Multiple sequence alignment - TraesCS3D01G186800

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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 TraesCS3D01G186800 chr3D 100.000 2582 0 0 1 2582 173393616 173396197 0.000000e+00 4769
1 TraesCS3D01G186800 chr3D 86.828 577 51 10 1 557 365280270 365280841 2.820000e-174 621
2 TraesCS3D01G186800 chr3D 86.159 578 55 10 1 557 15282388 15281815 3.680000e-168 601
3 TraesCS3D01G186800 chr3D 86.189 572 57 12 1 557 27272324 27272888 1.320000e-167 599
4 TraesCS3D01G186800 chr3D 91.613 155 13 0 574 728 480059659 480059813 5.600000e-52 215
5 TraesCS3D01G186800 chr3B 93.715 1782 68 19 775 2534 251781964 251783723 0.000000e+00 2630
6 TraesCS3D01G186800 chr3B 85.268 448 43 13 135 565 543851454 543851013 8.480000e-120 440
7 TraesCS3D01G186800 chr3B 83.983 462 62 8 103 559 260349649 260349195 1.420000e-117 433
8 TraesCS3D01G186800 chr3A 95.346 924 34 3 825 1747 211189173 211188258 0.000000e+00 1459
9 TraesCS3D01G186800 chr3A 93.333 660 31 8 1738 2392 211187869 211187218 0.000000e+00 963
10 TraesCS3D01G186800 chr6B 87.263 581 50 13 1 559 523507365 523507943 2.170000e-180 641
11 TraesCS3D01G186800 chr6B 84.746 590 61 11 1 565 241147424 241148009 4.820000e-157 564
12 TraesCS3D01G186800 chr5D 87.197 578 50 9 1 558 200044742 200044169 1.010000e-178 636
13 TraesCS3D01G186800 chr7A 86.552 580 55 10 1 558 487751214 487750636 3.650000e-173 617
14 TraesCS3D01G186800 chr4A 88.802 509 42 9 1 497 477831694 477831189 6.110000e-171 610
15 TraesCS3D01G186800 chrUn 86.207 580 56 8 1 557 96031150 96031728 7.900000e-170 606
16 TraesCS3D01G186800 chrUn 85.009 587 64 8 1 565 23537170 23537754 2.230000e-160 575
17 TraesCS3D01G186800 chr5B 85.643 599 60 12 1 575 513588559 513589155 7.900000e-170 606
18 TraesCS3D01G186800 chr5B 84.874 595 60 12 1 574 137417079 137417664 8.010000e-160 573
19 TraesCS3D01G186800 chr1D 86.159 578 51 20 1 558 10132811 10133379 4.760000e-167 597
20 TraesCS3D01G186800 chr1D 85.399 589 56 14 1 565 120221906 120222488 3.700000e-163 584
21 TraesCS3D01G186800 chr2B 84.915 590 60 12 1 565 123109893 123109308 1.040000e-158 569
22 TraesCS3D01G186800 chr2B 89.157 166 18 0 574 739 291374033 291374198 9.360000e-50 207
23 TraesCS3D01G186800 chr6A 84.045 445 49 12 138 565 2138759 2139198 2.390000e-110 409
24 TraesCS3D01G186800 chr4D 91.018 167 14 1 574 739 18687718 18687884 9.300000e-55 224
25 TraesCS3D01G186800 chr4D 89.157 166 18 0 574 739 105978692 105978857 9.360000e-50 207
26 TraesCS3D01G186800 chr4D 89.222 167 17 1 574 739 276857469 276857303 9.360000e-50 207
27 TraesCS3D01G186800 chr2D 92.258 155 12 0 574 728 634276418 634276572 1.200000e-53 220
28 TraesCS3D01G186800 chr7B 91.613 155 13 0 574 728 378921883 378922037 5.600000e-52 215
29 TraesCS3D01G186800 chr6D 91.613 155 13 0 574 728 304436984 304437138 5.600000e-52 215
30 TraesCS3D01G186800 chr1B 92.157 153 11 1 574 726 262916249 262916098 5.600000e-52 215


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 TraesCS3D01G186800 chr3D 173393616 173396197 2581 False 4769 4769 100.0000 1 2582 1 chr3D.!!$F2 2581
1 TraesCS3D01G186800 chr3D 365280270 365280841 571 False 621 621 86.8280 1 557 1 chr3D.!!$F3 556
2 TraesCS3D01G186800 chr3D 15281815 15282388 573 True 601 601 86.1590 1 557 1 chr3D.!!$R1 556
3 TraesCS3D01G186800 chr3D 27272324 27272888 564 False 599 599 86.1890 1 557 1 chr3D.!!$F1 556
4 TraesCS3D01G186800 chr3B 251781964 251783723 1759 False 2630 2630 93.7150 775 2534 1 chr3B.!!$F1 1759
5 TraesCS3D01G186800 chr3A 211187218 211189173 1955 True 1211 1459 94.3395 825 2392 2 chr3A.!!$R1 1567
6 TraesCS3D01G186800 chr6B 523507365 523507943 578 False 641 641 87.2630 1 559 1 chr6B.!!$F2 558
7 TraesCS3D01G186800 chr6B 241147424 241148009 585 False 564 564 84.7460 1 565 1 chr6B.!!$F1 564
8 TraesCS3D01G186800 chr5D 200044169 200044742 573 True 636 636 87.1970 1 558 1 chr5D.!!$R1 557
9 TraesCS3D01G186800 chr7A 487750636 487751214 578 True 617 617 86.5520 1 558 1 chr7A.!!$R1 557
10 TraesCS3D01G186800 chr4A 477831189 477831694 505 True 610 610 88.8020 1 497 1 chr4A.!!$R1 496
11 TraesCS3D01G186800 chrUn 96031150 96031728 578 False 606 606 86.2070 1 557 1 chrUn.!!$F2 556
12 TraesCS3D01G186800 chrUn 23537170 23537754 584 False 575 575 85.0090 1 565 1 chrUn.!!$F1 564
13 TraesCS3D01G186800 chr5B 513588559 513589155 596 False 606 606 85.6430 1 575 1 chr5B.!!$F2 574
14 TraesCS3D01G186800 chr5B 137417079 137417664 585 False 573 573 84.8740 1 574 1 chr5B.!!$F1 573
15 TraesCS3D01G186800 chr1D 10132811 10133379 568 False 597 597 86.1590 1 558 1 chr1D.!!$F1 557
16 TraesCS3D01G186800 chr1D 120221906 120222488 582 False 584 584 85.3990 1 565 1 chr1D.!!$F2 564
17 TraesCS3D01G186800 chr2B 123109308 123109893 585 True 569 569 84.9150 1 565 1 chr2B.!!$R1 564

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
752 787 0.039437 TCACTCGGTTTCGCTCTGAC 60.039 55.0 0.0 0.0 36.13 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2198 2648 0.729116 CACGCAGGCCTTCAACTATG 59.271 55.0 0.0 0.0 0.0 2.23 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
29 30 5.106869 CGTTTTCACCATTAAATCCGTCTCA 60.107 40.000 0.00 0.00 0.00 3.27
32 33 3.055458 TCACCATTAAATCCGTCTCAGCA 60.055 43.478 0.00 0.00 0.00 4.41
40 41 3.902881 ATCCGTCTCAGCAAGATCTTT 57.097 42.857 4.86 0.00 36.11 2.52
62 64 8.265055 TCTTTAAACTAGACCCCATGTTGATAG 58.735 37.037 0.00 0.00 0.00 2.08
167 182 5.673337 TTCAGTTTGTAGAGCATGACAAC 57.327 39.130 0.00 0.00 35.35 3.32
171 186 6.318648 TCAGTTTGTAGAGCATGACAACTTTT 59.681 34.615 0.00 0.00 35.35 2.27
175 190 6.785488 TGTAGAGCATGACAACTTTTAGTG 57.215 37.500 0.00 0.00 0.00 2.74
291 309 6.911308 AGTTTATGGTTTATGGCAGGTCTAT 58.089 36.000 0.00 0.00 0.00 1.98
374 398 8.755018 GTTGTAACATATAATGGCAATTTCAGC 58.245 33.333 0.00 0.00 33.60 4.26
388 412 5.804979 GCAATTTCAGCGTAAACACCATAAT 59.195 36.000 0.00 0.00 0.00 1.28
473 503 7.589395 TGATATGAGATCTAGTTTCGAAGAGC 58.411 38.462 0.00 0.00 38.43 4.09
474 504 7.446931 TGATATGAGATCTAGTTTCGAAGAGCT 59.553 37.037 2.38 2.38 40.99 4.09
475 505 5.906113 TGAGATCTAGTTTCGAAGAGCTT 57.094 39.130 4.26 0.00 38.53 3.74
476 506 5.645624 TGAGATCTAGTTTCGAAGAGCTTG 58.354 41.667 4.26 3.61 38.53 4.01
477 507 5.184096 TGAGATCTAGTTTCGAAGAGCTTGT 59.816 40.000 4.26 0.00 38.53 3.16
478 508 5.646606 AGATCTAGTTTCGAAGAGCTTGTC 58.353 41.667 0.00 0.00 34.97 3.18
479 509 3.822996 TCTAGTTTCGAAGAGCTTGTCG 58.177 45.455 12.41 12.41 38.43 4.35
480 510 1.140816 AGTTTCGAAGAGCTTGTCGC 58.859 50.000 13.49 2.61 38.43 5.19
481 511 0.179272 GTTTCGAAGAGCTTGTCGCG 60.179 55.000 13.49 0.00 45.59 5.87
482 512 0.318360 TTTCGAAGAGCTTGTCGCGA 60.318 50.000 3.71 3.71 45.59 5.87
483 513 0.729478 TTCGAAGAGCTTGTCGCGAG 60.729 55.000 10.24 0.00 45.59 5.03
484 514 2.155194 CGAAGAGCTTGTCGCGAGG 61.155 63.158 10.24 3.91 45.59 4.63
485 515 1.807573 GAAGAGCTTGTCGCGAGGG 60.808 63.158 10.24 3.49 45.59 4.30
486 516 2.214181 GAAGAGCTTGTCGCGAGGGA 62.214 60.000 10.24 0.00 45.59 4.20
487 517 1.608717 AAGAGCTTGTCGCGAGGGAT 61.609 55.000 10.24 0.16 45.59 3.85
488 518 1.153549 GAGCTTGTCGCGAGGGATT 60.154 57.895 10.24 0.00 45.59 3.01
489 519 0.741221 GAGCTTGTCGCGAGGGATTT 60.741 55.000 10.24 0.00 45.59 2.17
490 520 0.535335 AGCTTGTCGCGAGGGATTTA 59.465 50.000 10.24 0.00 45.59 1.40
491 521 1.066430 AGCTTGTCGCGAGGGATTTAA 60.066 47.619 10.24 0.00 45.59 1.52
492 522 1.940613 GCTTGTCGCGAGGGATTTAAT 59.059 47.619 10.24 0.00 0.00 1.40
493 523 2.286418 GCTTGTCGCGAGGGATTTAATG 60.286 50.000 10.24 0.00 0.00 1.90
494 524 1.948104 TGTCGCGAGGGATTTAATGG 58.052 50.000 10.24 0.00 0.00 3.16
495 525 1.208535 TGTCGCGAGGGATTTAATGGT 59.791 47.619 10.24 0.00 0.00 3.55
496 526 1.597663 GTCGCGAGGGATTTAATGGTG 59.402 52.381 10.24 0.00 0.00 4.17
497 527 1.208535 TCGCGAGGGATTTAATGGTGT 59.791 47.619 3.71 0.00 0.00 4.16
498 528 1.597663 CGCGAGGGATTTAATGGTGTC 59.402 52.381 0.00 0.00 0.00 3.67
499 529 2.639065 GCGAGGGATTTAATGGTGTCA 58.361 47.619 0.00 0.00 0.00 3.58
500 530 3.013921 GCGAGGGATTTAATGGTGTCAA 58.986 45.455 0.00 0.00 0.00 3.18
501 531 3.632145 GCGAGGGATTTAATGGTGTCAAT 59.368 43.478 0.00 0.00 0.00 2.57
502 532 4.261197 GCGAGGGATTTAATGGTGTCAATC 60.261 45.833 0.00 0.00 0.00 2.67
503 533 4.024893 CGAGGGATTTAATGGTGTCAATCG 60.025 45.833 0.00 0.00 0.00 3.34
504 534 5.110814 AGGGATTTAATGGTGTCAATCGA 57.889 39.130 0.00 0.00 0.00 3.59
505 535 5.505780 AGGGATTTAATGGTGTCAATCGAA 58.494 37.500 0.00 0.00 0.00 3.71
506 536 6.129179 AGGGATTTAATGGTGTCAATCGAAT 58.871 36.000 0.00 0.00 0.00 3.34
507 537 6.607198 AGGGATTTAATGGTGTCAATCGAATT 59.393 34.615 0.00 0.00 0.00 2.17
508 538 7.124147 AGGGATTTAATGGTGTCAATCGAATTT 59.876 33.333 0.00 0.00 0.00 1.82
509 539 7.763985 GGGATTTAATGGTGTCAATCGAATTTT 59.236 33.333 0.00 0.00 0.00 1.82
510 540 9.150348 GGATTTAATGGTGTCAATCGAATTTTT 57.850 29.630 0.00 0.00 0.00 1.94
512 542 9.703892 ATTTAATGGTGTCAATCGAATTTTTCA 57.296 25.926 0.00 0.00 0.00 2.69
513 543 9.703892 TTTAATGGTGTCAATCGAATTTTTCAT 57.296 25.926 0.00 0.00 0.00 2.57
560 590 9.671279 AAAACTGAAAATCCAAAAAGATTCTGT 57.329 25.926 0.00 0.00 35.40 3.41
563 593 9.918630 ACTGAAAATCCAAAAAGATTCTGTATG 57.081 29.630 0.00 0.00 35.40 2.39
564 594 8.761575 TGAAAATCCAAAAAGATTCTGTATGC 57.238 30.769 0.00 0.00 35.40 3.14
565 595 7.541783 TGAAAATCCAAAAAGATTCTGTATGCG 59.458 33.333 0.00 0.00 35.40 4.73
566 596 4.963276 TCCAAAAAGATTCTGTATGCGG 57.037 40.909 0.00 0.00 0.00 5.69
567 597 4.331968 TCCAAAAAGATTCTGTATGCGGT 58.668 39.130 0.00 0.00 0.00 5.68
568 598 4.155826 TCCAAAAAGATTCTGTATGCGGTG 59.844 41.667 0.00 0.00 0.00 4.94
569 599 4.155826 CCAAAAAGATTCTGTATGCGGTGA 59.844 41.667 0.00 0.00 0.00 4.02
570 600 4.946784 AAAAGATTCTGTATGCGGTGAC 57.053 40.909 0.00 0.00 0.00 3.67
628 659 8.208718 ACGGATCTTCAATCGAATTTTTCATA 57.791 30.769 0.00 0.00 0.00 2.15
683 718 9.661563 AATTCAAAATGATTCTTACATGCATGT 57.338 25.926 33.20 33.20 44.48 3.21
698 733 0.308684 CATGTATGCGGTGACATGGC 59.691 55.000 7.04 0.00 46.03 4.40
699 734 1.159713 ATGTATGCGGTGACATGGCG 61.160 55.000 0.00 0.00 34.98 5.69
700 735 2.894879 TATGCGGTGACATGGCGC 60.895 61.111 2.56 2.56 0.00 6.53
701 736 3.672295 TATGCGGTGACATGGCGCA 62.672 57.895 15.38 8.39 39.89 6.09
704 739 3.490759 CGGTGACATGGCGCAGTC 61.491 66.667 15.38 14.65 35.37 3.51
705 740 2.046892 GGTGACATGGCGCAGTCT 60.047 61.111 15.38 0.00 35.81 3.24
706 741 1.218047 GGTGACATGGCGCAGTCTA 59.782 57.895 15.38 10.14 35.81 2.59
707 742 0.179073 GGTGACATGGCGCAGTCTAT 60.179 55.000 15.38 2.31 35.81 1.98
708 743 0.933097 GTGACATGGCGCAGTCTATG 59.067 55.000 21.84 14.31 35.81 2.23
709 744 0.536724 TGACATGGCGCAGTCTATGT 59.463 50.000 21.84 16.76 38.08 2.29
710 745 0.933097 GACATGGCGCAGTCTATGTG 59.067 55.000 10.83 0.00 42.62 3.21
711 746 0.250234 ACATGGCGCAGTCTATGTGT 59.750 50.000 10.83 0.00 41.71 3.72
712 747 1.339055 ACATGGCGCAGTCTATGTGTT 60.339 47.619 10.83 0.00 41.71 3.32
713 748 2.093711 ACATGGCGCAGTCTATGTGTTA 60.094 45.455 10.83 0.00 41.71 2.41
714 749 2.979814 TGGCGCAGTCTATGTGTTAT 57.020 45.000 10.83 0.00 41.71 1.89
715 750 4.202212 ACATGGCGCAGTCTATGTGTTATA 60.202 41.667 10.83 0.00 41.71 0.98
716 751 4.394439 TGGCGCAGTCTATGTGTTATAA 57.606 40.909 10.83 0.00 41.71 0.98
717 752 4.368315 TGGCGCAGTCTATGTGTTATAAG 58.632 43.478 10.83 0.00 41.71 1.73
718 753 3.741344 GGCGCAGTCTATGTGTTATAAGG 59.259 47.826 10.83 0.00 41.71 2.69
719 754 3.184581 GCGCAGTCTATGTGTTATAAGGC 59.815 47.826 0.30 0.00 41.71 4.35
720 755 3.425525 CGCAGTCTATGTGTTATAAGGCG 59.574 47.826 0.00 0.00 34.56 5.52
721 756 3.184581 GCAGTCTATGTGTTATAAGGCGC 59.815 47.826 0.00 0.00 0.00 6.53
722 757 3.425525 CAGTCTATGTGTTATAAGGCGCG 59.574 47.826 0.00 0.00 0.00 6.86
723 758 3.067742 AGTCTATGTGTTATAAGGCGCGT 59.932 43.478 8.43 0.00 0.00 6.01
724 759 3.181774 GTCTATGTGTTATAAGGCGCGTG 59.818 47.826 8.43 0.00 0.00 5.34
725 760 1.295792 ATGTGTTATAAGGCGCGTGG 58.704 50.000 8.43 0.00 0.00 4.94
726 761 0.741574 TGTGTTATAAGGCGCGTGGG 60.742 55.000 8.43 0.00 0.00 4.61
727 762 1.816259 TGTTATAAGGCGCGTGGGC 60.816 57.895 8.43 0.00 42.69 5.36
728 763 1.816259 GTTATAAGGCGCGTGGGCA 60.816 57.895 8.43 0.00 45.36 5.36
729 764 1.147376 TTATAAGGCGCGTGGGCAT 59.853 52.632 8.43 0.06 45.36 4.40
730 765 0.393448 TTATAAGGCGCGTGGGCATA 59.607 50.000 8.43 4.00 45.36 3.14
731 766 0.611200 TATAAGGCGCGTGGGCATAT 59.389 50.000 8.43 10.45 45.36 1.78
732 767 0.250727 ATAAGGCGCGTGGGCATATT 60.251 50.000 8.43 5.13 45.36 1.28
733 768 0.464735 TAAGGCGCGTGGGCATATTT 60.465 50.000 8.43 2.64 45.36 1.40
734 769 1.724582 AAGGCGCGTGGGCATATTTC 61.725 55.000 8.43 0.00 45.36 2.17
735 770 2.477176 GGCGCGTGGGCATATTTCA 61.477 57.895 8.43 0.00 41.77 2.69
736 771 1.298339 GCGCGTGGGCATATTTCAC 60.298 57.895 8.43 0.00 39.92 3.18
737 772 1.714899 GCGCGTGGGCATATTTCACT 61.715 55.000 8.43 0.00 39.92 3.41
738 773 0.304705 CGCGTGGGCATATTTCACTC 59.695 55.000 0.00 0.00 39.92 3.51
739 774 0.304705 GCGTGGGCATATTTCACTCG 59.695 55.000 0.00 0.00 39.62 4.18
740 775 0.937304 CGTGGGCATATTTCACTCGG 59.063 55.000 0.00 0.00 0.00 4.63
741 776 1.742411 CGTGGGCATATTTCACTCGGT 60.742 52.381 0.00 0.00 0.00 4.69
742 777 2.365582 GTGGGCATATTTCACTCGGTT 58.634 47.619 0.00 0.00 0.00 4.44
743 778 2.752903 GTGGGCATATTTCACTCGGTTT 59.247 45.455 0.00 0.00 0.00 3.27
744 779 3.013921 TGGGCATATTTCACTCGGTTTC 58.986 45.455 0.00 0.00 0.00 2.78
745 780 2.031683 GGGCATATTTCACTCGGTTTCG 59.968 50.000 0.00 0.00 37.82 3.46
746 781 2.538939 GGCATATTTCACTCGGTTTCGC 60.539 50.000 0.00 0.00 36.13 4.70
747 782 2.351726 GCATATTTCACTCGGTTTCGCT 59.648 45.455 0.00 0.00 36.13 4.93
748 783 3.544244 GCATATTTCACTCGGTTTCGCTC 60.544 47.826 0.00 0.00 36.13 5.03
749 784 2.457366 ATTTCACTCGGTTTCGCTCT 57.543 45.000 0.00 0.00 36.13 4.09
750 785 1.497991 TTTCACTCGGTTTCGCTCTG 58.502 50.000 0.00 0.00 36.13 3.35
751 786 0.671796 TTCACTCGGTTTCGCTCTGA 59.328 50.000 0.00 0.00 36.13 3.27
752 787 0.039437 TCACTCGGTTTCGCTCTGAC 60.039 55.000 0.00 0.00 36.13 3.51
753 788 1.009389 CACTCGGTTTCGCTCTGACC 61.009 60.000 0.00 0.00 36.13 4.02
754 789 1.289066 CTCGGTTTCGCTCTGACCA 59.711 57.895 0.00 0.00 36.13 4.02
755 790 0.108615 CTCGGTTTCGCTCTGACCAT 60.109 55.000 0.00 0.00 36.13 3.55
756 791 1.134367 CTCGGTTTCGCTCTGACCATA 59.866 52.381 0.00 0.00 36.13 2.74
757 792 1.135199 TCGGTTTCGCTCTGACCATAC 60.135 52.381 0.00 0.00 36.13 2.39
758 793 1.278238 GGTTTCGCTCTGACCATACG 58.722 55.000 0.00 0.00 33.61 3.06
759 794 1.403780 GGTTTCGCTCTGACCATACGT 60.404 52.381 0.00 0.00 33.61 3.57
760 795 2.159338 GGTTTCGCTCTGACCATACGTA 60.159 50.000 0.00 0.00 33.61 3.57
761 796 3.490419 GGTTTCGCTCTGACCATACGTAT 60.490 47.826 1.14 1.14 33.61 3.06
762 797 3.349488 TTCGCTCTGACCATACGTATG 57.651 47.619 25.55 25.55 0.00 2.39
1236 1280 0.336392 TCTTCCAGCAGGAGGAGCTA 59.664 55.000 5.81 0.00 44.32 3.32
1243 1287 3.151022 AGGAGGAGCTACTGCCGC 61.151 66.667 14.83 0.00 40.80 6.53
1257 1301 2.838225 CCGCCCGAGTACCTGGAT 60.838 66.667 0.00 0.00 0.00 3.41
1272 1316 3.889044 GATCTCCTCGCCGTCGCA 61.889 66.667 0.00 0.00 35.26 5.10
1411 1455 1.747367 CTCGACTCGTGGCTCCTCT 60.747 63.158 0.00 0.00 0.00 3.69
1557 1601 0.186386 CCTCCTCGTCCTACTCCCAT 59.814 60.000 0.00 0.00 0.00 4.00
1634 1678 4.760047 CCGTTCACTCCCCTGCGG 62.760 72.222 0.00 0.00 0.00 5.69
1741 2185 1.806542 TCTCGCTGAAAAAGGTGATGC 59.193 47.619 0.00 0.00 0.00 3.91
1895 2339 3.804688 TGTTGTGATTCAATTGTACGCG 58.195 40.909 3.53 3.53 38.38 6.01
1931 2376 6.718454 TCTCTCCGTCTTCTAGAAGGTTAAAA 59.282 38.462 28.09 8.70 43.20 1.52
2004 2450 7.195374 AGAGCTTATGTAAAGGTGGTCAATA 57.805 36.000 0.00 0.00 0.00 1.90
2039 2485 9.512588 GTCTTCTTATCATGATGGATAAATGGT 57.487 33.333 18.72 0.00 38.79 3.55
2064 2510 6.588204 ACTAACAGTGACAACCAACTCAATA 58.412 36.000 0.00 0.00 0.00 1.90
2080 2526 1.600957 CAATAAGCAGTGCATCTCCCG 59.399 52.381 19.20 0.00 0.00 5.14
2123 2569 0.321653 GATCGACCTGTTGGGCTTGT 60.322 55.000 0.00 0.00 39.94 3.16
2136 2582 1.936547 GGGCTTGTGATCGATGAGTTC 59.063 52.381 0.54 0.00 0.00 3.01
2184 2634 8.656849 ACTCTAACATTTCGAAATACATCACAC 58.343 33.333 22.33 0.00 0.00 3.82
2185 2635 8.771920 TCTAACATTTCGAAATACATCACACT 57.228 30.769 22.33 0.00 0.00 3.55
2186 2636 9.214957 TCTAACATTTCGAAATACATCACACTT 57.785 29.630 22.33 6.24 0.00 3.16
2251 2709 2.051345 CAACCGCTTTCACCGTGC 60.051 61.111 0.00 0.00 0.00 5.34
2275 2733 1.214589 CAGGGTAAGTGACGGACGG 59.785 63.158 0.00 0.00 0.00 4.79
2319 2777 6.573664 TGAGTGTTGTTATTCATTCAAGGG 57.426 37.500 0.00 0.00 29.87 3.95
2327 2786 8.978539 GTTGTTATTCATTCAAGGGAGTTTTTC 58.021 33.333 0.00 0.00 0.00 2.29
2392 2851 3.610911 GAAACCAAGATCCAGGGTACAG 58.389 50.000 6.06 0.00 33.71 2.74
2412 2871 4.081087 ACAGTGGTTATAGTGTGGTGATCC 60.081 45.833 0.00 0.00 33.16 3.36
2419 2878 6.202188 GGTTATAGTGTGGTGATCCAAATACG 59.798 42.308 0.00 0.00 46.15 3.06
2433 2892 9.004717 TGATCCAAATACGAACTATTTTCACAA 57.995 29.630 0.00 0.00 33.42 3.33
2477 2936 9.783256 GGCTAAAAAGAATAATAATTCGTGTGT 57.217 29.630 0.00 0.00 45.24 3.72
2534 2993 2.284331 TACAGCCGGGCCTCTCAA 60.284 61.111 17.02 0.00 0.00 3.02
2535 2994 1.899437 CTACAGCCGGGCCTCTCAAA 61.899 60.000 17.02 0.00 0.00 2.69
2536 2995 2.180159 TACAGCCGGGCCTCTCAAAC 62.180 60.000 17.02 0.00 0.00 2.93
2537 2996 4.394712 AGCCGGGCCTCTCAAACG 62.395 66.667 17.02 0.00 0.00 3.60
2538 2997 4.388499 GCCGGGCCTCTCAAACGA 62.388 66.667 8.12 0.00 0.00 3.85
2539 2998 2.434359 CCGGGCCTCTCAAACGAC 60.434 66.667 0.84 0.00 0.00 4.34
2540 2999 2.434359 CGGGCCTCTCAAACGACC 60.434 66.667 0.84 0.00 0.00 4.79
2541 3000 2.434359 GGGCCTCTCAAACGACCG 60.434 66.667 0.84 0.00 0.00 4.79
2542 3001 2.434359 GGCCTCTCAAACGACCGG 60.434 66.667 0.00 0.00 0.00 5.28
2543 3002 2.342648 GCCTCTCAAACGACCGGT 59.657 61.111 6.92 6.92 0.00 5.28
2544 3003 1.737008 GCCTCTCAAACGACCGGTC 60.737 63.158 25.28 25.28 0.00 4.79
2545 3004 1.663739 CCTCTCAAACGACCGGTCA 59.336 57.895 32.80 13.24 0.00 4.02
2546 3005 0.388649 CCTCTCAAACGACCGGTCAG 60.389 60.000 32.80 25.84 0.00 3.51
2557 3016 4.112341 CGGTCAGGTCGTCCGGTC 62.112 72.222 0.00 0.00 41.90 4.79
2558 3017 2.987547 GGTCAGGTCGTCCGGTCA 60.988 66.667 0.00 0.00 39.05 4.02
2559 3018 2.257676 GTCAGGTCGTCCGGTCAC 59.742 66.667 0.00 0.00 39.05 3.67
2560 3019 2.114625 TCAGGTCGTCCGGTCACT 59.885 61.111 0.00 0.00 39.05 3.41
2561 3020 2.258591 CAGGTCGTCCGGTCACTG 59.741 66.667 0.00 0.82 39.05 3.66
2562 3021 2.114625 AGGTCGTCCGGTCACTGA 59.885 61.111 0.00 0.00 39.05 3.41
2563 3022 2.257676 GGTCGTCCGGTCACTGAC 59.742 66.667 0.00 0.00 0.00 3.51
2572 3031 3.390003 GGTCACTGACCGGTCAAAA 57.610 52.632 35.36 21.46 43.14 2.44
2573 3032 1.670791 GGTCACTGACCGGTCAAAAA 58.329 50.000 35.36 21.12 43.14 1.94
2574 3033 1.602377 GGTCACTGACCGGTCAAAAAG 59.398 52.381 35.36 25.96 43.14 2.27
2575 3034 2.557317 GTCACTGACCGGTCAAAAAGA 58.443 47.619 35.36 25.77 39.39 2.52
2576 3035 2.940410 GTCACTGACCGGTCAAAAAGAA 59.060 45.455 35.36 16.38 39.39 2.52
2577 3036 3.375922 GTCACTGACCGGTCAAAAAGAAA 59.624 43.478 35.36 15.38 39.39 2.52
2578 3037 4.011023 TCACTGACCGGTCAAAAAGAAAA 58.989 39.130 35.36 11.80 39.39 2.29
2579 3038 4.459685 TCACTGACCGGTCAAAAAGAAAAA 59.540 37.500 35.36 11.05 39.39 1.94
2580 3039 5.126384 TCACTGACCGGTCAAAAAGAAAAAT 59.874 36.000 35.36 7.22 39.39 1.82
2581 3040 5.458779 CACTGACCGGTCAAAAAGAAAAATC 59.541 40.000 35.36 5.97 39.39 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 5.250774 TGGGGTCTAGTTTAAAGATCTTGCT 59.749 40.000 9.17 7.86 0.00 3.91
32 33 7.272144 ACATGGGGTCTAGTTTAAAGATCTT 57.728 36.000 0.88 0.88 0.00 2.40
40 41 5.968167 ACCTATCAACATGGGGTCTAGTTTA 59.032 40.000 0.00 0.00 34.84 2.01
81 86 0.673437 CATCGTGGCAACTTTTGGGT 59.327 50.000 0.00 0.00 37.61 4.51
82 87 0.673437 ACATCGTGGCAACTTTTGGG 59.327 50.000 0.00 0.00 37.61 4.12
167 182 6.925165 AGTTGCCATCATCAAAACACTAAAAG 59.075 34.615 0.00 0.00 0.00 2.27
171 186 5.316167 AGAGTTGCCATCATCAAAACACTA 58.684 37.500 0.00 0.00 0.00 2.74
175 190 5.886960 ACTAGAGTTGCCATCATCAAAAC 57.113 39.130 0.00 0.00 0.00 2.43
278 296 7.724061 GGGAATTAAGAAAATAGACCTGCCATA 59.276 37.037 0.00 0.00 0.00 2.74
352 376 7.270757 ACGCTGAAATTGCCATTATATGTTA 57.729 32.000 0.00 0.00 0.00 2.41
374 398 7.912773 TGCACATGAATTATTATGGTGTTTACG 59.087 33.333 0.00 0.00 0.00 3.18
470 500 0.741221 AAATCCCTCGCGACAAGCTC 60.741 55.000 3.71 0.00 45.59 4.09
471 501 0.535335 TAAATCCCTCGCGACAAGCT 59.465 50.000 3.71 0.00 45.59 3.74
472 502 1.365699 TTAAATCCCTCGCGACAAGC 58.634 50.000 3.71 0.00 43.95 4.01
473 503 2.287915 CCATTAAATCCCTCGCGACAAG 59.712 50.000 3.71 0.00 0.00 3.16
474 504 2.285083 CCATTAAATCCCTCGCGACAA 58.715 47.619 3.71 0.00 0.00 3.18
475 505 1.208535 ACCATTAAATCCCTCGCGACA 59.791 47.619 3.71 0.00 0.00 4.35
476 506 1.597663 CACCATTAAATCCCTCGCGAC 59.402 52.381 3.71 0.00 0.00 5.19
477 507 1.208535 ACACCATTAAATCCCTCGCGA 59.791 47.619 9.26 9.26 0.00 5.87
478 508 1.597663 GACACCATTAAATCCCTCGCG 59.402 52.381 0.00 0.00 0.00 5.87
479 509 2.639065 TGACACCATTAAATCCCTCGC 58.361 47.619 0.00 0.00 0.00 5.03
480 510 4.024893 CGATTGACACCATTAAATCCCTCG 60.025 45.833 0.00 0.00 0.00 4.63
481 511 5.123227 TCGATTGACACCATTAAATCCCTC 58.877 41.667 0.00 0.00 0.00 4.30
482 512 5.110814 TCGATTGACACCATTAAATCCCT 57.889 39.130 0.00 0.00 0.00 4.20
483 513 5.828299 TTCGATTGACACCATTAAATCCC 57.172 39.130 0.00 0.00 0.00 3.85
484 514 8.702163 AAAATTCGATTGACACCATTAAATCC 57.298 30.769 0.00 0.00 0.00 3.01
486 516 9.703892 TGAAAAATTCGATTGACACCATTAAAT 57.296 25.926 0.00 0.00 0.00 1.40
487 517 9.703892 ATGAAAAATTCGATTGACACCATTAAA 57.296 25.926 0.00 0.00 0.00 1.52
534 564 9.671279 ACAGAATCTTTTTGGATTTTCAGTTTT 57.329 25.926 0.00 0.00 36.24 2.43
537 567 9.918630 CATACAGAATCTTTTTGGATTTTCAGT 57.081 29.630 0.00 0.00 36.24 3.41
538 568 8.866956 GCATACAGAATCTTTTTGGATTTTCAG 58.133 33.333 0.00 0.00 36.24 3.02
539 569 7.541783 CGCATACAGAATCTTTTTGGATTTTCA 59.458 33.333 0.00 0.00 36.24 2.69
540 570 7.009540 CCGCATACAGAATCTTTTTGGATTTTC 59.990 37.037 0.00 0.00 36.24 2.29
541 571 6.813152 CCGCATACAGAATCTTTTTGGATTTT 59.187 34.615 0.00 0.00 36.24 1.82
542 572 6.071391 ACCGCATACAGAATCTTTTTGGATTT 60.071 34.615 0.00 0.00 36.24 2.17
543 573 5.418840 ACCGCATACAGAATCTTTTTGGATT 59.581 36.000 0.00 0.00 38.47 3.01
544 574 4.949856 ACCGCATACAGAATCTTTTTGGAT 59.050 37.500 0.00 0.00 0.00 3.41
545 575 4.155826 CACCGCATACAGAATCTTTTTGGA 59.844 41.667 0.00 0.00 0.00 3.53
546 576 4.155826 TCACCGCATACAGAATCTTTTTGG 59.844 41.667 0.00 0.00 0.00 3.28
547 577 5.088739 GTCACCGCATACAGAATCTTTTTG 58.911 41.667 0.00 0.00 0.00 2.44
548 578 4.142902 CGTCACCGCATACAGAATCTTTTT 60.143 41.667 0.00 0.00 0.00 1.94
549 579 3.370978 CGTCACCGCATACAGAATCTTTT 59.629 43.478 0.00 0.00 0.00 2.27
550 580 2.930040 CGTCACCGCATACAGAATCTTT 59.070 45.455 0.00 0.00 0.00 2.52
551 581 2.094182 ACGTCACCGCATACAGAATCTT 60.094 45.455 0.00 0.00 37.70 2.40
552 582 1.476891 ACGTCACCGCATACAGAATCT 59.523 47.619 0.00 0.00 37.70 2.40
553 583 1.588404 CACGTCACCGCATACAGAATC 59.412 52.381 0.00 0.00 37.70 2.52
554 584 1.203758 TCACGTCACCGCATACAGAAT 59.796 47.619 0.00 0.00 37.70 2.40
555 585 0.599060 TCACGTCACCGCATACAGAA 59.401 50.000 0.00 0.00 37.70 3.02
556 586 0.815095 ATCACGTCACCGCATACAGA 59.185 50.000 0.00 0.00 37.70 3.41
557 587 1.200483 GATCACGTCACCGCATACAG 58.800 55.000 0.00 0.00 37.70 2.74
558 588 0.815095 AGATCACGTCACCGCATACA 59.185 50.000 0.00 0.00 37.70 2.29
559 589 1.478137 GAGATCACGTCACCGCATAC 58.522 55.000 0.00 0.00 37.70 2.39
560 590 0.028902 CGAGATCACGTCACCGCATA 59.971 55.000 4.22 0.00 37.70 3.14
561 591 1.226688 CGAGATCACGTCACCGCAT 60.227 57.895 4.22 0.00 37.70 4.73
562 592 2.178273 CGAGATCACGTCACCGCA 59.822 61.111 4.22 0.00 37.70 5.69
563 593 2.178521 ACGAGATCACGTCACCGC 59.821 61.111 12.62 0.00 43.02 5.68
680 715 1.159713 CGCCATGTCACCGCATACAT 61.160 55.000 0.00 0.00 36.78 2.29
681 716 1.813337 CGCCATGTCACCGCATACA 60.813 57.895 0.00 0.00 0.00 2.29
682 717 3.014036 CGCCATGTCACCGCATAC 58.986 61.111 0.00 0.00 0.00 2.39
683 718 2.894879 GCGCCATGTCACCGCATA 60.895 61.111 0.00 0.00 46.32 3.14
689 724 0.933097 CATAGACTGCGCCATGTCAC 59.067 55.000 21.38 3.04 35.81 3.67
694 729 2.979814 TAACACATAGACTGCGCCAT 57.020 45.000 4.18 0.00 0.00 4.40
697 732 3.184581 GCCTTATAACACATAGACTGCGC 59.815 47.826 0.00 0.00 0.00 6.09
698 733 3.425525 CGCCTTATAACACATAGACTGCG 59.574 47.826 0.00 0.00 0.00 5.18
699 734 3.184581 GCGCCTTATAACACATAGACTGC 59.815 47.826 0.00 0.00 0.00 4.40
700 735 3.425525 CGCGCCTTATAACACATAGACTG 59.574 47.826 0.00 0.00 0.00 3.51
701 736 3.067742 ACGCGCCTTATAACACATAGACT 59.932 43.478 5.73 0.00 0.00 3.24
702 737 3.181774 CACGCGCCTTATAACACATAGAC 59.818 47.826 5.73 0.00 0.00 2.59
703 738 3.377439 CACGCGCCTTATAACACATAGA 58.623 45.455 5.73 0.00 0.00 1.98
704 739 2.475111 CCACGCGCCTTATAACACATAG 59.525 50.000 5.73 0.00 0.00 2.23
705 740 2.475818 CCACGCGCCTTATAACACATA 58.524 47.619 5.73 0.00 0.00 2.29
706 741 1.295792 CCACGCGCCTTATAACACAT 58.704 50.000 5.73 0.00 0.00 3.21
707 742 0.741574 CCCACGCGCCTTATAACACA 60.742 55.000 5.73 0.00 0.00 3.72
708 743 2.011453 CCCACGCGCCTTATAACAC 58.989 57.895 5.73 0.00 0.00 3.32
709 744 1.816259 GCCCACGCGCCTTATAACA 60.816 57.895 5.73 0.00 0.00 2.41
710 745 1.164041 ATGCCCACGCGCCTTATAAC 61.164 55.000 5.73 0.00 38.08 1.89
711 746 0.393448 TATGCCCACGCGCCTTATAA 59.607 50.000 5.73 0.00 38.08 0.98
712 747 0.611200 ATATGCCCACGCGCCTTATA 59.389 50.000 5.73 0.00 38.08 0.98
713 748 0.250727 AATATGCCCACGCGCCTTAT 60.251 50.000 5.73 0.00 38.08 1.73
714 749 0.464735 AAATATGCCCACGCGCCTTA 60.465 50.000 5.73 0.00 38.08 2.69
715 750 1.724582 GAAATATGCCCACGCGCCTT 61.725 55.000 5.73 0.00 38.08 4.35
716 751 2.124320 AAATATGCCCACGCGCCT 60.124 55.556 5.73 0.00 38.08 5.52
717 752 2.331451 GAAATATGCCCACGCGCC 59.669 61.111 5.73 0.00 38.08 6.53
718 753 1.298339 GTGAAATATGCCCACGCGC 60.298 57.895 5.73 0.00 38.08 6.86
719 754 0.304705 GAGTGAAATATGCCCACGCG 59.695 55.000 3.53 3.53 38.08 6.01
720 755 0.304705 CGAGTGAAATATGCCCACGC 59.695 55.000 0.00 0.00 36.06 5.34
721 756 0.937304 CCGAGTGAAATATGCCCACG 59.063 55.000 0.00 0.00 36.06 4.94
722 757 2.038387 ACCGAGTGAAATATGCCCAC 57.962 50.000 0.00 0.00 0.00 4.61
723 758 2.799126 AACCGAGTGAAATATGCCCA 57.201 45.000 0.00 0.00 0.00 5.36
724 759 2.031683 CGAAACCGAGTGAAATATGCCC 59.968 50.000 0.00 0.00 0.00 5.36
725 760 2.538939 GCGAAACCGAGTGAAATATGCC 60.539 50.000 0.00 0.00 0.00 4.40
726 761 2.351726 AGCGAAACCGAGTGAAATATGC 59.648 45.455 0.00 0.00 0.00 3.14
727 762 3.865745 AGAGCGAAACCGAGTGAAATATG 59.134 43.478 0.00 0.00 0.00 1.78
728 763 3.865745 CAGAGCGAAACCGAGTGAAATAT 59.134 43.478 0.00 0.00 0.00 1.28
729 764 3.057104 TCAGAGCGAAACCGAGTGAAATA 60.057 43.478 0.00 0.00 0.00 1.40
730 765 2.069273 CAGAGCGAAACCGAGTGAAAT 58.931 47.619 0.00 0.00 0.00 2.17
731 766 1.067974 TCAGAGCGAAACCGAGTGAAA 59.932 47.619 0.00 0.00 0.00 2.69
732 767 0.671796 TCAGAGCGAAACCGAGTGAA 59.328 50.000 0.00 0.00 0.00 3.18
733 768 0.039437 GTCAGAGCGAAACCGAGTGA 60.039 55.000 0.00 0.00 0.00 3.41
734 769 1.009389 GGTCAGAGCGAAACCGAGTG 61.009 60.000 0.00 0.00 0.00 3.51
735 770 1.289380 GGTCAGAGCGAAACCGAGT 59.711 57.895 0.00 0.00 0.00 4.18
736 771 0.108615 ATGGTCAGAGCGAAACCGAG 60.109 55.000 0.00 0.00 35.76 4.63
737 772 1.135199 GTATGGTCAGAGCGAAACCGA 60.135 52.381 0.00 0.00 35.76 4.69
738 773 1.278238 GTATGGTCAGAGCGAAACCG 58.722 55.000 0.00 0.00 35.76 4.44
739 774 1.278238 CGTATGGTCAGAGCGAAACC 58.722 55.000 0.00 0.00 0.00 3.27
740 775 1.992170 ACGTATGGTCAGAGCGAAAC 58.008 50.000 0.00 0.00 0.00 2.78
741 776 3.490249 CCATACGTATGGTCAGAGCGAAA 60.490 47.826 36.36 0.00 46.42 3.46
742 777 2.034179 CCATACGTATGGTCAGAGCGAA 59.966 50.000 36.36 0.00 46.42 4.70
743 778 1.607148 CCATACGTATGGTCAGAGCGA 59.393 52.381 36.36 0.00 46.42 4.93
744 779 2.051879 CCATACGTATGGTCAGAGCG 57.948 55.000 36.36 15.80 46.42 5.03
753 788 6.687081 AATTTACACAACCCCATACGTATG 57.313 37.500 25.55 25.55 0.00 2.39
754 789 7.706100 AAAATTTACACAACCCCATACGTAT 57.294 32.000 1.14 1.14 0.00 3.06
755 790 8.627208 TTAAAATTTACACAACCCCATACGTA 57.373 30.769 0.00 0.00 0.00 3.57
756 791 7.521871 TTAAAATTTACACAACCCCATACGT 57.478 32.000 0.00 0.00 0.00 3.57
757 792 6.528774 GCTTAAAATTTACACAACCCCATACG 59.471 38.462 0.00 0.00 0.00 3.06
758 793 6.814644 GGCTTAAAATTTACACAACCCCATAC 59.185 38.462 0.00 0.00 0.00 2.39
759 794 6.726764 AGGCTTAAAATTTACACAACCCCATA 59.273 34.615 0.00 0.00 0.00 2.74
760 795 5.546110 AGGCTTAAAATTTACACAACCCCAT 59.454 36.000 0.00 0.00 0.00 4.00
761 796 4.902448 AGGCTTAAAATTTACACAACCCCA 59.098 37.500 0.00 0.00 0.00 4.96
762 797 5.011227 TCAGGCTTAAAATTTACACAACCCC 59.989 40.000 0.00 0.00 0.00 4.95
763 798 6.091718 TCAGGCTTAAAATTTACACAACCC 57.908 37.500 0.00 0.00 0.00 4.11
764 799 7.330946 GGAATCAGGCTTAAAATTTACACAACC 59.669 37.037 0.00 0.00 0.00 3.77
765 800 7.061789 CGGAATCAGGCTTAAAATTTACACAAC 59.938 37.037 0.00 0.00 0.00 3.32
766 801 7.087639 CGGAATCAGGCTTAAAATTTACACAA 58.912 34.615 0.00 0.00 0.00 3.33
767 802 6.207810 ACGGAATCAGGCTTAAAATTTACACA 59.792 34.615 0.00 0.00 0.00 3.72
768 803 6.526674 CACGGAATCAGGCTTAAAATTTACAC 59.473 38.462 0.00 0.00 0.00 2.90
769 804 6.616947 CACGGAATCAGGCTTAAAATTTACA 58.383 36.000 0.00 0.00 0.00 2.41
770 805 5.515270 GCACGGAATCAGGCTTAAAATTTAC 59.485 40.000 0.00 0.00 0.00 2.01
771 806 5.417580 AGCACGGAATCAGGCTTAAAATTTA 59.582 36.000 0.00 0.00 31.34 1.40
772 807 4.220602 AGCACGGAATCAGGCTTAAAATTT 59.779 37.500 0.00 0.00 31.34 1.82
773 808 3.763897 AGCACGGAATCAGGCTTAAAATT 59.236 39.130 0.00 0.00 31.34 1.82
979 1023 5.221422 CCATTTTGCTTCTTGGGTTCTTGTA 60.221 40.000 0.00 0.00 0.00 2.41
1020 1064 4.516195 GCGAAGAGGACGGAGGCC 62.516 72.222 0.00 0.00 0.00 5.19
1243 1287 0.186386 AGGAGATCCAGGTACTCGGG 59.814 60.000 0.92 0.00 34.60 5.14
1375 1419 2.125512 GCACTCGCGGTGGAAGAT 60.126 61.111 23.09 0.00 45.44 2.40
1634 1678 1.067915 TGGTAAAAATGGAGCAAGCGC 60.068 47.619 0.00 0.00 38.99 5.92
1870 2314 5.629020 GCGTACAATTGAATCACAACATTGT 59.371 36.000 13.59 13.45 41.50 2.71
2004 2450 4.517075 TCATGATAAGAAGACGCTCGATCT 59.483 41.667 0.00 0.00 0.00 2.75
2039 2485 5.601583 TGAGTTGGTTGTCACTGTTAGTA 57.398 39.130 0.00 0.00 0.00 1.82
2040 2486 4.481368 TGAGTTGGTTGTCACTGTTAGT 57.519 40.909 0.00 0.00 0.00 2.24
2041 2487 7.490962 TTATTGAGTTGGTTGTCACTGTTAG 57.509 36.000 0.00 0.00 0.00 2.34
2064 2510 1.078848 GTCGGGAGATGCACTGCTT 60.079 57.895 1.98 0.00 43.27 3.91
2080 2526 3.305471 GCCTAGTCTGGTCGATTATGGTC 60.305 52.174 0.00 0.00 0.00 4.02
2184 2634 6.538021 CCTTCAACTATGTCCTCATTCTGAAG 59.462 42.308 0.00 0.00 39.36 3.02
2185 2635 6.409704 CCTTCAACTATGTCCTCATTCTGAA 58.590 40.000 0.00 0.00 35.70 3.02
2186 2636 5.627735 GCCTTCAACTATGTCCTCATTCTGA 60.628 44.000 0.00 0.00 35.70 3.27
2198 2648 0.729116 CACGCAGGCCTTCAACTATG 59.271 55.000 0.00 0.00 0.00 2.23
2251 2709 1.337823 CCGTCACTTACCCTGAACTGG 60.338 57.143 0.00 0.00 0.00 4.00
2275 2733 1.768870 TCCTACAAGATAGCAAGGCCC 59.231 52.381 0.00 0.00 0.00 5.80
2319 2777 8.498054 TTCATCCATCTCATACAGAAAAACTC 57.502 34.615 0.00 0.00 33.62 3.01
2364 2823 4.386761 CCCTGGATCTTGGTTTCCACATAT 60.387 45.833 0.00 0.00 37.10 1.78
2392 2851 4.481368 TGGATCACCACACTATAACCAC 57.519 45.455 0.00 0.00 41.77 4.16
2467 2926 4.272504 CCAACAGTCTTGTACACACGAATT 59.727 41.667 0.00 0.00 36.23 2.17
2477 2936 2.976185 TGGTGGATCCAACAGTCTTGTA 59.024 45.455 29.05 2.85 44.12 2.41
2501 2960 5.449862 CCGGCTGTAGATGCTCTATCTTATC 60.450 48.000 0.00 0.00 43.68 1.75
2507 2966 1.261480 CCCGGCTGTAGATGCTCTAT 58.739 55.000 0.00 0.00 30.76 1.98
2521 2980 4.388499 TCGTTTGAGAGGCCCGGC 62.388 66.667 0.00 0.00 0.00 6.13
2522 2981 2.434359 GTCGTTTGAGAGGCCCGG 60.434 66.667 0.00 0.00 0.00 5.73
2541 3000 2.987547 TGACCGGACGACCTGACC 60.988 66.667 9.46 0.00 0.00 4.02
2542 3001 2.257676 GTGACCGGACGACCTGAC 59.742 66.667 9.46 0.00 0.00 3.51
2543 3002 2.114625 AGTGACCGGACGACCTGA 59.885 61.111 9.46 0.00 0.00 3.86
2544 3003 2.258591 CAGTGACCGGACGACCTG 59.741 66.667 9.46 6.04 0.00 4.00
2545 3004 2.114625 TCAGTGACCGGACGACCT 59.885 61.111 9.46 0.00 0.00 3.85
2546 3005 2.257676 GTCAGTGACCGGACGACC 59.742 66.667 9.46 0.00 0.00 4.79
2547 3006 2.257676 GGTCAGTGACCGGACGAC 59.742 66.667 26.12 8.90 43.14 4.34
2555 3014 2.557317 TCTTTTTGACCGGTCAGTGAC 58.443 47.619 34.25 15.24 41.13 3.67
2556 3015 2.992124 TCTTTTTGACCGGTCAGTGA 57.008 45.000 34.25 25.74 41.13 3.41
2557 3016 4.364415 TTTTCTTTTTGACCGGTCAGTG 57.636 40.909 34.25 24.17 41.13 3.66
2558 3017 5.588240 GATTTTTCTTTTTGACCGGTCAGT 58.412 37.500 34.25 8.88 41.13 3.41


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

AutoCloner maintained by Alex Coulton.