Multiple sequence alignment - TraesCS7B01G017200

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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 TraesCS7B01G017200 chr7B 100.000 2678 0 0 1 2678 14899243 14901920 0.000000e+00 4946
1 TraesCS7B01G017200 chr7B 94.844 640 28 4 1 637 735295306 735294669 0.000000e+00 994
2 TraesCS7B01G017200 chr7B 83.906 553 62 14 1793 2319 14911350 14911901 1.110000e-138 503
3 TraesCS7B01G017200 chr7B 84.644 534 41 17 1792 2298 14876837 14876318 6.660000e-136 494
4 TraesCS7B01G017200 chr7B 89.610 308 31 1 1992 2298 14894610 14894303 8.990000e-105 390
5 TraesCS7B01G017200 chr7B 91.083 157 10 4 637 789 14876723 14876879 2.700000e-50 209
6 TraesCS7B01G017200 chr1A 99.523 839 4 0 888 1726 452051904 452052742 0.000000e+00 1528
7 TraesCS7B01G017200 chr5A 99.264 815 6 0 912 1726 579411633 579412447 0.000000e+00 1472
8 TraesCS7B01G017200 chr5A 91.185 658 36 10 1 636 539015684 539016341 0.000000e+00 874
9 TraesCS7B01G017200 chr3B 100.000 763 0 0 971 1733 229460824 229461586 0.000000e+00 1410
10 TraesCS7B01G017200 chr3B 93.011 787 54 1 937 1723 358899348 358898563 0.000000e+00 1147
11 TraesCS7B01G017200 chr3B 88.785 642 58 11 1 636 810697989 810698622 0.000000e+00 774
12 TraesCS7B01G017200 chr3A 95.918 637 25 1 1 636 18136606 18135970 0.000000e+00 1031
13 TraesCS7B01G017200 chr3A 88.038 209 14 3 428 636 18141223 18141026 1.240000e-58 237
14 TraesCS7B01G017200 chr1D 95.440 636 18 4 1 636 391721928 391722552 0.000000e+00 1003
15 TraesCS7B01G017200 chr6D 97.059 578 13 2 1155 1729 313026683 313026107 0.000000e+00 970
16 TraesCS7B01G017200 chr6D 85.299 619 63 11 906 1521 470390124 470390717 4.900000e-172 614
17 TraesCS7B01G017200 chr4D 94.201 638 33 3 1 636 480982282 480981647 0.000000e+00 970
18 TraesCS7B01G017200 chr6A 91.036 647 48 9 1 642 14398941 14399582 0.000000e+00 865
19 TraesCS7B01G017200 chr7D 91.297 632 41 8 1763 2385 72122060 72122686 0.000000e+00 850
20 TraesCS7B01G017200 chr7D 85.679 803 51 33 1731 2487 73123594 73122810 0.000000e+00 787
21 TraesCS7B01G017200 chr7D 88.631 431 36 7 1868 2291 73127645 73128069 1.840000e-141 512
22 TraesCS7B01G017200 chr7D 83.684 570 56 19 1777 2319 73123742 73124301 1.110000e-138 503
23 TraesCS7B01G017200 chr7D 87.500 224 16 6 663 877 73123844 73123624 5.720000e-62 248
24 TraesCS7B01G017200 chr7D 86.034 179 18 6 654 826 72116776 72116953 4.550000e-43 185
25 TraesCS7B01G017200 chr7D 92.035 113 8 1 2372 2484 72126034 72126145 9.920000e-35 158
26 TraesCS7B01G017200 chr4B 89.548 641 58 6 1 636 624468224 624467588 0.000000e+00 804
27 TraesCS7B01G017200 chr4A 89.252 642 56 10 1 636 704616949 704617583 0.000000e+00 791
28 TraesCS7B01G017200 chr3D 77.619 840 157 24 896 1724 191561391 191562210 5.190000e-132 481
29 TraesCS7B01G017200 chrUn 81.288 652 66 33 1777 2381 311408403 311407761 6.710000e-131 477
30 TraesCS7B01G017200 chrUn 81.288 652 66 33 1777 2381 330651585 330650943 6.710000e-131 477
31 TraesCS7B01G017200 chrUn 81.288 652 66 35 1777 2381 338769678 338769036 6.710000e-131 477
32 TraesCS7B01G017200 chrUn 78.772 749 88 38 1792 2487 82610830 82610100 1.140000e-118 436
33 TraesCS7B01G017200 chrUn 93.548 124 2 4 637 754 82616480 82616603 2.120000e-41 180
34 TraesCS7B01G017200 chrUn 91.379 116 9 1 2372 2487 273473323 273473209 9.920000e-35 158
35 TraesCS7B01G017200 chr7A 81.288 652 66 35 1777 2381 77087017 77086375 6.710000e-131 477


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 TraesCS7B01G017200 chr7B 14899243 14901920 2677 False 4946.0 4946 100.0000 1 2678 1 chr7B.!!$F2 2677
1 TraesCS7B01G017200 chr7B 735294669 735295306 637 True 994.0 994 94.8440 1 637 1 chr7B.!!$R3 636
2 TraesCS7B01G017200 chr7B 14911350 14911901 551 False 503.0 503 83.9060 1793 2319 1 chr7B.!!$F3 526
3 TraesCS7B01G017200 chr7B 14876318 14876837 519 True 494.0 494 84.6440 1792 2298 1 chr7B.!!$R1 506
4 TraesCS7B01G017200 chr1A 452051904 452052742 838 False 1528.0 1528 99.5230 888 1726 1 chr1A.!!$F1 838
5 TraesCS7B01G017200 chr5A 579411633 579412447 814 False 1472.0 1472 99.2640 912 1726 1 chr5A.!!$F2 814
6 TraesCS7B01G017200 chr5A 539015684 539016341 657 False 874.0 874 91.1850 1 636 1 chr5A.!!$F1 635
7 TraesCS7B01G017200 chr3B 229460824 229461586 762 False 1410.0 1410 100.0000 971 1733 1 chr3B.!!$F1 762
8 TraesCS7B01G017200 chr3B 358898563 358899348 785 True 1147.0 1147 93.0110 937 1723 1 chr3B.!!$R1 786
9 TraesCS7B01G017200 chr3B 810697989 810698622 633 False 774.0 774 88.7850 1 636 1 chr3B.!!$F2 635
10 TraesCS7B01G017200 chr3A 18135970 18136606 636 True 1031.0 1031 95.9180 1 636 1 chr3A.!!$R1 635
11 TraesCS7B01G017200 chr1D 391721928 391722552 624 False 1003.0 1003 95.4400 1 636 1 chr1D.!!$F1 635
12 TraesCS7B01G017200 chr6D 313026107 313026683 576 True 970.0 970 97.0590 1155 1729 1 chr6D.!!$R1 574
13 TraesCS7B01G017200 chr6D 470390124 470390717 593 False 614.0 614 85.2990 906 1521 1 chr6D.!!$F1 615
14 TraesCS7B01G017200 chr4D 480981647 480982282 635 True 970.0 970 94.2010 1 636 1 chr4D.!!$R1 635
15 TraesCS7B01G017200 chr6A 14398941 14399582 641 False 865.0 865 91.0360 1 642 1 chr6A.!!$F1 641
16 TraesCS7B01G017200 chr7D 73122810 73123844 1034 True 517.5 787 86.5895 663 2487 2 chr7D.!!$R1 1824
17 TraesCS7B01G017200 chr7D 73123742 73128069 4327 False 507.5 512 86.1575 1777 2319 2 chr7D.!!$F3 542
18 TraesCS7B01G017200 chr7D 72122060 72126145 4085 False 504.0 850 91.6660 1763 2484 2 chr7D.!!$F2 721
19 TraesCS7B01G017200 chr4B 624467588 624468224 636 True 804.0 804 89.5480 1 636 1 chr4B.!!$R1 635
20 TraesCS7B01G017200 chr4A 704616949 704617583 634 False 791.0 791 89.2520 1 636 1 chr4A.!!$F1 635
21 TraesCS7B01G017200 chr3D 191561391 191562210 819 False 481.0 481 77.6190 896 1724 1 chr3D.!!$F1 828
22 TraesCS7B01G017200 chrUn 311407761 311408403 642 True 477.0 477 81.2880 1777 2381 1 chrUn.!!$R3 604
23 TraesCS7B01G017200 chrUn 330650943 330651585 642 True 477.0 477 81.2880 1777 2381 1 chrUn.!!$R4 604
24 TraesCS7B01G017200 chrUn 338769036 338769678 642 True 477.0 477 81.2880 1777 2381 1 chrUn.!!$R5 604
25 TraesCS7B01G017200 chrUn 82610100 82610830 730 True 436.0 436 78.7720 1792 2487 1 chrUn.!!$R1 695
26 TraesCS7B01G017200 chr7A 77086375 77087017 642 True 477.0 477 81.2880 1777 2381 1 chr7A.!!$R1 604

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
652 682 0.037303 ACAGCCATGTTGGGACTCTG 59.963 55.0 0.0 0.0 38.19 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2510 9686 0.029267 AGGAGAGCCATCCCTTCCAT 60.029 55.0 1.2 0.0 40.53 3.41 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
196 198 6.513393 GCTGCAAGGTTATGGTGTGATAATAC 60.513 42.308 0.00 0.00 0.00 1.89
296 298 3.991121 GAGAAAGAGTAGCTCGCAAACTT 59.009 43.478 0.00 0.00 35.36 2.66
424 426 5.623824 GCGTTCTGTAGGTTTAGATTGAGGA 60.624 44.000 0.00 0.00 0.00 3.71
447 451 7.037586 AGGAGGAGTGTTGGAATAATTGTAGAA 60.038 37.037 0.00 0.00 0.00 2.10
513 518 9.003658 GTATCTCTTCTCTATCTCTTCTTCTGG 57.996 40.741 0.00 0.00 0.00 3.86
638 668 2.164422 GCTTCCCAACAATCTTACAGCC 59.836 50.000 0.00 0.00 0.00 4.85
639 669 3.420893 CTTCCCAACAATCTTACAGCCA 58.579 45.455 0.00 0.00 0.00 4.75
640 670 3.737559 TCCCAACAATCTTACAGCCAT 57.262 42.857 0.00 0.00 0.00 4.40
641 671 3.355378 TCCCAACAATCTTACAGCCATG 58.645 45.455 0.00 0.00 0.00 3.66
642 672 3.091545 CCCAACAATCTTACAGCCATGT 58.908 45.455 0.00 0.00 43.76 3.21
643 673 3.511146 CCCAACAATCTTACAGCCATGTT 59.489 43.478 0.00 0.00 41.01 2.71
644 674 4.487948 CCAACAATCTTACAGCCATGTTG 58.512 43.478 8.95 8.95 44.32 3.33
645 675 4.487948 CAACAATCTTACAGCCATGTTGG 58.512 43.478 8.21 0.00 42.23 3.77
646 676 3.091545 ACAATCTTACAGCCATGTTGGG 58.908 45.455 0.00 0.00 41.01 4.12
647 677 3.245229 ACAATCTTACAGCCATGTTGGGA 60.245 43.478 0.00 0.00 41.01 4.37
648 678 2.489938 TCTTACAGCCATGTTGGGAC 57.510 50.000 0.00 0.00 41.01 4.46
649 679 1.985159 TCTTACAGCCATGTTGGGACT 59.015 47.619 0.00 0.00 41.01 3.85
650 680 2.027192 TCTTACAGCCATGTTGGGACTC 60.027 50.000 0.00 0.00 41.01 3.36
651 681 1.656587 TACAGCCATGTTGGGACTCT 58.343 50.000 0.00 0.00 41.01 3.24
652 682 0.037303 ACAGCCATGTTGGGACTCTG 59.963 55.000 0.00 0.00 38.19 3.35
653 683 0.325933 CAGCCATGTTGGGACTCTGA 59.674 55.000 0.00 0.00 38.19 3.27
654 684 1.064906 CAGCCATGTTGGGACTCTGAT 60.065 52.381 0.00 0.00 38.19 2.90
655 685 1.064906 AGCCATGTTGGGACTCTGATG 60.065 52.381 0.00 0.00 38.19 3.07
656 686 2.020694 GCCATGTTGGGACTCTGATGG 61.021 57.143 0.00 0.00 38.19 3.51
657 687 1.561076 CCATGTTGGGACTCTGATGGA 59.439 52.381 0.00 0.00 33.52 3.41
658 688 2.421107 CCATGTTGGGACTCTGATGGAG 60.421 54.545 0.00 0.00 39.84 3.86
685 715 2.221055 GGTCAAGCAGTCAAACTACGTG 59.779 50.000 0.00 0.00 0.00 4.49
686 716 2.864343 GTCAAGCAGTCAAACTACGTGT 59.136 45.455 0.00 0.00 0.00 4.49
687 717 2.863740 TCAAGCAGTCAAACTACGTGTG 59.136 45.455 0.00 0.00 0.00 3.82
688 718 2.596904 AGCAGTCAAACTACGTGTGT 57.403 45.000 0.00 0.00 0.00 3.72
689 719 2.201732 AGCAGTCAAACTACGTGTGTG 58.798 47.619 0.00 0.00 35.23 3.82
690 720 2.159156 AGCAGTCAAACTACGTGTGTGA 60.159 45.455 0.00 2.45 40.39 3.58
709 739 3.624305 CGACGACGTCTGGAATCAT 57.376 52.632 24.36 0.00 34.56 2.45
710 740 1.909376 CGACGACGTCTGGAATCATT 58.091 50.000 24.36 0.00 34.56 2.57
711 741 2.259618 CGACGACGTCTGGAATCATTT 58.740 47.619 24.36 0.00 34.56 2.32
712 742 2.028045 CGACGACGTCTGGAATCATTTG 59.972 50.000 24.36 1.88 34.56 2.32
713 743 3.250744 GACGACGTCTGGAATCATTTGA 58.749 45.455 20.52 0.00 0.00 2.69
714 744 3.254060 ACGACGTCTGGAATCATTTGAG 58.746 45.455 14.70 0.00 0.00 3.02
715 745 3.056821 ACGACGTCTGGAATCATTTGAGA 60.057 43.478 14.70 0.00 0.00 3.27
716 746 3.926527 CGACGTCTGGAATCATTTGAGAA 59.073 43.478 14.70 0.00 0.00 2.87
717 747 4.568359 CGACGTCTGGAATCATTTGAGAAT 59.432 41.667 14.70 0.00 0.00 2.40
718 748 5.501413 CGACGTCTGGAATCATTTGAGAATG 60.501 44.000 14.70 0.00 43.24 2.67
719 749 5.248640 ACGTCTGGAATCATTTGAGAATGT 58.751 37.500 0.00 0.00 42.61 2.71
720 750 5.707298 ACGTCTGGAATCATTTGAGAATGTT 59.293 36.000 0.00 0.00 42.61 2.71
721 751 6.207417 ACGTCTGGAATCATTTGAGAATGTTT 59.793 34.615 0.00 0.00 42.61 2.83
722 752 6.744537 CGTCTGGAATCATTTGAGAATGTTTC 59.255 38.462 11.64 11.64 44.13 2.78
723 753 6.744537 GTCTGGAATCATTTGAGAATGTTTCG 59.255 38.462 12.87 5.12 44.94 3.46
724 754 6.430925 TCTGGAATCATTTGAGAATGTTTCGT 59.569 34.615 12.87 0.00 44.94 3.85
725 755 6.611381 TGGAATCATTTGAGAATGTTTCGTC 58.389 36.000 12.87 5.36 44.94 4.20
726 756 5.734498 GGAATCATTTGAGAATGTTTCGTCG 59.266 40.000 12.87 0.00 44.94 5.12
727 757 4.065423 TCATTTGAGAATGTTTCGTCGC 57.935 40.909 0.00 0.00 42.61 5.19
728 758 3.745975 TCATTTGAGAATGTTTCGTCGCT 59.254 39.130 0.00 0.00 42.61 4.93
729 759 3.519908 TTTGAGAATGTTTCGTCGCTG 57.480 42.857 0.00 0.00 34.02 5.18
730 760 0.790207 TGAGAATGTTTCGTCGCTGC 59.210 50.000 0.00 0.00 34.02 5.25
731 761 0.095417 GAGAATGTTTCGTCGCTGCC 59.905 55.000 0.00 0.00 34.02 4.85
732 762 0.602638 AGAATGTTTCGTCGCTGCCA 60.603 50.000 0.00 0.00 34.02 4.92
733 763 0.452784 GAATGTTTCGTCGCTGCCAC 60.453 55.000 0.00 0.00 0.00 5.01
734 764 2.170260 AATGTTTCGTCGCTGCCACG 62.170 55.000 13.61 13.61 38.67 4.94
735 765 3.335534 GTTTCGTCGCTGCCACGT 61.336 61.111 18.62 0.00 38.45 4.49
736 766 2.586635 TTTCGTCGCTGCCACGTT 60.587 55.556 18.62 0.00 38.45 3.99
737 767 2.174969 TTTCGTCGCTGCCACGTTT 61.175 52.632 18.62 0.00 38.45 3.60
738 768 2.096481 TTTCGTCGCTGCCACGTTTC 62.096 55.000 18.62 0.00 38.45 2.78
739 769 4.409588 CGTCGCTGCCACGTTTCG 62.410 66.667 11.65 0.00 32.41 3.46
740 770 3.033764 GTCGCTGCCACGTTTCGA 61.034 61.111 0.00 0.00 0.00 3.71
741 771 2.733218 TCGCTGCCACGTTTCGAG 60.733 61.111 0.00 0.00 0.00 4.04
742 772 2.733218 CGCTGCCACGTTTCGAGA 60.733 61.111 0.00 0.00 0.00 4.04
743 773 2.853914 GCTGCCACGTTTCGAGAC 59.146 61.111 0.00 0.00 0.00 3.36
745 775 1.371267 CTGCCACGTTTCGAGACGA 60.371 57.895 31.91 11.04 45.47 4.20
746 776 1.337817 CTGCCACGTTTCGAGACGAG 61.338 60.000 31.91 24.25 45.47 4.18
747 777 1.371389 GCCACGTTTCGAGACGAGT 60.371 57.895 31.91 10.50 45.47 4.18
748 778 1.335697 GCCACGTTTCGAGACGAGTC 61.336 60.000 31.91 13.11 45.47 3.36
749 779 1.058590 CCACGTTTCGAGACGAGTCG 61.059 60.000 31.91 11.85 45.47 4.18
750 780 0.383983 CACGTTTCGAGACGAGTCGT 60.384 55.000 31.91 20.02 45.47 4.34
751 781 0.305922 ACGTTTCGAGACGAGTCGTT 59.694 50.000 31.91 9.76 45.47 3.85
752 782 0.966407 CGTTTCGAGACGAGTCGTTC 59.034 55.000 22.70 16.72 45.47 3.95
761 791 4.245054 GAGTCGTTCGAGCAGCAA 57.755 55.556 0.00 0.00 0.00 3.91
762 792 2.517598 GAGTCGTTCGAGCAGCAAA 58.482 52.632 0.00 0.00 0.00 3.68
763 793 0.436531 GAGTCGTTCGAGCAGCAAAG 59.563 55.000 0.00 0.00 0.00 2.77
764 794 1.154580 GTCGTTCGAGCAGCAAAGC 60.155 57.895 0.00 0.00 0.00 3.51
765 795 1.594021 TCGTTCGAGCAGCAAAGCA 60.594 52.632 0.00 0.00 36.85 3.91
766 796 1.154525 CGTTCGAGCAGCAAAGCAG 60.155 57.895 0.00 0.00 36.85 4.24
767 797 1.835483 CGTTCGAGCAGCAAAGCAGT 61.835 55.000 0.00 0.00 36.85 4.40
768 798 0.385223 GTTCGAGCAGCAAAGCAGTG 60.385 55.000 0.00 0.00 36.85 3.66
769 799 0.815213 TTCGAGCAGCAAAGCAGTGT 60.815 50.000 0.00 0.00 36.85 3.55
770 800 0.815213 TCGAGCAGCAAAGCAGTGTT 60.815 50.000 0.00 0.00 36.85 3.32
771 801 0.659417 CGAGCAGCAAAGCAGTGTTG 60.659 55.000 0.00 0.00 36.85 3.33
782 812 2.989422 GCAGTGTTGCTCGGTTATTT 57.011 45.000 0.00 0.00 46.95 1.40
784 814 4.616181 GCAGTGTTGCTCGGTTATTTAT 57.384 40.909 0.00 0.00 46.95 1.40
785 815 5.728351 GCAGTGTTGCTCGGTTATTTATA 57.272 39.130 0.00 0.00 46.95 0.98
786 816 6.114221 GCAGTGTTGCTCGGTTATTTATAA 57.886 37.500 0.00 0.00 46.95 0.98
787 817 5.963586 GCAGTGTTGCTCGGTTATTTATAAC 59.036 40.000 4.41 4.41 46.95 1.89
788 818 6.183360 GCAGTGTTGCTCGGTTATTTATAACT 60.183 38.462 11.28 0.00 46.95 2.24
789 819 7.180079 CAGTGTTGCTCGGTTATTTATAACTG 58.820 38.462 13.04 13.04 46.20 3.16
790 820 6.877322 AGTGTTGCTCGGTTATTTATAACTGT 59.123 34.615 16.88 0.00 45.44 3.55
791 821 7.389607 AGTGTTGCTCGGTTATTTATAACTGTT 59.610 33.333 16.88 0.00 45.44 3.16
792 822 8.658609 GTGTTGCTCGGTTATTTATAACTGTTA 58.341 33.333 16.88 2.26 45.44 2.41
793 823 9.386010 TGTTGCTCGGTTATTTATAACTGTTAT 57.614 29.630 16.51 16.51 45.44 1.89
811 841 9.632638 AACTGTTATTTCATAGCTATGGATTGT 57.367 29.630 29.02 14.76 34.50 2.71
812 842 9.632638 ACTGTTATTTCATAGCTATGGATTGTT 57.367 29.630 29.02 11.74 34.50 2.83
815 845 9.899226 GTTATTTCATAGCTATGGATTGTTTCC 57.101 33.333 29.02 9.28 45.69 3.13
823 853 2.849081 GGATTGTTTCCGCTTCCGA 58.151 52.632 0.00 0.00 33.93 4.55
824 854 1.161843 GGATTGTTTCCGCTTCCGAA 58.838 50.000 0.00 0.00 33.93 4.30
825 855 1.538075 GGATTGTTTCCGCTTCCGAAA 59.462 47.619 0.00 0.00 33.93 3.46
826 856 2.581637 GATTGTTTCCGCTTCCGAAAC 58.418 47.619 6.50 6.50 36.23 2.78
827 857 1.380524 TTGTTTCCGCTTCCGAAACA 58.619 45.000 11.07 11.07 39.87 2.83
828 858 1.600023 TGTTTCCGCTTCCGAAACAT 58.400 45.000 11.07 0.00 38.39 2.71
829 859 1.265635 TGTTTCCGCTTCCGAAACATG 59.734 47.619 11.07 0.00 38.39 3.21
830 860 0.239879 TTTCCGCTTCCGAAACATGC 59.760 50.000 0.00 0.00 36.29 4.06
831 861 1.906994 TTCCGCTTCCGAAACATGCG 61.907 55.000 5.71 5.71 45.22 4.73
832 862 2.574212 CGCTTCCGAAACATGCGC 60.574 61.111 0.00 0.00 40.15 6.09
833 863 2.574212 GCTTCCGAAACATGCGCG 60.574 61.111 0.00 0.00 0.00 6.86
834 864 2.574212 CTTCCGAAACATGCGCGC 60.574 61.111 27.26 27.26 0.00 6.86
835 865 3.307505 CTTCCGAAACATGCGCGCA 62.308 57.895 38.27 38.27 0.00 6.09
836 866 3.587342 TTCCGAAACATGCGCGCAC 62.587 57.895 39.05 22.47 0.00 5.34
838 868 4.717927 CGAAACATGCGCGCACGT 62.718 61.111 39.05 33.89 42.83 4.49
839 869 3.158813 GAAACATGCGCGCACGTG 61.159 61.111 39.05 32.65 42.83 4.49
847 877 3.487202 CGCGCACGTGCCAGTAAT 61.487 61.111 33.23 0.00 37.91 1.89
848 878 2.098298 GCGCACGTGCCAGTAATG 59.902 61.111 33.23 18.80 37.91 1.90
849 879 2.677003 GCGCACGTGCCAGTAATGT 61.677 57.895 33.23 0.00 37.91 2.71
850 880 1.132436 CGCACGTGCCAGTAATGTG 59.868 57.895 33.23 13.15 37.56 3.21
852 882 2.243056 CACGTGCCAGTAATGTGCA 58.757 52.632 0.82 2.80 0.00 4.57
853 883 0.590682 CACGTGCCAGTAATGTGCAA 59.409 50.000 0.82 0.00 36.65 4.08
854 884 0.591170 ACGTGCCAGTAATGTGCAAC 59.409 50.000 7.70 3.33 36.65 4.17
855 885 0.109781 CGTGCCAGTAATGTGCAACC 60.110 55.000 7.70 0.00 36.65 3.77
856 886 0.109781 GTGCCAGTAATGTGCAACCG 60.110 55.000 7.70 0.00 36.65 4.44
857 887 0.536233 TGCCAGTAATGTGCAACCGT 60.536 50.000 4.24 0.00 34.36 4.83
858 888 1.270893 TGCCAGTAATGTGCAACCGTA 60.271 47.619 4.24 0.00 34.36 4.02
859 889 1.129811 GCCAGTAATGTGCAACCGTAC 59.870 52.381 0.00 0.00 34.36 3.67
860 890 1.392168 CCAGTAATGTGCAACCGTACG 59.608 52.381 8.69 8.69 34.36 3.67
861 891 2.063266 CAGTAATGTGCAACCGTACGT 58.937 47.619 15.21 0.00 34.36 3.57
862 892 2.477375 CAGTAATGTGCAACCGTACGTT 59.523 45.455 15.21 5.92 39.81 3.99
869 899 2.908817 CAACCGTACGTTGCTTCCT 58.091 52.632 15.21 0.00 45.16 3.36
870 900 1.223187 CAACCGTACGTTGCTTCCTT 58.777 50.000 15.21 0.00 45.16 3.36
871 901 1.193874 CAACCGTACGTTGCTTCCTTC 59.806 52.381 15.21 0.00 45.16 3.46
872 902 0.390124 ACCGTACGTTGCTTCCTTCA 59.610 50.000 15.21 0.00 0.00 3.02
873 903 0.788391 CCGTACGTTGCTTCCTTCAC 59.212 55.000 15.21 0.00 0.00 3.18
874 904 0.433492 CGTACGTTGCTTCCTTCACG 59.567 55.000 7.22 0.00 0.00 4.35
875 905 1.494824 GTACGTTGCTTCCTTCACGT 58.505 50.000 0.00 1.48 37.57 4.49
876 906 1.454653 GTACGTTGCTTCCTTCACGTC 59.545 52.381 0.00 0.00 35.42 4.34
877 907 1.213094 ACGTTGCTTCCTTCACGTCG 61.213 55.000 0.00 0.00 0.00 5.12
878 908 1.213094 CGTTGCTTCCTTCACGTCGT 61.213 55.000 0.00 0.00 0.00 4.34
879 909 1.774639 GTTGCTTCCTTCACGTCGTA 58.225 50.000 0.00 0.00 0.00 3.43
880 910 1.454653 GTTGCTTCCTTCACGTCGTAC 59.545 52.381 0.00 0.00 0.00 3.67
882 912 0.110056 GCTTCCTTCACGTCGTACGA 60.110 55.000 15.28 15.28 46.05 3.43
883 913 1.879646 CTTCCTTCACGTCGTACGAG 58.120 55.000 20.18 14.91 46.05 4.18
884 914 1.196354 CTTCCTTCACGTCGTACGAGT 59.804 52.381 20.18 15.57 46.05 4.18
885 915 1.229428 TCCTTCACGTCGTACGAGTT 58.771 50.000 20.18 5.36 46.05 3.01
886 916 1.069703 TCCTTCACGTCGTACGAGTTG 60.070 52.381 20.18 17.95 46.05 3.16
1747 1899 1.265236 AAAAATCCATCTTGCCGCCA 58.735 45.000 0.00 0.00 0.00 5.69
1748 1900 1.265236 AAAATCCATCTTGCCGCCAA 58.735 45.000 0.00 0.00 0.00 4.52
1765 1917 4.244862 CGCCAAGTCCTGCAAAAATTATT 58.755 39.130 0.00 0.00 0.00 1.40
1828 1984 1.773496 CTGCGACGAAACGTTCTCC 59.227 57.895 0.00 0.00 41.37 3.71
1882 2062 1.808945 CCTGCTAGTTTGACTGCTTGG 59.191 52.381 0.00 0.00 0.00 3.61
2190 2464 1.876156 CCAGGTGCAGAGAAGAAACAC 59.124 52.381 0.00 0.00 0.00 3.32
2199 2473 2.158957 AGAGAAGAAACACCAGTGCGAA 60.159 45.455 0.00 0.00 0.00 4.70
2269 2555 4.395542 GGCATTATTCTCTGGATCATCAGC 59.604 45.833 0.00 0.00 34.91 4.26
2278 2564 2.426024 CTGGATCATCAGCAAGGTTTGG 59.574 50.000 0.00 0.00 0.00 3.28
2291 2577 1.298667 GTTTGGCCGGCCTTCTAGA 59.701 57.895 43.34 22.40 36.94 2.43
2332 2626 6.578023 AGATCAGAGTGATAGTTAAAGGTGC 58.422 40.000 0.00 0.00 37.20 5.01
2359 2668 4.201714 CGAGCAGAGATTTTTGCATAACGA 60.202 41.667 1.47 0.00 42.67 3.85
2363 2672 4.790140 CAGAGATTTTTGCATAACGACTGC 59.210 41.667 0.00 0.00 40.10 4.40
2406 6075 8.865420 TGTATTGTTTAGCCAACATAGGTAAA 57.135 30.769 0.09 0.00 45.17 2.01
2413 8545 5.492855 AGCCAACATAGGTAAAGTGTGTA 57.507 39.130 0.00 0.00 0.00 2.90
2440 8579 2.076863 CTTGTGGTTAGTAGGCACAGC 58.923 52.381 0.00 0.00 0.00 4.40
2465 9641 7.429340 GCTCATCAAGGTCGTGTAATTAAAATG 59.571 37.037 0.00 0.00 0.00 2.32
2487 9663 2.297597 AGTCTTCAAGAACTCCGGTCTG 59.702 50.000 0.00 0.00 0.00 3.51
2488 9664 2.296471 GTCTTCAAGAACTCCGGTCTGA 59.704 50.000 0.00 0.00 0.00 3.27
2489 9665 2.963101 TCTTCAAGAACTCCGGTCTGAA 59.037 45.455 0.00 3.73 0.00 3.02
2490 9666 3.005897 TCTTCAAGAACTCCGGTCTGAAG 59.994 47.826 17.32 17.32 37.60 3.02
2491 9667 1.618837 TCAAGAACTCCGGTCTGAAGG 59.381 52.381 0.00 0.00 0.00 3.46
2492 9668 1.618837 CAAGAACTCCGGTCTGAAGGA 59.381 52.381 0.00 3.56 34.93 3.36
2493 9669 2.011122 AGAACTCCGGTCTGAAGGAA 57.989 50.000 0.00 0.00 35.90 3.36
2495 9671 3.709587 AGAACTCCGGTCTGAAGGAATA 58.290 45.455 0.00 0.00 35.90 1.75
2496 9672 4.094476 AGAACTCCGGTCTGAAGGAATAA 58.906 43.478 0.00 0.00 35.90 1.40
2497 9673 4.717280 AGAACTCCGGTCTGAAGGAATAAT 59.283 41.667 0.00 0.00 35.90 1.28
2498 9674 4.674281 ACTCCGGTCTGAAGGAATAATC 57.326 45.455 0.00 0.00 35.90 1.75
2499 9675 3.388350 ACTCCGGTCTGAAGGAATAATCC 59.612 47.826 0.00 0.00 46.98 3.01
2509 9685 1.439679 GGAATAATCCGCGGTCATCC 58.560 55.000 27.15 21.15 35.59 3.51
2510 9686 1.270625 GGAATAATCCGCGGTCATCCA 60.271 52.381 27.15 4.32 35.59 3.41
2511 9687 2.615493 GGAATAATCCGCGGTCATCCAT 60.615 50.000 27.15 7.04 35.59 3.41
2512 9688 2.099141 ATAATCCGCGGTCATCCATG 57.901 50.000 27.15 0.00 0.00 3.66
2513 9689 0.034756 TAATCCGCGGTCATCCATGG 59.965 55.000 27.15 4.97 0.00 3.66
2514 9690 1.695114 AATCCGCGGTCATCCATGGA 61.695 55.000 27.15 18.88 39.76 3.41
2515 9691 1.695114 ATCCGCGGTCATCCATGGAA 61.695 55.000 27.15 0.00 39.19 3.53
2516 9692 1.889105 CCGCGGTCATCCATGGAAG 60.889 63.158 20.67 15.47 31.60 3.46
2517 9693 1.889105 CGCGGTCATCCATGGAAGG 60.889 63.158 20.67 14.40 0.00 3.46
2518 9694 1.526917 GCGGTCATCCATGGAAGGG 60.527 63.158 20.67 11.71 40.85 3.95
2527 9703 0.110104 CCATGGAAGGGATGGCTCTC 59.890 60.000 5.56 0.00 43.46 3.20
2528 9704 0.110104 CATGGAAGGGATGGCTCTCC 59.890 60.000 0.00 0.00 34.31 3.71
2529 9705 0.029267 ATGGAAGGGATGGCTCTCCT 60.029 55.000 6.63 0.00 35.50 3.69
2530 9706 0.253347 TGGAAGGGATGGCTCTCCTT 60.253 55.000 6.63 6.18 42.94 3.36
2534 9710 3.245650 GGATGGCTCTCCTTCCCC 58.754 66.667 5.25 0.00 46.03 4.81
2535 9711 2.456443 GGATGGCTCTCCTTCCCCC 61.456 68.421 5.25 0.00 46.03 5.40
2536 9712 1.385206 GATGGCTCTCCTTCCCCCT 60.385 63.158 0.00 0.00 32.07 4.79
2537 9713 1.385206 ATGGCTCTCCTTCCCCCTC 60.385 63.158 0.00 0.00 0.00 4.30
2538 9714 2.770475 GGCTCTCCTTCCCCCTCC 60.770 72.222 0.00 0.00 0.00 4.30
2539 9715 2.370633 GCTCTCCTTCCCCCTCCT 59.629 66.667 0.00 0.00 0.00 3.69
2540 9716 1.764454 GCTCTCCTTCCCCCTCCTC 60.764 68.421 0.00 0.00 0.00 3.71
2541 9717 2.023532 CTCTCCTTCCCCCTCCTCT 58.976 63.158 0.00 0.00 0.00 3.69
2542 9718 0.105709 CTCTCCTTCCCCCTCCTCTC 60.106 65.000 0.00 0.00 0.00 3.20
2543 9719 1.456705 CTCCTTCCCCCTCCTCTCG 60.457 68.421 0.00 0.00 0.00 4.04
2544 9720 3.157949 CCTTCCCCCTCCTCTCGC 61.158 72.222 0.00 0.00 0.00 5.03
2545 9721 3.532155 CTTCCCCCTCCTCTCGCG 61.532 72.222 0.00 0.00 0.00 5.87
2604 9780 2.805353 CGTCGTCGGCCAAGTCAG 60.805 66.667 2.24 0.00 0.00 3.51
2605 9781 2.432628 GTCGTCGGCCAAGTCAGG 60.433 66.667 2.24 0.00 0.00 3.86
2606 9782 2.915659 TCGTCGGCCAAGTCAGGT 60.916 61.111 2.24 0.00 0.00 4.00
2607 9783 2.738521 CGTCGGCCAAGTCAGGTG 60.739 66.667 2.24 0.00 0.00 4.00
2608 9784 3.050275 GTCGGCCAAGTCAGGTGC 61.050 66.667 2.24 0.00 0.00 5.01
2609 9785 4.680237 TCGGCCAAGTCAGGTGCG 62.680 66.667 2.24 0.00 0.00 5.34
2610 9786 4.988598 CGGCCAAGTCAGGTGCGT 62.989 66.667 2.24 0.00 0.00 5.24
2611 9787 3.050275 GGCCAAGTCAGGTGCGTC 61.050 66.667 0.00 0.00 0.00 5.19
2612 9788 3.050275 GCCAAGTCAGGTGCGTCC 61.050 66.667 0.00 0.00 0.00 4.79
2613 9789 2.358737 CCAAGTCAGGTGCGTCCC 60.359 66.667 0.00 0.00 36.75 4.46
2614 9790 2.358737 CAAGTCAGGTGCGTCCCC 60.359 66.667 0.00 0.00 36.75 4.81
2615 9791 3.637273 AAGTCAGGTGCGTCCCCC 61.637 66.667 0.00 0.00 36.75 5.40
2616 9792 4.640690 AGTCAGGTGCGTCCCCCT 62.641 66.667 0.00 0.00 36.75 4.79
2618 9794 4.954118 TCAGGTGCGTCCCCCTGT 62.954 66.667 5.66 0.00 46.79 4.00
2619 9795 3.953775 CAGGTGCGTCCCCCTGTT 61.954 66.667 0.00 0.00 42.72 3.16
2620 9796 3.637273 AGGTGCGTCCCCCTGTTC 61.637 66.667 0.00 0.00 36.75 3.18
2621 9797 4.717313 GGTGCGTCCCCCTGTTCC 62.717 72.222 0.00 0.00 0.00 3.62
2622 9798 4.717313 GTGCGTCCCCCTGTTCCC 62.717 72.222 0.00 0.00 0.00 3.97
2623 9799 4.974438 TGCGTCCCCCTGTTCCCT 62.974 66.667 0.00 0.00 0.00 4.20
2624 9800 4.410400 GCGTCCCCCTGTTCCCTG 62.410 72.222 0.00 0.00 0.00 4.45
2625 9801 2.928396 CGTCCCCCTGTTCCCTGT 60.928 66.667 0.00 0.00 0.00 4.00
2626 9802 2.955881 CGTCCCCCTGTTCCCTGTC 61.956 68.421 0.00 0.00 0.00 3.51
2627 9803 2.204090 TCCCCCTGTTCCCTGTCC 60.204 66.667 0.00 0.00 0.00 4.02
2628 9804 3.339093 CCCCCTGTTCCCTGTCCC 61.339 72.222 0.00 0.00 0.00 4.46
2629 9805 3.339093 CCCCTGTTCCCTGTCCCC 61.339 72.222 0.00 0.00 0.00 4.81
2630 9806 3.339093 CCCTGTTCCCTGTCCCCC 61.339 72.222 0.00 0.00 0.00 5.40
2631 9807 2.204151 CCTGTTCCCTGTCCCCCT 60.204 66.667 0.00 0.00 0.00 4.79
2632 9808 2.301738 CCTGTTCCCTGTCCCCCTC 61.302 68.421 0.00 0.00 0.00 4.30
2633 9809 2.606519 TGTTCCCTGTCCCCCTCG 60.607 66.667 0.00 0.00 0.00 4.63
2634 9810 2.606826 GTTCCCTGTCCCCCTCGT 60.607 66.667 0.00 0.00 0.00 4.18
2635 9811 2.606519 TTCCCTGTCCCCCTCGTG 60.607 66.667 0.00 0.00 0.00 4.35
2638 9814 3.775654 CCTGTCCCCCTCGTGCTC 61.776 72.222 0.00 0.00 0.00 4.26
2639 9815 3.775654 CTGTCCCCCTCGTGCTCC 61.776 72.222 0.00 0.00 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
196 198 2.154462 CTGAAAGGTAGGTTGCACCAG 58.846 52.381 7.86 0.00 41.95 4.00
372 374 8.186709 AGGTTGAGATTGAACTTGAATTCATT 57.813 30.769 9.40 0.97 38.37 2.57
513 518 3.938289 ACAGAGAAGGTCGGTAAAGAC 57.062 47.619 0.00 0.00 40.25 3.01
553 581 1.726853 CCGTGGCTTACAAGAAGGAG 58.273 55.000 0.00 0.00 0.00 3.69
605 634 1.900245 TGGGAAGCGTTAAACCCTTC 58.100 50.000 0.00 0.00 42.49 3.46
638 668 2.915349 CTCCATCAGAGTCCCAACATG 58.085 52.381 0.00 0.00 37.87 3.21
649 679 0.251608 TGACCCACGACTCCATCAGA 60.252 55.000 0.00 0.00 0.00 3.27
650 680 0.608130 TTGACCCACGACTCCATCAG 59.392 55.000 0.00 0.00 0.00 2.90
651 681 0.608130 CTTGACCCACGACTCCATCA 59.392 55.000 0.00 0.00 0.00 3.07
652 682 0.741221 GCTTGACCCACGACTCCATC 60.741 60.000 0.00 0.00 0.00 3.51
653 683 1.296715 GCTTGACCCACGACTCCAT 59.703 57.895 0.00 0.00 0.00 3.41
654 684 2.099652 CTGCTTGACCCACGACTCCA 62.100 60.000 0.00 0.00 0.00 3.86
655 685 1.374758 CTGCTTGACCCACGACTCC 60.375 63.158 0.00 0.00 0.00 3.85
656 686 0.667792 GACTGCTTGACCCACGACTC 60.668 60.000 0.00 0.00 0.00 3.36
657 687 1.367840 GACTGCTTGACCCACGACT 59.632 57.895 0.00 0.00 0.00 4.18
658 688 0.531974 TTGACTGCTTGACCCACGAC 60.532 55.000 0.00 0.00 0.00 4.34
659 689 0.179234 TTTGACTGCTTGACCCACGA 59.821 50.000 0.00 0.00 0.00 4.35
660 690 0.307760 GTTTGACTGCTTGACCCACG 59.692 55.000 0.00 0.00 0.00 4.94
661 691 1.680338 AGTTTGACTGCTTGACCCAC 58.320 50.000 0.00 0.00 0.00 4.61
691 721 1.909376 AATGATTCCAGACGTCGTCG 58.091 50.000 19.11 13.66 37.67 5.12
692 722 3.250744 TCAAATGATTCCAGACGTCGTC 58.749 45.455 17.70 17.70 0.00 4.20
693 723 3.056821 TCTCAAATGATTCCAGACGTCGT 60.057 43.478 10.46 0.00 0.00 4.34
694 724 3.511699 TCTCAAATGATTCCAGACGTCG 58.488 45.455 10.46 5.16 0.00 5.12
695 725 5.352569 ACATTCTCAAATGATTCCAGACGTC 59.647 40.000 7.70 7.70 44.25 4.34
696 726 5.248640 ACATTCTCAAATGATTCCAGACGT 58.751 37.500 5.22 0.00 44.25 4.34
697 727 5.808042 ACATTCTCAAATGATTCCAGACG 57.192 39.130 5.22 0.00 44.25 4.18
698 728 6.744537 CGAAACATTCTCAAATGATTCCAGAC 59.255 38.462 12.58 0.00 45.09 3.51
699 729 6.430925 ACGAAACATTCTCAAATGATTCCAGA 59.569 34.615 12.58 0.00 45.09 3.86
700 730 6.615088 ACGAAACATTCTCAAATGATTCCAG 58.385 36.000 12.58 5.58 45.09 3.86
701 731 6.573664 ACGAAACATTCTCAAATGATTCCA 57.426 33.333 12.58 0.00 45.09 3.53
702 732 5.734498 CGACGAAACATTCTCAAATGATTCC 59.266 40.000 12.58 3.19 45.09 3.01
703 733 5.225949 GCGACGAAACATTCTCAAATGATTC 59.774 40.000 0.00 7.81 44.74 2.52
704 734 5.088739 GCGACGAAACATTCTCAAATGATT 58.911 37.500 0.00 0.00 44.25 2.57
705 735 4.393062 AGCGACGAAACATTCTCAAATGAT 59.607 37.500 0.00 0.00 44.25 2.45
706 736 3.745975 AGCGACGAAACATTCTCAAATGA 59.254 39.130 0.00 0.00 44.25 2.57
707 737 3.842428 CAGCGACGAAACATTCTCAAATG 59.158 43.478 0.00 0.00 46.42 2.32
708 738 3.667960 GCAGCGACGAAACATTCTCAAAT 60.668 43.478 0.00 0.00 0.00 2.32
709 739 2.349438 GCAGCGACGAAACATTCTCAAA 60.349 45.455 0.00 0.00 0.00 2.69
710 740 1.194547 GCAGCGACGAAACATTCTCAA 59.805 47.619 0.00 0.00 0.00 3.02
711 741 0.790207 GCAGCGACGAAACATTCTCA 59.210 50.000 0.00 0.00 0.00 3.27
712 742 0.095417 GGCAGCGACGAAACATTCTC 59.905 55.000 0.00 0.00 0.00 2.87
713 743 0.602638 TGGCAGCGACGAAACATTCT 60.603 50.000 0.00 0.00 0.00 2.40
714 744 0.452784 GTGGCAGCGACGAAACATTC 60.453 55.000 0.00 0.00 0.00 2.67
715 745 1.574428 GTGGCAGCGACGAAACATT 59.426 52.632 0.00 0.00 0.00 2.71
716 746 2.667318 CGTGGCAGCGACGAAACAT 61.667 57.895 24.15 0.00 37.77 2.71
717 747 3.334751 CGTGGCAGCGACGAAACA 61.335 61.111 24.15 0.00 37.77 2.83
718 748 2.369477 AAACGTGGCAGCGACGAAAC 62.369 55.000 33.17 2.29 37.77 2.78
719 749 2.096481 GAAACGTGGCAGCGACGAAA 62.096 55.000 33.17 0.00 37.77 3.46
720 750 2.586635 AAACGTGGCAGCGACGAA 60.587 55.556 33.17 0.00 37.77 3.85
721 751 3.033764 GAAACGTGGCAGCGACGA 61.034 61.111 33.17 0.00 37.77 4.20
722 752 4.409588 CGAAACGTGGCAGCGACG 62.410 66.667 26.25 26.25 41.10 5.12
723 753 3.000080 CTCGAAACGTGGCAGCGAC 62.000 63.158 14.63 0.00 35.59 5.19
724 754 2.733218 CTCGAAACGTGGCAGCGA 60.733 61.111 14.63 6.38 35.59 4.93
725 755 2.733218 TCTCGAAACGTGGCAGCG 60.733 61.111 7.71 7.71 37.94 5.18
726 756 2.853914 GTCTCGAAACGTGGCAGC 59.146 61.111 0.00 0.00 0.00 5.25
727 757 1.337817 CTCGTCTCGAAACGTGGCAG 61.338 60.000 11.57 0.00 43.08 4.85
728 758 1.371267 CTCGTCTCGAAACGTGGCA 60.371 57.895 11.57 0.00 43.08 4.92
729 759 1.335697 GACTCGTCTCGAAACGTGGC 61.336 60.000 16.63 10.70 43.08 5.01
730 760 1.058590 CGACTCGTCTCGAAACGTGG 61.059 60.000 16.63 10.88 43.08 4.94
731 761 0.383983 ACGACTCGTCTCGAAACGTG 60.384 55.000 11.57 11.51 42.20 4.49
732 762 0.305922 AACGACTCGTCTCGAAACGT 59.694 50.000 11.57 13.61 44.10 3.99
733 763 0.966407 GAACGACTCGTCTCGAAACG 59.034 55.000 4.55 4.55 39.99 3.60
734 764 0.966407 CGAACGACTCGTCTCGAAAC 59.034 55.000 21.35 0.00 42.89 2.78
735 765 3.356514 CGAACGACTCGTCTCGAAA 57.643 52.632 21.35 0.00 42.89 3.46
744 774 0.436531 CTTTGCTGCTCGAACGACTC 59.563 55.000 0.00 0.00 0.00 3.36
745 775 1.560860 GCTTTGCTGCTCGAACGACT 61.561 55.000 0.00 0.00 0.00 4.18
746 776 1.154580 GCTTTGCTGCTCGAACGAC 60.155 57.895 0.00 0.00 0.00 4.34
747 777 1.560004 CTGCTTTGCTGCTCGAACGA 61.560 55.000 0.00 0.00 0.00 3.85
748 778 1.154525 CTGCTTTGCTGCTCGAACG 60.155 57.895 0.00 0.00 0.00 3.95
749 779 0.385223 CACTGCTTTGCTGCTCGAAC 60.385 55.000 0.00 0.00 0.00 3.95
750 780 0.815213 ACACTGCTTTGCTGCTCGAA 60.815 50.000 0.00 0.00 0.00 3.71
751 781 0.815213 AACACTGCTTTGCTGCTCGA 60.815 50.000 0.00 0.00 0.00 4.04
752 782 0.659417 CAACACTGCTTTGCTGCTCG 60.659 55.000 0.00 0.00 0.00 5.03
753 783 0.938168 GCAACACTGCTTTGCTGCTC 60.938 55.000 0.00 0.00 44.96 4.26
754 784 1.066918 GCAACACTGCTTTGCTGCT 59.933 52.632 0.00 0.00 44.96 4.24
755 785 3.621520 GCAACACTGCTTTGCTGC 58.378 55.556 6.58 0.00 44.96 5.25
761 791 7.625606 GTTATAAATAACCGAGCAACACTGCTT 60.626 37.037 0.45 0.00 45.78 3.91
762 792 6.183360 GTTATAAATAACCGAGCAACACTGCT 60.183 38.462 0.00 0.00 46.95 4.24
763 793 5.963586 GTTATAAATAACCGAGCAACACTGC 59.036 40.000 2.04 0.00 41.42 4.40
764 794 7.148474 ACAGTTATAAATAACCGAGCAACACTG 60.148 37.037 8.83 0.00 42.71 3.66
765 795 6.877322 ACAGTTATAAATAACCGAGCAACACT 59.123 34.615 8.83 0.00 42.71 3.55
766 796 7.068692 ACAGTTATAAATAACCGAGCAACAC 57.931 36.000 8.83 0.00 42.71 3.32
767 797 7.675962 AACAGTTATAAATAACCGAGCAACA 57.324 32.000 8.83 0.00 42.71 3.33
785 815 9.632638 ACAATCCATAGCTATGAAATAACAGTT 57.367 29.630 31.14 11.27 35.75 3.16
786 816 9.632638 AACAATCCATAGCTATGAAATAACAGT 57.367 29.630 31.14 16.11 35.75 3.55
805 835 1.161843 TTCGGAAGCGGAAACAATCC 58.838 50.000 0.00 0.00 45.57 3.01
806 836 2.581637 GTTTCGGAAGCGGAAACAATC 58.418 47.619 19.22 0.22 46.01 2.67
807 837 2.699251 GTTTCGGAAGCGGAAACAAT 57.301 45.000 19.22 0.00 46.01 2.71
810 840 1.963747 CATGTTTCGGAAGCGGAAAC 58.036 50.000 18.03 18.03 46.51 2.78
811 841 0.239879 GCATGTTTCGGAAGCGGAAA 59.760 50.000 0.00 0.00 31.94 3.13
812 842 1.873165 GCATGTTTCGGAAGCGGAA 59.127 52.632 0.00 0.00 0.00 4.30
813 843 2.387445 CGCATGTTTCGGAAGCGGA 61.387 57.895 12.56 0.00 44.20 5.54
814 844 2.098298 CGCATGTTTCGGAAGCGG 59.902 61.111 12.56 3.62 44.20 5.52
816 846 2.574212 CGCGCATGTTTCGGAAGC 60.574 61.111 8.75 0.00 0.00 3.86
817 847 2.574212 GCGCGCATGTTTCGGAAG 60.574 61.111 29.10 0.00 0.00 3.46
818 848 3.349808 TGCGCGCATGTTTCGGAA 61.350 55.556 33.09 2.14 0.00 4.30
819 849 4.083600 GTGCGCGCATGTTTCGGA 62.084 61.111 38.62 7.63 0.00 4.55
821 851 4.717927 ACGTGCGCGCATGTTTCG 62.718 61.111 44.06 37.26 42.86 3.46
822 852 3.158813 CACGTGCGCGCATGTTTC 61.159 61.111 46.22 28.83 42.86 2.78
830 860 3.487202 ATTACTGGCACGTGCGCG 61.487 61.111 32.35 26.33 43.26 6.86
831 861 2.098298 CATTACTGGCACGTGCGC 59.902 61.111 32.35 24.78 43.26 6.09
832 862 1.132436 CACATTACTGGCACGTGCG 59.868 57.895 32.35 22.48 43.26 5.34
833 863 1.154225 GCACATTACTGGCACGTGC 60.154 57.895 32.15 32.15 45.25 5.34
834 864 0.590682 TTGCACATTACTGGCACGTG 59.409 50.000 12.28 12.28 37.26 4.49
835 865 0.591170 GTTGCACATTACTGGCACGT 59.409 50.000 0.00 0.00 37.26 4.49
836 866 0.109781 GGTTGCACATTACTGGCACG 60.110 55.000 0.00 0.00 37.26 5.34
837 867 0.109781 CGGTTGCACATTACTGGCAC 60.110 55.000 0.00 0.00 37.26 5.01
838 868 0.536233 ACGGTTGCACATTACTGGCA 60.536 50.000 0.44 0.00 35.41 4.92
839 869 1.129811 GTACGGTTGCACATTACTGGC 59.870 52.381 0.44 0.00 0.00 4.85
840 870 1.392168 CGTACGGTTGCACATTACTGG 59.608 52.381 7.57 0.00 0.00 4.00
841 871 2.063266 ACGTACGGTTGCACATTACTG 58.937 47.619 21.06 0.00 0.00 2.74
842 872 2.443887 ACGTACGGTTGCACATTACT 57.556 45.000 21.06 0.00 0.00 2.24
852 882 1.202557 TGAAGGAAGCAACGTACGGTT 60.203 47.619 21.06 8.66 40.22 4.44
853 883 0.390124 TGAAGGAAGCAACGTACGGT 59.610 50.000 21.06 11.03 0.00 4.83
854 884 0.788391 GTGAAGGAAGCAACGTACGG 59.212 55.000 21.06 3.45 0.00 4.02
855 885 0.433492 CGTGAAGGAAGCAACGTACG 59.567 55.000 15.01 15.01 0.00 3.67
856 886 1.454653 GACGTGAAGGAAGCAACGTAC 59.545 52.381 0.00 0.00 33.85 3.67
857 887 1.774639 GACGTGAAGGAAGCAACGTA 58.225 50.000 0.00 0.00 33.85 3.57
858 888 1.213094 CGACGTGAAGGAAGCAACGT 61.213 55.000 0.00 0.00 36.49 3.99
859 889 1.213094 ACGACGTGAAGGAAGCAACG 61.213 55.000 0.00 0.00 0.00 4.10
860 890 1.454653 GTACGACGTGAAGGAAGCAAC 59.545 52.381 11.56 0.00 0.00 4.17
861 891 1.774639 GTACGACGTGAAGGAAGCAA 58.225 50.000 11.56 0.00 0.00 3.91
862 892 0.386352 CGTACGACGTGAAGGAAGCA 60.386 55.000 10.44 0.00 36.74 3.91
863 893 0.110056 TCGTACGACGTGAAGGAAGC 60.110 55.000 15.28 0.00 43.14 3.86
864 894 1.196354 ACTCGTACGACGTGAAGGAAG 59.804 52.381 15.28 2.97 43.14 3.46
865 895 1.229428 ACTCGTACGACGTGAAGGAA 58.771 50.000 15.28 0.00 43.14 3.36
866 896 1.069703 CAACTCGTACGACGTGAAGGA 60.070 52.381 15.28 1.77 43.14 3.36
867 897 1.069703 TCAACTCGTACGACGTGAAGG 60.070 52.381 15.28 5.33 43.14 3.46
868 898 1.967908 GTCAACTCGTACGACGTGAAG 59.032 52.381 21.55 11.77 43.14 3.02
869 899 1.334059 GGTCAACTCGTACGACGTGAA 60.334 52.381 21.55 10.96 43.14 3.18
870 900 0.235665 GGTCAACTCGTACGACGTGA 59.764 55.000 15.28 16.87 43.14 4.35
871 901 0.041047 TGGTCAACTCGTACGACGTG 60.041 55.000 15.28 14.79 43.14 4.49
872 902 0.236711 CTGGTCAACTCGTACGACGT 59.763 55.000 15.28 13.64 43.14 4.34
873 903 1.063951 GCTGGTCAACTCGTACGACG 61.064 60.000 15.28 12.98 44.19 5.12
874 904 0.731855 GGCTGGTCAACTCGTACGAC 60.732 60.000 15.28 4.54 0.00 4.34
875 905 1.582968 GGCTGGTCAACTCGTACGA 59.417 57.895 18.41 18.41 0.00 3.43
876 906 1.445582 GGGCTGGTCAACTCGTACG 60.446 63.158 9.53 9.53 0.00 3.67
877 907 1.079336 GGGGCTGGTCAACTCGTAC 60.079 63.158 0.00 0.00 0.00 3.67
878 908 2.288025 GGGGGCTGGTCAACTCGTA 61.288 63.158 0.00 0.00 0.00 3.43
879 909 3.637273 GGGGGCTGGTCAACTCGT 61.637 66.667 0.00 0.00 0.00 4.18
880 910 4.760047 CGGGGGCTGGTCAACTCG 62.760 72.222 0.00 0.00 0.00 4.18
881 911 3.192103 AACGGGGGCTGGTCAACTC 62.192 63.158 0.00 0.00 0.00 3.01
882 912 3.175710 AACGGGGGCTGGTCAACT 61.176 61.111 0.00 0.00 0.00 3.16
883 913 2.983592 CAACGGGGGCTGGTCAAC 60.984 66.667 0.00 0.00 0.00 3.18
884 914 3.172106 TCAACGGGGGCTGGTCAA 61.172 61.111 0.00 0.00 0.00 3.18
885 915 3.636231 CTCAACGGGGGCTGGTCA 61.636 66.667 0.00 0.00 0.00 4.02
886 916 3.316573 CTCTCAACGGGGGCTGGTC 62.317 68.421 0.00 0.00 0.00 4.02
1733 1885 1.377202 GACTTGGCGGCAAGATGGA 60.377 57.895 46.03 17.96 36.16 3.41
1734 1886 2.409870 GGACTTGGCGGCAAGATGG 61.410 63.158 46.03 27.99 36.16 3.51
1735 1887 1.377725 AGGACTTGGCGGCAAGATG 60.378 57.895 46.03 28.32 36.16 2.90
1736 1888 1.377725 CAGGACTTGGCGGCAAGAT 60.378 57.895 46.03 33.03 36.16 2.40
1737 1889 2.032528 CAGGACTTGGCGGCAAGA 59.967 61.111 46.03 20.21 36.16 3.02
1738 1890 3.741476 GCAGGACTTGGCGGCAAG 61.741 66.667 40.40 40.40 38.11 4.01
1739 1891 4.577677 TGCAGGACTTGGCGGCAA 62.578 61.111 24.02 24.02 0.00 4.52
1740 1892 4.577677 TTGCAGGACTTGGCGGCA 62.578 61.111 7.97 7.97 0.00 5.69
1741 1893 2.362329 TTTTTGCAGGACTTGGCGGC 62.362 55.000 0.00 0.00 0.00 6.53
1742 1894 0.318120 ATTTTTGCAGGACTTGGCGG 59.682 50.000 0.00 0.00 0.00 6.13
1743 1895 2.153366 AATTTTTGCAGGACTTGGCG 57.847 45.000 0.00 0.00 0.00 5.69
1744 1896 7.665561 TTTAATAATTTTTGCAGGACTTGGC 57.334 32.000 0.00 0.00 0.00 4.52
1775 1927 0.096628 AGTACGTAGTTCGAGCAGCG 59.903 55.000 12.24 12.24 37.78 5.18
1828 1984 4.152402 ACGACGTCTGAAATGAAATCCTTG 59.848 41.667 14.70 0.00 0.00 3.61
2050 2298 1.133199 TGGTTGGTTCTTGCTGGGAAT 60.133 47.619 0.00 0.00 0.00 3.01
2176 2444 1.265365 GCACTGGTGTTTCTTCTCTGC 59.735 52.381 2.64 0.00 0.00 4.26
2190 2464 1.078918 TCATGGCTCTTCGCACTGG 60.079 57.895 0.00 0.00 41.67 4.00
2199 2473 0.180642 CACCTGATGCTCATGGCTCT 59.819 55.000 7.54 0.00 42.39 4.09
2269 2555 2.917227 AAGGCCGGCCAAACCTTG 60.917 61.111 45.13 0.00 42.21 3.61
2278 2564 1.440145 GCATGTTCTAGAAGGCCGGC 61.440 60.000 21.18 21.18 0.00 6.13
2291 2577 2.779755 TCTTCCGTATGTGGCATGTT 57.220 45.000 0.00 0.00 0.00 2.71
2332 2626 2.421073 TGCAAAAATCTCTGCTCGATGG 59.579 45.455 0.00 0.00 39.38 3.51
2413 8545 3.619979 GCCTACTAACCACAAGTGATGCT 60.620 47.826 0.94 0.00 0.00 3.79
2425 8557 2.168521 TGATGAGCTGTGCCTACTAACC 59.831 50.000 0.00 0.00 0.00 2.85
2440 8579 8.664798 TCATTTTAATTACACGACCTTGATGAG 58.335 33.333 0.00 0.00 0.00 2.90
2465 9641 2.559231 AGACCGGAGTTCTTGAAGACTC 59.441 50.000 9.46 13.05 0.00 3.36
2487 9663 2.234300 TGACCGCGGATTATTCCTTC 57.766 50.000 35.90 16.21 40.17 3.46
2488 9664 2.550208 GGATGACCGCGGATTATTCCTT 60.550 50.000 35.90 5.18 40.17 3.36
2489 9665 1.002087 GGATGACCGCGGATTATTCCT 59.998 52.381 35.90 11.55 40.17 3.36
2490 9666 1.270625 TGGATGACCGCGGATTATTCC 60.271 52.381 35.90 26.75 39.42 3.01
2491 9667 2.163818 TGGATGACCGCGGATTATTC 57.836 50.000 35.90 19.51 39.42 1.75
2492 9668 2.426522 CATGGATGACCGCGGATTATT 58.573 47.619 35.90 9.07 39.42 1.40
2493 9669 1.339055 CCATGGATGACCGCGGATTAT 60.339 52.381 35.90 21.92 39.42 1.28
2495 9671 1.227943 CCATGGATGACCGCGGATT 60.228 57.895 35.90 16.07 39.42 3.01
2496 9672 1.695114 TTCCATGGATGACCGCGGAT 61.695 55.000 35.90 17.02 38.39 4.18
2497 9673 2.310327 CTTCCATGGATGACCGCGGA 62.310 60.000 35.90 11.57 39.42 5.54
2498 9674 1.889105 CTTCCATGGATGACCGCGG 60.889 63.158 26.86 26.86 39.42 6.46
2499 9675 1.889105 CCTTCCATGGATGACCGCG 60.889 63.158 25.39 0.00 39.42 6.46
2500 9676 1.526917 CCCTTCCATGGATGACCGC 60.527 63.158 25.39 0.00 39.42 5.68
2506 9682 0.776176 GAGCCATCCCTTCCATGGAT 59.224 55.000 17.06 0.00 42.90 3.41
2507 9683 0.327867 AGAGCCATCCCTTCCATGGA 60.328 55.000 11.44 11.44 43.32 3.41
2508 9684 0.110104 GAGAGCCATCCCTTCCATGG 59.890 60.000 4.97 4.97 43.47 3.66
2509 9685 0.110104 GGAGAGCCATCCCTTCCATG 59.890 60.000 0.00 0.00 32.79 3.66
2510 9686 0.029267 AGGAGAGCCATCCCTTCCAT 60.029 55.000 1.20 0.00 40.53 3.41
2511 9687 0.253347 AAGGAGAGCCATCCCTTCCA 60.253 55.000 1.20 0.00 40.53 3.53
2512 9688 0.472044 GAAGGAGAGCCATCCCTTCC 59.528 60.000 8.73 0.00 41.90 3.46
2513 9689 0.472044 GGAAGGAGAGCCATCCCTTC 59.528 60.000 10.92 10.92 44.56 3.46
2514 9690 2.626510 GGAAGGAGAGCCATCCCTT 58.373 57.895 1.20 0.00 44.56 3.95
2515 9691 4.409257 GGAAGGAGAGCCATCCCT 57.591 61.111 1.20 0.00 44.56 4.20
2518 9694 1.385206 AGGGGGAAGGAGAGCCATC 60.385 63.158 0.00 0.00 36.29 3.51
2519 9695 1.385206 GAGGGGGAAGGAGAGCCAT 60.385 63.158 0.00 0.00 36.29 4.40
2520 9696 2.041265 GAGGGGGAAGGAGAGCCA 59.959 66.667 0.00 0.00 36.29 4.75
2521 9697 2.770475 GGAGGGGGAAGGAGAGCC 60.770 72.222 0.00 0.00 0.00 4.70
2522 9698 1.764454 GAGGAGGGGGAAGGAGAGC 60.764 68.421 0.00 0.00 0.00 4.09
2523 9699 0.105709 GAGAGGAGGGGGAAGGAGAG 60.106 65.000 0.00 0.00 0.00 3.20
2527 9703 3.157949 GCGAGAGGAGGGGGAAGG 61.158 72.222 0.00 0.00 0.00 3.46
2528 9704 3.532155 CGCGAGAGGAGGGGGAAG 61.532 72.222 0.00 0.00 0.00 3.46
2587 9763 2.805353 CTGACTTGGCCGACGACG 60.805 66.667 0.00 0.00 39.43 5.12
2588 9764 2.432628 CCTGACTTGGCCGACGAC 60.433 66.667 0.00 0.00 0.00 4.34
2589 9765 2.915659 ACCTGACTTGGCCGACGA 60.916 61.111 0.00 0.00 0.00 4.20
2590 9766 2.738521 CACCTGACTTGGCCGACG 60.739 66.667 0.00 0.00 0.00 5.12
2591 9767 3.050275 GCACCTGACTTGGCCGAC 61.050 66.667 0.00 0.00 0.00 4.79
2592 9768 4.680237 CGCACCTGACTTGGCCGA 62.680 66.667 0.00 0.00 0.00 5.54
2593 9769 4.988598 ACGCACCTGACTTGGCCG 62.989 66.667 0.00 0.00 0.00 6.13
2594 9770 3.050275 GACGCACCTGACTTGGCC 61.050 66.667 0.00 0.00 0.00 5.36
2595 9771 3.050275 GGACGCACCTGACTTGGC 61.050 66.667 0.00 0.00 35.41 4.52
2596 9772 2.358737 GGGACGCACCTGACTTGG 60.359 66.667 0.00 0.00 38.98 3.61
2597 9773 2.358737 GGGGACGCACCTGACTTG 60.359 66.667 0.00 0.00 38.98 3.16
2598 9774 3.637273 GGGGGACGCACCTGACTT 61.637 66.667 0.00 0.00 42.57 3.01
2599 9775 4.640690 AGGGGGACGCACCTGACT 62.641 66.667 0.00 0.00 46.88 3.41
2603 9779 3.637273 GAACAGGGGGACGCACCT 61.637 66.667 0.00 0.00 46.88 4.00
2604 9780 4.717313 GGAACAGGGGGACGCACC 62.717 72.222 0.00 0.00 46.88 5.01
2605 9781 4.717313 GGGAACAGGGGGACGCAC 62.717 72.222 0.00 0.00 46.88 5.34
2606 9782 4.974438 AGGGAACAGGGGGACGCA 62.974 66.667 0.00 0.00 46.88 5.24
2607 9783 4.410400 CAGGGAACAGGGGGACGC 62.410 72.222 0.00 0.00 43.76 5.19
2608 9784 2.928396 ACAGGGAACAGGGGGACG 60.928 66.667 0.00 0.00 0.00 4.79
2609 9785 2.603652 GGACAGGGAACAGGGGGAC 61.604 68.421 0.00 0.00 0.00 4.46
2610 9786 2.204090 GGACAGGGAACAGGGGGA 60.204 66.667 0.00 0.00 0.00 4.81
2611 9787 3.339093 GGGACAGGGAACAGGGGG 61.339 72.222 0.00 0.00 0.00 5.40
2612 9788 3.339093 GGGGACAGGGAACAGGGG 61.339 72.222 0.00 0.00 0.00 4.79
2613 9789 3.339093 GGGGGACAGGGAACAGGG 61.339 72.222 0.00 0.00 0.00 4.45
2614 9790 2.204151 AGGGGGACAGGGAACAGG 60.204 66.667 0.00 0.00 0.00 4.00
2615 9791 2.660064 CGAGGGGGACAGGGAACAG 61.660 68.421 0.00 0.00 0.00 3.16
2616 9792 2.606519 CGAGGGGGACAGGGAACA 60.607 66.667 0.00 0.00 0.00 3.18
2617 9793 2.606826 ACGAGGGGGACAGGGAAC 60.607 66.667 0.00 0.00 0.00 3.62
2618 9794 2.606519 CACGAGGGGGACAGGGAA 60.607 66.667 0.00 0.00 0.00 3.97
2621 9797 3.775654 GAGCACGAGGGGGACAGG 61.776 72.222 0.00 0.00 0.00 4.00
2622 9798 3.775654 GGAGCACGAGGGGGACAG 61.776 72.222 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.