Multiple sequence alignment - TraesCS5B01G187000

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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 TraesCS5B01G187000 chr5B 100.000 3701 0 0 1 3701 339289081 339285381 0.000000e+00 6835.0
1 TraesCS5B01G187000 chr5B 93.974 1925 65 20 1017 2932 338960074 338961956 0.000000e+00 2865.0
2 TraesCS5B01G187000 chr5B 93.974 1925 65 20 1017 2932 338965578 338967460 0.000000e+00 2865.0
3 TraesCS5B01G187000 chr5B 90.492 2114 156 16 604 2705 352382591 352384671 0.000000e+00 2748.0
4 TraesCS5B01G187000 chr5B 91.918 1559 87 14 1359 2917 339080295 339078776 0.000000e+00 2145.0
5 TraesCS5B01G187000 chr5B 88.323 1002 59 30 13 981 338959095 338960071 0.000000e+00 1149.0
6 TraesCS5B01G187000 chr5B 88.323 1002 59 30 13 981 338964599 338965575 0.000000e+00 1149.0
7 TraesCS5B01G187000 chr5B 90.387 697 43 16 314 988 339089826 339089132 0.000000e+00 894.0
8 TraesCS5B01G187000 chr5B 81.664 589 65 29 63 622 352380698 352381272 2.030000e-122 449.0
9 TraesCS5B01G187000 chr5B 86.319 307 27 9 1061 1363 339081370 339081075 1.660000e-83 320.0
10 TraesCS5B01G187000 chr5B 85.866 283 16 11 224 485 338957666 338957945 2.810000e-71 279.0
11 TraesCS5B01G187000 chr5B 95.858 169 6 1 64 231 338956266 338956434 4.710000e-69 272.0
12 TraesCS5B01G187000 chr5D 90.989 3063 193 42 1 3029 298463851 298460838 0.000000e+00 4050.0
13 TraesCS5B01G187000 chr5D 88.885 2951 223 59 22 2932 307093057 307095942 0.000000e+00 3535.0
14 TraesCS5B01G187000 chr5D 93.205 1928 83 20 1013 2933 298281773 298279887 0.000000e+00 2791.0
15 TraesCS5B01G187000 chr5D 88.670 1933 120 41 1013 2932 298143567 298145413 0.000000e+00 2265.0
16 TraesCS5B01G187000 chr5D 91.318 956 55 15 49 981 298282722 298281772 0.000000e+00 1280.0
17 TraesCS5B01G187000 chr5D 89.971 688 49 14 314 981 298142881 298143568 0.000000e+00 870.0
18 TraesCS5B01G187000 chr5A 90.251 2626 158 45 331 2933 400573437 400575987 0.000000e+00 3341.0
19 TraesCS5B01G187000 chr5A 88.724 2492 204 37 243 2705 390244572 390242129 0.000000e+00 2974.0
20 TraesCS5B01G187000 chr5A 96.179 916 34 1 1807 2721 400769942 400769027 0.000000e+00 1496.0
21 TraesCS5B01G187000 chr5A 90.977 1064 66 14 49 1085 400777976 400776916 0.000000e+00 1406.0
22 TraesCS5B01G187000 chr5A 95.664 715 31 0 1106 1820 400773685 400772971 0.000000e+00 1149.0
23 TraesCS5B01G187000 chr3D 94.918 610 25 3 3035 3644 23090888 23091491 0.000000e+00 950.0
24 TraesCS5B01G187000 chr4D 90.801 674 40 9 3033 3701 503412052 503412708 0.000000e+00 881.0
25 TraesCS5B01G187000 chr2B 91.204 432 26 2 3282 3701 170857511 170857942 8.910000e-161 577.0
26 TraesCS5B01G187000 chr2B 96.400 250 9 0 3035 3284 170855862 170856111 2.660000e-111 412.0
27 TraesCS5B01G187000 chr6A 87.941 340 34 7 3367 3701 16089397 16089060 9.630000e-106 394.0
28 TraesCS5B01G187000 chr6A 86.944 337 42 1 3035 3371 16098181 16097847 9.700000e-101 377.0
29 TraesCS5B01G187000 chr7A 85.574 305 40 4 3367 3668 75821957 75822260 2.150000e-82 316.0
30 TraesCS5B01G187000 chr1A 85.246 305 41 4 3367 3668 513686954 513686651 9.980000e-81 311.0
31 TraesCS5B01G187000 chr2A 87.547 265 30 3 3367 3629 47401487 47401224 1.670000e-78 303.0
32 TraesCS5B01G187000 chr3B 78.322 143 26 5 3049 3189 256727485 256727346 1.830000e-13 87.9


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 TraesCS5B01G187000 chr5B 339285381 339289081 3700 True 6835.000000 6835 100.000000 1 3701 1 chr5B.!!$R2 3700
1 TraesCS5B01G187000 chr5B 352380698 352384671 3973 False 1598.500000 2748 86.078000 63 2705 2 chr5B.!!$F2 2642
2 TraesCS5B01G187000 chr5B 338956266 338967460 11194 False 1429.833333 2865 91.053000 13 2932 6 chr5B.!!$F1 2919
3 TraesCS5B01G187000 chr5B 339078776 339081370 2594 True 1232.500000 2145 89.118500 1061 2917 2 chr5B.!!$R3 1856
4 TraesCS5B01G187000 chr5B 339089132 339089826 694 True 894.000000 894 90.387000 314 988 1 chr5B.!!$R1 674
5 TraesCS5B01G187000 chr5D 298460838 298463851 3013 True 4050.000000 4050 90.989000 1 3029 1 chr5D.!!$R1 3028
6 TraesCS5B01G187000 chr5D 307093057 307095942 2885 False 3535.000000 3535 88.885000 22 2932 1 chr5D.!!$F1 2910
7 TraesCS5B01G187000 chr5D 298279887 298282722 2835 True 2035.500000 2791 92.261500 49 2933 2 chr5D.!!$R2 2884
8 TraesCS5B01G187000 chr5D 298142881 298145413 2532 False 1567.500000 2265 89.320500 314 2932 2 chr5D.!!$F2 2618
9 TraesCS5B01G187000 chr5A 400573437 400575987 2550 False 3341.000000 3341 90.251000 331 2933 1 chr5A.!!$F1 2602
10 TraesCS5B01G187000 chr5A 390242129 390244572 2443 True 2974.000000 2974 88.724000 243 2705 1 chr5A.!!$R1 2462
11 TraesCS5B01G187000 chr5A 400769027 400777976 8949 True 1350.333333 1496 94.273333 49 2721 3 chr5A.!!$R2 2672
12 TraesCS5B01G187000 chr3D 23090888 23091491 603 False 950.000000 950 94.918000 3035 3644 1 chr3D.!!$F1 609
13 TraesCS5B01G187000 chr4D 503412052 503412708 656 False 881.000000 881 90.801000 3033 3701 1 chr4D.!!$F1 668
14 TraesCS5B01G187000 chr2B 170855862 170857942 2080 False 494.500000 577 93.802000 3035 3701 2 chr2B.!!$F1 666

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
369 3277 0.107508 ATGCATTCCTCCACCACTCG 60.108 55.0 0.0 0.0 0.00 4.18 F
576 3520 0.320508 GTCCAAGTTCGACACCCTCC 60.321 60.0 0.0 0.0 0.00 4.30 F
1938 13359 0.036010 CGCCAGGAGTGAACATCCTT 60.036 55.0 0.0 0.0 45.13 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1545 9917 2.261671 CCGTACTTGCCGCAGTCT 59.738 61.111 0.0 0.0 0.00 3.24 R
2148 13569 2.348104 ACTGCCGCTGTCCACGATA 61.348 57.895 0.0 0.0 0.00 2.92 R
3304 21668 0.178861 TGGGAAGAGGAAGAAGGCCT 60.179 55.000 0.0 0.0 38.81 5.19 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
113 114 5.662456 CTTCCACTAGCTAAGGTTTAGTCC 58.338 45.833 10.73 0.00 0.00 3.85
146 147 6.382087 TCCACATCTAGTACCATCCAATAGT 58.618 40.000 0.00 0.00 0.00 2.12
219 221 6.765036 TGGTAATGCAAGCTTCAAATCAAAAA 59.235 30.769 0.00 0.00 0.00 1.94
226 230 9.577110 TGCAAGCTTCAAATCAAAAATAGATAG 57.423 29.630 0.00 0.00 0.00 2.08
369 3277 0.107508 ATGCATTCCTCCACCACTCG 60.108 55.000 0.00 0.00 0.00 4.18
381 3301 1.371758 CCACTCGACTCCACACACG 60.372 63.158 0.00 0.00 0.00 4.49
496 3440 1.177256 CCCAAGAAGCACAAGCAGCT 61.177 55.000 0.00 0.00 45.97 4.24
498 3442 1.881973 CCAAGAAGCACAAGCAGCTAA 59.118 47.619 0.00 0.00 42.53 3.09
499 3443 2.095364 CCAAGAAGCACAAGCAGCTAAG 60.095 50.000 0.00 0.00 42.53 2.18
500 3444 1.818642 AGAAGCACAAGCAGCTAAGG 58.181 50.000 0.00 0.00 42.53 2.69
501 3445 1.072965 AGAAGCACAAGCAGCTAAGGT 59.927 47.619 0.00 0.00 42.53 3.50
502 3446 1.882623 GAAGCACAAGCAGCTAAGGTT 59.117 47.619 0.00 0.10 42.53 3.50
503 3447 1.986882 AGCACAAGCAGCTAAGGTTT 58.013 45.000 0.00 0.00 45.49 3.27
504 3448 3.140325 AGCACAAGCAGCTAAGGTTTA 57.860 42.857 0.00 0.00 45.49 2.01
505 3449 3.077359 AGCACAAGCAGCTAAGGTTTAG 58.923 45.455 0.00 0.00 45.49 1.85
576 3520 0.320508 GTCCAAGTTCGACACCCTCC 60.321 60.000 0.00 0.00 0.00 4.30
669 4951 2.652382 TTTTGCGGCTCGTCTCACCA 62.652 55.000 0.00 0.00 0.00 4.17
921 5203 4.329545 GGAGGGGCAAGTGCGTGA 62.330 66.667 0.00 0.00 43.26 4.35
988 5270 0.687354 GCCAAGTCCTTCCTCACAGA 59.313 55.000 0.00 0.00 0.00 3.41
989 5271 1.072331 GCCAAGTCCTTCCTCACAGAA 59.928 52.381 0.00 0.00 0.00 3.02
994 5276 1.067495 GTCCTTCCTCACAGAAGACGG 60.067 57.143 2.91 0.00 45.08 4.79
1616 9991 2.075566 TGGTGTGCTCCAAGGGTGA 61.076 57.895 0.00 0.00 34.24 4.02
1938 13359 0.036010 CGCCAGGAGTGAACATCCTT 60.036 55.000 0.00 0.00 45.13 3.36
2148 13569 2.990479 GACAAGGACGGCAGGGAT 59.010 61.111 0.00 0.00 0.00 3.85
2655 14076 0.904865 ACATCGCCTGGGAGAACAGA 60.905 55.000 0.00 0.00 40.97 3.41
2776 19703 3.326006 AGTCTGATTGCCTGAACTCTGAA 59.674 43.478 0.00 0.00 0.00 3.02
2801 19728 5.652014 AGAGAGAGAGAGAGTAATGTTGTGG 59.348 44.000 0.00 0.00 0.00 4.17
2802 19729 4.159506 AGAGAGAGAGAGTAATGTTGTGGC 59.840 45.833 0.00 0.00 0.00 5.01
2803 19730 4.093011 AGAGAGAGAGTAATGTTGTGGCT 58.907 43.478 0.00 0.00 0.00 4.75
2804 19731 4.530161 AGAGAGAGAGTAATGTTGTGGCTT 59.470 41.667 0.00 0.00 0.00 4.35
2805 19732 5.717178 AGAGAGAGAGTAATGTTGTGGCTTA 59.283 40.000 0.00 0.00 0.00 3.09
2807 19734 6.951971 AGAGAGAGTAATGTTGTGGCTTATT 58.048 36.000 0.00 0.00 0.00 1.40
2905 19850 7.959689 ATCATCATATTCTTTTCTCCTGTCG 57.040 36.000 0.00 0.00 0.00 4.35
2933 19882 7.189693 TGCATCTAAATTTCGTATGGATCAC 57.810 36.000 0.00 0.00 0.00 3.06
2949 19898 2.409064 TCACTACTTCACCCTCCCAA 57.591 50.000 0.00 0.00 0.00 4.12
2974 19923 1.168714 GCCCAATCGCTTCTTGAGTT 58.831 50.000 0.00 0.00 0.00 3.01
2995 19944 3.149196 TCATGCAACTCTTTTCTGACCC 58.851 45.455 0.00 0.00 0.00 4.46
3006 19963 5.054477 TCTTTTCTGACCCAAGTAAGAACG 58.946 41.667 0.00 0.00 42.28 3.95
3023 19980 5.722021 AGAACGCCACCTTTTCAAATAAT 57.278 34.783 0.00 0.00 0.00 1.28
3029 19986 4.082463 GCCACCTTTTCAAATAATCGGTCA 60.082 41.667 0.00 0.00 0.00 4.02
3030 19987 5.565834 GCCACCTTTTCAAATAATCGGTCAA 60.566 40.000 0.00 0.00 0.00 3.18
3031 19988 6.630071 CCACCTTTTCAAATAATCGGTCAAT 58.370 36.000 0.00 0.00 0.00 2.57
3032 19989 7.096551 CCACCTTTTCAAATAATCGGTCAATT 58.903 34.615 0.00 0.00 0.00 2.32
3033 19990 7.275560 CCACCTTTTCAAATAATCGGTCAATTC 59.724 37.037 0.00 0.00 0.00 2.17
3124 20082 0.109342 CCGCCTGGATTTGAGCCTAT 59.891 55.000 0.00 0.00 37.49 2.57
3131 20089 6.241645 GCCTGGATTTGAGCCTATACTATTT 58.758 40.000 0.00 0.00 0.00 1.40
3299 21663 2.224113 CCATTATTCCACCATTGCTGCC 60.224 50.000 0.00 0.00 0.00 4.85
3300 21664 2.228545 TTATTCCACCATTGCTGCCA 57.771 45.000 0.00 0.00 0.00 4.92
3301 21665 1.766494 TATTCCACCATTGCTGCCAG 58.234 50.000 0.00 0.00 0.00 4.85
3302 21666 0.040058 ATTCCACCATTGCTGCCAGA 59.960 50.000 0.00 0.00 0.00 3.86
3303 21667 0.609957 TTCCACCATTGCTGCCAGAG 60.610 55.000 0.00 0.00 0.00 3.35
3304 21668 1.001764 CCACCATTGCTGCCAGAGA 60.002 57.895 0.00 0.00 0.00 3.10
3305 21669 1.030488 CCACCATTGCTGCCAGAGAG 61.030 60.000 0.00 0.00 0.00 3.20
3306 21670 1.030488 CACCATTGCTGCCAGAGAGG 61.030 60.000 0.00 0.00 41.84 3.69
3335 21706 2.126882 CTCTTCCCATCACCCACCATA 58.873 52.381 0.00 0.00 0.00 2.74
3365 21736 2.076100 TGTGTGCAAATCTCGTCCATC 58.924 47.619 0.00 0.00 0.00 3.51
3381 21752 4.201753 CGTCCATCTATTTCAAGTGCACAG 60.202 45.833 21.04 11.41 0.00 3.66
3390 21761 1.066002 TCAAGTGCACAGCAGAAAAGC 59.934 47.619 21.04 0.00 40.08 3.51
3481 21852 1.888215 CTTCAGTCTGAAGCCTGCAA 58.112 50.000 25.74 0.00 46.03 4.08
3488 21859 0.530744 CTGAAGCCTGCAATGCATGT 59.469 50.000 8.91 0.00 38.13 3.21
3590 21969 6.106877 TCGTTCAAGCTCATTTTAGTATGC 57.893 37.500 0.00 0.00 0.00 3.14
3644 22023 7.839680 ACAGAGAACTTTACATCCCAAAAAT 57.160 32.000 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 5.940470 AGCCTCGAAACAAGAATTATTGAGT 59.060 36.000 19.19 6.29 34.20 3.41
146 147 1.450134 CATGGCGGCTCAGCTACAA 60.450 57.895 11.43 0.00 37.29 2.41
248 3129 3.285484 AGAAAATGCATCGCCAAGAGAT 58.715 40.909 0.00 0.00 0.00 2.75
321 3210 4.288626 TGGTGGGTTTTATAGAGCTTGAGT 59.711 41.667 0.00 0.00 0.00 3.41
369 3277 1.270094 TGTTGGATCGTGTGTGGAGTC 60.270 52.381 0.00 0.00 0.00 3.36
381 3301 3.025978 TCATGGAAGCCATTGTTGGATC 58.974 45.455 0.00 0.00 42.02 3.36
498 3442 1.550976 CGAGCTGGAAGGACTAAACCT 59.449 52.381 0.00 0.00 42.69 3.50
499 3443 1.549170 TCGAGCTGGAAGGACTAAACC 59.451 52.381 0.00 0.00 0.00 3.27
500 3444 2.882324 CTCGAGCTGGAAGGACTAAAC 58.118 52.381 0.00 0.00 0.00 2.01
501 3445 1.204941 GCTCGAGCTGGAAGGACTAAA 59.795 52.381 29.88 0.00 38.21 1.85
502 3446 0.818296 GCTCGAGCTGGAAGGACTAA 59.182 55.000 29.88 0.00 38.21 2.24
503 3447 0.323451 TGCTCGAGCTGGAAGGACTA 60.323 55.000 35.27 10.77 42.66 2.59
504 3448 1.607756 TGCTCGAGCTGGAAGGACT 60.608 57.895 35.27 0.00 42.66 3.85
505 3449 1.446966 GTGCTCGAGCTGGAAGGAC 60.447 63.158 35.27 20.69 42.66 3.85
709 4991 4.228567 TGTCCTTGCACACGCGGA 62.229 61.111 12.47 0.00 42.97 5.54
718 5000 0.955919 GTGGTACAGCCTGTCCTTGC 60.956 60.000 0.00 0.00 41.80 4.01
921 5203 2.360726 GTTGAATCCCGGGGCGTT 60.361 61.111 23.50 13.67 0.00 4.84
1094 8632 2.962697 GAAGAGATCCGTGCTCGCCC 62.963 65.000 1.89 0.00 37.46 6.13
1095 8633 1.590259 GAAGAGATCCGTGCTCGCC 60.590 63.158 1.89 0.00 37.46 5.54
1096 8634 0.458543 TTGAAGAGATCCGTGCTCGC 60.459 55.000 1.89 0.00 37.46 5.03
1097 8635 1.135257 ACTTGAAGAGATCCGTGCTCG 60.135 52.381 0.00 0.14 37.46 5.03
1098 8636 2.663826 ACTTGAAGAGATCCGTGCTC 57.336 50.000 0.00 0.00 0.00 4.26
1099 8637 2.672478 CGAACTTGAAGAGATCCGTGCT 60.672 50.000 0.00 0.00 0.00 4.40
1100 8638 1.656095 CGAACTTGAAGAGATCCGTGC 59.344 52.381 0.00 0.00 0.00 5.34
1101 8639 1.656095 GCGAACTTGAAGAGATCCGTG 59.344 52.381 0.00 0.00 0.00 4.94
1102 8640 1.732732 CGCGAACTTGAAGAGATCCGT 60.733 52.381 0.00 0.00 0.00 4.69
1103 8641 0.917259 CGCGAACTTGAAGAGATCCG 59.083 55.000 0.00 0.00 0.00 4.18
1104 8642 1.281899 CCGCGAACTTGAAGAGATCC 58.718 55.000 8.23 0.00 0.00 3.36
1146 8684 4.838152 GCGATCCTTGCCCTGCGA 62.838 66.667 0.00 0.00 0.00 5.10
1545 9917 2.261671 CCGTACTTGCCGCAGTCT 59.738 61.111 0.00 0.00 0.00 3.24
1976 13397 3.147595 CTCTCCGCGGGTCCATGA 61.148 66.667 27.83 12.68 0.00 3.07
2148 13569 2.348104 ACTGCCGCTGTCCACGATA 61.348 57.895 0.00 0.00 0.00 2.92
2655 14076 2.750350 CTCCTGACCCGGTGCTTT 59.250 61.111 0.00 0.00 0.00 3.51
2776 19703 6.152661 CCACAACATTACTCTCTCTCTCTCTT 59.847 42.308 0.00 0.00 0.00 2.85
2781 19708 4.093011 AGCCACAACATTACTCTCTCTCT 58.907 43.478 0.00 0.00 0.00 3.10
2782 19709 4.464069 AGCCACAACATTACTCTCTCTC 57.536 45.455 0.00 0.00 0.00 3.20
2784 19711 7.042389 GCTAATAAGCCACAACATTACTCTCTC 60.042 40.741 0.00 0.00 43.40 3.20
2785 19712 6.763610 GCTAATAAGCCACAACATTACTCTCT 59.236 38.462 0.00 0.00 43.40 3.10
2786 19713 6.949449 GCTAATAAGCCACAACATTACTCTC 58.051 40.000 0.00 0.00 43.40 3.20
2787 19714 6.927294 GCTAATAAGCCACAACATTACTCT 57.073 37.500 0.00 0.00 43.40 3.24
2802 19729 8.818141 TTCTTCATTACAGATCGGCTAATAAG 57.182 34.615 0.00 0.00 0.00 1.73
2803 19730 8.638873 TCTTCTTCATTACAGATCGGCTAATAA 58.361 33.333 0.00 0.00 0.00 1.40
2804 19731 8.178313 TCTTCTTCATTACAGATCGGCTAATA 57.822 34.615 0.00 0.00 0.00 0.98
2805 19732 7.055667 TCTTCTTCATTACAGATCGGCTAAT 57.944 36.000 0.00 0.00 0.00 1.73
2807 19734 6.321435 TCTTCTTCTTCATTACAGATCGGCTA 59.679 38.462 0.00 0.00 0.00 3.93
2810 19737 7.708322 TGATTCTTCTTCTTCATTACAGATCGG 59.292 37.037 0.00 0.00 0.00 4.18
2812 19739 8.550376 GCTGATTCTTCTTCTTCATTACAGATC 58.450 37.037 0.00 0.00 0.00 2.75
2813 19740 8.045507 TGCTGATTCTTCTTCTTCATTACAGAT 58.954 33.333 0.00 0.00 0.00 2.90
2814 19741 7.389232 TGCTGATTCTTCTTCTTCATTACAGA 58.611 34.615 0.00 0.00 0.00 3.41
2815 19742 7.606858 TGCTGATTCTTCTTCTTCATTACAG 57.393 36.000 0.00 0.00 0.00 2.74
2816 19743 8.571461 AATGCTGATTCTTCTTCTTCATTACA 57.429 30.769 0.00 0.00 0.00 2.41
2817 19744 9.286946 CAAATGCTGATTCTTCTTCTTCATTAC 57.713 33.333 0.00 0.00 0.00 1.89
2818 19745 9.234827 TCAAATGCTGATTCTTCTTCTTCATTA 57.765 29.630 0.00 0.00 0.00 1.90
2821 19763 7.698506 ATCAAATGCTGATTCTTCTTCTTCA 57.301 32.000 0.00 0.00 42.46 3.02
2905 19850 9.334693 GATCCATACGAAATTTAGATGCAATTC 57.665 33.333 5.22 0.00 0.00 2.17
2933 19882 3.412386 CAAACTTGGGAGGGTGAAGTAG 58.588 50.000 0.00 0.00 29.71 2.57
2949 19898 0.251341 AGAAGCGATTGGGCCAAACT 60.251 50.000 24.97 17.71 0.00 2.66
2974 19923 3.149196 GGGTCAGAAAAGAGTTGCATGA 58.851 45.455 0.00 0.00 0.00 3.07
2988 19937 1.001633 GGCGTTCTTACTTGGGTCAGA 59.998 52.381 0.00 0.00 0.00 3.27
2995 19944 3.314080 TGAAAAGGTGGCGTTCTTACTTG 59.686 43.478 0.00 0.00 0.00 3.16
3006 19963 4.082463 TGACCGATTATTTGAAAAGGTGGC 60.082 41.667 0.00 0.00 0.00 5.01
3023 19980 1.541379 TCCAGTCTCGAATTGACCGA 58.459 50.000 0.05 0.00 35.21 4.69
3029 19986 5.109903 CGGTAGAAAATCCAGTCTCGAATT 58.890 41.667 0.00 0.00 0.00 2.17
3030 19987 4.159879 ACGGTAGAAAATCCAGTCTCGAAT 59.840 41.667 0.00 0.00 0.00 3.34
3031 19988 3.508793 ACGGTAGAAAATCCAGTCTCGAA 59.491 43.478 0.00 0.00 0.00 3.71
3032 19989 3.087031 ACGGTAGAAAATCCAGTCTCGA 58.913 45.455 0.00 0.00 0.00 4.04
3033 19990 3.179830 CACGGTAGAAAATCCAGTCTCG 58.820 50.000 0.00 0.00 0.00 4.04
3124 20082 9.691362 CTGCCAAAAGAAAGCTTTAAAATAGTA 57.309 29.630 12.68 0.00 43.32 1.82
3131 20089 5.337578 ACACTGCCAAAAGAAAGCTTTAA 57.662 34.783 12.68 0.00 43.32 1.52
3274 20235 4.403432 CAGCAATGGTGGAATAATGGTTCT 59.597 41.667 4.25 0.00 0.00 3.01
3304 21668 0.178861 TGGGAAGAGGAAGAAGGCCT 60.179 55.000 0.00 0.00 38.81 5.19
3305 21669 0.922626 ATGGGAAGAGGAAGAAGGCC 59.077 55.000 0.00 0.00 0.00 5.19
3306 21670 1.561542 TGATGGGAAGAGGAAGAAGGC 59.438 52.381 0.00 0.00 0.00 4.35
3307 21671 2.092699 GGTGATGGGAAGAGGAAGAAGG 60.093 54.545 0.00 0.00 0.00 3.46
3308 21672 2.092699 GGGTGATGGGAAGAGGAAGAAG 60.093 54.545 0.00 0.00 0.00 2.85
3309 21673 1.916181 GGGTGATGGGAAGAGGAAGAA 59.084 52.381 0.00 0.00 0.00 2.52
3310 21674 1.203428 TGGGTGATGGGAAGAGGAAGA 60.203 52.381 0.00 0.00 0.00 2.87
3335 21706 4.841422 AGATTTGCACACAGAGCTATTCT 58.159 39.130 0.00 0.00 36.25 2.40
3365 21736 4.754372 TTCTGCTGTGCACTTGAAATAG 57.246 40.909 19.41 6.05 33.79 1.73
3381 21752 5.426240 CATTTCGTTCAAAAGCTTTTCTGC 58.574 37.500 21.45 12.52 0.00 4.26
3390 21761 7.485595 TGATATCATGTGCATTTCGTTCAAAAG 59.514 33.333 0.00 0.00 0.00 2.27
3488 21859 7.465353 TGGATGAACTATTTTTGAATGCAGA 57.535 32.000 0.00 0.00 0.00 4.26
3555 21926 5.177511 TGAGCTTGAACGAAGATGTTACTTG 59.822 40.000 0.00 0.00 32.82 3.16
3644 22023 8.165239 ACTTGTAAGCACTGTTGATGAATTAA 57.835 30.769 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.