Multiple sequence alignment - TraesCS6A01G339700

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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 TraesCS6A01G339700 chr6A 100.000 2475 0 0 1 2475 573139790 573137316 0.000000e+00 4571.0
1 TraesCS6A01G339700 chr6A 97.951 1025 20 1 1452 2475 615024985 615026009 0.000000e+00 1775.0
2 TraesCS6A01G339700 chr6A 96.774 527 11 6 1 524 68576408 68576931 0.000000e+00 874.0
3 TraesCS6A01G339700 chr6A 96.172 418 16 0 1003 1420 615024570 615024987 0.000000e+00 684.0
4 TraesCS6A01G339700 chr6A 100.000 137 0 0 2773 2909 573137018 573136882 1.340000e-63 254.0
5 TraesCS6A01G339700 chr6A 97.810 137 3 0 2773 2909 615026322 615026458 1.350000e-58 237.0
6 TraesCS6A01G339700 chr6A 91.398 93 7 1 2383 2475 612101966 612102057 3.040000e-25 126.0
7 TraesCS6A01G339700 chr6A 98.361 61 1 0 525 585 68577062 68577122 1.100000e-19 108.0
8 TraesCS6A01G339700 chr6A 96.721 61 2 0 525 585 68573882 68573822 5.130000e-18 102.0
9 TraesCS6A01G339700 chr2A 99.162 1552 13 0 924 2475 561008514 561010065 0.000000e+00 2795.0
10 TraesCS6A01G339700 chr2A 92.060 529 31 9 1 524 574453393 574453915 0.000000e+00 734.0
11 TraesCS6A01G339700 chr2A 99.270 137 1 0 2773 2909 561010152 561010288 6.220000e-62 248.0
12 TraesCS6A01G339700 chr3A 98.067 1552 25 3 924 2474 52208267 52206720 0.000000e+00 2695.0
13 TraesCS6A01G339700 chr3A 97.080 137 4 0 2773 2909 52206638 52206502 6.270000e-57 231.0
14 TraesCS6A01G339700 chr3A 96.124 129 5 0 923 1051 514262574 514262446 8.170000e-51 211.0
15 TraesCS6A01G339700 chr3A 98.361 61 1 0 525 585 9991040 9990980 1.100000e-19 108.0
16 TraesCS6A01G339700 chr5B 96.191 1339 42 1 1046 2384 528591065 528589736 0.000000e+00 2182.0
17 TraesCS6A01G339700 chr5D 95.976 1342 45 2 1046 2384 435279051 435277716 0.000000e+00 2170.0
18 TraesCS6A01G339700 chr5D 96.875 128 3 1 924 1051 526269785 526269911 2.270000e-51 213.0
19 TraesCS6A01G339700 chr5D 94.776 134 7 0 2776 2909 513559944 513559811 2.940000e-50 209.0
20 TraesCS6A01G339700 chr5D 95.181 83 4 0 2393 2475 513560332 513560250 6.540000e-27 132.0
21 TraesCS6A01G339700 chr5A 95.681 1343 39 4 1046 2384 549220056 549218729 0.000000e+00 2141.0
22 TraesCS6A01G339700 chr7A 97.148 526 10 5 1 524 735462620 735463142 0.000000e+00 883.0
23 TraesCS6A01G339700 chr7A 94.611 501 20 7 1 499 46197201 46197696 0.000000e+00 769.0
24 TraesCS6A01G339700 chr7A 94.161 137 8 0 2773 2909 364470958 364471094 2.940000e-50 209.0
25 TraesCS6A01G339700 chr7A 98.361 61 1 0 525 585 46197826 46197886 1.100000e-19 108.0
26 TraesCS6A01G339700 chr7A 96.667 60 2 0 525 584 735463274 735463333 1.840000e-17 100.0
27 TraesCS6A01G339700 chr4D 92.453 530 28 10 1 524 479679542 479679019 0.000000e+00 747.0
28 TraesCS6A01G339700 chr3D 92.734 523 26 10 7 524 574121397 574120882 0.000000e+00 745.0
29 TraesCS6A01G339700 chr3D 92.381 525 25 12 6 524 250051380 250050865 0.000000e+00 734.0
30 TraesCS6A01G339700 chr3D 94.853 136 7 0 2773 2908 424473527 424473662 2.270000e-51 213.0
31 TraesCS6A01G339700 chr3D 94.776 134 7 0 2776 2909 46938441 46938308 2.940000e-50 209.0
32 TraesCS6A01G339700 chr3D 96.094 128 5 0 924 1051 424471916 424472043 2.940000e-50 209.0
33 TraesCS6A01G339700 chr1A 92.337 522 26 12 6 522 501032158 501031646 0.000000e+00 730.0
34 TraesCS6A01G339700 chr1A 95.181 83 4 0 2393 2475 208905260 208905178 6.540000e-27 132.0
35 TraesCS6A01G339700 chr2D 91.871 529 29 12 3 524 639133047 639133568 0.000000e+00 726.0
36 TraesCS6A01G339700 chr2D 96.386 83 3 0 2393 2475 75101149 75101231 1.410000e-28 137.0
37 TraesCS6A01G339700 chr2D 94.915 59 3 0 527 585 639133646 639133704 3.090000e-15 93.5
38 TraesCS6A01G339700 chrUn 97.656 128 3 0 924 1051 439380670 439380543 1.360000e-53 220.0
39 TraesCS6A01G339700 chrUn 93.443 61 4 0 525 585 265564446 265564506 1.110000e-14 91.6
40 TraesCS6A01G339700 chr7D 97.656 128 3 0 924 1051 428708961 428708834 1.360000e-53 220.0
41 TraesCS6A01G339700 chr7D 94.776 134 7 0 2776 2909 428707524 428707391 2.940000e-50 209.0
42 TraesCS6A01G339700 chr7D 96.386 83 3 0 2393 2475 428707682 428707600 1.410000e-28 137.0
43 TraesCS6A01G339700 chr3B 97.656 128 3 0 924 1051 82308828 82308955 1.360000e-53 220.0
44 TraesCS6A01G339700 chr3B 95.349 129 3 2 924 1051 181334244 181334118 4.920000e-48 202.0
45 TraesCS6A01G339700 chr3B 93.443 61 4 0 525 585 805612866 805612806 1.110000e-14 91.6
46 TraesCS6A01G339700 chr3B 93.443 61 4 0 525 585 805619656 805619596 1.110000e-14 91.6
47 TraesCS6A01G339700 chr6D 93.431 137 9 0 2773 2909 222717664 222717800 1.370000e-48 204.0
48 TraesCS6A01G339700 chr6D 95.181 83 4 0 2393 2475 222717504 222717586 6.540000e-27 132.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G339700 chr6A 573136882 573139790 2908 True 2412.500000 4571 100.0000 1 2909 2 chr6A.!!$R2 2908
1 TraesCS6A01G339700 chr6A 615024570 615026458 1888 False 898.666667 1775 97.3110 1003 2909 3 chr6A.!!$F3 1906
2 TraesCS6A01G339700 chr6A 68576408 68577122 714 False 491.000000 874 97.5675 1 585 2 chr6A.!!$F2 584
3 TraesCS6A01G339700 chr2A 561008514 561010288 1774 False 1521.500000 2795 99.2160 924 2909 2 chr2A.!!$F2 1985
4 TraesCS6A01G339700 chr2A 574453393 574453915 522 False 734.000000 734 92.0600 1 524 1 chr2A.!!$F1 523
5 TraesCS6A01G339700 chr3A 52206502 52208267 1765 True 1463.000000 2695 97.5735 924 2909 2 chr3A.!!$R3 1985
6 TraesCS6A01G339700 chr5B 528589736 528591065 1329 True 2182.000000 2182 96.1910 1046 2384 1 chr5B.!!$R1 1338
7 TraesCS6A01G339700 chr5D 435277716 435279051 1335 True 2170.000000 2170 95.9760 1046 2384 1 chr5D.!!$R1 1338
8 TraesCS6A01G339700 chr5A 549218729 549220056 1327 True 2141.000000 2141 95.6810 1046 2384 1 chr5A.!!$R1 1338
9 TraesCS6A01G339700 chr7A 735462620 735463333 713 False 491.500000 883 96.9075 1 584 2 chr7A.!!$F3 583
10 TraesCS6A01G339700 chr7A 46197201 46197886 685 False 438.500000 769 96.4860 1 585 2 chr7A.!!$F2 584
11 TraesCS6A01G339700 chr4D 479679019 479679542 523 True 747.000000 747 92.4530 1 524 1 chr4D.!!$R1 523
12 TraesCS6A01G339700 chr3D 574120882 574121397 515 True 745.000000 745 92.7340 7 524 1 chr3D.!!$R3 517
13 TraesCS6A01G339700 chr3D 250050865 250051380 515 True 734.000000 734 92.3810 6 524 1 chr3D.!!$R2 518
14 TraesCS6A01G339700 chr3D 424471916 424473662 1746 False 211.000000 213 95.4735 924 2908 2 chr3D.!!$F1 1984
15 TraesCS6A01G339700 chr1A 501031646 501032158 512 True 730.000000 730 92.3370 6 522 1 chr1A.!!$R2 516
16 TraesCS6A01G339700 chr2D 639133047 639133704 657 False 409.750000 726 93.3930 3 585 2 chr2D.!!$F2 582

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
646 788 0.104120 GTTGACCAGCCAAACCAACC 59.896 55.0 0.0 0.0 33.13 3.77 F
752 894 0.174389 TTCAGTCAGCCAGATCGAGC 59.826 55.0 0.0 0.0 0.00 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1703 1913 0.106894 GAGGAATGACCGGACCATCC 59.893 60.0 9.46 12.78 44.74 3.51 R
2859 3536 6.796426 TGTTGTTCACACAAAAATTATCGGA 58.204 32.0 0.00 0.00 44.72 4.55 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
325 330 9.504710 TTGAAACTTTTTCGTCATTTTCGATTA 57.495 25.926 0.00 0.00 37.18 1.75
539 681 6.971184 CCTGCAGCAATGAAGAGTTTATAAAG 59.029 38.462 8.66 0.00 0.00 1.85
585 727 3.648067 TGAAGAGGTATGGGCTAATCTGG 59.352 47.826 0.00 0.00 0.00 3.86
586 728 3.637821 AGAGGTATGGGCTAATCTGGA 57.362 47.619 0.00 0.00 0.00 3.86
587 729 3.515562 AGAGGTATGGGCTAATCTGGAG 58.484 50.000 0.00 0.00 0.00 3.86
588 730 2.569404 GAGGTATGGGCTAATCTGGAGG 59.431 54.545 0.00 0.00 0.00 4.30
589 731 2.089925 AGGTATGGGCTAATCTGGAGGT 60.090 50.000 0.00 0.00 0.00 3.85
590 732 3.144125 AGGTATGGGCTAATCTGGAGGTA 59.856 47.826 0.00 0.00 0.00 3.08
591 733 4.104831 GGTATGGGCTAATCTGGAGGTAT 58.895 47.826 0.00 0.00 0.00 2.73
592 734 5.017431 AGGTATGGGCTAATCTGGAGGTATA 59.983 44.000 0.00 0.00 0.00 1.47
593 735 5.128991 GGTATGGGCTAATCTGGAGGTATAC 59.871 48.000 0.00 0.00 0.00 1.47
594 736 3.517612 TGGGCTAATCTGGAGGTATACC 58.482 50.000 14.54 14.54 0.00 2.73
595 737 2.496470 GGGCTAATCTGGAGGTATACCG 59.504 54.545 16.31 2.23 42.08 4.02
596 738 3.428532 GGCTAATCTGGAGGTATACCGA 58.571 50.000 16.31 7.90 42.08 4.69
597 739 3.830755 GGCTAATCTGGAGGTATACCGAA 59.169 47.826 16.31 5.27 42.08 4.30
598 740 4.082136 GGCTAATCTGGAGGTATACCGAAG 60.082 50.000 16.31 14.22 42.08 3.79
599 741 4.618693 GCTAATCTGGAGGTATACCGAAGC 60.619 50.000 16.31 10.05 42.08 3.86
600 742 2.447408 TCTGGAGGTATACCGAAGCA 57.553 50.000 16.31 0.00 42.08 3.91
601 743 2.307768 TCTGGAGGTATACCGAAGCAG 58.692 52.381 16.31 7.79 42.08 4.24
602 744 2.092049 TCTGGAGGTATACCGAAGCAGA 60.092 50.000 16.31 9.53 42.08 4.26
603 745 2.693591 CTGGAGGTATACCGAAGCAGAA 59.306 50.000 16.31 0.00 42.08 3.02
604 746 2.693591 TGGAGGTATACCGAAGCAGAAG 59.306 50.000 16.31 0.00 42.08 2.85
605 747 2.694109 GGAGGTATACCGAAGCAGAAGT 59.306 50.000 16.31 0.00 42.08 3.01
606 748 3.491104 GGAGGTATACCGAAGCAGAAGTG 60.491 52.174 16.31 0.00 42.08 3.16
607 749 3.097614 AGGTATACCGAAGCAGAAGTGT 58.902 45.455 16.31 0.00 42.08 3.55
608 750 4.275810 AGGTATACCGAAGCAGAAGTGTA 58.724 43.478 16.31 0.00 42.08 2.90
609 751 4.894114 AGGTATACCGAAGCAGAAGTGTAT 59.106 41.667 16.31 0.00 42.08 2.29
610 752 5.363005 AGGTATACCGAAGCAGAAGTGTATT 59.637 40.000 16.31 0.00 42.08 1.89
611 753 6.047231 GGTATACCGAAGCAGAAGTGTATTT 58.953 40.000 6.06 0.00 0.00 1.40
612 754 6.537660 GGTATACCGAAGCAGAAGTGTATTTT 59.462 38.462 6.06 0.00 0.00 1.82
613 755 4.749245 ACCGAAGCAGAAGTGTATTTTG 57.251 40.909 0.00 0.00 0.00 2.44
614 756 3.058224 ACCGAAGCAGAAGTGTATTTTGC 60.058 43.478 0.00 0.00 35.09 3.68
615 757 3.058293 CCGAAGCAGAAGTGTATTTTGCA 60.058 43.478 5.99 0.00 37.24 4.08
616 758 4.379813 CCGAAGCAGAAGTGTATTTTGCAT 60.380 41.667 5.99 0.00 37.24 3.96
617 759 5.163764 CCGAAGCAGAAGTGTATTTTGCATA 60.164 40.000 5.99 0.00 37.24 3.14
618 760 6.458751 CCGAAGCAGAAGTGTATTTTGCATAT 60.459 38.462 5.99 0.00 37.24 1.78
619 761 7.254761 CCGAAGCAGAAGTGTATTTTGCATATA 60.255 37.037 5.99 0.00 37.24 0.86
620 762 8.285394 CGAAGCAGAAGTGTATTTTGCATATAT 58.715 33.333 5.99 0.00 37.24 0.86
637 779 6.127810 CATATATATGCATGTTGACCAGCC 57.872 41.667 10.16 0.00 0.00 4.85
638 780 2.440517 ATATGCATGTTGACCAGCCA 57.559 45.000 10.16 0.00 0.00 4.75
639 781 2.212812 TATGCATGTTGACCAGCCAA 57.787 45.000 10.16 0.00 0.00 4.52
640 782 1.340088 ATGCATGTTGACCAGCCAAA 58.660 45.000 0.00 0.00 0.00 3.28
641 783 0.388659 TGCATGTTGACCAGCCAAAC 59.611 50.000 0.00 0.00 0.00 2.93
642 784 0.319813 GCATGTTGACCAGCCAAACC 60.320 55.000 0.00 0.00 0.00 3.27
643 785 1.039068 CATGTTGACCAGCCAAACCA 58.961 50.000 0.00 0.00 0.00 3.67
644 786 1.411977 CATGTTGACCAGCCAAACCAA 59.588 47.619 0.00 0.00 0.00 3.67
645 787 0.820871 TGTTGACCAGCCAAACCAAC 59.179 50.000 0.00 0.00 38.00 3.77
646 788 0.104120 GTTGACCAGCCAAACCAACC 59.896 55.000 0.00 0.00 33.13 3.77
647 789 1.045911 TTGACCAGCCAAACCAACCC 61.046 55.000 0.00 0.00 0.00 4.11
648 790 1.456705 GACCAGCCAAACCAACCCA 60.457 57.895 0.00 0.00 0.00 4.51
649 791 1.457455 ACCAGCCAAACCAACCCAG 60.457 57.895 0.00 0.00 0.00 4.45
650 792 2.736531 CAGCCAAACCAACCCAGC 59.263 61.111 0.00 0.00 0.00 4.85
651 793 2.912025 AGCCAAACCAACCCAGCG 60.912 61.111 0.00 0.00 0.00 5.18
652 794 4.662961 GCCAAACCAACCCAGCGC 62.663 66.667 0.00 0.00 0.00 5.92
653 795 3.222855 CCAAACCAACCCAGCGCA 61.223 61.111 11.47 0.00 0.00 6.09
654 796 2.027460 CAAACCAACCCAGCGCAC 59.973 61.111 11.47 0.00 0.00 5.34
655 797 3.591835 AAACCAACCCAGCGCACG 61.592 61.111 11.47 0.00 0.00 5.34
656 798 4.868116 AACCAACCCAGCGCACGT 62.868 61.111 11.47 0.00 0.00 4.49
657 799 4.868116 ACCAACCCAGCGCACGTT 62.868 61.111 11.47 5.46 0.00 3.99
658 800 4.025401 CCAACCCAGCGCACGTTC 62.025 66.667 11.47 0.00 0.00 3.95
659 801 4.368808 CAACCCAGCGCACGTTCG 62.369 66.667 11.47 2.39 0.00 3.95
668 810 2.742372 GCACGTTCGGCTCACCAT 60.742 61.111 0.00 0.00 34.57 3.55
669 811 3.027170 GCACGTTCGGCTCACCATG 62.027 63.158 0.00 0.00 34.57 3.66
670 812 1.667830 CACGTTCGGCTCACCATGT 60.668 57.895 0.00 0.00 34.57 3.21
671 813 1.374252 ACGTTCGGCTCACCATGTC 60.374 57.895 0.00 0.00 34.57 3.06
672 814 1.374125 CGTTCGGCTCACCATGTCA 60.374 57.895 0.00 0.00 34.57 3.58
673 815 1.626654 CGTTCGGCTCACCATGTCAC 61.627 60.000 0.00 0.00 34.57 3.67
674 816 1.374125 TTCGGCTCACCATGTCACG 60.374 57.895 0.00 0.00 34.57 4.35
675 817 3.490759 CGGCTCACCATGTCACGC 61.491 66.667 0.00 0.00 34.57 5.34
676 818 2.358615 GGCTCACCATGTCACGCA 60.359 61.111 0.00 0.00 35.26 5.24
677 819 1.746615 GGCTCACCATGTCACGCAT 60.747 57.895 0.00 0.00 38.60 4.73
702 844 4.326766 GCCTGCAGCAACGCGAAA 62.327 61.111 15.93 0.00 42.97 3.46
703 845 2.562912 CCTGCAGCAACGCGAAAT 59.437 55.556 15.93 0.00 33.35 2.17
704 846 1.512734 CCTGCAGCAACGCGAAATC 60.513 57.895 15.93 0.00 33.35 2.17
705 847 1.207339 CTGCAGCAACGCGAAATCA 59.793 52.632 15.93 1.56 33.35 2.57
706 848 0.791983 CTGCAGCAACGCGAAATCAG 60.792 55.000 15.93 8.24 33.35 2.90
707 849 1.227342 TGCAGCAACGCGAAATCAGA 61.227 50.000 15.93 0.00 33.35 3.27
708 850 0.519999 GCAGCAACGCGAAATCAGAG 60.520 55.000 15.93 0.00 0.00 3.35
709 851 0.519999 CAGCAACGCGAAATCAGAGC 60.520 55.000 15.93 4.41 0.00 4.09
714 856 3.786101 GCGAAATCAGAGCGCTCA 58.214 55.556 36.87 19.86 46.53 4.26
715 857 1.635281 GCGAAATCAGAGCGCTCAG 59.365 57.895 36.87 29.92 46.53 3.35
716 858 1.080995 GCGAAATCAGAGCGCTCAGT 61.081 55.000 36.87 20.22 46.53 3.41
717 859 1.354040 CGAAATCAGAGCGCTCAGTT 58.646 50.000 36.87 23.37 0.00 3.16
718 860 1.728971 CGAAATCAGAGCGCTCAGTTT 59.271 47.619 36.87 29.93 0.00 2.66
719 861 2.923655 CGAAATCAGAGCGCTCAGTTTA 59.076 45.455 36.87 15.67 0.00 2.01
720 862 3.241804 CGAAATCAGAGCGCTCAGTTTAC 60.242 47.826 36.87 21.87 0.00 2.01
721 863 3.319137 AATCAGAGCGCTCAGTTTACA 57.681 42.857 36.87 14.92 0.00 2.41
722 864 3.533606 ATCAGAGCGCTCAGTTTACAT 57.466 42.857 36.87 16.52 0.00 2.29
723 865 3.319137 TCAGAGCGCTCAGTTTACATT 57.681 42.857 36.87 12.20 0.00 2.71
724 866 3.254060 TCAGAGCGCTCAGTTTACATTC 58.746 45.455 36.87 8.51 0.00 2.67
725 867 3.056536 TCAGAGCGCTCAGTTTACATTCT 60.057 43.478 36.87 10.86 0.00 2.40
726 868 3.305629 CAGAGCGCTCAGTTTACATTCTC 59.694 47.826 36.87 7.82 0.00 2.87
727 869 3.194542 AGAGCGCTCAGTTTACATTCTCT 59.805 43.478 36.87 10.18 0.00 3.10
728 870 3.257393 AGCGCTCAGTTTACATTCTCTG 58.743 45.455 2.64 0.00 0.00 3.35
729 871 2.996621 GCGCTCAGTTTACATTCTCTGT 59.003 45.455 0.00 0.00 42.13 3.41
730 872 3.181526 GCGCTCAGTTTACATTCTCTGTG 60.182 47.826 0.00 0.00 38.92 3.66
731 873 3.369147 CGCTCAGTTTACATTCTCTGTGG 59.631 47.826 0.00 0.00 38.92 4.17
732 874 4.569943 GCTCAGTTTACATTCTCTGTGGA 58.430 43.478 0.00 0.00 38.92 4.02
733 875 5.181748 GCTCAGTTTACATTCTCTGTGGAT 58.818 41.667 0.00 0.00 38.92 3.41
734 876 5.645497 GCTCAGTTTACATTCTCTGTGGATT 59.355 40.000 0.00 0.00 38.92 3.01
735 877 6.183360 GCTCAGTTTACATTCTCTGTGGATTC 60.183 42.308 0.00 0.00 38.92 2.52
736 878 6.768483 TCAGTTTACATTCTCTGTGGATTCA 58.232 36.000 0.00 0.00 38.92 2.57
737 879 6.875726 TCAGTTTACATTCTCTGTGGATTCAG 59.124 38.462 0.00 0.00 38.92 3.02
738 880 6.652481 CAGTTTACATTCTCTGTGGATTCAGT 59.348 38.462 0.00 0.00 38.92 3.41
739 881 6.876257 AGTTTACATTCTCTGTGGATTCAGTC 59.124 38.462 0.00 0.00 38.92 3.51
740 882 4.897509 ACATTCTCTGTGGATTCAGTCA 57.102 40.909 0.00 0.00 36.48 3.41
741 883 4.829968 ACATTCTCTGTGGATTCAGTCAG 58.170 43.478 0.00 0.00 36.48 3.51
742 884 3.325293 TTCTCTGTGGATTCAGTCAGC 57.675 47.619 0.00 0.00 36.85 4.26
743 885 1.552337 TCTCTGTGGATTCAGTCAGCC 59.448 52.381 0.00 0.00 36.85 4.85
744 886 1.277273 CTCTGTGGATTCAGTCAGCCA 59.723 52.381 0.00 0.00 36.85 4.75
745 887 1.277273 TCTGTGGATTCAGTCAGCCAG 59.723 52.381 0.00 0.00 36.85 4.85
746 888 1.277273 CTGTGGATTCAGTCAGCCAGA 59.723 52.381 0.00 0.00 0.00 3.86
747 889 1.911357 TGTGGATTCAGTCAGCCAGAT 59.089 47.619 0.00 0.00 0.00 2.90
748 890 2.093288 TGTGGATTCAGTCAGCCAGATC 60.093 50.000 0.00 0.00 0.00 2.75
749 891 1.137675 TGGATTCAGTCAGCCAGATCG 59.862 52.381 0.00 0.00 0.00 3.69
750 892 1.410517 GGATTCAGTCAGCCAGATCGA 59.589 52.381 0.00 0.00 0.00 3.59
751 893 2.545532 GGATTCAGTCAGCCAGATCGAG 60.546 54.545 0.00 0.00 0.00 4.04
752 894 0.174389 TTCAGTCAGCCAGATCGAGC 59.826 55.000 0.00 0.00 0.00 5.03
753 895 0.682532 TCAGTCAGCCAGATCGAGCT 60.683 55.000 0.00 0.00 40.89 4.09
754 896 0.248990 CAGTCAGCCAGATCGAGCTC 60.249 60.000 0.00 2.73 37.18 4.09
755 897 1.067250 GTCAGCCAGATCGAGCTCC 59.933 63.158 8.47 0.00 37.18 4.70
756 898 1.076412 TCAGCCAGATCGAGCTCCT 60.076 57.895 8.47 0.00 37.18 3.69
757 899 1.067749 CAGCCAGATCGAGCTCCTG 59.932 63.158 8.47 6.85 37.18 3.86
759 901 2.430610 GCCAGATCGAGCTCCTGGT 61.431 63.158 27.93 6.72 46.86 4.00
760 902 1.739049 CCAGATCGAGCTCCTGGTC 59.261 63.158 22.64 10.68 41.81 4.02
761 903 0.754957 CCAGATCGAGCTCCTGGTCT 60.755 60.000 22.64 12.56 41.81 3.85
762 904 1.477740 CCAGATCGAGCTCCTGGTCTA 60.478 57.143 22.64 0.00 41.81 2.59
763 905 1.879380 CAGATCGAGCTCCTGGTCTAG 59.121 57.143 8.47 0.00 38.45 2.43
764 906 0.596082 GATCGAGCTCCTGGTCTAGC 59.404 60.000 8.47 0.00 38.45 3.42
770 912 1.751924 AGCTCCTGGTCTAGCTTTACG 59.248 52.381 2.72 0.00 46.82 3.18
771 913 1.477295 GCTCCTGGTCTAGCTTTACGT 59.523 52.381 0.00 0.00 35.80 3.57
772 914 2.735762 GCTCCTGGTCTAGCTTTACGTG 60.736 54.545 0.00 0.00 35.80 4.49
773 915 1.822990 TCCTGGTCTAGCTTTACGTGG 59.177 52.381 0.00 0.00 0.00 4.94
774 916 1.549170 CCTGGTCTAGCTTTACGTGGT 59.451 52.381 0.00 0.00 0.00 4.16
775 917 2.416972 CCTGGTCTAGCTTTACGTGGTC 60.417 54.545 0.00 0.00 0.00 4.02
776 918 2.492484 CTGGTCTAGCTTTACGTGGTCT 59.508 50.000 0.00 0.00 0.00 3.85
777 919 2.895404 TGGTCTAGCTTTACGTGGTCTT 59.105 45.455 0.00 0.00 0.00 3.01
778 920 3.322828 TGGTCTAGCTTTACGTGGTCTTT 59.677 43.478 0.00 0.00 0.00 2.52
779 921 3.925299 GGTCTAGCTTTACGTGGTCTTTC 59.075 47.826 0.00 0.00 0.00 2.62
780 922 3.925299 GTCTAGCTTTACGTGGTCTTTCC 59.075 47.826 0.00 0.00 0.00 3.13
781 923 3.830755 TCTAGCTTTACGTGGTCTTTCCT 59.169 43.478 0.00 0.00 37.07 3.36
782 924 5.012239 TCTAGCTTTACGTGGTCTTTCCTA 58.988 41.667 0.00 0.00 37.07 2.94
783 925 4.820894 AGCTTTACGTGGTCTTTCCTAT 57.179 40.909 0.00 0.00 37.07 2.57
784 926 5.927281 AGCTTTACGTGGTCTTTCCTATA 57.073 39.130 0.00 0.00 37.07 1.31
785 927 6.481434 AGCTTTACGTGGTCTTTCCTATAT 57.519 37.500 0.00 0.00 37.07 0.86
786 928 6.514063 AGCTTTACGTGGTCTTTCCTATATC 58.486 40.000 0.00 0.00 37.07 1.63
787 929 6.324254 AGCTTTACGTGGTCTTTCCTATATCT 59.676 38.462 0.00 0.00 37.07 1.98
788 930 6.985059 GCTTTACGTGGTCTTTCCTATATCTT 59.015 38.462 0.00 0.00 37.07 2.40
789 931 7.494952 GCTTTACGTGGTCTTTCCTATATCTTT 59.505 37.037 0.00 0.00 37.07 2.52
791 933 9.807649 TTTACGTGGTCTTTCCTATATCTTTAC 57.192 33.333 0.00 0.00 37.07 2.01
792 934 6.814043 ACGTGGTCTTTCCTATATCTTTACC 58.186 40.000 0.00 0.00 37.07 2.85
793 935 6.381994 ACGTGGTCTTTCCTATATCTTTACCA 59.618 38.462 0.00 0.00 37.07 3.25
794 936 6.924060 CGTGGTCTTTCCTATATCTTTACCAG 59.076 42.308 0.00 0.00 35.29 4.00
795 937 7.201884 CGTGGTCTTTCCTATATCTTTACCAGA 60.202 40.741 0.00 0.00 35.29 3.86
796 938 8.652290 GTGGTCTTTCCTATATCTTTACCAGAT 58.348 37.037 0.00 0.00 40.28 2.90
797 939 8.871125 TGGTCTTTCCTATATCTTTACCAGATC 58.129 37.037 0.00 0.00 38.98 2.75
798 940 8.030106 GGTCTTTCCTATATCTTTACCAGATCG 58.970 40.741 0.00 0.00 41.80 3.69
799 941 8.794553 GTCTTTCCTATATCTTTACCAGATCGA 58.205 37.037 0.00 0.00 41.80 3.59
800 942 9.015367 TCTTTCCTATATCTTTACCAGATCGAG 57.985 37.037 0.00 0.00 41.80 4.04
801 943 6.761099 TCCTATATCTTTACCAGATCGAGC 57.239 41.667 0.00 0.00 41.80 5.03
802 944 6.486056 TCCTATATCTTTACCAGATCGAGCT 58.514 40.000 0.00 0.00 41.80 4.09
803 945 6.600032 TCCTATATCTTTACCAGATCGAGCTC 59.400 42.308 0.00 2.73 41.80 4.09
804 946 6.375736 CCTATATCTTTACCAGATCGAGCTCA 59.624 42.308 15.40 1.08 41.80 4.26
805 947 6.849085 ATATCTTTACCAGATCGAGCTCAT 57.151 37.500 15.40 6.45 41.80 2.90
806 948 4.313277 TCTTTACCAGATCGAGCTCATG 57.687 45.455 15.40 6.40 0.00 3.07
807 949 3.701542 TCTTTACCAGATCGAGCTCATGT 59.298 43.478 15.40 0.87 0.00 3.21
808 950 4.160439 TCTTTACCAGATCGAGCTCATGTT 59.840 41.667 15.40 0.00 0.00 2.71
809 951 4.471904 TTACCAGATCGAGCTCATGTTT 57.528 40.909 15.40 0.00 0.00 2.83
810 952 3.340814 ACCAGATCGAGCTCATGTTTT 57.659 42.857 15.40 0.00 0.00 2.43
811 953 4.471904 ACCAGATCGAGCTCATGTTTTA 57.528 40.909 15.40 0.00 0.00 1.52
812 954 4.832248 ACCAGATCGAGCTCATGTTTTAA 58.168 39.130 15.40 0.00 0.00 1.52
813 955 4.872691 ACCAGATCGAGCTCATGTTTTAAG 59.127 41.667 15.40 0.00 0.00 1.85
814 956 5.111989 CCAGATCGAGCTCATGTTTTAAGA 58.888 41.667 15.40 0.00 0.00 2.10
815 957 5.582269 CCAGATCGAGCTCATGTTTTAAGAA 59.418 40.000 15.40 0.00 0.00 2.52
816 958 6.092670 CCAGATCGAGCTCATGTTTTAAGAAA 59.907 38.462 15.40 0.00 0.00 2.52
817 959 7.361201 CCAGATCGAGCTCATGTTTTAAGAAAA 60.361 37.037 15.40 0.00 0.00 2.29
818 960 7.691463 CAGATCGAGCTCATGTTTTAAGAAAAG 59.309 37.037 15.40 0.00 0.00 2.27
819 961 6.861065 TCGAGCTCATGTTTTAAGAAAAGT 57.139 33.333 15.40 0.00 0.00 2.66
820 962 7.956420 TCGAGCTCATGTTTTAAGAAAAGTA 57.044 32.000 15.40 0.00 0.00 2.24
821 963 8.373048 TCGAGCTCATGTTTTAAGAAAAGTAA 57.627 30.769 15.40 0.00 0.00 2.24
822 964 8.999431 TCGAGCTCATGTTTTAAGAAAAGTAAT 58.001 29.630 15.40 0.00 0.00 1.89
823 965 9.055248 CGAGCTCATGTTTTAAGAAAAGTAATG 57.945 33.333 15.40 0.00 0.00 1.90
852 994 9.442047 TCAGAAAAGATATGTTTCTCTCTTTCC 57.558 33.333 0.00 0.00 42.15 3.13
853 995 9.447157 CAGAAAAGATATGTTTCTCTCTTTCCT 57.553 33.333 0.00 0.00 42.15 3.36
863 1005 9.771534 ATGTTTCTCTCTTTCCTATATACAAGC 57.228 33.333 0.00 0.00 0.00 4.01
864 1006 8.758829 TGTTTCTCTCTTTCCTATATACAAGCA 58.241 33.333 0.00 0.00 0.00 3.91
865 1007 9.771534 GTTTCTCTCTTTCCTATATACAAGCAT 57.228 33.333 0.00 0.00 0.00 3.79
867 1009 9.988815 TTCTCTCTTTCCTATATACAAGCATTC 57.011 33.333 0.00 0.00 0.00 2.67
868 1010 9.373450 TCTCTCTTTCCTATATACAAGCATTCT 57.627 33.333 0.00 0.00 0.00 2.40
898 1040 8.978874 ATGTTTCTTTATATGTATGGTCTGCA 57.021 30.769 0.00 0.00 0.00 4.41
899 1041 8.208718 TGTTTCTTTATATGTATGGTCTGCAC 57.791 34.615 0.00 0.00 0.00 4.57
900 1042 8.046708 TGTTTCTTTATATGTATGGTCTGCACT 58.953 33.333 0.00 0.00 0.00 4.40
901 1043 9.542462 GTTTCTTTATATGTATGGTCTGCACTA 57.458 33.333 0.00 0.00 0.00 2.74
902 1044 9.764363 TTTCTTTATATGTATGGTCTGCACTAG 57.236 33.333 0.00 0.00 0.00 2.57
903 1045 8.706322 TCTTTATATGTATGGTCTGCACTAGA 57.294 34.615 0.00 0.00 0.00 2.43
904 1046 9.143155 TCTTTATATGTATGGTCTGCACTAGAA 57.857 33.333 0.00 0.00 37.12 2.10
905 1047 9.764363 CTTTATATGTATGGTCTGCACTAGAAA 57.236 33.333 0.00 0.00 37.12 2.52
908 1050 6.932356 ATGTATGGTCTGCACTAGAAATTG 57.068 37.500 0.00 0.00 37.12 2.32
909 1051 5.804639 TGTATGGTCTGCACTAGAAATTGT 58.195 37.500 0.00 0.00 37.12 2.71
910 1052 6.237901 TGTATGGTCTGCACTAGAAATTGTT 58.762 36.000 0.00 0.00 37.12 2.83
911 1053 6.714810 TGTATGGTCTGCACTAGAAATTGTTT 59.285 34.615 0.00 0.00 37.12 2.83
912 1054 7.880713 TGTATGGTCTGCACTAGAAATTGTTTA 59.119 33.333 0.00 0.00 37.12 2.01
913 1055 7.944729 ATGGTCTGCACTAGAAATTGTTTAT 57.055 32.000 0.00 0.00 37.12 1.40
914 1056 7.759489 TGGTCTGCACTAGAAATTGTTTATT 57.241 32.000 0.00 0.00 37.12 1.40
915 1057 8.177119 TGGTCTGCACTAGAAATTGTTTATTT 57.823 30.769 0.00 0.00 39.15 1.40
916 1058 8.081633 TGGTCTGCACTAGAAATTGTTTATTTG 58.918 33.333 0.00 0.00 36.59 2.32
917 1059 8.082242 GGTCTGCACTAGAAATTGTTTATTTGT 58.918 33.333 0.00 0.00 36.59 2.83
918 1060 9.463443 GTCTGCACTAGAAATTGTTTATTTGTT 57.537 29.630 0.00 0.00 36.59 2.83
2859 3536 6.340522 CAGGGAAAAGTTGTTCAAAACATCT 58.659 36.000 0.00 0.00 41.80 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
240 244 4.285775 TCCCCCAAAATTGATCAGTTTTCC 59.714 41.667 21.96 0.00 29.48 3.13
441 448 0.830444 ACCGGACCTCAAGTGCTACA 60.830 55.000 9.46 0.00 33.95 2.74
585 727 3.130693 ACACTTCTGCTTCGGTATACCTC 59.869 47.826 19.68 6.83 0.00 3.85
586 728 3.097614 ACACTTCTGCTTCGGTATACCT 58.902 45.455 19.68 0.00 0.00 3.08
587 729 3.521947 ACACTTCTGCTTCGGTATACC 57.478 47.619 12.27 12.27 0.00 2.73
588 730 7.399523 CAAAATACACTTCTGCTTCGGTATAC 58.600 38.462 0.00 0.00 0.00 1.47
589 731 6.036735 GCAAAATACACTTCTGCTTCGGTATA 59.963 38.462 0.00 0.00 0.00 1.47
590 732 5.163754 GCAAAATACACTTCTGCTTCGGTAT 60.164 40.000 0.00 0.00 0.00 2.73
591 733 4.153475 GCAAAATACACTTCTGCTTCGGTA 59.847 41.667 0.00 0.00 0.00 4.02
592 734 3.058224 GCAAAATACACTTCTGCTTCGGT 60.058 43.478 0.00 0.00 0.00 4.69
593 735 3.058293 TGCAAAATACACTTCTGCTTCGG 60.058 43.478 0.00 0.00 34.10 4.30
594 736 4.145876 TGCAAAATACACTTCTGCTTCG 57.854 40.909 0.00 0.00 34.10 3.79
614 756 5.648960 TGGCTGGTCAACATGCATATATATG 59.351 40.000 17.01 17.01 36.78 1.78
615 757 5.818887 TGGCTGGTCAACATGCATATATAT 58.181 37.500 0.00 0.00 0.00 0.86
616 758 5.240013 TGGCTGGTCAACATGCATATATA 57.760 39.130 0.00 0.00 0.00 0.86
617 759 4.103013 TGGCTGGTCAACATGCATATAT 57.897 40.909 0.00 0.00 0.00 0.86
618 760 3.574354 TGGCTGGTCAACATGCATATA 57.426 42.857 0.00 0.00 0.00 0.86
619 761 2.440517 TGGCTGGTCAACATGCATAT 57.559 45.000 0.00 0.00 0.00 1.78
620 762 2.212812 TTGGCTGGTCAACATGCATA 57.787 45.000 0.00 0.00 0.00 3.14
621 763 1.001181 GTTTGGCTGGTCAACATGCAT 59.999 47.619 0.00 0.00 0.00 3.96
622 764 0.388659 GTTTGGCTGGTCAACATGCA 59.611 50.000 0.00 0.00 0.00 3.96
623 765 0.319813 GGTTTGGCTGGTCAACATGC 60.320 55.000 0.00 0.00 0.00 4.06
624 766 1.039068 TGGTTTGGCTGGTCAACATG 58.961 50.000 0.00 0.00 0.00 3.21
625 767 1.412343 GTTGGTTTGGCTGGTCAACAT 59.588 47.619 0.00 0.00 38.00 2.71
626 768 0.820871 GTTGGTTTGGCTGGTCAACA 59.179 50.000 0.00 0.00 38.00 3.33
627 769 0.104120 GGTTGGTTTGGCTGGTCAAC 59.896 55.000 0.00 0.00 37.54 3.18
628 770 1.045911 GGGTTGGTTTGGCTGGTCAA 61.046 55.000 0.00 0.00 0.00 3.18
629 771 1.456705 GGGTTGGTTTGGCTGGTCA 60.457 57.895 0.00 0.00 0.00 4.02
630 772 1.456705 TGGGTTGGTTTGGCTGGTC 60.457 57.895 0.00 0.00 0.00 4.02
631 773 1.457455 CTGGGTTGGTTTGGCTGGT 60.457 57.895 0.00 0.00 0.00 4.00
632 774 2.871253 GCTGGGTTGGTTTGGCTGG 61.871 63.158 0.00 0.00 0.00 4.85
633 775 2.736531 GCTGGGTTGGTTTGGCTG 59.263 61.111 0.00 0.00 0.00 4.85
634 776 2.912025 CGCTGGGTTGGTTTGGCT 60.912 61.111 0.00 0.00 0.00 4.75
635 777 4.662961 GCGCTGGGTTGGTTTGGC 62.663 66.667 0.00 0.00 0.00 4.52
636 778 3.222855 TGCGCTGGGTTGGTTTGG 61.223 61.111 9.73 0.00 0.00 3.28
637 779 2.027460 GTGCGCTGGGTTGGTTTG 59.973 61.111 9.73 0.00 0.00 2.93
638 780 3.591835 CGTGCGCTGGGTTGGTTT 61.592 61.111 9.73 0.00 0.00 3.27
639 781 4.868116 ACGTGCGCTGGGTTGGTT 62.868 61.111 9.73 0.00 0.00 3.67
640 782 4.868116 AACGTGCGCTGGGTTGGT 62.868 61.111 9.73 0.00 0.00 3.67
641 783 4.025401 GAACGTGCGCTGGGTTGG 62.025 66.667 9.73 0.00 0.00 3.77
642 784 4.368808 CGAACGTGCGCTGGGTTG 62.369 66.667 9.73 0.00 0.00 3.77
651 793 2.742372 ATGGTGAGCCGAACGTGC 60.742 61.111 0.00 0.00 37.67 5.34
652 794 1.626654 GACATGGTGAGCCGAACGTG 61.627 60.000 0.00 0.00 37.67 4.49
653 795 1.374252 GACATGGTGAGCCGAACGT 60.374 57.895 0.00 0.00 37.67 3.99
654 796 1.374125 TGACATGGTGAGCCGAACG 60.374 57.895 0.00 0.00 37.67 3.95
655 797 1.626654 CGTGACATGGTGAGCCGAAC 61.627 60.000 0.00 0.00 37.67 3.95
656 798 1.374125 CGTGACATGGTGAGCCGAA 60.374 57.895 0.00 0.00 37.67 4.30
657 799 2.261361 CGTGACATGGTGAGCCGA 59.739 61.111 0.00 0.00 37.67 5.54
658 800 3.490759 GCGTGACATGGTGAGCCG 61.491 66.667 0.00 0.00 37.67 5.52
659 801 1.746615 ATGCGTGACATGGTGAGCC 60.747 57.895 0.00 0.00 37.70 4.70
660 802 3.895025 ATGCGTGACATGGTGAGC 58.105 55.556 0.00 0.00 37.70 4.26
667 809 2.819595 GGACGGCATGCGTGACAT 60.820 61.111 13.36 0.00 40.66 3.06
685 827 3.615536 ATTTCGCGTTGCTGCAGGC 62.616 57.895 17.12 15.18 42.22 4.85
686 828 1.512734 GATTTCGCGTTGCTGCAGG 60.513 57.895 17.12 0.00 34.15 4.85
687 829 0.791983 CTGATTTCGCGTTGCTGCAG 60.792 55.000 10.11 10.11 34.15 4.41
688 830 1.207339 CTGATTTCGCGTTGCTGCA 59.793 52.632 5.77 0.00 34.15 4.41
689 831 0.519999 CTCTGATTTCGCGTTGCTGC 60.520 55.000 5.77 0.00 0.00 5.25
690 832 0.519999 GCTCTGATTTCGCGTTGCTG 60.520 55.000 5.77 0.00 0.00 4.41
691 833 1.790387 GCTCTGATTTCGCGTTGCT 59.210 52.632 5.77 0.00 0.00 3.91
692 834 1.578618 CGCTCTGATTTCGCGTTGC 60.579 57.895 5.77 0.00 41.78 4.17
693 835 4.632288 CGCTCTGATTTCGCGTTG 57.368 55.556 5.77 0.00 41.78 4.10
698 840 1.354040 AACTGAGCGCTCTGATTTCG 58.646 50.000 40.05 21.02 33.48 3.46
699 841 3.679980 TGTAAACTGAGCGCTCTGATTTC 59.320 43.478 40.05 31.89 33.48 2.17
700 842 3.664107 TGTAAACTGAGCGCTCTGATTT 58.336 40.909 40.05 33.34 33.48 2.17
701 843 3.319137 TGTAAACTGAGCGCTCTGATT 57.681 42.857 40.05 35.53 33.48 2.57
702 844 3.533606 ATGTAAACTGAGCGCTCTGAT 57.466 42.857 40.05 30.24 33.48 2.90
703 845 3.056536 AGAATGTAAACTGAGCGCTCTGA 60.057 43.478 40.05 23.62 33.48 3.27
704 846 3.257393 AGAATGTAAACTGAGCGCTCTG 58.743 45.455 34.34 34.34 35.10 3.35
705 847 3.194542 AGAGAATGTAAACTGAGCGCTCT 59.805 43.478 35.27 19.52 0.00 4.09
706 848 3.305629 CAGAGAATGTAAACTGAGCGCTC 59.694 47.826 30.42 30.42 32.90 5.03
707 849 3.257393 CAGAGAATGTAAACTGAGCGCT 58.743 45.455 11.27 11.27 32.90 5.92
708 850 2.996621 ACAGAGAATGTAAACTGAGCGC 59.003 45.455 0.00 0.00 41.60 5.92
709 851 3.369147 CCACAGAGAATGTAAACTGAGCG 59.631 47.826 0.00 0.00 41.41 5.03
710 852 4.569943 TCCACAGAGAATGTAAACTGAGC 58.430 43.478 0.00 0.00 41.41 4.26
711 853 6.875726 TGAATCCACAGAGAATGTAAACTGAG 59.124 38.462 0.00 0.00 41.41 3.35
712 854 6.768483 TGAATCCACAGAGAATGTAAACTGA 58.232 36.000 0.00 0.00 41.41 3.41
713 855 6.652481 ACTGAATCCACAGAGAATGTAAACTG 59.348 38.462 0.00 0.00 41.41 3.16
714 856 6.773638 ACTGAATCCACAGAGAATGTAAACT 58.226 36.000 0.00 0.00 41.41 2.66
715 857 6.650807 TGACTGAATCCACAGAGAATGTAAAC 59.349 38.462 0.00 0.00 41.41 2.01
716 858 6.768483 TGACTGAATCCACAGAGAATGTAAA 58.232 36.000 0.00 0.00 41.41 2.01
717 859 6.358974 TGACTGAATCCACAGAGAATGTAA 57.641 37.500 0.00 0.00 41.41 2.41
718 860 5.625426 GCTGACTGAATCCACAGAGAATGTA 60.625 44.000 0.00 0.00 41.41 2.29
719 861 4.829968 CTGACTGAATCCACAGAGAATGT 58.170 43.478 0.00 0.00 45.43 2.71
720 862 3.622163 GCTGACTGAATCCACAGAGAATG 59.378 47.826 0.00 0.00 40.63 2.67
721 863 3.370315 GGCTGACTGAATCCACAGAGAAT 60.370 47.826 0.00 0.00 40.63 2.40
722 864 2.027745 GGCTGACTGAATCCACAGAGAA 60.028 50.000 0.00 0.00 40.63 2.87
723 865 1.552337 GGCTGACTGAATCCACAGAGA 59.448 52.381 0.00 0.00 40.63 3.10
724 866 1.277273 TGGCTGACTGAATCCACAGAG 59.723 52.381 0.00 0.00 40.63 3.35
725 867 1.277273 CTGGCTGACTGAATCCACAGA 59.723 52.381 0.00 0.00 40.63 3.41
726 868 1.277273 TCTGGCTGACTGAATCCACAG 59.723 52.381 0.00 0.00 42.78 3.66
727 869 1.351076 TCTGGCTGACTGAATCCACA 58.649 50.000 0.00 0.00 0.00 4.17
728 870 2.559440 GATCTGGCTGACTGAATCCAC 58.441 52.381 0.00 0.00 0.00 4.02
729 871 1.137675 CGATCTGGCTGACTGAATCCA 59.862 52.381 0.00 0.00 0.00 3.41
730 872 1.410517 TCGATCTGGCTGACTGAATCC 59.589 52.381 0.00 0.00 0.00 3.01
731 873 2.741612 CTCGATCTGGCTGACTGAATC 58.258 52.381 0.00 0.00 0.00 2.52
732 874 1.202510 GCTCGATCTGGCTGACTGAAT 60.203 52.381 0.00 0.00 0.00 2.57
733 875 0.174389 GCTCGATCTGGCTGACTGAA 59.826 55.000 0.00 0.00 0.00 3.02
734 876 0.682532 AGCTCGATCTGGCTGACTGA 60.683 55.000 8.20 0.00 37.41 3.41
735 877 0.248990 GAGCTCGATCTGGCTGACTG 60.249 60.000 12.81 0.00 39.05 3.51
736 878 1.391157 GGAGCTCGATCTGGCTGACT 61.391 60.000 7.83 0.00 39.05 3.41
737 879 1.067250 GGAGCTCGATCTGGCTGAC 59.933 63.158 7.83 3.99 39.05 3.51
738 880 1.076412 AGGAGCTCGATCTGGCTGA 60.076 57.895 7.83 0.00 39.05 4.26
739 881 1.067749 CAGGAGCTCGATCTGGCTG 59.932 63.158 7.83 3.55 39.05 4.85
740 882 2.132996 CCAGGAGCTCGATCTGGCT 61.133 63.158 20.34 8.66 41.12 4.75
741 883 2.420890 CCAGGAGCTCGATCTGGC 59.579 66.667 20.34 0.65 41.12 4.85
743 885 1.879380 CTAGACCAGGAGCTCGATCTG 59.121 57.143 7.83 9.45 0.00 2.90
744 886 1.817740 GCTAGACCAGGAGCTCGATCT 60.818 57.143 7.83 9.87 35.73 2.75
745 887 0.596082 GCTAGACCAGGAGCTCGATC 59.404 60.000 7.83 2.41 35.73 3.69
746 888 0.184933 AGCTAGACCAGGAGCTCGAT 59.815 55.000 7.83 0.00 46.08 3.59
747 889 1.610327 AGCTAGACCAGGAGCTCGA 59.390 57.895 7.83 0.00 46.08 4.04
748 890 4.251246 AGCTAGACCAGGAGCTCG 57.749 61.111 7.83 0.00 46.08 5.03
751 893 1.477295 ACGTAAAGCTAGACCAGGAGC 59.523 52.381 0.00 0.00 39.08 4.70
752 894 2.159226 CCACGTAAAGCTAGACCAGGAG 60.159 54.545 0.00 0.00 0.00 3.69
753 895 1.822990 CCACGTAAAGCTAGACCAGGA 59.177 52.381 0.00 0.00 0.00 3.86
754 896 1.549170 ACCACGTAAAGCTAGACCAGG 59.451 52.381 0.00 0.00 0.00 4.45
755 897 2.492484 AGACCACGTAAAGCTAGACCAG 59.508 50.000 0.00 0.00 0.00 4.00
756 898 2.522185 AGACCACGTAAAGCTAGACCA 58.478 47.619 0.00 0.00 0.00 4.02
757 899 3.589495 AAGACCACGTAAAGCTAGACC 57.411 47.619 0.00 0.00 0.00 3.85
758 900 3.925299 GGAAAGACCACGTAAAGCTAGAC 59.075 47.826 0.00 0.00 38.79 2.59
759 901 3.830755 AGGAAAGACCACGTAAAGCTAGA 59.169 43.478 0.00 0.00 42.04 2.43
760 902 4.189639 AGGAAAGACCACGTAAAGCTAG 57.810 45.455 0.00 0.00 42.04 3.42
761 903 5.927281 ATAGGAAAGACCACGTAAAGCTA 57.073 39.130 0.00 0.00 42.04 3.32
762 904 4.820894 ATAGGAAAGACCACGTAAAGCT 57.179 40.909 0.00 0.00 42.04 3.74
763 905 6.514063 AGATATAGGAAAGACCACGTAAAGC 58.486 40.000 0.00 0.00 42.04 3.51
764 906 8.943909 AAAGATATAGGAAAGACCACGTAAAG 57.056 34.615 0.00 0.00 42.04 1.85
765 907 9.807649 GTAAAGATATAGGAAAGACCACGTAAA 57.192 33.333 0.00 0.00 42.04 2.01
766 908 8.416329 GGTAAAGATATAGGAAAGACCACGTAA 58.584 37.037 0.00 0.00 42.04 3.18
767 909 7.560991 TGGTAAAGATATAGGAAAGACCACGTA 59.439 37.037 0.00 0.00 42.04 3.57
768 910 6.381994 TGGTAAAGATATAGGAAAGACCACGT 59.618 38.462 0.00 0.00 42.04 4.49
769 911 6.812998 TGGTAAAGATATAGGAAAGACCACG 58.187 40.000 0.00 0.00 42.04 4.94
770 912 8.019656 TCTGGTAAAGATATAGGAAAGACCAC 57.980 38.462 0.00 0.00 42.04 4.16
771 913 8.798975 ATCTGGTAAAGATATAGGAAAGACCA 57.201 34.615 0.00 0.00 44.22 4.02
772 914 8.030106 CGATCTGGTAAAGATATAGGAAAGACC 58.970 40.741 0.00 0.00 46.12 3.85
773 915 8.794553 TCGATCTGGTAAAGATATAGGAAAGAC 58.205 37.037 0.00 0.00 46.12 3.01
774 916 8.935614 TCGATCTGGTAAAGATATAGGAAAGA 57.064 34.615 0.00 0.00 46.12 2.52
775 917 7.757624 GCTCGATCTGGTAAAGATATAGGAAAG 59.242 40.741 0.00 0.00 46.12 2.62
776 918 7.451877 AGCTCGATCTGGTAAAGATATAGGAAA 59.548 37.037 0.00 0.00 46.12 3.13
777 919 6.948886 AGCTCGATCTGGTAAAGATATAGGAA 59.051 38.462 0.00 0.00 46.12 3.36
778 920 6.486056 AGCTCGATCTGGTAAAGATATAGGA 58.514 40.000 0.00 0.00 46.12 2.94
779 921 6.375736 TGAGCTCGATCTGGTAAAGATATAGG 59.624 42.308 9.64 0.00 46.12 2.57
780 922 7.384439 TGAGCTCGATCTGGTAAAGATATAG 57.616 40.000 9.64 0.00 46.12 1.31
781 923 7.394641 ACATGAGCTCGATCTGGTAAAGATATA 59.605 37.037 9.64 0.00 46.12 0.86
782 924 6.210385 ACATGAGCTCGATCTGGTAAAGATAT 59.790 38.462 9.64 0.00 46.12 1.63
783 925 5.536538 ACATGAGCTCGATCTGGTAAAGATA 59.463 40.000 9.64 0.00 46.12 1.98
785 927 3.701542 ACATGAGCTCGATCTGGTAAAGA 59.298 43.478 9.64 0.00 39.94 2.52
786 928 4.052159 ACATGAGCTCGATCTGGTAAAG 57.948 45.455 9.64 0.00 0.00 1.85
787 929 4.471904 AACATGAGCTCGATCTGGTAAA 57.528 40.909 9.64 0.00 0.00 2.01
788 930 4.471904 AAACATGAGCTCGATCTGGTAA 57.528 40.909 9.64 0.00 0.00 2.85
789 931 4.471904 AAAACATGAGCTCGATCTGGTA 57.528 40.909 9.64 0.00 0.00 3.25
790 932 3.340814 AAAACATGAGCTCGATCTGGT 57.659 42.857 9.64 0.00 0.00 4.00
791 933 5.111989 TCTTAAAACATGAGCTCGATCTGG 58.888 41.667 9.64 0.00 0.00 3.86
792 934 6.653273 TTCTTAAAACATGAGCTCGATCTG 57.347 37.500 9.64 6.55 0.00 2.90
793 935 7.389053 ACTTTTCTTAAAACATGAGCTCGATCT 59.611 33.333 9.64 0.00 0.00 2.75
794 936 7.522374 ACTTTTCTTAAAACATGAGCTCGATC 58.478 34.615 9.64 0.00 0.00 3.69
795 937 7.440523 ACTTTTCTTAAAACATGAGCTCGAT 57.559 32.000 9.64 0.90 0.00 3.59
796 938 6.861065 ACTTTTCTTAAAACATGAGCTCGA 57.139 33.333 9.64 0.00 0.00 4.04
797 939 9.055248 CATTACTTTTCTTAAAACATGAGCTCG 57.945 33.333 9.64 0.00 0.00 5.03
826 968 9.442047 GGAAAGAGAGAAACATATCTTTTCTGA 57.558 33.333 11.86 0.00 42.21 3.27
827 969 9.447157 AGGAAAGAGAGAAACATATCTTTTCTG 57.553 33.333 11.86 0.00 43.04 3.02
837 979 9.771534 GCTTGTATATAGGAAAGAGAGAAACAT 57.228 33.333 4.63 0.00 0.00 2.71
838 980 8.758829 TGCTTGTATATAGGAAAGAGAGAAACA 58.241 33.333 4.63 0.00 0.00 2.83
839 981 9.771534 ATGCTTGTATATAGGAAAGAGAGAAAC 57.228 33.333 4.63 0.00 0.00 2.78
841 983 9.988815 GAATGCTTGTATATAGGAAAGAGAGAA 57.011 33.333 4.63 0.00 0.00 2.87
842 984 9.373450 AGAATGCTTGTATATAGGAAAGAGAGA 57.627 33.333 4.63 0.00 0.00 3.10
873 1015 8.840321 GTGCAGACCATACATATAAAGAAACAT 58.160 33.333 0.00 0.00 0.00 2.71
874 1016 8.046708 AGTGCAGACCATACATATAAAGAAACA 58.953 33.333 0.00 0.00 0.00 2.83
875 1017 8.438676 AGTGCAGACCATACATATAAAGAAAC 57.561 34.615 0.00 0.00 0.00 2.78
876 1018 9.764363 CTAGTGCAGACCATACATATAAAGAAA 57.236 33.333 0.00 0.00 0.00 2.52
877 1019 9.143155 TCTAGTGCAGACCATACATATAAAGAA 57.857 33.333 0.00 0.00 0.00 2.52
878 1020 8.706322 TCTAGTGCAGACCATACATATAAAGA 57.294 34.615 0.00 0.00 0.00 2.52
879 1021 9.764363 TTTCTAGTGCAGACCATACATATAAAG 57.236 33.333 0.00 0.00 31.12 1.85
882 1024 9.710900 CAATTTCTAGTGCAGACCATACATATA 57.289 33.333 0.00 0.00 31.12 0.86
883 1025 8.213679 ACAATTTCTAGTGCAGACCATACATAT 58.786 33.333 0.00 0.00 31.12 1.78
884 1026 7.564793 ACAATTTCTAGTGCAGACCATACATA 58.435 34.615 0.00 0.00 31.12 2.29
885 1027 6.418101 ACAATTTCTAGTGCAGACCATACAT 58.582 36.000 0.00 0.00 31.12 2.29
886 1028 5.804639 ACAATTTCTAGTGCAGACCATACA 58.195 37.500 0.00 0.00 31.12 2.29
887 1029 6.743575 AACAATTTCTAGTGCAGACCATAC 57.256 37.500 0.00 0.00 31.12 2.39
888 1030 9.461312 AATAAACAATTTCTAGTGCAGACCATA 57.539 29.630 0.00 0.00 31.12 2.74
889 1031 7.944729 ATAAACAATTTCTAGTGCAGACCAT 57.055 32.000 0.00 0.00 31.12 3.55
890 1032 7.759489 AATAAACAATTTCTAGTGCAGACCA 57.241 32.000 0.00 0.00 31.12 4.02
891 1033 8.082242 ACAAATAAACAATTTCTAGTGCAGACC 58.918 33.333 0.00 0.00 35.54 3.85
892 1034 9.463443 AACAAATAAACAATTTCTAGTGCAGAC 57.537 29.630 0.00 0.00 35.54 3.51
918 1060 9.442047 CAGGGTTGCCAAATACATATTTTAAAA 57.558 29.630 2.51 2.51 33.88 1.52
919 1061 8.598041 ACAGGGTTGCCAAATACATATTTTAAA 58.402 29.630 0.00 0.00 33.88 1.52
920 1062 8.037758 CACAGGGTTGCCAAATACATATTTTAA 58.962 33.333 0.00 0.00 33.88 1.52
921 1063 7.551585 CACAGGGTTGCCAAATACATATTTTA 58.448 34.615 0.00 0.00 33.88 1.52
922 1064 6.405538 CACAGGGTTGCCAAATACATATTTT 58.594 36.000 0.00 0.00 33.88 1.82
1025 1167 4.148825 CGAGTGCGGGGAAGGAGG 62.149 72.222 0.00 0.00 0.00 4.30
1703 1913 0.106894 GAGGAATGACCGGACCATCC 59.893 60.000 9.46 12.78 44.74 3.51
2859 3536 6.796426 TGTTGTTCACACAAAAATTATCGGA 58.204 32.000 0.00 0.00 44.72 4.55


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

AutoCloner maintained by Alex Coulton.