Multiple sequence alignment - TraesCS1A01G033300

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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 TraesCS1A01G033300 chr1A 100.000 2415 0 0 1 2415 16037514 16039928 0.000000e+00 4460.0
1 TraesCS1A01G033300 chr1D 91.291 1619 94 25 809 2415 15519776 15521359 0.000000e+00 2165.0
2 TraesCS1A01G033300 chr1D 93.066 649 42 3 1 647 393530069 393529422 0.000000e+00 946.0
3 TraesCS1A01G033300 chr1B 87.959 980 50 28 808 1763 21804396 21805331 0.000000e+00 1094.0
4 TraesCS1A01G033300 chr1B 84.601 526 57 12 1805 2313 21805332 21805850 3.580000e-138 501.0
5 TraesCS1A01G033300 chr1B 89.216 102 5 3 2317 2415 21805969 21806067 3.260000e-24 122.0
6 TraesCS1A01G033300 chr6D 94.009 651 33 6 1 647 58443497 58444145 0.000000e+00 981.0
7 TraesCS1A01G033300 chr6D 92.901 648 44 2 1 647 4361963 4361317 0.000000e+00 941.0
8 TraesCS1A01G033300 chr2D 93.220 649 42 2 1 647 398509565 398508917 0.000000e+00 953.0
9 TraesCS1A01G033300 chr2D 93.220 649 41 3 1 647 111145625 111146272 0.000000e+00 952.0
10 TraesCS1A01G033300 chr4B 93.199 647 42 2 1 647 413164647 413164003 0.000000e+00 950.0
11 TraesCS1A01G033300 chr4B 92.912 649 43 3 1 647 20751465 20752112 0.000000e+00 941.0
12 TraesCS1A01G033300 chr5B 93.066 649 43 2 1 647 448102261 448102909 0.000000e+00 948.0
13 TraesCS1A01G033300 chr3D 93.056 648 41 4 1 647 8822849 8822205 0.000000e+00 944.0
14 TraesCS1A01G033300 chr2B 86.765 68 7 2 645 710 355308145 355308212 9.260000e-10 75.0
15 TraesCS1A01G033300 chr6A 76.429 140 20 8 679 805 445970325 445970186 2.000000e-06 63.9
16 TraesCS1A01G033300 chr4D 96.970 33 1 0 1006 1038 439996566 439996598 3.350000e-04 56.5


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 TraesCS1A01G033300 chr1A 16037514 16039928 2414 False 4460.000000 4460 100.000000 1 2415 1 chr1A.!!$F1 2414
1 TraesCS1A01G033300 chr1D 15519776 15521359 1583 False 2165.000000 2165 91.291000 809 2415 1 chr1D.!!$F1 1606
2 TraesCS1A01G033300 chr1D 393529422 393530069 647 True 946.000000 946 93.066000 1 647 1 chr1D.!!$R1 646
3 TraesCS1A01G033300 chr1B 21804396 21806067 1671 False 572.333333 1094 87.258667 808 2415 3 chr1B.!!$F1 1607
4 TraesCS1A01G033300 chr6D 58443497 58444145 648 False 981.000000 981 94.009000 1 647 1 chr6D.!!$F1 646
5 TraesCS1A01G033300 chr6D 4361317 4361963 646 True 941.000000 941 92.901000 1 647 1 chr6D.!!$R1 646
6 TraesCS1A01G033300 chr2D 398508917 398509565 648 True 953.000000 953 93.220000 1 647 1 chr2D.!!$R1 646
7 TraesCS1A01G033300 chr2D 111145625 111146272 647 False 952.000000 952 93.220000 1 647 1 chr2D.!!$F1 646
8 TraesCS1A01G033300 chr4B 413164003 413164647 644 True 950.000000 950 93.199000 1 647 1 chr4B.!!$R1 646
9 TraesCS1A01G033300 chr4B 20751465 20752112 647 False 941.000000 941 92.912000 1 647 1 chr4B.!!$F1 646
10 TraesCS1A01G033300 chr5B 448102261 448102909 648 False 948.000000 948 93.066000 1 647 1 chr5B.!!$F1 646
11 TraesCS1A01G033300 chr3D 8822205 8822849 644 True 944.000000 944 93.056000 1 647 1 chr3D.!!$R1 646

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
789 794 0.107081 AACCGTGACATTCCGTTCCA 59.893 50.0 0.0 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1610 1641 0.03759 CCACCCAAGTTCCGAATCCA 59.962 55.0 0.0 0.0 0.0 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
75 76 2.397413 CTTCCACCGCACCAACTCCT 62.397 60.000 0.00 0.00 0.00 3.69
129 130 1.378762 CCTTCTTCGCCCCCTTCAA 59.621 57.895 0.00 0.00 0.00 2.69
237 238 1.757118 TCGGCCTCGAGAATCAAGAAT 59.243 47.619 15.71 0.00 40.88 2.40
331 332 7.860373 CCTCGATGTATTGTTTTCTTTGTTTGA 59.140 33.333 0.00 0.00 0.00 2.69
348 349 7.773489 TTGTTTGAAGATTGATTACCATCCA 57.227 32.000 0.00 0.00 0.00 3.41
362 363 4.895668 ACCATCCACGAGTTAAGGTAAA 57.104 40.909 0.00 0.00 0.00 2.01
363 364 5.231702 ACCATCCACGAGTTAAGGTAAAA 57.768 39.130 0.00 0.00 0.00 1.52
575 577 2.740447 GAGGGTGACGCGAAAATAAACT 59.260 45.455 15.93 0.00 0.00 2.66
588 590 5.414454 CGAAAATAAACTGATGAAGTGGGGA 59.586 40.000 0.00 0.00 39.81 4.81
647 652 3.858638 AGATGGGAGGAGGTACCAAAAAT 59.141 43.478 15.94 0.00 42.04 1.82
648 653 4.294970 AGATGGGAGGAGGTACCAAAAATT 59.705 41.667 15.94 0.00 42.04 1.82
649 654 4.479156 TGGGAGGAGGTACCAAAAATTT 57.521 40.909 15.94 0.00 42.04 1.82
650 655 4.156477 TGGGAGGAGGTACCAAAAATTTG 58.844 43.478 15.94 0.00 42.04 2.32
651 656 4.140900 TGGGAGGAGGTACCAAAAATTTGA 60.141 41.667 15.94 0.00 40.55 2.69
652 657 5.023452 GGGAGGAGGTACCAAAAATTTGAT 58.977 41.667 15.94 0.00 40.55 2.57
653 658 6.192044 GGGAGGAGGTACCAAAAATTTGATA 58.808 40.000 15.94 0.00 40.55 2.15
654 659 6.096423 GGGAGGAGGTACCAAAAATTTGATAC 59.904 42.308 15.94 4.78 40.55 2.24
655 660 6.661805 GGAGGAGGTACCAAAAATTTGATACA 59.338 38.462 15.94 0.00 38.62 2.29
656 661 7.177744 GGAGGAGGTACCAAAAATTTGATACAA 59.822 37.037 15.94 0.00 38.62 2.41
657 662 8.664669 AGGAGGTACCAAAAATTTGATACAAT 57.335 30.769 15.94 1.18 38.62 2.71
658 663 8.749354 AGGAGGTACCAAAAATTTGATACAATC 58.251 33.333 15.94 8.69 38.62 2.67
659 664 8.527810 GGAGGTACCAAAAATTTGATACAATCA 58.472 33.333 15.94 0.00 38.62 2.57
660 665 9.921637 GAGGTACCAAAAATTTGATACAATCAA 57.078 29.630 15.94 0.00 46.77 2.57
678 683 8.408043 ACAATCAAGTGAGATAAACAATTCCA 57.592 30.769 0.00 0.00 0.00 3.53
679 684 9.028284 ACAATCAAGTGAGATAAACAATTCCAT 57.972 29.630 0.00 0.00 0.00 3.41
680 685 9.865321 CAATCAAGTGAGATAAACAATTCCATT 57.135 29.630 0.00 0.00 0.00 3.16
683 688 9.076781 TCAAGTGAGATAAACAATTCCATTTCA 57.923 29.630 0.00 0.00 0.00 2.69
684 689 9.865321 CAAGTGAGATAAACAATTCCATTTCAT 57.135 29.630 0.00 0.00 0.00 2.57
694 699 9.649167 AAACAATTCCATTTCATTTCATCTCTC 57.351 29.630 0.00 0.00 0.00 3.20
695 700 8.357290 ACAATTCCATTTCATTTCATCTCTCA 57.643 30.769 0.00 0.00 0.00 3.27
696 701 8.809066 ACAATTCCATTTCATTTCATCTCTCAA 58.191 29.630 0.00 0.00 0.00 3.02
697 702 9.647797 CAATTCCATTTCATTTCATCTCTCAAA 57.352 29.630 0.00 0.00 0.00 2.69
698 703 9.649167 AATTCCATTTCATTTCATCTCTCAAAC 57.351 29.630 0.00 0.00 0.00 2.93
699 704 7.161773 TCCATTTCATTTCATCTCTCAAACC 57.838 36.000 0.00 0.00 0.00 3.27
700 705 6.720748 TCCATTTCATTTCATCTCTCAAACCA 59.279 34.615 0.00 0.00 0.00 3.67
701 706 7.233144 TCCATTTCATTTCATCTCTCAAACCAA 59.767 33.333 0.00 0.00 0.00 3.67
702 707 7.874016 CCATTTCATTTCATCTCTCAAACCAAA 59.126 33.333 0.00 0.00 0.00 3.28
703 708 8.706035 CATTTCATTTCATCTCTCAAACCAAAC 58.294 33.333 0.00 0.00 0.00 2.93
704 709 6.957920 TCATTTCATCTCTCAAACCAAACA 57.042 33.333 0.00 0.00 0.00 2.83
705 710 6.738114 TCATTTCATCTCTCAAACCAAACAC 58.262 36.000 0.00 0.00 0.00 3.32
706 711 5.514274 TTTCATCTCTCAAACCAAACACC 57.486 39.130 0.00 0.00 0.00 4.16
707 712 4.163441 TCATCTCTCAAACCAAACACCA 57.837 40.909 0.00 0.00 0.00 4.17
708 713 4.531854 TCATCTCTCAAACCAAACACCAA 58.468 39.130 0.00 0.00 0.00 3.67
709 714 4.952957 TCATCTCTCAAACCAAACACCAAA 59.047 37.500 0.00 0.00 0.00 3.28
710 715 4.981806 TCTCTCAAACCAAACACCAAAG 57.018 40.909 0.00 0.00 0.00 2.77
711 716 4.340617 TCTCTCAAACCAAACACCAAAGT 58.659 39.130 0.00 0.00 0.00 2.66
712 717 5.502079 TCTCTCAAACCAAACACCAAAGTA 58.498 37.500 0.00 0.00 0.00 2.24
713 718 5.355910 TCTCTCAAACCAAACACCAAAGTAC 59.644 40.000 0.00 0.00 0.00 2.73
714 719 4.095185 TCTCAAACCAAACACCAAAGTACG 59.905 41.667 0.00 0.00 0.00 3.67
715 720 3.757493 TCAAACCAAACACCAAAGTACGT 59.243 39.130 0.00 0.00 0.00 3.57
716 721 4.217983 TCAAACCAAACACCAAAGTACGTT 59.782 37.500 0.00 0.00 0.00 3.99
717 722 4.787260 AACCAAACACCAAAGTACGTTT 57.213 36.364 0.00 0.00 31.96 3.60
718 723 4.359971 ACCAAACACCAAAGTACGTTTC 57.640 40.909 0.00 0.00 29.40 2.78
719 724 4.011698 ACCAAACACCAAAGTACGTTTCT 58.988 39.130 0.00 0.00 29.40 2.52
720 725 4.095334 ACCAAACACCAAAGTACGTTTCTC 59.905 41.667 0.00 0.00 29.40 2.87
721 726 4.095185 CCAAACACCAAAGTACGTTTCTCA 59.905 41.667 0.00 0.00 29.40 3.27
722 727 4.870221 AACACCAAAGTACGTTTCTCAC 57.130 40.909 0.00 0.00 0.00 3.51
723 728 4.133013 ACACCAAAGTACGTTTCTCACT 57.867 40.909 0.00 0.00 0.00 3.41
724 729 4.117685 ACACCAAAGTACGTTTCTCACTC 58.882 43.478 0.00 0.00 0.00 3.51
725 730 3.181774 CACCAAAGTACGTTTCTCACTCG 59.818 47.826 0.00 0.00 0.00 4.18
726 731 3.067180 ACCAAAGTACGTTTCTCACTCGA 59.933 43.478 0.00 0.00 0.00 4.04
727 732 4.235360 CCAAAGTACGTTTCTCACTCGAT 58.765 43.478 0.00 0.00 0.00 3.59
728 733 4.684703 CCAAAGTACGTTTCTCACTCGATT 59.315 41.667 0.00 0.00 0.00 3.34
729 734 5.388475 CCAAAGTACGTTTCTCACTCGATTG 60.388 44.000 0.00 0.00 0.00 2.67
730 735 3.243336 AGTACGTTTCTCACTCGATTGC 58.757 45.455 0.00 0.00 0.00 3.56
731 736 2.440539 ACGTTTCTCACTCGATTGCT 57.559 45.000 0.00 0.00 0.00 3.91
732 737 2.329379 ACGTTTCTCACTCGATTGCTC 58.671 47.619 0.00 0.00 0.00 4.26
733 738 1.656095 CGTTTCTCACTCGATTGCTCC 59.344 52.381 0.00 0.00 0.00 4.70
734 739 2.672478 CGTTTCTCACTCGATTGCTCCT 60.672 50.000 0.00 0.00 0.00 3.69
735 740 3.427638 CGTTTCTCACTCGATTGCTCCTA 60.428 47.826 0.00 0.00 0.00 2.94
736 741 3.784701 TTCTCACTCGATTGCTCCTAC 57.215 47.619 0.00 0.00 0.00 3.18
737 742 2.025155 TCTCACTCGATTGCTCCTACC 58.975 52.381 0.00 0.00 0.00 3.18
738 743 1.751351 CTCACTCGATTGCTCCTACCA 59.249 52.381 0.00 0.00 0.00 3.25
739 744 2.166459 CTCACTCGATTGCTCCTACCAA 59.834 50.000 0.00 0.00 0.00 3.67
740 745 2.565391 TCACTCGATTGCTCCTACCAAA 59.435 45.455 0.00 0.00 0.00 3.28
741 746 2.673368 CACTCGATTGCTCCTACCAAAC 59.327 50.000 0.00 0.00 0.00 2.93
742 747 2.301870 ACTCGATTGCTCCTACCAAACA 59.698 45.455 0.00 0.00 0.00 2.83
743 748 2.673368 CTCGATTGCTCCTACCAAACAC 59.327 50.000 0.00 0.00 0.00 3.32
744 749 2.037902 TCGATTGCTCCTACCAAACACA 59.962 45.455 0.00 0.00 0.00 3.72
745 750 2.811431 CGATTGCTCCTACCAAACACAA 59.189 45.455 0.00 0.00 0.00 3.33
746 751 3.252215 CGATTGCTCCTACCAAACACAAA 59.748 43.478 0.00 0.00 0.00 2.83
747 752 4.613622 CGATTGCTCCTACCAAACACAAAG 60.614 45.833 0.00 0.00 0.00 2.77
748 753 3.569194 TGCTCCTACCAAACACAAAGA 57.431 42.857 0.00 0.00 0.00 2.52
749 754 3.211045 TGCTCCTACCAAACACAAAGAC 58.789 45.455 0.00 0.00 0.00 3.01
750 755 3.211045 GCTCCTACCAAACACAAAGACA 58.789 45.455 0.00 0.00 0.00 3.41
751 756 3.630312 GCTCCTACCAAACACAAAGACAA 59.370 43.478 0.00 0.00 0.00 3.18
752 757 4.097286 GCTCCTACCAAACACAAAGACAAA 59.903 41.667 0.00 0.00 0.00 2.83
753 758 5.393678 GCTCCTACCAAACACAAAGACAAAA 60.394 40.000 0.00 0.00 0.00 2.44
754 759 5.956642 TCCTACCAAACACAAAGACAAAAC 58.043 37.500 0.00 0.00 0.00 2.43
755 760 5.105675 TCCTACCAAACACAAAGACAAAACC 60.106 40.000 0.00 0.00 0.00 3.27
756 761 3.580731 ACCAAACACAAAGACAAAACCG 58.419 40.909 0.00 0.00 0.00 4.44
757 762 3.256136 ACCAAACACAAAGACAAAACCGA 59.744 39.130 0.00 0.00 0.00 4.69
758 763 3.610677 CCAAACACAAAGACAAAACCGAC 59.389 43.478 0.00 0.00 0.00 4.79
759 764 3.497297 AACACAAAGACAAAACCGACC 57.503 42.857 0.00 0.00 0.00 4.79
760 765 1.399089 ACACAAAGACAAAACCGACCG 59.601 47.619 0.00 0.00 0.00 4.79
761 766 0.379316 ACAAAGACAAAACCGACCGC 59.621 50.000 0.00 0.00 0.00 5.68
762 767 0.661020 CAAAGACAAAACCGACCGCT 59.339 50.000 0.00 0.00 0.00 5.52
763 768 1.868498 CAAAGACAAAACCGACCGCTA 59.132 47.619 0.00 0.00 0.00 4.26
764 769 1.792006 AAGACAAAACCGACCGCTAG 58.208 50.000 0.00 0.00 0.00 3.42
765 770 0.963962 AGACAAAACCGACCGCTAGA 59.036 50.000 0.00 0.00 0.00 2.43
766 771 1.342174 AGACAAAACCGACCGCTAGAA 59.658 47.619 0.00 0.00 0.00 2.10
767 772 1.458445 GACAAAACCGACCGCTAGAAC 59.542 52.381 0.00 0.00 0.00 3.01
768 773 0.437295 CAAAACCGACCGCTAGAACG 59.563 55.000 0.00 0.00 0.00 3.95
785 790 4.687464 GGAACCGTGACATTCCGT 57.313 55.556 0.42 0.00 35.34 4.69
786 791 2.922779 GGAACCGTGACATTCCGTT 58.077 52.632 0.42 0.00 35.34 4.44
787 792 0.794473 GGAACCGTGACATTCCGTTC 59.206 55.000 0.42 0.00 35.34 3.95
788 793 0.794473 GAACCGTGACATTCCGTTCC 59.206 55.000 0.00 0.00 0.00 3.62
789 794 0.107081 AACCGTGACATTCCGTTCCA 59.893 50.000 0.00 0.00 0.00 3.53
790 795 0.601841 ACCGTGACATTCCGTTCCAC 60.602 55.000 0.00 0.00 0.00 4.02
791 796 0.320421 CCGTGACATTCCGTTCCACT 60.320 55.000 0.00 0.00 0.00 4.00
792 797 1.508632 CGTGACATTCCGTTCCACTT 58.491 50.000 0.00 0.00 0.00 3.16
793 798 1.871039 CGTGACATTCCGTTCCACTTT 59.129 47.619 0.00 0.00 0.00 2.66
794 799 2.349438 CGTGACATTCCGTTCCACTTTG 60.349 50.000 0.00 0.00 0.00 2.77
795 800 2.616842 GTGACATTCCGTTCCACTTTGT 59.383 45.455 0.00 0.00 0.00 2.83
796 801 3.066203 GTGACATTCCGTTCCACTTTGTT 59.934 43.478 0.00 0.00 0.00 2.83
797 802 3.314080 TGACATTCCGTTCCACTTTGTTC 59.686 43.478 0.00 0.00 0.00 3.18
798 803 2.621526 ACATTCCGTTCCACTTTGTTCC 59.378 45.455 0.00 0.00 0.00 3.62
799 804 1.682740 TTCCGTTCCACTTTGTTCCC 58.317 50.000 0.00 0.00 0.00 3.97
800 805 0.547075 TCCGTTCCACTTTGTTCCCA 59.453 50.000 0.00 0.00 0.00 4.37
801 806 1.064611 TCCGTTCCACTTTGTTCCCAA 60.065 47.619 0.00 0.00 0.00 4.12
802 807 1.751924 CCGTTCCACTTTGTTCCCAAA 59.248 47.619 0.00 0.00 38.22 3.28
803 808 2.480587 CCGTTCCACTTTGTTCCCAAAC 60.481 50.000 0.00 0.00 35.67 2.93
804 809 2.480587 CGTTCCACTTTGTTCCCAAACC 60.481 50.000 0.00 0.00 35.67 3.27
805 810 2.764010 GTTCCACTTTGTTCCCAAACCT 59.236 45.455 0.00 0.00 35.67 3.50
806 811 2.383855 TCCACTTTGTTCCCAAACCTG 58.616 47.619 0.00 0.00 35.67 4.00
821 826 0.907704 ACCTGATGGGCCGTAACTGA 60.908 55.000 0.00 0.00 39.10 3.41
856 861 1.146263 CCTCGGCCCTGTAATGTCC 59.854 63.158 0.00 0.00 0.00 4.02
892 897 0.178767 TATCTGCTTGCATCACGGCT 59.821 50.000 0.00 0.00 34.04 5.52
897 902 1.063649 CTTGCATCACGGCTCATGC 59.936 57.895 0.00 5.49 44.87 4.06
910 915 0.464373 CTCATGCGCCATAACTGGGT 60.464 55.000 4.18 0.00 43.36 4.51
911 916 0.833949 TCATGCGCCATAACTGGGTA 59.166 50.000 4.18 0.00 43.36 3.69
912 917 0.944386 CATGCGCCATAACTGGGTAC 59.056 55.000 4.18 0.00 43.36 3.34
929 934 2.119484 TACCCACTTGGCCACTTCCG 62.119 60.000 3.88 0.00 37.83 4.30
1222 1234 1.517832 GCGCAGGATCCGGCTATAT 59.482 57.895 30.29 0.00 35.06 0.86
1223 1235 0.744874 GCGCAGGATCCGGCTATATA 59.255 55.000 30.29 0.00 35.06 0.86
1416 1431 0.318275 GCCGACGAGGATGACTGATC 60.318 60.000 0.00 0.00 45.00 2.92
1503 1518 4.341366 TCTGCAGTTTGAGTTCTGATGA 57.659 40.909 14.67 0.00 34.02 2.92
1504 1519 4.903054 TCTGCAGTTTGAGTTCTGATGAT 58.097 39.130 14.67 0.00 34.02 2.45
1506 1521 4.392047 TGCAGTTTGAGTTCTGATGATGT 58.608 39.130 0.00 0.00 34.02 3.06
1507 1522 5.550290 TGCAGTTTGAGTTCTGATGATGTA 58.450 37.500 0.00 0.00 34.02 2.29
1508 1523 5.640783 TGCAGTTTGAGTTCTGATGATGTAG 59.359 40.000 0.00 0.00 34.02 2.74
1510 1525 6.401903 GCAGTTTGAGTTCTGATGATGTAGTG 60.402 42.308 0.00 0.00 34.02 2.74
1511 1526 5.641209 AGTTTGAGTTCTGATGATGTAGTGC 59.359 40.000 0.00 0.00 0.00 4.40
1513 1528 5.411831 TGAGTTCTGATGATGTAGTGCTT 57.588 39.130 0.00 0.00 0.00 3.91
1514 1529 5.173664 TGAGTTCTGATGATGTAGTGCTTG 58.826 41.667 0.00 0.00 0.00 4.01
1517 1532 4.541973 TCTGATGATGTAGTGCTTGTGT 57.458 40.909 0.00 0.00 0.00 3.72
1518 1533 4.898320 TCTGATGATGTAGTGCTTGTGTT 58.102 39.130 0.00 0.00 0.00 3.32
1519 1534 6.036577 TCTGATGATGTAGTGCTTGTGTTA 57.963 37.500 0.00 0.00 0.00 2.41
1520 1535 5.869344 TCTGATGATGTAGTGCTTGTGTTAC 59.131 40.000 0.00 0.00 0.00 2.50
1563 1580 1.275291 CAGGCTAGAAGAACCACGGAA 59.725 52.381 0.00 0.00 0.00 4.30
1577 1594 4.651778 ACCACGGAATCTGAATTTCTGAA 58.348 39.130 9.65 0.00 34.30 3.02
1610 1641 1.406887 GGCTGTATCGAACCACACCAT 60.407 52.381 0.00 0.00 0.00 3.55
1702 1733 8.836268 ATGTTTCACTGAATGTTATGCATTTT 57.164 26.923 3.54 0.00 46.90 1.82
1719 1750 7.646446 TGCATTTTCTTGTCTGATTGAAATG 57.354 32.000 0.00 0.00 0.00 2.32
1721 1752 8.358895 TGCATTTTCTTGTCTGATTGAAATGTA 58.641 29.630 0.00 0.00 0.00 2.29
1763 1795 5.946298 TCAGAATTCAGAATGTGCATTGAC 58.054 37.500 8.44 0.00 37.40 3.18
1765 1797 4.696877 AGAATTCAGAATGTGCATTGACGA 59.303 37.500 8.44 0.00 37.40 4.20
1789 1821 3.242011 ACCTGAATTCTTGGTGCCATTT 58.758 40.909 18.39 0.00 32.16 2.32
1812 1844 5.374071 TCATGCTTCATTCTCTGCATACAT 58.626 37.500 0.00 0.00 43.24 2.29
1816 1848 5.163693 TGCTTCATTCTCTGCATACATGTTG 60.164 40.000 2.30 3.61 0.00 3.33
1853 1891 1.927487 TGTCGCATACCCGGGTATAT 58.073 50.000 39.41 23.42 39.07 0.86
1891 1929 7.655521 ATGATCCATGATGTTGATTTGAAGT 57.344 32.000 0.00 0.00 0.00 3.01
1922 1960 9.672673 CTAGATTCAATTTCCTCTCCAAAAGTA 57.327 33.333 0.00 0.00 0.00 2.24
1964 2003 5.591472 TCATATGCCAAACTTGAATCTCCAG 59.409 40.000 0.00 0.00 0.00 3.86
1969 2008 3.503748 CCAAACTTGAATCTCCAGGTCAC 59.496 47.826 0.00 0.00 0.00 3.67
1977 2016 5.922053 TGAATCTCCAGGTCACATGATAAG 58.078 41.667 0.00 0.00 0.00 1.73
1980 2019 7.290948 TGAATCTCCAGGTCACATGATAAGTAT 59.709 37.037 0.00 0.00 0.00 2.12
1986 2025 7.030165 CCAGGTCACATGATAAGTATATCGTC 58.970 42.308 0.00 0.00 40.76 4.20
2000 2039 8.630278 AAGTATATCGTCTACAACAATGTGTC 57.370 34.615 0.00 0.00 40.84 3.67
2001 2040 7.997482 AGTATATCGTCTACAACAATGTGTCT 58.003 34.615 0.00 0.00 40.84 3.41
2002 2041 9.117183 AGTATATCGTCTACAACAATGTGTCTA 57.883 33.333 0.00 0.00 40.84 2.59
2003 2042 9.383462 GTATATCGTCTACAACAATGTGTCTAG 57.617 37.037 0.00 0.00 40.84 2.43
2032 2071 4.392047 ACTCAACATCACTGCAATCAAGA 58.608 39.130 0.00 0.00 0.00 3.02
2049 2088 5.596836 TCAAGAGCATGTCCTTTTGTTTT 57.403 34.783 0.00 0.00 31.14 2.43
2064 2110 6.863126 CCTTTTGTTTTCATAGCCTGTTACAG 59.137 38.462 5.22 5.22 0.00 2.74
2073 2119 2.816411 AGCCTGTTACAGCCAGTACTA 58.184 47.619 6.88 0.00 30.91 1.82
2124 2170 6.648192 CCTCAAGTGATAGGATCTGAACTTT 58.352 40.000 0.00 0.00 34.58 2.66
2125 2171 6.760770 CCTCAAGTGATAGGATCTGAACTTTC 59.239 42.308 0.00 0.00 34.58 2.62
2131 2177 5.726308 TGATAGGATCTGAACTTTCCCTCAA 59.274 40.000 0.00 0.00 0.00 3.02
2224 2273 6.942576 AGAGTAATGTAGCAAAGGACAAATGT 59.057 34.615 0.00 0.00 0.00 2.71
2351 2515 9.965902 ACAGAAAATGTTGTCCTAGAAGATTAT 57.034 29.630 0.00 0.00 39.96 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
237 238 2.636412 CCCTCTCCGTTGTCGAGCA 61.636 63.158 0.00 0.00 39.71 4.26
331 332 5.359194 ACTCGTGGATGGTAATCAATCTT 57.641 39.130 0.00 0.00 34.17 2.40
362 363 9.357652 CGGAAAAATCACTCAATCACATTAATT 57.642 29.630 0.00 0.00 0.00 1.40
363 364 8.739039 TCGGAAAAATCACTCAATCACATTAAT 58.261 29.630 0.00 0.00 0.00 1.40
453 455 9.706691 TCACGAACATTCTCTAAAGATTAAAGT 57.293 29.630 0.00 0.00 0.00 2.66
458 460 8.777865 TCAATCACGAACATTCTCTAAAGATT 57.222 30.769 0.00 0.00 0.00 2.40
470 472 8.948631 AGTAATGTAGAATCAATCACGAACAT 57.051 30.769 0.00 0.00 0.00 2.71
502 504 1.904287 ACTTTCCATACTGGCGCAAA 58.096 45.000 10.83 0.00 37.47 3.68
575 577 1.362584 TCTCCTCTCCCCACTTCATCA 59.637 52.381 0.00 0.00 0.00 3.07
617 622 0.826715 CTCCTCCCATCTTTGCTCGA 59.173 55.000 0.00 0.00 0.00 4.04
619 624 0.915364 ACCTCCTCCCATCTTTGCTC 59.085 55.000 0.00 0.00 0.00 4.26
652 657 9.513906 TGGAATTGTTTATCTCACTTGATTGTA 57.486 29.630 0.00 0.00 0.00 2.41
653 658 8.408043 TGGAATTGTTTATCTCACTTGATTGT 57.592 30.769 0.00 0.00 0.00 2.71
654 659 9.865321 AATGGAATTGTTTATCTCACTTGATTG 57.135 29.630 0.00 0.00 33.44 2.67
657 662 9.076781 TGAAATGGAATTGTTTATCTCACTTGA 57.923 29.630 0.00 0.00 36.10 3.02
658 663 9.865321 ATGAAATGGAATTGTTTATCTCACTTG 57.135 29.630 0.00 0.00 36.10 3.16
668 673 9.649167 GAGAGATGAAATGAAATGGAATTGTTT 57.351 29.630 0.00 0.00 36.10 2.83
669 674 8.809066 TGAGAGATGAAATGAAATGGAATTGTT 58.191 29.630 0.00 0.00 36.10 2.83
670 675 8.357290 TGAGAGATGAAATGAAATGGAATTGT 57.643 30.769 0.00 0.00 36.10 2.71
671 676 9.647797 TTTGAGAGATGAAATGAAATGGAATTG 57.352 29.630 0.00 0.00 36.10 2.32
672 677 9.649167 GTTTGAGAGATGAAATGAAATGGAATT 57.351 29.630 0.00 0.00 38.98 2.17
673 678 8.255905 GGTTTGAGAGATGAAATGAAATGGAAT 58.744 33.333 0.00 0.00 0.00 3.01
674 679 7.233144 TGGTTTGAGAGATGAAATGAAATGGAA 59.767 33.333 0.00 0.00 0.00 3.53
675 680 6.720748 TGGTTTGAGAGATGAAATGAAATGGA 59.279 34.615 0.00 0.00 0.00 3.41
676 681 6.927416 TGGTTTGAGAGATGAAATGAAATGG 58.073 36.000 0.00 0.00 0.00 3.16
677 682 8.706035 GTTTGGTTTGAGAGATGAAATGAAATG 58.294 33.333 0.00 0.00 0.00 2.32
678 683 8.423349 TGTTTGGTTTGAGAGATGAAATGAAAT 58.577 29.630 0.00 0.00 0.00 2.17
679 684 7.706179 GTGTTTGGTTTGAGAGATGAAATGAAA 59.294 33.333 0.00 0.00 0.00 2.69
680 685 7.202526 GTGTTTGGTTTGAGAGATGAAATGAA 58.797 34.615 0.00 0.00 0.00 2.57
681 686 6.239008 GGTGTTTGGTTTGAGAGATGAAATGA 60.239 38.462 0.00 0.00 0.00 2.57
682 687 5.922544 GGTGTTTGGTTTGAGAGATGAAATG 59.077 40.000 0.00 0.00 0.00 2.32
683 688 5.598005 TGGTGTTTGGTTTGAGAGATGAAAT 59.402 36.000 0.00 0.00 0.00 2.17
684 689 4.952957 TGGTGTTTGGTTTGAGAGATGAAA 59.047 37.500 0.00 0.00 0.00 2.69
685 690 4.531854 TGGTGTTTGGTTTGAGAGATGAA 58.468 39.130 0.00 0.00 0.00 2.57
686 691 4.163441 TGGTGTTTGGTTTGAGAGATGA 57.837 40.909 0.00 0.00 0.00 2.92
687 692 4.916983 TTGGTGTTTGGTTTGAGAGATG 57.083 40.909 0.00 0.00 0.00 2.90
688 693 4.956075 ACTTTGGTGTTTGGTTTGAGAGAT 59.044 37.500 0.00 0.00 0.00 2.75
689 694 4.340617 ACTTTGGTGTTTGGTTTGAGAGA 58.659 39.130 0.00 0.00 0.00 3.10
690 695 4.718940 ACTTTGGTGTTTGGTTTGAGAG 57.281 40.909 0.00 0.00 0.00 3.20
691 696 4.095185 CGTACTTTGGTGTTTGGTTTGAGA 59.905 41.667 0.00 0.00 0.00 3.27
692 697 4.142556 ACGTACTTTGGTGTTTGGTTTGAG 60.143 41.667 0.00 0.00 0.00 3.02
693 698 3.757493 ACGTACTTTGGTGTTTGGTTTGA 59.243 39.130 0.00 0.00 0.00 2.69
694 699 4.099380 ACGTACTTTGGTGTTTGGTTTG 57.901 40.909 0.00 0.00 0.00 2.93
695 700 4.787260 AACGTACTTTGGTGTTTGGTTT 57.213 36.364 0.00 0.00 0.00 3.27
696 701 4.460034 AGAAACGTACTTTGGTGTTTGGTT 59.540 37.500 0.00 0.00 34.89 3.67
697 702 4.011698 AGAAACGTACTTTGGTGTTTGGT 58.988 39.130 0.00 0.00 34.89 3.67
698 703 4.095185 TGAGAAACGTACTTTGGTGTTTGG 59.905 41.667 0.00 0.00 34.89 3.28
699 704 5.025826 GTGAGAAACGTACTTTGGTGTTTG 58.974 41.667 0.00 0.00 34.89 2.93
700 705 4.939439 AGTGAGAAACGTACTTTGGTGTTT 59.061 37.500 0.00 0.00 37.25 2.83
701 706 4.510571 AGTGAGAAACGTACTTTGGTGTT 58.489 39.130 0.00 0.00 0.00 3.32
702 707 4.117685 GAGTGAGAAACGTACTTTGGTGT 58.882 43.478 0.00 0.00 0.00 4.16
703 708 3.181774 CGAGTGAGAAACGTACTTTGGTG 59.818 47.826 0.00 0.00 0.00 4.17
704 709 3.067180 TCGAGTGAGAAACGTACTTTGGT 59.933 43.478 0.00 0.00 0.00 3.67
705 710 3.635331 TCGAGTGAGAAACGTACTTTGG 58.365 45.455 0.00 0.00 0.00 3.28
706 711 5.599715 CAATCGAGTGAGAAACGTACTTTG 58.400 41.667 7.15 0.00 0.00 2.77
707 712 4.150098 GCAATCGAGTGAGAAACGTACTTT 59.850 41.667 18.43 0.00 0.00 2.66
708 713 3.673809 GCAATCGAGTGAGAAACGTACTT 59.326 43.478 18.43 0.00 0.00 2.24
709 714 3.057456 AGCAATCGAGTGAGAAACGTACT 60.057 43.478 18.43 0.00 0.00 2.73
710 715 3.243336 AGCAATCGAGTGAGAAACGTAC 58.757 45.455 18.43 0.00 0.00 3.67
711 716 3.499048 GAGCAATCGAGTGAGAAACGTA 58.501 45.455 18.43 0.00 0.00 3.57
712 717 2.329379 GAGCAATCGAGTGAGAAACGT 58.671 47.619 18.43 0.00 0.00 3.99
713 718 1.656095 GGAGCAATCGAGTGAGAAACG 59.344 52.381 18.43 0.00 0.00 3.60
714 719 2.966050 AGGAGCAATCGAGTGAGAAAC 58.034 47.619 18.43 0.00 0.00 2.78
715 720 3.119101 GGTAGGAGCAATCGAGTGAGAAA 60.119 47.826 18.43 0.00 0.00 2.52
716 721 2.427453 GGTAGGAGCAATCGAGTGAGAA 59.573 50.000 18.43 0.00 0.00 2.87
717 722 2.025155 GGTAGGAGCAATCGAGTGAGA 58.975 52.381 18.43 0.00 0.00 3.27
718 723 1.751351 TGGTAGGAGCAATCGAGTGAG 59.249 52.381 18.43 0.00 0.00 3.51
719 724 1.847328 TGGTAGGAGCAATCGAGTGA 58.153 50.000 18.43 0.00 0.00 3.41
720 725 2.672961 TTGGTAGGAGCAATCGAGTG 57.327 50.000 8.83 8.83 29.68 3.51
721 726 2.301870 TGTTTGGTAGGAGCAATCGAGT 59.698 45.455 0.00 0.00 35.34 4.18
722 727 2.673368 GTGTTTGGTAGGAGCAATCGAG 59.327 50.000 0.00 0.00 35.34 4.04
723 728 2.037902 TGTGTTTGGTAGGAGCAATCGA 59.962 45.455 0.00 0.00 35.34 3.59
724 729 2.422597 TGTGTTTGGTAGGAGCAATCG 58.577 47.619 0.00 0.00 35.34 3.34
725 730 4.518970 TCTTTGTGTTTGGTAGGAGCAATC 59.481 41.667 0.00 0.00 35.34 2.67
726 731 4.278419 GTCTTTGTGTTTGGTAGGAGCAAT 59.722 41.667 0.00 0.00 35.34 3.56
727 732 3.630312 GTCTTTGTGTTTGGTAGGAGCAA 59.370 43.478 0.00 0.00 33.27 3.91
728 733 3.211045 GTCTTTGTGTTTGGTAGGAGCA 58.789 45.455 0.00 0.00 0.00 4.26
729 734 3.211045 TGTCTTTGTGTTTGGTAGGAGC 58.789 45.455 0.00 0.00 0.00 4.70
730 735 5.828299 TTTGTCTTTGTGTTTGGTAGGAG 57.172 39.130 0.00 0.00 0.00 3.69
731 736 5.105675 GGTTTTGTCTTTGTGTTTGGTAGGA 60.106 40.000 0.00 0.00 0.00 2.94
732 737 5.106442 GGTTTTGTCTTTGTGTTTGGTAGG 58.894 41.667 0.00 0.00 0.00 3.18
733 738 4.796312 CGGTTTTGTCTTTGTGTTTGGTAG 59.204 41.667 0.00 0.00 0.00 3.18
734 739 4.458295 TCGGTTTTGTCTTTGTGTTTGGTA 59.542 37.500 0.00 0.00 0.00 3.25
735 740 3.256136 TCGGTTTTGTCTTTGTGTTTGGT 59.744 39.130 0.00 0.00 0.00 3.67
736 741 3.610677 GTCGGTTTTGTCTTTGTGTTTGG 59.389 43.478 0.00 0.00 0.00 3.28
737 742 3.610677 GGTCGGTTTTGTCTTTGTGTTTG 59.389 43.478 0.00 0.00 0.00 2.93
738 743 3.671164 CGGTCGGTTTTGTCTTTGTGTTT 60.671 43.478 0.00 0.00 0.00 2.83
739 744 2.159490 CGGTCGGTTTTGTCTTTGTGTT 60.159 45.455 0.00 0.00 0.00 3.32
740 745 1.399089 CGGTCGGTTTTGTCTTTGTGT 59.601 47.619 0.00 0.00 0.00 3.72
741 746 1.858399 GCGGTCGGTTTTGTCTTTGTG 60.858 52.381 0.00 0.00 0.00 3.33
742 747 0.379316 GCGGTCGGTTTTGTCTTTGT 59.621 50.000 0.00 0.00 0.00 2.83
743 748 0.661020 AGCGGTCGGTTTTGTCTTTG 59.339 50.000 0.00 0.00 0.00 2.77
744 749 2.140717 CTAGCGGTCGGTTTTGTCTTT 58.859 47.619 0.00 0.00 0.00 2.52
745 750 1.342174 TCTAGCGGTCGGTTTTGTCTT 59.658 47.619 0.00 0.00 0.00 3.01
746 751 0.963962 TCTAGCGGTCGGTTTTGTCT 59.036 50.000 0.00 0.00 0.00 3.41
747 752 1.458445 GTTCTAGCGGTCGGTTTTGTC 59.542 52.381 0.00 0.00 0.00 3.18
748 753 1.505425 GTTCTAGCGGTCGGTTTTGT 58.495 50.000 0.00 0.00 0.00 2.83
749 754 0.437295 CGTTCTAGCGGTCGGTTTTG 59.563 55.000 0.00 0.00 0.00 2.44
750 755 0.668401 CCGTTCTAGCGGTCGGTTTT 60.668 55.000 4.46 0.00 46.11 2.43
751 756 1.080298 CCGTTCTAGCGGTCGGTTT 60.080 57.895 4.46 0.00 46.11 3.27
752 757 2.570181 CCGTTCTAGCGGTCGGTT 59.430 61.111 4.46 0.00 46.11 4.44
759 764 1.069378 GTCACGGTTCCGTTCTAGCG 61.069 60.000 14.42 2.71 40.97 4.26
760 765 0.038892 TGTCACGGTTCCGTTCTAGC 60.039 55.000 14.42 4.28 40.97 3.42
761 766 2.649331 ATGTCACGGTTCCGTTCTAG 57.351 50.000 14.42 3.78 40.97 2.43
762 767 2.353011 GGAATGTCACGGTTCCGTTCTA 60.353 50.000 14.42 4.17 40.97 2.10
763 768 1.607251 GGAATGTCACGGTTCCGTTCT 60.607 52.381 14.42 0.00 40.97 3.01
764 769 0.794473 GGAATGTCACGGTTCCGTTC 59.206 55.000 14.42 9.02 40.97 3.95
765 770 2.922779 GGAATGTCACGGTTCCGTT 58.077 52.632 14.42 0.00 40.97 4.44
766 771 4.687464 GGAATGTCACGGTTCCGT 57.313 55.556 11.27 11.27 43.93 4.69
768 773 0.794473 GAACGGAATGTCACGGTTCC 59.206 55.000 0.00 2.37 39.74 3.62
769 774 0.794473 GGAACGGAATGTCACGGTTC 59.206 55.000 0.00 0.00 42.56 3.62
770 775 0.107081 TGGAACGGAATGTCACGGTT 59.893 50.000 0.00 0.00 34.48 4.44
771 776 0.601841 GTGGAACGGAATGTCACGGT 60.602 55.000 0.00 0.00 0.00 4.83
772 777 0.320421 AGTGGAACGGAATGTCACGG 60.320 55.000 0.00 0.00 45.86 4.94
773 778 1.508632 AAGTGGAACGGAATGTCACG 58.491 50.000 0.00 0.00 45.86 4.35
774 779 2.616842 ACAAAGTGGAACGGAATGTCAC 59.383 45.455 0.00 0.00 45.86 3.67
775 780 2.925724 ACAAAGTGGAACGGAATGTCA 58.074 42.857 0.00 0.00 45.86 3.58
776 781 3.304458 GGAACAAAGTGGAACGGAATGTC 60.304 47.826 0.00 0.00 45.86 3.06
777 782 2.621526 GGAACAAAGTGGAACGGAATGT 59.378 45.455 0.00 0.00 45.86 2.71
778 783 2.030274 GGGAACAAAGTGGAACGGAATG 60.030 50.000 0.00 0.00 45.86 2.67
779 784 2.235891 GGGAACAAAGTGGAACGGAAT 58.764 47.619 0.00 0.00 45.86 3.01
780 785 1.064611 TGGGAACAAAGTGGAACGGAA 60.065 47.619 0.00 0.00 39.29 4.30
781 786 0.547075 TGGGAACAAAGTGGAACGGA 59.453 50.000 0.00 0.00 39.29 4.69
782 787 3.103637 TGGGAACAAAGTGGAACGG 57.896 52.632 0.00 0.00 39.29 4.44
798 803 0.322997 TTACGGCCCATCAGGTTTGG 60.323 55.000 0.00 0.00 38.26 3.28
799 804 0.808755 GTTACGGCCCATCAGGTTTG 59.191 55.000 0.00 0.00 38.26 2.93
800 805 0.696501 AGTTACGGCCCATCAGGTTT 59.303 50.000 0.00 0.00 38.26 3.27
801 806 0.035439 CAGTTACGGCCCATCAGGTT 60.035 55.000 0.00 0.00 38.26 3.50
802 807 0.907704 TCAGTTACGGCCCATCAGGT 60.908 55.000 0.00 0.00 38.26 4.00
803 808 0.179073 CTCAGTTACGGCCCATCAGG 60.179 60.000 0.00 0.00 39.47 3.86
804 809 0.179073 CCTCAGTTACGGCCCATCAG 60.179 60.000 0.00 0.00 0.00 2.90
805 810 0.907704 ACCTCAGTTACGGCCCATCA 60.908 55.000 0.00 0.00 0.00 3.07
806 811 1.117150 TACCTCAGTTACGGCCCATC 58.883 55.000 0.00 0.00 0.00 3.51
821 826 0.916358 AGGCCCTGATGCTGTTACCT 60.916 55.000 0.00 0.00 0.00 3.08
856 861 9.160496 CAAGCAGATATATAAAAGGGCTTAGAG 57.840 37.037 0.00 0.00 38.19 2.43
892 897 0.833949 TACCCAGTTATGGCGCATGA 59.166 50.000 10.83 0.00 46.19 3.07
910 915 1.765074 GGAAGTGGCCAAGTGGGTA 59.235 57.895 7.24 0.00 39.65 3.69
911 916 2.520968 GGAAGTGGCCAAGTGGGT 59.479 61.111 7.24 0.00 39.65 4.51
912 917 2.672996 CGGAAGTGGCCAAGTGGG 60.673 66.667 7.24 0.00 40.85 4.61
965 971 2.309504 GGGGGAGAAGTGGGGGAAG 61.310 68.421 0.00 0.00 0.00 3.46
1392 1404 4.907034 CATCCTCGTCGGCGTCGG 62.907 72.222 24.52 11.88 39.49 4.79
1398 1413 3.855630 GATCAGTCATCCTCGTCGG 57.144 57.895 0.00 0.00 0.00 4.79
1408 1423 4.451150 GGCCGCACGGATCAGTCA 62.451 66.667 14.43 0.00 37.50 3.41
1429 1444 2.574018 CCGACAGTGGAGTGGAGCA 61.574 63.158 0.00 0.00 0.00 4.26
1503 1518 3.326588 TCAGGGTAACACAAGCACTACAT 59.673 43.478 0.00 0.00 39.74 2.29
1504 1519 2.701423 TCAGGGTAACACAAGCACTACA 59.299 45.455 0.00 0.00 39.74 2.74
1506 1521 3.644265 TCTTCAGGGTAACACAAGCACTA 59.356 43.478 0.00 0.00 39.74 2.74
1507 1522 2.438021 TCTTCAGGGTAACACAAGCACT 59.562 45.455 0.00 0.00 39.74 4.40
1508 1523 2.846193 TCTTCAGGGTAACACAAGCAC 58.154 47.619 0.00 0.00 39.74 4.40
1510 1525 3.630312 TGTTTCTTCAGGGTAACACAAGC 59.370 43.478 0.00 0.00 39.74 4.01
1511 1526 5.169836 GTGTTTCTTCAGGGTAACACAAG 57.830 43.478 10.96 0.00 45.87 3.16
1514 1529 3.547746 TGGTGTTTCTTCAGGGTAACAC 58.452 45.455 0.00 0.00 45.86 3.32
1517 1532 6.001460 CACTATTGGTGTTTCTTCAGGGTAA 58.999 40.000 0.00 0.00 40.79 2.85
1518 1533 5.308497 TCACTATTGGTGTTTCTTCAGGGTA 59.692 40.000 0.00 0.00 45.50 3.69
1519 1534 4.104102 TCACTATTGGTGTTTCTTCAGGGT 59.896 41.667 0.00 0.00 45.50 4.34
1520 1535 4.455877 GTCACTATTGGTGTTTCTTCAGGG 59.544 45.833 0.00 0.00 45.50 4.45
1546 1562 3.119101 TCAGATTCCGTGGTTCTTCTAGC 60.119 47.826 0.00 0.00 0.00 3.42
1547 1563 4.720649 TCAGATTCCGTGGTTCTTCTAG 57.279 45.455 0.00 0.00 0.00 2.43
1563 1580 7.478322 CAATCAATCGGTTCAGAAATTCAGAT 58.522 34.615 0.00 0.00 0.00 2.90
1577 1594 0.107897 TACAGCCGCAATCAATCGGT 60.108 50.000 2.58 0.00 46.79 4.69
1610 1641 0.037590 CCACCCAAGTTCCGAATCCA 59.962 55.000 0.00 0.00 0.00 3.41
1693 1724 9.361315 CATTTCAATCAGACAAGAAAATGCATA 57.639 29.630 0.00 0.00 34.13 3.14
1719 1750 8.492673 TCTGAATTGACACATGGAAGTAATAC 57.507 34.615 0.00 0.00 0.00 1.89
1721 1752 8.585471 ATTCTGAATTGACACATGGAAGTAAT 57.415 30.769 0.00 0.00 0.00 1.89
1724 1755 6.491062 TGAATTCTGAATTGACACATGGAAGT 59.509 34.615 19.59 0.00 0.00 3.01
1763 1795 3.308530 GCACCAAGAATTCAGGTTTTCG 58.691 45.455 17.15 9.34 32.15 3.46
1765 1797 3.037549 TGGCACCAAGAATTCAGGTTTT 58.962 40.909 17.15 0.00 32.15 2.43
1789 1821 4.773013 TGTATGCAGAGAATGAAGCATGA 58.227 39.130 8.83 0.00 46.24 3.07
1812 1844 3.628832 AAAAGGGGGAAATCCTCAACA 57.371 42.857 0.99 0.00 38.95 3.33
1838 1876 1.903860 TGACCATATACCCGGGTATGC 59.096 52.381 43.62 29.39 40.98 3.14
1843 1881 3.780804 TGATTTGACCATATACCCGGG 57.219 47.619 22.25 22.25 0.00 5.73
1846 1884 7.581213 TCATTGTTGATTTGACCATATACCC 57.419 36.000 0.00 0.00 0.00 3.69
1853 1891 5.715753 TCATGGATCATTGTTGATTTGACCA 59.284 36.000 0.00 0.00 42.73 4.02
1891 1929 7.689299 TGGAGAGGAAATTGAATCTAGACAAA 58.311 34.615 0.00 0.00 0.00 2.83
1939 1978 6.131264 TGGAGATTCAAGTTTGGCATATGAT 58.869 36.000 6.97 0.00 0.00 2.45
1964 2003 8.727910 TGTAGACGATATACTTATCATGTGACC 58.272 37.037 0.00 0.00 34.96 4.02
1977 2016 9.383462 CTAGACACATTGTTGTAGACGATATAC 57.617 37.037 0.00 0.00 33.76 1.47
1980 2019 7.120138 TGACTAGACACATTGTTGTAGACGATA 59.880 37.037 0.00 0.00 33.76 2.92
1986 2025 7.224753 AGTTGTTGACTAGACACATTGTTGTAG 59.775 37.037 0.00 0.00 36.65 2.74
1999 2038 5.985530 CAGTGATGTTGAGTTGTTGACTAGA 59.014 40.000 0.00 0.00 39.19 2.43
2000 2039 5.333645 GCAGTGATGTTGAGTTGTTGACTAG 60.334 44.000 0.00 0.00 39.19 2.57
2001 2040 4.511454 GCAGTGATGTTGAGTTGTTGACTA 59.489 41.667 0.00 0.00 39.19 2.59
2002 2041 3.313526 GCAGTGATGTTGAGTTGTTGACT 59.686 43.478 0.00 0.00 42.70 3.41
2003 2042 3.065233 TGCAGTGATGTTGAGTTGTTGAC 59.935 43.478 0.00 0.00 0.00 3.18
2032 2071 5.473039 GCTATGAAAACAAAAGGACATGCT 58.527 37.500 0.00 0.00 0.00 3.79
2064 2110 8.718102 TCATAAATTCAGAGTTTAGTACTGGC 57.282 34.615 5.39 0.00 37.17 4.85
2106 2152 5.129485 TGAGGGAAAGTTCAGATCCTATCAC 59.871 44.000 0.00 0.00 33.61 3.06
2124 2170 9.503399 GTTTCTCTAAACTCTTATTTTGAGGGA 57.497 33.333 8.95 0.00 41.52 4.20
2192 2241 5.587844 CCTTTGCTACATTACTCTGCTGAAT 59.412 40.000 0.00 0.00 0.00 2.57
2350 2514 6.706270 CAGTGTGTTTACTGTTTAGAGTGGAT 59.294 38.462 0.00 0.00 42.38 3.41
2351 2515 6.046593 CAGTGTGTTTACTGTTTAGAGTGGA 58.953 40.000 0.00 0.00 42.38 4.02
2352 2516 6.046593 TCAGTGTGTTTACTGTTTAGAGTGG 58.953 40.000 5.89 0.00 46.32 4.00


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

AutoCloner maintained by Alex Coulton.