Multiple sequence alignment - TraesCS7A01G376800

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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 TraesCS7A01G376800 chr7A 100.000 3506 0 0 1 3506 550051063 550054568 0.000000e+00 6475.0
1 TraesCS7A01G376800 chr7D 95.075 2416 79 17 191 2597 483876750 483879134 0.000000e+00 3766.0
2 TraesCS7A01G376800 chr7D 86.016 758 63 12 2768 3506 483908067 483908800 0.000000e+00 773.0
3 TraesCS7A01G376800 chr7D 92.169 166 13 0 1 166 483876222 483876387 5.850000e-58 235.0
4 TraesCS7A01G376800 chr7D 97.959 49 1 0 2592 2640 483880795 483880843 6.240000e-13 86.1
5 TraesCS7A01G376800 chr7B 97.863 1872 36 4 801 2672 509512167 509514034 0.000000e+00 3232.0
6 TraesCS7A01G376800 chr7B 88.073 763 63 13 2764 3506 509514120 509514874 0.000000e+00 880.0
7 TraesCS7A01G376800 chr7B 86.520 727 73 12 6 718 509511441 509512156 0.000000e+00 776.0
8 TraesCS7A01G376800 chr3A 83.315 923 125 17 1028 1923 647690294 647689374 0.000000e+00 824.0
9 TraesCS7A01G376800 chr3A 92.157 51 4 0 3206 3256 676776689 676776739 4.850000e-09 73.1
10 TraesCS7A01G376800 chr3B 81.994 933 140 12 1017 1923 673847018 673846088 0.000000e+00 767.0
11 TraesCS7A01G376800 chr4A 82.622 328 52 5 390 716 689666924 689667247 5.730000e-73 285.0
12 TraesCS7A01G376800 chr3D 78.082 365 60 17 422 779 554389961 554390312 2.740000e-51 213.0
13 TraesCS7A01G376800 chr3D 91.753 97 3 5 2675 2766 516389130 516389226 2.840000e-26 130.0
14 TraesCS7A01G376800 chr1B 77.358 371 70 11 406 770 240503587 240503225 1.280000e-49 207.0
15 TraesCS7A01G376800 chr1B 79.299 314 42 14 476 781 522745447 522745745 7.680000e-47 198.0
16 TraesCS7A01G376800 chr6D 79.618 314 42 19 3206 3506 242228619 242228315 4.590000e-49 206.0
17 TraesCS7A01G376800 chr6B 77.778 315 47 17 3206 3506 575009401 575009706 4.650000e-39 172.0
18 TraesCS7A01G376800 chr5A 77.508 329 32 30 3206 3502 667928030 667928348 3.620000e-35 159.0
19 TraesCS7A01G376800 chr5A 77.536 276 50 9 410 679 664818426 664818157 4.690000e-34 156.0
20 TraesCS7A01G376800 chr1D 77.465 284 47 11 482 761 482216737 482216467 1.690000e-33 154.0
21 TraesCS7A01G376800 chr4D 76.289 291 56 10 390 679 484412347 484412069 3.650000e-30 143.0
22 TraesCS7A01G376800 chrUn 76.531 294 43 15 3234 3506 12088235 12088523 1.700000e-28 137.0
23 TraesCS7A01G376800 chrUn 75.466 322 52 16 3206 3506 144757685 144758000 7.900000e-27 132.0
24 TraesCS7A01G376800 chrUn 75.155 322 53 16 3206 3506 144909283 144909598 3.670000e-25 126.0
25 TraesCS7A01G376800 chrUn 75.155 322 53 16 3206 3506 426567904 426567589 3.670000e-25 126.0
26 TraesCS7A01G376800 chr1A 91.089 101 4 5 2680 2776 402950634 402950535 7.900000e-27 132.0


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 TraesCS7A01G376800 chr7A 550051063 550054568 3505 False 6475.000000 6475 100.000000 1 3506 1 chr7A.!!$F1 3505
1 TraesCS7A01G376800 chr7D 483876222 483880843 4621 False 1362.366667 3766 95.067667 1 2640 3 chr7D.!!$F2 2639
2 TraesCS7A01G376800 chr7D 483908067 483908800 733 False 773.000000 773 86.016000 2768 3506 1 chr7D.!!$F1 738
3 TraesCS7A01G376800 chr7B 509511441 509514874 3433 False 1629.333333 3232 90.818667 6 3506 3 chr7B.!!$F1 3500
4 TraesCS7A01G376800 chr3A 647689374 647690294 920 True 824.000000 824 83.315000 1028 1923 1 chr3A.!!$R1 895
5 TraesCS7A01G376800 chr3B 673846088 673847018 930 True 767.000000 767 81.994000 1017 1923 1 chr3B.!!$R1 906

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
852 1201 1.415659 CAGAGGATCCGAAATGCTCCT 59.584 52.381 5.98 0.0 40.82 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2731 4781 0.390735 ACACACGGATCTTTACGGGC 60.391 55.0 0.0 0.0 36.89 6.13 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
76 77 5.733620 AGGACGTGATTTTAGGAAGTACA 57.266 39.130 0.00 0.00 0.00 2.90
178 179 7.562821 AGAAATCAATAGAAAATCAAGGAGGGG 59.437 37.037 0.00 0.00 0.00 4.79
220 557 1.846124 GGGGTGAGGGGAGTCAACA 60.846 63.158 0.00 0.00 35.69 3.33
236 573 3.245519 GTCAACACGACCAACTCTTCTTC 59.754 47.826 0.00 0.00 38.85 2.87
239 576 3.195661 ACACGACCAACTCTTCTTCAAC 58.804 45.455 0.00 0.00 0.00 3.18
251 588 8.707839 CAACTCTTCTTCAACAGTAGAGATTTC 58.292 37.037 11.25 0.00 45.68 2.17
390 727 3.112580 CCACGATGACAACCAAAACAAC 58.887 45.455 0.00 0.00 0.00 3.32
530 867 9.847224 ATTTGATTTTAAGTACGGATAGTGGAT 57.153 29.630 0.00 0.00 0.00 3.41
549 886 6.313658 AGTGGATTGCAAGAAAAGTTTTTGAC 59.686 34.615 4.94 0.00 0.00 3.18
550 887 5.290643 TGGATTGCAAGAAAAGTTTTTGACG 59.709 36.000 4.94 0.00 0.00 4.35
602 950 7.131907 TGATTTGGATATTCGTAAGGGAAGA 57.868 36.000 0.00 0.00 38.47 2.87
634 983 6.734137 AGTTTCGATTTAGTTGTGATTTGCA 58.266 32.000 0.00 0.00 0.00 4.08
688 1037 8.815565 TGCAGTACATGATTTTATAAAAGGGA 57.184 30.769 15.45 3.41 0.00 4.20
689 1038 9.420118 TGCAGTACATGATTTTATAAAAGGGAT 57.580 29.630 15.45 5.36 0.00 3.85
750 1099 6.677027 TGTGTTGATTTTAATTTTACGCGG 57.323 33.333 12.47 0.00 0.00 6.46
755 1104 5.885881 TGATTTTAATTTTACGCGGCATCT 58.114 33.333 12.47 0.00 0.00 2.90
756 1105 6.326375 TGATTTTAATTTTACGCGGCATCTT 58.674 32.000 12.47 0.51 0.00 2.40
783 1132 9.787532 TTGAGAGTAAAAATCAACAGAAAACAG 57.212 29.630 0.00 0.00 0.00 3.16
792 1141 7.761651 AATCAACAGAAAACAGAAAAGAAGC 57.238 32.000 0.00 0.00 0.00 3.86
797 1146 4.024048 CAGAAAACAGAAAAGAAGCGGCTA 60.024 41.667 1.35 0.00 0.00 3.93
852 1201 1.415659 CAGAGGATCCGAAATGCTCCT 59.584 52.381 5.98 0.00 40.82 3.69
988 1337 2.370189 CCCCCTTATCATCAGTCTCCAC 59.630 54.545 0.00 0.00 0.00 4.02
1179 1528 1.003442 CATCTCCTCCTCCACCCCA 59.997 63.158 0.00 0.00 0.00 4.96
1933 2312 4.262506 CCCCGAGAATGGTACTCCTAAATC 60.263 50.000 0.00 0.00 34.23 2.17
2018 2398 3.527533 TGGACTGACCGGATTAATTTCG 58.472 45.455 9.46 0.00 42.61 3.46
2230 2611 1.470098 ACGCCTAAGCAAAGCAATGAG 59.530 47.619 0.00 0.00 39.83 2.90
2275 2658 3.989787 GGTGTTTGGGGGCGCAAG 61.990 66.667 10.83 0.00 43.44 4.01
2366 2749 5.685841 ACTCGTGTTTAATTCCGATGTTTG 58.314 37.500 0.00 0.00 0.00 2.93
2432 2815 3.138798 CATGTGCTCTGCCCTGCC 61.139 66.667 0.00 0.00 0.00 4.85
2516 2899 3.058224 GGTTGAGTTCTATGTTGGTGTGC 60.058 47.826 0.00 0.00 0.00 4.57
2656 4706 3.456280 GACCAACACAAACATGCACAAT 58.544 40.909 0.00 0.00 0.00 2.71
2665 4715 7.795859 ACACAAACATGCACAATAAATTTAGC 58.204 30.769 3.94 2.47 0.00 3.09
2672 4722 8.616942 ACATGCACAATAAATTTAGCGTATACA 58.383 29.630 3.94 3.81 0.00 2.29
2673 4723 9.611284 CATGCACAATAAATTTAGCGTATACAT 57.389 29.630 3.94 5.57 0.00 2.29
2675 4725 9.051679 TGCACAATAAATTTAGCGTATACATCT 57.948 29.630 3.94 2.00 0.00 2.90
2676 4726 9.530129 GCACAATAAATTTAGCGTATACATCTC 57.470 33.333 3.94 0.00 0.00 2.75
2687 4737 9.692749 TTAGCGTATACATCTCTAAAAATCAGG 57.307 33.333 3.32 0.00 0.00 3.86
2688 4738 7.155328 AGCGTATACATCTCTAAAAATCAGGG 58.845 38.462 3.32 0.00 0.00 4.45
2689 4739 6.369065 GCGTATACATCTCTAAAAATCAGGGG 59.631 42.308 3.32 0.00 0.00 4.79
2690 4740 6.874134 CGTATACATCTCTAAAAATCAGGGGG 59.126 42.308 3.32 0.00 0.00 5.40
2714 4764 3.288092 GGGGGCTAGTTTGATTAGTTGG 58.712 50.000 0.00 0.00 0.00 3.77
2715 4765 3.053917 GGGGGCTAGTTTGATTAGTTGGA 60.054 47.826 0.00 0.00 0.00 3.53
2716 4766 4.569015 GGGGGCTAGTTTGATTAGTTGGAA 60.569 45.833 0.00 0.00 0.00 3.53
2718 4768 4.640647 GGGCTAGTTTGATTAGTTGGAAGG 59.359 45.833 0.00 0.00 0.00 3.46
2719 4769 5.497474 GGCTAGTTTGATTAGTTGGAAGGA 58.503 41.667 0.00 0.00 0.00 3.36
2720 4770 5.586643 GGCTAGTTTGATTAGTTGGAAGGAG 59.413 44.000 0.00 0.00 0.00 3.69
2721 4771 5.065346 GCTAGTTTGATTAGTTGGAAGGAGC 59.935 44.000 0.00 0.00 0.00 4.70
2722 4772 4.336280 AGTTTGATTAGTTGGAAGGAGCC 58.664 43.478 0.00 0.00 0.00 4.70
2723 4773 4.043435 AGTTTGATTAGTTGGAAGGAGCCT 59.957 41.667 0.00 0.00 0.00 4.58
2724 4774 3.634397 TGATTAGTTGGAAGGAGCCTG 57.366 47.619 0.00 0.00 0.00 4.85
2725 4775 2.912956 TGATTAGTTGGAAGGAGCCTGT 59.087 45.455 0.00 0.00 0.00 4.00
2727 4777 4.721776 TGATTAGTTGGAAGGAGCCTGTAT 59.278 41.667 0.00 0.00 0.00 2.29
2729 4779 6.385759 TGATTAGTTGGAAGGAGCCTGTATTA 59.614 38.462 0.00 0.00 0.00 0.98
2730 4780 4.762289 AGTTGGAAGGAGCCTGTATTAG 57.238 45.455 0.00 0.00 0.00 1.73
2742 4792 4.618920 CCTGTATTAGGCCCGTAAAGAT 57.381 45.455 0.00 0.00 40.38 2.40
2744 4794 4.562963 CCTGTATTAGGCCCGTAAAGATCC 60.563 50.000 0.00 0.00 40.38 3.36
2746 4796 1.488390 TTAGGCCCGTAAAGATCCGT 58.512 50.000 0.00 0.00 0.00 4.69
2748 4798 1.219935 GGCCCGTAAAGATCCGTGT 59.780 57.895 0.00 0.00 0.00 4.49
2750 4800 0.390735 GCCCGTAAAGATCCGTGTGT 60.391 55.000 0.00 0.00 0.00 3.72
2751 4801 1.636988 CCCGTAAAGATCCGTGTGTC 58.363 55.000 0.00 0.00 0.00 3.67
2754 4804 3.488721 CCCGTAAAGATCCGTGTGTCTAG 60.489 52.174 0.00 0.00 0.00 2.43
2755 4805 3.106672 CGTAAAGATCCGTGTGTCTAGC 58.893 50.000 0.00 0.00 0.00 3.42
2756 4806 3.427098 CGTAAAGATCCGTGTGTCTAGCA 60.427 47.826 0.00 0.00 0.00 3.49
2757 4807 3.895232 AAAGATCCGTGTGTCTAGCAT 57.105 42.857 0.00 0.00 0.00 3.79
2759 4809 3.895232 AGATCCGTGTGTCTAGCATTT 57.105 42.857 0.00 0.00 0.00 2.32
2760 4810 4.207891 AGATCCGTGTGTCTAGCATTTT 57.792 40.909 0.00 0.00 0.00 1.82
2761 4811 4.579869 AGATCCGTGTGTCTAGCATTTTT 58.420 39.130 0.00 0.00 0.00 1.94
2762 4812 4.393062 AGATCCGTGTGTCTAGCATTTTTG 59.607 41.667 0.00 0.00 0.00 2.44
2763 4813 2.225491 TCCGTGTGTCTAGCATTTTTGC 59.775 45.455 0.00 0.00 0.00 3.68
2765 4815 3.482786 CGTGTGTCTAGCATTTTTGCTC 58.517 45.455 3.35 0.00 45.00 4.26
2787 4837 3.902881 AAAAATGCTGTTGTGGGTTCA 57.097 38.095 0.00 0.00 0.00 3.18
2790 4840 4.519540 AAATGCTGTTGTGGGTTCATAC 57.480 40.909 0.00 0.00 0.00 2.39
2896 4946 5.639757 TCATGATCATTAAAAGTGCCAACG 58.360 37.500 5.16 0.00 0.00 4.10
2972 5022 7.331026 ACGATCACGATATGGATATGGAATTT 58.669 34.615 0.00 0.00 42.66 1.82
2983 5034 8.635647 ATGGATATGGAATTTATAGGAGAGCT 57.364 34.615 0.00 0.00 0.00 4.09
2995 5046 2.421220 GAGAGCTTCCTCCTACCGG 58.579 63.158 0.00 0.00 38.96 5.28
3004 5055 3.104519 TCCTCCTACCGGTGTAATTCA 57.895 47.619 19.93 0.00 0.00 2.57
3048 5100 0.913451 AGATCTGAGGCCTGCCACTT 60.913 55.000 12.00 0.00 38.92 3.16
3093 5145 1.227409 TGCCGCGACACAAGAGAAA 60.227 52.632 8.23 0.00 0.00 2.52
3128 5181 0.746204 TCTCAAGCACGCCACACAAA 60.746 50.000 0.00 0.00 0.00 2.83
3199 5265 2.029290 ACAGAGGTGGCTAAGTGTAACG 60.029 50.000 0.00 0.00 45.86 3.18
3210 5276 4.984161 GCTAAGTGTAACGTGTGGTTAGAA 59.016 41.667 0.00 0.00 45.86 2.10
3217 5283 4.618920 AACGTGTGGTTAGAAGGAGAAT 57.381 40.909 0.00 0.00 37.00 2.40
3303 5369 5.193930 TGGATCAACTAGAACTAGAGGAGGA 59.806 44.000 14.64 5.80 36.97 3.71
3305 5371 7.073853 TGGATCAACTAGAACTAGAGGAGGATA 59.926 40.741 14.64 0.46 36.97 2.59
3357 5423 3.875125 CCTTTAGTAAGGTTGGAGGAGC 58.125 50.000 0.00 0.00 45.01 4.70
3369 5435 1.608717 GGAGGAGCGAAGAGGAAGCA 61.609 60.000 0.00 0.00 0.00 3.91
3376 5442 1.813513 CGAAGAGGAAGCACCACAAT 58.186 50.000 2.96 0.00 42.04 2.71
3384 5450 1.000843 GAAGCACCACAATGGGGAAAC 59.999 52.381 9.31 0.00 46.22 2.78
3396 5462 3.284336 GGAAACGTCCCCCATTGC 58.716 61.111 0.00 0.00 38.08 3.56
3417 5483 3.471806 GGCGAAGAGGAGGGGGAC 61.472 72.222 0.00 0.00 0.00 4.46
3438 5504 1.306997 TCCCTCCAATTCGGCCTCT 60.307 57.895 0.00 0.00 33.14 3.69
3476 5546 2.111251 GGGCGCCACCTCCTATTC 59.889 66.667 30.85 1.84 39.10 1.75
3487 5557 1.839994 CCTCCTATTCTGCCCAAGTGA 59.160 52.381 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 8.870160 AAATCAAATCTTGTCGAAATCACAAA 57.130 26.923 0.00 0.00 33.36 2.83
21 22 9.991906 ACTCAATCAAATGAAATCAAATCTTGT 57.008 25.926 0.00 0.00 0.00 3.16
57 58 6.342338 ACTCTGTACTTCCTAAAATCACGT 57.658 37.500 0.00 0.00 0.00 4.49
67 68 4.660168 TCTAAACCGACTCTGTACTTCCT 58.340 43.478 0.00 0.00 0.00 3.36
76 77 7.184067 ACTTGGAATAATCTAAACCGACTCT 57.816 36.000 0.00 0.00 0.00 3.24
137 138 4.566004 TGATTTCTTGGTACTCTCAACCG 58.434 43.478 0.00 0.00 40.08 4.44
220 557 3.118738 ACTGTTGAAGAAGAGTTGGTCGT 60.119 43.478 0.00 0.00 31.75 4.34
236 573 7.030165 AGTACATGACGAAATCTCTACTGTTG 58.970 38.462 0.00 0.00 0.00 3.33
239 576 9.737427 ATTTAGTACATGACGAAATCTCTACTG 57.263 33.333 0.00 0.00 38.55 2.74
415 752 9.929180 GAACCACTAGAATAATGTATGCATCTA 57.071 33.333 0.19 0.00 33.50 1.98
416 753 8.432013 TGAACCACTAGAATAATGTATGCATCT 58.568 33.333 0.19 0.00 33.50 2.90
530 867 6.383415 ACTACGTCAAAAACTTTTCTTGCAA 58.617 32.000 0.00 0.00 0.00 4.08
588 925 7.761038 ACTTTCATTTTCTTCCCTTACGAAT 57.239 32.000 0.00 0.00 0.00 3.34
602 950 9.796120 TCACAACTAAATCGAAACTTTCATTTT 57.204 25.926 12.88 9.08 0.00 1.82
680 1029 9.777008 ATAACCTAAACCAAATCATCCCTTTTA 57.223 29.630 0.00 0.00 0.00 1.52
724 1073 8.056571 CCGCGTAAAATTAAAATCAACACAAAA 58.943 29.630 4.92 0.00 0.00 2.44
739 1088 4.083003 TCTCAAAAGATGCCGCGTAAAATT 60.083 37.500 4.92 0.00 0.00 1.82
750 1099 8.801715 TGTTGATTTTTACTCTCAAAAGATGC 57.198 30.769 0.00 0.00 31.21 3.91
806 1155 9.332502 GTCAATCACTAGTTCTCTACTATCAGA 57.667 37.037 0.00 0.00 38.63 3.27
807 1156 9.114952 TGTCAATCACTAGTTCTCTACTATCAG 57.885 37.037 0.00 0.00 38.63 2.90
808 1157 9.114952 CTGTCAATCACTAGTTCTCTACTATCA 57.885 37.037 0.00 0.00 38.63 2.15
809 1158 9.332502 TCTGTCAATCACTAGTTCTCTACTATC 57.667 37.037 0.00 0.00 38.63 2.08
810 1159 9.337396 CTCTGTCAATCACTAGTTCTCTACTAT 57.663 37.037 0.00 0.00 38.63 2.12
811 1160 7.771361 CCTCTGTCAATCACTAGTTCTCTACTA 59.229 40.741 0.00 0.00 38.33 1.82
852 1201 5.366482 TGGACTCATTCGGGATATTTTGA 57.634 39.130 0.00 0.00 0.00 2.69
988 1337 0.907486 TTGCTGAGATGGGTGGAGAG 59.093 55.000 0.00 0.00 0.00 3.20
1179 1528 2.643232 GGCGTTGAGGTCGTAGGGT 61.643 63.158 0.00 0.00 0.00 4.34
1860 2239 1.077787 GACAATCATGCCGGGGACA 60.078 57.895 2.18 0.00 0.00 4.02
1933 2312 2.268298 ACGCGTGTATAGGAAAGCAAG 58.732 47.619 12.93 0.00 0.00 4.01
2017 2397 2.051345 GCCGCCACAAGACAAACG 60.051 61.111 0.00 0.00 0.00 3.60
2018 2398 2.051345 CGCCGCCACAAGACAAAC 60.051 61.111 0.00 0.00 0.00 2.93
2275 2658 6.487103 GTTTCACCGAACCATCTTATTGATC 58.513 40.000 0.00 0.00 32.05 2.92
2366 2749 6.712549 ACGCTAACACAAGAAAACTAAAGAC 58.287 36.000 0.00 0.00 0.00 3.01
2441 2824 0.820891 ATCATCCATGGAACTGCCGC 60.821 55.000 20.67 0.00 40.66 6.53
2516 2899 1.656652 CATGGAGTAAACAGAGCCCG 58.343 55.000 0.00 0.00 0.00 6.13
2665 4715 6.874134 CCCCCTGATTTTTAGAGATGTATACG 59.126 42.308 0.00 0.00 0.00 3.06
2694 4744 4.230745 TCCAACTAATCAAACTAGCCCC 57.769 45.455 0.00 0.00 0.00 5.80
2696 4746 5.497474 TCCTTCCAACTAATCAAACTAGCC 58.503 41.667 0.00 0.00 0.00 3.93
2697 4747 5.065346 GCTCCTTCCAACTAATCAAACTAGC 59.935 44.000 0.00 0.00 0.00 3.42
2698 4748 5.586643 GGCTCCTTCCAACTAATCAAACTAG 59.413 44.000 0.00 0.00 0.00 2.57
2700 4750 4.043435 AGGCTCCTTCCAACTAATCAAACT 59.957 41.667 0.00 0.00 0.00 2.66
2701 4751 4.156739 CAGGCTCCTTCCAACTAATCAAAC 59.843 45.833 0.00 0.00 0.00 2.93
2702 4752 4.202567 ACAGGCTCCTTCCAACTAATCAAA 60.203 41.667 0.00 0.00 0.00 2.69
2703 4753 3.330701 ACAGGCTCCTTCCAACTAATCAA 59.669 43.478 0.00 0.00 0.00 2.57
2705 4755 3.636153 ACAGGCTCCTTCCAACTAATC 57.364 47.619 0.00 0.00 0.00 1.75
2707 4757 5.130477 CCTAATACAGGCTCCTTCCAACTAA 59.870 44.000 0.00 0.00 37.70 2.24
2710 4760 3.809905 CCTAATACAGGCTCCTTCCAAC 58.190 50.000 0.00 0.00 37.70 3.77
2722 4772 4.566987 GGATCTTTACGGGCCTAATACAG 58.433 47.826 0.84 0.00 0.00 2.74
2723 4773 3.006110 CGGATCTTTACGGGCCTAATACA 59.994 47.826 0.84 0.00 0.00 2.29
2724 4774 3.006217 ACGGATCTTTACGGGCCTAATAC 59.994 47.826 0.84 0.00 0.00 1.89
2725 4775 3.006110 CACGGATCTTTACGGGCCTAATA 59.994 47.826 0.84 0.00 0.00 0.98
2727 4777 1.137479 CACGGATCTTTACGGGCCTAA 59.863 52.381 0.84 0.00 0.00 2.69
2729 4779 1.262640 ACACGGATCTTTACGGGCCT 61.263 55.000 0.84 0.00 36.89 5.19
2730 4780 1.087771 CACACGGATCTTTACGGGCC 61.088 60.000 0.00 0.00 36.89 5.80
2731 4781 0.390735 ACACACGGATCTTTACGGGC 60.391 55.000 0.00 0.00 36.89 6.13
2732 4782 1.203994 AGACACACGGATCTTTACGGG 59.796 52.381 0.00 0.00 39.87 5.28
2733 4783 2.649331 AGACACACGGATCTTTACGG 57.351 50.000 0.00 0.00 0.00 4.02
2734 4784 3.106672 GCTAGACACACGGATCTTTACG 58.893 50.000 0.00 0.00 0.00 3.18
2735 4785 4.106029 TGCTAGACACACGGATCTTTAC 57.894 45.455 0.00 0.00 0.00 2.01
2737 4787 3.895232 ATGCTAGACACACGGATCTTT 57.105 42.857 0.00 0.00 0.00 2.52
2738 4788 3.895232 AATGCTAGACACACGGATCTT 57.105 42.857 0.00 0.00 0.00 2.40
2739 4789 3.895232 AAATGCTAGACACACGGATCT 57.105 42.857 0.00 0.00 0.00 2.75
2740 4790 4.651994 CAAAAATGCTAGACACACGGATC 58.348 43.478 0.00 0.00 0.00 3.36
2741 4791 3.119849 GCAAAAATGCTAGACACACGGAT 60.120 43.478 0.00 0.00 0.00 4.18
2742 4792 2.225491 GCAAAAATGCTAGACACACGGA 59.775 45.455 0.00 0.00 0.00 4.69
2744 4794 3.187227 AGAGCAAAAATGCTAGACACACG 59.813 43.478 2.89 0.00 46.36 4.49
2746 4796 6.875948 TTTAGAGCAAAAATGCTAGACACA 57.124 33.333 2.89 0.00 46.36 3.72
2759 4809 5.049167 CCACAACAGCATTTTTAGAGCAAA 58.951 37.500 0.00 0.00 0.00 3.68
2760 4810 4.501229 CCCACAACAGCATTTTTAGAGCAA 60.501 41.667 0.00 0.00 0.00 3.91
2761 4811 3.005684 CCCACAACAGCATTTTTAGAGCA 59.994 43.478 0.00 0.00 0.00 4.26
2762 4812 3.005791 ACCCACAACAGCATTTTTAGAGC 59.994 43.478 0.00 0.00 0.00 4.09
2763 4813 4.853924 ACCCACAACAGCATTTTTAGAG 57.146 40.909 0.00 0.00 0.00 2.43
2764 4814 4.646945 TGAACCCACAACAGCATTTTTAGA 59.353 37.500 0.00 0.00 0.00 2.10
2765 4815 4.942852 TGAACCCACAACAGCATTTTTAG 58.057 39.130 0.00 0.00 0.00 1.85
2980 5030 0.333993 TACACCGGTAGGAGGAAGCT 59.666 55.000 6.87 0.00 41.02 3.74
2983 5034 3.196254 GTGAATTACACCGGTAGGAGGAA 59.804 47.826 6.87 0.00 43.05 3.36
3004 5055 6.749036 AACGATTCCATATCCTTCTTAGGT 57.251 37.500 0.00 0.00 42.60 3.08
3010 5061 8.307483 TCAGATCTTAACGATTCCATATCCTTC 58.693 37.037 0.00 0.00 30.84 3.46
3048 5100 1.923395 CTGGGTGCCTTGGGGACTA 60.923 63.158 8.04 0.00 43.70 2.59
3093 5145 4.646492 GCTTGAGATATGGACCCACATTTT 59.354 41.667 0.00 0.00 32.39 1.82
3113 5166 1.437160 CCTTTTGTGTGGCGTGCTT 59.563 52.632 0.00 0.00 0.00 3.91
3114 5167 2.489275 CCCTTTTGTGTGGCGTGCT 61.489 57.895 0.00 0.00 0.00 4.40
3128 5181 1.431243 TGGGAAATAGGTTGTGCCCTT 59.569 47.619 0.00 0.00 38.26 3.95
3181 5247 2.288640 ACACGTTACACTTAGCCACCTC 60.289 50.000 0.00 0.00 0.00 3.85
3210 5276 6.465035 GCCCAGTGTGATTCTAATATTCTCCT 60.465 42.308 0.00 0.00 0.00 3.69
3217 5283 5.957771 AGAAGCCCAGTGTGATTCTAATA 57.042 39.130 4.18 0.00 0.00 0.98
3225 5291 5.396772 CCTCATAATTAGAAGCCCAGTGTGA 60.397 44.000 0.00 0.00 0.00 3.58
3303 5369 9.915629 TCACTTTTAAACACACAAGTTTTGTAT 57.084 25.926 0.00 0.00 43.23 2.29
3305 5371 7.170151 GGTCACTTTTAAACACACAAGTTTTGT 59.830 33.333 0.00 0.00 46.75 2.83
3357 5423 1.466167 CATTGTGGTGCTTCCTCTTCG 59.534 52.381 0.80 0.00 37.07 3.79
3369 5435 0.538746 GGACGTTTCCCCATTGTGGT 60.539 55.000 0.00 0.00 35.17 4.16
3392 5458 2.821366 CCTCTTCGCCAGCGCAAT 60.821 61.111 11.47 0.00 39.59 3.56
3396 5462 4.521062 CCCTCCTCTTCGCCAGCG 62.521 72.222 5.50 5.50 41.35 5.18
3403 5469 0.397957 GGAGAGTCCCCCTCCTCTTC 60.398 65.000 0.00 0.00 45.18 2.87
3417 5483 1.147153 GGCCGAATTGGAGGGAGAG 59.853 63.158 0.00 0.00 42.00 3.20
3438 5504 1.555075 CCCTTTCTTCATGGAGACGGA 59.445 52.381 16.80 1.45 0.00 4.69
3441 5507 2.426842 CCCCCTTTCTTCATGGAGAC 57.573 55.000 2.13 0.00 0.00 3.36
3476 5546 2.301346 GATATTGGGTCACTTGGGCAG 58.699 52.381 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.