Multiple sequence alignment - TraesCS3A01G538900

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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 TraesCS3A01G538900 chr3A 100.000 3257 0 0 1 3257 750212408 750215664 0.000000e+00 6015.0
1 TraesCS3A01G538900 chr3A 97.707 2486 39 4 788 3257 748234433 748236916 0.000000e+00 4259.0
2 TraesCS3A01G538900 chr3A 91.912 136 11 0 1419 1554 739542986 739542851 1.190000e-44 191.0
3 TraesCS3A01G538900 chr3A 72.039 608 124 36 1651 2241 740333683 740333105 4.380000e-29 139.0
4 TraesCS3A01G538900 chr3D 92.104 1507 108 4 1078 2581 614667887 614669385 0.000000e+00 2113.0
5 TraesCS3A01G538900 chr3D 88.343 1364 153 3 1019 2376 607080573 607079210 0.000000e+00 1633.0
6 TraesCS3A01G538900 chr3D 70.813 1254 279 67 1020 2241 608038383 608037185 1.180000e-49 207.0
7 TraesCS3A01G538900 chr3D 85.294 170 18 1 3001 3163 614643943 614644112 5.590000e-38 169.0
8 TraesCS3A01G538900 chr3D 88.112 143 2 1 2581 2723 614669910 614670037 4.350000e-34 156.0
9 TraesCS3A01G538900 chr3B 90.708 1582 124 7 717 2277 813311623 813313202 0.000000e+00 2085.0
10 TraesCS3A01G538900 chr3B 85.751 1572 200 17 1019 2581 816548822 816547266 0.000000e+00 1640.0
11 TraesCS3A01G538900 chr3B 89.950 995 81 8 1596 2588 825253366 825254343 0.000000e+00 1266.0
12 TraesCS3A01G538900 chr3B 93.676 506 23 5 1 499 520469343 520469846 0.000000e+00 749.0
13 TraesCS3A01G538900 chr3B 92.977 299 19 2 717 1015 825272761 825272465 4.990000e-118 435.0
14 TraesCS3A01G538900 chr3B 88.608 79 9 0 3060 3138 825367733 825367811 2.670000e-16 97.1
15 TraesCS3A01G538900 chr3B 100.000 29 0 0 1016 1044 825272449 825272421 2.000000e-03 54.7
16 TraesCS3A01G538900 chr7A 92.449 543 31 4 1 536 678606169 678606708 0.000000e+00 767.0
17 TraesCS3A01G538900 chr7A 93.478 506 24 5 1 499 494198033 494198536 0.000000e+00 743.0
18 TraesCS3A01G538900 chr7A 92.641 462 29 1 1 457 238254130 238253669 0.000000e+00 660.0
19 TraesCS3A01G538900 chr4A 93.874 506 22 5 1 499 559058293 559057790 0.000000e+00 754.0
20 TraesCS3A01G538900 chr2B 93.874 506 22 5 1 499 776654548 776655051 0.000000e+00 754.0
21 TraesCS3A01G538900 chr2B 93.676 506 22 6 1 499 359639710 359639208 0.000000e+00 749.0
22 TraesCS3A01G538900 chr1B 93.676 506 23 5 1 499 428727596 428727093 0.000000e+00 749.0
23 TraesCS3A01G538900 chr2A 92.323 508 22 7 1 499 554516644 554517143 0.000000e+00 706.0
24 TraesCS3A01G538900 chr2A 98.571 70 1 0 3184 3253 35998232 35998163 1.230000e-24 124.0
25 TraesCS3A01G538900 chr2A 82.524 103 13 5 439 536 358962647 358962749 5.790000e-13 86.1
26 TraesCS3A01G538900 chrUn 86.842 114 8 1 3060 3166 41130896 41130783 1.590000e-23 121.0


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 TraesCS3A01G538900 chr3A 750212408 750215664 3256 False 6015.0 6015 100.000 1 3257 1 chr3A.!!$F2 3256
1 TraesCS3A01G538900 chr3A 748234433 748236916 2483 False 4259.0 4259 97.707 788 3257 1 chr3A.!!$F1 2469
2 TraesCS3A01G538900 chr3D 607079210 607080573 1363 True 1633.0 1633 88.343 1019 2376 1 chr3D.!!$R1 1357
3 TraesCS3A01G538900 chr3D 614667887 614670037 2150 False 1134.5 2113 90.108 1078 2723 2 chr3D.!!$F2 1645
4 TraesCS3A01G538900 chr3D 608037185 608038383 1198 True 207.0 207 70.813 1020 2241 1 chr3D.!!$R2 1221
5 TraesCS3A01G538900 chr3B 813311623 813313202 1579 False 2085.0 2085 90.708 717 2277 1 chr3B.!!$F2 1560
6 TraesCS3A01G538900 chr3B 816547266 816548822 1556 True 1640.0 1640 85.751 1019 2581 1 chr3B.!!$R1 1562
7 TraesCS3A01G538900 chr3B 825253366 825254343 977 False 1266.0 1266 89.950 1596 2588 1 chr3B.!!$F3 992
8 TraesCS3A01G538900 chr3B 520469343 520469846 503 False 749.0 749 93.676 1 499 1 chr3B.!!$F1 498
9 TraesCS3A01G538900 chr7A 678606169 678606708 539 False 767.0 767 92.449 1 536 1 chr7A.!!$F2 535
10 TraesCS3A01G538900 chr7A 494198033 494198536 503 False 743.0 743 93.478 1 499 1 chr7A.!!$F1 498
11 TraesCS3A01G538900 chr4A 559057790 559058293 503 True 754.0 754 93.874 1 499 1 chr4A.!!$R1 498
12 TraesCS3A01G538900 chr2B 776654548 776655051 503 False 754.0 754 93.874 1 499 1 chr2B.!!$F1 498
13 TraesCS3A01G538900 chr2B 359639208 359639710 502 True 749.0 749 93.676 1 499 1 chr2B.!!$R1 498
14 TraesCS3A01G538900 chr1B 428727093 428727596 503 True 749.0 749 93.676 1 499 1 chr1B.!!$R1 498

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
632 642 0.038166 GGCTGAGGATGGTGTTGGAA 59.962 55.0 0.0 0.0 0.00 3.53 F
637 647 0.038744 AGGATGGTGTTGGAAGCTGG 59.961 55.0 0.0 0.0 0.00 4.85 F
883 894 0.107654 CCCCTCATGAAACGGAGACC 60.108 60.0 0.0 0.0 32.87 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1778 1826 2.808906 AAGGCACCCTTCTCCATAAC 57.191 50.000 0.0 0.0 40.17 1.89 R
1863 1913 4.792513 TGAAGGTTTAGTGGGTTGGTAA 57.207 40.909 0.0 0.0 0.00 2.85 R
3121 3699 3.618594 GCTGCGATGAAAATCAGAGTACA 59.381 43.478 0.0 0.0 0.00 2.90 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
128 130 2.106511 CCCAAGGAGGTTGAGAGAACAA 59.893 50.000 0.00 0.00 38.60 2.83
139 141 3.791320 TGAGAGAACAACAGGTAGGGAT 58.209 45.455 0.00 0.00 0.00 3.85
243 246 3.328931 TCCTCAGTTTGGATCTCAGCTTT 59.671 43.478 0.00 0.00 0.00 3.51
245 248 4.082895 CCTCAGTTTGGATCTCAGCTTTTG 60.083 45.833 0.00 0.00 0.00 2.44
304 307 4.277423 AGACAACCATTTTTCGTGGGTAAG 59.723 41.667 0.00 0.00 41.14 2.34
465 473 2.585330 GTTTCCTTTTTGGTACGGGGA 58.415 47.619 0.00 0.00 37.07 4.81
466 474 2.275134 TTCCTTTTTGGTACGGGGAC 57.725 50.000 0.00 0.00 37.07 4.46
536 546 3.902086 GCTCGCTAGACCCGTCCC 61.902 72.222 0.00 0.00 0.00 4.46
537 547 2.439701 CTCGCTAGACCCGTCCCA 60.440 66.667 0.00 0.00 0.00 4.37
538 548 2.036098 TCGCTAGACCCGTCCCAA 59.964 61.111 0.00 0.00 0.00 4.12
539 549 1.601419 CTCGCTAGACCCGTCCCAAA 61.601 60.000 0.00 0.00 0.00 3.28
540 550 1.447314 CGCTAGACCCGTCCCAAAC 60.447 63.158 0.00 0.00 0.00 2.93
541 551 1.078637 GCTAGACCCGTCCCAAACC 60.079 63.158 0.00 0.00 0.00 3.27
542 552 1.551019 GCTAGACCCGTCCCAAACCT 61.551 60.000 0.00 0.00 0.00 3.50
543 553 0.981943 CTAGACCCGTCCCAAACCTT 59.018 55.000 0.00 0.00 0.00 3.50
544 554 1.350019 CTAGACCCGTCCCAAACCTTT 59.650 52.381 0.00 0.00 0.00 3.11
545 555 0.554305 AGACCCGTCCCAAACCTTTT 59.446 50.000 0.00 0.00 0.00 2.27
546 556 0.956633 GACCCGTCCCAAACCTTTTC 59.043 55.000 0.00 0.00 0.00 2.29
547 557 0.468585 ACCCGTCCCAAACCTTTTCC 60.469 55.000 0.00 0.00 0.00 3.13
548 558 1.183030 CCCGTCCCAAACCTTTTCCC 61.183 60.000 0.00 0.00 0.00 3.97
549 559 0.178973 CCGTCCCAAACCTTTTCCCT 60.179 55.000 0.00 0.00 0.00 4.20
550 560 1.699730 CGTCCCAAACCTTTTCCCTT 58.300 50.000 0.00 0.00 0.00 3.95
551 561 1.339929 CGTCCCAAACCTTTTCCCTTG 59.660 52.381 0.00 0.00 0.00 3.61
552 562 2.394632 GTCCCAAACCTTTTCCCTTGT 58.605 47.619 0.00 0.00 0.00 3.16
553 563 2.769663 GTCCCAAACCTTTTCCCTTGTT 59.230 45.455 0.00 0.00 0.00 2.83
554 564 3.199071 GTCCCAAACCTTTTCCCTTGTTT 59.801 43.478 0.00 0.00 0.00 2.83
555 565 3.452990 TCCCAAACCTTTTCCCTTGTTTC 59.547 43.478 0.00 0.00 0.00 2.78
556 566 3.454447 CCCAAACCTTTTCCCTTGTTTCT 59.546 43.478 0.00 0.00 0.00 2.52
557 567 4.080582 CCCAAACCTTTTCCCTTGTTTCTT 60.081 41.667 0.00 0.00 0.00 2.52
558 568 5.116180 CCAAACCTTTTCCCTTGTTTCTTC 58.884 41.667 0.00 0.00 0.00 2.87
559 569 5.104941 CCAAACCTTTTCCCTTGTTTCTTCT 60.105 40.000 0.00 0.00 0.00 2.85
560 570 5.854010 AACCTTTTCCCTTGTTTCTTCTC 57.146 39.130 0.00 0.00 0.00 2.87
561 571 4.215908 ACCTTTTCCCTTGTTTCTTCTCC 58.784 43.478 0.00 0.00 0.00 3.71
562 572 4.079154 ACCTTTTCCCTTGTTTCTTCTCCT 60.079 41.667 0.00 0.00 0.00 3.69
563 573 5.133830 ACCTTTTCCCTTGTTTCTTCTCCTA 59.866 40.000 0.00 0.00 0.00 2.94
564 574 6.183361 ACCTTTTCCCTTGTTTCTTCTCCTAT 60.183 38.462 0.00 0.00 0.00 2.57
565 575 7.018249 ACCTTTTCCCTTGTTTCTTCTCCTATA 59.982 37.037 0.00 0.00 0.00 1.31
566 576 8.055790 CCTTTTCCCTTGTTTCTTCTCCTATAT 58.944 37.037 0.00 0.00 0.00 0.86
567 577 9.114952 CTTTTCCCTTGTTTCTTCTCCTATATC 57.885 37.037 0.00 0.00 0.00 1.63
568 578 6.406692 TCCCTTGTTTCTTCTCCTATATCG 57.593 41.667 0.00 0.00 0.00 2.92
569 579 5.304614 TCCCTTGTTTCTTCTCCTATATCGG 59.695 44.000 0.00 0.00 0.00 4.18
570 580 4.991687 CCTTGTTTCTTCTCCTATATCGGC 59.008 45.833 0.00 0.00 0.00 5.54
571 581 5.221541 CCTTGTTTCTTCTCCTATATCGGCT 60.222 44.000 0.00 0.00 0.00 5.52
572 582 5.455056 TGTTTCTTCTCCTATATCGGCTC 57.545 43.478 0.00 0.00 0.00 4.70
573 583 4.023107 TGTTTCTTCTCCTATATCGGCTCG 60.023 45.833 0.00 0.00 0.00 5.03
574 584 3.697619 TCTTCTCCTATATCGGCTCGA 57.302 47.619 0.00 0.00 41.13 4.04
575 585 3.336468 TCTTCTCCTATATCGGCTCGAC 58.664 50.000 0.00 0.00 39.18 4.20
576 586 2.853235 TCTCCTATATCGGCTCGACA 57.147 50.000 0.00 0.00 39.18 4.35
577 587 2.701107 TCTCCTATATCGGCTCGACAG 58.299 52.381 0.00 0.00 39.18 3.51
578 588 2.302157 TCTCCTATATCGGCTCGACAGA 59.698 50.000 0.00 0.00 39.18 3.41
579 589 3.055021 TCTCCTATATCGGCTCGACAGAT 60.055 47.826 0.00 6.09 39.18 2.90
580 590 3.271729 TCCTATATCGGCTCGACAGATC 58.728 50.000 0.00 0.00 39.18 2.75
581 591 3.010420 CCTATATCGGCTCGACAGATCA 58.990 50.000 0.00 0.00 39.18 2.92
582 592 3.440522 CCTATATCGGCTCGACAGATCAA 59.559 47.826 0.00 0.00 39.18 2.57
583 593 4.082733 CCTATATCGGCTCGACAGATCAAA 60.083 45.833 0.00 0.00 39.18 2.69
584 594 1.927895 ATCGGCTCGACAGATCAAAC 58.072 50.000 0.00 0.00 39.18 2.93
585 595 0.601057 TCGGCTCGACAGATCAAACA 59.399 50.000 0.00 0.00 0.00 2.83
586 596 0.994995 CGGCTCGACAGATCAAACAG 59.005 55.000 0.00 0.00 0.00 3.16
587 597 1.670087 CGGCTCGACAGATCAAACAGT 60.670 52.381 0.00 0.00 0.00 3.55
588 598 1.728971 GGCTCGACAGATCAAACAGTG 59.271 52.381 0.00 0.00 0.00 3.66
589 599 1.728971 GCTCGACAGATCAAACAGTGG 59.271 52.381 0.00 0.00 0.00 4.00
590 600 1.728971 CTCGACAGATCAAACAGTGGC 59.271 52.381 0.00 0.00 0.00 5.01
591 601 1.069978 TCGACAGATCAAACAGTGGCA 59.930 47.619 0.00 0.00 0.00 4.92
592 602 1.462283 CGACAGATCAAACAGTGGCAG 59.538 52.381 0.00 0.00 0.00 4.85
593 603 2.498167 GACAGATCAAACAGTGGCAGT 58.502 47.619 0.00 0.00 0.00 4.40
594 604 2.481952 GACAGATCAAACAGTGGCAGTC 59.518 50.000 0.00 0.00 0.00 3.51
595 605 2.158769 ACAGATCAAACAGTGGCAGTCA 60.159 45.455 0.00 0.00 0.00 3.41
596 606 2.483106 CAGATCAAACAGTGGCAGTCAG 59.517 50.000 0.00 0.00 0.00 3.51
597 607 1.808945 GATCAAACAGTGGCAGTCAGG 59.191 52.381 0.00 0.00 0.00 3.86
598 608 0.836606 TCAAACAGTGGCAGTCAGGA 59.163 50.000 0.00 0.00 0.00 3.86
599 609 0.947244 CAAACAGTGGCAGTCAGGAC 59.053 55.000 0.00 0.00 0.00 3.85
600 610 0.546122 AAACAGTGGCAGTCAGGACA 59.454 50.000 1.84 0.00 0.00 4.02
601 611 0.107456 AACAGTGGCAGTCAGGACAG 59.893 55.000 1.84 0.00 0.00 3.51
602 612 1.670406 CAGTGGCAGTCAGGACAGC 60.670 63.158 8.14 8.14 42.21 4.40
603 613 2.142761 AGTGGCAGTCAGGACAGCA 61.143 57.895 16.87 2.86 44.34 4.41
604 614 1.002868 GTGGCAGTCAGGACAGCAT 60.003 57.895 16.87 0.00 44.34 3.79
605 615 1.023513 GTGGCAGTCAGGACAGCATC 61.024 60.000 16.87 6.86 44.34 3.91
606 616 1.812922 GGCAGTCAGGACAGCATCG 60.813 63.158 16.87 0.00 44.34 3.84
607 617 1.812922 GCAGTCAGGACAGCATCGG 60.813 63.158 11.33 0.00 42.45 4.18
608 618 1.812922 CAGTCAGGACAGCATCGGC 60.813 63.158 1.84 0.00 41.61 5.54
626 636 4.864334 GGCGGGCTGAGGATGGTG 62.864 72.222 0.00 0.00 0.00 4.17
627 637 4.101448 GCGGGCTGAGGATGGTGT 62.101 66.667 0.00 0.00 0.00 4.16
628 638 2.671070 CGGGCTGAGGATGGTGTT 59.329 61.111 0.00 0.00 0.00 3.32
629 639 1.746615 CGGGCTGAGGATGGTGTTG 60.747 63.158 0.00 0.00 0.00 3.33
630 640 1.379044 GGGCTGAGGATGGTGTTGG 60.379 63.158 0.00 0.00 0.00 3.77
631 641 1.685224 GGCTGAGGATGGTGTTGGA 59.315 57.895 0.00 0.00 0.00 3.53
632 642 0.038166 GGCTGAGGATGGTGTTGGAA 59.962 55.000 0.00 0.00 0.00 3.53
633 643 1.457346 GCTGAGGATGGTGTTGGAAG 58.543 55.000 0.00 0.00 0.00 3.46
634 644 1.457346 CTGAGGATGGTGTTGGAAGC 58.543 55.000 0.00 0.00 0.00 3.86
635 645 1.004044 CTGAGGATGGTGTTGGAAGCT 59.996 52.381 0.00 0.00 0.00 3.74
636 646 1.271543 TGAGGATGGTGTTGGAAGCTG 60.272 52.381 0.00 0.00 0.00 4.24
637 647 0.038744 AGGATGGTGTTGGAAGCTGG 59.961 55.000 0.00 0.00 0.00 4.85
638 648 0.967380 GGATGGTGTTGGAAGCTGGG 60.967 60.000 0.00 0.00 0.00 4.45
639 649 1.598701 GATGGTGTTGGAAGCTGGGC 61.599 60.000 0.00 0.00 0.00 5.36
640 650 3.365265 GGTGTTGGAAGCTGGGCG 61.365 66.667 0.00 0.00 0.00 6.13
641 651 2.594592 GTGTTGGAAGCTGGGCGT 60.595 61.111 0.00 0.00 0.00 5.68
642 652 2.594303 TGTTGGAAGCTGGGCGTG 60.594 61.111 0.00 0.00 0.00 5.34
643 653 2.281484 GTTGGAAGCTGGGCGTGA 60.281 61.111 0.00 0.00 0.00 4.35
644 654 2.032528 TTGGAAGCTGGGCGTGAG 59.967 61.111 0.00 0.00 0.00 3.51
645 655 3.551496 TTGGAAGCTGGGCGTGAGG 62.551 63.158 0.00 0.00 0.00 3.86
646 656 4.021925 GGAAGCTGGGCGTGAGGT 62.022 66.667 0.00 0.00 0.00 3.85
647 657 2.656069 GGAAGCTGGGCGTGAGGTA 61.656 63.158 0.00 0.00 0.00 3.08
648 658 1.522569 GAAGCTGGGCGTGAGGTAT 59.477 57.895 0.00 0.00 0.00 2.73
649 659 0.750850 GAAGCTGGGCGTGAGGTATA 59.249 55.000 0.00 0.00 0.00 1.47
650 660 1.138266 GAAGCTGGGCGTGAGGTATAA 59.862 52.381 0.00 0.00 0.00 0.98
651 661 1.200519 AGCTGGGCGTGAGGTATAAA 58.799 50.000 0.00 0.00 0.00 1.40
652 662 1.768870 AGCTGGGCGTGAGGTATAAAT 59.231 47.619 0.00 0.00 0.00 1.40
653 663 2.172717 AGCTGGGCGTGAGGTATAAATT 59.827 45.455 0.00 0.00 0.00 1.82
654 664 2.949644 GCTGGGCGTGAGGTATAAATTT 59.050 45.455 0.00 0.00 0.00 1.82
655 665 3.003378 GCTGGGCGTGAGGTATAAATTTC 59.997 47.826 0.00 0.00 0.00 2.17
656 666 3.547746 TGGGCGTGAGGTATAAATTTCC 58.452 45.455 0.00 0.00 0.00 3.13
657 667 3.201266 TGGGCGTGAGGTATAAATTTCCT 59.799 43.478 0.00 0.00 0.00 3.36
658 668 4.204799 GGGCGTGAGGTATAAATTTCCTT 58.795 43.478 0.00 0.00 0.00 3.36
659 669 4.643334 GGGCGTGAGGTATAAATTTCCTTT 59.357 41.667 0.00 0.00 0.00 3.11
660 670 5.220989 GGGCGTGAGGTATAAATTTCCTTTC 60.221 44.000 0.00 0.00 0.00 2.62
661 671 5.589050 GGCGTGAGGTATAAATTTCCTTTCT 59.411 40.000 0.00 0.00 0.00 2.52
662 672 6.764560 GGCGTGAGGTATAAATTTCCTTTCTA 59.235 38.462 0.00 0.00 0.00 2.10
663 673 7.281549 GGCGTGAGGTATAAATTTCCTTTCTAA 59.718 37.037 0.00 0.00 0.00 2.10
664 674 8.671028 GCGTGAGGTATAAATTTCCTTTCTAAA 58.329 33.333 0.00 0.00 0.00 1.85
665 675 9.983804 CGTGAGGTATAAATTTCCTTTCTAAAC 57.016 33.333 0.00 0.00 0.00 2.01
673 683 6.825944 AATTTCCTTTCTAAACCTGAGAGC 57.174 37.500 0.00 0.00 0.00 4.09
674 684 5.568620 TTTCCTTTCTAAACCTGAGAGCT 57.431 39.130 0.00 0.00 0.00 4.09
675 685 6.681729 TTTCCTTTCTAAACCTGAGAGCTA 57.318 37.500 0.00 0.00 0.00 3.32
676 686 6.681729 TTCCTTTCTAAACCTGAGAGCTAA 57.318 37.500 0.00 0.00 0.00 3.09
677 687 6.287589 TCCTTTCTAAACCTGAGAGCTAAG 57.712 41.667 0.00 0.00 0.00 2.18
678 688 5.780793 TCCTTTCTAAACCTGAGAGCTAAGT 59.219 40.000 0.00 0.00 0.00 2.24
679 689 5.872070 CCTTTCTAAACCTGAGAGCTAAGTG 59.128 44.000 0.00 0.00 0.00 3.16
680 690 6.420913 TTTCTAAACCTGAGAGCTAAGTGT 57.579 37.500 0.00 0.00 0.00 3.55
681 691 6.420913 TTCTAAACCTGAGAGCTAAGTGTT 57.579 37.500 0.00 0.00 0.00 3.32
682 692 7.534723 TTCTAAACCTGAGAGCTAAGTGTTA 57.465 36.000 0.00 0.00 0.00 2.41
683 693 7.159322 TCTAAACCTGAGAGCTAAGTGTTAG 57.841 40.000 0.00 0.00 36.32 2.34
684 694 6.946583 TCTAAACCTGAGAGCTAAGTGTTAGA 59.053 38.462 0.00 0.00 35.20 2.10
685 695 5.394224 AACCTGAGAGCTAAGTGTTAGAC 57.606 43.478 0.00 0.00 35.20 2.59
686 696 4.668636 ACCTGAGAGCTAAGTGTTAGACT 58.331 43.478 0.00 0.00 35.20 3.24
687 697 5.817784 ACCTGAGAGCTAAGTGTTAGACTA 58.182 41.667 0.00 0.00 35.20 2.59
688 698 6.428295 ACCTGAGAGCTAAGTGTTAGACTAT 58.572 40.000 0.00 0.00 35.20 2.12
689 699 6.893005 ACCTGAGAGCTAAGTGTTAGACTATT 59.107 38.462 0.00 0.00 35.20 1.73
690 700 7.067737 ACCTGAGAGCTAAGTGTTAGACTATTC 59.932 40.741 0.00 0.00 35.20 1.75
691 701 7.336161 TGAGAGCTAAGTGTTAGACTATTCC 57.664 40.000 0.00 0.00 35.20 3.01
692 702 6.890268 TGAGAGCTAAGTGTTAGACTATTCCA 59.110 38.462 0.00 0.00 35.20 3.53
693 703 7.561722 TGAGAGCTAAGTGTTAGACTATTCCAT 59.438 37.037 0.00 0.00 35.20 3.41
694 704 7.721402 AGAGCTAAGTGTTAGACTATTCCATG 58.279 38.462 0.00 0.00 35.20 3.66
695 705 6.821388 AGCTAAGTGTTAGACTATTCCATGG 58.179 40.000 4.97 4.97 35.20 3.66
696 706 6.611642 AGCTAAGTGTTAGACTATTCCATGGA 59.388 38.462 11.44 11.44 35.20 3.41
697 707 7.291182 AGCTAAGTGTTAGACTATTCCATGGAT 59.709 37.037 17.06 8.54 35.20 3.41
698 708 8.585881 GCTAAGTGTTAGACTATTCCATGGATA 58.414 37.037 17.06 7.19 35.20 2.59
701 711 8.554490 AGTGTTAGACTATTCCATGGATAAGT 57.446 34.615 23.00 23.00 30.86 2.24
702 712 8.993424 AGTGTTAGACTATTCCATGGATAAGTT 58.007 33.333 23.41 17.15 30.86 2.66
703 713 9.614792 GTGTTAGACTATTCCATGGATAAGTTT 57.385 33.333 23.41 20.82 0.00 2.66
704 714 9.832445 TGTTAGACTATTCCATGGATAAGTTTC 57.168 33.333 23.41 15.09 0.00 2.78
705 715 9.274206 GTTAGACTATTCCATGGATAAGTTTCC 57.726 37.037 23.41 14.57 36.24 3.13
706 716 7.698163 AGACTATTCCATGGATAAGTTTCCT 57.302 36.000 23.41 16.05 36.68 3.36
707 717 7.740805 AGACTATTCCATGGATAAGTTTCCTC 58.259 38.462 23.41 14.04 36.68 3.71
708 718 6.525629 ACTATTCCATGGATAAGTTTCCTCG 58.474 40.000 17.06 0.00 36.68 4.63
709 719 4.837093 TTCCATGGATAAGTTTCCTCGT 57.163 40.909 17.06 0.00 36.68 4.18
710 720 4.402056 TCCATGGATAAGTTTCCTCGTC 57.598 45.455 11.44 0.00 36.68 4.20
711 721 3.134081 TCCATGGATAAGTTTCCTCGTCC 59.866 47.826 11.44 0.00 36.68 4.79
712 722 3.118408 CCATGGATAAGTTTCCTCGTCCA 60.118 47.826 5.56 0.00 38.06 4.02
713 723 4.513442 CATGGATAAGTTTCCTCGTCCAA 58.487 43.478 0.00 0.00 37.55 3.53
714 724 4.202245 TGGATAAGTTTCCTCGTCCAAG 57.798 45.455 0.00 0.00 36.68 3.61
715 725 3.581332 TGGATAAGTTTCCTCGTCCAAGT 59.419 43.478 0.00 0.00 36.68 3.16
731 741 2.481104 CCAAGTCGGAGATCTTGCTCTC 60.481 54.545 0.00 0.00 41.12 3.20
786 796 2.949644 CAACGAACCCCTCAAAGAAGTT 59.050 45.455 0.00 0.00 0.00 2.66
800 810 5.240183 TCAAAGAAGTTGAATCTCTGCTTGG 59.760 40.000 1.49 0.00 43.43 3.61
813 823 1.360393 TGCTTGGGTTCCAGGTTCCT 61.360 55.000 0.00 0.00 33.81 3.36
835 845 1.927174 CATAAAACGGAGACCAGCTCG 59.073 52.381 0.00 0.00 44.91 5.03
850 861 3.246226 CCAGCTCGAAAAATACTGATCCG 59.754 47.826 0.00 0.00 0.00 4.18
881 892 1.278127 GAACCCCTCATGAAACGGAGA 59.722 52.381 8.90 0.00 32.87 3.71
883 894 0.107654 CCCCTCATGAAACGGAGACC 60.108 60.000 0.00 0.00 32.87 3.85
884 895 0.613260 CCCTCATGAAACGGAGACCA 59.387 55.000 0.00 0.00 32.87 4.02
988 999 4.767928 ACGAAGCCAAATTAATAACACCCA 59.232 37.500 0.00 0.00 0.00 4.51
1248 1277 1.451504 CCCGGAGCCATGCTTCATA 59.548 57.895 0.73 0.00 39.88 2.15
1372 1404 1.662438 CCACGGCCTTGTTGTTGTGT 61.662 55.000 8.63 0.00 0.00 3.72
1778 1826 5.278169 GCTTGGCACACTGGATATTTCATAG 60.278 44.000 0.00 0.00 39.29 2.23
1845 1895 2.289072 CGGCCATATCTCCTTGACGAAT 60.289 50.000 2.24 0.00 0.00 3.34
1863 1913 4.520492 ACGAATCTGCCTTTGAAACTGAAT 59.480 37.500 0.00 0.00 0.00 2.57
1877 1927 6.366340 TGAAACTGAATTACCAACCCACTAA 58.634 36.000 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 107 0.193574 TCTCTCAACCTCCTTGGGGT 59.806 55.000 0.00 0.00 41.11 4.95
108 110 3.142174 GTTGTTCTCTCAACCTCCTTGG 58.858 50.000 0.00 0.00 40.97 3.61
128 130 3.434167 GCATGTTGATCATCCCTACCTGT 60.434 47.826 0.00 0.00 34.09 4.00
139 141 3.047857 TCCCCTCTATGCATGTTGATCA 58.952 45.455 10.16 0.00 0.00 2.92
190 192 4.873259 GGAAAAAGCTGCAACAAAAACCTA 59.127 37.500 1.02 0.00 0.00 3.08
245 248 2.517875 ATCGCCATGGCAAGGAGC 60.518 61.111 34.93 7.67 42.06 4.70
304 307 4.522114 CTCCTTCCCCAAAGATCTTCTTC 58.478 47.826 8.78 0.00 35.27 2.87
443 451 2.589720 CCCGTACCAAAAAGGAAACCT 58.410 47.619 0.00 0.00 41.22 3.50
521 531 1.607178 TTTGGGACGGGTCTAGCGA 60.607 57.895 0.00 0.00 0.00 4.93
532 542 2.394632 ACAAGGGAAAAGGTTTGGGAC 58.605 47.619 0.00 0.00 0.00 4.46
536 546 5.977635 AGAAGAAACAAGGGAAAAGGTTTG 58.022 37.500 0.00 0.00 33.92 2.93
537 547 5.128827 GGAGAAGAAACAAGGGAAAAGGTTT 59.871 40.000 0.00 0.00 36.27 3.27
538 548 4.649674 GGAGAAGAAACAAGGGAAAAGGTT 59.350 41.667 0.00 0.00 0.00 3.50
539 549 4.079154 AGGAGAAGAAACAAGGGAAAAGGT 60.079 41.667 0.00 0.00 0.00 3.50
540 550 4.474394 AGGAGAAGAAACAAGGGAAAAGG 58.526 43.478 0.00 0.00 0.00 3.11
541 551 9.114952 GATATAGGAGAAGAAACAAGGGAAAAG 57.885 37.037 0.00 0.00 0.00 2.27
542 552 7.769044 CGATATAGGAGAAGAAACAAGGGAAAA 59.231 37.037 0.00 0.00 0.00 2.29
543 553 7.272978 CGATATAGGAGAAGAAACAAGGGAAA 58.727 38.462 0.00 0.00 0.00 3.13
544 554 6.183360 CCGATATAGGAGAAGAAACAAGGGAA 60.183 42.308 0.00 0.00 0.00 3.97
545 555 5.304614 CCGATATAGGAGAAGAAACAAGGGA 59.695 44.000 0.00 0.00 0.00 4.20
546 556 5.542779 CCGATATAGGAGAAGAAACAAGGG 58.457 45.833 0.00 0.00 0.00 3.95
547 557 4.991687 GCCGATATAGGAGAAGAAACAAGG 59.008 45.833 5.98 0.00 0.00 3.61
548 558 5.848406 AGCCGATATAGGAGAAGAAACAAG 58.152 41.667 5.98 0.00 0.00 3.16
549 559 5.507482 CGAGCCGATATAGGAGAAGAAACAA 60.507 44.000 5.98 0.00 0.00 2.83
550 560 4.023107 CGAGCCGATATAGGAGAAGAAACA 60.023 45.833 5.98 0.00 0.00 2.83
551 561 4.215827 TCGAGCCGATATAGGAGAAGAAAC 59.784 45.833 5.98 0.00 0.00 2.78
552 562 4.215827 GTCGAGCCGATATAGGAGAAGAAA 59.784 45.833 5.98 0.00 38.42 2.52
553 563 3.752222 GTCGAGCCGATATAGGAGAAGAA 59.248 47.826 5.98 0.00 38.42 2.52
554 564 3.244457 TGTCGAGCCGATATAGGAGAAGA 60.244 47.826 5.98 0.00 38.42 2.87
555 565 3.075148 TGTCGAGCCGATATAGGAGAAG 58.925 50.000 5.98 0.00 38.42 2.85
556 566 3.075148 CTGTCGAGCCGATATAGGAGAA 58.925 50.000 5.98 0.00 38.42 2.87
557 567 2.302157 TCTGTCGAGCCGATATAGGAGA 59.698 50.000 5.98 0.00 38.42 3.71
558 568 2.701107 TCTGTCGAGCCGATATAGGAG 58.299 52.381 5.98 0.00 38.42 3.69
559 569 2.853235 TCTGTCGAGCCGATATAGGA 57.147 50.000 5.98 0.00 38.42 2.94
560 570 3.010420 TGATCTGTCGAGCCGATATAGG 58.990 50.000 0.00 0.00 38.42 2.57
561 571 4.686839 TTGATCTGTCGAGCCGATATAG 57.313 45.455 0.67 1.76 38.42 1.31
562 572 4.277423 TGTTTGATCTGTCGAGCCGATATA 59.723 41.667 0.67 0.00 38.42 0.86
563 573 3.068165 TGTTTGATCTGTCGAGCCGATAT 59.932 43.478 0.67 0.00 38.42 1.63
564 574 2.425668 TGTTTGATCTGTCGAGCCGATA 59.574 45.455 0.67 0.00 38.42 2.92
565 575 1.204704 TGTTTGATCTGTCGAGCCGAT 59.795 47.619 0.67 0.00 38.42 4.18
566 576 0.601057 TGTTTGATCTGTCGAGCCGA 59.399 50.000 0.00 0.00 0.00 5.54
567 577 0.994995 CTGTTTGATCTGTCGAGCCG 59.005 55.000 0.00 0.00 0.00 5.52
568 578 1.728971 CACTGTTTGATCTGTCGAGCC 59.271 52.381 0.00 0.00 0.00 4.70
569 579 1.728971 CCACTGTTTGATCTGTCGAGC 59.271 52.381 0.00 0.00 0.00 5.03
570 580 1.728971 GCCACTGTTTGATCTGTCGAG 59.271 52.381 0.00 0.00 0.00 4.04
571 581 1.069978 TGCCACTGTTTGATCTGTCGA 59.930 47.619 0.00 0.00 0.00 4.20
572 582 1.462283 CTGCCACTGTTTGATCTGTCG 59.538 52.381 0.00 0.00 0.00 4.35
573 583 2.481952 GACTGCCACTGTTTGATCTGTC 59.518 50.000 0.00 0.00 0.00 3.51
574 584 2.158769 TGACTGCCACTGTTTGATCTGT 60.159 45.455 0.00 0.00 0.00 3.41
575 585 2.483106 CTGACTGCCACTGTTTGATCTG 59.517 50.000 0.00 0.00 0.00 2.90
576 586 2.551721 CCTGACTGCCACTGTTTGATCT 60.552 50.000 0.00 0.00 0.00 2.75
577 587 1.808945 CCTGACTGCCACTGTTTGATC 59.191 52.381 0.00 0.00 0.00 2.92
578 588 1.421268 TCCTGACTGCCACTGTTTGAT 59.579 47.619 0.00 0.00 0.00 2.57
579 589 0.836606 TCCTGACTGCCACTGTTTGA 59.163 50.000 0.00 0.00 0.00 2.69
580 590 0.947244 GTCCTGACTGCCACTGTTTG 59.053 55.000 0.00 0.00 0.00 2.93
581 591 0.546122 TGTCCTGACTGCCACTGTTT 59.454 50.000 0.00 0.00 0.00 2.83
582 592 0.107456 CTGTCCTGACTGCCACTGTT 59.893 55.000 0.00 0.00 0.00 3.16
583 593 1.750930 CTGTCCTGACTGCCACTGT 59.249 57.895 0.00 0.00 0.00 3.55
584 594 1.670406 GCTGTCCTGACTGCCACTG 60.670 63.158 15.75 0.00 46.36 3.66
585 595 2.746359 GCTGTCCTGACTGCCACT 59.254 61.111 15.75 0.00 46.36 4.00
590 600 1.812922 GCCGATGCTGTCCTGACTG 60.813 63.158 0.00 0.00 33.53 3.51
591 601 2.581354 GCCGATGCTGTCCTGACT 59.419 61.111 0.00 0.00 33.53 3.41
592 602 2.887568 CGCCGATGCTGTCCTGAC 60.888 66.667 0.00 0.00 34.43 3.51
593 603 4.147449 CCGCCGATGCTGTCCTGA 62.147 66.667 0.00 0.00 34.43 3.86
609 619 4.864334 CACCATCCTCAGCCCGCC 62.864 72.222 0.00 0.00 0.00 6.13
610 620 3.628646 AACACCATCCTCAGCCCGC 62.629 63.158 0.00 0.00 0.00 6.13
611 621 1.746615 CAACACCATCCTCAGCCCG 60.747 63.158 0.00 0.00 0.00 6.13
612 622 1.379044 CCAACACCATCCTCAGCCC 60.379 63.158 0.00 0.00 0.00 5.19
613 623 0.038166 TTCCAACACCATCCTCAGCC 59.962 55.000 0.00 0.00 0.00 4.85
614 624 1.457346 CTTCCAACACCATCCTCAGC 58.543 55.000 0.00 0.00 0.00 4.26
615 625 1.004044 AGCTTCCAACACCATCCTCAG 59.996 52.381 0.00 0.00 0.00 3.35
616 626 1.067295 AGCTTCCAACACCATCCTCA 58.933 50.000 0.00 0.00 0.00 3.86
617 627 1.457346 CAGCTTCCAACACCATCCTC 58.543 55.000 0.00 0.00 0.00 3.71
618 628 0.038744 CCAGCTTCCAACACCATCCT 59.961 55.000 0.00 0.00 0.00 3.24
619 629 0.967380 CCCAGCTTCCAACACCATCC 60.967 60.000 0.00 0.00 0.00 3.51
620 630 1.598701 GCCCAGCTTCCAACACCATC 61.599 60.000 0.00 0.00 0.00 3.51
621 631 1.607467 GCCCAGCTTCCAACACCAT 60.607 57.895 0.00 0.00 0.00 3.55
622 632 2.203480 GCCCAGCTTCCAACACCA 60.203 61.111 0.00 0.00 0.00 4.17
623 633 3.365265 CGCCCAGCTTCCAACACC 61.365 66.667 0.00 0.00 0.00 4.16
624 634 2.594592 ACGCCCAGCTTCCAACAC 60.595 61.111 0.00 0.00 0.00 3.32
625 635 2.594303 CACGCCCAGCTTCCAACA 60.594 61.111 0.00 0.00 0.00 3.33
626 636 2.281484 TCACGCCCAGCTTCCAAC 60.281 61.111 0.00 0.00 0.00 3.77
627 637 2.032528 CTCACGCCCAGCTTCCAA 59.967 61.111 0.00 0.00 0.00 3.53
628 638 4.020617 CCTCACGCCCAGCTTCCA 62.021 66.667 0.00 0.00 0.00 3.53
629 639 1.972660 ATACCTCACGCCCAGCTTCC 61.973 60.000 0.00 0.00 0.00 3.46
630 640 0.750850 TATACCTCACGCCCAGCTTC 59.249 55.000 0.00 0.00 0.00 3.86
631 641 1.200519 TTATACCTCACGCCCAGCTT 58.799 50.000 0.00 0.00 0.00 3.74
632 642 1.200519 TTTATACCTCACGCCCAGCT 58.799 50.000 0.00 0.00 0.00 4.24
633 643 2.256117 ATTTATACCTCACGCCCAGC 57.744 50.000 0.00 0.00 0.00 4.85
634 644 3.564225 GGAAATTTATACCTCACGCCCAG 59.436 47.826 0.00 0.00 0.00 4.45
635 645 3.201266 AGGAAATTTATACCTCACGCCCA 59.799 43.478 0.00 0.00 0.00 5.36
636 646 3.816994 AGGAAATTTATACCTCACGCCC 58.183 45.455 0.00 0.00 0.00 6.13
637 647 5.589050 AGAAAGGAAATTTATACCTCACGCC 59.411 40.000 0.00 0.00 33.16 5.68
638 648 6.679327 AGAAAGGAAATTTATACCTCACGC 57.321 37.500 0.00 0.00 33.16 5.34
639 649 9.983804 GTTTAGAAAGGAAATTTATACCTCACG 57.016 33.333 0.00 0.00 33.16 4.35
647 657 8.961634 GCTCTCAGGTTTAGAAAGGAAATTTAT 58.038 33.333 0.00 0.00 0.00 1.40
648 658 8.164070 AGCTCTCAGGTTTAGAAAGGAAATTTA 58.836 33.333 0.00 0.00 0.00 1.40
649 659 7.007116 AGCTCTCAGGTTTAGAAAGGAAATTT 58.993 34.615 0.00 0.00 0.00 1.82
650 660 6.547402 AGCTCTCAGGTTTAGAAAGGAAATT 58.453 36.000 0.00 0.00 0.00 1.82
651 661 6.133253 AGCTCTCAGGTTTAGAAAGGAAAT 57.867 37.500 0.00 0.00 0.00 2.17
652 662 5.568620 AGCTCTCAGGTTTAGAAAGGAAA 57.431 39.130 0.00 0.00 0.00 3.13
653 663 6.270231 ACTTAGCTCTCAGGTTTAGAAAGGAA 59.730 38.462 0.00 0.00 0.00 3.36
654 664 5.780793 ACTTAGCTCTCAGGTTTAGAAAGGA 59.219 40.000 0.00 0.00 0.00 3.36
655 665 5.872070 CACTTAGCTCTCAGGTTTAGAAAGG 59.128 44.000 0.00 0.00 0.00 3.11
656 666 6.459923 ACACTTAGCTCTCAGGTTTAGAAAG 58.540 40.000 0.00 0.00 0.00 2.62
657 667 6.420913 ACACTTAGCTCTCAGGTTTAGAAA 57.579 37.500 0.00 0.00 0.00 2.52
658 668 6.420913 AACACTTAGCTCTCAGGTTTAGAA 57.579 37.500 0.00 0.00 0.00 2.10
659 669 6.946583 TCTAACACTTAGCTCTCAGGTTTAGA 59.053 38.462 0.00 0.00 33.23 2.10
660 670 7.030768 GTCTAACACTTAGCTCTCAGGTTTAG 58.969 42.308 0.00 0.00 33.23 1.85
661 671 6.720288 AGTCTAACACTTAGCTCTCAGGTTTA 59.280 38.462 0.00 0.00 33.23 2.01
662 672 5.540719 AGTCTAACACTTAGCTCTCAGGTTT 59.459 40.000 0.00 0.00 33.23 3.27
663 673 5.081032 AGTCTAACACTTAGCTCTCAGGTT 58.919 41.667 0.00 0.00 33.23 3.50
664 674 4.668636 AGTCTAACACTTAGCTCTCAGGT 58.331 43.478 0.00 0.00 33.23 4.00
665 675 6.952773 ATAGTCTAACACTTAGCTCTCAGG 57.047 41.667 0.00 0.00 36.43 3.86
666 676 7.067615 TGGAATAGTCTAACACTTAGCTCTCAG 59.932 40.741 0.00 0.00 36.43 3.35
667 677 6.890268 TGGAATAGTCTAACACTTAGCTCTCA 59.110 38.462 0.00 0.00 36.43 3.27
668 678 7.336161 TGGAATAGTCTAACACTTAGCTCTC 57.664 40.000 0.00 0.00 36.43 3.20
669 679 7.201956 CCATGGAATAGTCTAACACTTAGCTCT 60.202 40.741 5.56 0.00 36.43 4.09
670 680 6.926272 CCATGGAATAGTCTAACACTTAGCTC 59.074 42.308 5.56 0.00 36.43 4.09
671 681 6.611642 TCCATGGAATAGTCTAACACTTAGCT 59.388 38.462 13.46 0.00 36.43 3.32
672 682 6.817184 TCCATGGAATAGTCTAACACTTAGC 58.183 40.000 13.46 0.00 36.43 3.09
675 685 8.993424 ACTTATCCATGGAATAGTCTAACACTT 58.007 33.333 20.67 0.00 36.43 3.16
676 686 8.554490 ACTTATCCATGGAATAGTCTAACACT 57.446 34.615 20.67 0.00 39.41 3.55
677 687 9.614792 AAACTTATCCATGGAATAGTCTAACAC 57.385 33.333 24.42 0.00 0.00 3.32
678 688 9.832445 GAAACTTATCCATGGAATAGTCTAACA 57.168 33.333 24.42 0.00 0.00 2.41
679 689 9.274206 GGAAACTTATCCATGGAATAGTCTAAC 57.726 37.037 24.42 17.23 39.42 2.34
680 690 9.225682 AGGAAACTTATCCATGGAATAGTCTAA 57.774 33.333 24.42 14.89 42.27 2.10
681 691 8.798975 AGGAAACTTATCCATGGAATAGTCTA 57.201 34.615 24.42 9.01 42.27 2.59
682 692 7.472100 CGAGGAAACTTATCCATGGAATAGTCT 60.472 40.741 24.42 19.05 44.43 3.24
683 693 6.647067 CGAGGAAACTTATCCATGGAATAGTC 59.353 42.308 24.42 16.21 44.43 2.59
684 694 6.099845 ACGAGGAAACTTATCCATGGAATAGT 59.900 38.462 20.67 20.68 44.43 2.12
685 695 6.525629 ACGAGGAAACTTATCCATGGAATAG 58.474 40.000 20.67 20.02 44.43 1.73
686 696 6.463897 GGACGAGGAAACTTATCCATGGAATA 60.464 42.308 20.67 8.78 44.43 1.75
687 697 5.368989 GACGAGGAAACTTATCCATGGAAT 58.631 41.667 20.67 10.09 44.43 3.01
688 698 4.383770 GGACGAGGAAACTTATCCATGGAA 60.384 45.833 20.67 1.47 44.43 3.53
689 699 3.134081 GGACGAGGAAACTTATCCATGGA 59.866 47.826 18.88 18.88 44.43 3.41
690 700 3.118408 TGGACGAGGAAACTTATCCATGG 60.118 47.826 4.97 4.97 45.05 3.66
691 701 4.137116 TGGACGAGGAAACTTATCCATG 57.863 45.455 0.00 0.00 45.05 3.66
693 703 3.581332 ACTTGGACGAGGAAACTTATCCA 59.419 43.478 0.00 0.00 46.99 3.41
694 704 4.182339 GACTTGGACGAGGAAACTTATCC 58.818 47.826 0.00 0.00 44.43 2.59
695 705 3.858238 CGACTTGGACGAGGAAACTTATC 59.142 47.826 0.00 0.00 44.43 1.75
696 706 3.368116 CCGACTTGGACGAGGAAACTTAT 60.368 47.826 0.00 0.00 40.63 1.73
697 707 2.029649 CCGACTTGGACGAGGAAACTTA 60.030 50.000 0.00 0.00 40.63 2.24
698 708 1.270147 CCGACTTGGACGAGGAAACTT 60.270 52.381 0.00 0.00 40.63 2.66
699 709 0.317479 CCGACTTGGACGAGGAAACT 59.683 55.000 0.00 0.00 43.14 2.66
700 710 0.316204 TCCGACTTGGACGAGGAAAC 59.684 55.000 0.00 0.00 43.74 2.78
701 711 0.601558 CTCCGACTTGGACGAGGAAA 59.398 55.000 0.00 0.00 43.74 3.13
702 712 0.251033 TCTCCGACTTGGACGAGGAA 60.251 55.000 0.00 0.00 43.74 3.36
703 713 0.034380 ATCTCCGACTTGGACGAGGA 60.034 55.000 0.00 0.00 43.74 3.71
704 714 0.382515 GATCTCCGACTTGGACGAGG 59.617 60.000 0.00 0.00 43.74 4.63
705 715 1.384525 AGATCTCCGACTTGGACGAG 58.615 55.000 0.00 0.00 43.74 4.18
706 716 1.472878 CAAGATCTCCGACTTGGACGA 59.527 52.381 0.00 0.00 43.74 4.20
707 717 1.914634 CAAGATCTCCGACTTGGACG 58.085 55.000 0.00 0.00 43.74 4.79
708 718 1.205893 AGCAAGATCTCCGACTTGGAC 59.794 52.381 0.00 0.00 43.74 4.02
710 720 1.480137 AGAGCAAGATCTCCGACTTGG 59.520 52.381 0.00 0.00 42.26 3.61
711 721 2.794282 CGAGAGCAAGATCTCCGACTTG 60.794 54.545 9.50 0.00 42.34 3.16
712 722 1.403679 CGAGAGCAAGATCTCCGACTT 59.596 52.381 9.50 0.00 42.34 3.01
713 723 1.021202 CGAGAGCAAGATCTCCGACT 58.979 55.000 9.50 0.00 42.34 4.18
714 724 0.736053 ACGAGAGCAAGATCTCCGAC 59.264 55.000 9.50 0.00 42.34 4.79
715 725 1.402259 GAACGAGAGCAAGATCTCCGA 59.598 52.381 9.50 0.00 42.34 4.55
786 796 1.704628 TGGAACCCAAGCAGAGATTCA 59.295 47.619 0.00 0.00 0.00 2.57
800 810 4.393990 CGTTTTATGTAGGAACCTGGAACC 59.606 45.833 0.00 3.08 0.00 3.62
813 823 3.428452 CGAGCTGGTCTCCGTTTTATGTA 60.428 47.826 5.23 0.00 38.62 2.29
835 845 8.995906 CGTTTTATGTTCGGATCAGTATTTTTC 58.004 33.333 0.00 0.00 0.00 2.29
850 861 4.698304 TCATGAGGGGTTCGTTTTATGTTC 59.302 41.667 0.00 0.00 0.00 3.18
890 901 0.313043 TTGTCGACTCGGTCTCCAAC 59.687 55.000 17.92 0.00 0.00 3.77
891 902 0.313043 GTTGTCGACTCGGTCTCCAA 59.687 55.000 17.92 0.00 0.00 3.53
930 941 0.175073 GTTCGGCCCAGTCGTCTAAT 59.825 55.000 0.00 0.00 30.45 1.73
1214 1243 2.118294 GGCCAGGCAAAGACCCTT 59.882 61.111 15.19 0.00 0.00 3.95
1778 1826 2.808906 AAGGCACCCTTCTCCATAAC 57.191 50.000 0.00 0.00 40.17 1.89
1845 1895 5.136828 TGGTAATTCAGTTTCAAAGGCAGA 58.863 37.500 0.00 0.00 0.00 4.26
1863 1913 4.792513 TGAAGGTTTAGTGGGTTGGTAA 57.207 40.909 0.00 0.00 0.00 2.85
3121 3699 3.618594 GCTGCGATGAAAATCAGAGTACA 59.381 43.478 0.00 0.00 0.00 2.90
3182 3760 3.755112 TTGGAACGTATCACAGTCCAA 57.245 42.857 10.77 10.77 33.93 3.53


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

AutoCloner maintained by Alex Coulton.