Multiple sequence alignment - TraesCS6B01G371700

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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 TraesCS6B01G371700 chr6B 100.000 2856 0 0 1 2856 645492435 645489580 0.000000e+00 5275
1 TraesCS6B01G371700 chr6D 87.970 2153 138 57 759 2856 428904065 428901979 0.000000e+00 2429
2 TraesCS6B01G371700 chr6A 91.021 813 53 12 2050 2856 573488960 573488162 0.000000e+00 1079
3 TraesCS6B01G371700 chr6A 87.500 816 55 16 1282 2057 573489728 573488920 0.000000e+00 898
4 TraesCS6B01G371700 chr6A 85.455 110 10 4 894 1002 573489849 573489745 3.010000e-20 110
5 TraesCS6B01G371700 chr6A 85.859 99 10 2 798 896 573490331 573490237 5.030000e-18 102
6 TraesCS6B01G371700 chr2B 92.238 554 25 7 1 543 762305684 762306230 0.000000e+00 769
7 TraesCS6B01G371700 chr2B 92.210 552 24 9 1 542 591287940 591288482 0.000000e+00 763
8 TraesCS6B01G371700 chr2B 90.942 552 33 6 1 542 159123903 159123359 0.000000e+00 726
9 TraesCS6B01G371700 chr7B 92.196 551 26 7 1 542 725329239 725328697 0.000000e+00 763
10 TraesCS6B01G371700 chr7B 89.247 558 44 9 1 542 612598955 612599512 0.000000e+00 684
11 TraesCS6B01G371700 chr7B 89.228 557 44 10 1 543 630509408 630509962 0.000000e+00 682
12 TraesCS6B01G371700 chr7B 93.261 460 27 4 87 542 544975921 544976380 0.000000e+00 675
13 TraesCS6B01G371700 chr3B 89.785 558 39 11 1 541 185528474 185529030 0.000000e+00 699
14 TraesCS6B01G371700 chr5B 88.750 560 45 10 1 542 23306008 23305449 0.000000e+00 669
15 TraesCS6B01G371700 chr2A 87.722 562 49 13 1 543 20929742 20930302 3.100000e-179 638


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 TraesCS6B01G371700 chr6B 645489580 645492435 2855 True 5275.00 5275 100.00000 1 2856 1 chr6B.!!$R1 2855
1 TraesCS6B01G371700 chr6D 428901979 428904065 2086 True 2429.00 2429 87.97000 759 2856 1 chr6D.!!$R1 2097
2 TraesCS6B01G371700 chr6A 573488162 573490331 2169 True 547.25 1079 87.45875 798 2856 4 chr6A.!!$R1 2058
3 TraesCS6B01G371700 chr2B 762305684 762306230 546 False 769.00 769 92.23800 1 543 1 chr2B.!!$F2 542
4 TraesCS6B01G371700 chr2B 591287940 591288482 542 False 763.00 763 92.21000 1 542 1 chr2B.!!$F1 541
5 TraesCS6B01G371700 chr2B 159123359 159123903 544 True 726.00 726 90.94200 1 542 1 chr2B.!!$R1 541
6 TraesCS6B01G371700 chr7B 725328697 725329239 542 True 763.00 763 92.19600 1 542 1 chr7B.!!$R1 541
7 TraesCS6B01G371700 chr7B 612598955 612599512 557 False 684.00 684 89.24700 1 542 1 chr7B.!!$F2 541
8 TraesCS6B01G371700 chr7B 630509408 630509962 554 False 682.00 682 89.22800 1 543 1 chr7B.!!$F3 542
9 TraesCS6B01G371700 chr3B 185528474 185529030 556 False 699.00 699 89.78500 1 541 1 chr3B.!!$F1 540
10 TraesCS6B01G371700 chr5B 23305449 23306008 559 True 669.00 669 88.75000 1 542 1 chr5B.!!$R1 541
11 TraesCS6B01G371700 chr2A 20929742 20930302 560 False 638.00 638 87.72200 1 543 1 chr2A.!!$F1 542

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
651 691 0.03254 CTCCTTGTTGTGCTTTGCCC 59.967 55.0 0.0 0.0 0.0 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2161 2673 0.969149 AGCATCGTCTTGGTCACAGA 59.031 50.0 0.0 0.0 0.0 3.41 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 5.861787 GTGCAAAATTGTATTCCTGTGTACC 59.138 40.000 0.00 0.00 0.00 3.34
79 98 2.421424 GGAGCCAACTGATGATGACAAC 59.579 50.000 0.00 0.00 0.00 3.32
80 99 3.341823 GAGCCAACTGATGATGACAACT 58.658 45.455 0.00 0.00 0.00 3.16
81 100 3.079578 AGCCAACTGATGATGACAACTG 58.920 45.455 0.00 0.00 0.00 3.16
82 101 2.163010 GCCAACTGATGATGACAACTGG 59.837 50.000 0.00 0.00 0.00 4.00
83 102 2.751259 CCAACTGATGATGACAACTGGG 59.249 50.000 0.00 0.00 0.00 4.45
84 103 3.559811 CCAACTGATGATGACAACTGGGA 60.560 47.826 0.00 0.00 0.00 4.37
85 104 3.340814 ACTGATGATGACAACTGGGAC 57.659 47.619 0.00 0.00 0.00 4.46
118 137 3.578716 TCTGACTAGTGGACCCTTCTTTG 59.421 47.826 0.00 0.00 0.00 2.77
159 190 4.339814 TCGTTTAGACAAAAAGGCCACAAT 59.660 37.500 5.01 0.00 0.00 2.71
219 251 5.165961 TGAACCCAACCAAAAATTGACAA 57.834 34.783 0.00 0.00 0.00 3.18
279 314 4.464597 GGCCCATGTAAAACACCTAATTGA 59.535 41.667 0.00 0.00 0.00 2.57
324 359 2.749044 CTTGCCACGCTGGATGCT 60.749 61.111 8.04 0.00 40.96 3.79
360 397 1.944709 GGTTGCTAGTGACCAAAACGT 59.055 47.619 10.63 0.00 35.95 3.99
387 424 8.889717 CACAGTAGGAATATTTTGGTCGTAAAT 58.110 33.333 0.00 0.00 0.00 1.40
453 490 2.224646 ACCCTCAGCTTTTGACCTTCTC 60.225 50.000 0.00 0.00 0.00 2.87
473 512 6.582677 TCTCTTTTTGTCACAAAAAGGTCA 57.417 33.333 37.80 25.63 43.66 4.02
551 591 1.984066 TTTTGTAGTGGGGTTTCCGG 58.016 50.000 0.00 0.00 38.76 5.14
552 592 0.110869 TTTGTAGTGGGGTTTCCGGG 59.889 55.000 0.00 0.00 38.76 5.73
553 593 2.045634 GTAGTGGGGTTTCCGGGC 60.046 66.667 0.00 0.00 38.76 6.13
554 594 3.708544 TAGTGGGGTTTCCGGGCG 61.709 66.667 0.00 0.00 38.76 6.13
556 596 4.419921 GTGGGGTTTCCGGGCGAT 62.420 66.667 0.00 0.00 38.76 4.58
557 597 3.653078 TGGGGTTTCCGGGCGATT 61.653 61.111 0.00 0.00 38.76 3.34
558 598 2.361992 GGGGTTTCCGGGCGATTT 60.362 61.111 0.00 0.00 0.00 2.17
559 599 2.412323 GGGGTTTCCGGGCGATTTC 61.412 63.158 0.00 0.00 0.00 2.17
560 600 2.757056 GGGTTTCCGGGCGATTTCG 61.757 63.158 0.00 0.00 43.27 3.46
579 619 2.679996 GCGGGCCCCACTTGATTT 60.680 61.111 18.66 0.00 0.00 2.17
580 620 2.282783 GCGGGCCCCACTTGATTTT 61.283 57.895 18.66 0.00 0.00 1.82
581 621 1.591183 CGGGCCCCACTTGATTTTG 59.409 57.895 18.66 0.00 0.00 2.44
582 622 1.184970 CGGGCCCCACTTGATTTTGT 61.185 55.000 18.66 0.00 0.00 2.83
583 623 1.055849 GGGCCCCACTTGATTTTGTT 58.944 50.000 12.23 0.00 0.00 2.83
584 624 2.252714 GGGCCCCACTTGATTTTGTTA 58.747 47.619 12.23 0.00 0.00 2.41
585 625 2.028476 GGGCCCCACTTGATTTTGTTAC 60.028 50.000 12.23 0.00 0.00 2.50
586 626 2.028476 GGCCCCACTTGATTTTGTTACC 60.028 50.000 0.00 0.00 0.00 2.85
587 627 2.028476 GCCCCACTTGATTTTGTTACCC 60.028 50.000 0.00 0.00 0.00 3.69
588 628 3.235200 CCCCACTTGATTTTGTTACCCA 58.765 45.455 0.00 0.00 0.00 4.51
589 629 3.837731 CCCCACTTGATTTTGTTACCCAT 59.162 43.478 0.00 0.00 0.00 4.00
590 630 4.285775 CCCCACTTGATTTTGTTACCCATT 59.714 41.667 0.00 0.00 0.00 3.16
591 631 5.478407 CCCACTTGATTTTGTTACCCATTC 58.522 41.667 0.00 0.00 0.00 2.67
592 632 5.160641 CCACTTGATTTTGTTACCCATTCG 58.839 41.667 0.00 0.00 0.00 3.34
593 633 4.621034 CACTTGATTTTGTTACCCATTCGC 59.379 41.667 0.00 0.00 0.00 4.70
594 634 3.859411 TGATTTTGTTACCCATTCGCC 57.141 42.857 0.00 0.00 0.00 5.54
595 635 2.162608 TGATTTTGTTACCCATTCGCCG 59.837 45.455 0.00 0.00 0.00 6.46
596 636 0.882474 TTTTGTTACCCATTCGCCGG 59.118 50.000 0.00 0.00 0.00 6.13
597 637 0.250814 TTTGTTACCCATTCGCCGGT 60.251 50.000 1.90 0.00 36.08 5.28
598 638 0.674269 TTGTTACCCATTCGCCGGTC 60.674 55.000 1.90 0.00 33.36 4.79
599 639 1.078988 GTTACCCATTCGCCGGTCA 60.079 57.895 1.90 0.00 33.36 4.02
600 640 0.463116 GTTACCCATTCGCCGGTCAT 60.463 55.000 1.90 0.00 33.36 3.06
601 641 0.253610 TTACCCATTCGCCGGTCATT 59.746 50.000 1.90 0.00 33.36 2.57
602 642 0.253610 TACCCATTCGCCGGTCATTT 59.746 50.000 1.90 0.00 33.36 2.32
603 643 0.610785 ACCCATTCGCCGGTCATTTT 60.611 50.000 1.90 0.00 0.00 1.82
604 644 0.530288 CCCATTCGCCGGTCATTTTT 59.470 50.000 1.90 0.00 0.00 1.94
621 661 2.673976 TTTTGTTCGAGCGTAAAGGC 57.326 45.000 0.00 0.00 0.00 4.35
622 662 1.584175 TTTGTTCGAGCGTAAAGGCA 58.416 45.000 0.00 0.00 34.64 4.75
623 663 1.584175 TTGTTCGAGCGTAAAGGCAA 58.416 45.000 0.00 0.00 34.64 4.52
624 664 1.144969 TGTTCGAGCGTAAAGGCAAG 58.855 50.000 0.00 0.00 34.64 4.01
625 665 1.145803 GTTCGAGCGTAAAGGCAAGT 58.854 50.000 0.00 0.00 34.64 3.16
626 666 1.529865 GTTCGAGCGTAAAGGCAAGTT 59.470 47.619 0.00 0.00 34.64 2.66
627 667 1.425412 TCGAGCGTAAAGGCAAGTTC 58.575 50.000 0.00 0.00 34.64 3.01
628 668 0.442699 CGAGCGTAAAGGCAAGTTCC 59.557 55.000 0.00 0.00 34.64 3.62
629 669 1.809684 GAGCGTAAAGGCAAGTTCCT 58.190 50.000 0.00 0.00 38.31 3.36
630 670 1.732809 GAGCGTAAAGGCAAGTTCCTC 59.267 52.381 0.00 0.00 34.82 3.71
631 671 0.442699 GCGTAAAGGCAAGTTCCTCG 59.557 55.000 0.00 0.00 34.82 4.63
632 672 0.442699 CGTAAAGGCAAGTTCCTCGC 59.557 55.000 0.00 0.00 34.82 5.03
633 673 1.809684 GTAAAGGCAAGTTCCTCGCT 58.190 50.000 0.00 0.00 34.82 4.93
634 674 1.732809 GTAAAGGCAAGTTCCTCGCTC 59.267 52.381 0.00 0.00 34.82 5.03
635 675 0.606673 AAAGGCAAGTTCCTCGCTCC 60.607 55.000 0.00 0.00 34.82 4.70
636 676 1.484444 AAGGCAAGTTCCTCGCTCCT 61.484 55.000 0.00 0.00 34.82 3.69
637 677 1.003233 GGCAAGTTCCTCGCTCCTT 60.003 57.895 0.00 0.00 0.00 3.36
638 678 1.301677 GGCAAGTTCCTCGCTCCTTG 61.302 60.000 0.00 0.00 37.84 3.61
639 679 0.603975 GCAAGTTCCTCGCTCCTTGT 60.604 55.000 0.00 0.00 37.28 3.16
640 680 1.884235 CAAGTTCCTCGCTCCTTGTT 58.116 50.000 0.00 0.00 31.79 2.83
641 681 1.532868 CAAGTTCCTCGCTCCTTGTTG 59.467 52.381 0.00 0.00 31.79 3.33
642 682 0.759346 AGTTCCTCGCTCCTTGTTGT 59.241 50.000 0.00 0.00 0.00 3.32
643 683 0.868406 GTTCCTCGCTCCTTGTTGTG 59.132 55.000 0.00 0.00 0.00 3.33
644 684 0.884704 TTCCTCGCTCCTTGTTGTGC 60.885 55.000 0.00 0.00 0.00 4.57
645 685 1.302033 CCTCGCTCCTTGTTGTGCT 60.302 57.895 0.00 0.00 0.00 4.40
646 686 0.886490 CCTCGCTCCTTGTTGTGCTT 60.886 55.000 0.00 0.00 0.00 3.91
647 687 0.947244 CTCGCTCCTTGTTGTGCTTT 59.053 50.000 0.00 0.00 0.00 3.51
648 688 0.662619 TCGCTCCTTGTTGTGCTTTG 59.337 50.000 0.00 0.00 0.00 2.77
649 689 0.936297 CGCTCCTTGTTGTGCTTTGC 60.936 55.000 0.00 0.00 0.00 3.68
650 690 0.598419 GCTCCTTGTTGTGCTTTGCC 60.598 55.000 0.00 0.00 0.00 4.52
651 691 0.032540 CTCCTTGTTGTGCTTTGCCC 59.967 55.000 0.00 0.00 0.00 5.36
652 692 0.396974 TCCTTGTTGTGCTTTGCCCT 60.397 50.000 0.00 0.00 0.00 5.19
653 693 0.465287 CCTTGTTGTGCTTTGCCCTT 59.535 50.000 0.00 0.00 0.00 3.95
654 694 1.686052 CCTTGTTGTGCTTTGCCCTTA 59.314 47.619 0.00 0.00 0.00 2.69
655 695 2.545742 CCTTGTTGTGCTTTGCCCTTAC 60.546 50.000 0.00 0.00 0.00 2.34
656 696 2.065899 TGTTGTGCTTTGCCCTTACT 57.934 45.000 0.00 0.00 0.00 2.24
657 697 2.383855 TGTTGTGCTTTGCCCTTACTT 58.616 42.857 0.00 0.00 0.00 2.24
658 698 2.763448 TGTTGTGCTTTGCCCTTACTTT 59.237 40.909 0.00 0.00 0.00 2.66
659 699 3.196685 TGTTGTGCTTTGCCCTTACTTTT 59.803 39.130 0.00 0.00 0.00 2.27
660 700 3.451141 TGTGCTTTGCCCTTACTTTTG 57.549 42.857 0.00 0.00 0.00 2.44
661 701 2.102252 TGTGCTTTGCCCTTACTTTTGG 59.898 45.455 0.00 0.00 0.00 3.28
662 702 2.102420 GTGCTTTGCCCTTACTTTTGGT 59.898 45.455 0.00 0.00 0.00 3.67
663 703 2.364002 TGCTTTGCCCTTACTTTTGGTC 59.636 45.455 0.00 0.00 0.00 4.02
664 704 2.364002 GCTTTGCCCTTACTTTTGGTCA 59.636 45.455 0.00 0.00 0.00 4.02
665 705 3.181470 GCTTTGCCCTTACTTTTGGTCAA 60.181 43.478 0.00 0.00 0.00 3.18
666 706 4.682050 GCTTTGCCCTTACTTTTGGTCAAA 60.682 41.667 0.00 0.00 0.00 2.69
667 707 5.422214 TTTGCCCTTACTTTTGGTCAAAA 57.578 34.783 8.36 8.36 37.90 2.44
668 708 5.422214 TTGCCCTTACTTTTGGTCAAAAA 57.578 34.783 9.70 0.00 39.49 1.94
669 709 5.622346 TGCCCTTACTTTTGGTCAAAAAT 57.378 34.783 9.70 3.34 39.49 1.82
670 710 6.732896 TGCCCTTACTTTTGGTCAAAAATA 57.267 33.333 9.70 2.45 39.49 1.40
671 711 7.125792 TGCCCTTACTTTTGGTCAAAAATAA 57.874 32.000 9.70 9.29 39.49 1.40
672 712 7.213678 TGCCCTTACTTTTGGTCAAAAATAAG 58.786 34.615 20.98 20.98 43.77 1.73
676 716 8.831715 CTTACTTTTGGTCAAAAATAAGGCAT 57.168 30.769 20.53 0.00 42.05 4.40
677 717 9.921637 CTTACTTTTGGTCAAAAATAAGGCATA 57.078 29.630 20.53 0.00 42.05 3.14
695 735 8.863872 AAGGCATATATTTCAACTGGTATACC 57.136 34.615 15.50 15.50 0.00 2.73
696 736 7.402862 AGGCATATATTTCAACTGGTATACCC 58.597 38.462 19.42 2.04 34.29 3.69
697 737 7.018149 AGGCATATATTTCAACTGGTATACCCA 59.982 37.037 19.42 6.66 42.51 4.51
698 738 7.834181 GGCATATATTTCAACTGGTATACCCAT 59.166 37.037 19.42 4.28 44.15 4.00
699 739 9.243105 GCATATATTTCAACTGGTATACCCATT 57.757 33.333 19.42 10.38 44.15 3.16
703 743 7.645058 ATTTCAACTGGTATACCCATTTCTG 57.355 36.000 19.42 8.04 44.15 3.02
704 744 5.110814 TCAACTGGTATACCCATTTCTGG 57.889 43.478 19.42 2.43 44.15 3.86
705 745 4.538490 TCAACTGGTATACCCATTTCTGGT 59.462 41.667 19.42 2.96 44.15 4.00
706 746 4.503714 ACTGGTATACCCATTTCTGGTG 57.496 45.455 19.42 0.04 44.15 4.17
707 747 3.850173 ACTGGTATACCCATTTCTGGTGT 59.150 43.478 19.42 0.59 44.15 4.16
708 748 4.080526 ACTGGTATACCCATTTCTGGTGTC 60.081 45.833 19.42 0.00 44.15 3.67
709 749 3.847184 TGGTATACCCATTTCTGGTGTCA 59.153 43.478 19.42 0.00 41.37 3.58
710 750 4.476846 TGGTATACCCATTTCTGGTGTCAT 59.523 41.667 19.42 0.00 41.37 3.06
711 751 4.821805 GGTATACCCATTTCTGGTGTCATG 59.178 45.833 11.17 0.00 41.37 3.07
712 752 1.549203 ACCCATTTCTGGTGTCATGC 58.451 50.000 0.00 0.00 41.37 4.06
713 753 1.203038 ACCCATTTCTGGTGTCATGCA 60.203 47.619 0.00 0.00 41.37 3.96
714 754 2.104967 CCCATTTCTGGTGTCATGCAT 58.895 47.619 0.00 0.00 41.37 3.96
715 755 2.159156 CCCATTTCTGGTGTCATGCATG 60.159 50.000 21.07 21.07 41.37 4.06
716 756 2.159156 CCATTTCTGGTGTCATGCATGG 60.159 50.000 25.97 9.31 37.79 3.66
717 757 2.583024 TTTCTGGTGTCATGCATGGA 57.417 45.000 25.97 11.57 0.00 3.41
718 758 1.825090 TTCTGGTGTCATGCATGGAC 58.175 50.000 25.97 20.84 35.83 4.02
719 759 0.391528 TCTGGTGTCATGCATGGACG 60.392 55.000 25.97 11.33 38.10 4.79
720 760 1.371337 CTGGTGTCATGCATGGACGG 61.371 60.000 25.97 14.33 38.10 4.79
721 761 1.377202 GGTGTCATGCATGGACGGT 60.377 57.895 25.97 0.00 38.10 4.83
722 762 1.369091 GGTGTCATGCATGGACGGTC 61.369 60.000 25.97 14.97 38.10 4.79
723 763 0.673333 GTGTCATGCATGGACGGTCA 60.673 55.000 25.97 12.59 38.10 4.02
724 764 0.036022 TGTCATGCATGGACGGTCAA 59.964 50.000 25.97 0.00 38.10 3.18
725 765 0.447801 GTCATGCATGGACGGTCAAC 59.552 55.000 25.97 10.68 0.00 3.18
739 779 0.586802 GTCAACGAGACCAAAGCACC 59.413 55.000 0.00 0.00 41.56 5.01
740 780 0.179234 TCAACGAGACCAAAGCACCA 59.821 50.000 0.00 0.00 0.00 4.17
741 781 1.202758 TCAACGAGACCAAAGCACCAT 60.203 47.619 0.00 0.00 0.00 3.55
742 782 1.197721 CAACGAGACCAAAGCACCATC 59.802 52.381 0.00 0.00 0.00 3.51
743 783 0.687354 ACGAGACCAAAGCACCATCT 59.313 50.000 0.00 0.00 0.00 2.90
744 784 1.338200 ACGAGACCAAAGCACCATCTC 60.338 52.381 0.00 0.00 33.85 2.75
745 785 1.338105 CGAGACCAAAGCACCATCTCA 60.338 52.381 0.00 0.00 36.42 3.27
746 786 2.783135 GAGACCAAAGCACCATCTCAA 58.217 47.619 0.00 0.00 36.60 3.02
747 787 3.149196 GAGACCAAAGCACCATCTCAAA 58.851 45.455 0.00 0.00 36.60 2.69
748 788 3.565307 AGACCAAAGCACCATCTCAAAA 58.435 40.909 0.00 0.00 0.00 2.44
749 789 3.960102 AGACCAAAGCACCATCTCAAAAA 59.040 39.130 0.00 0.00 0.00 1.94
775 815 3.420839 AAAAACGAGACCAAAGCACAG 57.579 42.857 0.00 0.00 0.00 3.66
776 816 0.663153 AAACGAGACCAAAGCACAGC 59.337 50.000 0.00 0.00 0.00 4.40
777 817 0.463654 AACGAGACCAAAGCACAGCA 60.464 50.000 0.00 0.00 0.00 4.41
778 818 0.250467 ACGAGACCAAAGCACAGCAT 60.250 50.000 0.00 0.00 0.00 3.79
779 819 0.877071 CGAGACCAAAGCACAGCATT 59.123 50.000 0.00 0.00 0.00 3.56
780 820 1.267806 CGAGACCAAAGCACAGCATTT 59.732 47.619 0.00 0.00 0.00 2.32
781 821 2.669364 GAGACCAAAGCACAGCATTTG 58.331 47.619 0.00 0.00 36.40 2.32
794 834 1.288752 CATTTGTTGGTGACGGGCC 59.711 57.895 0.00 0.00 0.00 5.80
833 873 2.487934 GGACGGATGATCTCAACCATG 58.512 52.381 7.20 0.00 38.56 3.66
834 874 2.487934 GACGGATGATCTCAACCATGG 58.512 52.381 11.19 11.19 38.56 3.66
835 875 2.103094 GACGGATGATCTCAACCATGGA 59.897 50.000 21.47 0.00 38.56 3.41
836 876 2.158900 ACGGATGATCTCAACCATGGAC 60.159 50.000 21.47 1.27 38.56 4.02
837 877 2.487934 GGATGATCTCAACCATGGACG 58.512 52.381 21.47 8.91 38.52 4.79
847 887 1.079127 CCATGGACGGACACCTCAC 60.079 63.158 5.56 0.00 0.00 3.51
857 897 2.299297 CGGACACCTCACTACTTTTCCT 59.701 50.000 0.00 0.00 0.00 3.36
877 919 7.393841 TTCCTGAAAAGAAACGGTTTAGAAA 57.606 32.000 6.03 0.00 0.00 2.52
887 929 6.540914 AGAAACGGTTTAGAAAACAGATGACA 59.459 34.615 6.03 0.00 0.00 3.58
932 1364 0.392336 CAGCTACCCTCTGATCCAGC 59.608 60.000 0.00 0.00 33.54 4.85
942 1374 2.439156 GATCCAGCACCACCAGCC 60.439 66.667 0.00 0.00 0.00 4.85
956 1388 4.385405 AGCCTGACACGCCTCTGC 62.385 66.667 0.00 0.00 0.00 4.26
957 1389 4.687215 GCCTGACACGCCTCTGCA 62.687 66.667 0.00 0.00 37.32 4.41
958 1390 2.433838 CCTGACACGCCTCTGCAG 60.434 66.667 7.63 7.63 37.32 4.41
959 1391 2.341543 CTGACACGCCTCTGCAGT 59.658 61.111 14.67 0.00 37.32 4.40
960 1392 1.735920 CTGACACGCCTCTGCAGTC 60.736 63.158 14.67 3.17 40.60 3.51
961 1393 2.152297 CTGACACGCCTCTGCAGTCT 62.152 60.000 14.67 0.00 40.73 3.24
962 1394 1.735920 GACACGCCTCTGCAGTCTG 60.736 63.158 14.67 4.59 38.46 3.51
1004 1439 1.718757 GCCAACAGACGATGCATCCC 61.719 60.000 20.87 12.71 0.00 3.85
1005 1440 1.431488 CCAACAGACGATGCATCCCG 61.431 60.000 20.87 13.39 0.00 5.14
1052 1487 3.146066 TGATCTTCCCTCCAAAAACACG 58.854 45.455 0.00 0.00 0.00 4.49
1053 1488 1.314730 TCTTCCCTCCAAAAACACGC 58.685 50.000 0.00 0.00 0.00 5.34
1054 1489 0.040425 CTTCCCTCCAAAAACACGCG 60.040 55.000 3.53 3.53 0.00 6.01
1055 1490 0.464013 TTCCCTCCAAAAACACGCGA 60.464 50.000 15.93 0.00 0.00 5.87
1056 1491 0.882927 TCCCTCCAAAAACACGCGAG 60.883 55.000 15.93 7.88 0.00 5.03
1070 1505 0.179187 CGCGAGTCGTGACTGAGATT 60.179 55.000 21.23 0.00 42.66 2.40
1072 1507 1.135660 GCGAGTCGTGACTGAGATTGA 60.136 52.381 15.08 0.00 42.66 2.57
1073 1508 2.478709 GCGAGTCGTGACTGAGATTGAT 60.479 50.000 15.08 0.00 42.66 2.57
1074 1509 3.358775 CGAGTCGTGACTGAGATTGATC 58.641 50.000 7.35 0.00 42.66 2.92
1075 1510 3.358775 GAGTCGTGACTGAGATTGATCG 58.641 50.000 7.35 0.00 42.66 3.69
1076 1511 3.010420 AGTCGTGACTGAGATTGATCGA 58.990 45.455 0.86 0.00 40.75 3.59
1077 1512 3.629855 AGTCGTGACTGAGATTGATCGAT 59.370 43.478 0.00 0.00 40.75 3.59
1078 1513 3.728221 GTCGTGACTGAGATTGATCGATG 59.272 47.826 0.54 0.00 0.00 3.84
1079 1514 3.048501 CGTGACTGAGATTGATCGATGG 58.951 50.000 0.54 0.00 0.00 3.51
1081 1516 2.224137 TGACTGAGATTGATCGATGGCC 60.224 50.000 0.54 0.00 0.00 5.36
1082 1517 1.764723 ACTGAGATTGATCGATGGCCA 59.235 47.619 8.56 8.56 0.00 5.36
1411 1846 4.028490 ATGGCCGTCCCGCTTCAA 62.028 61.111 0.00 0.00 35.87 2.69
1425 1860 2.350388 CGCTTCAATGCAAAGGTACGTT 60.350 45.455 0.00 0.00 0.00 3.99
1439 1886 0.180171 TACGTTCATCCTGCCCCATG 59.820 55.000 0.00 0.00 0.00 3.66
1440 1887 1.825191 CGTTCATCCTGCCCCATGG 60.825 63.158 4.14 4.14 0.00 3.66
1463 1910 4.142447 GGACTGCTATAGTTTCGTGTGAGA 60.142 45.833 0.84 0.00 40.53 3.27
1475 1922 2.069273 CGTGTGAGATGAGGTTTCCAC 58.931 52.381 0.00 0.00 0.00 4.02
1599 2055 1.725164 CGTAAGAAACTCAACTCGCCC 59.275 52.381 0.00 0.00 43.02 6.13
1633 2095 5.578336 TCTCTTCTTATGTCGCTGTTGATTG 59.422 40.000 0.00 0.00 0.00 2.67
1634 2096 4.093408 TCTTCTTATGTCGCTGTTGATTGC 59.907 41.667 0.00 0.00 0.00 3.56
1651 2127 3.421919 TTGCCACTGATGATTCTGTCA 57.578 42.857 0.00 0.00 42.06 3.58
1790 2272 2.046988 CGGTGCTCATGTGCCTGA 60.047 61.111 16.62 0.00 0.00 3.86
1883 2365 5.510671 GCTGCTGCAATACGTGTTTATTAT 58.489 37.500 11.11 0.00 39.41 1.28
1939 2424 5.877012 AGAGTGTACATTGGCTCTTTGTATG 59.123 40.000 7.69 0.00 35.02 2.39
1940 2425 5.560724 AGTGTACATTGGCTCTTTGTATGT 58.439 37.500 0.00 0.00 34.18 2.29
1941 2426 6.707290 AGTGTACATTGGCTCTTTGTATGTA 58.293 36.000 0.00 0.00 32.23 2.29
1942 2427 7.338710 AGTGTACATTGGCTCTTTGTATGTAT 58.661 34.615 0.00 0.00 35.07 2.29
2014 2499 2.396590 ACTGTGGGTGCCTAAATACG 57.603 50.000 0.00 0.00 0.00 3.06
2018 2506 2.168936 TGTGGGTGCCTAAATACGGTAG 59.831 50.000 0.00 0.00 0.00 3.18
2059 2547 8.661352 ACAAAAAGATTGGTCTAAAAATGTGG 57.339 30.769 0.00 0.00 33.30 4.17
2060 2548 7.714813 ACAAAAAGATTGGTCTAAAAATGTGGG 59.285 33.333 0.00 0.00 33.30 4.61
2061 2549 7.610580 AAAAGATTGGTCTAAAAATGTGGGA 57.389 32.000 0.00 0.00 33.30 4.37
2142 2654 5.749109 CGTTTACACTCTTCAGAGACAAAGT 59.251 40.000 10.93 4.03 44.74 2.66
2221 2738 6.767902 CCTTCTCTAACAATGCCTGCTAATTA 59.232 38.462 0.00 0.00 0.00 1.40
2228 2745 5.965922 ACAATGCCTGCTAATTAAGGAAAC 58.034 37.500 7.30 0.00 35.40 2.78
2246 2763 0.824759 ACCCTAGCCGTCAATCTGAC 59.175 55.000 0.00 0.00 43.65 3.51
2263 2780 4.851843 TCTGACCTACGGATTTGTCTCTA 58.148 43.478 0.00 0.00 0.00 2.43
2265 2782 5.299531 TCTGACCTACGGATTTGTCTCTATG 59.700 44.000 0.00 0.00 0.00 2.23
2320 2837 0.107456 AAGCTCCGGTCATGGCTATG 59.893 55.000 3.17 3.17 34.40 2.23
2371 2888 1.647629 CGCGCAGACGTAGAGGTAT 59.352 57.895 8.75 0.00 42.83 2.73
2377 2894 3.546417 CGCAGACGTAGAGGTATCTGTTC 60.546 52.174 0.00 0.00 40.61 3.18
2405 2922 3.134081 GGGGGATGAAGTTCGTCAGATAA 59.866 47.826 23.27 0.00 34.15 1.75
2412 2929 7.009357 GGATGAAGTTCGTCAGATAACAGTAAC 59.991 40.741 23.27 1.42 34.15 2.50
2433 2950 4.526970 ACAAACCAGATGTAAGCATAGGG 58.473 43.478 0.00 0.00 35.73 3.53
2441 2958 5.760253 CAGATGTAAGCATAGGGAAACGATT 59.240 40.000 0.00 0.00 35.07 3.34
2488 3005 7.560991 ACATGTATCCACAATAACCATCACAAT 59.439 33.333 0.00 0.00 38.42 2.71
2489 3006 7.953005 TGTATCCACAATAACCATCACAATT 57.047 32.000 0.00 0.00 0.00 2.32
2490 3007 7.995289 TGTATCCACAATAACCATCACAATTC 58.005 34.615 0.00 0.00 0.00 2.17
2491 3008 7.613411 TGTATCCACAATAACCATCACAATTCA 59.387 33.333 0.00 0.00 0.00 2.57
2492 3009 6.266168 TCCACAATAACCATCACAATTCAC 57.734 37.500 0.00 0.00 0.00 3.18
2493 3010 5.772169 TCCACAATAACCATCACAATTCACA 59.228 36.000 0.00 0.00 0.00 3.58
2494 3011 6.266330 TCCACAATAACCATCACAATTCACAA 59.734 34.615 0.00 0.00 0.00 3.33
2495 3012 6.927936 CCACAATAACCATCACAATTCACAAA 59.072 34.615 0.00 0.00 0.00 2.83
2534 3051 2.830370 GGCCCTTCCATTGAGCGG 60.830 66.667 0.00 0.00 34.01 5.52
2542 3059 4.423732 CCTTCCATTGAGCGGTTAAATTG 58.576 43.478 0.00 0.00 0.00 2.32
2601 3118 3.003480 GAGCACTTACTTTGGCGAGAAT 58.997 45.455 0.00 0.00 0.00 2.40
2681 3198 4.023107 CAGGGCAATAGAATTGATGAGCAG 60.023 45.833 3.86 0.00 0.00 4.24
2691 3208 0.540454 TGATGAGCAGAGGGAGCAAG 59.460 55.000 0.00 0.00 0.00 4.01
2697 3214 2.123632 AGAGGGAGCAAGCAGGGA 59.876 61.111 0.00 0.00 0.00 4.20
2717 3234 3.436704 GGAAGTGCGATCATTCTGTTCAA 59.563 43.478 0.00 0.00 0.00 2.69
2795 3312 2.011122 ACCACCATCCCGAGGTATAG 57.989 55.000 0.00 0.00 37.23 1.31
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 100 2.042930 AGATGGGTCCCAGGTCCC 59.957 66.667 17.70 11.71 42.55 4.46
82 101 1.306997 TCAGATGGGTCCCAGGTCC 60.307 63.158 17.70 5.57 36.75 4.46
83 102 0.618968 AGTCAGATGGGTCCCAGGTC 60.619 60.000 17.70 10.15 36.75 3.85
84 103 0.716591 TAGTCAGATGGGTCCCAGGT 59.283 55.000 17.70 0.00 36.75 4.00
85 104 1.343478 ACTAGTCAGATGGGTCCCAGG 60.343 57.143 17.70 8.65 36.75 4.45
130 161 7.435784 GTGGCCTTTTTGTCTAAACGAATTTAA 59.564 33.333 3.32 0.00 29.82 1.52
159 190 9.868277 CAATATTACAGCCTTTTTATTGTTGGA 57.132 29.630 0.00 0.00 0.00 3.53
228 262 6.756542 GCCCATTAATTCAACCTATTTGTGTC 59.243 38.462 0.00 0.00 36.49 3.67
240 275 1.398692 GGCCGAGCCCATTAATTCAA 58.601 50.000 3.73 0.00 44.06 2.69
279 314 1.244019 GCACAAGATTCAGCCCGGTT 61.244 55.000 0.00 0.00 0.00 4.44
324 359 3.006728 CCTCCCCAGGCCACGTAA 61.007 66.667 5.01 0.00 30.98 3.18
360 397 6.045072 ACGACCAAAATATTCCTACTGTGA 57.955 37.500 0.00 0.00 0.00 3.58
387 424 1.116308 TTGTGAGAAGGTCGTGGACA 58.884 50.000 0.00 0.00 33.68 4.02
453 490 6.777526 TTGTGACCTTTTTGTGACAAAAAG 57.222 33.333 37.67 37.67 38.98 2.27
473 512 6.648192 TGAAAGGTCATGGTTTTTCATTTGT 58.352 32.000 12.34 0.00 35.34 2.83
533 573 0.110869 CCCGGAAACCCCACTACAAA 59.889 55.000 0.73 0.00 34.14 2.83
543 583 2.789249 CGAAATCGCCCGGAAACC 59.211 61.111 0.73 0.00 0.00 3.27
562 602 2.282783 AAAATCAAGTGGGGCCCGC 61.283 57.895 28.99 28.99 0.00 6.13
563 603 1.184970 ACAAAATCAAGTGGGGCCCG 61.185 55.000 19.83 2.95 0.00 6.13
564 604 1.055849 AACAAAATCAAGTGGGGCCC 58.944 50.000 18.17 18.17 0.00 5.80
565 605 2.028476 GGTAACAAAATCAAGTGGGGCC 60.028 50.000 0.00 0.00 0.00 5.80
566 606 2.028476 GGGTAACAAAATCAAGTGGGGC 60.028 50.000 0.00 0.00 39.74 5.80
567 607 3.235200 TGGGTAACAAAATCAAGTGGGG 58.765 45.455 0.00 0.00 39.74 4.96
568 608 5.478407 GAATGGGTAACAAAATCAAGTGGG 58.522 41.667 0.00 0.00 39.74 4.61
569 609 5.160641 CGAATGGGTAACAAAATCAAGTGG 58.839 41.667 0.00 0.00 39.74 4.00
570 610 4.621034 GCGAATGGGTAACAAAATCAAGTG 59.379 41.667 0.00 0.00 39.74 3.16
571 611 4.321675 GGCGAATGGGTAACAAAATCAAGT 60.322 41.667 0.00 0.00 39.74 3.16
572 612 4.173256 GGCGAATGGGTAACAAAATCAAG 58.827 43.478 0.00 0.00 39.74 3.02
573 613 3.366476 CGGCGAATGGGTAACAAAATCAA 60.366 43.478 0.00 0.00 39.74 2.57
574 614 2.162608 CGGCGAATGGGTAACAAAATCA 59.837 45.455 0.00 0.00 39.74 2.57
575 615 2.478879 CCGGCGAATGGGTAACAAAATC 60.479 50.000 9.30 0.00 39.74 2.17
576 616 1.474879 CCGGCGAATGGGTAACAAAAT 59.525 47.619 9.30 0.00 39.74 1.82
577 617 0.882474 CCGGCGAATGGGTAACAAAA 59.118 50.000 9.30 0.00 39.74 2.44
578 618 0.250814 ACCGGCGAATGGGTAACAAA 60.251 50.000 9.30 0.00 33.95 2.83
579 619 0.674269 GACCGGCGAATGGGTAACAA 60.674 55.000 9.30 0.00 36.46 2.83
580 620 1.078988 GACCGGCGAATGGGTAACA 60.079 57.895 9.30 0.00 36.46 2.41
581 621 0.463116 ATGACCGGCGAATGGGTAAC 60.463 55.000 9.30 0.00 36.46 2.50
582 622 0.253610 AATGACCGGCGAATGGGTAA 59.746 50.000 9.30 0.00 36.46 2.85
583 623 0.253610 AAATGACCGGCGAATGGGTA 59.746 50.000 9.30 0.00 36.46 3.69
584 624 0.610785 AAAATGACCGGCGAATGGGT 60.611 50.000 9.30 0.00 39.83 4.51
585 625 0.530288 AAAAATGACCGGCGAATGGG 59.470 50.000 9.30 0.00 0.00 4.00
601 641 2.355132 TGCCTTTACGCTCGAACAAAAA 59.645 40.909 0.00 0.00 0.00 1.94
602 642 1.941294 TGCCTTTACGCTCGAACAAAA 59.059 42.857 0.00 0.00 0.00 2.44
603 643 1.584175 TGCCTTTACGCTCGAACAAA 58.416 45.000 0.00 0.00 0.00 2.83
604 644 1.529438 CTTGCCTTTACGCTCGAACAA 59.471 47.619 0.00 0.00 0.00 2.83
605 645 1.144969 CTTGCCTTTACGCTCGAACA 58.855 50.000 0.00 0.00 0.00 3.18
606 646 1.145803 ACTTGCCTTTACGCTCGAAC 58.854 50.000 0.00 0.00 0.00 3.95
607 647 1.796459 GAACTTGCCTTTACGCTCGAA 59.204 47.619 0.00 0.00 0.00 3.71
608 648 1.425412 GAACTTGCCTTTACGCTCGA 58.575 50.000 0.00 0.00 0.00 4.04
609 649 0.442699 GGAACTTGCCTTTACGCTCG 59.557 55.000 0.00 0.00 0.00 5.03
610 650 1.732809 GAGGAACTTGCCTTTACGCTC 59.267 52.381 0.00 0.00 41.55 5.03
611 651 1.809684 GAGGAACTTGCCTTTACGCT 58.190 50.000 0.00 0.00 41.55 5.07
612 652 0.442699 CGAGGAACTTGCCTTTACGC 59.557 55.000 0.00 0.00 41.55 4.42
621 661 1.532868 CAACAAGGAGCGAGGAACTTG 59.467 52.381 0.00 0.00 41.55 3.16
622 662 1.141053 ACAACAAGGAGCGAGGAACTT 59.859 47.619 0.00 0.00 41.55 2.66
624 664 0.868406 CACAACAAGGAGCGAGGAAC 59.132 55.000 0.00 0.00 0.00 3.62
625 665 0.884704 GCACAACAAGGAGCGAGGAA 60.885 55.000 0.00 0.00 0.00 3.36
626 666 1.301716 GCACAACAAGGAGCGAGGA 60.302 57.895 0.00 0.00 0.00 3.71
627 667 0.886490 AAGCACAACAAGGAGCGAGG 60.886 55.000 0.00 0.00 0.00 4.63
628 668 0.947244 AAAGCACAACAAGGAGCGAG 59.053 50.000 0.00 0.00 0.00 5.03
629 669 0.662619 CAAAGCACAACAAGGAGCGA 59.337 50.000 0.00 0.00 0.00 4.93
630 670 0.936297 GCAAAGCACAACAAGGAGCG 60.936 55.000 0.00 0.00 0.00 5.03
631 671 0.598419 GGCAAAGCACAACAAGGAGC 60.598 55.000 0.00 0.00 0.00 4.70
632 672 0.032540 GGGCAAAGCACAACAAGGAG 59.967 55.000 0.00 0.00 0.00 3.69
633 673 0.396974 AGGGCAAAGCACAACAAGGA 60.397 50.000 0.00 0.00 32.33 3.36
634 674 0.465287 AAGGGCAAAGCACAACAAGG 59.535 50.000 0.00 0.00 32.33 3.61
635 675 2.362077 AGTAAGGGCAAAGCACAACAAG 59.638 45.455 0.00 0.00 32.33 3.16
636 676 2.383855 AGTAAGGGCAAAGCACAACAA 58.616 42.857 0.00 0.00 32.33 2.83
637 677 2.065899 AGTAAGGGCAAAGCACAACA 57.934 45.000 0.00 0.00 32.33 3.33
638 678 3.452755 AAAGTAAGGGCAAAGCACAAC 57.547 42.857 0.00 0.00 32.33 3.32
639 679 3.431486 CCAAAAGTAAGGGCAAAGCACAA 60.431 43.478 0.00 0.00 32.33 3.33
640 680 2.102252 CCAAAAGTAAGGGCAAAGCACA 59.898 45.455 0.00 0.00 32.33 4.57
641 681 2.102420 ACCAAAAGTAAGGGCAAAGCAC 59.898 45.455 0.00 0.00 0.00 4.40
642 682 2.364002 GACCAAAAGTAAGGGCAAAGCA 59.636 45.455 0.00 0.00 31.39 3.91
643 683 2.364002 TGACCAAAAGTAAGGGCAAAGC 59.636 45.455 0.00 0.00 40.80 3.51
647 687 5.622346 ATTTTTGACCAAAAGTAAGGGCA 57.378 34.783 7.80 0.00 42.42 5.36
648 688 7.652300 CTTATTTTTGACCAAAAGTAAGGGC 57.348 36.000 26.04 0.00 45.99 5.19
669 709 9.953565 GGTATACCAGTTGAAATATATGCCTTA 57.046 33.333 17.44 0.00 35.64 2.69
670 710 7.888546 GGGTATACCAGTTGAAATATATGCCTT 59.111 37.037 23.33 0.00 39.85 4.35
671 711 7.018149 TGGGTATACCAGTTGAAATATATGCCT 59.982 37.037 23.33 0.00 46.80 4.75
672 712 7.172342 TGGGTATACCAGTTGAAATATATGCC 58.828 38.462 23.33 0.48 46.80 4.40
688 728 4.497291 TGACACCAGAAATGGGTATACC 57.503 45.455 13.99 13.99 36.72 2.73
689 729 4.275936 GCATGACACCAGAAATGGGTATAC 59.724 45.833 0.00 0.00 36.72 1.47
690 730 4.080072 TGCATGACACCAGAAATGGGTATA 60.080 41.667 0.00 0.00 36.72 1.47
691 731 3.290710 GCATGACACCAGAAATGGGTAT 58.709 45.455 0.00 0.00 36.72 2.73
692 732 2.040947 TGCATGACACCAGAAATGGGTA 59.959 45.455 0.00 0.00 36.72 3.69
693 733 1.203038 TGCATGACACCAGAAATGGGT 60.203 47.619 0.00 0.00 39.88 4.51
694 734 1.548081 TGCATGACACCAGAAATGGG 58.452 50.000 0.00 0.00 0.00 4.00
695 735 2.159156 CCATGCATGACACCAGAAATGG 60.159 50.000 28.31 3.81 0.00 3.16
696 736 2.756207 TCCATGCATGACACCAGAAATG 59.244 45.455 28.31 6.55 0.00 2.32
697 737 2.756760 GTCCATGCATGACACCAGAAAT 59.243 45.455 28.31 0.00 0.00 2.17
698 738 2.161855 GTCCATGCATGACACCAGAAA 58.838 47.619 28.31 0.00 0.00 2.52
699 739 1.825090 GTCCATGCATGACACCAGAA 58.175 50.000 28.31 0.13 0.00 3.02
700 740 0.391528 CGTCCATGCATGACACCAGA 60.392 55.000 28.31 12.35 0.00 3.86
701 741 1.371337 CCGTCCATGCATGACACCAG 61.371 60.000 28.31 10.06 0.00 4.00
702 742 1.377072 CCGTCCATGCATGACACCA 60.377 57.895 28.31 3.34 0.00 4.17
703 743 1.369091 GACCGTCCATGCATGACACC 61.369 60.000 28.31 10.92 0.00 4.16
704 744 0.673333 TGACCGTCCATGCATGACAC 60.673 55.000 28.31 20.77 0.00 3.67
705 745 0.036022 TTGACCGTCCATGCATGACA 59.964 50.000 28.31 11.17 0.00 3.58
706 746 0.447801 GTTGACCGTCCATGCATGAC 59.552 55.000 28.31 20.56 0.00 3.06
707 747 1.018752 CGTTGACCGTCCATGCATGA 61.019 55.000 28.31 11.26 0.00 3.07
708 748 1.018752 TCGTTGACCGTCCATGCATG 61.019 55.000 20.19 20.19 37.94 4.06
709 749 0.740868 CTCGTTGACCGTCCATGCAT 60.741 55.000 0.00 0.00 37.94 3.96
710 750 1.374125 CTCGTTGACCGTCCATGCA 60.374 57.895 0.00 0.00 37.94 3.96
711 751 1.080093 TCTCGTTGACCGTCCATGC 60.080 57.895 0.00 0.00 37.94 4.06
712 752 2.738147 GTCTCGTTGACCGTCCATG 58.262 57.895 0.00 0.00 39.69 3.66
720 760 0.586802 GGTGCTTTGGTCTCGTTGAC 59.413 55.000 3.42 3.42 44.63 3.18
721 761 0.179234 TGGTGCTTTGGTCTCGTTGA 59.821 50.000 0.00 0.00 0.00 3.18
722 762 1.197721 GATGGTGCTTTGGTCTCGTTG 59.802 52.381 0.00 0.00 0.00 4.10
723 763 1.072331 AGATGGTGCTTTGGTCTCGTT 59.928 47.619 0.00 0.00 0.00 3.85
724 764 0.687354 AGATGGTGCTTTGGTCTCGT 59.313 50.000 0.00 0.00 0.00 4.18
725 765 1.338105 TGAGATGGTGCTTTGGTCTCG 60.338 52.381 0.00 0.00 38.46 4.04
726 766 2.479566 TGAGATGGTGCTTTGGTCTC 57.520 50.000 0.00 0.00 36.67 3.36
727 767 2.957402 TTGAGATGGTGCTTTGGTCT 57.043 45.000 0.00 0.00 0.00 3.85
728 768 4.320608 TTTTTGAGATGGTGCTTTGGTC 57.679 40.909 0.00 0.00 0.00 4.02
755 795 2.479560 GCTGTGCTTTGGTCTCGTTTTT 60.480 45.455 0.00 0.00 0.00 1.94
756 796 1.065551 GCTGTGCTTTGGTCTCGTTTT 59.934 47.619 0.00 0.00 0.00 2.43
757 797 0.663153 GCTGTGCTTTGGTCTCGTTT 59.337 50.000 0.00 0.00 0.00 3.60
773 813 0.039256 CCCGTCACCAACAAATGCTG 60.039 55.000 0.00 0.00 0.00 4.41
774 814 1.805428 GCCCGTCACCAACAAATGCT 61.805 55.000 0.00 0.00 0.00 3.79
775 815 1.372872 GCCCGTCACCAACAAATGC 60.373 57.895 0.00 0.00 0.00 3.56
776 816 1.288752 GGCCCGTCACCAACAAATG 59.711 57.895 0.00 0.00 0.00 2.32
777 817 1.906333 GGGCCCGTCACCAACAAAT 60.906 57.895 5.69 0.00 0.00 2.32
778 818 2.519780 GGGCCCGTCACCAACAAA 60.520 61.111 5.69 0.00 0.00 2.83
779 819 2.969300 GAAGGGCCCGTCACCAACAA 62.969 60.000 30.40 0.00 0.00 2.83
780 820 3.485346 GAAGGGCCCGTCACCAACA 62.485 63.158 30.40 0.00 0.00 3.33
781 821 2.671963 GAAGGGCCCGTCACCAAC 60.672 66.667 30.40 4.37 0.00 3.77
794 834 2.158355 TCCGGTAGGAGGATTAGGAAGG 60.158 54.545 0.00 0.00 42.75 3.46
833 873 1.254954 AAGTAGTGAGGTGTCCGTCC 58.745 55.000 0.00 0.00 0.00 4.79
834 874 3.315418 GAAAAGTAGTGAGGTGTCCGTC 58.685 50.000 0.00 0.00 0.00 4.79
835 875 2.036862 GGAAAAGTAGTGAGGTGTCCGT 59.963 50.000 0.00 0.00 0.00 4.69
836 876 2.299297 AGGAAAAGTAGTGAGGTGTCCG 59.701 50.000 0.00 0.00 0.00 4.79
837 877 3.323979 TCAGGAAAAGTAGTGAGGTGTCC 59.676 47.826 0.00 0.00 0.00 4.02
857 897 7.818642 TCTGTTTTCTAAACCGTTTCTTTTCA 58.181 30.769 0.00 0.00 0.00 2.69
868 910 8.379457 ACTAACTGTCATCTGTTTTCTAAACC 57.621 34.615 0.00 0.00 37.09 3.27
877 919 5.464030 ACCGTAACTAACTGTCATCTGTT 57.536 39.130 0.00 0.00 38.76 3.16
887 929 4.397417 CCAGTGTAGCTACCGTAACTAACT 59.603 45.833 21.01 11.77 0.00 2.24
896 1328 0.458543 CTGCACCAGTGTAGCTACCG 60.459 60.000 21.01 9.44 36.56 4.02
932 1364 2.666190 CGTGTCAGGCTGGTGGTG 60.666 66.667 15.73 0.00 0.00 4.17
942 1374 1.735920 GACTGCAGAGGCGTGTCAG 60.736 63.158 23.35 10.45 45.35 3.51
956 1388 6.021390 GTGCGATTATATATACGTGCAGACTG 60.021 42.308 0.00 0.00 0.00 3.51
957 1389 6.028368 GTGCGATTATATATACGTGCAGACT 58.972 40.000 0.00 0.00 0.00 3.24
958 1390 5.053221 CGTGCGATTATATATACGTGCAGAC 60.053 44.000 0.00 2.85 0.00 3.51
959 1391 5.025826 CGTGCGATTATATATACGTGCAGA 58.974 41.667 0.00 0.00 0.00 4.26
960 1392 4.316446 GCGTGCGATTATATATACGTGCAG 60.316 45.833 0.00 7.64 34.37 4.41
961 1393 3.544682 GCGTGCGATTATATATACGTGCA 59.455 43.478 0.00 7.52 34.37 4.57
962 1394 3.359439 CGCGTGCGATTATATATACGTGC 60.359 47.826 8.89 4.01 42.83 5.34
1004 1439 2.512286 ATCGATGTGGCTGTGGCG 60.512 61.111 0.00 0.00 39.81 5.69
1005 1440 2.182842 GGATCGATGTGGCTGTGGC 61.183 63.158 0.54 0.00 37.82 5.01
1014 1449 0.817654 TCAAGAGCGTGGATCGATGT 59.182 50.000 0.54 0.00 42.86 3.06
1052 1487 1.135660 TCAATCTCAGTCACGACTCGC 60.136 52.381 0.00 0.00 40.20 5.03
1053 1488 2.902065 TCAATCTCAGTCACGACTCG 57.098 50.000 0.00 0.00 40.20 4.18
1054 1489 3.064134 TCGATCAATCTCAGTCACGACTC 59.936 47.826 0.00 0.00 40.20 3.36
1055 1490 3.010420 TCGATCAATCTCAGTCACGACT 58.990 45.455 0.00 0.00 43.61 4.18
1056 1491 3.406728 TCGATCAATCTCAGTCACGAC 57.593 47.619 0.00 0.00 0.00 4.34
1057 1492 3.243201 CCATCGATCAATCTCAGTCACGA 60.243 47.826 0.00 0.00 0.00 4.35
1059 1494 2.799412 GCCATCGATCAATCTCAGTCAC 59.201 50.000 0.00 0.00 0.00 3.67
1060 1495 2.224137 GGCCATCGATCAATCTCAGTCA 60.224 50.000 0.00 0.00 0.00 3.41
1062 1497 1.764723 TGGCCATCGATCAATCTCAGT 59.235 47.619 0.00 0.00 0.00 3.41
1063 1498 2.141517 GTGGCCATCGATCAATCTCAG 58.858 52.381 9.72 0.00 0.00 3.35
1065 1500 1.202687 TGGTGGCCATCGATCAATCTC 60.203 52.381 9.72 0.00 0.00 2.75
1066 1501 0.839277 TGGTGGCCATCGATCAATCT 59.161 50.000 9.72 0.00 0.00 2.40
1067 1502 1.605710 CTTGGTGGCCATCGATCAATC 59.394 52.381 9.72 0.00 31.53 2.67
1070 1505 1.451927 GCTTGGTGGCCATCGATCA 60.452 57.895 9.72 0.00 31.53 2.92
1072 1507 1.452651 CAGCTTGGTGGCCATCGAT 60.453 57.895 9.72 0.00 31.53 3.59
1073 1508 2.046023 CAGCTTGGTGGCCATCGA 60.046 61.111 9.72 7.44 31.53 3.59
1074 1509 3.818787 GCAGCTTGGTGGCCATCG 61.819 66.667 9.72 0.00 31.53 3.84
1075 1510 2.362120 AGCAGCTTGGTGGCCATC 60.362 61.111 9.72 9.78 31.53 3.51
1076 1511 2.362120 GAGCAGCTTGGTGGCCAT 60.362 61.111 9.72 0.00 31.53 4.40
1349 1784 4.814294 GGCGAGCGTCCGGTTGAT 62.814 66.667 10.13 0.00 0.00 2.57
1384 1819 1.750399 GACGGCCATGGAGTTGCAT 60.750 57.895 18.40 0.00 0.00 3.96
1411 1846 3.009723 CAGGATGAACGTACCTTTGCAT 58.990 45.455 0.00 0.00 39.69 3.96
1425 1860 2.044280 TCCCATGGGGCAGGATGA 59.956 61.111 30.93 5.59 43.94 2.92
1439 1886 3.119245 TCACACGAAACTATAGCAGTCCC 60.119 47.826 0.00 0.00 36.04 4.46
1440 1887 4.106029 TCACACGAAACTATAGCAGTCC 57.894 45.455 0.00 0.00 36.04 3.85
1446 1893 6.137794 ACCTCATCTCACACGAAACTATAG 57.862 41.667 0.00 0.00 0.00 1.31
1463 1910 2.417379 CGATCGTCAGTGGAAACCTCAT 60.417 50.000 7.03 0.00 0.00 2.90
1475 1922 1.874019 CGCCAACTCCGATCGTCAG 60.874 63.158 15.09 11.77 0.00 3.51
1599 2055 5.120830 CGACATAAGAAGAGAAAGTTGGTGG 59.879 44.000 0.00 0.00 0.00 4.61
1633 2095 4.978083 ATTTGACAGAATCATCAGTGGC 57.022 40.909 0.00 0.00 37.11 5.01
1634 2096 5.575606 GCAAATTTGACAGAATCATCAGTGG 59.424 40.000 22.31 0.00 37.11 4.00
1651 2127 2.582493 CCACCGGGGCTGCAAATTT 61.582 57.895 6.32 0.00 0.00 1.82
1705 2184 3.357079 CTGGCTCGTTGGTGGCAC 61.357 66.667 9.70 9.70 37.31 5.01
1706 2185 3.535629 CTCTGGCTCGTTGGTGGCA 62.536 63.158 0.00 0.00 39.51 4.92
1713 2192 3.710722 CCCTGGCTCTGGCTCGTT 61.711 66.667 0.00 0.00 38.73 3.85
1790 2272 1.670087 CGAGGATCACTGCGAACAACT 60.670 52.381 0.00 0.00 33.17 3.16
1883 2365 5.809562 CCAAACAAGCACAGAAAACACATAA 59.190 36.000 0.00 0.00 0.00 1.90
1894 2376 3.997021 CTCCTACTACCAAACAAGCACAG 59.003 47.826 0.00 0.00 0.00 3.66
1939 2424 9.691362 AATTCACAACCAAAAGAATGTGTATAC 57.309 29.630 0.00 0.00 42.80 1.47
1940 2425 9.689976 CAATTCACAACCAAAAGAATGTGTATA 57.310 29.630 4.86 0.00 42.80 1.47
1941 2426 8.420222 TCAATTCACAACCAAAAGAATGTGTAT 58.580 29.630 4.86 0.00 42.80 2.29
1942 2427 7.776107 TCAATTCACAACCAAAAGAATGTGTA 58.224 30.769 4.86 0.00 42.80 2.90
1986 2471 3.384168 AGGCACCCACAGTATAATCAGA 58.616 45.455 0.00 0.00 0.00 3.27
1987 2472 3.845781 AGGCACCCACAGTATAATCAG 57.154 47.619 0.00 0.00 0.00 2.90
1997 2482 0.985760 ACCGTATTTAGGCACCCACA 59.014 50.000 0.00 0.00 0.00 4.17
2014 2499 5.427036 TGTTTTGTTCCGACATTTCTACC 57.573 39.130 0.00 0.00 35.29 3.18
2018 2506 7.284518 TCTTTTTGTTTTGTTCCGACATTTC 57.715 32.000 0.00 0.00 35.29 2.17
2057 2545 5.188751 AGACCAATCTTTTGTTTTGTTCCCA 59.811 36.000 0.00 0.00 0.00 4.37
2058 2546 5.670485 AGACCAATCTTTTGTTTTGTTCCC 58.330 37.500 0.00 0.00 0.00 3.97
2059 2547 8.710835 TTTAGACCAATCTTTTGTTTTGTTCC 57.289 30.769 0.00 0.00 36.29 3.62
2104 2616 2.438951 TAAACGACGCGCTTTCCCCT 62.439 55.000 5.73 0.00 0.00 4.79
2161 2673 0.969149 AGCATCGTCTTGGTCACAGA 59.031 50.000 0.00 0.00 0.00 3.41
2221 2738 1.061546 TTGACGGCTAGGGTTTCCTT 58.938 50.000 0.00 0.00 41.56 3.36
2228 2745 3.669354 GTCAGATTGACGGCTAGGG 57.331 57.895 0.00 0.00 37.67 3.53
2320 2837 4.808077 CACATATGCTGGAGTGTTGATC 57.192 45.455 1.58 0.00 0.00 2.92
2387 2904 7.541091 TGTTACTGTTATCTGACGAACTTCATC 59.459 37.037 0.00 0.00 0.00 2.92
2389 2906 6.741109 TGTTACTGTTATCTGACGAACTTCA 58.259 36.000 0.00 0.00 0.00 3.02
2405 2922 5.373222 TGCTTACATCTGGTTTGTTACTGT 58.627 37.500 0.00 0.00 0.00 3.55
2412 2929 4.780815 TCCCTATGCTTACATCTGGTTTG 58.219 43.478 0.00 0.00 37.74 2.93
2489 3006 6.321717 GTCAGAATGTTTTCACTGTTTGTGA 58.678 36.000 0.00 0.00 45.40 3.58
2490 3007 5.227805 CGTCAGAATGTTTTCACTGTTTGTG 59.772 40.000 0.00 0.00 42.21 3.33
2491 3008 5.331902 CGTCAGAATGTTTTCACTGTTTGT 58.668 37.500 0.00 0.00 37.40 2.83
2492 3009 4.204978 GCGTCAGAATGTTTTCACTGTTTG 59.795 41.667 0.00 0.00 37.40 2.93
2493 3010 4.351192 GCGTCAGAATGTTTTCACTGTTT 58.649 39.130 0.00 0.00 37.40 2.83
2494 3011 3.243068 GGCGTCAGAATGTTTTCACTGTT 60.243 43.478 0.00 0.00 37.40 3.16
2495 3012 2.290641 GGCGTCAGAATGTTTTCACTGT 59.709 45.455 0.00 0.00 37.40 3.55
2601 3118 2.479837 CACTTGTTTGTCTGGAGCGTA 58.520 47.619 0.00 0.00 0.00 4.42
2681 3198 1.077858 CTTCCCTGCTTGCTCCCTC 60.078 63.158 0.00 0.00 0.00 4.30
2691 3208 0.659957 GAATGATCGCACTTCCCTGC 59.340 55.000 0.00 0.00 0.00 4.85
2697 3214 4.153117 GTCTTGAACAGAATGATCGCACTT 59.847 41.667 0.00 0.00 41.28 3.16
2717 3234 1.744368 CAGCAATGGAGCAGCGTCT 60.744 57.895 0.00 0.00 36.85 4.18
2795 3312 3.094062 TATGGGTCGCCTCTGCTGC 62.094 63.158 0.00 0.00 34.43 5.25


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

AutoCloner maintained by Alex Coulton.