Multiple sequence alignment - TraesCS3D01G535500

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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 TraesCS3D01G535500 chr3D 100.000 3398 0 0 1 3398 609629618 609626221 0.000000e+00 6276.0
1 TraesCS3D01G535500 chr3D 87.829 608 34 11 1 583 338930487 338929895 0.000000e+00 676.0
2 TraesCS3D01G535500 chr3B 90.949 2287 159 23 996 3266 820677849 820675595 0.000000e+00 3033.0
3 TraesCS3D01G535500 chr3B 91.624 1767 109 19 1641 3383 820599824 820598073 0.000000e+00 2407.0
4 TraesCS3D01G535500 chr3B 91.869 1562 85 14 1832 3383 820762073 820760544 0.000000e+00 2143.0
5 TraesCS3D01G535500 chr3B 91.412 1572 113 10 1822 3383 820796369 820794810 0.000000e+00 2135.0
6 TraesCS3D01G535500 chr3B 89.726 1567 125 17 1003 2555 820507527 820505983 0.000000e+00 1969.0
7 TraesCS3D01G535500 chr3B 87.511 1177 122 12 818 1977 820797286 820796118 0.000000e+00 1336.0
8 TraesCS3D01G535500 chr3B 85.939 1273 139 21 818 2073 820719761 820718512 0.000000e+00 1323.0
9 TraesCS3D01G535500 chr3B 86.050 1190 123 22 818 1990 820763015 820761852 0.000000e+00 1238.0
10 TraesCS3D01G535500 chr3B 91.271 905 61 11 1577 2466 820772942 820772041 0.000000e+00 1218.0
11 TraesCS3D01G535500 chr3B 92.840 824 44 6 1497 2308 820555332 820554512 0.000000e+00 1181.0
12 TraesCS3D01G535500 chr3B 88.606 904 80 15 1756 2653 820718763 820717877 0.000000e+00 1077.0
13 TraesCS3D01G535500 chr3B 85.998 1007 120 17 996 1989 820775257 820774259 0.000000e+00 1059.0
14 TraesCS3D01G535500 chr3B 92.239 670 40 8 2721 3383 820505903 820505239 0.000000e+00 939.0
15 TraesCS3D01G535500 chr3B 81.127 1065 159 32 1003 2043 820773483 820772437 0.000000e+00 815.0
16 TraesCS3D01G535500 chr3B 89.950 597 29 9 2773 3362 820717859 820717287 0.000000e+00 741.0
17 TraesCS3D01G535500 chr3B 92.979 470 32 1 1016 1485 820560998 820560530 0.000000e+00 684.0
18 TraesCS3D01G535500 chr3B 87.742 465 54 2 1823 2287 820774488 820774027 1.070000e-149 540.0
19 TraesCS3D01G535500 chr3B 81.308 535 50 23 640 1166 820513886 820513394 4.110000e-104 388.0
20 TraesCS3D01G535500 chr3B 80.051 396 64 9 1691 2076 820677190 820676800 2.580000e-71 279.0
21 TraesCS3D01G535500 chr3B 88.785 214 16 4 2414 2627 820554394 820554189 4.350000e-64 255.0
22 TraesCS3D01G535500 chr3B 87.745 204 19 4 2721 2924 820554156 820553959 2.040000e-57 233.0
23 TraesCS3D01G535500 chr3B 91.964 112 7 1 2500 2611 820772044 820771935 4.540000e-34 156.0
24 TraesCS3D01G535500 chr3B 95.181 83 4 0 3301 3383 820675590 820675508 7.650000e-27 132.0
25 TraesCS3D01G535500 chr3B 97.619 42 1 0 2374 2415 820554512 820554471 4.700000e-09 73.1
26 TraesCS3D01G535500 chr3A 86.751 2702 208 54 677 3345 743194898 743192314 0.000000e+00 2868.0
27 TraesCS3D01G535500 chr3A 88.142 506 36 7 1 491 678346719 678347215 6.320000e-162 580.0
28 TraesCS3D01G535500 chr3A 96.117 103 2 2 581 683 743229540 743229440 2.100000e-37 167.0
29 TraesCS3D01G535500 chr4D 89.899 594 33 7 1 580 19309999 19309419 0.000000e+00 739.0
30 TraesCS3D01G535500 chr4D 88.610 597 48 7 1 580 36445811 36446404 0.000000e+00 708.0
31 TraesCS3D01G535500 chr4D 90.353 539 37 6 1 525 36551704 36552241 0.000000e+00 693.0
32 TraesCS3D01G535500 chr4D 88.423 596 39 7 1 579 36463563 36464145 0.000000e+00 691.0
33 TraesCS3D01G535500 chr2A 88.807 545 31 12 1 539 607494865 607495385 2.860000e-180 641.0
34 TraesCS3D01G535500 chr2A 86.690 571 35 14 30 580 701771727 701772276 2.260000e-166 595.0
35 TraesCS3D01G535500 chr2A 89.541 392 26 6 1 378 508737808 508737418 1.830000e-132 483.0
36 TraesCS3D01G535500 chr7B 89.703 505 42 6 1 497 325883808 325883306 1.330000e-178 636.0
37 TraesCS3D01G535500 chr5B 87.416 445 36 8 9 447 129738985 129738555 8.470000e-136 494.0
38 TraesCS3D01G535500 chr2B 88.750 320 21 2 271 579 62201070 62201385 8.900000e-101 377.0
39 TraesCS3D01G535500 chr5A 83.085 402 63 3 2867 3266 626249983 626250381 8.960000e-96 361.0


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 TraesCS3D01G535500 chr3D 609626221 609629618 3397 True 6276.000 6276 100.00000 1 3398 1 chr3D.!!$R2 3397
1 TraesCS3D01G535500 chr3D 338929895 338930487 592 True 676.000 676 87.82900 1 583 1 chr3D.!!$R1 582
2 TraesCS3D01G535500 chr3B 820598073 820599824 1751 True 2407.000 2407 91.62400 1641 3383 1 chr3B.!!$R3 1742
3 TraesCS3D01G535500 chr3B 820794810 820797286 2476 True 1735.500 2135 89.46150 818 3383 2 chr3B.!!$R10 2565
4 TraesCS3D01G535500 chr3B 820760544 820763015 2471 True 1690.500 2143 88.95950 818 3383 2 chr3B.!!$R8 2565
5 TraesCS3D01G535500 chr3B 820505239 820507527 2288 True 1454.000 1969 90.98250 1003 3383 2 chr3B.!!$R4 2380
6 TraesCS3D01G535500 chr3B 820675508 820677849 2341 True 1148.000 3033 88.72700 996 3383 3 chr3B.!!$R6 2387
7 TraesCS3D01G535500 chr3B 820717287 820719761 2474 True 1047.000 1323 88.16500 818 3362 3 chr3B.!!$R7 2544
8 TraesCS3D01G535500 chr3B 820771935 820775257 3322 True 757.600 1218 87.62040 996 2611 5 chr3B.!!$R9 1615
9 TraesCS3D01G535500 chr3B 820553959 820555332 1373 True 435.525 1181 91.74725 1497 2924 4 chr3B.!!$R5 1427
10 TraesCS3D01G535500 chr3A 743192314 743194898 2584 True 2868.000 2868 86.75100 677 3345 1 chr3A.!!$R1 2668
11 TraesCS3D01G535500 chr4D 19309419 19309999 580 True 739.000 739 89.89900 1 580 1 chr4D.!!$R1 579
12 TraesCS3D01G535500 chr4D 36445811 36446404 593 False 708.000 708 88.61000 1 580 1 chr4D.!!$F1 579
13 TraesCS3D01G535500 chr4D 36551704 36552241 537 False 693.000 693 90.35300 1 525 1 chr4D.!!$F3 524
14 TraesCS3D01G535500 chr4D 36463563 36464145 582 False 691.000 691 88.42300 1 579 1 chr4D.!!$F2 578
15 TraesCS3D01G535500 chr2A 607494865 607495385 520 False 641.000 641 88.80700 1 539 1 chr2A.!!$F1 538
16 TraesCS3D01G535500 chr2A 701771727 701772276 549 False 595.000 595 86.69000 30 580 1 chr2A.!!$F2 550
17 TraesCS3D01G535500 chr7B 325883306 325883808 502 True 636.000 636 89.70300 1 497 1 chr7B.!!$R1 496

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
73 80 0.239347 GCGCAGTTGAGAAGCACAAT 59.761 50.0 0.3 0.0 0.0 2.71 F
1616 1661 0.392998 TTTGCGATGGAGGAGAAGCC 60.393 55.0 0.0 0.0 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1618 1663 0.035630 AAGATGTGCTCCAGTGGCTC 60.036 55.0 3.51 0.0 0.0 4.70 R
3316 5454 0.403655 TGCATAACCTGAGCCCACAA 59.596 50.0 0.00 0.0 0.0 3.33 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
73 80 0.239347 GCGCAGTTGAGAAGCACAAT 59.761 50.000 0.30 0.00 0.00 2.71
200 215 3.391049 ACAAAGTCCGAAACAGAGCTAC 58.609 45.455 0.00 0.00 0.00 3.58
239 254 4.946157 GGTGTTCATGATTCAGAGTGGAAT 59.054 41.667 0.00 0.00 40.10 3.01
242 257 6.259608 GTGTTCATGATTCAGAGTGGAATAGG 59.740 42.308 0.00 0.00 37.61 2.57
306 322 2.805099 GGATTTGCTAGATGGAGCTTCG 59.195 50.000 0.00 0.00 43.27 3.79
521 537 2.140792 ATCGGGCGGCTATCAGGTT 61.141 57.895 9.56 0.00 0.00 3.50
589 617 5.545658 CGTAGCATCGCCCAAATTATATT 57.454 39.130 0.00 0.00 0.00 1.28
590 618 5.938322 CGTAGCATCGCCCAAATTATATTT 58.062 37.500 0.00 0.00 0.00 1.40
591 619 6.021596 CGTAGCATCGCCCAAATTATATTTC 58.978 40.000 0.00 0.00 0.00 2.17
592 620 6.128282 CGTAGCATCGCCCAAATTATATTTCT 60.128 38.462 0.00 0.00 0.00 2.52
593 621 6.017400 AGCATCGCCCAAATTATATTTCTG 57.983 37.500 0.00 0.00 0.00 3.02
594 622 4.622740 GCATCGCCCAAATTATATTTCTGC 59.377 41.667 0.00 0.00 0.00 4.26
595 623 5.565439 GCATCGCCCAAATTATATTTCTGCT 60.565 40.000 0.00 0.00 0.00 4.24
596 624 6.349280 GCATCGCCCAAATTATATTTCTGCTA 60.349 38.462 0.00 0.00 0.00 3.49
597 625 7.592938 CATCGCCCAAATTATATTTCTGCTAA 58.407 34.615 0.00 0.00 0.00 3.09
598 626 7.575414 TCGCCCAAATTATATTTCTGCTAAA 57.425 32.000 0.00 0.00 0.00 1.85
599 627 8.001881 TCGCCCAAATTATATTTCTGCTAAAA 57.998 30.769 0.00 0.00 0.00 1.52
600 628 8.470805 TCGCCCAAATTATATTTCTGCTAAAAA 58.529 29.630 0.00 0.00 0.00 1.94
601 629 8.755018 CGCCCAAATTATATTTCTGCTAAAAAG 58.245 33.333 0.00 0.00 0.00 2.27
602 630 9.816354 GCCCAAATTATATTTCTGCTAAAAAGA 57.184 29.630 0.00 0.00 0.00 2.52
669 697 8.776376 AGAAAAGGTATTTTTACGATACGGAA 57.224 30.769 0.00 0.00 39.06 4.30
670 698 9.387257 AGAAAAGGTATTTTTACGATACGGAAT 57.613 29.630 0.00 0.00 39.06 3.01
671 699 9.992910 GAAAAGGTATTTTTACGATACGGAATT 57.007 29.630 0.00 0.00 39.06 2.17
675 703 9.985730 AGGTATTTTTACGATACGGAATTATGA 57.014 29.630 0.00 0.00 32.09 2.15
709 737 9.619727 CGTAAGAAGTTAATGTTTCATGTATCG 57.380 33.333 0.00 0.00 43.02 2.92
735 763 8.095937 AGAAAATTACCCGTAGTTCTCAAAAG 57.904 34.615 0.00 0.00 0.00 2.27
741 769 6.373186 ACCCGTAGTTCTCAAAAGAAAAAG 57.627 37.500 0.00 0.00 43.04 2.27
744 772 7.121611 ACCCGTAGTTCTCAAAAGAAAAAGAAA 59.878 33.333 0.00 0.00 43.04 2.52
745 773 7.971722 CCCGTAGTTCTCAAAAGAAAAAGAAAA 59.028 33.333 0.00 0.00 43.04 2.29
746 774 9.010366 CCGTAGTTCTCAAAAGAAAAAGAAAAG 57.990 33.333 0.00 0.00 43.04 2.27
748 776 9.856488 GTAGTTCTCAAAAGAAAAAGAAAAGGT 57.144 29.630 0.00 0.00 43.04 3.50
752 780 9.647797 TTCTCAAAAGAAAAAGAAAAGGTTACC 57.352 29.630 0.00 0.00 38.58 2.85
753 781 8.255206 TCTCAAAAGAAAAAGAAAAGGTTACCC 58.745 33.333 0.00 0.00 0.00 3.69
1225 1267 1.270839 GCAACTGGTACTTCCTCTGCA 60.271 52.381 0.00 0.00 36.49 4.41
1514 1559 3.710722 CGGGGAGAGCAGCAAGGT 61.711 66.667 0.00 0.00 0.00 3.50
1616 1661 0.392998 TTTGCGATGGAGGAGAAGCC 60.393 55.000 0.00 0.00 0.00 4.35
1617 1662 1.552799 TTGCGATGGAGGAGAAGCCA 61.553 55.000 0.00 0.00 40.02 4.75
1618 1663 1.227497 GCGATGGAGGAGAAGCCAG 60.227 63.158 0.00 0.00 40.02 4.85
1619 1664 1.680522 GCGATGGAGGAGAAGCCAGA 61.681 60.000 0.00 0.00 40.02 3.86
1621 1666 0.106521 GATGGAGGAGAAGCCAGAGC 59.893 60.000 0.00 0.00 40.02 4.09
1622 1667 1.344191 ATGGAGGAGAAGCCAGAGCC 61.344 60.000 0.00 0.00 41.25 4.70
1623 1668 1.992277 GGAGGAGAAGCCAGAGCCA 60.992 63.158 0.00 0.00 41.25 4.75
1625 1670 1.229464 AGGAGAAGCCAGAGCCACT 60.229 57.895 0.00 0.00 41.25 4.00
1626 1671 1.078567 GGAGAAGCCAGAGCCACTG 60.079 63.158 2.06 2.06 45.36 3.66
1634 1679 1.298993 CAGAGCCACTGGAGCACAT 59.701 57.895 0.00 0.00 42.39 3.21
1636 1681 0.908656 AGAGCCACTGGAGCACATCT 60.909 55.000 0.00 0.00 0.00 2.90
1639 1684 0.321919 GCCACTGGAGCACATCTTCA 60.322 55.000 0.00 0.00 0.00 3.02
1640 1685 1.446907 CCACTGGAGCACATCTTCAC 58.553 55.000 0.00 0.00 0.00 3.18
1643 1688 1.421268 ACTGGAGCACATCTTCACCAA 59.579 47.619 0.00 0.00 0.00 3.67
1644 1689 2.082231 CTGGAGCACATCTTCACCAAG 58.918 52.381 0.00 0.00 0.00 3.61
1650 1698 2.341257 CACATCTTCACCAAGGACGAG 58.659 52.381 0.00 0.00 0.00 4.18
1725 3507 3.118775 TGATTACCATGGAGGACGAACTG 60.119 47.826 21.47 0.00 41.22 3.16
1741 3523 1.351080 ACTGGAGCCATGGGAGATGG 61.351 60.000 15.13 0.00 41.99 3.51
1770 3561 0.035630 ACAAGCCACCAGAGATGCTC 60.036 55.000 0.00 0.00 32.62 4.26
1904 3827 5.528690 TGACATTGCCATTAGAGATGCTTAC 59.471 40.000 0.00 0.00 0.00 2.34
1921 3844 2.561478 TACCAAGAACTTCCCACTGC 57.439 50.000 0.00 0.00 0.00 4.40
1922 3845 0.846693 ACCAAGAACTTCCCACTGCT 59.153 50.000 0.00 0.00 0.00 4.24
1958 3881 4.558496 GCTTACTAACAACTTGGCATTGCA 60.558 41.667 11.39 0.00 0.00 4.08
2055 4014 2.814336 CCTTACCAAGAACTTGCCAGAC 59.186 50.000 8.81 0.00 39.16 3.51
2112 4104 1.478510 ACGACAGCCTTCGATCAAGAT 59.521 47.619 11.28 0.00 41.78 2.40
2115 4107 3.736433 CGACAGCCTTCGATCAAGATTCT 60.736 47.826 0.00 0.00 41.78 2.40
2208 4200 1.301401 CCCGGAACTGTTCGAGCAA 60.301 57.895 13.89 0.00 0.00 3.91
2521 4612 5.503927 AGCCATTAATCCCTGCTGTATATG 58.496 41.667 0.00 0.00 0.00 1.78
2551 4642 8.635765 ACTGGATTTATCAACTGTACAATGTT 57.364 30.769 0.00 0.00 0.00 2.71
2739 4842 4.702831 CTTGCCACCAGTTTACCAAAAAT 58.297 39.130 0.00 0.00 0.00 1.82
2740 4843 4.329462 TGCCACCAGTTTACCAAAAATC 57.671 40.909 0.00 0.00 0.00 2.17
2868 4972 6.715344 TTTACAGTATCCACAAAAGTAGCG 57.285 37.500 0.00 0.00 0.00 4.26
3197 5328 1.949465 AGGTTCTTGTCGGTGTTGTC 58.051 50.000 0.00 0.00 0.00 3.18
3315 5453 8.837389 AGATCATCATAACATGAGTTTGTGATG 58.163 33.333 19.60 19.60 46.87 3.07
3316 5454 7.926674 TCATCATAACATGAGTTTGTGATGT 57.073 32.000 22.33 0.00 46.35 3.06
3383 5524 8.689061 ACAATCACATAATTTAGTGCACATGAT 58.311 29.630 21.04 6.32 35.76 2.45
3384 5525 8.964150 CAATCACATAATTTAGTGCACATGATG 58.036 33.333 21.04 14.55 35.76 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
239 254 4.967084 TGTTTCTGAAACACTAGCCCTA 57.033 40.909 27.14 6.05 45.79 3.53
334 350 4.528206 TGTTGCAAGATCTGGTCTTCTCTA 59.472 41.667 0.00 0.00 45.35 2.43
502 518 2.047844 CCTGATAGCCGCCCGATG 60.048 66.667 0.00 0.00 0.00 3.84
521 537 0.843309 ATACGACCATTGGATGCCCA 59.157 50.000 10.37 0.00 41.64 5.36
532 548 8.786826 ACTGATTTTCTGATTTTATACGACCA 57.213 30.769 0.00 0.00 0.00 4.02
573 601 7.759489 TTAGCAGAAATATAATTTGGGCGAT 57.241 32.000 0.00 0.00 0.00 4.58
643 671 9.868277 TTCCGTATCGTAAAAATACCTTTTCTA 57.132 29.630 0.00 0.00 38.26 2.10
644 672 8.776376 TTCCGTATCGTAAAAATACCTTTTCT 57.224 30.769 0.00 0.00 38.26 2.52
645 673 9.992910 AATTCCGTATCGTAAAAATACCTTTTC 57.007 29.630 0.00 0.00 38.26 2.29
649 677 9.985730 TCATAATTCCGTATCGTAAAAATACCT 57.014 29.630 0.00 0.00 0.00 3.08
651 679 9.717844 CGTCATAATTCCGTATCGTAAAAATAC 57.282 33.333 0.00 0.00 0.00 1.89
652 680 9.462174 ACGTCATAATTCCGTATCGTAAAAATA 57.538 29.630 0.00 0.00 32.22 1.40
653 681 8.356533 ACGTCATAATTCCGTATCGTAAAAAT 57.643 30.769 0.00 0.00 32.22 1.82
654 682 7.754069 ACGTCATAATTCCGTATCGTAAAAA 57.246 32.000 0.00 0.00 32.22 1.94
655 683 8.128582 AGTACGTCATAATTCCGTATCGTAAAA 58.871 33.333 0.00 0.00 39.04 1.52
656 684 7.639039 AGTACGTCATAATTCCGTATCGTAAA 58.361 34.615 0.00 0.00 39.04 2.01
657 685 7.189693 AGTACGTCATAATTCCGTATCGTAA 57.810 36.000 0.00 0.00 39.04 3.18
658 686 6.785488 AGTACGTCATAATTCCGTATCGTA 57.215 37.500 0.00 0.00 39.04 3.43
659 687 5.679734 AGTACGTCATAATTCCGTATCGT 57.320 39.130 0.00 0.00 39.04 3.73
660 688 5.725313 CGTAGTACGTCATAATTCCGTATCG 59.275 44.000 14.62 0.00 39.04 2.92
709 737 7.662604 TTTGAGAACTACGGGTAATTTTCTC 57.337 36.000 12.90 12.90 39.51 2.87
753 781 1.153353 AGTTTGCAACCGACCATACG 58.847 50.000 0.00 0.00 0.00 3.06
1514 1559 1.035932 CCTCTTAGAAGACCGGGCGA 61.036 60.000 6.32 0.00 0.00 5.54
1616 1661 0.743701 GATGTGCTCCAGTGGCTCTG 60.744 60.000 3.51 9.55 43.27 3.35
1617 1662 0.908656 AGATGTGCTCCAGTGGCTCT 60.909 55.000 3.51 0.00 0.00 4.09
1618 1663 0.035630 AAGATGTGCTCCAGTGGCTC 60.036 55.000 3.51 0.00 0.00 4.70
1619 1664 0.035630 GAAGATGTGCTCCAGTGGCT 60.036 55.000 3.51 0.00 0.00 4.75
1621 1666 1.446907 GTGAAGATGTGCTCCAGTGG 58.553 55.000 1.40 1.40 0.00 4.00
1622 1667 1.271001 TGGTGAAGATGTGCTCCAGTG 60.271 52.381 0.00 0.00 0.00 3.66
1623 1668 1.059098 TGGTGAAGATGTGCTCCAGT 58.941 50.000 0.00 0.00 0.00 4.00
1625 1670 1.271543 CCTTGGTGAAGATGTGCTCCA 60.272 52.381 0.00 0.00 0.00 3.86
1626 1671 1.003580 TCCTTGGTGAAGATGTGCTCC 59.996 52.381 0.00 0.00 0.00 4.70
1627 1672 2.079925 GTCCTTGGTGAAGATGTGCTC 58.920 52.381 0.00 0.00 0.00 4.26
1628 1673 1.609061 CGTCCTTGGTGAAGATGTGCT 60.609 52.381 0.00 0.00 0.00 4.40
1630 1675 2.341257 CTCGTCCTTGGTGAAGATGTG 58.659 52.381 0.00 0.00 0.00 3.21
1632 1677 1.363744 GCTCGTCCTTGGTGAAGATG 58.636 55.000 0.00 0.00 0.00 2.90
1634 1679 1.118965 TGGCTCGTCCTTGGTGAAGA 61.119 55.000 0.00 0.00 35.26 2.87
1636 1681 1.118965 TCTGGCTCGTCCTTGGTGAA 61.119 55.000 0.00 0.00 35.26 3.18
1639 1684 1.534235 ACTCTGGCTCGTCCTTGGT 60.534 57.895 0.00 0.00 35.26 3.67
1640 1685 1.216710 GACTCTGGCTCGTCCTTGG 59.783 63.158 0.00 0.00 35.26 3.61
1643 1688 1.326213 CCATGACTCTGGCTCGTCCT 61.326 60.000 0.00 0.00 35.26 3.85
1644 1689 1.142748 CCATGACTCTGGCTCGTCC 59.857 63.158 0.00 0.00 0.00 4.79
1650 1698 0.534652 GCATCTCCCATGACTCTGGC 60.535 60.000 0.00 0.00 34.77 4.85
1725 3507 1.140312 TAACCATCTCCCATGGCTCC 58.860 55.000 6.09 0.00 42.82 4.70
1759 3544 1.808945 GTTGTTGGTGAGCATCTCTGG 59.191 52.381 0.00 0.00 34.92 3.86
1794 3585 3.307339 GGAAGTTCTTGGTGAGCATCTCT 60.307 47.826 2.25 0.00 34.92 3.10
1904 3827 1.882623 GAAGCAGTGGGAAGTTCTTGG 59.117 52.381 2.25 0.00 0.00 3.61
1921 3844 3.902881 AGTAAGCATCTCCAGTGGAAG 57.097 47.619 14.17 7.75 0.00 3.46
1922 3845 4.530553 TGTTAGTAAGCATCTCCAGTGGAA 59.469 41.667 14.17 4.93 0.00 3.53
1958 3881 5.953571 AGTTCTTGTTAAGGGTCTCCAATT 58.046 37.500 0.00 0.00 34.83 2.32
2040 3999 2.291741 GTCCAAGTCTGGCAAGTTCTTG 59.708 50.000 16.28 16.28 43.17 3.02
2055 4014 4.019321 TCCTCTTTGGTAAGGATGTCCAAG 60.019 45.833 1.30 0.00 41.34 3.61
2446 4535 3.328505 CTTGGCACACAATGATTTTCCC 58.671 45.455 0.00 0.00 39.29 3.97
2771 4874 7.266922 TGTTGTACATCTTTTTACCACCTTC 57.733 36.000 0.00 0.00 0.00 3.46
2868 4972 7.014092 TGATTTCTGCAAATTTGGTTCAAAC 57.986 32.000 19.47 1.87 36.13 2.93
3197 5328 2.094575 CAGACCGAAGAGAGTACAGACG 59.905 54.545 0.00 0.00 0.00 4.18
3268 5399 7.816513 TGATCTGTTGACTATATGCTAATCTGC 59.183 37.037 0.00 0.00 0.00 4.26
3298 5436 5.009510 CCCACAACATCACAAACTCATGTTA 59.990 40.000 0.00 0.00 38.43 2.41
3315 5453 0.811281 GCATAACCTGAGCCCACAAC 59.189 55.000 0.00 0.00 0.00 3.32
3316 5454 0.403655 TGCATAACCTGAGCCCACAA 59.596 50.000 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.