Multiple sequence alignment - TraesCS2B01G099000

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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 TraesCS2B01G099000 chr2B 100.000 2562 0 0 1 2562 58692959 58690398 0.000000e+00 4732.0
1 TraesCS2B01G099000 chr2B 85.810 599 55 18 1 592 58775393 58774818 2.180000e-170 608.0
2 TraesCS2B01G099000 chr2B 81.031 485 66 19 10 483 58793066 58792597 1.870000e-96 363.0
3 TraesCS2B01G099000 chr2B 79.584 529 73 17 78 597 58719776 58719274 1.890000e-91 346.0
4 TraesCS2B01G099000 chr4D 94.121 1803 88 8 763 2562 502108462 502106675 0.000000e+00 2726.0
5 TraesCS2B01G099000 chr4D 100.000 33 0 0 591 623 392732196 392732164 7.650000e-06 62.1
6 TraesCS2B01G099000 chr4D 100.000 31 0 0 593 623 119526341 119526371 9.900000e-05 58.4
7 TraesCS2B01G099000 chr3D 94.013 1804 95 9 763 2562 553936997 553935203 0.000000e+00 2721.0
8 TraesCS2B01G099000 chr5A 94.141 1792 96 7 775 2562 619775027 619773241 0.000000e+00 2719.0
9 TraesCS2B01G099000 chr5A 100.000 32 0 0 592 623 395309027 395308996 2.750000e-05 60.2
10 TraesCS2B01G099000 chr1D 93.809 1809 93 14 759 2562 430108841 430110635 0.000000e+00 2702.0
11 TraesCS2B01G099000 chr1D 93.662 142 5 3 629 767 41238737 41238877 2.580000e-50 209.0
12 TraesCS2B01G099000 chr1D 93.056 144 6 3 627 767 335008128 335007986 9.290000e-50 207.0
13 TraesCS2B01G099000 chr1D 94.161 137 5 2 633 767 413352338 413352203 3.340000e-49 206.0
14 TraesCS2B01G099000 chr1D 87.574 169 13 6 605 767 425540751 425540585 3.370000e-44 189.0
15 TraesCS2B01G099000 chr1D 100.000 29 0 0 595 623 264165775 264165803 1.000000e-03 54.7
16 TraesCS2B01G099000 chr1D 100.000 29 0 0 593 621 400136577 400136549 1.000000e-03 54.7
17 TraesCS2B01G099000 chr2A 93.691 1807 96 13 763 2562 704738479 704736684 0.000000e+00 2689.0
18 TraesCS2B01G099000 chr2A 84.720 589 62 15 11 592 38758538 38757971 4.790000e-157 564.0
19 TraesCS2B01G099000 chr2A 81.756 581 72 21 2 572 38814967 38814411 3.000000e-124 455.0
20 TraesCS2B01G099000 chr6D 93.381 1813 99 12 762 2562 449137703 449135900 0.000000e+00 2663.0
21 TraesCS2B01G099000 chr7A 93.130 1805 100 15 763 2562 661593669 661591884 0.000000e+00 2625.0
22 TraesCS2B01G099000 chr7D 92.703 1809 113 14 762 2562 85019673 85021470 0.000000e+00 2591.0
23 TraesCS2B01G099000 chr7D 93.662 142 5 3 629 767 209496603 209496743 2.580000e-50 209.0
24 TraesCS2B01G099000 chr7D 93.056 144 4 5 627 767 530408115 530408255 3.340000e-49 206.0
25 TraesCS2B01G099000 chr7D 97.143 35 0 1 590 623 382726643 382726677 9.900000e-05 58.4
26 TraesCS2B01G099000 chr6A 92.435 1811 124 8 759 2562 158239214 158241018 0.000000e+00 2573.0
27 TraesCS2B01G099000 chr2D 87.009 585 45 13 25 595 35535219 35534652 4.650000e-177 630.0
28 TraesCS2B01G099000 chr2D 86.372 565 46 16 1 553 42064159 42064704 2.840000e-164 588.0
29 TraesCS2B01G099000 chr2D 81.266 395 47 17 2 390 35668702 35668329 6.930000e-76 294.0
30 TraesCS2B01G099000 chr2D 79.218 409 58 14 2 405 35640636 35640250 2.530000e-65 259.0
31 TraesCS2B01G099000 chr2D 94.161 137 5 2 633 767 316505912 316505777 3.340000e-49 206.0
32 TraesCS2B01G099000 chr2D 96.610 59 2 0 537 595 42064721 42064779 5.830000e-17 99.0
33 TraesCS2B01G099000 chr5D 94.161 137 5 2 633 767 549921512 549921377 3.340000e-49 206.0
34 TraesCS2B01G099000 chr4A 94.161 137 5 2 633 767 575178709 575178574 3.340000e-49 206.0
35 TraesCS2B01G099000 chr5B 97.059 34 1 0 590 623 567580274 567580307 9.900000e-05 58.4
36 TraesCS2B01G099000 chr1A 100.000 29 0 0 595 623 466355604 466355576 1.000000e-03 54.7


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 TraesCS2B01G099000 chr2B 58690398 58692959 2561 True 4732.0 4732 100.000 1 2562 1 chr2B.!!$R1 2561
1 TraesCS2B01G099000 chr2B 58774818 58775393 575 True 608.0 608 85.810 1 592 1 chr2B.!!$R3 591
2 TraesCS2B01G099000 chr2B 58719274 58719776 502 True 346.0 346 79.584 78 597 1 chr2B.!!$R2 519
3 TraesCS2B01G099000 chr4D 502106675 502108462 1787 True 2726.0 2726 94.121 763 2562 1 chr4D.!!$R2 1799
4 TraesCS2B01G099000 chr3D 553935203 553936997 1794 True 2721.0 2721 94.013 763 2562 1 chr3D.!!$R1 1799
5 TraesCS2B01G099000 chr5A 619773241 619775027 1786 True 2719.0 2719 94.141 775 2562 1 chr5A.!!$R2 1787
6 TraesCS2B01G099000 chr1D 430108841 430110635 1794 False 2702.0 2702 93.809 759 2562 1 chr1D.!!$F3 1803
7 TraesCS2B01G099000 chr2A 704736684 704738479 1795 True 2689.0 2689 93.691 763 2562 1 chr2A.!!$R3 1799
8 TraesCS2B01G099000 chr2A 38757971 38758538 567 True 564.0 564 84.720 11 592 1 chr2A.!!$R1 581
9 TraesCS2B01G099000 chr2A 38814411 38814967 556 True 455.0 455 81.756 2 572 1 chr2A.!!$R2 570
10 TraesCS2B01G099000 chr6D 449135900 449137703 1803 True 2663.0 2663 93.381 762 2562 1 chr6D.!!$R1 1800
11 TraesCS2B01G099000 chr7A 661591884 661593669 1785 True 2625.0 2625 93.130 763 2562 1 chr7A.!!$R1 1799
12 TraesCS2B01G099000 chr7D 85019673 85021470 1797 False 2591.0 2591 92.703 762 2562 1 chr7D.!!$F1 1800
13 TraesCS2B01G099000 chr6A 158239214 158241018 1804 False 2573.0 2573 92.435 759 2562 1 chr6A.!!$F1 1803
14 TraesCS2B01G099000 chr2D 35534652 35535219 567 True 630.0 630 87.009 25 595 1 chr2D.!!$R1 570
15 TraesCS2B01G099000 chr2D 42064159 42064779 620 False 343.5 588 91.491 1 595 2 chr2D.!!$F1 594

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
197 214 0.033109 TGCTGGAGCTAGCTGGTAGA 60.033 55.0 24.99 0.00 44.01 2.59 F
1008 1089 0.659427 TCGACTAGGTTATGGACGCG 59.341 55.0 3.53 3.53 0.00 6.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1249 1330 0.111639 TTGTAACAACCCCTGCTCCC 59.888 55.0 0.00 0.00 0.0 4.30 R
2114 2201 0.320683 TCCTCAGGCACGTGTTCATG 60.321 55.0 18.38 9.41 0.0 3.07 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
162 174 5.677319 AGGAAATATTGAACGGAGACTCA 57.323 39.130 4.53 0.00 0.00 3.41
165 177 5.520649 GGAAATATTGAACGGAGACTCACTC 59.479 44.000 4.53 0.00 44.24 3.51
186 203 4.645535 TCCTACATTCAATATGCTGGAGC 58.354 43.478 0.00 0.00 42.50 4.70
187 204 4.349048 TCCTACATTCAATATGCTGGAGCT 59.651 41.667 0.00 0.00 42.66 4.09
188 205 5.543790 TCCTACATTCAATATGCTGGAGCTA 59.456 40.000 0.00 0.00 42.66 3.32
189 206 5.873712 CCTACATTCAATATGCTGGAGCTAG 59.126 44.000 0.00 0.00 42.66 3.42
190 207 4.070716 ACATTCAATATGCTGGAGCTAGC 58.929 43.478 6.62 6.62 43.95 3.42
191 208 4.202440 ACATTCAATATGCTGGAGCTAGCT 60.202 41.667 19.45 19.45 44.01 3.32
192 209 3.397849 TCAATATGCTGGAGCTAGCTG 57.602 47.619 24.99 9.30 44.01 4.24
193 210 2.038164 TCAATATGCTGGAGCTAGCTGG 59.962 50.000 24.99 12.94 44.01 4.85
194 211 1.727062 ATATGCTGGAGCTAGCTGGT 58.273 50.000 24.99 0.00 44.01 4.00
195 212 2.381752 TATGCTGGAGCTAGCTGGTA 57.618 50.000 24.99 11.78 44.01 3.25
196 213 1.047002 ATGCTGGAGCTAGCTGGTAG 58.953 55.000 24.99 17.35 44.01 3.18
197 214 0.033109 TGCTGGAGCTAGCTGGTAGA 60.033 55.000 24.99 0.00 44.01 2.59
274 298 2.016318 CGAATGCCAAGGCTTCACATA 58.984 47.619 12.96 0.00 42.51 2.29
339 363 3.138304 CGGTCTCACCATTCTTTGACAA 58.862 45.455 0.00 0.00 38.47 3.18
387 415 2.092753 TCATGACCTCCCTCAGAAATGC 60.093 50.000 0.00 0.00 0.00 3.56
390 418 2.309755 TGACCTCCCTCAGAAATGCATT 59.690 45.455 5.99 5.99 0.00 3.56
401 433 6.294675 CCTCAGAAATGCATTTGTGTCCTTAA 60.295 38.462 34.92 21.07 40.63 1.85
410 443 6.663093 TGCATTTGTGTCCTTAAATACCATCT 59.337 34.615 0.00 0.00 0.00 2.90
411 444 6.974622 GCATTTGTGTCCTTAAATACCATCTG 59.025 38.462 0.00 0.00 0.00 2.90
412 445 7.362920 GCATTTGTGTCCTTAAATACCATCTGT 60.363 37.037 0.00 0.00 0.00 3.41
413 446 7.447374 TTTGTGTCCTTAAATACCATCTGTG 57.553 36.000 0.00 0.00 0.00 3.66
415 448 6.170506 TGTGTCCTTAAATACCATCTGTGTC 58.829 40.000 0.00 0.00 0.00 3.67
416 449 5.585047 GTGTCCTTAAATACCATCTGTGTCC 59.415 44.000 0.00 0.00 0.00 4.02
432 471 6.650120 TCTGTGTCCTTAGAACTGAAAACTT 58.350 36.000 0.00 0.00 0.00 2.66
480 519 2.360483 TCTGCGACAATGCCTTTTTCAA 59.640 40.909 0.00 0.00 0.00 2.69
597 674 4.578105 CCCATCTTGCCAATCTTCTTAGAC 59.422 45.833 0.00 0.00 31.99 2.59
598 675 4.578105 CCATCTTGCCAATCTTCTTAGACC 59.422 45.833 0.00 0.00 31.99 3.85
599 676 5.435291 CATCTTGCCAATCTTCTTAGACCT 58.565 41.667 0.00 0.00 31.99 3.85
600 677 5.091261 TCTTGCCAATCTTCTTAGACCTC 57.909 43.478 0.00 0.00 31.99 3.85
601 678 3.914426 TGCCAATCTTCTTAGACCTCC 57.086 47.619 0.00 0.00 31.99 4.30
602 679 3.454858 TGCCAATCTTCTTAGACCTCCT 58.545 45.455 0.00 0.00 31.99 3.69
603 680 3.452627 TGCCAATCTTCTTAGACCTCCTC 59.547 47.826 0.00 0.00 31.99 3.71
604 681 3.181459 GCCAATCTTCTTAGACCTCCTCC 60.181 52.174 0.00 0.00 31.99 4.30
605 682 4.033709 CCAATCTTCTTAGACCTCCTCCA 58.966 47.826 0.00 0.00 31.99 3.86
606 683 4.471386 CCAATCTTCTTAGACCTCCTCCAA 59.529 45.833 0.00 0.00 31.99 3.53
607 684 5.131809 CCAATCTTCTTAGACCTCCTCCAAT 59.868 44.000 0.00 0.00 31.99 3.16
608 685 5.885449 ATCTTCTTAGACCTCCTCCAATG 57.115 43.478 0.00 0.00 31.99 2.82
609 686 3.452627 TCTTCTTAGACCTCCTCCAATGC 59.547 47.826 0.00 0.00 0.00 3.56
610 687 2.832838 TCTTAGACCTCCTCCAATGCA 58.167 47.619 0.00 0.00 0.00 3.96
611 688 2.501723 TCTTAGACCTCCTCCAATGCAC 59.498 50.000 0.00 0.00 0.00 4.57
612 689 2.254152 TAGACCTCCTCCAATGCACT 57.746 50.000 0.00 0.00 0.00 4.40
613 690 2.254152 AGACCTCCTCCAATGCACTA 57.746 50.000 0.00 0.00 0.00 2.74
614 691 2.114616 AGACCTCCTCCAATGCACTAG 58.885 52.381 0.00 0.00 0.00 2.57
615 692 1.834263 GACCTCCTCCAATGCACTAGT 59.166 52.381 0.00 0.00 0.00 2.57
616 693 1.556911 ACCTCCTCCAATGCACTAGTG 59.443 52.381 18.93 18.93 0.00 2.74
637 714 4.722361 GCTAAGACTAGCCACAGTTACT 57.278 45.455 0.00 0.00 44.22 2.24
638 715 5.831702 GCTAAGACTAGCCACAGTTACTA 57.168 43.478 0.00 0.00 44.22 1.82
639 716 5.580661 GCTAAGACTAGCCACAGTTACTAC 58.419 45.833 0.00 0.00 44.22 2.73
640 717 5.450274 GCTAAGACTAGCCACAGTTACTACC 60.450 48.000 0.00 0.00 44.22 3.18
641 718 3.363627 AGACTAGCCACAGTTACTACCC 58.636 50.000 0.00 0.00 0.00 3.69
642 719 3.011482 AGACTAGCCACAGTTACTACCCT 59.989 47.826 0.00 0.00 0.00 4.34
643 720 4.229123 AGACTAGCCACAGTTACTACCCTA 59.771 45.833 0.00 0.00 0.00 3.53
644 721 5.103601 AGACTAGCCACAGTTACTACCCTAT 60.104 44.000 0.00 0.00 0.00 2.57
645 722 4.894114 ACTAGCCACAGTTACTACCCTATG 59.106 45.833 0.00 0.00 0.00 2.23
646 723 3.721021 AGCCACAGTTACTACCCTATGT 58.279 45.455 0.00 0.00 0.00 2.29
647 724 4.101856 AGCCACAGTTACTACCCTATGTT 58.898 43.478 0.00 0.00 0.00 2.71
648 725 5.274822 AGCCACAGTTACTACCCTATGTTA 58.725 41.667 0.00 0.00 0.00 2.41
649 726 5.128335 AGCCACAGTTACTACCCTATGTTAC 59.872 44.000 0.00 0.00 0.00 2.50
650 727 5.128335 GCCACAGTTACTACCCTATGTTACT 59.872 44.000 0.00 0.00 0.00 2.24
651 728 6.322201 GCCACAGTTACTACCCTATGTTACTA 59.678 42.308 0.00 0.00 0.00 1.82
652 729 7.682981 GCCACAGTTACTACCCTATGTTACTAC 60.683 44.444 0.00 0.00 0.00 2.73
653 730 7.201857 CCACAGTTACTACCCTATGTTACTACC 60.202 44.444 0.00 0.00 0.00 3.18
654 731 7.559170 CACAGTTACTACCCTATGTTACTACCT 59.441 40.741 0.00 0.00 0.00 3.08
655 732 7.777440 ACAGTTACTACCCTATGTTACTACCTC 59.223 40.741 0.00 0.00 0.00 3.85
656 733 7.997803 CAGTTACTACCCTATGTTACTACCTCT 59.002 40.741 0.00 0.00 0.00 3.69
657 734 9.230477 AGTTACTACCCTATGTTACTACCTCTA 57.770 37.037 0.00 0.00 0.00 2.43
658 735 9.278978 GTTACTACCCTATGTTACTACCTCTAC 57.721 40.741 0.00 0.00 0.00 2.59
659 736 7.457380 ACTACCCTATGTTACTACCTCTACA 57.543 40.000 0.00 0.00 0.00 2.74
660 737 7.516452 ACTACCCTATGTTACTACCTCTACAG 58.484 42.308 0.00 0.00 0.00 2.74
661 738 6.338591 ACCCTATGTTACTACCTCTACAGT 57.661 41.667 0.00 0.00 0.00 3.55
662 739 6.127793 ACCCTATGTTACTACCTCTACAGTG 58.872 44.000 0.00 0.00 0.00 3.66
663 740 5.535406 CCCTATGTTACTACCTCTACAGTGG 59.465 48.000 0.00 0.00 34.99 4.00
664 741 6.127793 CCTATGTTACTACCTCTACAGTGGT 58.872 44.000 8.00 8.00 43.53 4.16
665 742 5.916661 ATGTTACTACCTCTACAGTGGTG 57.083 43.478 12.20 6.01 41.50 4.17
666 743 4.989277 TGTTACTACCTCTACAGTGGTGA 58.011 43.478 12.20 0.00 41.50 4.02
667 744 5.008331 TGTTACTACCTCTACAGTGGTGAG 58.992 45.833 12.20 1.34 41.50 3.51
668 745 3.810721 ACTACCTCTACAGTGGTGAGT 57.189 47.619 12.20 9.00 41.50 3.41
669 746 4.923516 ACTACCTCTACAGTGGTGAGTA 57.076 45.455 12.20 5.79 41.50 2.59
670 747 5.252586 ACTACCTCTACAGTGGTGAGTAA 57.747 43.478 12.20 0.00 41.50 2.24
671 748 5.828871 ACTACCTCTACAGTGGTGAGTAAT 58.171 41.667 12.20 2.90 41.50 1.89
672 749 6.966751 ACTACCTCTACAGTGGTGAGTAATA 58.033 40.000 12.20 3.65 41.50 0.98
673 750 7.584532 ACTACCTCTACAGTGGTGAGTAATAT 58.415 38.462 12.20 0.00 41.50 1.28
674 751 8.721479 ACTACCTCTACAGTGGTGAGTAATATA 58.279 37.037 12.20 0.00 41.50 0.86
675 752 9.742144 CTACCTCTACAGTGGTGAGTAATATAT 57.258 37.037 12.20 0.00 41.50 0.86
676 753 8.410673 ACCTCTACAGTGGTGAGTAATATATG 57.589 38.462 11.83 0.40 40.10 1.78
677 754 8.005388 ACCTCTACAGTGGTGAGTAATATATGT 58.995 37.037 11.83 0.00 40.10 2.29
678 755 8.300286 CCTCTACAGTGGTGAGTAATATATGTG 58.700 40.741 11.83 0.00 0.00 3.21
679 756 8.762481 TCTACAGTGGTGAGTAATATATGTGT 57.238 34.615 0.00 0.00 0.00 3.72
680 757 8.630037 TCTACAGTGGTGAGTAATATATGTGTG 58.370 37.037 0.00 0.00 0.00 3.82
681 758 6.582636 ACAGTGGTGAGTAATATATGTGTGG 58.417 40.000 0.00 0.00 0.00 4.17
682 759 6.156256 ACAGTGGTGAGTAATATATGTGTGGT 59.844 38.462 0.00 0.00 0.00 4.16
683 760 7.343574 ACAGTGGTGAGTAATATATGTGTGGTA 59.656 37.037 0.00 0.00 0.00 3.25
684 761 8.201464 CAGTGGTGAGTAATATATGTGTGGTAA 58.799 37.037 0.00 0.00 0.00 2.85
685 762 8.202137 AGTGGTGAGTAATATATGTGTGGTAAC 58.798 37.037 0.00 0.00 0.00 2.50
701 778 5.528043 TGGTAACATGCAACACTTCATTT 57.472 34.783 0.00 0.00 46.17 2.32
702 779 6.641169 TGGTAACATGCAACACTTCATTTA 57.359 33.333 0.00 0.00 46.17 1.40
703 780 7.225784 TGGTAACATGCAACACTTCATTTAT 57.774 32.000 0.00 0.00 46.17 1.40
704 781 7.665690 TGGTAACATGCAACACTTCATTTATT 58.334 30.769 0.00 0.00 46.17 1.40
705 782 8.797438 TGGTAACATGCAACACTTCATTTATTA 58.203 29.630 0.00 0.00 46.17 0.98
706 783 9.289303 GGTAACATGCAACACTTCATTTATTAG 57.711 33.333 0.00 0.00 0.00 1.73
707 784 9.289303 GTAACATGCAACACTTCATTTATTAGG 57.711 33.333 0.00 0.00 0.00 2.69
708 785 6.332630 ACATGCAACACTTCATTTATTAGGC 58.667 36.000 0.00 0.00 0.00 3.93
709 786 6.153340 ACATGCAACACTTCATTTATTAGGCT 59.847 34.615 0.00 0.00 0.00 4.58
710 787 7.339212 ACATGCAACACTTCATTTATTAGGCTA 59.661 33.333 0.00 0.00 0.00 3.93
711 788 7.880160 TGCAACACTTCATTTATTAGGCTAT 57.120 32.000 0.00 0.00 0.00 2.97
712 789 8.972458 TGCAACACTTCATTTATTAGGCTATA 57.028 30.769 0.00 0.00 0.00 1.31
713 790 9.056005 TGCAACACTTCATTTATTAGGCTATAG 57.944 33.333 0.00 0.00 0.00 1.31
714 791 9.273016 GCAACACTTCATTTATTAGGCTATAGA 57.727 33.333 3.21 0.00 0.00 1.98
724 801 9.883142 ATTTATTAGGCTATAGACTCATCTTGC 57.117 33.333 12.64 0.00 36.29 4.01
725 802 5.730296 TTAGGCTATAGACTCATCTTGCC 57.270 43.478 12.64 0.00 41.26 4.52
726 803 3.855668 AGGCTATAGACTCATCTTGCCT 58.144 45.455 0.83 0.00 43.78 4.75
727 804 4.230455 AGGCTATAGACTCATCTTGCCTT 58.770 43.478 0.83 0.00 45.01 4.35
728 805 4.040217 AGGCTATAGACTCATCTTGCCTTG 59.960 45.833 0.83 0.00 45.01 3.61
729 806 4.039730 GGCTATAGACTCATCTTGCCTTGA 59.960 45.833 3.21 0.00 39.50 3.02
730 807 5.279910 GGCTATAGACTCATCTTGCCTTGAT 60.280 44.000 3.21 0.00 39.50 2.57
731 808 6.071108 GGCTATAGACTCATCTTGCCTTGATA 60.071 42.308 3.21 0.00 39.50 2.15
732 809 7.364585 GGCTATAGACTCATCTTGCCTTGATAT 60.365 40.741 3.21 0.00 39.50 1.63
733 810 7.492020 GCTATAGACTCATCTTGCCTTGATATG 59.508 40.741 3.21 0.00 36.29 1.78
734 811 5.627182 AGACTCATCTTGCCTTGATATGT 57.373 39.130 0.00 0.00 0.00 2.29
735 812 5.366460 AGACTCATCTTGCCTTGATATGTG 58.634 41.667 0.00 0.00 0.00 3.21
736 813 5.104610 AGACTCATCTTGCCTTGATATGTGT 60.105 40.000 0.00 0.00 0.00 3.72
737 814 4.880120 ACTCATCTTGCCTTGATATGTGTG 59.120 41.667 0.00 0.00 0.00 3.82
738 815 5.101648 TCATCTTGCCTTGATATGTGTGA 57.898 39.130 0.00 0.00 0.00 3.58
739 816 5.687780 TCATCTTGCCTTGATATGTGTGAT 58.312 37.500 0.00 0.00 0.00 3.06
740 817 5.529800 TCATCTTGCCTTGATATGTGTGATG 59.470 40.000 0.00 0.00 0.00 3.07
741 818 4.847198 TCTTGCCTTGATATGTGTGATGT 58.153 39.130 0.00 0.00 0.00 3.06
742 819 4.877823 TCTTGCCTTGATATGTGTGATGTC 59.122 41.667 0.00 0.00 0.00 3.06
743 820 4.492494 TGCCTTGATATGTGTGATGTCT 57.508 40.909 0.00 0.00 0.00 3.41
744 821 4.445453 TGCCTTGATATGTGTGATGTCTC 58.555 43.478 0.00 0.00 0.00 3.36
745 822 4.080975 TGCCTTGATATGTGTGATGTCTCA 60.081 41.667 0.00 0.00 0.00 3.27
746 823 5.061853 GCCTTGATATGTGTGATGTCTCAT 58.938 41.667 0.00 0.00 32.98 2.90
747 824 6.183360 TGCCTTGATATGTGTGATGTCTCATA 60.183 38.462 0.00 0.00 32.98 2.15
748 825 6.146837 GCCTTGATATGTGTGATGTCTCATAC 59.853 42.308 0.00 0.00 42.18 2.39
749 826 7.440198 CCTTGATATGTGTGATGTCTCATACT 58.560 38.462 4.51 0.00 42.29 2.12
750 827 8.579863 CCTTGATATGTGTGATGTCTCATACTA 58.420 37.037 4.51 0.00 42.29 1.82
751 828 9.404348 CTTGATATGTGTGATGTCTCATACTAC 57.596 37.037 4.51 0.00 42.29 2.73
752 829 8.697507 TGATATGTGTGATGTCTCATACTACT 57.302 34.615 4.51 0.00 42.29 2.57
753 830 9.793259 TGATATGTGTGATGTCTCATACTACTA 57.207 33.333 4.51 0.00 42.29 1.82
755 832 9.800572 ATATGTGTGATGTCTCATACTACTAGT 57.199 33.333 0.00 0.00 42.29 2.57
757 834 9.628500 ATGTGTGATGTCTCATACTACTAGTAA 57.372 33.333 3.76 0.00 42.29 2.24
826 903 1.001641 GATCTGGTGCTGCCCTTGT 60.002 57.895 0.00 0.00 36.04 3.16
852 929 1.319541 CCATCGTCTGGTCGACCTAT 58.680 55.000 33.39 16.49 42.56 2.57
875 953 3.096495 GCCATGGCTCCCCCTACA 61.096 66.667 29.98 0.00 38.26 2.74
916 995 3.579451 TAAGCAGCACCCCCTCCCT 62.579 63.158 0.00 0.00 0.00 4.20
971 1052 3.071602 CAGGTGTAGGATCGATTTCCCAT 59.928 47.826 0.00 0.00 36.35 4.00
981 1062 3.670625 TCGATTTCCCATTGAACGAACT 58.329 40.909 0.00 0.00 31.07 3.01
1008 1089 0.659427 TCGACTAGGTTATGGACGCG 59.341 55.000 3.53 3.53 0.00 6.01
1187 1268 2.416547 ACATCTACAACTGCAATGACGC 59.583 45.455 6.19 0.00 0.00 5.19
1248 1329 0.035458 CCAGGCTTGTCGAGACCTTT 59.965 55.000 0.34 0.00 31.76 3.11
1249 1330 1.151668 CAGGCTTGTCGAGACCTTTG 58.848 55.000 0.34 0.00 31.76 2.77
1342 1425 1.922447 TGGCCATAACCAGAGGTTCAT 59.078 47.619 0.00 0.00 43.05 2.57
1431 1515 0.833949 GTTGGGGAGCTTAGAGGAGG 59.166 60.000 0.00 0.00 0.00 4.30
1440 1524 4.095946 GAGCTTAGAGGAGGGATGATCAT 58.904 47.826 8.25 8.25 0.00 2.45
1472 1556 1.952367 GCCAGACTCCACCCAAGATTG 60.952 57.143 0.00 0.00 0.00 2.67
1544 1630 7.886629 ATACACTTTTCATGGCTTGATATGT 57.113 32.000 3.72 8.63 33.34 2.29
1632 1719 2.833943 AGATGGTACTCATGTCACTGCA 59.166 45.455 2.07 0.00 35.97 4.41
1643 1730 4.040339 TCATGTCACTGCAAGAGTTCCTAA 59.960 41.667 0.00 0.00 37.43 2.69
1644 1731 4.415881 TGTCACTGCAAGAGTTCCTAAA 57.584 40.909 0.00 0.00 37.43 1.85
1667 1754 1.089920 CAGTCAGCAACATACAGGGC 58.910 55.000 0.00 0.00 0.00 5.19
1765 1852 1.748403 GAGGGGTCAGCGCATGATA 59.252 57.895 11.47 0.00 40.92 2.15
1843 1930 4.187694 CAAGTTCTACCTTGGAGATGCTC 58.812 47.826 0.00 0.00 38.51 4.26
1874 1961 1.605453 GGCCGGGTATTCTTCCACA 59.395 57.895 2.18 0.00 0.00 4.17
1911 1998 3.429135 GGTACCATCTCAACGAGTTCTCC 60.429 52.174 7.15 0.00 0.00 3.71
1958 2045 3.862267 CAGGAGCTGTTTAATCTCAGACG 59.138 47.826 0.00 0.00 34.02 4.18
2014 2101 5.505181 TGGAGCTCTGAAGAATAGGTTTT 57.495 39.130 14.64 0.00 0.00 2.43
2021 2108 8.543774 AGCTCTGAAGAATAGGTTTTAAGATCA 58.456 33.333 0.00 0.00 0.00 2.92
2050 2137 1.898863 AGCCATTCCACCCATACTCT 58.101 50.000 0.00 0.00 0.00 3.24
2102 2189 4.164796 ACATTCTGCATAACTGGATCCTCA 59.835 41.667 14.23 0.00 0.00 3.86
2114 2201 1.683319 GGATCCTCAAGTGGGGCTTTC 60.683 57.143 3.84 0.00 34.69 2.62
2203 2290 2.351641 GGCATTTGACAATGACGCTTGA 60.352 45.455 0.00 0.00 42.35 3.02
2215 2302 4.955925 TGACGCTTGAAAGAACAAAAGA 57.044 36.364 0.00 0.00 0.00 2.52
2219 2306 5.890334 ACGCTTGAAAGAACAAAAGATTGA 58.110 33.333 0.00 0.00 38.94 2.57
2275 2398 4.698780 CAGTGCAGGATTTGAAGAAGATGA 59.301 41.667 0.00 0.00 0.00 2.92
2290 2425 8.616076 TGAAGAAGATGAAAGAAGAACAAGAAC 58.384 33.333 0.00 0.00 0.00 3.01
2300 2435 1.133976 AGAACAAGAACCAGCAGCAGT 60.134 47.619 0.00 0.00 0.00 4.40
2306 2446 0.036952 GAACCAGCAGCAGTAGCAGA 60.037 55.000 0.00 0.00 45.49 4.26
2309 2449 1.367599 CCAGCAGCAGTAGCAGAAGC 61.368 60.000 0.00 0.00 45.49 3.86
2311 2451 0.673022 AGCAGCAGTAGCAGAAGCAC 60.673 55.000 0.00 0.00 45.49 4.40
2334 2474 1.881498 GCTGAAGCTGGAGCAGAAGTT 60.881 52.381 11.48 0.00 45.16 2.66
2363 2518 4.141158 AGAGGAGAGGAAGAGGAAGATCTC 60.141 50.000 0.00 0.00 33.92 2.75
2417 2578 6.564328 CCAATGGCTCTTAATAGTTTGAACC 58.436 40.000 0.00 0.00 0.00 3.62
2470 2633 4.678509 TTTGTTTAAGTAGATGGCGCTG 57.321 40.909 7.64 0.00 0.00 5.18
2477 2640 0.734889 GTAGATGGCGCTGCATGTTT 59.265 50.000 7.64 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 36 2.978156 AATTCACTTCTCAGCCCCAA 57.022 45.000 0.00 0.00 0.00 4.12
133 144 8.889717 GTCTCCGTTCAATATTTCCTTCAATTA 58.110 33.333 0.00 0.00 0.00 1.40
136 147 6.472887 AGTCTCCGTTCAATATTTCCTTCAA 58.527 36.000 0.00 0.00 0.00 2.69
162 174 5.744300 GCTCCAGCATATTGAATGTAGGAGT 60.744 44.000 19.53 0.00 40.73 3.85
165 177 4.649692 AGCTCCAGCATATTGAATGTAGG 58.350 43.478 0.48 0.00 45.16 3.18
186 203 4.778579 TGTACTACCAGTCTACCAGCTAG 58.221 47.826 0.00 0.00 0.00 3.42
187 204 4.849813 TGTACTACCAGTCTACCAGCTA 57.150 45.455 0.00 0.00 0.00 3.32
188 205 3.733883 TGTACTACCAGTCTACCAGCT 57.266 47.619 0.00 0.00 0.00 4.24
189 206 3.762823 ACTTGTACTACCAGTCTACCAGC 59.237 47.826 0.00 0.00 0.00 4.85
190 207 5.979288 AACTTGTACTACCAGTCTACCAG 57.021 43.478 0.00 0.00 0.00 4.00
191 208 5.834742 TCAAACTTGTACTACCAGTCTACCA 59.165 40.000 0.00 0.00 0.00 3.25
192 209 6.336842 TCAAACTTGTACTACCAGTCTACC 57.663 41.667 0.00 0.00 0.00 3.18
193 210 7.331193 CCATTCAAACTTGTACTACCAGTCTAC 59.669 40.741 0.00 0.00 0.00 2.59
194 211 7.233962 TCCATTCAAACTTGTACTACCAGTCTA 59.766 37.037 0.00 0.00 0.00 2.59
195 212 6.042781 TCCATTCAAACTTGTACTACCAGTCT 59.957 38.462 0.00 0.00 0.00 3.24
196 213 6.228258 TCCATTCAAACTTGTACTACCAGTC 58.772 40.000 0.00 0.00 0.00 3.51
197 214 6.042781 TCTCCATTCAAACTTGTACTACCAGT 59.957 38.462 0.00 0.00 0.00 4.00
301 325 1.663695 CCGCCTGGTCAATCGTTAAT 58.336 50.000 0.00 0.00 0.00 1.40
339 363 3.901844 TGAAACAGTGGTAGTTAGGCTCT 59.098 43.478 0.00 0.00 0.00 4.09
387 415 7.970061 CACAGATGGTATTTAAGGACACAAATG 59.030 37.037 0.00 0.00 0.00 2.32
390 418 6.539173 ACACAGATGGTATTTAAGGACACAA 58.461 36.000 0.00 0.00 0.00 3.33
401 433 6.440647 TCAGTTCTAAGGACACAGATGGTATT 59.559 38.462 0.00 0.00 0.00 1.89
410 443 8.671028 GTTTAAGTTTTCAGTTCTAAGGACACA 58.329 33.333 0.00 0.00 0.00 3.72
411 444 8.890718 AGTTTAAGTTTTCAGTTCTAAGGACAC 58.109 33.333 0.00 0.00 0.00 3.67
412 445 8.889717 CAGTTTAAGTTTTCAGTTCTAAGGACA 58.110 33.333 0.00 0.00 0.00 4.02
413 446 9.106070 TCAGTTTAAGTTTTCAGTTCTAAGGAC 57.894 33.333 0.00 0.00 0.00 3.85
432 471 0.167908 CCGCTTGCGCATTCAGTTTA 59.832 50.000 12.75 0.00 35.30 2.01
480 519 1.351017 TGGGACGGCTGAAAAGAAGAT 59.649 47.619 0.00 0.00 0.00 2.40
554 631 2.996621 GGGCGATGACTACATAATGAGC 59.003 50.000 0.00 0.00 36.82 4.26
597 674 2.322355 CACTAGTGCATTGGAGGAGG 57.678 55.000 10.54 0.00 0.00 4.30
617 694 5.067544 GGGTAGTAACTGTGGCTAGTCTTAG 59.932 48.000 0.00 0.00 0.00 2.18
618 695 4.952335 GGGTAGTAACTGTGGCTAGTCTTA 59.048 45.833 0.00 0.00 0.00 2.10
619 696 3.768215 GGGTAGTAACTGTGGCTAGTCTT 59.232 47.826 0.00 0.00 0.00 3.01
620 697 3.011482 AGGGTAGTAACTGTGGCTAGTCT 59.989 47.826 0.00 0.00 0.00 3.24
621 698 3.363627 AGGGTAGTAACTGTGGCTAGTC 58.636 50.000 0.00 0.00 0.00 2.59
622 699 3.469750 AGGGTAGTAACTGTGGCTAGT 57.530 47.619 0.00 0.00 0.00 2.57
623 700 4.894114 ACATAGGGTAGTAACTGTGGCTAG 59.106 45.833 0.00 0.00 31.10 3.42
624 701 4.875389 ACATAGGGTAGTAACTGTGGCTA 58.125 43.478 0.00 0.00 31.10 3.93
625 702 3.721021 ACATAGGGTAGTAACTGTGGCT 58.279 45.455 0.00 0.00 31.10 4.75
626 703 4.482952 AACATAGGGTAGTAACTGTGGC 57.517 45.455 0.00 0.00 31.10 5.01
627 704 6.786967 AGTAACATAGGGTAGTAACTGTGG 57.213 41.667 0.00 0.00 31.10 4.17
628 705 7.559170 AGGTAGTAACATAGGGTAGTAACTGTG 59.441 40.741 4.08 0.00 32.83 3.66
629 706 7.646884 AGGTAGTAACATAGGGTAGTAACTGT 58.353 38.462 4.08 0.00 0.00 3.55
630 707 7.997803 AGAGGTAGTAACATAGGGTAGTAACTG 59.002 40.741 9.54 0.00 0.00 3.16
631 708 8.111928 AGAGGTAGTAACATAGGGTAGTAACT 57.888 38.462 4.55 4.55 0.00 2.24
632 709 9.278978 GTAGAGGTAGTAACATAGGGTAGTAAC 57.721 40.741 0.00 0.00 0.00 2.50
633 710 9.003145 TGTAGAGGTAGTAACATAGGGTAGTAA 57.997 37.037 0.00 0.00 0.00 2.24
634 711 8.567198 TGTAGAGGTAGTAACATAGGGTAGTA 57.433 38.462 0.00 0.00 0.00 1.82
635 712 7.128573 ACTGTAGAGGTAGTAACATAGGGTAGT 59.871 40.741 0.00 0.00 0.00 2.73
636 713 7.444792 CACTGTAGAGGTAGTAACATAGGGTAG 59.555 44.444 0.00 0.00 0.00 3.18
637 714 7.285566 CACTGTAGAGGTAGTAACATAGGGTA 58.714 42.308 0.00 0.00 0.00 3.69
638 715 6.127793 CACTGTAGAGGTAGTAACATAGGGT 58.872 44.000 0.00 0.00 0.00 4.34
639 716 5.535406 CCACTGTAGAGGTAGTAACATAGGG 59.465 48.000 0.00 0.00 0.00 3.53
640 717 6.039493 CACCACTGTAGAGGTAGTAACATAGG 59.961 46.154 0.61 0.00 36.88 2.57
641 718 6.827251 TCACCACTGTAGAGGTAGTAACATAG 59.173 42.308 0.61 0.00 36.88 2.23
642 719 6.724351 TCACCACTGTAGAGGTAGTAACATA 58.276 40.000 0.61 0.00 36.88 2.29
643 720 5.577100 TCACCACTGTAGAGGTAGTAACAT 58.423 41.667 0.61 0.00 36.88 2.71
644 721 4.989277 TCACCACTGTAGAGGTAGTAACA 58.011 43.478 0.61 0.00 36.88 2.41
645 722 5.008980 ACTCACCACTGTAGAGGTAGTAAC 58.991 45.833 0.61 0.00 36.88 2.50
646 723 5.252586 ACTCACCACTGTAGAGGTAGTAA 57.747 43.478 0.61 0.00 36.88 2.24
647 724 4.923516 ACTCACCACTGTAGAGGTAGTA 57.076 45.455 0.61 0.00 36.88 1.82
648 725 3.810721 ACTCACCACTGTAGAGGTAGT 57.189 47.619 0.61 3.63 36.88 2.73
649 726 9.742144 ATATATTACTCACCACTGTAGAGGTAG 57.258 37.037 0.61 3.12 36.88 3.18
650 727 9.516546 CATATATTACTCACCACTGTAGAGGTA 57.483 37.037 0.61 0.00 36.88 3.08
651 728 8.005388 ACATATATTACTCACCACTGTAGAGGT 58.995 37.037 8.36 0.00 39.64 3.85
652 729 8.300286 CACATATATTACTCACCACTGTAGAGG 58.700 40.741 8.36 0.00 33.76 3.69
653 730 8.851145 ACACATATATTACTCACCACTGTAGAG 58.149 37.037 0.00 0.00 35.56 2.43
654 731 8.630037 CACACATATATTACTCACCACTGTAGA 58.370 37.037 0.00 0.00 0.00 2.59
655 732 7.867909 CCACACATATATTACTCACCACTGTAG 59.132 40.741 0.00 0.00 0.00 2.74
656 733 7.343574 ACCACACATATATTACTCACCACTGTA 59.656 37.037 0.00 0.00 0.00 2.74
657 734 6.156256 ACCACACATATATTACTCACCACTGT 59.844 38.462 0.00 0.00 0.00 3.55
658 735 6.582636 ACCACACATATATTACTCACCACTG 58.417 40.000 0.00 0.00 0.00 3.66
659 736 6.808321 ACCACACATATATTACTCACCACT 57.192 37.500 0.00 0.00 0.00 4.00
660 737 7.982919 TGTTACCACACATATATTACTCACCAC 59.017 37.037 0.00 0.00 0.00 4.16
661 738 8.080363 TGTTACCACACATATATTACTCACCA 57.920 34.615 0.00 0.00 0.00 4.17
662 739 8.988934 CATGTTACCACACATATATTACTCACC 58.011 37.037 0.00 0.00 35.51 4.02
663 740 8.495949 GCATGTTACCACACATATATTACTCAC 58.504 37.037 0.00 0.00 35.51 3.51
664 741 8.207545 TGCATGTTACCACACATATATTACTCA 58.792 33.333 0.00 0.00 35.51 3.41
665 742 8.601845 TGCATGTTACCACACATATATTACTC 57.398 34.615 0.00 0.00 35.51 2.59
666 743 8.836413 GTTGCATGTTACCACACATATATTACT 58.164 33.333 0.00 0.00 35.51 2.24
667 744 8.616942 TGTTGCATGTTACCACACATATATTAC 58.383 33.333 0.00 0.00 35.51 1.89
668 745 8.616942 GTGTTGCATGTTACCACACATATATTA 58.383 33.333 10.02 0.00 35.51 0.98
669 746 7.339212 AGTGTTGCATGTTACCACACATATATT 59.661 33.333 15.74 0.00 35.51 1.28
670 747 6.828273 AGTGTTGCATGTTACCACACATATAT 59.172 34.615 15.74 0.00 35.51 0.86
671 748 6.176896 AGTGTTGCATGTTACCACACATATA 58.823 36.000 15.74 0.00 35.51 0.86
672 749 5.009631 AGTGTTGCATGTTACCACACATAT 58.990 37.500 15.74 0.00 35.51 1.78
673 750 4.393834 AGTGTTGCATGTTACCACACATA 58.606 39.130 15.74 0.00 35.51 2.29
674 751 3.221771 AGTGTTGCATGTTACCACACAT 58.778 40.909 15.74 1.51 37.93 3.21
675 752 2.649190 AGTGTTGCATGTTACCACACA 58.351 42.857 15.74 0.00 35.03 3.72
676 753 3.066064 TGAAGTGTTGCATGTTACCACAC 59.934 43.478 7.36 7.36 35.03 3.82
677 754 3.282885 TGAAGTGTTGCATGTTACCACA 58.717 40.909 0.00 0.00 37.31 4.17
678 755 3.980646 TGAAGTGTTGCATGTTACCAC 57.019 42.857 0.00 0.00 0.00 4.16
679 756 5.528043 AAATGAAGTGTTGCATGTTACCA 57.472 34.783 0.00 0.00 0.00 3.25
680 757 9.289303 CTAATAAATGAAGTGTTGCATGTTACC 57.711 33.333 0.00 0.00 0.00 2.85
681 758 9.289303 CCTAATAAATGAAGTGTTGCATGTTAC 57.711 33.333 0.00 0.00 0.00 2.50
682 759 7.973388 GCCTAATAAATGAAGTGTTGCATGTTA 59.027 33.333 0.00 0.00 0.00 2.41
683 760 6.813152 GCCTAATAAATGAAGTGTTGCATGTT 59.187 34.615 0.00 0.00 0.00 2.71
684 761 6.153340 AGCCTAATAAATGAAGTGTTGCATGT 59.847 34.615 0.00 0.00 0.00 3.21
685 762 6.567050 AGCCTAATAAATGAAGTGTTGCATG 58.433 36.000 0.00 0.00 0.00 4.06
686 763 6.780457 AGCCTAATAAATGAAGTGTTGCAT 57.220 33.333 0.00 0.00 0.00 3.96
687 764 7.880160 ATAGCCTAATAAATGAAGTGTTGCA 57.120 32.000 0.00 0.00 0.00 4.08
688 765 9.273016 TCTATAGCCTAATAAATGAAGTGTTGC 57.727 33.333 0.00 0.00 0.00 4.17
698 775 9.883142 GCAAGATGAGTCTATAGCCTAATAAAT 57.117 33.333 0.00 0.00 33.30 1.40
699 776 8.314751 GGCAAGATGAGTCTATAGCCTAATAAA 58.685 37.037 0.00 0.00 40.78 1.40
700 777 7.676043 AGGCAAGATGAGTCTATAGCCTAATAA 59.324 37.037 13.74 0.00 46.63 1.40
701 778 7.185565 AGGCAAGATGAGTCTATAGCCTAATA 58.814 38.462 13.74 0.00 46.63 0.98
702 779 6.022315 AGGCAAGATGAGTCTATAGCCTAAT 58.978 40.000 13.74 0.00 46.63 1.73
703 780 5.398236 AGGCAAGATGAGTCTATAGCCTAA 58.602 41.667 13.74 0.00 46.63 2.69
704 781 5.004361 AGGCAAGATGAGTCTATAGCCTA 57.996 43.478 13.74 0.00 46.63 3.93
705 782 3.855668 AGGCAAGATGAGTCTATAGCCT 58.144 45.455 11.05 11.05 45.15 4.58
706 783 4.039730 TCAAGGCAAGATGAGTCTATAGCC 59.960 45.833 0.00 0.00 42.62 3.93
707 784 5.207110 TCAAGGCAAGATGAGTCTATAGC 57.793 43.478 0.00 0.00 33.30 2.97
708 785 8.530311 ACATATCAAGGCAAGATGAGTCTATAG 58.470 37.037 0.00 0.00 33.30 1.31
709 786 8.309656 CACATATCAAGGCAAGATGAGTCTATA 58.690 37.037 2.43 0.00 33.30 1.31
710 787 7.160049 CACATATCAAGGCAAGATGAGTCTAT 58.840 38.462 2.43 0.00 33.30 1.98
711 788 6.098838 ACACATATCAAGGCAAGATGAGTCTA 59.901 38.462 2.43 0.00 33.30 2.59
712 789 5.104610 ACACATATCAAGGCAAGATGAGTCT 60.105 40.000 2.43 0.00 35.82 3.24
713 790 5.007430 CACACATATCAAGGCAAGATGAGTC 59.993 44.000 2.43 0.00 0.00 3.36
714 791 4.880120 CACACATATCAAGGCAAGATGAGT 59.120 41.667 2.43 0.00 0.00 3.41
715 792 5.121105 TCACACATATCAAGGCAAGATGAG 58.879 41.667 2.43 0.00 0.00 2.90
716 793 5.101648 TCACACATATCAAGGCAAGATGA 57.898 39.130 2.43 0.00 0.00 2.92
717 794 5.298527 ACATCACACATATCAAGGCAAGATG 59.701 40.000 0.00 0.00 36.24 2.90
718 795 5.443283 ACATCACACATATCAAGGCAAGAT 58.557 37.500 0.00 0.00 0.00 2.40
719 796 4.847198 ACATCACACATATCAAGGCAAGA 58.153 39.130 0.00 0.00 0.00 3.02
720 797 4.880120 AGACATCACACATATCAAGGCAAG 59.120 41.667 0.00 0.00 0.00 4.01
721 798 4.847198 AGACATCACACATATCAAGGCAA 58.153 39.130 0.00 0.00 0.00 4.52
722 799 4.080975 TGAGACATCACACATATCAAGGCA 60.081 41.667 0.00 0.00 0.00 4.75
723 800 4.445453 TGAGACATCACACATATCAAGGC 58.555 43.478 0.00 0.00 0.00 4.35
724 801 7.440198 AGTATGAGACATCACACATATCAAGG 58.560 38.462 0.00 0.00 35.19 3.61
725 802 9.404348 GTAGTATGAGACATCACACATATCAAG 57.596 37.037 0.00 0.00 35.19 3.02
726 803 9.136323 AGTAGTATGAGACATCACACATATCAA 57.864 33.333 0.00 0.00 35.19 2.57
727 804 8.697507 AGTAGTATGAGACATCACACATATCA 57.302 34.615 0.00 0.00 35.19 2.15
729 806 9.800572 ACTAGTAGTATGAGACATCACACATAT 57.199 33.333 0.00 0.00 35.19 1.78
731 808 9.628500 TTACTAGTAGTATGAGACATCACACAT 57.372 33.333 10.82 0.00 35.19 3.21
732 809 8.890718 GTTACTAGTAGTATGAGACATCACACA 58.109 37.037 10.82 0.00 35.19 3.72
733 810 9.111613 AGTTACTAGTAGTATGAGACATCACAC 57.888 37.037 10.82 2.24 38.57 3.82
736 813 9.473640 CGTAGTTACTAGTAGTATGAGACATCA 57.526 37.037 10.82 0.00 40.50 3.07
737 814 8.434661 GCGTAGTTACTAGTAGTATGAGACATC 58.565 40.741 10.82 3.57 29.64 3.06
738 815 8.149647 AGCGTAGTTACTAGTAGTATGAGACAT 58.850 37.037 10.82 0.00 29.64 3.06
739 816 7.495901 AGCGTAGTTACTAGTAGTATGAGACA 58.504 38.462 10.82 0.00 29.64 3.41
740 817 7.945033 AGCGTAGTTACTAGTAGTATGAGAC 57.055 40.000 10.82 6.35 29.64 3.36
744 821 8.816144 GCCTATAGCGTAGTTACTAGTAGTATG 58.184 40.741 10.82 6.06 29.64 2.39
745 822 8.940768 GCCTATAGCGTAGTTACTAGTAGTAT 57.059 38.462 10.82 0.09 29.64 2.12
826 903 4.395519 CCAGACGATGGCCAACAA 57.604 55.556 10.96 0.00 43.83 2.83
916 995 3.857157 AACCACTGAGCTAACAAAGGA 57.143 42.857 0.00 0.00 0.00 3.36
949 1030 2.434336 TGGGAAATCGATCCTACACCTG 59.566 50.000 0.00 0.00 39.57 4.00
971 1052 2.048498 CGACATCGACAGTTCGTTCAA 58.952 47.619 0.00 0.00 46.01 2.69
1008 1089 0.741221 GGATTATCCGCCTCATCCGC 60.741 60.000 0.00 0.00 0.00 5.54
1019 1100 0.179009 TGCTGCTGCCTGGATTATCC 60.179 55.000 13.47 3.91 38.71 2.59
1164 1245 4.092821 GCGTCATTGCAGTTGTAGATGTAA 59.907 41.667 0.00 0.00 34.15 2.41
1187 1268 2.202987 GCATCCACAGAGCCTCGG 60.203 66.667 0.00 0.00 0.00 4.63
1248 1329 1.063070 TGTAACAACCCCTGCTCCCA 61.063 55.000 0.00 0.00 0.00 4.37
1249 1330 0.111639 TTGTAACAACCCCTGCTCCC 59.888 55.000 0.00 0.00 0.00 4.30
1342 1425 2.611751 CTGAACGTGTTGTGAATGACCA 59.388 45.455 0.00 0.00 0.00 4.02
1440 1524 0.252421 AGTCTGGCCAGATGGTCTCA 60.252 55.000 37.07 10.80 41.34 3.27
1544 1630 7.066404 TGTTAGTGCTCAACTTGACAATACAAA 59.934 33.333 0.00 0.00 40.56 2.83
1584 1671 3.198200 CCCCAATGCAATCCTGAAAATGA 59.802 43.478 0.00 0.00 0.00 2.57
1632 1719 5.221722 TGCTGACTGTGATTTAGGAACTCTT 60.222 40.000 0.00 0.00 41.75 2.85
1643 1730 4.005650 CCTGTATGTTGCTGACTGTGATT 58.994 43.478 0.00 0.00 0.00 2.57
1644 1731 3.603532 CCTGTATGTTGCTGACTGTGAT 58.396 45.455 0.00 0.00 0.00 3.06
1667 1754 1.071605 GCTTGTGTAGTGCTTCCTCG 58.928 55.000 0.00 0.00 0.00 4.63
1765 1852 4.607293 TGCTGTCAGTGAGAATGTTAGT 57.393 40.909 0.93 0.00 0.00 2.24
1816 1903 1.418637 TCCAAGGTAGAACTTGCCGTT 59.581 47.619 1.54 0.00 44.98 4.44
1843 1930 3.705638 CGGCCGACATGCATAGCG 61.706 66.667 24.07 6.11 0.00 4.26
1874 1961 4.513406 TGGTACCTTGTTTTCCTGAAGT 57.487 40.909 14.36 0.00 0.00 3.01
1935 2022 3.620821 GTCTGAGATTAAACAGCTCCTGC 59.379 47.826 0.00 0.00 37.08 4.85
1958 2045 2.498078 ACAGTTACTCTAAGGCTGGAGC 59.502 50.000 14.92 0.00 33.54 4.70
2014 2101 5.837770 ATGGCTTCTGATCCATGATCTTA 57.162 39.130 10.11 0.00 41.26 2.10
2021 2108 2.423947 GGTGGAATGGCTTCTGATCCAT 60.424 50.000 6.24 6.24 44.46 3.41
2050 2137 6.994221 AGCAAGAACTAGCTTAACTTGAGTA 58.006 36.000 19.24 0.00 38.01 2.59
2079 2166 4.164796 TGAGGATCCAGTTATGCAGAATGT 59.835 41.667 15.82 0.00 39.31 2.71
2102 2189 1.963515 GTGTTCATGAAAGCCCCACTT 59.036 47.619 10.35 0.00 41.70 3.16
2114 2201 0.320683 TCCTCAGGCACGTGTTCATG 60.321 55.000 18.38 9.41 0.00 3.07
2203 2290 5.104982 TGCCCACTTCAATCTTTTGTTCTTT 60.105 36.000 0.00 0.00 34.32 2.52
2215 2302 1.377725 CGCCTCTGCCCACTTCAAT 60.378 57.895 0.00 0.00 0.00 2.57
2219 2306 2.270205 CATCGCCTCTGCCCACTT 59.730 61.111 0.00 0.00 0.00 3.16
2275 2398 3.067320 GCTGCTGGTTCTTGTTCTTCTTT 59.933 43.478 0.00 0.00 0.00 2.52
2290 2425 1.367599 GCTTCTGCTACTGCTGCTGG 61.368 60.000 11.29 1.84 40.48 4.85
2316 2456 1.417517 TCAACTTCTGCTCCAGCTTCA 59.582 47.619 0.00 0.00 42.66 3.02
2317 2457 2.175878 TCAACTTCTGCTCCAGCTTC 57.824 50.000 0.00 0.00 42.66 3.86
2318 2458 2.105477 TCTTCAACTTCTGCTCCAGCTT 59.895 45.455 0.00 0.00 42.66 3.74
2319 2459 1.696336 TCTTCAACTTCTGCTCCAGCT 59.304 47.619 0.00 0.00 42.66 4.24
2320 2460 2.175878 TCTTCAACTTCTGCTCCAGC 57.824 50.000 0.00 0.00 42.50 4.85
2321 2461 3.995705 CTCTTCTTCAACTTCTGCTCCAG 59.004 47.826 0.00 0.00 0.00 3.86
2322 2462 3.244353 CCTCTTCTTCAACTTCTGCTCCA 60.244 47.826 0.00 0.00 0.00 3.86
2323 2463 3.007398 TCCTCTTCTTCAACTTCTGCTCC 59.993 47.826 0.00 0.00 0.00 4.70
2324 2464 4.021544 TCTCCTCTTCTTCAACTTCTGCTC 60.022 45.833 0.00 0.00 0.00 4.26
2334 2474 3.335183 TCCTCTTCCTCTCCTCTTCTTCA 59.665 47.826 0.00 0.00 0.00 3.02
2363 2518 2.607282 GGGATAGTTCATCGGTGCTACG 60.607 54.545 0.00 0.00 34.12 3.51
2409 2570 7.360575 ACTACTATCAAATGACGGTTCAAAC 57.639 36.000 0.00 0.00 34.61 2.93
2417 2578 8.969267 GTTCATCCTAACTACTATCAAATGACG 58.031 37.037 0.00 0.00 0.00 4.35
2470 2633 6.494893 TTACCACACAGAATCTAAACATGC 57.505 37.500 0.00 0.00 0.00 4.06
2477 2640 4.081642 GGTGAGCTTACCACACAGAATCTA 60.082 45.833 22.15 0.00 40.54 1.98


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

AutoCloner maintained by Alex Coulton.