Multiple sequence alignment - TraesCS6D01G387900

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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 TraesCS6D01G387900 chr6D 100.000 3101 0 0 1 3101 464676383 464673283 0.000000e+00 5727.0
1 TraesCS6D01G387900 chr6D 90.146 548 27 14 2144 2681 464700435 464700965 0.000000e+00 688.0
2 TraesCS6D01G387900 chr6D 98.282 291 2 1 2811 3101 464700974 464701261 9.920000e-140 507.0
3 TraesCS6D01G387900 chr6D 95.122 123 5 1 2027 2148 464697403 464697525 3.160000e-45 193.0
4 TraesCS6D01G387900 chr6A 91.752 2728 116 46 1 2668 611196305 611198983 0.000000e+00 3690.0
5 TraesCS6D01G387900 chr6A 96.552 290 10 0 2811 3100 611199028 611199317 6.010000e-132 481.0
6 TraesCS6D01G387900 chr6B 91.567 2763 92 56 1 2684 708517791 708515091 0.000000e+00 3681.0
7 TraesCS6D01G387900 chr6B 88.595 605 37 19 2097 2684 708537027 708537616 0.000000e+00 706.0
8 TraesCS6D01G387900 chr6B 93.537 294 6 5 2808 3100 708537633 708537914 2.860000e-115 425.0
9 TraesCS6D01G387900 chr6B 94.475 181 8 2 2803 2981 708515076 708514896 8.470000e-71 278.0
10 TraesCS6D01G387900 chr6B 100.000 121 0 0 2980 3100 708514734 708514614 1.120000e-54 224.0
11 TraesCS6D01G387900 chr6B 100.000 91 0 0 2685 2775 8775042 8774952 5.320000e-38 169.0
12 TraesCS6D01G387900 chrUn 98.958 96 1 0 2687 2782 27602651 27602556 4.110000e-39 172.0
13 TraesCS6D01G387900 chr2A 97.917 96 2 0 2683 2778 238002161 238002256 1.910000e-37 167.0
14 TraesCS6D01G387900 chr3D 96.040 101 2 2 2684 2784 611167254 611167352 2.470000e-36 163.0
15 TraesCS6D01G387900 chr4A 92.035 113 7 2 2680 2791 29059337 29059226 1.150000e-34 158.0
16 TraesCS6D01G387900 chr1B 91.453 117 6 4 2671 2786 47517332 47517445 1.150000e-34 158.0
17 TraesCS6D01G387900 chr1B 94.444 36 2 0 1471 1506 404897850 404897815 4.320000e-04 56.5
18 TraesCS6D01G387900 chr7B 91.453 117 5 5 2686 2799 64043285 64043399 4.140000e-34 156.0
19 TraesCS6D01G387900 chr2B 92.035 113 6 3 2668 2778 483512866 483512977 4.140000e-34 156.0
20 TraesCS6D01G387900 chr2B 92.683 82 6 0 1749 1830 9724743 9724662 5.430000e-23 119.0
21 TraesCS6D01G387900 chr1A 93.458 107 4 3 2673 2776 23859525 23859419 4.140000e-34 156.0
22 TraesCS6D01G387900 chr1A 85.714 63 9 0 1469 1531 22074502 22074440 2.000000e-07 67.6
23 TraesCS6D01G387900 chr1A 94.444 36 2 0 1471 1506 374278233 374278198 4.320000e-04 56.5
24 TraesCS6D01G387900 chr1D 94.444 36 2 0 1471 1506 300025577 300025542 4.320000e-04 56.5


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 TraesCS6D01G387900 chr6D 464673283 464676383 3100 True 5727.000000 5727 100.000000 1 3101 1 chr6D.!!$R1 3100
1 TraesCS6D01G387900 chr6D 464697403 464701261 3858 False 462.666667 688 94.516667 2027 3101 3 chr6D.!!$F1 1074
2 TraesCS6D01G387900 chr6A 611196305 611199317 3012 False 2085.500000 3690 94.152000 1 3100 2 chr6A.!!$F1 3099
3 TraesCS6D01G387900 chr6B 708514614 708517791 3177 True 1394.333333 3681 95.347333 1 3100 3 chr6B.!!$R2 3099
4 TraesCS6D01G387900 chr6B 708537027 708537914 887 False 565.500000 706 91.066000 2097 3100 2 chr6B.!!$F1 1003

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
989 1093 0.040646 TCCCTCCACGCCTCTCTTTA 59.959 55.0 0.0 0.0 0.0 1.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2587 5659 1.065854 AGCTAGGAGTTGGACACATGC 60.066 52.381 0.0 0.0 0.0 4.06 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
20 21 3.677156 CAATTGGATCCCTTTCTCCCT 57.323 47.619 9.90 0.00 0.00 4.20
171 196 1.682854 GGATGCACAGAGAGAGAGAGG 59.317 57.143 0.00 0.00 0.00 3.69
174 199 1.340893 TGCACAGAGAGAGAGAGGGAG 60.341 57.143 0.00 0.00 0.00 4.30
241 266 8.135529 GCCTAAGTTAAGGGTTGCTATTAATTG 58.864 37.037 0.00 0.00 37.11 2.32
507 539 0.397957 AACCACCAAAACCACTCCCC 60.398 55.000 0.00 0.00 0.00 4.81
526 558 3.140144 CCCCCTCTCTCTCTCTAGACAAT 59.860 52.174 0.00 0.00 0.00 2.71
528 560 5.015178 CCCCCTCTCTCTCTCTAGACAATAT 59.985 48.000 0.00 0.00 0.00 1.28
543 575 6.139679 AGACAATATAGAGAGAGAGAGGGG 57.860 45.833 0.00 0.00 0.00 4.79
583 623 4.104383 AGAGAGGCATCCAAAAGACAAA 57.896 40.909 0.00 0.00 0.00 2.83
584 624 4.077822 AGAGAGGCATCCAAAAGACAAAG 58.922 43.478 0.00 0.00 0.00 2.77
586 626 1.620323 AGGCATCCAAAAGACAAAGCC 59.380 47.619 0.00 0.00 41.08 4.35
587 627 1.669795 GGCATCCAAAAGACAAAGCCG 60.670 52.381 0.00 0.00 0.00 5.52
589 629 0.603065 ATCCAAAAGACAAAGCCGGC 59.397 50.000 21.89 21.89 0.00 6.13
590 630 0.467290 TCCAAAAGACAAAGCCGGCT 60.467 50.000 27.08 27.08 0.00 5.52
593 633 1.200020 CAAAAGACAAAGCCGGCTAGG 59.800 52.381 33.07 26.46 44.97 3.02
609 661 3.536570 GCTAGGTTTTCTCCAGACATCC 58.463 50.000 0.00 0.00 0.00 3.51
628 680 3.963129 TCCCTCTTGTTCTCTCTCTCTC 58.037 50.000 0.00 0.00 0.00 3.20
629 681 2.682856 CCCTCTTGTTCTCTCTCTCTCG 59.317 54.545 0.00 0.00 0.00 4.04
630 682 3.343617 CCTCTTGTTCTCTCTCTCTCGT 58.656 50.000 0.00 0.00 0.00 4.18
646 698 0.322636 TCGTTGTGTGTGGGGTGTTT 60.323 50.000 0.00 0.00 0.00 2.83
647 699 0.528470 CGTTGTGTGTGGGGTGTTTT 59.472 50.000 0.00 0.00 0.00 2.43
649 701 2.163815 CGTTGTGTGTGGGGTGTTTTTA 59.836 45.455 0.00 0.00 0.00 1.52
652 704 5.179533 GTTGTGTGTGGGGTGTTTTTATTT 58.820 37.500 0.00 0.00 0.00 1.40
815 879 3.523806 GCAAAACGCCTCTCTCTCT 57.476 52.632 0.00 0.00 32.94 3.10
816 880 1.355005 GCAAAACGCCTCTCTCTCTC 58.645 55.000 0.00 0.00 32.94 3.20
817 881 1.067213 GCAAAACGCCTCTCTCTCTCT 60.067 52.381 0.00 0.00 32.94 3.10
818 882 2.874849 CAAAACGCCTCTCTCTCTCTC 58.125 52.381 0.00 0.00 0.00 3.20
819 883 2.491693 CAAAACGCCTCTCTCTCTCTCT 59.508 50.000 0.00 0.00 0.00 3.10
820 884 2.038387 AACGCCTCTCTCTCTCTCTC 57.962 55.000 0.00 0.00 0.00 3.20
821 885 1.204146 ACGCCTCTCTCTCTCTCTCT 58.796 55.000 0.00 0.00 0.00 3.10
822 886 1.139058 ACGCCTCTCTCTCTCTCTCTC 59.861 57.143 0.00 0.00 0.00 3.20
823 887 1.414181 CGCCTCTCTCTCTCTCTCTCT 59.586 57.143 0.00 0.00 0.00 3.10
824 888 2.546795 CGCCTCTCTCTCTCTCTCTCTC 60.547 59.091 0.00 0.00 0.00 3.20
825 889 2.703007 GCCTCTCTCTCTCTCTCTCTCT 59.297 54.545 0.00 0.00 0.00 3.10
826 890 3.244044 GCCTCTCTCTCTCTCTCTCTCTC 60.244 56.522 0.00 0.00 0.00 3.20
827 891 4.222336 CCTCTCTCTCTCTCTCTCTCTCT 58.778 52.174 0.00 0.00 0.00 3.10
828 892 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.00 0.00 3.20
829 893 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
830 894 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
831 895 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
832 896 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
833 897 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
834 898 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
835 899 4.219115 TCTCTCTCTCTCTCTCTCTCTCC 58.781 52.174 0.00 0.00 0.00 3.71
836 900 3.309296 TCTCTCTCTCTCTCTCTCTCCC 58.691 54.545 0.00 0.00 0.00 4.30
837 901 3.051803 TCTCTCTCTCTCTCTCTCTCCCT 60.052 52.174 0.00 0.00 0.00 4.20
918 1016 2.417558 AAACCACAGAGCCAGCCTCC 62.418 60.000 0.00 0.00 41.74 4.30
919 1017 4.106925 CCACAGAGCCAGCCTCCC 62.107 72.222 0.00 0.00 41.74 4.30
920 1018 3.007920 CACAGAGCCAGCCTCCCT 61.008 66.667 0.00 0.00 41.74 4.20
921 1019 2.686835 ACAGAGCCAGCCTCCCTC 60.687 66.667 0.00 0.00 41.74 4.30
922 1020 3.478274 CAGAGCCAGCCTCCCTCC 61.478 72.222 0.00 0.00 41.74 4.30
923 1021 4.814041 AGAGCCAGCCTCCCTCCC 62.814 72.222 0.00 0.00 41.74 4.30
929 1027 4.748798 AGCCTCCCTCCCCACCTG 62.749 72.222 0.00 0.00 0.00 4.00
970 1074 0.933700 CTCTTCCTCTCCCTCCCTCT 59.066 60.000 0.00 0.00 0.00 3.69
972 1076 0.105709 CTTCCTCTCCCTCCCTCTCC 60.106 65.000 0.00 0.00 0.00 3.71
989 1093 0.040646 TCCCTCCACGCCTCTCTTTA 59.959 55.000 0.00 0.00 0.00 1.85
1622 1726 2.993008 ACCGCTGGTGCAGATCAT 59.007 55.556 0.00 0.00 39.64 2.45
1626 1730 0.461516 CGCTGGTGCAGATCATGACT 60.462 55.000 0.00 0.00 39.64 3.41
1627 1731 1.202452 CGCTGGTGCAGATCATGACTA 60.202 52.381 0.00 0.00 39.64 2.59
1628 1732 2.208431 GCTGGTGCAGATCATGACTAC 58.792 52.381 0.00 0.00 39.41 2.73
1860 1964 2.167219 CGATCGCACCATCGCAACT 61.167 57.895 0.26 0.00 39.32 3.16
1873 1983 2.340809 CAACTACCGCGGTGACCA 59.659 61.111 40.02 20.02 0.00 4.02
2152 5196 8.879299 CACGAATTCTTTACTTTTCTTAACACG 58.121 33.333 3.52 0.00 0.00 4.49
2298 5351 4.901868 TCTTTGGCGTAAGGTTGACTATT 58.098 39.130 0.18 0.00 38.28 1.73
2299 5352 5.310451 TCTTTGGCGTAAGGTTGACTATTT 58.690 37.500 0.18 0.00 38.28 1.40
2300 5353 5.766174 TCTTTGGCGTAAGGTTGACTATTTT 59.234 36.000 0.18 0.00 38.28 1.82
2302 5355 6.730960 TTGGCGTAAGGTTGACTATTTTAG 57.269 37.500 0.00 0.00 38.28 1.85
2304 5357 5.870978 TGGCGTAAGGTTGACTATTTTAGAC 59.129 40.000 0.00 0.00 38.28 2.59
2419 5477 0.394192 TGTGACCTGTGAGCAGAAGG 59.606 55.000 0.00 0.00 45.28 3.46
2521 5584 1.613437 GGGGTTGTCTGAAATGTGTGG 59.387 52.381 0.00 0.00 0.00 4.17
2571 5634 4.407945 TGGCCTACTACTATCCACCTTTTC 59.592 45.833 3.32 0.00 0.00 2.29
2585 5657 6.906848 TCCACCTTTTCTCTTTTCTTTCCTA 58.093 36.000 0.00 0.00 0.00 2.94
2586 5658 7.526918 TCCACCTTTTCTCTTTTCTTTCCTAT 58.473 34.615 0.00 0.00 0.00 2.57
2587 5659 7.448469 TCCACCTTTTCTCTTTTCTTTCCTATG 59.552 37.037 0.00 0.00 0.00 2.23
2589 5661 6.777580 ACCTTTTCTCTTTTCTTTCCTATGCA 59.222 34.615 0.00 0.00 0.00 3.96
2590 5662 7.452813 ACCTTTTCTCTTTTCTTTCCTATGCAT 59.547 33.333 3.79 3.79 0.00 3.96
2591 5663 7.758528 CCTTTTCTCTTTTCTTTCCTATGCATG 59.241 37.037 10.16 0.00 0.00 4.06
2592 5664 7.765695 TTTCTCTTTTCTTTCCTATGCATGT 57.234 32.000 10.16 0.00 0.00 3.21
2593 5665 6.748333 TCTCTTTTCTTTCCTATGCATGTG 57.252 37.500 10.16 1.76 0.00 3.21
2594 5666 6.240894 TCTCTTTTCTTTCCTATGCATGTGT 58.759 36.000 10.16 0.00 0.00 3.72
2595 5667 6.372659 TCTCTTTTCTTTCCTATGCATGTGTC 59.627 38.462 10.16 0.00 0.00 3.67
2596 5668 5.415701 TCTTTTCTTTCCTATGCATGTGTCC 59.584 40.000 10.16 0.00 0.00 4.02
2597 5669 3.998913 TCTTTCCTATGCATGTGTCCA 57.001 42.857 10.16 0.00 0.00 4.02
2598 5670 4.299586 TCTTTCCTATGCATGTGTCCAA 57.700 40.909 10.16 0.00 0.00 3.53
2599 5671 4.009675 TCTTTCCTATGCATGTGTCCAAC 58.990 43.478 10.16 0.00 0.00 3.77
2600 5672 3.719268 TTCCTATGCATGTGTCCAACT 57.281 42.857 10.16 0.00 0.00 3.16
2601 5673 3.266510 TCCTATGCATGTGTCCAACTC 57.733 47.619 10.16 0.00 0.00 3.01
2602 5674 2.092968 TCCTATGCATGTGTCCAACTCC 60.093 50.000 10.16 0.00 0.00 3.85
2603 5675 2.092753 CCTATGCATGTGTCCAACTCCT 60.093 50.000 10.16 0.00 0.00 3.69
2604 5676 3.134623 CCTATGCATGTGTCCAACTCCTA 59.865 47.826 10.16 0.00 0.00 2.94
2703 5788 7.607615 TTGTAAACTACTCCCTCTGTAAACT 57.392 36.000 0.00 0.00 0.00 2.66
2704 5789 8.710749 TTGTAAACTACTCCCTCTGTAAACTA 57.289 34.615 0.00 0.00 0.00 2.24
2705 5790 8.710749 TGTAAACTACTCCCTCTGTAAACTAA 57.289 34.615 0.00 0.00 0.00 2.24
2706 5791 9.317827 TGTAAACTACTCCCTCTGTAAACTAAT 57.682 33.333 0.00 0.00 0.00 1.73
2714 5799 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
2715 5800 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
2716 5801 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
2717 5802 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
2718 5803 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
2763 5848 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
2764 5849 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
2765 5850 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
2766 5851 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
2767 5852 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
2768 5853 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
2769 5854 7.314393 GCTCTTATATTAGTTTACGGAGGGAG 58.686 42.308 0.00 0.00 0.00 4.30
2770 5855 7.039853 GCTCTTATATTAGTTTACGGAGGGAGT 60.040 40.741 0.00 0.00 0.00 3.85
2771 5856 9.512588 CTCTTATATTAGTTTACGGAGGGAGTA 57.487 37.037 0.00 0.00 0.00 2.59
2772 5857 9.512588 TCTTATATTAGTTTACGGAGGGAGTAG 57.487 37.037 0.00 0.00 0.00 2.57
2773 5858 9.294614 CTTATATTAGTTTACGGAGGGAGTAGT 57.705 37.037 0.00 0.00 0.00 2.73
2778 5863 9.819754 ATTAGTTTACGGAGGGAGTAGTATATT 57.180 33.333 0.00 0.00 0.00 1.28
2779 5864 9.646522 TTAGTTTACGGAGGGAGTAGTATATTT 57.353 33.333 0.00 0.00 0.00 1.40
2780 5865 7.949434 AGTTTACGGAGGGAGTAGTATATTTG 58.051 38.462 0.00 0.00 0.00 2.32
2781 5866 7.562821 AGTTTACGGAGGGAGTAGTATATTTGT 59.437 37.037 0.00 0.00 0.00 2.83
2782 5867 7.902920 TTACGGAGGGAGTAGTATATTTGTT 57.097 36.000 0.00 0.00 0.00 2.83
2783 5868 6.803366 ACGGAGGGAGTAGTATATTTGTTT 57.197 37.500 0.00 0.00 0.00 2.83
2784 5869 7.902920 ACGGAGGGAGTAGTATATTTGTTTA 57.097 36.000 0.00 0.00 0.00 2.01
2785 5870 8.488308 ACGGAGGGAGTAGTATATTTGTTTAT 57.512 34.615 0.00 0.00 0.00 1.40
2786 5871 8.365647 ACGGAGGGAGTAGTATATTTGTTTATG 58.634 37.037 0.00 0.00 0.00 1.90
2787 5872 7.331193 CGGAGGGAGTAGTATATTTGTTTATGC 59.669 40.741 0.00 0.00 0.00 3.14
2788 5873 8.154856 GGAGGGAGTAGTATATTTGTTTATGCA 58.845 37.037 0.00 0.00 0.00 3.96
2789 5874 9.726438 GAGGGAGTAGTATATTTGTTTATGCAT 57.274 33.333 3.79 3.79 0.00 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 1.571457 TGGAGAGAAGGTAGAGGGAGG 59.429 57.143 0.00 0.00 0.00 4.30
20 21 2.000803 TGTGGAGAGAAGGTAGAGGGA 58.999 52.381 0.00 0.00 0.00 4.20
95 120 4.393062 GTGATGAAGCAAAGCTAGCTAACA 59.607 41.667 19.70 15.36 42.53 2.41
97 122 4.578871 TGTGATGAAGCAAAGCTAGCTAA 58.421 39.130 19.70 6.46 42.53 3.09
241 266 2.370349 TGTCTAGCCACTACTGCTCTC 58.630 52.381 0.00 0.00 40.23 3.20
309 334 1.270550 CAAGCCCACTTGTGGACAATC 59.729 52.381 20.27 5.01 46.84 2.67
331 356 1.428869 CCCATCCCCTCCTCACTTAG 58.571 60.000 0.00 0.00 0.00 2.18
507 539 9.035890 TCTCTATATTGTCTAGAGAGAGAGAGG 57.964 40.741 17.93 6.93 43.87 3.69
526 558 4.237148 ACCTCCCCTCTCTCTCTCTATA 57.763 50.000 0.00 0.00 0.00 1.31
528 560 2.598288 ACCTCCCCTCTCTCTCTCTA 57.402 55.000 0.00 0.00 0.00 2.43
538 570 5.209659 TCTCAACTCTTATAACCTCCCCTC 58.790 45.833 0.00 0.00 0.00 4.30
539 571 5.222278 TCTCAACTCTTATAACCTCCCCT 57.778 43.478 0.00 0.00 0.00 4.79
543 575 7.683463 GCCTCTCTTCTCAACTCTTATAACCTC 60.683 44.444 0.00 0.00 0.00 3.85
583 623 1.198759 TGGAGAAAACCTAGCCGGCT 61.199 55.000 34.85 34.85 35.61 5.52
584 624 0.744771 CTGGAGAAAACCTAGCCGGC 60.745 60.000 21.89 21.89 35.61 6.13
586 626 1.275291 TGTCTGGAGAAAACCTAGCCG 59.725 52.381 0.00 0.00 0.00 5.52
587 627 3.536570 GATGTCTGGAGAAAACCTAGCC 58.463 50.000 0.00 0.00 0.00 3.93
589 629 3.777522 AGGGATGTCTGGAGAAAACCTAG 59.222 47.826 0.00 0.00 0.00 3.02
590 630 3.775316 GAGGGATGTCTGGAGAAAACCTA 59.225 47.826 0.00 0.00 0.00 3.08
593 633 3.990959 AGAGGGATGTCTGGAGAAAAC 57.009 47.619 0.00 0.00 0.00 2.43
598 648 2.836981 AGAACAAGAGGGATGTCTGGAG 59.163 50.000 0.00 0.00 0.00 3.86
609 661 3.343617 ACGAGAGAGAGAGAACAAGAGG 58.656 50.000 0.00 0.00 0.00 3.69
628 680 0.528470 AAAACACCCCACACACAACG 59.472 50.000 0.00 0.00 0.00 4.10
629 681 2.753055 AAAAACACCCCACACACAAC 57.247 45.000 0.00 0.00 0.00 3.32
630 682 5.422214 AAATAAAAACACCCCACACACAA 57.578 34.783 0.00 0.00 0.00 3.33
688 740 0.253327 ACAAGCAACCCTAGCCTAGC 59.747 55.000 0.00 0.00 0.00 3.42
699 763 4.439289 GCCTCTAATCAATGGACAAGCAAC 60.439 45.833 0.00 0.00 0.00 4.17
812 876 4.280677 GGAGAGAGAGAGAGAGAGAGAGAG 59.719 54.167 0.00 0.00 0.00 3.20
813 877 4.219115 GGAGAGAGAGAGAGAGAGAGAGA 58.781 52.174 0.00 0.00 0.00 3.10
814 878 3.323403 GGGAGAGAGAGAGAGAGAGAGAG 59.677 56.522 0.00 0.00 0.00 3.20
815 879 3.051803 AGGGAGAGAGAGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
816 880 3.312890 AGGGAGAGAGAGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
817 881 3.051803 AGAGGGAGAGAGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
818 882 3.312890 AGAGGGAGAGAGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
819 883 3.051803 AGAGAGGGAGAGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
820 884 3.312890 AGAGAGGGAGAGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
821 885 3.051803 AGAGAGAGGGAGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
822 886 3.312890 AGAGAGAGGGAGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
823 887 3.051803 AGAGAGAGAGGGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
824 888 3.312890 AGAGAGAGAGGGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
825 889 3.051803 AGAGAGAGAGAGGGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
826 890 3.312890 AGAGAGAGAGAGGGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
827 891 3.421394 AGAGAGAGAGAGGGAGAGAGA 57.579 52.381 0.00 0.00 0.00 3.10
828 892 3.007398 GCTAGAGAGAGAGAGGGAGAGAG 59.993 56.522 0.00 0.00 0.00 3.20
829 893 2.972713 GCTAGAGAGAGAGAGGGAGAGA 59.027 54.545 0.00 0.00 0.00 3.10
830 894 2.039084 GGCTAGAGAGAGAGAGGGAGAG 59.961 59.091 0.00 0.00 0.00 3.20
831 895 2.054799 GGCTAGAGAGAGAGAGGGAGA 58.945 57.143 0.00 0.00 0.00 3.71
832 896 1.774254 TGGCTAGAGAGAGAGAGGGAG 59.226 57.143 0.00 0.00 0.00 4.30
833 897 1.774254 CTGGCTAGAGAGAGAGAGGGA 59.226 57.143 0.00 0.00 0.00 4.20
834 898 1.819305 GCTGGCTAGAGAGAGAGAGGG 60.819 61.905 0.00 0.00 0.00 4.30
835 899 1.609208 GCTGGCTAGAGAGAGAGAGG 58.391 60.000 0.00 0.00 0.00 3.69
836 900 1.229428 CGCTGGCTAGAGAGAGAGAG 58.771 60.000 0.00 0.00 0.00 3.20
837 901 0.544223 ACGCTGGCTAGAGAGAGAGA 59.456 55.000 8.02 0.00 0.00 3.10
970 1074 0.040646 TAAAGAGAGGCGTGGAGGGA 59.959 55.000 0.00 0.00 0.00 4.20
972 1076 1.187087 AGTAAAGAGAGGCGTGGAGG 58.813 55.000 0.00 0.00 0.00 4.30
989 1093 2.680913 GCTTGCATGTCGCCGAAGT 61.681 57.895 1.14 0.00 41.33 3.01
1155 1259 2.124693 GGTGCTCTCGGAGGAGGAG 61.125 68.421 4.96 0.00 40.85 3.69
1620 1724 3.693245 GGCGACGCTGTAGTCATG 58.307 61.111 20.77 0.00 40.98 3.07
2152 5196 5.762218 AGAAGAATGATCGGACAATCAATCC 59.238 40.000 0.00 0.00 39.04 3.01
2248 5301 9.214957 TCGAAAGAATCAATTGTATGTTACAGT 57.785 29.630 5.13 0.00 37.27 3.55
2302 5355 9.494271 ACATATACATGTGGATGTGAATTAGTC 57.506 33.333 20.56 0.00 43.89 2.59
2419 5477 1.760029 TCCAACTGGCCAAACCTTTTC 59.240 47.619 7.01 0.00 40.22 2.29
2521 5584 2.802719 TGCACCCACTCCCTTAATTTC 58.197 47.619 0.00 0.00 0.00 2.17
2571 5634 6.404074 GGACACATGCATAGGAAAGAAAAGAG 60.404 42.308 0.00 0.00 0.00 2.85
2585 5657 2.681976 GCTAGGAGTTGGACACATGCAT 60.682 50.000 0.00 0.00 0.00 3.96
2586 5658 1.339055 GCTAGGAGTTGGACACATGCA 60.339 52.381 0.00 0.00 0.00 3.96
2587 5659 1.065854 AGCTAGGAGTTGGACACATGC 60.066 52.381 0.00 0.00 0.00 4.06
2589 5661 4.097418 ACTAAGCTAGGAGTTGGACACAT 58.903 43.478 0.00 0.00 0.00 3.21
2590 5662 3.507411 ACTAAGCTAGGAGTTGGACACA 58.493 45.455 0.00 0.00 0.00 3.72
2591 5663 4.021368 TGAACTAAGCTAGGAGTTGGACAC 60.021 45.833 12.02 0.89 36.04 3.67
2592 5664 4.157246 TGAACTAAGCTAGGAGTTGGACA 58.843 43.478 12.02 3.59 36.04 4.02
2593 5665 4.749976 CTGAACTAAGCTAGGAGTTGGAC 58.250 47.826 12.02 1.46 36.04 4.02
2594 5666 3.195825 GCTGAACTAAGCTAGGAGTTGGA 59.804 47.826 12.02 0.78 40.20 3.53
2595 5667 3.526534 GCTGAACTAAGCTAGGAGTTGG 58.473 50.000 12.02 7.09 40.20 3.77
2689 5774 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
2690 5775 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
2692 5777 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
2737 5822 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
2738 5823 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
2739 5824 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
2740 5825 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
2741 5826 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
2742 5827 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
2743 5828 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
2744 5829 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
2745 5830 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
2746 5831 9.512588 CTACTCCCTCCGTAAACTAATATAAGA 57.487 37.037 0.00 0.00 0.00 2.10
2747 5832 9.294614 ACTACTCCCTCCGTAAACTAATATAAG 57.705 37.037 0.00 0.00 0.00 1.73
2752 5837 9.819754 AATATACTACTCCCTCCGTAAACTAAT 57.180 33.333 0.00 0.00 0.00 1.73
2753 5838 9.646522 AAATATACTACTCCCTCCGTAAACTAA 57.353 33.333 0.00 0.00 0.00 2.24
2754 5839 9.071276 CAAATATACTACTCCCTCCGTAAACTA 57.929 37.037 0.00 0.00 0.00 2.24
2755 5840 7.562821 ACAAATATACTACTCCCTCCGTAAACT 59.437 37.037 0.00 0.00 0.00 2.66
2756 5841 7.720442 ACAAATATACTACTCCCTCCGTAAAC 58.280 38.462 0.00 0.00 0.00 2.01
2757 5842 7.902920 ACAAATATACTACTCCCTCCGTAAA 57.097 36.000 0.00 0.00 0.00 2.01
2758 5843 7.902920 AACAAATATACTACTCCCTCCGTAA 57.097 36.000 0.00 0.00 0.00 3.18
2759 5844 7.902920 AAACAAATATACTACTCCCTCCGTA 57.097 36.000 0.00 0.00 0.00 4.02
2760 5845 6.803366 AAACAAATATACTACTCCCTCCGT 57.197 37.500 0.00 0.00 0.00 4.69
2761 5846 7.331193 GCATAAACAAATATACTACTCCCTCCG 59.669 40.741 0.00 0.00 0.00 4.63
2762 5847 8.154856 TGCATAAACAAATATACTACTCCCTCC 58.845 37.037 0.00 0.00 0.00 4.30
2763 5848 9.726438 ATGCATAAACAAATATACTACTCCCTC 57.274 33.333 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.