Multiple sequence alignment - TraesCS1B01G158900

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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 TraesCS1B01G158900 chr1B 100.000 3893 0 0 1 3893 269222222 269218330 0.000000e+00 7190.0
1 TraesCS1B01G158900 chr1B 98.261 575 10 0 3319 3893 25227753 25227179 0.000000e+00 1007.0
2 TraesCS1B01G158900 chr1B 98.097 578 11 0 3316 3893 390272476 390273053 0.000000e+00 1007.0
3 TraesCS1B01G158900 chr1B 98.084 574 11 0 3320 3893 644278200 644278773 0.000000e+00 1000.0
4 TraesCS1B01G158900 chr1D 97.309 2453 56 4 807 3258 196093100 196095543 0.000000e+00 4156.0
5 TraesCS1B01G158900 chr1D 94.264 523 30 0 5 527 196080875 196081397 0.000000e+00 800.0
6 TraesCS1B01G158900 chr1D 98.413 63 0 1 3253 3315 24614247 24614186 4.110000e-20 110.0
7 TraesCS1B01G158900 chr1D 100.000 41 0 0 775 815 196091926 196091966 4.170000e-10 76.8
8 TraesCS1B01G158900 chr1A 96.928 2376 60 6 816 3188 245115299 245117664 0.000000e+00 3971.0
9 TraesCS1B01G158900 chr1A 95.652 69 2 1 3248 3315 560189409 560189477 4.110000e-20 110.0
10 TraesCS1B01G158900 chr6B 98.616 578 8 0 3316 3893 21063401 21063978 0.000000e+00 1024.0
11 TraesCS1B01G158900 chr6B 97.739 575 13 0 3319 3893 611352263 611351689 0.000000e+00 990.0
12 TraesCS1B01G158900 chr2B 97.913 575 12 0 3319 3893 770484939 770485513 0.000000e+00 996.0
13 TraesCS1B01G158900 chr7B 98.074 571 11 0 3323 3893 74093313 74092743 0.000000e+00 994.0
14 TraesCS1B01G158900 chr7B 97.913 575 11 1 3319 3893 624711370 624711943 0.000000e+00 994.0
15 TraesCS1B01G158900 chr7B 85.657 746 103 4 5 748 377822220 377822963 0.000000e+00 782.0
16 TraesCS1B01G158900 chr7B 81.806 753 110 14 5 748 92308959 92309693 1.200000e-169 606.0
17 TraesCS1B01G158900 chr7B 81.717 722 121 8 7 726 205772283 205772995 3.350000e-165 592.0
18 TraesCS1B01G158900 chr4A 97.909 574 12 0 3320 3893 702119035 702119608 0.000000e+00 994.0
19 TraesCS1B01G158900 chr7D 87.065 719 91 2 1 719 383278701 383279417 0.000000e+00 811.0
20 TraesCS1B01G158900 chr7D 87.409 548 66 3 5 551 398874778 398874233 9.180000e-176 627.0
21 TraesCS1B01G158900 chr2D 84.078 716 101 9 5 714 353542151 353541443 0.000000e+00 678.0
22 TraesCS1B01G158900 chr2D 95.652 69 1 2 3248 3315 117188321 117188388 4.110000e-20 110.0
23 TraesCS1B01G158900 chr5D 85.955 534 65 9 50 579 175789935 175790462 2.630000e-156 562.0
24 TraesCS1B01G158900 chr5D 97.015 67 2 0 3249 3315 69680589 69680523 3.180000e-21 113.0
25 TraesCS1B01G158900 chr4B 80.866 716 126 11 5 717 31320711 31320004 1.580000e-153 553.0
26 TraesCS1B01G158900 chrUn 100.000 62 0 0 3254 3315 289870938 289870999 8.840000e-22 115.0
27 TraesCS1B01G158900 chr4D 97.015 67 2 0 3249 3315 355000014 354999948 3.180000e-21 113.0
28 TraesCS1B01G158900 chr3A 100.000 61 0 0 3255 3315 97496113 97496173 3.180000e-21 113.0
29 TraesCS1B01G158900 chr5B 96.923 65 2 0 3251 3315 48852321 48852257 4.110000e-20 110.0
30 TraesCS1B01G158900 chr5B 95.588 68 2 1 3249 3315 92226945 92226878 1.480000e-19 108.0


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 TraesCS1B01G158900 chr1B 269218330 269222222 3892 True 7190.0 7190 100.0000 1 3893 1 chr1B.!!$R2 3892
1 TraesCS1B01G158900 chr1B 25227179 25227753 574 True 1007.0 1007 98.2610 3319 3893 1 chr1B.!!$R1 574
2 TraesCS1B01G158900 chr1B 390272476 390273053 577 False 1007.0 1007 98.0970 3316 3893 1 chr1B.!!$F1 577
3 TraesCS1B01G158900 chr1B 644278200 644278773 573 False 1000.0 1000 98.0840 3320 3893 1 chr1B.!!$F2 573
4 TraesCS1B01G158900 chr1D 196091926 196095543 3617 False 2116.4 4156 98.6545 775 3258 2 chr1D.!!$F2 2483
5 TraesCS1B01G158900 chr1D 196080875 196081397 522 False 800.0 800 94.2640 5 527 1 chr1D.!!$F1 522
6 TraesCS1B01G158900 chr1A 245115299 245117664 2365 False 3971.0 3971 96.9280 816 3188 1 chr1A.!!$F1 2372
7 TraesCS1B01G158900 chr6B 21063401 21063978 577 False 1024.0 1024 98.6160 3316 3893 1 chr6B.!!$F1 577
8 TraesCS1B01G158900 chr6B 611351689 611352263 574 True 990.0 990 97.7390 3319 3893 1 chr6B.!!$R1 574
9 TraesCS1B01G158900 chr2B 770484939 770485513 574 False 996.0 996 97.9130 3319 3893 1 chr2B.!!$F1 574
10 TraesCS1B01G158900 chr7B 74092743 74093313 570 True 994.0 994 98.0740 3323 3893 1 chr7B.!!$R1 570
11 TraesCS1B01G158900 chr7B 624711370 624711943 573 False 994.0 994 97.9130 3319 3893 1 chr7B.!!$F4 574
12 TraesCS1B01G158900 chr7B 377822220 377822963 743 False 782.0 782 85.6570 5 748 1 chr7B.!!$F3 743
13 TraesCS1B01G158900 chr7B 92308959 92309693 734 False 606.0 606 81.8060 5 748 1 chr7B.!!$F1 743
14 TraesCS1B01G158900 chr7B 205772283 205772995 712 False 592.0 592 81.7170 7 726 1 chr7B.!!$F2 719
15 TraesCS1B01G158900 chr4A 702119035 702119608 573 False 994.0 994 97.9090 3320 3893 1 chr4A.!!$F1 573
16 TraesCS1B01G158900 chr7D 383278701 383279417 716 False 811.0 811 87.0650 1 719 1 chr7D.!!$F1 718
17 TraesCS1B01G158900 chr7D 398874233 398874778 545 True 627.0 627 87.4090 5 551 1 chr7D.!!$R1 546
18 TraesCS1B01G158900 chr2D 353541443 353542151 708 True 678.0 678 84.0780 5 714 1 chr2D.!!$R1 709
19 TraesCS1B01G158900 chr5D 175789935 175790462 527 False 562.0 562 85.9550 50 579 1 chr5D.!!$F1 529
20 TraesCS1B01G158900 chr4B 31320004 31320711 707 True 553.0 553 80.8660 5 717 1 chr4B.!!$R1 712

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
669 688 0.103390 TGAGACAGAACGAACGCCAA 59.897 50.000 0.0 0.0 0.00 4.52 F
770 789 0.109723 CGGTGGGGAAAACTTCAGGA 59.890 55.000 0.0 0.0 0.00 3.86 F
1902 3064 1.065551 GCAGACCAGGTGTTTGTTGTC 59.934 52.381 0.0 0.0 31.82 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2628 3791 0.243907 TCTTCAGCGGGTCGAAGAAG 59.756 55.000 14.98 12.51 43.48 2.85 R
2655 3818 1.546923 TCATCCAGGAAACGCGTCTTA 59.453 47.619 14.44 0.00 0.00 2.10 R
3258 4424 0.108186 TGGCGCAACTGGTCATCTAG 60.108 55.000 10.83 0.00 0.00 2.43 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
381 393 2.050144 GGAGATGTGGATGAGGGCTAA 58.950 52.381 0.00 0.00 0.00 3.09
472 487 4.885907 CACTGCTTCCACATTAAGATGGAT 59.114 41.667 10.48 0.00 44.49 3.41
552 567 2.038329 CGGTGGAGGTAGGTGGGA 59.962 66.667 0.00 0.00 0.00 4.37
583 598 4.305956 CCCCAAGGCAGGCAAGGT 62.306 66.667 0.00 0.00 0.00 3.50
600 619 2.125065 TGCAACCGTGTGTCCGTT 60.125 55.556 0.00 0.00 0.00 4.44
609 628 0.302589 GTGTGTCCGTTCGTTTGGTC 59.697 55.000 0.00 0.00 0.00 4.02
618 637 1.928503 GTTCGTTTGGTCTTCGTGTGA 59.071 47.619 0.00 0.00 0.00 3.58
628 647 3.120786 GGTCTTCGTGTGAATGTAAACCG 60.121 47.826 0.00 0.00 32.61 4.44
631 650 2.406130 TCGTGTGAATGTAAACCGGAC 58.594 47.619 9.46 0.00 0.00 4.79
641 660 1.264826 GTAAACCGGACGCATGTTTGT 59.735 47.619 9.46 0.00 34.33 2.83
653 672 3.236816 GCATGTTTGTGTCGGAAATGAG 58.763 45.455 0.00 0.00 0.00 2.90
654 673 3.058293 GCATGTTTGTGTCGGAAATGAGA 60.058 43.478 0.00 0.00 0.00 3.27
655 674 4.466828 CATGTTTGTGTCGGAAATGAGAC 58.533 43.478 0.00 0.00 37.85 3.36
656 675 3.536570 TGTTTGTGTCGGAAATGAGACA 58.463 40.909 0.00 0.00 44.11 3.41
657 676 3.559655 TGTTTGTGTCGGAAATGAGACAG 59.440 43.478 0.00 0.00 46.49 3.51
658 677 3.744238 TTGTGTCGGAAATGAGACAGA 57.256 42.857 0.00 0.00 46.49 3.41
659 678 3.744238 TGTGTCGGAAATGAGACAGAA 57.256 42.857 0.00 0.00 46.49 3.02
660 679 3.390135 TGTGTCGGAAATGAGACAGAAC 58.610 45.455 0.00 0.00 46.49 3.01
661 680 2.408704 GTGTCGGAAATGAGACAGAACG 59.591 50.000 0.00 0.00 46.49 3.95
662 681 2.295070 TGTCGGAAATGAGACAGAACGA 59.705 45.455 0.00 0.00 41.81 3.85
663 682 3.243602 TGTCGGAAATGAGACAGAACGAA 60.244 43.478 0.00 0.00 41.81 3.85
664 683 3.121445 GTCGGAAATGAGACAGAACGAAC 59.879 47.826 0.00 0.00 37.34 3.95
665 684 2.090658 CGGAAATGAGACAGAACGAACG 59.909 50.000 0.00 0.00 0.00 3.95
666 685 2.159827 GGAAATGAGACAGAACGAACGC 60.160 50.000 0.00 0.00 0.00 4.84
667 686 1.429463 AATGAGACAGAACGAACGCC 58.571 50.000 0.00 0.00 0.00 5.68
668 687 0.317160 ATGAGACAGAACGAACGCCA 59.683 50.000 0.00 0.00 0.00 5.69
669 688 0.103390 TGAGACAGAACGAACGCCAA 59.897 50.000 0.00 0.00 0.00 4.52
670 689 1.214367 GAGACAGAACGAACGCCAAA 58.786 50.000 0.00 0.00 0.00 3.28
671 690 1.798813 GAGACAGAACGAACGCCAAAT 59.201 47.619 0.00 0.00 0.00 2.32
672 691 2.991190 GAGACAGAACGAACGCCAAATA 59.009 45.455 0.00 0.00 0.00 1.40
673 692 3.395639 AGACAGAACGAACGCCAAATAA 58.604 40.909 0.00 0.00 0.00 1.40
674 693 3.810941 AGACAGAACGAACGCCAAATAAA 59.189 39.130 0.00 0.00 0.00 1.40
675 694 4.454504 AGACAGAACGAACGCCAAATAAAT 59.545 37.500 0.00 0.00 0.00 1.40
676 695 5.640357 AGACAGAACGAACGCCAAATAAATA 59.360 36.000 0.00 0.00 0.00 1.40
677 696 6.148150 AGACAGAACGAACGCCAAATAAATAA 59.852 34.615 0.00 0.00 0.00 1.40
678 697 6.670233 ACAGAACGAACGCCAAATAAATAAA 58.330 32.000 0.00 0.00 0.00 1.40
679 698 7.140048 ACAGAACGAACGCCAAATAAATAAAA 58.860 30.769 0.00 0.00 0.00 1.52
680 699 7.810759 ACAGAACGAACGCCAAATAAATAAAAT 59.189 29.630 0.00 0.00 0.00 1.82
681 700 8.643752 CAGAACGAACGCCAAATAAATAAAATT 58.356 29.630 0.00 0.00 0.00 1.82
682 701 9.198837 AGAACGAACGCCAAATAAATAAAATTT 57.801 25.926 0.00 0.00 0.00 1.82
686 705 9.894439 CGAACGCCAAATAAATAAAATTTAAGG 57.106 29.630 0.00 1.94 0.00 2.69
695 714 9.541143 AATAAATAAAATTTAAGGATGTGGCCG 57.459 29.630 0.00 0.00 0.00 6.13
696 715 6.538945 AATAAAATTTAAGGATGTGGCCGT 57.461 33.333 0.00 0.00 0.00 5.68
697 716 3.866883 AAATTTAAGGATGTGGCCGTG 57.133 42.857 0.00 0.00 0.00 4.94
698 717 1.102978 ATTTAAGGATGTGGCCGTGC 58.897 50.000 0.00 0.00 0.00 5.34
699 718 1.302383 TTTAAGGATGTGGCCGTGCG 61.302 55.000 0.00 0.00 0.00 5.34
700 719 2.457743 TTAAGGATGTGGCCGTGCGT 62.458 55.000 0.00 0.00 0.00 5.24
701 720 2.457743 TAAGGATGTGGCCGTGCGTT 62.458 55.000 0.00 0.00 0.00 4.84
702 721 4.101790 GGATGTGGCCGTGCGTTG 62.102 66.667 0.00 0.00 0.00 4.10
703 722 4.101790 GATGTGGCCGTGCGTTGG 62.102 66.667 0.00 0.00 0.00 3.77
704 723 4.634703 ATGTGGCCGTGCGTTGGA 62.635 61.111 0.00 0.00 0.00 3.53
705 724 3.918253 ATGTGGCCGTGCGTTGGAT 62.918 57.895 0.00 0.00 0.00 3.41
706 725 3.799755 GTGGCCGTGCGTTGGATC 61.800 66.667 0.00 0.00 0.00 3.36
707 726 4.321966 TGGCCGTGCGTTGGATCA 62.322 61.111 0.00 0.00 0.00 2.92
708 727 2.824041 GGCCGTGCGTTGGATCAT 60.824 61.111 0.00 0.00 0.00 2.45
709 728 2.404789 GCCGTGCGTTGGATCATG 59.595 61.111 0.00 0.00 0.00 3.07
710 729 2.398554 GCCGTGCGTTGGATCATGT 61.399 57.895 0.00 0.00 0.00 3.21
711 730 1.715585 CCGTGCGTTGGATCATGTC 59.284 57.895 0.00 0.00 0.00 3.06
712 731 1.018752 CCGTGCGTTGGATCATGTCA 61.019 55.000 0.00 0.00 0.00 3.58
713 732 1.009078 CGTGCGTTGGATCATGTCAT 58.991 50.000 0.00 0.00 0.00 3.06
714 733 1.004610 CGTGCGTTGGATCATGTCATC 60.005 52.381 0.00 0.00 0.00 2.92
715 734 2.283298 GTGCGTTGGATCATGTCATCT 58.717 47.619 0.00 0.00 0.00 2.90
716 735 2.031314 GTGCGTTGGATCATGTCATCTG 59.969 50.000 0.00 0.00 0.00 2.90
717 736 2.283298 GCGTTGGATCATGTCATCTGT 58.717 47.619 0.00 0.00 0.00 3.41
718 737 2.679837 GCGTTGGATCATGTCATCTGTT 59.320 45.455 0.00 0.00 0.00 3.16
719 738 3.242543 GCGTTGGATCATGTCATCTGTTC 60.243 47.826 0.00 0.00 0.00 3.18
720 739 3.934579 CGTTGGATCATGTCATCTGTTCA 59.065 43.478 0.00 0.00 0.00 3.18
721 740 4.573607 CGTTGGATCATGTCATCTGTTCAT 59.426 41.667 0.00 0.00 0.00 2.57
722 741 5.065602 CGTTGGATCATGTCATCTGTTCATT 59.934 40.000 0.00 0.00 0.00 2.57
723 742 6.403964 CGTTGGATCATGTCATCTGTTCATTT 60.404 38.462 0.00 0.00 0.00 2.32
724 743 7.318141 GTTGGATCATGTCATCTGTTCATTTT 58.682 34.615 0.00 0.00 0.00 1.82
725 744 6.859017 TGGATCATGTCATCTGTTCATTTTG 58.141 36.000 0.00 0.00 0.00 2.44
726 745 6.127563 TGGATCATGTCATCTGTTCATTTTGG 60.128 38.462 0.00 0.00 0.00 3.28
727 746 6.127535 GGATCATGTCATCTGTTCATTTTGGT 60.128 38.462 0.00 0.00 0.00 3.67
728 747 6.258230 TCATGTCATCTGTTCATTTTGGTC 57.742 37.500 0.00 0.00 0.00 4.02
729 748 5.769162 TCATGTCATCTGTTCATTTTGGTCA 59.231 36.000 0.00 0.00 0.00 4.02
730 749 6.264970 TCATGTCATCTGTTCATTTTGGTCAA 59.735 34.615 0.00 0.00 0.00 3.18
731 750 6.462552 TGTCATCTGTTCATTTTGGTCAAA 57.537 33.333 0.00 0.00 0.00 2.69
732 751 6.506147 TGTCATCTGTTCATTTTGGTCAAAG 58.494 36.000 0.00 0.00 0.00 2.77
733 752 5.403466 GTCATCTGTTCATTTTGGTCAAAGC 59.597 40.000 0.00 0.00 0.00 3.51
734 753 4.998671 TCTGTTCATTTTGGTCAAAGCA 57.001 36.364 0.00 0.00 0.00 3.91
735 754 4.935702 TCTGTTCATTTTGGTCAAAGCAG 58.064 39.130 0.00 0.00 0.00 4.24
736 755 4.644234 TCTGTTCATTTTGGTCAAAGCAGA 59.356 37.500 0.00 0.00 0.00 4.26
737 756 4.681744 TGTTCATTTTGGTCAAAGCAGAC 58.318 39.130 0.00 0.00 37.80 3.51
738 757 3.624326 TCATTTTGGTCAAAGCAGACG 57.376 42.857 0.00 0.00 39.42 4.18
739 758 2.293122 TCATTTTGGTCAAAGCAGACGG 59.707 45.455 0.00 0.00 39.42 4.79
740 759 1.028905 TTTTGGTCAAAGCAGACGGG 58.971 50.000 0.00 0.00 39.42 5.28
741 760 0.181587 TTTGGTCAAAGCAGACGGGA 59.818 50.000 0.00 0.00 39.42 5.14
742 761 0.534203 TTGGTCAAAGCAGACGGGAC 60.534 55.000 0.00 0.00 39.42 4.46
755 774 4.065281 GGGACGGACAGGACGGTG 62.065 72.222 0.00 0.00 35.23 4.94
756 775 4.065281 GGACGGACAGGACGGTGG 62.065 72.222 0.00 0.00 35.23 4.61
757 776 4.065281 GACGGACAGGACGGTGGG 62.065 72.222 0.00 0.00 35.23 4.61
760 779 2.926242 GGACAGGACGGTGGGGAA 60.926 66.667 0.00 0.00 0.00 3.97
761 780 2.522367 GGACAGGACGGTGGGGAAA 61.522 63.158 0.00 0.00 0.00 3.13
762 781 1.452801 GACAGGACGGTGGGGAAAA 59.547 57.895 0.00 0.00 0.00 2.29
763 782 0.887836 GACAGGACGGTGGGGAAAAC 60.888 60.000 0.00 0.00 0.00 2.43
764 783 1.350310 ACAGGACGGTGGGGAAAACT 61.350 55.000 0.00 0.00 0.00 2.66
765 784 0.179001 CAGGACGGTGGGGAAAACTT 60.179 55.000 0.00 0.00 0.00 2.66
766 785 0.109913 AGGACGGTGGGGAAAACTTC 59.890 55.000 0.00 0.00 0.00 3.01
767 786 0.179012 GGACGGTGGGGAAAACTTCA 60.179 55.000 0.00 0.00 0.00 3.02
768 787 1.235724 GACGGTGGGGAAAACTTCAG 58.764 55.000 0.00 0.00 0.00 3.02
769 788 0.179001 ACGGTGGGGAAAACTTCAGG 60.179 55.000 0.00 0.00 0.00 3.86
770 789 0.109723 CGGTGGGGAAAACTTCAGGA 59.890 55.000 0.00 0.00 0.00 3.86
771 790 1.617322 GGTGGGGAAAACTTCAGGAC 58.383 55.000 0.00 0.00 0.00 3.85
772 791 1.617322 GTGGGGAAAACTTCAGGACC 58.383 55.000 0.00 0.00 0.00 4.46
773 792 0.109723 TGGGGAAAACTTCAGGACCG 59.890 55.000 0.00 0.00 0.00 4.79
976 2138 4.830765 TCGCTTCCCAATCCGCGG 62.831 66.667 22.12 22.12 45.11 6.46
1015 2177 4.115199 GAATGCTGGGGCGAGGGT 62.115 66.667 0.00 0.00 42.25 4.34
1399 2561 2.901339 TCGACACCGACACCGTCA 60.901 61.111 0.00 0.00 40.30 4.35
1400 2562 2.728383 CGACACCGACACCGTCAC 60.728 66.667 0.00 0.00 38.22 3.67
1401 2563 2.355481 GACACCGACACCGTCACC 60.355 66.667 0.00 0.00 32.09 4.02
1402 2564 4.274700 ACACCGACACCGTCACCG 62.275 66.667 0.00 0.00 32.09 4.94
1405 2567 4.712425 CCGACACCGTCACCGACC 62.712 72.222 0.00 0.00 35.63 4.79
1653 2815 1.112113 CAGGACGCACCACCTACTAT 58.888 55.000 2.21 0.00 42.04 2.12
1902 3064 1.065551 GCAGACCAGGTGTTTGTTGTC 59.934 52.381 0.00 0.00 31.82 3.18
1983 3145 4.165372 GGAAGGTACCTCATTTACATGGGA 59.835 45.833 16.64 0.00 31.54 4.37
2133 3295 3.321682 CCAGTGGCAAGGATGAAGAAAAA 59.678 43.478 0.00 0.00 0.00 1.94
2610 3773 4.871557 GGACGGTATTTGTACATTGCTACA 59.128 41.667 0.00 0.00 0.00 2.74
2640 3803 4.051922 CTGATAAATCCTTCTTCGACCCG 58.948 47.826 0.00 0.00 0.00 5.28
2655 3818 2.674177 CGACCCGCTGAAGAACAAGTAT 60.674 50.000 0.00 0.00 0.00 2.12
2664 3827 4.801891 TGAAGAACAAGTATAAGACGCGT 58.198 39.130 13.85 13.85 0.00 6.01
3084 4247 2.972625 TCGAATTCAGCAACGAGGAAT 58.027 42.857 6.22 0.00 32.90 3.01
3096 4259 4.982295 GCAACGAGGAATTTTAGTTTGCTT 59.018 37.500 0.00 0.00 0.00 3.91
3097 4260 6.016610 AGCAACGAGGAATTTTAGTTTGCTTA 60.017 34.615 10.19 0.00 30.91 3.09
3121 4284 9.593134 TTATATGTTACATTGTTGCATTTTCCC 57.407 29.630 2.23 0.00 0.00 3.97
3210 4376 3.005472 CCTGTAACCTGAGAAAGTCACGA 59.995 47.826 0.00 0.00 0.00 4.35
3258 4424 8.603242 TGAGATTTGGTTCAGTTTAAGAGTAC 57.397 34.615 0.00 0.00 0.00 2.73
3259 4425 8.429641 TGAGATTTGGTTCAGTTTAAGAGTACT 58.570 33.333 0.00 0.00 0.00 2.73
3260 4426 9.924650 GAGATTTGGTTCAGTTTAAGAGTACTA 57.075 33.333 0.00 0.00 0.00 1.82
3261 4427 9.930693 AGATTTGGTTCAGTTTAAGAGTACTAG 57.069 33.333 0.00 0.00 0.00 2.57
3262 4428 9.924650 GATTTGGTTCAGTTTAAGAGTACTAGA 57.075 33.333 0.00 0.00 0.00 2.43
3264 4430 9.706691 TTTGGTTCAGTTTAAGAGTACTAGATG 57.293 33.333 0.00 0.00 0.00 2.90
3265 4431 8.645814 TGGTTCAGTTTAAGAGTACTAGATGA 57.354 34.615 0.00 0.00 0.00 2.92
3266 4432 8.521176 TGGTTCAGTTTAAGAGTACTAGATGAC 58.479 37.037 0.00 0.00 0.00 3.06
3267 4433 7.975058 GGTTCAGTTTAAGAGTACTAGATGACC 59.025 40.741 0.00 0.00 0.00 4.02
3268 4434 8.521176 GTTCAGTTTAAGAGTACTAGATGACCA 58.479 37.037 0.00 0.00 0.00 4.02
3269 4435 8.282455 TCAGTTTAAGAGTACTAGATGACCAG 57.718 38.462 0.00 0.00 0.00 4.00
3270 4436 7.889073 TCAGTTTAAGAGTACTAGATGACCAGT 59.111 37.037 0.00 0.00 0.00 4.00
3271 4437 8.524487 CAGTTTAAGAGTACTAGATGACCAGTT 58.476 37.037 0.00 0.00 0.00 3.16
3272 4438 8.524487 AGTTTAAGAGTACTAGATGACCAGTTG 58.476 37.037 0.00 0.00 0.00 3.16
3273 4439 4.993029 AGAGTACTAGATGACCAGTTGC 57.007 45.455 0.00 0.00 0.00 4.17
3274 4440 3.378742 AGAGTACTAGATGACCAGTTGCG 59.621 47.826 0.00 0.00 0.00 4.85
3275 4441 2.159226 AGTACTAGATGACCAGTTGCGC 60.159 50.000 0.00 0.00 0.00 6.09
3276 4442 0.108138 ACTAGATGACCAGTTGCGCC 60.108 55.000 4.18 0.00 0.00 6.53
3277 4443 0.108186 CTAGATGACCAGTTGCGCCA 60.108 55.000 4.18 0.00 0.00 5.69
3278 4444 0.323302 TAGATGACCAGTTGCGCCAA 59.677 50.000 4.18 0.00 0.00 4.52
3279 4445 0.537143 AGATGACCAGTTGCGCCAAA 60.537 50.000 4.18 0.00 0.00 3.28
3280 4446 0.527565 GATGACCAGTTGCGCCAAAT 59.472 50.000 4.18 0.00 0.00 2.32
3281 4447 0.244450 ATGACCAGTTGCGCCAAATG 59.756 50.000 4.18 8.94 38.85 2.32
3292 4458 4.576993 CCAAATGGCGCAAAGACC 57.423 55.556 10.83 0.00 0.00 3.85
3293 4459 1.079888 CCAAATGGCGCAAAGACCC 60.080 57.895 10.83 0.00 0.00 4.46
3294 4460 1.444212 CAAATGGCGCAAAGACCCG 60.444 57.895 10.83 0.00 0.00 5.28
3295 4461 1.901464 AAATGGCGCAAAGACCCGT 60.901 52.632 10.83 0.00 0.00 5.28
3296 4462 1.460273 AAATGGCGCAAAGACCCGTT 61.460 50.000 10.83 0.00 0.00 4.44
3297 4463 1.460273 AATGGCGCAAAGACCCGTTT 61.460 50.000 10.83 0.00 0.00 3.60
3298 4464 0.606944 ATGGCGCAAAGACCCGTTTA 60.607 50.000 10.83 0.00 0.00 2.01
3299 4465 0.818445 TGGCGCAAAGACCCGTTTAA 60.818 50.000 10.83 0.00 0.00 1.52
3300 4466 0.311477 GGCGCAAAGACCCGTTTAAA 59.689 50.000 10.83 0.00 0.00 1.52
3301 4467 1.269154 GGCGCAAAGACCCGTTTAAAA 60.269 47.619 10.83 0.00 0.00 1.52
3302 4468 1.782569 GCGCAAAGACCCGTTTAAAAC 59.217 47.619 0.30 0.00 0.00 2.43
3303 4469 2.387185 CGCAAAGACCCGTTTAAAACC 58.613 47.619 0.00 0.00 0.00 3.27
3304 4470 2.223525 CGCAAAGACCCGTTTAAAACCA 60.224 45.455 0.00 0.00 0.00 3.67
3305 4471 3.551250 CGCAAAGACCCGTTTAAAACCAT 60.551 43.478 0.00 0.00 0.00 3.55
3306 4472 3.738791 GCAAAGACCCGTTTAAAACCATG 59.261 43.478 0.00 0.00 0.00 3.66
3307 4473 4.738243 GCAAAGACCCGTTTAAAACCATGT 60.738 41.667 0.00 0.00 0.00 3.21
3308 4474 5.353111 CAAAGACCCGTTTAAAACCATGTT 58.647 37.500 0.00 0.00 0.00 2.71
3309 4475 4.841443 AGACCCGTTTAAAACCATGTTC 57.159 40.909 0.00 0.00 0.00 3.18
3310 4476 3.251487 AGACCCGTTTAAAACCATGTTCG 59.749 43.478 0.00 0.00 0.00 3.95
3311 4477 2.950975 ACCCGTTTAAAACCATGTTCGT 59.049 40.909 0.00 0.00 0.00 3.85
3312 4478 3.243134 ACCCGTTTAAAACCATGTTCGTG 60.243 43.478 0.00 0.00 0.00 4.35
3313 4479 3.243134 CCCGTTTAAAACCATGTTCGTGT 60.243 43.478 0.00 0.00 0.00 4.49
3314 4480 4.352887 CCGTTTAAAACCATGTTCGTGTT 58.647 39.130 0.00 0.00 0.00 3.32
3550 4716 5.039645 TGAAGATGGAATAAAGGTCTCCCT 58.960 41.667 0.00 0.00 45.63 4.20
3624 4790 2.101582 GTGTGTCTCCGGCAGATCTATT 59.898 50.000 0.00 0.00 32.08 1.73
3770 4936 0.526662 CCTTAGCACGACGACTTCCT 59.473 55.000 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.384082 CCTACCCCCGGACCTCATT 60.384 63.158 0.73 0.00 0.00 2.57
26 27 3.792053 AAGATCCATCGTCGCCGCC 62.792 63.158 0.00 0.00 0.00 6.13
250 256 2.598787 CCACCCCGCCTTTACCTCA 61.599 63.158 0.00 0.00 0.00 3.86
381 393 1.388837 GCCCCGACACAAACAAACCT 61.389 55.000 0.00 0.00 0.00 3.50
489 504 1.006832 GGACCCGATTGTCATTGACG 58.993 55.000 11.97 0.20 36.97 4.35
583 598 2.125065 AACGGACACACGGTTGCA 60.125 55.556 0.00 0.00 39.83 4.08
588 603 1.274476 CAAACGAACGGACACACGG 59.726 57.895 0.00 0.00 38.39 4.94
595 610 0.102844 ACGAAGACCAAACGAACGGA 59.897 50.000 0.00 0.00 0.00 4.69
600 619 2.296831 TTCACACGAAGACCAAACGA 57.703 45.000 0.00 0.00 0.00 3.85
609 628 3.061322 TCCGGTTTACATTCACACGAAG 58.939 45.455 0.00 0.00 33.74 3.79
618 637 1.816074 ACATGCGTCCGGTTTACATT 58.184 45.000 0.00 0.00 0.00 2.71
628 647 1.206578 CCGACACAAACATGCGTCC 59.793 57.895 0.00 0.00 0.00 4.79
631 650 1.978097 CATTTCCGACACAAACATGCG 59.022 47.619 0.00 0.00 0.00 4.73
641 660 2.295070 TCGTTCTGTCTCATTTCCGACA 59.705 45.455 0.00 0.00 37.79 4.35
644 663 2.090658 CGTTCGTTCTGTCTCATTTCCG 59.909 50.000 0.00 0.00 0.00 4.30
653 672 3.799137 TTATTTGGCGTTCGTTCTGTC 57.201 42.857 0.00 0.00 0.00 3.51
654 673 4.759516 ATTTATTTGGCGTTCGTTCTGT 57.240 36.364 0.00 0.00 0.00 3.41
655 674 7.555639 TTTTATTTATTTGGCGTTCGTTCTG 57.444 32.000 0.00 0.00 0.00 3.02
656 675 8.751302 AATTTTATTTATTTGGCGTTCGTTCT 57.249 26.923 0.00 0.00 0.00 3.01
660 679 9.894439 CCTTAAATTTTATTTATTTGGCGTTCG 57.106 29.630 0.00 0.00 0.00 3.95
669 688 9.541143 CGGCCACATCCTTAAATTTTATTTATT 57.459 29.630 2.24 0.00 0.00 1.40
670 689 8.700973 ACGGCCACATCCTTAAATTTTATTTAT 58.299 29.630 2.24 0.00 0.00 1.40
671 690 7.976734 CACGGCCACATCCTTAAATTTTATTTA 59.023 33.333 2.24 0.00 0.00 1.40
672 691 6.816140 CACGGCCACATCCTTAAATTTTATTT 59.184 34.615 2.24 0.00 0.00 1.40
673 692 6.337356 CACGGCCACATCCTTAAATTTTATT 58.663 36.000 2.24 0.00 0.00 1.40
674 693 5.681179 GCACGGCCACATCCTTAAATTTTAT 60.681 40.000 2.24 0.00 0.00 1.40
675 694 4.381079 GCACGGCCACATCCTTAAATTTTA 60.381 41.667 2.24 0.00 0.00 1.52
676 695 3.616317 GCACGGCCACATCCTTAAATTTT 60.616 43.478 2.24 0.00 0.00 1.82
677 696 2.094234 GCACGGCCACATCCTTAAATTT 60.094 45.455 2.24 0.00 0.00 1.82
678 697 1.476488 GCACGGCCACATCCTTAAATT 59.524 47.619 2.24 0.00 0.00 1.82
679 698 1.102978 GCACGGCCACATCCTTAAAT 58.897 50.000 2.24 0.00 0.00 1.40
680 699 1.302383 CGCACGGCCACATCCTTAAA 61.302 55.000 2.24 0.00 0.00 1.52
681 700 1.743623 CGCACGGCCACATCCTTAA 60.744 57.895 2.24 0.00 0.00 1.85
682 701 2.125310 CGCACGGCCACATCCTTA 60.125 61.111 2.24 0.00 0.00 2.69
683 702 3.842925 AACGCACGGCCACATCCTT 62.843 57.895 2.24 0.00 0.00 3.36
684 703 4.329545 AACGCACGGCCACATCCT 62.330 61.111 2.24 0.00 0.00 3.24
685 704 4.101790 CAACGCACGGCCACATCC 62.102 66.667 2.24 0.00 0.00 3.51
686 705 4.101790 CCAACGCACGGCCACATC 62.102 66.667 2.24 0.00 0.00 3.06
687 706 3.918253 ATCCAACGCACGGCCACAT 62.918 57.895 2.24 0.00 0.00 3.21
688 707 4.634703 ATCCAACGCACGGCCACA 62.635 61.111 2.24 0.00 0.00 4.17
689 708 3.799755 GATCCAACGCACGGCCAC 61.800 66.667 2.24 0.00 0.00 5.01
690 709 3.620419 ATGATCCAACGCACGGCCA 62.620 57.895 2.24 0.00 0.00 5.36
691 710 2.824041 ATGATCCAACGCACGGCC 60.824 61.111 0.00 0.00 0.00 6.13
692 711 2.309764 GACATGATCCAACGCACGGC 62.310 60.000 0.00 0.00 0.00 5.68
693 712 1.018752 TGACATGATCCAACGCACGG 61.019 55.000 0.00 0.00 0.00 4.94
694 713 1.004610 GATGACATGATCCAACGCACG 60.005 52.381 0.00 0.00 0.00 5.34
695 714 2.031314 CAGATGACATGATCCAACGCAC 59.969 50.000 0.00 0.00 0.00 5.34
696 715 2.282407 CAGATGACATGATCCAACGCA 58.718 47.619 0.00 0.00 0.00 5.24
697 716 2.283298 ACAGATGACATGATCCAACGC 58.717 47.619 0.00 0.00 0.00 4.84
698 717 3.934579 TGAACAGATGACATGATCCAACG 59.065 43.478 0.00 0.00 0.00 4.10
699 718 6.446781 AATGAACAGATGACATGATCCAAC 57.553 37.500 0.00 0.00 0.00 3.77
700 719 7.317390 CAAAATGAACAGATGACATGATCCAA 58.683 34.615 0.00 0.00 0.00 3.53
701 720 6.127563 CCAAAATGAACAGATGACATGATCCA 60.128 38.462 0.00 0.00 0.00 3.41
702 721 6.127535 ACCAAAATGAACAGATGACATGATCC 60.128 38.462 0.00 0.00 0.00 3.36
703 722 6.860080 ACCAAAATGAACAGATGACATGATC 58.140 36.000 0.00 0.00 0.00 2.92
704 723 6.434965 TGACCAAAATGAACAGATGACATGAT 59.565 34.615 0.00 0.00 0.00 2.45
705 724 5.769162 TGACCAAAATGAACAGATGACATGA 59.231 36.000 0.00 0.00 0.00 3.07
706 725 6.016213 TGACCAAAATGAACAGATGACATG 57.984 37.500 0.00 0.00 0.00 3.21
707 726 6.653526 TTGACCAAAATGAACAGATGACAT 57.346 33.333 0.00 0.00 0.00 3.06
708 727 6.462552 TTTGACCAAAATGAACAGATGACA 57.537 33.333 0.00 0.00 0.00 3.58
709 728 5.403466 GCTTTGACCAAAATGAACAGATGAC 59.597 40.000 0.00 0.00 0.00 3.06
710 729 5.068855 TGCTTTGACCAAAATGAACAGATGA 59.931 36.000 0.00 0.00 0.00 2.92
711 730 5.291178 TGCTTTGACCAAAATGAACAGATG 58.709 37.500 0.00 0.00 0.00 2.90
712 731 5.302568 TCTGCTTTGACCAAAATGAACAGAT 59.697 36.000 0.00 0.00 0.00 2.90
713 732 4.644234 TCTGCTTTGACCAAAATGAACAGA 59.356 37.500 0.00 0.00 0.00 3.41
714 733 4.741676 GTCTGCTTTGACCAAAATGAACAG 59.258 41.667 0.00 0.00 0.00 3.16
715 734 4.681744 GTCTGCTTTGACCAAAATGAACA 58.318 39.130 0.00 0.00 0.00 3.18
716 735 3.730715 CGTCTGCTTTGACCAAAATGAAC 59.269 43.478 0.00 0.00 33.70 3.18
717 736 3.243367 CCGTCTGCTTTGACCAAAATGAA 60.243 43.478 0.00 0.00 33.70 2.57
718 737 2.293122 CCGTCTGCTTTGACCAAAATGA 59.707 45.455 0.00 0.00 33.70 2.57
719 738 2.607771 CCCGTCTGCTTTGACCAAAATG 60.608 50.000 0.00 0.00 33.70 2.32
720 739 1.613437 CCCGTCTGCTTTGACCAAAAT 59.387 47.619 0.00 0.00 33.70 1.82
721 740 1.028905 CCCGTCTGCTTTGACCAAAA 58.971 50.000 0.00 0.00 33.70 2.44
722 741 0.181587 TCCCGTCTGCTTTGACCAAA 59.818 50.000 0.00 0.00 33.70 3.28
723 742 0.534203 GTCCCGTCTGCTTTGACCAA 60.534 55.000 0.00 0.00 33.70 3.67
724 743 1.070786 GTCCCGTCTGCTTTGACCA 59.929 57.895 0.00 0.00 33.70 4.02
725 744 2.027625 CGTCCCGTCTGCTTTGACC 61.028 63.158 0.00 0.00 33.70 4.02
726 745 2.027625 CCGTCCCGTCTGCTTTGAC 61.028 63.158 0.00 0.00 0.00 3.18
727 746 2.204461 TCCGTCCCGTCTGCTTTGA 61.204 57.895 0.00 0.00 0.00 2.69
728 747 2.027625 GTCCGTCCCGTCTGCTTTG 61.028 63.158 0.00 0.00 0.00 2.77
729 748 2.342648 GTCCGTCCCGTCTGCTTT 59.657 61.111 0.00 0.00 0.00 3.51
730 749 2.915659 TGTCCGTCCCGTCTGCTT 60.916 61.111 0.00 0.00 0.00 3.91
731 750 3.374402 CTGTCCGTCCCGTCTGCT 61.374 66.667 0.00 0.00 0.00 4.24
732 751 4.436998 CCTGTCCGTCCCGTCTGC 62.437 72.222 0.00 0.00 0.00 4.26
733 752 2.675423 TCCTGTCCGTCCCGTCTG 60.675 66.667 0.00 0.00 0.00 3.51
734 753 2.675772 GTCCTGTCCGTCCCGTCT 60.676 66.667 0.00 0.00 0.00 4.18
735 754 4.112341 CGTCCTGTCCGTCCCGTC 62.112 72.222 0.00 0.00 0.00 4.79
738 757 4.065281 CACCGTCCTGTCCGTCCC 62.065 72.222 0.00 0.00 0.00 4.46
739 758 4.065281 CCACCGTCCTGTCCGTCC 62.065 72.222 0.00 0.00 0.00 4.79
740 759 4.065281 CCCACCGTCCTGTCCGTC 62.065 72.222 0.00 0.00 0.00 4.79
743 762 2.059345 TTTTCCCCACCGTCCTGTCC 62.059 60.000 0.00 0.00 0.00 4.02
744 763 0.887836 GTTTTCCCCACCGTCCTGTC 60.888 60.000 0.00 0.00 0.00 3.51
745 764 1.149854 GTTTTCCCCACCGTCCTGT 59.850 57.895 0.00 0.00 0.00 4.00
746 765 0.179001 AAGTTTTCCCCACCGTCCTG 60.179 55.000 0.00 0.00 0.00 3.86
747 766 0.109913 GAAGTTTTCCCCACCGTCCT 59.890 55.000 0.00 0.00 0.00 3.85
748 767 0.179012 TGAAGTTTTCCCCACCGTCC 60.179 55.000 0.00 0.00 0.00 4.79
749 768 1.235724 CTGAAGTTTTCCCCACCGTC 58.764 55.000 0.00 0.00 0.00 4.79
750 769 0.179001 CCTGAAGTTTTCCCCACCGT 60.179 55.000 0.00 0.00 0.00 4.83
751 770 0.109723 TCCTGAAGTTTTCCCCACCG 59.890 55.000 0.00 0.00 0.00 4.94
752 771 1.617322 GTCCTGAAGTTTTCCCCACC 58.383 55.000 0.00 0.00 0.00 4.61
753 772 1.617322 GGTCCTGAAGTTTTCCCCAC 58.383 55.000 0.00 0.00 0.00 4.61
754 773 0.109723 CGGTCCTGAAGTTTTCCCCA 59.890 55.000 0.00 0.00 0.00 4.96
755 774 0.109913 ACGGTCCTGAAGTTTTCCCC 59.890 55.000 0.00 0.00 0.00 4.81
756 775 1.977056 AACGGTCCTGAAGTTTTCCC 58.023 50.000 0.00 0.00 0.00 3.97
757 776 4.132336 AGTAAACGGTCCTGAAGTTTTCC 58.868 43.478 7.13 0.00 38.74 3.13
758 777 5.055144 AGAGTAAACGGTCCTGAAGTTTTC 58.945 41.667 7.13 3.87 38.74 2.29
759 778 5.032327 AGAGTAAACGGTCCTGAAGTTTT 57.968 39.130 7.13 0.00 38.74 2.43
760 779 4.684484 AGAGTAAACGGTCCTGAAGTTT 57.316 40.909 7.04 7.04 40.61 2.66
761 780 5.997384 ATAGAGTAAACGGTCCTGAAGTT 57.003 39.130 0.00 0.00 0.00 2.66
762 781 7.472334 TTTATAGAGTAAACGGTCCTGAAGT 57.528 36.000 0.00 0.00 0.00 3.01
763 782 8.943909 ATTTTATAGAGTAAACGGTCCTGAAG 57.056 34.615 0.00 0.00 0.00 3.02
826 1988 2.805353 CGGTCGCACTCGAGTTGG 60.805 66.667 17.26 10.86 46.46 3.77
976 2138 3.551407 GGATCTGGGAGACGGGGC 61.551 72.222 0.00 0.00 0.00 5.80
1542 2704 1.491505 GGCCGAAGCGATAGAAGTGC 61.492 60.000 0.00 0.00 41.24 4.40
1634 2796 1.112113 ATAGTAGGTGGTGCGTCCTG 58.888 55.000 0.00 0.00 35.51 3.86
1653 2815 0.611618 TGAACCGGCGGTAGTCCTTA 60.612 55.000 34.37 10.38 33.12 2.69
1983 3145 1.554160 CTCTTGCATCTCTCACCACCT 59.446 52.381 0.00 0.00 0.00 4.00
2133 3295 7.667219 TCAAAATCAAAGTAGAGCCTGAAATCT 59.333 33.333 0.00 0.00 0.00 2.40
2610 3773 6.459024 CGAAGAAGGATTTATCAGACTCGTCT 60.459 42.308 0.00 0.00 41.37 4.18
2628 3791 0.243907 TCTTCAGCGGGTCGAAGAAG 59.756 55.000 14.98 12.51 43.48 2.85
2640 3803 4.259451 CGCGTCTTATACTTGTTCTTCAGC 60.259 45.833 0.00 0.00 0.00 4.26
2655 3818 1.546923 TCATCCAGGAAACGCGTCTTA 59.453 47.619 14.44 0.00 0.00 2.10
2685 3848 6.155049 ACCATTCACTATTTTCATCCCAAAGG 59.845 38.462 0.00 0.00 0.00 3.11
2878 4041 6.235231 TCACCTTACTCAACCAGATATTCC 57.765 41.667 0.00 0.00 0.00 3.01
3096 4259 8.976353 AGGGAAAATGCAACAATGTAACATATA 58.024 29.630 0.00 0.00 0.00 0.86
3097 4260 7.850193 AGGGAAAATGCAACAATGTAACATAT 58.150 30.769 0.00 0.00 0.00 1.78
3119 4282 4.462483 ACAATGCAACAAGGTAACATAGGG 59.538 41.667 0.00 0.00 41.41 3.53
3120 4283 5.643379 ACAATGCAACAAGGTAACATAGG 57.357 39.130 0.00 0.00 41.41 2.57
3121 4284 8.213518 AGATACAATGCAACAAGGTAACATAG 57.786 34.615 0.00 0.00 41.41 2.23
3232 4398 9.052759 GTACTCTTAAACTGAACCAAATCTCAA 57.947 33.333 0.00 0.00 0.00 3.02
3258 4424 0.108186 TGGCGCAACTGGTCATCTAG 60.108 55.000 10.83 0.00 0.00 2.43
3259 4425 0.323302 TTGGCGCAACTGGTCATCTA 59.677 50.000 10.83 0.00 0.00 1.98
3260 4426 0.537143 TTTGGCGCAACTGGTCATCT 60.537 50.000 10.83 0.00 0.00 2.90
3261 4427 0.527565 ATTTGGCGCAACTGGTCATC 59.472 50.000 10.83 0.00 0.00 2.92
3262 4428 0.244450 CATTTGGCGCAACTGGTCAT 59.756 50.000 10.83 0.00 0.00 3.06
3263 4429 1.659233 CATTTGGCGCAACTGGTCA 59.341 52.632 10.83 0.00 0.00 4.02
3264 4430 1.080569 CCATTTGGCGCAACTGGTC 60.081 57.895 10.83 0.00 38.71 4.02
3265 4431 3.050339 CCATTTGGCGCAACTGGT 58.950 55.556 10.83 0.00 38.71 4.00
3275 4441 1.079888 GGGTCTTTGCGCCATTTGG 60.080 57.895 4.18 0.00 38.53 3.28
3276 4442 1.444212 CGGGTCTTTGCGCCATTTG 60.444 57.895 4.18 0.00 0.00 2.32
3277 4443 1.460273 AACGGGTCTTTGCGCCATTT 61.460 50.000 4.18 0.00 0.00 2.32
3278 4444 1.460273 AAACGGGTCTTTGCGCCATT 61.460 50.000 4.18 0.00 0.00 3.16
3279 4445 0.606944 TAAACGGGTCTTTGCGCCAT 60.607 50.000 4.18 0.00 0.00 4.40
3280 4446 0.818445 TTAAACGGGTCTTTGCGCCA 60.818 50.000 4.18 0.00 0.00 5.69
3281 4447 0.311477 TTTAAACGGGTCTTTGCGCC 59.689 50.000 4.18 0.00 0.00 6.53
3282 4448 1.782569 GTTTTAAACGGGTCTTTGCGC 59.217 47.619 0.00 0.00 0.00 6.09
3283 4449 2.223525 TGGTTTTAAACGGGTCTTTGCG 60.224 45.455 1.52 0.00 0.00 4.85
3284 4450 3.439895 TGGTTTTAAACGGGTCTTTGC 57.560 42.857 1.52 0.00 0.00 3.68
3285 4451 4.939271 ACATGGTTTTAAACGGGTCTTTG 58.061 39.130 0.00 0.00 0.00 2.77
3286 4452 5.593968 GAACATGGTTTTAAACGGGTCTTT 58.406 37.500 0.00 0.00 0.00 2.52
3287 4453 4.261280 CGAACATGGTTTTAAACGGGTCTT 60.261 41.667 0.00 0.00 0.00 3.01
3288 4454 3.251487 CGAACATGGTTTTAAACGGGTCT 59.749 43.478 0.00 0.00 0.00 3.85
3289 4455 3.003585 ACGAACATGGTTTTAAACGGGTC 59.996 43.478 0.00 1.96 0.00 4.46
3290 4456 2.950975 ACGAACATGGTTTTAAACGGGT 59.049 40.909 0.00 0.00 0.00 5.28
3291 4457 3.243134 ACACGAACATGGTTTTAAACGGG 60.243 43.478 0.00 0.00 0.00 5.28
3292 4458 3.954999 ACACGAACATGGTTTTAAACGG 58.045 40.909 0.00 0.00 0.00 4.44
3293 4459 8.620641 GTTATAACACGAACATGGTTTTAAACG 58.379 33.333 10.81 0.00 0.00 3.60
3294 4460 8.904712 GGTTATAACACGAACATGGTTTTAAAC 58.095 33.333 17.16 0.00 0.00 2.01
3295 4461 8.848182 AGGTTATAACACGAACATGGTTTTAAA 58.152 29.630 17.16 0.00 0.00 1.52
3296 4462 8.393671 AGGTTATAACACGAACATGGTTTTAA 57.606 30.769 17.16 0.00 0.00 1.52
3297 4463 7.119553 GGAGGTTATAACACGAACATGGTTTTA 59.880 37.037 17.16 0.00 0.00 1.52
3298 4464 6.072342 GGAGGTTATAACACGAACATGGTTTT 60.072 38.462 17.16 0.00 0.00 2.43
3299 4465 5.413523 GGAGGTTATAACACGAACATGGTTT 59.586 40.000 17.16 0.00 0.00 3.27
3300 4466 4.939439 GGAGGTTATAACACGAACATGGTT 59.061 41.667 17.16 0.00 0.00 3.67
3301 4467 4.224370 AGGAGGTTATAACACGAACATGGT 59.776 41.667 17.16 0.00 0.00 3.55
3302 4468 4.766375 AGGAGGTTATAACACGAACATGG 58.234 43.478 17.16 0.00 0.00 3.66
3303 4469 4.809426 GGAGGAGGTTATAACACGAACATG 59.191 45.833 17.16 0.00 0.00 3.21
3304 4470 4.715297 AGGAGGAGGTTATAACACGAACAT 59.285 41.667 17.16 1.63 0.00 2.71
3305 4471 4.091549 AGGAGGAGGTTATAACACGAACA 58.908 43.478 17.16 0.00 0.00 3.18
3306 4472 4.441217 GGAGGAGGAGGTTATAACACGAAC 60.441 50.000 17.16 5.58 0.00 3.95
3307 4473 3.703052 GGAGGAGGAGGTTATAACACGAA 59.297 47.826 17.16 0.00 0.00 3.85
3308 4474 3.053095 AGGAGGAGGAGGTTATAACACGA 60.053 47.826 17.16 0.00 0.00 4.35
3309 4475 3.297736 AGGAGGAGGAGGTTATAACACG 58.702 50.000 17.16 0.00 0.00 4.49
3310 4476 3.642377 GGAGGAGGAGGAGGTTATAACAC 59.358 52.174 17.16 10.06 0.00 3.32
3311 4477 3.536434 AGGAGGAGGAGGAGGTTATAACA 59.464 47.826 17.16 0.00 0.00 2.41
3312 4478 4.154176 GAGGAGGAGGAGGAGGTTATAAC 58.846 52.174 7.09 7.09 0.00 1.89
3313 4479 3.142407 GGAGGAGGAGGAGGAGGTTATAA 59.858 52.174 0.00 0.00 0.00 0.98
3314 4480 2.723010 GGAGGAGGAGGAGGAGGTTATA 59.277 54.545 0.00 0.00 0.00 0.98
3624 4790 1.988293 TCCGAGCAAATCCACCAAAA 58.012 45.000 0.00 0.00 0.00 2.44
3770 4936 6.040247 CACAACTTGTTGTAGTAGACAGTCA 58.960 40.000 17.26 0.00 39.88 3.41


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

AutoCloner maintained by Alex Coulton.