Multiple sequence alignment - TraesCS4A01G061800

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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 TraesCS4A01G061800 chr4A 100.000 3443 0 0 1 3443 58569106 58572548 0.000000e+00 6359.0
1 TraesCS4A01G061800 chr4A 94.246 1425 79 2 1011 2432 58810212 58808788 0.000000e+00 2174.0
2 TraesCS4A01G061800 chr4D 96.246 1971 52 13 774 2742 400826884 400828834 0.000000e+00 3210.0
3 TraesCS4A01G061800 chr4D 93.897 1442 80 7 1011 2445 400928393 400926953 0.000000e+00 2169.0
4 TraesCS4A01G061800 chr4D 93.299 1149 72 3 1239 2383 417422532 417421385 0.000000e+00 1690.0
5 TraesCS4A01G061800 chr4D 90.308 650 55 6 2795 3442 99206955 99207598 0.000000e+00 845.0
6 TraesCS4A01G061800 chr4D 93.000 100 7 0 1011 1110 417422669 417422570 2.770000e-31 147.0
7 TraesCS4A01G061800 chr4D 97.826 46 1 0 1177 1222 417422570 417422525 2.850000e-11 80.5
8 TraesCS4A01G061800 chr4B 96.474 1900 45 11 842 2735 495147911 495149794 0.000000e+00 3118.0
9 TraesCS4A01G061800 chr4B 93.477 1441 88 4 1011 2445 495356620 495355180 0.000000e+00 2135.0
10 TraesCS4A01G061800 chr7A 93.119 654 45 0 1 654 624824086 624824739 0.000000e+00 959.0
11 TraesCS4A01G061800 chr7A 90.578 658 56 5 2788 3442 6799041 6799695 0.000000e+00 867.0
12 TraesCS4A01G061800 chr7A 90.738 637 58 1 2807 3442 670685972 670686608 0.000000e+00 848.0
13 TraesCS4A01G061800 chr5A 92.791 652 45 2 4 654 141064775 141064125 0.000000e+00 942.0
14 TraesCS4A01G061800 chr5A 78.135 654 135 8 7 656 579214175 579213526 3.200000e-110 409.0
15 TraesCS4A01G061800 chr6D 90.826 654 56 4 2792 3442 68329394 68328742 0.000000e+00 872.0
16 TraesCS4A01G061800 chr6D 89.787 656 64 3 2788 3441 382343523 382344177 0.000000e+00 837.0
17 TraesCS4A01G061800 chr1D 90.259 657 60 4 2788 3442 375353359 375352705 0.000000e+00 856.0
18 TraesCS4A01G061800 chr1D 90.382 655 58 5 2790 3442 389331140 389330489 0.000000e+00 856.0
19 TraesCS4A01G061800 chr7D 90.123 648 63 1 2796 3442 80327100 80326453 0.000000e+00 841.0
20 TraesCS4A01G061800 chr3B 89.403 670 61 7 2780 3442 749489315 749488649 0.000000e+00 835.0
21 TraesCS4A01G061800 chr3B 83.767 653 106 0 4 656 786068008 786067356 1.360000e-173 619.0
22 TraesCS4A01G061800 chr2A 89.450 654 69 0 1 654 105601540 105602193 0.000000e+00 826.0
23 TraesCS4A01G061800 chr3A 88.444 649 75 0 6 654 702973446 702972798 0.000000e+00 784.0
24 TraesCS4A01G061800 chr6B 86.585 656 88 0 1 656 219189370 219190025 0.000000e+00 725.0
25 TraesCS4A01G061800 chr5B 84.170 657 102 2 1 656 610284665 610285320 1.350000e-178 636.0
26 TraesCS4A01G061800 chr2B 84.227 653 103 0 4 656 273050717 273050065 1.350000e-178 636.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G061800 chr4A 58569106 58572548 3442 False 6359.000000 6359 100.000000 1 3443 1 chr4A.!!$F1 3442
1 TraesCS4A01G061800 chr4A 58808788 58810212 1424 True 2174.000000 2174 94.246000 1011 2432 1 chr4A.!!$R1 1421
2 TraesCS4A01G061800 chr4D 400826884 400828834 1950 False 3210.000000 3210 96.246000 774 2742 1 chr4D.!!$F2 1968
3 TraesCS4A01G061800 chr4D 400926953 400928393 1440 True 2169.000000 2169 93.897000 1011 2445 1 chr4D.!!$R1 1434
4 TraesCS4A01G061800 chr4D 99206955 99207598 643 False 845.000000 845 90.308000 2795 3442 1 chr4D.!!$F1 647
5 TraesCS4A01G061800 chr4D 417421385 417422669 1284 True 639.166667 1690 94.708333 1011 2383 3 chr4D.!!$R2 1372
6 TraesCS4A01G061800 chr4B 495147911 495149794 1883 False 3118.000000 3118 96.474000 842 2735 1 chr4B.!!$F1 1893
7 TraesCS4A01G061800 chr4B 495355180 495356620 1440 True 2135.000000 2135 93.477000 1011 2445 1 chr4B.!!$R1 1434
8 TraesCS4A01G061800 chr7A 624824086 624824739 653 False 959.000000 959 93.119000 1 654 1 chr7A.!!$F2 653
9 TraesCS4A01G061800 chr7A 6799041 6799695 654 False 867.000000 867 90.578000 2788 3442 1 chr7A.!!$F1 654
10 TraesCS4A01G061800 chr7A 670685972 670686608 636 False 848.000000 848 90.738000 2807 3442 1 chr7A.!!$F3 635
11 TraesCS4A01G061800 chr5A 141064125 141064775 650 True 942.000000 942 92.791000 4 654 1 chr5A.!!$R1 650
12 TraesCS4A01G061800 chr5A 579213526 579214175 649 True 409.000000 409 78.135000 7 656 1 chr5A.!!$R2 649
13 TraesCS4A01G061800 chr6D 68328742 68329394 652 True 872.000000 872 90.826000 2792 3442 1 chr6D.!!$R1 650
14 TraesCS4A01G061800 chr6D 382343523 382344177 654 False 837.000000 837 89.787000 2788 3441 1 chr6D.!!$F1 653
15 TraesCS4A01G061800 chr1D 375352705 375353359 654 True 856.000000 856 90.259000 2788 3442 1 chr1D.!!$R1 654
16 TraesCS4A01G061800 chr1D 389330489 389331140 651 True 856.000000 856 90.382000 2790 3442 1 chr1D.!!$R2 652
17 TraesCS4A01G061800 chr7D 80326453 80327100 647 True 841.000000 841 90.123000 2796 3442 1 chr7D.!!$R1 646
18 TraesCS4A01G061800 chr3B 749488649 749489315 666 True 835.000000 835 89.403000 2780 3442 1 chr3B.!!$R1 662
19 TraesCS4A01G061800 chr3B 786067356 786068008 652 True 619.000000 619 83.767000 4 656 1 chr3B.!!$R2 652
20 TraesCS4A01G061800 chr2A 105601540 105602193 653 False 826.000000 826 89.450000 1 654 1 chr2A.!!$F1 653
21 TraesCS4A01G061800 chr3A 702972798 702973446 648 True 784.000000 784 88.444000 6 654 1 chr3A.!!$R1 648
22 TraesCS4A01G061800 chr6B 219189370 219190025 655 False 725.000000 725 86.585000 1 656 1 chr6B.!!$F1 655
23 TraesCS4A01G061800 chr5B 610284665 610285320 655 False 636.000000 636 84.170000 1 656 1 chr5B.!!$F1 655
24 TraesCS4A01G061800 chr2B 273050065 273050717 652 True 636.000000 636 84.227000 4 656 1 chr2B.!!$R1 652

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
726 727 0.099436 GCCCTAAACAATGCGAGCAG 59.901 55.0 3.58 0.0 0.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2648 2667 1.021202 TTGGCAAGACTGTTCCGTTG 58.979 50.0 0.0 0.0 0.0 4.1 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
95 96 4.641645 CACCCACGGCCTTGCTGA 62.642 66.667 3.07 0.00 38.46 4.26
156 157 7.121315 AGGACAATGCTAAACTTGTTTAGATCC 59.879 37.037 27.49 22.73 36.81 3.36
177 178 0.252239 GGATGCCCAACCCTCCTTTT 60.252 55.000 0.00 0.00 0.00 2.27
226 227 1.844289 ACCTTGCACTTACCCCCGA 60.844 57.895 0.00 0.00 0.00 5.14
240 241 2.418910 CCCGACGAGCTGGTCATCT 61.419 63.158 25.81 0.00 36.73 2.90
257 258 3.459227 TCATCTTGGCACCATAGGAATCA 59.541 43.478 0.00 0.00 0.00 2.57
278 279 1.486726 CCTTCGGGCCTTGTCTATCTT 59.513 52.381 0.84 0.00 0.00 2.40
329 330 0.313672 GTCATGGCGAAAGTTGGCAA 59.686 50.000 0.00 0.00 45.55 4.52
389 390 3.553105 GCCAAGTTGAGCAGTTTTTCTTG 59.447 43.478 3.87 0.00 0.00 3.02
458 459 0.749818 CTCAGCCTCAGCCTAGTCGA 60.750 60.000 0.00 0.00 41.25 4.20
618 619 3.476552 TGCTTCTCCGAATTTTGTCAGT 58.523 40.909 0.00 0.00 0.00 3.41
631 632 7.360353 CGAATTTTGTCAGTAGATCAAGAAGCA 60.360 37.037 0.00 0.00 0.00 3.91
657 658 2.609299 TCCGCCTTGGATGGGTGA 60.609 61.111 0.00 0.00 43.74 4.02
658 659 2.438434 CCGCCTTGGATGGGTGAC 60.438 66.667 0.00 0.00 42.00 3.67
659 660 2.671070 CGCCTTGGATGGGTGACT 59.329 61.111 0.00 0.00 36.54 3.41
660 661 1.622607 CCGCCTTGGATGGGTGACTA 61.623 60.000 0.00 0.00 42.00 2.59
661 662 0.179073 CGCCTTGGATGGGTGACTAG 60.179 60.000 0.00 0.00 36.54 2.57
662 663 0.912486 GCCTTGGATGGGTGACTAGT 59.088 55.000 0.00 0.00 0.00 2.57
663 664 1.134371 GCCTTGGATGGGTGACTAGTC 60.134 57.143 16.32 16.32 0.00 2.59
664 665 2.187958 CCTTGGATGGGTGACTAGTCA 58.812 52.381 21.74 21.74 37.24 3.41
665 666 2.571653 CCTTGGATGGGTGACTAGTCAA 59.428 50.000 26.74 12.55 41.85 3.18
666 667 3.600388 CTTGGATGGGTGACTAGTCAAC 58.400 50.000 29.38 29.38 46.18 3.18
672 673 2.806608 GGTGACTAGTCAACGGACAA 57.193 50.000 26.74 0.00 46.80 3.18
673 674 3.102052 GGTGACTAGTCAACGGACAAA 57.898 47.619 26.74 0.00 46.80 2.83
674 675 3.660865 GGTGACTAGTCAACGGACAAAT 58.339 45.455 26.74 0.00 46.80 2.32
675 676 4.813027 GGTGACTAGTCAACGGACAAATA 58.187 43.478 26.74 0.00 46.80 1.40
676 677 5.232463 GGTGACTAGTCAACGGACAAATAA 58.768 41.667 26.74 0.00 46.80 1.40
677 678 5.119743 GGTGACTAGTCAACGGACAAATAAC 59.880 44.000 26.74 9.60 46.80 1.89
678 679 4.919168 TGACTAGTCAACGGACAAATAACG 59.081 41.667 23.24 0.00 46.80 3.18
679 680 4.874970 ACTAGTCAACGGACAAATAACGT 58.125 39.130 0.00 0.00 46.80 3.99
680 681 4.682860 ACTAGTCAACGGACAAATAACGTG 59.317 41.667 0.00 0.00 46.80 4.49
681 682 3.460103 AGTCAACGGACAAATAACGTGT 58.540 40.909 0.00 0.00 46.80 4.49
682 683 3.492011 AGTCAACGGACAAATAACGTGTC 59.508 43.478 0.00 0.00 46.80 3.67
696 697 2.159327 CGTGTCCGTTTTAAGGGTCT 57.841 50.000 1.56 0.00 35.51 3.85
697 698 1.796459 CGTGTCCGTTTTAAGGGTCTG 59.204 52.381 1.56 0.00 35.51 3.51
698 699 1.534163 GTGTCCGTTTTAAGGGTCTGC 59.466 52.381 1.56 0.00 35.51 4.26
699 700 1.418637 TGTCCGTTTTAAGGGTCTGCT 59.581 47.619 1.56 0.00 35.51 4.24
700 701 2.158726 TGTCCGTTTTAAGGGTCTGCTT 60.159 45.455 1.56 0.00 35.51 3.91
701 702 2.882761 GTCCGTTTTAAGGGTCTGCTTT 59.117 45.455 1.56 0.00 35.51 3.51
702 703 3.058432 GTCCGTTTTAAGGGTCTGCTTTC 60.058 47.826 1.56 0.00 35.51 2.62
703 704 2.095919 CCGTTTTAAGGGTCTGCTTTCG 60.096 50.000 0.00 0.00 0.00 3.46
704 705 2.803956 CGTTTTAAGGGTCTGCTTTCGA 59.196 45.455 0.00 0.00 0.00 3.71
705 706 3.249080 CGTTTTAAGGGTCTGCTTTCGAA 59.751 43.478 0.00 0.00 0.00 3.71
706 707 4.083484 CGTTTTAAGGGTCTGCTTTCGAAT 60.083 41.667 0.00 0.00 0.00 3.34
707 708 5.154222 GTTTTAAGGGTCTGCTTTCGAATG 58.846 41.667 0.00 2.02 0.00 2.67
708 709 1.168714 AAGGGTCTGCTTTCGAATGC 58.831 50.000 24.68 24.68 0.00 3.56
709 710 0.678048 AGGGTCTGCTTTCGAATGCC 60.678 55.000 27.25 15.24 0.00 4.40
710 711 1.657751 GGGTCTGCTTTCGAATGCCC 61.658 60.000 27.25 21.53 0.00 5.36
711 712 0.678048 GGTCTGCTTTCGAATGCCCT 60.678 55.000 27.25 0.00 0.00 5.19
712 713 1.406887 GGTCTGCTTTCGAATGCCCTA 60.407 52.381 27.25 13.60 0.00 3.53
713 714 2.356135 GTCTGCTTTCGAATGCCCTAA 58.644 47.619 27.25 12.15 0.00 2.69
714 715 2.747446 GTCTGCTTTCGAATGCCCTAAA 59.253 45.455 27.25 11.84 0.00 1.85
715 716 2.747446 TCTGCTTTCGAATGCCCTAAAC 59.253 45.455 27.25 4.96 0.00 2.01
716 717 2.487762 CTGCTTTCGAATGCCCTAAACA 59.512 45.455 27.25 10.62 0.00 2.83
717 718 2.887783 TGCTTTCGAATGCCCTAAACAA 59.112 40.909 27.25 8.54 0.00 2.83
718 719 3.509575 TGCTTTCGAATGCCCTAAACAAT 59.490 39.130 27.25 0.00 0.00 2.71
719 720 3.859386 GCTTTCGAATGCCCTAAACAATG 59.141 43.478 21.88 0.00 0.00 2.82
720 721 3.502191 TTCGAATGCCCTAAACAATGC 57.498 42.857 0.00 0.00 0.00 3.56
721 722 1.400142 TCGAATGCCCTAAACAATGCG 59.600 47.619 0.00 0.00 0.00 4.73
722 723 1.400142 CGAATGCCCTAAACAATGCGA 59.600 47.619 0.00 0.00 0.00 5.10
723 724 2.539547 CGAATGCCCTAAACAATGCGAG 60.540 50.000 0.00 0.00 0.00 5.03
724 725 0.740737 ATGCCCTAAACAATGCGAGC 59.259 50.000 0.00 0.00 0.00 5.03
725 726 0.607762 TGCCCTAAACAATGCGAGCA 60.608 50.000 0.00 0.00 0.00 4.26
726 727 0.099436 GCCCTAAACAATGCGAGCAG 59.901 55.000 3.58 0.00 0.00 4.24
736 737 3.724494 GCGAGCAGCTATTGACCC 58.276 61.111 0.00 0.00 44.04 4.46
737 738 1.889573 GCGAGCAGCTATTGACCCC 60.890 63.158 0.00 0.00 44.04 4.95
738 739 1.592669 CGAGCAGCTATTGACCCCG 60.593 63.158 0.00 0.00 0.00 5.73
739 740 1.522569 GAGCAGCTATTGACCCCGT 59.477 57.895 0.00 0.00 0.00 5.28
740 741 0.530870 GAGCAGCTATTGACCCCGTC 60.531 60.000 0.00 0.00 0.00 4.79
741 742 1.883084 GCAGCTATTGACCCCGTCG 60.883 63.158 0.00 0.00 34.95 5.12
742 743 1.883084 CAGCTATTGACCCCGTCGC 60.883 63.158 0.00 0.00 34.95 5.19
743 744 2.058595 AGCTATTGACCCCGTCGCT 61.059 57.895 0.00 0.00 34.95 4.93
744 745 1.591863 GCTATTGACCCCGTCGCTC 60.592 63.158 0.00 0.00 34.95 5.03
745 746 1.067582 CTATTGACCCCGTCGCTCC 59.932 63.158 0.00 0.00 34.95 4.70
746 747 2.679132 CTATTGACCCCGTCGCTCCG 62.679 65.000 0.00 0.00 34.95 4.63
752 753 4.367023 CCCGTCGCTCCGTCCAAA 62.367 66.667 0.00 0.00 0.00 3.28
753 754 2.125673 CCGTCGCTCCGTCCAAAT 60.126 61.111 0.00 0.00 0.00 2.32
754 755 1.140161 CCGTCGCTCCGTCCAAATA 59.860 57.895 0.00 0.00 0.00 1.40
755 756 1.143969 CCGTCGCTCCGTCCAAATAC 61.144 60.000 0.00 0.00 0.00 1.89
756 757 0.179145 CGTCGCTCCGTCCAAATACT 60.179 55.000 0.00 0.00 0.00 2.12
757 758 1.734707 CGTCGCTCCGTCCAAATACTT 60.735 52.381 0.00 0.00 0.00 2.24
758 759 2.344025 GTCGCTCCGTCCAAATACTTT 58.656 47.619 0.00 0.00 0.00 2.66
759 760 2.347755 GTCGCTCCGTCCAAATACTTTC 59.652 50.000 0.00 0.00 0.00 2.62
760 761 1.323534 CGCTCCGTCCAAATACTTTCG 59.676 52.381 0.00 0.00 0.00 3.46
761 762 1.062148 GCTCCGTCCAAATACTTTCGC 59.938 52.381 0.00 0.00 0.00 4.70
762 763 1.664151 CTCCGTCCAAATACTTTCGCC 59.336 52.381 0.00 0.00 0.00 5.54
763 764 0.372334 CCGTCCAAATACTTTCGCCG 59.628 55.000 0.00 0.00 0.00 6.46
764 765 1.073177 CGTCCAAATACTTTCGCCGT 58.927 50.000 0.00 0.00 0.00 5.68
765 766 1.060122 CGTCCAAATACTTTCGCCGTC 59.940 52.381 0.00 0.00 0.00 4.79
766 767 1.395954 GTCCAAATACTTTCGCCGTCC 59.604 52.381 0.00 0.00 0.00 4.79
767 768 1.002201 TCCAAATACTTTCGCCGTCCA 59.998 47.619 0.00 0.00 0.00 4.02
768 769 1.807742 CCAAATACTTTCGCCGTCCAA 59.192 47.619 0.00 0.00 0.00 3.53
769 770 2.226912 CCAAATACTTTCGCCGTCCAAA 59.773 45.455 0.00 0.00 0.00 3.28
770 771 3.304794 CCAAATACTTTCGCCGTCCAAAA 60.305 43.478 0.00 0.00 0.00 2.44
771 772 4.291783 CAAATACTTTCGCCGTCCAAAAA 58.708 39.130 0.00 0.00 0.00 1.94
772 773 4.776795 AATACTTTCGCCGTCCAAAAAT 57.223 36.364 0.00 0.00 0.00 1.82
779 780 2.481185 TCGCCGTCCAAAAATACTTGTC 59.519 45.455 0.00 0.00 0.00 3.18
781 782 2.413634 GCCGTCCAAAAATACTTGTCGG 60.414 50.000 10.62 10.62 41.03 4.79
794 795 3.324108 GTCGGTTGGCCCACCCTA 61.324 66.667 20.03 6.02 32.48 3.53
795 796 3.324108 TCGGTTGGCCCACCCTAC 61.324 66.667 20.03 0.00 38.44 3.18
825 826 2.006772 CGTATGCGGTCCTGCTTTC 58.993 57.895 0.00 0.00 35.36 2.62
879 888 3.711059 CTGCATGGTCTCCAGGGGC 62.711 68.421 0.00 3.42 36.75 5.80
880 889 3.415087 GCATGGTCTCCAGGGGCT 61.415 66.667 0.00 0.00 36.75 5.19
881 890 2.072487 GCATGGTCTCCAGGGGCTA 61.072 63.158 0.00 0.00 36.75 3.93
882 891 1.422161 GCATGGTCTCCAGGGGCTAT 61.422 60.000 0.00 0.00 36.75 2.97
885 894 0.918983 TGGTCTCCAGGGGCTATTTG 59.081 55.000 0.00 0.00 0.00 2.32
886 895 0.919710 GGTCTCCAGGGGCTATTTGT 59.080 55.000 0.00 0.00 0.00 2.83
887 896 2.124411 GGTCTCCAGGGGCTATTTGTA 58.876 52.381 0.00 0.00 0.00 2.41
888 897 2.158798 GGTCTCCAGGGGCTATTTGTAC 60.159 54.545 0.00 0.00 0.00 2.90
889 898 1.760613 TCTCCAGGGGCTATTTGTACG 59.239 52.381 0.00 0.00 0.00 3.67
890 899 0.179468 TCCAGGGGCTATTTGTACGC 59.821 55.000 0.00 0.00 0.00 4.42
891 900 0.818040 CCAGGGGCTATTTGTACGCC 60.818 60.000 0.43 0.43 43.03 5.68
906 915 2.818132 GCCCAGCAGCGAGTAGAT 59.182 61.111 0.00 0.00 0.00 1.98
1110 1119 3.265221 TCGACTTCTACTACTTCCAGGGA 59.735 47.826 0.00 0.00 0.00 4.20
2442 2457 1.078426 CGGTCCTGGGGCTGTTTAG 60.078 63.158 0.00 0.00 0.00 1.85
2468 2483 1.913262 ACCGGCCATCTGTGAGACA 60.913 57.895 0.00 0.00 0.00 3.41
2549 2568 4.835678 TGAAGTATGTCAGTCATGCATGT 58.164 39.130 25.43 5.20 40.71 3.21
2562 2581 4.808895 GTCATGCATGTATCTTGTTCGGTA 59.191 41.667 25.43 0.00 0.00 4.02
2632 2651 6.590656 AAATGGACCCCTGTCATAAGATTA 57.409 37.500 0.00 0.00 43.65 1.75
2651 2670 8.910351 AAGATTAGGAGCACCTATTTATCAAC 57.090 34.615 17.47 1.42 46.60 3.18
2666 2685 0.179234 TCAACGGAACAGTCTTGCCA 59.821 50.000 0.00 0.00 0.00 4.92
2667 2686 1.021202 CAACGGAACAGTCTTGCCAA 58.979 50.000 0.00 0.00 0.00 4.52
2668 2687 1.403679 CAACGGAACAGTCTTGCCAAA 59.596 47.619 0.00 0.00 0.00 3.28
2669 2688 1.981256 ACGGAACAGTCTTGCCAAAT 58.019 45.000 0.00 0.00 0.00 2.32
2670 2689 1.880027 ACGGAACAGTCTTGCCAAATC 59.120 47.619 0.00 0.00 0.00 2.17
2671 2690 2.154462 CGGAACAGTCTTGCCAAATCT 58.846 47.619 0.00 0.00 0.00 2.40
2672 2691 2.554032 CGGAACAGTCTTGCCAAATCTT 59.446 45.455 0.00 0.00 0.00 2.40
2679 2698 6.006449 ACAGTCTTGCCAAATCTTAGTCAAT 58.994 36.000 0.00 0.00 0.00 2.57
2702 2721 6.978343 TTAATGGTTAAGTCTCGGTTGATG 57.022 37.500 0.00 0.00 0.00 3.07
2703 2722 4.553330 ATGGTTAAGTCTCGGTTGATGT 57.447 40.909 0.00 0.00 0.00 3.06
2704 2723 3.921677 TGGTTAAGTCTCGGTTGATGTC 58.078 45.455 0.00 0.00 0.00 3.06
2709 2728 6.761714 GGTTAAGTCTCGGTTGATGTCATATT 59.238 38.462 0.00 0.00 0.00 1.28
2712 2731 6.166984 AGTCTCGGTTGATGTCATATTCAT 57.833 37.500 0.00 0.00 0.00 2.57
2747 2766 9.903682 ACATTGAGATTCACACAATTTAGAAAG 57.096 29.630 0.00 0.00 37.61 2.62
2748 2767 8.857216 CATTGAGATTCACACAATTTAGAAAGC 58.143 33.333 0.00 0.00 37.61 3.51
2749 2768 6.602179 TGAGATTCACACAATTTAGAAAGCG 58.398 36.000 0.00 0.00 0.00 4.68
2750 2769 5.393962 AGATTCACACAATTTAGAAAGCGC 58.606 37.500 0.00 0.00 0.00 5.92
2751 2770 4.560136 TTCACACAATTTAGAAAGCGCA 57.440 36.364 11.47 0.00 0.00 6.09
2752 2771 4.145876 TCACACAATTTAGAAAGCGCAG 57.854 40.909 11.47 0.00 0.00 5.18
2753 2772 3.812609 TCACACAATTTAGAAAGCGCAGA 59.187 39.130 11.47 0.00 0.00 4.26
2754 2773 4.455533 TCACACAATTTAGAAAGCGCAGAT 59.544 37.500 11.47 0.00 0.00 2.90
2755 2774 4.790140 CACACAATTTAGAAAGCGCAGATC 59.210 41.667 11.47 4.36 0.00 2.75
2756 2775 4.142600 ACACAATTTAGAAAGCGCAGATCC 60.143 41.667 11.47 0.00 0.00 3.36
2757 2776 4.009675 ACAATTTAGAAAGCGCAGATCCA 58.990 39.130 11.47 0.00 0.00 3.41
2758 2777 4.641989 ACAATTTAGAAAGCGCAGATCCAT 59.358 37.500 11.47 0.00 0.00 3.41
2759 2778 5.822519 ACAATTTAGAAAGCGCAGATCCATA 59.177 36.000 11.47 0.00 0.00 2.74
2760 2779 6.488006 ACAATTTAGAAAGCGCAGATCCATAT 59.512 34.615 11.47 0.00 0.00 1.78
2761 2780 7.013655 ACAATTTAGAAAGCGCAGATCCATATT 59.986 33.333 11.47 0.00 0.00 1.28
2762 2781 6.942532 TTTAGAAAGCGCAGATCCATATTT 57.057 33.333 11.47 0.00 0.00 1.40
2763 2782 6.545504 TTAGAAAGCGCAGATCCATATTTC 57.454 37.500 11.47 7.54 0.00 2.17
2764 2783 3.496130 AGAAAGCGCAGATCCATATTTCG 59.504 43.478 11.47 0.00 32.02 3.46
2765 2784 2.533266 AGCGCAGATCCATATTTCGT 57.467 45.000 11.47 0.00 0.00 3.85
2766 2785 2.138320 AGCGCAGATCCATATTTCGTG 58.862 47.619 11.47 0.00 0.00 4.35
2767 2786 1.195448 GCGCAGATCCATATTTCGTGG 59.805 52.381 0.30 0.00 38.11 4.94
2768 2787 1.195448 CGCAGATCCATATTTCGTGGC 59.805 52.381 0.00 0.00 36.66 5.01
2769 2788 2.498167 GCAGATCCATATTTCGTGGCT 58.502 47.619 0.00 0.00 36.66 4.75
2770 2789 2.225019 GCAGATCCATATTTCGTGGCTG 59.775 50.000 0.00 0.00 36.66 4.85
2771 2790 2.225019 CAGATCCATATTTCGTGGCTGC 59.775 50.000 0.00 0.00 36.66 5.25
2772 2791 2.105477 AGATCCATATTTCGTGGCTGCT 59.895 45.455 0.00 0.00 36.66 4.24
2773 2792 2.418368 TCCATATTTCGTGGCTGCTT 57.582 45.000 0.00 0.00 36.66 3.91
2774 2793 2.016318 TCCATATTTCGTGGCTGCTTG 58.984 47.619 0.00 0.00 36.66 4.01
2775 2794 1.534595 CCATATTTCGTGGCTGCTTGC 60.535 52.381 0.00 0.00 41.94 4.01
2776 2795 1.402968 CATATTTCGTGGCTGCTTGCT 59.597 47.619 0.00 0.00 42.39 3.91
2777 2796 2.394930 TATTTCGTGGCTGCTTGCTA 57.605 45.000 0.00 0.00 42.39 3.49
2833 2855 1.489560 AAGGCGGCTAGGGTTTCTGT 61.490 55.000 13.71 0.00 0.00 3.41
2862 2885 4.615815 GCGCCGCTGATCTCCCAT 62.616 66.667 0.00 0.00 0.00 4.00
2912 2935 3.728373 GTGGATCCCGGCCCTTGT 61.728 66.667 9.90 0.00 0.00 3.16
2958 2981 5.652452 AGGTGCTTCTTCAAGTTTTGTTAGT 59.348 36.000 0.00 0.00 31.45 2.24
2976 2999 1.064758 AGTGGTTGTGTCCTGCTCAAA 60.065 47.619 0.00 0.00 33.13 2.69
2981 3004 3.319122 GGTTGTGTCCTGCTCAAAAAGAT 59.681 43.478 0.00 0.00 33.13 2.40
3020 3043 7.770897 GCTTCTTGAAGATGGAATAAGGTTCTA 59.229 37.037 13.87 0.00 0.00 2.10
3029 3052 3.389002 GGAATAAGGTTCTACCCGCCTAA 59.611 47.826 0.00 0.00 39.75 2.69
3128 3151 1.770294 GGTGGTTGTCTTTGGTGGAA 58.230 50.000 0.00 0.00 0.00 3.53
3129 3152 2.104170 GGTGGTTGTCTTTGGTGGAAA 58.896 47.619 0.00 0.00 0.00 3.13
3132 3155 1.746787 GGTTGTCTTTGGTGGAAACGT 59.253 47.619 0.00 0.00 0.00 3.99
3133 3156 2.223409 GGTTGTCTTTGGTGGAAACGTC 60.223 50.000 0.00 0.00 0.00 4.34
3209 3233 8.792830 TTTGATCTAAAATTCTCTTCATCGGT 57.207 30.769 0.00 0.00 0.00 4.69
3210 3234 9.884636 TTTGATCTAAAATTCTCTTCATCGGTA 57.115 29.630 0.00 0.00 0.00 4.02
3212 3236 8.696374 TGATCTAAAATTCTCTTCATCGGTAGT 58.304 33.333 0.00 0.00 0.00 2.73
3225 3249 2.241160 TCGGTAGTGGTTGCTGTTCTA 58.759 47.619 0.00 0.00 0.00 2.10
3228 3252 2.565834 GGTAGTGGTTGCTGTTCTAGGA 59.434 50.000 0.00 0.00 0.00 2.94
3263 3287 1.199558 GACCTTAGCACGACGACTTCT 59.800 52.381 0.00 0.00 0.00 2.85
3265 3289 1.199327 CCTTAGCACGACGACTTCTCA 59.801 52.381 0.00 0.00 0.00 3.27
3267 3291 3.502920 CTTAGCACGACGACTTCTCAAT 58.497 45.455 0.00 0.00 0.00 2.57
3338 3362 2.202756 GGCGCTCCTTCGAATCGT 60.203 61.111 7.64 0.00 0.00 3.73
3387 3411 9.030452 AGGTGGTCTATGAATCTAGATGTAATC 57.970 37.037 5.86 0.38 46.04 1.75
3442 3466 7.201418 CCATGATTGAAGATGAATAGATCGACG 60.201 40.741 0.00 0.00 0.00 5.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.249687 GTTCAGATTGGGAACGGCT 57.750 52.632 0.00 0.00 35.76 5.52
95 96 3.559069 CAGTGGCTAACATGGGATCAAT 58.441 45.455 0.00 0.00 0.00 2.57
156 157 1.867595 AAGGAGGGTTGGGCATCCTG 61.868 60.000 0.00 0.00 41.36 3.86
226 227 1.078848 GCCAAGATGACCAGCTCGT 60.079 57.895 0.00 0.00 0.00 4.18
240 241 1.922447 AGGTGATTCCTATGGTGCCAA 59.078 47.619 0.00 0.00 46.10 4.52
278 279 4.326826 AGTGCCAAAGAAGATCATTCGAA 58.673 39.130 0.00 0.00 0.00 3.71
329 330 1.749638 CGTAGTGTCCTCTCCGCCT 60.750 63.158 0.00 0.00 0.00 5.52
385 386 1.070786 GTCTGGCGGGTTGACAAGA 59.929 57.895 0.00 0.00 32.78 3.02
458 459 3.417275 CTCGGCTTGCCGATCTCGT 62.417 63.158 32.45 0.00 41.47 4.18
498 499 1.671379 GGGTTTCGGTGGCACTCTC 60.671 63.158 18.45 0.00 0.00 3.20
618 619 5.423015 GAGGTTGACATGCTTCTTGATCTA 58.577 41.667 0.00 0.00 0.00 1.98
631 632 1.002134 CCAAGGCGGAGGTTGACAT 60.002 57.895 0.00 0.00 36.56 3.06
656 657 4.919754 ACGTTATTTGTCCGTTGACTAGTC 59.080 41.667 16.32 16.32 42.28 2.59
657 658 4.682860 CACGTTATTTGTCCGTTGACTAGT 59.317 41.667 0.00 0.00 42.28 2.57
658 659 4.682860 ACACGTTATTTGTCCGTTGACTAG 59.317 41.667 0.00 0.00 42.28 2.57
659 660 4.619973 ACACGTTATTTGTCCGTTGACTA 58.380 39.130 0.00 0.00 42.28 2.59
660 661 3.460103 ACACGTTATTTGTCCGTTGACT 58.540 40.909 0.00 0.00 42.28 3.41
661 662 3.791175 GACACGTTATTTGTCCGTTGAC 58.209 45.455 0.00 0.00 37.93 3.18
678 679 1.534163 GCAGACCCTTAAAACGGACAC 59.466 52.381 0.00 0.00 0.00 3.67
679 680 1.418637 AGCAGACCCTTAAAACGGACA 59.581 47.619 0.00 0.00 0.00 4.02
680 681 2.180432 AGCAGACCCTTAAAACGGAC 57.820 50.000 0.00 0.00 0.00 4.79
681 682 2.943036 AAGCAGACCCTTAAAACGGA 57.057 45.000 0.00 0.00 0.00 4.69
682 683 2.095919 CGAAAGCAGACCCTTAAAACGG 60.096 50.000 0.00 0.00 0.00 4.44
683 684 2.803956 TCGAAAGCAGACCCTTAAAACG 59.196 45.455 0.00 0.00 0.00 3.60
684 685 4.823790 TTCGAAAGCAGACCCTTAAAAC 57.176 40.909 0.00 0.00 0.00 2.43
685 686 4.320935 GCATTCGAAAGCAGACCCTTAAAA 60.321 41.667 19.69 0.00 0.00 1.52
686 687 3.190535 GCATTCGAAAGCAGACCCTTAAA 59.809 43.478 19.69 0.00 0.00 1.52
687 688 2.747446 GCATTCGAAAGCAGACCCTTAA 59.253 45.455 19.69 0.00 0.00 1.85
688 689 2.356135 GCATTCGAAAGCAGACCCTTA 58.644 47.619 19.69 0.00 0.00 2.69
689 690 1.168714 GCATTCGAAAGCAGACCCTT 58.831 50.000 19.69 0.00 0.00 3.95
690 691 0.678048 GGCATTCGAAAGCAGACCCT 60.678 55.000 24.88 0.00 0.00 4.34
691 692 1.657751 GGGCATTCGAAAGCAGACCC 61.658 60.000 24.88 13.91 0.00 4.46
692 693 0.678048 AGGGCATTCGAAAGCAGACC 60.678 55.000 24.88 17.13 0.00 3.85
693 694 2.024176 TAGGGCATTCGAAAGCAGAC 57.976 50.000 24.88 14.87 0.00 3.51
694 695 2.747446 GTTTAGGGCATTCGAAAGCAGA 59.253 45.455 24.88 8.15 0.00 4.26
695 696 2.487762 TGTTTAGGGCATTCGAAAGCAG 59.512 45.455 24.88 6.78 0.00 4.24
696 697 2.509569 TGTTTAGGGCATTCGAAAGCA 58.490 42.857 24.88 3.81 0.00 3.91
697 698 3.569250 TTGTTTAGGGCATTCGAAAGC 57.431 42.857 16.68 16.68 0.00 3.51
698 699 3.859386 GCATTGTTTAGGGCATTCGAAAG 59.141 43.478 0.00 0.00 0.00 2.62
699 700 3.671971 CGCATTGTTTAGGGCATTCGAAA 60.672 43.478 0.00 0.00 0.00 3.46
700 701 2.159448 CGCATTGTTTAGGGCATTCGAA 60.159 45.455 0.00 0.00 0.00 3.71
701 702 1.400142 CGCATTGTTTAGGGCATTCGA 59.600 47.619 0.00 0.00 0.00 3.71
702 703 1.400142 TCGCATTGTTTAGGGCATTCG 59.600 47.619 0.00 0.00 0.00 3.34
703 704 2.796032 GCTCGCATTGTTTAGGGCATTC 60.796 50.000 0.00 0.00 0.00 2.67
704 705 1.134946 GCTCGCATTGTTTAGGGCATT 59.865 47.619 0.00 0.00 0.00 3.56
705 706 0.740737 GCTCGCATTGTTTAGGGCAT 59.259 50.000 0.00 0.00 0.00 4.40
706 707 0.607762 TGCTCGCATTGTTTAGGGCA 60.608 50.000 0.00 0.00 0.00 5.36
707 708 0.099436 CTGCTCGCATTGTTTAGGGC 59.901 55.000 0.00 0.00 0.00 5.19
708 709 0.099436 GCTGCTCGCATTGTTTAGGG 59.901 55.000 0.00 0.00 38.92 3.53
709 710 1.089920 AGCTGCTCGCATTGTTTAGG 58.910 50.000 0.00 0.00 42.61 2.69
710 711 4.034394 TCAATAGCTGCTCGCATTGTTTAG 59.966 41.667 18.22 0.00 42.61 1.85
711 712 3.938334 TCAATAGCTGCTCGCATTGTTTA 59.062 39.130 18.22 2.78 42.61 2.01
712 713 2.749076 TCAATAGCTGCTCGCATTGTTT 59.251 40.909 18.22 0.00 42.61 2.83
713 714 2.096496 GTCAATAGCTGCTCGCATTGTT 59.904 45.455 18.22 0.00 42.61 2.83
714 715 1.667724 GTCAATAGCTGCTCGCATTGT 59.332 47.619 18.22 0.00 42.61 2.71
715 716 1.003116 GGTCAATAGCTGCTCGCATTG 60.003 52.381 4.91 11.27 42.61 2.82
716 717 1.303309 GGTCAATAGCTGCTCGCATT 58.697 50.000 4.91 0.00 42.61 3.56
717 718 0.533755 GGGTCAATAGCTGCTCGCAT 60.534 55.000 4.91 0.00 42.61 4.73
718 719 1.153369 GGGTCAATAGCTGCTCGCA 60.153 57.895 4.91 0.00 42.61 5.10
719 720 1.889573 GGGGTCAATAGCTGCTCGC 60.890 63.158 4.91 0.00 39.57 5.03
720 721 1.592669 CGGGGTCAATAGCTGCTCG 60.593 63.158 4.91 0.00 0.00 5.03
721 722 0.530870 GACGGGGTCAATAGCTGCTC 60.531 60.000 4.91 0.00 32.09 4.26
722 723 1.522569 GACGGGGTCAATAGCTGCT 59.477 57.895 7.57 7.57 32.09 4.24
723 724 1.883084 CGACGGGGTCAATAGCTGC 60.883 63.158 0.00 0.00 32.09 5.25
724 725 1.883084 GCGACGGGGTCAATAGCTG 60.883 63.158 0.00 0.00 32.09 4.24
725 726 2.017559 GAGCGACGGGGTCAATAGCT 62.018 60.000 0.00 0.00 42.75 3.32
726 727 1.591863 GAGCGACGGGGTCAATAGC 60.592 63.158 0.00 0.00 42.75 2.97
727 728 1.067582 GGAGCGACGGGGTCAATAG 59.932 63.158 9.61 0.00 45.03 1.73
728 729 2.777972 CGGAGCGACGGGGTCAATA 61.778 63.158 9.61 0.00 45.03 1.90
729 730 4.143333 CGGAGCGACGGGGTCAAT 62.143 66.667 9.61 0.00 45.03 2.57
735 736 2.287457 TATTTGGACGGAGCGACGGG 62.287 60.000 7.92 0.00 38.39 5.28
736 737 1.140161 TATTTGGACGGAGCGACGG 59.860 57.895 7.92 0.00 38.39 4.79
737 738 0.179145 AGTATTTGGACGGAGCGACG 60.179 55.000 1.52 1.52 40.31 5.12
738 739 2.005971 AAGTATTTGGACGGAGCGAC 57.994 50.000 0.00 0.00 0.00 5.19
739 740 2.613691 GAAAGTATTTGGACGGAGCGA 58.386 47.619 0.00 0.00 39.27 4.93
740 741 1.323534 CGAAAGTATTTGGACGGAGCG 59.676 52.381 0.00 0.00 39.27 5.03
741 742 1.062148 GCGAAAGTATTTGGACGGAGC 59.938 52.381 0.00 0.00 39.27 4.70
742 743 1.664151 GGCGAAAGTATTTGGACGGAG 59.336 52.381 0.00 0.00 39.27 4.63
743 744 1.729284 GGCGAAAGTATTTGGACGGA 58.271 50.000 0.00 0.00 39.27 4.69
746 747 1.395954 GGACGGCGAAAGTATTTGGAC 59.604 52.381 16.62 0.00 39.27 4.02
747 748 1.002201 TGGACGGCGAAAGTATTTGGA 59.998 47.619 16.62 0.00 39.27 3.53
748 749 1.444836 TGGACGGCGAAAGTATTTGG 58.555 50.000 16.62 0.00 39.27 3.28
749 750 3.546002 TTTGGACGGCGAAAGTATTTG 57.454 42.857 16.62 0.00 39.27 2.32
750 751 4.571372 TTTTTGGACGGCGAAAGTATTT 57.429 36.364 16.62 0.00 43.98 1.40
751 752 4.776795 ATTTTTGGACGGCGAAAGTATT 57.223 36.364 16.62 0.00 0.00 1.89
752 753 4.939439 AGTATTTTTGGACGGCGAAAGTAT 59.061 37.500 16.62 4.44 0.00 2.12
753 754 4.317488 AGTATTTTTGGACGGCGAAAGTA 58.683 39.130 16.62 1.65 0.00 2.24
754 755 3.143728 AGTATTTTTGGACGGCGAAAGT 58.856 40.909 16.62 2.73 0.00 2.66
755 756 3.824414 AGTATTTTTGGACGGCGAAAG 57.176 42.857 16.62 0.00 0.00 2.62
756 757 3.315749 ACAAGTATTTTTGGACGGCGAAA 59.684 39.130 16.62 3.01 32.32 3.46
757 758 2.879646 ACAAGTATTTTTGGACGGCGAA 59.120 40.909 16.62 0.00 32.32 4.70
758 759 2.481185 GACAAGTATTTTTGGACGGCGA 59.519 45.455 16.62 0.00 32.32 5.54
759 760 2.723618 CGACAAGTATTTTTGGACGGCG 60.724 50.000 4.80 4.80 32.62 6.46
760 761 2.413634 CCGACAAGTATTTTTGGACGGC 60.414 50.000 11.29 0.00 41.29 5.68
761 762 2.809696 ACCGACAAGTATTTTTGGACGG 59.190 45.455 17.74 17.74 46.68 4.79
762 763 4.215965 CAACCGACAAGTATTTTTGGACG 58.784 43.478 0.00 0.00 34.41 4.79
763 764 4.542735 CCAACCGACAAGTATTTTTGGAC 58.457 43.478 0.00 0.00 35.07 4.02
764 765 3.004944 GCCAACCGACAAGTATTTTTGGA 59.995 43.478 1.63 0.00 35.07 3.53
765 766 3.313690 GCCAACCGACAAGTATTTTTGG 58.686 45.455 0.00 0.00 36.01 3.28
766 767 3.313690 GGCCAACCGACAAGTATTTTTG 58.686 45.455 0.00 0.00 0.00 2.44
767 768 2.297880 GGGCCAACCGACAAGTATTTTT 59.702 45.455 4.39 0.00 36.48 1.94
768 769 1.890489 GGGCCAACCGACAAGTATTTT 59.110 47.619 4.39 0.00 36.48 1.82
769 770 1.202952 TGGGCCAACCGACAAGTATTT 60.203 47.619 2.13 0.00 44.64 1.40
770 771 0.402504 TGGGCCAACCGACAAGTATT 59.597 50.000 2.13 0.00 44.64 1.89
771 772 0.322187 GTGGGCCAACCGACAAGTAT 60.322 55.000 8.40 0.00 43.76 2.12
772 773 1.071814 GTGGGCCAACCGACAAGTA 59.928 57.895 8.40 0.00 43.76 2.24
781 782 2.193087 ATCGTGTAGGGTGGGCCAAC 62.193 60.000 14.87 14.87 36.17 3.77
879 888 0.657840 GCTGCTGGGCGTACAAATAG 59.342 55.000 0.00 0.00 0.00 1.73
880 889 2.775351 GCTGCTGGGCGTACAAATA 58.225 52.632 0.00 0.00 0.00 1.40
881 890 3.590824 GCTGCTGGGCGTACAAAT 58.409 55.556 0.00 0.00 0.00 2.32
889 898 1.593750 CATCTACTCGCTGCTGGGC 60.594 63.158 2.54 0.00 0.00 5.36
890 899 1.068753 CCATCTACTCGCTGCTGGG 59.931 63.158 0.85 0.85 0.00 4.45
891 900 0.031857 CTCCATCTACTCGCTGCTGG 59.968 60.000 0.00 0.00 0.00 4.85
892 901 0.597118 GCTCCATCTACTCGCTGCTG 60.597 60.000 0.00 0.00 0.00 4.41
981 990 5.929697 TCATCTTACACTTGTTGCTTCAG 57.070 39.130 0.00 0.00 0.00 3.02
1110 1119 1.819903 GACTCGAAGTACTTGGCCTCT 59.180 52.381 14.14 0.00 0.00 3.69
2442 2457 3.134127 GATGGCCGGTGCAGGTTC 61.134 66.667 1.90 0.00 40.13 3.62
2468 2483 2.223971 ACGAGTTGATCCGTTTGTCACT 60.224 45.455 0.00 0.00 35.21 3.41
2600 2619 3.053917 ACAGGGGTCCATTTTATTACGCT 60.054 43.478 0.00 0.00 0.00 5.07
2648 2667 1.021202 TTGGCAAGACTGTTCCGTTG 58.979 50.000 0.00 0.00 0.00 4.10
2651 2670 2.154462 AGATTTGGCAAGACTGTTCCG 58.846 47.619 0.00 0.00 0.00 4.30
2669 2688 9.582431 CGAGACTTAACCATTAATTGACTAAGA 57.418 33.333 14.36 0.00 0.00 2.10
2670 2689 8.818057 CCGAGACTTAACCATTAATTGACTAAG 58.182 37.037 0.00 3.47 0.00 2.18
2671 2690 8.316214 ACCGAGACTTAACCATTAATTGACTAA 58.684 33.333 0.00 0.00 0.00 2.24
2672 2691 7.844009 ACCGAGACTTAACCATTAATTGACTA 58.156 34.615 0.00 0.00 0.00 2.59
2679 2698 6.469410 ACATCAACCGAGACTTAACCATTAA 58.531 36.000 0.00 0.00 0.00 1.40
2737 2756 7.516198 AATATGGATCTGCGCTTTCTAAATT 57.484 32.000 9.73 0.00 0.00 1.82
2742 2761 3.496130 CGAAATATGGATCTGCGCTTTCT 59.504 43.478 9.73 0.00 0.00 2.52
2743 2762 3.248602 ACGAAATATGGATCTGCGCTTTC 59.751 43.478 9.73 5.93 0.00 2.62
2744 2763 3.002656 CACGAAATATGGATCTGCGCTTT 59.997 43.478 9.73 0.00 0.00 3.51
2745 2764 2.545526 CACGAAATATGGATCTGCGCTT 59.454 45.455 9.73 0.00 0.00 4.68
2746 2765 2.138320 CACGAAATATGGATCTGCGCT 58.862 47.619 9.73 0.00 0.00 5.92
2747 2766 1.195448 CCACGAAATATGGATCTGCGC 59.805 52.381 0.00 0.00 39.87 6.09
2748 2767 1.195448 GCCACGAAATATGGATCTGCG 59.805 52.381 0.00 0.00 39.87 5.18
2749 2768 2.225019 CAGCCACGAAATATGGATCTGC 59.775 50.000 0.00 0.00 39.87 4.26
2750 2769 2.225019 GCAGCCACGAAATATGGATCTG 59.775 50.000 0.00 0.00 39.87 2.90
2751 2770 2.105477 AGCAGCCACGAAATATGGATCT 59.895 45.455 0.00 0.00 39.87 2.75
2752 2771 2.498167 AGCAGCCACGAAATATGGATC 58.502 47.619 0.00 0.00 39.87 3.36
2753 2772 2.620115 CAAGCAGCCACGAAATATGGAT 59.380 45.455 0.00 0.00 39.87 3.41
2754 2773 2.016318 CAAGCAGCCACGAAATATGGA 58.984 47.619 0.00 0.00 39.87 3.41
2755 2774 1.534595 GCAAGCAGCCACGAAATATGG 60.535 52.381 0.00 0.00 40.50 2.74
2756 2775 1.831343 GCAAGCAGCCACGAAATATG 58.169 50.000 0.00 0.00 37.23 1.78
2767 2786 2.229784 AGGAAAACATGTAGCAAGCAGC 59.770 45.455 0.00 0.00 46.19 5.25
2768 2787 3.755378 AGAGGAAAACATGTAGCAAGCAG 59.245 43.478 0.00 0.00 0.00 4.24
2769 2788 3.754965 AGAGGAAAACATGTAGCAAGCA 58.245 40.909 0.00 0.00 0.00 3.91
2770 2789 4.379918 GGAAGAGGAAAACATGTAGCAAGC 60.380 45.833 0.00 0.00 0.00 4.01
2771 2790 4.156739 GGGAAGAGGAAAACATGTAGCAAG 59.843 45.833 0.00 0.00 0.00 4.01
2772 2791 4.079253 GGGAAGAGGAAAACATGTAGCAA 58.921 43.478 0.00 0.00 0.00 3.91
2773 2792 3.330701 AGGGAAGAGGAAAACATGTAGCA 59.669 43.478 0.00 0.00 0.00 3.49
2774 2793 3.956744 AGGGAAGAGGAAAACATGTAGC 58.043 45.455 0.00 0.00 0.00 3.58
2775 2794 5.770162 ACAAAGGGAAGAGGAAAACATGTAG 59.230 40.000 0.00 0.00 0.00 2.74
2776 2795 5.701224 ACAAAGGGAAGAGGAAAACATGTA 58.299 37.500 0.00 0.00 0.00 2.29
2777 2796 4.546674 ACAAAGGGAAGAGGAAAACATGT 58.453 39.130 0.00 0.00 0.00 3.21
2778 2797 4.021981 GGACAAAGGGAAGAGGAAAACATG 60.022 45.833 0.00 0.00 0.00 3.21
2852 2875 2.113807 CACAGGAGACATGGGAGATCA 58.886 52.381 0.00 0.00 0.00 2.92
2862 2885 0.909610 CCCTAAGGCCACAGGAGACA 60.910 60.000 21.29 0.00 33.42 3.41
2923 2946 4.276678 TGAAGAAGCACCTGAAAACAGATG 59.723 41.667 0.00 0.00 0.00 2.90
2924 2947 4.464008 TGAAGAAGCACCTGAAAACAGAT 58.536 39.130 0.00 0.00 0.00 2.90
2958 2981 2.136298 TTTTGAGCAGGACACAACCA 57.864 45.000 0.00 0.00 0.00 3.67
2976 2999 2.509336 CGCCGCCGTCTCATCTTT 60.509 61.111 0.00 0.00 0.00 2.52
3020 3043 3.073101 GACGGAGGTTAGGCGGGT 61.073 66.667 0.00 0.00 0.00 5.28
3029 3052 1.846124 ACACCATTGGGACGGAGGT 60.846 57.895 7.78 0.00 38.05 3.85
3209 3233 3.838317 ACATCCTAGAACAGCAACCACTA 59.162 43.478 0.00 0.00 0.00 2.74
3210 3234 2.639839 ACATCCTAGAACAGCAACCACT 59.360 45.455 0.00 0.00 0.00 4.00
3212 3236 3.411446 CAACATCCTAGAACAGCAACCA 58.589 45.455 0.00 0.00 0.00 3.67
3267 3291 4.573201 GGCACAACTTGTTGTAGTAGACAA 59.427 41.667 17.26 0.00 46.03 3.18
3326 3350 3.921677 AGCACTAAAACGATTCGAAGGA 58.078 40.909 13.95 0.00 0.00 3.36
3334 3358 4.553323 ACGACTACAAGCACTAAAACGAT 58.447 39.130 0.00 0.00 0.00 3.73
3338 3362 2.727798 GCGACGACTACAAGCACTAAAA 59.272 45.455 0.00 0.00 0.00 1.52
3403 3427 6.604396 TCTTCAATCATGGCAGTACAATGAAT 59.396 34.615 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.