Multiple sequence alignment - TraesCS6D01G011100

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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 TraesCS6D01G011100 chr6D 100.000 2603 0 0 1 2603 4289127 4291729 0.000000e+00 4807.0
1 TraesCS6D01G011100 chr6D 95.826 575 24 0 1 575 93881675 93881101 0.000000e+00 929.0
2 TraesCS6D01G011100 chr6A 90.535 1384 75 24 577 1945 2748850 2750192 0.000000e+00 1779.0
3 TraesCS6D01G011100 chr6A 83.721 688 55 29 1948 2603 2750573 2751235 4.790000e-167 597.0
4 TraesCS6D01G011100 chr6B 87.696 1406 77 46 607 1945 8412747 8411371 0.000000e+00 1550.0
5 TraesCS6D01G011100 chr6B 93.300 597 23 2 1 581 57749473 57750068 0.000000e+00 865.0
6 TraesCS6D01G011100 chr6B 91.720 471 38 1 2134 2603 8411310 8410840 0.000000e+00 652.0
7 TraesCS6D01G011100 chr7D 95.869 581 23 1 1 580 116239531 116240111 0.000000e+00 939.0
8 TraesCS6D01G011100 chr7D 95.156 578 27 1 1 578 140800065 140800641 0.000000e+00 911.0
9 TraesCS6D01G011100 chr7A 95.329 578 26 1 1 578 150413576 150413000 0.000000e+00 917.0
10 TraesCS6D01G011100 chr3D 94.655 580 29 1 1 578 40697232 40696653 0.000000e+00 898.0
11 TraesCS6D01G011100 chr3A 94.107 577 30 2 1 577 630917688 630917116 0.000000e+00 874.0
12 TraesCS6D01G011100 chr5A 96.395 527 18 1 1 527 649235685 649236210 0.000000e+00 867.0
13 TraesCS6D01G011100 chr3B 95.413 545 23 2 33 577 68358609 68358067 0.000000e+00 867.0
14 TraesCS6D01G011100 chr3B 81.250 112 14 5 1442 1551 749038555 749038661 1.660000e-12 84.2
15 TraesCS6D01G011100 chr4D 93.412 592 23 2 1 576 300795575 300794984 0.000000e+00 863.0
16 TraesCS6D01G011100 chr1B 92.773 595 27 1 1 579 142520717 142521311 0.000000e+00 846.0


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 TraesCS6D01G011100 chr6D 4289127 4291729 2602 False 4807 4807 100.000 1 2603 1 chr6D.!!$F1 2602
1 TraesCS6D01G011100 chr6D 93881101 93881675 574 True 929 929 95.826 1 575 1 chr6D.!!$R1 574
2 TraesCS6D01G011100 chr6A 2748850 2751235 2385 False 1188 1779 87.128 577 2603 2 chr6A.!!$F1 2026
3 TraesCS6D01G011100 chr6B 8410840 8412747 1907 True 1101 1550 89.708 607 2603 2 chr6B.!!$R1 1996
4 TraesCS6D01G011100 chr6B 57749473 57750068 595 False 865 865 93.300 1 581 1 chr6B.!!$F1 580
5 TraesCS6D01G011100 chr7D 116239531 116240111 580 False 939 939 95.869 1 580 1 chr7D.!!$F1 579
6 TraesCS6D01G011100 chr7D 140800065 140800641 576 False 911 911 95.156 1 578 1 chr7D.!!$F2 577
7 TraesCS6D01G011100 chr7A 150413000 150413576 576 True 917 917 95.329 1 578 1 chr7A.!!$R1 577
8 TraesCS6D01G011100 chr3D 40696653 40697232 579 True 898 898 94.655 1 578 1 chr3D.!!$R1 577
9 TraesCS6D01G011100 chr3A 630917116 630917688 572 True 874 874 94.107 1 577 1 chr3A.!!$R1 576
10 TraesCS6D01G011100 chr5A 649235685 649236210 525 False 867 867 96.395 1 527 1 chr5A.!!$F1 526
11 TraesCS6D01G011100 chr3B 68358067 68358609 542 True 867 867 95.413 33 577 1 chr3B.!!$R1 544
12 TraesCS6D01G011100 chr4D 300794984 300795575 591 True 863 863 93.412 1 576 1 chr4D.!!$R1 575
13 TraesCS6D01G011100 chr1B 142520717 142521311 594 False 846 846 92.773 1 579 1 chr1B.!!$F1 578

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
682 725 0.548989 TCTCTCCTCCGCTAGCTCTT 59.451 55.0 13.93 0.0 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2117 2609 0.252057 TCTCACGTCCAATGGAGGGA 60.252 55.0 23.72 16.63 41.34 4.2 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
271 272 7.040961 GCTAGTCTCGTACCTTGAGATTATCTT 60.041 40.741 0.00 0.00 43.82 2.40
473 476 7.329226 CAGACATTTCAACACACAACTCTTTTT 59.671 33.333 0.00 0.00 0.00 1.94
532 567 5.184671 GCAACAGATTCTGGGAGAATTTTCT 59.815 40.000 17.66 0.00 44.41 2.52
567 602 2.886523 TGCAGAATCCTGTGTGAAAAGG 59.113 45.455 0.00 0.00 42.35 3.11
591 626 1.371558 GCCTATAAGGGACGGCTGG 59.628 63.158 0.00 0.00 39.42 4.85
677 720 1.600023 AATCGTCTCTCCTCCGCTAG 58.400 55.000 0.00 0.00 0.00 3.42
679 722 1.525077 CGTCTCTCCTCCGCTAGCT 60.525 63.158 13.93 0.00 0.00 3.32
682 725 0.548989 TCTCTCCTCCGCTAGCTCTT 59.451 55.000 13.93 0.00 0.00 2.85
689 735 2.541120 CCGCTAGCTCTTGCATGCC 61.541 63.158 16.68 0.00 42.74 4.40
937 1001 2.555757 CAGCAACCTTCTTCCTTCTTGG 59.444 50.000 0.00 0.00 37.10 3.61
1431 1511 1.832167 GGACAACCTGCAGGCCAAA 60.832 57.895 33.06 0.00 39.32 3.28
1443 1523 3.574780 GCCAAAGTGTACGGCCTC 58.425 61.111 0.00 0.00 40.07 4.70
1609 1693 1.659335 GCCGCCAAATGATCATGCG 60.659 57.895 24.38 24.38 44.47 4.73
1645 1732 1.991264 CATGGATCAGATCATCGTCGC 59.009 52.381 12.66 0.00 0.00 5.19
1666 1759 2.611292 CCGTCTTCTTCTTGCATGGATC 59.389 50.000 0.00 0.00 0.00 3.36
1667 1760 3.264947 CGTCTTCTTCTTGCATGGATCA 58.735 45.455 0.00 0.00 0.00 2.92
1668 1761 3.063180 CGTCTTCTTCTTGCATGGATCAC 59.937 47.826 0.00 0.00 0.00 3.06
1669 1762 3.376546 GTCTTCTTCTTGCATGGATCACC 59.623 47.826 0.00 0.00 0.00 4.02
1713 1810 7.041576 ACCATCACTCATCGTTCATTATTGATG 60.042 37.037 0.00 0.00 39.59 3.07
1778 1879 7.861629 ACCCCATTTTCTTTTTCTTCTCTTTT 58.138 30.769 0.00 0.00 0.00 2.27
1836 1944 7.953158 ATTGTAGACCATGATTTACTGATCG 57.047 36.000 0.00 0.00 0.00 3.69
1899 2007 7.944061 TGAATTCACTCATCACATCTGTTTTT 58.056 30.769 3.38 0.00 0.00 1.94
1964 2455 7.855375 TCTCATATTCTCATGTAATGGGGATC 58.145 38.462 0.00 0.00 39.44 3.36
2016 2508 6.991485 GTGAAACCAGAATTAATGTGTGTG 57.009 37.500 0.00 0.00 0.00 3.82
2020 2512 2.824936 CCAGAATTAATGTGTGTGGGCA 59.175 45.455 0.00 0.00 0.00 5.36
2021 2513 3.257873 CCAGAATTAATGTGTGTGGGCAA 59.742 43.478 0.00 0.00 0.00 4.52
2022 2514 4.081531 CCAGAATTAATGTGTGTGGGCAAT 60.082 41.667 0.00 0.00 0.00 3.56
2023 2515 4.865925 CAGAATTAATGTGTGTGGGCAATG 59.134 41.667 0.00 0.00 0.00 2.82
2025 2517 3.932545 TTAATGTGTGTGGGCAATGAC 57.067 42.857 0.00 0.00 0.00 3.06
2030 2522 4.995594 TGTGGGCAATGACACACA 57.004 50.000 8.29 8.29 42.20 3.72
2031 2523 3.197664 TGTGGGCAATGACACACAA 57.802 47.368 9.61 0.00 42.20 3.33
2032 2524 0.743688 TGTGGGCAATGACACACAAC 59.256 50.000 9.61 0.00 42.20 3.32
2033 2525 0.031994 GTGGGCAATGACACACAACC 59.968 55.000 5.44 0.00 37.54 3.77
2034 2526 0.396278 TGGGCAATGACACACAACCA 60.396 50.000 0.00 0.00 0.00 3.67
2035 2527 0.314935 GGGCAATGACACACAACCAG 59.685 55.000 0.00 0.00 0.00 4.00
2036 2528 0.314935 GGCAATGACACACAACCAGG 59.685 55.000 0.00 0.00 0.00 4.45
2040 2532 3.366273 GCAATGACACACAACCAGGTATG 60.366 47.826 0.00 0.00 0.00 2.39
2042 2534 1.141858 TGACACACAACCAGGTATGCA 59.858 47.619 0.00 0.00 0.00 3.96
2043 2535 2.226330 GACACACAACCAGGTATGCAA 58.774 47.619 0.00 0.00 0.00 4.08
2047 2539 3.255395 CACACAACCAGGTATGCAAATCA 59.745 43.478 0.00 0.00 0.00 2.57
2050 2542 5.357878 ACACAACCAGGTATGCAAATCATAG 59.642 40.000 0.00 0.00 38.27 2.23
2067 2559 7.486407 AATCATAGTTCTTTGCAGGGAAATT 57.514 32.000 8.49 2.12 0.00 1.82
2069 2561 6.924111 TCATAGTTCTTTGCAGGGAAATTTC 58.076 36.000 9.83 9.83 0.00 2.17
2115 2607 6.615264 AAATCCTGACAGAAATCATCATCG 57.385 37.500 3.32 0.00 0.00 3.84
2116 2608 5.541953 ATCCTGACAGAAATCATCATCGA 57.458 39.130 3.32 0.00 0.00 3.59
2117 2609 5.541953 TCCTGACAGAAATCATCATCGAT 57.458 39.130 3.32 0.00 0.00 3.59
2118 2610 5.536260 TCCTGACAGAAATCATCATCGATC 58.464 41.667 3.32 0.00 0.00 3.69
2119 2611 4.689812 CCTGACAGAAATCATCATCGATCC 59.310 45.833 3.32 0.00 0.00 3.36
2121 2613 4.346127 TGACAGAAATCATCATCGATCCCT 59.654 41.667 0.00 0.00 0.00 4.20
2123 2615 4.252073 CAGAAATCATCATCGATCCCTCC 58.748 47.826 0.00 0.00 0.00 4.30
2124 2616 3.906218 AGAAATCATCATCGATCCCTCCA 59.094 43.478 0.00 0.00 0.00 3.86
2125 2617 4.535294 AGAAATCATCATCGATCCCTCCAT 59.465 41.667 0.00 0.00 0.00 3.41
2126 2618 4.923516 AATCATCATCGATCCCTCCATT 57.076 40.909 0.00 0.00 0.00 3.16
2127 2619 3.690475 TCATCATCGATCCCTCCATTG 57.310 47.619 0.00 0.00 0.00 2.82
2128 2620 2.303890 TCATCATCGATCCCTCCATTGG 59.696 50.000 0.00 0.00 0.00 3.16
2129 2621 2.101640 TCATCGATCCCTCCATTGGA 57.898 50.000 5.05 5.05 36.05 3.53
2130 2622 1.694150 TCATCGATCCCTCCATTGGAC 59.306 52.381 0.00 0.00 33.94 4.02
2131 2623 0.681733 ATCGATCCCTCCATTGGACG 59.318 55.000 0.00 3.78 33.94 4.79
2132 2624 0.686441 TCGATCCCTCCATTGGACGT 60.686 55.000 0.00 0.00 33.94 4.34
2175 2668 5.064962 CCTGAGAATCTCTGAATTTGACAGC 59.935 44.000 17.14 0.00 35.61 4.40
2241 2734 0.823356 GCCTCAAACCTGCAACTCCA 60.823 55.000 0.00 0.00 0.00 3.86
2300 2827 5.683876 TTCCTCCTTCAACCTATCTCTTG 57.316 43.478 0.00 0.00 0.00 3.02
2405 2932 2.938428 ACATCTTCCTCCTCACCTCT 57.062 50.000 0.00 0.00 0.00 3.69
2409 2936 1.429299 TCTTCCTCCTCACCTCTGTCA 59.571 52.381 0.00 0.00 0.00 3.58
2418 2945 0.610687 CACCTCTGTCACCCTCTTCC 59.389 60.000 0.00 0.00 0.00 3.46
2420 2947 1.132689 ACCTCTGTCACCCTCTTCCTT 60.133 52.381 0.00 0.00 0.00 3.36
2426 2953 1.201429 TCACCCTCTTCCTTCTGCCC 61.201 60.000 0.00 0.00 0.00 5.36
2429 2956 1.500783 CCCTCTTCCTTCTGCCCCAA 61.501 60.000 0.00 0.00 0.00 4.12
2449 2976 3.458163 GGCGATGTCCTCCACCGA 61.458 66.667 0.00 0.00 0.00 4.69
2471 2998 0.987294 CCATCATCCGGCTCCCTTAT 59.013 55.000 0.00 0.00 0.00 1.73
2507 3034 1.326213 CCGAGACCTGCCAGAGATGT 61.326 60.000 0.00 0.00 0.00 3.06
2522 3049 0.798776 GATGTGGCGAGAACAACCAG 59.201 55.000 0.00 0.00 33.12 4.00
2528 3055 0.507358 GCGAGAACAACCAGAACGTC 59.493 55.000 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
169 170 1.455248 TGGCACCTATAAACGGCAAC 58.545 50.000 0.00 0.00 0.00 4.17
238 239 2.761208 AGGTACGAGACTAGCAGCAATT 59.239 45.455 0.00 0.00 0.00 2.32
473 476 9.447279 TTTCTGGGATTATAGGTTGAGATTCTA 57.553 33.333 0.00 0.00 0.00 2.10
488 491 3.008594 TGCCGAGTTCTTTTCTGGGATTA 59.991 43.478 0.00 0.00 33.60 1.75
567 602 0.680061 CGTCCCTTATAGGCCCAGTC 59.320 60.000 0.00 0.00 32.73 3.51
591 626 1.463831 CATGATTAGCTGAGCGCATCC 59.536 52.381 11.47 0.00 42.61 3.51
597 632 2.064762 CGTAGCCATGATTAGCTGAGC 58.935 52.381 0.00 0.00 40.28 4.26
629 664 2.358737 CCAGGCAGAACGGTCACC 60.359 66.667 1.87 3.36 0.00 4.02
692 738 4.553323 CAAGGAAGTTTGAATGCTTCAGG 58.447 43.478 10.60 0.00 41.93 3.86
710 756 2.997075 ATGCATGCACGCACCAAGG 61.997 57.895 25.37 0.00 46.56 3.61
810 866 1.865595 AGATGGAGATGGAGGAGAGGT 59.134 52.381 0.00 0.00 0.00 3.85
937 1001 1.959282 GGGGCTGATGGATCAATCAAC 59.041 52.381 13.85 9.39 36.16 3.18
1443 1523 3.209812 ATGAGCTGCTGCATGGCG 61.210 61.111 18.42 0.00 42.74 5.69
1645 1732 2.099141 TCCATGCAAGAAGAAGACGG 57.901 50.000 0.00 0.00 0.00 4.79
1666 1759 4.273480 GGTGACGAGGAAATATTGATGGTG 59.727 45.833 0.00 0.00 0.00 4.17
1667 1760 4.080582 TGGTGACGAGGAAATATTGATGGT 60.081 41.667 0.00 0.00 0.00 3.55
1668 1761 4.450976 TGGTGACGAGGAAATATTGATGG 58.549 43.478 0.00 0.00 0.00 3.51
1669 1762 5.759763 TGATGGTGACGAGGAAATATTGATG 59.240 40.000 0.00 0.00 0.00 3.07
1670 1763 5.760253 GTGATGGTGACGAGGAAATATTGAT 59.240 40.000 0.00 0.00 0.00 2.57
1672 1765 5.118990 AGTGATGGTGACGAGGAAATATTG 58.881 41.667 0.00 0.00 0.00 1.90
1673 1766 5.104941 TGAGTGATGGTGACGAGGAAATATT 60.105 40.000 0.00 0.00 0.00 1.28
1674 1767 4.405680 TGAGTGATGGTGACGAGGAAATAT 59.594 41.667 0.00 0.00 0.00 1.28
1675 1768 3.767131 TGAGTGATGGTGACGAGGAAATA 59.233 43.478 0.00 0.00 0.00 1.40
1727 1824 9.387397 TCCCAACTACACCTGATTAATCATATA 57.613 33.333 18.26 7.92 36.02 0.86
1728 1825 8.157476 GTCCCAACTACACCTGATTAATCATAT 58.843 37.037 18.26 7.14 36.02 1.78
1731 1828 5.338871 GGTCCCAACTACACCTGATTAATCA 60.339 44.000 17.07 17.07 35.16 2.57
1732 1829 5.123936 GGTCCCAACTACACCTGATTAATC 58.876 45.833 8.60 8.60 0.00 1.75
1733 1830 4.079958 GGGTCCCAACTACACCTGATTAAT 60.080 45.833 1.78 0.00 0.00 1.40
1734 1831 3.264964 GGGTCCCAACTACACCTGATTAA 59.735 47.826 1.78 0.00 0.00 1.40
1751 1852 5.540337 AGAGAAGAAAAAGAAAATGGGGTCC 59.460 40.000 0.00 0.00 0.00 4.46
1752 1853 6.656632 AGAGAAGAAAAAGAAAATGGGGTC 57.343 37.500 0.00 0.00 0.00 4.46
1784 1885 5.151389 GCTTTTATGGACAATCGAAAACGT 58.849 37.500 0.00 0.00 0.00 3.99
1785 1886 4.259734 CGCTTTTATGGACAATCGAAAACG 59.740 41.667 0.00 0.00 0.00 3.60
1786 1887 5.387279 TCGCTTTTATGGACAATCGAAAAC 58.613 37.500 0.00 0.00 0.00 2.43
1787 1888 5.614923 TCGCTTTTATGGACAATCGAAAA 57.385 34.783 0.00 0.00 0.00 2.29
1788 1889 5.614923 TTCGCTTTTATGGACAATCGAAA 57.385 34.783 0.00 0.00 32.77 3.46
1789 1890 5.811399 ATTCGCTTTTATGGACAATCGAA 57.189 34.783 0.00 0.00 38.71 3.71
1972 2464 8.634335 TTCACCAATCAAATCAGAAGTGATAA 57.366 30.769 0.00 0.00 43.04 1.75
1975 2467 6.239008 GGTTTCACCAATCAAATCAGAAGTGA 60.239 38.462 0.00 0.00 38.42 3.41
1976 2468 5.922544 GGTTTCACCAATCAAATCAGAAGTG 59.077 40.000 0.00 0.00 38.42 3.16
2005 2497 3.005261 GTGTCATTGCCCACACACATTAA 59.995 43.478 3.05 0.00 42.20 1.40
2006 2498 2.556189 GTGTCATTGCCCACACACATTA 59.444 45.455 3.05 0.00 42.20 1.90
2007 2499 1.340889 GTGTCATTGCCCACACACATT 59.659 47.619 3.05 0.00 42.20 2.71
2008 2500 0.961019 GTGTCATTGCCCACACACAT 59.039 50.000 3.05 0.00 42.20 3.21
2016 2508 0.314935 CTGGTTGTGTGTCATTGCCC 59.685 55.000 0.00 0.00 0.00 5.36
2020 2512 2.819608 GCATACCTGGTTGTGTGTCATT 59.180 45.455 3.84 0.00 30.82 2.57
2021 2513 2.224744 TGCATACCTGGTTGTGTGTCAT 60.225 45.455 3.84 0.00 30.82 3.06
2022 2514 1.141858 TGCATACCTGGTTGTGTGTCA 59.858 47.619 3.84 0.00 30.82 3.58
2023 2515 1.890876 TGCATACCTGGTTGTGTGTC 58.109 50.000 3.84 0.00 30.82 3.67
2025 2517 3.255395 TGATTTGCATACCTGGTTGTGTG 59.745 43.478 3.84 0.75 0.00 3.82
2028 2520 5.509498 ACTATGATTTGCATACCTGGTTGT 58.491 37.500 3.84 0.00 38.44 3.32
2029 2521 6.319658 AGAACTATGATTTGCATACCTGGTTG 59.680 38.462 3.84 4.66 38.44 3.77
2030 2522 6.426587 AGAACTATGATTTGCATACCTGGTT 58.573 36.000 3.84 0.00 38.44 3.67
2031 2523 6.006275 AGAACTATGATTTGCATACCTGGT 57.994 37.500 4.05 4.05 38.44 4.00
2032 2524 6.949352 AAGAACTATGATTTGCATACCTGG 57.051 37.500 0.00 0.00 38.44 4.45
2042 2534 6.916360 TTTCCCTGCAAAGAACTATGATTT 57.084 33.333 0.00 0.00 0.00 2.17
2043 2535 7.486407 AATTTCCCTGCAAAGAACTATGATT 57.514 32.000 0.00 0.00 0.00 2.57
2047 2539 6.286240 GGAAATTTCCCTGCAAAGAACTAT 57.714 37.500 24.44 0.00 41.62 2.12
2067 2559 3.129113 TCGACGAACTAAATCATCGGGAA 59.871 43.478 0.00 0.00 40.71 3.97
2069 2561 3.074504 TCGACGAACTAAATCATCGGG 57.925 47.619 0.00 0.00 40.71 5.14
2102 2594 3.906218 TGGAGGGATCGATGATGATTTCT 59.094 43.478 0.54 0.00 0.00 2.52
2103 2595 4.277515 TGGAGGGATCGATGATGATTTC 57.722 45.455 0.54 0.00 0.00 2.17
2104 2596 4.923516 ATGGAGGGATCGATGATGATTT 57.076 40.909 0.54 0.00 0.00 2.17
2105 2597 4.567116 CCAATGGAGGGATCGATGATGATT 60.567 45.833 0.54 0.00 0.00 2.57
2107 2599 2.303890 CCAATGGAGGGATCGATGATGA 59.696 50.000 0.54 0.00 0.00 2.92
2108 2600 2.303890 TCCAATGGAGGGATCGATGATG 59.696 50.000 0.54 0.00 0.00 3.07
2110 2602 1.694150 GTCCAATGGAGGGATCGATGA 59.306 52.381 0.27 0.00 36.67 2.92
2113 2605 0.686441 ACGTCCAATGGAGGGATCGA 60.686 55.000 23.72 0.00 41.34 3.59
2114 2606 0.530650 CACGTCCAATGGAGGGATCG 60.531 60.000 23.72 15.77 41.34 3.69
2115 2607 0.830648 TCACGTCCAATGGAGGGATC 59.169 55.000 23.72 1.98 41.34 3.36
2116 2608 0.833287 CTCACGTCCAATGGAGGGAT 59.167 55.000 23.72 3.27 41.34 3.85
2117 2609 0.252057 TCTCACGTCCAATGGAGGGA 60.252 55.000 23.72 16.63 41.34 4.20
2118 2610 0.833287 ATCTCACGTCCAATGGAGGG 59.167 55.000 23.72 12.10 41.34 4.30
2119 2611 2.093500 TGAATCTCACGTCCAATGGAGG 60.093 50.000 19.26 19.26 42.55 4.30
2121 2613 2.831526 TCTGAATCTCACGTCCAATGGA 59.168 45.455 0.00 0.00 0.00 3.41
2123 2615 4.436332 TCATCTGAATCTCACGTCCAATG 58.564 43.478 0.00 0.00 0.00 2.82
2124 2616 4.743057 TCATCTGAATCTCACGTCCAAT 57.257 40.909 0.00 0.00 0.00 3.16
2125 2617 4.743057 ATCATCTGAATCTCACGTCCAA 57.257 40.909 0.00 0.00 0.00 3.53
2126 2618 4.743057 AATCATCTGAATCTCACGTCCA 57.257 40.909 0.00 0.00 0.00 4.02
2127 2619 4.260538 GCAAATCATCTGAATCTCACGTCC 60.261 45.833 0.00 0.00 0.00 4.79
2128 2620 4.260538 GGCAAATCATCTGAATCTCACGTC 60.261 45.833 0.00 0.00 0.00 4.34
2129 2621 3.624861 GGCAAATCATCTGAATCTCACGT 59.375 43.478 0.00 0.00 0.00 4.49
2130 2622 3.003068 GGGCAAATCATCTGAATCTCACG 59.997 47.826 0.00 0.00 0.00 4.35
2131 2623 4.036498 CAGGGCAAATCATCTGAATCTCAC 59.964 45.833 0.00 0.00 0.00 3.51
2132 2624 4.080186 TCAGGGCAAATCATCTGAATCTCA 60.080 41.667 0.00 0.00 33.87 3.27
2175 2668 4.291783 GCTAGTCCGTTATGCTACTCTTG 58.708 47.826 0.00 0.00 0.00 3.02
2241 2734 1.338200 GGTGAAGCGTGTGAGGAAGAT 60.338 52.381 0.00 0.00 0.00 2.40
2300 2827 9.134734 GTTTTCTGCTATACATATAGTGAGAGC 57.865 37.037 7.57 0.00 38.30 4.09
2405 2932 0.687354 GCAGAAGGAAGAGGGTGACA 59.313 55.000 0.00 0.00 0.00 3.58
2409 2936 1.925972 GGGGCAGAAGGAAGAGGGT 60.926 63.158 0.00 0.00 0.00 4.34
2426 2953 2.511600 GAGGACATCGCCGGTTGG 60.512 66.667 1.90 0.00 38.77 3.77
2429 2956 3.771160 GTGGAGGACATCGCCGGT 61.771 66.667 1.90 0.00 38.24 5.28
2507 3034 0.878523 CGTTCTGGTTGTTCTCGCCA 60.879 55.000 0.00 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.