Multiple sequence alignment - TraesCS5D01G245500

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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 TraesCS5D01G245500 chr5D 100.000 3761 0 0 1 3761 353807061 353803301 0.000000e+00 6946
1 TraesCS5D01G245500 chr5A 90.660 2302 95 52 738 2968 454772060 454769808 0.000000e+00 2950
2 TraesCS5D01G245500 chr5A 93.185 807 42 5 2961 3761 454769655 454768856 0.000000e+00 1173
3 TraesCS5D01G245500 chr5B 92.544 1985 74 36 973 2915 418014213 418012261 0.000000e+00 2778
4 TraesCS5D01G245500 chr5B 93.086 810 35 9 2960 3761 418012010 418011214 0.000000e+00 1166
5 TraesCS5D01G245500 chr3D 89.907 644 38 12 1 619 504994768 504994127 0.000000e+00 804
6 TraesCS5D01G245500 chr3D 91.163 215 16 3 406 619 504998080 504998292 4.750000e-74 289
7 TraesCS5D01G245500 chr1A 89.181 647 42 10 1 620 29980667 29981312 0.000000e+00 782
8 TraesCS5D01G245500 chr1A 75.767 652 115 28 2 620 363456609 363455968 4.750000e-74 289
9 TraesCS5D01G245500 chr6D 87.578 644 41 18 1 619 44820389 44819760 0.000000e+00 710
10 TraesCS5D01G245500 chr2D 86.977 645 56 17 1 619 612481012 612481654 0.000000e+00 701
11 TraesCS5D01G245500 chr2A 85.559 644 64 11 5 620 561141208 561140566 0.000000e+00 647
12 TraesCS5D01G245500 chr2A 81.366 161 30 0 70 230 699591178 699591338 8.480000e-27 132
13 TraesCS5D01G245500 chr7A 84.853 647 63 18 2 619 516103491 516104131 1.480000e-173 619
14 TraesCS5D01G245500 chr1B 80.428 654 83 25 2 619 485682100 485682744 1.230000e-124 457
15 TraesCS5D01G245500 chr4B 78.537 629 105 21 2 617 405934869 405935480 1.640000e-103 387
16 TraesCS5D01G245500 chr4A 76.498 651 111 27 2 619 98587571 98588212 2.180000e-82 316
17 TraesCS5D01G245500 chr4D 80.315 254 48 2 2 254 170699603 170699855 1.380000e-44 191
18 TraesCS5D01G245500 chr3B 76.062 259 56 6 2 257 562919579 562919834 3.050000e-26 130


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 TraesCS5D01G245500 chr5D 353803301 353807061 3760 True 6946.0 6946 100.0000 1 3761 1 chr5D.!!$R1 3760
1 TraesCS5D01G245500 chr5A 454768856 454772060 3204 True 2061.5 2950 91.9225 738 3761 2 chr5A.!!$R1 3023
2 TraesCS5D01G245500 chr5B 418011214 418014213 2999 True 1972.0 2778 92.8150 973 3761 2 chr5B.!!$R1 2788
3 TraesCS5D01G245500 chr3D 504994127 504994768 641 True 804.0 804 89.9070 1 619 1 chr3D.!!$R1 618
4 TraesCS5D01G245500 chr1A 29980667 29981312 645 False 782.0 782 89.1810 1 620 1 chr1A.!!$F1 619
5 TraesCS5D01G245500 chr1A 363455968 363456609 641 True 289.0 289 75.7670 2 620 1 chr1A.!!$R1 618
6 TraesCS5D01G245500 chr6D 44819760 44820389 629 True 710.0 710 87.5780 1 619 1 chr6D.!!$R1 618
7 TraesCS5D01G245500 chr2D 612481012 612481654 642 False 701.0 701 86.9770 1 619 1 chr2D.!!$F1 618
8 TraesCS5D01G245500 chr2A 561140566 561141208 642 True 647.0 647 85.5590 5 620 1 chr2A.!!$R1 615
9 TraesCS5D01G245500 chr7A 516103491 516104131 640 False 619.0 619 84.8530 2 619 1 chr7A.!!$F1 617
10 TraesCS5D01G245500 chr1B 485682100 485682744 644 False 457.0 457 80.4280 2 619 1 chr1B.!!$F1 617
11 TraesCS5D01G245500 chr4B 405934869 405935480 611 False 387.0 387 78.5370 2 617 1 chr4B.!!$F1 615
12 TraesCS5D01G245500 chr4A 98587571 98588212 641 False 316.0 316 76.4980 2 619 1 chr4A.!!$F1 617

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
688 747 0.033781 TGCAAATGGGCTTTGTCTGC 59.966 50.0 1.82 0.0 45.05 4.26 F
719 778 0.165944 GCCCGAGTGACGAAAATGTG 59.834 55.0 0.00 0.0 45.77 3.21 F
720 779 0.165944 CCCGAGTGACGAAAATGTGC 59.834 55.0 0.00 0.0 45.77 4.57 F
1938 2075 0.170116 AGCTCTTCTTCTGCGACGAG 59.830 55.0 0.00 0.0 33.75 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1960 2097 0.107508 CGCAGGATCACCCAGTTGAT 60.108 55.000 0.00 0.0 39.02 2.57 R
2140 2277 1.819632 GGAAGCTGGCCATGTACGG 60.820 63.158 5.51 0.0 0.00 4.02 R
2182 2322 3.056328 GTTCCAGGCGAAGGTGGC 61.056 66.667 0.00 0.0 33.43 5.01 R
3248 3638 0.945099 TAGAGCTGACACTATCGCGG 59.055 55.000 6.13 0.0 33.69 6.46 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
144 146 1.150827 CAAGCACGAGAACTGCATCA 58.849 50.000 0.00 0.00 37.08 3.07
176 178 1.227147 CTCGAGCGGGCGGATTTTA 60.227 57.895 0.00 0.00 0.00 1.52
279 304 1.412453 TACGGCCTGGAACCTGTTGT 61.412 55.000 0.00 0.00 0.00 3.32
350 376 5.224821 TCATCATCTCCTCAACATCATCC 57.775 43.478 0.00 0.00 0.00 3.51
352 378 2.366590 TCATCTCCTCAACATCATCCGG 59.633 50.000 0.00 0.00 0.00 5.14
415 447 0.604578 CCCTAACCCGACGAACAAGA 59.395 55.000 0.00 0.00 0.00 3.02
416 448 1.403780 CCCTAACCCGACGAACAAGAG 60.404 57.143 0.00 0.00 0.00 2.85
417 449 1.542915 CCTAACCCGACGAACAAGAGA 59.457 52.381 0.00 0.00 0.00 3.10
493 550 4.148825 GAGACCGGGCAGCGATGT 62.149 66.667 11.69 0.00 0.00 3.06
621 680 3.121019 CCTAACGAGAGGGGAGCG 58.879 66.667 0.00 0.00 32.39 5.03
622 681 1.453379 CCTAACGAGAGGGGAGCGA 60.453 63.158 0.00 0.00 32.39 4.93
623 682 0.824182 CCTAACGAGAGGGGAGCGAT 60.824 60.000 0.00 0.00 32.39 4.58
624 683 1.544982 CCTAACGAGAGGGGAGCGATA 60.545 57.143 0.00 0.00 32.39 2.92
625 684 1.536331 CTAACGAGAGGGGAGCGATAC 59.464 57.143 0.00 0.00 0.00 2.24
626 685 1.445716 AACGAGAGGGGAGCGATACG 61.446 60.000 0.00 0.00 0.00 3.06
627 686 2.618219 CGAGAGGGGAGCGATACGG 61.618 68.421 0.00 0.00 0.00 4.02
628 687 2.913060 AGAGGGGAGCGATACGGC 60.913 66.667 0.00 0.00 0.00 5.68
629 688 3.224324 GAGGGGAGCGATACGGCA 61.224 66.667 0.00 0.00 34.64 5.69
630 689 3.214250 GAGGGGAGCGATACGGCAG 62.214 68.421 0.00 0.00 34.64 4.85
631 690 3.224324 GGGGAGCGATACGGCAGA 61.224 66.667 0.00 0.00 34.64 4.26
632 691 2.027751 GGGAGCGATACGGCAGAC 59.972 66.667 0.00 0.00 34.64 3.51
633 692 2.491022 GGGAGCGATACGGCAGACT 61.491 63.158 0.00 0.00 34.64 3.24
634 693 1.299468 GGAGCGATACGGCAGACTG 60.299 63.158 0.00 0.00 34.64 3.51
635 694 1.433879 GAGCGATACGGCAGACTGT 59.566 57.895 3.99 0.00 39.33 3.55
636 695 0.661552 GAGCGATACGGCAGACTGTA 59.338 55.000 3.99 0.00 41.84 2.74
637 696 0.663688 AGCGATACGGCAGACTGTAG 59.336 55.000 3.99 1.14 40.95 2.74
638 697 0.381089 GCGATACGGCAGACTGTAGT 59.619 55.000 3.99 7.20 40.95 2.73
639 698 1.202268 GCGATACGGCAGACTGTAGTT 60.202 52.381 3.99 0.00 40.95 2.24
640 699 2.734492 GCGATACGGCAGACTGTAGTTT 60.734 50.000 3.99 0.20 40.95 2.66
641 700 3.106672 CGATACGGCAGACTGTAGTTTC 58.893 50.000 3.99 8.19 40.95 2.78
642 701 3.181499 CGATACGGCAGACTGTAGTTTCT 60.181 47.826 3.99 0.00 40.95 2.52
643 702 2.440539 ACGGCAGACTGTAGTTTCTG 57.559 50.000 3.99 0.00 41.96 3.02
644 703 1.961394 ACGGCAGACTGTAGTTTCTGA 59.039 47.619 3.99 0.00 41.65 3.27
645 704 2.563179 ACGGCAGACTGTAGTTTCTGAT 59.437 45.455 3.99 0.00 41.65 2.90
646 705 3.006967 ACGGCAGACTGTAGTTTCTGATT 59.993 43.478 3.99 0.00 41.65 2.57
647 706 3.614616 CGGCAGACTGTAGTTTCTGATTC 59.385 47.826 3.99 0.00 41.65 2.52
648 707 3.614616 GGCAGACTGTAGTTTCTGATTCG 59.385 47.826 3.99 0.00 41.65 3.34
649 708 3.061429 GCAGACTGTAGTTTCTGATTCGC 59.939 47.826 3.99 0.00 41.65 4.70
650 709 4.489810 CAGACTGTAGTTTCTGATTCGCT 58.510 43.478 0.00 0.00 41.65 4.93
651 710 4.560819 CAGACTGTAGTTTCTGATTCGCTC 59.439 45.833 0.00 0.00 41.65 5.03
652 711 3.502920 ACTGTAGTTTCTGATTCGCTCG 58.497 45.455 0.00 0.00 0.00 5.03
653 712 3.190744 ACTGTAGTTTCTGATTCGCTCGA 59.809 43.478 0.00 0.00 0.00 4.04
654 713 4.142359 ACTGTAGTTTCTGATTCGCTCGAT 60.142 41.667 0.00 0.00 0.00 3.59
655 714 4.352039 TGTAGTTTCTGATTCGCTCGATC 58.648 43.478 0.00 0.00 0.00 3.69
656 715 3.791973 AGTTTCTGATTCGCTCGATCT 57.208 42.857 0.00 0.00 0.00 2.75
657 716 3.443037 AGTTTCTGATTCGCTCGATCTG 58.557 45.455 0.00 0.00 0.00 2.90
658 717 3.119316 AGTTTCTGATTCGCTCGATCTGT 60.119 43.478 0.00 0.00 0.00 3.41
659 718 4.096532 AGTTTCTGATTCGCTCGATCTGTA 59.903 41.667 0.00 0.00 0.00 2.74
660 719 3.887339 TCTGATTCGCTCGATCTGTAG 57.113 47.619 0.00 0.00 0.00 2.74
661 720 3.206964 TCTGATTCGCTCGATCTGTAGT 58.793 45.455 0.00 0.00 0.00 2.73
662 721 3.002759 TCTGATTCGCTCGATCTGTAGTG 59.997 47.826 0.00 0.00 0.00 2.74
663 722 2.047769 GATTCGCTCGATCTGTAGTGC 58.952 52.381 0.00 0.00 0.00 4.40
664 723 1.095600 TTCGCTCGATCTGTAGTGCT 58.904 50.000 0.00 0.00 0.00 4.40
665 724 0.378610 TCGCTCGATCTGTAGTGCTG 59.621 55.000 0.00 0.00 0.00 4.41
666 725 1.205485 CGCTCGATCTGTAGTGCTGC 61.205 60.000 0.00 0.00 0.00 5.25
667 726 0.179127 GCTCGATCTGTAGTGCTGCA 60.179 55.000 0.00 0.00 0.00 4.41
668 727 1.737029 GCTCGATCTGTAGTGCTGCAA 60.737 52.381 2.77 0.00 0.00 4.08
669 728 2.819115 CTCGATCTGTAGTGCTGCAAT 58.181 47.619 8.00 8.00 0.00 3.56
670 729 2.538861 CTCGATCTGTAGTGCTGCAATG 59.461 50.000 13.47 0.00 0.00 2.82
671 730 1.004185 CGATCTGTAGTGCTGCAATGC 60.004 52.381 13.47 12.27 0.00 3.56
672 731 2.011947 GATCTGTAGTGCTGCAATGCA 58.988 47.619 18.94 18.94 41.05 3.96
673 732 1.894881 TCTGTAGTGCTGCAATGCAA 58.105 45.000 20.25 9.85 45.12 4.08
674 733 2.228925 TCTGTAGTGCTGCAATGCAAA 58.771 42.857 20.25 6.21 45.12 3.68
675 734 2.821378 TCTGTAGTGCTGCAATGCAAAT 59.179 40.909 20.25 0.00 45.12 2.32
676 735 2.921121 CTGTAGTGCTGCAATGCAAATG 59.079 45.455 20.25 6.88 45.12 2.32
677 736 2.264813 GTAGTGCTGCAATGCAAATGG 58.735 47.619 13.47 0.00 45.12 3.16
678 737 0.036765 AGTGCTGCAATGCAAATGGG 60.037 50.000 9.92 0.00 45.12 4.00
679 738 1.376166 TGCTGCAATGCAAATGGGC 60.376 52.632 9.92 9.45 40.29 5.36
680 739 1.078708 GCTGCAATGCAAATGGGCT 60.079 52.632 9.92 0.00 38.41 5.19
681 740 0.675522 GCTGCAATGCAAATGGGCTT 60.676 50.000 9.92 0.00 38.41 4.35
682 741 1.816074 CTGCAATGCAAATGGGCTTT 58.184 45.000 9.92 0.00 38.41 3.51
683 742 1.466950 CTGCAATGCAAATGGGCTTTG 59.533 47.619 9.92 11.08 46.08 2.77
684 743 1.202782 TGCAATGCAAATGGGCTTTGT 60.203 42.857 5.01 0.00 45.47 2.83
685 744 1.465777 GCAATGCAAATGGGCTTTGTC 59.534 47.619 0.00 7.31 45.47 3.18
686 745 2.872842 GCAATGCAAATGGGCTTTGTCT 60.873 45.455 0.00 0.00 45.47 3.41
687 746 2.739913 CAATGCAAATGGGCTTTGTCTG 59.260 45.455 0.00 0.00 45.05 3.51
688 747 0.033781 TGCAAATGGGCTTTGTCTGC 59.966 50.000 1.82 0.00 45.05 4.26
689 748 0.319405 GCAAATGGGCTTTGTCTGCT 59.681 50.000 1.82 0.00 45.05 4.24
690 749 1.938016 GCAAATGGGCTTTGTCTGCTG 60.938 52.381 1.82 0.00 45.05 4.41
691 750 1.614903 CAAATGGGCTTTGTCTGCTGA 59.385 47.619 0.00 0.00 39.55 4.26
692 751 2.226962 AATGGGCTTTGTCTGCTGAT 57.773 45.000 0.00 0.00 0.00 2.90
693 752 2.226962 ATGGGCTTTGTCTGCTGATT 57.773 45.000 0.00 0.00 0.00 2.57
694 753 1.250328 TGGGCTTTGTCTGCTGATTG 58.750 50.000 0.00 0.00 0.00 2.67
695 754 1.251251 GGGCTTTGTCTGCTGATTGT 58.749 50.000 0.00 0.00 0.00 2.71
696 755 1.200948 GGGCTTTGTCTGCTGATTGTC 59.799 52.381 0.00 0.00 0.00 3.18
697 756 2.157738 GGCTTTGTCTGCTGATTGTCT 58.842 47.619 0.00 0.00 0.00 3.41
698 757 2.095364 GGCTTTGTCTGCTGATTGTCTG 60.095 50.000 0.00 0.00 0.00 3.51
699 758 2.095364 GCTTTGTCTGCTGATTGTCTGG 60.095 50.000 0.00 0.00 0.00 3.86
700 759 2.189594 TTGTCTGCTGATTGTCTGGG 57.810 50.000 0.00 0.00 0.00 4.45
701 760 0.321919 TGTCTGCTGATTGTCTGGGC 60.322 55.000 0.00 0.00 0.00 5.36
702 761 1.028868 GTCTGCTGATTGTCTGGGCC 61.029 60.000 0.00 0.00 0.00 5.80
703 762 1.751927 CTGCTGATTGTCTGGGCCC 60.752 63.158 17.59 17.59 0.00 5.80
704 763 2.825836 GCTGATTGTCTGGGCCCG 60.826 66.667 19.37 12.57 0.00 6.13
705 764 2.989639 CTGATTGTCTGGGCCCGA 59.010 61.111 19.37 14.97 0.00 5.14
706 765 1.153289 CTGATTGTCTGGGCCCGAG 60.153 63.158 19.37 15.85 0.00 4.63
707 766 1.903877 CTGATTGTCTGGGCCCGAGT 61.904 60.000 19.37 6.56 0.00 4.18
708 767 1.450312 GATTGTCTGGGCCCGAGTG 60.450 63.158 19.37 7.46 0.00 3.51
709 768 1.899437 GATTGTCTGGGCCCGAGTGA 61.899 60.000 19.37 9.96 0.00 3.41
710 769 2.185310 ATTGTCTGGGCCCGAGTGAC 62.185 60.000 19.37 21.25 0.00 3.67
711 770 4.436998 GTCTGGGCCCGAGTGACG 62.437 72.222 19.37 0.00 42.18 4.35
712 771 4.671590 TCTGGGCCCGAGTGACGA 62.672 66.667 19.37 1.43 45.77 4.20
713 772 3.691342 CTGGGCCCGAGTGACGAA 61.691 66.667 19.37 0.00 45.77 3.85
714 773 3.234630 CTGGGCCCGAGTGACGAAA 62.235 63.158 19.37 0.00 45.77 3.46
715 774 2.031465 GGGCCCGAGTGACGAAAA 59.969 61.111 5.69 0.00 45.77 2.29
716 775 1.376812 GGGCCCGAGTGACGAAAAT 60.377 57.895 5.69 0.00 45.77 1.82
717 776 1.644786 GGGCCCGAGTGACGAAAATG 61.645 60.000 5.69 0.00 45.77 2.32
718 777 0.953960 GGCCCGAGTGACGAAAATGT 60.954 55.000 0.00 0.00 45.77 2.71
719 778 0.165944 GCCCGAGTGACGAAAATGTG 59.834 55.000 0.00 0.00 45.77 3.21
720 779 0.165944 CCCGAGTGACGAAAATGTGC 59.834 55.000 0.00 0.00 45.77 4.57
721 780 0.865111 CCGAGTGACGAAAATGTGCA 59.135 50.000 0.00 0.00 45.77 4.57
722 781 1.464608 CCGAGTGACGAAAATGTGCAT 59.535 47.619 0.00 0.00 45.77 3.96
723 782 2.474526 CCGAGTGACGAAAATGTGCATC 60.475 50.000 0.00 0.00 45.77 3.91
724 783 2.474526 CGAGTGACGAAAATGTGCATCC 60.475 50.000 0.00 0.00 45.77 3.51
725 784 2.483877 GAGTGACGAAAATGTGCATCCA 59.516 45.455 0.00 0.00 0.00 3.41
726 785 3.084039 AGTGACGAAAATGTGCATCCAT 58.916 40.909 0.00 0.00 0.00 3.41
727 786 3.507233 AGTGACGAAAATGTGCATCCATT 59.493 39.130 0.00 0.00 36.62 3.16
728 787 4.022068 AGTGACGAAAATGTGCATCCATTT 60.022 37.500 8.96 8.96 44.71 2.32
729 788 5.182950 AGTGACGAAAATGTGCATCCATTTA 59.817 36.000 13.79 0.00 42.63 1.40
730 789 5.861251 GTGACGAAAATGTGCATCCATTTAA 59.139 36.000 13.79 0.00 42.63 1.52
731 790 6.364706 GTGACGAAAATGTGCATCCATTTAAA 59.635 34.615 13.79 0.00 42.63 1.52
732 791 6.925718 TGACGAAAATGTGCATCCATTTAAAA 59.074 30.769 13.79 0.01 42.63 1.52
733 792 7.439356 TGACGAAAATGTGCATCCATTTAAAAA 59.561 29.630 13.79 0.56 42.63 1.94
758 817 2.607750 AGGACACCGGCCACTCAT 60.608 61.111 0.00 0.00 0.00 2.90
779 842 0.815095 TCGAGGCGCTGAATTCACTA 59.185 50.000 7.64 0.00 0.00 2.74
780 843 1.202302 TCGAGGCGCTGAATTCACTAG 60.202 52.381 7.64 1.00 0.00 2.57
787 850 3.201290 CGCTGAATTCACTAGGAAGCAT 58.799 45.455 3.38 0.00 39.30 3.79
788 851 3.002042 CGCTGAATTCACTAGGAAGCATG 59.998 47.826 3.38 0.00 39.30 4.06
803 867 6.715280 AGGAAGCATGTGAAAGAAGAGAATA 58.285 36.000 0.00 0.00 0.00 1.75
832 896 3.615056 TCATCTACGCACATAAACAACGG 59.385 43.478 0.00 0.00 0.00 4.44
853 917 4.750098 CGGAAGTTTGTATCTCACACAACT 59.250 41.667 0.00 0.00 38.75 3.16
855 919 6.422701 CGGAAGTTTGTATCTCACACAACTTA 59.577 38.462 12.97 0.00 42.26 2.24
867 940 4.734854 TCACACAACTTACGTCGTTACTTC 59.265 41.667 1.78 0.00 0.00 3.01
870 943 4.086245 CACAACTTACGTCGTTACTTCGAG 59.914 45.833 1.78 0.00 40.52 4.04
871 944 4.214437 CAACTTACGTCGTTACTTCGAGT 58.786 43.478 1.78 0.00 40.52 4.18
904 977 3.072476 TGAAACCTCCAAGTCCGAATTCT 59.928 43.478 3.52 0.00 0.00 2.40
916 989 3.064207 TCCGAATTCTCCGTCAACTTTG 58.936 45.455 3.52 0.00 0.00 2.77
922 995 0.600255 CTCCGTCAACTTTGCTCGGT 60.600 55.000 17.98 0.00 41.90 4.69
934 1007 1.153549 GCTCGGTTGGGCTAGTGAG 60.154 63.158 0.00 0.00 0.00 3.51
965 1038 3.414700 CGGTTGAGCTCGTGCACC 61.415 66.667 12.15 11.17 42.74 5.01
1197 1300 4.781959 GCGCGCCACGGTAGTACA 62.782 66.667 23.24 0.00 43.93 2.90
1198 1301 2.103538 CGCGCCACGGTAGTACAT 59.896 61.111 0.00 0.00 38.44 2.29
1199 1302 2.228241 CGCGCCACGGTAGTACATG 61.228 63.158 0.00 0.00 38.44 3.21
1200 1303 1.140161 GCGCCACGGTAGTACATGA 59.860 57.895 0.00 0.00 0.00 3.07
1201 1304 1.143969 GCGCCACGGTAGTACATGAC 61.144 60.000 0.00 0.00 0.00 3.06
1266 1369 3.700154 CATATGTCCACTCACTCACTCG 58.300 50.000 0.00 0.00 0.00 4.18
1299 1406 3.057734 ACGAACGATGGTTTCAGAGAAC 58.942 45.455 0.14 0.00 36.24 3.01
1848 1958 1.002792 GCCAAGAACAACAAGGACGAC 60.003 52.381 0.00 0.00 0.00 4.34
1849 1959 1.260561 CCAAGAACAACAAGGACGACG 59.739 52.381 0.00 0.00 0.00 5.12
1850 1960 2.198406 CAAGAACAACAAGGACGACGA 58.802 47.619 0.00 0.00 0.00 4.20
1852 1962 0.857287 GAACAACAAGGACGACGACC 59.143 55.000 8.37 8.37 0.00 4.79
1938 2075 0.170116 AGCTCTTCTTCTGCGACGAG 59.830 55.000 0.00 0.00 33.75 4.18
1998 2135 0.460459 GCTCCAACCTCTACTTCGCC 60.460 60.000 0.00 0.00 0.00 5.54
2116 2253 2.357034 CGTCCAACGAGGTGTGGG 60.357 66.667 0.00 0.00 46.05 4.61
2140 2277 1.063616 TCATCACGAGCTACTACACGC 59.936 52.381 0.00 0.00 0.00 5.34
2172 2312 3.077359 CAGCTTCCAAGAAAAGATCGGT 58.923 45.455 0.00 0.00 0.00 4.69
2380 2523 3.526534 GAGAAGCTCAAGTCCATGTACC 58.473 50.000 0.00 0.00 0.00 3.34
2765 2914 7.154656 GGCCTCAAACTATTTGACTGATTTTT 58.845 34.615 0.00 0.00 44.21 1.94
2846 3008 4.437390 GGTGTTGTGTGAACTTCTCTTGTG 60.437 45.833 0.00 0.00 0.00 3.33
2847 3009 4.154195 GTGTTGTGTGAACTTCTCTTGTGT 59.846 41.667 0.00 0.00 0.00 3.72
2848 3010 4.759693 TGTTGTGTGAACTTCTCTTGTGTT 59.240 37.500 0.00 0.00 0.00 3.32
2849 3011 4.944962 TGTGTGAACTTCTCTTGTGTTG 57.055 40.909 0.00 0.00 0.00 3.33
2900 3062 9.724839 TGTTGTTTTGCTAAATGTAGTTACTTC 57.275 29.630 0.00 0.00 0.00 3.01
3019 3402 4.473444 AGAGAAAAGATTGCAAGGTTGGA 58.527 39.130 4.94 0.00 0.00 3.53
3076 3466 9.990360 TCTGAACAATAAGTACAATCAGTGTAA 57.010 29.630 0.00 0.00 44.38 2.41
3120 3510 7.147880 ACCTACTTGATACATGTACAGAGGAAC 60.148 40.741 22.43 0.00 0.00 3.62
3159 3549 2.223377 GCAAACTACGGAGGTTCACTTG 59.777 50.000 0.00 0.00 26.39 3.16
3189 3579 6.510799 GCGTCTTCTTCCTATTCATGAACATG 60.511 42.308 11.07 8.31 40.09 3.21
3191 3581 5.824624 TCTTCTTCCTATTCATGAACATGGC 59.175 40.000 11.07 0.00 39.24 4.40
3270 3660 1.001158 GCGATAGTGTCAGCTCTACCC 60.001 57.143 0.00 0.00 39.35 3.69
3274 3664 0.115349 AGTGTCAGCTCTACCCAGGT 59.885 55.000 0.00 0.00 0.00 4.00
3306 3696 1.609555 GTATGAGAAGCGGACGATCCT 59.390 52.381 0.00 0.00 33.30 3.24
3327 3717 1.545759 CTGCATCAAAAGAGCATGCG 58.454 50.000 13.01 0.00 44.99 4.73
3390 3783 2.483288 GCCGTGTAATGTTGGCCG 59.517 61.111 0.00 0.00 41.70 6.13
3527 3920 3.311871 GTCAGCTGATGCAACTTATCCAG 59.688 47.826 21.47 0.00 42.74 3.86
3549 3942 0.336737 TCCTCACCTCTCCCTCCTTC 59.663 60.000 0.00 0.00 0.00 3.46
3737 4130 1.080298 GTGCATTTGCTGAGGCCAC 60.080 57.895 5.01 0.00 42.66 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
144 146 3.752222 CCGCTCGAGAGTAACCTATACAT 59.248 47.826 18.75 0.00 0.00 2.29
176 178 1.274416 TGGGATCTGGCCTAGGAAGTT 60.274 52.381 14.75 4.02 0.00 2.66
279 304 3.099905 AGATGATGTGGTCTTCGAGGAA 58.900 45.455 0.00 0.00 36.42 3.36
415 447 1.078426 CTCCGCCCGGTGATTTTCT 60.078 57.895 6.61 0.00 36.47 2.52
416 448 1.078708 TCTCCGCCCGGTGATTTTC 60.079 57.895 6.61 0.00 33.45 2.29
417 449 1.078426 CTCTCCGCCCGGTGATTTT 60.078 57.895 11.33 0.00 37.20 1.82
495 552 0.319641 GACTGAATACGGGGCGATCC 60.320 60.000 0.00 0.00 0.00 3.36
620 679 2.846039 AACTACAGTCTGCCGTATCG 57.154 50.000 0.00 0.00 0.00 2.92
621 680 4.106197 CAGAAACTACAGTCTGCCGTATC 58.894 47.826 0.00 0.00 35.23 2.24
622 681 3.762288 TCAGAAACTACAGTCTGCCGTAT 59.238 43.478 0.00 0.00 40.93 3.06
623 682 3.151554 TCAGAAACTACAGTCTGCCGTA 58.848 45.455 0.00 0.00 40.93 4.02
624 683 1.961394 TCAGAAACTACAGTCTGCCGT 59.039 47.619 0.00 0.00 40.93 5.68
625 684 2.724977 TCAGAAACTACAGTCTGCCG 57.275 50.000 0.00 0.00 40.93 5.69
626 685 3.614616 CGAATCAGAAACTACAGTCTGCC 59.385 47.826 0.00 0.00 40.93 4.85
627 686 3.061429 GCGAATCAGAAACTACAGTCTGC 59.939 47.826 0.00 0.00 40.93 4.26
628 687 4.489810 AGCGAATCAGAAACTACAGTCTG 58.510 43.478 0.00 0.00 42.23 3.51
629 688 4.673061 CGAGCGAATCAGAAACTACAGTCT 60.673 45.833 0.00 0.00 0.00 3.24
630 689 3.544285 CGAGCGAATCAGAAACTACAGTC 59.456 47.826 0.00 0.00 0.00 3.51
631 690 3.190744 TCGAGCGAATCAGAAACTACAGT 59.809 43.478 0.00 0.00 0.00 3.55
632 691 3.759418 TCGAGCGAATCAGAAACTACAG 58.241 45.455 0.00 0.00 0.00 2.74
633 692 3.842732 TCGAGCGAATCAGAAACTACA 57.157 42.857 0.00 0.00 0.00 2.74
634 693 4.439449 CAGATCGAGCGAATCAGAAACTAC 59.561 45.833 0.00 0.00 0.00 2.73
635 694 4.096532 ACAGATCGAGCGAATCAGAAACTA 59.903 41.667 0.00 0.00 0.00 2.24
636 695 3.119316 ACAGATCGAGCGAATCAGAAACT 60.119 43.478 0.00 0.00 0.00 2.66
637 696 3.182967 ACAGATCGAGCGAATCAGAAAC 58.817 45.455 0.00 0.00 0.00 2.78
638 697 3.510388 ACAGATCGAGCGAATCAGAAA 57.490 42.857 0.00 0.00 0.00 2.52
639 698 3.628032 ACTACAGATCGAGCGAATCAGAA 59.372 43.478 0.00 0.00 0.00 3.02
640 699 3.002759 CACTACAGATCGAGCGAATCAGA 59.997 47.826 0.00 0.00 0.00 3.27
641 700 3.295785 CACTACAGATCGAGCGAATCAG 58.704 50.000 0.00 0.00 0.00 2.90
642 701 2.541794 GCACTACAGATCGAGCGAATCA 60.542 50.000 0.00 0.00 0.00 2.57
643 702 2.047769 GCACTACAGATCGAGCGAATC 58.952 52.381 0.00 0.00 0.00 2.52
644 703 1.678627 AGCACTACAGATCGAGCGAAT 59.321 47.619 0.00 0.00 0.00 3.34
645 704 1.095600 AGCACTACAGATCGAGCGAA 58.904 50.000 0.00 0.00 0.00 4.70
646 705 0.378610 CAGCACTACAGATCGAGCGA 59.621 55.000 0.00 0.00 0.00 4.93
647 706 1.205485 GCAGCACTACAGATCGAGCG 61.205 60.000 0.00 0.00 0.00 5.03
648 707 0.179127 TGCAGCACTACAGATCGAGC 60.179 55.000 0.00 0.00 0.00 5.03
649 708 2.284263 TTGCAGCACTACAGATCGAG 57.716 50.000 0.00 0.00 0.00 4.04
650 709 2.543641 CATTGCAGCACTACAGATCGA 58.456 47.619 0.00 0.00 0.00 3.59
651 710 1.004185 GCATTGCAGCACTACAGATCG 60.004 52.381 3.15 0.00 0.00 3.69
652 711 2.011947 TGCATTGCAGCACTACAGATC 58.988 47.619 7.38 0.00 40.11 2.75
653 712 2.118313 TGCATTGCAGCACTACAGAT 57.882 45.000 7.38 0.00 40.11 2.90
654 713 1.894881 TTGCATTGCAGCACTACAGA 58.105 45.000 11.76 0.00 45.61 3.41
655 714 2.710220 TTTGCATTGCAGCACTACAG 57.290 45.000 11.76 0.00 45.61 2.74
656 715 2.352912 CCATTTGCATTGCAGCACTACA 60.353 45.455 11.76 0.00 45.61 2.74
657 716 2.264813 CCATTTGCATTGCAGCACTAC 58.735 47.619 11.76 0.00 45.61 2.73
658 717 1.205179 CCCATTTGCATTGCAGCACTA 59.795 47.619 11.76 0.00 45.61 2.74
659 718 0.036765 CCCATTTGCATTGCAGCACT 60.037 50.000 11.76 0.00 45.61 4.40
660 719 1.641123 GCCCATTTGCATTGCAGCAC 61.641 55.000 11.76 0.00 45.61 4.40
661 720 1.376166 GCCCATTTGCATTGCAGCA 60.376 52.632 11.76 3.26 40.61 4.41
662 721 0.675522 AAGCCCATTTGCATTGCAGC 60.676 50.000 11.76 11.22 40.61 5.25
663 722 1.466950 CAAAGCCCATTTGCATTGCAG 59.533 47.619 11.76 0.87 41.77 4.41
664 723 1.524848 CAAAGCCCATTTGCATTGCA 58.475 45.000 7.38 7.38 41.77 4.08
672 731 1.999648 TCAGCAGACAAAGCCCATTT 58.000 45.000 0.00 0.00 0.00 2.32
673 732 2.226962 ATCAGCAGACAAAGCCCATT 57.773 45.000 0.00 0.00 0.00 3.16
674 733 1.822990 CAATCAGCAGACAAAGCCCAT 59.177 47.619 0.00 0.00 0.00 4.00
675 734 1.250328 CAATCAGCAGACAAAGCCCA 58.750 50.000 0.00 0.00 0.00 5.36
676 735 1.200948 GACAATCAGCAGACAAAGCCC 59.799 52.381 0.00 0.00 0.00 5.19
677 736 2.095364 CAGACAATCAGCAGACAAAGCC 60.095 50.000 0.00 0.00 0.00 4.35
678 737 2.095364 CCAGACAATCAGCAGACAAAGC 60.095 50.000 0.00 0.00 0.00 3.51
679 738 2.486982 CCCAGACAATCAGCAGACAAAG 59.513 50.000 0.00 0.00 0.00 2.77
680 739 2.507484 CCCAGACAATCAGCAGACAAA 58.493 47.619 0.00 0.00 0.00 2.83
681 740 1.883638 GCCCAGACAATCAGCAGACAA 60.884 52.381 0.00 0.00 0.00 3.18
682 741 0.321919 GCCCAGACAATCAGCAGACA 60.322 55.000 0.00 0.00 0.00 3.41
683 742 1.028868 GGCCCAGACAATCAGCAGAC 61.029 60.000 0.00 0.00 0.00 3.51
684 743 1.300963 GGCCCAGACAATCAGCAGA 59.699 57.895 0.00 0.00 0.00 4.26
685 744 1.751927 GGGCCCAGACAATCAGCAG 60.752 63.158 19.95 0.00 0.00 4.24
686 745 2.356278 GGGCCCAGACAATCAGCA 59.644 61.111 19.95 0.00 0.00 4.41
687 746 2.825836 CGGGCCCAGACAATCAGC 60.826 66.667 24.92 0.00 0.00 4.26
688 747 1.153289 CTCGGGCCCAGACAATCAG 60.153 63.158 24.92 1.11 0.00 2.90
689 748 1.918293 ACTCGGGCCCAGACAATCA 60.918 57.895 24.92 0.00 0.00 2.57
690 749 1.450312 CACTCGGGCCCAGACAATC 60.450 63.158 24.92 0.00 0.00 2.67
691 750 1.918293 TCACTCGGGCCCAGACAAT 60.918 57.895 24.92 3.74 0.00 2.71
692 751 2.525629 TCACTCGGGCCCAGACAA 60.526 61.111 24.92 0.00 0.00 3.18
693 752 3.311110 GTCACTCGGGCCCAGACA 61.311 66.667 24.92 7.57 0.00 3.41
694 753 4.436998 CGTCACTCGGGCCCAGAC 62.437 72.222 24.92 21.10 35.71 3.51
695 754 4.671590 TCGTCACTCGGGCCCAGA 62.672 66.667 24.92 18.79 40.32 3.86
696 755 2.725203 TTTTCGTCACTCGGGCCCAG 62.725 60.000 24.92 20.19 40.32 4.45
697 756 2.119484 ATTTTCGTCACTCGGGCCCA 62.119 55.000 24.92 8.28 40.32 5.36
698 757 1.376812 ATTTTCGTCACTCGGGCCC 60.377 57.895 13.57 13.57 40.32 5.80
699 758 0.953960 ACATTTTCGTCACTCGGGCC 60.954 55.000 0.00 0.00 40.32 5.80
700 759 0.165944 CACATTTTCGTCACTCGGGC 59.834 55.000 0.00 0.00 40.32 6.13
701 760 0.165944 GCACATTTTCGTCACTCGGG 59.834 55.000 0.00 0.00 40.32 5.14
702 761 0.865111 TGCACATTTTCGTCACTCGG 59.135 50.000 0.00 0.00 40.32 4.63
703 762 2.474526 GGATGCACATTTTCGTCACTCG 60.475 50.000 0.00 0.00 41.41 4.18
704 763 2.483877 TGGATGCACATTTTCGTCACTC 59.516 45.455 0.00 0.00 0.00 3.51
705 764 2.503331 TGGATGCACATTTTCGTCACT 58.497 42.857 0.00 0.00 0.00 3.41
706 765 2.987413 TGGATGCACATTTTCGTCAC 57.013 45.000 0.00 0.00 0.00 3.67
707 766 4.517952 AAATGGATGCACATTTTCGTCA 57.482 36.364 8.96 0.00 45.94 4.35
708 767 6.942886 TTTAAATGGATGCACATTTTCGTC 57.057 33.333 17.41 0.00 45.94 4.20
709 768 7.721286 TTTTTAAATGGATGCACATTTTCGT 57.279 28.000 17.41 0.34 45.94 3.85
733 792 0.822121 GGCCGGTGTCCTCTGTTTTT 60.822 55.000 1.90 0.00 0.00 1.94
734 793 1.228154 GGCCGGTGTCCTCTGTTTT 60.228 57.895 1.90 0.00 0.00 2.43
735 794 2.430367 GGCCGGTGTCCTCTGTTT 59.570 61.111 1.90 0.00 0.00 2.83
736 795 2.847234 TGGCCGGTGTCCTCTGTT 60.847 61.111 1.90 0.00 0.00 3.16
743 802 1.153549 GAGATGAGTGGCCGGTGTC 60.154 63.158 1.90 0.00 0.00 3.67
758 817 0.458543 GTGAATTCAGCGCCTCGAGA 60.459 55.000 15.71 0.00 0.00 4.04
779 842 4.630644 TCTCTTCTTTCACATGCTTCCT 57.369 40.909 0.00 0.00 0.00 3.36
780 843 5.893897 ATTCTCTTCTTTCACATGCTTCC 57.106 39.130 0.00 0.00 0.00 3.46
787 850 6.206829 TGACTCTCGTATTCTCTTCTTTCACA 59.793 38.462 0.00 0.00 0.00 3.58
788 851 6.613233 TGACTCTCGTATTCTCTTCTTTCAC 58.387 40.000 0.00 0.00 0.00 3.18
803 867 1.450025 TGTGCGTAGATGACTCTCGT 58.550 50.000 0.00 0.00 32.66 4.18
812 876 3.852286 TCCGTTGTTTATGTGCGTAGAT 58.148 40.909 0.00 0.00 0.00 1.98
813 877 3.300852 TCCGTTGTTTATGTGCGTAGA 57.699 42.857 0.00 0.00 0.00 2.59
815 879 3.391965 ACTTCCGTTGTTTATGTGCGTA 58.608 40.909 0.00 0.00 0.00 4.42
816 880 2.215196 ACTTCCGTTGTTTATGTGCGT 58.785 42.857 0.00 0.00 0.00 5.24
817 881 2.961522 ACTTCCGTTGTTTATGTGCG 57.038 45.000 0.00 0.00 0.00 5.34
818 882 4.356289 ACAAACTTCCGTTGTTTATGTGC 58.644 39.130 0.00 0.00 36.07 4.57
819 883 7.581476 AGATACAAACTTCCGTTGTTTATGTG 58.419 34.615 0.00 0.00 36.07 3.21
820 884 7.442969 TGAGATACAAACTTCCGTTGTTTATGT 59.557 33.333 0.00 0.00 36.07 2.29
832 896 7.281484 CGTAAGTTGTGTGAGATACAAACTTC 58.719 38.462 16.15 11.03 42.60 3.01
853 917 2.665519 GCCACTCGAAGTAACGACGTAA 60.666 50.000 0.00 0.00 37.37 3.18
855 919 0.386478 GCCACTCGAAGTAACGACGT 60.386 55.000 0.00 0.00 37.37 4.34
867 940 2.459934 GTTTCACCTTTTTGCCACTCG 58.540 47.619 0.00 0.00 0.00 4.18
889 962 1.203994 GACGGAGAATTCGGACTTGGA 59.796 52.381 0.00 0.00 45.64 3.53
891 964 2.363788 TGACGGAGAATTCGGACTTG 57.636 50.000 0.00 0.00 45.64 3.16
899 972 2.480419 CGAGCAAAGTTGACGGAGAATT 59.520 45.455 0.00 0.00 0.00 2.17
904 977 0.179067 AACCGAGCAAAGTTGACGGA 60.179 50.000 25.29 0.00 45.30 4.69
916 989 1.153549 CTCACTAGCCCAACCGAGC 60.154 63.158 0.00 0.00 0.00 5.03
922 995 1.271379 GCTTGGAACTCACTAGCCCAA 60.271 52.381 0.00 0.00 36.78 4.12
1086 1173 2.505777 CAGAGCGTCACGAGCAGG 60.506 66.667 0.00 0.00 37.01 4.85
1096 1183 0.902516 AGGGAGAAGAAGCAGAGCGT 60.903 55.000 0.00 0.00 0.00 5.07
1193 1296 5.283717 GTGAAAATGCAATCGTGTCATGTAC 59.716 40.000 0.00 0.00 0.00 2.90
1194 1297 5.049129 TGTGAAAATGCAATCGTGTCATGTA 60.049 36.000 0.00 0.00 0.00 2.29
1195 1298 4.229096 GTGAAAATGCAATCGTGTCATGT 58.771 39.130 0.00 0.00 0.00 3.21
1196 1299 4.088923 GTGTGAAAATGCAATCGTGTCATG 59.911 41.667 0.00 0.00 0.00 3.07
1197 1300 4.229096 GTGTGAAAATGCAATCGTGTCAT 58.771 39.130 0.00 0.00 0.00 3.06
1198 1301 3.065925 TGTGTGAAAATGCAATCGTGTCA 59.934 39.130 0.00 0.00 0.00 3.58
1199 1302 3.626977 TGTGTGAAAATGCAATCGTGTC 58.373 40.909 0.00 0.00 0.00 3.67
1200 1303 3.706802 TGTGTGAAAATGCAATCGTGT 57.293 38.095 0.00 0.00 0.00 4.49
1201 1304 4.088923 GTCATGTGTGAAAATGCAATCGTG 59.911 41.667 0.00 0.00 35.80 4.35
1243 1346 2.169352 AGTGAGTGAGTGGACATATGCC 59.831 50.000 1.58 5.94 0.00 4.40
1266 1369 0.039437 TCGTTCGTCAAGGAGTGAGC 60.039 55.000 0.00 0.00 36.74 4.26
1299 1406 4.103103 TCTGACTGAGCCGTCGCG 62.103 66.667 0.00 0.00 41.18 5.87
1378 1488 4.459089 GCAGGACCCCTCGCTGAC 62.459 72.222 0.00 0.00 0.00 3.51
1569 1679 3.372554 GAGGTAGCGGCACTCCACC 62.373 68.421 1.45 1.25 0.00 4.61
1887 2024 1.215647 GTAGTCGTGCTCCAGGTGG 59.784 63.158 0.00 0.00 0.00 4.61
1959 2096 1.138859 CGCAGGATCACCCAGTTGATA 59.861 52.381 0.00 0.00 36.30 2.15
1960 2097 0.107508 CGCAGGATCACCCAGTTGAT 60.108 55.000 0.00 0.00 39.02 2.57
2140 2277 1.819632 GGAAGCTGGCCATGTACGG 60.820 63.158 5.51 0.00 0.00 4.02
2182 2322 3.056328 GTTCCAGGCGAAGGTGGC 61.056 66.667 0.00 0.00 33.43 5.01
2778 2933 5.199982 TCCTGCTTGTAAATTTATGGGGA 57.800 39.130 0.31 2.12 0.00 4.81
2869 3031 9.511144 AACTACATTTAGCAAAACAACAACTAC 57.489 29.630 0.00 0.00 0.00 2.73
2871 3033 9.511144 GTAACTACATTTAGCAAAACAACAACT 57.489 29.630 0.00 0.00 0.00 3.16
2872 3034 9.511144 AGTAACTACATTTAGCAAAACAACAAC 57.489 29.630 0.00 0.00 0.00 3.32
2874 3036 9.724839 GAAGTAACTACATTTAGCAAAACAACA 57.275 29.630 0.00 0.00 0.00 3.33
2892 3054 9.959721 TCTATATTCCTTTTGCTTGAAGTAACT 57.040 29.630 0.00 0.00 0.00 2.24
2893 3055 9.989869 GTCTATATTCCTTTTGCTTGAAGTAAC 57.010 33.333 0.00 0.00 0.00 2.50
2900 3062 6.152661 TGTTGGGTCTATATTCCTTTTGCTTG 59.847 38.462 0.00 0.00 0.00 4.01
2988 3371 7.095774 CCTTGCAATCTTTTCTCTTTGTCAATG 60.096 37.037 0.00 0.00 0.00 2.82
2989 3372 6.927381 CCTTGCAATCTTTTCTCTTTGTCAAT 59.073 34.615 0.00 0.00 0.00 2.57
2990 3373 6.127366 ACCTTGCAATCTTTTCTCTTTGTCAA 60.127 34.615 0.00 0.00 0.00 3.18
3019 3402 1.270358 GGTTTCGGTCTGAGCTTGTCT 60.270 52.381 5.23 0.00 0.00 3.41
3120 3510 5.820947 AGTTTGCTAATTTCCTACGGTATGG 59.179 40.000 0.00 0.00 0.00 2.74
3136 3526 2.895404 AGTGAACCTCCGTAGTTTGCTA 59.105 45.455 0.00 0.00 0.00 3.49
3159 3549 4.442706 TGAATAGGAAGAAGACGCATTCC 58.557 43.478 0.00 0.00 42.37 3.01
3248 3638 0.945099 TAGAGCTGACACTATCGCGG 59.055 55.000 6.13 0.00 33.69 6.46
3270 3660 1.115467 ATACGCAAGGAGGAGACCTG 58.885 55.000 0.00 0.00 46.39 4.00
3306 3696 1.403647 GCATGCTCTTTTGATGCAGCA 60.404 47.619 11.37 0.00 36.55 4.41
3527 3920 1.760480 GAGGGAGAGGTGAGGAGCC 60.760 68.421 0.00 0.00 0.00 4.70
3549 3942 2.680312 TTGAGAAGATCAAGGAGGCG 57.320 50.000 0.00 0.00 43.09 5.52
3737 4130 2.512485 AGCATCAGAAGAGATCGCAG 57.488 50.000 0.00 0.00 0.00 5.18


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

AutoCloner maintained by Alex Coulton.