Multiple sequence alignment - TraesCS6B01G283100

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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 TraesCS6B01G283100 chr6B 100.000 2652 0 0 1 2652 511277412 511274761 0.000000e+00 4898.0
1 TraesCS6B01G283100 chr6B 84.198 848 96 21 796 1611 510723878 510723037 0.000000e+00 789.0
2 TraesCS6B01G283100 chr6B 91.304 207 15 3 122 326 412701985 412701780 2.010000e-71 279.0
3 TraesCS6B01G283100 chr6B 85.106 94 7 6 1 93 412702154 412702067 3.640000e-14 89.8
4 TraesCS6B01G283100 chr6B 78.261 138 12 6 1902 2026 697847103 697847235 3.660000e-09 73.1
5 TraesCS6B01G283100 chr6B 80.583 103 7 7 364 466 25756360 25756449 1.700000e-07 67.6
6 TraesCS6B01G283100 chr6B 94.872 39 2 0 2029 2067 277658008 277658046 7.930000e-06 62.1
7 TraesCS6B01G283100 chr6A 97.375 762 20 0 857 1618 453120965 453121726 0.000000e+00 1297.0
8 TraesCS6B01G283100 chr6A 86.829 782 89 7 841 1611 453128366 453129144 0.000000e+00 861.0
9 TraesCS6B01G283100 chr6A 86.269 772 81 10 1900 2652 453123086 453123851 0.000000e+00 815.0
10 TraesCS6B01G283100 chr6A 96.306 379 7 5 123 497 86624648 86624273 1.350000e-172 616.0
11 TraesCS6B01G283100 chr6A 94.604 278 14 1 1618 1895 453122736 453123012 1.890000e-116 429.0
12 TraesCS6B01G283100 chr6A 88.971 136 11 3 364 497 359217839 359217972 5.870000e-37 165.0
13 TraesCS6B01G283100 chr6A 88.112 143 6 5 656 792 453120180 453120317 2.730000e-35 159.0
14 TraesCS6B01G283100 chr6A 84.247 146 3 2 1 131 86624810 86624670 9.970000e-25 124.0
15 TraesCS6B01G283100 chr6A 83.846 130 13 4 790 914 23588023 23587897 1.670000e-22 117.0
16 TraesCS6B01G283100 chr6A 95.652 69 3 0 606 674 453120100 453120168 7.760000e-21 111.0
17 TraesCS6B01G283100 chr6A 100.000 37 0 0 794 830 453120928 453120964 4.740000e-08 69.4
18 TraesCS6B01G283100 chr6D 87.126 668 76 7 906 1564 315680048 315680714 0.000000e+00 749.0
19 TraesCS6B01G283100 chr6D 85.843 445 52 5 1176 1611 25538128 25537686 1.860000e-126 462.0
20 TraesCS6B01G283100 chr3A 96.834 379 5 5 127 501 530086926 530087301 6.230000e-176 627.0
21 TraesCS6B01G283100 chr3A 83.562 146 4 2 1 131 530086759 530086899 4.640000e-23 119.0
22 TraesCS6B01G283100 chr3A 82.301 113 20 0 2029 2141 58698322 58698210 6.040000e-17 99.0
23 TraesCS6B01G283100 chr4A 96.084 383 7 6 123 501 211672137 211672515 3.750000e-173 617.0
24 TraesCS6B01G283100 chr4A 95.778 379 8 5 123 497 201146406 201146032 2.920000e-169 604.0
25 TraesCS6B01G283100 chr4A 91.489 94 2 2 1 93 211671974 211672062 9.970000e-25 124.0
26 TraesCS6B01G283100 chr4A 86.792 106 9 4 393 496 731096876 731096978 2.160000e-21 113.0
27 TraesCS6B01G283100 chr5B 91.192 386 24 6 122 500 688437540 688437158 1.410000e-142 516.0
28 TraesCS6B01G283100 chr5B 91.192 386 24 6 122 500 688467709 688467327 1.410000e-142 516.0
29 TraesCS6B01G283100 chr5B 81.379 145 6 7 1 129 688437702 688437563 6.040000e-17 99.0
30 TraesCS6B01G283100 chr5B 81.379 145 6 7 1 129 688467871 688467732 6.040000e-17 99.0
31 TraesCS6B01G283100 chr2D 90.789 380 28 5 123 497 74124352 74124729 3.940000e-138 501.0
32 TraesCS6B01G283100 chr2D 88.835 206 17 5 123 326 648647052 648647253 5.670000e-62 248.0
33 TraesCS6B01G283100 chr2D 88.298 94 5 4 1 93 74124186 74124274 1.000000e-19 108.0
34 TraesCS6B01G283100 chr3B 92.500 40 2 1 2029 2067 125931370 125931409 3.690000e-04 56.5
35 TraesCS6B01G283100 chr3B 94.286 35 2 0 2033 2067 829492435 829492469 1.000000e-03 54.7
36 TraesCS6B01G283100 chr2B 100.000 28 0 0 1983 2010 200020389 200020416 5.000000e-03 52.8


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 TraesCS6B01G283100 chr6B 511274761 511277412 2651 True 4898.000000 4898 100.000000 1 2652 1 chr6B.!!$R2 2651
1 TraesCS6B01G283100 chr6B 510723037 510723878 841 True 789.000000 789 84.198000 796 1611 1 chr6B.!!$R1 815
2 TraesCS6B01G283100 chr6A 453128366 453129144 778 False 861.000000 861 86.829000 841 1611 1 chr6A.!!$F2 770
3 TraesCS6B01G283100 chr6A 453120100 453123851 3751 False 480.066667 1297 93.668667 606 2652 6 chr6A.!!$F3 2046
4 TraesCS6B01G283100 chr6A 86624273 86624810 537 True 370.000000 616 90.276500 1 497 2 chr6A.!!$R2 496
5 TraesCS6B01G283100 chr6D 315680048 315680714 666 False 749.000000 749 87.126000 906 1564 1 chr6D.!!$F1 658
6 TraesCS6B01G283100 chr3A 530086759 530087301 542 False 373.000000 627 90.198000 1 501 2 chr3A.!!$F1 500
7 TraesCS6B01G283100 chr4A 211671974 211672515 541 False 370.500000 617 93.786500 1 501 2 chr4A.!!$F2 500
8 TraesCS6B01G283100 chr5B 688437158 688437702 544 True 307.500000 516 86.285500 1 500 2 chr5B.!!$R1 499
9 TraesCS6B01G283100 chr5B 688467327 688467871 544 True 307.500000 516 86.285500 1 500 2 chr5B.!!$R2 499
10 TraesCS6B01G283100 chr2D 74124186 74124729 543 False 304.500000 501 89.543500 1 497 2 chr2D.!!$F2 496

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
182 234 0.737219 GATTGGCTCATGACCTGTGC 59.263 55.000 13.32 5.77 42.36 4.57 F
882 1588 2.273557 GCGACTTAATTAGCCGGACAA 58.726 47.619 5.05 0.00 29.56 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1254 1985 0.249615 CGATGATGTGCTCGGTGGAT 60.250 55.0 0.0 0.0 0.0 3.41 R
2430 4260 0.036732 GACTCAACACCCAGCCATGA 59.963 55.0 0.0 0.0 0.0 3.07 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
37 38 4.415881 TCAGGCTCTCTTTTGTTGTACA 57.584 40.909 0.00 0.00 0.00 2.90
38 39 4.380531 TCAGGCTCTCTTTTGTTGTACAG 58.619 43.478 0.00 0.00 0.00 2.74
39 40 4.130118 CAGGCTCTCTTTTGTTGTACAGT 58.870 43.478 0.00 0.00 0.00 3.55
40 41 5.069914 TCAGGCTCTCTTTTGTTGTACAGTA 59.930 40.000 0.00 0.00 0.00 2.74
41 42 5.177696 CAGGCTCTCTTTTGTTGTACAGTAC 59.822 44.000 3.49 3.49 0.00 2.73
182 234 0.737219 GATTGGCTCATGACCTGTGC 59.263 55.000 13.32 5.77 42.36 4.57
342 395 9.281371 CCATGATCATTCTTTGAGAAAGCTATA 57.719 33.333 5.16 0.00 37.82 1.31
508 567 8.436156 GCACTTTTGCTAGTGTATAGAAAAAC 57.564 34.615 13.22 0.00 45.76 2.43
509 568 7.268447 GCACTTTTGCTAGTGTATAGAAAAACG 59.732 37.037 13.22 0.00 45.76 3.60
510 569 8.280497 CACTTTTGCTAGTGTATAGAAAAACGT 58.720 33.333 6.17 0.00 40.48 3.99
511 570 8.493547 ACTTTTGCTAGTGTATAGAAAAACGTC 58.506 33.333 0.00 0.00 30.99 4.34
512 571 6.956299 TTGCTAGTGTATAGAAAAACGTCC 57.044 37.500 0.00 0.00 0.00 4.79
513 572 6.276832 TGCTAGTGTATAGAAAAACGTCCT 57.723 37.500 0.00 0.00 0.00 3.85
514 573 7.395190 TGCTAGTGTATAGAAAAACGTCCTA 57.605 36.000 0.00 0.00 0.00 2.94
515 574 7.829725 TGCTAGTGTATAGAAAAACGTCCTAA 58.170 34.615 0.00 0.00 0.00 2.69
516 575 8.306038 TGCTAGTGTATAGAAAAACGTCCTAAA 58.694 33.333 0.00 0.00 0.00 1.85
517 576 9.143631 GCTAGTGTATAGAAAAACGTCCTAAAA 57.856 33.333 0.00 0.00 0.00 1.52
520 579 9.939802 AGTGTATAGAAAAACGTCCTAAAAGAT 57.060 29.630 0.00 0.00 0.00 2.40
522 581 9.932207 TGTATAGAAAAACGTCCTAAAAGATCA 57.068 29.630 0.00 0.00 0.00 2.92
524 583 8.842358 ATAGAAAAACGTCCTAAAAGATCACA 57.158 30.769 0.00 0.00 0.00 3.58
525 584 7.562454 AGAAAAACGTCCTAAAAGATCACAA 57.438 32.000 0.00 0.00 0.00 3.33
526 585 8.166422 AGAAAAACGTCCTAAAAGATCACAAT 57.834 30.769 0.00 0.00 0.00 2.71
527 586 8.630037 AGAAAAACGTCCTAAAAGATCACAATT 58.370 29.630 0.00 0.00 0.00 2.32
528 587 9.887406 GAAAAACGTCCTAAAAGATCACAATTA 57.113 29.630 0.00 0.00 0.00 1.40
532 591 9.840427 AACGTCCTAAAAGATCACAATTAATTG 57.160 29.630 23.60 23.60 43.26 2.32
533 592 7.968405 ACGTCCTAAAAGATCACAATTAATTGC 59.032 33.333 24.82 10.92 41.38 3.56
534 593 8.184192 CGTCCTAAAAGATCACAATTAATTGCT 58.816 33.333 24.82 12.82 41.38 3.91
535 594 9.294030 GTCCTAAAAGATCACAATTAATTGCTG 57.706 33.333 24.82 20.60 41.38 4.41
536 595 8.469200 TCCTAAAAGATCACAATTAATTGCTGG 58.531 33.333 24.82 15.81 41.38 4.85
537 596 8.469200 CCTAAAAGATCACAATTAATTGCTGGA 58.531 33.333 24.82 19.74 41.38 3.86
538 597 9.859427 CTAAAAGATCACAATTAATTGCTGGAA 57.141 29.630 24.82 8.97 41.38 3.53
540 599 9.729281 AAAAGATCACAATTAATTGCTGGAATT 57.271 25.926 24.82 11.85 41.38 2.17
581 640 8.974060 ATTATAGCTTACCGAAAATCTTTCCA 57.026 30.769 0.00 0.00 0.00 3.53
582 641 6.679327 ATAGCTTACCGAAAATCTTTCCAC 57.321 37.500 0.00 0.00 0.00 4.02
583 642 4.394729 AGCTTACCGAAAATCTTTCCACA 58.605 39.130 0.00 0.00 0.00 4.17
584 643 4.825085 AGCTTACCGAAAATCTTTCCACAA 59.175 37.500 0.00 0.00 0.00 3.33
585 644 5.300792 AGCTTACCGAAAATCTTTCCACAAA 59.699 36.000 0.00 0.00 0.00 2.83
586 645 6.015434 AGCTTACCGAAAATCTTTCCACAAAT 60.015 34.615 0.00 0.00 0.00 2.32
587 646 7.175990 AGCTTACCGAAAATCTTTCCACAAATA 59.824 33.333 0.00 0.00 0.00 1.40
588 647 7.810759 GCTTACCGAAAATCTTTCCACAAATAA 59.189 33.333 0.00 0.00 0.00 1.40
589 648 9.855021 CTTACCGAAAATCTTTCCACAAATAAT 57.145 29.630 0.00 0.00 0.00 1.28
590 649 9.632807 TTACCGAAAATCTTTCCACAAATAATG 57.367 29.630 0.00 0.00 0.00 1.90
591 650 7.666623 ACCGAAAATCTTTCCACAAATAATGT 58.333 30.769 0.00 0.00 45.34 2.71
592 651 8.798402 ACCGAAAATCTTTCCACAAATAATGTA 58.202 29.630 0.00 0.00 41.46 2.29
593 652 9.072294 CCGAAAATCTTTCCACAAATAATGTAC 57.928 33.333 0.00 0.00 41.46 2.90
594 653 8.785101 CGAAAATCTTTCCACAAATAATGTACG 58.215 33.333 0.00 0.00 41.46 3.67
595 654 9.620660 GAAAATCTTTCCACAAATAATGTACGT 57.379 29.630 0.00 0.00 41.46 3.57
596 655 8.964420 AAATCTTTCCACAAATAATGTACGTG 57.036 30.769 0.00 0.00 41.46 4.49
597 656 5.933790 TCTTTCCACAAATAATGTACGTGC 58.066 37.500 0.00 0.00 41.46 5.34
598 657 5.470437 TCTTTCCACAAATAATGTACGTGCA 59.530 36.000 9.28 9.28 41.46 4.57
599 658 5.888691 TTCCACAAATAATGTACGTGCAT 57.111 34.783 13.79 13.79 41.46 3.96
600 659 5.478233 TCCACAAATAATGTACGTGCATC 57.522 39.130 19.70 0.00 41.46 3.91
601 660 4.938226 TCCACAAATAATGTACGTGCATCA 59.062 37.500 19.70 5.65 41.46 3.07
602 661 5.027737 CCACAAATAATGTACGTGCATCAC 58.972 41.667 19.70 0.00 41.46 3.06
603 662 5.391416 CCACAAATAATGTACGTGCATCACA 60.391 40.000 19.70 4.97 41.46 3.58
604 663 5.734035 CACAAATAATGTACGTGCATCACAG 59.266 40.000 19.70 11.09 41.46 3.66
605 664 5.411361 ACAAATAATGTACGTGCATCACAGT 59.589 36.000 19.70 11.67 41.63 3.55
606 665 5.718649 AATAATGTACGTGCATCACAGTC 57.281 39.130 19.70 0.00 33.40 3.51
607 666 2.741759 ATGTACGTGCATCACAGTCA 57.258 45.000 13.79 0.00 33.40 3.41
630 689 4.985538 TCTGTGGAAGCAGTTTAGGAAAT 58.014 39.130 0.00 0.00 37.70 2.17
683 772 4.345859 ACGGAAGGTGTTATCAAGACAA 57.654 40.909 0.00 0.00 0.00 3.18
691 780 5.481473 AGGTGTTATCAAGACAAATGCCATT 59.519 36.000 0.00 0.00 0.00 3.16
692 781 6.014327 AGGTGTTATCAAGACAAATGCCATTT 60.014 34.615 0.00 0.00 0.00 2.32
693 782 7.178274 AGGTGTTATCAAGACAAATGCCATTTA 59.822 33.333 1.66 0.00 0.00 1.40
694 783 7.489113 GGTGTTATCAAGACAAATGCCATTTAG 59.511 37.037 1.66 0.73 0.00 1.85
697 786 9.638239 GTTATCAAGACAAATGCCATTTAGAAA 57.362 29.630 1.66 0.00 0.00 2.52
699 788 8.712285 ATCAAGACAAATGCCATTTAGAAATG 57.288 30.769 1.66 7.84 44.12 2.32
700 789 7.669427 TCAAGACAAATGCCATTTAGAAATGT 58.331 30.769 12.71 0.00 43.24 2.71
701 790 7.599621 TCAAGACAAATGCCATTTAGAAATGTG 59.400 33.333 12.71 7.36 43.24 3.21
702 791 7.230849 AGACAAATGCCATTTAGAAATGTGA 57.769 32.000 12.71 1.24 43.24 3.58
714 808 3.179830 AGAAATGTGACGTACGATCAGC 58.820 45.455 24.41 14.96 0.00 4.26
762 856 4.701651 TGATCTGATAGCAGCAAAGGAT 57.298 40.909 2.24 0.00 42.01 3.24
763 857 4.639334 TGATCTGATAGCAGCAAAGGATC 58.361 43.478 2.24 0.98 42.01 3.36
764 858 4.102054 TGATCTGATAGCAGCAAAGGATCA 59.898 41.667 2.24 3.75 42.01 2.92
765 859 4.069300 TCTGATAGCAGCAAAGGATCAG 57.931 45.455 2.24 11.93 43.16 2.90
792 886 6.465948 GTCTGATCCTAGACGTCTCCTATAA 58.534 44.000 23.89 1.72 37.88 0.98
837 1540 2.500582 GCGCACGCTGCTTCTTTC 60.501 61.111 7.96 0.00 42.25 2.62
839 1542 2.606961 CGCACGCTGCTTCTTTCCA 61.607 57.895 0.00 0.00 42.25 3.53
882 1588 2.273557 GCGACTTAATTAGCCGGACAA 58.726 47.619 5.05 0.00 29.56 3.18
1254 1985 2.289195 CCTTACTGTCGCCAACCTAACA 60.289 50.000 0.00 0.00 0.00 2.41
1260 1991 0.035820 TCGCCAACCTAACATCCACC 60.036 55.000 0.00 0.00 0.00 4.61
1285 2016 3.182472 ATCATCGCGGACCTCGTCG 62.182 63.158 6.13 0.00 41.72 5.12
1586 2320 3.243873 CCGAGCTGAATACATGGCTCTTA 60.244 47.826 14.71 0.00 46.04 2.10
1638 3381 6.935741 TCATATACAGTAATGTGGGTTTGC 57.064 37.500 5.98 0.00 0.00 3.68
1734 3477 6.974622 CGCCTATTCAATAGTTGCTTGAAAAT 59.025 34.615 3.67 0.00 43.61 1.82
1750 3493 7.042389 TGCTTGAAAATAAATTTGGTTTCGGTC 60.042 33.333 16.97 11.47 33.58 4.79
1756 3499 8.596271 AAATAAATTTGGTTTCGGTCGATTTT 57.404 26.923 0.00 0.00 0.00 1.82
1765 3508 1.553248 TCGGTCGATTTTGTCCCAGAT 59.447 47.619 0.00 0.00 0.00 2.90
1795 3538 1.289109 AATCCAACGGACGTGCTTCG 61.289 55.000 5.27 0.56 46.00 3.79
1808 3551 1.139947 GCTTCGTCTTCCTCCTCCG 59.860 63.158 0.00 0.00 0.00 4.63
1816 3559 2.356818 CTTCCTCCTCCGGATCGCAC 62.357 65.000 3.57 0.00 32.02 5.34
1817 3560 2.835431 CCTCCTCCGGATCGCACT 60.835 66.667 3.57 0.00 0.00 4.40
1833 3576 2.092914 CGCACTATTCCTCTTTTCCCCT 60.093 50.000 0.00 0.00 0.00 4.79
1836 3579 4.080526 GCACTATTCCTCTTTTCCCCTGTA 60.081 45.833 0.00 0.00 0.00 2.74
1895 3638 2.439701 GCCCGCCCCCTAAAGTTC 60.440 66.667 0.00 0.00 0.00 3.01
1896 3639 2.274432 CCCGCCCCCTAAAGTTCC 59.726 66.667 0.00 0.00 0.00 3.62
1912 3724 1.107538 TTCCTACTCGGATCTGGCGG 61.108 60.000 0.62 0.00 42.70 6.13
1941 3753 1.905512 GGTTGTGCCCCTATCGAGT 59.094 57.895 0.00 0.00 0.00 4.18
1951 3765 0.112606 CCTATCGAGTAGGGGGCTCA 59.887 60.000 11.14 0.00 45.38 4.26
1953 3767 0.112606 TATCGAGTAGGGGGCTCAGG 59.887 60.000 0.00 0.00 33.45 3.86
1955 3769 2.427245 CGAGTAGGGGGCTCAGGTG 61.427 68.421 0.00 0.00 33.45 4.00
1990 3817 3.191539 GCGCCCTCGAGCTTTGAG 61.192 66.667 6.99 9.36 38.10 3.02
2026 3853 2.036256 GATGGCTGGTGTGGGCTT 59.964 61.111 0.00 0.00 0.00 4.35
2027 3854 1.302949 GATGGCTGGTGTGGGCTTA 59.697 57.895 0.00 0.00 0.00 3.09
2031 3858 1.553690 GGCTGGTGTGGGCTTAGAGA 61.554 60.000 0.00 0.00 0.00 3.10
2048 3875 4.845580 ATTCGCTGGGCTGCCTCG 62.846 66.667 19.68 18.40 0.00 4.63
2067 3894 4.208686 GCGTCTTCGGATCCGGCT 62.209 66.667 32.79 0.00 40.25 5.52
2071 3898 1.828660 TCTTCGGATCCGGCTCTCC 60.829 63.158 32.79 6.38 40.25 3.71
2086 3913 1.072159 CTCCCATTCCTGATCCGGC 59.928 63.158 0.00 0.00 0.00 6.13
2104 3931 2.890474 GGCCGCGTGATACAGTGG 60.890 66.667 4.92 0.00 40.75 4.00
2107 3934 1.447838 CCGCGTGATACAGTGGCTT 60.448 57.895 4.92 0.00 0.00 4.35
2119 3946 3.555324 TGGCTTGGCTCGGTGTGA 61.555 61.111 0.00 0.00 0.00 3.58
2132 3959 1.534729 GGTGTGATCCAACAACCTCC 58.465 55.000 0.00 0.00 31.19 4.30
2154 3982 0.322098 CACCCCGTTTGTGCCTGATA 60.322 55.000 0.00 0.00 0.00 2.15
2164 3993 1.195115 GTGCCTGATACTCCCTGTGA 58.805 55.000 0.00 0.00 0.00 3.58
2177 4006 4.889856 TGTGATGCGCGGATCCGG 62.890 66.667 33.32 24.14 40.19 5.14
2187 4016 2.184579 GGATCCGGCGCTATAGGC 59.815 66.667 7.64 3.39 37.64 3.93
2211 4040 7.210174 GCGATCCTATATTTCTGTGCCATATA 58.790 38.462 0.00 0.00 0.00 0.86
2274 4103 3.423154 CGGTTCGTCTTGCTGGCC 61.423 66.667 0.00 0.00 0.00 5.36
2290 4119 3.069946 CCGGCGTGGTACCACCTA 61.070 66.667 34.05 2.09 43.49 3.08
2310 4139 1.522130 GTTGGTCGGTGGTGTTCGT 60.522 57.895 0.00 0.00 0.00 3.85
2313 4142 1.952635 GGTCGGTGGTGTTCGTGAC 60.953 63.158 0.00 0.00 0.00 3.67
2319 4148 1.365699 GTGGTGTTCGTGACTTGTGT 58.634 50.000 0.00 0.00 0.00 3.72
2329 4158 2.539547 CGTGACTTGTGTTGCCTCTTTG 60.540 50.000 0.00 0.00 0.00 2.77
2340 4169 1.252904 GCCTCTTTGCTTGGCCATCA 61.253 55.000 6.09 4.96 40.71 3.07
2341 4170 0.815734 CCTCTTTGCTTGGCCATCAG 59.184 55.000 6.09 2.25 0.00 2.90
2345 4174 2.305635 TCTTTGCTTGGCCATCAGACTA 59.694 45.455 6.09 0.00 0.00 2.59
2348 4177 1.065926 TGCTTGGCCATCAGACTACAG 60.066 52.381 6.09 0.00 0.00 2.74
2356 4186 1.961180 ATCAGACTACAGCGGGGTGC 61.961 60.000 0.00 0.00 46.98 5.01
2375 4205 2.123468 GTTGGGGTTGGCTGGTGT 60.123 61.111 0.00 0.00 0.00 4.16
2381 4211 2.251642 GGTTGGCTGGTGTCGTGAC 61.252 63.158 0.00 0.00 0.00 3.67
2384 4214 0.531974 TTGGCTGGTGTCGTGACTTC 60.532 55.000 1.23 0.00 0.00 3.01
2385 4215 1.069090 GGCTGGTGTCGTGACTTCA 59.931 57.895 1.23 0.00 0.00 3.02
2428 4258 3.477346 GGTCCTTACGAGGGGGCC 61.477 72.222 0.00 0.00 43.72 5.80
2429 4259 2.686106 GTCCTTACGAGGGGGCCA 60.686 66.667 4.39 0.00 43.72 5.36
2430 4260 2.070650 GTCCTTACGAGGGGGCCAT 61.071 63.158 4.39 0.00 43.72 4.40
2431 4261 1.764854 TCCTTACGAGGGGGCCATC 60.765 63.158 4.39 1.17 43.72 3.51
2432 4262 2.070039 CCTTACGAGGGGGCCATCA 61.070 63.158 4.39 0.00 39.55 3.07
2463 4293 3.759086 TGTTGAGTCTTCTCTGTATCGCT 59.241 43.478 0.00 0.00 40.98 4.93
2472 4302 2.943690 TCTCTGTATCGCTACCAGTGAC 59.056 50.000 0.00 0.00 37.59 3.67
2473 4303 2.683362 CTCTGTATCGCTACCAGTGACA 59.317 50.000 0.00 0.00 37.59 3.58
2481 4311 0.171455 CTACCAGTGACAGAGGACGC 59.829 60.000 0.00 0.00 0.00 5.19
2498 4328 2.817901 ACGCTGTTTTCGTCTGTACTT 58.182 42.857 0.00 0.00 34.84 2.24
2510 4340 2.030540 GTCTGTACTTGTGTGCCTCGTA 60.031 50.000 0.00 0.00 0.00 3.43
2514 4344 2.614829 ACTTGTGTGCCTCGTAGTTT 57.385 45.000 0.00 0.00 0.00 2.66
2515 4345 2.914059 ACTTGTGTGCCTCGTAGTTTT 58.086 42.857 0.00 0.00 0.00 2.43
2516 4346 2.612212 ACTTGTGTGCCTCGTAGTTTTG 59.388 45.455 0.00 0.00 0.00 2.44
2517 4347 2.319136 TGTGTGCCTCGTAGTTTTGT 57.681 45.000 0.00 0.00 0.00 2.83
2522 4352 4.091509 GTGTGCCTCGTAGTTTTGTAGATG 59.908 45.833 0.00 0.00 0.00 2.90
2536 4366 1.418097 TAGATGGCGGCCATGGATGT 61.418 55.000 37.43 16.75 45.26 3.06
2537 4367 2.203394 ATGGCGGCCATGGATGTC 60.203 61.111 32.54 8.79 43.39 3.06
2560 4390 1.019278 TTTTCTCCGATGCGAGGTGC 61.019 55.000 0.00 0.00 46.70 5.01
2572 4402 4.664677 AGGTGCGTCGTGGCAGTC 62.665 66.667 3.48 0.78 44.93 3.51
2592 4422 0.182775 GTGGTGGTGGTTCTCCTTGT 59.817 55.000 0.00 0.00 34.23 3.16
2605 4435 1.122632 TCCTTGTCGGTTGTGGGCTA 61.123 55.000 0.00 0.00 0.00 3.93
2606 4436 0.035439 CCTTGTCGGTTGTGGGCTAT 60.035 55.000 0.00 0.00 0.00 2.97
2607 4437 1.086696 CTTGTCGGTTGTGGGCTATG 58.913 55.000 0.00 0.00 0.00 2.23
2608 4438 0.958382 TTGTCGGTTGTGGGCTATGC 60.958 55.000 0.00 0.00 0.00 3.14
2609 4439 1.078426 GTCGGTTGTGGGCTATGCT 60.078 57.895 0.00 0.00 0.00 3.79
2616 4447 0.620030 TGTGGGCTATGCTGTCATGT 59.380 50.000 0.00 0.00 34.22 3.21
2617 4448 1.019673 GTGGGCTATGCTGTCATGTG 58.980 55.000 0.00 0.00 34.22 3.21
2629 4460 1.623311 TGTCATGTGTCGGATCCTTGT 59.377 47.619 10.75 0.00 0.00 3.16
2632 4463 2.094026 TCATGTGTCGGATCCTTGTCAG 60.094 50.000 10.75 0.00 0.00 3.51
2641 4472 2.158957 GGATCCTTGTCAGATTGGCGTA 60.159 50.000 3.84 0.00 0.00 4.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 4.423625 ACTGTACAACAAAAGAGAGCCT 57.576 40.909 0.00 0.00 0.00 4.58
37 38 4.353383 AGGAAAGCGGAAAGAAAGTACT 57.647 40.909 0.00 0.00 0.00 2.73
38 39 4.755629 AGAAGGAAAGCGGAAAGAAAGTAC 59.244 41.667 0.00 0.00 0.00 2.73
39 40 4.969484 AGAAGGAAAGCGGAAAGAAAGTA 58.031 39.130 0.00 0.00 0.00 2.24
40 41 3.821748 AGAAGGAAAGCGGAAAGAAAGT 58.178 40.909 0.00 0.00 0.00 2.66
41 42 4.837896 AAGAAGGAAAGCGGAAAGAAAG 57.162 40.909 0.00 0.00 0.00 2.62
182 234 9.045223 TCTCAAATATAAAGATGGACATCAACG 57.955 33.333 14.16 0.00 40.22 4.10
342 395 7.180766 ACAATTCAATTTTCAGGTATGTCCCAT 59.819 33.333 0.00 0.00 36.75 4.00
343 396 6.496565 ACAATTCAATTTTCAGGTATGTCCCA 59.503 34.615 0.00 0.00 36.75 4.37
500 559 8.665643 TTGTGATCTTTTAGGACGTTTTTCTA 57.334 30.769 0.00 0.00 0.00 2.10
501 560 7.562454 TTGTGATCTTTTAGGACGTTTTTCT 57.438 32.000 0.00 0.00 0.00 2.52
502 561 8.797266 AATTGTGATCTTTTAGGACGTTTTTC 57.203 30.769 0.00 0.00 0.00 2.29
506 565 9.840427 CAATTAATTGTGATCTTTTAGGACGTT 57.160 29.630 18.32 0.00 33.22 3.99
507 566 7.968405 GCAATTAATTGTGATCTTTTAGGACGT 59.032 33.333 25.15 0.00 39.88 4.34
508 567 8.184192 AGCAATTAATTGTGATCTTTTAGGACG 58.816 33.333 25.15 0.00 39.88 4.79
509 568 9.294030 CAGCAATTAATTGTGATCTTTTAGGAC 57.706 33.333 25.15 7.17 39.88 3.85
510 569 8.469200 CCAGCAATTAATTGTGATCTTTTAGGA 58.531 33.333 25.15 0.00 39.88 2.94
511 570 8.469200 TCCAGCAATTAATTGTGATCTTTTAGG 58.531 33.333 25.15 12.91 39.88 2.69
512 571 9.859427 TTCCAGCAATTAATTGTGATCTTTTAG 57.141 29.630 25.15 9.90 39.88 1.85
514 573 9.729281 AATTCCAGCAATTAATTGTGATCTTTT 57.271 25.926 25.15 11.39 39.88 2.27
555 614 9.403583 TGGAAAGATTTTCGGTAAGCTATAATT 57.596 29.630 0.00 0.00 0.00 1.40
556 615 8.837389 GTGGAAAGATTTTCGGTAAGCTATAAT 58.163 33.333 0.00 0.00 0.00 1.28
557 616 7.825270 TGTGGAAAGATTTTCGGTAAGCTATAA 59.175 33.333 0.00 0.00 0.00 0.98
558 617 7.332557 TGTGGAAAGATTTTCGGTAAGCTATA 58.667 34.615 0.00 0.00 0.00 1.31
559 618 6.177610 TGTGGAAAGATTTTCGGTAAGCTAT 58.822 36.000 0.00 0.00 0.00 2.97
560 619 5.553123 TGTGGAAAGATTTTCGGTAAGCTA 58.447 37.500 0.00 0.00 0.00 3.32
561 620 4.394729 TGTGGAAAGATTTTCGGTAAGCT 58.605 39.130 0.00 0.00 0.00 3.74
562 621 4.759516 TGTGGAAAGATTTTCGGTAAGC 57.240 40.909 0.00 0.00 0.00 3.09
563 622 9.855021 ATTATTTGTGGAAAGATTTTCGGTAAG 57.145 29.630 0.00 0.00 0.00 2.34
564 623 9.632807 CATTATTTGTGGAAAGATTTTCGGTAA 57.367 29.630 0.00 0.00 0.00 2.85
565 624 8.798402 ACATTATTTGTGGAAAGATTTTCGGTA 58.202 29.630 0.00 0.00 37.11 4.02
566 625 7.666623 ACATTATTTGTGGAAAGATTTTCGGT 58.333 30.769 0.00 0.00 37.11 4.69
567 626 9.072294 GTACATTATTTGTGGAAAGATTTTCGG 57.928 33.333 0.00 0.00 39.48 4.30
568 627 8.785101 CGTACATTATTTGTGGAAAGATTTTCG 58.215 33.333 0.00 0.00 39.48 3.46
569 628 9.620660 ACGTACATTATTTGTGGAAAGATTTTC 57.379 29.630 0.00 0.00 39.48 2.29
570 629 9.405587 CACGTACATTATTTGTGGAAAGATTTT 57.594 29.630 0.00 0.00 39.48 1.82
571 630 7.540745 GCACGTACATTATTTGTGGAAAGATTT 59.459 33.333 0.00 0.00 39.48 2.17
572 631 7.027161 GCACGTACATTATTTGTGGAAAGATT 58.973 34.615 0.00 0.00 39.48 2.40
573 632 6.150307 TGCACGTACATTATTTGTGGAAAGAT 59.850 34.615 0.00 0.00 39.48 2.40
574 633 5.470437 TGCACGTACATTATTTGTGGAAAGA 59.530 36.000 0.00 0.00 39.48 2.52
575 634 5.694816 TGCACGTACATTATTTGTGGAAAG 58.305 37.500 0.00 0.00 39.48 2.62
576 635 5.690997 TGCACGTACATTATTTGTGGAAA 57.309 34.783 0.00 0.00 39.48 3.13
577 636 5.412904 TGATGCACGTACATTATTTGTGGAA 59.587 36.000 2.10 0.00 39.48 3.53
578 637 4.938226 TGATGCACGTACATTATTTGTGGA 59.062 37.500 2.10 0.00 39.48 4.02
579 638 5.027737 GTGATGCACGTACATTATTTGTGG 58.972 41.667 2.10 0.00 39.48 4.17
580 639 5.626211 TGTGATGCACGTACATTATTTGTG 58.374 37.500 2.10 0.00 36.78 3.33
581 640 5.411361 ACTGTGATGCACGTACATTATTTGT 59.589 36.000 2.10 0.00 38.60 2.83
582 641 5.868257 ACTGTGATGCACGTACATTATTTG 58.132 37.500 2.10 0.00 37.14 2.32
583 642 5.641636 TGACTGTGATGCACGTACATTATTT 59.358 36.000 2.10 0.00 37.14 1.40
584 643 5.175127 TGACTGTGATGCACGTACATTATT 58.825 37.500 2.10 0.00 37.14 1.40
585 644 4.754322 TGACTGTGATGCACGTACATTAT 58.246 39.130 2.10 0.00 37.14 1.28
586 645 4.181309 TGACTGTGATGCACGTACATTA 57.819 40.909 2.10 0.00 37.14 1.90
587 646 3.038788 TGACTGTGATGCACGTACATT 57.961 42.857 2.10 0.00 37.14 2.71
588 647 2.741759 TGACTGTGATGCACGTACAT 57.258 45.000 0.00 0.00 37.14 2.29
589 648 2.231235 AGATGACTGTGATGCACGTACA 59.769 45.455 0.00 0.00 37.14 2.90
590 649 2.600420 CAGATGACTGTGATGCACGTAC 59.400 50.000 0.00 0.00 39.11 3.67
591 650 2.879826 CAGATGACTGTGATGCACGTA 58.120 47.619 0.00 0.00 39.11 3.57
592 651 1.718396 CAGATGACTGTGATGCACGT 58.282 50.000 0.00 0.00 39.11 4.49
603 662 3.498774 AAACTGCTTCCACAGATGACT 57.501 42.857 0.00 0.00 40.25 3.41
604 663 3.686726 CCTAAACTGCTTCCACAGATGAC 59.313 47.826 0.00 0.00 40.25 3.06
605 664 3.582647 TCCTAAACTGCTTCCACAGATGA 59.417 43.478 0.00 0.00 40.25 2.92
606 665 3.942829 TCCTAAACTGCTTCCACAGATG 58.057 45.455 0.00 0.00 40.25 2.90
607 666 4.640771 TTCCTAAACTGCTTCCACAGAT 57.359 40.909 0.00 0.00 40.25 2.90
630 689 4.000325 CGACACCATTGACTACCAATTGA 59.000 43.478 7.12 0.00 42.55 2.57
670 729 8.347004 TCTAAATGGCATTTGTCTTGATAACA 57.653 30.769 30.48 9.14 33.82 2.41
691 780 4.796830 GCTGATCGTACGTCACATTTCTAA 59.203 41.667 16.05 0.00 0.00 2.10
692 781 4.348656 GCTGATCGTACGTCACATTTCTA 58.651 43.478 16.05 0.00 0.00 2.10
693 782 3.179830 GCTGATCGTACGTCACATTTCT 58.820 45.455 16.05 0.00 0.00 2.52
694 783 2.035674 CGCTGATCGTACGTCACATTTC 60.036 50.000 16.05 3.30 0.00 2.17
697 786 3.235944 CGCTGATCGTACGTCACAT 57.764 52.632 16.05 0.32 0.00 3.21
698 787 4.757554 CGCTGATCGTACGTCACA 57.242 55.556 16.05 12.38 0.00 3.58
714 808 3.902150 AGACCATACGATTAGATGCACG 58.098 45.455 0.00 0.00 0.00 5.34
763 857 4.699637 AGACGTCTAGGATCAGACTACTG 58.300 47.826 18.46 0.00 42.36 2.74
764 858 4.202284 GGAGACGTCTAGGATCAGACTACT 60.202 50.000 20.09 9.09 42.36 2.57
765 859 4.060205 GGAGACGTCTAGGATCAGACTAC 58.940 52.174 20.09 0.41 42.36 2.73
792 886 3.815401 GGCTGAGTGATTACGGCATTAAT 59.185 43.478 0.00 0.00 0.00 1.40
850 1556 8.583765 GGCTAATTAAGTCGCATTAACTTTTTG 58.416 33.333 1.78 0.00 38.00 2.44
851 1557 8.683550 GGCTAATTAAGTCGCATTAACTTTTT 57.316 30.769 1.78 0.00 38.00 1.94
882 1588 0.731855 GAAAGCGCGTCCGTCTTAGT 60.732 55.000 8.43 0.00 36.67 2.24
1072 1786 1.701847 GATGATGGGTGTAGGGCTGAT 59.298 52.381 0.00 0.00 0.00 2.90
1116 1830 0.250858 CTGTGACATTGGGGCTGTGA 60.251 55.000 0.00 0.00 0.00 3.58
1239 1970 0.687920 TGGATGTTAGGTTGGCGACA 59.312 50.000 7.28 0.00 39.83 4.35
1254 1985 0.249615 CGATGATGTGCTCGGTGGAT 60.250 55.000 0.00 0.00 0.00 3.41
1260 1991 2.278792 TCCGCGATGATGTGCTCG 60.279 61.111 8.23 0.00 37.92 5.03
1285 2016 2.158957 TGAGACAACGGCCCAGATTATC 60.159 50.000 0.00 0.00 0.00 1.75
1385 2116 1.774110 TGCCACTTCCAAAAGCTTCA 58.226 45.000 0.00 0.00 35.81 3.02
1618 2352 4.834534 ACGCAAACCCACATTACTGTATA 58.165 39.130 0.00 0.00 33.14 1.47
1619 2353 3.681593 ACGCAAACCCACATTACTGTAT 58.318 40.909 0.00 0.00 33.14 2.29
1620 2354 3.128852 ACGCAAACCCACATTACTGTA 57.871 42.857 0.00 0.00 33.14 2.74
1621 2355 1.975660 ACGCAAACCCACATTACTGT 58.024 45.000 0.00 0.00 35.44 3.55
1624 2358 3.972403 AGAAAACGCAAACCCACATTAC 58.028 40.909 0.00 0.00 0.00 1.89
1625 2359 4.657436 AAGAAAACGCAAACCCACATTA 57.343 36.364 0.00 0.00 0.00 1.90
1734 3477 6.505272 ACAAAATCGACCGAAACCAAATTTA 58.495 32.000 0.00 0.00 0.00 1.40
1738 3481 3.243134 GGACAAAATCGACCGAAACCAAA 60.243 43.478 0.00 0.00 0.00 3.28
1750 3493 3.544684 TCCATCATCTGGGACAAAATCG 58.455 45.455 0.00 0.00 45.98 3.34
1756 3499 4.589647 TTTCAATCCATCATCTGGGACA 57.410 40.909 0.00 0.00 45.98 4.02
1808 3551 3.810386 GGAAAAGAGGAATAGTGCGATCC 59.190 47.826 0.00 0.00 0.00 3.36
1816 3559 6.062258 TGTTACAGGGGAAAAGAGGAATAG 57.938 41.667 0.00 0.00 0.00 1.73
1817 3560 6.423182 CATGTTACAGGGGAAAAGAGGAATA 58.577 40.000 0.00 0.00 0.00 1.75
1833 3576 4.694982 CCGCCATTATAGATGCATGTTACA 59.305 41.667 2.46 0.00 0.00 2.41
1836 3579 3.084039 CCCGCCATTATAGATGCATGTT 58.916 45.455 2.46 0.00 0.00 2.71
1895 3638 3.043419 CCGCCAGATCCGAGTAGG 58.957 66.667 0.00 0.00 42.97 3.18
1896 3639 2.336809 GCCGCCAGATCCGAGTAG 59.663 66.667 0.00 0.00 0.00 2.57
1912 3724 3.799755 CACAACCCTAAGCGCCGC 61.800 66.667 2.29 0.00 0.00 6.53
1941 3753 1.313475 CTACCACCTGAGCCCCCTA 59.687 63.158 0.00 0.00 0.00 3.53
1951 3765 3.077519 GCATCGTCGGCTACCACCT 62.078 63.158 0.00 0.00 0.00 4.00
1953 3767 2.585247 GGCATCGTCGGCTACCAC 60.585 66.667 0.00 0.00 0.00 4.16
2018 3845 1.134699 CAGCGAATCTCTAAGCCCACA 60.135 52.381 0.00 0.00 0.00 4.17
2026 3853 1.443407 GCAGCCCAGCGAATCTCTA 59.557 57.895 0.00 0.00 0.00 2.43
2027 3854 2.188994 GCAGCCCAGCGAATCTCT 59.811 61.111 0.00 0.00 0.00 3.10
2031 3858 4.845580 CGAGGCAGCCCAGCGAAT 62.846 66.667 8.22 0.00 34.39 3.34
2048 3875 4.587189 CCGGATCCGAAGACGCCC 62.587 72.222 35.42 0.00 42.83 6.13
2067 3894 1.410850 GCCGGATCAGGAATGGGAGA 61.411 60.000 16.86 0.00 0.00 3.71
2071 3898 2.281070 CCGCCGGATCAGGAATGG 60.281 66.667 16.86 9.72 0.00 3.16
2086 3913 3.254654 CACTGTATCACGCGGCCG 61.255 66.667 24.05 24.05 41.14 6.13
2092 3919 0.391661 AGCCAAGCCACTGTATCACG 60.392 55.000 0.00 0.00 0.00 4.35
2096 3923 1.221840 CCGAGCCAAGCCACTGTAT 59.778 57.895 0.00 0.00 0.00 2.29
2101 3928 3.357079 CACACCGAGCCAAGCCAC 61.357 66.667 0.00 0.00 0.00 5.01
2104 3931 3.490890 GATCACACCGAGCCAAGC 58.509 61.111 0.00 0.00 0.00 4.01
2119 3946 1.774300 GTGGGGGAGGTTGTTGGAT 59.226 57.895 0.00 0.00 0.00 3.41
2141 3968 2.290323 ACAGGGAGTATCAGGCACAAAC 60.290 50.000 0.00 0.00 36.25 2.93
2154 3982 4.457496 CCGCGCATCACAGGGAGT 62.457 66.667 8.75 0.00 0.00 3.85
2227 4056 2.709397 CCCCCTAACCCACGATTATTCT 59.291 50.000 0.00 0.00 0.00 2.40
2230 4059 2.500269 TCCCCCTAACCCACGATTAT 57.500 50.000 0.00 0.00 0.00 1.28
2233 4062 1.214424 CAAATCCCCCTAACCCACGAT 59.786 52.381 0.00 0.00 0.00 3.73
2286 4115 0.323629 CACCACCGACCAACATAGGT 59.676 55.000 0.00 0.00 46.82 3.08
2290 4119 0.882927 CGAACACCACCGACCAACAT 60.883 55.000 0.00 0.00 0.00 2.71
2310 4139 1.405105 GCAAAGAGGCAACACAAGTCA 59.595 47.619 0.00 0.00 41.41 3.41
2313 4142 2.466846 CAAGCAAAGAGGCAACACAAG 58.533 47.619 0.00 0.00 41.41 3.16
2329 4158 1.661341 CTGTAGTCTGATGGCCAAGC 58.339 55.000 10.96 5.63 0.00 4.01
2340 4169 3.391382 GGCACCCCGCTGTAGTCT 61.391 66.667 0.00 0.00 41.91 3.24
2356 4186 4.596585 ACCAGCCAACCCCAACGG 62.597 66.667 0.00 0.00 37.81 4.44
2365 4195 0.531974 GAAGTCACGACACCAGCCAA 60.532 55.000 0.00 0.00 0.00 4.52
2381 4211 2.046023 TGGCCGCCATCTGTGAAG 60.046 61.111 8.43 0.00 0.00 3.02
2408 4238 4.203076 CCCCTCGTAAGGACCGCG 62.203 72.222 0.00 0.00 46.67 6.46
2409 4239 3.846430 CCCCCTCGTAAGGACCGC 61.846 72.222 0.00 0.00 46.67 5.68
2416 4246 1.705002 CCATGATGGCCCCCTCGTAA 61.705 60.000 0.00 0.00 0.00 3.18
2428 4258 1.100510 CTCAACACCCAGCCATGATG 58.899 55.000 0.00 0.00 0.00 3.07
2429 4259 0.700564 ACTCAACACCCAGCCATGAT 59.299 50.000 0.00 0.00 0.00 2.45
2430 4260 0.036732 GACTCAACACCCAGCCATGA 59.963 55.000 0.00 0.00 0.00 3.07
2431 4261 0.037303 AGACTCAACACCCAGCCATG 59.963 55.000 0.00 0.00 0.00 3.66
2432 4262 0.773644 AAGACTCAACACCCAGCCAT 59.226 50.000 0.00 0.00 0.00 4.40
2438 4268 4.675671 CGATACAGAGAAGACTCAACACCC 60.676 50.000 0.00 0.00 44.79 4.61
2463 4293 0.251209 AGCGTCCTCTGTCACTGGTA 60.251 55.000 0.00 0.00 0.00 3.25
2472 4302 2.900528 ACGAAAACAGCGTCCTCTG 58.099 52.632 0.00 0.00 37.42 3.35
2481 4311 4.782195 GCACACAAGTACAGACGAAAACAG 60.782 45.833 0.00 0.00 0.00 3.16
2498 4328 2.319136 ACAAAACTACGAGGCACACA 57.681 45.000 0.00 0.00 0.00 3.72
2510 4340 0.037590 TGGCCGCCATCTACAAAACT 59.962 50.000 8.43 0.00 0.00 2.66
2514 4344 1.152984 CCATGGCCGCCATCTACAA 60.153 57.895 22.62 0.00 43.15 2.41
2515 4345 1.418097 ATCCATGGCCGCCATCTACA 61.418 55.000 22.62 6.73 43.15 2.74
2516 4346 0.957395 CATCCATGGCCGCCATCTAC 60.957 60.000 22.62 0.00 43.15 2.59
2517 4347 1.376086 CATCCATGGCCGCCATCTA 59.624 57.895 22.62 13.34 43.15 1.98
2522 4352 4.856801 ACGACATCCATGGCCGCC 62.857 66.667 6.96 1.04 33.44 6.13
2536 4366 0.524414 TCGCATCGGAGAAAAGACGA 59.476 50.000 0.00 0.00 43.58 4.20
2537 4367 0.917259 CTCGCATCGGAGAAAAGACG 59.083 55.000 0.00 0.00 43.58 4.18
2560 4390 4.640855 ACCACGACTGCCACGACG 62.641 66.667 0.00 0.00 34.70 5.12
2562 4392 4.293648 CCACCACGACTGCCACGA 62.294 66.667 0.00 0.00 34.70 4.35
2564 4394 2.972505 CACCACCACGACTGCCAC 60.973 66.667 0.00 0.00 0.00 5.01
2568 4398 0.600255 GAGAACCACCACCACGACTG 60.600 60.000 0.00 0.00 0.00 3.51
2572 4402 0.884704 CAAGGAGAACCACCACCACG 60.885 60.000 0.00 0.00 38.94 4.94
2592 4422 1.078497 CAGCATAGCCCACAACCGA 60.078 57.895 0.00 0.00 0.00 4.69
2605 4435 1.473965 GGATCCGACACATGACAGCAT 60.474 52.381 0.00 0.00 34.29 3.79
2606 4436 0.108186 GGATCCGACACATGACAGCA 60.108 55.000 0.00 0.00 0.00 4.41
2607 4437 0.176680 AGGATCCGACACATGACAGC 59.823 55.000 5.98 0.00 0.00 4.40
2608 4438 2.274437 CAAGGATCCGACACATGACAG 58.726 52.381 5.98 0.00 0.00 3.51
2609 4439 1.623311 ACAAGGATCCGACACATGACA 59.377 47.619 5.98 0.00 0.00 3.58
2616 4447 2.093500 CCAATCTGACAAGGATCCGACA 60.093 50.000 5.98 4.72 0.00 4.35
2617 4448 2.555199 CCAATCTGACAAGGATCCGAC 58.445 52.381 5.98 0.00 0.00 4.79
2632 4463 0.877071 CCATGCCAGATACGCCAATC 59.123 55.000 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.