Multiple sequence alignment - TraesCS6D01G080100

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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 TraesCS6D01G080100 chr6D 100.000 2242 0 0 1 2242 45519700 45517459 0.000000e+00 4141.0
1 TraesCS6D01G080100 chr6D 89.249 586 26 14 1 581 104077739 104078292 0.000000e+00 699.0
2 TraesCS6D01G080100 chr6D 96.078 51 1 1 523 573 45507030 45507079 5.130000e-12 82.4
3 TraesCS6D01G080100 chr3D 98.354 1580 19 6 664 2242 589280079 589281652 0.000000e+00 2767.0
4 TraesCS6D01G080100 chr3D 84.421 475 33 14 1 451 290328161 290328618 1.590000e-116 429.0
5 TraesCS6D01G080100 chr1D 97.848 1580 28 5 664 2242 254398647 254400221 0.000000e+00 2724.0
6 TraesCS6D01G080100 chr5D 97.783 1579 31 3 664 2242 6188403 6186829 0.000000e+00 2719.0
7 TraesCS6D01G080100 chr5D 97.657 1579 32 4 664 2242 503278763 503280336 0.000000e+00 2706.0
8 TraesCS6D01G080100 chr5D 97.467 1579 34 5 664 2242 432404034 432405606 0.000000e+00 2689.0
9 TraesCS6D01G080100 chr1A 97.848 1580 21 5 664 2242 554511711 554510144 0.000000e+00 2717.0
10 TraesCS6D01G080100 chr5A 96.521 1581 47 7 664 2242 607273863 607272289 0.000000e+00 2608.0
11 TraesCS6D01G080100 chr5A 99.574 235 1 0 1745 1979 34951720 34951486 1.590000e-116 429.0
12 TraesCS6D01G080100 chr5A 97.458 118 3 0 2040 2157 398194634 398194517 3.780000e-48 202.0
13 TraesCS6D01G080100 chr5A 98.571 70 0 1 2173 2242 159450174 159450106 3.020000e-24 122.0
14 TraesCS6D01G080100 chr4A 96.033 1588 49 7 664 2242 309514594 309513012 0.000000e+00 2571.0
15 TraesCS6D01G080100 chr4A 95.512 1582 59 8 664 2242 310738042 310736470 0.000000e+00 2518.0
16 TraesCS6D01G080100 chr2A 93.654 583 25 3 1 581 86682166 86682738 0.000000e+00 861.0
17 TraesCS6D01G080100 chr2D 89.831 590 28 15 1 581 648542576 648543142 0.000000e+00 728.0
18 TraesCS6D01G080100 chr2D 86.042 523 28 15 1 496 622347596 622348100 9.180000e-144 520.0
19 TraesCS6D01G080100 chr2D 89.500 200 9 6 256 455 117800535 117800348 2.220000e-60 243.0
20 TraesCS6D01G080100 chr7A 98.933 375 3 1 1 374 47924613 47924239 0.000000e+00 669.0
21 TraesCS6D01G080100 chr6A 97.196 321 5 2 1 320 52033271 52033588 7.040000e-150 540.0
22 TraesCS6D01G080100 chr6A 92.857 210 14 1 373 581 52033587 52033796 1.010000e-78 303.0
23 TraesCS6D01G080100 chr6A 98.214 56 1 0 579 634 59957076 59957021 5.100000e-17 99.0
24 TraesCS6D01G080100 chr6A 89.706 68 4 1 579 646 59910600 59910536 1.430000e-12 84.2
25 TraesCS6D01G080100 chr7B 88.108 185 10 6 271 455 263150352 263150180 2.260000e-50 209.0


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 TraesCS6D01G080100 chr6D 45517459 45519700 2241 True 4141.0 4141 100.0000 1 2242 1 chr6D.!!$R1 2241
1 TraesCS6D01G080100 chr6D 104077739 104078292 553 False 699.0 699 89.2490 1 581 1 chr6D.!!$F2 580
2 TraesCS6D01G080100 chr3D 589280079 589281652 1573 False 2767.0 2767 98.3540 664 2242 1 chr3D.!!$F2 1578
3 TraesCS6D01G080100 chr1D 254398647 254400221 1574 False 2724.0 2724 97.8480 664 2242 1 chr1D.!!$F1 1578
4 TraesCS6D01G080100 chr5D 6186829 6188403 1574 True 2719.0 2719 97.7830 664 2242 1 chr5D.!!$R1 1578
5 TraesCS6D01G080100 chr5D 503278763 503280336 1573 False 2706.0 2706 97.6570 664 2242 1 chr5D.!!$F2 1578
6 TraesCS6D01G080100 chr5D 432404034 432405606 1572 False 2689.0 2689 97.4670 664 2242 1 chr5D.!!$F1 1578
7 TraesCS6D01G080100 chr1A 554510144 554511711 1567 True 2717.0 2717 97.8480 664 2242 1 chr1A.!!$R1 1578
8 TraesCS6D01G080100 chr5A 607272289 607273863 1574 True 2608.0 2608 96.5210 664 2242 1 chr5A.!!$R4 1578
9 TraesCS6D01G080100 chr4A 309513012 309514594 1582 True 2571.0 2571 96.0330 664 2242 1 chr4A.!!$R1 1578
10 TraesCS6D01G080100 chr4A 310736470 310738042 1572 True 2518.0 2518 95.5120 664 2242 1 chr4A.!!$R2 1578
11 TraesCS6D01G080100 chr2A 86682166 86682738 572 False 861.0 861 93.6540 1 581 1 chr2A.!!$F1 580
12 TraesCS6D01G080100 chr2D 648542576 648543142 566 False 728.0 728 89.8310 1 581 1 chr2D.!!$F2 580
13 TraesCS6D01G080100 chr2D 622347596 622348100 504 False 520.0 520 86.0420 1 496 1 chr2D.!!$F1 495
14 TraesCS6D01G080100 chr6A 52033271 52033796 525 False 421.5 540 95.0265 1 581 2 chr6A.!!$F1 580

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
550 577 0.249657 CGTGGATAGCAGAAGGAGGC 60.25 60.0 0.0 0.0 0.0 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1726 2163 3.429543 TGGAAGTAATGCACGAACGTAAC 59.57 43.478 0.0 0.0 0.0 2.5 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
29 30 6.379386 CGCTGAAATTGCTGATGAATATGAT 58.621 36.000 0.00 0.00 0.00 2.45
131 133 0.250513 ATGGAGTGGAAGAAGACCGC 59.749 55.000 0.00 0.00 38.09 5.68
350 360 3.329542 GATCCGAGGCTTGTGGGCA 62.330 63.158 0.12 0.00 43.56 5.36
472 498 2.442272 GCGGTAGGAGAGGAGGCA 60.442 66.667 0.00 0.00 0.00 4.75
543 570 2.099405 TGTGATGACGTGGATAGCAGA 58.901 47.619 0.00 0.00 0.00 4.26
546 573 2.101415 TGATGACGTGGATAGCAGAAGG 59.899 50.000 0.00 0.00 0.00 3.46
547 574 1.847328 TGACGTGGATAGCAGAAGGA 58.153 50.000 0.00 0.00 0.00 3.36
548 575 1.751351 TGACGTGGATAGCAGAAGGAG 59.249 52.381 0.00 0.00 0.00 3.69
549 576 1.067821 GACGTGGATAGCAGAAGGAGG 59.932 57.143 0.00 0.00 0.00 4.30
550 577 0.249657 CGTGGATAGCAGAAGGAGGC 60.250 60.000 0.00 0.00 0.00 4.70
551 578 0.249657 GTGGATAGCAGAAGGAGGCG 60.250 60.000 0.00 0.00 34.54 5.52
552 579 1.301322 GGATAGCAGAAGGAGGCGC 60.301 63.158 0.00 0.00 34.54 6.53
553 580 1.301322 GATAGCAGAAGGAGGCGCC 60.301 63.158 21.89 21.89 34.54 6.53
554 581 2.723586 GATAGCAGAAGGAGGCGCCC 62.724 65.000 26.15 15.07 37.37 6.13
556 583 4.496336 GCAGAAGGAGGCGCCCAT 62.496 66.667 26.15 9.90 37.37 4.00
557 584 2.515523 CAGAAGGAGGCGCCCATG 60.516 66.667 26.15 9.31 37.37 3.66
558 585 4.496336 AGAAGGAGGCGCCCATGC 62.496 66.667 26.15 11.63 37.37 4.06
568 595 2.591715 GCCCATGCCGCGACTATT 60.592 61.111 8.23 0.00 0.00 1.73
569 596 1.301401 GCCCATGCCGCGACTATTA 60.301 57.895 8.23 0.00 0.00 0.98
570 597 0.882927 GCCCATGCCGCGACTATTAA 60.883 55.000 8.23 0.00 0.00 1.40
571 598 1.808411 CCCATGCCGCGACTATTAAT 58.192 50.000 8.23 0.00 0.00 1.40
572 599 1.464608 CCCATGCCGCGACTATTAATG 59.535 52.381 8.23 0.00 0.00 1.90
573 600 1.464608 CCATGCCGCGACTATTAATGG 59.535 52.381 8.23 0.00 0.00 3.16
574 601 1.464608 CATGCCGCGACTATTAATGGG 59.535 52.381 8.23 0.00 0.00 4.00
575 602 0.466543 TGCCGCGACTATTAATGGGT 59.533 50.000 8.23 0.05 0.00 4.51
576 603 1.134340 TGCCGCGACTATTAATGGGTT 60.134 47.619 8.23 0.00 0.00 4.11
577 604 1.944709 GCCGCGACTATTAATGGGTTT 59.055 47.619 8.23 0.00 0.00 3.27
578 605 3.132925 GCCGCGACTATTAATGGGTTTA 58.867 45.455 8.23 0.00 0.00 2.01
579 606 3.560896 GCCGCGACTATTAATGGGTTTAA 59.439 43.478 8.23 0.00 34.37 1.52
580 607 4.214758 GCCGCGACTATTAATGGGTTTAAT 59.785 41.667 8.23 0.00 42.05 1.40
581 608 5.278120 GCCGCGACTATTAATGGGTTTAATT 60.278 40.000 8.23 0.00 40.29 1.40
582 609 6.140110 CCGCGACTATTAATGGGTTTAATTG 58.860 40.000 8.23 0.00 40.29 2.32
583 610 5.623673 CGCGACTATTAATGGGTTTAATTGC 59.376 40.000 0.00 0.00 40.29 3.56
584 611 5.918576 GCGACTATTAATGGGTTTAATTGCC 59.081 40.000 3.68 0.00 40.29 4.52
585 612 6.460399 GCGACTATTAATGGGTTTAATTGCCA 60.460 38.462 3.68 0.00 40.29 4.92
586 613 7.484975 CGACTATTAATGGGTTTAATTGCCAA 58.515 34.615 3.68 0.00 40.29 4.52
587 614 8.141268 CGACTATTAATGGGTTTAATTGCCAAT 58.859 33.333 3.68 0.00 40.29 3.16
588 615 9.830975 GACTATTAATGGGTTTAATTGCCAATT 57.169 29.630 7.93 7.93 40.29 2.32
589 616 9.612066 ACTATTAATGGGTTTAATTGCCAATTG 57.388 29.630 12.86 0.00 40.29 2.32
590 617 6.749923 TTAATGGGTTTAATTGCCAATTGC 57.250 33.333 12.86 3.31 41.77 3.56
591 618 3.064900 TGGGTTTAATTGCCAATTGCC 57.935 42.857 12.86 11.19 40.16 4.52
592 619 2.290577 TGGGTTTAATTGCCAATTGCCC 60.291 45.455 21.92 21.92 40.16 5.36
593 620 2.364632 GGTTTAATTGCCAATTGCCCC 58.635 47.619 12.86 5.65 40.16 5.80
594 621 2.290577 GGTTTAATTGCCAATTGCCCCA 60.291 45.455 12.86 0.00 40.16 4.96
595 622 2.746904 GTTTAATTGCCAATTGCCCCAC 59.253 45.455 12.86 0.00 40.16 4.61
596 623 1.949799 TAATTGCCAATTGCCCCACT 58.050 45.000 12.86 0.00 40.16 4.00
597 624 0.614812 AATTGCCAATTGCCCCACTC 59.385 50.000 0.97 0.00 40.16 3.51
598 625 1.266867 ATTGCCAATTGCCCCACTCC 61.267 55.000 0.00 0.00 40.16 3.85
599 626 3.076916 GCCAATTGCCCCACTCCC 61.077 66.667 0.00 0.00 0.00 4.30
600 627 2.444696 CCAATTGCCCCACTCCCA 59.555 61.111 0.00 0.00 0.00 4.37
601 628 1.229145 CCAATTGCCCCACTCCCAA 60.229 57.895 0.00 0.00 0.00 4.12
602 629 0.835543 CCAATTGCCCCACTCCCAAA 60.836 55.000 0.00 0.00 0.00 3.28
603 630 1.278537 CAATTGCCCCACTCCCAAAT 58.721 50.000 0.00 0.00 0.00 2.32
604 631 1.629861 CAATTGCCCCACTCCCAAATT 59.370 47.619 0.00 0.00 0.00 1.82
605 632 2.836981 CAATTGCCCCACTCCCAAATTA 59.163 45.455 0.00 0.00 0.00 1.40
606 633 1.931635 TTGCCCCACTCCCAAATTAC 58.068 50.000 0.00 0.00 0.00 1.89
607 634 1.080638 TGCCCCACTCCCAAATTACT 58.919 50.000 0.00 0.00 0.00 2.24
608 635 2.280103 TGCCCCACTCCCAAATTACTA 58.720 47.619 0.00 0.00 0.00 1.82
609 636 2.241176 TGCCCCACTCCCAAATTACTAG 59.759 50.000 0.00 0.00 0.00 2.57
610 637 2.241430 GCCCCACTCCCAAATTACTAGT 59.759 50.000 0.00 0.00 0.00 2.57
611 638 3.886123 CCCCACTCCCAAATTACTAGTG 58.114 50.000 5.39 0.00 37.81 2.74
616 643 6.927294 CACTCCCAAATTACTAGTGGATTC 57.073 41.667 5.39 0.00 35.12 2.52
617 644 5.523916 CACTCCCAAATTACTAGTGGATTCG 59.476 44.000 5.39 0.00 35.12 3.34
618 645 5.424252 ACTCCCAAATTACTAGTGGATTCGA 59.576 40.000 5.39 2.87 34.05 3.71
619 646 6.099845 ACTCCCAAATTACTAGTGGATTCGAT 59.900 38.462 5.39 0.00 34.05 3.59
620 647 7.289317 ACTCCCAAATTACTAGTGGATTCGATA 59.711 37.037 5.39 0.00 34.05 2.92
621 648 7.667557 TCCCAAATTACTAGTGGATTCGATAG 58.332 38.462 5.39 0.00 34.05 2.08
622 649 6.369065 CCCAAATTACTAGTGGATTCGATAGC 59.631 42.308 5.39 0.00 34.05 2.97
623 650 6.929049 CCAAATTACTAGTGGATTCGATAGCA 59.071 38.462 5.39 0.00 34.05 3.49
624 651 7.095607 CCAAATTACTAGTGGATTCGATAGCAC 60.096 40.741 5.39 0.00 34.05 4.40
625 652 6.650427 ATTACTAGTGGATTCGATAGCACA 57.350 37.500 5.39 0.00 0.00 4.57
626 653 6.650427 TTACTAGTGGATTCGATAGCACAT 57.350 37.500 5.39 0.00 0.00 3.21
627 654 5.537300 ACTAGTGGATTCGATAGCACATT 57.463 39.130 0.00 0.00 0.00 2.71
628 655 6.650427 ACTAGTGGATTCGATAGCACATTA 57.350 37.500 0.00 0.00 0.00 1.90
629 656 6.682746 ACTAGTGGATTCGATAGCACATTAG 58.317 40.000 0.00 0.00 0.00 1.73
630 657 4.310769 AGTGGATTCGATAGCACATTAGC 58.689 43.478 0.00 0.00 0.00 3.09
631 658 4.058124 GTGGATTCGATAGCACATTAGCA 58.942 43.478 0.00 0.00 36.85 3.49
632 659 4.692625 GTGGATTCGATAGCACATTAGCAT 59.307 41.667 0.00 0.00 36.85 3.79
633 660 5.869344 GTGGATTCGATAGCACATTAGCATA 59.131 40.000 0.00 0.00 36.85 3.14
634 661 5.869344 TGGATTCGATAGCACATTAGCATAC 59.131 40.000 0.00 0.00 36.85 2.39
635 662 5.869344 GGATTCGATAGCACATTAGCATACA 59.131 40.000 0.00 0.00 36.85 2.29
636 663 6.536582 GGATTCGATAGCACATTAGCATACAT 59.463 38.462 0.00 0.00 36.85 2.29
637 664 7.065085 GGATTCGATAGCACATTAGCATACATT 59.935 37.037 0.00 0.00 36.85 2.71
638 665 9.087424 GATTCGATAGCACATTAGCATACATTA 57.913 33.333 0.00 0.00 36.85 1.90
639 666 8.825667 TTCGATAGCACATTAGCATACATTAA 57.174 30.769 0.00 0.00 36.85 1.40
640 667 8.239681 TCGATAGCACATTAGCATACATTAAC 57.760 34.615 0.00 0.00 36.85 2.01
641 668 7.061789 TCGATAGCACATTAGCATACATTAACG 59.938 37.037 0.00 0.00 36.85 3.18
642 669 5.673337 AGCACATTAGCATACATTAACGG 57.327 39.130 0.00 0.00 36.85 4.44
643 670 5.364778 AGCACATTAGCATACATTAACGGA 58.635 37.500 0.00 0.00 36.85 4.69
644 671 5.820423 AGCACATTAGCATACATTAACGGAA 59.180 36.000 0.00 0.00 36.85 4.30
645 672 5.907391 GCACATTAGCATACATTAACGGAAC 59.093 40.000 0.00 0.00 0.00 3.62
646 673 6.457663 GCACATTAGCATACATTAACGGAACA 60.458 38.462 0.00 0.00 0.00 3.18
647 674 7.639039 CACATTAGCATACATTAACGGAACAT 58.361 34.615 0.00 0.00 0.00 2.71
648 675 7.587392 CACATTAGCATACATTAACGGAACATG 59.413 37.037 0.00 0.00 0.00 3.21
649 676 7.282224 ACATTAGCATACATTAACGGAACATGT 59.718 33.333 0.00 0.00 0.00 3.21
650 677 7.618502 TTAGCATACATTAACGGAACATGTT 57.381 32.000 11.78 11.78 0.00 2.71
651 678 6.509418 AGCATACATTAACGGAACATGTTT 57.491 33.333 13.36 0.00 0.00 2.83
652 679 6.551736 AGCATACATTAACGGAACATGTTTC 58.448 36.000 13.36 10.02 0.00 2.78
653 680 5.741982 GCATACATTAACGGAACATGTTTCC 59.258 40.000 13.36 13.67 35.27 3.13
654 681 4.776795 ACATTAACGGAACATGTTTCCC 57.223 40.909 13.36 9.35 35.17 3.97
655 682 4.403734 ACATTAACGGAACATGTTTCCCT 58.596 39.130 13.36 1.53 35.17 4.20
656 683 4.830600 ACATTAACGGAACATGTTTCCCTT 59.169 37.500 13.36 12.67 35.17 3.95
657 684 6.005198 ACATTAACGGAACATGTTTCCCTTA 58.995 36.000 13.36 11.82 35.17 2.69
658 685 6.661805 ACATTAACGGAACATGTTTCCCTTAT 59.338 34.615 13.36 0.88 35.17 1.73
659 686 7.177744 ACATTAACGGAACATGTTTCCCTTATT 59.822 33.333 13.36 7.37 35.17 1.40
660 687 5.385509 AACGGAACATGTTTCCCTTATTG 57.614 39.130 13.36 0.00 35.17 1.90
661 688 3.192633 ACGGAACATGTTTCCCTTATTGC 59.807 43.478 13.36 0.00 35.17 3.56
662 689 3.428862 CGGAACATGTTTCCCTTATTGCC 60.429 47.826 13.36 4.14 35.17 4.52
666 693 5.760484 ACATGTTTCCCTTATTGCCAATT 57.240 34.783 0.00 0.00 0.00 2.32
726 753 5.076873 AGTATCCCAAAACTGCTTAGCAAA 58.923 37.500 8.68 0.00 38.41 3.68
993 1031 4.204370 GTCGCCGTAAGTAAATACGTAACC 59.796 45.833 0.00 0.00 45.43 2.85
1098 1329 2.024655 ACAATCCACTGCCTTGATCCAT 60.025 45.455 0.00 0.00 0.00 3.41
1254 1688 3.883830 AGGAGTAATCAGCTGTGACAG 57.116 47.619 14.67 8.52 34.75 3.51
1547 1984 9.742552 GTCGTTAACTGAATTCTGAATAGAAAC 57.257 33.333 18.13 9.73 45.47 2.78
1726 2163 1.819288 TCTAGAGGGAAGTTGTGAGCG 59.181 52.381 0.00 0.00 0.00 5.03
1817 2254 4.491676 GCGACCTTGACTATCAACTACAA 58.508 43.478 0.00 0.00 32.21 2.41
2005 2448 8.405531 GCAGCCACAATATTATAAGTTTCTTCA 58.594 33.333 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
131 133 3.121030 CCACCGCTCGAAAGCCAG 61.121 66.667 0.00 0.00 46.34 4.85
350 360 3.453679 GGAGAAGCTCGCCTCCGT 61.454 66.667 12.24 0.00 39.49 4.69
388 398 4.033776 CCTCCTTTCCCGCTGCCA 62.034 66.667 0.00 0.00 0.00 4.92
551 578 0.882927 TTAATAGTCGCGGCATGGGC 60.883 55.000 15.58 0.00 40.13 5.36
552 579 1.464608 CATTAATAGTCGCGGCATGGG 59.535 52.381 15.58 0.00 0.00 4.00
553 580 1.464608 CCATTAATAGTCGCGGCATGG 59.535 52.381 15.58 13.40 0.00 3.66
554 581 1.464608 CCCATTAATAGTCGCGGCATG 59.535 52.381 15.58 7.30 0.00 4.06
555 582 1.071699 ACCCATTAATAGTCGCGGCAT 59.928 47.619 15.58 0.89 0.00 4.40
556 583 0.466543 ACCCATTAATAGTCGCGGCA 59.533 50.000 15.58 0.00 0.00 5.69
557 584 1.589803 AACCCATTAATAGTCGCGGC 58.410 50.000 0.21 0.21 0.00 6.53
558 585 5.934935 ATTAAACCCATTAATAGTCGCGG 57.065 39.130 6.13 0.00 41.38 6.46
559 586 5.623673 GCAATTAAACCCATTAATAGTCGCG 59.376 40.000 0.00 0.00 42.15 5.87
560 587 5.918576 GGCAATTAAACCCATTAATAGTCGC 59.081 40.000 0.00 0.00 42.15 5.19
561 588 7.033530 TGGCAATTAAACCCATTAATAGTCG 57.966 36.000 0.00 0.00 42.15 4.18
562 589 9.830975 AATTGGCAATTAAACCCATTAATAGTC 57.169 29.630 23.23 0.00 42.15 2.59
563 590 9.612066 CAATTGGCAATTAAACCCATTAATAGT 57.388 29.630 23.93 0.00 42.15 2.12
564 591 8.558700 GCAATTGGCAATTAAACCCATTAATAG 58.441 33.333 23.93 8.62 42.15 1.73
565 592 8.443953 GCAATTGGCAATTAAACCCATTAATA 57.556 30.769 23.93 0.00 42.15 0.98
566 593 7.332213 GCAATTGGCAATTAAACCCATTAAT 57.668 32.000 23.93 0.00 44.30 1.40
567 594 6.749923 GCAATTGGCAATTAAACCCATTAA 57.250 33.333 23.93 0.00 43.97 1.40
582 609 3.076916 GGGAGTGGGGCAATTGGC 61.077 66.667 23.06 23.06 43.74 4.52
583 610 0.835543 TTTGGGAGTGGGGCAATTGG 60.836 55.000 7.72 0.00 0.00 3.16
584 611 1.278537 ATTTGGGAGTGGGGCAATTG 58.721 50.000 0.00 0.00 0.00 2.32
585 612 2.043307 AATTTGGGAGTGGGGCAATT 57.957 45.000 0.00 0.00 0.00 2.32
586 613 2.044353 AGTAATTTGGGAGTGGGGCAAT 59.956 45.455 0.00 0.00 0.00 3.56
587 614 1.431243 AGTAATTTGGGAGTGGGGCAA 59.569 47.619 0.00 0.00 0.00 4.52
588 615 1.080638 AGTAATTTGGGAGTGGGGCA 58.919 50.000 0.00 0.00 0.00 5.36
589 616 2.241430 ACTAGTAATTTGGGAGTGGGGC 59.759 50.000 0.00 0.00 0.00 5.80
590 617 3.886123 CACTAGTAATTTGGGAGTGGGG 58.114 50.000 0.00 0.00 35.05 4.96
593 620 5.523916 CGAATCCACTAGTAATTTGGGAGTG 59.476 44.000 2.71 0.00 37.78 3.51
594 621 5.424252 TCGAATCCACTAGTAATTTGGGAGT 59.576 40.000 13.59 7.25 0.00 3.85
595 622 5.914033 TCGAATCCACTAGTAATTTGGGAG 58.086 41.667 13.59 0.00 0.00 4.30
596 623 5.943349 TCGAATCCACTAGTAATTTGGGA 57.057 39.130 13.59 8.19 0.00 4.37
597 624 6.369065 GCTATCGAATCCACTAGTAATTTGGG 59.631 42.308 13.59 3.71 0.00 4.12
598 625 6.929049 TGCTATCGAATCCACTAGTAATTTGG 59.071 38.462 13.59 4.37 0.00 3.28
599 626 7.438160 TGTGCTATCGAATCCACTAGTAATTTG 59.562 37.037 0.00 3.26 0.00 2.32
600 627 7.497595 TGTGCTATCGAATCCACTAGTAATTT 58.502 34.615 0.00 0.00 0.00 1.82
601 628 7.050970 TGTGCTATCGAATCCACTAGTAATT 57.949 36.000 0.00 0.00 0.00 1.40
602 629 6.650427 TGTGCTATCGAATCCACTAGTAAT 57.350 37.500 0.00 0.00 0.00 1.89
603 630 6.650427 ATGTGCTATCGAATCCACTAGTAA 57.350 37.500 0.00 0.00 0.00 2.24
604 631 6.650427 AATGTGCTATCGAATCCACTAGTA 57.350 37.500 0.00 0.00 0.00 1.82
605 632 5.537300 AATGTGCTATCGAATCCACTAGT 57.463 39.130 12.04 0.00 0.00 2.57
606 633 5.574830 GCTAATGTGCTATCGAATCCACTAG 59.425 44.000 12.04 8.44 0.00 2.57
607 634 5.010617 TGCTAATGTGCTATCGAATCCACTA 59.989 40.000 12.04 2.57 0.00 2.74
608 635 4.202253 TGCTAATGTGCTATCGAATCCACT 60.202 41.667 12.04 0.00 0.00 4.00
609 636 4.058124 TGCTAATGTGCTATCGAATCCAC 58.942 43.478 0.00 0.00 0.00 4.02
610 637 4.335400 TGCTAATGTGCTATCGAATCCA 57.665 40.909 0.00 0.00 0.00 3.41
611 638 5.869344 TGTATGCTAATGTGCTATCGAATCC 59.131 40.000 0.00 0.00 0.00 3.01
612 639 6.951256 TGTATGCTAATGTGCTATCGAATC 57.049 37.500 0.00 0.00 0.00 2.52
613 640 7.912056 AATGTATGCTAATGTGCTATCGAAT 57.088 32.000 0.00 0.00 0.00 3.34
614 641 8.708742 GTTAATGTATGCTAATGTGCTATCGAA 58.291 33.333 0.00 0.00 0.00 3.71
615 642 7.061789 CGTTAATGTATGCTAATGTGCTATCGA 59.938 37.037 0.00 0.00 0.00 3.59
616 643 7.166824 CGTTAATGTATGCTAATGTGCTATCG 58.833 38.462 0.00 0.00 0.00 2.92
617 644 7.330946 TCCGTTAATGTATGCTAATGTGCTATC 59.669 37.037 0.00 0.00 0.00 2.08
618 645 7.158697 TCCGTTAATGTATGCTAATGTGCTAT 58.841 34.615 0.00 0.00 0.00 2.97
619 646 6.517605 TCCGTTAATGTATGCTAATGTGCTA 58.482 36.000 0.00 0.00 0.00 3.49
620 647 5.364778 TCCGTTAATGTATGCTAATGTGCT 58.635 37.500 0.00 0.00 0.00 4.40
621 648 5.666969 TCCGTTAATGTATGCTAATGTGC 57.333 39.130 0.00 0.00 0.00 4.57
622 649 7.010697 TGTTCCGTTAATGTATGCTAATGTG 57.989 36.000 0.00 0.00 0.00 3.21
623 650 7.282224 ACATGTTCCGTTAATGTATGCTAATGT 59.718 33.333 0.00 0.00 32.86 2.71
624 651 7.639039 ACATGTTCCGTTAATGTATGCTAATG 58.361 34.615 0.00 0.00 32.86 1.90
625 652 7.801716 ACATGTTCCGTTAATGTATGCTAAT 57.198 32.000 0.00 0.00 32.86 1.73
626 653 7.618502 AACATGTTCCGTTAATGTATGCTAA 57.381 32.000 4.92 0.00 33.48 3.09
627 654 7.201661 GGAAACATGTTCCGTTAATGTATGCTA 60.202 37.037 12.39 0.00 33.48 3.49
628 655 6.404293 GGAAACATGTTCCGTTAATGTATGCT 60.404 38.462 12.39 0.00 33.48 3.79
629 656 5.741982 GGAAACATGTTCCGTTAATGTATGC 59.258 40.000 12.39 0.00 33.48 3.14
630 657 6.094881 AGGGAAACATGTTCCGTTAATGTATG 59.905 38.462 12.39 0.00 39.46 2.39
631 658 6.184789 AGGGAAACATGTTCCGTTAATGTAT 58.815 36.000 12.39 0.00 39.46 2.29
632 659 5.562635 AGGGAAACATGTTCCGTTAATGTA 58.437 37.500 12.39 0.00 39.46 2.29
633 660 4.403734 AGGGAAACATGTTCCGTTAATGT 58.596 39.130 12.39 0.00 39.46 2.71
634 661 5.385509 AAGGGAAACATGTTCCGTTAATG 57.614 39.130 22.36 0.00 42.73 1.90
635 662 7.543756 CAATAAGGGAAACATGTTCCGTTAAT 58.456 34.615 27.05 21.75 45.91 1.40
636 663 6.570764 GCAATAAGGGAAACATGTTCCGTTAA 60.571 38.462 27.05 18.46 45.91 2.01
637 664 5.106078 GCAATAAGGGAAACATGTTCCGTTA 60.106 40.000 26.31 26.31 46.45 3.18
638 665 4.321675 GCAATAAGGGAAACATGTTCCGTT 60.322 41.667 24.77 24.77 45.36 4.44
639 666 3.192633 GCAATAAGGGAAACATGTTCCGT 59.807 43.478 12.39 12.92 39.46 4.69
640 667 3.428862 GGCAATAAGGGAAACATGTTCCG 60.429 47.826 12.39 3.01 39.46 4.30
641 668 3.513515 TGGCAATAAGGGAAACATGTTCC 59.486 43.478 12.39 14.01 37.86 3.62
642 669 4.799564 TGGCAATAAGGGAAACATGTTC 57.200 40.909 12.39 5.57 0.00 3.18
643 670 5.760484 ATTGGCAATAAGGGAAACATGTT 57.240 34.783 11.81 4.92 0.00 2.71
644 671 5.490159 CAATTGGCAATAAGGGAAACATGT 58.510 37.500 14.05 0.00 0.00 3.21
645 672 4.877251 CCAATTGGCAATAAGGGAAACATG 59.123 41.667 14.05 3.80 0.00 3.21
646 673 5.101648 CCAATTGGCAATAAGGGAAACAT 57.898 39.130 14.05 0.00 0.00 2.71
647 674 4.550076 CCAATTGGCAATAAGGGAAACA 57.450 40.909 14.05 0.00 0.00 2.83
661 688 5.186797 TGGTAATCTTAAAGTGGCCAATTGG 59.813 40.000 20.84 20.81 38.53 3.16
662 689 6.279513 TGGTAATCTTAAAGTGGCCAATTG 57.720 37.500 20.84 7.34 0.00 2.32
666 693 5.192927 CAGATGGTAATCTTAAAGTGGCCA 58.807 41.667 0.00 0.00 41.43 5.36
726 753 2.370849 ACATTACCCACTTGTCCGACTT 59.629 45.455 0.00 0.00 0.00 3.01
765 792 1.807814 AGATCCGGCTCTACCCAAAT 58.192 50.000 5.89 0.00 33.26 2.32
1234 1668 2.499289 CCTGTCACAGCTGATTACTCCT 59.501 50.000 23.35 0.00 0.00 3.69
1235 1669 2.497675 TCCTGTCACAGCTGATTACTCC 59.502 50.000 23.35 1.17 0.00 3.85
1695 2132 4.079672 ACTTCCCTCTAGACTTAGCTGCTA 60.080 45.833 5.02 5.02 0.00 3.49
1726 2163 3.429543 TGGAAGTAATGCACGAACGTAAC 59.570 43.478 0.00 0.00 0.00 2.50
2005 2448 6.074648 TGAGGGTTACAAATTTGGTCAAGAT 58.925 36.000 21.74 2.02 0.00 2.40


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

AutoCloner maintained by Alex Coulton.