Multiple sequence alignment - TraesCS6B01G361600

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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 TraesCS6B01G361600 chr6B 100.000 3014 0 0 1 3014 632968962 632965949 0.000000e+00 5566.0
1 TraesCS6B01G361600 chr6B 88.971 136 13 2 410 545 633527843 633527976 1.860000e-37 167.0
2 TraesCS6B01G361600 chr6A 90.225 3069 158 56 1 3014 563133791 563130810 0.000000e+00 3875.0
3 TraesCS6B01G361600 chr6D 90.031 2267 112 38 694 2904 420016250 420014042 0.000000e+00 2830.0
4 TraesCS6B01G361600 chr6D 89.552 134 13 1 410 543 420357076 420357208 5.170000e-38 169.0
5 TraesCS6B01G361600 chr6D 92.500 80 1 2 566 645 420016325 420016251 3.180000e-20 110.0
6 TraesCS6B01G361600 chr6D 87.013 77 10 0 2938 3014 391925985 391925909 1.490000e-13 87.9
7 TraesCS6B01G361600 chr5D 95.420 131 6 0 1900 2030 482311425 482311555 3.040000e-50 209.0
8 TraesCS6B01G361600 chr5D 95.312 128 6 0 1903 2030 482312039 482311912 1.420000e-48 204.0
9 TraesCS6B01G361600 chr5D 93.750 128 8 0 1903 2030 178910393 178910266 3.070000e-45 193.0
10 TraesCS6B01G361600 chr5D 93.750 128 8 0 1903 2030 307933934 307933807 3.070000e-45 193.0
11 TraesCS6B01G361600 chr2D 95.420 131 6 0 1900 2030 396726006 396726136 3.040000e-50 209.0
12 TraesCS6B01G361600 chr2D 86.667 75 9 1 2935 3008 473292309 473292235 6.930000e-12 82.4
13 TraesCS6B01G361600 chr3D 94.656 131 7 0 1900 2030 424686967 424687097 1.420000e-48 204.0
14 TraesCS6B01G361600 chr1D 93.750 128 8 0 1903 2030 52103000 52102873 3.070000e-45 193.0
15 TraesCS6B01G361600 chr1D 88.732 71 8 0 2938 3008 106839514 106839584 1.490000e-13 87.9
16 TraesCS6B01G361600 chr4B 90.909 77 7 0 2938 3014 30729179 30729255 1.480000e-18 104.0
17 TraesCS6B01G361600 chr1B 88.158 76 8 1 2938 3013 160325324 160325250 4.140000e-14 89.8
18 TraesCS6B01G361600 chr2B 86.667 75 10 0 2934 3008 169856149 169856223 1.930000e-12 84.2
19 TraesCS6B01G361600 chr7B 90.323 62 6 0 2936 2997 611723965 611724026 6.930000e-12 82.4
20 TraesCS6B01G361600 chr2A 85.714 77 11 0 2938 3014 727238772 727238696 6.930000e-12 82.4


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 TraesCS6B01G361600 chr6B 632965949 632968962 3013 True 5566 5566 100.0000 1 3014 1 chr6B.!!$R1 3013
1 TraesCS6B01G361600 chr6A 563130810 563133791 2981 True 3875 3875 90.2250 1 3014 1 chr6A.!!$R1 3013
2 TraesCS6B01G361600 chr6D 420014042 420016325 2283 True 1470 2830 91.2655 566 2904 2 chr6D.!!$R2 2338

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
862 870 1.073216 GTGTCACGACCTCTCGCATG 61.073 60.0 0.0 0.0 44.33 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2405 2446 0.110238 CACCATTGCCGTTGAACTCG 60.11 55.0 0.0 0.0 0.0 4.18 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
77 78 9.787532 ATTGAACAGACGGTGAATAATTATTTG 57.212 29.630 11.92 7.10 0.00 2.32
149 150 8.730680 ACACAAGAAAGGTATCATACAACATTC 58.269 33.333 0.00 0.00 0.00 2.67
175 176 7.480810 GCGTTTAAGAAATTCCATAGACCAAT 58.519 34.615 0.00 0.00 0.00 3.16
224 225 3.921677 TGGTTCAATTACTCTCCGTGAC 58.078 45.455 0.00 0.00 0.00 3.67
310 311 4.329296 TTGTCCGTATGTTTGCATAACG 57.671 40.909 0.00 0.00 39.09 3.18
312 313 1.666700 TCCGTATGTTTGCATAACGGC 59.333 47.619 12.38 3.42 43.55 5.68
411 413 9.689501 TTTTAAACTATGATCCTTATCCGGTTT 57.310 29.630 0.00 0.00 34.52 3.27
432 434 9.914923 CGGTTTTCTTTTTCCTTTCTATTTTTG 57.085 29.630 0.00 0.00 0.00 2.44
438 440 9.533253 TCTTTTTCCTTTCTATTTTTGAGCAAG 57.467 29.630 0.00 0.00 0.00 4.01
597 599 4.323477 TCCACGCCCCAAACCGAG 62.323 66.667 0.00 0.00 0.00 4.63
728 736 2.327940 GCACCACGCACAAGTCAC 59.672 61.111 0.00 0.00 41.79 3.67
729 737 3.022287 CACCACGCACAAGTCACC 58.978 61.111 0.00 0.00 0.00 4.02
730 738 2.203153 ACCACGCACAAGTCACCC 60.203 61.111 0.00 0.00 0.00 4.61
731 739 3.345808 CCACGCACAAGTCACCCG 61.346 66.667 0.00 0.00 0.00 5.28
732 740 4.012895 CACGCACAAGTCACCCGC 62.013 66.667 0.00 0.00 0.00 6.13
786 794 1.187087 AACCAAACCAAACTGGCGAA 58.813 45.000 0.00 0.00 42.67 4.70
862 870 1.073216 GTGTCACGACCTCTCGCATG 61.073 60.000 0.00 0.00 44.33 4.06
885 893 4.956085 ACCTTCCTTTAAAACCATGCAAC 58.044 39.130 0.00 0.00 0.00 4.17
892 900 1.184970 AAAACCATGCAACCCTCCCG 61.185 55.000 0.00 0.00 0.00 5.14
919 927 3.693382 ATGCATTCCGACGACGCGA 62.693 57.895 15.93 0.00 38.29 5.87
920 928 2.954020 ATGCATTCCGACGACGCGAT 62.954 55.000 15.93 0.00 38.29 4.58
921 929 2.917656 GCATTCCGACGACGCGATC 61.918 63.158 15.93 5.79 38.29 3.69
922 930 2.025727 ATTCCGACGACGCGATCC 59.974 61.111 15.93 0.00 38.29 3.36
943 951 1.614413 GTCTGTCGACTTCCCAAGACT 59.386 52.381 17.92 0.00 37.19 3.24
1266 1280 4.137872 CGCCGGTGGGTCGTGTAT 62.138 66.667 7.26 0.00 34.97 2.29
1683 1709 3.647649 CTCGGACTGCATCGTGCCA 62.648 63.158 7.38 0.00 44.23 4.92
1690 1716 2.515523 GCATCGTGCCATGGCTCT 60.516 61.111 35.53 15.92 42.51 4.09
1847 1879 3.134127 GCCCTTGTCGTGGATGGC 61.134 66.667 0.00 0.00 0.00 4.40
1977 2015 2.320367 CTCCAGTCTTTCGTTCTCGTG 58.680 52.381 0.00 0.00 38.33 4.35
2108 2148 8.593492 AAGAGTTTATTTGCATTCTTGGTTTC 57.407 30.769 0.00 0.00 0.00 2.78
2149 2190 7.873739 ATAGCATGCTTGTTTTAAGTTGTTC 57.126 32.000 28.02 0.00 0.00 3.18
2150 2191 4.739716 AGCATGCTTGTTTTAAGTTGTTCG 59.260 37.500 16.30 0.00 0.00 3.95
2151 2192 4.502645 GCATGCTTGTTTTAAGTTGTTCGT 59.497 37.500 11.37 0.00 0.00 3.85
2152 2193 5.331532 GCATGCTTGTTTTAAGTTGTTCGTC 60.332 40.000 11.37 0.00 0.00 4.20
2154 2195 5.328691 TGCTTGTTTTAAGTTGTTCGTCTG 58.671 37.500 0.00 0.00 0.00 3.51
2155 2196 5.106475 TGCTTGTTTTAAGTTGTTCGTCTGT 60.106 36.000 0.00 0.00 0.00 3.41
2156 2197 5.798434 GCTTGTTTTAAGTTGTTCGTCTGTT 59.202 36.000 0.00 0.00 0.00 3.16
2157 2198 6.307077 GCTTGTTTTAAGTTGTTCGTCTGTTT 59.693 34.615 0.00 0.00 0.00 2.83
2158 2199 7.148869 GCTTGTTTTAAGTTGTTCGTCTGTTTT 60.149 33.333 0.00 0.00 0.00 2.43
2171 2212 8.643752 TGTTCGTCTGTTTTTGAATTTTTCTTC 58.356 29.630 0.00 0.00 0.00 2.87
2206 2247 0.603975 GGTGGCGCTCTCTGTTTCTT 60.604 55.000 7.64 0.00 0.00 2.52
2217 2258 3.440872 TCTCTGTTTCTTCTCTAGCCGTC 59.559 47.826 0.00 0.00 0.00 4.79
2224 2265 0.033991 TTCTCTAGCCGTCTCCAGCT 60.034 55.000 0.00 0.00 43.20 4.24
2238 2279 1.451567 CAGCTGGGATGCCAGTCAG 60.452 63.158 31.17 18.58 39.75 3.51
2260 2301 0.041312 CGCCAAAGACAACCTGAACG 60.041 55.000 0.00 0.00 0.00 3.95
2287 2328 5.665916 TGCTCAGTTAAGTCATCTGATCA 57.334 39.130 0.00 0.00 37.54 2.92
2313 2354 3.567530 CGTGCTTGCAAATCATCAGAAA 58.432 40.909 0.00 0.00 0.00 2.52
2344 2385 2.348591 GCAAACACACGCTTACTGACTC 60.349 50.000 0.00 0.00 0.00 3.36
2345 2386 2.863740 CAAACACACGCTTACTGACTCA 59.136 45.455 0.00 0.00 0.00 3.41
2352 2393 4.211374 ACACGCTTACTGACTCAACATTTC 59.789 41.667 0.00 0.00 0.00 2.17
2354 2395 3.722082 CGCTTACTGACTCAACATTTCGC 60.722 47.826 0.00 0.00 0.00 4.70
2358 2399 2.146342 CTGACTCAACATTTCGCTGGT 58.854 47.619 0.00 0.00 0.00 4.00
2359 2400 2.549754 CTGACTCAACATTTCGCTGGTT 59.450 45.455 0.00 0.00 0.00 3.67
2360 2401 2.290367 TGACTCAACATTTCGCTGGTTG 59.710 45.455 0.00 0.00 42.39 3.77
2361 2402 2.290641 GACTCAACATTTCGCTGGTTGT 59.709 45.455 0.00 0.00 41.87 3.32
2371 2412 2.577700 TCGCTGGTTGTTGTTAATGGT 58.422 42.857 0.00 0.00 0.00 3.55
2382 2423 6.811253 TGTTGTTAATGGTAGGTAAAGCAG 57.189 37.500 0.00 0.00 0.00 4.24
2386 2427 2.981859 ATGGTAGGTAAAGCAGGACG 57.018 50.000 0.00 0.00 0.00 4.79
2388 2429 0.177373 GGTAGGTAAAGCAGGACGGG 59.823 60.000 0.00 0.00 0.00 5.28
2390 2431 1.619807 TAGGTAAAGCAGGACGGGCC 61.620 60.000 0.00 0.00 0.00 5.80
2401 2442 2.132686 AGGACGGGCCCTGTAAATATT 58.867 47.619 22.43 0.00 37.37 1.28
2402 2443 2.105993 AGGACGGGCCCTGTAAATATTC 59.894 50.000 22.43 5.61 37.37 1.75
2403 2444 2.158726 GGACGGGCCCTGTAAATATTCA 60.159 50.000 22.43 0.00 0.00 2.57
2404 2445 3.139077 GACGGGCCCTGTAAATATTCAG 58.861 50.000 22.43 0.90 0.00 3.02
2405 2446 1.880027 CGGGCCCTGTAAATATTCAGC 59.120 52.381 22.43 0.00 0.00 4.26
2406 2447 1.880027 GGGCCCTGTAAATATTCAGCG 59.120 52.381 17.04 0.00 0.00 5.18
2407 2448 2.486548 GGGCCCTGTAAATATTCAGCGA 60.487 50.000 17.04 0.00 0.00 4.93
2408 2449 2.808543 GGCCCTGTAAATATTCAGCGAG 59.191 50.000 0.00 0.00 0.00 5.03
2457 2498 2.283145 AGCAGAGCACACTGGAAATT 57.717 45.000 0.00 0.00 38.22 1.82
2483 2524 4.946784 AGGAGAATGTAATCGTGCAAAC 57.053 40.909 0.00 0.00 0.00 2.93
2504 2545 3.168193 CAACGGCCAAAATGTAATCGTC 58.832 45.455 2.24 0.00 0.00 4.20
2512 2553 4.457603 CCAAAATGTAATCGTCCCACTCAA 59.542 41.667 0.00 0.00 0.00 3.02
2528 2569 6.370442 TCCCACTCAAAATGTAAACGATACAG 59.630 38.462 10.58 1.20 0.00 2.74
2531 2572 7.117812 CCACTCAAAATGTAAACGATACAGAGT 59.882 37.037 14.09 14.09 32.83 3.24
2532 2573 9.135843 CACTCAAAATGTAAACGATACAGAGTA 57.864 33.333 16.89 0.00 31.69 2.59
2573 2629 4.600692 TTATCTAGCGGCTGAAGCAATA 57.399 40.909 13.86 0.00 44.36 1.90
2589 2645 2.159787 GCAATATGCGCAGGTAATCTCG 60.160 50.000 18.32 0.00 31.71 4.04
2610 2666 3.121696 CGAAGCAAAACGTGAAAGCAATC 60.122 43.478 0.00 0.00 0.00 2.67
2611 2667 3.435105 AGCAAAACGTGAAAGCAATCA 57.565 38.095 0.00 0.00 0.00 2.57
2612 2668 3.115554 AGCAAAACGTGAAAGCAATCAC 58.884 40.909 10.84 10.84 44.96 3.06
2635 2718 6.095300 CACAATGGCTTAAGGTGATACATTCA 59.905 38.462 4.29 0.00 0.00 2.57
2735 2818 8.131731 TGAATCAACTCACAGTCTTCTATATCG 58.868 37.037 0.00 0.00 0.00 2.92
2737 2820 7.625828 TCAACTCACAGTCTTCTATATCGAA 57.374 36.000 0.00 0.00 0.00 3.71
2738 2821 8.226819 TCAACTCACAGTCTTCTATATCGAAT 57.773 34.615 0.00 0.00 0.00 3.34
2744 2827 8.358148 TCACAGTCTTCTATATCGAATTAACCC 58.642 37.037 0.00 0.00 0.00 4.11
2755 2838 5.341872 TCGAATTAACCCACTATTTCCGA 57.658 39.130 0.00 0.00 0.00 4.55
2794 2877 1.491670 CCGACTTGAGCATGGTATCG 58.508 55.000 0.00 5.44 0.00 2.92
2816 2899 1.503542 CCAGCGTGAAATCCTGCAC 59.496 57.895 0.00 0.00 0.00 4.57
2914 2997 7.984002 TTATGCACCAAATATCATCAAAACG 57.016 32.000 0.00 0.00 0.00 3.60
2915 2998 5.635417 TGCACCAAATATCATCAAAACGA 57.365 34.783 0.00 0.00 0.00 3.85
2916 2999 6.206395 TGCACCAAATATCATCAAAACGAT 57.794 33.333 0.00 0.00 33.27 3.73
2917 3000 6.264832 TGCACCAAATATCATCAAAACGATC 58.735 36.000 0.00 0.00 29.21 3.69
2918 3001 6.095300 TGCACCAAATATCATCAAAACGATCT 59.905 34.615 0.00 0.00 29.21 2.75
2919 3002 6.634436 GCACCAAATATCATCAAAACGATCTC 59.366 38.462 0.00 0.00 29.21 2.75
2920 3003 7.134815 CACCAAATATCATCAAAACGATCTCC 58.865 38.462 0.00 0.00 29.21 3.71
2921 3004 6.828273 ACCAAATATCATCAAAACGATCTCCA 59.172 34.615 0.00 0.00 29.21 3.86
2922 3005 7.134815 CCAAATATCATCAAAACGATCTCCAC 58.865 38.462 0.00 0.00 29.21 4.02
2923 3006 7.201723 CCAAATATCATCAAAACGATCTCCACA 60.202 37.037 0.00 0.00 29.21 4.17
2937 3020 8.506168 ACGATCTCCACATGTTTATTTGTTAT 57.494 30.769 0.00 0.00 0.00 1.89
2944 3027 8.110271 TCCACATGTTTATTTGTTATACTCCCA 58.890 33.333 0.00 0.00 0.00 4.37
2947 3030 6.988622 TGTTTATTTGTTATACTCCCACCG 57.011 37.500 0.00 0.00 0.00 4.94
2949 3032 6.941436 TGTTTATTTGTTATACTCCCACCGTT 59.059 34.615 0.00 0.00 0.00 4.44
2999 3082 9.119329 GATGTATCTAGCACTAAAATACGTCTG 57.881 37.037 16.16 0.00 36.55 3.51
3002 3085 6.519679 TCTAGCACTAAAATACGTCTGGAA 57.480 37.500 0.00 0.00 0.00 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 75 7.782897 TGGTCCACAAAATTATGGTATCAAA 57.217 32.000 0.00 0.00 37.27 2.69
76 77 7.617329 TGATTGGTCCACAAAATTATGGTATCA 59.383 33.333 0.00 0.00 43.46 2.15
77 78 8.006298 TGATTGGTCCACAAAATTATGGTATC 57.994 34.615 0.00 0.00 43.46 2.24
149 150 5.064198 TGGTCTATGGAATTTCTTAAACGCG 59.936 40.000 3.53 3.53 0.00 6.01
295 296 3.775661 AAGGCCGTTATGCAAACATAC 57.224 42.857 0.00 0.00 38.50 2.39
310 311 5.472478 AGCGGTTTTATAAGCTAATAAGGCC 59.528 40.000 0.00 0.00 38.29 5.19
312 313 7.095187 CCTCAGCGGTTTTATAAGCTAATAAGG 60.095 40.741 0.00 0.56 37.94 2.69
411 413 9.883142 TTGCTCAAAAATAGAAAGGAAAAAGAA 57.117 25.926 0.00 0.00 0.00 2.52
432 434 3.182572 CGAATTACCGTATCAGCTTGCTC 59.817 47.826 0.00 0.00 0.00 4.26
438 440 1.525619 GCCACGAATTACCGTATCAGC 59.474 52.381 0.00 0.00 41.29 4.26
514 516 2.684843 CGCTCTGCTGAAACAGGCC 61.685 63.158 0.00 0.00 38.26 5.19
595 597 4.803426 CTGTGGACGGCTCGGCTC 62.803 72.222 0.45 0.00 34.07 4.70
597 599 3.291101 TAACTGTGGACGGCTCGGC 62.291 63.158 0.00 0.00 0.00 5.54
598 600 1.445582 GTAACTGTGGACGGCTCGG 60.446 63.158 0.00 0.00 0.00 4.63
599 601 0.038526 AAGTAACTGTGGACGGCTCG 60.039 55.000 0.00 0.00 0.00 5.03
698 706 2.355115 GGTGCAAACCTCGGGGAT 59.645 61.111 9.33 0.00 36.25 3.85
742 750 4.284550 TGGTGTGCAAGGGAGGCC 62.285 66.667 0.00 0.00 0.00 5.19
748 756 1.326213 TTGGTTGGTGGTGTGCAAGG 61.326 55.000 0.00 0.00 0.00 3.61
786 794 2.655364 CGATTCTGCGGCGATCGT 60.655 61.111 17.81 0.00 41.72 3.73
862 870 4.864704 TGCATGGTTTTAAAGGAAGGTC 57.135 40.909 0.00 0.00 0.00 3.85
906 914 4.525576 CGGATCGCGTCGTCGGAA 62.526 66.667 5.77 0.00 37.56 4.30
930 938 0.034896 TGGCGAAGTCTTGGGAAGTC 59.965 55.000 0.00 0.00 0.00 3.01
943 951 1.888436 CTAGGTGGAGTGCTGGCGAA 61.888 60.000 0.00 0.00 0.00 4.70
1077 1091 1.333177 GGTAGGAGATGATGCGGAGT 58.667 55.000 0.00 0.00 0.00 3.85
1561 1587 4.664677 GTCCGACAGGTGCTGCGT 62.665 66.667 0.00 0.00 39.05 5.24
2126 2167 5.912396 CGAACAACTTAAAACAAGCATGCTA 59.088 36.000 23.00 0.00 0.00 3.49
2149 2190 7.518731 TGGAAGAAAAATTCAAAAACAGACG 57.481 32.000 0.00 0.00 0.00 4.18
2150 2191 7.278646 AGCTGGAAGAAAAATTCAAAAACAGAC 59.721 33.333 0.00 0.00 34.07 3.51
2151 2192 7.330262 AGCTGGAAGAAAAATTCAAAAACAGA 58.670 30.769 0.00 0.00 34.07 3.41
2152 2193 7.543947 AGCTGGAAGAAAAATTCAAAAACAG 57.456 32.000 0.00 0.00 34.07 3.16
2154 2195 8.668353 AGAAAGCTGGAAGAAAAATTCAAAAAC 58.332 29.630 0.00 0.00 34.07 2.43
2155 2196 8.791327 AGAAAGCTGGAAGAAAAATTCAAAAA 57.209 26.923 0.00 0.00 34.07 1.94
2156 2197 9.313118 GTAGAAAGCTGGAAGAAAAATTCAAAA 57.687 29.630 0.00 0.00 34.07 2.44
2157 2198 7.647715 CGTAGAAAGCTGGAAGAAAAATTCAAA 59.352 33.333 0.00 0.00 34.07 2.69
2158 2199 7.138736 CGTAGAAAGCTGGAAGAAAAATTCAA 58.861 34.615 0.00 0.00 34.07 2.69
2171 2212 1.374252 ACCACGCGTAGAAAGCTGG 60.374 57.895 13.44 9.27 38.20 4.85
2224 2265 1.897423 CGTACTGACTGGCATCCCA 59.103 57.895 0.00 0.00 39.32 4.37
2238 2279 1.873698 TCAGGTTGTCTTTGGCGTAC 58.126 50.000 0.00 0.00 0.00 3.67
2260 2301 5.466728 TCAGATGACTTAACTGAGCAAACAC 59.533 40.000 0.00 0.00 36.04 3.32
2287 2328 0.317799 TGATTTGCAAGCACGGCATT 59.682 45.000 0.00 0.00 41.58 3.56
2328 2369 2.469826 TGTTGAGTCAGTAAGCGTGTG 58.530 47.619 0.00 0.00 0.00 3.82
2345 2386 3.518634 AACAACAACCAGCGAAATGTT 57.481 38.095 0.00 0.00 36.49 2.71
2352 2393 3.119990 CCTACCATTAACAACAACCAGCG 60.120 47.826 0.00 0.00 0.00 5.18
2354 2395 7.513371 TTTACCTACCATTAACAACAACCAG 57.487 36.000 0.00 0.00 0.00 4.00
2358 2399 6.207810 CCTGCTTTACCTACCATTAACAACAA 59.792 38.462 0.00 0.00 0.00 2.83
2359 2400 5.708230 CCTGCTTTACCTACCATTAACAACA 59.292 40.000 0.00 0.00 0.00 3.33
2360 2401 5.941647 TCCTGCTTTACCTACCATTAACAAC 59.058 40.000 0.00 0.00 0.00 3.32
2361 2402 5.941647 GTCCTGCTTTACCTACCATTAACAA 59.058 40.000 0.00 0.00 0.00 2.83
2371 2412 1.619807 GGCCCGTCCTGCTTTACCTA 61.620 60.000 0.00 0.00 0.00 3.08
2382 2423 2.158726 TGAATATTTACAGGGCCCGTCC 60.159 50.000 18.44 0.00 0.00 4.79
2386 2427 1.880027 CGCTGAATATTTACAGGGCCC 59.120 52.381 16.46 16.46 39.41 5.80
2388 2429 3.467803 ACTCGCTGAATATTTACAGGGC 58.532 45.455 13.40 0.00 43.45 5.19
2390 2431 6.478588 GTTGAACTCGCTGAATATTTACAGG 58.521 40.000 6.36 0.00 35.05 4.00
2401 2442 0.602638 ATTGCCGTTGAACTCGCTGA 60.603 50.000 5.96 0.00 0.00 4.26
2402 2443 0.453282 CATTGCCGTTGAACTCGCTG 60.453 55.000 5.96 0.00 0.00 5.18
2403 2444 1.577328 CCATTGCCGTTGAACTCGCT 61.577 55.000 5.96 0.00 0.00 4.93
2404 2445 1.154225 CCATTGCCGTTGAACTCGC 60.154 57.895 0.00 0.00 0.00 5.03
2405 2446 0.110238 CACCATTGCCGTTGAACTCG 60.110 55.000 0.00 0.00 0.00 4.18
2406 2447 0.240945 CCACCATTGCCGTTGAACTC 59.759 55.000 0.00 0.00 0.00 3.01
2407 2448 0.179004 TCCACCATTGCCGTTGAACT 60.179 50.000 0.00 0.00 0.00 3.01
2408 2449 0.887933 ATCCACCATTGCCGTTGAAC 59.112 50.000 0.00 0.00 0.00 3.18
2457 2498 8.609176 GTTTGCACGATTACATTCTCCTATTTA 58.391 33.333 0.00 0.00 0.00 1.40
2475 2516 1.078759 TTTTGGCCGTTGTTTGCACG 61.079 50.000 0.00 0.00 0.00 5.34
2483 2524 3.168193 GACGATTACATTTTGGCCGTTG 58.832 45.455 0.00 0.00 0.00 4.10
2504 2545 6.370442 TCTGTATCGTTTACATTTTGAGTGGG 59.630 38.462 2.32 0.00 0.00 4.61
2547 2591 4.280929 TGCTTCAGCCGCTAGATAAATCTA 59.719 41.667 0.00 0.02 41.18 1.98
2548 2592 3.070159 TGCTTCAGCCGCTAGATAAATCT 59.930 43.478 0.00 0.00 41.18 2.40
2573 2629 1.858091 CTTCGAGATTACCTGCGCAT 58.142 50.000 12.24 0.00 0.00 4.73
2581 2637 4.640805 TCACGTTTTGCTTCGAGATTAC 57.359 40.909 0.00 0.00 0.00 1.89
2582 2638 5.660629 TTTCACGTTTTGCTTCGAGATTA 57.339 34.783 0.00 0.00 0.00 1.75
2589 2645 3.796178 TGATTGCTTTCACGTTTTGCTTC 59.204 39.130 0.00 0.00 0.00 3.86
2610 2666 6.095300 TGAATGTATCACCTTAAGCCATTGTG 59.905 38.462 0.00 0.00 31.50 3.33
2611 2667 6.186957 TGAATGTATCACCTTAAGCCATTGT 58.813 36.000 0.00 0.00 31.50 2.71
2612 2668 6.698008 TGAATGTATCACCTTAAGCCATTG 57.302 37.500 0.00 0.00 31.50 2.82
2613 2669 7.255242 CGATTGAATGTATCACCTTAAGCCATT 60.255 37.037 0.00 0.00 37.92 3.16
2614 2670 6.205464 CGATTGAATGTATCACCTTAAGCCAT 59.795 38.462 0.00 0.00 37.92 4.40
2615 2671 5.527214 CGATTGAATGTATCACCTTAAGCCA 59.473 40.000 0.00 0.00 37.92 4.75
2673 2756 3.906846 TGCCCCTTGGTGTAAAATCAAAT 59.093 39.130 0.00 0.00 0.00 2.32
2688 2771 4.837860 TCAGTCAATTTTTGTATGCCCCTT 59.162 37.500 0.00 0.00 0.00 3.95
2716 2799 9.953697 GTTAATTCGATATAGAAGACTGTGAGT 57.046 33.333 4.55 0.00 33.19 3.41
2722 2805 8.480133 AGTGGGTTAATTCGATATAGAAGACT 57.520 34.615 4.55 0.00 33.19 3.24
2735 2818 5.758784 CCTCTCGGAAATAGTGGGTTAATTC 59.241 44.000 0.00 0.00 0.00 2.17
2737 2820 4.102681 CCCTCTCGGAAATAGTGGGTTAAT 59.897 45.833 0.00 0.00 41.11 1.40
2738 2821 3.453353 CCCTCTCGGAAATAGTGGGTTAA 59.547 47.826 0.00 0.00 41.11 2.01
2744 2827 2.548920 GGATGCCCTCTCGGAAATAGTG 60.549 54.545 0.00 0.00 0.00 2.74
2755 2838 0.919710 GTTTAGGTGGGATGCCCTCT 59.080 55.000 0.00 0.37 45.70 3.69
2794 2877 0.449388 CAGGATTTCACGCTGGCTTC 59.551 55.000 0.00 0.00 0.00 3.86
2906 2989 5.964958 AAACATGTGGAGATCGTTTTGAT 57.035 34.783 0.00 0.00 41.06 2.57
2907 2990 7.447374 AATAAACATGTGGAGATCGTTTTGA 57.553 32.000 0.00 0.00 32.42 2.69
2909 2992 7.657336 ACAAATAAACATGTGGAGATCGTTTT 58.343 30.769 0.00 0.00 32.42 2.43
2910 2993 7.214467 ACAAATAAACATGTGGAGATCGTTT 57.786 32.000 0.00 0.00 34.40 3.60
2911 2994 6.817765 ACAAATAAACATGTGGAGATCGTT 57.182 33.333 0.00 0.00 0.00 3.85
2912 2995 6.817765 AACAAATAAACATGTGGAGATCGT 57.182 33.333 0.00 0.00 0.00 3.73
2916 2999 9.391006 GGAGTATAACAAATAAACATGTGGAGA 57.609 33.333 0.00 0.00 0.00 3.71
2917 3000 8.621286 GGGAGTATAACAAATAAACATGTGGAG 58.379 37.037 0.00 0.00 0.00 3.86
2918 3001 8.110271 TGGGAGTATAACAAATAAACATGTGGA 58.890 33.333 0.00 0.00 0.00 4.02
2919 3002 8.188139 GTGGGAGTATAACAAATAAACATGTGG 58.812 37.037 0.00 0.00 0.00 4.17
2920 3003 8.188139 GGTGGGAGTATAACAAATAAACATGTG 58.812 37.037 0.00 0.00 0.00 3.21
2921 3004 7.066525 CGGTGGGAGTATAACAAATAAACATGT 59.933 37.037 0.00 0.00 0.00 3.21
2922 3005 7.066525 ACGGTGGGAGTATAACAAATAAACATG 59.933 37.037 0.00 0.00 0.00 3.21
2923 3006 7.114095 ACGGTGGGAGTATAACAAATAAACAT 58.886 34.615 0.00 0.00 0.00 2.71
2937 3020 1.269012 AATTCCGAACGGTGGGAGTA 58.731 50.000 3.81 0.00 32.54 2.59
2944 3027 2.331194 CGTCAAGTAATTCCGAACGGT 58.669 47.619 12.93 0.00 36.47 4.83
2947 3030 2.991190 TGAGCGTCAAGTAATTCCGAAC 59.009 45.455 0.00 0.00 0.00 3.95
2949 3032 3.250744 CTTGAGCGTCAAGTAATTCCGA 58.749 45.455 15.37 0.00 46.50 4.55


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

AutoCloner maintained by Alex Coulton.