Multiple sequence alignment - TraesCS7B01G122300

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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 TraesCS7B01G122300 chr7B 100.000 3862 0 0 1 3862 143321893 143325754 0.000000e+00 7132.0
1 TraesCS7B01G122300 chr7B 89.394 66 6 1 3098 3163 143324920 143324984 8.890000e-12 82.4
2 TraesCS7B01G122300 chr7B 89.394 66 6 1 3028 3092 143324990 143325055 8.890000e-12 82.4
3 TraesCS7B01G122300 chr7D 92.710 1742 108 12 864 2602 177105069 177106794 0.000000e+00 2495.0
4 TraesCS7B01G122300 chr7D 94.634 764 30 4 3099 3862 177107482 177108234 0.000000e+00 1173.0
5 TraesCS7B01G122300 chr7D 92.614 528 25 3 55 570 177104176 177104701 0.000000e+00 747.0
6 TraesCS7B01G122300 chr7D 92.191 397 27 3 2606 3002 177106994 177107386 3.370000e-155 558.0
7 TraesCS7B01G122300 chr7D 96.875 64 2 0 3029 3092 177107482 177107545 1.470000e-19 108.0
8 TraesCS7B01G122300 chr7A 92.571 1723 85 18 928 2615 180647664 180649378 0.000000e+00 2433.0
9 TraesCS7B01G122300 chr7A 94.922 709 21 7 3154 3861 180650008 180650702 0.000000e+00 1096.0
10 TraesCS7B01G122300 chr7A 93.537 557 27 6 2599 3148 180649391 180649945 0.000000e+00 821.0
11 TraesCS7B01G122300 chr7A 92.803 528 24 5 55 570 180646731 180647256 0.000000e+00 752.0


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 TraesCS7B01G122300 chr7B 143321893 143325754 3861 False 2432.266667 7132 92.929333 1 3862 3 chr7B.!!$F1 3861
1 TraesCS7B01G122300 chr7D 177104176 177108234 4058 False 1016.200000 2495 93.804800 55 3862 5 chr7D.!!$F1 3807
2 TraesCS7B01G122300 chr7A 180646731 180650702 3971 False 1275.500000 2433 93.458250 55 3861 4 chr7A.!!$F1 3806

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
874 974 0.179119 GGACCTGTATTCCGTGTCCG 60.179 60.0 0.0 0.0 36.47 4.79 F
1526 1668 0.038251 GTTTGGGGCAAGCAGTTAGC 60.038 55.0 0.0 0.0 46.19 3.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2532 2704 0.319900 TCCTCAGCAAGAACTCACGC 60.320 55.0 0.00 0.0 0.0 5.34 R
3423 3962 0.107361 CGGGCCCCTATTCGAACTTT 60.107 55.0 18.66 0.0 0.0 2.66 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
44 45 2.444351 GTCCATACGACGGAACTAACG 58.556 52.381 0.00 0.00 33.29 3.18
45 46 1.401552 TCCATACGACGGAACTAACGG 59.598 52.381 0.00 0.00 35.23 4.44
46 47 1.534595 CCATACGACGGAACTAACGGG 60.535 57.143 0.00 0.00 35.23 5.28
47 48 1.401552 CATACGACGGAACTAACGGGA 59.598 52.381 0.00 0.00 35.23 5.14
48 49 1.086696 TACGACGGAACTAACGGGAG 58.913 55.000 0.00 0.00 35.23 4.30
50 51 0.455633 CGACGGAACTAACGGGAGTG 60.456 60.000 0.00 0.00 46.69 3.51
51 52 0.735287 GACGGAACTAACGGGAGTGC 60.735 60.000 0.00 0.00 46.69 4.40
52 53 1.804326 CGGAACTAACGGGAGTGCG 60.804 63.158 0.00 0.00 46.69 5.34
53 54 1.291272 GGAACTAACGGGAGTGCGT 59.709 57.895 0.00 0.00 46.69 5.24
71 72 1.654105 CGTGCAGATTTCAGGTACGAC 59.346 52.381 0.00 0.00 32.36 4.34
83 84 1.538950 AGGTACGACAAGAACGACTCC 59.461 52.381 0.00 0.00 34.70 3.85
207 208 0.749649 CCTCTACTTCATCAGCGGCT 59.250 55.000 0.00 0.00 0.00 5.52
243 244 4.410400 CCGGCCAGAGGTTCACCC 62.410 72.222 2.24 0.00 36.42 4.61
476 489 0.963856 TGCTGGCCTTTGCATGAGAG 60.964 55.000 3.32 0.00 40.13 3.20
478 491 1.000521 TGGCCTTTGCATGAGAGGG 60.001 57.895 3.32 0.00 40.13 4.30
519 532 0.457681 GCGTGTGCAAACTGTTGGTT 60.458 50.000 5.28 0.00 42.15 3.67
559 572 9.757227 GTAGACAGTCTAGAATCATTTGCTTAT 57.243 33.333 10.81 0.00 28.01 1.73
570 583 9.143631 AGAATCATTTGCTTATAACTTGTTTGC 57.856 29.630 0.00 0.00 0.00 3.68
572 585 8.693542 ATCATTTGCTTATAACTTGTTTGCTC 57.306 30.769 0.00 0.00 0.00 4.26
574 587 9.008965 TCATTTGCTTATAACTTGTTTGCTCTA 57.991 29.630 0.00 0.00 0.00 2.43
578 591 8.560355 TGCTTATAACTTGTTTGCTCTATTGA 57.440 30.769 0.00 0.00 0.00 2.57
579 592 9.177608 TGCTTATAACTTGTTTGCTCTATTGAT 57.822 29.630 0.00 0.00 0.00 2.57
585 598 4.840401 TGTTTGCTCTATTGATTCGTCG 57.160 40.909 0.00 0.00 0.00 5.12
586 599 4.242475 TGTTTGCTCTATTGATTCGTCGT 58.758 39.130 0.00 0.00 0.00 4.34
588 601 2.193447 TGCTCTATTGATTCGTCGTGC 58.807 47.619 0.00 0.00 0.00 5.34
590 603 3.066203 TGCTCTATTGATTCGTCGTGCTA 59.934 43.478 0.00 0.00 0.00 3.49
591 604 4.230657 GCTCTATTGATTCGTCGTGCTAT 58.769 43.478 0.00 0.00 0.00 2.97
592 605 5.048991 TGCTCTATTGATTCGTCGTGCTATA 60.049 40.000 0.00 0.00 0.00 1.31
593 606 5.284188 GCTCTATTGATTCGTCGTGCTATAC 59.716 44.000 0.00 0.00 0.00 1.47
606 619 4.144534 GTGCTATACGTGGTAGTAGCTC 57.855 50.000 0.00 2.22 40.07 4.09
607 620 2.804527 TGCTATACGTGGTAGTAGCTCG 59.195 50.000 19.05 19.05 40.07 5.03
610 623 1.372582 TACGTGGTAGTAGCTCGTGG 58.627 55.000 29.43 6.51 43.96 4.94
611 624 0.607489 ACGTGGTAGTAGCTCGTGGT 60.607 55.000 23.82 4.51 42.87 4.16
612 625 0.179171 CGTGGTAGTAGCTCGTGGTG 60.179 60.000 13.99 0.00 0.00 4.17
616 629 2.489329 TGGTAGTAGCTCGTGGTGTAAC 59.511 50.000 0.00 0.00 0.00 2.50
620 633 3.947868 AGTAGCTCGTGGTGTAACTAGA 58.052 45.455 0.00 0.00 36.74 2.43
622 635 4.575645 AGTAGCTCGTGGTGTAACTAGATC 59.424 45.833 0.00 0.00 36.74 2.75
623 636 3.353557 AGCTCGTGGTGTAACTAGATCA 58.646 45.455 0.00 0.00 36.74 2.92
624 637 3.762288 AGCTCGTGGTGTAACTAGATCAA 59.238 43.478 0.00 0.00 36.74 2.57
627 640 4.478699 TCGTGGTGTAACTAGATCAAACG 58.521 43.478 0.00 6.71 36.74 3.60
628 641 4.022935 TCGTGGTGTAACTAGATCAAACGT 60.023 41.667 0.00 0.00 36.74 3.99
629 642 4.089493 CGTGGTGTAACTAGATCAAACGTG 59.911 45.833 0.00 0.00 36.74 4.49
631 644 5.118203 GTGGTGTAACTAGATCAAACGTGTC 59.882 44.000 0.00 0.00 36.74 3.67
632 645 4.322804 GGTGTAACTAGATCAAACGTGTCG 59.677 45.833 0.00 0.00 36.74 4.35
633 646 4.913924 GTGTAACTAGATCAAACGTGTCGT 59.086 41.667 0.00 0.00 43.97 4.34
634 647 4.913345 TGTAACTAGATCAAACGTGTCGTG 59.087 41.667 0.00 0.00 39.99 4.35
635 648 2.325761 ACTAGATCAAACGTGTCGTGC 58.674 47.619 0.00 0.00 39.99 5.34
636 649 2.030185 ACTAGATCAAACGTGTCGTGCT 60.030 45.455 0.00 0.00 39.99 4.40
637 650 2.717580 AGATCAAACGTGTCGTGCTA 57.282 45.000 0.00 0.00 39.99 3.49
638 651 3.021269 AGATCAAACGTGTCGTGCTAA 57.979 42.857 0.00 0.00 39.99 3.09
639 652 3.585862 AGATCAAACGTGTCGTGCTAAT 58.414 40.909 0.00 0.00 39.99 1.73
640 653 3.994392 AGATCAAACGTGTCGTGCTAATT 59.006 39.130 0.00 0.00 39.99 1.40
642 655 4.539509 TCAAACGTGTCGTGCTAATTTT 57.460 36.364 0.00 0.00 39.99 1.82
643 656 5.654317 TCAAACGTGTCGTGCTAATTTTA 57.346 34.783 0.00 0.00 39.99 1.52
644 657 5.672051 TCAAACGTGTCGTGCTAATTTTAG 58.328 37.500 0.00 0.00 39.99 1.85
645 658 5.234757 TCAAACGTGTCGTGCTAATTTTAGT 59.765 36.000 0.00 0.00 39.99 2.24
646 659 5.662211 AACGTGTCGTGCTAATTTTAGTT 57.338 34.783 0.00 0.00 39.99 2.24
647 660 5.013861 ACGTGTCGTGCTAATTTTAGTTG 57.986 39.130 0.00 0.00 39.18 3.16
648 661 4.508861 ACGTGTCGTGCTAATTTTAGTTGT 59.491 37.500 0.00 0.00 39.18 3.32
649 662 5.006941 ACGTGTCGTGCTAATTTTAGTTGTT 59.993 36.000 0.00 0.00 39.18 2.83
650 663 5.905181 CGTGTCGTGCTAATTTTAGTTGTTT 59.095 36.000 0.00 0.00 33.32 2.83
651 664 6.129820 CGTGTCGTGCTAATTTTAGTTGTTTG 60.130 38.462 0.00 0.00 33.32 2.93
652 665 6.689669 GTGTCGTGCTAATTTTAGTTGTTTGT 59.310 34.615 0.00 0.00 33.32 2.83
653 666 7.219344 GTGTCGTGCTAATTTTAGTTGTTTGTT 59.781 33.333 0.00 0.00 33.32 2.83
654 667 8.396390 TGTCGTGCTAATTTTAGTTGTTTGTTA 58.604 29.630 0.00 0.00 33.32 2.41
655 668 8.889000 GTCGTGCTAATTTTAGTTGTTTGTTAG 58.111 33.333 0.00 0.00 33.32 2.34
656 669 8.614346 TCGTGCTAATTTTAGTTGTTTGTTAGT 58.386 29.630 0.00 0.00 33.32 2.24
657 670 8.889000 CGTGCTAATTTTAGTTGTTTGTTAGTC 58.111 33.333 0.00 0.00 33.32 2.59
658 671 9.177304 GTGCTAATTTTAGTTGTTTGTTAGTCC 57.823 33.333 0.00 0.00 33.32 3.85
659 672 8.354426 TGCTAATTTTAGTTGTTTGTTAGTCCC 58.646 33.333 0.00 0.00 33.32 4.46
660 673 8.573885 GCTAATTTTAGTTGTTTGTTAGTCCCT 58.426 33.333 0.00 0.00 33.32 4.20
662 675 6.947644 TTTTAGTTGTTTGTTAGTCCCTCC 57.052 37.500 0.00 0.00 0.00 4.30
663 676 5.633655 TTAGTTGTTTGTTAGTCCCTCCA 57.366 39.130 0.00 0.00 0.00 3.86
664 677 4.724279 AGTTGTTTGTTAGTCCCTCCAT 57.276 40.909 0.00 0.00 0.00 3.41
665 678 5.061721 AGTTGTTTGTTAGTCCCTCCATT 57.938 39.130 0.00 0.00 0.00 3.16
666 679 5.070685 AGTTGTTTGTTAGTCCCTCCATTC 58.929 41.667 0.00 0.00 0.00 2.67
667 680 3.670625 TGTTTGTTAGTCCCTCCATTCG 58.329 45.455 0.00 0.00 0.00 3.34
668 681 3.325425 TGTTTGTTAGTCCCTCCATTCGA 59.675 43.478 0.00 0.00 0.00 3.71
669 682 4.202377 TGTTTGTTAGTCCCTCCATTCGAA 60.202 41.667 0.00 0.00 0.00 3.71
670 683 4.627284 TTGTTAGTCCCTCCATTCGAAA 57.373 40.909 0.00 0.00 0.00 3.46
671 684 4.837093 TGTTAGTCCCTCCATTCGAAAT 57.163 40.909 0.00 0.00 0.00 2.17
672 685 5.174037 TGTTAGTCCCTCCATTCGAAATT 57.826 39.130 0.00 0.00 0.00 1.82
673 686 4.941263 TGTTAGTCCCTCCATTCGAAATTG 59.059 41.667 0.00 0.00 0.00 2.32
674 687 5.183228 GTTAGTCCCTCCATTCGAAATTGA 58.817 41.667 0.00 0.00 0.00 2.57
675 688 4.510167 AGTCCCTCCATTCGAAATTGAT 57.490 40.909 0.00 0.00 0.00 2.57
676 689 4.860022 AGTCCCTCCATTCGAAATTGATT 58.140 39.130 0.00 0.00 0.00 2.57
677 690 4.641989 AGTCCCTCCATTCGAAATTGATTG 59.358 41.667 0.00 0.00 0.00 2.67
678 691 4.640201 GTCCCTCCATTCGAAATTGATTGA 59.360 41.667 0.00 0.00 0.00 2.57
679 692 5.125417 GTCCCTCCATTCGAAATTGATTGAA 59.875 40.000 0.00 0.00 0.00 2.69
680 693 5.714333 TCCCTCCATTCGAAATTGATTGAAA 59.286 36.000 0.00 0.00 0.00 2.69
684 697 7.760794 CCTCCATTCGAAATTGATTGAAATTGA 59.239 33.333 0.00 0.00 30.21 2.57
686 699 9.656040 TCCATTCGAAATTGATTGAAATTGAAT 57.344 25.926 0.00 0.00 29.20 2.57
710 723 8.728088 ATGTAATTTGTTAACTTCTTTGCGAG 57.272 30.769 7.22 0.00 0.00 5.03
711 728 6.635239 TGTAATTTGTTAACTTCTTTGCGAGC 59.365 34.615 7.22 0.00 0.00 5.03
713 730 5.994887 TTTGTTAACTTCTTTGCGAGCTA 57.005 34.783 7.22 0.00 0.00 3.32
718 735 4.670227 AACTTCTTTGCGAGCTATGAAC 57.330 40.909 0.00 0.00 0.00 3.18
724 741 5.720202 TCTTTGCGAGCTATGAACTTCTTA 58.280 37.500 0.00 0.00 0.00 2.10
726 743 3.448686 TGCGAGCTATGAACTTCTTAGC 58.551 45.455 21.23 21.23 45.24 3.09
777 794 9.485206 TGTCTTTAACTATTTAGAACTCCACAC 57.515 33.333 0.00 0.00 0.00 3.82
782 799 7.417496 AACTATTTAGAACTCCACACGTTTC 57.583 36.000 0.00 0.00 0.00 2.78
783 800 6.518493 ACTATTTAGAACTCCACACGTTTCA 58.482 36.000 0.00 0.00 0.00 2.69
805 822 4.806342 GTGTAACTTTCCTCGCAAAGAA 57.194 40.909 7.95 0.00 36.92 2.52
807 824 5.575019 GTGTAACTTTCCTCGCAAAGAAAA 58.425 37.500 7.95 0.00 36.92 2.29
809 826 3.990318 ACTTTCCTCGCAAAGAAAAGG 57.010 42.857 7.95 0.00 36.92 3.11
812 829 4.036852 ACTTTCCTCGCAAAGAAAAGGAAG 59.963 41.667 7.95 1.84 45.87 3.46
818 918 3.045688 CGCAAAGAAAAGGAAGAAGCAC 58.954 45.455 0.00 0.00 0.00 4.40
825 925 2.922740 AAGGAAGAAGCACCGTGTTA 57.077 45.000 0.00 0.00 0.00 2.41
830 930 4.583073 AGGAAGAAGCACCGTGTTATTTTT 59.417 37.500 0.00 0.00 0.00 1.94
858 958 9.487790 TTTCTTGAAACAATTGGATTATTGGAC 57.512 29.630 10.83 0.00 39.33 4.02
862 962 6.496565 TGAAACAATTGGATTATTGGACCTGT 59.503 34.615 10.83 0.00 39.33 4.00
871 971 4.829872 TTATTGGACCTGTATTCCGTGT 57.170 40.909 0.00 0.00 35.70 4.49
874 974 0.179119 GGACCTGTATTCCGTGTCCG 60.179 60.000 0.00 0.00 36.47 4.79
921 1055 1.864263 GCCTTCTTTGGGCCCCTACT 61.864 60.000 22.27 0.00 43.49 2.57
952 1086 4.020617 CGCCTCTTCCAGCCACCA 62.021 66.667 0.00 0.00 0.00 4.17
1165 1306 1.745115 CACATCCCGCGGTTCATGT 60.745 57.895 26.12 23.86 0.00 3.21
1175 1316 1.810030 GGTTCATGTCGCGGGAGAC 60.810 63.158 6.13 0.00 41.30 3.36
1221 1362 4.015406 AAGCGCATCCCGTGGACA 62.015 61.111 11.47 0.00 39.71 4.02
1233 1374 3.575247 TGGACACGCCCCACCATT 61.575 61.111 0.00 0.00 34.97 3.16
1401 1542 3.075283 TGCTGTTATTTTGGGGAGGAGAA 59.925 43.478 0.00 0.00 0.00 2.87
1501 1643 1.259840 ATGCCTTGGGTGGTGAATGC 61.260 55.000 0.00 0.00 0.00 3.56
1522 1664 0.975040 TGTTGTTTGGGGCAAGCAGT 60.975 50.000 0.00 0.00 36.11 4.40
1523 1665 0.177836 GTTGTTTGGGGCAAGCAGTT 59.822 50.000 0.00 0.00 36.11 3.16
1524 1666 1.410882 GTTGTTTGGGGCAAGCAGTTA 59.589 47.619 0.00 0.00 36.11 2.24
1525 1667 1.327303 TGTTTGGGGCAAGCAGTTAG 58.673 50.000 0.00 0.00 30.19 2.34
1526 1668 0.038251 GTTTGGGGCAAGCAGTTAGC 60.038 55.000 0.00 0.00 46.19 3.09
1593 1737 5.513376 CAGTATGTAAAGCGTACCGATACA 58.487 41.667 10.76 0.00 39.74 2.29
1607 1751 7.330208 GCGTACCGATACAAAATTATGTAGGAT 59.670 37.037 0.00 0.00 39.04 3.24
1710 1854 1.271054 CCCTGGCTGTAGACATATGGC 60.271 57.143 7.80 3.43 29.25 4.40
1720 1864 5.754782 TGTAGACATATGGCCATTCTTGTT 58.245 37.500 26.37 16.21 0.00 2.83
1745 1889 4.672413 GCTTGATTGACACTGAAACGAAAG 59.328 41.667 0.00 0.00 0.00 2.62
1746 1890 5.504010 GCTTGATTGACACTGAAACGAAAGA 60.504 40.000 0.00 0.00 0.00 2.52
1747 1891 5.657470 TGATTGACACTGAAACGAAAGAG 57.343 39.130 0.00 0.00 0.00 2.85
1748 1892 3.944422 TTGACACTGAAACGAAAGAGC 57.056 42.857 0.00 0.00 0.00 4.09
1749 1893 2.899976 TGACACTGAAACGAAAGAGCA 58.100 42.857 0.00 0.00 0.00 4.26
1750 1894 2.866156 TGACACTGAAACGAAAGAGCAG 59.134 45.455 0.00 0.00 34.84 4.24
1751 1895 2.866762 GACACTGAAACGAAAGAGCAGT 59.133 45.455 0.00 0.00 39.41 4.40
1752 1896 2.866762 ACACTGAAACGAAAGAGCAGTC 59.133 45.455 0.00 0.00 37.84 3.51
1754 1898 3.060003 CACTGAAACGAAAGAGCAGTCAG 60.060 47.826 0.00 0.00 37.84 3.51
1756 1900 2.102420 TGAAACGAAAGAGCAGTCAGGA 59.898 45.455 0.00 0.00 0.00 3.86
1757 1901 3.244215 TGAAACGAAAGAGCAGTCAGGAT 60.244 43.478 0.00 0.00 0.00 3.24
1774 1946 7.178274 CAGTCAGGATATAAGTATGAGGAGCTT 59.822 40.741 0.00 0.00 0.00 3.74
1815 1987 0.941542 TTGTCAAACTCTTTCCGCCG 59.058 50.000 0.00 0.00 0.00 6.46
1819 1991 2.740447 GTCAAACTCTTTCCGCCGTATT 59.260 45.455 0.00 0.00 0.00 1.89
1903 2075 7.448228 CAACATAGCTACGATGTATACAATGC 58.552 38.462 10.14 9.67 36.50 3.56
1944 2116 2.238144 CCATGGTGATGGTCTCTTGTCT 59.762 50.000 2.57 0.00 43.98 3.41
1976 2148 5.296780 CACCTTAACAAAGTGTCTGATGTGT 59.703 40.000 0.00 0.00 0.00 3.72
1985 2157 4.160329 AGTGTCTGATGTGTTCCTCCTAA 58.840 43.478 0.00 0.00 0.00 2.69
2015 2187 0.810031 CGTCTAGCCCCATTGGTTCG 60.810 60.000 1.20 0.00 36.04 3.95
2022 2194 1.744456 GCCCCATTGGTTCGATAACGA 60.744 52.381 1.20 0.00 40.58 3.85
2023 2195 3.068528 GCCCCATTGGTTCGATAACGAT 61.069 50.000 1.20 0.00 40.66 3.73
2072 2244 2.884639 GCGCATTGGTCATATAACCCTT 59.115 45.455 0.30 0.00 38.65 3.95
2086 2258 3.876309 AACCCTTGTGAGGCTTCTAAA 57.124 42.857 0.00 0.00 42.09 1.85
2088 2260 2.224793 ACCCTTGTGAGGCTTCTAAACC 60.225 50.000 0.00 0.00 42.09 3.27
2243 2415 8.846423 AAGGATATCTTGAAAGAGGTAAGAGA 57.154 34.615 2.05 0.00 38.66 3.10
2275 2447 1.745653 GACTTCTTGCATTGCTACCCC 59.254 52.381 10.49 0.00 0.00 4.95
2299 2471 1.967319 TCAGCAGAAACCAGTTGGAC 58.033 50.000 4.92 0.00 38.94 4.02
2313 2485 7.745620 ACCAGTTGGACTTGTTCTTATTTAG 57.254 36.000 4.92 0.00 38.94 1.85
2403 2575 2.190578 GTCCATGAAGCCCTCCCG 59.809 66.667 0.00 0.00 0.00 5.14
2514 2686 0.249073 CTACCCCAGAGATTGCGTCG 60.249 60.000 0.00 0.00 0.00 5.12
2532 2704 2.100631 GGTCACATTCGGGTGCGAG 61.101 63.158 0.00 0.00 38.66 5.03
2560 2732 2.540383 TCTTGCTGAGGAAGAAGCCTA 58.460 47.619 14.22 0.00 38.73 3.93
2568 2740 1.002087 AGGAAGAAGCCTACCAACACG 59.998 52.381 0.00 0.00 36.22 4.49
2631 2999 3.244249 GCTATAGGCTTTGTACCCTGGAG 60.244 52.174 1.04 0.00 38.06 3.86
2633 3001 2.337359 AGGCTTTGTACCCTGGAGTA 57.663 50.000 0.00 0.00 0.00 2.59
2639 3008 5.513614 GGCTTTGTACCCTGGAGTAAAACTA 60.514 44.000 0.00 0.00 0.00 2.24
2650 3019 5.865085 TGGAGTAAAACTAACTCATGCTGT 58.135 37.500 5.67 0.00 44.25 4.40
2661 3030 3.607741 ACTCATGCTGTTCTTCATCCAG 58.392 45.455 0.00 0.00 0.00 3.86
2707 3076 4.760047 TCGGAAGCGGCTCAAGGC 62.760 66.667 1.45 0.00 40.90 4.35
2813 3182 3.286751 GTGCCCAAGCGTGCAAGA 61.287 61.111 2.99 0.00 44.31 3.02
2848 3217 0.673644 ATCAACCTGACTTTCCGGCG 60.674 55.000 0.00 0.00 0.00 6.46
2879 3248 0.598065 GAACATGGGCAGTTCGCTTT 59.402 50.000 0.00 0.00 41.91 3.51
2881 3250 1.444895 CATGGGCAGTTCGCTTTGC 60.445 57.895 0.00 0.00 41.91 3.68
2900 3269 2.282180 TCCCTCCAGTTTTGCGCC 60.282 61.111 4.18 0.00 0.00 6.53
2927 3296 1.264020 CATTGCGTGCAGTGTGTAGTT 59.736 47.619 8.96 0.00 0.00 2.24
2934 3303 2.943033 GTGCAGTGTGTAGTTGGTTTCT 59.057 45.455 0.00 0.00 0.00 2.52
2952 3321 7.370383 TGGTTTCTTGATAATGCTTTGAACTC 58.630 34.615 0.00 0.00 0.00 3.01
3004 3373 7.825331 ATCTCTATCGAACTCTGTATTTCCA 57.175 36.000 0.00 0.00 0.00 3.53
3054 3465 3.855689 AATGTGCAACCTGCTACATTC 57.144 42.857 16.62 0.00 44.05 2.67
3055 3466 2.566833 TGTGCAACCTGCTACATTCT 57.433 45.000 0.00 0.00 45.31 2.40
3056 3467 2.862541 TGTGCAACCTGCTACATTCTT 58.137 42.857 0.00 0.00 45.31 2.52
3057 3468 3.221771 TGTGCAACCTGCTACATTCTTT 58.778 40.909 0.00 0.00 45.31 2.52
3058 3469 3.253188 TGTGCAACCTGCTACATTCTTTC 59.747 43.478 0.00 0.00 45.31 2.62
3059 3470 3.253188 GTGCAACCTGCTACATTCTTTCA 59.747 43.478 0.00 0.00 45.31 2.69
3066 3477 3.338249 TGCTACATTCTTTCAGCAGACC 58.662 45.455 0.00 0.00 39.03 3.85
3067 3478 3.244526 TGCTACATTCTTTCAGCAGACCA 60.245 43.478 0.00 0.00 39.03 4.02
3068 3479 3.753272 GCTACATTCTTTCAGCAGACCAA 59.247 43.478 0.00 0.00 34.13 3.67
3069 3480 4.216257 GCTACATTCTTTCAGCAGACCAAA 59.784 41.667 0.00 0.00 34.13 3.28
3070 3481 5.105997 GCTACATTCTTTCAGCAGACCAAAT 60.106 40.000 0.00 0.00 34.13 2.32
3071 3482 5.130292 ACATTCTTTCAGCAGACCAAATG 57.870 39.130 0.00 0.00 0.00 2.32
3072 3483 4.828939 ACATTCTTTCAGCAGACCAAATGA 59.171 37.500 11.21 0.00 0.00 2.57
3073 3484 5.048224 ACATTCTTTCAGCAGACCAAATGAG 60.048 40.000 11.21 0.00 0.00 2.90
3074 3485 4.090761 TCTTTCAGCAGACCAAATGAGT 57.909 40.909 0.00 0.00 0.00 3.41
3075 3486 4.464008 TCTTTCAGCAGACCAAATGAGTT 58.536 39.130 0.00 0.00 0.00 3.01
3076 3487 4.889409 TCTTTCAGCAGACCAAATGAGTTT 59.111 37.500 0.00 0.00 0.00 2.66
3077 3488 4.572985 TTCAGCAGACCAAATGAGTTTG 57.427 40.909 0.00 0.00 43.43 2.93
3088 3499 5.895636 CAAATGAGTTTGGCCTACATACA 57.104 39.130 3.32 5.15 40.78 2.29
3089 3500 6.455360 CAAATGAGTTTGGCCTACATACAT 57.545 37.500 3.32 7.11 40.78 2.29
3090 3501 7.566760 CAAATGAGTTTGGCCTACATACATA 57.433 36.000 3.32 0.00 40.78 2.29
3091 3502 7.995289 CAAATGAGTTTGGCCTACATACATAA 58.005 34.615 3.32 0.00 40.78 1.90
3092 3503 8.632679 CAAATGAGTTTGGCCTACATACATAAT 58.367 33.333 3.32 1.60 40.78 1.28
3093 3504 9.860650 AAATGAGTTTGGCCTACATACATAATA 57.139 29.630 3.32 0.00 34.00 0.98
3094 3505 9.860650 AATGAGTTTGGCCTACATACATAATAA 57.139 29.630 3.32 0.00 34.00 1.40
3095 3506 8.671384 TGAGTTTGGCCTACATACATAATAAC 57.329 34.615 3.32 0.00 34.00 1.89
3096 3507 8.268605 TGAGTTTGGCCTACATACATAATAACA 58.731 33.333 3.32 0.00 34.00 2.41
3097 3508 8.677148 AGTTTGGCCTACATACATAATAACAG 57.323 34.615 3.32 0.00 34.00 3.16
3100 3511 7.568128 TGGCCTACATACATAATAACAGGAT 57.432 36.000 3.32 0.00 0.00 3.24
3129 3540 2.407090 GCAACCTGCAACATTTCTTCC 58.593 47.619 0.00 0.00 44.26 3.46
3130 3541 2.036346 GCAACCTGCAACATTTCTTCCT 59.964 45.455 0.00 0.00 44.26 3.36
3131 3542 3.255642 GCAACCTGCAACATTTCTTCCTA 59.744 43.478 0.00 0.00 44.26 2.94
3199 3738 5.006386 GGACCATGTGAGAAGATGAAACTT 58.994 41.667 0.00 0.00 0.00 2.66
3302 3841 7.465353 TGGAAACTTAATCAAGCATTCATCA 57.535 32.000 0.00 0.00 34.73 3.07
3419 3958 8.492673 TCGCTACATATTCAAAATCTGTTTCT 57.507 30.769 0.00 0.00 0.00 2.52
3420 3959 8.946085 TCGCTACATATTCAAAATCTGTTTCTT 58.054 29.630 0.00 0.00 0.00 2.52
3421 3960 9.214953 CGCTACATATTCAAAATCTGTTTCTTC 57.785 33.333 0.00 0.00 0.00 2.87
3422 3961 9.214953 GCTACATATTCAAAATCTGTTTCTTCG 57.785 33.333 0.00 0.00 0.00 3.79
3442 3981 0.107361 AAAGTTCGAATAGGGGCCCG 60.107 55.000 18.95 4.61 0.00 6.13
3457 3996 2.711922 CCCGAAGAGAGGACCACCG 61.712 68.421 0.00 0.00 41.83 4.94
3481 4020 3.320826 ACTGGTAGCAAAACAATCCCAAC 59.679 43.478 0.00 0.00 0.00 3.77
3521 4060 9.382244 GTTGTACAACATTTCTACATGAGTTTC 57.618 33.333 29.46 0.00 40.84 2.78
3557 4096 4.201990 GCTATCTCCTGCAAAAGAATGGTG 60.202 45.833 2.11 0.00 0.00 4.17
3561 4100 3.565307 TCCTGCAAAAGAATGGTGAACT 58.435 40.909 0.00 0.00 0.00 3.01
3750 4289 1.232119 CATCACAACTGTCAGCTGCA 58.768 50.000 9.47 9.73 0.00 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 2.444351 CGTTAGTTCCGTCGTATGGAC 58.556 52.381 0.00 0.00 42.48 4.02
25 26 1.401552 CCGTTAGTTCCGTCGTATGGA 59.598 52.381 0.00 0.00 0.00 3.41
26 27 1.534595 CCCGTTAGTTCCGTCGTATGG 60.535 57.143 0.00 0.00 0.00 2.74
27 28 1.401552 TCCCGTTAGTTCCGTCGTATG 59.598 52.381 0.00 0.00 0.00 2.39
28 29 1.672881 CTCCCGTTAGTTCCGTCGTAT 59.327 52.381 0.00 0.00 0.00 3.06
29 30 1.086696 CTCCCGTTAGTTCCGTCGTA 58.913 55.000 0.00 0.00 0.00 3.43
30 31 0.890996 ACTCCCGTTAGTTCCGTCGT 60.891 55.000 0.00 0.00 0.00 4.34
31 32 0.455633 CACTCCCGTTAGTTCCGTCG 60.456 60.000 0.00 0.00 0.00 5.12
32 33 0.735287 GCACTCCCGTTAGTTCCGTC 60.735 60.000 0.00 0.00 0.00 4.79
33 34 1.291272 GCACTCCCGTTAGTTCCGT 59.709 57.895 0.00 0.00 0.00 4.69
34 35 1.804326 CGCACTCCCGTTAGTTCCG 60.804 63.158 0.00 0.00 0.00 4.30
35 36 1.012486 CACGCACTCCCGTTAGTTCC 61.012 60.000 0.00 0.00 39.83 3.62
36 37 1.623973 GCACGCACTCCCGTTAGTTC 61.624 60.000 0.00 0.00 39.83 3.01
37 38 1.666872 GCACGCACTCCCGTTAGTT 60.667 57.895 0.00 0.00 39.83 2.24
38 39 2.048503 GCACGCACTCCCGTTAGT 60.049 61.111 0.00 0.00 39.83 2.24
39 40 2.048597 TGCACGCACTCCCGTTAG 60.049 61.111 0.00 0.00 39.83 2.34
40 41 1.884075 ATCTGCACGCACTCCCGTTA 61.884 55.000 0.00 0.00 39.83 3.18
41 42 2.731691 AATCTGCACGCACTCCCGTT 62.732 55.000 0.00 0.00 39.83 4.44
42 43 2.731691 AAATCTGCACGCACTCCCGT 62.732 55.000 0.00 0.00 43.11 5.28
43 44 1.970917 GAAATCTGCACGCACTCCCG 61.971 60.000 0.00 0.00 0.00 5.14
44 45 0.955428 TGAAATCTGCACGCACTCCC 60.955 55.000 0.00 0.00 0.00 4.30
45 46 0.445436 CTGAAATCTGCACGCACTCC 59.555 55.000 0.00 0.00 0.00 3.85
46 47 0.445436 CCTGAAATCTGCACGCACTC 59.555 55.000 0.00 0.00 0.00 3.51
47 48 0.250467 ACCTGAAATCTGCACGCACT 60.250 50.000 0.00 0.00 0.00 4.40
48 49 1.128692 GTACCTGAAATCTGCACGCAC 59.871 52.381 0.00 0.00 0.00 5.34
49 50 1.438651 GTACCTGAAATCTGCACGCA 58.561 50.000 0.00 0.00 0.00 5.24
50 51 0.370273 CGTACCTGAAATCTGCACGC 59.630 55.000 0.00 0.00 0.00 5.34
51 52 1.654105 GTCGTACCTGAAATCTGCACG 59.346 52.381 0.00 0.00 0.00 5.34
52 53 2.683968 TGTCGTACCTGAAATCTGCAC 58.316 47.619 0.00 0.00 0.00 4.57
53 54 3.006430 TCTTGTCGTACCTGAAATCTGCA 59.994 43.478 0.00 0.00 0.00 4.41
456 469 0.540133 TCTCATGCAAAGGCCAGCAA 60.540 50.000 19.28 5.54 44.88 3.91
463 476 0.036010 ACGACCCTCTCATGCAAAGG 60.036 55.000 0.00 0.00 0.00 3.11
476 489 2.126888 CATGCAACGCAACGACCC 60.127 61.111 0.00 0.00 43.62 4.46
478 491 1.003262 AATGCATGCAACGCAACGAC 61.003 50.000 26.68 0.00 43.62 4.34
510 523 1.402787 CTTGGAAGGCAACCAACAGT 58.597 50.000 10.51 0.00 41.64 3.55
559 572 7.411480 CGACGAATCAATAGAGCAAACAAGTTA 60.411 37.037 0.00 0.00 0.00 2.24
560 573 6.560253 ACGAATCAATAGAGCAAACAAGTT 57.440 33.333 0.00 0.00 0.00 2.66
570 583 6.840488 GTATAGCACGACGAATCAATAGAG 57.160 41.667 0.00 0.00 0.00 2.43
585 598 3.363772 CGAGCTACTACCACGTATAGCAC 60.364 52.174 13.84 8.83 42.07 4.40
586 599 2.804527 CGAGCTACTACCACGTATAGCA 59.195 50.000 13.84 0.19 42.07 3.49
588 601 3.186001 CCACGAGCTACTACCACGTATAG 59.814 52.174 4.82 4.82 35.78 1.31
590 603 1.945394 CCACGAGCTACTACCACGTAT 59.055 52.381 0.00 0.00 35.78 3.06
591 604 1.339055 ACCACGAGCTACTACCACGTA 60.339 52.381 0.00 0.00 35.78 3.57
592 605 0.607489 ACCACGAGCTACTACCACGT 60.607 55.000 0.00 0.00 37.68 4.49
593 606 0.179171 CACCACGAGCTACTACCACG 60.179 60.000 0.00 0.00 0.00 4.94
595 608 2.489329 GTTACACCACGAGCTACTACCA 59.511 50.000 0.00 0.00 0.00 3.25
596 609 2.751806 AGTTACACCACGAGCTACTACC 59.248 50.000 0.00 0.00 0.00 3.18
597 610 4.872691 TCTAGTTACACCACGAGCTACTAC 59.127 45.833 0.00 0.00 0.00 2.73
598 611 5.089970 TCTAGTTACACCACGAGCTACTA 57.910 43.478 0.00 0.00 0.00 1.82
599 612 3.947868 TCTAGTTACACCACGAGCTACT 58.052 45.455 0.00 0.00 0.00 2.57
600 613 4.334759 TGATCTAGTTACACCACGAGCTAC 59.665 45.833 0.00 0.00 0.00 3.58
601 614 4.520179 TGATCTAGTTACACCACGAGCTA 58.480 43.478 0.00 0.00 0.00 3.32
602 615 3.353557 TGATCTAGTTACACCACGAGCT 58.646 45.455 0.00 0.00 0.00 4.09
603 616 3.777465 TGATCTAGTTACACCACGAGC 57.223 47.619 0.00 0.00 0.00 5.03
604 617 4.557690 CGTTTGATCTAGTTACACCACGAG 59.442 45.833 0.00 0.00 0.00 4.18
606 619 4.089493 CACGTTTGATCTAGTTACACCACG 59.911 45.833 0.00 0.00 0.00 4.94
607 620 4.986659 ACACGTTTGATCTAGTTACACCAC 59.013 41.667 0.00 0.00 0.00 4.16
610 623 4.913924 ACGACACGTTTGATCTAGTTACAC 59.086 41.667 0.00 0.00 36.35 2.90
611 624 4.913345 CACGACACGTTTGATCTAGTTACA 59.087 41.667 0.00 0.00 38.32 2.41
612 625 4.201466 GCACGACACGTTTGATCTAGTTAC 60.201 45.833 0.00 0.00 38.32 2.50
616 629 2.596452 AGCACGACACGTTTGATCTAG 58.404 47.619 0.00 0.00 38.32 2.43
620 633 4.742438 AAATTAGCACGACACGTTTGAT 57.258 36.364 0.00 0.00 38.32 2.57
622 635 5.437263 ACTAAAATTAGCACGACACGTTTG 58.563 37.500 0.00 0.00 34.40 2.93
623 636 5.662211 ACTAAAATTAGCACGACACGTTT 57.338 34.783 0.00 0.00 34.40 3.60
624 637 5.006941 ACAACTAAAATTAGCACGACACGTT 59.993 36.000 0.00 0.00 34.40 3.99
627 640 6.689669 ACAAACAACTAAAATTAGCACGACAC 59.310 34.615 0.00 0.00 34.09 3.67
628 641 6.787225 ACAAACAACTAAAATTAGCACGACA 58.213 32.000 0.00 0.00 34.09 4.35
629 642 7.673810 AACAAACAACTAAAATTAGCACGAC 57.326 32.000 0.00 0.00 34.09 4.34
631 644 8.776680 ACTAACAAACAACTAAAATTAGCACG 57.223 30.769 0.13 0.00 34.09 5.34
632 645 9.177304 GGACTAACAAACAACTAAAATTAGCAC 57.823 33.333 0.13 0.00 34.09 4.40
633 646 8.354426 GGGACTAACAAACAACTAAAATTAGCA 58.646 33.333 0.13 0.00 34.09 3.49
634 647 8.573885 AGGGACTAACAAACAACTAAAATTAGC 58.426 33.333 0.13 0.00 36.02 3.09
636 649 9.070179 GGAGGGACTAACAAACAACTAAAATTA 57.930 33.333 0.00 0.00 41.55 1.40
637 650 7.562088 TGGAGGGACTAACAAACAACTAAAATT 59.438 33.333 0.00 0.00 41.55 1.82
638 651 7.064229 TGGAGGGACTAACAAACAACTAAAAT 58.936 34.615 0.00 0.00 41.55 1.82
639 652 6.424883 TGGAGGGACTAACAAACAACTAAAA 58.575 36.000 0.00 0.00 41.55 1.52
640 653 6.003859 TGGAGGGACTAACAAACAACTAAA 57.996 37.500 0.00 0.00 41.55 1.85
642 655 5.836024 ATGGAGGGACTAACAAACAACTA 57.164 39.130 0.00 0.00 41.55 2.24
643 656 4.724279 ATGGAGGGACTAACAAACAACT 57.276 40.909 0.00 0.00 41.55 3.16
644 657 4.083484 CGAATGGAGGGACTAACAAACAAC 60.083 45.833 0.00 0.00 41.55 3.32
645 658 4.069304 CGAATGGAGGGACTAACAAACAA 58.931 43.478 0.00 0.00 41.55 2.83
646 659 3.325425 TCGAATGGAGGGACTAACAAACA 59.675 43.478 0.00 0.00 41.55 2.83
647 660 3.934068 TCGAATGGAGGGACTAACAAAC 58.066 45.455 0.00 0.00 41.55 2.93
648 661 4.627284 TTCGAATGGAGGGACTAACAAA 57.373 40.909 0.00 0.00 41.55 2.83
649 662 4.627284 TTTCGAATGGAGGGACTAACAA 57.373 40.909 0.00 0.00 41.55 2.83
650 663 4.837093 ATTTCGAATGGAGGGACTAACA 57.163 40.909 0.00 0.00 41.55 2.41
651 664 5.183228 TCAATTTCGAATGGAGGGACTAAC 58.817 41.667 0.00 0.00 41.55 2.34
652 665 5.429681 TCAATTTCGAATGGAGGGACTAA 57.570 39.130 0.00 0.00 41.55 2.24
653 666 5.630415 ATCAATTTCGAATGGAGGGACTA 57.370 39.130 0.00 0.00 41.55 2.59
655 668 4.640201 TCAATCAATTTCGAATGGAGGGAC 59.360 41.667 0.00 0.00 0.00 4.46
656 669 4.854173 TCAATCAATTTCGAATGGAGGGA 58.146 39.130 0.00 0.00 0.00 4.20
657 670 5.581126 TTCAATCAATTTCGAATGGAGGG 57.419 39.130 0.00 0.00 0.00 4.30
658 671 7.760794 TCAATTTCAATCAATTTCGAATGGAGG 59.239 33.333 0.00 0.00 0.00 4.30
659 672 8.692110 TCAATTTCAATCAATTTCGAATGGAG 57.308 30.769 0.00 0.00 0.00 3.86
660 673 9.656040 ATTCAATTTCAATCAATTTCGAATGGA 57.344 25.926 0.00 0.00 0.00 3.41
661 674 9.697250 CATTCAATTTCAATCAATTTCGAATGG 57.303 29.630 0.00 0.00 34.87 3.16
684 697 9.180678 CTCGCAAAGAAGTTAACAAATTACATT 57.819 29.630 8.61 0.00 0.00 2.71
686 699 6.635239 GCTCGCAAAGAAGTTAACAAATTACA 59.365 34.615 8.61 0.00 0.00 2.41
705 718 3.448686 GCTAAGAAGTTCATAGCTCGCA 58.551 45.455 25.58 0.00 39.71 5.10
751 768 9.485206 GTGTGGAGTTCTAAATAGTTAAAGACA 57.515 33.333 0.00 0.00 0.00 3.41
752 769 8.645487 CGTGTGGAGTTCTAAATAGTTAAAGAC 58.355 37.037 0.00 0.00 0.00 3.01
754 771 8.530269 ACGTGTGGAGTTCTAAATAGTTAAAG 57.470 34.615 0.00 0.00 0.00 1.85
755 772 8.891671 AACGTGTGGAGTTCTAAATAGTTAAA 57.108 30.769 0.00 0.00 0.00 1.52
756 773 8.891671 AAACGTGTGGAGTTCTAAATAGTTAA 57.108 30.769 0.00 0.00 0.00 2.01
757 774 8.143193 TGAAACGTGTGGAGTTCTAAATAGTTA 58.857 33.333 0.00 0.00 0.00 2.24
758 775 6.987992 TGAAACGTGTGGAGTTCTAAATAGTT 59.012 34.615 0.00 0.00 0.00 2.24
759 776 6.518493 TGAAACGTGTGGAGTTCTAAATAGT 58.482 36.000 0.00 0.00 0.00 2.12
760 777 6.645415 ACTGAAACGTGTGGAGTTCTAAATAG 59.355 38.462 0.00 0.00 0.00 1.73
761 778 6.422701 CACTGAAACGTGTGGAGTTCTAAATA 59.577 38.462 0.00 0.00 0.00 1.40
765 782 3.131577 ACACTGAAACGTGTGGAGTTCTA 59.868 43.478 8.41 0.00 45.74 2.10
766 783 2.093658 ACACTGAAACGTGTGGAGTTCT 60.094 45.455 8.41 0.00 45.74 3.01
768 785 2.396590 ACACTGAAACGTGTGGAGTT 57.603 45.000 8.41 0.00 45.74 3.01
777 794 3.362693 GCGAGGAAAGTTACACTGAAACG 60.363 47.826 0.00 0.00 32.00 3.60
782 799 3.807622 TCTTTGCGAGGAAAGTTACACTG 59.192 43.478 14.95 0.00 34.95 3.66
783 800 4.067972 TCTTTGCGAGGAAAGTTACACT 57.932 40.909 14.95 0.00 34.95 3.55
787 804 5.127491 TCCTTTTCTTTGCGAGGAAAGTTA 58.873 37.500 14.95 4.41 45.81 2.24
788 805 3.951680 TCCTTTTCTTTGCGAGGAAAGTT 59.048 39.130 14.95 0.00 45.81 2.66
791 808 4.204012 TCTTCCTTTTCTTTGCGAGGAAA 58.796 39.130 7.13 7.13 45.01 3.13
792 809 3.815809 TCTTCCTTTTCTTTGCGAGGAA 58.184 40.909 0.00 0.00 43.91 3.36
793 810 3.485463 TCTTCCTTTTCTTTGCGAGGA 57.515 42.857 0.00 0.00 36.55 3.71
794 811 3.610349 GCTTCTTCCTTTTCTTTGCGAGG 60.610 47.826 0.00 0.00 0.00 4.63
795 812 3.003689 TGCTTCTTCCTTTTCTTTGCGAG 59.996 43.478 0.00 0.00 0.00 5.03
796 813 2.948979 TGCTTCTTCCTTTTCTTTGCGA 59.051 40.909 0.00 0.00 0.00 5.10
797 814 3.045688 GTGCTTCTTCCTTTTCTTTGCG 58.954 45.455 0.00 0.00 0.00 4.85
798 815 3.384668 GGTGCTTCTTCCTTTTCTTTGC 58.615 45.455 0.00 0.00 0.00 3.68
799 816 3.066760 ACGGTGCTTCTTCCTTTTCTTTG 59.933 43.478 0.00 0.00 0.00 2.77
800 817 3.066760 CACGGTGCTTCTTCCTTTTCTTT 59.933 43.478 0.00 0.00 0.00 2.52
801 818 2.618709 CACGGTGCTTCTTCCTTTTCTT 59.381 45.455 0.00 0.00 0.00 2.52
803 820 1.947456 ACACGGTGCTTCTTCCTTTTC 59.053 47.619 8.30 0.00 0.00 2.29
804 821 2.052782 ACACGGTGCTTCTTCCTTTT 57.947 45.000 8.30 0.00 0.00 2.27
805 822 2.052782 AACACGGTGCTTCTTCCTTT 57.947 45.000 8.30 0.00 0.00 3.11
807 824 3.418684 AATAACACGGTGCTTCTTCCT 57.581 42.857 8.30 0.00 0.00 3.36
809 826 8.515473 AAATAAAAATAACACGGTGCTTCTTC 57.485 30.769 8.30 0.00 0.00 2.87
812 829 8.424731 CAAGAAATAAAAATAACACGGTGCTTC 58.575 33.333 8.30 0.00 0.00 3.86
858 958 1.747355 AGTACGGACACGGAATACAGG 59.253 52.381 0.00 0.00 46.48 4.00
892 1026 1.604604 CAAAGAAGGCGGGTTTCAGA 58.395 50.000 0.00 0.00 0.00 3.27
1066 1207 2.723530 TCTCCTTCTTCACCCTTCCT 57.276 50.000 0.00 0.00 0.00 3.36
1072 1213 1.404851 CCTCGCTTCTCCTTCTTCACC 60.405 57.143 0.00 0.00 0.00 4.02
1074 1215 1.924731 TCCTCGCTTCTCCTTCTTCA 58.075 50.000 0.00 0.00 0.00 3.02
1175 1316 2.829043 TTCGAACATCTCCCACGCCG 62.829 60.000 0.00 0.00 0.00 6.46
1441 1583 5.041191 ACTGATGATCCAACCTACCATTC 57.959 43.478 0.00 0.00 0.00 2.67
1501 1643 1.591327 GCTTGCCCCAAACAACACG 60.591 57.895 0.00 0.00 0.00 4.49
1622 1766 4.121317 CAAGGTGCAATCAAACAACATGT 58.879 39.130 0.00 0.00 0.00 3.21
1671 1815 2.559440 GGACAGAGTGATGCTCATTCC 58.441 52.381 5.48 0.00 46.47 3.01
1710 1854 6.072286 AGTGTCAATCAAGCTAACAAGAATGG 60.072 38.462 0.00 0.00 0.00 3.16
1720 1864 4.627058 TCGTTTCAGTGTCAATCAAGCTA 58.373 39.130 0.00 0.00 0.00 3.32
1745 1889 6.661377 TCCTCATACTTATATCCTGACTGCTC 59.339 42.308 0.00 0.00 0.00 4.26
1746 1890 6.556639 TCCTCATACTTATATCCTGACTGCT 58.443 40.000 0.00 0.00 0.00 4.24
1747 1891 6.627065 GCTCCTCATACTTATATCCTGACTGC 60.627 46.154 0.00 0.00 0.00 4.40
1748 1892 6.663093 AGCTCCTCATACTTATATCCTGACTG 59.337 42.308 0.00 0.00 0.00 3.51
1749 1893 6.799827 AGCTCCTCATACTTATATCCTGACT 58.200 40.000 0.00 0.00 0.00 3.41
1750 1894 7.319646 CAAGCTCCTCATACTTATATCCTGAC 58.680 42.308 0.00 0.00 0.00 3.51
1751 1895 6.071108 GCAAGCTCCTCATACTTATATCCTGA 60.071 42.308 0.00 0.00 0.00 3.86
1752 1896 6.105333 GCAAGCTCCTCATACTTATATCCTG 58.895 44.000 0.00 0.00 0.00 3.86
1754 1898 5.188751 AGGCAAGCTCCTCATACTTATATCC 59.811 44.000 0.00 0.00 0.00 2.59
1774 1946 7.116075 ACAAAATGTATTACTACCATGAGGCA 58.884 34.615 0.00 0.00 39.06 4.75
1815 1987 7.303634 TCTTCGGCTATCAAAACTTCAATAC 57.696 36.000 0.00 0.00 0.00 1.89
1819 1991 8.397906 CAATTATCTTCGGCTATCAAAACTTCA 58.602 33.333 0.00 0.00 0.00 3.02
1936 2108 0.954452 GGTGGCACCAAAGACAAGAG 59.046 55.000 31.26 0.00 38.42 2.85
1944 2116 3.100671 ACTTTGTTAAGGTGGCACCAAA 58.899 40.909 36.28 26.28 41.95 3.28
1976 2148 3.201290 CGACTAGTAGCGTTAGGAGGAA 58.799 50.000 0.00 0.00 0.00 3.36
1985 2157 1.580815 GGCTAGACGACTAGTAGCGT 58.419 55.000 20.36 16.12 45.49 5.07
2015 2187 6.600350 TGTCACTAGAGCGAATATCGTTATC 58.400 40.000 0.00 0.00 42.81 1.75
2022 2194 5.125578 TGTCAGTTGTCACTAGAGCGAATAT 59.874 40.000 0.00 0.00 0.00 1.28
2023 2195 4.457949 TGTCAGTTGTCACTAGAGCGAATA 59.542 41.667 0.00 0.00 0.00 1.75
2072 2244 3.857157 ACTTGGTTTAGAAGCCTCACA 57.143 42.857 0.00 0.00 0.00 3.58
2086 2258 5.574188 AGCAAAAAGGATCAGATACTTGGT 58.426 37.500 8.80 0.19 32.58 3.67
2088 2260 9.118300 AGAATAGCAAAAAGGATCAGATACTTG 57.882 33.333 8.80 0.00 32.58 3.16
2243 2415 0.779997 AAGAAGTCACCTTGGCCCAT 59.220 50.000 0.00 0.00 0.00 4.00
2275 2447 3.120199 CCAACTGGTTTCTGCTGATTACG 60.120 47.826 0.00 0.00 0.00 3.18
2313 2485 7.068839 TGAGAATACTCTCCAGATGTTACCTTC 59.931 40.741 0.00 0.00 46.67 3.46
2379 2551 0.463833 GGGCTTCATGGACCTAACCG 60.464 60.000 0.00 0.00 0.00 4.44
2403 2575 0.965866 GGCTGTTAAAGTGGCTCCCC 60.966 60.000 0.00 0.00 0.00 4.81
2406 2578 0.523519 GCAGGCTGTTAAAGTGGCTC 59.476 55.000 17.16 0.00 34.31 4.70
2502 2674 0.532573 ATGTGACCGACGCAATCTCT 59.467 50.000 0.00 0.00 42.43 3.10
2508 2680 2.431771 CCGAATGTGACCGACGCA 60.432 61.111 0.00 0.00 43.33 5.24
2514 2686 2.047655 TCGCACCCGAATGTGACC 60.048 61.111 4.23 0.00 41.17 4.02
2532 2704 0.319900 TCCTCAGCAAGAACTCACGC 60.320 55.000 0.00 0.00 0.00 5.34
2560 2732 2.650322 ACCTTGTGATTTCGTGTTGGT 58.350 42.857 0.00 0.00 0.00 3.67
2568 2740 2.415512 GTGGCGAGTACCTTGTGATTTC 59.584 50.000 0.00 0.00 0.00 2.17
2624 2992 4.636206 GCATGAGTTAGTTTTACTCCAGGG 59.364 45.833 0.00 0.00 41.02 4.45
2627 2995 5.865085 ACAGCATGAGTTAGTTTTACTCCA 58.135 37.500 0.00 0.00 41.02 3.86
2631 2999 7.861630 TGAAGAACAGCATGAGTTAGTTTTAC 58.138 34.615 0.00 0.00 39.69 2.01
2633 3001 6.942532 TGAAGAACAGCATGAGTTAGTTTT 57.057 33.333 0.00 0.00 39.69 2.43
2639 3008 4.008330 CTGGATGAAGAACAGCATGAGTT 58.992 43.478 0.00 0.00 39.69 3.01
2650 3019 2.864114 GCAGCTGCTGGATGAAGAA 58.136 52.632 31.33 0.00 38.21 2.52
2661 3030 1.654954 CCAGATTCACCAGCAGCTGC 61.655 60.000 31.53 31.53 42.49 5.25
2810 3179 3.816524 CTCGTCGAGGCCGCTCTT 61.817 66.667 14.68 0.00 35.37 2.85
2868 3237 2.563427 GGAGGCAAAGCGAACTGC 59.437 61.111 0.00 0.00 46.98 4.40
2879 3248 1.228552 GCAAAACTGGAGGGAGGCA 60.229 57.895 0.00 0.00 0.00 4.75
2881 3250 2.335712 GCGCAAAACTGGAGGGAGG 61.336 63.158 0.30 0.00 0.00 4.30
2900 3269 3.620300 CTGCACGCAATGGGCACAG 62.620 63.158 0.00 1.54 45.17 3.66
2927 3296 7.288810 AGTTCAAAGCATTATCAAGAAACCA 57.711 32.000 0.00 0.00 0.00 3.67
2934 3303 5.627499 AAGCGAGTTCAAAGCATTATCAA 57.373 34.783 0.00 0.00 0.00 2.57
3004 3373 6.614906 TCCCATTTCCATTACTTTGGCATAAT 59.385 34.615 0.00 0.00 36.66 1.28
3054 3465 4.843220 AACTCATTTGGTCTGCTGAAAG 57.157 40.909 0.00 0.00 0.00 2.62
3055 3466 4.935702 CAAACTCATTTGGTCTGCTGAAA 58.064 39.130 0.00 0.00 41.39 2.69
3056 3467 4.572985 CAAACTCATTTGGTCTGCTGAA 57.427 40.909 0.00 0.00 41.39 3.02
3066 3477 5.895636 TGTATGTAGGCCAAACTCATTTG 57.104 39.130 5.01 0.00 44.19 2.32
3067 3478 8.766994 ATTATGTATGTAGGCCAAACTCATTT 57.233 30.769 5.01 0.11 0.00 2.32
3068 3479 9.860650 TTATTATGTATGTAGGCCAAACTCATT 57.139 29.630 5.01 0.00 0.00 2.57
3069 3480 9.284968 GTTATTATGTATGTAGGCCAAACTCAT 57.715 33.333 5.01 11.26 0.00 2.90
3070 3481 8.268605 TGTTATTATGTATGTAGGCCAAACTCA 58.731 33.333 5.01 4.87 0.00 3.41
3071 3482 8.671384 TGTTATTATGTATGTAGGCCAAACTC 57.329 34.615 5.01 0.00 0.00 3.01
3072 3483 7.719633 CCTGTTATTATGTATGTAGGCCAAACT 59.280 37.037 5.01 0.00 0.00 2.66
3073 3484 7.717875 TCCTGTTATTATGTATGTAGGCCAAAC 59.282 37.037 5.01 2.84 0.00 2.93
3074 3485 7.807198 TCCTGTTATTATGTATGTAGGCCAAA 58.193 34.615 5.01 0.00 0.00 3.28
3075 3486 7.381789 TCCTGTTATTATGTATGTAGGCCAA 57.618 36.000 5.01 0.00 0.00 4.52
3076 3487 7.568128 ATCCTGTTATTATGTATGTAGGCCA 57.432 36.000 5.01 0.00 0.00 5.36
3077 3488 9.953565 TTTATCCTGTTATTATGTATGTAGGCC 57.046 33.333 0.00 0.00 0.00 5.19
3088 3499 9.816354 GGTTGCACATTTTTATCCTGTTATTAT 57.184 29.630 0.00 0.00 0.00 1.28
3089 3500 9.030452 AGGTTGCACATTTTTATCCTGTTATTA 57.970 29.630 0.00 0.00 0.00 0.98
3090 3501 7.818930 CAGGTTGCACATTTTTATCCTGTTATT 59.181 33.333 0.00 0.00 37.16 1.40
3091 3502 7.322664 CAGGTTGCACATTTTTATCCTGTTAT 58.677 34.615 0.00 0.00 37.16 1.89
3092 3503 6.686630 CAGGTTGCACATTTTTATCCTGTTA 58.313 36.000 0.00 0.00 37.16 2.41
3093 3504 5.540911 CAGGTTGCACATTTTTATCCTGTT 58.459 37.500 0.00 0.00 37.16 3.16
3094 3505 4.561326 GCAGGTTGCACATTTTTATCCTGT 60.561 41.667 0.00 0.00 44.26 4.00
3095 3506 3.928375 GCAGGTTGCACATTTTTATCCTG 59.072 43.478 0.00 0.00 44.26 3.86
3096 3507 4.192429 GCAGGTTGCACATTTTTATCCT 57.808 40.909 0.00 0.00 44.26 3.24
3199 3738 5.664815 ACTACTACAGATGAGGGGATGTA 57.335 43.478 0.00 0.00 0.00 2.29
3422 3961 1.676746 GGGCCCCTATTCGAACTTTC 58.323 55.000 12.23 0.00 0.00 2.62
3423 3962 0.107361 CGGGCCCCTATTCGAACTTT 60.107 55.000 18.66 0.00 0.00 2.66
3424 3963 0.979187 TCGGGCCCCTATTCGAACTT 60.979 55.000 18.66 0.00 0.00 2.66
3425 3964 0.979187 TTCGGGCCCCTATTCGAACT 60.979 55.000 18.66 0.00 36.83 3.01
3426 3965 0.532196 CTTCGGGCCCCTATTCGAAC 60.532 60.000 18.66 0.00 36.83 3.95
3442 3981 1.079750 GTGCGGTGGTCCTCTCTTC 60.080 63.158 0.00 0.00 0.00 2.87
3457 3996 2.352715 GGGATTGTTTTGCTACCAGTGC 60.353 50.000 0.00 0.00 0.00 4.40
3521 4060 2.673368 GGAGATAGCAACCGTGTCTTTG 59.327 50.000 0.00 0.00 0.00 2.77
3723 4262 6.000219 AGCTGACAGTTGTGATGTAGAAAAT 59.000 36.000 3.99 0.00 0.00 1.82
3750 4289 9.136323 GTGGATATCTCATTAATTTGACCCTTT 57.864 33.333 2.05 0.00 0.00 3.11


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

AutoCloner maintained by Alex Coulton.