Multiple sequence alignment - TraesCS7A01G490300

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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 TraesCS7A01G490300 chr7A 100.000 2569 0 0 1 2569 679900983 679898415 0.000000e+00 4745
1 TraesCS7A01G490300 chr7A 89.101 890 86 5 21 899 13340852 13341741 0.000000e+00 1096
2 TraesCS7A01G490300 chr5D 89.729 886 83 6 21 900 534087085 534087968 0.000000e+00 1125
3 TraesCS7A01G490300 chr6A 89.593 884 88 4 26 906 2044963 2044081 0.000000e+00 1120
4 TraesCS7A01G490300 chr2A 89.147 903 93 5 7 906 732991045 732990145 0.000000e+00 1120
5 TraesCS7A01G490300 chrUn 89.241 883 91 4 21 900 110780340 110779459 0.000000e+00 1101
6 TraesCS7A01G490300 chr6D 88.496 904 96 7 11 908 30534569 30533668 0.000000e+00 1086
7 TraesCS7A01G490300 chr7D 88.626 888 94 5 21 903 602846101 602845216 0.000000e+00 1074
8 TraesCS7A01G490300 chr7D 89.848 788 33 23 902 1679 588040809 588040059 0.000000e+00 968
9 TraesCS7A01G490300 chr7D 88.771 472 36 9 1734 2191 588040040 588039572 1.730000e-156 562
10 TraesCS7A01G490300 chr7D 92.267 375 24 3 2194 2564 588039225 588038852 6.300000e-146 527
11 TraesCS7A01G490300 chr3B 88.588 885 98 3 27 908 764783403 764782519 0.000000e+00 1072
12 TraesCS7A01G490300 chr1D 88.281 896 103 2 14 907 191378183 191379078 0.000000e+00 1072
13 TraesCS7A01G490300 chr7B 86.974 998 70 23 902 1872 660342472 660341508 0.000000e+00 1068
14 TraesCS7A01G490300 chr7B 86.524 653 59 9 1903 2546 660341251 660340619 0.000000e+00 691


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 TraesCS7A01G490300 chr7A 679898415 679900983 2568 True 4745.000000 4745 100.000000 1 2569 1 chr7A.!!$R1 2568
1 TraesCS7A01G490300 chr7A 13340852 13341741 889 False 1096.000000 1096 89.101000 21 899 1 chr7A.!!$F1 878
2 TraesCS7A01G490300 chr5D 534087085 534087968 883 False 1125.000000 1125 89.729000 21 900 1 chr5D.!!$F1 879
3 TraesCS7A01G490300 chr6A 2044081 2044963 882 True 1120.000000 1120 89.593000 26 906 1 chr6A.!!$R1 880
4 TraesCS7A01G490300 chr2A 732990145 732991045 900 True 1120.000000 1120 89.147000 7 906 1 chr2A.!!$R1 899
5 TraesCS7A01G490300 chrUn 110779459 110780340 881 True 1101.000000 1101 89.241000 21 900 1 chrUn.!!$R1 879
6 TraesCS7A01G490300 chr6D 30533668 30534569 901 True 1086.000000 1086 88.496000 11 908 1 chr6D.!!$R1 897
7 TraesCS7A01G490300 chr7D 602845216 602846101 885 True 1074.000000 1074 88.626000 21 903 1 chr7D.!!$R1 882
8 TraesCS7A01G490300 chr7D 588038852 588040809 1957 True 685.666667 968 90.295333 902 2564 3 chr7D.!!$R2 1662
9 TraesCS7A01G490300 chr3B 764782519 764783403 884 True 1072.000000 1072 88.588000 27 908 1 chr3B.!!$R1 881
10 TraesCS7A01G490300 chr1D 191378183 191379078 895 False 1072.000000 1072 88.281000 14 907 1 chr1D.!!$F1 893
11 TraesCS7A01G490300 chr7B 660340619 660342472 1853 True 879.500000 1068 86.749000 902 2546 2 chr7B.!!$R1 1644

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
677 697 0.170339 CACACGCGTGGACTAGATGA 59.83 55.0 39.21 0.0 39.64 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2548 3181 1.000385 TGCGAACCCTGAATTTTGCAG 60.0 47.619 0.0 0.0 37.23 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
40 41 1.133598 GACGTCGATATCCACCACACA 59.866 52.381 0.00 0.00 0.00 3.72
60 63 4.278919 CACATGTGGCATAATAGGCATTCA 59.721 41.667 18.51 0.00 46.23 2.57
61 64 5.047590 CACATGTGGCATAATAGGCATTCAT 60.048 40.000 18.51 0.00 46.23 2.57
91 96 2.934932 TGTGGCATGAGCAGGGGA 60.935 61.111 0.00 0.00 44.61 4.81
125 130 0.394938 TGTGTGTGGGCGAACAGTAT 59.605 50.000 0.00 0.00 0.00 2.12
131 136 3.687698 GTGTGGGCGAACAGTATAATTGT 59.312 43.478 0.00 0.00 0.00 2.71
233 238 3.289836 CAAATATGCCCACATGTCCTGA 58.710 45.455 0.00 0.00 37.04 3.86
308 314 4.223953 ACAGATGTAGTTATCCGGGATGT 58.776 43.478 19.82 3.31 0.00 3.06
317 323 6.433847 AGTTATCCGGGATGTCAAATATGA 57.566 37.500 19.82 0.00 0.00 2.15
327 333 8.405531 CGGGATGTCAAATATGATTGTAAAAGT 58.594 33.333 0.00 0.00 38.01 2.66
400 407 5.645929 TGATAGTTGCCACGTGTAATCAAAT 59.354 36.000 15.65 13.45 0.00 2.32
430 437 7.715249 AGTTGTCATGTGTGATTAACTACTTGT 59.285 33.333 0.00 0.00 40.11 3.16
480 491 2.627221 TGTGTTACCTAGTTGCCACGTA 59.373 45.455 0.00 0.00 0.00 3.57
535 546 3.033764 CCACGTACGCGCAACTGT 61.034 61.111 16.72 5.00 42.83 3.55
537 548 1.276820 CCACGTACGCGCAACTGTAA 61.277 55.000 16.72 0.00 42.83 2.41
567 578 5.292101 GTCTAGCAAACGAATCATAGTTGCT 59.708 40.000 13.14 13.14 37.90 3.91
579 590 7.452880 AATCATAGTTGCTATGTGTGTTTGT 57.547 32.000 13.72 0.00 42.92 2.83
638 649 3.386486 ACAACGTATGATTGTCGTGTGT 58.614 40.909 0.00 0.00 35.32 3.72
677 697 0.170339 CACACGCGTGGACTAGATGA 59.830 55.000 39.21 0.00 39.64 2.92
739 759 2.770589 GCAACCACGTGCTGTTGGT 61.771 57.895 27.70 12.35 41.62 3.67
784 804 0.618458 ACACACCGGCATTGTCCTAT 59.382 50.000 0.00 0.00 0.00 2.57
802 822 1.163420 ATGTGGCACGCGAAAACTGA 61.163 50.000 15.93 0.00 45.01 3.41
894 914 1.234615 ACATGTGTGGGCGTTAGTGC 61.235 55.000 0.00 0.00 0.00 4.40
950 970 3.863424 GGTTATGTGAAATTCGCTCTCGA 59.137 43.478 8.09 0.00 43.89 4.04
966 986 8.738199 TCGCTCTCGAATAAATAAATAACGAT 57.262 30.769 0.00 0.00 42.44 3.73
995 1015 0.250338 GGGGACAGCAGAGAAACGTT 60.250 55.000 0.00 0.00 0.00 3.99
1079 1113 1.534729 AACCATCGGAGGACTTTTGC 58.465 50.000 0.93 0.00 0.00 3.68
1102 1136 0.323957 GGGAGCGAGTTAGGGTTTGT 59.676 55.000 0.00 0.00 0.00 2.83
1434 1469 1.541379 GACGGTATGGCTTTTTGGGT 58.459 50.000 0.00 0.00 0.00 4.51
1455 1490 5.048013 GGGTGATTGAAGTTTTAGGAACTGG 60.048 44.000 0.00 0.00 41.52 4.00
1468 1503 0.884704 GAACTGGCTGCTTCCGTTGA 60.885 55.000 0.00 0.00 0.00 3.18
1474 1509 3.088532 TGGCTGCTTCCGTTGATTATTT 58.911 40.909 0.00 0.00 0.00 1.40
1482 1517 6.861055 TGCTTCCGTTGATTATTTGAAAGAAC 59.139 34.615 0.00 0.00 0.00 3.01
1498 1533 8.445275 TTGAAAGAACTCATTTAGCTGTGTAA 57.555 30.769 0.00 0.00 0.00 2.41
1506 1541 4.935205 TCATTTAGCTGTGTAATTCGTGCT 59.065 37.500 0.00 0.00 34.92 4.40
1507 1542 6.103330 TCATTTAGCTGTGTAATTCGTGCTA 58.897 36.000 0.00 0.00 32.72 3.49
1508 1543 6.761242 TCATTTAGCTGTGTAATTCGTGCTAT 59.239 34.615 0.00 0.00 33.81 2.97
1514 1549 5.062934 GCTGTGTAATTCGTGCTATGTGTTA 59.937 40.000 0.00 0.00 0.00 2.41
1518 1553 5.579119 TGTAATTCGTGCTATGTGTTACTGG 59.421 40.000 0.00 0.00 0.00 4.00
1541 1576 7.291566 TGGAATAAGTTTTTCCCTGTTGTCTA 58.708 34.615 18.88 0.00 41.68 2.59
1594 1630 8.860088 ACAACTATGGTGAGATTTTAGCTTTTT 58.140 29.630 0.00 0.00 0.00 1.94
1617 1654 4.865905 TGAAGCATATGGGGTGTATGTTT 58.134 39.130 4.56 0.00 36.23 2.83
1618 1655 4.887071 TGAAGCATATGGGGTGTATGTTTC 59.113 41.667 4.56 12.70 43.82 2.78
1619 1656 4.518278 AGCATATGGGGTGTATGTTTCA 57.482 40.909 4.56 0.00 33.19 2.69
1620 1657 4.464008 AGCATATGGGGTGTATGTTTCAG 58.536 43.478 4.56 0.00 33.19 3.02
1621 1658 4.165950 AGCATATGGGGTGTATGTTTCAGA 59.834 41.667 4.56 0.00 33.19 3.27
1622 1659 4.275936 GCATATGGGGTGTATGTTTCAGAC 59.724 45.833 4.56 0.00 33.19 3.51
1702 1739 8.950208 ACCTTAGTTTACTATCTTCATTCAGC 57.050 34.615 0.00 0.00 0.00 4.26
1703 1740 8.763601 ACCTTAGTTTACTATCTTCATTCAGCT 58.236 33.333 0.00 0.00 0.00 4.24
1708 1745 8.972127 AGTTTACTATCTTCATTCAGCTAGACA 58.028 33.333 0.00 0.00 0.00 3.41
1709 1746 9.243637 GTTTACTATCTTCATTCAGCTAGACAG 57.756 37.037 0.00 0.00 0.00 3.51
1764 1802 5.584251 TGGAAATTTTGTTTCCTGAAAGTGC 59.416 36.000 17.54 0.00 46.16 4.40
1767 1805 2.869233 TTGTTTCCTGAAAGTGCTGC 57.131 45.000 0.00 0.00 0.00 5.25
1777 1824 0.318441 AAAGTGCTGCGCTAGACTGA 59.682 50.000 17.04 0.00 0.00 3.41
1782 1829 3.570125 AGTGCTGCGCTAGACTGATTATA 59.430 43.478 15.05 0.00 0.00 0.98
1788 1835 5.273944 TGCGCTAGACTGATTATATATGCG 58.726 41.667 9.73 0.00 42.08 4.73
1822 1872 1.305046 TCGAGGAAGGAGTGGGGAC 60.305 63.158 0.00 0.00 0.00 4.46
1851 1901 2.094675 CTTGGGATTTAGTGTGCCCTG 58.905 52.381 0.00 0.00 41.28 4.45
1872 1922 5.088680 TGCAGATTGAATTTCCAATTCCC 57.911 39.130 6.73 0.00 36.93 3.97
1874 1924 4.080975 GCAGATTGAATTTCCAATTCCCCA 60.081 41.667 6.73 0.00 36.93 4.96
1877 1927 6.380846 CAGATTGAATTTCCAATTCCCCACTA 59.619 38.462 6.73 0.00 36.93 2.74
1888 1938 7.313731 TCCAATTCCCCACTATAGTAGATTCT 58.686 38.462 4.74 0.00 0.00 2.40
1952 2228 2.555325 TGCAAAGCTGGAACTCTGATTG 59.445 45.455 0.00 0.00 0.00 2.67
1979 2255 2.706341 TAGGTTGGTGGTGAGCCCCT 62.706 60.000 0.00 0.00 0.00 4.79
1983 2259 2.607750 GGTGGTGAGCCCCTGAGA 60.608 66.667 0.00 0.00 0.00 3.27
2050 2326 3.367292 CCTGTTTGGACATATGTTGGTGC 60.367 47.826 10.30 2.17 38.35 5.01
2121 2397 8.598041 AGATCCTGTAGAATTAGAACAACTGTT 58.402 33.333 0.00 0.00 41.64 3.16
2122 2398 7.962964 TCCTGTAGAATTAGAACAACTGTTG 57.037 36.000 18.44 18.44 38.56 3.33
2123 2399 6.934645 TCCTGTAGAATTAGAACAACTGTTGG 59.065 38.462 23.15 6.91 38.56 3.77
2154 2432 4.855715 TTTGGTTTGTGTGTGACAAGAA 57.144 36.364 0.00 0.00 45.43 2.52
2168 2446 7.967854 TGTGTGACAAGAAACATTAAGAACTTG 59.032 33.333 0.00 0.00 39.98 3.16
2182 2460 9.746711 CATTAAGAACTTGAGATTTTAGTCACG 57.253 33.333 0.00 0.00 0.00 4.35
2192 2470 4.686554 AGATTTTAGTCACGTCTCAACTGC 59.313 41.667 0.00 0.00 0.00 4.40
2280 2902 5.554437 TGTACTTGTCCTTATGTGTTGGA 57.446 39.130 0.00 0.00 0.00 3.53
2297 2920 7.816640 TGTGTTGGATCTTTAGAGTTAATTGC 58.183 34.615 0.00 0.00 0.00 3.56
2414 3044 7.351414 TGCTGTTTATCTACGATTGCATATC 57.649 36.000 0.00 0.00 0.00 1.63
2433 3063 2.531771 TCGGACATAGGTTGTTGGAGA 58.468 47.619 0.00 0.00 39.18 3.71
2470 3100 0.259938 GTCCCTCCCATGCTTCCAAT 59.740 55.000 0.00 0.00 0.00 3.16
2472 3102 1.494721 TCCCTCCCATGCTTCCAATAC 59.505 52.381 0.00 0.00 0.00 1.89
2486 3116 7.445121 TGCTTCCAATACCACTAAGAGATATG 58.555 38.462 0.00 0.00 0.00 1.78
2548 3181 4.449405 GCTTTTCTCAACTAGTCTGGTCAC 59.551 45.833 0.00 0.00 0.00 3.67
2549 3182 5.740513 GCTTTTCTCAACTAGTCTGGTCACT 60.741 44.000 0.00 0.00 0.00 3.41
2556 3189 4.357918 ACTAGTCTGGTCACTGCAAAAT 57.642 40.909 0.00 0.00 0.00 1.82
2564 3197 2.365293 GGTCACTGCAAAATTCAGGGTT 59.635 45.455 0.00 0.00 36.40 4.11
2565 3198 3.552890 GGTCACTGCAAAATTCAGGGTTC 60.553 47.826 0.00 0.00 36.40 3.62
2566 3199 2.293122 TCACTGCAAAATTCAGGGTTCG 59.707 45.455 0.00 0.00 36.40 3.95
2567 3200 1.000274 ACTGCAAAATTCAGGGTTCGC 60.000 47.619 0.00 0.00 35.94 4.70
2568 3201 1.000385 CTGCAAAATTCAGGGTTCGCA 60.000 47.619 0.00 0.00 0.00 5.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 1.133598 GTGTGGTGGATATCGACGTCA 59.866 52.381 17.16 9.75 0.00 4.35
24 25 3.177997 CACATGTGTGGTGGATATCGA 57.822 47.619 18.03 0.00 42.10 3.59
40 41 4.708421 GGATGAATGCCTATTATGCCACAT 59.292 41.667 0.00 0.00 0.00 3.21
233 238 2.030185 CGGGTATCTAATGTAGCTGCGT 60.030 50.000 0.00 0.00 0.00 5.24
343 349 8.361169 ACATGGCAACTATAGTTAACCAAAAT 57.639 30.769 29.40 20.00 42.74 1.82
400 407 9.366216 GTAGTTAATCACACATGACAACTATGA 57.634 33.333 0.00 0.00 42.25 2.15
430 437 7.777440 TGGCAACTATTATTTGGTCATATGTGA 59.223 33.333 1.90 0.00 37.61 3.58
440 447 5.964758 ACACACATGGCAACTATTATTTGG 58.035 37.500 0.00 0.00 37.61 3.28
445 452 5.811190 AGGTAACACACATGGCAACTATTA 58.189 37.500 0.00 0.00 41.41 0.98
511 522 3.017656 GCGCGTACGTGGCAATCAA 62.018 57.895 28.26 0.00 42.83 2.57
567 578 6.989759 ACATGACAACTAGACAAACACACATA 59.010 34.615 0.00 0.00 0.00 2.29
610 621 4.328712 CGACAATCATACGTTGTTGGATGA 59.671 41.667 0.00 0.00 39.72 2.92
628 639 0.247894 GCTTTTCGCACACACGACAA 60.248 50.000 0.00 0.00 42.78 3.18
655 666 1.167781 TCTAGTCCACGCGTGTGTGA 61.168 55.000 34.81 23.29 44.92 3.58
674 694 1.583556 TCTACCCACACAGCCATCAT 58.416 50.000 0.00 0.00 0.00 2.45
677 697 1.705186 AGTTTCTACCCACACAGCCAT 59.295 47.619 0.00 0.00 0.00 4.40
739 759 3.371063 GAGAGGTCGCCCACACGA 61.371 66.667 0.00 0.00 40.36 4.35
775 795 1.089481 CGCGTGCCACATAGGACAAT 61.089 55.000 0.00 0.00 41.22 2.71
784 804 1.815840 TCAGTTTTCGCGTGCCACA 60.816 52.632 5.77 0.00 0.00 4.17
802 822 1.340248 ACGAATCTTGACACACCGAGT 59.660 47.619 0.00 0.00 0.00 4.18
878 898 0.464735 AAAGCACTAACGCCCACACA 60.465 50.000 0.00 0.00 0.00 3.72
925 945 2.357952 GAGCGAATTTCACATAACCCCC 59.642 50.000 0.00 0.00 0.00 5.40
953 973 9.020731 CCCCCTTGCTTATATCGTTATTTATTT 57.979 33.333 0.00 0.00 0.00 1.40
954 974 8.387813 TCCCCCTTGCTTATATCGTTATTTATT 58.612 33.333 0.00 0.00 0.00 1.40
955 975 7.827729 GTCCCCCTTGCTTATATCGTTATTTAT 59.172 37.037 0.00 0.00 0.00 1.40
964 984 2.106511 TGCTGTCCCCCTTGCTTATATC 59.893 50.000 0.00 0.00 0.00 1.63
966 986 1.490490 CTGCTGTCCCCCTTGCTTATA 59.510 52.381 0.00 0.00 0.00 0.98
995 1015 2.592993 CGAGGGGGCAAAGTGGAGA 61.593 63.158 0.00 0.00 0.00 3.71
1026 1051 1.973812 AAGCGCAAGGAAGGAAGGC 60.974 57.895 11.47 0.00 38.28 4.35
1079 1113 3.537874 CCTAACTCGCTCCCCCGG 61.538 72.222 0.00 0.00 0.00 5.73
1089 1123 1.873863 GCGGCACAAACCCTAACTC 59.126 57.895 0.00 0.00 0.00 3.01
1092 1126 2.670251 CCGCGGCACAAACCCTAA 60.670 61.111 14.67 0.00 0.00 2.69
1434 1469 5.241506 CAGCCAGTTCCTAAAACTTCAATCA 59.758 40.000 0.00 0.00 0.00 2.57
1455 1490 4.355543 TCAAATAATCAACGGAAGCAGC 57.644 40.909 0.00 0.00 0.00 5.25
1474 1509 8.621532 ATTACACAGCTAAATGAGTTCTTTCA 57.378 30.769 0.00 0.00 0.00 2.69
1482 1517 5.063944 AGCACGAATTACACAGCTAAATGAG 59.936 40.000 0.00 0.00 0.00 2.90
1489 1524 3.618594 CACATAGCACGAATTACACAGCT 59.381 43.478 0.00 0.00 36.20 4.24
1492 1527 6.090223 CAGTAACACATAGCACGAATTACACA 59.910 38.462 0.00 0.00 0.00 3.72
1498 1533 4.465632 TCCAGTAACACATAGCACGAAT 57.534 40.909 0.00 0.00 0.00 3.34
1506 1541 9.016438 GGGAAAAACTTATTCCAGTAACACATA 57.984 33.333 7.53 0.00 46.69 2.29
1507 1542 7.728532 AGGGAAAAACTTATTCCAGTAACACAT 59.271 33.333 7.53 0.00 46.69 3.21
1508 1543 7.013846 CAGGGAAAAACTTATTCCAGTAACACA 59.986 37.037 7.53 0.00 46.69 3.72
1514 1549 5.897250 ACAACAGGGAAAAACTTATTCCAGT 59.103 36.000 7.53 2.96 46.69 4.00
1518 1553 8.290325 CAGTAGACAACAGGGAAAAACTTATTC 58.710 37.037 0.00 0.00 0.00 1.75
1594 1630 4.518278 ACATACACCCCATATGCTTCAA 57.482 40.909 0.00 0.00 33.99 2.69
1601 1638 5.428457 TGAGTCTGAAACATACACCCCATAT 59.572 40.000 0.00 0.00 0.00 1.78
1602 1639 4.780554 TGAGTCTGAAACATACACCCCATA 59.219 41.667 0.00 0.00 0.00 2.74
1617 1654 3.432186 CCACTTGGACAAACTGAGTCTGA 60.432 47.826 3.76 0.00 37.39 3.27
1618 1655 2.874701 CCACTTGGACAAACTGAGTCTG 59.125 50.000 0.00 0.00 37.39 3.51
1619 1656 2.158755 CCCACTTGGACAAACTGAGTCT 60.159 50.000 0.00 0.00 37.39 3.24
1620 1657 2.158813 TCCCACTTGGACAAACTGAGTC 60.159 50.000 0.00 0.00 38.61 3.36
1621 1658 1.843851 TCCCACTTGGACAAACTGAGT 59.156 47.619 0.00 0.00 38.61 3.41
1622 1659 2.618709 GTTCCCACTTGGACAAACTGAG 59.381 50.000 0.00 0.00 45.11 3.35
1702 1739 5.627367 GCACTTCATATTCGTAGCTGTCTAG 59.373 44.000 0.00 0.00 0.00 2.43
1703 1740 5.067283 TGCACTTCATATTCGTAGCTGTCTA 59.933 40.000 0.00 0.00 0.00 2.59
1704 1741 4.142160 TGCACTTCATATTCGTAGCTGTCT 60.142 41.667 0.00 0.00 0.00 3.41
1705 1742 4.112634 TGCACTTCATATTCGTAGCTGTC 58.887 43.478 0.00 0.00 0.00 3.51
1706 1743 4.123497 TGCACTTCATATTCGTAGCTGT 57.877 40.909 0.00 0.00 0.00 4.40
1707 1744 4.987285 AGATGCACTTCATATTCGTAGCTG 59.013 41.667 0.00 0.00 35.05 4.24
1708 1745 5.207110 AGATGCACTTCATATTCGTAGCT 57.793 39.130 0.00 0.00 35.05 3.32
1709 1746 8.184848 TCTATAGATGCACTTCATATTCGTAGC 58.815 37.037 0.00 0.00 35.05 3.58
1712 1749 8.580720 ACTTCTATAGATGCACTTCATATTCGT 58.419 33.333 14.02 0.00 35.05 3.85
1713 1750 8.978564 ACTTCTATAGATGCACTTCATATTCG 57.021 34.615 14.02 0.00 35.05 3.34
1715 1752 9.926158 CAGACTTCTATAGATGCACTTCATATT 57.074 33.333 14.02 0.00 35.05 1.28
1716 1753 8.530311 CCAGACTTCTATAGATGCACTTCATAT 58.470 37.037 14.02 0.00 35.05 1.78
1719 1756 5.893824 TCCAGACTTCTATAGATGCACTTCA 59.106 40.000 14.02 2.88 0.00 3.02
1764 1802 5.397828 CGCATATATAATCAGTCTAGCGCAG 59.602 44.000 11.47 5.22 34.98 5.18
1767 1805 5.172232 GTGCGCATATATAATCAGTCTAGCG 59.828 44.000 15.91 0.00 43.72 4.26
1782 1829 5.348724 CGACCTATCAAAATAGTGCGCATAT 59.651 40.000 15.91 8.56 34.20 1.78
1788 1835 4.945246 TCCTCGACCTATCAAAATAGTGC 58.055 43.478 0.00 0.00 34.20 4.40
1801 1848 1.305381 CCCACTCCTTCCTCGACCT 60.305 63.158 0.00 0.00 0.00 3.85
1822 1872 5.808540 CACACTAAATCCCAAGCATTCAATG 59.191 40.000 0.00 0.00 0.00 2.82
1851 1901 4.080975 TGGGGAATTGGAAATTCAATCTGC 60.081 41.667 13.19 0.00 36.45 4.26
1908 2184 9.366216 TGCAGTGTATTTATACTTGACTTACTG 57.634 33.333 0.00 0.00 33.80 2.74
1952 2228 2.369532 TCACCACCAACCTACCACTTAC 59.630 50.000 0.00 0.00 0.00 2.34
2121 2397 1.136695 CAAACCAAAAGCTGCTGACCA 59.863 47.619 1.35 0.00 0.00 4.02
2122 2398 1.136891 ACAAACCAAAAGCTGCTGACC 59.863 47.619 1.35 0.00 0.00 4.02
2123 2399 2.195922 CACAAACCAAAAGCTGCTGAC 58.804 47.619 1.35 0.00 0.00 3.51
2168 2446 5.164041 GCAGTTGAGACGTGACTAAAATCTC 60.164 44.000 0.00 0.00 37.02 2.75
2182 2460 7.778470 AACTATAGCTAAATGCAGTTGAGAC 57.222 36.000 10.14 0.00 45.94 3.36
2192 2470 8.035984 GCCTCCTAGGTAAACTATAGCTAAATG 58.964 40.741 9.08 0.00 37.80 2.32
2280 2902 7.609532 AGCTGAACTGCAATTAACTCTAAAGAT 59.390 33.333 6.47 0.00 34.99 2.40
2297 2920 5.240891 TGAGTAATCAGGAAAGCTGAACTG 58.759 41.667 5.66 5.66 34.26 3.16
2313 2936 4.446889 GGATTGCCCCTGAGAATGAGTAAT 60.447 45.833 0.00 0.00 0.00 1.89
2347 2971 4.454678 TCAATAAGTGGATGCATCAGGAC 58.545 43.478 27.25 19.06 0.00 3.85
2414 3044 3.198068 CATCTCCAACAACCTATGTCCG 58.802 50.000 0.00 0.00 42.99 4.79
2449 3079 1.077429 GGAAGCATGGGAGGGACAC 60.077 63.158 0.00 0.00 0.00 3.67
2470 3100 7.950684 AGGCAGATTACATATCTCTTAGTGGTA 59.049 37.037 0.00 0.00 0.00 3.25
2472 3102 7.238486 AGGCAGATTACATATCTCTTAGTGG 57.762 40.000 0.00 0.00 0.00 4.00
2486 3116 9.555727 TGGTATAAATCAAACTAGGCAGATTAC 57.444 33.333 0.00 0.00 31.01 1.89
2541 3174 2.029649 CCCTGAATTTTGCAGTGACCAG 60.030 50.000 0.00 0.00 0.00 4.00
2548 3181 1.000385 TGCGAACCCTGAATTTTGCAG 60.000 47.619 0.00 0.00 37.23 4.41
2549 3182 1.035923 TGCGAACCCTGAATTTTGCA 58.964 45.000 0.00 0.00 39.36 4.08


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

AutoCloner maintained by Alex Coulton.