Multiple sequence alignment - TraesCS7B01G129600

Loading Multiple Alignment...

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 TraesCS7B01G129600 chr7B 100.000 4007 0 0 1 4007 155465822 155469828 0 7400
1 TraesCS7B01G129600 chr7B 93.396 530 22 8 1 520 467256153 467255627 0 773
2 TraesCS7B01G129600 chr7B 93.220 531 17 10 1 517 713959314 713959839 0 763
3 TraesCS7B01G129600 chr7B 92.664 518 29 5 1 512 28684371 28683857 0 737
4 TraesCS7B01G129600 chr7D 95.801 3334 96 14 690 4007 192366826 192370131 0 5341
5 TraesCS7B01G129600 chr7A 95.996 3072 97 11 949 4007 201982606 201985664 0 4968
6 TraesCS7B01G129600 chr4D 92.081 644 34 2 3294 3937 167197875 167197249 0 891
7 TraesCS7B01G129600 chr5B 94.595 518 20 5 1 512 689870831 689871346 0 795
8 TraesCS7B01G129600 chr5B 94.208 518 20 7 1 512 545282667 545283180 0 782
9 TraesCS7B01G129600 chr1B 93.103 522 22 7 3 512 540877298 540877817 0 752
10 TraesCS7B01G129600 chr2B 91.651 539 26 9 1 524 626646437 626646971 0 728
11 TraesCS7B01G129600 chr3B 91.386 534 30 9 1 520 85238383 85237852 0 717
12 TraesCS7B01G129600 chr3A 91.429 525 28 7 1 512 697588582 697589102 0 704


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 TraesCS7B01G129600 chr7B 155465822 155469828 4006 False 7400 7400 100.000 1 4007 1 chr7B.!!$F1 4006
1 TraesCS7B01G129600 chr7B 467255627 467256153 526 True 773 773 93.396 1 520 1 chr7B.!!$R2 519
2 TraesCS7B01G129600 chr7B 713959314 713959839 525 False 763 763 93.220 1 517 1 chr7B.!!$F2 516
3 TraesCS7B01G129600 chr7B 28683857 28684371 514 True 737 737 92.664 1 512 1 chr7B.!!$R1 511
4 TraesCS7B01G129600 chr7D 192366826 192370131 3305 False 5341 5341 95.801 690 4007 1 chr7D.!!$F1 3317
5 TraesCS7B01G129600 chr7A 201982606 201985664 3058 False 4968 4968 95.996 949 4007 1 chr7A.!!$F1 3058
6 TraesCS7B01G129600 chr4D 167197249 167197875 626 True 891 891 92.081 3294 3937 1 chr4D.!!$R1 643
7 TraesCS7B01G129600 chr5B 689870831 689871346 515 False 795 795 94.595 1 512 1 chr5B.!!$F2 511
8 TraesCS7B01G129600 chr5B 545282667 545283180 513 False 782 782 94.208 1 512 1 chr5B.!!$F1 511
9 TraesCS7B01G129600 chr1B 540877298 540877817 519 False 752 752 93.103 3 512 1 chr1B.!!$F1 509
10 TraesCS7B01G129600 chr2B 626646437 626646971 534 False 728 728 91.651 1 524 1 chr2B.!!$F1 523
11 TraesCS7B01G129600 chr3B 85237852 85238383 531 True 717 717 91.386 1 520 1 chr3B.!!$R1 519
12 TraesCS7B01G129600 chr3A 697588582 697589102 520 False 704 704 91.429 1 512 1 chr3A.!!$F1 511

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
671 706 0.179000 CTACATCCTGACCTGGGCAC 59.821 60.0 0.00 0.0 0.0 5.01 F
688 723 0.738389 CACGTGGCTGTCAACCTTTT 59.262 50.0 7.95 0.0 0.0 2.27 F
2074 2123 0.812811 CAGATGCGGGGATGTCACAG 60.813 60.0 0.00 0.0 0.0 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1665 1714 0.039618 GGATTTGCTTCCCACCAGGA 59.960 55.000 0.00 0.0 45.68 3.86 R
2229 2278 1.675641 GGCCCTTAGCACACTGGTG 60.676 63.158 0.00 0.0 46.50 4.17 R
3738 3792 1.064389 GCAAATAGGGGCCAGACTTCT 60.064 52.381 4.39 0.0 0.00 2.85 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
32 33 4.241555 CCCTAGAATGGGCGCGCT 62.242 66.667 32.29 11.46 40.84 5.92
49 50 1.269723 CGCTAGGACTCCATTGCGATA 59.730 52.381 18.49 0.00 39.54 2.92
372 394 8.556213 AACTACTTTTTATCATAACTTCGCCA 57.444 30.769 0.00 0.00 0.00 5.69
431 465 4.717313 GGTGACCAACTCGCCCCC 62.717 72.222 0.00 0.00 43.11 5.40
432 466 3.948719 GTGACCAACTCGCCCCCA 61.949 66.667 0.00 0.00 0.00 4.96
516 551 1.549203 GGCTGAAAATGCCCTCAAGA 58.451 50.000 0.00 0.00 44.32 3.02
517 552 1.895131 GGCTGAAAATGCCCTCAAGAA 59.105 47.619 0.00 0.00 44.32 2.52
518 553 2.094338 GGCTGAAAATGCCCTCAAGAAG 60.094 50.000 0.00 0.00 44.32 2.85
519 554 2.673326 GCTGAAAATGCCCTCAAGAAGC 60.673 50.000 0.00 0.00 0.00 3.86
520 555 2.824341 CTGAAAATGCCCTCAAGAAGCT 59.176 45.455 0.00 0.00 0.00 3.74
521 556 2.821969 TGAAAATGCCCTCAAGAAGCTC 59.178 45.455 0.00 0.00 0.00 4.09
522 557 2.895242 AAATGCCCTCAAGAAGCTCT 57.105 45.000 0.00 0.00 0.00 4.09
523 558 4.263462 TGAAAATGCCCTCAAGAAGCTCTA 60.263 41.667 0.00 0.00 0.00 2.43
524 559 4.516652 AAATGCCCTCAAGAAGCTCTAT 57.483 40.909 0.00 0.00 0.00 1.98
525 560 4.516652 AATGCCCTCAAGAAGCTCTATT 57.483 40.909 0.00 0.00 0.00 1.73
526 561 3.272574 TGCCCTCAAGAAGCTCTATTG 57.727 47.619 0.00 0.00 0.00 1.90
527 562 2.092753 TGCCCTCAAGAAGCTCTATTGG 60.093 50.000 0.00 0.00 0.00 3.16
528 563 2.171448 GCCCTCAAGAAGCTCTATTGGA 59.829 50.000 0.00 0.00 0.00 3.53
529 564 3.181446 GCCCTCAAGAAGCTCTATTGGAT 60.181 47.826 0.00 0.00 0.00 3.41
530 565 4.640364 CCCTCAAGAAGCTCTATTGGATC 58.360 47.826 0.00 0.00 0.00 3.36
531 566 4.504689 CCCTCAAGAAGCTCTATTGGATCC 60.505 50.000 4.20 4.20 0.00 3.36
532 567 4.102210 CCTCAAGAAGCTCTATTGGATCCA 59.898 45.833 11.44 11.44 0.00 3.41
533 568 5.028549 TCAAGAAGCTCTATTGGATCCAC 57.971 43.478 15.91 1.12 0.00 4.02
534 569 4.471025 TCAAGAAGCTCTATTGGATCCACA 59.529 41.667 15.91 6.51 0.00 4.17
535 570 5.131642 TCAAGAAGCTCTATTGGATCCACAT 59.868 40.000 15.91 13.56 0.00 3.21
536 571 6.327365 TCAAGAAGCTCTATTGGATCCACATA 59.673 38.462 15.91 13.95 0.00 2.29
537 572 6.753913 AGAAGCTCTATTGGATCCACATAA 57.246 37.500 15.91 0.00 0.00 1.90
538 573 7.141758 AGAAGCTCTATTGGATCCACATAAA 57.858 36.000 15.91 0.00 0.00 1.40
539 574 7.222872 AGAAGCTCTATTGGATCCACATAAAG 58.777 38.462 15.91 12.32 0.00 1.85
540 575 6.753913 AGCTCTATTGGATCCACATAAAGA 57.246 37.500 15.91 11.55 0.00 2.52
541 576 7.327064 AGCTCTATTGGATCCACATAAAGAT 57.673 36.000 15.91 7.92 0.00 2.40
542 577 7.166851 AGCTCTATTGGATCCACATAAAGATG 58.833 38.462 15.91 8.05 39.16 2.90
544 579 7.446625 GCTCTATTGGATCCACATAAAGATGTT 59.553 37.037 15.91 0.00 44.18 2.71
545 580 8.681486 TCTATTGGATCCACATAAAGATGTTG 57.319 34.615 15.91 2.48 44.18 3.33
546 581 5.581126 TTGGATCCACATAAAGATGTTGC 57.419 39.130 15.91 0.00 44.18 4.17
547 582 3.953612 TGGATCCACATAAAGATGTTGCC 59.046 43.478 11.44 0.00 44.18 4.52
548 583 3.003689 GGATCCACATAAAGATGTTGCCG 59.996 47.826 6.95 0.00 44.18 5.69
549 584 1.742831 TCCACATAAAGATGTTGCCGC 59.257 47.619 0.00 0.00 44.18 6.53
550 585 1.202290 CCACATAAAGATGTTGCCGCC 60.202 52.381 0.00 0.00 44.18 6.13
551 586 0.732571 ACATAAAGATGTTGCCGCCG 59.267 50.000 0.00 0.00 44.18 6.46
552 587 1.013596 CATAAAGATGTTGCCGCCGA 58.986 50.000 0.00 0.00 0.00 5.54
553 588 1.400142 CATAAAGATGTTGCCGCCGAA 59.600 47.619 0.00 0.00 0.00 4.30
554 589 1.083489 TAAAGATGTTGCCGCCGAAG 58.917 50.000 0.00 0.00 0.00 3.79
575 610 7.865707 CGAAGGATCACAAAATAAGAATAGGG 58.134 38.462 0.00 0.00 0.00 3.53
576 611 7.041098 CGAAGGATCACAAAATAAGAATAGGGG 60.041 40.741 0.00 0.00 0.00 4.79
577 612 7.465900 AGGATCACAAAATAAGAATAGGGGA 57.534 36.000 0.00 0.00 0.00 4.81
578 613 8.061890 AGGATCACAAAATAAGAATAGGGGAT 57.938 34.615 0.00 0.00 0.00 3.85
579 614 8.166726 AGGATCACAAAATAAGAATAGGGGATC 58.833 37.037 0.00 0.00 0.00 3.36
580 615 7.944554 GGATCACAAAATAAGAATAGGGGATCA 59.055 37.037 0.00 0.00 0.00 2.92
581 616 8.930846 ATCACAAAATAAGAATAGGGGATCAG 57.069 34.615 0.00 0.00 0.00 2.90
582 617 6.772716 TCACAAAATAAGAATAGGGGATCAGC 59.227 38.462 0.00 0.00 0.00 4.26
583 618 6.774656 CACAAAATAAGAATAGGGGATCAGCT 59.225 38.462 0.00 0.00 0.00 4.24
584 619 7.939039 CACAAAATAAGAATAGGGGATCAGCTA 59.061 37.037 0.00 0.00 0.00 3.32
585 620 8.502738 ACAAAATAAGAATAGGGGATCAGCTAA 58.497 33.333 0.00 0.00 0.00 3.09
586 621 9.007901 CAAAATAAGAATAGGGGATCAGCTAAG 57.992 37.037 0.00 0.00 0.00 2.18
587 622 7.880265 AATAAGAATAGGGGATCAGCTAAGT 57.120 36.000 0.00 0.00 0.00 2.24
588 623 5.559148 AAGAATAGGGGATCAGCTAAGTG 57.441 43.478 0.00 0.00 0.00 3.16
589 624 3.326297 AGAATAGGGGATCAGCTAAGTGC 59.674 47.826 0.00 0.00 43.29 4.40
600 635 2.381725 GCTAAGTGCGGTTAACTCCT 57.618 50.000 5.42 0.00 0.00 3.69
601 636 2.269172 GCTAAGTGCGGTTAACTCCTC 58.731 52.381 5.42 0.00 0.00 3.71
602 637 2.353406 GCTAAGTGCGGTTAACTCCTCA 60.353 50.000 5.42 0.00 0.00 3.86
603 638 2.922740 AAGTGCGGTTAACTCCTCAA 57.077 45.000 5.42 0.00 0.00 3.02
604 639 2.922740 AGTGCGGTTAACTCCTCAAA 57.077 45.000 5.42 0.00 0.00 2.69
605 640 3.202829 AGTGCGGTTAACTCCTCAAAA 57.797 42.857 5.42 0.00 0.00 2.44
606 641 2.876550 AGTGCGGTTAACTCCTCAAAAC 59.123 45.455 5.42 0.00 0.00 2.43
607 642 2.031420 GTGCGGTTAACTCCTCAAAACC 60.031 50.000 5.42 0.00 38.40 3.27
608 643 2.223745 GCGGTTAACTCCTCAAAACCA 58.776 47.619 5.42 0.00 41.20 3.67
609 644 2.817844 GCGGTTAACTCCTCAAAACCAT 59.182 45.455 5.42 0.00 41.20 3.55
610 645 3.254903 GCGGTTAACTCCTCAAAACCATT 59.745 43.478 5.42 0.00 41.20 3.16
611 646 4.261867 GCGGTTAACTCCTCAAAACCATTT 60.262 41.667 5.42 0.00 41.20 2.32
612 647 5.737922 GCGGTTAACTCCTCAAAACCATTTT 60.738 40.000 5.42 0.00 41.20 1.82
613 648 6.277605 CGGTTAACTCCTCAAAACCATTTTT 58.722 36.000 5.42 0.00 41.20 1.94
638 673 9.810545 TTTTTGAGACCTTAGTTGTTTTAATGG 57.189 29.630 0.00 0.00 0.00 3.16
639 674 8.754991 TTTGAGACCTTAGTTGTTTTAATGGA 57.245 30.769 0.00 0.00 0.00 3.41
640 675 8.934023 TTGAGACCTTAGTTGTTTTAATGGAT 57.066 30.769 0.00 0.00 0.00 3.41
641 676 8.561738 TGAGACCTTAGTTGTTTTAATGGATC 57.438 34.615 0.00 0.00 0.00 3.36
642 677 7.333423 TGAGACCTTAGTTGTTTTAATGGATCG 59.667 37.037 0.00 0.00 0.00 3.69
643 678 7.166167 AGACCTTAGTTGTTTTAATGGATCGT 58.834 34.615 0.00 0.00 0.00 3.73
644 679 7.664318 AGACCTTAGTTGTTTTAATGGATCGTT 59.336 33.333 0.00 0.00 0.00 3.85
645 680 8.173542 ACCTTAGTTGTTTTAATGGATCGTTT 57.826 30.769 0.00 0.00 0.00 3.60
646 681 9.287373 ACCTTAGTTGTTTTAATGGATCGTTTA 57.713 29.630 0.00 0.00 0.00 2.01
647 682 9.769093 CCTTAGTTGTTTTAATGGATCGTTTAG 57.231 33.333 0.00 0.00 0.00 1.85
650 685 8.617290 AGTTGTTTTAATGGATCGTTTAGAGT 57.383 30.769 0.00 0.00 0.00 3.24
651 686 8.718734 AGTTGTTTTAATGGATCGTTTAGAGTC 58.281 33.333 0.00 0.00 0.00 3.36
652 687 7.605410 TGTTTTAATGGATCGTTTAGAGTCC 57.395 36.000 0.00 0.00 0.00 3.85
653 688 7.391620 TGTTTTAATGGATCGTTTAGAGTCCT 58.608 34.615 0.00 0.00 31.82 3.85
654 689 8.533657 TGTTTTAATGGATCGTTTAGAGTCCTA 58.466 33.333 0.00 0.00 31.82 2.94
655 690 8.815189 GTTTTAATGGATCGTTTAGAGTCCTAC 58.185 37.037 0.00 0.00 31.82 3.18
656 691 7.649533 TTAATGGATCGTTTAGAGTCCTACA 57.350 36.000 0.00 0.00 31.82 2.74
657 692 6.732896 AATGGATCGTTTAGAGTCCTACAT 57.267 37.500 0.00 0.00 31.82 2.29
658 693 5.769484 TGGATCGTTTAGAGTCCTACATC 57.231 43.478 0.00 0.00 31.82 3.06
659 694 4.583489 TGGATCGTTTAGAGTCCTACATCC 59.417 45.833 0.00 0.00 31.82 3.51
660 695 4.828387 GGATCGTTTAGAGTCCTACATCCT 59.172 45.833 0.00 0.00 0.00 3.24
661 696 5.278561 GGATCGTTTAGAGTCCTACATCCTG 60.279 48.000 0.00 0.00 0.00 3.86
662 697 4.851843 TCGTTTAGAGTCCTACATCCTGA 58.148 43.478 0.00 0.00 0.00 3.86
663 698 4.639310 TCGTTTAGAGTCCTACATCCTGAC 59.361 45.833 0.00 0.00 0.00 3.51
664 699 4.202030 CGTTTAGAGTCCTACATCCTGACC 60.202 50.000 0.00 0.00 0.00 4.02
665 700 4.883021 TTAGAGTCCTACATCCTGACCT 57.117 45.455 0.00 0.00 0.00 3.85
666 701 3.025322 AGAGTCCTACATCCTGACCTG 57.975 52.381 0.00 0.00 0.00 4.00
667 702 2.035632 GAGTCCTACATCCTGACCTGG 58.964 57.143 0.00 0.00 0.00 4.45
668 703 1.123928 GTCCTACATCCTGACCTGGG 58.876 60.000 0.00 0.00 0.00 4.45
669 704 0.691078 TCCTACATCCTGACCTGGGC 60.691 60.000 0.00 0.00 0.00 5.36
670 705 0.982852 CCTACATCCTGACCTGGGCA 60.983 60.000 0.34 0.34 0.00 5.36
671 706 0.179000 CTACATCCTGACCTGGGCAC 59.821 60.000 0.00 0.00 0.00 5.01
672 707 1.613317 TACATCCTGACCTGGGCACG 61.613 60.000 0.00 0.00 0.00 5.34
673 708 2.607750 ATCCTGACCTGGGCACGT 60.608 61.111 0.00 0.00 0.00 4.49
674 709 2.959484 ATCCTGACCTGGGCACGTG 61.959 63.158 12.28 12.28 0.00 4.49
675 710 4.704833 CCTGACCTGGGCACGTGG 62.705 72.222 18.88 1.92 0.00 4.94
681 716 4.624364 CTGGGCACGTGGCTGTCA 62.624 66.667 36.61 26.02 44.01 3.58
682 717 4.182433 TGGGCACGTGGCTGTCAA 62.182 61.111 36.61 17.52 44.01 3.18
683 718 3.660111 GGGCACGTGGCTGTCAAC 61.660 66.667 36.61 18.58 44.01 3.18
684 719 3.660111 GGCACGTGGCTGTCAACC 61.660 66.667 32.54 11.68 44.01 3.77
685 720 2.591715 GCACGTGGCTGTCAACCT 60.592 61.111 18.88 0.00 40.25 3.50
686 721 2.186826 GCACGTGGCTGTCAACCTT 61.187 57.895 18.88 0.00 40.25 3.50
687 722 1.724582 GCACGTGGCTGTCAACCTTT 61.725 55.000 18.88 0.00 40.25 3.11
688 723 0.738389 CACGTGGCTGTCAACCTTTT 59.262 50.000 7.95 0.00 0.00 2.27
711 746 9.985730 TTTTTGTCTGATTTTATTTCTCATGCT 57.014 25.926 0.00 0.00 0.00 3.79
712 747 9.630098 TTTTGTCTGATTTTATTTCTCATGCTC 57.370 29.630 0.00 0.00 0.00 4.26
724 759 7.934855 ATTTCTCATGCTCTTGTAAATGACT 57.065 32.000 0.00 0.00 0.00 3.41
730 765 3.058293 TGCTCTTGTAAATGACTTTGCGG 60.058 43.478 0.00 0.00 30.38 5.69
773 808 9.000018 GTCTTGATGTTATAAAGAAACATTCGC 58.000 33.333 3.23 0.00 45.24 4.70
830 869 2.558359 GCCATTGCTTGTGTTTCCTACT 59.442 45.455 0.00 0.00 33.53 2.57
831 870 3.005791 GCCATTGCTTGTGTTTCCTACTT 59.994 43.478 0.00 0.00 33.53 2.24
832 871 4.501400 GCCATTGCTTGTGTTTCCTACTTT 60.501 41.667 0.00 0.00 33.53 2.66
833 872 5.600696 CCATTGCTTGTGTTTCCTACTTTT 58.399 37.500 0.00 0.00 0.00 2.27
834 873 6.048509 CCATTGCTTGTGTTTCCTACTTTTT 58.951 36.000 0.00 0.00 0.00 1.94
931 970 1.121240 CGAGCGTATTTAGGTCTGCG 58.879 55.000 0.00 0.00 34.29 5.18
932 971 1.488527 GAGCGTATTTAGGTCTGCGG 58.511 55.000 0.00 0.00 33.73 5.69
1110 1159 3.560025 CCATCTACCTCTGCAACAACCTT 60.560 47.826 0.00 0.00 0.00 3.50
1126 1175 2.938838 ACCTTCTCCTCTCCTACATCG 58.061 52.381 0.00 0.00 0.00 3.84
1272 1321 1.460504 TCTCCGACATGCTTCGTAGT 58.539 50.000 5.17 0.00 37.29 2.73
1314 1363 2.027625 CCCCAACTCGTTCGTGCTC 61.028 63.158 0.00 0.00 0.00 4.26
1353 1402 1.525995 CACCCGTGCCAAAGACACT 60.526 57.895 0.00 0.00 35.84 3.55
1425 1474 4.329545 GAGAGTGTTGCGGGGGCA 62.330 66.667 0.00 0.00 0.00 5.36
1665 1714 1.985473 TTGATGCACCTGAGTTGCTT 58.015 45.000 3.11 0.00 0.00 3.91
1686 1735 1.620524 CCTGGTGGGAAGCAAATCCAT 60.621 52.381 5.69 0.00 41.55 3.41
1707 1756 1.959282 GGCTGCTTATTGAAGATGGGG 59.041 52.381 0.00 0.00 34.25 4.96
1764 1813 1.996292 CGATGTATGGTAGATGCGGG 58.004 55.000 0.00 0.00 0.00 6.13
1961 2010 4.437390 GCAGGTTTGTTCATCATTAGGACG 60.437 45.833 0.00 0.00 0.00 4.79
1969 2018 2.362397 TCATCATTAGGACGGCTGAGAC 59.638 50.000 0.00 0.00 0.00 3.36
2061 2110 4.818546 ACTATCACTGTTTATGGCAGATGC 59.181 41.667 0.00 0.00 37.40 3.91
2074 2123 0.812811 CAGATGCGGGGATGTCACAG 60.813 60.000 0.00 0.00 0.00 3.66
2097 2146 7.118390 ACAGGTGCAGAGATTATATTTAATCGC 59.882 37.037 10.29 10.29 45.59 4.58
2145 2194 5.373222 TGGACGGCATTATTAACTTGCTAT 58.627 37.500 0.00 0.00 36.62 2.97
2148 2197 4.821805 ACGGCATTATTAACTTGCTATGCT 59.178 37.500 0.00 0.00 38.64 3.79
2229 2278 1.943340 GGATCTCCCGTCTTTTGCATC 59.057 52.381 0.00 0.00 0.00 3.91
2375 2424 1.569493 CCAAGTGCGGAAGTGTTCG 59.431 57.895 0.00 0.00 0.00 3.95
2439 2488 7.889589 CATTATCTCGTGGAATGCACTAATA 57.110 36.000 2.94 0.00 0.00 0.98
2615 2664 5.883115 TCAAACTGATGAACACCAAGTACAA 59.117 36.000 0.00 0.00 0.00 2.41
2716 2765 6.458751 CGAGTTTATTGATGCTATGCCTTGTT 60.459 38.462 0.00 0.00 0.00 2.83
2725 2774 2.484770 GCTATGCCTTGTTATCCGGACA 60.485 50.000 6.12 0.00 0.00 4.02
2820 2869 8.518702 GCAAAGAAGATTCTTGAAATAAGACCT 58.481 33.333 8.53 0.00 46.22 3.85
2910 2959 4.610680 GCTTGGAATCGTACTGTGTTTGAC 60.611 45.833 0.00 0.00 0.00 3.18
3027 3076 3.872696 AGATTGGTGATGCGTTGATGTA 58.127 40.909 0.00 0.00 0.00 2.29
3113 3162 2.992543 GTGTGAGATTGACTGACTGCTC 59.007 50.000 0.00 0.00 33.98 4.26
3162 3211 3.072184 AGCCCAATGTCATATCTCCACTC 59.928 47.826 0.00 0.00 0.00 3.51
3220 3270 4.994852 TCCTTTATATGCCATACGACTTGC 59.005 41.667 0.00 0.00 0.00 4.01
3222 3272 5.470098 CCTTTATATGCCATACGACTTGCTT 59.530 40.000 0.00 0.00 0.00 3.91
3223 3273 5.922739 TTATATGCCATACGACTTGCTTG 57.077 39.130 0.00 0.00 0.00 4.01
3224 3274 0.734889 ATGCCATACGACTTGCTTGC 59.265 50.000 0.00 0.00 0.00 4.01
3225 3275 1.060937 GCCATACGACTTGCTTGCG 59.939 57.895 0.00 0.00 0.00 4.85
3301 3354 4.260784 GCAAACAGAGTTCTTACCACTGTG 60.261 45.833 0.00 0.00 40.09 3.66
3312 3365 8.426489 AGTTCTTACCACTGTGTACAATTCTTA 58.574 33.333 7.08 0.00 0.00 2.10
3364 3417 6.208840 TGGAAATTTAGAGGTGTAAACCCT 57.791 37.500 0.00 0.00 34.11 4.34
3675 3729 2.287248 TGATGCGTGCGATTTTGTTGAA 60.287 40.909 0.00 0.00 0.00 2.69
3803 3857 2.789409 AGCTTAGTTTAGTGGGCCTG 57.211 50.000 4.53 0.00 0.00 4.85
4003 4058 3.945285 GGTGGAACAGTCAACAGAAGAAA 59.055 43.478 0.00 0.00 41.80 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 4.100279 TCTCTATCGCAATGGAGTCCTA 57.900 45.455 11.33 0.00 40.43 2.94
416 448 3.636231 CTGGGGGCGAGTTGGTCA 61.636 66.667 0.00 0.00 0.00 4.02
463 497 3.488090 GCGTCTAAAAGCGCCGCT 61.488 61.111 5.39 5.39 46.93 5.52
504 539 4.205587 CAATAGAGCTTCTTGAGGGCATT 58.794 43.478 0.00 0.00 0.00 3.56
512 547 4.774124 TGTGGATCCAATAGAGCTTCTTG 58.226 43.478 18.20 0.00 0.00 3.02
514 549 6.753913 TTATGTGGATCCAATAGAGCTTCT 57.246 37.500 18.20 0.00 0.00 2.85
515 550 7.220030 TCTTTATGTGGATCCAATAGAGCTTC 58.780 38.462 18.20 0.60 0.00 3.86
516 551 7.141758 TCTTTATGTGGATCCAATAGAGCTT 57.858 36.000 18.20 3.75 0.00 3.74
517 552 6.753913 TCTTTATGTGGATCCAATAGAGCT 57.246 37.500 18.20 0.00 0.00 4.09
518 553 6.939163 ACATCTTTATGTGGATCCAATAGAGC 59.061 38.462 18.20 3.08 44.79 4.09
519 554 8.781196 CAACATCTTTATGTGGATCCAATAGAG 58.219 37.037 18.20 18.37 45.79 2.43
520 555 7.229306 GCAACATCTTTATGTGGATCCAATAGA 59.771 37.037 18.20 14.36 45.79 1.98
521 556 7.365741 GCAACATCTTTATGTGGATCCAATAG 58.634 38.462 18.20 9.48 45.79 1.73
522 557 6.265196 GGCAACATCTTTATGTGGATCCAATA 59.735 38.462 18.20 13.41 45.79 1.90
523 558 5.069516 GGCAACATCTTTATGTGGATCCAAT 59.930 40.000 18.20 14.41 45.79 3.16
524 559 4.402155 GGCAACATCTTTATGTGGATCCAA 59.598 41.667 18.20 7.57 45.79 3.53
525 560 3.953612 GGCAACATCTTTATGTGGATCCA 59.046 43.478 11.44 11.44 45.79 3.41
526 561 3.003689 CGGCAACATCTTTATGTGGATCC 59.996 47.826 4.20 4.20 45.79 3.36
527 562 3.548818 GCGGCAACATCTTTATGTGGATC 60.549 47.826 0.00 0.00 45.79 3.36
528 563 2.358898 GCGGCAACATCTTTATGTGGAT 59.641 45.455 0.00 0.00 45.79 3.41
529 564 1.742831 GCGGCAACATCTTTATGTGGA 59.257 47.619 0.00 0.00 45.79 4.02
530 565 1.202290 GGCGGCAACATCTTTATGTGG 60.202 52.381 3.07 0.00 45.79 4.17
531 566 1.531677 CGGCGGCAACATCTTTATGTG 60.532 52.381 10.53 0.00 45.79 3.21
533 568 1.013596 TCGGCGGCAACATCTTTATG 58.986 50.000 10.53 0.00 39.17 1.90
534 569 1.670811 CTTCGGCGGCAACATCTTTAT 59.329 47.619 10.53 0.00 0.00 1.40
535 570 1.083489 CTTCGGCGGCAACATCTTTA 58.917 50.000 10.53 0.00 0.00 1.85
536 571 1.586154 CCTTCGGCGGCAACATCTTT 61.586 55.000 10.53 0.00 0.00 2.52
537 572 2.040544 CCTTCGGCGGCAACATCTT 61.041 57.895 10.53 0.00 0.00 2.40
538 573 2.257409 ATCCTTCGGCGGCAACATCT 62.257 55.000 10.53 0.00 0.00 2.90
539 574 1.776034 GATCCTTCGGCGGCAACATC 61.776 60.000 10.53 0.00 0.00 3.06
540 575 1.819632 GATCCTTCGGCGGCAACAT 60.820 57.895 10.53 0.00 0.00 2.71
541 576 2.435938 GATCCTTCGGCGGCAACA 60.436 61.111 10.53 0.00 0.00 3.33
542 577 2.435938 TGATCCTTCGGCGGCAAC 60.436 61.111 10.53 0.00 0.00 4.17
543 578 2.435938 GTGATCCTTCGGCGGCAA 60.436 61.111 10.53 1.56 0.00 4.52
544 579 2.739849 TTTGTGATCCTTCGGCGGCA 62.740 55.000 10.53 0.00 0.00 5.69
545 580 1.582610 TTTTGTGATCCTTCGGCGGC 61.583 55.000 7.21 0.00 0.00 6.53
546 581 1.094785 ATTTTGTGATCCTTCGGCGG 58.905 50.000 7.21 0.00 0.00 6.13
547 582 3.621268 TCTTATTTTGTGATCCTTCGGCG 59.379 43.478 0.00 0.00 0.00 6.46
548 583 5.560966 TTCTTATTTTGTGATCCTTCGGC 57.439 39.130 0.00 0.00 0.00 5.54
549 584 7.041098 CCCTATTCTTATTTTGTGATCCTTCGG 60.041 40.741 0.00 0.00 0.00 4.30
550 585 7.041098 CCCCTATTCTTATTTTGTGATCCTTCG 60.041 40.741 0.00 0.00 0.00 3.79
551 586 7.998964 TCCCCTATTCTTATTTTGTGATCCTTC 59.001 37.037 0.00 0.00 0.00 3.46
552 587 7.882755 TCCCCTATTCTTATTTTGTGATCCTT 58.117 34.615 0.00 0.00 0.00 3.36
553 588 7.465900 TCCCCTATTCTTATTTTGTGATCCT 57.534 36.000 0.00 0.00 0.00 3.24
554 589 7.944554 TGATCCCCTATTCTTATTTTGTGATCC 59.055 37.037 0.00 0.00 0.00 3.36
555 590 8.924511 TGATCCCCTATTCTTATTTTGTGATC 57.075 34.615 0.00 0.00 0.00 2.92
556 591 7.449704 GCTGATCCCCTATTCTTATTTTGTGAT 59.550 37.037 0.00 0.00 0.00 3.06
557 592 6.772716 GCTGATCCCCTATTCTTATTTTGTGA 59.227 38.462 0.00 0.00 0.00 3.58
558 593 6.774656 AGCTGATCCCCTATTCTTATTTTGTG 59.225 38.462 0.00 0.00 0.00 3.33
559 594 6.915786 AGCTGATCCCCTATTCTTATTTTGT 58.084 36.000 0.00 0.00 0.00 2.83
560 595 8.924511 TTAGCTGATCCCCTATTCTTATTTTG 57.075 34.615 0.00 0.00 0.00 2.44
561 596 8.728098 ACTTAGCTGATCCCCTATTCTTATTTT 58.272 33.333 0.00 0.00 0.00 1.82
562 597 8.160106 CACTTAGCTGATCCCCTATTCTTATTT 58.840 37.037 0.00 0.00 0.00 1.40
563 598 7.684529 CACTTAGCTGATCCCCTATTCTTATT 58.315 38.462 0.00 0.00 0.00 1.40
564 599 6.296145 GCACTTAGCTGATCCCCTATTCTTAT 60.296 42.308 0.00 0.00 41.15 1.73
565 600 5.012148 GCACTTAGCTGATCCCCTATTCTTA 59.988 44.000 0.00 0.00 41.15 2.10
566 601 4.202409 GCACTTAGCTGATCCCCTATTCTT 60.202 45.833 0.00 0.00 41.15 2.52
567 602 3.326297 GCACTTAGCTGATCCCCTATTCT 59.674 47.826 0.00 0.00 41.15 2.40
568 603 3.669536 GCACTTAGCTGATCCCCTATTC 58.330 50.000 0.00 0.00 41.15 1.75
569 604 2.037772 CGCACTTAGCTGATCCCCTATT 59.962 50.000 0.00 0.00 42.61 1.73
570 605 1.620819 CGCACTTAGCTGATCCCCTAT 59.379 52.381 0.00 0.00 42.61 2.57
571 606 1.040646 CGCACTTAGCTGATCCCCTA 58.959 55.000 0.00 0.00 42.61 3.53
572 607 1.690219 CCGCACTTAGCTGATCCCCT 61.690 60.000 0.00 0.00 42.61 4.79
573 608 1.227674 CCGCACTTAGCTGATCCCC 60.228 63.158 0.00 0.00 42.61 4.81
574 609 0.107654 AACCGCACTTAGCTGATCCC 60.108 55.000 0.00 0.00 42.61 3.85
575 610 2.596904 TAACCGCACTTAGCTGATCC 57.403 50.000 0.00 0.00 42.61 3.36
576 611 3.522553 AGTTAACCGCACTTAGCTGATC 58.477 45.455 0.88 0.00 42.61 2.92
577 612 3.522553 GAGTTAACCGCACTTAGCTGAT 58.477 45.455 0.88 0.00 42.61 2.90
578 613 2.353406 GGAGTTAACCGCACTTAGCTGA 60.353 50.000 0.88 0.00 42.61 4.26
579 614 2.000447 GGAGTTAACCGCACTTAGCTG 59.000 52.381 0.88 0.00 42.61 4.24
580 615 1.900486 AGGAGTTAACCGCACTTAGCT 59.100 47.619 0.88 0.00 42.61 3.32
581 616 2.269172 GAGGAGTTAACCGCACTTAGC 58.731 52.381 0.88 0.00 40.87 3.09
582 617 3.587797 TGAGGAGTTAACCGCACTTAG 57.412 47.619 0.88 0.00 35.03 2.18
583 618 4.339872 TTTGAGGAGTTAACCGCACTTA 57.660 40.909 0.88 0.00 39.26 2.24
584 619 2.922740 TTGAGGAGTTAACCGCACTT 57.077 45.000 0.88 0.00 39.26 3.16
585 620 2.876550 GTTTTGAGGAGTTAACCGCACT 59.123 45.455 0.88 0.00 39.26 4.40
586 621 2.031420 GGTTTTGAGGAGTTAACCGCAC 60.031 50.000 0.88 0.00 39.26 5.34
587 622 2.223745 GGTTTTGAGGAGTTAACCGCA 58.776 47.619 0.88 0.00 37.91 5.69
588 623 2.223745 TGGTTTTGAGGAGTTAACCGC 58.776 47.619 0.88 0.00 42.29 5.68
589 624 5.447624 AAATGGTTTTGAGGAGTTAACCG 57.552 39.130 0.88 0.00 42.29 4.44
612 647 9.810545 CCATTAAAACAACTAAGGTCTCAAAAA 57.189 29.630 0.00 0.00 0.00 1.94
613 648 9.191479 TCCATTAAAACAACTAAGGTCTCAAAA 57.809 29.630 0.00 0.00 0.00 2.44
614 649 8.754991 TCCATTAAAACAACTAAGGTCTCAAA 57.245 30.769 0.00 0.00 0.00 2.69
615 650 8.934023 ATCCATTAAAACAACTAAGGTCTCAA 57.066 30.769 0.00 0.00 0.00 3.02
616 651 7.333423 CGATCCATTAAAACAACTAAGGTCTCA 59.667 37.037 0.00 0.00 0.00 3.27
617 652 7.333672 ACGATCCATTAAAACAACTAAGGTCTC 59.666 37.037 0.00 0.00 0.00 3.36
618 653 7.166167 ACGATCCATTAAAACAACTAAGGTCT 58.834 34.615 0.00 0.00 0.00 3.85
619 654 7.373778 ACGATCCATTAAAACAACTAAGGTC 57.626 36.000 0.00 0.00 0.00 3.85
620 655 7.754851 AACGATCCATTAAAACAACTAAGGT 57.245 32.000 0.00 0.00 0.00 3.50
621 656 9.769093 CTAAACGATCCATTAAAACAACTAAGG 57.231 33.333 0.00 0.00 0.00 2.69
624 659 9.715121 ACTCTAAACGATCCATTAAAACAACTA 57.285 29.630 0.00 0.00 0.00 2.24
625 660 8.617290 ACTCTAAACGATCCATTAAAACAACT 57.383 30.769 0.00 0.00 0.00 3.16
626 661 7.961283 GGACTCTAAACGATCCATTAAAACAAC 59.039 37.037 0.00 0.00 0.00 3.32
627 662 7.881232 AGGACTCTAAACGATCCATTAAAACAA 59.119 33.333 0.00 0.00 33.33 2.83
628 663 7.391620 AGGACTCTAAACGATCCATTAAAACA 58.608 34.615 0.00 0.00 33.33 2.83
629 664 7.845066 AGGACTCTAAACGATCCATTAAAAC 57.155 36.000 0.00 0.00 33.33 2.43
630 665 8.533657 TGTAGGACTCTAAACGATCCATTAAAA 58.466 33.333 0.00 0.00 33.33 1.52
631 666 8.070034 TGTAGGACTCTAAACGATCCATTAAA 57.930 34.615 0.00 0.00 33.33 1.52
632 667 7.649533 TGTAGGACTCTAAACGATCCATTAA 57.350 36.000 0.00 0.00 33.33 1.40
633 668 7.039923 GGATGTAGGACTCTAAACGATCCATTA 60.040 40.741 0.00 0.00 33.33 1.90
634 669 6.239345 GGATGTAGGACTCTAAACGATCCATT 60.239 42.308 0.00 0.00 33.33 3.16
635 670 5.244178 GGATGTAGGACTCTAAACGATCCAT 59.756 44.000 0.00 0.00 33.33 3.41
636 671 4.583489 GGATGTAGGACTCTAAACGATCCA 59.417 45.833 0.00 0.00 33.33 3.41
637 672 4.828387 AGGATGTAGGACTCTAAACGATCC 59.172 45.833 0.00 0.00 0.00 3.36
638 673 5.531659 TCAGGATGTAGGACTCTAAACGATC 59.468 44.000 0.00 0.00 37.40 3.69
639 674 5.299782 GTCAGGATGTAGGACTCTAAACGAT 59.700 44.000 0.00 0.00 37.40 3.73
640 675 4.639310 GTCAGGATGTAGGACTCTAAACGA 59.361 45.833 0.00 0.00 37.40 3.85
641 676 4.202030 GGTCAGGATGTAGGACTCTAAACG 60.202 50.000 0.00 0.00 37.40 3.60
642 677 4.957327 AGGTCAGGATGTAGGACTCTAAAC 59.043 45.833 0.00 0.00 37.40 2.01
643 678 4.956700 CAGGTCAGGATGTAGGACTCTAAA 59.043 45.833 0.00 0.00 37.40 1.85
644 679 4.537751 CAGGTCAGGATGTAGGACTCTAA 58.462 47.826 0.00 0.00 37.40 2.10
645 680 3.117474 CCAGGTCAGGATGTAGGACTCTA 60.117 52.174 0.00 0.00 37.40 2.43
646 681 2.358721 CCAGGTCAGGATGTAGGACTCT 60.359 54.545 0.00 0.00 37.40 3.24
647 682 2.035632 CCAGGTCAGGATGTAGGACTC 58.964 57.143 0.00 0.00 37.40 3.36
648 683 1.343478 CCCAGGTCAGGATGTAGGACT 60.343 57.143 0.00 0.00 37.40 3.85
649 684 1.123928 CCCAGGTCAGGATGTAGGAC 58.876 60.000 0.00 0.00 37.40 3.85
650 685 0.691078 GCCCAGGTCAGGATGTAGGA 60.691 60.000 0.00 0.00 37.40 2.94
651 686 0.982852 TGCCCAGGTCAGGATGTAGG 60.983 60.000 0.00 0.00 37.40 3.18
652 687 0.179000 GTGCCCAGGTCAGGATGTAG 59.821 60.000 0.00 0.00 37.40 2.74
653 688 1.613317 CGTGCCCAGGTCAGGATGTA 61.613 60.000 0.00 0.00 37.40 2.29
654 689 2.959484 CGTGCCCAGGTCAGGATGT 61.959 63.158 0.00 0.00 37.40 3.06
655 690 2.124983 CGTGCCCAGGTCAGGATG 60.125 66.667 0.00 0.00 37.54 3.51
656 691 2.607750 ACGTGCCCAGGTCAGGAT 60.608 61.111 0.00 0.00 0.00 3.24
657 692 3.625897 CACGTGCCCAGGTCAGGA 61.626 66.667 0.82 0.00 0.00 3.86
658 693 4.704833 CCACGTGCCCAGGTCAGG 62.705 72.222 10.91 0.00 0.00 3.86
664 699 4.624364 TGACAGCCACGTGCCCAG 62.624 66.667 10.91 2.64 42.71 4.45
665 700 4.182433 TTGACAGCCACGTGCCCA 62.182 61.111 10.91 0.00 42.71 5.36
666 701 3.660111 GTTGACAGCCACGTGCCC 61.660 66.667 10.91 2.91 42.71 5.36
667 702 3.660111 GGTTGACAGCCACGTGCC 61.660 66.667 10.91 0.00 42.71 5.01
668 703 1.724582 AAAGGTTGACAGCCACGTGC 61.725 55.000 10.91 5.91 41.71 5.34
669 704 0.738389 AAAAGGTTGACAGCCACGTG 59.262 50.000 9.08 9.08 0.00 4.49
670 705 1.134175 CAAAAAGGTTGACAGCCACGT 59.866 47.619 11.28 0.00 0.00 4.49
671 706 1.134175 ACAAAAAGGTTGACAGCCACG 59.866 47.619 11.28 0.00 0.00 4.94
672 707 2.427095 AGACAAAAAGGTTGACAGCCAC 59.573 45.455 11.28 0.00 0.00 5.01
673 708 2.426738 CAGACAAAAAGGTTGACAGCCA 59.573 45.455 11.28 0.00 0.00 4.75
674 709 2.687935 TCAGACAAAAAGGTTGACAGCC 59.312 45.455 0.00 0.00 0.00 4.85
675 710 4.574599 ATCAGACAAAAAGGTTGACAGC 57.425 40.909 0.00 0.00 0.00 4.40
676 711 9.533253 AATAAAATCAGACAAAAAGGTTGACAG 57.467 29.630 0.00 0.00 0.00 3.51
677 712 9.883142 AAATAAAATCAGACAAAAAGGTTGACA 57.117 25.926 0.00 0.00 0.00 3.58
685 720 9.985730 AGCATGAGAAATAAAATCAGACAAAAA 57.014 25.926 0.00 0.00 0.00 1.94
686 721 9.630098 GAGCATGAGAAATAAAATCAGACAAAA 57.370 29.630 0.00 0.00 0.00 2.44
687 722 9.017509 AGAGCATGAGAAATAAAATCAGACAAA 57.982 29.630 0.00 0.00 0.00 2.83
688 723 8.571461 AGAGCATGAGAAATAAAATCAGACAA 57.429 30.769 0.00 0.00 0.00 3.18
711 746 6.811253 ATAACCGCAAAGTCATTTACAAGA 57.189 33.333 0.00 0.00 0.00 3.02
712 747 7.593273 TCAAATAACCGCAAAGTCATTTACAAG 59.407 33.333 0.00 0.00 0.00 3.16
724 759 8.573035 AGACTTTATTTCTCAAATAACCGCAAA 58.427 29.630 1.68 0.00 41.61 3.68
851 890 8.707839 CGTTTGGAAACACAAGCAATTTTATAT 58.292 29.630 3.31 0.00 42.67 0.86
1110 1159 0.535328 CGCCGATGTAGGAGAGGAGA 60.535 60.000 0.00 0.00 32.51 3.71
1336 1385 1.525995 CAGTGTCTTTGGCACGGGT 60.526 57.895 0.00 0.00 41.36 5.28
1377 1426 1.134220 ACACCAAACTTGAGAGCGGAA 60.134 47.619 0.00 0.00 0.00 4.30
1425 1474 4.162320 CACTTGGAGTACATATCCACCAGT 59.838 45.833 1.92 2.29 46.46 4.00
1665 1714 0.039618 GGATTTGCTTCCCACCAGGA 59.960 55.000 0.00 0.00 45.68 3.86
1686 1735 2.658285 CCCATCTTCAATAAGCAGCCA 58.342 47.619 0.00 0.00 32.36 4.75
1764 1813 2.038295 CCTAGCCATCTCATTCACTCCC 59.962 54.545 0.00 0.00 0.00 4.30
1820 1869 5.220854 GCAAAAGCTACAAGAAGTGAAGTCA 60.221 40.000 0.00 0.00 0.00 3.41
1969 2018 2.227036 AGTGGACCTCCTTGGCCAG 61.227 63.158 5.11 0.00 40.77 4.85
2061 2110 2.436646 GCACCTGTGACATCCCCG 60.437 66.667 0.51 0.00 0.00 5.73
2074 2123 6.595716 AGGCGATTAAATATAATCTCTGCACC 59.404 38.462 6.92 0.00 43.46 5.01
2097 2146 9.740239 CATGATATAATGTCTTTGTTTTCCAGG 57.260 33.333 0.00 0.00 0.00 4.45
2145 2194 3.442625 CCAGAGCAAGATCATTTTGAGCA 59.557 43.478 0.00 0.00 34.77 4.26
2148 2197 4.940046 GTCTCCAGAGCAAGATCATTTTGA 59.060 41.667 0.00 0.00 0.00 2.69
2229 2278 1.675641 GGCCCTTAGCACACTGGTG 60.676 63.158 0.00 0.00 46.50 4.17
2375 2424 8.746922 TGAATTGAAAATCTTCAGTGCAATAC 57.253 30.769 0.00 0.00 42.48 1.89
2439 2488 4.734398 TCCATGCTGTGAAAAACTTGTT 57.266 36.364 0.00 0.00 0.00 2.83
2615 2664 2.507058 TGCTCCATCTTAGGCTTCACAT 59.493 45.455 0.00 0.00 0.00 3.21
2716 2765 1.067425 CCACACGAGTTTGTCCGGATA 60.067 52.381 7.81 0.10 0.00 2.59
2725 2774 1.676006 CAAAGCTTCCCACACGAGTTT 59.324 47.619 0.00 0.00 0.00 2.66
2910 2959 2.942710 TCTTTTCTTACTCGCTGGACG 58.057 47.619 0.00 0.00 45.62 4.79
2993 3042 6.017109 GCATCACCAATCTTACGTTATTCCAT 60.017 38.462 0.00 0.00 0.00 3.41
3027 3076 4.020573 TCCACCTGATGTGTAGAAAACGAT 60.021 41.667 0.00 0.00 43.85 3.73
3057 3106 8.292448 CCATTATGCCTCAATACAACTATCAAC 58.708 37.037 0.00 0.00 0.00 3.18
3113 3162 4.147322 GACATGACAACCGCGGCG 62.147 66.667 28.58 20.08 0.00 6.46
3162 3211 3.612860 CCTTCGTACCAAGTCATCTTTCG 59.387 47.826 0.00 0.00 0.00 3.46
3210 3260 3.717707 ACATATCGCAAGCAAGTCGTAT 58.282 40.909 0.00 0.00 37.18 3.06
3211 3261 3.159353 ACATATCGCAAGCAAGTCGTA 57.841 42.857 0.00 0.00 37.18 3.43
3212 3262 2.010145 ACATATCGCAAGCAAGTCGT 57.990 45.000 0.00 0.00 37.18 4.34
3213 3263 3.062639 AGAAACATATCGCAAGCAAGTCG 59.937 43.478 0.00 0.00 37.18 4.18
3214 3264 4.606457 AGAAACATATCGCAAGCAAGTC 57.394 40.909 0.00 0.00 37.18 3.01
3215 3265 6.540189 AGATAAGAAACATATCGCAAGCAAGT 59.460 34.615 0.00 0.00 35.40 3.16
3216 3266 6.952743 AGATAAGAAACATATCGCAAGCAAG 58.047 36.000 0.00 0.00 35.40 4.01
3218 3268 6.925610 AAGATAAGAAACATATCGCAAGCA 57.074 33.333 0.00 0.00 35.40 3.91
3220 3270 9.046296 ACCTTAAGATAAGAAACATATCGCAAG 57.954 33.333 3.36 0.00 35.40 4.01
3222 3272 8.201464 TCACCTTAAGATAAGAAACATATCGCA 58.799 33.333 3.36 0.00 35.40 5.10
3223 3273 8.589335 TCACCTTAAGATAAGAAACATATCGC 57.411 34.615 3.36 0.00 35.40 4.58
3224 3274 9.967346 TCTCACCTTAAGATAAGAAACATATCG 57.033 33.333 3.36 0.00 35.40 2.92
3252 3302 8.062448 CAGTTTACAACAGTTTAGTAACAGAGC 58.938 37.037 0.00 0.00 36.70 4.09
3312 3365 9.466497 AACATCAAAACTCACCTGACAATATAT 57.534 29.630 0.00 0.00 0.00 0.86
3364 3417 4.395542 GGCATTGCATTTGCTTCCAATAAA 59.604 37.500 18.32 0.00 42.66 1.40
3438 3492 1.403323 GTAAGAAGAGCTGGGCAATGC 59.597 52.381 0.00 0.00 0.00 3.56
3508 3562 4.690184 TGTGTCTTCTTTGCTGCATATG 57.310 40.909 1.84 0.00 0.00 1.78
3675 3729 1.839424 GCCACTTTGCATCCCTAAGT 58.161 50.000 0.00 0.00 39.56 2.24
3736 3790 3.019564 CAAATAGGGGCCAGACTTCTTG 58.980 50.000 4.39 3.28 0.00 3.02
3737 3791 2.621668 GCAAATAGGGGCCAGACTTCTT 60.622 50.000 4.39 0.00 0.00 2.52
3738 3792 1.064389 GCAAATAGGGGCCAGACTTCT 60.064 52.381 4.39 0.00 0.00 2.85
3739 3793 1.064389 AGCAAATAGGGGCCAGACTTC 60.064 52.381 4.39 0.00 0.00 3.01
3803 3857 1.246056 TGCAAAGTGGCATCCTGCTC 61.246 55.000 15.57 0.00 44.28 4.26
3972 4026 4.698201 TGACTGTTCCACCATCTTGTAA 57.302 40.909 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.