Multiple sequence alignment - TraesCS5A01G044100

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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 TraesCS5A01G044100 chr5A 100.000 2312 0 0 1 2312 40628011 40630322 0.000000e+00 4270
1 TraesCS5A01G044100 chr5A 87.162 740 61 20 613 1334 40684334 40685057 0.000000e+00 809
2 TraesCS5A01G044100 chr5A 87.518 705 40 17 614 1312 40812946 40813608 0.000000e+00 771
3 TraesCS5A01G044100 chr5A 84.910 782 65 36 613 1384 40934446 40935184 0.000000e+00 741
4 TraesCS5A01G044100 chr5A 83.256 215 25 3 1 212 567688831 567689037 1.090000e-43 187
5 TraesCS5A01G044100 chr5B 88.740 1421 112 28 1 1393 54507696 54509096 0.000000e+00 1694
6 TraesCS5A01G044100 chr5B 87.785 745 60 17 613 1345 54549121 54549846 0.000000e+00 843
7 TraesCS5A01G044100 chr5B 86.604 739 48 21 613 1345 54709942 54710635 0.000000e+00 769
8 TraesCS5A01G044100 chr5B 77.958 617 110 12 6 609 34893039 34893642 1.690000e-96 363
9 TraesCS5A01G044100 chr5B 87.023 131 10 6 1553 1680 55029215 55029341 8.610000e-30 141
10 TraesCS5A01G044100 chr5D 87.092 1410 123 32 1 1393 51636548 51637915 0.000000e+00 1541
11 TraesCS5A01G044100 chr5D 87.626 792 66 17 613 1393 51851926 51852696 0.000000e+00 891
12 TraesCS5A01G044100 chr5D 84.591 941 93 23 1390 2312 51637962 51638868 0.000000e+00 887
13 TraesCS5A01G044100 chr5D 87.936 746 58 20 613 1345 51674918 51675644 0.000000e+00 850
14 TraesCS5A01G044100 chr5D 87.027 740 50 12 613 1345 51697979 51698679 0.000000e+00 793
15 TraesCS5A01G044100 chr5D 80.328 549 89 10 83 615 530362272 530361727 4.630000e-107 398
16 TraesCS5A01G044100 chr5D 93.137 102 4 2 1562 1662 51893796 51893895 1.850000e-31 147
17 TraesCS5A01G044100 chr7D 79.777 628 100 16 1 615 145910087 145910700 4.560000e-117 431
18 TraesCS5A01G044100 chr7D 80.261 537 84 16 89 611 269706777 269707305 3.600000e-103 385
19 TraesCS5A01G044100 chr6D 79.430 632 97 19 1 614 13062164 13062780 1.280000e-112 416
20 TraesCS5A01G044100 chr6D 84.058 207 21 3 13 215 305268962 305268764 3.030000e-44 189
21 TraesCS5A01G044100 chr2A 79.575 612 98 16 13 610 2702079 2702677 1.650000e-111 412
22 TraesCS5A01G044100 chr2A 78.710 620 104 14 11 615 768727652 768727046 2.790000e-104 388
23 TraesCS5A01G044100 chr4A 80.183 545 88 12 79 610 584075907 584075370 7.750000e-105 390
24 TraesCS5A01G044100 chr3D 80.144 554 84 15 64 599 530410739 530410194 7.750000e-105 390
25 TraesCS5A01G044100 chr7A 77.476 626 110 25 1 613 669066196 669066803 1.700000e-91 346
26 TraesCS5A01G044100 chr1B 78.835 515 92 11 106 608 138897281 138896772 4.760000e-87 331
27 TraesCS5A01G044100 chr1A 77.376 442 73 16 1 437 558547082 558547501 1.070000e-58 237


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 TraesCS5A01G044100 chr5A 40628011 40630322 2311 False 4270 4270 100.0000 1 2312 1 chr5A.!!$F1 2311
1 TraesCS5A01G044100 chr5A 40684334 40685057 723 False 809 809 87.1620 613 1334 1 chr5A.!!$F2 721
2 TraesCS5A01G044100 chr5A 40812946 40813608 662 False 771 771 87.5180 614 1312 1 chr5A.!!$F3 698
3 TraesCS5A01G044100 chr5A 40934446 40935184 738 False 741 741 84.9100 613 1384 1 chr5A.!!$F4 771
4 TraesCS5A01G044100 chr5B 54507696 54509096 1400 False 1694 1694 88.7400 1 1393 1 chr5B.!!$F2 1392
5 TraesCS5A01G044100 chr5B 54549121 54549846 725 False 843 843 87.7850 613 1345 1 chr5B.!!$F3 732
6 TraesCS5A01G044100 chr5B 54709942 54710635 693 False 769 769 86.6040 613 1345 1 chr5B.!!$F4 732
7 TraesCS5A01G044100 chr5B 34893039 34893642 603 False 363 363 77.9580 6 609 1 chr5B.!!$F1 603
8 TraesCS5A01G044100 chr5D 51636548 51638868 2320 False 1214 1541 85.8415 1 2312 2 chr5D.!!$F5 2311
9 TraesCS5A01G044100 chr5D 51851926 51852696 770 False 891 891 87.6260 613 1393 1 chr5D.!!$F3 780
10 TraesCS5A01G044100 chr5D 51674918 51675644 726 False 850 850 87.9360 613 1345 1 chr5D.!!$F1 732
11 TraesCS5A01G044100 chr5D 51697979 51698679 700 False 793 793 87.0270 613 1345 1 chr5D.!!$F2 732
12 TraesCS5A01G044100 chr5D 530361727 530362272 545 True 398 398 80.3280 83 615 1 chr5D.!!$R1 532
13 TraesCS5A01G044100 chr7D 145910087 145910700 613 False 431 431 79.7770 1 615 1 chr7D.!!$F1 614
14 TraesCS5A01G044100 chr7D 269706777 269707305 528 False 385 385 80.2610 89 611 1 chr7D.!!$F2 522
15 TraesCS5A01G044100 chr6D 13062164 13062780 616 False 416 416 79.4300 1 614 1 chr6D.!!$F1 613
16 TraesCS5A01G044100 chr2A 2702079 2702677 598 False 412 412 79.5750 13 610 1 chr2A.!!$F1 597
17 TraesCS5A01G044100 chr2A 768727046 768727652 606 True 388 388 78.7100 11 615 1 chr2A.!!$R1 604
18 TraesCS5A01G044100 chr4A 584075370 584075907 537 True 390 390 80.1830 79 610 1 chr4A.!!$R1 531
19 TraesCS5A01G044100 chr3D 530410194 530410739 545 True 390 390 80.1440 64 599 1 chr3D.!!$R1 535
20 TraesCS5A01G044100 chr7A 669066196 669066803 607 False 346 346 77.4760 1 613 1 chr7A.!!$F1 612
21 TraesCS5A01G044100 chr1B 138896772 138897281 509 True 331 331 78.8350 106 608 1 chr1B.!!$R1 502

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
222 239 0.032952 TCTTCCGGACTCGTTGGTTG 59.967 55.0 1.83 0.0 33.95 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1890 2014 0.036952 CGCTTTTCTGAGGAGCTGGA 60.037 55.0 0.0 0.0 34.33 3.86 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
134 137 2.341911 GCCTCAGATCCGGCTAGC 59.658 66.667 6.04 6.04 42.98 3.42
155 158 5.530243 AGCAGATAGGTAGGGTTTTAGTCT 58.470 41.667 0.00 0.00 0.00 3.24
222 239 0.032952 TCTTCCGGACTCGTTGGTTG 59.967 55.000 1.83 0.00 33.95 3.77
224 241 2.999739 TTCCGGACTCGTTGGTTGGC 63.000 60.000 1.83 0.00 33.95 4.52
226 243 3.047877 GGACTCGTTGGTTGGCCG 61.048 66.667 0.00 0.00 37.67 6.13
233 250 1.883021 GTTGGTTGGCCGAATGGAG 59.117 57.895 0.00 0.00 37.49 3.86
264 281 1.480954 GGAGTTCTGGCGTAGATTCCA 59.519 52.381 13.17 0.00 38.48 3.53
297 314 0.608308 GGCAGCGAGGTTAGGGTTTT 60.608 55.000 0.00 0.00 0.00 2.43
327 346 3.602390 GTATGCAACGGCGATATTTGT 57.398 42.857 16.62 0.00 45.35 2.83
344 363 8.383619 CGATATTTGTTGTTAGGTTCTTCAGAG 58.616 37.037 0.00 0.00 0.00 3.35
397 417 4.858680 GGGGCGCTGGTCCTTAGC 62.859 72.222 7.64 0.00 38.30 3.09
415 435 2.645510 CGACACGTGCACGAAGACC 61.646 63.158 42.94 26.14 43.02 3.85
443 463 4.589374 AGCTATTATCGACAAGGTTAGGCT 59.411 41.667 0.00 0.00 0.00 4.58
495 517 4.373116 GGCAGCTCGTTCCGGTGA 62.373 66.667 0.00 0.00 31.87 4.02
642 665 8.661345 AGGATAGAGGAGAACTTACAAAAAGTT 58.339 33.333 2.92 2.92 42.62 2.66
703 732 0.623723 GCCCCTTTGGTATCAGGTCA 59.376 55.000 0.00 0.00 36.04 4.02
767 812 2.279918 CCCATACGTGTAGCCGCC 60.280 66.667 0.00 0.00 0.00 6.13
845 892 2.349580 TCAAATTGCTCGAAGCTCATCG 59.650 45.455 1.24 1.24 42.97 3.84
850 901 1.880340 CTCGAAGCTCATCGTGCCC 60.880 63.158 7.63 0.00 43.19 5.36
992 1049 1.402259 ACTAGCACTAGCACTAGCACG 59.598 52.381 16.01 0.00 45.49 5.34
995 1057 1.272490 AGCACTAGCACTAGCACGAAA 59.728 47.619 4.58 0.00 45.49 3.46
1029 1091 3.659089 GACGAAGCTAGCGGGGCAA 62.659 63.158 9.55 0.00 0.00 4.52
1074 1136 1.753078 CTCCTGCTGCATGTGCCAT 60.753 57.895 1.31 0.00 41.18 4.40
1323 1385 1.271840 GGGTGTAGTGCATGGGAGGA 61.272 60.000 0.00 0.00 0.00 3.71
1399 1512 6.592798 AATGTAATACACGTATGGAAACCG 57.407 37.500 0.00 0.00 0.00 4.44
1433 1546 6.921486 TTTTACTGTACAGATGGGAGTACA 57.079 37.500 29.30 0.58 45.87 2.90
1519 1634 8.220755 AGTGCTGTGTTAATTCAAACTTTCTA 57.779 30.769 0.00 0.00 0.00 2.10
1520 1635 8.682710 AGTGCTGTGTTAATTCAAACTTTCTAA 58.317 29.630 0.00 0.00 0.00 2.10
1521 1636 8.743099 GTGCTGTGTTAATTCAAACTTTCTAAC 58.257 33.333 0.00 0.00 0.00 2.34
1656 1780 6.524101 TTTTCTGTAACCTTGCTCAAACTT 57.476 33.333 0.00 0.00 0.00 2.66
1658 1782 4.776349 TCTGTAACCTTGCTCAAACTTCA 58.224 39.130 0.00 0.00 0.00 3.02
1662 1786 6.872920 TGTAACCTTGCTCAAACTTCAAAAT 58.127 32.000 0.00 0.00 0.00 1.82
1690 1814 7.757097 AGACTTAAGACAACGCTATTATGTG 57.243 36.000 10.09 0.00 0.00 3.21
1691 1815 7.544622 AGACTTAAGACAACGCTATTATGTGA 58.455 34.615 10.09 0.00 0.00 3.58
1692 1816 8.033038 AGACTTAAGACAACGCTATTATGTGAA 58.967 33.333 10.09 0.00 0.00 3.18
1693 1817 8.186178 ACTTAAGACAACGCTATTATGTGAAG 57.814 34.615 10.09 0.00 0.00 3.02
1694 1818 7.817962 ACTTAAGACAACGCTATTATGTGAAGT 59.182 33.333 10.09 0.00 0.00 3.01
1695 1819 8.542497 TTAAGACAACGCTATTATGTGAAGTT 57.458 30.769 0.00 0.00 0.00 2.66
1696 1820 7.435068 AAGACAACGCTATTATGTGAAGTTT 57.565 32.000 0.00 0.00 0.00 2.66
1697 1821 8.542497 AAGACAACGCTATTATGTGAAGTTTA 57.458 30.769 0.00 0.00 0.00 2.01
1698 1822 8.542497 AGACAACGCTATTATGTGAAGTTTAA 57.458 30.769 0.00 0.00 0.00 1.52
1699 1823 8.995220 AGACAACGCTATTATGTGAAGTTTAAA 58.005 29.630 0.00 0.00 0.00 1.52
1700 1824 9.601971 GACAACGCTATTATGTGAAGTTTAAAA 57.398 29.630 0.00 0.00 0.00 1.52
1701 1825 9.953697 ACAACGCTATTATGTGAAGTTTAAAAA 57.046 25.926 0.00 0.00 0.00 1.94
1703 1827 8.649810 ACGCTATTATGTGAAGTTTAAAAACG 57.350 30.769 0.18 0.00 43.51 3.60
1704 1828 8.284693 ACGCTATTATGTGAAGTTTAAAAACGT 58.715 29.630 0.18 0.00 43.51 3.99
1705 1829 8.563949 CGCTATTATGTGAAGTTTAAAAACGTG 58.436 33.333 0.00 0.00 43.51 4.49
1706 1830 9.389570 GCTATTATGTGAAGTTTAAAAACGTGT 57.610 29.630 0.00 0.00 43.51 4.49
1738 1862 2.597510 AGAACAAACAGGGCGGGC 60.598 61.111 0.00 0.00 0.00 6.13
1752 1876 1.271102 GGCGGGCACATGAACTTTAAA 59.729 47.619 0.00 0.00 0.00 1.52
1753 1877 2.288518 GGCGGGCACATGAACTTTAAAA 60.289 45.455 0.00 0.00 0.00 1.52
1758 1882 6.146347 GCGGGCACATGAACTTTAAAATTTTA 59.854 34.615 6.54 6.54 0.00 1.52
1759 1883 7.307455 GCGGGCACATGAACTTTAAAATTTTAA 60.307 33.333 17.45 17.45 0.00 1.52
1760 1884 8.552034 CGGGCACATGAACTTTAAAATTTTAAA 58.448 29.630 26.52 26.52 39.53 1.52
1868 1992 9.590451 ACTTTGCACAGAAATGAAATAATATGG 57.410 29.630 6.92 0.00 0.00 2.74
1915 2039 0.884704 TCCTCAGAAAAGCGTGTGGC 60.885 55.000 0.00 0.00 44.05 5.01
1951 2075 3.640407 TGCTCCCCTGACCAGCAC 61.640 66.667 0.00 0.00 38.25 4.40
1955 2079 2.177594 CTCCCCTGACCAGCACAGAC 62.178 65.000 0.00 0.00 37.54 3.51
1957 2081 0.904865 CCCCTGACCAGCACAGACTA 60.905 60.000 0.00 0.00 37.54 2.59
1959 2083 1.347707 CCCTGACCAGCACAGACTAAA 59.652 52.381 0.00 0.00 37.54 1.85
1965 2089 3.214328 ACCAGCACAGACTAAACCTTTG 58.786 45.455 0.00 0.00 0.00 2.77
1969 2093 2.032924 GCACAGACTAAACCTTTGCGTT 59.967 45.455 0.00 0.00 29.31 4.84
1973 2097 2.542595 AGACTAAACCTTTGCGTTCACG 59.457 45.455 0.00 0.00 43.27 4.35
1985 2109 0.037697 CGTTCACGATGACCCCTCAA 60.038 55.000 0.00 0.00 43.02 3.02
1999 2123 2.689983 CCCCTCAAGTACATTGCCAATC 59.310 50.000 0.00 0.00 38.89 2.67
2019 2143 2.003658 ATTGGCCGGCAAACGCATAG 62.004 55.000 30.85 0.00 42.52 2.23
2022 2146 2.437716 CCGGCAAACGCATAGGGT 60.438 61.111 0.00 0.00 42.52 4.34
2023 2147 2.760159 CCGGCAAACGCATAGGGTG 61.760 63.158 0.00 0.00 42.52 4.61
2040 2164 4.192317 AGGGTGCGATTACTCTTTCATTC 58.808 43.478 0.00 0.00 0.00 2.67
2068 2192 8.789881 CTAGTTTTCTAGTCGGTCATATCAAG 57.210 38.462 0.00 0.00 43.42 3.02
2090 2214 3.737032 AGAAAAGCTAGCTACGGGATC 57.263 47.619 19.70 10.00 0.00 3.36
2092 2216 3.319689 AGAAAAGCTAGCTACGGGATCTC 59.680 47.826 19.70 6.00 0.00 2.75
2102 2226 6.031751 AGCTACGGGATCTCTTTCATATTC 57.968 41.667 0.00 0.00 0.00 1.75
2107 2231 7.938140 ACGGGATCTCTTTCATATTCAAAAA 57.062 32.000 0.00 0.00 0.00 1.94
2108 2232 8.525290 ACGGGATCTCTTTCATATTCAAAAAT 57.475 30.769 0.00 0.00 0.00 1.82
2109 2233 8.408601 ACGGGATCTCTTTCATATTCAAAAATG 58.591 33.333 0.00 0.00 0.00 2.32
2168 2296 9.435688 AAATGTTTGGCTATTTTAGAAATGGTC 57.564 29.630 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 1.454201 GAGGGGAGGAAAGCTTTTCG 58.546 55.000 14.05 0.00 0.00 3.46
134 137 6.096564 ACGAAGACTAAAACCCTACCTATCTG 59.903 42.308 0.00 0.00 0.00 2.90
155 158 0.391927 CCAAACATCGCCCCTACGAA 60.392 55.000 0.00 0.00 46.59 3.85
215 223 1.883021 CTCCATTCGGCCAACCAAC 59.117 57.895 2.24 0.00 34.57 3.77
216 224 1.976474 GCTCCATTCGGCCAACCAA 60.976 57.895 2.24 0.00 34.57 3.67
217 225 2.361104 GCTCCATTCGGCCAACCA 60.361 61.111 2.24 0.00 34.57 3.67
218 226 3.508840 CGCTCCATTCGGCCAACC 61.509 66.667 2.24 0.00 0.00 3.77
222 239 0.951040 CTAATCCGCTCCATTCGGCC 60.951 60.000 0.00 0.00 46.05 6.13
226 243 1.340248 TCCGTCTAATCCGCTCCATTC 59.660 52.381 0.00 0.00 0.00 2.67
233 250 1.536284 CCAGAACTCCGTCTAATCCGC 60.536 57.143 0.00 0.00 0.00 5.54
327 346 4.537135 ATCGCTCTGAAGAACCTAACAA 57.463 40.909 0.00 0.00 0.00 2.83
344 363 2.785477 CGCCATTGAATTCTTGAATCGC 59.215 45.455 7.05 2.20 0.00 4.58
397 417 2.645510 GGTCTTCGTGCACGTGTCG 61.646 63.158 35.74 22.17 40.80 4.35
415 435 3.322254 ACCTTGTCGATAATAGCTGGGAG 59.678 47.826 0.00 0.00 0.00 4.30
495 517 1.150536 ACCCAACGACCATTGCTGT 59.849 52.632 0.00 0.00 0.00 4.40
642 665 1.210478 GTTGATAAGGCCTGGAGCTCA 59.790 52.381 17.19 2.16 43.05 4.26
703 732 1.100463 TTGCAATATGGCGATGCGGT 61.100 50.000 0.00 0.00 42.91 5.68
767 812 2.999331 TCCCGAGCTCCTTTAATTTGG 58.001 47.619 8.47 0.00 0.00 3.28
801 847 1.339342 CGGGAAAAAGGTGATACGGGT 60.339 52.381 0.00 0.00 0.00 5.28
850 901 1.093972 TAGCCATGGAAATGTGCACG 58.906 50.000 18.40 0.00 0.00 5.34
992 1049 2.485814 GTCACCTGCTCCATCAAGTTTC 59.514 50.000 0.00 0.00 0.00 2.78
995 1057 0.036952 CGTCACCTGCTCCATCAAGT 60.037 55.000 0.00 0.00 0.00 3.16
1029 1091 3.310860 GAAGATCACCACCGCCCGT 62.311 63.158 0.00 0.00 0.00 5.28
1074 1136 1.748122 GAGGAGGCTCGTCACCGTA 60.748 63.158 27.34 0.00 32.03 4.02
1323 1385 8.514594 CATCAGGCCGAATATATACAACAAAAT 58.485 33.333 0.00 0.00 0.00 1.82
1422 1535 3.197766 TGACAGGAACATGTACTCCCATC 59.802 47.826 12.16 10.58 32.25 3.51
1433 1546 4.887071 TGCTTAACACTTTGACAGGAACAT 59.113 37.500 0.00 0.00 0.00 2.71
1495 1610 8.743099 GTTAGAAAGTTTGAATTAACACAGCAC 58.257 33.333 0.00 0.00 0.00 4.40
1509 1624 8.702163 AATTTGGTCAACTGTTAGAAAGTTTG 57.298 30.769 0.00 0.00 35.70 2.93
1549 1670 8.871629 TCATGTTGTATTTATTGGGTACTGTT 57.128 30.769 0.00 0.00 0.00 3.16
1642 1766 8.257306 TCTAAAATTTTGAAGTTTGAGCAAGGT 58.743 29.630 13.76 0.00 30.58 3.50
1645 1769 9.651913 AAGTCTAAAATTTTGAAGTTTGAGCAA 57.348 25.926 13.76 0.00 30.58 3.91
1656 1780 8.617809 AGCGTTGTCTTAAGTCTAAAATTTTGA 58.382 29.630 13.76 6.36 0.00 2.69
1680 1804 9.389570 ACACGTTTTTAAACTTCACATAATAGC 57.610 29.630 4.08 0.00 36.77 2.97
1713 1837 2.810852 GCCCTGTTTGTTCTCAAGAGAG 59.189 50.000 0.00 0.00 43.48 3.20
1717 1841 0.593128 CCGCCCTGTTTGTTCTCAAG 59.407 55.000 0.00 0.00 34.88 3.02
1730 1854 2.713531 AAAGTTCATGTGCCCGCCCT 62.714 55.000 0.00 0.00 0.00 5.19
1818 1942 8.337532 AGTTCATTGCAATTTAGAAAGTTTTGC 58.662 29.630 9.83 5.31 42.23 3.68
1836 1960 6.831727 TTCATTTCTGTGCAAAGTTCATTG 57.168 33.333 3.21 0.00 0.00 2.82
1868 1992 2.545742 GGAGCCCACACATGTGTTTTTC 60.546 50.000 28.64 20.83 42.83 2.29
1890 2014 0.036952 CGCTTTTCTGAGGAGCTGGA 60.037 55.000 0.00 0.00 34.33 3.86
1931 2055 2.930019 CTGGTCAGGGGAGCACCA 60.930 66.667 1.58 0.00 45.96 4.17
1938 2062 0.904865 TAGTCTGTGCTGGTCAGGGG 60.905 60.000 0.00 0.00 34.15 4.79
1942 2066 2.047061 AGGTTTAGTCTGTGCTGGTCA 58.953 47.619 0.00 0.00 0.00 4.02
1951 2075 3.603857 CGTGAACGCAAAGGTTTAGTCTG 60.604 47.826 0.00 0.00 0.00 3.51
1955 2079 3.185594 TCATCGTGAACGCAAAGGTTTAG 59.814 43.478 0.00 0.00 39.60 1.85
1957 2081 1.944024 TCATCGTGAACGCAAAGGTTT 59.056 42.857 0.00 0.00 39.60 3.27
1959 2083 0.865769 GTCATCGTGAACGCAAAGGT 59.134 50.000 0.00 0.00 39.60 3.50
1965 2089 1.810030 GAGGGGTCATCGTGAACGC 60.810 63.158 10.61 10.61 46.06 4.84
1969 2093 1.822990 GTACTTGAGGGGTCATCGTGA 59.177 52.381 0.00 0.00 0.00 4.35
1973 2097 2.945668 GCAATGTACTTGAGGGGTCATC 59.054 50.000 8.63 0.00 36.97 2.92
1999 2123 2.276863 TATGCGTTTGCCGGCCAATG 62.277 55.000 26.77 25.39 41.78 2.82
2006 2130 2.791256 CACCCTATGCGTTTGCCG 59.209 61.111 0.00 0.00 41.78 5.69
2019 2143 4.192317 AGAATGAAAGAGTAATCGCACCC 58.808 43.478 0.00 0.00 0.00 4.61
2022 2146 7.548097 ACTAGAAGAATGAAAGAGTAATCGCA 58.452 34.615 0.00 0.00 0.00 5.10
2023 2147 7.995463 ACTAGAAGAATGAAAGAGTAATCGC 57.005 36.000 0.00 0.00 0.00 4.58
2031 2155 9.627395 CGACTAGAAAACTAGAAGAATGAAAGA 57.373 33.333 10.60 0.00 0.00 2.52
2040 2164 8.622157 TGATATGACCGACTAGAAAACTAGAAG 58.378 37.037 10.60 4.68 0.00 2.85
2050 2174 7.640597 TTTCTTCTTGATATGACCGACTAGA 57.359 36.000 0.00 0.00 0.00 2.43
2060 2184 7.095857 CCGTAGCTAGCTTTTCTTCTTGATATG 60.096 40.741 24.88 5.06 0.00 1.78
2063 2187 5.112686 CCGTAGCTAGCTTTTCTTCTTGAT 58.887 41.667 24.88 0.00 0.00 2.57
2066 2190 3.514309 TCCCGTAGCTAGCTTTTCTTCTT 59.486 43.478 24.88 0.00 0.00 2.52
2067 2191 3.097614 TCCCGTAGCTAGCTTTTCTTCT 58.902 45.455 24.88 0.00 0.00 2.85
2068 2192 3.521947 TCCCGTAGCTAGCTTTTCTTC 57.478 47.619 24.88 6.16 0.00 2.87
2145 2273 7.775053 AGACCATTTCTAAAATAGCCAAACA 57.225 32.000 0.00 0.00 30.17 2.83
2166 2294 8.696410 TTGGTCAACAAACTTGAATTTAAGAC 57.304 30.769 16.20 2.95 35.79 3.01


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

AutoCloner maintained by Alex Coulton.