Multiple sequence alignment - TraesCS5B01G389100

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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 TraesCS5B01G389100 chr5B 100.000 2459 0 0 1 2459 568186189 568183731 0.000000e+00 4542.0
1 TraesCS5B01G389100 chr5B 96.034 580 21 2 1 579 557280694 557280116 0.000000e+00 942.0
2 TraesCS5B01G389100 chr5B 95.548 584 22 4 1 581 491244347 491243765 0.000000e+00 931.0
3 TraesCS5B01G389100 chr5B 100.000 28 0 0 1825 1852 568184311 568184284 4.000000e-03 52.8
4 TraesCS5B01G389100 chr5B 100.000 28 0 0 1879 1906 568184365 568184338 4.000000e-03 52.8
5 TraesCS5B01G389100 chr5A 90.731 1273 62 23 718 1965 582107962 582106721 0.000000e+00 1646.0
6 TraesCS5B01G389100 chr5A 86.280 328 20 15 2026 2335 582106093 582105773 1.410000e-87 333.0
7 TraesCS5B01G389100 chr5D 91.134 970 36 21 899 1852 462040813 462039878 0.000000e+00 1269.0
8 TraesCS5B01G389100 chr5D 87.342 395 17 7 2026 2407 462030763 462030389 2.920000e-114 422.0
9 TraesCS5B01G389100 chr5D 94.186 86 4 1 719 804 462040925 462040841 1.980000e-26 130.0
10 TraesCS5B01G389100 chr5D 87.736 106 3 3 1929 2027 462034010 462033908 5.560000e-22 115.0
11 TraesCS5B01G389100 chr3B 96.540 578 17 3 3 579 606205566 606204991 0.000000e+00 953.0
12 TraesCS5B01G389100 chr3B 95.637 573 23 2 8 579 16101915 16102486 0.000000e+00 918.0
13 TraesCS5B01G389100 chr3B 98.507 67 1 0 2026 2092 320732136 320732070 4.300000e-23 119.0
14 TraesCS5B01G389100 chr1B 95.890 584 21 3 3 584 40601323 40600741 0.000000e+00 942.0
15 TraesCS5B01G389100 chr1B 87.147 638 56 17 845 1463 344375803 344375173 0.000000e+00 701.0
16 TraesCS5B01G389100 chr1B 85.441 680 68 24 802 1463 434335191 434335857 0.000000e+00 678.0
17 TraesCS5B01G389100 chr1B 92.553 470 26 6 1001 1466 434429743 434429279 0.000000e+00 665.0
18 TraesCS5B01G389100 chr4B 95.876 582 18 4 3 580 602210001 602210580 0.000000e+00 937.0
19 TraesCS5B01G389100 chr7B 95.085 590 25 4 3 591 31556239 31555653 0.000000e+00 926.0
20 TraesCS5B01G389100 chr7B 98.507 67 1 0 2026 2092 122461155 122461221 4.300000e-23 119.0
21 TraesCS5B01G389100 chr2B 95.502 578 24 2 3 579 504207007 504206431 0.000000e+00 922.0
22 TraesCS5B01G389100 chr2B 93.305 463 23 5 1001 1459 473299924 473300382 0.000000e+00 676.0
23 TraesCS5B01G389100 chr6B 94.701 585 29 2 3 585 28017430 28018014 0.000000e+00 907.0
24 TraesCS5B01G389100 chr4A 86.873 678 55 27 805 1459 572846222 572845556 0.000000e+00 728.0
25 TraesCS5B01G389100 chr4A 87.255 102 12 1 1879 1979 249766306 249766407 5.560000e-22 115.0
26 TraesCS5B01G389100 chr4D 86.217 682 61 23 802 1460 30194815 30195486 0.000000e+00 708.0
27 TraesCS5B01G389100 chr2D 93.737 463 21 5 1001 1459 399347628 399348086 0.000000e+00 688.0


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 TraesCS5B01G389100 chr5B 568183731 568186189 2458 True 1549.2 4542 100.0000 1 2459 3 chr5B.!!$R3 2458
1 TraesCS5B01G389100 chr5B 557280116 557280694 578 True 942.0 942 96.0340 1 579 1 chr5B.!!$R2 578
2 TraesCS5B01G389100 chr5B 491243765 491244347 582 True 931.0 931 95.5480 1 581 1 chr5B.!!$R1 580
3 TraesCS5B01G389100 chr5A 582105773 582107962 2189 True 989.5 1646 88.5055 718 2335 2 chr5A.!!$R1 1617
4 TraesCS5B01G389100 chr5D 462039878 462040925 1047 True 699.5 1269 92.6600 719 1852 2 chr5D.!!$R2 1133
5 TraesCS5B01G389100 chr5D 462030389 462034010 3621 True 268.5 422 87.5390 1929 2407 2 chr5D.!!$R1 478
6 TraesCS5B01G389100 chr3B 606204991 606205566 575 True 953.0 953 96.5400 3 579 1 chr3B.!!$R2 576
7 TraesCS5B01G389100 chr3B 16101915 16102486 571 False 918.0 918 95.6370 8 579 1 chr3B.!!$F1 571
8 TraesCS5B01G389100 chr1B 40600741 40601323 582 True 942.0 942 95.8900 3 584 1 chr1B.!!$R1 581
9 TraesCS5B01G389100 chr1B 344375173 344375803 630 True 701.0 701 87.1470 845 1463 1 chr1B.!!$R2 618
10 TraesCS5B01G389100 chr1B 434335191 434335857 666 False 678.0 678 85.4410 802 1463 1 chr1B.!!$F1 661
11 TraesCS5B01G389100 chr4B 602210001 602210580 579 False 937.0 937 95.8760 3 580 1 chr4B.!!$F1 577
12 TraesCS5B01G389100 chr7B 31555653 31556239 586 True 926.0 926 95.0850 3 591 1 chr7B.!!$R1 588
13 TraesCS5B01G389100 chr2B 504206431 504207007 576 True 922.0 922 95.5020 3 579 1 chr2B.!!$R1 576
14 TraesCS5B01G389100 chr6B 28017430 28018014 584 False 907.0 907 94.7010 3 585 1 chr6B.!!$F1 582
15 TraesCS5B01G389100 chr4A 572845556 572846222 666 True 728.0 728 86.8730 805 1459 1 chr4A.!!$R1 654
16 TraesCS5B01G389100 chr4D 30194815 30195486 671 False 708.0 708 86.2170 802 1460 1 chr4D.!!$F1 658

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
703 710 0.110486 AGAACACTTGCCCGTCCATT 59.89 50.0 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2426 5735 1.002773 GGCTTGTTCGGTTTAGAGGGA 59.997 52.381 0.0 0.0 0.0 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
34 36 1.048724 CCTTAGGGCCATGGAGACGA 61.049 60.000 18.40 0.00 0.00 4.20
49 51 2.983512 ACGAAGTGGATCTCAGCCT 58.016 52.632 0.00 0.00 42.51 4.58
164 169 5.039645 TGAAGATGGAATAAAGGTCTCCCT 58.960 41.667 0.00 0.00 45.63 4.20
333 339 0.179111 CTCTTCATCTGCGGCGGTTA 60.179 55.000 9.78 0.00 0.00 2.85
607 614 9.603921 AAAGAATGATTGACAACATTTCTTTGT 57.396 25.926 21.29 8.62 39.94 2.83
608 615 8.583810 AGAATGATTGACAACATTTCTTTGTG 57.416 30.769 13.58 0.00 37.31 3.33
609 616 8.415553 AGAATGATTGACAACATTTCTTTGTGA 58.584 29.630 13.58 0.00 37.31 3.58
610 617 8.945481 AATGATTGACAACATTTCTTTGTGAA 57.055 26.923 9.03 0.00 37.31 3.18
612 619 8.183830 TGATTGACAACATTTCTTTGTGAAAC 57.816 30.769 0.00 0.00 46.08 2.78
613 620 6.624710 TTGACAACATTTCTTTGTGAAACG 57.375 33.333 0.00 0.00 46.08 3.60
614 621 4.560819 TGACAACATTTCTTTGTGAAACGC 59.439 37.500 0.00 0.00 46.08 4.84
615 622 4.743493 ACAACATTTCTTTGTGAAACGCT 58.257 34.783 0.00 0.00 46.08 5.07
616 623 4.562394 ACAACATTTCTTTGTGAAACGCTG 59.438 37.500 0.00 0.00 46.08 5.18
617 624 4.630894 ACATTTCTTTGTGAAACGCTGA 57.369 36.364 0.00 0.00 46.08 4.26
618 625 4.992688 ACATTTCTTTGTGAAACGCTGAA 58.007 34.783 0.00 0.00 46.08 3.02
619 626 5.406649 ACATTTCTTTGTGAAACGCTGAAA 58.593 33.333 0.00 0.00 46.08 2.69
620 627 5.516339 ACATTTCTTTGTGAAACGCTGAAAG 59.484 36.000 0.00 0.00 46.08 2.62
621 628 3.691049 TCTTTGTGAAACGCTGAAAGG 57.309 42.857 0.00 0.00 42.39 3.11
622 629 2.119457 CTTTGTGAAACGCTGAAAGGC 58.881 47.619 0.00 0.00 42.39 4.35
623 630 1.098869 TTGTGAAACGCTGAAAGGCA 58.901 45.000 0.00 0.00 42.39 4.75
624 631 0.662619 TGTGAAACGCTGAAAGGCAG 59.337 50.000 0.00 0.00 42.39 4.85
625 632 0.663153 GTGAAACGCTGAAAGGCAGT 59.337 50.000 0.00 0.00 46.62 4.40
626 633 0.944386 TGAAACGCTGAAAGGCAGTC 59.056 50.000 0.00 0.00 46.62 3.51
627 634 0.110644 GAAACGCTGAAAGGCAGTCG 60.111 55.000 0.00 0.00 46.62 4.18
628 635 2.421739 ACGCTGAAAGGCAGTCGT 59.578 55.556 0.00 0.00 46.62 4.34
629 636 2.856032 CGCTGAAAGGCAGTCGTG 59.144 61.111 0.00 0.00 46.62 4.35
630 637 2.671177 CGCTGAAAGGCAGTCGTGG 61.671 63.158 0.00 0.00 46.62 4.94
631 638 1.301716 GCTGAAAGGCAGTCGTGGA 60.302 57.895 0.00 0.00 46.62 4.02
632 639 0.884704 GCTGAAAGGCAGTCGTGGAA 60.885 55.000 0.00 0.00 46.62 3.53
633 640 1.151668 CTGAAAGGCAGTCGTGGAAG 58.848 55.000 0.00 0.00 39.85 3.46
634 641 0.756294 TGAAAGGCAGTCGTGGAAGA 59.244 50.000 0.00 0.00 0.00 2.87
635 642 1.149148 GAAAGGCAGTCGTGGAAGAC 58.851 55.000 0.00 0.00 41.23 3.01
636 643 0.468226 AAAGGCAGTCGTGGAAGACA 59.532 50.000 0.00 0.00 43.24 3.41
637 644 0.468226 AAGGCAGTCGTGGAAGACAA 59.532 50.000 0.00 0.00 43.24 3.18
638 645 0.468226 AGGCAGTCGTGGAAGACAAA 59.532 50.000 0.00 0.00 43.24 2.83
639 646 1.134220 AGGCAGTCGTGGAAGACAAAA 60.134 47.619 0.00 0.00 43.24 2.44
640 647 1.673920 GGCAGTCGTGGAAGACAAAAA 59.326 47.619 0.00 0.00 43.24 1.94
661 668 4.712122 AAAAAGAAAAAGACACTGCGGA 57.288 36.364 0.00 0.00 0.00 5.54
662 669 3.692791 AAAGAAAAAGACACTGCGGAC 57.307 42.857 0.00 0.00 0.00 4.79
663 670 1.594331 AGAAAAAGACACTGCGGACC 58.406 50.000 0.00 0.00 0.00 4.46
664 671 0.234884 GAAAAAGACACTGCGGACCG 59.765 55.000 10.29 10.29 0.00 4.79
676 683 4.760047 GGACCGCGGCACATGAGT 62.760 66.667 28.58 1.54 0.00 3.41
677 684 3.188786 GACCGCGGCACATGAGTC 61.189 66.667 28.58 8.97 0.00 3.36
683 690 3.558411 GGCACATGAGTCGCGCTC 61.558 66.667 19.33 19.33 44.36 5.03
690 697 3.453465 GAGTCGCGCTCAGAACAC 58.547 61.111 20.64 4.19 43.58 3.32
691 698 1.081108 GAGTCGCGCTCAGAACACT 60.081 57.895 20.64 8.81 43.58 3.55
692 699 0.664767 GAGTCGCGCTCAGAACACTT 60.665 55.000 20.64 0.00 43.58 3.16
693 700 0.941463 AGTCGCGCTCAGAACACTTG 60.941 55.000 5.56 0.00 0.00 3.16
694 701 2.171940 CGCGCTCAGAACACTTGC 59.828 61.111 5.56 0.00 0.00 4.01
695 702 2.558313 GCGCTCAGAACACTTGCC 59.442 61.111 0.00 0.00 0.00 4.52
696 703 2.970974 GCGCTCAGAACACTTGCCC 61.971 63.158 0.00 0.00 0.00 5.36
697 704 2.671177 CGCTCAGAACACTTGCCCG 61.671 63.158 0.00 0.00 0.00 6.13
698 705 1.598130 GCTCAGAACACTTGCCCGT 60.598 57.895 0.00 0.00 0.00 5.28
699 706 1.569479 GCTCAGAACACTTGCCCGTC 61.569 60.000 0.00 0.00 0.00 4.79
700 707 0.951040 CTCAGAACACTTGCCCGTCC 60.951 60.000 0.00 0.00 0.00 4.79
701 708 1.227823 CAGAACACTTGCCCGTCCA 60.228 57.895 0.00 0.00 0.00 4.02
702 709 0.606401 CAGAACACTTGCCCGTCCAT 60.606 55.000 0.00 0.00 0.00 3.41
703 710 0.110486 AGAACACTTGCCCGTCCATT 59.890 50.000 0.00 0.00 0.00 3.16
704 711 0.958822 GAACACTTGCCCGTCCATTT 59.041 50.000 0.00 0.00 0.00 2.32
705 712 1.339929 GAACACTTGCCCGTCCATTTT 59.660 47.619 0.00 0.00 0.00 1.82
706 713 2.279935 ACACTTGCCCGTCCATTTTA 57.720 45.000 0.00 0.00 0.00 1.52
707 714 2.802719 ACACTTGCCCGTCCATTTTAT 58.197 42.857 0.00 0.00 0.00 1.40
708 715 2.752903 ACACTTGCCCGTCCATTTTATC 59.247 45.455 0.00 0.00 0.00 1.75
709 716 2.014128 ACTTGCCCGTCCATTTTATCG 58.986 47.619 0.00 0.00 0.00 2.92
710 717 2.014128 CTTGCCCGTCCATTTTATCGT 58.986 47.619 0.00 0.00 0.00 3.73
711 718 1.374560 TGCCCGTCCATTTTATCGTG 58.625 50.000 0.00 0.00 0.00 4.35
712 719 1.066071 TGCCCGTCCATTTTATCGTGA 60.066 47.619 0.00 0.00 0.00 4.35
713 720 1.597663 GCCCGTCCATTTTATCGTGAG 59.402 52.381 0.00 0.00 0.00 3.51
852 870 2.279851 CACACCGCTCCACGTCAA 60.280 61.111 0.00 0.00 41.42 3.18
1116 1159 1.374758 CAAGGCCGAGAAGCGTCTT 60.375 57.895 2.97 0.00 38.67 3.01
1499 1549 1.918293 TGACCGCTGTTGATCCCCT 60.918 57.895 0.00 0.00 0.00 4.79
1500 1550 1.450312 GACCGCTGTTGATCCCCTG 60.450 63.158 0.00 0.00 0.00 4.45
1591 1645 2.248487 GATGGTTCGTGTGTAGTCGTC 58.752 52.381 0.00 0.00 0.00 4.20
1593 1647 0.727122 GGTTCGTGTGTAGTCGTCGG 60.727 60.000 0.00 0.00 0.00 4.79
1631 1686 1.206578 CCGTGGTGCTACTTTTGCG 59.793 57.895 0.00 0.00 0.00 4.85
1633 1688 1.141645 CGTGGTGCTACTTTTGCGTA 58.858 50.000 0.00 0.00 0.00 4.42
1675 1730 5.702670 TGGAACAAAAATCTGCTACTCTGAG 59.297 40.000 2.45 2.45 31.92 3.35
1679 1734 7.195839 ACAAAAATCTGCTACTCTGAGTTTC 57.804 36.000 16.53 8.63 39.07 2.78
1688 1743 6.705302 TGCTACTCTGAGTTTCTGATGAATT 58.295 36.000 16.53 0.00 31.56 2.17
1689 1744 6.592994 TGCTACTCTGAGTTTCTGATGAATTG 59.407 38.462 16.53 0.00 31.56 2.32
1691 1746 7.118971 GCTACTCTGAGTTTCTGATGAATTGTT 59.881 37.037 16.53 0.00 31.56 2.83
1719 1774 9.823647 CAAGAGTAGTTATATTTGACATCCTGT 57.176 33.333 0.00 0.00 0.00 4.00
1723 1778 9.959721 AGTAGTTATATTTGACATCCTGTTTGT 57.040 29.630 0.00 0.00 0.00 2.83
1724 1779 9.988350 GTAGTTATATTTGACATCCTGTTTGTG 57.012 33.333 0.00 0.00 0.00 3.33
1725 1780 7.538575 AGTTATATTTGACATCCTGTTTGTGC 58.461 34.615 0.00 0.00 0.00 4.57
1726 1781 7.394359 AGTTATATTTGACATCCTGTTTGTGCT 59.606 33.333 0.00 0.00 0.00 4.40
1727 1782 8.673711 GTTATATTTGACATCCTGTTTGTGCTA 58.326 33.333 0.00 0.00 0.00 3.49
1728 1783 7.886629 ATATTTGACATCCTGTTTGTGCTAT 57.113 32.000 0.00 0.00 0.00 2.97
1729 1784 6.594788 ATTTGACATCCTGTTTGTGCTATT 57.405 33.333 0.00 0.00 0.00 1.73
1730 1785 5.627499 TTGACATCCTGTTTGTGCTATTC 57.373 39.130 0.00 0.00 0.00 1.75
1731 1786 4.910195 TGACATCCTGTTTGTGCTATTCT 58.090 39.130 0.00 0.00 0.00 2.40
1732 1787 5.316167 TGACATCCTGTTTGTGCTATTCTT 58.684 37.500 0.00 0.00 0.00 2.52
1733 1788 5.181811 TGACATCCTGTTTGTGCTATTCTTG 59.818 40.000 0.00 0.00 0.00 3.02
1736 1820 6.435277 ACATCCTGTTTGTGCTATTCTTGATT 59.565 34.615 0.00 0.00 0.00 2.57
1784 1868 2.515991 ACCTGTTGTGCACCGTGG 60.516 61.111 15.69 13.37 0.00 4.94
1819 1903 2.104111 TCGTTCTGTTGTTCCTGGTCAT 59.896 45.455 0.00 0.00 0.00 3.06
1822 1906 4.560716 CGTTCTGTTGTTCCTGGTCATAGA 60.561 45.833 0.00 0.53 0.00 1.98
1824 1908 5.762179 TCTGTTGTTCCTGGTCATAGATT 57.238 39.130 0.00 0.00 0.00 2.40
1825 1909 5.491070 TCTGTTGTTCCTGGTCATAGATTG 58.509 41.667 0.00 0.00 0.00 2.67
1826 1910 5.248248 TCTGTTGTTCCTGGTCATAGATTGA 59.752 40.000 0.00 0.00 0.00 2.57
1828 1912 6.484288 TGTTGTTCCTGGTCATAGATTGAAT 58.516 36.000 0.00 0.00 35.70 2.57
1829 1913 6.599244 TGTTGTTCCTGGTCATAGATTGAATC 59.401 38.462 0.00 0.00 35.70 2.52
1830 1914 6.312141 TGTTCCTGGTCATAGATTGAATCA 57.688 37.500 8.03 0.00 35.70 2.57
1831 1915 6.720309 TGTTCCTGGTCATAGATTGAATCAA 58.280 36.000 8.03 0.00 35.70 2.57
1832 1916 6.825213 TGTTCCTGGTCATAGATTGAATCAAG 59.175 38.462 8.03 0.00 35.70 3.02
1833 1917 6.566079 TCCTGGTCATAGATTGAATCAAGT 57.434 37.500 8.03 0.00 35.70 3.16
1836 1920 8.206867 TCCTGGTCATAGATTGAATCAAGTTAG 58.793 37.037 8.03 0.00 35.70 2.34
1838 1922 8.948631 TGGTCATAGATTGAATCAAGTTAGAC 57.051 34.615 8.03 5.95 35.70 2.59
1839 1923 7.987458 TGGTCATAGATTGAATCAAGTTAGACC 59.013 37.037 20.47 20.47 39.64 3.85
1840 1924 7.442666 GGTCATAGATTGAATCAAGTTAGACCC 59.557 40.741 18.33 5.60 35.70 4.46
1842 1926 8.548025 TCATAGATTGAATCAAGTTAGACCCAA 58.452 33.333 8.03 0.00 0.00 4.12
1844 1928 9.927081 ATAGATTGAATCAAGTTAGACCCAATT 57.073 29.630 8.03 0.00 0.00 2.32
1845 1929 8.059798 AGATTGAATCAAGTTAGACCCAATTG 57.940 34.615 8.03 0.00 0.00 2.32
1846 1930 6.588719 TTGAATCAAGTTAGACCCAATTGG 57.411 37.500 18.21 18.21 41.37 3.16
1859 1943 3.598019 CCAATTGGGGTGTGAATCAAG 57.402 47.619 17.36 0.00 0.00 3.02
1860 1944 2.899256 CCAATTGGGGTGTGAATCAAGT 59.101 45.455 17.36 0.00 0.00 3.16
1861 1945 3.324556 CCAATTGGGGTGTGAATCAAGTT 59.675 43.478 17.36 0.00 0.00 2.66
1862 1946 4.526262 CCAATTGGGGTGTGAATCAAGTTA 59.474 41.667 17.36 0.00 0.00 2.24
1863 1947 5.336690 CCAATTGGGGTGTGAATCAAGTTAG 60.337 44.000 17.36 0.00 0.00 2.34
1864 1948 4.715534 TTGGGGTGTGAATCAAGTTAGA 57.284 40.909 0.00 0.00 0.00 2.10
1865 1949 4.015872 TGGGGTGTGAATCAAGTTAGAC 57.984 45.455 0.00 0.00 0.00 2.59
1866 1950 3.244770 TGGGGTGTGAATCAAGTTAGACC 60.245 47.826 0.00 0.00 0.00 3.85
1867 1951 3.344515 GGGTGTGAATCAAGTTAGACCC 58.655 50.000 0.00 0.00 0.00 4.46
1868 1952 3.244770 GGGTGTGAATCAAGTTAGACCCA 60.245 47.826 0.00 0.00 34.08 4.51
1869 1953 4.394729 GGTGTGAATCAAGTTAGACCCAA 58.605 43.478 0.00 0.00 0.00 4.12
1870 1954 5.010282 GGTGTGAATCAAGTTAGACCCAAT 58.990 41.667 0.00 0.00 0.00 3.16
1871 1955 5.476945 GGTGTGAATCAAGTTAGACCCAATT 59.523 40.000 0.00 0.00 0.00 2.32
1872 1956 6.381801 GTGTGAATCAAGTTAGACCCAATTG 58.618 40.000 0.00 0.00 0.00 2.32
1873 1957 5.476599 TGTGAATCAAGTTAGACCCAATTGG 59.523 40.000 18.21 18.21 41.37 3.16
2005 2095 9.427821 AGTTATGTACTTATCTCTGACATCCTT 57.572 33.333 0.00 0.00 31.29 3.36
2009 2099 8.996651 TGTACTTATCTCTGACATCCTTATCA 57.003 34.615 0.00 0.00 0.00 2.15
2013 2103 9.606631 ACTTATCTCTGACATCCTTATCAAAAC 57.393 33.333 0.00 0.00 0.00 2.43
2014 2104 9.829507 CTTATCTCTGACATCCTTATCAAAACT 57.170 33.333 0.00 0.00 0.00 2.66
2126 5404 2.008329 CAGTGGAAAGCATCTCAGCTC 58.992 52.381 0.00 0.00 45.89 4.09
2129 5407 1.627329 TGGAAAGCATCTCAGCTCAGT 59.373 47.619 0.00 0.00 45.89 3.41
2146 5427 5.808403 GCTCAGTGCTTATCTCTTGATTTG 58.192 41.667 0.00 0.00 38.95 2.32
2167 5451 0.038892 AGTGCCTTCTTTTGCATGCG 60.039 50.000 14.09 0.00 40.07 4.73
2222 5528 8.472683 TTGTTTGTTACAGAAAGTTCCATTTG 57.527 30.769 0.00 0.00 38.19 2.32
2244 5553 6.925610 TGCTTGCAGAATTAATACCTACTG 57.074 37.500 0.00 0.00 0.00 2.74
2293 5602 5.817296 GGATGTGTGTAGCATCAGATTGTAA 59.183 40.000 7.46 0.00 43.17 2.41
2294 5603 6.018425 GGATGTGTGTAGCATCAGATTGTAAG 60.018 42.308 7.46 0.00 43.17 2.34
2295 5604 5.793817 TGTGTGTAGCATCAGATTGTAAGT 58.206 37.500 0.00 0.00 0.00 2.24
2296 5605 6.930731 TGTGTGTAGCATCAGATTGTAAGTA 58.069 36.000 0.00 0.00 0.00 2.24
2297 5606 7.035612 TGTGTGTAGCATCAGATTGTAAGTAG 58.964 38.462 0.00 0.00 0.00 2.57
2298 5607 7.036220 GTGTGTAGCATCAGATTGTAAGTAGT 58.964 38.462 0.00 0.00 0.00 2.73
2331 5640 2.483013 GCATCCGTAGCAGGATGTAACA 60.483 50.000 26.07 0.00 45.23 2.41
2332 5641 3.803715 GCATCCGTAGCAGGATGTAACAT 60.804 47.826 26.07 0.00 45.23 2.71
2333 5642 4.380531 CATCCGTAGCAGGATGTAACATT 58.619 43.478 20.86 0.00 45.23 2.71
2334 5643 3.792401 TCCGTAGCAGGATGTAACATTG 58.208 45.455 0.00 0.00 39.31 2.82
2335 5644 3.196901 TCCGTAGCAGGATGTAACATTGT 59.803 43.478 0.00 0.00 39.31 2.71
2336 5645 4.403113 TCCGTAGCAGGATGTAACATTGTA 59.597 41.667 0.00 0.00 39.31 2.41
2337 5646 5.105269 TCCGTAGCAGGATGTAACATTGTAA 60.105 40.000 0.00 0.00 39.31 2.41
2338 5647 5.006358 CCGTAGCAGGATGTAACATTGTAAC 59.994 44.000 0.00 0.00 39.31 2.50
2353 5662 7.834068 ACATTGTAACTTGACTATAGTGCTG 57.166 36.000 10.90 2.27 0.00 4.41
2407 5716 3.965888 CCTCCCAAGGGAACTGAAG 57.034 57.895 9.52 0.00 44.66 3.02
2408 5717 0.329596 CCTCCCAAGGGAACTGAAGG 59.670 60.000 9.52 1.89 44.66 3.46
2409 5718 0.329596 CTCCCAAGGGAACTGAAGGG 59.670 60.000 9.52 0.00 44.66 3.95
2410 5719 1.140134 TCCCAAGGGAACTGAAGGGG 61.140 60.000 5.09 0.00 44.09 4.79
2411 5720 1.384191 CCAAGGGAACTGAAGGGGG 59.616 63.158 0.00 0.00 42.68 5.40
2412 5721 1.435346 CCAAGGGAACTGAAGGGGGT 61.435 60.000 0.00 0.00 42.68 4.95
2413 5722 0.482887 CAAGGGAACTGAAGGGGGTT 59.517 55.000 0.00 0.00 42.68 4.11
2414 5723 1.133167 CAAGGGAACTGAAGGGGGTTT 60.133 52.381 0.00 0.00 42.68 3.27
2415 5724 0.482887 AGGGAACTGAAGGGGGTTTG 59.517 55.000 0.00 0.00 41.13 2.93
2416 5725 0.541998 GGGAACTGAAGGGGGTTTGG 60.542 60.000 0.00 0.00 0.00 3.28
2417 5726 0.541998 GGAACTGAAGGGGGTTTGGG 60.542 60.000 0.00 0.00 0.00 4.12
2418 5727 0.541998 GAACTGAAGGGGGTTTGGGG 60.542 60.000 0.00 0.00 0.00 4.96
2419 5728 1.301160 AACTGAAGGGGGTTTGGGGT 61.301 55.000 0.00 0.00 0.00 4.95
2420 5729 0.403750 ACTGAAGGGGGTTTGGGGTA 60.404 55.000 0.00 0.00 0.00 3.69
2421 5730 1.007607 CTGAAGGGGGTTTGGGGTAT 58.992 55.000 0.00 0.00 0.00 2.73
2422 5731 1.361197 CTGAAGGGGGTTTGGGGTATT 59.639 52.381 0.00 0.00 0.00 1.89
2423 5732 1.796415 TGAAGGGGGTTTGGGGTATTT 59.204 47.619 0.00 0.00 0.00 1.40
2424 5733 2.182536 TGAAGGGGGTTTGGGGTATTTT 59.817 45.455 0.00 0.00 0.00 1.82
2425 5734 3.253220 GAAGGGGGTTTGGGGTATTTTT 58.747 45.455 0.00 0.00 0.00 1.94
2444 5753 5.761165 TTTTTCCCTCTAAACCGAACAAG 57.239 39.130 0.00 0.00 0.00 3.16
2445 5754 2.467566 TCCCTCTAAACCGAACAAGC 57.532 50.000 0.00 0.00 0.00 4.01
2446 5755 1.002773 TCCCTCTAAACCGAACAAGCC 59.997 52.381 0.00 0.00 0.00 4.35
2447 5756 1.003233 CCCTCTAAACCGAACAAGCCT 59.997 52.381 0.00 0.00 0.00 4.58
2448 5757 2.235402 CCCTCTAAACCGAACAAGCCTA 59.765 50.000 0.00 0.00 0.00 3.93
2449 5758 3.259902 CCTCTAAACCGAACAAGCCTAC 58.740 50.000 0.00 0.00 0.00 3.18
2450 5759 3.306502 CCTCTAAACCGAACAAGCCTACA 60.307 47.826 0.00 0.00 0.00 2.74
2451 5760 4.504858 CTCTAAACCGAACAAGCCTACAT 58.495 43.478 0.00 0.00 0.00 2.29
2452 5761 4.250464 TCTAAACCGAACAAGCCTACATG 58.750 43.478 0.00 0.00 0.00 3.21
2453 5762 2.851263 AACCGAACAAGCCTACATGA 57.149 45.000 0.00 0.00 0.00 3.07
2454 5763 3.350219 AACCGAACAAGCCTACATGAT 57.650 42.857 0.00 0.00 0.00 2.45
2455 5764 2.632377 ACCGAACAAGCCTACATGATG 58.368 47.619 0.00 0.00 0.00 3.07
2456 5765 2.236146 ACCGAACAAGCCTACATGATGA 59.764 45.455 0.00 0.00 0.00 2.92
2457 5766 3.270027 CCGAACAAGCCTACATGATGAA 58.730 45.455 0.00 0.00 0.00 2.57
2458 5767 3.879295 CCGAACAAGCCTACATGATGAAT 59.121 43.478 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 36 1.615384 GGCAAAGGCTGAGATCCACTT 60.615 52.381 0.00 0.00 40.87 3.16
333 339 2.026262 AGAACCAACACACCAGAACAGT 60.026 45.455 0.00 0.00 0.00 3.55
584 591 8.578308 TCACAAAGAAATGTTGTCAATCATTC 57.422 30.769 11.37 6.51 37.09 2.67
586 593 8.945481 TTTCACAAAGAAATGTTGTCAATCAT 57.055 26.923 0.00 0.00 41.17 2.45
599 606 4.420168 CCTTTCAGCGTTTCACAAAGAAA 58.580 39.130 0.00 0.00 43.71 2.52
600 607 3.733684 GCCTTTCAGCGTTTCACAAAGAA 60.734 43.478 0.00 0.00 0.00 2.52
601 608 2.223479 GCCTTTCAGCGTTTCACAAAGA 60.223 45.455 0.00 0.00 0.00 2.52
602 609 2.119457 GCCTTTCAGCGTTTCACAAAG 58.881 47.619 0.00 0.00 0.00 2.77
603 610 1.474478 TGCCTTTCAGCGTTTCACAAA 59.526 42.857 0.00 0.00 34.65 2.83
604 611 1.065401 CTGCCTTTCAGCGTTTCACAA 59.935 47.619 0.00 0.00 35.78 3.33
605 612 0.662619 CTGCCTTTCAGCGTTTCACA 59.337 50.000 0.00 0.00 35.78 3.58
606 613 0.663153 ACTGCCTTTCAGCGTTTCAC 59.337 50.000 0.00 0.00 46.76 3.18
607 614 0.944386 GACTGCCTTTCAGCGTTTCA 59.056 50.000 0.00 0.00 46.76 2.69
608 615 0.110644 CGACTGCCTTTCAGCGTTTC 60.111 55.000 0.00 0.00 46.76 2.78
609 616 0.814010 ACGACTGCCTTTCAGCGTTT 60.814 50.000 0.00 0.00 45.84 3.60
610 617 1.227556 ACGACTGCCTTTCAGCGTT 60.228 52.632 0.00 0.00 45.84 4.84
611 618 2.421739 ACGACTGCCTTTCAGCGT 59.578 55.556 0.00 7.97 46.76 5.07
612 619 2.671177 CCACGACTGCCTTTCAGCG 61.671 63.158 0.00 0.00 46.76 5.18
613 620 0.884704 TTCCACGACTGCCTTTCAGC 60.885 55.000 0.00 0.00 46.76 4.26
615 622 0.756294 TCTTCCACGACTGCCTTTCA 59.244 50.000 0.00 0.00 0.00 2.69
616 623 1.149148 GTCTTCCACGACTGCCTTTC 58.851 55.000 0.00 0.00 0.00 2.62
617 624 0.468226 TGTCTTCCACGACTGCCTTT 59.532 50.000 0.00 0.00 35.00 3.11
618 625 0.468226 TTGTCTTCCACGACTGCCTT 59.532 50.000 0.00 0.00 35.00 4.35
619 626 0.468226 TTTGTCTTCCACGACTGCCT 59.532 50.000 0.00 0.00 35.00 4.75
620 627 1.305201 TTTTGTCTTCCACGACTGCC 58.695 50.000 0.00 0.00 35.00 4.85
640 647 4.421058 GTCCGCAGTGTCTTTTTCTTTTT 58.579 39.130 0.00 0.00 0.00 1.94
641 648 3.181490 GGTCCGCAGTGTCTTTTTCTTTT 60.181 43.478 0.00 0.00 0.00 2.27
642 649 2.357952 GGTCCGCAGTGTCTTTTTCTTT 59.642 45.455 0.00 0.00 0.00 2.52
643 650 1.947456 GGTCCGCAGTGTCTTTTTCTT 59.053 47.619 0.00 0.00 0.00 2.52
644 651 1.594331 GGTCCGCAGTGTCTTTTTCT 58.406 50.000 0.00 0.00 0.00 2.52
645 652 0.234884 CGGTCCGCAGTGTCTTTTTC 59.765 55.000 0.00 0.00 0.00 2.29
646 653 2.317230 CGGTCCGCAGTGTCTTTTT 58.683 52.632 0.00 0.00 0.00 1.94
647 654 4.043168 CGGTCCGCAGTGTCTTTT 57.957 55.556 0.00 0.00 0.00 2.27
659 666 4.760047 ACTCATGTGCCGCGGTCC 62.760 66.667 28.70 17.90 0.00 4.46
660 667 3.188786 GACTCATGTGCCGCGGTC 61.189 66.667 28.70 19.46 0.00 4.79
666 673 3.558411 GAGCGCGACTCATGTGCC 61.558 66.667 12.10 0.00 45.49 5.01
673 680 0.664767 AAGTGTTCTGAGCGCGACTC 60.665 55.000 12.10 16.91 46.45 3.36
674 681 0.941463 CAAGTGTTCTGAGCGCGACT 60.941 55.000 12.10 6.51 0.00 4.18
675 682 1.488957 CAAGTGTTCTGAGCGCGAC 59.511 57.895 12.10 2.99 0.00 5.19
676 683 2.310233 GCAAGTGTTCTGAGCGCGA 61.310 57.895 12.10 0.00 0.00 5.87
677 684 2.171940 GCAAGTGTTCTGAGCGCG 59.828 61.111 0.00 0.00 0.00 6.86
678 685 2.558313 GGCAAGTGTTCTGAGCGC 59.442 61.111 0.00 0.00 0.00 5.92
679 686 2.671177 CGGGCAAGTGTTCTGAGCG 61.671 63.158 0.00 0.00 0.00 5.03
680 687 1.569479 GACGGGCAAGTGTTCTGAGC 61.569 60.000 0.00 0.00 0.00 4.26
681 688 0.951040 GGACGGGCAAGTGTTCTGAG 60.951 60.000 0.00 0.00 0.00 3.35
682 689 1.070786 GGACGGGCAAGTGTTCTGA 59.929 57.895 0.00 0.00 0.00 3.27
683 690 0.606401 ATGGACGGGCAAGTGTTCTG 60.606 55.000 0.00 0.00 0.00 3.02
684 691 0.110486 AATGGACGGGCAAGTGTTCT 59.890 50.000 0.00 0.00 0.00 3.01
685 692 0.958822 AAATGGACGGGCAAGTGTTC 59.041 50.000 0.00 0.00 0.00 3.18
686 693 1.408969 AAAATGGACGGGCAAGTGTT 58.591 45.000 0.00 0.00 0.00 3.32
687 694 2.279935 TAAAATGGACGGGCAAGTGT 57.720 45.000 0.00 0.00 0.00 3.55
688 695 2.223249 CGATAAAATGGACGGGCAAGTG 60.223 50.000 0.00 0.00 0.00 3.16
689 696 2.014128 CGATAAAATGGACGGGCAAGT 58.986 47.619 0.00 0.00 0.00 3.16
690 697 2.014128 ACGATAAAATGGACGGGCAAG 58.986 47.619 0.00 0.00 0.00 4.01
691 698 1.740585 CACGATAAAATGGACGGGCAA 59.259 47.619 0.00 0.00 0.00 4.52
692 699 1.066071 TCACGATAAAATGGACGGGCA 60.066 47.619 0.00 0.00 0.00 5.36
693 700 1.597663 CTCACGATAAAATGGACGGGC 59.402 52.381 0.00 0.00 0.00 6.13
694 701 3.173668 TCTCACGATAAAATGGACGGG 57.826 47.619 0.00 0.00 0.00 5.28
695 702 4.570772 ACATTCTCACGATAAAATGGACGG 59.429 41.667 0.00 0.00 34.23 4.79
696 703 5.718649 ACATTCTCACGATAAAATGGACG 57.281 39.130 0.00 0.00 34.23 4.79
697 704 7.752695 AGAAACATTCTCACGATAAAATGGAC 58.247 34.615 0.00 0.00 34.07 4.02
698 705 7.921786 AGAAACATTCTCACGATAAAATGGA 57.078 32.000 0.00 0.00 34.07 3.41
699 706 8.970691 AAAGAAACATTCTCACGATAAAATGG 57.029 30.769 0.00 0.00 39.61 3.16
701 708 9.626045 GGAAAAGAAACATTCTCACGATAAAAT 57.374 29.630 0.00 0.00 39.61 1.82
702 709 7.801315 CGGAAAAGAAACATTCTCACGATAAAA 59.199 33.333 0.00 0.00 39.61 1.52
703 710 7.171848 TCGGAAAAGAAACATTCTCACGATAAA 59.828 33.333 0.00 0.00 39.61 1.40
704 711 6.647481 TCGGAAAAGAAACATTCTCACGATAA 59.353 34.615 0.00 0.00 39.61 1.75
705 712 6.160684 TCGGAAAAGAAACATTCTCACGATA 58.839 36.000 0.00 0.00 39.61 2.92
706 713 4.994852 TCGGAAAAGAAACATTCTCACGAT 59.005 37.500 0.00 0.00 39.61 3.73
707 714 4.373527 TCGGAAAAGAAACATTCTCACGA 58.626 39.130 0.00 0.00 39.61 4.35
708 715 4.725556 TCGGAAAAGAAACATTCTCACG 57.274 40.909 0.00 0.00 39.61 4.35
709 716 5.107065 ACGATCGGAAAAGAAACATTCTCAC 60.107 40.000 20.98 0.00 39.61 3.51
710 717 4.994852 ACGATCGGAAAAGAAACATTCTCA 59.005 37.500 20.98 0.00 39.61 3.27
711 718 5.446073 GGACGATCGGAAAAGAAACATTCTC 60.446 44.000 20.98 1.36 39.61 2.87
712 719 4.392138 GGACGATCGGAAAAGAAACATTCT 59.608 41.667 20.98 0.00 43.15 2.40
713 720 4.436986 GGGACGATCGGAAAAGAAACATTC 60.437 45.833 20.98 2.50 0.00 2.67
714 721 3.439129 GGGACGATCGGAAAAGAAACATT 59.561 43.478 20.98 0.00 0.00 2.71
715 722 3.007635 GGGACGATCGGAAAAGAAACAT 58.992 45.455 20.98 0.00 0.00 2.71
716 723 2.419667 GGGACGATCGGAAAAGAAACA 58.580 47.619 20.98 0.00 0.00 2.83
901 920 0.037734 GGGGGCGGTGGATTTATAGG 59.962 60.000 0.00 0.00 0.00 2.57
1008 1051 1.811679 CGGCTTCTTCTCCGCCTTC 60.812 63.158 0.00 0.00 41.61 3.46
1320 1369 2.355363 TTGTTGTAGCGCGCGAGT 60.355 55.556 37.18 22.45 0.00 4.18
1477 1527 0.392998 GGATCAACAGCGGTCACCAT 60.393 55.000 0.00 0.00 0.00 3.55
1500 1550 0.321475 GATAGGCAGGCAGATCCAGC 60.321 60.000 0.00 0.00 45.70 4.85
1591 1645 3.374058 GGAACATCATCTTACAACCACCG 59.626 47.826 0.00 0.00 0.00 4.94
1593 1647 3.374058 CGGGAACATCATCTTACAACCAC 59.626 47.826 0.00 0.00 0.00 4.16
1631 1686 9.692749 TGTTCCATTAATATTCAGATCGACTAC 57.307 33.333 0.00 0.00 0.00 2.73
1633 1688 9.613428 TTTGTTCCATTAATATTCAGATCGACT 57.387 29.630 0.00 0.00 0.00 4.18
1659 1714 6.352016 TCAGAAACTCAGAGTAGCAGATTT 57.648 37.500 2.64 0.00 0.00 2.17
1660 1715 5.991933 TCAGAAACTCAGAGTAGCAGATT 57.008 39.130 2.64 0.00 0.00 2.40
1675 1730 9.604626 CTACTCTTGAAACAATTCATCAGAAAC 57.395 33.333 0.00 0.00 44.70 2.78
1712 1767 5.885230 TCAAGAATAGCACAAACAGGATG 57.115 39.130 0.00 0.00 46.00 3.51
1713 1768 7.831193 ACTAATCAAGAATAGCACAAACAGGAT 59.169 33.333 0.00 0.00 0.00 3.24
1714 1769 7.168219 ACTAATCAAGAATAGCACAAACAGGA 58.832 34.615 0.00 0.00 0.00 3.86
1715 1770 7.383102 ACTAATCAAGAATAGCACAAACAGG 57.617 36.000 0.00 0.00 0.00 4.00
1716 1771 9.121517 CAAACTAATCAAGAATAGCACAAACAG 57.878 33.333 0.00 0.00 0.00 3.16
1717 1772 8.845227 TCAAACTAATCAAGAATAGCACAAACA 58.155 29.630 0.00 0.00 0.00 2.83
1718 1773 9.334693 CTCAAACTAATCAAGAATAGCACAAAC 57.665 33.333 0.00 0.00 0.00 2.93
1719 1774 9.283768 TCTCAAACTAATCAAGAATAGCACAAA 57.716 29.630 0.00 0.00 0.00 2.83
1720 1775 8.846943 TCTCAAACTAATCAAGAATAGCACAA 57.153 30.769 0.00 0.00 0.00 3.33
1721 1776 8.886719 CATCTCAAACTAATCAAGAATAGCACA 58.113 33.333 0.00 0.00 0.00 4.57
1722 1777 8.341173 CCATCTCAAACTAATCAAGAATAGCAC 58.659 37.037 0.00 0.00 0.00 4.40
1723 1778 8.049117 ACCATCTCAAACTAATCAAGAATAGCA 58.951 33.333 0.00 0.00 0.00 3.49
1724 1779 8.443953 ACCATCTCAAACTAATCAAGAATAGC 57.556 34.615 0.00 0.00 0.00 2.97
1784 1868 6.018507 ACAACAGAACGATGTAAACTAACACC 60.019 38.462 0.00 0.00 31.70 4.16
1819 1903 9.177608 CAATTGGGTCTAACTTGATTCAATCTA 57.822 33.333 0.00 0.00 0.00 1.98
1822 1906 7.174107 CCAATTGGGTCTAACTTGATTCAAT 57.826 36.000 17.36 0.00 0.00 2.57
1839 1923 2.899256 ACTTGATTCACACCCCAATTGG 59.101 45.455 18.21 18.21 0.00 3.16
1840 1924 4.605640 AACTTGATTCACACCCCAATTG 57.394 40.909 0.00 0.00 0.00 2.32
1842 1926 5.010282 GTCTAACTTGATTCACACCCCAAT 58.990 41.667 0.00 0.00 0.00 3.16
1844 1928 3.244770 GGTCTAACTTGATTCACACCCCA 60.245 47.826 0.00 0.00 0.00 4.96
1845 1929 3.344515 GGTCTAACTTGATTCACACCCC 58.655 50.000 0.00 0.00 0.00 4.95
1846 1930 3.244770 TGGGTCTAACTTGATTCACACCC 60.245 47.826 0.00 0.00 0.00 4.61
1847 1931 4.015872 TGGGTCTAACTTGATTCACACC 57.984 45.455 0.00 0.00 0.00 4.16
1848 1932 6.381801 CAATTGGGTCTAACTTGATTCACAC 58.618 40.000 0.00 0.00 0.00 3.82
1850 1934 5.954335 CCAATTGGGTCTAACTTGATTCAC 58.046 41.667 17.36 0.00 0.00 3.18
1866 1950 2.899256 ACTTGATTCACACCCCAATTGG 59.101 45.455 18.21 18.21 0.00 3.16
1867 1951 4.605640 AACTTGATTCACACCCCAATTG 57.394 40.909 0.00 0.00 0.00 2.32
1868 1952 5.476945 GTCTAACTTGATTCACACCCCAATT 59.523 40.000 0.00 0.00 0.00 2.32
1869 1953 5.010282 GTCTAACTTGATTCACACCCCAAT 58.990 41.667 0.00 0.00 0.00 3.16
1870 1954 4.394729 GTCTAACTTGATTCACACCCCAA 58.605 43.478 0.00 0.00 0.00 4.12
1871 1955 3.244770 GGTCTAACTTGATTCACACCCCA 60.245 47.826 0.00 0.00 0.00 4.96
1872 1956 3.344515 GGTCTAACTTGATTCACACCCC 58.655 50.000 0.00 0.00 0.00 4.95
1873 1957 3.244770 TGGGTCTAACTTGATTCACACCC 60.245 47.826 0.00 0.00 0.00 4.61
1874 1958 4.015872 TGGGTCTAACTTGATTCACACC 57.984 45.455 0.00 0.00 0.00 4.16
1875 1959 6.381801 CAATTGGGTCTAACTTGATTCACAC 58.618 40.000 0.00 0.00 0.00 3.82
1876 1960 5.476599 CCAATTGGGTCTAACTTGATTCACA 59.523 40.000 17.36 0.00 0.00 3.58
1877 1961 5.954335 CCAATTGGGTCTAACTTGATTCAC 58.046 41.667 17.36 0.00 0.00 3.18
1993 2083 9.743057 CTAGTAGTTTTGATAAGGATGTCAGAG 57.257 37.037 0.00 0.00 0.00 3.35
2005 2095 9.982651 GGCAAGATATGACTAGTAGTTTTGATA 57.017 33.333 3.85 0.41 32.61 2.15
2006 2096 8.486210 TGGCAAGATATGACTAGTAGTTTTGAT 58.514 33.333 3.85 0.00 38.19 2.57
2008 2098 8.668510 ATGGCAAGATATGACTAGTAGTTTTG 57.331 34.615 3.85 4.74 38.19 2.44
2009 2099 9.113838 CAATGGCAAGATATGACTAGTAGTTTT 57.886 33.333 3.85 0.00 38.19 2.43
2084 5362 4.719773 TGTATACCAGTATTCCTGCAGGTT 59.280 41.667 31.58 21.90 40.06 3.50
2119 5397 6.905342 AATCAAGAGATAAGCACTGAGCTGAG 60.905 42.308 0.00 0.00 43.41 3.35
2126 5404 5.879223 ACTCCAAATCAAGAGATAAGCACTG 59.121 40.000 0.00 0.00 33.08 3.66
2129 5407 4.637534 GCACTCCAAATCAAGAGATAAGCA 59.362 41.667 0.00 0.00 33.08 3.91
2139 5420 4.740334 GCAAAAGAAGGCACTCCAAATCAA 60.740 41.667 0.00 0.00 38.49 2.57
2140 5421 3.243839 GCAAAAGAAGGCACTCCAAATCA 60.244 43.478 0.00 0.00 38.49 2.57
2146 5427 1.670967 GCATGCAAAAGAAGGCACTCC 60.671 52.381 14.21 0.00 43.75 3.85
2167 5451 2.618709 AGACAGGCTGCTTTGTTTGTAC 59.381 45.455 15.89 0.00 0.00 2.90
2222 5528 5.529060 AGCAGTAGGTATTAATTCTGCAAGC 59.471 40.000 20.17 15.96 46.87 4.01
2244 5553 3.302365 TGCAACCAATTTCTAGCAAGC 57.698 42.857 0.00 0.00 0.00 4.01
2293 5602 6.297582 ACGGATGCTACTTCATACTACTACT 58.702 40.000 0.00 0.00 0.00 2.57
2294 5603 6.557291 ACGGATGCTACTTCATACTACTAC 57.443 41.667 0.00 0.00 0.00 2.73
2295 5604 6.370994 GCTACGGATGCTACTTCATACTACTA 59.629 42.308 0.00 0.00 0.00 1.82
2296 5605 5.181622 GCTACGGATGCTACTTCATACTACT 59.818 44.000 0.00 0.00 0.00 2.57
2297 5606 5.048921 TGCTACGGATGCTACTTCATACTAC 60.049 44.000 0.00 0.00 0.00 2.73
2298 5607 5.067954 TGCTACGGATGCTACTTCATACTA 58.932 41.667 0.00 0.00 0.00 1.82
2331 5640 7.182817 TCCAGCACTATAGTCAAGTTACAAT 57.817 36.000 1.26 0.00 0.00 2.71
2332 5641 6.599356 TCCAGCACTATAGTCAAGTTACAA 57.401 37.500 1.26 0.00 0.00 2.41
2333 5642 6.210784 ACTTCCAGCACTATAGTCAAGTTACA 59.789 38.462 1.26 0.00 0.00 2.41
2334 5643 6.631962 ACTTCCAGCACTATAGTCAAGTTAC 58.368 40.000 1.26 0.00 0.00 2.50
2335 5644 6.852420 ACTTCCAGCACTATAGTCAAGTTA 57.148 37.500 1.26 0.00 0.00 2.24
2336 5645 5.746990 ACTTCCAGCACTATAGTCAAGTT 57.253 39.130 1.26 0.00 0.00 2.66
2337 5646 6.852420 TTACTTCCAGCACTATAGTCAAGT 57.148 37.500 1.26 8.68 0.00 3.16
2338 5647 7.492524 TGATTACTTCCAGCACTATAGTCAAG 58.507 38.462 1.26 3.46 0.00 3.02
2348 5657 4.051922 CGTAGGATGATTACTTCCAGCAC 58.948 47.826 0.00 0.00 41.15 4.40
2422 5731 4.037089 GCTTGTTCGGTTTAGAGGGAAAAA 59.963 41.667 0.00 0.00 0.00 1.94
2423 5732 3.566742 GCTTGTTCGGTTTAGAGGGAAAA 59.433 43.478 0.00 0.00 0.00 2.29
2424 5733 3.143728 GCTTGTTCGGTTTAGAGGGAAA 58.856 45.455 0.00 0.00 0.00 3.13
2425 5734 2.551504 GGCTTGTTCGGTTTAGAGGGAA 60.552 50.000 0.00 0.00 0.00 3.97
2426 5735 1.002773 GGCTTGTTCGGTTTAGAGGGA 59.997 52.381 0.00 0.00 0.00 4.20
2427 5736 1.003233 AGGCTTGTTCGGTTTAGAGGG 59.997 52.381 0.00 0.00 0.00 4.30
2428 5737 2.474410 AGGCTTGTTCGGTTTAGAGG 57.526 50.000 0.00 0.00 0.00 3.69
2429 5738 3.921677 TGTAGGCTTGTTCGGTTTAGAG 58.078 45.455 0.00 0.00 0.00 2.43
2430 5739 4.020928 TCATGTAGGCTTGTTCGGTTTAGA 60.021 41.667 0.00 0.00 0.00 2.10
2431 5740 4.250464 TCATGTAGGCTTGTTCGGTTTAG 58.750 43.478 0.00 0.00 0.00 1.85
2432 5741 4.274602 TCATGTAGGCTTGTTCGGTTTA 57.725 40.909 0.00 0.00 0.00 2.01
2433 5742 3.134574 TCATGTAGGCTTGTTCGGTTT 57.865 42.857 0.00 0.00 0.00 3.27
2434 5743 2.851263 TCATGTAGGCTTGTTCGGTT 57.149 45.000 0.00 0.00 0.00 4.44
2435 5744 2.236146 TCATCATGTAGGCTTGTTCGGT 59.764 45.455 0.00 0.00 0.00 4.69
2436 5745 2.905075 TCATCATGTAGGCTTGTTCGG 58.095 47.619 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.