Multiple sequence alignment - TraesCS1D01G280200

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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 TraesCS1D01G280200 chr1D 100.000 3058 0 0 1 3058 378107476 378104419 0.000000e+00 5648
1 TraesCS1D01G280200 chr1B 93.215 2358 96 26 723 3058 505657168 505654853 0.000000e+00 3410
2 TraesCS1D01G280200 chr1B 88.141 312 30 4 4 313 505657613 505657307 6.230000e-97 364
3 TraesCS1D01G280200 chr1A 93.101 1609 76 16 736 2328 478629103 478627514 0.000000e+00 2324
4 TraesCS1D01G280200 chr1A 95.423 721 27 4 2340 3058 478627412 478626696 0.000000e+00 1144
5 TraesCS1D01G280200 chr1A 88.725 204 14 6 4 204 478629628 478629431 1.100000e-59 241


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 TraesCS1D01G280200 chr1D 378104419 378107476 3057 True 5648.000000 5648 100.000000 1 3058 1 chr1D.!!$R1 3057
1 TraesCS1D01G280200 chr1B 505654853 505657613 2760 True 1887.000000 3410 90.678000 4 3058 2 chr1B.!!$R1 3054
2 TraesCS1D01G280200 chr1A 478626696 478629628 2932 True 1236.333333 2324 92.416333 4 3058 3 chr1A.!!$R1 3054

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
424 526 0.249657 GCCTACGAGCATCTTCAGGG 60.25 60.0 0.0 0.0 0.00 4.45 F
425 527 0.249657 CCTACGAGCATCTTCAGGGC 60.25 60.0 0.0 0.0 0.00 5.19 F
1126 1235 0.320160 GGTACCGTTTCTTCACGCCT 60.32 55.0 0.0 0.0 38.93 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1454 1568 0.040058 ATGACCAGCAATGCAGGGAA 59.960 50.0 20.67 8.66 39.6 3.97 R
1455 1569 0.918258 TATGACCAGCAATGCAGGGA 59.082 50.0 20.67 7.32 39.6 4.20 R
2535 2746 0.454196 ACACCAAAACTGCGACAACC 59.546 50.0 0.00 0.00 0.0 3.77 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
354 456 6.624352 CAACATGTTGTAATCCTAGATGGG 57.376 41.667 27.08 0.00 35.92 4.00
368 470 7.825331 TCCTAGATGGGATTATATGATCGAC 57.175 40.000 1.72 0.00 36.20 4.20
371 473 7.444487 CCTAGATGGGATTATATGATCGACGTA 59.556 40.741 1.72 0.00 0.00 3.57
377 479 8.188799 TGGGATTATATGATCGACGTAGAATTC 58.811 37.037 1.49 0.00 33.70 2.17
383 485 6.999956 ATGATCGACGTAGAATTCAGATTG 57.000 37.500 8.44 0.00 0.00 2.67
386 488 2.216488 CGACGTAGAATTCAGATTGCCG 59.784 50.000 8.44 1.65 0.00 5.69
396 498 7.675062 AGAATTCAGATTGCCGATAGTATCTT 58.325 34.615 8.44 0.00 0.00 2.40
422 524 1.850377 CTGCCTACGAGCATCTTCAG 58.150 55.000 0.00 0.00 43.09 3.02
423 525 0.461548 TGCCTACGAGCATCTTCAGG 59.538 55.000 0.00 0.00 38.00 3.86
424 526 0.249657 GCCTACGAGCATCTTCAGGG 60.250 60.000 0.00 0.00 0.00 4.45
425 527 0.249657 CCTACGAGCATCTTCAGGGC 60.250 60.000 0.00 0.00 0.00 5.19
427 529 0.687757 TACGAGCATCTTCAGGGCCT 60.688 55.000 0.00 0.00 0.00 5.19
428 530 1.227497 CGAGCATCTTCAGGGCCTC 60.227 63.158 0.95 0.00 0.00 4.70
429 531 1.684386 CGAGCATCTTCAGGGCCTCT 61.684 60.000 0.95 0.00 0.00 3.69
430 532 0.545646 GAGCATCTTCAGGGCCTCTT 59.454 55.000 0.95 0.00 0.00 2.85
431 533 0.998145 AGCATCTTCAGGGCCTCTTT 59.002 50.000 0.95 0.00 0.00 2.52
432 534 2.171448 GAGCATCTTCAGGGCCTCTTTA 59.829 50.000 0.95 0.00 0.00 1.85
434 536 3.203934 AGCATCTTCAGGGCCTCTTTAAT 59.796 43.478 0.95 0.00 0.00 1.40
435 537 3.956848 GCATCTTCAGGGCCTCTTTAATT 59.043 43.478 0.95 0.00 0.00 1.40
436 538 4.037327 GCATCTTCAGGGCCTCTTTAATTC 59.963 45.833 0.95 0.00 0.00 2.17
440 542 6.074648 TCTTCAGGGCCTCTTTAATTCAAAA 58.925 36.000 0.95 0.00 0.00 2.44
441 543 5.982890 TCAGGGCCTCTTTAATTCAAAAG 57.017 39.130 0.95 0.00 37.73 2.27
442 544 5.640147 TCAGGGCCTCTTTAATTCAAAAGA 58.360 37.500 0.95 3.89 41.90 2.52
443 545 6.256053 TCAGGGCCTCTTTAATTCAAAAGAT 58.744 36.000 0.95 0.00 42.87 2.40
444 546 6.725834 TCAGGGCCTCTTTAATTCAAAAGATT 59.274 34.615 0.95 0.00 42.87 2.40
446 548 7.879677 CAGGGCCTCTTTAATTCAAAAGATTTT 59.120 33.333 0.95 0.00 42.87 1.82
447 549 8.097038 AGGGCCTCTTTAATTCAAAAGATTTTC 58.903 33.333 0.00 0.00 42.87 2.29
449 551 9.440773 GGCCTCTTTAATTCAAAAGATTTTCAT 57.559 29.630 0.00 0.00 42.87 2.57
499 601 9.893305 CTTAAGAAATTTTCCTACATTTGTCGT 57.107 29.630 5.52 0.00 0.00 4.34
502 604 9.594478 AAGAAATTTTCCTACATTTGTCGTTTT 57.406 25.926 5.52 0.00 0.00 2.43
507 609 8.716619 TTTTCCTACATTTGTCGTTTTATTCG 57.283 30.769 0.00 0.00 0.00 3.34
508 610 7.424227 TTCCTACATTTGTCGTTTTATTCGT 57.576 32.000 0.00 0.00 0.00 3.85
509 611 8.531622 TTCCTACATTTGTCGTTTTATTCGTA 57.468 30.769 0.00 0.00 0.00 3.43
510 612 8.176814 TCCTACATTTGTCGTTTTATTCGTAG 57.823 34.615 0.00 0.00 0.00 3.51
511 613 7.276218 TCCTACATTTGTCGTTTTATTCGTAGG 59.724 37.037 0.00 0.00 42.26 3.18
512 614 7.276218 CCTACATTTGTCGTTTTATTCGTAGGA 59.724 37.037 0.00 0.00 43.12 2.94
513 615 7.605410 ACATTTGTCGTTTTATTCGTAGGAT 57.395 32.000 0.00 0.00 0.00 3.24
514 616 8.036273 ACATTTGTCGTTTTATTCGTAGGATT 57.964 30.769 0.00 0.00 0.00 3.01
515 617 7.960738 ACATTTGTCGTTTTATTCGTAGGATTG 59.039 33.333 0.00 0.00 0.00 2.67
516 618 7.655236 TTTGTCGTTTTATTCGTAGGATTGA 57.345 32.000 0.00 0.00 0.00 2.57
517 619 6.880822 TGTCGTTTTATTCGTAGGATTGAG 57.119 37.500 0.00 0.00 0.00 3.02
518 620 6.392354 TGTCGTTTTATTCGTAGGATTGAGT 58.608 36.000 0.00 0.00 0.00 3.41
519 621 6.529125 TGTCGTTTTATTCGTAGGATTGAGTC 59.471 38.462 0.00 0.00 0.00 3.36
532 634 5.841957 GGATTGAGTCCTACATGCATTTT 57.158 39.130 0.00 0.00 44.16 1.82
533 635 6.212888 GGATTGAGTCCTACATGCATTTTT 57.787 37.500 0.00 0.00 44.16 1.94
534 636 6.268566 GGATTGAGTCCTACATGCATTTTTC 58.731 40.000 0.00 0.00 44.16 2.29
535 637 5.643379 TTGAGTCCTACATGCATTTTTCC 57.357 39.130 0.00 0.00 0.00 3.13
536 638 4.922206 TGAGTCCTACATGCATTTTTCCT 58.078 39.130 0.00 0.00 0.00 3.36
537 639 6.061022 TGAGTCCTACATGCATTTTTCCTA 57.939 37.500 0.00 0.00 0.00 2.94
538 640 6.480763 TGAGTCCTACATGCATTTTTCCTAA 58.519 36.000 0.00 0.00 0.00 2.69
539 641 6.599244 TGAGTCCTACATGCATTTTTCCTAAG 59.401 38.462 0.00 0.00 0.00 2.18
540 642 5.888161 AGTCCTACATGCATTTTTCCTAAGG 59.112 40.000 0.00 0.00 0.00 2.69
541 643 5.885912 GTCCTACATGCATTTTTCCTAAGGA 59.114 40.000 0.00 0.00 0.00 3.36
542 644 6.547510 GTCCTACATGCATTTTTCCTAAGGAT 59.452 38.462 0.00 0.00 32.42 3.24
543 645 7.068716 GTCCTACATGCATTTTTCCTAAGGATT 59.931 37.037 0.00 0.00 32.42 3.01
544 646 7.285401 TCCTACATGCATTTTTCCTAAGGATTC 59.715 37.037 0.00 0.00 0.00 2.52
545 647 6.855763 ACATGCATTTTTCCTAAGGATTCA 57.144 33.333 0.00 0.00 0.00 2.57
546 648 7.427989 ACATGCATTTTTCCTAAGGATTCAT 57.572 32.000 0.00 0.00 0.00 2.57
547 649 7.495055 ACATGCATTTTTCCTAAGGATTCATC 58.505 34.615 0.00 0.00 0.00 2.92
548 650 7.343833 ACATGCATTTTTCCTAAGGATTCATCT 59.656 33.333 0.00 0.00 0.00 2.90
549 651 7.104043 TGCATTTTTCCTAAGGATTCATCTG 57.896 36.000 0.00 0.00 0.00 2.90
550 652 6.664816 TGCATTTTTCCTAAGGATTCATCTGT 59.335 34.615 0.00 0.00 0.00 3.41
551 653 7.833682 TGCATTTTTCCTAAGGATTCATCTGTA 59.166 33.333 0.00 0.00 0.00 2.74
552 654 8.131731 GCATTTTTCCTAAGGATTCATCTGTAC 58.868 37.037 0.00 0.00 0.00 2.90
553 655 8.624776 CATTTTTCCTAAGGATTCATCTGTACC 58.375 37.037 0.00 0.00 0.00 3.34
554 656 6.884472 TTTCCTAAGGATTCATCTGTACCA 57.116 37.500 0.00 0.00 0.00 3.25
555 657 6.485830 TTCCTAAGGATTCATCTGTACCAG 57.514 41.667 0.00 0.00 0.00 4.00
556 658 5.777449 TCCTAAGGATTCATCTGTACCAGA 58.223 41.667 0.00 0.00 44.99 3.86
582 684 8.691661 TTTTATAGAAATTCTAGCATCCACCC 57.308 34.615 8.78 0.00 31.67 4.61
583 685 7.633018 TTATAGAAATTCTAGCATCCACCCT 57.367 36.000 8.78 0.00 31.67 4.34
584 686 8.736097 TTATAGAAATTCTAGCATCCACCCTA 57.264 34.615 8.78 0.00 31.67 3.53
585 687 5.975988 AGAAATTCTAGCATCCACCCTAA 57.024 39.130 0.00 0.00 0.00 2.69
586 688 5.685728 AGAAATTCTAGCATCCACCCTAAC 58.314 41.667 0.00 0.00 0.00 2.34
587 689 4.439253 AATTCTAGCATCCACCCTAACC 57.561 45.455 0.00 0.00 0.00 2.85
588 690 2.868964 TCTAGCATCCACCCTAACCT 57.131 50.000 0.00 0.00 0.00 3.50
589 691 2.679082 TCTAGCATCCACCCTAACCTC 58.321 52.381 0.00 0.00 0.00 3.85
590 692 2.247635 TCTAGCATCCACCCTAACCTCT 59.752 50.000 0.00 0.00 0.00 3.69
591 693 1.972588 AGCATCCACCCTAACCTCTT 58.027 50.000 0.00 0.00 0.00 2.85
592 694 1.561542 AGCATCCACCCTAACCTCTTG 59.438 52.381 0.00 0.00 0.00 3.02
593 695 1.408822 GCATCCACCCTAACCTCTTGG 60.409 57.143 0.00 0.00 39.83 3.61
594 696 2.196595 CATCCACCCTAACCTCTTGGA 58.803 52.381 0.00 0.00 40.61 3.53
595 697 2.426431 TCCACCCTAACCTCTTGGAA 57.574 50.000 0.00 0.00 33.31 3.53
596 698 2.708759 TCCACCCTAACCTCTTGGAAA 58.291 47.619 0.00 0.00 33.31 3.13
597 699 2.374170 TCCACCCTAACCTCTTGGAAAC 59.626 50.000 0.00 0.00 33.31 2.78
598 700 2.107552 CCACCCTAACCTCTTGGAAACA 59.892 50.000 0.00 0.00 37.04 2.83
634 736 8.115491 TCTCGTGATATAATCAAACAAACTCG 57.885 34.615 0.00 0.00 41.69 4.18
635 737 7.971722 TCTCGTGATATAATCAAACAAACTCGA 59.028 33.333 0.00 0.00 41.69 4.04
636 738 8.468720 TCGTGATATAATCAAACAAACTCGAA 57.531 30.769 0.00 0.00 41.69 3.71
637 739 9.093970 TCGTGATATAATCAAACAAACTCGAAT 57.906 29.630 0.00 0.00 41.69 3.34
638 740 9.358123 CGTGATATAATCAAACAAACTCGAATC 57.642 33.333 0.00 0.00 41.69 2.52
639 741 9.651718 GTGATATAATCAAACAAACTCGAATCC 57.348 33.333 0.00 0.00 41.69 3.01
640 742 9.613428 TGATATAATCAAACAAACTCGAATCCT 57.387 29.630 0.00 0.00 36.11 3.24
646 748 9.667107 AATCAAACAAACTCGAATCCTATAGAA 57.333 29.630 0.00 0.00 0.00 2.10
647 749 9.667107 ATCAAACAAACTCGAATCCTATAGAAA 57.333 29.630 0.00 0.00 0.00 2.52
648 750 9.667107 TCAAACAAACTCGAATCCTATAGAAAT 57.333 29.630 0.00 0.00 0.00 2.17
649 751 9.922305 CAAACAAACTCGAATCCTATAGAAATC 57.078 33.333 0.00 0.00 0.00 2.17
650 752 8.664211 AACAAACTCGAATCCTATAGAAATCC 57.336 34.615 0.00 0.00 0.00 3.01
651 753 7.792032 ACAAACTCGAATCCTATAGAAATCCA 58.208 34.615 0.00 0.00 0.00 3.41
652 754 8.265055 ACAAACTCGAATCCTATAGAAATCCAA 58.735 33.333 0.00 0.00 0.00 3.53
653 755 9.277783 CAAACTCGAATCCTATAGAAATCCAAT 57.722 33.333 0.00 0.00 0.00 3.16
654 756 9.853177 AAACTCGAATCCTATAGAAATCCAATT 57.147 29.630 0.00 0.00 0.00 2.32
655 757 8.839310 ACTCGAATCCTATAGAAATCCAATTG 57.161 34.615 0.00 0.00 0.00 2.32
656 758 7.880195 ACTCGAATCCTATAGAAATCCAATTGG 59.120 37.037 19.08 19.08 0.00 3.16
657 759 6.655003 TCGAATCCTATAGAAATCCAATTGGC 59.345 38.462 20.33 5.64 34.44 4.52
658 760 6.430925 CGAATCCTATAGAAATCCAATTGGCA 59.569 38.462 20.33 9.23 34.44 4.92
659 761 7.121759 CGAATCCTATAGAAATCCAATTGGCAT 59.878 37.037 20.33 11.14 34.44 4.40
660 762 7.713734 ATCCTATAGAAATCCAATTGGCATG 57.286 36.000 20.33 0.00 34.44 4.06
661 763 6.613699 TCCTATAGAAATCCAATTGGCATGT 58.386 36.000 20.33 9.22 34.44 3.21
662 764 6.716628 TCCTATAGAAATCCAATTGGCATGTC 59.283 38.462 20.33 16.75 34.44 3.06
663 765 6.491062 CCTATAGAAATCCAATTGGCATGTCA 59.509 38.462 20.33 0.00 34.44 3.58
664 766 6.989155 ATAGAAATCCAATTGGCATGTCAT 57.011 33.333 20.33 3.86 34.44 3.06
665 767 5.687166 AGAAATCCAATTGGCATGTCATT 57.313 34.783 20.33 10.07 34.44 2.57
666 768 5.667466 AGAAATCCAATTGGCATGTCATTC 58.333 37.500 20.33 13.87 34.44 2.67
667 769 5.424252 AGAAATCCAATTGGCATGTCATTCT 59.576 36.000 20.33 15.57 34.44 2.40
668 770 6.608405 AGAAATCCAATTGGCATGTCATTCTA 59.392 34.615 20.33 0.00 34.44 2.10
669 771 6.795144 AATCCAATTGGCATGTCATTCTAA 57.205 33.333 20.33 0.00 34.44 2.10
670 772 6.989155 ATCCAATTGGCATGTCATTCTAAT 57.011 33.333 20.33 0.02 34.44 1.73
671 773 8.481492 AATCCAATTGGCATGTCATTCTAATA 57.519 30.769 20.33 0.00 34.44 0.98
672 774 8.660295 ATCCAATTGGCATGTCATTCTAATAT 57.340 30.769 20.33 0.00 34.44 1.28
673 775 8.481492 TCCAATTGGCATGTCATTCTAATATT 57.519 30.769 20.33 0.00 34.44 1.28
674 776 9.585369 TCCAATTGGCATGTCATTCTAATATTA 57.415 29.630 20.33 0.00 34.44 0.98
675 777 9.630098 CCAATTGGCATGTCATTCTAATATTAC 57.370 33.333 12.53 0.00 0.00 1.89
699 801 8.621532 ACATTTCTTCTATTACTCTGTTTGCA 57.378 30.769 0.00 0.00 0.00 4.08
700 802 8.725148 ACATTTCTTCTATTACTCTGTTTGCAG 58.275 33.333 0.00 0.00 43.87 4.41
701 803 8.725148 CATTTCTTCTATTACTCTGTTTGCAGT 58.275 33.333 0.00 0.00 43.05 4.40
702 804 9.944376 ATTTCTTCTATTACTCTGTTTGCAGTA 57.056 29.630 0.00 0.00 43.05 2.74
703 805 9.944376 TTTCTTCTATTACTCTGTTTGCAGTAT 57.056 29.630 0.00 0.00 43.05 2.12
704 806 9.944376 TTCTTCTATTACTCTGTTTGCAGTATT 57.056 29.630 0.00 0.00 43.05 1.89
705 807 9.371136 TCTTCTATTACTCTGTTTGCAGTATTG 57.629 33.333 0.00 0.00 43.05 1.90
718 820 3.945179 GCAGTATTGCGAATCAAAGAGG 58.055 45.455 0.00 0.00 41.13 3.69
719 821 3.242870 GCAGTATTGCGAATCAAAGAGGG 60.243 47.826 0.00 0.00 41.13 4.30
720 822 3.941483 CAGTATTGCGAATCAAAGAGGGT 59.059 43.478 0.00 0.00 38.34 4.34
721 823 4.034510 CAGTATTGCGAATCAAAGAGGGTC 59.965 45.833 0.00 0.00 38.34 4.46
722 824 2.859165 TTGCGAATCAAAGAGGGTCT 57.141 45.000 0.00 0.00 0.00 3.85
723 825 2.386661 TGCGAATCAAAGAGGGTCTC 57.613 50.000 0.00 0.00 0.00 3.36
724 826 1.623311 TGCGAATCAAAGAGGGTCTCA 59.377 47.619 0.00 0.00 32.06 3.27
725 827 2.038426 TGCGAATCAAAGAGGGTCTCAA 59.962 45.455 0.00 0.00 32.06 3.02
726 828 3.074412 GCGAATCAAAGAGGGTCTCAAA 58.926 45.455 0.00 0.00 32.06 2.69
727 829 3.502211 GCGAATCAAAGAGGGTCTCAAAA 59.498 43.478 0.00 0.00 32.06 2.44
728 830 4.378874 GCGAATCAAAGAGGGTCTCAAAAG 60.379 45.833 0.00 0.00 32.06 2.27
729 831 4.997395 CGAATCAAAGAGGGTCTCAAAAGA 59.003 41.667 0.00 0.00 32.06 2.52
730 832 5.470098 CGAATCAAAGAGGGTCTCAAAAGAA 59.530 40.000 0.00 0.00 31.93 2.52
731 833 6.017109 CGAATCAAAGAGGGTCTCAAAAGAAA 60.017 38.462 0.00 0.00 31.93 2.52
732 834 7.468631 CGAATCAAAGAGGGTCTCAAAAGAAAA 60.469 37.037 0.00 0.00 31.93 2.29
733 835 6.699575 TCAAAGAGGGTCTCAAAAGAAAAG 57.300 37.500 0.00 0.00 31.93 2.27
734 836 5.594317 TCAAAGAGGGTCTCAAAAGAAAAGG 59.406 40.000 0.00 0.00 31.93 3.11
746 848 3.672767 AAGAAAAGGAAATGCTGCCTG 57.327 42.857 0.00 0.00 34.00 4.85
747 849 1.274447 AGAAAAGGAAATGCTGCCTGC 59.726 47.619 0.00 0.00 43.25 4.85
772 874 0.523072 CAAATGGCACTCTTCCCGTG 59.477 55.000 0.00 0.00 35.53 4.94
1076 1185 1.022451 GCGGCCAACGGATACTTCAA 61.022 55.000 2.24 0.00 44.51 2.69
1126 1235 0.320160 GGTACCGTTTCTTCACGCCT 60.320 55.000 0.00 0.00 38.93 5.52
1142 1255 3.432252 CACGCCTTCTTTACGATCTGTTT 59.568 43.478 0.00 0.00 0.00 2.83
1163 1277 1.094785 GTCGTGAATTGGGGATGTGG 58.905 55.000 0.00 0.00 0.00 4.17
1184 1298 4.058817 GGTTCGGCGATTTTGATATCTCT 58.941 43.478 11.76 0.00 0.00 3.10
1185 1299 4.150804 GGTTCGGCGATTTTGATATCTCTC 59.849 45.833 11.76 0.00 0.00 3.20
1186 1300 3.914312 TCGGCGATTTTGATATCTCTCC 58.086 45.455 4.99 0.00 0.00 3.71
1200 1314 1.743321 CTCTCCATCTCCTGCCCGAC 61.743 65.000 0.00 0.00 0.00 4.79
1207 1321 0.608640 TCTCCTGCCCGACTCTTTTC 59.391 55.000 0.00 0.00 0.00 2.29
1209 1323 0.836400 TCCTGCCCGACTCTTTTCCT 60.836 55.000 0.00 0.00 0.00 3.36
1210 1324 0.391793 CCTGCCCGACTCTTTTCCTC 60.392 60.000 0.00 0.00 0.00 3.71
1211 1325 0.610687 CTGCCCGACTCTTTTCCTCT 59.389 55.000 0.00 0.00 0.00 3.69
1266 1380 3.570926 AGTTTCGTGATCAGCGAGTTA 57.429 42.857 16.18 4.34 39.61 2.24
1274 1388 5.237779 TCGTGATCAGCGAGTTATGTATGTA 59.762 40.000 13.87 0.00 34.11 2.29
1282 1396 7.010091 TCAGCGAGTTATGTATGTATGTTGTTG 59.990 37.037 0.00 0.00 0.00 3.33
1417 1531 2.846532 CCCAAAGGGCAGAGTGGT 59.153 61.111 0.00 0.00 35.35 4.16
1454 1568 5.780793 GGTAGTTGTGGGATATCCTGTCTAT 59.219 44.000 21.18 6.93 36.20 1.98
1455 1569 6.270231 GGTAGTTGTGGGATATCCTGTCTATT 59.730 42.308 21.18 8.33 36.20 1.73
1470 1584 1.565759 TCTATTCCCTGCATTGCTGGT 59.434 47.619 26.80 15.00 44.45 4.00
1476 1590 1.611977 CCCTGCATTGCTGGTCATATG 59.388 52.381 26.80 11.44 44.45 1.78
1497 1611 9.086336 CATATGATGTTAAATTTGTGAACACCC 57.914 33.333 7.07 4.27 35.99 4.61
1553 1671 5.773575 TGTGTGAGTTCTTCTACTGATGTC 58.226 41.667 0.00 0.00 0.00 3.06
1599 1717 5.759763 GGGAATTTGGGCAATTGATTGATAC 59.240 40.000 10.34 0.00 40.14 2.24
1602 1720 6.707440 ATTTGGGCAATTGATTGATACGTA 57.293 33.333 10.34 0.00 40.14 3.57
1603 1721 6.707440 TTTGGGCAATTGATTGATACGTAT 57.293 33.333 10.34 8.05 40.14 3.06
1604 1722 5.687770 TGGGCAATTGATTGATACGTATG 57.312 39.130 13.97 0.00 40.14 2.39
1605 1723 5.129634 TGGGCAATTGATTGATACGTATGT 58.870 37.500 13.97 0.00 40.14 2.29
1664 1782 2.852714 TTCCAGATGCCAAATCCCAT 57.147 45.000 0.00 0.00 0.00 4.00
1695 1813 4.382345 ACTATAGGTCGTGTTGCTTACC 57.618 45.455 4.43 0.00 0.00 2.85
1815 1933 3.057736 ACACAAGCAAGCTGATGAATCAC 60.058 43.478 11.47 0.00 32.50 3.06
2045 2166 7.827819 TGACTATAATTTTCTGTCAGGTTCG 57.172 36.000 0.00 0.00 33.45 3.95
2267 2388 5.452777 GTCCATGTTTTGACAGAGTTAAGC 58.547 41.667 0.00 0.00 0.00 3.09
2338 2549 8.015087 CGTTTGTTACAAAATAGAGCTGATTGA 58.985 33.333 12.37 0.00 0.00 2.57
2413 2624 4.951715 TGCAATCAACTAAGGCTCATTCAT 59.048 37.500 0.00 0.00 0.00 2.57
2428 2639 9.193806 AGGCTCATTCATTTTTGTAATCTATGT 57.806 29.630 0.00 0.00 0.00 2.29
2453 2664 0.248289 GACTGCCCTTAGCCGTAACA 59.752 55.000 0.00 0.00 39.28 2.41
2514 2725 8.158169 ACACACACATAATATGATTCATGGAC 57.842 34.615 7.33 0.00 0.00 4.02
2848 3060 9.914834 AACCTTGTTATTAATATTGCTCCTACA 57.085 29.630 0.00 0.00 0.00 2.74
2897 3109 9.069078 CATCATGACATGAATTTACTGTTTGTC 57.931 33.333 21.52 0.00 43.50 3.18
2943 3155 3.127030 CGGTGCATTTCTAAGTTCCCTTC 59.873 47.826 0.00 0.00 31.89 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
354 456 9.989869 TCTGAATTCTACGTCGATCATATAATC 57.010 33.333 7.05 0.00 0.00 1.75
368 470 5.223382 ACTATCGGCAATCTGAATTCTACG 58.777 41.667 7.05 1.57 0.00 3.51
371 473 7.238486 AGATACTATCGGCAATCTGAATTCT 57.762 36.000 7.05 0.00 0.00 2.40
377 479 5.139435 TGGAAGATACTATCGGCAATCTG 57.861 43.478 0.00 0.00 0.00 2.90
383 485 3.681897 CAGCATTGGAAGATACTATCGGC 59.318 47.826 0.00 0.00 0.00 5.54
386 488 4.904241 AGGCAGCATTGGAAGATACTATC 58.096 43.478 0.00 0.00 0.00 2.08
396 498 1.153369 GCTCGTAGGCAGCATTGGA 60.153 57.895 0.00 0.00 36.82 3.53
422 524 7.877612 TGAAAATCTTTTGAATTAAAGAGGCCC 59.122 33.333 0.00 0.00 44.72 5.80
423 525 8.831715 TGAAAATCTTTTGAATTAAAGAGGCC 57.168 30.769 8.85 0.00 44.72 5.19
473 575 9.893305 ACGACAAATGTAGGAAAATTTCTTAAG 57.107 29.630 5.65 0.00 0.00 1.85
476 578 9.594478 AAAACGACAAATGTAGGAAAATTTCTT 57.406 25.926 5.65 0.29 0.00 2.52
481 583 9.337091 CGAATAAAACGACAAATGTAGGAAAAT 57.663 29.630 0.00 0.00 0.00 1.82
482 584 8.344098 ACGAATAAAACGACAAATGTAGGAAAA 58.656 29.630 0.00 0.00 34.70 2.29
483 585 7.863666 ACGAATAAAACGACAAATGTAGGAAA 58.136 30.769 0.00 0.00 34.70 3.13
484 586 7.424227 ACGAATAAAACGACAAATGTAGGAA 57.576 32.000 0.00 0.00 34.70 3.36
485 587 7.276218 CCTACGAATAAAACGACAAATGTAGGA 59.724 37.037 0.00 0.00 44.99 2.94
486 588 7.276218 TCCTACGAATAAAACGACAAATGTAGG 59.724 37.037 0.00 0.00 44.06 3.18
487 589 8.176814 TCCTACGAATAAAACGACAAATGTAG 57.823 34.615 0.00 0.00 34.70 2.74
488 590 8.706492 ATCCTACGAATAAAACGACAAATGTA 57.294 30.769 0.00 0.00 34.70 2.29
489 591 7.605410 ATCCTACGAATAAAACGACAAATGT 57.395 32.000 0.00 0.00 34.70 2.71
490 592 8.172484 TCAATCCTACGAATAAAACGACAAATG 58.828 33.333 0.00 0.00 34.70 2.32
491 593 8.259049 TCAATCCTACGAATAAAACGACAAAT 57.741 30.769 0.00 0.00 34.70 2.32
492 594 7.385752 ACTCAATCCTACGAATAAAACGACAAA 59.614 33.333 0.00 0.00 34.70 2.83
493 595 6.869913 ACTCAATCCTACGAATAAAACGACAA 59.130 34.615 0.00 0.00 34.70 3.18
494 596 6.392354 ACTCAATCCTACGAATAAAACGACA 58.608 36.000 0.00 0.00 34.70 4.35
495 597 6.020041 GGACTCAATCCTACGAATAAAACGAC 60.020 42.308 0.00 0.00 45.22 4.34
496 598 6.038356 GGACTCAATCCTACGAATAAAACGA 58.962 40.000 0.00 0.00 45.22 3.85
497 599 6.270096 GGACTCAATCCTACGAATAAAACG 57.730 41.667 0.00 0.00 45.22 3.60
511 613 6.096001 AGGAAAAATGCATGTAGGACTCAATC 59.904 38.462 0.00 0.00 0.00 2.67
512 614 5.954150 AGGAAAAATGCATGTAGGACTCAAT 59.046 36.000 0.00 0.00 0.00 2.57
513 615 5.324409 AGGAAAAATGCATGTAGGACTCAA 58.676 37.500 0.00 0.00 0.00 3.02
514 616 4.922206 AGGAAAAATGCATGTAGGACTCA 58.078 39.130 0.00 0.00 0.00 3.41
515 617 6.038714 CCTTAGGAAAAATGCATGTAGGACTC 59.961 42.308 0.00 0.00 0.00 3.36
516 618 5.888161 CCTTAGGAAAAATGCATGTAGGACT 59.112 40.000 0.00 0.00 0.00 3.85
517 619 5.885912 TCCTTAGGAAAAATGCATGTAGGAC 59.114 40.000 0.00 0.00 0.00 3.85
518 620 6.073447 TCCTTAGGAAAAATGCATGTAGGA 57.927 37.500 0.00 0.00 0.00 2.94
519 621 6.966534 ATCCTTAGGAAAAATGCATGTAGG 57.033 37.500 4.56 0.00 34.34 3.18
520 622 7.999679 TGAATCCTTAGGAAAAATGCATGTAG 58.000 34.615 4.56 0.00 34.34 2.74
521 623 7.953005 TGAATCCTTAGGAAAAATGCATGTA 57.047 32.000 4.56 0.00 34.34 2.29
522 624 6.855763 TGAATCCTTAGGAAAAATGCATGT 57.144 33.333 4.56 0.00 34.34 3.21
523 625 7.652105 CAGATGAATCCTTAGGAAAAATGCATG 59.348 37.037 4.56 0.00 34.34 4.06
524 626 7.343833 ACAGATGAATCCTTAGGAAAAATGCAT 59.656 33.333 4.56 0.00 34.34 3.96
525 627 6.664816 ACAGATGAATCCTTAGGAAAAATGCA 59.335 34.615 4.56 0.00 34.34 3.96
526 628 7.105241 ACAGATGAATCCTTAGGAAAAATGC 57.895 36.000 4.56 0.00 34.34 3.56
527 629 8.624776 GGTACAGATGAATCCTTAGGAAAAATG 58.375 37.037 4.56 2.76 34.34 2.32
528 630 8.336235 TGGTACAGATGAATCCTTAGGAAAAAT 58.664 33.333 4.56 0.00 34.34 1.82
529 631 7.695055 TGGTACAGATGAATCCTTAGGAAAAA 58.305 34.615 4.56 0.00 34.34 1.94
530 632 7.265599 TGGTACAGATGAATCCTTAGGAAAA 57.734 36.000 4.56 0.00 34.34 2.29
531 633 6.884472 TGGTACAGATGAATCCTTAGGAAA 57.116 37.500 4.56 0.00 34.34 3.13
556 658 9.301897 GGGTGGATGCTAGAATTTCTATAAAAT 57.698 33.333 6.59 0.00 0.00 1.82
557 659 8.502738 AGGGTGGATGCTAGAATTTCTATAAAA 58.497 33.333 6.59 0.00 0.00 1.52
558 660 8.045720 AGGGTGGATGCTAGAATTTCTATAAA 57.954 34.615 6.59 0.00 0.00 1.40
559 661 7.633018 AGGGTGGATGCTAGAATTTCTATAA 57.367 36.000 6.59 0.00 0.00 0.98
560 662 8.594550 GTTAGGGTGGATGCTAGAATTTCTATA 58.405 37.037 6.59 0.69 0.00 1.31
561 663 7.454225 GTTAGGGTGGATGCTAGAATTTCTAT 58.546 38.462 6.59 0.00 0.00 1.98
562 664 6.183361 GGTTAGGGTGGATGCTAGAATTTCTA 60.183 42.308 6.01 6.01 0.00 2.10
563 665 5.398012 GGTTAGGGTGGATGCTAGAATTTCT 60.398 44.000 4.03 4.03 0.00 2.52
564 666 4.822350 GGTTAGGGTGGATGCTAGAATTTC 59.178 45.833 0.00 0.00 0.00 2.17
565 667 4.478686 AGGTTAGGGTGGATGCTAGAATTT 59.521 41.667 0.00 0.00 0.00 1.82
566 668 4.047883 AGGTTAGGGTGGATGCTAGAATT 58.952 43.478 0.00 0.00 0.00 2.17
567 669 3.648545 GAGGTTAGGGTGGATGCTAGAAT 59.351 47.826 0.00 0.00 0.00 2.40
568 670 3.039011 GAGGTTAGGGTGGATGCTAGAA 58.961 50.000 0.00 0.00 0.00 2.10
569 671 2.247635 AGAGGTTAGGGTGGATGCTAGA 59.752 50.000 0.00 0.00 0.00 2.43
570 672 2.683768 AGAGGTTAGGGTGGATGCTAG 58.316 52.381 0.00 0.00 0.00 3.42
571 673 2.771943 CAAGAGGTTAGGGTGGATGCTA 59.228 50.000 0.00 0.00 0.00 3.49
572 674 1.561542 CAAGAGGTTAGGGTGGATGCT 59.438 52.381 0.00 0.00 0.00 3.79
573 675 1.408822 CCAAGAGGTTAGGGTGGATGC 60.409 57.143 0.00 0.00 0.00 3.91
574 676 2.196595 TCCAAGAGGTTAGGGTGGATG 58.803 52.381 0.00 0.00 33.43 3.51
575 677 2.661176 TCCAAGAGGTTAGGGTGGAT 57.339 50.000 0.00 0.00 33.43 3.41
576 678 2.374170 GTTTCCAAGAGGTTAGGGTGGA 59.626 50.000 0.00 0.00 36.59 4.02
577 679 2.107552 TGTTTCCAAGAGGTTAGGGTGG 59.892 50.000 0.00 0.00 35.89 4.61
578 680 3.502123 TGTTTCCAAGAGGTTAGGGTG 57.498 47.619 0.00 0.00 35.89 4.61
579 681 4.529716 TTTGTTTCCAAGAGGTTAGGGT 57.470 40.909 0.00 0.00 35.89 4.34
580 682 6.183360 ACAAATTTGTTTCCAAGAGGTTAGGG 60.183 38.462 18.13 0.00 38.47 3.53
581 683 6.816136 ACAAATTTGTTTCCAAGAGGTTAGG 58.184 36.000 18.13 0.00 38.47 2.69
608 710 8.592155 CGAGTTTGTTTGATTATATCACGAGAA 58.408 33.333 0.00 0.00 39.39 2.87
609 711 7.971722 TCGAGTTTGTTTGATTATATCACGAGA 59.028 33.333 0.00 0.00 39.39 4.04
610 712 8.115491 TCGAGTTTGTTTGATTATATCACGAG 57.885 34.615 0.00 0.00 39.39 4.18
611 713 8.468720 TTCGAGTTTGTTTGATTATATCACGA 57.531 30.769 0.00 0.00 39.39 4.35
612 714 9.358123 GATTCGAGTTTGTTTGATTATATCACG 57.642 33.333 0.00 0.00 39.39 4.35
613 715 9.651718 GGATTCGAGTTTGTTTGATTATATCAC 57.348 33.333 0.00 0.00 39.39 3.06
614 716 9.613428 AGGATTCGAGTTTGTTTGATTATATCA 57.387 29.630 0.00 0.00 37.55 2.15
620 722 9.667107 TTCTATAGGATTCGAGTTTGTTTGATT 57.333 29.630 0.00 0.00 0.00 2.57
621 723 9.667107 TTTCTATAGGATTCGAGTTTGTTTGAT 57.333 29.630 0.00 0.00 0.00 2.57
622 724 9.667107 ATTTCTATAGGATTCGAGTTTGTTTGA 57.333 29.630 0.00 0.00 0.00 2.69
623 725 9.922305 GATTTCTATAGGATTCGAGTTTGTTTG 57.078 33.333 0.00 0.00 0.00 2.93
624 726 9.110502 GGATTTCTATAGGATTCGAGTTTGTTT 57.889 33.333 0.00 0.00 0.00 2.83
625 727 8.265055 TGGATTTCTATAGGATTCGAGTTTGTT 58.735 33.333 0.00 0.00 0.00 2.83
626 728 7.792032 TGGATTTCTATAGGATTCGAGTTTGT 58.208 34.615 0.00 0.00 0.00 2.83
627 729 8.662781 TTGGATTTCTATAGGATTCGAGTTTG 57.337 34.615 0.00 0.00 0.00 2.93
628 730 9.853177 AATTGGATTTCTATAGGATTCGAGTTT 57.147 29.630 0.00 0.00 0.00 2.66
629 731 9.277783 CAATTGGATTTCTATAGGATTCGAGTT 57.722 33.333 0.00 0.00 0.00 3.01
630 732 7.880195 CCAATTGGATTTCTATAGGATTCGAGT 59.120 37.037 20.50 0.00 37.39 4.18
631 733 7.148340 GCCAATTGGATTTCTATAGGATTCGAG 60.148 40.741 29.02 0.00 37.39 4.04
632 734 6.655003 GCCAATTGGATTTCTATAGGATTCGA 59.345 38.462 29.02 0.00 37.39 3.71
633 735 6.430925 TGCCAATTGGATTTCTATAGGATTCG 59.569 38.462 29.02 0.00 37.39 3.34
634 736 7.765695 TGCCAATTGGATTTCTATAGGATTC 57.234 36.000 29.02 4.72 37.39 2.52
635 737 7.731688 ACATGCCAATTGGATTTCTATAGGATT 59.268 33.333 29.02 0.00 37.39 3.01
636 738 7.243824 ACATGCCAATTGGATTTCTATAGGAT 58.756 34.615 29.02 0.41 37.39 3.24
637 739 6.613699 ACATGCCAATTGGATTTCTATAGGA 58.386 36.000 29.02 0.00 37.39 2.94
638 740 6.491062 TGACATGCCAATTGGATTTCTATAGG 59.509 38.462 29.02 7.02 37.39 2.57
639 741 7.514784 TGACATGCCAATTGGATTTCTATAG 57.485 36.000 29.02 8.53 37.39 1.31
640 742 8.481492 AATGACATGCCAATTGGATTTCTATA 57.519 30.769 29.02 6.91 37.39 1.31
641 743 6.989155 ATGACATGCCAATTGGATTTCTAT 57.011 33.333 29.02 11.59 37.39 1.98
642 744 6.608405 AGAATGACATGCCAATTGGATTTCTA 59.392 34.615 29.02 9.76 37.39 2.10
643 745 5.424252 AGAATGACATGCCAATTGGATTTCT 59.576 36.000 29.02 17.81 37.39 2.52
644 746 5.667466 AGAATGACATGCCAATTGGATTTC 58.333 37.500 29.02 18.72 37.39 2.17
645 747 5.687166 AGAATGACATGCCAATTGGATTT 57.313 34.783 29.02 11.37 37.39 2.17
646 748 6.795144 TTAGAATGACATGCCAATTGGATT 57.205 33.333 29.02 16.66 37.39 3.01
647 749 6.989155 ATTAGAATGACATGCCAATTGGAT 57.011 33.333 29.02 15.11 37.39 3.41
648 750 8.481492 AATATTAGAATGACATGCCAATTGGA 57.519 30.769 29.02 13.44 37.39 3.53
649 751 9.630098 GTAATATTAGAATGACATGCCAATTGG 57.370 33.333 20.81 20.81 38.53 3.16
673 775 9.719355 TGCAAACAGAGTAATAGAAGAAATGTA 57.281 29.630 0.00 0.00 0.00 2.29
674 776 8.621532 TGCAAACAGAGTAATAGAAGAAATGT 57.378 30.769 0.00 0.00 0.00 2.71
697 799 3.242870 CCCTCTTTGATTCGCAATACTGC 60.243 47.826 0.00 0.00 45.75 4.40
698 800 3.941483 ACCCTCTTTGATTCGCAATACTG 59.059 43.478 0.00 0.00 36.15 2.74
699 801 4.080863 AGACCCTCTTTGATTCGCAATACT 60.081 41.667 0.00 0.00 36.15 2.12
700 802 4.192317 AGACCCTCTTTGATTCGCAATAC 58.808 43.478 0.00 0.00 36.15 1.89
701 803 4.081142 TGAGACCCTCTTTGATTCGCAATA 60.081 41.667 0.00 0.00 36.15 1.90
702 804 3.274288 GAGACCCTCTTTGATTCGCAAT 58.726 45.455 0.00 0.00 36.15 3.56
703 805 2.038426 TGAGACCCTCTTTGATTCGCAA 59.962 45.455 0.00 0.00 33.88 4.85
704 806 1.623311 TGAGACCCTCTTTGATTCGCA 59.377 47.619 0.00 0.00 0.00 5.10
705 807 2.386661 TGAGACCCTCTTTGATTCGC 57.613 50.000 0.00 0.00 0.00 4.70
706 808 4.997395 TCTTTTGAGACCCTCTTTGATTCG 59.003 41.667 0.00 0.00 0.00 3.34
707 809 6.884280 TTCTTTTGAGACCCTCTTTGATTC 57.116 37.500 0.00 0.00 0.00 2.52
708 810 7.201947 CCTTTTCTTTTGAGACCCTCTTTGATT 60.202 37.037 0.00 0.00 0.00 2.57
709 811 6.266330 CCTTTTCTTTTGAGACCCTCTTTGAT 59.734 38.462 0.00 0.00 0.00 2.57
710 812 5.594317 CCTTTTCTTTTGAGACCCTCTTTGA 59.406 40.000 0.00 0.00 0.00 2.69
711 813 5.594317 TCCTTTTCTTTTGAGACCCTCTTTG 59.406 40.000 0.00 0.00 0.00 2.77
712 814 5.766590 TCCTTTTCTTTTGAGACCCTCTTT 58.233 37.500 0.00 0.00 0.00 2.52
713 815 5.388599 TCCTTTTCTTTTGAGACCCTCTT 57.611 39.130 0.00 0.00 0.00 2.85
714 816 5.388599 TTCCTTTTCTTTTGAGACCCTCT 57.611 39.130 0.00 0.00 0.00 3.69
715 817 6.450545 CATTTCCTTTTCTTTTGAGACCCTC 58.549 40.000 0.00 0.00 0.00 4.30
716 818 5.221521 GCATTTCCTTTTCTTTTGAGACCCT 60.222 40.000 0.00 0.00 0.00 4.34
717 819 4.991056 GCATTTCCTTTTCTTTTGAGACCC 59.009 41.667 0.00 0.00 0.00 4.46
718 820 5.693555 CAGCATTTCCTTTTCTTTTGAGACC 59.306 40.000 0.00 0.00 0.00 3.85
719 821 5.176406 GCAGCATTTCCTTTTCTTTTGAGAC 59.824 40.000 0.00 0.00 0.00 3.36
720 822 5.291971 GCAGCATTTCCTTTTCTTTTGAGA 58.708 37.500 0.00 0.00 0.00 3.27
721 823 4.450080 GGCAGCATTTCCTTTTCTTTTGAG 59.550 41.667 0.00 0.00 0.00 3.02
722 824 4.101430 AGGCAGCATTTCCTTTTCTTTTGA 59.899 37.500 0.00 0.00 0.00 2.69
723 825 4.212636 CAGGCAGCATTTCCTTTTCTTTTG 59.787 41.667 0.00 0.00 0.00 2.44
724 826 4.383173 CAGGCAGCATTTCCTTTTCTTTT 58.617 39.130 0.00 0.00 0.00 2.27
725 827 3.804759 GCAGGCAGCATTTCCTTTTCTTT 60.805 43.478 0.00 0.00 44.79 2.52
726 828 2.289257 GCAGGCAGCATTTCCTTTTCTT 60.289 45.455 0.00 0.00 44.79 2.52
727 829 1.274447 GCAGGCAGCATTTCCTTTTCT 59.726 47.619 0.00 0.00 44.79 2.52
728 830 1.718396 GCAGGCAGCATTTCCTTTTC 58.282 50.000 0.00 0.00 44.79 2.29
729 831 0.037975 CGCAGGCAGCATTTCCTTTT 60.038 50.000 1.96 0.00 46.13 2.27
730 832 0.895100 TCGCAGGCAGCATTTCCTTT 60.895 50.000 1.96 0.00 46.13 3.11
731 833 0.895100 TTCGCAGGCAGCATTTCCTT 60.895 50.000 1.96 0.00 46.13 3.36
732 834 0.895100 TTTCGCAGGCAGCATTTCCT 60.895 50.000 1.96 0.00 46.13 3.36
733 835 0.457337 CTTTCGCAGGCAGCATTTCC 60.457 55.000 1.96 0.00 46.13 3.13
734 836 1.074872 GCTTTCGCAGGCAGCATTTC 61.075 55.000 1.96 0.00 46.13 2.17
746 848 0.242017 AGAGTGCCATTTGCTTTCGC 59.758 50.000 0.00 0.00 42.00 4.70
747 849 2.589014 GAAGAGTGCCATTTGCTTTCG 58.411 47.619 0.00 0.00 42.00 3.46
772 874 2.100916 TCGTAAGATACAGAAGGGCTGC 59.899 50.000 0.00 0.00 45.74 5.25
1126 1235 6.671190 TCACGACTAAACAGATCGTAAAGAA 58.329 36.000 0.00 0.00 46.76 2.52
1142 1255 2.093181 CCACATCCCCAATTCACGACTA 60.093 50.000 0.00 0.00 0.00 2.59
1163 1277 4.150804 GGAGAGATATCAAAATCGCCGAAC 59.849 45.833 5.32 0.00 0.00 3.95
1184 1298 1.758514 GAGTCGGGCAGGAGATGGA 60.759 63.158 0.00 0.00 0.00 3.41
1185 1299 1.333636 AAGAGTCGGGCAGGAGATGG 61.334 60.000 0.00 0.00 0.00 3.51
1186 1300 0.539051 AAAGAGTCGGGCAGGAGATG 59.461 55.000 0.00 0.00 0.00 2.90
1200 1314 5.993106 AACGAACTCAAAGAGGAAAAGAG 57.007 39.130 0.00 0.00 33.35 2.85
1207 1321 4.315803 ACCACATAACGAACTCAAAGAGG 58.684 43.478 0.00 0.00 33.35 3.69
1209 1323 6.518493 AGTAACCACATAACGAACTCAAAGA 58.482 36.000 0.00 0.00 0.00 2.52
1210 1324 6.780706 AGTAACCACATAACGAACTCAAAG 57.219 37.500 0.00 0.00 0.00 2.77
1211 1325 8.836268 ATTAGTAACCACATAACGAACTCAAA 57.164 30.769 0.00 0.00 0.00 2.69
1274 1388 7.277539 CCAAACAGATGTTTACAACAACAACAT 59.722 33.333 10.43 0.00 45.54 2.71
1282 1396 7.039993 AGGTATTCCCAAACAGATGTTTACAAC 60.040 37.037 10.43 4.51 45.54 3.32
1417 1531 1.799157 AACTACCTGCAATGCCCCCA 61.799 55.000 1.53 0.00 0.00 4.96
1454 1568 0.040058 ATGACCAGCAATGCAGGGAA 59.960 50.000 20.67 8.66 39.60 3.97
1455 1569 0.918258 TATGACCAGCAATGCAGGGA 59.082 50.000 20.67 7.32 39.60 4.20
1470 1584 9.853555 GGTGTTCACAAATTTAACATCATATGA 57.146 29.630 8.10 8.10 34.94 2.15
1529 1644 5.777802 ACATCAGTAGAAGAACTCACACAG 58.222 41.667 0.00 0.00 0.00 3.66
1533 1648 5.298197 TCGACATCAGTAGAAGAACTCAC 57.702 43.478 0.00 0.00 0.00 3.51
1599 1717 7.541091 AGTTAGTTCACTGTTGTATCACATACG 59.459 37.037 0.00 0.00 38.59 3.06
1602 1720 7.658179 CAGTTAGTTCACTGTTGTATCACAT 57.342 36.000 0.00 0.00 39.59 3.21
1695 1813 8.764287 GTTTGGATAAAACTGTTTTCCATCTTG 58.236 33.333 21.26 0.00 44.10 3.02
1815 1933 4.320494 GCAGTTTCAGTGTACATTTCTGGG 60.320 45.833 10.97 0.00 0.00 4.45
1886 2007 5.611374 ACTGGATTGGACATATAGGAAACG 58.389 41.667 0.00 0.00 0.00 3.60
2267 2388 7.568199 TTCTCCCAGAGAAAAACAGTTTTAG 57.432 36.000 11.76 3.53 44.37 1.85
2338 2549 7.436118 TCGTGTACCTTGTACAAAAGACTAAT 58.564 34.615 10.03 0.00 0.00 1.73
2413 2624 6.432783 CAGTCCACCCACATAGATTACAAAAA 59.567 38.462 0.00 0.00 0.00 1.94
2453 2664 2.507471 GGAGATCAAGAGTGGGTTGGAT 59.493 50.000 0.00 0.00 0.00 3.41
2535 2746 0.454196 ACACCAAAACTGCGACAACC 59.546 50.000 0.00 0.00 0.00 3.77
2710 2922 2.059541 GTCACTCGTTACAAGGCTGTC 58.940 52.381 0.00 0.00 36.96 3.51
2897 3109 1.737838 TTAACCATTGCCAGCTCTCG 58.262 50.000 0.00 0.00 0.00 4.04
2920 3132 2.039879 AGGGAACTTAGAAATGCACCGT 59.960 45.455 0.00 0.00 37.44 4.83
2943 3155 2.048316 GCCAACCGGTTGCCATTG 60.048 61.111 36.83 24.98 39.16 2.82


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

AutoCloner maintained by Alex Coulton.