Multiple sequence alignment - TraesCS5A01G067800

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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 TraesCS5A01G067800 chr5A 100.000 3575 0 0 1 3575 75337586 75341160 0.000000e+00 6602.0
1 TraesCS5A01G067800 chr5A 98.615 2672 34 1 752 3420 76490973 76493644 0.000000e+00 4726.0
2 TraesCS5A01G067800 chr5A 98.059 2061 37 1 1363 3420 76544777 76546837 0.000000e+00 3581.0
3 TraesCS5A01G067800 chr5A 97.865 2061 41 1 1363 3420 76518015 76520075 0.000000e+00 3559.0
4 TraesCS5A01G067800 chr5A 90.363 633 45 8 2581 3198 75349344 75349975 0.000000e+00 817.0
5 TraesCS5A01G067800 chr5A 88.119 101 12 0 2034 2134 75050057 75050157 1.740000e-23 121.0
6 TraesCS5A01G067800 chr5A 95.312 64 3 0 3419 3482 75346573 75346636 6.310000e-18 102.0
7 TraesCS5A01G067800 chr5D 96.805 2692 70 7 801 3482 80299527 80302212 0.000000e+00 4481.0
8 TraesCS5A01G067800 chr5D 76.639 244 39 13 2067 2295 76754293 76754053 6.270000e-23 119.0
9 TraesCS5A01G067800 chr5D 76.230 244 40 13 2067 2295 76690049 76689809 2.920000e-21 113.0
10 TraesCS5A01G067800 chr5D 93.750 64 4 0 3419 3482 80302303 80302366 2.940000e-16 97.1
11 TraesCS5A01G067800 chr5B 95.922 2624 75 5 722 3329 88858880 88861487 0.000000e+00 4224.0
12 TraesCS5A01G067800 chr5B 93.827 162 10 0 3321 3482 88862645 88862806 9.910000e-61 244.0
13 TraesCS5A01G067800 chr5B 89.109 101 11 0 2034 2134 88781319 88781419 3.750000e-25 126.0
14 TraesCS5A01G067800 chr5B 98.438 64 1 0 3419 3482 88862820 88862883 2.920000e-21 113.0
15 TraesCS5A01G067800 chr1B 92.748 524 36 1 3 524 564690860 564690337 0.000000e+00 756.0
16 TraesCS5A01G067800 chr1B 90.071 141 9 4 223 361 185071750 185071887 1.020000e-40 178.0
17 TraesCS5A01G067800 chr1B 88.571 140 13 3 223 361 216269713 216269850 2.210000e-37 167.0
18 TraesCS5A01G067800 chr1B 85.714 140 20 0 1071 1210 628031348 628031487 8.000000e-32 148.0
19 TraesCS5A01G067800 chr7B 92.557 524 37 1 3 524 424551328 424550805 0.000000e+00 750.0
20 TraesCS5A01G067800 chr7B 88.194 144 17 0 1071 1214 483890837 483890694 4.750000e-39 172.0
21 TraesCS5A01G067800 chr6D 89.583 144 11 3 223 363 7468051 7468193 2.840000e-41 180.0
22 TraesCS5A01G067800 chr6D 89.583 144 11 3 223 363 89759111 89758969 2.840000e-41 180.0
23 TraesCS5A01G067800 chr6D 89.583 144 11 3 223 363 89780126 89779984 2.840000e-41 180.0
24 TraesCS5A01G067800 chr6D 97.895 95 2 0 3481 3575 78765098 78765192 7.940000e-37 165.0
25 TraesCS5A01G067800 chr6D 96.842 95 3 0 3481 3575 194224448 194224354 3.690000e-35 159.0
26 TraesCS5A01G067800 chr1D 89.583 144 11 3 223 363 487140978 487140836 2.840000e-41 180.0
27 TraesCS5A01G067800 chr7D 86.452 155 21 0 1075 1229 461400669 461400515 1.710000e-38 171.0
28 TraesCS5A01G067800 chr2A 98.936 94 1 0 3482 3575 513101753 513101846 6.140000e-38 169.0
29 TraesCS5A01G067800 chr2D 88.194 144 11 5 223 363 34373572 34373432 2.210000e-37 167.0
30 TraesCS5A01G067800 chr2D 97.917 96 2 0 3480 3575 526120177 526120272 2.210000e-37 167.0
31 TraesCS5A01G067800 chr2D 97.872 94 2 0 3482 3575 73827508 73827601 2.860000e-36 163.0
32 TraesCS5A01G067800 chr4D 97.872 94 2 0 3482 3575 58390443 58390350 2.860000e-36 163.0
33 TraesCS5A01G067800 chr1A 97.872 94 2 0 3482 3575 515658331 515658238 2.860000e-36 163.0
34 TraesCS5A01G067800 chr2B 96.875 96 3 0 3480 3575 352179922 352179827 1.030000e-35 161.0
35 TraesCS5A01G067800 chr3D 96.842 95 3 0 3481 3575 360567093 360566999 3.690000e-35 159.0


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 TraesCS5A01G067800 chr5A 75337586 75341160 3574 False 6602.00 6602 100.000000 1 3575 1 chr5A.!!$F2 3574
1 TraesCS5A01G067800 chr5A 76490973 76493644 2671 False 4726.00 4726 98.615000 752 3420 1 chr5A.!!$F3 2668
2 TraesCS5A01G067800 chr5A 76544777 76546837 2060 False 3581.00 3581 98.059000 1363 3420 1 chr5A.!!$F5 2057
3 TraesCS5A01G067800 chr5A 76518015 76520075 2060 False 3559.00 3559 97.865000 1363 3420 1 chr5A.!!$F4 2057
4 TraesCS5A01G067800 chr5A 75346573 75349975 3402 False 459.50 817 92.837500 2581 3482 2 chr5A.!!$F6 901
5 TraesCS5A01G067800 chr5D 80299527 80302366 2839 False 2289.05 4481 95.277500 801 3482 2 chr5D.!!$F1 2681
6 TraesCS5A01G067800 chr5B 88858880 88862883 4003 False 1527.00 4224 96.062333 722 3482 3 chr5B.!!$F2 2760
7 TraesCS5A01G067800 chr1B 564690337 564690860 523 True 756.00 756 92.748000 3 524 1 chr1B.!!$R1 521
8 TraesCS5A01G067800 chr7B 424550805 424551328 523 True 750.00 750 92.557000 3 524 1 chr7B.!!$R1 521

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
556 559 1.070604 AGACCATATGCCCTCCATGG 58.929 55.0 4.97 4.97 44.04 3.66 F
1494 1503 1.282930 GCAACCTCTCGGACGTCAAC 61.283 60.0 18.91 0.00 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1496 1505 0.615331 GTGAAGGTGGAGCTCATGGA 59.385 55.000 17.19 0.0 0.0 3.41 R
3366 4749 1.354368 CCAGGTCTTGTATTGTGGGGT 59.646 52.381 0.00 0.0 0.0 4.95 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
26 27 5.413833 TGTTTCATCTGGCAAGATCTTTCTC 59.586 40.000 4.86 0.00 41.43 2.87
28 29 5.021033 TCATCTGGCAAGATCTTTCTCTC 57.979 43.478 4.86 0.00 41.43 3.20
135 136 8.192774 CACTTATTTAACCAATCATCATGCACT 58.807 33.333 0.00 0.00 0.00 4.40
155 156 5.049818 GCACTCATTATTCTGCTATGTCCAC 60.050 44.000 0.00 0.00 0.00 4.02
156 157 6.286758 CACTCATTATTCTGCTATGTCCACT 58.713 40.000 0.00 0.00 0.00 4.00
158 159 6.765036 ACTCATTATTCTGCTATGTCCACTTG 59.235 38.462 0.00 0.00 0.00 3.16
221 224 8.690884 TGAAAATTGATGTTGACCAAAGTTAGA 58.309 29.630 0.00 0.00 0.00 2.10
227 230 4.523083 TGTTGACCAAAGTTAGAGTTGCT 58.477 39.130 0.00 0.00 0.00 3.91
257 260 7.398024 AGGCACTTCTTATTTCAATCAGTACT 58.602 34.615 0.00 0.00 27.25 2.73
303 306 8.801882 TTATGAAAGTACCTTGGAAAGTATGG 57.198 34.615 0.00 0.00 44.25 2.74
371 374 8.099364 TGTCATTTTCTTACATGTCTTTCCTC 57.901 34.615 0.00 0.00 0.00 3.71
449 452 6.783892 TGAGCAATTTAAATGCCTTTTCAC 57.216 33.333 14.85 0.73 44.91 3.18
452 455 6.523840 AGCAATTTAAATGCCTTTTCACTGA 58.476 32.000 14.85 0.00 44.91 3.41
503 506 9.265901 AGAACATAATCTCGGTGAAGATATTTG 57.734 33.333 0.00 0.00 34.90 2.32
532 535 7.038154 AGACAAGATAGTCTGTTCTATGAGC 57.962 40.000 0.00 0.00 46.58 4.26
533 536 6.605194 AGACAAGATAGTCTGTTCTATGAGCA 59.395 38.462 0.00 0.00 46.58 4.26
534 537 7.123397 AGACAAGATAGTCTGTTCTATGAGCAA 59.877 37.037 0.00 0.00 46.58 3.91
535 538 7.790027 ACAAGATAGTCTGTTCTATGAGCAAT 58.210 34.615 0.00 0.00 31.71 3.56
536 539 8.918116 ACAAGATAGTCTGTTCTATGAGCAATA 58.082 33.333 0.00 0.00 31.71 1.90
538 541 9.979578 AAGATAGTCTGTTCTATGAGCAATAAG 57.020 33.333 0.00 0.00 31.71 1.73
539 542 9.360901 AGATAGTCTGTTCTATGAGCAATAAGA 57.639 33.333 0.00 0.00 31.71 2.10
540 543 9.405587 GATAGTCTGTTCTATGAGCAATAAGAC 57.594 37.037 0.00 0.00 31.71 3.01
541 544 6.578023 AGTCTGTTCTATGAGCAATAAGACC 58.422 40.000 0.00 0.00 0.00 3.85
542 545 6.155221 AGTCTGTTCTATGAGCAATAAGACCA 59.845 38.462 0.00 0.00 0.00 4.02
543 546 6.989169 GTCTGTTCTATGAGCAATAAGACCAT 59.011 38.462 0.00 0.00 0.00 3.55
544 547 8.144478 GTCTGTTCTATGAGCAATAAGACCATA 58.856 37.037 0.00 0.00 0.00 2.74
545 548 8.874156 TCTGTTCTATGAGCAATAAGACCATAT 58.126 33.333 0.00 0.00 0.00 1.78
546 549 8.837788 TGTTCTATGAGCAATAAGACCATATG 57.162 34.615 0.00 0.00 0.00 1.78
548 551 6.409704 TCTATGAGCAATAAGACCATATGCC 58.590 40.000 0.00 0.00 0.00 4.40
550 553 3.395607 TGAGCAATAAGACCATATGCCCT 59.604 43.478 0.00 0.00 0.00 5.19
551 554 4.006319 GAGCAATAAGACCATATGCCCTC 58.994 47.826 0.00 0.00 0.00 4.30
552 555 3.084786 GCAATAAGACCATATGCCCTCC 58.915 50.000 0.00 0.00 0.00 4.30
553 556 3.498481 GCAATAAGACCATATGCCCTCCA 60.498 47.826 0.00 0.00 0.00 3.86
554 557 4.812096 GCAATAAGACCATATGCCCTCCAT 60.812 45.833 0.00 0.00 37.97 3.41
555 558 2.965671 AAGACCATATGCCCTCCATG 57.034 50.000 0.00 0.00 35.34 3.66
556 559 1.070604 AGACCATATGCCCTCCATGG 58.929 55.000 4.97 4.97 44.04 3.66
558 561 1.637553 GACCATATGCCCTCCATGGAT 59.362 52.381 16.63 1.87 41.53 3.41
559 562 1.637553 ACCATATGCCCTCCATGGATC 59.362 52.381 16.63 8.32 41.53 3.36
560 563 1.921049 CCATATGCCCTCCATGGATCT 59.079 52.381 16.63 0.99 41.53 2.75
561 564 3.117745 CCATATGCCCTCCATGGATCTA 58.882 50.000 16.63 2.64 41.53 1.98
563 566 4.167502 CCATATGCCCTCCATGGATCTAAT 59.832 45.833 16.63 9.83 41.53 1.73
565 568 2.705148 TGCCCTCCATGGATCTAATCA 58.295 47.619 16.63 5.13 38.35 2.57
567 570 3.009805 TGCCCTCCATGGATCTAATCATG 59.990 47.826 16.63 0.00 40.12 3.07
576 579 7.487822 CATGGATCTAATCATGGGTACTACT 57.512 40.000 0.00 0.00 37.63 2.57
577 580 7.911651 CATGGATCTAATCATGGGTACTACTT 58.088 38.462 0.00 0.00 37.63 2.24
580 583 8.429641 TGGATCTAATCATGGGTACTACTTTTC 58.570 37.037 0.00 0.00 0.00 2.29
581 584 8.429641 GGATCTAATCATGGGTACTACTTTTCA 58.570 37.037 0.00 0.00 0.00 2.69
584 587 9.613428 TCTAATCATGGGTACTACTTTTCATTG 57.387 33.333 0.00 0.00 0.00 2.82
585 588 9.396022 CTAATCATGGGTACTACTTTTCATTGT 57.604 33.333 0.00 0.00 0.00 2.71
586 589 8.650143 AATCATGGGTACTACTTTTCATTGTT 57.350 30.769 0.00 0.00 0.00 2.83
588 591 8.556213 TCATGGGTACTACTTTTCATTGTTAC 57.444 34.615 0.00 0.00 0.00 2.50
589 592 7.608761 TCATGGGTACTACTTTTCATTGTTACC 59.391 37.037 0.00 0.00 0.00 2.85
592 595 6.716173 GGGTACTACTTTTCATTGTTACCCAA 59.284 38.462 8.35 0.00 42.09 4.12
593 596 7.231115 GGGTACTACTTTTCATTGTTACCCAAA 59.769 37.037 8.35 0.00 42.09 3.28
594 597 8.799367 GGTACTACTTTTCATTGTTACCCAAAT 58.201 33.333 0.00 0.00 36.44 2.32
595 598 9.620660 GTACTACTTTTCATTGTTACCCAAATG 57.379 33.333 0.00 0.00 36.44 2.32
596 599 8.472007 ACTACTTTTCATTGTTACCCAAATGA 57.528 30.769 0.00 0.00 36.44 2.57
598 601 7.118496 ACTTTTCATTGTTACCCAAATGACA 57.882 32.000 0.00 0.00 36.44 3.58
599 602 7.734942 ACTTTTCATTGTTACCCAAATGACAT 58.265 30.769 0.00 0.00 36.44 3.06
600 603 7.872483 ACTTTTCATTGTTACCCAAATGACATC 59.128 33.333 0.00 0.00 36.44 3.06
601 604 6.907853 TTCATTGTTACCCAAATGACATCA 57.092 33.333 0.00 0.00 36.44 3.07
602 605 7.479352 TTCATTGTTACCCAAATGACATCAT 57.521 32.000 0.00 0.00 36.44 2.45
603 606 8.586879 TTCATTGTTACCCAAATGACATCATA 57.413 30.769 0.00 0.00 36.44 2.15
604 607 8.586879 TCATTGTTACCCAAATGACATCATAA 57.413 30.769 0.00 0.00 36.44 1.90
605 608 8.465999 TCATTGTTACCCAAATGACATCATAAC 58.534 33.333 0.00 0.00 36.44 1.89
606 609 6.429791 TGTTACCCAAATGACATCATAACG 57.570 37.500 0.00 0.00 35.10 3.18
607 610 6.174049 TGTTACCCAAATGACATCATAACGA 58.826 36.000 0.00 0.00 35.10 3.85
608 611 6.315144 TGTTACCCAAATGACATCATAACGAG 59.685 38.462 0.00 0.00 35.10 4.18
609 612 4.843728 ACCCAAATGACATCATAACGAGT 58.156 39.130 0.00 0.00 35.10 4.18
610 613 5.253330 ACCCAAATGACATCATAACGAGTT 58.747 37.500 0.00 0.00 35.10 3.01
611 614 5.123820 ACCCAAATGACATCATAACGAGTTG 59.876 40.000 0.00 0.00 35.10 3.16
612 615 5.123820 CCCAAATGACATCATAACGAGTTGT 59.876 40.000 0.00 0.00 35.10 3.32
614 617 7.012327 CCCAAATGACATCATAACGAGTTGTAT 59.988 37.037 0.00 0.00 35.10 2.29
618 621 9.981114 AATGACATCATAACGAGTTGTATATGA 57.019 29.630 13.34 13.34 36.22 2.15
621 624 9.626045 GACATCATAACGAGTTGTATATGATGA 57.374 33.333 31.88 16.40 46.21 2.92
622 625 9.411801 ACATCATAACGAGTTGTATATGATGAC 57.588 33.333 31.88 0.00 46.21 3.06
623 626 9.631452 CATCATAACGAGTTGTATATGATGACT 57.369 33.333 27.45 11.35 46.21 3.41
656 659 9.526713 TTCAATTTCTGTGAATTTTTCATTCGA 57.473 25.926 0.00 0.00 42.47 3.71
657 660 9.695526 TCAATTTCTGTGAATTTTTCATTCGAT 57.304 25.926 0.00 0.00 42.47 3.59
659 662 9.918630 AATTTCTGTGAATTTTTCATTCGATCT 57.081 25.926 0.00 0.00 42.47 2.75
660 663 9.918630 ATTTCTGTGAATTTTTCATTCGATCTT 57.081 25.926 0.00 0.00 42.47 2.40
661 664 9.748708 TTTCTGTGAATTTTTCATTCGATCTTT 57.251 25.926 0.00 0.00 42.47 2.52
687 690 8.792831 AAATATTTGTCGTAGTAGGTGTATCG 57.207 34.615 0.00 0.00 0.00 2.92
688 691 3.680642 TTGTCGTAGTAGGTGTATCGC 57.319 47.619 0.00 0.00 0.00 4.58
690 693 2.610833 TGTCGTAGTAGGTGTATCGCTG 59.389 50.000 0.00 0.00 0.00 5.18
691 694 2.868583 GTCGTAGTAGGTGTATCGCTGA 59.131 50.000 0.00 0.00 0.00 4.26
692 695 3.310774 GTCGTAGTAGGTGTATCGCTGAA 59.689 47.826 0.00 0.00 0.00 3.02
693 696 3.940852 TCGTAGTAGGTGTATCGCTGAAA 59.059 43.478 0.00 0.00 0.00 2.69
694 697 4.395854 TCGTAGTAGGTGTATCGCTGAAAA 59.604 41.667 0.00 0.00 0.00 2.29
695 698 4.733887 CGTAGTAGGTGTATCGCTGAAAAG 59.266 45.833 0.00 0.00 0.00 2.27
698 701 5.978814 AGTAGGTGTATCGCTGAAAAGAAT 58.021 37.500 0.00 0.00 0.00 2.40
699 702 7.108841 AGTAGGTGTATCGCTGAAAAGAATA 57.891 36.000 0.00 0.00 0.00 1.75
700 703 7.727181 AGTAGGTGTATCGCTGAAAAGAATAT 58.273 34.615 0.00 0.00 0.00 1.28
702 705 7.251704 AGGTGTATCGCTGAAAAGAATATTG 57.748 36.000 0.00 0.00 0.00 1.90
703 706 7.047891 AGGTGTATCGCTGAAAAGAATATTGA 58.952 34.615 0.00 0.00 0.00 2.57
704 707 7.716998 AGGTGTATCGCTGAAAAGAATATTGAT 59.283 33.333 0.00 0.00 0.00 2.57
706 709 7.737744 GTGTATCGCTGAAAAGAATATTGATCG 59.262 37.037 0.00 0.00 0.00 3.69
708 711 6.516478 TCGCTGAAAAGAATATTGATCGAG 57.484 37.500 0.00 0.00 0.00 4.04
710 713 6.199154 TCGCTGAAAAGAATATTGATCGAGAC 59.801 38.462 0.00 0.00 0.00 3.36
711 714 6.350974 GCTGAAAAGAATATTGATCGAGACG 58.649 40.000 0.00 0.00 0.00 4.18
712 715 6.274001 TGAAAAGAATATTGATCGAGACGC 57.726 37.500 0.00 0.00 0.00 5.19
713 716 6.042777 TGAAAAGAATATTGATCGAGACGCT 58.957 36.000 0.00 0.00 0.00 5.07
714 717 6.535150 TGAAAAGAATATTGATCGAGACGCTT 59.465 34.615 0.00 0.00 0.00 4.68
716 719 6.994868 AAGAATATTGATCGAGACGCTTAC 57.005 37.500 0.00 0.00 0.00 2.34
717 720 6.320494 AGAATATTGATCGAGACGCTTACT 57.680 37.500 0.00 0.00 0.00 2.24
718 721 6.146216 AGAATATTGATCGAGACGCTTACTG 58.854 40.000 0.00 0.00 0.00 2.74
719 722 2.561733 TTGATCGAGACGCTTACTGG 57.438 50.000 0.00 0.00 0.00 4.00
720 723 1.460504 TGATCGAGACGCTTACTGGT 58.539 50.000 0.00 0.00 0.00 4.00
735 738 6.758886 CGCTTACTGGTAATCAGAAGAGAAAT 59.241 38.462 0.00 0.00 46.18 2.17
744 747 8.031277 GGTAATCAGAAGAGAAATGCATGTTTT 58.969 33.333 0.00 0.00 0.00 2.43
1494 1503 1.282930 GCAACCTCTCGGACGTCAAC 61.283 60.000 18.91 0.00 0.00 3.18
1495 1504 0.314302 CAACCTCTCGGACGTCAACT 59.686 55.000 18.91 0.00 0.00 3.16
1496 1505 1.038280 AACCTCTCGGACGTCAACTT 58.962 50.000 18.91 0.00 0.00 2.66
1497 1506 0.597072 ACCTCTCGGACGTCAACTTC 59.403 55.000 18.91 0.00 0.00 3.01
1761 1770 1.602311 CTTGTCTTGTGAGGCTGCTT 58.398 50.000 0.00 0.00 0.00 3.91
2642 2834 2.218603 CCTGAGTGGTTAGCGTGTTTT 58.781 47.619 0.00 0.00 0.00 2.43
2645 2837 4.319261 CCTGAGTGGTTAGCGTGTTTTTAC 60.319 45.833 0.00 0.00 0.00 2.01
2723 2915 3.328382 TGATACTTTTGTCAGACGGGG 57.672 47.619 0.00 0.00 0.00 5.73
2818 3012 4.506886 TTGTTCTCCGAGTCTCTTTCTC 57.493 45.455 0.00 0.00 0.00 2.87
3002 3210 9.461312 TCTGAGTAATACTTGGCACATATTTTT 57.539 29.630 7.52 0.00 39.30 1.94
3044 3252 5.802465 AGATGAGAAATCTGAAGACTTGCA 58.198 37.500 0.00 0.00 0.00 4.08
3154 3362 0.585357 CAATAGCCGCTGCAGATCAC 59.415 55.000 20.43 2.86 41.13 3.06
3168 3376 5.255687 TGCAGATCACCATTTGTTGTATCT 58.744 37.500 0.00 0.00 0.00 1.98
3356 4739 2.296480 GCCGTCGATCTTAGCTGCG 61.296 63.158 0.00 0.00 0.00 5.18
3366 4749 1.212195 TCTTAGCTGCGACTCCCTCTA 59.788 52.381 0.00 0.00 0.00 2.43
3377 4760 2.699321 GACTCCCTCTACCCCACAATAC 59.301 54.545 0.00 0.00 0.00 1.89
3391 4774 4.457949 CCCACAATACAAGACCTGGTTAAC 59.542 45.833 0.00 0.00 0.00 2.01
3469 5006 3.645884 TCTCGACCTAAACAAAGTTCCG 58.354 45.455 0.00 0.00 0.00 4.30
3499 5036 2.691984 TTACCGAAAAAGGCTTTCGC 57.308 45.000 13.76 7.41 46.89 4.70
3509 5046 3.509659 GCTTTCGCCCCGCTTTAT 58.490 55.556 0.00 0.00 0.00 1.40
3510 5047 2.697819 GCTTTCGCCCCGCTTTATA 58.302 52.632 0.00 0.00 0.00 0.98
3511 5048 1.018910 GCTTTCGCCCCGCTTTATAA 58.981 50.000 0.00 0.00 0.00 0.98
3512 5049 1.402613 GCTTTCGCCCCGCTTTATAAA 59.597 47.619 0.00 0.00 0.00 1.40
3513 5050 2.034179 GCTTTCGCCCCGCTTTATAAAT 59.966 45.455 0.00 0.00 0.00 1.40
3514 5051 3.251487 GCTTTCGCCCCGCTTTATAAATA 59.749 43.478 0.00 0.00 0.00 1.40
3515 5052 4.261280 GCTTTCGCCCCGCTTTATAAATAA 60.261 41.667 0.00 0.00 0.00 1.40
3516 5053 5.733937 GCTTTCGCCCCGCTTTATAAATAAA 60.734 40.000 0.00 0.00 0.00 1.40
3528 5065 7.820044 CTTTATAAATAAAGCAAACCGCCAA 57.180 32.000 9.01 0.00 41.69 4.52
3529 5066 7.820044 TTTATAAATAAAGCAAACCGCCAAG 57.180 32.000 0.00 0.00 44.04 3.61
3530 5067 5.652994 ATAAATAAAGCAAACCGCCAAGA 57.347 34.783 0.00 0.00 44.04 3.02
3531 5068 3.575965 AATAAAGCAAACCGCCAAGAG 57.424 42.857 0.00 0.00 44.04 2.85
3532 5069 0.596082 TAAAGCAAACCGCCAAGAGC 59.404 50.000 0.00 0.00 44.04 4.09
3533 5070 1.391157 AAAGCAAACCGCCAAGAGCA 61.391 50.000 0.00 0.00 44.04 4.26
3534 5071 2.050077 GCAAACCGCCAAGAGCAC 60.050 61.111 0.00 0.00 44.04 4.40
3535 5072 2.844451 GCAAACCGCCAAGAGCACA 61.844 57.895 0.00 0.00 44.04 4.57
3536 5073 1.959085 CAAACCGCCAAGAGCACAT 59.041 52.632 0.00 0.00 44.04 3.21
3537 5074 1.164411 CAAACCGCCAAGAGCACATA 58.836 50.000 0.00 0.00 44.04 2.29
3538 5075 1.135689 CAAACCGCCAAGAGCACATAC 60.136 52.381 0.00 0.00 44.04 2.39
3539 5076 0.036164 AACCGCCAAGAGCACATACA 59.964 50.000 0.00 0.00 44.04 2.29
3540 5077 0.036164 ACCGCCAAGAGCACATACAA 59.964 50.000 0.00 0.00 44.04 2.41
3541 5078 0.729116 CCGCCAAGAGCACATACAAG 59.271 55.000 0.00 0.00 44.04 3.16
3542 5079 0.729116 CGCCAAGAGCACATACAAGG 59.271 55.000 0.00 0.00 44.04 3.61
3543 5080 1.675714 CGCCAAGAGCACATACAAGGA 60.676 52.381 0.00 0.00 44.04 3.36
3544 5081 1.740025 GCCAAGAGCACATACAAGGAC 59.260 52.381 0.00 0.00 42.97 3.85
3545 5082 2.616510 GCCAAGAGCACATACAAGGACT 60.617 50.000 0.00 0.00 42.97 3.85
3546 5083 3.369471 GCCAAGAGCACATACAAGGACTA 60.369 47.826 0.00 0.00 42.97 2.59
3547 5084 4.437239 CCAAGAGCACATACAAGGACTAG 58.563 47.826 0.00 0.00 0.00 2.57
3548 5085 4.081420 CCAAGAGCACATACAAGGACTAGT 60.081 45.833 0.00 0.00 0.00 2.57
3549 5086 5.482908 CAAGAGCACATACAAGGACTAGTT 58.517 41.667 0.00 0.00 0.00 2.24
3550 5087 5.331876 AGAGCACATACAAGGACTAGTTC 57.668 43.478 0.00 0.00 0.00 3.01
3551 5088 4.772624 AGAGCACATACAAGGACTAGTTCA 59.227 41.667 3.42 0.00 0.00 3.18
3552 5089 5.246203 AGAGCACATACAAGGACTAGTTCAA 59.754 40.000 3.42 0.00 0.00 2.69
3553 5090 5.865085 AGCACATACAAGGACTAGTTCAAA 58.135 37.500 3.42 0.00 0.00 2.69
3554 5091 6.296026 AGCACATACAAGGACTAGTTCAAAA 58.704 36.000 3.42 0.00 0.00 2.44
3555 5092 6.204882 AGCACATACAAGGACTAGTTCAAAAC 59.795 38.462 3.42 0.00 0.00 2.43
3556 5093 6.017440 GCACATACAAGGACTAGTTCAAAACA 60.017 38.462 3.42 0.00 0.00 2.83
3557 5094 7.352739 CACATACAAGGACTAGTTCAAAACAC 58.647 38.462 3.42 0.00 0.00 3.32
3558 5095 7.011950 CACATACAAGGACTAGTTCAAAACACA 59.988 37.037 3.42 0.00 0.00 3.72
3559 5096 5.813080 ACAAGGACTAGTTCAAAACACAC 57.187 39.130 3.42 0.00 0.00 3.82
3560 5097 5.250200 ACAAGGACTAGTTCAAAACACACA 58.750 37.500 3.42 0.00 0.00 3.72
3561 5098 5.123344 ACAAGGACTAGTTCAAAACACACAC 59.877 40.000 3.42 0.00 0.00 3.82
3562 5099 4.839121 AGGACTAGTTCAAAACACACACA 58.161 39.130 3.42 0.00 0.00 3.72
3563 5100 4.634443 AGGACTAGTTCAAAACACACACAC 59.366 41.667 3.42 0.00 0.00 3.82
3564 5101 4.201881 GGACTAGTTCAAAACACACACACC 60.202 45.833 0.00 0.00 0.00 4.16
3565 5102 3.692593 ACTAGTTCAAAACACACACACCC 59.307 43.478 0.00 0.00 0.00 4.61
3566 5103 2.520069 AGTTCAAAACACACACACCCA 58.480 42.857 0.00 0.00 0.00 4.51
3567 5104 2.894126 AGTTCAAAACACACACACCCAA 59.106 40.909 0.00 0.00 0.00 4.12
3568 5105 3.056891 AGTTCAAAACACACACACCCAAG 60.057 43.478 0.00 0.00 0.00 3.61
3569 5106 2.520069 TCAAAACACACACACCCAAGT 58.480 42.857 0.00 0.00 0.00 3.16
3570 5107 2.490115 TCAAAACACACACACCCAAGTC 59.510 45.455 0.00 0.00 0.00 3.01
3571 5108 2.208132 AAACACACACACCCAAGTCA 57.792 45.000 0.00 0.00 0.00 3.41
3572 5109 1.459450 AACACACACACCCAAGTCAC 58.541 50.000 0.00 0.00 0.00 3.67
3573 5110 0.326595 ACACACACACCCAAGTCACA 59.673 50.000 0.00 0.00 0.00 3.58
3574 5111 0.732571 CACACACACCCAAGTCACAC 59.267 55.000 0.00 0.00 0.00 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
124 125 5.374071 AGCAGAATAATGAGTGCATGATGA 58.626 37.500 0.00 0.00 38.44 2.92
125 126 5.690997 AGCAGAATAATGAGTGCATGATG 57.309 39.130 0.00 0.00 38.44 3.07
135 136 5.528690 GCAAGTGGACATAGCAGAATAATGA 59.471 40.000 0.00 0.00 0.00 2.57
192 195 7.729116 ACTTTGGTCAACATCAATTTTCATCT 58.271 30.769 0.00 0.00 0.00 2.90
221 224 4.625607 AAGAAGTGCCTAGTTAGCAACT 57.374 40.909 6.74 6.74 43.02 3.16
227 230 9.383519 CTGATTGAAATAAGAAGTGCCTAGTTA 57.616 33.333 0.00 0.00 0.00 2.24
407 410 5.530543 TGCTCATTTGTCAACACTCAACATA 59.469 36.000 0.00 0.00 0.00 2.29
419 422 6.465948 AGGCATTTAAATTGCTCATTTGTCA 58.534 32.000 16.74 0.00 35.71 3.58
449 452 7.233144 TCCTTCCTCTTCATCTAGATTCATCAG 59.767 40.741 1.33 0.00 0.00 2.90
452 455 7.304479 TCTCCTTCCTCTTCATCTAGATTCAT 58.696 38.462 1.33 0.00 0.00 2.57
507 510 7.123397 TGCTCATAGAACAGACTATCTTGTCTT 59.877 37.037 0.00 0.00 44.01 3.01
520 523 8.933807 CATATGGTCTTATTGCTCATAGAACAG 58.066 37.037 0.00 0.00 0.00 3.16
524 527 6.409704 GGCATATGGTCTTATTGCTCATAGA 58.590 40.000 4.56 0.00 0.00 1.98
525 528 5.587844 GGGCATATGGTCTTATTGCTCATAG 59.412 44.000 4.56 0.00 0.00 2.23
526 529 5.251468 AGGGCATATGGTCTTATTGCTCATA 59.749 40.000 4.56 0.00 0.00 2.15
527 530 4.043812 AGGGCATATGGTCTTATTGCTCAT 59.956 41.667 4.56 0.00 0.00 2.90
529 532 4.006319 GAGGGCATATGGTCTTATTGCTC 58.994 47.826 4.56 0.00 0.00 4.26
530 533 3.245052 GGAGGGCATATGGTCTTATTGCT 60.245 47.826 4.56 0.00 0.00 3.91
532 535 4.371624 TGGAGGGCATATGGTCTTATTG 57.628 45.455 4.56 0.00 0.00 1.90
533 536 4.264083 CCATGGAGGGCATATGGTCTTATT 60.264 45.833 5.56 0.00 37.24 1.40
534 537 3.267812 CCATGGAGGGCATATGGTCTTAT 59.732 47.826 5.56 0.00 37.24 1.73
535 538 2.644299 CCATGGAGGGCATATGGTCTTA 59.356 50.000 5.56 0.00 37.24 2.10
536 539 1.426598 CCATGGAGGGCATATGGTCTT 59.573 52.381 5.56 0.00 37.24 3.01
538 541 1.067295 TCCATGGAGGGCATATGGTC 58.933 55.000 11.44 0.00 41.61 4.02
539 542 1.637553 GATCCATGGAGGGCATATGGT 59.362 52.381 21.33 0.00 41.61 3.55
540 543 1.921049 AGATCCATGGAGGGCATATGG 59.079 52.381 21.33 0.00 42.12 2.74
541 544 4.849813 TTAGATCCATGGAGGGCATATG 57.150 45.455 21.33 0.00 38.24 1.78
542 545 5.041700 TGATTAGATCCATGGAGGGCATAT 58.958 41.667 21.33 8.40 38.24 1.78
543 546 4.437967 TGATTAGATCCATGGAGGGCATA 58.562 43.478 21.33 5.43 38.24 3.14
544 547 3.262842 TGATTAGATCCATGGAGGGCAT 58.737 45.455 21.33 9.62 38.24 4.40
545 548 2.705148 TGATTAGATCCATGGAGGGCA 58.295 47.619 21.33 9.20 38.24 5.36
546 549 3.618351 CATGATTAGATCCATGGAGGGC 58.382 50.000 21.33 11.91 37.19 5.19
552 555 7.487822 AGTAGTACCCATGATTAGATCCATG 57.512 40.000 0.00 3.44 39.72 3.66
553 556 8.511748 AAAGTAGTACCCATGATTAGATCCAT 57.488 34.615 0.00 0.00 0.00 3.41
554 557 7.931015 AAAGTAGTACCCATGATTAGATCCA 57.069 36.000 0.00 0.00 0.00 3.41
555 558 8.429641 TGAAAAGTAGTACCCATGATTAGATCC 58.570 37.037 0.00 0.00 0.00 3.36
558 561 9.613428 CAATGAAAAGTAGTACCCATGATTAGA 57.387 33.333 0.00 0.00 0.00 2.10
559 562 9.396022 ACAATGAAAAGTAGTACCCATGATTAG 57.604 33.333 0.00 0.00 0.00 1.73
560 563 9.747898 AACAATGAAAAGTAGTACCCATGATTA 57.252 29.630 0.00 0.00 0.00 1.75
561 564 8.650143 AACAATGAAAAGTAGTACCCATGATT 57.350 30.769 0.00 0.00 0.00 2.57
563 566 7.608761 GGTAACAATGAAAAGTAGTACCCATGA 59.391 37.037 0.00 0.00 0.00 3.07
565 568 6.888088 GGGTAACAATGAAAAGTAGTACCCAT 59.112 38.462 10.08 0.00 42.09 4.00
567 570 6.240145 TGGGTAACAATGAAAAGTAGTACCC 58.760 40.000 8.35 8.35 42.66 3.69
568 571 7.748691 TTGGGTAACAATGAAAAGTAGTACC 57.251 36.000 0.00 0.00 33.18 3.34
569 572 9.620660 CATTTGGGTAACAATGAAAAGTAGTAC 57.379 33.333 0.00 0.00 39.21 2.73
570 573 9.575868 TCATTTGGGTAACAATGAAAAGTAGTA 57.424 29.630 0.00 0.00 39.21 1.82
571 574 8.357402 GTCATTTGGGTAACAATGAAAAGTAGT 58.643 33.333 0.00 0.00 39.21 2.73
572 575 8.356657 TGTCATTTGGGTAACAATGAAAAGTAG 58.643 33.333 0.00 0.00 39.21 2.57
573 576 8.239038 TGTCATTTGGGTAACAATGAAAAGTA 57.761 30.769 0.00 0.00 39.21 2.24
574 577 7.118496 TGTCATTTGGGTAACAATGAAAAGT 57.882 32.000 0.00 0.00 39.21 2.66
575 578 7.871973 TGATGTCATTTGGGTAACAATGAAAAG 59.128 33.333 0.00 0.00 39.21 2.27
576 579 7.730084 TGATGTCATTTGGGTAACAATGAAAA 58.270 30.769 0.00 0.00 39.21 2.29
577 580 7.295322 TGATGTCATTTGGGTAACAATGAAA 57.705 32.000 0.00 0.00 39.21 2.69
580 583 7.431960 CGTTATGATGTCATTTGGGTAACAATG 59.568 37.037 0.19 0.00 39.21 2.82
581 584 7.338196 TCGTTATGATGTCATTTGGGTAACAAT 59.662 33.333 0.19 0.00 39.21 2.71
582 585 6.655425 TCGTTATGATGTCATTTGGGTAACAA 59.345 34.615 0.19 0.00 37.76 2.83
583 586 6.174049 TCGTTATGATGTCATTTGGGTAACA 58.826 36.000 0.19 0.00 37.76 2.41
584 587 6.315393 ACTCGTTATGATGTCATTTGGGTAAC 59.685 38.462 0.19 0.00 37.76 2.50
585 588 6.411376 ACTCGTTATGATGTCATTTGGGTAA 58.589 36.000 0.19 0.00 37.76 2.85
586 589 5.984725 ACTCGTTATGATGTCATTTGGGTA 58.015 37.500 0.19 0.00 37.76 3.69
588 591 5.123820 ACAACTCGTTATGATGTCATTTGGG 59.876 40.000 0.19 0.00 37.76 4.12
589 592 6.182039 ACAACTCGTTATGATGTCATTTGG 57.818 37.500 0.19 0.00 37.76 3.28
592 595 9.981114 TCATATACAACTCGTTATGATGTCATT 57.019 29.630 0.19 0.00 37.76 2.57
594 597 9.410556 CATCATATACAACTCGTTATGATGTCA 57.589 33.333 17.50 0.00 42.40 3.58
595 598 9.626045 TCATCATATACAACTCGTTATGATGTC 57.374 33.333 21.77 0.00 44.32 3.06
596 599 9.411801 GTCATCATATACAACTCGTTATGATGT 57.588 33.333 21.77 5.37 44.32 3.06
631 634 9.695526 ATCGAATGAAAAATTCACAGAAATTGA 57.304 25.926 0.00 0.00 43.48 2.57
632 635 9.947897 GATCGAATGAAAAATTCACAGAAATTG 57.052 29.630 0.00 0.00 43.48 2.32
634 637 9.918630 AAGATCGAATGAAAAATTCACAGAAAT 57.081 25.926 0.00 0.00 43.48 2.17
635 638 9.748708 AAAGATCGAATGAAAAATTCACAGAAA 57.251 25.926 0.00 0.00 43.48 2.52
661 664 9.882996 CGATACACCTACTACGACAAATATTTA 57.117 33.333 0.00 0.00 0.00 1.40
662 665 7.380602 GCGATACACCTACTACGACAAATATTT 59.619 37.037 0.00 0.00 0.00 1.40
663 666 6.860023 GCGATACACCTACTACGACAAATATT 59.140 38.462 0.00 0.00 0.00 1.28
664 667 6.206243 AGCGATACACCTACTACGACAAATAT 59.794 38.462 0.00 0.00 0.00 1.28
665 668 5.528690 AGCGATACACCTACTACGACAAATA 59.471 40.000 0.00 0.00 0.00 1.40
667 670 3.691118 AGCGATACACCTACTACGACAAA 59.309 43.478 0.00 0.00 0.00 2.83
668 671 3.064408 CAGCGATACACCTACTACGACAA 59.936 47.826 0.00 0.00 0.00 3.18
669 672 2.610833 CAGCGATACACCTACTACGACA 59.389 50.000 0.00 0.00 0.00 4.35
670 673 2.868583 TCAGCGATACACCTACTACGAC 59.131 50.000 0.00 0.00 0.00 4.34
671 674 3.183793 TCAGCGATACACCTACTACGA 57.816 47.619 0.00 0.00 0.00 3.43
672 675 3.957671 TTCAGCGATACACCTACTACG 57.042 47.619 0.00 0.00 0.00 3.51
673 676 5.888105 TCTTTTCAGCGATACACCTACTAC 58.112 41.667 0.00 0.00 0.00 2.73
674 677 6.519679 TTCTTTTCAGCGATACACCTACTA 57.480 37.500 0.00 0.00 0.00 1.82
675 678 5.401531 TTCTTTTCAGCGATACACCTACT 57.598 39.130 0.00 0.00 0.00 2.57
676 679 7.948278 ATATTCTTTTCAGCGATACACCTAC 57.052 36.000 0.00 0.00 0.00 3.18
677 680 8.201464 TCAATATTCTTTTCAGCGATACACCTA 58.799 33.333 0.00 0.00 0.00 3.08
678 681 7.047891 TCAATATTCTTTTCAGCGATACACCT 58.952 34.615 0.00 0.00 0.00 4.00
680 683 7.737744 CGATCAATATTCTTTTCAGCGATACAC 59.262 37.037 0.00 0.00 0.00 2.90
682 685 8.007821 TCGATCAATATTCTTTTCAGCGATAC 57.992 34.615 0.00 0.00 0.00 2.24
683 686 8.082242 TCTCGATCAATATTCTTTTCAGCGATA 58.918 33.333 0.00 0.00 0.00 2.92
684 687 6.925718 TCTCGATCAATATTCTTTTCAGCGAT 59.074 34.615 0.00 0.00 0.00 4.58
685 688 6.199154 GTCTCGATCAATATTCTTTTCAGCGA 59.801 38.462 0.00 0.00 0.00 4.93
686 689 6.350974 GTCTCGATCAATATTCTTTTCAGCG 58.649 40.000 0.00 0.00 0.00 5.18
687 690 6.350974 CGTCTCGATCAATATTCTTTTCAGC 58.649 40.000 0.00 0.00 0.00 4.26
688 691 6.199908 AGCGTCTCGATCAATATTCTTTTCAG 59.800 38.462 0.00 0.00 0.00 3.02
690 693 6.517914 AGCGTCTCGATCAATATTCTTTTC 57.482 37.500 0.00 0.00 0.00 2.29
691 694 6.910536 AAGCGTCTCGATCAATATTCTTTT 57.089 33.333 0.00 0.00 0.00 2.27
692 695 7.168302 CAGTAAGCGTCTCGATCAATATTCTTT 59.832 37.037 0.00 0.00 0.00 2.52
693 696 6.638873 CAGTAAGCGTCTCGATCAATATTCTT 59.361 38.462 0.00 0.00 0.00 2.52
694 697 6.146216 CAGTAAGCGTCTCGATCAATATTCT 58.854 40.000 0.00 0.00 0.00 2.40
695 698 5.343593 CCAGTAAGCGTCTCGATCAATATTC 59.656 44.000 0.00 0.00 0.00 1.75
698 701 3.630769 ACCAGTAAGCGTCTCGATCAATA 59.369 43.478 0.00 0.00 0.00 1.90
699 702 2.427453 ACCAGTAAGCGTCTCGATCAAT 59.573 45.455 0.00 0.00 0.00 2.57
700 703 1.816835 ACCAGTAAGCGTCTCGATCAA 59.183 47.619 0.00 0.00 0.00 2.57
702 705 3.687572 TTACCAGTAAGCGTCTCGATC 57.312 47.619 0.00 0.00 0.00 3.69
703 706 3.630769 TGATTACCAGTAAGCGTCTCGAT 59.369 43.478 1.77 0.00 34.44 3.59
704 707 3.011818 TGATTACCAGTAAGCGTCTCGA 58.988 45.455 1.77 0.00 34.44 4.04
706 709 4.634184 TCTGATTACCAGTAAGCGTCTC 57.366 45.455 1.77 0.00 43.38 3.36
708 711 4.995124 TCTTCTGATTACCAGTAAGCGTC 58.005 43.478 1.77 0.00 43.38 5.19
710 713 5.250235 TCTCTTCTGATTACCAGTAAGCG 57.750 43.478 1.77 0.00 43.38 4.68
711 714 7.466590 GCATTTCTCTTCTGATTACCAGTAAGC 60.467 40.741 0.00 0.00 43.38 3.09
712 715 7.550551 TGCATTTCTCTTCTGATTACCAGTAAG 59.449 37.037 0.00 0.00 43.38 2.34
713 716 7.394016 TGCATTTCTCTTCTGATTACCAGTAA 58.606 34.615 0.00 0.00 43.38 2.24
714 717 6.946340 TGCATTTCTCTTCTGATTACCAGTA 58.054 36.000 0.00 0.00 43.38 2.74
716 719 6.318144 ACATGCATTTCTCTTCTGATTACCAG 59.682 38.462 0.00 0.00 44.27 4.00
717 720 6.182627 ACATGCATTTCTCTTCTGATTACCA 58.817 36.000 0.00 0.00 0.00 3.25
718 721 6.690194 ACATGCATTTCTCTTCTGATTACC 57.310 37.500 0.00 0.00 0.00 2.85
719 722 8.857216 CAAAACATGCATTTCTCTTCTGATTAC 58.143 33.333 0.00 0.00 0.00 1.89
720 723 8.030692 CCAAAACATGCATTTCTCTTCTGATTA 58.969 33.333 0.00 0.00 0.00 1.75
735 738 0.396060 GGAAAGGCCCAAAACATGCA 59.604 50.000 0.00 0.00 0.00 3.96
744 747 1.228552 GCTTCACTGGAAAGGCCCA 60.229 57.895 0.00 0.00 34.97 5.36
1494 1503 1.280133 TGAAGGTGGAGCTCATGGAAG 59.720 52.381 17.19 0.00 0.00 3.46
1495 1504 1.003580 GTGAAGGTGGAGCTCATGGAA 59.996 52.381 17.19 0.00 0.00 3.53
1496 1505 0.615331 GTGAAGGTGGAGCTCATGGA 59.385 55.000 17.19 0.00 0.00 3.41
1497 1506 0.617413 AGTGAAGGTGGAGCTCATGG 59.383 55.000 17.19 0.00 0.00 3.66
1761 1770 3.955471 CAGAATACTGCCCCTCTCAAAA 58.045 45.455 0.00 0.00 37.33 2.44
2645 2837 7.607991 ACCAGATGATACAAACTCAAAAGGTAG 59.392 37.037 0.00 0.00 0.00 3.18
2818 3012 3.896648 ATTCAGTGTTAACAGGCAACG 57.103 42.857 8.98 0.00 46.39 4.10
2938 3144 5.868043 TCATTACAACAATCAGCAGAGTG 57.132 39.130 4.91 4.91 44.94 3.51
3002 3210 7.175641 TCTCATCTCGAGCATATAATGAGTTCA 59.824 37.037 26.24 13.53 41.98 3.18
3168 3376 7.230747 TGGAACCATTTGAGTATCTTCTGAAA 58.769 34.615 0.00 0.00 34.92 2.69
3356 4739 1.880941 ATTGTGGGGTAGAGGGAGTC 58.119 55.000 0.00 0.00 0.00 3.36
3366 4749 1.354368 CCAGGTCTTGTATTGTGGGGT 59.646 52.381 0.00 0.00 0.00 4.95
3377 4760 3.380479 TCGACAGTTAACCAGGTCTTG 57.620 47.619 16.08 4.71 0.00 3.02
3391 4774 1.728971 GCTTGGTGAAGTCATCGACAG 59.271 52.381 0.00 0.00 34.60 3.51
3493 5030 3.982576 ATTTATAAAGCGGGGCGAAAG 57.017 42.857 3.94 0.00 0.00 2.62
3494 5031 5.823353 CTTTATTTATAAAGCGGGGCGAAA 58.177 37.500 8.78 0.00 41.69 3.46
3495 5032 5.427036 CTTTATTTATAAAGCGGGGCGAA 57.573 39.130 8.78 0.00 41.69 4.70
3505 5042 7.603651 TCTTGGCGGTTTGCTTTATTTATAAA 58.396 30.769 0.00 0.00 45.43 1.40
3506 5043 7.159322 TCTTGGCGGTTTGCTTTATTTATAA 57.841 32.000 0.00 0.00 45.43 0.98
3507 5044 6.679392 GCTCTTGGCGGTTTGCTTTATTTATA 60.679 38.462 0.00 0.00 45.43 0.98
3508 5045 5.650543 CTCTTGGCGGTTTGCTTTATTTAT 58.349 37.500 0.00 0.00 45.43 1.40
3509 5046 4.617298 GCTCTTGGCGGTTTGCTTTATTTA 60.617 41.667 0.00 0.00 45.43 1.40
3510 5047 3.860754 GCTCTTGGCGGTTTGCTTTATTT 60.861 43.478 0.00 0.00 45.43 1.40
3511 5048 2.352715 GCTCTTGGCGGTTTGCTTTATT 60.353 45.455 0.00 0.00 45.43 1.40
3512 5049 1.202348 GCTCTTGGCGGTTTGCTTTAT 59.798 47.619 0.00 0.00 45.43 1.40
3513 5050 0.596082 GCTCTTGGCGGTTTGCTTTA 59.404 50.000 0.00 0.00 45.43 1.85
3514 5051 1.363807 GCTCTTGGCGGTTTGCTTT 59.636 52.632 0.00 0.00 45.43 3.51
3515 5052 1.827789 TGCTCTTGGCGGTTTGCTT 60.828 52.632 0.00 0.00 45.43 3.91
3516 5053 2.203337 TGCTCTTGGCGGTTTGCT 60.203 55.556 0.00 0.00 45.43 3.91
3517 5054 2.050077 GTGCTCTTGGCGGTTTGC 60.050 61.111 0.00 0.00 45.43 3.68
3518 5055 1.135689 GTATGTGCTCTTGGCGGTTTG 60.136 52.381 0.00 0.00 45.43 2.93
3519 5056 1.165270 GTATGTGCTCTTGGCGGTTT 58.835 50.000 0.00 0.00 45.43 3.27
3520 5057 0.036164 TGTATGTGCTCTTGGCGGTT 59.964 50.000 0.00 0.00 45.43 4.44
3521 5058 0.036164 TTGTATGTGCTCTTGGCGGT 59.964 50.000 0.00 0.00 45.43 5.68
3522 5059 0.729116 CTTGTATGTGCTCTTGGCGG 59.271 55.000 0.00 0.00 45.43 6.13
3523 5060 0.729116 CCTTGTATGTGCTCTTGGCG 59.271 55.000 0.00 0.00 45.43 5.69
3524 5061 1.740025 GTCCTTGTATGTGCTCTTGGC 59.260 52.381 0.00 0.00 42.22 4.52
3525 5062 3.340814 AGTCCTTGTATGTGCTCTTGG 57.659 47.619 0.00 0.00 0.00 3.61
3526 5063 5.078411 ACTAGTCCTTGTATGTGCTCTTG 57.922 43.478 0.00 0.00 0.00 3.02
3527 5064 5.246203 TGAACTAGTCCTTGTATGTGCTCTT 59.754 40.000 0.00 0.00 0.00 2.85
3528 5065 4.772624 TGAACTAGTCCTTGTATGTGCTCT 59.227 41.667 0.00 0.00 0.00 4.09
3529 5066 5.073311 TGAACTAGTCCTTGTATGTGCTC 57.927 43.478 0.00 0.00 0.00 4.26
3530 5067 5.483685 TTGAACTAGTCCTTGTATGTGCT 57.516 39.130 0.00 0.00 0.00 4.40
3531 5068 6.017440 TGTTTTGAACTAGTCCTTGTATGTGC 60.017 38.462 0.00 0.00 0.00 4.57
3532 5069 7.011950 TGTGTTTTGAACTAGTCCTTGTATGTG 59.988 37.037 0.00 0.00 0.00 3.21
3533 5070 7.012044 GTGTGTTTTGAACTAGTCCTTGTATGT 59.988 37.037 0.00 0.00 0.00 2.29
3534 5071 7.011950 TGTGTGTTTTGAACTAGTCCTTGTATG 59.988 37.037 0.00 0.00 0.00 2.39
3535 5072 7.012044 GTGTGTGTTTTGAACTAGTCCTTGTAT 59.988 37.037 0.00 0.00 0.00 2.29
3536 5073 6.314400 GTGTGTGTTTTGAACTAGTCCTTGTA 59.686 38.462 0.00 0.00 0.00 2.41
3537 5074 5.123344 GTGTGTGTTTTGAACTAGTCCTTGT 59.877 40.000 0.00 0.00 0.00 3.16
3538 5075 5.123186 TGTGTGTGTTTTGAACTAGTCCTTG 59.877 40.000 0.00 0.00 0.00 3.61
3539 5076 5.123344 GTGTGTGTGTTTTGAACTAGTCCTT 59.877 40.000 0.00 0.00 0.00 3.36
3540 5077 4.634443 GTGTGTGTGTTTTGAACTAGTCCT 59.366 41.667 0.00 0.00 0.00 3.85
3541 5078 4.201881 GGTGTGTGTGTTTTGAACTAGTCC 60.202 45.833 0.00 0.00 0.00 3.85
3542 5079 4.201881 GGGTGTGTGTGTTTTGAACTAGTC 60.202 45.833 0.00 0.00 0.00 2.59
3543 5080 3.692593 GGGTGTGTGTGTTTTGAACTAGT 59.307 43.478 0.00 0.00 0.00 2.57
3544 5081 3.692101 TGGGTGTGTGTGTTTTGAACTAG 59.308 43.478 0.00 0.00 0.00 2.57
3545 5082 3.687125 TGGGTGTGTGTGTTTTGAACTA 58.313 40.909 0.00 0.00 0.00 2.24
3546 5083 2.520069 TGGGTGTGTGTGTTTTGAACT 58.480 42.857 0.00 0.00 0.00 3.01
3547 5084 3.249917 CTTGGGTGTGTGTGTTTTGAAC 58.750 45.455 0.00 0.00 0.00 3.18
3548 5085 2.894126 ACTTGGGTGTGTGTGTTTTGAA 59.106 40.909 0.00 0.00 0.00 2.69
3549 5086 2.490115 GACTTGGGTGTGTGTGTTTTGA 59.510 45.455 0.00 0.00 0.00 2.69
3550 5087 2.230025 TGACTTGGGTGTGTGTGTTTTG 59.770 45.455 0.00 0.00 0.00 2.44
3551 5088 2.230266 GTGACTTGGGTGTGTGTGTTTT 59.770 45.455 0.00 0.00 0.00 2.43
3552 5089 1.816224 GTGACTTGGGTGTGTGTGTTT 59.184 47.619 0.00 0.00 0.00 2.83
3553 5090 1.271652 TGTGACTTGGGTGTGTGTGTT 60.272 47.619 0.00 0.00 0.00 3.32
3554 5091 0.326595 TGTGACTTGGGTGTGTGTGT 59.673 50.000 0.00 0.00 0.00 3.72
3555 5092 0.732571 GTGTGACTTGGGTGTGTGTG 59.267 55.000 0.00 0.00 0.00 3.82
3556 5093 3.168773 GTGTGACTTGGGTGTGTGT 57.831 52.632 0.00 0.00 0.00 3.72


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

AutoCloner maintained by Alex Coulton.