Multiple sequence alignment - TraesCS6D01G197600

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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 TraesCS6D01G197600 chr6D 100.000 2288 0 0 1 2288 275663593 275665880 0.000000e+00 4226
1 TraesCS6D01G197600 chr6D 83.834 699 98 8 2 686 211073850 211074547 0.000000e+00 651
2 TraesCS6D01G197600 chr6A 87.453 1602 96 45 699 2288 396288485 396289993 0.000000e+00 1748
3 TraesCS6D01G197600 chr6B 94.511 583 29 3 690 1270 437458546 437459127 0.000000e+00 896
4 TraesCS6D01G197600 chr6B 95.610 205 9 0 1398 1602 437459209 437459413 1.690000e-86 329
5 TraesCS6D01G197600 chr6B 95.122 205 10 0 1398 1602 437460140 437460344 7.880000e-85 324
6 TraesCS6D01G197600 chr6B 90.336 238 21 2 1837 2074 437459544 437459779 6.140000e-81 311
7 TraesCS6D01G197600 chr6B 90.336 238 21 2 1837 2074 437460475 437460710 6.140000e-81 311
8 TraesCS6D01G197600 chr6B 92.453 106 5 1 2186 2288 437469748 437469853 5.090000e-32 148
9 TraesCS6D01G197600 chr6B 92.857 98 7 0 1173 1270 437459961 437460058 2.370000e-30 143
10 TraesCS6D01G197600 chr2D 85.272 679 93 4 1 673 296351772 296352449 0.000000e+00 693
11 TraesCS6D01G197600 chr2D 80.383 678 119 12 1 669 147539284 147538612 9.430000e-139 503
12 TraesCS6D01G197600 chr4B 84.571 700 89 12 1 687 102503004 102502311 0.000000e+00 676
13 TraesCS6D01G197600 chr2A 84.706 680 95 6 1 673 367611469 367612146 0.000000e+00 671
14 TraesCS6D01G197600 chr1A 83.481 678 98 11 1 669 279349049 279348377 8.980000e-174 619
15 TraesCS6D01G197600 chr2B 82.133 694 109 13 1 685 253699120 253699807 4.240000e-162 580
16 TraesCS6D01G197600 chr2B 81.662 698 114 12 1 688 208038219 208038912 3.300000e-158 568
17 TraesCS6D01G197600 chr3B 80.236 678 123 7 19 688 388114618 388115292 1.220000e-137 499
18 TraesCS6D01G197600 chr7D 81.250 192 19 10 2024 2206 457147289 457147472 3.060000e-29 139
19 TraesCS6D01G197600 chr7A 82.171 129 15 6 2024 2149 543343282 543343159 1.120000e-18 104
20 TraesCS6D01G197600 chr7B 81.203 133 19 6 2024 2151 479232815 479232946 4.020000e-18 102


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 TraesCS6D01G197600 chr6D 275663593 275665880 2287 False 4226.000000 4226 100.000000 1 2288 1 chr6D.!!$F2 2287
1 TraesCS6D01G197600 chr6D 211073850 211074547 697 False 651.000000 651 83.834000 2 686 1 chr6D.!!$F1 684
2 TraesCS6D01G197600 chr6A 396288485 396289993 1508 False 1748.000000 1748 87.453000 699 2288 1 chr6A.!!$F1 1589
3 TraesCS6D01G197600 chr6B 437458546 437460710 2164 False 385.666667 896 93.128667 690 2074 6 chr6B.!!$F2 1384
4 TraesCS6D01G197600 chr2D 296351772 296352449 677 False 693.000000 693 85.272000 1 673 1 chr2D.!!$F1 672
5 TraesCS6D01G197600 chr2D 147538612 147539284 672 True 503.000000 503 80.383000 1 669 1 chr2D.!!$R1 668
6 TraesCS6D01G197600 chr4B 102502311 102503004 693 True 676.000000 676 84.571000 1 687 1 chr4B.!!$R1 686
7 TraesCS6D01G197600 chr2A 367611469 367612146 677 False 671.000000 671 84.706000 1 673 1 chr2A.!!$F1 672
8 TraesCS6D01G197600 chr1A 279348377 279349049 672 True 619.000000 619 83.481000 1 669 1 chr1A.!!$R1 668
9 TraesCS6D01G197600 chr2B 253699120 253699807 687 False 580.000000 580 82.133000 1 685 1 chr2B.!!$F2 684
10 TraesCS6D01G197600 chr2B 208038219 208038912 693 False 568.000000 568 81.662000 1 688 1 chr2B.!!$F1 687
11 TraesCS6D01G197600 chr3B 388114618 388115292 674 False 499.000000 499 80.236000 19 688 1 chr3B.!!$F1 669


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
669 688 0.336737 CTGGTAGGAGGGAGAGTGGT 59.663 60.0 0.0 0.0 0.0 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1921 2909 0.25064 AGAGTGCTTGGGACTTGCTG 60.251 55.0 0.0 0.0 0.0 4.41 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
55 56 5.410746 AGTTTTGATGCATGATATAGCCTCG 59.589 40.000 2.46 0.00 0.00 4.63
73 74 2.557056 CTCGAGACACTTGTGGGAGTAA 59.443 50.000 6.58 0.00 0.00 2.24
83 84 5.065218 CACTTGTGGGAGTAATTGCTATCAC 59.935 44.000 16.36 16.36 0.00 3.06
86 87 6.553953 TGTGGGAGTAATTGCTATCACTTA 57.446 37.500 20.67 7.18 0.00 2.24
197 203 1.825474 CTTCAAGCCGGAGTCCTAAGA 59.175 52.381 5.05 0.00 0.00 2.10
203 209 3.438183 AGCCGGAGTCCTAAGAAAACTA 58.562 45.455 5.05 0.00 0.00 2.24
286 293 0.954452 CATTCTTAAGGGATGCGGGC 59.046 55.000 1.85 0.00 0.00 6.13
295 302 1.656441 GGATGCGGGCATTCATGAC 59.344 57.895 7.68 0.00 36.70 3.06
322 329 7.658179 TTTTTATTATTTGGCGAACAATGCA 57.342 28.000 1.16 0.00 39.21 3.96
367 374 7.682787 AGATAAGTGTGATCAATACCTCCTT 57.317 36.000 0.00 0.00 0.00 3.36
419 426 8.891985 TCACTTTCATGCTAGGAGAGATATAT 57.108 34.615 0.00 0.00 0.00 0.86
482 490 4.464008 ACACTTGAGAGATTTTGCCAAGA 58.536 39.130 0.00 0.00 38.02 3.02
503 511 1.405872 TGCATGATTCCCAATGAGGC 58.594 50.000 0.00 0.00 35.39 4.70
551 559 3.452755 TGTCGCGGATTTCATATCTGT 57.547 42.857 6.13 0.00 0.00 3.41
567 575 3.263369 TCTGTAGTAACTGTGGGGGAA 57.737 47.619 0.00 0.00 0.00 3.97
587 595 4.940654 GGAATTGAGAGGAGTTTCTGAAGG 59.059 45.833 0.00 0.00 0.00 3.46
658 677 1.975680 GGAGGTGTTTGACTGGTAGGA 59.024 52.381 0.00 0.00 0.00 2.94
669 688 0.336737 CTGGTAGGAGGGAGAGTGGT 59.663 60.000 0.00 0.00 0.00 4.16
673 692 1.064832 GTAGGAGGGAGAGTGGTACGT 60.065 57.143 0.00 0.00 0.00 3.57
735 754 2.163818 TTCGTCCGGCCAATGATATC 57.836 50.000 2.24 0.00 0.00 1.63
928 952 1.961277 CGACCCTGCTTGCGAAAGT 60.961 57.895 4.74 0.00 0.00 2.66
994 1018 1.122019 ACTGAAGCAAGGGAGGTCGT 61.122 55.000 0.00 0.00 0.00 4.34
1068 1092 1.667154 CCGGCATGGAGAAGACGAGA 61.667 60.000 0.00 0.00 42.00 4.04
1292 1340 0.898320 CACGGTGAGGAATGAGGAGT 59.102 55.000 0.74 0.00 0.00 3.85
1409 1457 2.690786 TGCGGAAAAGCAGTTATACGT 58.309 42.857 0.00 0.00 42.92 3.57
1410 1458 3.847542 TGCGGAAAAGCAGTTATACGTA 58.152 40.909 0.00 0.00 42.92 3.57
1414 1462 5.233689 GCGGAAAAGCAGTTATACGTATTCT 59.766 40.000 14.33 9.91 37.05 2.40
1438 1486 0.042794 GTGTTAACCGTGTCGTGTGC 60.043 55.000 2.48 0.00 0.00 4.57
1546 1597 3.067106 ACGGTACAATTGTCAGCAGAAG 58.933 45.455 15.85 2.21 0.00 2.85
1595 1646 1.003116 GTGCTTGATCATGACGATGCC 60.003 52.381 12.54 0.00 33.17 4.40
1618 1669 4.377431 CGGTTTCAAGATTCCTGACTTTCG 60.377 45.833 0.00 0.00 0.00 3.46
1636 1687 7.230913 TGACTTTCGGGTGAAATGGTTAATAAA 59.769 33.333 0.00 0.00 42.90 1.40
1637 1688 7.953752 ACTTTCGGGTGAAATGGTTAATAAAA 58.046 30.769 0.00 0.00 42.90 1.52
1692 1743 1.468054 GCATGGCCAATTCGTCTCAAC 60.468 52.381 10.96 0.00 0.00 3.18
1723 2705 7.715686 CACCCTCTGTTCCTAAATCCTAAATAC 59.284 40.741 0.00 0.00 0.00 1.89
1726 2708 9.110502 CCTCTGTTCCTAAATCCTAAATACAAC 57.889 37.037 0.00 0.00 0.00 3.32
1732 2714 8.259049 TCCTAAATCCTAAATACAACACGTTG 57.741 34.615 8.35 8.35 45.58 4.10
1756 2738 9.672086 TTGTTTCATTTCAAGTTCCTAAATACG 57.328 29.630 0.00 0.00 0.00 3.06
1757 2739 8.293867 TGTTTCATTTCAAGTTCCTAAATACGG 58.706 33.333 0.00 0.00 0.00 4.02
1758 2740 8.508875 GTTTCATTTCAAGTTCCTAAATACGGA 58.491 33.333 0.00 0.00 0.00 4.69
1759 2741 7.843490 TCATTTCAAGTTCCTAAATACGGAG 57.157 36.000 0.00 0.00 0.00 4.63
1813 2795 9.656323 AGAGGTAGTAAAACATACCAGATCATA 57.344 33.333 0.00 0.00 43.33 2.15
1815 2797 9.656323 AGGTAGTAAAACATACCAGATCATAGA 57.344 33.333 0.00 0.00 43.33 1.98
1822 2804 9.479549 AAAACATACCAGATCATAGAAAACCAT 57.520 29.630 0.00 0.00 0.00 3.55
1823 2805 9.479549 AAACATACCAGATCATAGAAAACCATT 57.520 29.630 0.00 0.00 0.00 3.16
1825 2807 9.561069 ACATACCAGATCATAGAAAACCATTAC 57.439 33.333 0.00 0.00 0.00 1.89
1826 2808 9.003658 CATACCAGATCATAGAAAACCATTACC 57.996 37.037 0.00 0.00 0.00 2.85
1827 2809 7.213178 ACCAGATCATAGAAAACCATTACCT 57.787 36.000 0.00 0.00 0.00 3.08
1828 2810 7.283329 ACCAGATCATAGAAAACCATTACCTC 58.717 38.462 0.00 0.00 0.00 3.85
1829 2811 7.092444 ACCAGATCATAGAAAACCATTACCTCA 60.092 37.037 0.00 0.00 0.00 3.86
1830 2812 7.775093 CCAGATCATAGAAAACCATTACCTCAA 59.225 37.037 0.00 0.00 0.00 3.02
1831 2813 9.177608 CAGATCATAGAAAACCATTACCTCAAA 57.822 33.333 0.00 0.00 0.00 2.69
1832 2814 9.753674 AGATCATAGAAAACCATTACCTCAAAA 57.246 29.630 0.00 0.00 0.00 2.44
1862 2844 4.768448 TCATAGAAAACCACACTCCGACTA 59.232 41.667 0.00 0.00 0.00 2.59
1867 2849 1.287815 CCACACTCCGACTACGCAA 59.712 57.895 0.00 0.00 38.29 4.85
1868 2850 0.319211 CCACACTCCGACTACGCAAA 60.319 55.000 0.00 0.00 38.29 3.68
1883 2871 2.027745 ACGCAAACAGATCCATCTCAGT 60.028 45.455 0.00 0.00 34.22 3.41
1889 2877 6.644592 GCAAACAGATCCATCTCAGTAGTATC 59.355 42.308 0.00 0.00 34.22 2.24
1921 2909 4.383052 GCGATCATAGCACATACTGTACAC 59.617 45.833 0.00 0.00 34.19 2.90
1940 2928 0.250640 CAGCAAGTCCCAAGCACTCT 60.251 55.000 0.00 0.00 0.00 3.24
1941 2929 0.475906 AGCAAGTCCCAAGCACTCTT 59.524 50.000 0.00 0.00 0.00 2.85
1978 2966 1.850640 CGGCATACGTATTCGGTGC 59.149 57.895 5.03 7.46 45.13 5.01
2003 2991 8.227731 CTACAGTAGCTTTTATTTTTGTTGGC 57.772 34.615 0.00 0.00 0.00 4.52
2004 2992 5.689961 ACAGTAGCTTTTATTTTTGTTGGCG 59.310 36.000 0.00 0.00 0.00 5.69
2035 3023 5.448654 AGAGGCTGCCATTTTATTACATCA 58.551 37.500 22.65 0.00 0.00 3.07
2074 3062 0.673985 GGTTTGCCTCCTCAACAACC 59.326 55.000 0.00 0.00 0.00 3.77
2077 3065 1.360393 TTGCCTCCTCAACAACCCCT 61.360 55.000 0.00 0.00 0.00 4.79
2080 3068 1.303643 CTCCTCAACAACCCCTGGC 60.304 63.158 0.00 0.00 0.00 4.85
2082 3070 2.283173 CTCAACAACCCCTGGCCC 60.283 66.667 0.00 0.00 0.00 5.80
2083 3071 3.886550 CTCAACAACCCCTGGCCCC 62.887 68.421 0.00 0.00 0.00 5.80
2100 3088 2.203126 CGGGGCCTGCTGATCTTC 60.203 66.667 0.84 0.00 0.00 2.87
2161 3149 0.774908 TACAACCCCAACCCCAAGAG 59.225 55.000 0.00 0.00 0.00 2.85
2180 3168 6.480320 CCAAGAGTAACATTAGCCACAGATAC 59.520 42.308 0.00 0.00 0.00 2.24
2182 3170 7.425224 AGAGTAACATTAGCCACAGATACTT 57.575 36.000 0.00 0.00 0.00 2.24
2184 3172 8.978472 AGAGTAACATTAGCCACAGATACTTTA 58.022 33.333 0.00 0.00 0.00 1.85
2188 3176 2.604046 AGCCACAGATACTTTAGCCG 57.396 50.000 0.00 0.00 0.00 5.52
2207 3195 2.493547 GCTGGTTGCCAAGGATACC 58.506 57.895 0.00 0.00 30.80 2.73
2218 3206 3.670625 CCAAGGATACCGAAGAACAACA 58.329 45.455 0.00 0.00 37.17 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 3.437049 GCAATTACTCCCACAAGTGTCTC 59.563 47.826 0.00 0.00 0.00 3.36
148 154 7.346751 TCTCAACTTCCACTTAAGCATTTTT 57.653 32.000 1.29 0.00 0.00 1.94
165 171 2.548920 CGGCTTGAAGAACCTCTCAACT 60.549 50.000 0.00 0.00 0.00 3.16
197 203 4.075963 TGTACTTGGGCTTCGTAGTTTT 57.924 40.909 0.00 0.00 0.00 2.43
203 209 0.763035 AGGTTGTACTTGGGCTTCGT 59.237 50.000 0.00 0.00 0.00 3.85
295 302 7.578736 GCATTGTTCGCCAAATAATAAAAATCG 59.421 33.333 0.00 0.00 36.44 3.34
322 329 2.041265 AGGAACGGGATGAGGCCT 59.959 61.111 3.86 3.86 0.00 5.19
367 374 8.621532 AGTTTTGCATGAAAGTATTAGTGAGA 57.378 30.769 0.00 0.00 0.00 3.27
419 426 5.189539 TCATGGAGGTGAAATGACACATAGA 59.810 40.000 0.00 0.00 41.88 1.98
482 490 2.367567 GCCTCATTGGGAATCATGCAAT 59.632 45.455 0.00 0.00 36.00 3.56
503 511 1.053264 ATGTGGCTCTAGAGGGCTGG 61.053 60.000 21.23 0.00 0.00 4.85
551 559 4.431378 TCTCAATTCCCCCACAGTTACTA 58.569 43.478 0.00 0.00 0.00 1.82
567 575 6.019748 TCTACCTTCAGAAACTCCTCTCAAT 58.980 40.000 0.00 0.00 0.00 2.57
621 636 7.253905 ACACCTCCTAGCAAAGAGTAATAAA 57.746 36.000 0.00 0.00 0.00 1.40
658 677 1.546961 CTGAACGTACCACTCTCCCT 58.453 55.000 0.00 0.00 0.00 4.20
669 688 1.269723 CAGTCAGGTGAGCTGAACGTA 59.730 52.381 16.69 0.00 32.15 3.57
688 707 2.165437 GTCACTGCTTCCAAACAAACCA 59.835 45.455 0.00 0.00 0.00 3.67
735 754 2.631418 TCTAAGTTTGAGCCGTCTCG 57.369 50.000 0.00 0.00 42.26 4.04
903 927 3.764466 AAGCAGGGTCGAGGCGAG 61.764 66.667 0.00 0.00 36.23 5.03
928 952 2.124277 TCTCTAGACAAGCTGCCGTA 57.876 50.000 0.00 0.00 0.00 4.02
1270 1294 1.599047 CTCATTCCTCACCGTGGCT 59.401 57.895 0.00 0.00 0.00 4.75
1385 1433 4.912766 CGTATAACTGCTTTTCCGCAAAAA 59.087 37.500 0.00 0.00 39.80 1.94
1386 1434 4.023878 ACGTATAACTGCTTTTCCGCAAAA 60.024 37.500 0.00 0.00 39.80 2.44
1387 1435 3.499157 ACGTATAACTGCTTTTCCGCAAA 59.501 39.130 0.00 0.00 39.80 3.68
1388 1436 3.068560 ACGTATAACTGCTTTTCCGCAA 58.931 40.909 0.00 0.00 39.80 4.85
1389 1437 2.690786 ACGTATAACTGCTTTTCCGCA 58.309 42.857 0.00 0.00 38.40 5.69
1390 1438 5.233689 AGAATACGTATAACTGCTTTTCCGC 59.766 40.000 8.83 0.00 0.00 5.54
1391 1439 6.823678 AGAATACGTATAACTGCTTTTCCG 57.176 37.500 8.83 0.00 0.00 4.30
1394 1442 9.609346 ACCATAAGAATACGTATAACTGCTTTT 57.391 29.630 8.83 0.00 0.00 2.27
1395 1443 9.042008 CACCATAAGAATACGTATAACTGCTTT 57.958 33.333 8.83 0.20 0.00 3.51
1396 1444 8.202137 ACACCATAAGAATACGTATAACTGCTT 58.798 33.333 8.83 9.84 0.00 3.91
1397 1445 7.723324 ACACCATAAGAATACGTATAACTGCT 58.277 34.615 8.83 0.00 0.00 4.24
1398 1446 7.941795 ACACCATAAGAATACGTATAACTGC 57.058 36.000 8.83 0.00 0.00 4.40
1402 1450 9.462174 CGGTTAACACCATAAGAATACGTATAA 57.538 33.333 8.83 0.00 44.53 0.98
1403 1451 8.629158 ACGGTTAACACCATAAGAATACGTATA 58.371 33.333 8.83 0.00 44.53 1.47
1404 1452 7.436080 CACGGTTAACACCATAAGAATACGTAT 59.564 37.037 8.10 1.14 44.53 3.06
1405 1453 6.751425 CACGGTTAACACCATAAGAATACGTA 59.249 38.462 8.10 0.00 44.53 3.57
1406 1454 5.577945 CACGGTTAACACCATAAGAATACGT 59.422 40.000 8.10 0.00 44.53 3.57
1407 1455 5.577945 ACACGGTTAACACCATAAGAATACG 59.422 40.000 8.10 0.00 44.53 3.06
1408 1456 6.237648 CGACACGGTTAACACCATAAGAATAC 60.238 42.308 8.10 0.00 44.53 1.89
1409 1457 5.806502 CGACACGGTTAACACCATAAGAATA 59.193 40.000 8.10 0.00 44.53 1.75
1410 1458 4.628333 CGACACGGTTAACACCATAAGAAT 59.372 41.667 8.10 0.00 44.53 2.40
1414 1462 3.058450 CACGACACGGTTAACACCATAA 58.942 45.455 8.10 0.00 44.53 1.90
1456 1504 2.855963 GCAGCGGAAAACATCATCAATG 59.144 45.455 0.00 0.00 41.48 2.82
1546 1597 3.921677 TCAGTCTCGTAAACACCATTCC 58.078 45.455 0.00 0.00 0.00 3.01
1595 1646 4.377431 CGAAAGTCAGGAATCTTGAAACCG 60.377 45.833 0.00 0.00 0.00 4.44
1636 1687 3.094484 TGCATTCCCGGGTTTTATCTT 57.906 42.857 22.86 0.00 0.00 2.40
1637 1688 2.818751 TGCATTCCCGGGTTTTATCT 57.181 45.000 22.86 0.00 0.00 1.98
1670 1721 0.659957 GAGACGAATTGGCCATGCTC 59.340 55.000 6.09 2.32 0.00 4.26
1692 1743 4.884668 TTTAGGAACAGAGGGTGTACTG 57.115 45.455 0.00 0.00 39.03 2.74
1723 2705 6.388259 AACTTGAAATGAAACAACGTGTTG 57.612 33.333 11.02 11.02 40.14 3.33
1726 2708 5.339990 AGGAACTTGAAATGAAACAACGTG 58.660 37.500 0.00 0.00 27.25 4.49
1732 2714 8.508875 TCCGTATTTAGGAACTTGAAATGAAAC 58.491 33.333 0.00 0.00 41.75 2.78
1744 2726 9.978044 AATGTCTTATACTCCGTATTTAGGAAC 57.022 33.333 0.00 0.00 37.32 3.62
1755 2737 6.422776 ACTGCAAAAATGTCTTATACTCCG 57.577 37.500 0.00 0.00 0.00 4.63
1756 2738 7.816640 TGAACTGCAAAAATGTCTTATACTCC 58.183 34.615 0.00 0.00 0.00 3.85
1757 2739 9.677567 TTTGAACTGCAAAAATGTCTTATACTC 57.322 29.630 0.00 0.00 43.18 2.59
1804 2786 7.282585 TGAGGTAATGGTTTTCTATGATCTGG 58.717 38.462 0.00 0.00 0.00 3.86
1832 2814 7.308589 CGGAGTGTGGTTTTCTATGATCTTTTT 60.309 37.037 0.00 0.00 0.00 1.94
1833 2815 6.149474 CGGAGTGTGGTTTTCTATGATCTTTT 59.851 38.462 0.00 0.00 0.00 2.27
1834 2816 5.643777 CGGAGTGTGGTTTTCTATGATCTTT 59.356 40.000 0.00 0.00 0.00 2.52
1835 2817 5.046591 TCGGAGTGTGGTTTTCTATGATCTT 60.047 40.000 0.00 0.00 0.00 2.40
1836 2818 4.466370 TCGGAGTGTGGTTTTCTATGATCT 59.534 41.667 0.00 0.00 0.00 2.75
1837 2819 4.567159 GTCGGAGTGTGGTTTTCTATGATC 59.433 45.833 0.00 0.00 0.00 2.92
1838 2820 4.223032 AGTCGGAGTGTGGTTTTCTATGAT 59.777 41.667 0.00 0.00 0.00 2.45
1839 2821 3.576982 AGTCGGAGTGTGGTTTTCTATGA 59.423 43.478 0.00 0.00 0.00 2.15
1840 2822 3.926616 AGTCGGAGTGTGGTTTTCTATG 58.073 45.455 0.00 0.00 0.00 2.23
1841 2823 4.380233 CGTAGTCGGAGTGTGGTTTTCTAT 60.380 45.833 0.00 0.00 0.00 1.98
1842 2824 3.058016 CGTAGTCGGAGTGTGGTTTTCTA 60.058 47.826 0.00 0.00 0.00 2.10
1853 2835 0.956633 TCTGTTTGCGTAGTCGGAGT 59.043 50.000 0.00 0.00 38.80 3.85
1862 2844 2.027745 ACTGAGATGGATCTGTTTGCGT 60.028 45.455 0.00 0.00 37.25 5.24
1867 2849 6.377080 TGGATACTACTGAGATGGATCTGTT 58.623 40.000 0.00 0.00 35.41 3.16
1868 2850 5.958321 TGGATACTACTGAGATGGATCTGT 58.042 41.667 0.00 0.00 35.41 3.41
1883 2871 5.728637 ATGATCGCTGAACATGGATACTA 57.271 39.130 0.00 0.00 37.61 1.82
1889 2877 2.222678 GTGCTATGATCGCTGAACATGG 59.777 50.000 0.00 8.73 0.00 3.66
1921 2909 0.250640 AGAGTGCTTGGGACTTGCTG 60.251 55.000 0.00 0.00 0.00 4.41
1931 2919 4.429108 GCCTAGTTAGAGAAGAGTGCTTG 58.571 47.826 0.00 0.00 33.61 4.01
1940 2928 3.132289 CCGTGATTGGCCTAGTTAGAGAA 59.868 47.826 3.32 0.00 0.00 2.87
1941 2929 2.693591 CCGTGATTGGCCTAGTTAGAGA 59.306 50.000 3.32 0.00 0.00 3.10
1978 2966 7.060633 CGCCAACAAAAATAAAAGCTACTGTAG 59.939 37.037 10.48 10.48 0.00 2.74
2003 2991 4.577246 GCAGCCTCTACCGCTCCG 62.577 72.222 0.00 0.00 33.17 4.63
2004 2992 4.228567 GGCAGCCTCTACCGCTCC 62.229 72.222 3.29 0.00 33.17 4.70
2011 2999 6.600388 TGATGTAATAAAATGGCAGCCTCTA 58.400 36.000 14.15 0.00 0.00 2.43
2035 3023 2.093341 CCTTATGCAGCAATGGCCTTTT 60.093 45.455 3.32 0.00 42.56 2.27
2082 3070 3.764160 GAAGATCAGCAGGCCCCGG 62.764 68.421 0.00 0.00 0.00 5.73
2083 3071 2.203126 GAAGATCAGCAGGCCCCG 60.203 66.667 0.00 0.00 0.00 5.73
2161 3149 7.041984 GGCTAAAGTATCTGTGGCTAATGTTAC 60.042 40.741 0.00 0.00 0.00 2.50
2180 3168 2.877691 GCAACCAGCCGGCTAAAG 59.122 61.111 32.30 22.97 37.23 1.85
2204 3192 8.664798 CATGATTTCTTATGTTGTTCTTCGGTA 58.335 33.333 0.00 0.00 0.00 4.02
2207 3195 8.955061 AACATGATTTCTTATGTTGTTCTTCG 57.045 30.769 0.00 0.00 43.66 3.79
2250 3241 7.743838 GCAAATTAATAAGAATTTTTGCGTGCA 59.256 29.630 5.58 0.00 38.26 4.57
2261 3252 7.499232 AGGTGTAGCGAGCAAATTAATAAGAAT 59.501 33.333 0.00 0.00 0.00 2.40



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

AutoCloner maintained by Alex Coulton.