153 TCGTTGATCGAAGATGGTTATGT 57.994 39.130 0.00 0.00 45.98 2.29
2758 2962 5.416083 TCGTTGATCGAAGATGGTTATGTT 58.584 37.500 0.00 0.00 45.98 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
300 301 9.653287 ATCAACTCGTTCTGAATTTTATGACTA 57.347 29.630 0.00 0.00 0.00 2.59
394 395 7.181125 GTCATCAGGGGTACAATCTAGGATAAT 59.819 40.741 0.00 0.00 0.00 1.28
547 650 8.988060 TGGATTCACATCAAGTAACCTAGATTA 58.012 33.333 0.00 0.00 0.00 1.75
790 900 7.850982 GCCTTGATATCTTATTGTTGTAACACG 59.149 37.037 3.98 0.00 38.92 4.49
815 925 4.022849 ACAAAGCTGACCTTAACTCAATGC 60.023 41.667 0.00 0.00 32.20 3.56
1041 1153 7.993183 TCATCTCTGTACTTCCCAAAATATTCC 59.007 37.037 0.00 0.00 0.00 3.01
1268 1382 9.628500 ACACCATTAGTTCTTTAAATCTATCCC 57.372 33.333 0.00 0.00 0.00 3.85
1650 1765 7.790027 TGCATAATGTAGCCAAACCATTTAAT 58.210 30.769 0.00 0.00 31.63 1.40
1942 2130 6.308566 AGTGTTATCCTATAGACTGAGGTCC 58.691 44.000 0.00 0.00 43.05 4.46
2515 2718 4.746535 TCATATTGGTTGCGTCTAAGGA 57.253 40.909 0.00 0.00 0.00 3.36
2572 2776 4.165950 TGCTTCTAGGGCATATTTCCTTCA 59.834 41.667 7.11 0.00 34.56 3.02
2573 2777 4.718961 TGCTTCTAGGGCATATTTCCTTC 58.281 43.478 7.11 0.00 34.56 3.46
2579 2783 9.813826 ACTTTATTATTGCTTCTAGGGCATATT 57.186 29.630 11.01 4.29 39.54 1.28
2580 2784 9.813826 AACTTTATTATTGCTTCTAGGGCATAT 57.186 29.630 11.01 9.97 39.54 1.78
2582 2786 9.813826 ATAACTTTATTATTGCTTCTAGGGCAT 57.186 29.630 11.01 5.82 39.54 4.40
2583 2787 9.640952 AATAACTTTATTATTGCTTCTAGGGCA 57.359 29.630 7.11 7.11 33.43 5.36
2642 2846 8.902806 CCAGTTAATACAATTCCAGCTTGAATA 58.097 33.333 13.04 0.00 33.91 1.75
2643 2847 7.615365 TCCAGTTAATACAATTCCAGCTTGAAT 59.385 33.333 7.20 7.20 36.53 2.57
2644 2848 6.945435 TCCAGTTAATACAATTCCAGCTTGAA 59.055 34.615 2.25 2.25 0.00 2.69
2645 2849 6.480763 TCCAGTTAATACAATTCCAGCTTGA 58.519 36.000 0.00 0.00 0.00 3.02
2646 2850 6.757897 TCCAGTTAATACAATTCCAGCTTG 57.242 37.500 0.00 0.00 0.00 4.01
2647 2851 7.232534 TGTTTCCAGTTAATACAATTCCAGCTT 59.767 33.333 0.00 0.00 0.00 3.74
2648 2852 6.719370 TGTTTCCAGTTAATACAATTCCAGCT 59.281 34.615 0.00 0.00 0.00 4.24
2649 2853 6.919721 TGTTTCCAGTTAATACAATTCCAGC 58.080 36.000 0.00 0.00 0.00 4.85
2681 2885 8.705134 CGTTTAGTTTGTCTATGTATTCACACA 58.295 33.333 0.00 0.00 37.54 3.72
2682 2886 8.706035 ACGTTTAGTTTGTCTATGTATTCACAC 58.294 33.333 0.00 0.00 37.54 3.82
2683 2887 8.821147 ACGTTTAGTTTGTCTATGTATTCACA 57.179 30.769 0.00 0.00 39.52 3.58
2684 2888 8.918658 TGACGTTTAGTTTGTCTATGTATTCAC 58.081 33.333 0.00 0.00 33.81 3.18
2685 2889 8.918658 GTGACGTTTAGTTTGTCTATGTATTCA 58.081 33.333 0.00 0.00 33.81 2.57
2686 2890 9.136952 AGTGACGTTTAGTTTGTCTATGTATTC 57.863 33.333 0.00 0.00 33.81 1.75
2688 2892 9.784680 CTAGTGACGTTTAGTTTGTCTATGTAT 57.215 33.333 0.00 0.00 33.81 2.29
2689 2893 8.786898 ACTAGTGACGTTTAGTTTGTCTATGTA 58.213 33.333 0.00 0.00 33.81 2.29
2690 2894 7.655490 ACTAGTGACGTTTAGTTTGTCTATGT 58.345 34.615 0.00 0.00 33.81 2.29
2691 2895 9.784680 ATACTAGTGACGTTTAGTTTGTCTATG 57.215 33.333 5.39 0.00 32.64 2.23
2692 2896 9.784680 CATACTAGTGACGTTTAGTTTGTCTAT 57.215 33.333 5.39 0.00 32.64 1.98
2693 2897 7.752239 GCATACTAGTGACGTTTAGTTTGTCTA 59.248 37.037 5.39 3.82 33.86 2.59
2694 2898 6.585322 GCATACTAGTGACGTTTAGTTTGTCT 59.415 38.462 5.39 0.00 33.86 3.41
2695 2899 6.183360 GGCATACTAGTGACGTTTAGTTTGTC 60.183 42.308 5.39 15.11 33.86 3.18
2696 2900 5.636543 GGCATACTAGTGACGTTTAGTTTGT 59.363 40.000 5.39 8.68 33.86 2.83
2697 2901 5.867716 AGGCATACTAGTGACGTTTAGTTTG 59.132 40.000 5.39 13.78 34.22 2.93
2698 2902 6.034161 AGGCATACTAGTGACGTTTAGTTT 57.966 37.500 5.39 4.20 32.64 2.66
2699 2903 5.418209 AGAGGCATACTAGTGACGTTTAGTT 59.582 40.000 5.39 0.00 32.64 2.24
2700 2904 4.948621 AGAGGCATACTAGTGACGTTTAGT 59.051 41.667 5.39 11.43 34.64 2.24
2701 2905 5.502153 AGAGGCATACTAGTGACGTTTAG 57.498 43.478 5.39 0.00 30.43 1.85
2702 2906 6.118170 AGTAGAGGCATACTAGTGACGTTTA 58.882 40.000 5.39 0.00 34.21 2.01
2703 2907 4.948621 AGTAGAGGCATACTAGTGACGTTT 59.051 41.667 5.39 0.00 34.21 3.60
2704 2908 4.525024 AGTAGAGGCATACTAGTGACGTT 58.475 43.478 5.39 0.00 34.21 3.99
2705 2909 4.153673 AGTAGAGGCATACTAGTGACGT 57.846 45.455 5.39 0.00 34.21 4.34
2706 2910 4.575236 TCAAGTAGAGGCATACTAGTGACG 59.425 45.833 5.39 0.00 34.90 4.35
2707 2911 5.591067 AGTCAAGTAGAGGCATACTAGTGAC 59.409 44.000 17.97 17.97 40.57 3.67
2708 2912 5.756918 AGTCAAGTAGAGGCATACTAGTGA 58.243 41.667 5.39 2.59 34.90 3.41
2709 2913 6.293735 GCTAGTCAAGTAGAGGCATACTAGTG 60.294 46.154 5.39 0.00 38.02 2.74
2710 2914 5.766174 GCTAGTCAAGTAGAGGCATACTAGT 59.234 44.000 0.00 0.00 38.02 2.57
2711 2915 6.001460 AGCTAGTCAAGTAGAGGCATACTAG 58.999 44.000 0.00 0.00 38.50 2.57
2712 2916 5.942961 AGCTAGTCAAGTAGAGGCATACTA 58.057 41.667 3.23 0.00 34.90 1.82
2713 2917 4.798882 AGCTAGTCAAGTAGAGGCATACT 58.201 43.478 0.00 0.00 37.61 2.12
2714 2918 4.319911 CGAGCTAGTCAAGTAGAGGCATAC 60.320 50.000 0.00 0.00 0.00 2.39
2715 2919 3.815962 CGAGCTAGTCAAGTAGAGGCATA 59.184 47.826 0.00 0.00 0.00 3.14
2716 2920 2.621055 CGAGCTAGTCAAGTAGAGGCAT 59.379 50.000 0.00 0.00 0.00 4.40
2717 2921 2.017782 CGAGCTAGTCAAGTAGAGGCA 58.982 52.381 0.00 0.00 0.00 4.75
2718 2922 2.018515 ACGAGCTAGTCAAGTAGAGGC 58.981 52.381 0.00 0.00 0.00 4.70
2719 2923 3.690139 TCAACGAGCTAGTCAAGTAGAGG 59.310 47.826 0.00 0.00 0.00 3.69
2720 2924 4.948608 TCAACGAGCTAGTCAAGTAGAG 57.051 45.455 0.00 0.00 0.00 2.43
2721 2925 4.034163 CGATCAACGAGCTAGTCAAGTAGA 59.966 45.833 0.00 0.00 45.77 2.59
2722 2926 4.034163 TCGATCAACGAGCTAGTCAAGTAG 59.966 45.833 0.00 0.00 46.45 2.57
2723 2927 3.937079 TCGATCAACGAGCTAGTCAAGTA 59.063 43.478 0.00 0.00 46.45 2.24
2724 2928 2.747989 TCGATCAACGAGCTAGTCAAGT 59.252 45.455 0.00 0.00 46.45 3.16
2725 2929 3.406728 TCGATCAACGAGCTAGTCAAG 57.593 47.619 0.00 0.00 46.45 3.02
2736 2940 5.718649 AACATAACCATCTTCGATCAACG 57.281 39.130 0.00 0.00 44.09 4.10


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

AutoCloner maintained by Alex Coulton.