Multiple sequence alignment - TraesCS2A01G320600

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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 TraesCS2A01G320600 chr2A 100.000 2729 0 0 1 2729 550204017 550201289 0.000000e+00 5040.0
1 TraesCS2A01G320600 chr2B 89.327 1218 52 21 813 1978 515012025 515013216 0.000000e+00 1458.0
2 TraesCS2A01G320600 chr2D 91.642 1005 37 11 1007 1978 436018851 436017861 0.000000e+00 1347.0
3 TraesCS2A01G320600 chr1A 95.436 745 33 1 1985 2729 97264558 97263815 0.000000e+00 1186.0
4 TraesCS2A01G320600 chr1A 93.200 750 51 0 1979 2728 284330288 284329539 0.000000e+00 1103.0
5 TraesCS2A01G320600 chr5A 94.407 751 42 0 1978 2728 643326950 643326200 0.000000e+00 1155.0
6 TraesCS2A01G320600 chr5A 92.000 750 56 4 1979 2728 16649242 16649987 0.000000e+00 1050.0
7 TraesCS2A01G320600 chr5A 91.733 750 56 2 1979 2728 16673004 16673747 0.000000e+00 1037.0
8 TraesCS2A01G320600 chr5A 91.600 750 59 1 1979 2728 16661121 16661866 0.000000e+00 1033.0
9 TraesCS2A01G320600 chr5A 75.728 412 39 32 179 580 54290836 54290476 1.690000e-32 150.0
10 TraesCS2A01G320600 chr7A 94.141 751 44 0 1979 2729 84458367 84459117 0.000000e+00 1144.0
11 TraesCS2A01G320600 chr3D 92.913 762 46 6 1969 2729 500663027 500662273 0.000000e+00 1101.0
12 TraesCS2A01G320600 chr1D 91.645 754 58 4 1980 2729 458725133 458725885 0.000000e+00 1038.0
13 TraesCS2A01G320600 chr7D 75.743 606 82 46 1 577 613885946 613886515 7.550000e-61 244.0
14 TraesCS2A01G320600 chr5B 90.741 54 2 2 475 525 40779402 40779349 4.880000e-08 69.4


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 TraesCS2A01G320600 chr2A 550201289 550204017 2728 True 5040 5040 100.000 1 2729 1 chr2A.!!$R1 2728
1 TraesCS2A01G320600 chr2B 515012025 515013216 1191 False 1458 1458 89.327 813 1978 1 chr2B.!!$F1 1165
2 TraesCS2A01G320600 chr2D 436017861 436018851 990 True 1347 1347 91.642 1007 1978 1 chr2D.!!$R1 971
3 TraesCS2A01G320600 chr1A 97263815 97264558 743 True 1186 1186 95.436 1985 2729 1 chr1A.!!$R1 744
4 TraesCS2A01G320600 chr1A 284329539 284330288 749 True 1103 1103 93.200 1979 2728 1 chr1A.!!$R2 749
5 TraesCS2A01G320600 chr5A 643326200 643326950 750 True 1155 1155 94.407 1978 2728 1 chr5A.!!$R2 750
6 TraesCS2A01G320600 chr5A 16649242 16649987 745 False 1050 1050 92.000 1979 2728 1 chr5A.!!$F1 749
7 TraesCS2A01G320600 chr5A 16673004 16673747 743 False 1037 1037 91.733 1979 2728 1 chr5A.!!$F3 749
8 TraesCS2A01G320600 chr5A 16661121 16661866 745 False 1033 1033 91.600 1979 2728 1 chr5A.!!$F2 749
9 TraesCS2A01G320600 chr7A 84458367 84459117 750 False 1144 1144 94.141 1979 2729 1 chr7A.!!$F1 750
10 TraesCS2A01G320600 chr3D 500662273 500663027 754 True 1101 1101 92.913 1969 2729 1 chr3D.!!$R1 760
11 TraesCS2A01G320600 chr1D 458725133 458725885 752 False 1038 1038 91.645 1980 2729 1 chr1D.!!$F1 749
12 TraesCS2A01G320600 chr7D 613885946 613886515 569 False 244 244 75.743 1 577 1 chr7D.!!$F1 576

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
612 744 0.036388 CTCCCCAGCGCAGACTAAAA 60.036 55.0 11.47 0.0 0.0 1.52 F
657 789 0.249120 AATGTTCGCTGGTGGATCGA 59.751 50.0 0.00 0.0 0.0 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1678 1840 0.382758 CGTACTCCGTAGACATCGCG 60.383 60.000 0.00 0.0 0.0 5.87 R
2229 2419 1.200716 ACGTCGCGAAGATTCCAACTA 59.799 47.619 28.43 0.0 0.0 2.24 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
24 25 6.620678 GGCTGTTTTATTTCTAAGTGCATGA 58.379 36.000 0.00 0.00 0.00 3.07
61 62 9.895138 AGAGGATGAAATTTCCATTTTTAATGG 57.105 29.630 15.48 11.37 40.48 3.16
62 63 8.510243 AGGATGAAATTTCCATTTTTAATGGC 57.490 30.769 15.48 0.45 39.01 4.40
63 64 8.108364 AGGATGAAATTTCCATTTTTAATGGCA 58.892 29.630 15.48 0.00 39.01 4.92
64 65 8.905850 GGATGAAATTTCCATTTTTAATGGCAT 58.094 29.630 15.48 9.24 39.01 4.40
65 66 9.724839 GATGAAATTTCCATTTTTAATGGCATG 57.275 29.630 15.48 0.00 39.01 4.06
66 67 8.053026 TGAAATTTCCATTTTTAATGGCATGG 57.947 30.769 15.48 0.00 39.01 3.66
67 68 6.453926 AATTTCCATTTTTAATGGCATGGC 57.546 33.333 13.29 13.29 39.01 4.40
68 69 3.176552 TCCATTTTTAATGGCATGGCG 57.823 42.857 15.27 0.00 39.01 5.69
69 70 2.158986 TCCATTTTTAATGGCATGGCGG 60.159 45.455 15.27 6.26 39.01 6.13
70 71 2.419851 CCATTTTTAATGGCATGGCGGT 60.420 45.455 15.27 7.26 30.08 5.68
71 72 3.269178 CATTTTTAATGGCATGGCGGTT 58.731 40.909 15.27 13.97 0.00 4.44
72 73 3.409026 TTTTTAATGGCATGGCGGTTT 57.591 38.095 15.27 10.50 0.00 3.27
73 74 3.409026 TTTTAATGGCATGGCGGTTTT 57.591 38.095 15.27 8.10 0.00 2.43
74 75 4.537135 TTTTAATGGCATGGCGGTTTTA 57.463 36.364 15.27 7.15 0.00 1.52
75 76 4.744795 TTTAATGGCATGGCGGTTTTAT 57.255 36.364 15.27 0.00 0.00 1.40
76 77 4.744795 TTAATGGCATGGCGGTTTTATT 57.255 36.364 15.27 9.80 0.00 1.40
77 78 3.625649 AATGGCATGGCGGTTTTATTT 57.374 38.095 15.27 0.00 0.00 1.40
78 79 2.663826 TGGCATGGCGGTTTTATTTC 57.336 45.000 15.27 0.00 0.00 2.17
79 80 2.175202 TGGCATGGCGGTTTTATTTCT 58.825 42.857 15.27 0.00 0.00 2.52
80 81 3.357203 TGGCATGGCGGTTTTATTTCTA 58.643 40.909 15.27 0.00 0.00 2.10
81 82 3.764434 TGGCATGGCGGTTTTATTTCTAA 59.236 39.130 15.27 0.00 0.00 2.10
82 83 4.142271 TGGCATGGCGGTTTTATTTCTAAG 60.142 41.667 15.27 0.00 0.00 2.18
83 84 4.142249 GGCATGGCGGTTTTATTTCTAAGT 60.142 41.667 2.41 0.00 0.00 2.24
84 85 4.798387 GCATGGCGGTTTTATTTCTAAGTG 59.202 41.667 0.00 0.00 0.00 3.16
85 86 4.428615 TGGCGGTTTTATTTCTAAGTGC 57.571 40.909 0.00 0.00 0.00 4.40
89 90 4.798387 GCGGTTTTATTTCTAAGTGCATGG 59.202 41.667 0.00 0.00 0.00 3.66
90 91 4.798387 CGGTTTTATTTCTAAGTGCATGGC 59.202 41.667 0.00 0.00 0.00 4.40
94 95 7.010460 GGTTTTATTTCTAAGTGCATGGCATTC 59.990 37.037 0.00 0.00 41.91 2.67
101 102 8.518430 TTCTAAGTGCATGGCATTCTTATTAA 57.482 30.769 0.00 3.36 41.91 1.40
103 104 8.570488 TCTAAGTGCATGGCATTCTTATTAATG 58.430 33.333 0.00 0.00 41.91 1.90
104 105 6.964807 AGTGCATGGCATTCTTATTAATGA 57.035 33.333 0.00 0.00 41.91 2.57
107 108 7.450634 AGTGCATGGCATTCTTATTAATGAGAT 59.549 33.333 10.46 0.00 41.91 2.75
154 155 9.364989 TGGCATGATAGTTTTATTTTTAAGTGC 57.635 29.630 0.00 0.00 0.00 4.40
155 156 9.364989 GGCATGATAGTTTTATTTTTAAGTGCA 57.635 29.630 0.00 0.00 0.00 4.57
176 177 8.764287 AGTGCACAACATTTTTCTAAAAATAGC 58.236 29.630 21.04 11.26 44.38 2.97
177 178 8.547069 GTGCACAACATTTTTCTAAAAATAGCA 58.453 29.630 13.17 13.01 44.38 3.49
178 179 9.270640 TGCACAACATTTTTCTAAAAATAGCAT 57.729 25.926 11.89 0.00 44.38 3.79
243 244 6.000891 TGGCATTTTTATCGTATGAGATGC 57.999 37.500 0.00 0.00 38.26 3.91
412 537 6.639632 TTATTTAAGAGATGGCTTGATGGC 57.360 37.500 0.00 0.00 42.18 4.40
423 548 4.314121 TGGCTTGATGGCATTTTGTTTAC 58.686 39.130 0.00 0.00 46.76 2.01
433 558 7.156876 TGGCATTTTGTTTACTAAGAGATGG 57.843 36.000 0.00 0.00 0.00 3.51
436 561 7.090173 GCATTTTGTTTACTAAGAGATGGCAA 58.910 34.615 0.00 0.00 0.00 4.52
467 592 9.585099 TTATCATGTCATTTTAAAAGATGGCAC 57.415 29.630 10.22 0.45 40.30 5.01
468 593 6.397272 TCATGTCATTTTAAAAGATGGCACC 58.603 36.000 10.22 0.00 40.30 5.01
469 594 6.211184 TCATGTCATTTTAAAAGATGGCACCT 59.789 34.615 10.22 0.00 40.30 4.00
470 595 6.418057 TGTCATTTTAAAAGATGGCACCTT 57.582 33.333 6.79 0.00 33.31 3.50
473 598 7.226325 TGTCATTTTAAAAGATGGCACCTTTTG 59.774 33.333 26.29 12.38 42.02 2.44
480 605 3.807553 AGATGGCACCTTTTGTTTTTGG 58.192 40.909 0.00 0.00 0.00 3.28
523 652 8.934825 TCTAATTTTTACAGCATGGCATTTTTC 58.065 29.630 0.00 0.00 43.62 2.29
550 682 6.515272 TTTCAGATCTAATCTTGTTTGGGC 57.485 37.500 0.00 0.00 37.58 5.36
593 725 2.244946 GGAAACCAGGTTCACGAGC 58.755 57.895 4.93 0.00 0.00 5.03
594 726 0.250338 GGAAACCAGGTTCACGAGCT 60.250 55.000 4.93 0.00 36.26 4.09
595 727 1.149148 GAAACCAGGTTCACGAGCTC 58.851 55.000 4.93 2.73 32.70 4.09
596 728 0.250338 AAACCAGGTTCACGAGCTCC 60.250 55.000 4.93 0.00 32.70 4.70
597 729 2.113243 AACCAGGTTCACGAGCTCCC 62.113 60.000 8.47 2.68 32.70 4.30
598 730 2.266055 CAGGTTCACGAGCTCCCC 59.734 66.667 8.47 0.57 32.70 4.81
599 731 2.203788 AGGTTCACGAGCTCCCCA 60.204 61.111 8.47 0.00 0.00 4.96
600 732 2.266055 GGTTCACGAGCTCCCCAG 59.734 66.667 8.47 0.00 0.00 4.45
609 741 3.461773 GCTCCCCAGCGCAGACTA 61.462 66.667 11.47 0.00 35.39 2.59
610 742 3.019003 GCTCCCCAGCGCAGACTAA 62.019 63.158 11.47 0.00 35.39 2.24
611 743 1.596934 CTCCCCAGCGCAGACTAAA 59.403 57.895 11.47 0.00 0.00 1.85
612 744 0.036388 CTCCCCAGCGCAGACTAAAA 60.036 55.000 11.47 0.00 0.00 1.52
613 745 0.398696 TCCCCAGCGCAGACTAAAAA 59.601 50.000 11.47 0.00 0.00 1.94
638 770 2.351276 GCTCCCCAGCGAAGGAAA 59.649 61.111 0.00 0.00 35.39 3.13
639 771 1.303317 GCTCCCCAGCGAAGGAAAA 60.303 57.895 0.00 0.00 35.39 2.29
640 772 0.681243 GCTCCCCAGCGAAGGAAAAT 60.681 55.000 0.00 0.00 35.39 1.82
641 773 1.098050 CTCCCCAGCGAAGGAAAATG 58.902 55.000 0.00 0.00 0.00 2.32
642 774 0.404040 TCCCCAGCGAAGGAAAATGT 59.596 50.000 0.00 0.00 0.00 2.71
643 775 1.203001 TCCCCAGCGAAGGAAAATGTT 60.203 47.619 0.00 0.00 0.00 2.71
644 776 1.202348 CCCCAGCGAAGGAAAATGTTC 59.798 52.381 0.00 0.00 0.00 3.18
645 777 1.135689 CCCAGCGAAGGAAAATGTTCG 60.136 52.381 0.22 0.22 46.60 3.95
649 781 2.247311 CGAAGGAAAATGTTCGCTGG 57.753 50.000 0.00 0.00 39.15 4.85
650 782 1.535462 CGAAGGAAAATGTTCGCTGGT 59.465 47.619 0.00 0.00 39.15 4.00
651 783 2.665519 CGAAGGAAAATGTTCGCTGGTG 60.666 50.000 0.00 0.00 39.15 4.17
652 784 1.247567 AGGAAAATGTTCGCTGGTGG 58.752 50.000 0.00 0.00 34.28 4.61
653 785 1.202879 AGGAAAATGTTCGCTGGTGGA 60.203 47.619 0.00 0.00 34.28 4.02
654 786 1.818674 GGAAAATGTTCGCTGGTGGAT 59.181 47.619 0.00 0.00 34.28 3.41
655 787 2.159379 GGAAAATGTTCGCTGGTGGATC 60.159 50.000 0.00 0.00 34.28 3.36
656 788 1.086696 AAATGTTCGCTGGTGGATCG 58.913 50.000 0.00 0.00 0.00 3.69
657 789 0.249120 AATGTTCGCTGGTGGATCGA 59.751 50.000 0.00 0.00 0.00 3.59
658 790 0.460284 ATGTTCGCTGGTGGATCGAC 60.460 55.000 0.00 0.00 31.48 4.20
659 791 2.158959 GTTCGCTGGTGGATCGACG 61.159 63.158 1.47 0.00 31.48 5.12
660 792 2.337246 TTCGCTGGTGGATCGACGA 61.337 57.895 0.00 0.00 31.48 4.20
661 793 2.266376 TTCGCTGGTGGATCGACGAG 62.266 60.000 14.24 14.24 31.48 4.18
662 794 2.583593 GCTGGTGGATCGACGAGC 60.584 66.667 24.45 24.45 39.97 5.03
663 795 2.105128 CTGGTGGATCGACGAGCC 59.895 66.667 24.87 24.87 38.78 4.70
664 796 2.678580 TGGTGGATCGACGAGCCA 60.679 61.111 29.80 29.80 46.41 4.75
667 799 4.193334 TGGATCGACGAGCCAGCG 62.193 66.667 29.80 0.00 43.58 5.18
668 800 3.889044 GGATCGACGAGCCAGCGA 61.889 66.667 26.46 0.00 38.12 4.93
669 801 2.102357 GATCGACGAGCCAGCGAA 59.898 61.111 0.57 0.00 37.60 4.70
670 802 2.202623 ATCGACGAGCCAGCGAAC 60.203 61.111 3.01 0.00 37.60 3.95
671 803 2.867333 GATCGACGAGCCAGCGAACA 62.867 60.000 0.57 0.00 37.60 3.18
672 804 2.486636 ATCGACGAGCCAGCGAACAA 62.487 55.000 3.01 0.00 37.60 2.83
673 805 2.307309 CGACGAGCCAGCGAACAAA 61.307 57.895 0.00 0.00 34.83 2.83
674 806 1.827315 CGACGAGCCAGCGAACAAAA 61.827 55.000 0.00 0.00 34.83 2.44
675 807 0.384353 GACGAGCCAGCGAACAAAAC 60.384 55.000 0.00 0.00 34.83 2.43
676 808 1.438710 CGAGCCAGCGAACAAAACG 60.439 57.895 0.00 0.00 0.00 3.60
677 809 1.827315 CGAGCCAGCGAACAAAACGA 61.827 55.000 0.00 0.00 0.00 3.85
678 810 0.517316 GAGCCAGCGAACAAAACGAT 59.483 50.000 0.00 0.00 0.00 3.73
679 811 0.517316 AGCCAGCGAACAAAACGATC 59.483 50.000 0.00 0.00 0.00 3.69
680 812 0.789383 GCCAGCGAACAAAACGATCG 60.789 55.000 14.88 14.88 42.39 3.69
684 816 3.274196 CGAACAAAACGATCGCTGG 57.726 52.632 16.60 2.51 32.88 4.85
685 817 0.787787 CGAACAAAACGATCGCTGGA 59.212 50.000 16.60 0.00 32.88 3.86
686 818 1.201812 CGAACAAAACGATCGCTGGAG 60.202 52.381 16.60 4.30 32.88 3.86
687 819 1.798813 GAACAAAACGATCGCTGGAGT 59.201 47.619 16.60 4.99 0.00 3.85
688 820 1.429463 ACAAAACGATCGCTGGAGTC 58.571 50.000 16.60 0.00 0.00 3.36
689 821 1.000955 ACAAAACGATCGCTGGAGTCT 59.999 47.619 16.60 0.00 0.00 3.24
690 822 1.656095 CAAAACGATCGCTGGAGTCTC 59.344 52.381 16.60 0.00 0.00 3.36
691 823 0.888619 AAACGATCGCTGGAGTCTCA 59.111 50.000 16.60 0.00 0.00 3.27
692 824 1.107114 AACGATCGCTGGAGTCTCAT 58.893 50.000 16.60 0.00 0.00 2.90
693 825 0.665835 ACGATCGCTGGAGTCTCATC 59.334 55.000 16.60 0.00 0.00 2.92
694 826 0.665298 CGATCGCTGGAGTCTCATCA 59.335 55.000 0.26 0.00 0.00 3.07
695 827 1.334870 CGATCGCTGGAGTCTCATCAG 60.335 57.143 0.26 2.13 0.00 2.90
696 828 1.952990 GATCGCTGGAGTCTCATCAGA 59.047 52.381 9.57 1.19 0.00 3.27
697 829 1.839424 TCGCTGGAGTCTCATCAGAA 58.161 50.000 9.57 0.00 0.00 3.02
698 830 2.382882 TCGCTGGAGTCTCATCAGAAT 58.617 47.619 9.57 0.00 0.00 2.40
699 831 2.762887 TCGCTGGAGTCTCATCAGAATT 59.237 45.455 9.57 0.00 0.00 2.17
700 832 3.196469 TCGCTGGAGTCTCATCAGAATTT 59.804 43.478 9.57 0.00 0.00 1.82
701 833 3.937706 CGCTGGAGTCTCATCAGAATTTT 59.062 43.478 9.57 0.00 0.00 1.82
702 834 4.394300 CGCTGGAGTCTCATCAGAATTTTT 59.606 41.667 9.57 0.00 0.00 1.94
703 835 5.447010 CGCTGGAGTCTCATCAGAATTTTTC 60.447 44.000 9.57 0.00 0.00 2.29
704 836 5.447010 GCTGGAGTCTCATCAGAATTTTTCG 60.447 44.000 9.57 0.00 34.02 3.46
705 837 5.793817 TGGAGTCTCATCAGAATTTTTCGA 58.206 37.500 1.47 0.00 34.02 3.71
706 838 6.409704 TGGAGTCTCATCAGAATTTTTCGAT 58.590 36.000 1.47 0.00 34.02 3.59
707 839 6.314648 TGGAGTCTCATCAGAATTTTTCGATG 59.685 38.462 1.47 12.01 39.63 3.84
708 840 6.314896 GGAGTCTCATCAGAATTTTTCGATGT 59.685 38.462 1.47 4.06 39.46 3.06
709 841 7.148340 GGAGTCTCATCAGAATTTTTCGATGTT 60.148 37.037 1.47 0.00 39.46 2.71
710 842 8.103948 AGTCTCATCAGAATTTTTCGATGTTT 57.896 30.769 15.13 0.00 39.46 2.83
711 843 8.571336 AGTCTCATCAGAATTTTTCGATGTTTT 58.429 29.630 15.13 0.00 39.46 2.43
712 844 9.185192 GTCTCATCAGAATTTTTCGATGTTTTT 57.815 29.630 15.13 0.00 39.46 1.94
739 871 8.661352 TTTTCTTTTGAATTTCCTGTTCATCC 57.339 30.769 0.00 0.00 38.37 3.51
740 872 7.601705 TTCTTTTGAATTTCCTGTTCATCCT 57.398 32.000 0.00 0.00 35.68 3.24
741 873 6.985117 TCTTTTGAATTTCCTGTTCATCCTG 58.015 36.000 0.00 0.00 35.68 3.86
742 874 6.777091 TCTTTTGAATTTCCTGTTCATCCTGA 59.223 34.615 0.00 0.00 35.68 3.86
743 875 6.579666 TTTGAATTTCCTGTTCATCCTGAG 57.420 37.500 0.00 0.00 35.68 3.35
744 876 4.012374 TGAATTTCCTGTTCATCCTGAGC 58.988 43.478 0.00 0.00 31.07 4.26
745 877 4.263639 TGAATTTCCTGTTCATCCTGAGCT 60.264 41.667 0.00 0.00 31.07 4.09
746 878 2.775911 TTCCTGTTCATCCTGAGCTG 57.224 50.000 0.00 0.00 0.00 4.24
747 879 1.942776 TCCTGTTCATCCTGAGCTGA 58.057 50.000 0.00 0.00 30.36 4.26
748 880 2.259917 TCCTGTTCATCCTGAGCTGAA 58.740 47.619 0.00 0.00 30.36 3.02
749 881 2.639347 TCCTGTTCATCCTGAGCTGAAA 59.361 45.455 0.00 0.00 33.45 2.69
750 882 3.265221 TCCTGTTCATCCTGAGCTGAAAT 59.735 43.478 0.00 0.00 33.45 2.17
751 883 3.377485 CCTGTTCATCCTGAGCTGAAATG 59.623 47.826 0.00 0.00 33.45 2.32
752 884 4.259356 CTGTTCATCCTGAGCTGAAATGA 58.741 43.478 0.00 0.00 33.45 2.57
753 885 4.259356 TGTTCATCCTGAGCTGAAATGAG 58.741 43.478 0.00 0.00 33.45 2.90
754 886 4.019950 TGTTCATCCTGAGCTGAAATGAGA 60.020 41.667 0.00 0.00 33.45 3.27
755 887 5.124645 GTTCATCCTGAGCTGAAATGAGAT 58.875 41.667 0.00 0.00 33.45 2.75
756 888 4.958509 TCATCCTGAGCTGAAATGAGATC 58.041 43.478 0.00 0.00 0.00 2.75
757 889 3.449528 TCCTGAGCTGAAATGAGATCG 57.550 47.619 0.00 0.00 30.60 3.69
758 890 3.026694 TCCTGAGCTGAAATGAGATCGA 58.973 45.455 0.00 0.00 30.60 3.59
759 891 3.067883 TCCTGAGCTGAAATGAGATCGAG 59.932 47.826 0.00 0.00 30.60 4.04
760 892 3.067883 CCTGAGCTGAAATGAGATCGAGA 59.932 47.826 0.00 0.00 30.60 4.04
761 893 4.441217 CCTGAGCTGAAATGAGATCGAGAA 60.441 45.833 0.00 0.00 30.60 2.87
762 894 5.273674 TGAGCTGAAATGAGATCGAGAAT 57.726 39.130 0.00 0.00 30.60 2.40
763 895 6.396829 TGAGCTGAAATGAGATCGAGAATA 57.603 37.500 0.00 0.00 30.60 1.75
764 896 6.445475 TGAGCTGAAATGAGATCGAGAATAG 58.555 40.000 0.00 0.00 30.60 1.73
765 897 6.264067 TGAGCTGAAATGAGATCGAGAATAGA 59.736 38.462 0.00 0.00 30.60 1.98
766 898 7.048629 AGCTGAAATGAGATCGAGAATAGAA 57.951 36.000 0.00 0.00 0.00 2.10
767 899 7.147312 AGCTGAAATGAGATCGAGAATAGAAG 58.853 38.462 0.00 0.00 0.00 2.85
768 900 6.365789 GCTGAAATGAGATCGAGAATAGAAGG 59.634 42.308 0.00 0.00 0.00 3.46
769 901 6.753180 TGAAATGAGATCGAGAATAGAAGGG 58.247 40.000 0.00 0.00 0.00 3.95
770 902 5.736951 AATGAGATCGAGAATAGAAGGGG 57.263 43.478 0.00 0.00 0.00 4.79
771 903 4.455070 TGAGATCGAGAATAGAAGGGGA 57.545 45.455 0.00 0.00 0.00 4.81
772 904 4.145807 TGAGATCGAGAATAGAAGGGGAC 58.854 47.826 0.00 0.00 0.00 4.46
787 919 4.417426 AGGGGACTTTCGTGTATATTGG 57.583 45.455 0.00 0.00 37.44 3.16
788 920 3.778629 AGGGGACTTTCGTGTATATTGGT 59.221 43.478 0.00 0.00 37.44 3.67
789 921 3.875134 GGGGACTTTCGTGTATATTGGTG 59.125 47.826 0.00 0.00 0.00 4.17
790 922 3.311596 GGGACTTTCGTGTATATTGGTGC 59.688 47.826 0.00 0.00 0.00 5.01
791 923 4.189231 GGACTTTCGTGTATATTGGTGCT 58.811 43.478 0.00 0.00 0.00 4.40
792 924 5.353938 GGACTTTCGTGTATATTGGTGCTA 58.646 41.667 0.00 0.00 0.00 3.49
793 925 5.989777 GGACTTTCGTGTATATTGGTGCTAT 59.010 40.000 0.00 0.00 0.00 2.97
794 926 6.482308 GGACTTTCGTGTATATTGGTGCTATT 59.518 38.462 0.00 0.00 0.00 1.73
795 927 7.307219 GGACTTTCGTGTATATTGGTGCTATTC 60.307 40.741 0.00 0.00 0.00 1.75
796 928 7.272978 ACTTTCGTGTATATTGGTGCTATTCT 58.727 34.615 0.00 0.00 0.00 2.40
797 929 8.418662 ACTTTCGTGTATATTGGTGCTATTCTA 58.581 33.333 0.00 0.00 0.00 2.10
798 930 8.812147 TTTCGTGTATATTGGTGCTATTCTAG 57.188 34.615 0.00 0.00 0.00 2.43
799 931 6.920817 TCGTGTATATTGGTGCTATTCTAGG 58.079 40.000 0.00 0.00 0.00 3.02
800 932 6.717997 TCGTGTATATTGGTGCTATTCTAGGA 59.282 38.462 0.00 0.00 0.00 2.94
801 933 7.030165 CGTGTATATTGGTGCTATTCTAGGAG 58.970 42.308 0.00 0.00 0.00 3.69
802 934 7.309255 CGTGTATATTGGTGCTATTCTAGGAGT 60.309 40.741 0.00 0.00 0.00 3.85
803 935 7.815068 GTGTATATTGGTGCTATTCTAGGAGTG 59.185 40.741 0.00 0.00 0.00 3.51
804 936 7.509318 TGTATATTGGTGCTATTCTAGGAGTGT 59.491 37.037 0.00 0.00 0.00 3.55
805 937 4.737855 TTGGTGCTATTCTAGGAGTGTC 57.262 45.455 0.00 0.00 0.00 3.67
806 938 3.982516 TGGTGCTATTCTAGGAGTGTCT 58.017 45.455 0.00 0.00 0.00 3.41
807 939 3.954904 TGGTGCTATTCTAGGAGTGTCTC 59.045 47.826 0.00 0.00 0.00 3.36
822 954 5.988561 GGAGTGTCTCCTAGAATAAATGCAG 59.011 44.000 8.38 0.00 46.41 4.41
829 961 2.717639 AGAATAAATGCAGAGGCGGT 57.282 45.000 0.00 0.00 45.35 5.68
830 962 2.292267 AGAATAAATGCAGAGGCGGTG 58.708 47.619 0.00 0.00 45.35 4.94
831 963 1.334869 GAATAAATGCAGAGGCGGTGG 59.665 52.381 0.00 0.00 45.35 4.61
837 969 1.078143 GCAGAGGCGGTGGAAAGAT 60.078 57.895 0.00 0.00 0.00 2.40
840 972 2.555199 CAGAGGCGGTGGAAAGATAAG 58.445 52.381 0.00 0.00 0.00 1.73
844 976 2.093447 AGGCGGTGGAAAGATAAGTCAG 60.093 50.000 0.00 0.00 0.00 3.51
893 1030 6.227298 ACCACTGTACATCTCTAAATCAGG 57.773 41.667 0.00 0.00 0.00 3.86
900 1037 9.311916 CTGTACATCTCTAAATCAGGAAGAAAG 57.688 37.037 0.00 0.00 0.00 2.62
942 1082 6.494893 TGTGAATATAATAAGGCATTCGGC 57.505 37.500 0.00 0.00 43.74 5.54
955 1095 0.537188 ATTCGGCTGGAGGTAGTGTG 59.463 55.000 0.00 0.00 0.00 3.82
975 1115 1.202076 GCTGCCGAGTTTATTGCTGTC 60.202 52.381 0.00 0.00 0.00 3.51
980 1120 0.733150 GAGTTTATTGCTGTCCCCGC 59.267 55.000 0.00 0.00 0.00 6.13
1010 1150 7.068226 GCTCTTCTCTCTCCACCTATATATTCC 59.932 44.444 0.00 0.00 0.00 3.01
1134 1281 1.506493 CGCAGAGGAATAGGTCATGC 58.494 55.000 0.00 0.00 0.00 4.06
1140 1287 5.053145 CAGAGGAATAGGTCATGCAGTTAC 58.947 45.833 0.00 0.00 0.00 2.50
1221 1378 5.343249 AGTTCAATTTATCGAAGGCATTGC 58.657 37.500 0.00 0.00 0.00 3.56
1248 1405 1.194772 GTGCCTTGAGTACGTGAAAGC 59.805 52.381 0.00 0.00 0.00 3.51
1270 1427 4.099120 CGAAACAACCGAGAGAGATACAG 58.901 47.826 0.00 0.00 0.00 2.74
1397 1559 2.589442 TTTTCTTGCGTCGCCCGT 60.589 55.556 15.88 0.00 39.32 5.28
1605 1767 3.931247 TGGGCGCACTGTTACGGT 61.931 61.111 12.74 0.00 0.00 4.83
1635 1797 2.828549 GCCGGGGTGCCATTACAG 60.829 66.667 2.18 0.00 0.00 2.74
1837 2026 3.060138 TGTTTTTAGATCACGCGTGTGTC 60.060 43.478 35.74 31.04 46.49 3.67
1838 2027 1.333115 TTTAGATCACGCGTGTGTCG 58.667 50.000 35.74 13.29 46.49 4.35
1839 2028 0.239082 TTAGATCACGCGTGTGTCGT 59.761 50.000 35.74 23.52 46.49 4.34
1861 2050 5.569059 CGTGTTTCCACTTGATATTTGCTTC 59.431 40.000 0.00 0.00 39.55 3.86
1938 2127 7.211573 TCTTTCGTACCACTTTTTGTCTATGA 58.788 34.615 0.00 0.00 0.00 2.15
2027 2216 0.038159 GTATGATTAGCGAGCGGCCT 60.038 55.000 0.00 0.00 45.17 5.19
2043 2232 4.338400 AGCGGCCTGTTATTTAAGGAAATC 59.662 41.667 0.00 0.00 36.62 2.17
2048 2237 8.463607 CGGCCTGTTATTTAAGGAAATCTTTTA 58.536 33.333 0.00 0.00 36.62 1.52
2217 2407 6.587206 TTTAATCCACACATCAGAATTGCA 57.413 33.333 0.00 0.00 0.00 4.08
2229 2419 7.330946 CACATCAGAATTGCAATCTGTTTTCAT 59.669 33.333 25.08 15.26 43.77 2.57
2256 2446 0.388649 ATCTTCGCGACGTGCTCTTT 60.389 50.000 9.15 0.00 43.27 2.52
2270 2460 5.046520 ACGTGCTCTTTAAAACTAGATCCCT 60.047 40.000 0.00 0.00 0.00 4.20
2274 2464 8.204836 GTGCTCTTTAAAACTAGATCCCTCATA 58.795 37.037 0.00 0.00 0.00 2.15
2284 2474 7.546250 ACTAGATCCCTCATAGGTATGTTTG 57.454 40.000 0.00 0.00 35.26 2.93
2292 2482 5.293569 CCTCATAGGTATGTTTGAACGAACC 59.706 44.000 8.57 8.57 36.87 3.62
2381 2573 9.586435 CATATGTGTGTGTCAATAGTCTTTCTA 57.414 33.333 0.00 0.00 0.00 2.10
2500 2692 5.011227 TGTGTGTAACTAGACTACATTGCCA 59.989 40.000 11.04 4.27 38.04 4.92
2667 2861 6.534634 AGACTAAATTACAAGCCAACTGAGT 58.465 36.000 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 9.979578 AAATGTCATGCACTTAGAAATAAAACA 57.020 25.926 0.00 0.00 0.00 2.83
36 37 8.615211 GCCATTAAAAATGGAAATTTCATCCTC 58.385 33.333 20.26 2.75 41.64 3.71
38 39 8.278729 TGCCATTAAAAATGGAAATTTCATCC 57.721 30.769 20.26 4.11 41.64 3.51
39 40 9.724839 CATGCCATTAAAAATGGAAATTTCATC 57.275 29.630 20.26 4.17 41.64 2.92
40 41 8.688151 CCATGCCATTAAAAATGGAAATTTCAT 58.312 29.630 20.26 10.77 41.84 2.57
41 42 7.362747 GCCATGCCATTAAAAATGGAAATTTCA 60.363 33.333 20.26 9.18 41.84 2.69
42 43 6.974048 GCCATGCCATTAAAAATGGAAATTTC 59.026 34.615 20.26 9.83 41.84 2.17
43 44 6.404513 CGCCATGCCATTAAAAATGGAAATTT 60.405 34.615 20.26 0.00 41.84 1.82
44 45 5.066246 CGCCATGCCATTAAAAATGGAAATT 59.934 36.000 20.26 0.00 41.84 1.82
45 46 4.575645 CGCCATGCCATTAAAAATGGAAAT 59.424 37.500 20.26 10.89 41.84 2.17
46 47 3.937706 CGCCATGCCATTAAAAATGGAAA 59.062 39.130 20.26 9.27 41.84 3.13
47 48 3.529533 CGCCATGCCATTAAAAATGGAA 58.470 40.909 20.26 11.85 41.84 3.53
48 49 2.158986 CCGCCATGCCATTAAAAATGGA 60.159 45.455 20.26 7.76 41.84 3.41
49 50 2.211806 CCGCCATGCCATTAAAAATGG 58.788 47.619 13.26 13.26 42.12 3.16
50 51 2.903798 ACCGCCATGCCATTAAAAATG 58.096 42.857 0.00 0.00 0.00 2.32
51 52 3.625649 AACCGCCATGCCATTAAAAAT 57.374 38.095 0.00 0.00 0.00 1.82
52 53 3.409026 AAACCGCCATGCCATTAAAAA 57.591 38.095 0.00 0.00 0.00 1.94
53 54 3.409026 AAAACCGCCATGCCATTAAAA 57.591 38.095 0.00 0.00 0.00 1.52
54 55 4.744795 ATAAAACCGCCATGCCATTAAA 57.255 36.364 0.00 0.00 0.00 1.52
55 56 4.744795 AATAAAACCGCCATGCCATTAA 57.255 36.364 0.00 0.00 0.00 1.40
56 57 4.404073 AGAAATAAAACCGCCATGCCATTA 59.596 37.500 0.00 0.00 0.00 1.90
57 58 3.197549 AGAAATAAAACCGCCATGCCATT 59.802 39.130 0.00 0.00 0.00 3.16
58 59 2.765699 AGAAATAAAACCGCCATGCCAT 59.234 40.909 0.00 0.00 0.00 4.40
59 60 2.175202 AGAAATAAAACCGCCATGCCA 58.825 42.857 0.00 0.00 0.00 4.92
60 61 2.959507 AGAAATAAAACCGCCATGCC 57.040 45.000 0.00 0.00 0.00 4.40
61 62 4.798387 CACTTAGAAATAAAACCGCCATGC 59.202 41.667 0.00 0.00 0.00 4.06
62 63 4.798387 GCACTTAGAAATAAAACCGCCATG 59.202 41.667 0.00 0.00 0.00 3.66
63 64 4.461081 TGCACTTAGAAATAAAACCGCCAT 59.539 37.500 0.00 0.00 0.00 4.40
64 65 3.821600 TGCACTTAGAAATAAAACCGCCA 59.178 39.130 0.00 0.00 0.00 5.69
65 66 4.428615 TGCACTTAGAAATAAAACCGCC 57.571 40.909 0.00 0.00 0.00 6.13
66 67 4.798387 CCATGCACTTAGAAATAAAACCGC 59.202 41.667 0.00 0.00 0.00 5.68
67 68 4.798387 GCCATGCACTTAGAAATAAAACCG 59.202 41.667 0.00 0.00 0.00 4.44
68 69 5.719173 TGCCATGCACTTAGAAATAAAACC 58.281 37.500 0.00 0.00 31.71 3.27
69 70 7.761249 AGAATGCCATGCACTTAGAAATAAAAC 59.239 33.333 0.00 0.00 43.04 2.43
70 71 7.839907 AGAATGCCATGCACTTAGAAATAAAA 58.160 30.769 0.00 0.00 43.04 1.52
71 72 7.408756 AGAATGCCATGCACTTAGAAATAAA 57.591 32.000 0.00 0.00 43.04 1.40
72 73 7.408756 AAGAATGCCATGCACTTAGAAATAA 57.591 32.000 0.00 0.00 43.04 1.40
73 74 8.696043 ATAAGAATGCCATGCACTTAGAAATA 57.304 30.769 0.00 0.00 43.04 1.40
74 75 5.927281 AAGAATGCCATGCACTTAGAAAT 57.073 34.783 0.00 0.00 43.04 2.17
75 76 7.408756 AATAAGAATGCCATGCACTTAGAAA 57.591 32.000 0.00 0.00 43.04 2.52
76 77 8.518430 TTAATAAGAATGCCATGCACTTAGAA 57.482 30.769 0.00 0.00 43.04 2.10
77 78 8.570488 CATTAATAAGAATGCCATGCACTTAGA 58.430 33.333 0.00 0.00 43.04 2.10
78 79 8.570488 TCATTAATAAGAATGCCATGCACTTAG 58.430 33.333 0.00 0.00 43.04 2.18
79 80 8.462589 TCATTAATAAGAATGCCATGCACTTA 57.537 30.769 0.00 0.00 43.04 2.24
80 81 7.286087 TCTCATTAATAAGAATGCCATGCACTT 59.714 33.333 0.00 0.00 43.04 3.16
81 82 6.774170 TCTCATTAATAAGAATGCCATGCACT 59.226 34.615 0.00 0.00 43.04 4.40
82 83 6.973843 TCTCATTAATAAGAATGCCATGCAC 58.026 36.000 0.00 0.00 43.04 4.57
83 84 7.770366 ATCTCATTAATAAGAATGCCATGCA 57.230 32.000 0.00 0.00 44.86 3.96
84 85 9.731819 CATATCTCATTAATAAGAATGCCATGC 57.268 33.333 0.00 0.00 36.85 4.06
128 129 9.364989 GCACTTAAAAATAAAACTATCATGCCA 57.635 29.630 0.00 0.00 0.00 4.92
129 130 9.364989 TGCACTTAAAAATAAAACTATCATGCC 57.635 29.630 0.00 0.00 0.00 4.40
150 151 8.764287 GCTATTTTTAGAAAAATGTTGTGCACT 58.236 29.630 19.41 0.00 45.38 4.40
151 152 8.547069 TGCTATTTTTAGAAAAATGTTGTGCAC 58.453 29.630 18.79 10.75 45.38 4.57
152 153 8.654230 TGCTATTTTTAGAAAAATGTTGTGCA 57.346 26.923 18.79 16.47 45.38 4.57
208 209 9.561069 ACGATAAAAATGCCATCTCTTAATAGT 57.439 29.630 0.00 0.00 0.00 2.12
390 515 5.693961 TGCCATCAAGCCATCTCTTAAATA 58.306 37.500 0.00 0.00 0.00 1.40
391 516 4.539726 TGCCATCAAGCCATCTCTTAAAT 58.460 39.130 0.00 0.00 0.00 1.40
392 517 3.966979 TGCCATCAAGCCATCTCTTAAA 58.033 40.909 0.00 0.00 0.00 1.52
403 528 7.090173 TCTTAGTAAACAAAATGCCATCAAGC 58.910 34.615 0.00 0.00 0.00 4.01
405 530 8.402798 TCTCTTAGTAAACAAAATGCCATCAA 57.597 30.769 0.00 0.00 0.00 2.57
407 532 7.917505 CCATCTCTTAGTAAACAAAATGCCATC 59.082 37.037 0.00 0.00 0.00 3.51
408 533 7.631377 GCCATCTCTTAGTAAACAAAATGCCAT 60.631 37.037 0.00 0.00 0.00 4.40
409 534 6.350110 GCCATCTCTTAGTAAACAAAATGCCA 60.350 38.462 0.00 0.00 0.00 4.92
410 535 6.036470 GCCATCTCTTAGTAAACAAAATGCC 58.964 40.000 0.00 0.00 0.00 4.40
411 536 6.620678 TGCCATCTCTTAGTAAACAAAATGC 58.379 36.000 0.00 0.00 0.00 3.56
412 537 9.643693 AATTGCCATCTCTTAGTAAACAAAATG 57.356 29.630 0.00 0.00 0.00 2.32
443 568 7.043565 GGTGCCATCTTTTAAAATGACATGAT 58.956 34.615 0.00 0.00 0.00 2.45
444 569 6.211184 AGGTGCCATCTTTTAAAATGACATGA 59.789 34.615 0.00 0.00 0.00 3.07
445 570 6.400568 AGGTGCCATCTTTTAAAATGACATG 58.599 36.000 0.09 0.00 0.00 3.21
446 571 6.610075 AGGTGCCATCTTTTAAAATGACAT 57.390 33.333 0.09 0.00 0.00 3.06
448 573 7.226523 ACAAAAGGTGCCATCTTTTAAAATGAC 59.773 33.333 14.97 0.00 41.00 3.06
450 575 7.495135 ACAAAAGGTGCCATCTTTTAAAATG 57.505 32.000 14.97 6.46 41.00 2.32
451 576 8.518430 AAACAAAAGGTGCCATCTTTTAAAAT 57.482 26.923 14.97 0.64 41.00 1.82
452 577 7.929941 AAACAAAAGGTGCCATCTTTTAAAA 57.070 28.000 14.97 0.00 41.00 1.52
453 578 7.929941 AAAACAAAAGGTGCCATCTTTTAAA 57.070 28.000 14.97 0.00 41.00 1.52
454 579 7.148171 CCAAAAACAAAAGGTGCCATCTTTTAA 60.148 33.333 14.97 0.00 41.00 1.52
455 580 6.317391 CCAAAAACAAAAGGTGCCATCTTTTA 59.683 34.615 14.97 0.00 41.00 1.52
456 581 5.125257 CCAAAAACAAAAGGTGCCATCTTTT 59.875 36.000 9.87 9.87 42.92 2.27
457 582 4.639755 CCAAAAACAAAAGGTGCCATCTTT 59.360 37.500 0.00 0.00 36.15 2.52
458 583 4.198530 CCAAAAACAAAAGGTGCCATCTT 58.801 39.130 0.00 0.00 0.00 2.40
459 584 3.199727 ACCAAAAACAAAAGGTGCCATCT 59.800 39.130 0.00 0.00 32.04 2.90
460 585 3.540617 ACCAAAAACAAAAGGTGCCATC 58.459 40.909 0.00 0.00 32.04 3.51
461 586 3.199727 AGACCAAAAACAAAAGGTGCCAT 59.800 39.130 0.00 0.00 33.77 4.40
462 587 2.569404 AGACCAAAAACAAAAGGTGCCA 59.431 40.909 0.00 0.00 33.77 4.92
463 588 3.260475 AGACCAAAAACAAAAGGTGCC 57.740 42.857 0.00 0.00 33.77 5.01
464 589 8.426881 TTTTATAGACCAAAAACAAAAGGTGC 57.573 30.769 0.00 0.00 33.77 5.01
523 652 9.362539 CCCAAACAAGATTAGATCTGAAAAATG 57.637 33.333 5.18 0.34 40.13 2.32
561 693 0.037160 GTTTCCCCCTTTCGGCTACA 59.963 55.000 0.00 0.00 0.00 2.74
569 701 0.938192 TGAACCTGGTTTCCCCCTTT 59.062 50.000 14.28 0.00 0.00 3.11
570 702 0.187606 GTGAACCTGGTTTCCCCCTT 59.812 55.000 14.28 0.00 0.00 3.95
577 709 0.250338 GGAGCTCGTGAACCTGGTTT 60.250 55.000 14.28 0.00 0.00 3.27
578 710 1.371558 GGAGCTCGTGAACCTGGTT 59.628 57.895 12.82 12.82 0.00 3.67
579 711 2.584391 GGGAGCTCGTGAACCTGGT 61.584 63.158 7.83 0.00 0.00 4.00
580 712 2.266055 GGGAGCTCGTGAACCTGG 59.734 66.667 7.83 0.00 0.00 4.45
581 713 2.266055 GGGGAGCTCGTGAACCTG 59.734 66.667 7.83 0.00 0.00 4.00
582 714 2.203788 TGGGGAGCTCGTGAACCT 60.204 61.111 7.83 0.00 0.00 3.50
583 715 2.266055 CTGGGGAGCTCGTGAACC 59.734 66.667 7.83 2.23 0.00 3.62
584 716 2.435059 GCTGGGGAGCTCGTGAAC 60.435 66.667 7.83 0.00 0.00 3.18
585 717 4.069232 CGCTGGGGAGCTCGTGAA 62.069 66.667 7.83 0.00 0.00 3.18
590 722 4.828925 GTCTGCGCTGGGGAGCTC 62.829 72.222 14.70 4.71 39.02 4.09
591 723 3.965026 TAGTCTGCGCTGGGGAGCT 62.965 63.158 14.70 10.86 39.02 4.09
592 724 2.521958 TTTAGTCTGCGCTGGGGAGC 62.522 60.000 14.70 4.28 38.73 4.70
593 725 0.036388 TTTTAGTCTGCGCTGGGGAG 60.036 55.000 14.70 6.91 34.99 4.30
594 726 0.398696 TTTTTAGTCTGCGCTGGGGA 59.601 50.000 14.70 1.77 0.00 4.81
595 727 2.941210 TTTTTAGTCTGCGCTGGGG 58.059 52.632 14.70 0.00 0.00 4.96
612 744 0.322008 CGCTGGGGAGCTCTCTTTTT 60.322 55.000 14.63 0.00 0.00 1.94
613 745 1.194781 TCGCTGGGGAGCTCTCTTTT 61.195 55.000 14.63 0.00 0.00 2.27
614 746 1.194781 TTCGCTGGGGAGCTCTCTTT 61.195 55.000 14.63 0.00 0.00 2.52
615 747 1.610673 TTCGCTGGGGAGCTCTCTT 60.611 57.895 14.63 0.00 0.00 2.85
616 748 2.038007 TTCGCTGGGGAGCTCTCT 59.962 61.111 14.63 0.00 0.00 3.10
617 749 2.498726 CTTCGCTGGGGAGCTCTC 59.501 66.667 14.64 10.01 0.00 3.20
618 750 3.080121 CCTTCGCTGGGGAGCTCT 61.080 66.667 14.64 0.00 0.00 4.09
619 751 2.185310 TTTCCTTCGCTGGGGAGCTC 62.185 60.000 4.71 4.71 32.80 4.09
620 752 1.779061 TTTTCCTTCGCTGGGGAGCT 61.779 55.000 0.00 0.00 32.80 4.09
621 753 0.681243 ATTTTCCTTCGCTGGGGAGC 60.681 55.000 0.00 0.00 32.80 4.70
622 754 1.098050 CATTTTCCTTCGCTGGGGAG 58.902 55.000 0.00 0.00 32.80 4.30
623 755 0.404040 ACATTTTCCTTCGCTGGGGA 59.596 50.000 0.00 0.00 0.00 4.81
624 756 1.202348 GAACATTTTCCTTCGCTGGGG 59.798 52.381 0.00 0.00 0.00 4.96
625 757 1.135689 CGAACATTTTCCTTCGCTGGG 60.136 52.381 0.00 0.00 33.47 4.45
626 758 2.247311 CGAACATTTTCCTTCGCTGG 57.753 50.000 0.00 0.00 33.47 4.85
630 762 1.535462 ACCAGCGAACATTTTCCTTCG 59.465 47.619 0.00 0.00 41.78 3.79
631 763 2.351738 CCACCAGCGAACATTTTCCTTC 60.352 50.000 0.00 0.00 0.00 3.46
632 764 1.613437 CCACCAGCGAACATTTTCCTT 59.387 47.619 0.00 0.00 0.00 3.36
633 765 1.202879 TCCACCAGCGAACATTTTCCT 60.203 47.619 0.00 0.00 0.00 3.36
634 766 1.243902 TCCACCAGCGAACATTTTCC 58.756 50.000 0.00 0.00 0.00 3.13
635 767 2.476185 CGATCCACCAGCGAACATTTTC 60.476 50.000 0.00 0.00 0.00 2.29
636 768 1.468520 CGATCCACCAGCGAACATTTT 59.531 47.619 0.00 0.00 0.00 1.82
637 769 1.086696 CGATCCACCAGCGAACATTT 58.913 50.000 0.00 0.00 0.00 2.32
638 770 0.249120 TCGATCCACCAGCGAACATT 59.751 50.000 0.00 0.00 0.00 2.71
639 771 0.460284 GTCGATCCACCAGCGAACAT 60.460 55.000 0.00 0.00 35.66 2.71
640 772 1.080093 GTCGATCCACCAGCGAACA 60.080 57.895 0.00 0.00 35.66 3.18
641 773 2.158959 CGTCGATCCACCAGCGAAC 61.159 63.158 0.00 0.00 35.66 3.95
642 774 2.180769 CGTCGATCCACCAGCGAA 59.819 61.111 0.00 0.00 35.66 4.70
643 775 2.748647 TCGTCGATCCACCAGCGA 60.749 61.111 0.00 0.00 0.00 4.93
644 776 2.278206 CTCGTCGATCCACCAGCG 60.278 66.667 0.00 0.00 0.00 5.18
645 777 2.583593 GCTCGTCGATCCACCAGC 60.584 66.667 0.00 0.00 0.00 4.85
646 778 2.105128 GGCTCGTCGATCCACCAG 59.895 66.667 10.22 0.00 0.00 4.00
647 779 2.678580 TGGCTCGTCGATCCACCA 60.679 61.111 13.66 7.87 0.00 4.17
648 780 2.105128 CTGGCTCGTCGATCCACC 59.895 66.667 13.66 5.40 0.00 4.61
649 781 2.583593 GCTGGCTCGTCGATCCAC 60.584 66.667 13.66 7.64 0.00 4.02
650 782 4.193334 CGCTGGCTCGTCGATCCA 62.193 66.667 16.48 16.48 0.00 3.41
651 783 3.411418 TTCGCTGGCTCGTCGATCC 62.411 63.158 8.20 8.20 31.96 3.36
652 784 2.102357 TTCGCTGGCTCGTCGATC 59.898 61.111 0.00 0.00 31.96 3.69
653 785 2.202623 GTTCGCTGGCTCGTCGAT 60.203 61.111 0.00 0.00 31.96 3.59
654 786 2.686956 TTTGTTCGCTGGCTCGTCGA 62.687 55.000 0.00 0.00 0.00 4.20
655 787 1.827315 TTTTGTTCGCTGGCTCGTCG 61.827 55.000 0.00 0.00 0.00 5.12
656 788 0.384353 GTTTTGTTCGCTGGCTCGTC 60.384 55.000 0.33 0.00 0.00 4.20
657 789 1.647084 GTTTTGTTCGCTGGCTCGT 59.353 52.632 0.33 0.00 0.00 4.18
658 790 1.438710 CGTTTTGTTCGCTGGCTCG 60.439 57.895 0.00 0.00 0.00 5.03
659 791 0.517316 ATCGTTTTGTTCGCTGGCTC 59.483 50.000 0.00 0.00 0.00 4.70
660 792 0.517316 GATCGTTTTGTTCGCTGGCT 59.483 50.000 0.00 0.00 0.00 4.75
661 793 0.789383 CGATCGTTTTGTTCGCTGGC 60.789 55.000 7.03 0.00 33.48 4.85
662 794 3.274196 CGATCGTTTTGTTCGCTGG 57.726 52.632 7.03 0.00 33.48 4.85
666 798 0.787787 TCCAGCGATCGTTTTGTTCG 59.212 50.000 17.81 0.00 41.61 3.95
667 799 1.798813 ACTCCAGCGATCGTTTTGTTC 59.201 47.619 17.81 0.00 0.00 3.18
668 800 1.798813 GACTCCAGCGATCGTTTTGTT 59.201 47.619 17.81 0.00 0.00 2.83
669 801 1.000955 AGACTCCAGCGATCGTTTTGT 59.999 47.619 17.81 8.80 0.00 2.83
670 802 1.656095 GAGACTCCAGCGATCGTTTTG 59.344 52.381 17.81 12.45 0.00 2.44
671 803 1.272490 TGAGACTCCAGCGATCGTTTT 59.728 47.619 17.81 0.00 0.00 2.43
672 804 0.888619 TGAGACTCCAGCGATCGTTT 59.111 50.000 17.81 2.45 0.00 3.60
673 805 1.066303 GATGAGACTCCAGCGATCGTT 59.934 52.381 17.81 8.05 0.00 3.85
674 806 0.665835 GATGAGACTCCAGCGATCGT 59.334 55.000 17.81 0.26 0.00 3.73
675 807 0.665298 TGATGAGACTCCAGCGATCG 59.335 55.000 11.69 11.69 0.00 3.69
676 808 1.952990 TCTGATGAGACTCCAGCGATC 59.047 52.381 0.00 0.00 0.00 3.69
677 809 2.064434 TCTGATGAGACTCCAGCGAT 57.936 50.000 0.00 0.00 0.00 4.58
678 810 1.839424 TTCTGATGAGACTCCAGCGA 58.161 50.000 0.00 0.00 0.00 4.93
679 811 2.886862 ATTCTGATGAGACTCCAGCG 57.113 50.000 0.00 0.00 0.00 5.18
680 812 5.447010 CGAAAAATTCTGATGAGACTCCAGC 60.447 44.000 0.00 0.00 0.00 4.85
681 813 5.871524 TCGAAAAATTCTGATGAGACTCCAG 59.128 40.000 0.00 1.25 0.00 3.86
682 814 5.793817 TCGAAAAATTCTGATGAGACTCCA 58.206 37.500 0.00 0.00 0.00 3.86
683 815 6.314896 ACATCGAAAAATTCTGATGAGACTCC 59.685 38.462 20.78 0.00 40.14 3.85
684 816 7.301068 ACATCGAAAAATTCTGATGAGACTC 57.699 36.000 20.78 0.00 40.14 3.36
685 817 7.678947 AACATCGAAAAATTCTGATGAGACT 57.321 32.000 20.78 6.21 40.14 3.24
686 818 8.733857 AAAACATCGAAAAATTCTGATGAGAC 57.266 30.769 20.78 0.00 40.14 3.36
713 845 9.108284 GGATGAACAGGAAATTCAAAAGAAAAA 57.892 29.630 0.00 0.00 39.43 1.94
714 846 8.485392 AGGATGAACAGGAAATTCAAAAGAAAA 58.515 29.630 0.00 0.00 39.43 2.29
715 847 7.927629 CAGGATGAACAGGAAATTCAAAAGAAA 59.072 33.333 0.00 0.00 39.43 2.52
716 848 7.287466 TCAGGATGAACAGGAAATTCAAAAGAA 59.713 33.333 0.00 0.00 45.97 2.52
717 849 6.777091 TCAGGATGAACAGGAAATTCAAAAGA 59.223 34.615 0.00 0.00 45.97 2.52
718 850 6.985117 TCAGGATGAACAGGAAATTCAAAAG 58.015 36.000 0.00 0.00 45.97 2.27
719 851 6.975196 TCAGGATGAACAGGAAATTCAAAA 57.025 33.333 0.00 0.00 45.97 2.44
735 867 3.741856 CGATCTCATTTCAGCTCAGGATG 59.258 47.826 0.00 0.00 37.54 3.51
736 868 3.640498 TCGATCTCATTTCAGCTCAGGAT 59.360 43.478 0.00 0.00 0.00 3.24
737 869 3.026694 TCGATCTCATTTCAGCTCAGGA 58.973 45.455 0.00 0.00 0.00 3.86
738 870 3.067883 TCTCGATCTCATTTCAGCTCAGG 59.932 47.826 0.00 0.00 0.00 3.86
739 871 4.304537 TCTCGATCTCATTTCAGCTCAG 57.695 45.455 0.00 0.00 0.00 3.35
740 872 4.725790 TTCTCGATCTCATTTCAGCTCA 57.274 40.909 0.00 0.00 0.00 4.26
741 873 6.676950 TCTATTCTCGATCTCATTTCAGCTC 58.323 40.000 0.00 0.00 0.00 4.09
742 874 6.647334 TCTATTCTCGATCTCATTTCAGCT 57.353 37.500 0.00 0.00 0.00 4.24
743 875 6.365789 CCTTCTATTCTCGATCTCATTTCAGC 59.634 42.308 0.00 0.00 0.00 4.26
744 876 6.867816 CCCTTCTATTCTCGATCTCATTTCAG 59.132 42.308 0.00 0.00 0.00 3.02
745 877 6.239430 CCCCTTCTATTCTCGATCTCATTTCA 60.239 42.308 0.00 0.00 0.00 2.69
746 878 6.015010 TCCCCTTCTATTCTCGATCTCATTTC 60.015 42.308 0.00 0.00 0.00 2.17
747 879 5.841237 TCCCCTTCTATTCTCGATCTCATTT 59.159 40.000 0.00 0.00 0.00 2.32
748 880 5.245075 GTCCCCTTCTATTCTCGATCTCATT 59.755 44.000 0.00 0.00 0.00 2.57
749 881 4.770010 GTCCCCTTCTATTCTCGATCTCAT 59.230 45.833 0.00 0.00 0.00 2.90
750 882 4.141135 AGTCCCCTTCTATTCTCGATCTCA 60.141 45.833 0.00 0.00 0.00 3.27
751 883 4.403734 AGTCCCCTTCTATTCTCGATCTC 58.596 47.826 0.00 0.00 0.00 2.75
752 884 4.463050 AGTCCCCTTCTATTCTCGATCT 57.537 45.455 0.00 0.00 0.00 2.75
753 885 5.534407 GAAAGTCCCCTTCTATTCTCGATC 58.466 45.833 0.00 0.00 0.00 3.69
754 886 4.038162 CGAAAGTCCCCTTCTATTCTCGAT 59.962 45.833 0.00 0.00 29.29 3.59
755 887 3.380637 CGAAAGTCCCCTTCTATTCTCGA 59.619 47.826 0.00 0.00 29.29 4.04
756 888 3.130693 ACGAAAGTCCCCTTCTATTCTCG 59.869 47.826 0.00 0.00 44.19 4.04
757 889 4.739587 ACGAAAGTCCCCTTCTATTCTC 57.260 45.455 0.00 0.00 44.19 2.87
772 904 7.715265 AGAATAGCACCAATATACACGAAAG 57.285 36.000 0.00 0.00 0.00 2.62
773 905 7.870954 CCTAGAATAGCACCAATATACACGAAA 59.129 37.037 0.00 0.00 37.37 3.46
774 906 7.231925 TCCTAGAATAGCACCAATATACACGAA 59.768 37.037 0.00 0.00 37.37 3.85
775 907 6.717997 TCCTAGAATAGCACCAATATACACGA 59.282 38.462 0.00 0.00 37.37 4.35
776 908 6.920817 TCCTAGAATAGCACCAATATACACG 58.079 40.000 0.00 0.00 37.37 4.49
777 909 7.815068 CACTCCTAGAATAGCACCAATATACAC 59.185 40.741 0.00 0.00 37.37 2.90
778 910 7.509318 ACACTCCTAGAATAGCACCAATATACA 59.491 37.037 0.00 0.00 37.37 2.29
779 911 7.897864 ACACTCCTAGAATAGCACCAATATAC 58.102 38.462 0.00 0.00 37.37 1.47
780 912 7.950684 AGACACTCCTAGAATAGCACCAATATA 59.049 37.037 0.00 0.00 37.37 0.86
781 913 6.784969 AGACACTCCTAGAATAGCACCAATAT 59.215 38.462 0.00 0.00 37.37 1.28
782 914 6.136857 AGACACTCCTAGAATAGCACCAATA 58.863 40.000 0.00 0.00 37.37 1.90
783 915 4.965532 AGACACTCCTAGAATAGCACCAAT 59.034 41.667 0.00 0.00 37.37 3.16
784 916 4.353777 AGACACTCCTAGAATAGCACCAA 58.646 43.478 0.00 0.00 37.37 3.67
785 917 3.954904 GAGACACTCCTAGAATAGCACCA 59.045 47.826 0.00 0.00 37.37 4.17
786 918 3.319689 GGAGACACTCCTAGAATAGCACC 59.680 52.174 10.16 0.00 46.41 5.01
787 919 4.577834 GGAGACACTCCTAGAATAGCAC 57.422 50.000 10.16 0.00 46.41 4.40
799 931 6.810911 TCTGCATTTATTCTAGGAGACACTC 58.189 40.000 0.00 0.00 0.00 3.51
800 932 6.183360 CCTCTGCATTTATTCTAGGAGACACT 60.183 42.308 0.00 0.00 0.00 3.55
801 933 5.988561 CCTCTGCATTTATTCTAGGAGACAC 59.011 44.000 0.00 0.00 0.00 3.67
802 934 5.453903 GCCTCTGCATTTATTCTAGGAGACA 60.454 44.000 0.00 0.00 37.47 3.41
803 935 4.994217 GCCTCTGCATTTATTCTAGGAGAC 59.006 45.833 0.00 0.00 37.47 3.36
804 936 4.262207 CGCCTCTGCATTTATTCTAGGAGA 60.262 45.833 0.00 0.00 37.32 3.71
805 937 3.993081 CGCCTCTGCATTTATTCTAGGAG 59.007 47.826 0.00 0.00 37.32 3.69
806 938 3.244215 CCGCCTCTGCATTTATTCTAGGA 60.244 47.826 0.00 0.00 37.32 2.94
807 939 3.070018 CCGCCTCTGCATTTATTCTAGG 58.930 50.000 0.00 0.00 37.32 3.02
808 940 3.496130 CACCGCCTCTGCATTTATTCTAG 59.504 47.826 0.00 0.00 37.32 2.43
809 941 3.466836 CACCGCCTCTGCATTTATTCTA 58.533 45.455 0.00 0.00 37.32 2.10
810 942 2.292267 CACCGCCTCTGCATTTATTCT 58.708 47.619 0.00 0.00 37.32 2.40
811 943 1.334869 CCACCGCCTCTGCATTTATTC 59.665 52.381 0.00 0.00 37.32 1.75
822 954 2.093658 TGACTTATCTTTCCACCGCCTC 60.094 50.000 0.00 0.00 0.00 4.70
872 1004 7.776107 TCTTCCTGATTTAGAGATGTACAGTG 58.224 38.462 0.33 0.00 0.00 3.66
874 1006 9.311916 CTTTCTTCCTGATTTAGAGATGTACAG 57.688 37.037 0.33 0.00 0.00 2.74
940 1080 1.078848 CAGCACACTACCTCCAGCC 60.079 63.158 0.00 0.00 0.00 4.85
942 1082 1.078848 GGCAGCACACTACCTCCAG 60.079 63.158 0.00 0.00 0.00 3.86
949 1089 3.000041 CAATAAACTCGGCAGCACACTA 59.000 45.455 0.00 0.00 0.00 2.74
955 1095 0.804989 ACAGCAATAAACTCGGCAGC 59.195 50.000 0.00 0.00 0.00 5.25
975 1115 2.125350 GAGAAGAGCACAGCGGGG 60.125 66.667 0.00 0.00 0.00 5.73
980 1120 1.204467 GGTGGAGAGAGAAGAGCACAG 59.796 57.143 0.00 0.00 0.00 3.66
1134 1281 3.126001 TGCTCCTTCAACCAGTAACTG 57.874 47.619 0.00 0.00 0.00 3.16
1140 1287 1.151668 CGACTTGCTCCTTCAACCAG 58.848 55.000 0.00 0.00 0.00 4.00
1169 1324 2.472861 CGGCTCTTAGTTATGCATCACG 59.527 50.000 0.19 0.00 0.00 4.35
1173 1328 1.543429 GCCCGGCTCTTAGTTATGCAT 60.543 52.381 3.79 3.79 0.00 3.96
1174 1329 0.179056 GCCCGGCTCTTAGTTATGCA 60.179 55.000 0.71 0.00 0.00 3.96
1196 1353 6.634436 GCAATGCCTTCGATAAATTGAACTAG 59.366 38.462 12.25 0.00 31.34 2.57
1221 1378 0.512952 GTACTCAAGGCACACAAGCG 59.487 55.000 0.00 0.00 34.64 4.68
1248 1405 4.092771 TGTATCTCTCTCGGTTGTTTCG 57.907 45.455 0.00 0.00 0.00 3.46
1270 1427 1.478916 GTAGGAGCTGGTTCTCTCACC 59.521 57.143 0.00 0.00 37.34 4.02
1678 1840 0.382758 CGTACTCCGTAGACATCGCG 60.383 60.000 0.00 0.00 0.00 5.87
1839 2028 6.265196 ACAGAAGCAAATATCAAGTGGAAACA 59.735 34.615 0.00 0.00 38.70 2.83
1840 2029 6.681777 ACAGAAGCAAATATCAAGTGGAAAC 58.318 36.000 0.00 0.00 0.00 2.78
1861 2050 3.499918 GCTAGTGCTATGCCCAATTACAG 59.500 47.826 0.00 0.00 36.03 2.74
1914 2103 7.416154 TCATAGACAAAAAGTGGTACGAAAG 57.584 36.000 0.00 0.00 0.00 2.62
1966 2155 2.671396 AGACGCGTCCACATGTTTAATC 59.329 45.455 34.08 6.15 0.00 1.75
1995 2184 3.797353 CATACTGGGCGGCTGGGT 61.797 66.667 9.56 8.02 0.00 4.51
2202 2392 5.717078 AACAGATTGCAATTCTGATGTGT 57.283 34.783 29.49 15.68 35.62 3.72
2217 2407 8.454106 CGAAGATTCCAACTATGAAAACAGATT 58.546 33.333 0.00 0.00 0.00 2.40
2229 2419 1.200716 ACGTCGCGAAGATTCCAACTA 59.799 47.619 28.43 0.00 0.00 2.24
2256 2446 9.670442 AACATACCTATGAGGGATCTAGTTTTA 57.330 33.333 0.00 0.00 36.57 1.52
2270 2460 5.795972 TGGTTCGTTCAAACATACCTATGA 58.204 37.500 12.10 0.00 37.15 2.15
2274 2464 4.062991 GACTGGTTCGTTCAAACATACCT 58.937 43.478 12.10 0.00 34.73 3.08
2381 2573 6.151691 GCACACACATTGATGTTTAGTTGAT 58.848 36.000 0.00 0.00 39.39 2.57
2500 2692 4.931601 CACATATATATGCTCAGTTGGCGT 59.068 41.667 20.46 0.00 37.19 5.68
2540 2732 9.225436 TCTAGTTGCACACACATTGATATTTAA 57.775 29.630 0.00 0.00 0.00 1.52
2667 2861 5.932619 AGGACTAGTTGCACACACATATA 57.067 39.130 0.00 0.00 0.00 0.86


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

AutoCloner maintained by Alex Coulton.