Multiple sequence alignment - TraesCS3B01G293500

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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 TraesCS3B01G293500 chr3B 100.000 2765 0 0 1 2765 472604369 472601605 0.000000e+00 5107
1 TraesCS3B01G293500 chr3A 93.437 1676 67 11 770 2420 483158692 483157035 0.000000e+00 2446
2 TraesCS3B01G293500 chr3A 87.619 315 27 5 2452 2765 483157032 483156729 3.390000e-94 355
3 TraesCS3B01G293500 chr3A 93.865 163 8 2 131 291 483159144 483158982 7.650000e-61 244
4 TraesCS3B01G293500 chr3A 88.038 209 13 6 312 517 483158990 483158791 1.280000e-58 237
5 TraesCS3B01G293500 chr3A 94.872 78 4 0 512 589 483158761 483158684 3.740000e-24 122
6 TraesCS3B01G293500 chr3D 94.359 1436 38 21 770 2166 362860162 362858731 0.000000e+00 2163
7 TraesCS3B01G293500 chr3D 91.531 614 26 4 2152 2765 362858717 362858130 0.000000e+00 822
8 TraesCS3B01G293500 chr3D 96.728 489 8 1 109 589 362860642 362860154 0.000000e+00 808
9 TraesCS3B01G293500 chr3D 98.901 182 1 1 589 769 496768877 496769058 9.550000e-85 324
10 TraesCS3B01G293500 chr3D 96.000 125 5 0 1 125 362860788 362860664 1.300000e-48 204
11 TraesCS3B01G293500 chr2B 100.000 180 0 0 590 769 615367451 615367272 1.590000e-87 333
12 TraesCS3B01G293500 chr2B 98.889 180 2 0 590 769 226731328 226731507 3.440000e-84 322
13 TraesCS3B01G293500 chr7B 98.901 182 1 1 589 769 130341550 130341731 9.550000e-85 324
14 TraesCS3B01G293500 chr7B 98.895 181 1 1 590 769 19365064 19364884 3.440000e-84 322
15 TraesCS3B01G293500 chr7B 86.170 94 12 1 2629 2721 129537716 129537809 1.750000e-17 100
16 TraesCS3B01G293500 chr5A 98.895 181 2 0 589 769 521931048 521931228 9.550000e-85 324
17 TraesCS3B01G293500 chr4B 98.889 180 2 0 590 769 407990565 407990386 3.440000e-84 322
18 TraesCS3B01G293500 chr4A 98.361 183 3 0 590 772 714757626 714757808 3.440000e-84 322
19 TraesCS3B01G293500 chr4A 98.343 181 3 0 590 770 685321053 685320873 4.440000e-83 318
20 TraesCS3B01G293500 chr7D 92.268 194 14 1 1323 1516 576744983 576745175 9.760000e-70 274
21 TraesCS3B01G293500 chr6D 87.850 107 11 2 2625 2729 77744008 77744114 1.040000e-24 124
22 TraesCS3B01G293500 chr1A 88.298 94 9 2 2629 2721 562054261 562054169 8.090000e-21 111
23 TraesCS3B01G293500 chr2A 86.170 94 11 2 2629 2721 715939567 715939475 1.750000e-17 100
24 TraesCS3B01G293500 chr1D 85.417 96 13 1 2624 2718 132857665 132857760 6.300000e-17 99
25 TraesCS3B01G293500 chr1B 84.848 99 14 1 2624 2721 204410198 204410296 6.300000e-17 99
26 TraesCS3B01G293500 chr1B 85.417 96 12 2 2628 2721 376620903 376620808 6.300000e-17 99


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 TraesCS3B01G293500 chr3B 472601605 472604369 2764 True 5107.00 5107 100.0000 1 2765 1 chr3B.!!$R1 2764
1 TraesCS3B01G293500 chr3A 483156729 483159144 2415 True 680.80 2446 91.5662 131 2765 5 chr3A.!!$R1 2634
2 TraesCS3B01G293500 chr3D 362858130 362860788 2658 True 999.25 2163 94.6545 1 2765 4 chr3D.!!$R1 2764

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
663 749 0.180406 TCGCTCTTCTAATTGGCCCC 59.82 55.0 0.0 0.0 0.0 5.8 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1807 1916 0.024491 CGACACACAACACGACACAC 59.976 55.0 0.0 0.0 0.0 3.82 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
69 70 9.630098 AATAAGACAGAGTGCATGTTATTTTTG 57.370 29.630 0.00 0.00 0.00 2.44
285 326 4.690122 CGAGTCGGTTGTAATAAGGGATT 58.310 43.478 4.10 0.00 0.00 3.01
364 413 0.963962 CAACAGAAAGGCAGGCACAT 59.036 50.000 0.00 0.00 0.00 3.21
587 673 6.612049 AGAGGGAGATCGGAGTAATTAAAAGT 59.388 38.462 0.00 0.00 0.00 2.66
588 674 6.583562 AGGGAGATCGGAGTAATTAAAAGTG 58.416 40.000 0.00 0.00 0.00 3.16
589 675 5.236695 GGGAGATCGGAGTAATTAAAAGTGC 59.763 44.000 0.00 0.00 0.00 4.40
590 676 5.815740 GGAGATCGGAGTAATTAAAAGTGCA 59.184 40.000 0.00 0.00 0.00 4.57
591 677 6.315393 GGAGATCGGAGTAATTAAAAGTGCAA 59.685 38.462 0.00 0.00 0.00 4.08
592 678 7.148306 GGAGATCGGAGTAATTAAAAGTGCAAA 60.148 37.037 0.00 0.00 0.00 3.68
593 679 8.106247 AGATCGGAGTAATTAAAAGTGCAAAA 57.894 30.769 0.00 0.00 0.00 2.44
594 680 8.573035 AGATCGGAGTAATTAAAAGTGCAAAAA 58.427 29.630 0.00 0.00 0.00 1.94
595 681 9.353999 GATCGGAGTAATTAAAAGTGCAAAAAT 57.646 29.630 0.00 0.00 0.00 1.82
596 682 8.514136 TCGGAGTAATTAAAAGTGCAAAAATG 57.486 30.769 0.00 0.00 0.00 2.32
597 683 7.115663 TCGGAGTAATTAAAAGTGCAAAAATGC 59.884 33.333 0.00 0.00 0.00 3.56
598 684 7.116233 CGGAGTAATTAAAAGTGCAAAAATGCT 59.884 33.333 2.22 0.00 35.49 3.79
599 685 9.418045 GGAGTAATTAAAAGTGCAAAAATGCTA 57.582 29.630 2.22 0.00 35.49 3.49
601 687 9.757227 AGTAATTAAAAGTGCAAAAATGCTACA 57.243 25.926 2.22 0.00 35.49 2.74
602 688 9.791838 GTAATTAAAAGTGCAAAAATGCTACAC 57.208 29.630 2.22 0.00 35.49 2.90
603 689 6.503616 TTAAAAGTGCAAAAATGCTACACG 57.496 33.333 2.22 0.00 36.38 4.49
604 690 3.708563 AAGTGCAAAAATGCTACACGT 57.291 38.095 2.22 0.00 36.38 4.49
605 691 4.822036 AAGTGCAAAAATGCTACACGTA 57.178 36.364 2.22 0.00 36.38 3.57
606 692 4.141855 AGTGCAAAAATGCTACACGTAC 57.858 40.909 2.22 0.00 36.38 3.67
607 693 3.562141 AGTGCAAAAATGCTACACGTACA 59.438 39.130 2.22 0.00 36.38 2.90
608 694 3.906008 GTGCAAAAATGCTACACGTACAG 59.094 43.478 2.22 0.00 35.49 2.74
609 695 3.058570 TGCAAAAATGCTACACGTACAGG 60.059 43.478 2.22 0.00 35.49 4.00
610 696 3.488489 CAAAAATGCTACACGTACAGGC 58.512 45.455 0.00 0.00 0.00 4.85
611 697 2.762535 AAATGCTACACGTACAGGCT 57.237 45.000 0.00 0.00 0.00 4.58
612 698 2.295253 AATGCTACACGTACAGGCTC 57.705 50.000 0.00 0.00 0.00 4.70
613 699 1.182667 ATGCTACACGTACAGGCTCA 58.817 50.000 0.00 0.00 0.00 4.26
614 700 1.182667 TGCTACACGTACAGGCTCAT 58.817 50.000 0.00 0.00 0.00 2.90
615 701 1.548719 TGCTACACGTACAGGCTCATT 59.451 47.619 0.00 0.00 0.00 2.57
616 702 2.194271 GCTACACGTACAGGCTCATTC 58.806 52.381 0.00 0.00 0.00 2.67
617 703 2.159226 GCTACACGTACAGGCTCATTCT 60.159 50.000 0.00 0.00 0.00 2.40
618 704 3.066342 GCTACACGTACAGGCTCATTCTA 59.934 47.826 0.00 0.00 0.00 2.10
619 705 3.505464 ACACGTACAGGCTCATTCTAC 57.495 47.619 0.00 0.00 0.00 2.59
620 706 2.823747 ACACGTACAGGCTCATTCTACA 59.176 45.455 0.00 0.00 0.00 2.74
621 707 3.119459 ACACGTACAGGCTCATTCTACAG 60.119 47.826 0.00 0.00 0.00 2.74
622 708 2.427453 ACGTACAGGCTCATTCTACAGG 59.573 50.000 0.00 0.00 0.00 4.00
623 709 2.427453 CGTACAGGCTCATTCTACAGGT 59.573 50.000 0.00 0.00 0.00 4.00
624 710 3.119101 CGTACAGGCTCATTCTACAGGTT 60.119 47.826 0.00 0.00 0.00 3.50
625 711 4.620803 CGTACAGGCTCATTCTACAGGTTT 60.621 45.833 0.00 0.00 0.00 3.27
626 712 4.373156 ACAGGCTCATTCTACAGGTTTT 57.627 40.909 0.00 0.00 0.00 2.43
627 713 4.729868 ACAGGCTCATTCTACAGGTTTTT 58.270 39.130 0.00 0.00 0.00 1.94
628 714 5.876357 ACAGGCTCATTCTACAGGTTTTTA 58.124 37.500 0.00 0.00 0.00 1.52
629 715 5.705905 ACAGGCTCATTCTACAGGTTTTTAC 59.294 40.000 0.00 0.00 0.00 2.01
630 716 5.705441 CAGGCTCATTCTACAGGTTTTTACA 59.295 40.000 0.00 0.00 0.00 2.41
631 717 5.940470 AGGCTCATTCTACAGGTTTTTACAG 59.060 40.000 0.00 0.00 0.00 2.74
632 718 5.123979 GGCTCATTCTACAGGTTTTTACAGG 59.876 44.000 0.00 0.00 0.00 4.00
633 719 5.705905 GCTCATTCTACAGGTTTTTACAGGT 59.294 40.000 0.00 0.00 0.00 4.00
634 720 6.206829 GCTCATTCTACAGGTTTTTACAGGTT 59.793 38.462 0.00 0.00 0.00 3.50
635 721 7.389607 GCTCATTCTACAGGTTTTTACAGGTTA 59.610 37.037 0.00 0.00 0.00 2.85
636 722 9.280174 CTCATTCTACAGGTTTTTACAGGTTAA 57.720 33.333 0.00 0.00 0.00 2.01
637 723 9.629878 TCATTCTACAGGTTTTTACAGGTTAAA 57.370 29.630 0.00 0.00 0.00 1.52
638 724 9.893305 CATTCTACAGGTTTTTACAGGTTAAAG 57.107 33.333 0.00 0.00 0.00 1.85
639 725 9.856162 ATTCTACAGGTTTTTACAGGTTAAAGA 57.144 29.630 0.00 0.00 0.00 2.52
640 726 8.667076 TCTACAGGTTTTTACAGGTTAAAGAC 57.333 34.615 0.00 0.00 0.00 3.01
655 741 6.963049 GTTAAAGACCATTCGCTCTTCTAA 57.037 37.500 0.00 0.00 0.00 2.10
656 742 7.541122 GTTAAAGACCATTCGCTCTTCTAAT 57.459 36.000 0.00 0.00 0.00 1.73
657 743 7.975750 GTTAAAGACCATTCGCTCTTCTAATT 58.024 34.615 0.00 0.00 0.00 1.40
658 744 6.428385 AAAGACCATTCGCTCTTCTAATTG 57.572 37.500 0.00 0.00 0.00 2.32
659 745 4.446371 AGACCATTCGCTCTTCTAATTGG 58.554 43.478 0.00 0.00 0.00 3.16
660 746 2.945668 ACCATTCGCTCTTCTAATTGGC 59.054 45.455 0.00 0.00 0.00 4.52
661 747 2.291741 CCATTCGCTCTTCTAATTGGCC 59.708 50.000 0.00 0.00 0.00 5.36
662 748 2.038387 TTCGCTCTTCTAATTGGCCC 57.962 50.000 0.00 0.00 0.00 5.80
663 749 0.180406 TCGCTCTTCTAATTGGCCCC 59.820 55.000 0.00 0.00 0.00 5.80
664 750 0.819666 CGCTCTTCTAATTGGCCCCC 60.820 60.000 0.00 0.00 0.00 5.40
681 767 1.549203 CCCCCTGATTTTCACTGGTG 58.451 55.000 0.00 0.00 0.00 4.17
682 768 1.549203 CCCCTGATTTTCACTGGTGG 58.451 55.000 0.70 0.00 0.00 4.61
683 769 1.549203 CCCTGATTTTCACTGGTGGG 58.451 55.000 0.70 0.00 0.00 4.61
684 770 0.890683 CCTGATTTTCACTGGTGGGC 59.109 55.000 0.70 0.00 0.00 5.36
685 771 0.890683 CTGATTTTCACTGGTGGGCC 59.109 55.000 0.00 0.00 0.00 5.80
686 772 0.541764 TGATTTTCACTGGTGGGCCC 60.542 55.000 17.59 17.59 0.00 5.80
687 773 1.595093 GATTTTCACTGGTGGGCCCG 61.595 60.000 19.37 4.81 35.15 6.13
688 774 2.366153 ATTTTCACTGGTGGGCCCGT 62.366 55.000 19.37 5.61 35.15 5.28
695 781 4.740822 GGTGGGCCCGTGCATCTT 62.741 66.667 19.37 0.00 40.13 2.40
696 782 2.270850 GTGGGCCCGTGCATCTTA 59.729 61.111 19.37 0.00 40.13 2.10
697 783 1.377987 GTGGGCCCGTGCATCTTAA 60.378 57.895 19.37 0.00 40.13 1.85
698 784 0.751643 GTGGGCCCGTGCATCTTAAT 60.752 55.000 19.37 0.00 40.13 1.40
699 785 0.465460 TGGGCCCGTGCATCTTAATC 60.465 55.000 19.37 0.00 40.13 1.75
700 786 0.465460 GGGCCCGTGCATCTTAATCA 60.465 55.000 5.69 0.00 40.13 2.57
701 787 1.388547 GGCCCGTGCATCTTAATCAA 58.611 50.000 0.00 0.00 40.13 2.57
702 788 1.956477 GGCCCGTGCATCTTAATCAAT 59.044 47.619 0.00 0.00 40.13 2.57
703 789 2.030805 GGCCCGTGCATCTTAATCAATC 60.031 50.000 0.00 0.00 40.13 2.67
704 790 2.030805 GCCCGTGCATCTTAATCAATCC 60.031 50.000 0.00 0.00 37.47 3.01
705 791 3.480470 CCCGTGCATCTTAATCAATCCT 58.520 45.455 0.00 0.00 0.00 3.24
706 792 3.499918 CCCGTGCATCTTAATCAATCCTC 59.500 47.826 0.00 0.00 0.00 3.71
707 793 3.185188 CCGTGCATCTTAATCAATCCTCG 59.815 47.826 0.00 0.00 0.00 4.63
708 794 3.185188 CGTGCATCTTAATCAATCCTCGG 59.815 47.826 0.00 0.00 0.00 4.63
709 795 3.058639 GTGCATCTTAATCAATCCTCGGC 60.059 47.826 0.00 0.00 0.00 5.54
710 796 2.485814 GCATCTTAATCAATCCTCGGCC 59.514 50.000 0.00 0.00 0.00 6.13
711 797 3.743521 CATCTTAATCAATCCTCGGCCA 58.256 45.455 2.24 0.00 0.00 5.36
712 798 3.924114 TCTTAATCAATCCTCGGCCAA 57.076 42.857 2.24 0.00 0.00 4.52
713 799 4.437682 TCTTAATCAATCCTCGGCCAAT 57.562 40.909 2.24 0.00 0.00 3.16
714 800 4.389374 TCTTAATCAATCCTCGGCCAATC 58.611 43.478 2.24 0.00 0.00 2.67
715 801 2.734755 AATCAATCCTCGGCCAATCA 57.265 45.000 2.24 0.00 0.00 2.57
716 802 1.972872 ATCAATCCTCGGCCAATCAC 58.027 50.000 2.24 0.00 0.00 3.06
717 803 0.911769 TCAATCCTCGGCCAATCACT 59.088 50.000 2.24 0.00 0.00 3.41
718 804 2.115427 TCAATCCTCGGCCAATCACTA 58.885 47.619 2.24 0.00 0.00 2.74
719 805 2.705658 TCAATCCTCGGCCAATCACTAT 59.294 45.455 2.24 0.00 0.00 2.12
720 806 3.136443 TCAATCCTCGGCCAATCACTATT 59.864 43.478 2.24 0.00 0.00 1.73
721 807 4.346709 TCAATCCTCGGCCAATCACTATTA 59.653 41.667 2.24 0.00 0.00 0.98
722 808 4.974645 ATCCTCGGCCAATCACTATTAA 57.025 40.909 2.24 0.00 0.00 1.40
723 809 4.336889 TCCTCGGCCAATCACTATTAAG 57.663 45.455 2.24 0.00 0.00 1.85
724 810 2.808543 CCTCGGCCAATCACTATTAAGC 59.191 50.000 2.24 0.00 0.00 3.09
725 811 3.466836 CTCGGCCAATCACTATTAAGCA 58.533 45.455 2.24 0.00 0.00 3.91
726 812 3.876914 CTCGGCCAATCACTATTAAGCAA 59.123 43.478 2.24 0.00 0.00 3.91
727 813 3.625764 TCGGCCAATCACTATTAAGCAAC 59.374 43.478 2.24 0.00 0.00 4.17
728 814 3.243068 CGGCCAATCACTATTAAGCAACC 60.243 47.826 2.24 0.00 0.00 3.77
729 815 3.954258 GGCCAATCACTATTAAGCAACCT 59.046 43.478 0.00 0.00 0.00 3.50
730 816 4.202050 GGCCAATCACTATTAAGCAACCTG 60.202 45.833 0.00 0.00 0.00 4.00
731 817 4.399303 GCCAATCACTATTAAGCAACCTGT 59.601 41.667 0.00 0.00 0.00 4.00
732 818 5.588648 GCCAATCACTATTAAGCAACCTGTA 59.411 40.000 0.00 0.00 0.00 2.74
733 819 6.094881 GCCAATCACTATTAAGCAACCTGTAA 59.905 38.462 0.00 0.00 0.00 2.41
734 820 7.362574 GCCAATCACTATTAAGCAACCTGTAAA 60.363 37.037 0.00 0.00 0.00 2.01
735 821 7.968405 CCAATCACTATTAAGCAACCTGTAAAC 59.032 37.037 0.00 0.00 0.00 2.01
736 822 7.625828 ATCACTATTAAGCAACCTGTAAACC 57.374 36.000 0.00 0.00 0.00 3.27
737 823 6.775708 TCACTATTAAGCAACCTGTAAACCT 58.224 36.000 0.00 0.00 0.00 3.50
738 824 6.877322 TCACTATTAAGCAACCTGTAAACCTC 59.123 38.462 0.00 0.00 0.00 3.85
739 825 6.093633 CACTATTAAGCAACCTGTAAACCTCC 59.906 42.308 0.00 0.00 0.00 4.30
740 826 4.717279 TTAAGCAACCTGTAAACCTCCT 57.283 40.909 0.00 0.00 0.00 3.69
741 827 2.568623 AGCAACCTGTAAACCTCCTG 57.431 50.000 0.00 0.00 0.00 3.86
742 828 1.774856 AGCAACCTGTAAACCTCCTGT 59.225 47.619 0.00 0.00 0.00 4.00
743 829 2.976882 AGCAACCTGTAAACCTCCTGTA 59.023 45.455 0.00 0.00 0.00 2.74
744 830 3.393278 AGCAACCTGTAAACCTCCTGTAA 59.607 43.478 0.00 0.00 0.00 2.41
745 831 4.139038 GCAACCTGTAAACCTCCTGTAAA 58.861 43.478 0.00 0.00 0.00 2.01
746 832 4.581409 GCAACCTGTAAACCTCCTGTAAAA 59.419 41.667 0.00 0.00 0.00 1.52
747 833 5.506815 GCAACCTGTAAACCTCCTGTAAAAC 60.507 44.000 0.00 0.00 0.00 2.43
748 834 5.641789 ACCTGTAAACCTCCTGTAAAACT 57.358 39.130 0.00 0.00 0.00 2.66
749 835 5.618236 ACCTGTAAACCTCCTGTAAAACTC 58.382 41.667 0.00 0.00 0.00 3.01
750 836 5.001874 CCTGTAAACCTCCTGTAAAACTCC 58.998 45.833 0.00 0.00 0.00 3.85
751 837 4.634199 TGTAAACCTCCTGTAAAACTCCG 58.366 43.478 0.00 0.00 0.00 4.63
752 838 3.851458 AAACCTCCTGTAAAACTCCGT 57.149 42.857 0.00 0.00 0.00 4.69
753 839 4.961438 AAACCTCCTGTAAAACTCCGTA 57.039 40.909 0.00 0.00 0.00 4.02
754 840 3.949842 ACCTCCTGTAAAACTCCGTAC 57.050 47.619 0.00 0.00 0.00 3.67
755 841 2.229784 ACCTCCTGTAAAACTCCGTACG 59.770 50.000 8.69 8.69 0.00 3.67
756 842 2.229784 CCTCCTGTAAAACTCCGTACGT 59.770 50.000 15.21 0.00 0.00 3.57
757 843 3.496155 CTCCTGTAAAACTCCGTACGTC 58.504 50.000 15.21 0.00 0.00 4.34
758 844 3.149196 TCCTGTAAAACTCCGTACGTCT 58.851 45.455 15.21 0.00 0.00 4.18
759 845 4.323417 TCCTGTAAAACTCCGTACGTCTA 58.677 43.478 15.21 0.00 0.00 2.59
760 846 4.393062 TCCTGTAAAACTCCGTACGTCTAG 59.607 45.833 15.21 10.84 0.00 2.43
761 847 4.083581 TGTAAAACTCCGTACGTCTAGC 57.916 45.455 15.21 0.00 0.00 3.42
762 848 3.501828 TGTAAAACTCCGTACGTCTAGCA 59.498 43.478 15.21 0.15 0.00 3.49
763 849 3.648339 AAAACTCCGTACGTCTAGCAA 57.352 42.857 15.21 0.00 0.00 3.91
764 850 3.648339 AAACTCCGTACGTCTAGCAAA 57.352 42.857 15.21 0.00 0.00 3.68
765 851 2.915738 ACTCCGTACGTCTAGCAAAG 57.084 50.000 15.21 0.00 0.00 2.77
766 852 1.135460 ACTCCGTACGTCTAGCAAAGC 60.135 52.381 15.21 0.00 0.00 3.51
767 853 1.132643 CTCCGTACGTCTAGCAAAGCT 59.867 52.381 15.21 0.00 43.41 3.74
768 854 1.131883 TCCGTACGTCTAGCAAAGCTC 59.868 52.381 15.21 0.00 40.44 4.09
769 855 1.132643 CCGTACGTCTAGCAAAGCTCT 59.867 52.381 15.21 0.00 40.44 4.09
770 856 2.415625 CCGTACGTCTAGCAAAGCTCTT 60.416 50.000 15.21 0.00 40.44 2.85
771 857 3.181503 CCGTACGTCTAGCAAAGCTCTTA 60.182 47.826 15.21 0.00 40.44 2.10
772 858 4.409570 CGTACGTCTAGCAAAGCTCTTAA 58.590 43.478 7.22 0.00 40.44 1.85
773 859 4.855388 CGTACGTCTAGCAAAGCTCTTAAA 59.145 41.667 7.22 0.00 40.44 1.52
774 860 5.344128 CGTACGTCTAGCAAAGCTCTTAAAA 59.656 40.000 7.22 0.00 40.44 1.52
775 861 5.847670 ACGTCTAGCAAAGCTCTTAAAAG 57.152 39.130 0.00 0.00 40.44 2.27
1186 1295 4.373116 GCCTCAACGACTCCGCCA 62.373 66.667 0.00 0.00 39.95 5.69
1235 1344 4.170062 GCCATCCGACGACGACGA 62.170 66.667 20.63 7.67 42.66 4.20
1420 1529 3.553095 AAGTTCCAGGAGGTGCGCC 62.553 63.158 8.71 8.71 35.89 6.53
1490 1599 2.045926 GATGAACCCGGTGCTGCT 60.046 61.111 0.00 0.00 0.00 4.24
1871 1980 6.015350 TGACGAGGAAAGAACAACTTCTCTAT 60.015 38.462 0.00 0.00 35.52 1.98
1967 2082 4.811555 TGTTCTTGCACTCAACATGTAC 57.188 40.909 0.00 0.00 0.00 2.90
1970 2085 6.052360 TGTTCTTGCACTCAACATGTACTAA 58.948 36.000 0.00 0.00 0.00 2.24
2130 2273 2.936202 GGCATTCTTGGCTAGGATTGA 58.064 47.619 8.03 0.00 44.68 2.57
2222 2395 0.951040 GCTAGACCAACAAGCGTGCT 60.951 55.000 0.00 0.00 0.00 4.40
2223 2396 1.671850 GCTAGACCAACAAGCGTGCTA 60.672 52.381 0.00 0.00 0.00 3.49
2224 2397 1.993370 CTAGACCAACAAGCGTGCTAC 59.007 52.381 0.00 0.00 0.00 3.58
2225 2398 0.602905 AGACCAACAAGCGTGCTACC 60.603 55.000 0.00 0.00 0.00 3.18
2226 2399 0.882927 GACCAACAAGCGTGCTACCA 60.883 55.000 0.00 0.00 0.00 3.25
2227 2400 0.464735 ACCAACAAGCGTGCTACCAA 60.465 50.000 0.00 0.00 0.00 3.67
2228 2401 0.665835 CCAACAAGCGTGCTACCAAA 59.334 50.000 0.00 0.00 0.00 3.28
2229 2402 1.334960 CCAACAAGCGTGCTACCAAAG 60.335 52.381 0.00 0.00 0.00 2.77
2263 2445 5.499004 TTCCATCCCTAATTAATCTCCCG 57.501 43.478 0.00 0.00 0.00 5.14
2269 2451 3.434453 CCCTAATTAATCTCCCGCAACCA 60.434 47.826 0.00 0.00 0.00 3.67
2429 2611 2.923605 GCATGGATGGCGTCATAAATGC 60.924 50.000 24.91 24.91 41.17 3.56
2532 2714 1.448540 CACCAGGCGGCAAGTCTAG 60.449 63.158 13.08 0.00 34.57 2.43
2533 2715 1.913762 ACCAGGCGGCAAGTCTAGT 60.914 57.895 13.08 0.00 34.57 2.57
2534 2716 0.613853 ACCAGGCGGCAAGTCTAGTA 60.614 55.000 13.08 0.00 34.57 1.82
2535 2717 0.535335 CCAGGCGGCAAGTCTAGTAA 59.465 55.000 13.08 0.00 30.67 2.24
2536 2718 1.471676 CCAGGCGGCAAGTCTAGTAAG 60.472 57.143 13.08 0.00 30.67 2.34
2537 2719 1.476891 CAGGCGGCAAGTCTAGTAAGA 59.523 52.381 13.08 0.00 30.67 2.10
2538 2720 1.751924 AGGCGGCAAGTCTAGTAAGAG 59.248 52.381 13.08 0.00 29.53 2.85
2539 2721 1.477295 GGCGGCAAGTCTAGTAAGAGT 59.523 52.381 3.07 0.00 36.95 3.24
2540 2722 2.479901 GGCGGCAAGTCTAGTAAGAGTC 60.480 54.545 3.07 0.00 34.11 3.36
2541 2723 2.424246 GCGGCAAGTCTAGTAAGAGTCT 59.576 50.000 0.00 0.00 34.11 3.24
2542 2724 3.626670 GCGGCAAGTCTAGTAAGAGTCTA 59.373 47.826 0.00 0.00 34.11 2.59
2642 2824 8.367911 AGTGTTCATAAATACTCACTCTGTTCA 58.632 33.333 0.00 0.00 31.90 3.18
2734 2917 6.677781 AAAATACATCCGTCTGTACAATGG 57.322 37.500 8.85 8.92 34.59 3.16
2762 2945 5.554822 ACGAGAGTAAGACAAGACATCTC 57.445 43.478 0.00 0.00 46.88 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 6.875195 AGATTTTGCTGTGAACCCAATATTTG 59.125 34.615 0.00 0.00 0.00 2.32
20 21 5.076182 TGAGATTTTGCTGTGAACCCAATA 58.924 37.500 0.00 0.00 0.00 1.90
80 81 8.148807 TGGAATATTTACCATAACATCGTGTG 57.851 34.615 0.00 0.00 0.00 3.82
102 103 4.023279 TGCGTAGTAGTTTTCGTTACTGGA 60.023 41.667 0.00 0.00 32.64 3.86
295 336 3.000727 AGGATCCACGTCGTCAATTTTC 58.999 45.455 15.82 0.00 0.00 2.29
306 355 3.081804 GTTGGAAATTGAGGATCCACGT 58.918 45.455 15.82 0.00 42.71 4.49
364 413 1.760875 GGAGGCGTGGAGGTGGATA 60.761 63.158 0.00 0.00 0.00 2.59
587 673 3.058570 CCTGTACGTGTAGCATTTTTGCA 60.059 43.478 0.00 0.00 37.25 4.08
588 674 3.488489 CCTGTACGTGTAGCATTTTTGC 58.512 45.455 0.00 0.00 0.00 3.68
589 675 3.188460 AGCCTGTACGTGTAGCATTTTTG 59.812 43.478 0.00 0.00 0.00 2.44
590 676 3.408634 AGCCTGTACGTGTAGCATTTTT 58.591 40.909 0.00 0.00 0.00 1.94
591 677 3.000727 GAGCCTGTACGTGTAGCATTTT 58.999 45.455 0.00 0.00 0.00 1.82
592 678 2.028476 TGAGCCTGTACGTGTAGCATTT 60.028 45.455 0.00 0.00 0.00 2.32
593 679 1.548719 TGAGCCTGTACGTGTAGCATT 59.451 47.619 0.00 0.00 0.00 3.56
594 680 1.182667 TGAGCCTGTACGTGTAGCAT 58.817 50.000 0.00 0.00 0.00 3.79
595 681 1.182667 ATGAGCCTGTACGTGTAGCA 58.817 50.000 0.00 0.00 0.00 3.49
596 682 2.159226 AGAATGAGCCTGTACGTGTAGC 60.159 50.000 0.00 0.00 0.00 3.58
597 683 3.784701 AGAATGAGCCTGTACGTGTAG 57.215 47.619 0.00 0.00 0.00 2.74
598 684 4.011698 TGTAGAATGAGCCTGTACGTGTA 58.988 43.478 0.00 0.00 0.00 2.90
599 685 2.823747 TGTAGAATGAGCCTGTACGTGT 59.176 45.455 0.00 0.00 0.00 4.49
600 686 3.439293 CTGTAGAATGAGCCTGTACGTG 58.561 50.000 0.00 0.00 0.00 4.49
601 687 2.427453 CCTGTAGAATGAGCCTGTACGT 59.573 50.000 0.00 0.00 0.00 3.57
602 688 2.427453 ACCTGTAGAATGAGCCTGTACG 59.573 50.000 0.00 0.00 0.00 3.67
603 689 4.473477 AACCTGTAGAATGAGCCTGTAC 57.527 45.455 0.00 0.00 0.00 2.90
604 690 5.499004 AAAACCTGTAGAATGAGCCTGTA 57.501 39.130 0.00 0.00 0.00 2.74
605 691 4.373156 AAAACCTGTAGAATGAGCCTGT 57.627 40.909 0.00 0.00 0.00 4.00
606 692 5.705441 TGTAAAAACCTGTAGAATGAGCCTG 59.295 40.000 0.00 0.00 0.00 4.85
607 693 5.876357 TGTAAAAACCTGTAGAATGAGCCT 58.124 37.500 0.00 0.00 0.00 4.58
608 694 5.123979 CCTGTAAAAACCTGTAGAATGAGCC 59.876 44.000 0.00 0.00 0.00 4.70
609 695 5.705905 ACCTGTAAAAACCTGTAGAATGAGC 59.294 40.000 0.00 0.00 0.00 4.26
610 696 7.745620 AACCTGTAAAAACCTGTAGAATGAG 57.254 36.000 0.00 0.00 0.00 2.90
611 697 9.629878 TTTAACCTGTAAAAACCTGTAGAATGA 57.370 29.630 0.00 0.00 0.00 2.57
612 698 9.893305 CTTTAACCTGTAAAAACCTGTAGAATG 57.107 33.333 0.00 0.00 0.00 2.67
613 699 9.856162 TCTTTAACCTGTAAAAACCTGTAGAAT 57.144 29.630 0.00 0.00 0.00 2.40
614 700 9.112725 GTCTTTAACCTGTAAAAACCTGTAGAA 57.887 33.333 0.00 0.00 0.00 2.10
615 701 7.716560 GGTCTTTAACCTGTAAAAACCTGTAGA 59.283 37.037 0.00 0.00 45.45 2.59
616 702 7.868775 GGTCTTTAACCTGTAAAAACCTGTAG 58.131 38.462 0.00 0.00 45.45 2.74
617 703 7.806409 GGTCTTTAACCTGTAAAAACCTGTA 57.194 36.000 0.00 0.00 45.45 2.74
618 704 6.704289 GGTCTTTAACCTGTAAAAACCTGT 57.296 37.500 0.00 0.00 45.45 4.00
638 724 3.002759 GCCAATTAGAAGAGCGAATGGTC 59.997 47.826 0.00 0.00 42.99 4.02
639 725 2.945668 GCCAATTAGAAGAGCGAATGGT 59.054 45.455 0.00 0.00 0.00 3.55
640 726 2.291741 GGCCAATTAGAAGAGCGAATGG 59.708 50.000 0.00 0.00 0.00 3.16
641 727 2.291741 GGGCCAATTAGAAGAGCGAATG 59.708 50.000 4.39 0.00 0.00 2.67
642 728 2.576615 GGGCCAATTAGAAGAGCGAAT 58.423 47.619 4.39 0.00 0.00 3.34
643 729 1.408266 GGGGCCAATTAGAAGAGCGAA 60.408 52.381 4.39 0.00 0.00 4.70
644 730 0.180406 GGGGCCAATTAGAAGAGCGA 59.820 55.000 4.39 0.00 0.00 4.93
645 731 0.819666 GGGGGCCAATTAGAAGAGCG 60.820 60.000 4.39 0.00 0.00 5.03
646 732 3.117657 GGGGGCCAATTAGAAGAGC 57.882 57.895 4.39 0.00 0.00 4.09
662 748 1.549203 CACCAGTGAAAATCAGGGGG 58.451 55.000 0.00 0.00 0.00 5.40
663 749 1.549203 CCACCAGTGAAAATCAGGGG 58.451 55.000 0.00 0.85 0.00 4.79
664 750 1.549203 CCCACCAGTGAAAATCAGGG 58.451 55.000 0.00 0.00 0.00 4.45
665 751 0.890683 GCCCACCAGTGAAAATCAGG 59.109 55.000 0.00 0.00 0.00 3.86
666 752 0.890683 GGCCCACCAGTGAAAATCAG 59.109 55.000 0.00 0.00 35.26 2.90
667 753 0.541764 GGGCCCACCAGTGAAAATCA 60.542 55.000 19.95 0.00 39.85 2.57
668 754 1.595093 CGGGCCCACCAGTGAAAATC 61.595 60.000 24.92 0.00 40.22 2.17
669 755 1.606313 CGGGCCCACCAGTGAAAAT 60.606 57.895 24.92 0.00 40.22 1.82
670 756 2.203422 CGGGCCCACCAGTGAAAA 60.203 61.111 24.92 0.00 40.22 2.29
671 757 3.494254 ACGGGCCCACCAGTGAAA 61.494 61.111 24.92 0.00 43.37 2.69
678 764 2.830186 TTAAGATGCACGGGCCCACC 62.830 60.000 24.92 9.66 40.13 4.61
679 765 0.751643 ATTAAGATGCACGGGCCCAC 60.752 55.000 24.92 11.40 40.13 4.61
680 766 0.465460 GATTAAGATGCACGGGCCCA 60.465 55.000 24.92 1.02 40.13 5.36
681 767 0.465460 TGATTAAGATGCACGGGCCC 60.465 55.000 13.57 13.57 40.13 5.80
682 768 1.388547 TTGATTAAGATGCACGGGCC 58.611 50.000 7.46 0.00 40.13 5.80
683 769 2.030805 GGATTGATTAAGATGCACGGGC 60.031 50.000 0.34 0.34 41.68 6.13
684 770 3.480470 AGGATTGATTAAGATGCACGGG 58.520 45.455 0.00 0.00 0.00 5.28
685 771 3.185188 CGAGGATTGATTAAGATGCACGG 59.815 47.826 0.00 0.00 0.00 4.94
686 772 3.185188 CCGAGGATTGATTAAGATGCACG 59.815 47.826 0.00 0.00 0.00 5.34
687 773 3.058639 GCCGAGGATTGATTAAGATGCAC 60.059 47.826 0.00 0.00 0.00 4.57
688 774 3.141398 GCCGAGGATTGATTAAGATGCA 58.859 45.455 0.00 0.00 0.00 3.96
689 775 2.485814 GGCCGAGGATTGATTAAGATGC 59.514 50.000 0.00 0.00 0.00 3.91
690 776 3.743521 TGGCCGAGGATTGATTAAGATG 58.256 45.455 0.00 0.00 0.00 2.90
691 777 4.437682 TTGGCCGAGGATTGATTAAGAT 57.562 40.909 0.00 0.00 0.00 2.40
692 778 3.924114 TTGGCCGAGGATTGATTAAGA 57.076 42.857 0.00 0.00 0.00 2.10
693 779 4.023707 GTGATTGGCCGAGGATTGATTAAG 60.024 45.833 0.00 0.00 0.00 1.85
694 780 3.882888 GTGATTGGCCGAGGATTGATTAA 59.117 43.478 0.00 0.00 0.00 1.40
695 781 3.136443 AGTGATTGGCCGAGGATTGATTA 59.864 43.478 0.00 0.00 0.00 1.75
696 782 2.092212 AGTGATTGGCCGAGGATTGATT 60.092 45.455 0.00 0.00 0.00 2.57
697 783 1.492176 AGTGATTGGCCGAGGATTGAT 59.508 47.619 0.00 0.00 0.00 2.57
698 784 0.911769 AGTGATTGGCCGAGGATTGA 59.088 50.000 0.00 0.00 0.00 2.57
699 785 2.620251 TAGTGATTGGCCGAGGATTG 57.380 50.000 0.00 0.00 0.00 2.67
700 786 3.864789 AATAGTGATTGGCCGAGGATT 57.135 42.857 0.00 0.00 0.00 3.01
701 787 4.804261 GCTTAATAGTGATTGGCCGAGGAT 60.804 45.833 0.00 0.00 0.00 3.24
702 788 3.494398 GCTTAATAGTGATTGGCCGAGGA 60.494 47.826 0.00 0.00 0.00 3.71
703 789 2.808543 GCTTAATAGTGATTGGCCGAGG 59.191 50.000 0.00 0.00 0.00 4.63
704 790 3.466836 TGCTTAATAGTGATTGGCCGAG 58.533 45.455 0.00 0.00 0.00 4.63
705 791 3.552132 TGCTTAATAGTGATTGGCCGA 57.448 42.857 0.00 0.00 0.00 5.54
706 792 3.243068 GGTTGCTTAATAGTGATTGGCCG 60.243 47.826 0.00 0.00 0.00 6.13
707 793 3.954258 AGGTTGCTTAATAGTGATTGGCC 59.046 43.478 0.00 0.00 0.00 5.36
708 794 4.399303 ACAGGTTGCTTAATAGTGATTGGC 59.601 41.667 0.00 0.00 0.00 4.52
709 795 7.624360 TTACAGGTTGCTTAATAGTGATTGG 57.376 36.000 0.00 0.00 0.00 3.16
710 796 7.968405 GGTTTACAGGTTGCTTAATAGTGATTG 59.032 37.037 0.00 0.00 0.00 2.67
711 797 7.888546 AGGTTTACAGGTTGCTTAATAGTGATT 59.111 33.333 0.00 0.00 0.00 2.57
712 798 7.402862 AGGTTTACAGGTTGCTTAATAGTGAT 58.597 34.615 0.00 0.00 0.00 3.06
713 799 6.775708 AGGTTTACAGGTTGCTTAATAGTGA 58.224 36.000 0.00 0.00 0.00 3.41
714 800 6.093633 GGAGGTTTACAGGTTGCTTAATAGTG 59.906 42.308 0.00 0.00 0.00 2.74
715 801 6.012771 AGGAGGTTTACAGGTTGCTTAATAGT 60.013 38.462 0.00 0.00 0.00 2.12
716 802 6.316390 CAGGAGGTTTACAGGTTGCTTAATAG 59.684 42.308 0.00 0.00 0.00 1.73
717 803 6.177610 CAGGAGGTTTACAGGTTGCTTAATA 58.822 40.000 0.00 0.00 0.00 0.98
718 804 5.010282 CAGGAGGTTTACAGGTTGCTTAAT 58.990 41.667 0.00 0.00 0.00 1.40
719 805 4.141344 ACAGGAGGTTTACAGGTTGCTTAA 60.141 41.667 0.00 0.00 0.00 1.85
720 806 3.393278 ACAGGAGGTTTACAGGTTGCTTA 59.607 43.478 0.00 0.00 0.00 3.09
721 807 2.174854 ACAGGAGGTTTACAGGTTGCTT 59.825 45.455 0.00 0.00 0.00 3.91
722 808 1.774856 ACAGGAGGTTTACAGGTTGCT 59.225 47.619 0.00 0.00 0.00 3.91
723 809 2.271944 ACAGGAGGTTTACAGGTTGC 57.728 50.000 0.00 0.00 0.00 4.17
724 810 5.826208 AGTTTTACAGGAGGTTTACAGGTTG 59.174 40.000 0.00 0.00 0.00 3.77
725 811 6.009908 AGTTTTACAGGAGGTTTACAGGTT 57.990 37.500 0.00 0.00 0.00 3.50
726 812 5.455755 GGAGTTTTACAGGAGGTTTACAGGT 60.456 44.000 0.00 0.00 0.00 4.00
727 813 5.001874 GGAGTTTTACAGGAGGTTTACAGG 58.998 45.833 0.00 0.00 0.00 4.00
728 814 4.689345 CGGAGTTTTACAGGAGGTTTACAG 59.311 45.833 0.00 0.00 0.00 2.74
729 815 4.101430 ACGGAGTTTTACAGGAGGTTTACA 59.899 41.667 0.00 0.00 37.78 2.41
730 816 4.635223 ACGGAGTTTTACAGGAGGTTTAC 58.365 43.478 0.00 0.00 37.78 2.01
731 817 4.961438 ACGGAGTTTTACAGGAGGTTTA 57.039 40.909 0.00 0.00 37.78 2.01
732 818 3.851458 ACGGAGTTTTACAGGAGGTTT 57.149 42.857 0.00 0.00 37.78 3.27
733 819 3.305608 CGTACGGAGTTTTACAGGAGGTT 60.306 47.826 7.57 0.00 37.78 3.50
734 820 2.229784 CGTACGGAGTTTTACAGGAGGT 59.770 50.000 7.57 0.00 37.78 3.85
735 821 2.229784 ACGTACGGAGTTTTACAGGAGG 59.770 50.000 21.06 0.00 37.78 4.30
736 822 3.190118 AGACGTACGGAGTTTTACAGGAG 59.810 47.826 21.06 0.00 37.78 3.69
737 823 3.149196 AGACGTACGGAGTTTTACAGGA 58.851 45.455 21.06 0.00 37.78 3.86
738 824 3.565905 AGACGTACGGAGTTTTACAGG 57.434 47.619 21.06 0.00 37.78 4.00
739 825 4.094212 GCTAGACGTACGGAGTTTTACAG 58.906 47.826 21.06 4.44 37.78 2.74
740 826 3.501828 TGCTAGACGTACGGAGTTTTACA 59.498 43.478 21.06 4.41 37.78 2.41
741 827 4.083581 TGCTAGACGTACGGAGTTTTAC 57.916 45.455 21.06 1.74 37.78 2.01
742 828 4.764679 TTGCTAGACGTACGGAGTTTTA 57.235 40.909 21.06 0.00 37.78 1.52
743 829 3.648339 TTGCTAGACGTACGGAGTTTT 57.352 42.857 21.06 0.00 37.78 2.43
744 830 3.572584 CTTTGCTAGACGTACGGAGTTT 58.427 45.455 21.06 0.00 37.78 2.66
745 831 2.670509 GCTTTGCTAGACGTACGGAGTT 60.671 50.000 21.06 0.00 37.78 3.01
746 832 3.456798 AGCTTTGCTAGACGTACGGAGT 61.457 50.000 21.06 5.86 40.87 3.85
747 833 1.132643 AGCTTTGCTAGACGTACGGAG 59.867 52.381 21.06 14.21 36.99 4.63
748 834 1.131883 GAGCTTTGCTAGACGTACGGA 59.868 52.381 21.06 3.34 39.88 4.69
749 835 1.132643 AGAGCTTTGCTAGACGTACGG 59.867 52.381 21.06 2.24 39.88 4.02
750 836 2.546195 AGAGCTTTGCTAGACGTACG 57.454 50.000 15.01 15.01 39.88 3.67
751 837 6.365518 ACTTTTAAGAGCTTTGCTAGACGTAC 59.634 38.462 0.00 0.00 39.88 3.67
752 838 6.365247 CACTTTTAAGAGCTTTGCTAGACGTA 59.635 38.462 0.00 0.00 39.88 3.57
753 839 5.177696 CACTTTTAAGAGCTTTGCTAGACGT 59.822 40.000 0.00 0.00 39.88 4.34
754 840 5.389935 CCACTTTTAAGAGCTTTGCTAGACG 60.390 44.000 0.00 0.00 39.88 4.18
755 841 5.106515 CCCACTTTTAAGAGCTTTGCTAGAC 60.107 44.000 0.00 0.00 39.88 2.59
756 842 5.003804 CCCACTTTTAAGAGCTTTGCTAGA 58.996 41.667 0.00 0.00 39.88 2.43
757 843 5.003804 TCCCACTTTTAAGAGCTTTGCTAG 58.996 41.667 0.00 0.00 39.88 3.42
758 844 4.980573 TCCCACTTTTAAGAGCTTTGCTA 58.019 39.130 0.00 0.00 39.88 3.49
759 845 3.832527 TCCCACTTTTAAGAGCTTTGCT 58.167 40.909 0.00 0.00 43.88 3.91
760 846 4.790765 ATCCCACTTTTAAGAGCTTTGC 57.209 40.909 0.00 0.00 0.00 3.68
761 847 7.872113 ATCTATCCCACTTTTAAGAGCTTTG 57.128 36.000 0.00 0.00 0.00 2.77
762 848 9.620259 CTTATCTATCCCACTTTTAAGAGCTTT 57.380 33.333 0.00 0.00 0.00 3.51
763 849 7.717436 GCTTATCTATCCCACTTTTAAGAGCTT 59.283 37.037 0.00 0.00 0.00 3.74
764 850 7.220740 GCTTATCTATCCCACTTTTAAGAGCT 58.779 38.462 0.00 0.00 0.00 4.09
765 851 6.428465 GGCTTATCTATCCCACTTTTAAGAGC 59.572 42.308 0.00 0.00 0.00 4.09
766 852 7.509546 TGGCTTATCTATCCCACTTTTAAGAG 58.490 38.462 0.00 0.00 0.00 2.85
767 853 7.347222 TCTGGCTTATCTATCCCACTTTTAAGA 59.653 37.037 0.00 0.00 0.00 2.10
768 854 7.509546 TCTGGCTTATCTATCCCACTTTTAAG 58.490 38.462 0.00 0.00 0.00 1.85
769 855 7.347222 TCTCTGGCTTATCTATCCCACTTTTAA 59.653 37.037 0.00 0.00 0.00 1.52
770 856 6.844388 TCTCTGGCTTATCTATCCCACTTTTA 59.156 38.462 0.00 0.00 0.00 1.52
771 857 5.667626 TCTCTGGCTTATCTATCCCACTTTT 59.332 40.000 0.00 0.00 0.00 2.27
772 858 5.219739 TCTCTGGCTTATCTATCCCACTTT 58.780 41.667 0.00 0.00 0.00 2.66
773 859 4.820775 TCTCTGGCTTATCTATCCCACTT 58.179 43.478 0.00 0.00 0.00 3.16
774 860 4.477536 TCTCTGGCTTATCTATCCCACT 57.522 45.455 0.00 0.00 0.00 4.00
775 861 5.552870 TTTCTCTGGCTTATCTATCCCAC 57.447 43.478 0.00 0.00 0.00 4.61
995 1100 3.257561 CCTGCGCGTCCATTCTCG 61.258 66.667 8.43 0.00 0.00 4.04
1221 1330 4.511443 GCGTCGTCGTCGTCGGAT 62.511 66.667 20.10 0.00 45.21 4.18
1300 1409 4.421515 CAGCAGGCTGTCCAGGGG 62.422 72.222 17.16 0.00 39.10 4.79
1409 1518 4.379243 CGAACTGGCGCACCTCCT 62.379 66.667 10.83 0.00 36.63 3.69
1420 1529 2.654912 GGTTGGCGACGACGAACTG 61.655 63.158 12.29 0.00 46.42 3.16
1477 1586 4.681978 GTCGAGCAGCACCGGGTT 62.682 66.667 6.32 0.00 0.00 4.11
1531 1640 3.554692 CTTGTCGGCGGCGATCAC 61.555 66.667 36.75 24.53 0.00 3.06
1532 1641 4.812476 CCTTGTCGGCGGCGATCA 62.812 66.667 36.75 29.63 0.00 2.92
1541 1650 1.084370 GTTGATCTCGCCCTTGTCGG 61.084 60.000 0.00 0.00 0.00 4.79
1743 1852 0.834687 AGGAGTGCAGGAACCCGTTA 60.835 55.000 0.00 0.00 0.00 3.18
1798 1907 0.176910 ACACGACACACCACATGACA 59.823 50.000 0.00 0.00 0.00 3.58
1799 1908 1.003972 CAACACGACACACCACATGAC 60.004 52.381 0.00 0.00 0.00 3.06
1800 1909 1.294857 CAACACGACACACCACATGA 58.705 50.000 0.00 0.00 0.00 3.07
1801 1910 1.013596 ACAACACGACACACCACATG 58.986 50.000 0.00 0.00 0.00 3.21
1802 1911 1.013596 CACAACACGACACACCACAT 58.986 50.000 0.00 0.00 0.00 3.21
1803 1912 0.320858 ACACAACACGACACACCACA 60.321 50.000 0.00 0.00 0.00 4.17
1804 1913 0.096281 CACACAACACGACACACCAC 59.904 55.000 0.00 0.00 0.00 4.16
1805 1914 0.320858 ACACACAACACGACACACCA 60.321 50.000 0.00 0.00 0.00 4.17
1806 1915 0.372334 GACACACAACACGACACACC 59.628 55.000 0.00 0.00 0.00 4.16
1807 1916 0.024491 CGACACACAACACGACACAC 59.976 55.000 0.00 0.00 0.00 3.82
1808 1917 0.109226 TCGACACACAACACGACACA 60.109 50.000 0.00 0.00 0.00 3.72
2130 2273 4.558226 TGATCTCCATGCTAAACACTGT 57.442 40.909 0.00 0.00 0.00 3.55
2222 2395 4.067192 GGAAAGTTTCGTAGGCTTTGGTA 58.933 43.478 9.46 0.00 33.22 3.25
2223 2396 2.882761 GGAAAGTTTCGTAGGCTTTGGT 59.117 45.455 9.46 0.00 33.22 3.67
2224 2397 2.882137 TGGAAAGTTTCGTAGGCTTTGG 59.118 45.455 9.46 0.00 33.22 3.28
2225 2398 4.379499 GGATGGAAAGTTTCGTAGGCTTTG 60.379 45.833 9.46 0.00 33.22 2.77
2226 2399 3.756963 GGATGGAAAGTTTCGTAGGCTTT 59.243 43.478 9.46 0.00 35.44 3.51
2227 2400 3.344515 GGATGGAAAGTTTCGTAGGCTT 58.655 45.455 9.46 0.00 0.00 4.35
2228 2401 2.355818 GGGATGGAAAGTTTCGTAGGCT 60.356 50.000 9.46 0.00 0.00 4.58
2229 2402 2.014857 GGGATGGAAAGTTTCGTAGGC 58.985 52.381 9.46 0.00 0.00 3.93
2230 2403 3.629142 AGGGATGGAAAGTTTCGTAGG 57.371 47.619 9.46 0.00 0.00 3.18
2263 2445 2.415893 CCGGTGAAATTCAGATGGTTGC 60.416 50.000 0.00 0.00 0.00 4.17
2269 2451 2.356125 CCTCACCCGGTGAAATTCAGAT 60.356 50.000 20.81 0.00 42.26 2.90
2358 2540 6.741992 CTCCTACAATGAGCAATGTTACAA 57.258 37.500 0.00 0.00 0.00 2.41
2404 2586 0.250209 ATGACGCCATCCATGCTCTC 60.250 55.000 0.00 0.00 0.00 3.20
2429 2611 5.185454 TCTTATCAACACTACATGCCCTTG 58.815 41.667 0.00 0.00 0.00 3.61
2438 2620 8.986477 AAAAATGCCAATCTTATCAACACTAC 57.014 30.769 0.00 0.00 0.00 2.73
2532 2714 8.223177 TGGTTGATAGCTTACTAGACTCTTAC 57.777 38.462 0.00 0.00 0.00 2.34
2533 2715 8.818622 TTGGTTGATAGCTTACTAGACTCTTA 57.181 34.615 0.00 0.00 0.00 2.10
2534 2716 7.719871 TTGGTTGATAGCTTACTAGACTCTT 57.280 36.000 0.00 0.00 0.00 2.85
2535 2717 7.719871 TTTGGTTGATAGCTTACTAGACTCT 57.280 36.000 0.00 0.00 0.00 3.24
2536 2718 7.817962 TGTTTTGGTTGATAGCTTACTAGACTC 59.182 37.037 0.00 0.00 0.00 3.36
2537 2719 7.676947 TGTTTTGGTTGATAGCTTACTAGACT 58.323 34.615 0.00 0.00 0.00 3.24
2538 2720 7.817962 TCTGTTTTGGTTGATAGCTTACTAGAC 59.182 37.037 0.00 0.00 0.00 2.59
2539 2721 7.903145 TCTGTTTTGGTTGATAGCTTACTAGA 58.097 34.615 0.00 0.00 0.00 2.43
2540 2722 8.547967 TTCTGTTTTGGTTGATAGCTTACTAG 57.452 34.615 0.00 0.00 0.00 2.57
2541 2723 8.911918 TTTCTGTTTTGGTTGATAGCTTACTA 57.088 30.769 0.00 0.00 0.00 1.82
2542 2724 7.817418 TTTCTGTTTTGGTTGATAGCTTACT 57.183 32.000 0.00 0.00 0.00 2.24
2676 2858 7.867305 TTCACCCATTTTGCTTCGTATATAA 57.133 32.000 0.00 0.00 0.00 0.98
2695 2878 9.262358 GGATGTATTTTAGAGTGTAGATTCACC 57.738 37.037 0.00 0.00 38.91 4.02
2734 2917 5.148568 GTCTTGTCTTACTCTCGTGTTCTC 58.851 45.833 0.00 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.