Multiple sequence alignment - TraesCS1B01G181200

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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 TraesCS1B01G181200 chr1B 100.000 4786 0 0 1 4786 327846259 327841474 0.000000e+00 8839.0
1 TraesCS1B01G181200 chr1B 87.774 319 31 8 534 846 675231439 675231123 2.720000e-97 366.0
2 TraesCS1B01G181200 chr1D 95.587 3444 93 16 858 4256 228304798 228301369 0.000000e+00 5463.0
3 TraesCS1B01G181200 chr1D 94.489 3375 109 27 1362 4677 208820534 208823890 0.000000e+00 5131.0
4 TraesCS1B01G181200 chr1D 93.348 451 28 1 4334 4782 228301344 228300894 0.000000e+00 665.0
5 TraesCS1B01G181200 chr1D 98.082 365 6 1 999 1363 208820107 208820470 6.760000e-178 634.0
6 TraesCS1B01G181200 chr1D 89.457 313 30 3 534 843 448967972 448967660 4.490000e-105 392.0
7 TraesCS1B01G181200 chr1D 93.413 167 5 5 845 1010 208818309 208818470 4.790000e-60 243.0
8 TraesCS1B01G181200 chr1D 94.872 39 2 0 4152 4190 8798008 8798046 1.440000e-05 62.1
9 TraesCS1B01G181200 chr1A 90.267 2281 111 39 2537 4777 296213719 296211510 0.000000e+00 2880.0
10 TraesCS1B01G181200 chr1A 91.073 1221 57 12 1362 2537 296215013 296213800 0.000000e+00 1604.0
11 TraesCS1B01G181200 chr1A 95.954 519 20 1 845 1363 296215567 296215050 0.000000e+00 841.0
12 TraesCS1B01G181200 chr1A 92.789 527 38 0 1 527 15038393 15037867 0.000000e+00 763.0
13 TraesCS1B01G181200 chr4A 96.395 527 19 0 1 527 694694582 694695108 0.000000e+00 869.0
14 TraesCS1B01G181200 chr4A 96.015 527 20 1 1 527 694708573 694709098 0.000000e+00 856.0
15 TraesCS1B01G181200 chr5B 95.717 537 21 2 1 535 491080161 491080697 0.000000e+00 863.0
16 TraesCS1B01G181200 chr5B 93.738 527 33 0 1 527 568826092 568826618 0.000000e+00 791.0
17 TraesCS1B01G181200 chr5B 98.291 117 2 0 4662 4778 123803462 123803578 6.280000e-49 206.0
18 TraesCS1B01G181200 chr5B 99.123 114 1 0 4666 4779 689378609 689378722 6.280000e-49 206.0
19 TraesCS1B01G181200 chr2B 95.627 526 23 0 1 526 677867200 677866675 0.000000e+00 845.0
20 TraesCS1B01G181200 chr2B 88.365 318 32 5 531 844 578992280 578992596 1.260000e-100 377.0
21 TraesCS1B01G181200 chr3A 93.820 534 31 2 1 533 657465321 657464789 0.000000e+00 802.0
22 TraesCS1B01G181200 chr3A 88.379 327 28 7 531 851 182116345 182116667 7.510000e-103 385.0
23 TraesCS1B01G181200 chr3A 87.898 314 35 3 534 844 343312624 343312311 2.720000e-97 366.0
24 TraesCS1B01G181200 chr3A 97.458 118 3 0 4662 4779 34529032 34529149 8.120000e-48 202.0
25 TraesCS1B01G181200 chr3D 93.220 531 35 1 1 531 160129928 160129399 0.000000e+00 780.0
26 TraesCS1B01G181200 chr3D 97.458 118 3 0 4662 4779 25130106 25130223 8.120000e-48 202.0
27 TraesCS1B01G181200 chr3D 92.500 40 1 2 4156 4194 445342978 445342940 6.690000e-04 56.5
28 TraesCS1B01G181200 chr6A 92.789 527 38 0 1 527 549168975 549168449 0.000000e+00 763.0
29 TraesCS1B01G181200 chr6A 88.924 316 29 6 534 846 268916762 268916450 7.510000e-103 385.0
30 TraesCS1B01G181200 chr6A 94.595 37 0 2 4146 4182 111559356 111559322 6.690000e-04 56.5
31 TraesCS1B01G181200 chr7D 86.787 333 36 8 531 857 37976693 37976363 9.790000e-97 364.0
32 TraesCS1B01G181200 chr5A 87.500 320 34 6 531 846 110294135 110294452 9.790000e-97 364.0
33 TraesCS1B01G181200 chr2A 86.747 332 39 5 531 858 73918447 73918777 9.790000e-97 364.0
34 TraesCS1B01G181200 chr2A 98.305 118 2 0 4662 4779 24168156 24168039 1.750000e-49 207.0
35 TraesCS1B01G181200 chr2A 100.000 28 0 0 4155 4182 549878548 549878575 9.000000e-03 52.8
36 TraesCS1B01G181200 chr3B 96.000 125 5 0 4662 4786 42628268 42628392 2.260000e-48 204.0
37 TraesCS1B01G181200 chr3B 96.694 121 4 0 4662 4782 42570410 42570530 8.120000e-48 202.0
38 TraesCS1B01G181200 chr7A 86.667 60 2 4 4127 4182 54191243 54191300 1.440000e-05 62.1
39 TraesCS1B01G181200 chr7A 85.484 62 6 3 4122 4183 616747174 616747232 1.440000e-05 62.1
40 TraesCS1B01G181200 chr6B 85.000 60 2 4 4122 4181 49827855 49827907 2.000000e-03 54.7


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 TraesCS1B01G181200 chr1B 327841474 327846259 4785 True 8839.000000 8839 100.000000 1 4786 1 chr1B.!!$R1 4785
1 TraesCS1B01G181200 chr1D 228300894 228304798 3904 True 3064.000000 5463 94.467500 858 4782 2 chr1D.!!$R2 3924
2 TraesCS1B01G181200 chr1D 208818309 208823890 5581 False 2002.666667 5131 95.328000 845 4677 3 chr1D.!!$F2 3832
3 TraesCS1B01G181200 chr1A 296211510 296215567 4057 True 1775.000000 2880 92.431333 845 4777 3 chr1A.!!$R2 3932
4 TraesCS1B01G181200 chr1A 15037867 15038393 526 True 763.000000 763 92.789000 1 527 1 chr1A.!!$R1 526
5 TraesCS1B01G181200 chr4A 694694582 694695108 526 False 869.000000 869 96.395000 1 527 1 chr4A.!!$F1 526
6 TraesCS1B01G181200 chr4A 694708573 694709098 525 False 856.000000 856 96.015000 1 527 1 chr4A.!!$F2 526
7 TraesCS1B01G181200 chr5B 491080161 491080697 536 False 863.000000 863 95.717000 1 535 1 chr5B.!!$F2 534
8 TraesCS1B01G181200 chr5B 568826092 568826618 526 False 791.000000 791 93.738000 1 527 1 chr5B.!!$F3 526
9 TraesCS1B01G181200 chr2B 677866675 677867200 525 True 845.000000 845 95.627000 1 526 1 chr2B.!!$R1 525
10 TraesCS1B01G181200 chr3A 657464789 657465321 532 True 802.000000 802 93.820000 1 533 1 chr3A.!!$R2 532
11 TraesCS1B01G181200 chr3D 160129399 160129928 529 True 780.000000 780 93.220000 1 531 1 chr3D.!!$R1 530
12 TraesCS1B01G181200 chr6A 549168449 549168975 526 True 763.000000 763 92.789000 1 527 1 chr6A.!!$R3 526

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
914 920 0.039165 GGCCAAGCTGAAAAACCGAG 60.039 55.000 0.00 0.0 0.00 4.63 F
1480 3200 0.391130 TTCTGCAGTGTCGGTATGCC 60.391 55.000 14.67 0.0 39.22 4.40 F
2015 3736 2.346099 GCATAAGCAAGCGAAACCAA 57.654 45.000 0.00 0.0 41.58 3.67 F
3647 5496 1.683385 GGCATGCAAGGTAGGGATTTC 59.317 52.381 21.36 0.0 0.00 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1881 3601 3.890756 GTGAATATGAACATCCCATGCCA 59.109 43.478 0.00 0.00 0.00 4.92 R
3047 4896 1.128136 CGCTCTTGCATGTGAGAACTG 59.872 52.381 13.73 0.82 39.64 3.16 R
3695 5544 2.144482 GCATTTGCATCACCATAGGC 57.856 50.000 0.00 0.00 41.59 3.93 R
4527 6404 0.603065 GTGTTTGTGGCCCCTTCATC 59.397 55.000 0.00 0.00 0.00 2.92 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
44 45 1.141881 GAATTCGCTGCCCTCTCGA 59.858 57.895 0.00 0.00 0.00 4.04
224 226 1.000385 CCGTGCAACATTGTTCCATGT 60.000 47.619 10.89 0.00 35.74 3.21
237 239 2.702898 TCCATGTCAATTGTTGTGCG 57.297 45.000 5.13 0.00 0.00 5.34
397 399 1.032114 GGGTAGCACATCAGTTGGCC 61.032 60.000 0.00 0.00 0.00 5.36
418 420 5.045872 GCCTTGTATAGTCGTACGGAATTT 58.954 41.667 16.52 0.00 0.00 1.82
433 435 6.216801 ACGGAATTTACTACTGCTGTATGA 57.783 37.500 3.72 0.00 0.00 2.15
577 579 7.846101 AAAAGGAAGGATTTGATTTCTGACT 57.154 32.000 0.00 0.00 0.00 3.41
578 580 8.940397 AAAAGGAAGGATTTGATTTCTGACTA 57.060 30.769 0.00 0.00 0.00 2.59
579 581 8.940397 AAAGGAAGGATTTGATTTCTGACTAA 57.060 30.769 0.00 0.00 0.00 2.24
580 582 8.940397 AAGGAAGGATTTGATTTCTGACTAAA 57.060 30.769 0.00 0.00 0.00 1.85
581 583 8.341892 AGGAAGGATTTGATTTCTGACTAAAC 57.658 34.615 0.00 0.00 0.00 2.01
582 584 7.119846 AGGAAGGATTTGATTTCTGACTAAACG 59.880 37.037 0.00 0.00 0.00 3.60
583 585 6.743575 AGGATTTGATTTCTGACTAAACGG 57.256 37.500 0.00 0.00 0.00 4.44
584 586 6.472887 AGGATTTGATTTCTGACTAAACGGA 58.527 36.000 0.00 0.00 0.00 4.69
585 587 7.112779 AGGATTTGATTTCTGACTAAACGGAT 58.887 34.615 0.00 0.00 0.00 4.18
586 588 7.066284 AGGATTTGATTTCTGACTAAACGGATG 59.934 37.037 0.00 0.00 0.00 3.51
587 589 7.065803 GGATTTGATTTCTGACTAAACGGATGA 59.934 37.037 0.00 0.00 0.00 2.92
588 590 6.968131 TTGATTTCTGACTAAACGGATGAG 57.032 37.500 0.00 0.00 0.00 2.90
589 591 5.419542 TGATTTCTGACTAAACGGATGAGG 58.580 41.667 0.00 0.00 0.00 3.86
590 592 5.186992 TGATTTCTGACTAAACGGATGAGGA 59.813 40.000 0.00 0.00 0.00 3.71
591 593 4.451629 TTCTGACTAAACGGATGAGGAC 57.548 45.455 0.00 0.00 0.00 3.85
592 594 2.422479 TCTGACTAAACGGATGAGGACG 59.578 50.000 0.00 0.00 0.00 4.79
593 595 2.163815 CTGACTAAACGGATGAGGACGT 59.836 50.000 0.00 0.00 46.48 4.34
594 596 2.163010 TGACTAAACGGATGAGGACGTC 59.837 50.000 7.13 7.13 43.31 4.34
595 597 2.163010 GACTAAACGGATGAGGACGTCA 59.837 50.000 18.91 0.00 43.31 4.35
597 599 2.010145 AAACGGATGAGGACGTCATG 57.990 50.000 18.91 4.87 46.64 3.07
598 600 0.175760 AACGGATGAGGACGTCATGG 59.824 55.000 18.91 9.24 46.64 3.66
599 601 0.970937 ACGGATGAGGACGTCATGGT 60.971 55.000 18.91 9.81 46.64 3.55
600 602 1.029681 CGGATGAGGACGTCATGGTA 58.970 55.000 18.91 0.00 46.64 3.25
601 603 1.407618 CGGATGAGGACGTCATGGTAA 59.592 52.381 18.91 0.00 46.64 2.85
602 604 2.035961 CGGATGAGGACGTCATGGTAAT 59.964 50.000 18.91 0.92 46.64 1.89
603 605 3.492656 CGGATGAGGACGTCATGGTAATT 60.493 47.826 18.91 0.00 46.64 1.40
604 606 4.261867 CGGATGAGGACGTCATGGTAATTA 60.262 45.833 18.91 0.00 46.64 1.40
605 607 5.607477 GGATGAGGACGTCATGGTAATTAA 58.393 41.667 18.91 0.00 46.64 1.40
606 608 6.231211 GGATGAGGACGTCATGGTAATTAAT 58.769 40.000 18.91 0.00 46.64 1.40
607 609 7.383687 GGATGAGGACGTCATGGTAATTAATA 58.616 38.462 18.91 0.00 46.64 0.98
608 610 7.876068 GGATGAGGACGTCATGGTAATTAATAA 59.124 37.037 18.91 0.00 46.64 1.40
609 611 9.268268 GATGAGGACGTCATGGTAATTAATAAA 57.732 33.333 18.91 0.00 46.64 1.40
610 612 9.621629 ATGAGGACGTCATGGTAATTAATAAAA 57.378 29.630 18.91 0.00 44.82 1.52
611 613 9.451002 TGAGGACGTCATGGTAATTAATAAAAA 57.549 29.630 18.91 0.00 0.00 1.94
668 670 7.839680 ACTTAAATGAAACCAGTTGGAGATT 57.160 32.000 4.92 0.00 38.94 2.40
669 671 8.934023 ACTTAAATGAAACCAGTTGGAGATTA 57.066 30.769 4.92 0.00 38.94 1.75
670 672 9.533831 ACTTAAATGAAACCAGTTGGAGATTAT 57.466 29.630 4.92 0.00 38.94 1.28
671 673 9.793252 CTTAAATGAAACCAGTTGGAGATTATG 57.207 33.333 4.92 0.00 38.94 1.90
672 674 5.841957 ATGAAACCAGTTGGAGATTATGC 57.158 39.130 4.92 0.00 38.94 3.14
673 675 4.016444 TGAAACCAGTTGGAGATTATGCC 58.984 43.478 4.92 0.00 38.94 4.40
674 676 2.736670 ACCAGTTGGAGATTATGCCC 57.263 50.000 4.92 0.00 38.94 5.36
675 677 1.134098 ACCAGTTGGAGATTATGCCCG 60.134 52.381 4.92 0.00 38.94 6.13
676 678 1.140852 CCAGTTGGAGATTATGCCCGA 59.859 52.381 0.00 0.00 37.39 5.14
677 679 2.213499 CAGTTGGAGATTATGCCCGAC 58.787 52.381 0.00 0.00 35.14 4.79
678 680 1.837439 AGTTGGAGATTATGCCCGACA 59.163 47.619 0.00 0.00 36.93 4.35
679 681 2.238646 AGTTGGAGATTATGCCCGACAA 59.761 45.455 0.00 0.00 36.93 3.18
680 682 3.013921 GTTGGAGATTATGCCCGACAAA 58.986 45.455 0.00 0.00 35.06 2.83
681 683 2.917933 TGGAGATTATGCCCGACAAAG 58.082 47.619 0.00 0.00 0.00 2.77
682 684 2.503765 TGGAGATTATGCCCGACAAAGA 59.496 45.455 0.00 0.00 0.00 2.52
683 685 3.054728 TGGAGATTATGCCCGACAAAGAA 60.055 43.478 0.00 0.00 0.00 2.52
684 686 3.945285 GGAGATTATGCCCGACAAAGAAA 59.055 43.478 0.00 0.00 0.00 2.52
685 687 4.398044 GGAGATTATGCCCGACAAAGAAAA 59.602 41.667 0.00 0.00 0.00 2.29
686 688 5.067805 GGAGATTATGCCCGACAAAGAAAAT 59.932 40.000 0.00 0.00 0.00 1.82
687 689 6.262273 GGAGATTATGCCCGACAAAGAAAATA 59.738 38.462 0.00 0.00 0.00 1.40
688 690 7.040409 GGAGATTATGCCCGACAAAGAAAATAT 60.040 37.037 0.00 0.00 0.00 1.28
689 691 7.651808 AGATTATGCCCGACAAAGAAAATATG 58.348 34.615 0.00 0.00 0.00 1.78
690 692 7.502226 AGATTATGCCCGACAAAGAAAATATGA 59.498 33.333 0.00 0.00 0.00 2.15
691 693 5.913137 ATGCCCGACAAAGAAAATATGAA 57.087 34.783 0.00 0.00 0.00 2.57
692 694 5.054390 TGCCCGACAAAGAAAATATGAAC 57.946 39.130 0.00 0.00 0.00 3.18
693 695 4.520874 TGCCCGACAAAGAAAATATGAACA 59.479 37.500 0.00 0.00 0.00 3.18
694 696 4.857037 GCCCGACAAAGAAAATATGAACAC 59.143 41.667 0.00 0.00 0.00 3.32
695 697 5.086058 CCCGACAAAGAAAATATGAACACG 58.914 41.667 0.00 0.00 0.00 4.49
696 698 5.086058 CCGACAAAGAAAATATGAACACGG 58.914 41.667 0.00 0.00 0.00 4.94
697 699 4.553429 CGACAAAGAAAATATGAACACGGC 59.447 41.667 0.00 0.00 0.00 5.68
698 700 5.616866 CGACAAAGAAAATATGAACACGGCT 60.617 40.000 0.00 0.00 0.00 5.52
699 701 6.401688 CGACAAAGAAAATATGAACACGGCTA 60.402 38.462 0.00 0.00 0.00 3.93
700 702 7.209471 ACAAAGAAAATATGAACACGGCTAA 57.791 32.000 0.00 0.00 0.00 3.09
701 703 7.653647 ACAAAGAAAATATGAACACGGCTAAA 58.346 30.769 0.00 0.00 0.00 1.85
702 704 8.303876 ACAAAGAAAATATGAACACGGCTAAAT 58.696 29.630 0.00 0.00 0.00 1.40
703 705 9.139174 CAAAGAAAATATGAACACGGCTAAATT 57.861 29.630 0.00 0.00 0.00 1.82
704 706 8.687824 AAGAAAATATGAACACGGCTAAATTG 57.312 30.769 0.00 0.00 0.00 2.32
705 707 6.751888 AGAAAATATGAACACGGCTAAATTGC 59.248 34.615 0.00 0.00 0.00 3.56
706 708 5.574891 AATATGAACACGGCTAAATTGCA 57.425 34.783 0.00 0.00 34.04 4.08
707 709 3.932545 ATGAACACGGCTAAATTGCAA 57.067 38.095 0.00 0.00 34.04 4.08
708 710 3.006659 TGAACACGGCTAAATTGCAAC 57.993 42.857 0.00 0.00 34.04 4.17
709 711 1.976045 GAACACGGCTAAATTGCAACG 59.024 47.619 0.00 1.69 34.04 4.10
710 712 0.948678 ACACGGCTAAATTGCAACGT 59.051 45.000 0.00 2.45 32.75 3.99
711 713 2.144730 ACACGGCTAAATTGCAACGTA 58.855 42.857 0.00 0.00 31.72 3.57
712 714 2.745281 ACACGGCTAAATTGCAACGTAT 59.255 40.909 0.00 0.00 31.72 3.06
713 715 3.189702 ACACGGCTAAATTGCAACGTATT 59.810 39.130 0.00 0.00 31.72 1.89
714 716 4.162812 CACGGCTAAATTGCAACGTATTT 58.837 39.130 0.00 0.52 31.72 1.40
715 717 4.619336 CACGGCTAAATTGCAACGTATTTT 59.381 37.500 0.00 0.10 31.72 1.82
716 718 4.854839 ACGGCTAAATTGCAACGTATTTTC 59.145 37.500 0.00 0.00 31.31 2.29
717 719 5.092781 CGGCTAAATTGCAACGTATTTTCT 58.907 37.500 0.00 0.00 34.04 2.52
718 720 6.128227 ACGGCTAAATTGCAACGTATTTTCTA 60.128 34.615 0.00 0.00 31.31 2.10
719 721 6.910433 CGGCTAAATTGCAACGTATTTTCTAT 59.090 34.615 0.00 0.00 34.04 1.98
720 722 7.097047 CGGCTAAATTGCAACGTATTTTCTATG 60.097 37.037 0.00 0.00 34.04 2.23
721 723 7.700656 GGCTAAATTGCAACGTATTTTCTATGT 59.299 33.333 0.00 0.00 34.04 2.29
722 724 9.072294 GCTAAATTGCAACGTATTTTCTATGTT 57.928 29.630 0.00 0.00 0.00 2.71
725 727 9.638239 AAATTGCAACGTATTTTCTATGTTCAT 57.362 25.926 0.00 0.00 0.00 2.57
726 728 9.638239 AATTGCAACGTATTTTCTATGTTCATT 57.362 25.926 0.00 0.00 0.00 2.57
727 729 9.638239 ATTGCAACGTATTTTCTATGTTCATTT 57.362 25.926 0.00 0.00 0.00 2.32
728 730 9.469807 TTGCAACGTATTTTCTATGTTCATTTT 57.530 25.926 0.00 0.00 0.00 1.82
729 731 8.910666 TGCAACGTATTTTCTATGTTCATTTTG 58.089 29.630 0.00 0.00 0.00 2.44
730 732 8.911662 GCAACGTATTTTCTATGTTCATTTTGT 58.088 29.630 0.00 0.00 0.00 2.83
732 734 8.964420 ACGTATTTTCTATGTTCATTTTGTGG 57.036 30.769 0.00 0.00 0.00 4.17
733 735 8.026607 ACGTATTTTCTATGTTCATTTTGTGGG 58.973 33.333 0.00 0.00 0.00 4.61
734 736 8.240682 CGTATTTTCTATGTTCATTTTGTGGGA 58.759 33.333 0.00 0.00 0.00 4.37
735 737 9.921637 GTATTTTCTATGTTCATTTTGTGGGAA 57.078 29.630 0.00 0.00 0.00 3.97
737 739 7.831691 TTTCTATGTTCATTTTGTGGGAAGA 57.168 32.000 0.00 0.00 0.00 2.87
738 740 8.421249 TTTCTATGTTCATTTTGTGGGAAGAT 57.579 30.769 0.00 0.00 0.00 2.40
739 741 7.395190 TCTATGTTCATTTTGTGGGAAGATG 57.605 36.000 0.00 0.00 0.00 2.90
740 742 6.947733 TCTATGTTCATTTTGTGGGAAGATGT 59.052 34.615 0.00 0.00 0.00 3.06
741 743 5.867903 TGTTCATTTTGTGGGAAGATGTT 57.132 34.783 0.00 0.00 0.00 2.71
742 744 5.599732 TGTTCATTTTGTGGGAAGATGTTG 58.400 37.500 0.00 0.00 0.00 3.33
743 745 4.255833 TCATTTTGTGGGAAGATGTTGC 57.744 40.909 0.00 0.00 0.00 4.17
744 746 3.640498 TCATTTTGTGGGAAGATGTTGCA 59.360 39.130 0.00 0.00 0.00 4.08
745 747 4.283978 TCATTTTGTGGGAAGATGTTGCAT 59.716 37.500 0.00 0.00 0.00 3.96
746 748 4.686191 TTTTGTGGGAAGATGTTGCATT 57.314 36.364 0.00 0.00 0.00 3.56
747 749 3.663995 TTGTGGGAAGATGTTGCATTG 57.336 42.857 0.00 0.00 0.00 2.82
748 750 1.273048 TGTGGGAAGATGTTGCATTGC 59.727 47.619 0.46 0.46 0.00 3.56
749 751 1.273048 GTGGGAAGATGTTGCATTGCA 59.727 47.619 7.38 7.38 36.47 4.08
750 752 1.546923 TGGGAAGATGTTGCATTGCAG 59.453 47.619 11.76 0.00 40.61 4.41
751 753 1.636988 GGAAGATGTTGCATTGCAGC 58.363 50.000 17.46 17.46 40.61 5.25
756 758 3.991242 TGTTGCATTGCAGCATGTT 57.009 42.105 22.18 0.00 44.16 2.71
757 759 2.242047 TGTTGCATTGCAGCATGTTT 57.758 40.000 22.18 0.00 44.16 2.83
758 760 2.562635 TGTTGCATTGCAGCATGTTTT 58.437 38.095 22.18 0.00 44.16 2.43
759 761 2.943690 TGTTGCATTGCAGCATGTTTTT 59.056 36.364 22.18 0.00 44.16 1.94
760 762 3.002451 TGTTGCATTGCAGCATGTTTTTC 59.998 39.130 22.18 1.73 44.16 2.29
761 763 2.835027 TGCATTGCAGCATGTTTTTCA 58.165 38.095 7.38 0.00 40.11 2.69
762 764 3.403968 TGCATTGCAGCATGTTTTTCAT 58.596 36.364 7.38 0.00 40.11 2.57
763 765 4.566987 TGCATTGCAGCATGTTTTTCATA 58.433 34.783 7.38 0.00 40.11 2.15
764 766 4.627900 TGCATTGCAGCATGTTTTTCATAG 59.372 37.500 7.38 0.00 40.11 2.23
765 767 4.493545 GCATTGCAGCATGTTTTTCATAGC 60.494 41.667 3.15 0.00 39.31 2.97
766 768 2.866198 TGCAGCATGTTTTTCATAGCG 58.134 42.857 0.00 0.00 39.31 4.26
767 769 2.487372 TGCAGCATGTTTTTCATAGCGA 59.513 40.909 0.00 0.00 39.31 4.93
768 770 3.057666 TGCAGCATGTTTTTCATAGCGAA 60.058 39.130 0.00 0.00 39.31 4.70
769 771 4.107622 GCAGCATGTTTTTCATAGCGAAT 58.892 39.130 0.00 0.00 39.31 3.34
770 772 4.205792 GCAGCATGTTTTTCATAGCGAATC 59.794 41.667 0.00 0.00 39.31 2.52
771 773 4.736793 CAGCATGTTTTTCATAGCGAATCC 59.263 41.667 0.00 0.00 36.47 3.01
772 774 3.725740 GCATGTTTTTCATAGCGAATCCG 59.274 43.478 0.00 0.00 34.67 4.18
773 775 4.495679 GCATGTTTTTCATAGCGAATCCGA 60.496 41.667 0.00 0.00 34.64 4.55
774 776 5.751680 CATGTTTTTCATAGCGAATCCGAT 58.248 37.500 0.00 0.00 38.33 4.18
775 777 6.565811 GCATGTTTTTCATAGCGAATCCGATA 60.566 38.462 0.00 0.00 41.13 2.92
776 778 7.521529 CATGTTTTTCATAGCGAATCCGATAT 58.478 34.615 0.00 0.00 46.80 1.63
777 779 7.490962 TGTTTTTCATAGCGAATCCGATATT 57.509 32.000 0.00 0.00 43.88 1.28
778 780 7.351981 TGTTTTTCATAGCGAATCCGATATTG 58.648 34.615 0.00 0.00 43.88 1.90
779 781 7.011950 TGTTTTTCATAGCGAATCCGATATTGT 59.988 33.333 0.00 0.00 43.88 2.71
780 782 6.466308 TTTCATAGCGAATCCGATATTGTG 57.534 37.500 0.00 0.00 43.88 3.33
781 783 4.494484 TCATAGCGAATCCGATATTGTGG 58.506 43.478 0.00 0.00 43.88 4.17
782 784 4.219725 TCATAGCGAATCCGATATTGTGGA 59.780 41.667 0.00 0.00 43.88 4.02
783 785 2.755650 AGCGAATCCGATATTGTGGAC 58.244 47.619 0.00 0.00 37.02 4.02
784 786 2.102420 AGCGAATCCGATATTGTGGACA 59.898 45.455 0.00 0.00 37.02 4.02
785 787 3.067106 GCGAATCCGATATTGTGGACAT 58.933 45.455 0.00 0.00 37.02 3.06
786 788 3.498397 GCGAATCCGATATTGTGGACATT 59.502 43.478 0.00 0.00 37.02 2.71
787 789 4.688879 GCGAATCCGATATTGTGGACATTA 59.311 41.667 0.00 0.00 37.02 1.90
788 790 5.351465 GCGAATCCGATATTGTGGACATTAT 59.649 40.000 0.00 0.00 37.02 1.28
789 791 6.673076 GCGAATCCGATATTGTGGACATTATG 60.673 42.308 0.00 0.00 37.02 1.90
790 792 6.500684 AATCCGATATTGTGGACATTATGC 57.499 37.500 0.00 0.00 37.02 3.14
791 793 5.227569 TCCGATATTGTGGACATTATGCT 57.772 39.130 0.00 0.00 0.00 3.79
792 794 5.620206 TCCGATATTGTGGACATTATGCTT 58.380 37.500 0.00 0.00 0.00 3.91
793 795 5.469760 TCCGATATTGTGGACATTATGCTTG 59.530 40.000 0.00 0.00 0.00 4.01
794 796 5.335113 CCGATATTGTGGACATTATGCTTGG 60.335 44.000 0.00 0.00 0.00 3.61
795 797 5.469760 CGATATTGTGGACATTATGCTTGGA 59.530 40.000 0.00 0.00 0.00 3.53
796 798 6.149973 CGATATTGTGGACATTATGCTTGGAT 59.850 38.462 0.00 0.00 0.00 3.41
797 799 7.334171 CGATATTGTGGACATTATGCTTGGATA 59.666 37.037 0.00 0.00 0.00 2.59
798 800 8.938801 ATATTGTGGACATTATGCTTGGATAA 57.061 30.769 0.00 0.00 0.00 1.75
799 801 7.658525 ATTGTGGACATTATGCTTGGATAAA 57.341 32.000 0.00 0.00 0.00 1.40
800 802 7.473735 TTGTGGACATTATGCTTGGATAAAA 57.526 32.000 0.00 0.00 0.00 1.52
801 803 7.658525 TGTGGACATTATGCTTGGATAAAAT 57.341 32.000 0.00 0.00 0.00 1.82
802 804 8.759481 TGTGGACATTATGCTTGGATAAAATA 57.241 30.769 0.00 0.00 0.00 1.40
803 805 9.365906 TGTGGACATTATGCTTGGATAAAATAT 57.634 29.630 0.00 0.00 0.00 1.28
804 806 9.846248 GTGGACATTATGCTTGGATAAAATATC 57.154 33.333 0.00 0.00 0.00 1.63
805 807 9.585369 TGGACATTATGCTTGGATAAAATATCA 57.415 29.630 0.00 0.00 0.00 2.15
828 830 2.791383 TTTTCCATTGCAACTCACGG 57.209 45.000 0.00 0.00 0.00 4.94
829 831 0.313672 TTTCCATTGCAACTCACGGC 59.686 50.000 0.00 0.00 0.00 5.68
830 832 0.537143 TTCCATTGCAACTCACGGCT 60.537 50.000 0.00 0.00 0.00 5.52
831 833 0.537143 TCCATTGCAACTCACGGCTT 60.537 50.000 0.00 0.00 0.00 4.35
832 834 1.164411 CCATTGCAACTCACGGCTTA 58.836 50.000 0.00 0.00 0.00 3.09
833 835 1.745087 CCATTGCAACTCACGGCTTAT 59.255 47.619 0.00 0.00 0.00 1.73
834 836 2.478370 CCATTGCAACTCACGGCTTATG 60.478 50.000 0.00 0.00 0.00 1.90
835 837 1.890876 TTGCAACTCACGGCTTATGT 58.109 45.000 0.00 0.00 0.00 2.29
836 838 1.155889 TGCAACTCACGGCTTATGTG 58.844 50.000 0.00 0.00 38.70 3.21
837 839 0.179189 GCAACTCACGGCTTATGTGC 60.179 55.000 0.00 0.00 37.26 4.57
838 840 1.442769 CAACTCACGGCTTATGTGCT 58.557 50.000 0.00 0.00 37.26 4.40
839 841 2.616960 CAACTCACGGCTTATGTGCTA 58.383 47.619 0.00 0.00 37.26 3.49
840 842 2.586258 ACTCACGGCTTATGTGCTAG 57.414 50.000 0.00 0.00 37.26 3.42
841 843 1.825474 ACTCACGGCTTATGTGCTAGT 59.175 47.619 0.00 0.00 37.26 2.57
842 844 3.021695 ACTCACGGCTTATGTGCTAGTA 58.978 45.455 0.00 0.00 37.26 1.82
843 845 3.637229 ACTCACGGCTTATGTGCTAGTAT 59.363 43.478 0.00 0.00 37.26 2.12
847 849 6.755206 TCACGGCTTATGTGCTAGTATAAAT 58.245 36.000 0.00 0.00 37.26 1.40
873 875 2.400399 TCTTTGTTGGCGTCGAGTTAG 58.600 47.619 0.00 0.00 0.00 2.34
914 920 0.039165 GGCCAAGCTGAAAAACCGAG 60.039 55.000 0.00 0.00 0.00 4.63
1480 3200 0.391130 TTCTGCAGTGTCGGTATGCC 60.391 55.000 14.67 0.00 39.22 4.40
1758 3478 8.725405 TGAATGGAAGCAGTAATCGTATTTTA 57.275 30.769 0.00 0.00 0.00 1.52
1863 3583 9.862371 AATGTTGTGTTGTTGTAAATACTGAAA 57.138 25.926 0.00 0.00 0.00 2.69
1988 3709 6.034161 TCAAGCCTGTCTAGTTTTAGTACC 57.966 41.667 0.00 0.00 0.00 3.34
2015 3736 2.346099 GCATAAGCAAGCGAAACCAA 57.654 45.000 0.00 0.00 41.58 3.67
2048 3769 6.811954 TGCAATGCATTTCACAATCATCTAT 58.188 32.000 9.83 0.00 31.71 1.98
2074 3808 6.321945 TCGTATGTCCCTAAACTAGCATGTAA 59.678 38.462 0.00 0.00 0.00 2.41
2090 3841 7.768807 AGCATGTAAATTTTACCAGTTACCA 57.231 32.000 14.99 0.00 0.00 3.25
2264 4015 6.772716 TCTGTAAGCATTCTCCTGAACTTTTT 59.227 34.615 0.00 0.00 34.71 1.94
2294 4046 5.650283 TGGTTTTATCCCATTCTCACCTTT 58.350 37.500 0.00 0.00 0.00 3.11
2297 4049 6.389906 GTTTTATCCCATTCTCACCTTTGTG 58.610 40.000 0.00 0.00 44.18 3.33
2329 4082 6.362016 CGAGTGACTTACTGATTCATGATAGC 59.638 42.308 0.00 0.00 40.53 2.97
2600 4447 6.230472 AGCAGTGATGTACATTGTTCTGTAA 58.770 36.000 10.30 0.00 38.28 2.41
2663 4510 4.630069 CGTTGACATTGTACTTAAGAGGGG 59.370 45.833 10.09 0.00 0.00 4.79
2926 4775 3.640029 ACTAACACGGAGAAGGAAGAACA 59.360 43.478 0.00 0.00 0.00 3.18
3393 5242 9.584008 ACATGAATATGAATCAGCCTTTAATCT 57.416 29.630 0.00 0.00 37.73 2.40
3647 5496 1.683385 GGCATGCAAGGTAGGGATTTC 59.317 52.381 21.36 0.00 0.00 2.17
3695 5544 1.515521 GGGGCGTCCAAGAACAGTTG 61.516 60.000 9.07 0.00 35.00 3.16
3781 5630 3.249559 GGACAGCAGTCTTTCAACAGAAG 59.750 47.826 9.29 0.00 44.36 2.85
4141 5995 5.197451 ACACCCACAAATAAGTGTCTCAAA 58.803 37.500 0.00 0.00 39.14 2.69
4229 6083 8.856490 ACAAGTGAATGAAAACTGAATACAAC 57.144 30.769 0.00 0.00 0.00 3.32
4270 6124 9.974980 AAAATGTCATTTATGAACGTAAAGGTT 57.025 25.926 11.18 0.00 38.75 3.50
4271 6125 9.974980 AAATGTCATTTATGAACGTAAAGGTTT 57.025 25.926 9.11 3.36 38.75 3.27
4272 6126 8.964420 ATGTCATTTATGAACGTAAAGGTTTG 57.036 30.769 9.76 2.88 38.75 2.93
4274 6128 6.307077 GTCATTTATGAACGTAAAGGTTTGGC 59.693 38.462 9.76 1.05 38.75 4.52
4311 6185 6.648879 AGTAGAGAAGAGAGTATTGCATCC 57.351 41.667 0.00 0.00 0.00 3.51
4427 6301 9.310449 GGTTTCTGTAATGAGTATATCCCTCTA 57.690 37.037 4.49 0.00 0.00 2.43
4430 6304 8.582657 TCTGTAATGAGTATATCCCTCTAAGC 57.417 38.462 4.49 0.00 0.00 3.09
4452 6329 6.393990 AGCTTCTATCTGCGTAAAGATATGG 58.606 40.000 5.46 0.00 38.25 2.74
4455 6332 2.148916 TCTGCGTAAAGATATGGCCG 57.851 50.000 0.00 0.00 0.00 6.13
4495 6372 2.223745 TGAACGTAAAGGAGCCAAACC 58.776 47.619 0.00 0.00 0.00 3.27
4506 6383 0.837260 AGCCAAACCGTACAGGGGTA 60.837 55.000 8.31 0.00 46.96 3.69
4510 6387 3.220940 CCAAACCGTACAGGGGTAAAAA 58.779 45.455 8.31 0.00 46.96 1.94
4521 6398 8.517056 CGTACAGGGGTAAAAATGTAAAATCTT 58.483 33.333 0.00 0.00 30.45 2.40
4558 6436 2.875933 CCACAAACACAACGGTACAGAT 59.124 45.455 0.00 0.00 0.00 2.90
4582 6460 3.370978 TGAAAGCGCTAAATCTCGAAAGG 59.629 43.478 12.05 0.00 0.00 3.11
4622 6512 3.192844 GGGTCATAAGTGTGAAGTCTCGA 59.807 47.826 0.00 0.00 0.00 4.04
4629 6519 5.873179 AAGTGTGAAGTCTCGAAAAACAA 57.127 34.783 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 0.608856 TGCATGAAAGCACCGTCCAT 60.609 50.000 0.00 0.00 40.11 3.41
224 226 1.601903 GTCTGACCGCACAACAATTGA 59.398 47.619 13.59 0.00 0.00 2.57
237 239 1.520342 GCCGATGCAGAGTCTGACC 60.520 63.158 24.55 7.56 37.47 4.02
397 399 9.374960 GTAGTAAATTCCGTACGACTATACAAG 57.625 37.037 18.76 0.00 0.00 3.16
418 420 6.896883 TCTTCCTAGTCATACAGCAGTAGTA 58.103 40.000 0.00 0.00 32.86 1.82
433 435 2.192263 CAAGGAGGGCTTCTTCCTAGT 58.808 52.381 0.00 0.00 34.21 2.57
552 554 8.255111 AGTCAGAAATCAAATCCTTCCTTTTT 57.745 30.769 0.00 0.00 0.00 1.94
553 555 7.846101 AGTCAGAAATCAAATCCTTCCTTTT 57.154 32.000 0.00 0.00 0.00 2.27
554 556 8.940397 TTAGTCAGAAATCAAATCCTTCCTTT 57.060 30.769 0.00 0.00 0.00 3.11
555 557 8.797438 GTTTAGTCAGAAATCAAATCCTTCCTT 58.203 33.333 0.00 0.00 0.00 3.36
556 558 7.119846 CGTTTAGTCAGAAATCAAATCCTTCCT 59.880 37.037 0.00 0.00 0.00 3.36
557 559 7.244192 CGTTTAGTCAGAAATCAAATCCTTCC 58.756 38.462 0.00 0.00 0.00 3.46
558 560 7.119262 TCCGTTTAGTCAGAAATCAAATCCTTC 59.881 37.037 0.00 0.00 0.00 3.46
559 561 6.940298 TCCGTTTAGTCAGAAATCAAATCCTT 59.060 34.615 0.00 0.00 0.00 3.36
560 562 6.472887 TCCGTTTAGTCAGAAATCAAATCCT 58.527 36.000 0.00 0.00 0.00 3.24
561 563 6.737254 TCCGTTTAGTCAGAAATCAAATCC 57.263 37.500 0.00 0.00 0.00 3.01
562 564 7.974675 TCATCCGTTTAGTCAGAAATCAAATC 58.025 34.615 0.00 0.00 0.00 2.17
563 565 7.066284 CCTCATCCGTTTAGTCAGAAATCAAAT 59.934 37.037 0.00 0.00 0.00 2.32
564 566 6.371548 CCTCATCCGTTTAGTCAGAAATCAAA 59.628 38.462 0.00 0.00 0.00 2.69
565 567 5.874810 CCTCATCCGTTTAGTCAGAAATCAA 59.125 40.000 0.00 0.00 0.00 2.57
566 568 5.186992 TCCTCATCCGTTTAGTCAGAAATCA 59.813 40.000 0.00 0.00 0.00 2.57
567 569 5.520649 GTCCTCATCCGTTTAGTCAGAAATC 59.479 44.000 0.00 0.00 0.00 2.17
568 570 5.420409 GTCCTCATCCGTTTAGTCAGAAAT 58.580 41.667 0.00 0.00 0.00 2.17
569 571 4.617530 CGTCCTCATCCGTTTAGTCAGAAA 60.618 45.833 0.00 0.00 0.00 2.52
570 572 3.119602 CGTCCTCATCCGTTTAGTCAGAA 60.120 47.826 0.00 0.00 0.00 3.02
571 573 2.422479 CGTCCTCATCCGTTTAGTCAGA 59.578 50.000 0.00 0.00 0.00 3.27
572 574 2.163815 ACGTCCTCATCCGTTTAGTCAG 59.836 50.000 0.00 0.00 32.50 3.51
573 575 2.163010 GACGTCCTCATCCGTTTAGTCA 59.837 50.000 3.51 0.00 37.44 3.41
574 576 2.163010 TGACGTCCTCATCCGTTTAGTC 59.837 50.000 14.12 0.00 37.44 2.59
575 577 2.165167 TGACGTCCTCATCCGTTTAGT 58.835 47.619 14.12 0.00 37.44 2.24
576 578 2.933495 TGACGTCCTCATCCGTTTAG 57.067 50.000 14.12 0.00 37.44 1.85
577 579 2.159156 CCATGACGTCCTCATCCGTTTA 60.159 50.000 14.12 0.00 37.53 2.01
578 580 1.405526 CCATGACGTCCTCATCCGTTT 60.406 52.381 14.12 0.00 37.53 3.60
579 581 0.175760 CCATGACGTCCTCATCCGTT 59.824 55.000 14.12 0.00 37.53 4.44
580 582 0.970937 ACCATGACGTCCTCATCCGT 60.971 55.000 14.12 0.00 37.53 4.69
581 583 1.029681 TACCATGACGTCCTCATCCG 58.970 55.000 14.12 0.00 37.53 4.18
582 584 3.753294 ATTACCATGACGTCCTCATCC 57.247 47.619 14.12 0.00 37.53 3.51
583 585 8.827177 TTATTAATTACCATGACGTCCTCATC 57.173 34.615 14.12 0.00 37.53 2.92
584 586 9.621629 TTTTATTAATTACCATGACGTCCTCAT 57.378 29.630 14.12 0.00 40.59 2.90
585 587 9.451002 TTTTTATTAATTACCATGACGTCCTCA 57.549 29.630 14.12 0.00 0.00 3.86
642 644 9.533831 AATCTCCAACTGGTTTCATTTAAGTAT 57.466 29.630 0.00 0.00 36.34 2.12
643 645 8.934023 AATCTCCAACTGGTTTCATTTAAGTA 57.066 30.769 0.00 0.00 36.34 2.24
644 646 7.839680 AATCTCCAACTGGTTTCATTTAAGT 57.160 32.000 0.00 0.00 36.34 2.24
645 647 9.793252 CATAATCTCCAACTGGTTTCATTTAAG 57.207 33.333 0.00 0.00 36.34 1.85
646 648 8.250332 GCATAATCTCCAACTGGTTTCATTTAA 58.750 33.333 0.00 0.00 36.34 1.52
647 649 7.147915 GGCATAATCTCCAACTGGTTTCATTTA 60.148 37.037 0.00 0.00 36.34 1.40
648 650 6.351286 GGCATAATCTCCAACTGGTTTCATTT 60.351 38.462 0.00 0.00 36.34 2.32
649 651 5.127682 GGCATAATCTCCAACTGGTTTCATT 59.872 40.000 0.00 0.00 36.34 2.57
650 652 4.646492 GGCATAATCTCCAACTGGTTTCAT 59.354 41.667 0.00 0.00 36.34 2.57
651 653 4.016444 GGCATAATCTCCAACTGGTTTCA 58.984 43.478 0.00 0.00 36.34 2.69
652 654 3.381590 GGGCATAATCTCCAACTGGTTTC 59.618 47.826 0.00 0.00 36.34 2.78
653 655 3.365472 GGGCATAATCTCCAACTGGTTT 58.635 45.455 0.00 0.00 36.34 3.27
654 656 2.683742 CGGGCATAATCTCCAACTGGTT 60.684 50.000 0.00 0.00 36.34 3.67
655 657 1.134098 CGGGCATAATCTCCAACTGGT 60.134 52.381 0.00 0.00 36.34 4.00
656 658 1.140852 TCGGGCATAATCTCCAACTGG 59.859 52.381 0.00 0.00 0.00 4.00
657 659 2.213499 GTCGGGCATAATCTCCAACTG 58.787 52.381 0.00 0.00 0.00 3.16
658 660 1.837439 TGTCGGGCATAATCTCCAACT 59.163 47.619 0.00 0.00 0.00 3.16
659 661 2.325583 TGTCGGGCATAATCTCCAAC 57.674 50.000 0.00 0.00 0.00 3.77
660 662 3.054728 TCTTTGTCGGGCATAATCTCCAA 60.055 43.478 0.00 0.00 0.00 3.53
661 663 2.503765 TCTTTGTCGGGCATAATCTCCA 59.496 45.455 0.00 0.00 0.00 3.86
662 664 3.194005 TCTTTGTCGGGCATAATCTCC 57.806 47.619 0.00 0.00 0.00 3.71
663 665 5.560966 TTTTCTTTGTCGGGCATAATCTC 57.439 39.130 0.00 0.00 0.00 2.75
664 666 7.502226 TCATATTTTCTTTGTCGGGCATAATCT 59.498 33.333 0.00 0.00 0.00 2.40
665 667 7.648142 TCATATTTTCTTTGTCGGGCATAATC 58.352 34.615 0.00 0.00 0.00 1.75
666 668 7.581213 TCATATTTTCTTTGTCGGGCATAAT 57.419 32.000 0.00 0.00 0.00 1.28
667 669 7.094162 TGTTCATATTTTCTTTGTCGGGCATAA 60.094 33.333 0.00 0.00 0.00 1.90
668 670 6.375736 TGTTCATATTTTCTTTGTCGGGCATA 59.624 34.615 0.00 0.00 0.00 3.14
669 671 5.184864 TGTTCATATTTTCTTTGTCGGGCAT 59.815 36.000 0.00 0.00 0.00 4.40
670 672 4.520874 TGTTCATATTTTCTTTGTCGGGCA 59.479 37.500 0.00 0.00 0.00 5.36
671 673 4.857037 GTGTTCATATTTTCTTTGTCGGGC 59.143 41.667 0.00 0.00 0.00 6.13
672 674 5.086058 CGTGTTCATATTTTCTTTGTCGGG 58.914 41.667 0.00 0.00 0.00 5.14
673 675 5.086058 CCGTGTTCATATTTTCTTTGTCGG 58.914 41.667 0.00 0.00 0.00 4.79
674 676 4.553429 GCCGTGTTCATATTTTCTTTGTCG 59.447 41.667 0.00 0.00 0.00 4.35
675 677 5.699839 AGCCGTGTTCATATTTTCTTTGTC 58.300 37.500 0.00 0.00 0.00 3.18
676 678 5.705609 AGCCGTGTTCATATTTTCTTTGT 57.294 34.783 0.00 0.00 0.00 2.83
677 679 8.687824 ATTTAGCCGTGTTCATATTTTCTTTG 57.312 30.769 0.00 0.00 0.00 2.77
678 680 9.139174 CAATTTAGCCGTGTTCATATTTTCTTT 57.861 29.630 0.00 0.00 0.00 2.52
679 681 7.275560 GCAATTTAGCCGTGTTCATATTTTCTT 59.724 33.333 0.00 0.00 0.00 2.52
680 682 6.751888 GCAATTTAGCCGTGTTCATATTTTCT 59.248 34.615 0.00 0.00 0.00 2.52
681 683 6.529829 TGCAATTTAGCCGTGTTCATATTTTC 59.470 34.615 0.00 0.00 0.00 2.29
682 684 6.393990 TGCAATTTAGCCGTGTTCATATTTT 58.606 32.000 0.00 0.00 0.00 1.82
683 685 5.960113 TGCAATTTAGCCGTGTTCATATTT 58.040 33.333 0.00 0.00 0.00 1.40
684 686 5.574891 TGCAATTTAGCCGTGTTCATATT 57.425 34.783 0.00 0.00 0.00 1.28
685 687 5.339990 GTTGCAATTTAGCCGTGTTCATAT 58.660 37.500 0.59 0.00 0.00 1.78
686 688 4.670478 CGTTGCAATTTAGCCGTGTTCATA 60.670 41.667 0.59 0.00 0.00 2.15
687 689 3.574614 GTTGCAATTTAGCCGTGTTCAT 58.425 40.909 0.59 0.00 0.00 2.57
688 690 2.603412 CGTTGCAATTTAGCCGTGTTCA 60.603 45.455 0.59 0.00 0.00 3.18
689 691 1.976045 CGTTGCAATTTAGCCGTGTTC 59.024 47.619 0.59 0.00 0.00 3.18
690 692 1.335496 ACGTTGCAATTTAGCCGTGTT 59.665 42.857 0.59 0.00 32.58 3.32
691 693 0.948678 ACGTTGCAATTTAGCCGTGT 59.051 45.000 0.59 0.00 32.58 4.49
692 694 2.884663 TACGTTGCAATTTAGCCGTG 57.115 45.000 17.59 0.00 34.91 4.94
693 695 4.428615 AAATACGTTGCAATTTAGCCGT 57.571 36.364 13.87 13.87 36.59 5.68
694 696 5.092781 AGAAAATACGTTGCAATTTAGCCG 58.907 37.500 0.59 2.45 0.00 5.52
695 697 7.700656 ACATAGAAAATACGTTGCAATTTAGCC 59.299 33.333 0.59 0.00 0.00 3.93
696 698 8.614994 ACATAGAAAATACGTTGCAATTTAGC 57.385 30.769 0.59 0.00 0.00 3.09
699 701 9.638239 ATGAACATAGAAAATACGTTGCAATTT 57.362 25.926 0.59 0.00 0.00 1.82
700 702 9.638239 AATGAACATAGAAAATACGTTGCAATT 57.362 25.926 0.59 0.00 0.00 2.32
701 703 9.638239 AAATGAACATAGAAAATACGTTGCAAT 57.362 25.926 0.59 0.00 0.00 3.56
702 704 9.469807 AAAATGAACATAGAAAATACGTTGCAA 57.530 25.926 0.00 0.00 0.00 4.08
703 705 8.910666 CAAAATGAACATAGAAAATACGTTGCA 58.089 29.630 0.00 0.00 0.00 4.08
704 706 8.911662 ACAAAATGAACATAGAAAATACGTTGC 58.088 29.630 0.00 0.00 0.00 4.17
706 708 9.405587 CCACAAAATGAACATAGAAAATACGTT 57.594 29.630 0.00 0.00 0.00 3.99
707 709 8.026607 CCCACAAAATGAACATAGAAAATACGT 58.973 33.333 0.00 0.00 0.00 3.57
708 710 8.240682 TCCCACAAAATGAACATAGAAAATACG 58.759 33.333 0.00 0.00 0.00 3.06
709 711 9.921637 TTCCCACAAAATGAACATAGAAAATAC 57.078 29.630 0.00 0.00 0.00 1.89
711 713 8.869109 TCTTCCCACAAAATGAACATAGAAAAT 58.131 29.630 0.00 0.00 0.00 1.82
712 714 8.243961 TCTTCCCACAAAATGAACATAGAAAA 57.756 30.769 0.00 0.00 0.00 2.29
713 715 7.831691 TCTTCCCACAAAATGAACATAGAAA 57.168 32.000 0.00 0.00 0.00 2.52
714 716 7.451255 ACATCTTCCCACAAAATGAACATAGAA 59.549 33.333 0.00 0.00 0.00 2.10
715 717 6.947733 ACATCTTCCCACAAAATGAACATAGA 59.052 34.615 0.00 0.00 0.00 1.98
716 718 7.161773 ACATCTTCCCACAAAATGAACATAG 57.838 36.000 0.00 0.00 0.00 2.23
717 719 7.377398 CAACATCTTCCCACAAAATGAACATA 58.623 34.615 0.00 0.00 0.00 2.29
718 720 6.225318 CAACATCTTCCCACAAAATGAACAT 58.775 36.000 0.00 0.00 0.00 2.71
719 721 5.599732 CAACATCTTCCCACAAAATGAACA 58.400 37.500 0.00 0.00 0.00 3.18
720 722 4.448732 GCAACATCTTCCCACAAAATGAAC 59.551 41.667 0.00 0.00 0.00 3.18
721 723 4.100653 TGCAACATCTTCCCACAAAATGAA 59.899 37.500 0.00 0.00 0.00 2.57
722 724 3.640498 TGCAACATCTTCCCACAAAATGA 59.360 39.130 0.00 0.00 0.00 2.57
723 725 3.992643 TGCAACATCTTCCCACAAAATG 58.007 40.909 0.00 0.00 0.00 2.32
724 726 4.895668 ATGCAACATCTTCCCACAAAAT 57.104 36.364 0.00 0.00 0.00 1.82
725 727 4.378774 CAATGCAACATCTTCCCACAAAA 58.621 39.130 0.00 0.00 0.00 2.44
726 728 3.803021 GCAATGCAACATCTTCCCACAAA 60.803 43.478 0.00 0.00 0.00 2.83
727 729 2.288948 GCAATGCAACATCTTCCCACAA 60.289 45.455 0.00 0.00 0.00 3.33
728 730 1.273048 GCAATGCAACATCTTCCCACA 59.727 47.619 0.00 0.00 0.00 4.17
729 731 1.273048 TGCAATGCAACATCTTCCCAC 59.727 47.619 5.01 0.00 34.76 4.61
730 732 1.546923 CTGCAATGCAACATCTTCCCA 59.453 47.619 9.92 0.00 38.41 4.37
731 733 1.738030 GCTGCAATGCAACATCTTCCC 60.738 52.381 9.92 0.00 38.41 3.97
732 734 1.067425 TGCTGCAATGCAACATCTTCC 60.067 47.619 9.92 0.00 40.29 3.46
733 735 2.357327 TGCTGCAATGCAACATCTTC 57.643 45.000 9.92 0.00 40.29 2.87
734 736 2.028476 ACATGCTGCAATGCAACATCTT 60.028 40.909 19.80 8.48 42.39 2.40
735 737 1.548719 ACATGCTGCAATGCAACATCT 59.451 42.857 19.80 7.32 42.39 2.90
736 738 2.004583 ACATGCTGCAATGCAACATC 57.995 45.000 19.80 5.48 42.39 3.06
737 739 2.465860 AACATGCTGCAATGCAACAT 57.534 40.000 17.32 17.32 44.64 2.71
738 740 2.242047 AAACATGCTGCAATGCAACA 57.758 40.000 13.95 13.95 46.61 3.33
739 741 3.002451 TGAAAAACATGCTGCAATGCAAC 59.998 39.130 9.92 5.35 46.61 4.17
740 742 3.203716 TGAAAAACATGCTGCAATGCAA 58.796 36.364 9.92 0.00 46.61 4.08
742 744 4.493545 GCTATGAAAAACATGCTGCAATGC 60.494 41.667 6.36 0.00 39.77 3.56
743 745 4.259650 CGCTATGAAAAACATGCTGCAATG 60.260 41.667 6.36 8.39 39.77 2.82
744 746 3.861113 CGCTATGAAAAACATGCTGCAAT 59.139 39.130 6.36 0.00 39.77 3.56
745 747 3.057666 TCGCTATGAAAAACATGCTGCAA 60.058 39.130 6.36 0.00 39.77 4.08
746 748 2.487372 TCGCTATGAAAAACATGCTGCA 59.513 40.909 4.13 4.13 39.77 4.41
747 749 3.135414 TCGCTATGAAAAACATGCTGC 57.865 42.857 0.00 0.00 39.77 5.25
748 750 4.736793 GGATTCGCTATGAAAAACATGCTG 59.263 41.667 0.00 0.00 40.71 4.41
749 751 4.496341 CGGATTCGCTATGAAAAACATGCT 60.496 41.667 0.00 0.00 40.71 3.79
750 752 3.725740 CGGATTCGCTATGAAAAACATGC 59.274 43.478 0.00 0.00 40.71 4.06
751 753 5.155509 TCGGATTCGCTATGAAAAACATG 57.844 39.130 0.00 0.00 40.71 3.21
752 754 7.672983 ATATCGGATTCGCTATGAAAAACAT 57.327 32.000 0.00 0.00 40.71 2.71
753 755 7.011950 ACAATATCGGATTCGCTATGAAAAACA 59.988 33.333 0.00 0.00 40.71 2.83
754 756 7.321271 CACAATATCGGATTCGCTATGAAAAAC 59.679 37.037 0.00 0.00 40.71 2.43
755 757 7.351981 CACAATATCGGATTCGCTATGAAAAA 58.648 34.615 0.00 0.00 40.71 1.94
756 758 6.073276 CCACAATATCGGATTCGCTATGAAAA 60.073 38.462 0.00 0.00 40.71 2.29
757 759 5.408299 CCACAATATCGGATTCGCTATGAAA 59.592 40.000 0.00 0.00 40.71 2.69
758 760 4.929211 CCACAATATCGGATTCGCTATGAA 59.071 41.667 0.00 0.00 41.81 2.57
759 761 4.219725 TCCACAATATCGGATTCGCTATGA 59.780 41.667 0.00 0.00 36.13 2.15
760 762 4.327357 GTCCACAATATCGGATTCGCTATG 59.673 45.833 0.00 0.00 36.13 2.23
761 763 4.021456 TGTCCACAATATCGGATTCGCTAT 60.021 41.667 0.00 0.00 36.13 2.97
762 764 3.319689 TGTCCACAATATCGGATTCGCTA 59.680 43.478 0.00 0.00 36.13 4.26
763 765 2.102420 TGTCCACAATATCGGATTCGCT 59.898 45.455 0.00 0.00 36.13 4.93
764 766 2.479837 TGTCCACAATATCGGATTCGC 58.520 47.619 0.00 0.00 36.13 4.70
765 767 6.673076 GCATAATGTCCACAATATCGGATTCG 60.673 42.308 0.00 0.00 32.83 3.34
766 768 6.372659 AGCATAATGTCCACAATATCGGATTC 59.627 38.462 0.00 0.00 32.83 2.52
767 769 6.240894 AGCATAATGTCCACAATATCGGATT 58.759 36.000 0.00 0.00 32.83 3.01
768 770 5.809001 AGCATAATGTCCACAATATCGGAT 58.191 37.500 0.00 0.00 32.83 4.18
769 771 5.227569 AGCATAATGTCCACAATATCGGA 57.772 39.130 0.00 0.00 0.00 4.55
770 772 5.335113 CCAAGCATAATGTCCACAATATCGG 60.335 44.000 0.00 0.00 0.00 4.18
771 773 5.469760 TCCAAGCATAATGTCCACAATATCG 59.530 40.000 0.00 0.00 0.00 2.92
772 774 6.882610 TCCAAGCATAATGTCCACAATATC 57.117 37.500 0.00 0.00 0.00 1.63
773 775 8.938801 TTATCCAAGCATAATGTCCACAATAT 57.061 30.769 0.00 0.00 0.00 1.28
774 776 8.759481 TTTATCCAAGCATAATGTCCACAATA 57.241 30.769 0.00 0.00 0.00 1.90
775 777 7.658525 TTTATCCAAGCATAATGTCCACAAT 57.341 32.000 0.00 0.00 0.00 2.71
776 778 7.473735 TTTTATCCAAGCATAATGTCCACAA 57.526 32.000 0.00 0.00 0.00 3.33
777 779 7.658525 ATTTTATCCAAGCATAATGTCCACA 57.341 32.000 0.00 0.00 0.00 4.17
778 780 9.846248 GATATTTTATCCAAGCATAATGTCCAC 57.154 33.333 0.00 0.00 0.00 4.02
779 781 9.585369 TGATATTTTATCCAAGCATAATGTCCA 57.415 29.630 0.00 0.00 0.00 4.02
808 810 2.801342 GCCGTGAGTTGCAATGGAAAAA 60.801 45.455 0.59 0.00 0.00 1.94
809 811 1.269517 GCCGTGAGTTGCAATGGAAAA 60.270 47.619 0.59 0.00 0.00 2.29
810 812 0.313672 GCCGTGAGTTGCAATGGAAA 59.686 50.000 0.59 0.00 0.00 3.13
811 813 0.537143 AGCCGTGAGTTGCAATGGAA 60.537 50.000 0.59 0.00 0.00 3.53
812 814 0.537143 AAGCCGTGAGTTGCAATGGA 60.537 50.000 0.59 0.00 0.00 3.41
813 815 1.164411 TAAGCCGTGAGTTGCAATGG 58.836 50.000 0.59 0.00 0.00 3.16
814 816 2.162208 ACATAAGCCGTGAGTTGCAATG 59.838 45.455 0.59 0.00 32.55 2.82
815 817 2.162208 CACATAAGCCGTGAGTTGCAAT 59.838 45.455 0.59 0.00 36.43 3.56
816 818 1.535028 CACATAAGCCGTGAGTTGCAA 59.465 47.619 0.00 0.00 36.43 4.08
817 819 1.155889 CACATAAGCCGTGAGTTGCA 58.844 50.000 0.00 0.00 36.43 4.08
818 820 0.179189 GCACATAAGCCGTGAGTTGC 60.179 55.000 0.00 0.00 36.43 4.17
819 821 1.442769 AGCACATAAGCCGTGAGTTG 58.557 50.000 0.00 0.00 36.43 3.16
820 822 2.233922 ACTAGCACATAAGCCGTGAGTT 59.766 45.455 0.00 0.00 36.43 3.01
821 823 1.825474 ACTAGCACATAAGCCGTGAGT 59.175 47.619 0.00 0.00 36.43 3.41
822 824 2.586258 ACTAGCACATAAGCCGTGAG 57.414 50.000 0.00 0.00 36.43 3.51
823 825 5.777850 TTATACTAGCACATAAGCCGTGA 57.222 39.130 0.00 0.00 36.43 4.35
824 826 8.528917 TTATTTATACTAGCACATAAGCCGTG 57.471 34.615 0.00 0.00 37.43 4.94
825 827 9.550406 TTTTATTTATACTAGCACATAAGCCGT 57.450 29.630 0.00 0.00 34.23 5.68
826 828 9.807386 GTTTTATTTATACTAGCACATAAGCCG 57.193 33.333 0.00 0.00 34.23 5.52
839 841 8.789762 ACGCCAACAAAGAGTTTTATTTATACT 58.210 29.630 0.00 0.00 38.74 2.12
840 842 8.959734 ACGCCAACAAAGAGTTTTATTTATAC 57.040 30.769 0.00 0.00 38.74 1.47
841 843 7.958567 CGACGCCAACAAAGAGTTTTATTTATA 59.041 33.333 0.00 0.00 38.74 0.98
842 844 6.799925 CGACGCCAACAAAGAGTTTTATTTAT 59.200 34.615 0.00 0.00 38.74 1.40
843 845 6.018098 TCGACGCCAACAAAGAGTTTTATTTA 60.018 34.615 0.00 0.00 38.74 1.40
847 849 3.196463 TCGACGCCAACAAAGAGTTTTA 58.804 40.909 0.00 0.00 38.74 1.52
873 875 2.279136 CGCTTGAACATACTGTACGAGC 59.721 50.000 0.00 0.00 0.00 5.03
877 879 1.664151 GCCCGCTTGAACATACTGTAC 59.336 52.381 0.00 0.00 0.00 2.90
880 882 0.676466 TGGCCCGCTTGAACATACTG 60.676 55.000 0.00 0.00 0.00 2.74
929 935 2.430465 TGCTTTTCTGGTGCAGATCTC 58.570 47.619 0.00 0.00 40.39 2.75
1480 3200 5.330233 ACCCCTAAAATCCTTAAACAGTGG 58.670 41.667 0.00 0.00 0.00 4.00
1553 3273 7.029563 CACTGCAAATTCCTACAGGTATTTTC 58.970 38.462 9.44 6.59 41.34 2.29
1758 3478 8.453238 AATATCGACCGATAGTATAGCAGAAT 57.547 34.615 15.88 0.00 40.01 2.40
1788 3508 5.288472 GCAAATTACGTGCAATCCCTAAAAG 59.712 40.000 0.00 0.00 41.80 2.27
1863 3583 7.667219 CCCATGCCATCAATAGAGTAATTTAGT 59.333 37.037 0.00 0.00 0.00 2.24
1881 3601 3.890756 GTGAATATGAACATCCCATGCCA 59.109 43.478 0.00 0.00 0.00 4.92
2030 3751 8.285394 ACATACGAATAGATGATTGTGAAATGC 58.715 33.333 0.00 0.00 0.00 3.56
2048 3769 5.128171 ACATGCTAGTTTAGGGACATACGAA 59.872 40.000 0.00 0.00 0.00 3.85
2074 3808 4.993028 TCAGGCTGGTAACTGGTAAAATT 58.007 39.130 15.73 0.00 35.47 1.82
2090 3841 7.380423 AAATAGACCACATATAGTTCAGGCT 57.620 36.000 0.00 0.00 0.00 4.58
2264 4015 7.175990 GTGAGAATGGGATAAAACCAAGTTACA 59.824 37.037 0.00 0.00 42.17 2.41
2294 4046 6.117488 TCAGTAAGTCACTCGATATACCACA 58.883 40.000 0.00 0.00 34.26 4.17
2297 4049 7.872881 TGAATCAGTAAGTCACTCGATATACC 58.127 38.462 0.00 0.00 34.26 2.73
2329 4082 9.486497 AGATACATCAGAGTTATGCAAGTTATG 57.514 33.333 0.00 0.00 0.00 1.90
2467 4233 6.156256 TGAAGGTTACTATAGTTCCACTGCAT 59.844 38.462 21.08 4.74 0.00 3.96
2680 4528 9.297586 CTAGTCGAACAACATAGCAGTAATTAA 57.702 33.333 0.00 0.00 0.00 1.40
2745 4593 4.058124 TCATCACAACTGCGGATATAAGC 58.942 43.478 0.00 0.00 0.00 3.09
2926 4775 6.252599 TGTTAGGAGCATCTGGTTCATTAT 57.747 37.500 0.00 0.00 33.73 1.28
3047 4896 1.128136 CGCTCTTGCATGTGAGAACTG 59.872 52.381 13.73 0.82 39.64 3.16
3317 5166 3.428589 GCATTGGAGAGAACATGAAAGGC 60.429 47.826 0.00 0.00 0.00 4.35
3393 5242 2.279741 GTAGCTGAATGATGCGTTGGA 58.720 47.619 0.00 0.00 0.00 3.53
3647 5496 3.058160 CGGTCAGCTTGGCCTTGG 61.058 66.667 3.32 0.00 40.79 3.61
3695 5544 2.144482 GCATTTGCATCACCATAGGC 57.856 50.000 0.00 0.00 41.59 3.93
3980 5829 5.558653 GCATGCATTTTGTAACACCAAACAG 60.559 40.000 14.21 0.00 34.23 3.16
4229 6083 6.761731 TGACATTTTAACAAGAAATTGCGG 57.238 33.333 0.00 0.00 0.00 5.69
4257 6111 1.320507 GGGCCAAACCTTTACGTTCA 58.679 50.000 4.39 0.00 39.10 3.18
4258 6112 0.599558 GGGGCCAAACCTTTACGTTC 59.400 55.000 4.39 0.00 39.10 3.95
4260 6114 1.066471 TAGGGGCCAAACCTTTACGT 58.934 50.000 4.39 0.00 39.54 3.57
4261 6115 2.203470 TTAGGGGCCAAACCTTTACG 57.797 50.000 4.39 0.00 39.54 3.18
4263 6117 4.201894 ACTTTTAGGGGCCAAACCTTTA 57.798 40.909 4.39 0.00 39.54 1.85
4264 6118 3.054779 ACTTTTAGGGGCCAAACCTTT 57.945 42.857 4.39 0.00 39.54 3.11
4266 6120 3.907459 TTACTTTTAGGGGCCAAACCT 57.093 42.857 4.39 4.34 42.15 3.50
4267 6121 4.345837 ACTTTTACTTTTAGGGGCCAAACC 59.654 41.667 4.39 0.00 37.93 3.27
4268 6122 5.540400 ACTTTTACTTTTAGGGGCCAAAC 57.460 39.130 4.39 0.00 0.00 2.93
4269 6123 6.612741 TCTACTTTTACTTTTAGGGGCCAAA 58.387 36.000 4.39 0.00 0.00 3.28
4270 6124 6.044637 TCTCTACTTTTACTTTTAGGGGCCAA 59.955 38.462 4.39 0.00 0.00 4.52
4271 6125 5.548836 TCTCTACTTTTACTTTTAGGGGCCA 59.451 40.000 4.39 0.00 0.00 5.36
4272 6126 6.058553 TCTCTACTTTTACTTTTAGGGGCC 57.941 41.667 0.00 0.00 0.00 5.80
4274 6128 8.813951 TCTCTTCTCTACTTTTACTTTTAGGGG 58.186 37.037 0.00 0.00 0.00 4.79
4427 6301 6.870965 CCATATCTTTACGCAGATAGAAGCTT 59.129 38.462 0.00 0.00 38.81 3.74
4430 6304 5.578727 GGCCATATCTTTACGCAGATAGAAG 59.421 44.000 0.00 0.00 38.81 2.85
4452 6329 4.514781 AATTTTTCCCTTACTTGACGGC 57.485 40.909 0.00 0.00 0.00 5.68
4455 6332 8.294577 ACGTTCATAATTTTTCCCTTACTTGAC 58.705 33.333 0.00 0.00 0.00 3.18
4495 6372 8.047413 AGATTTTACATTTTTACCCCTGTACG 57.953 34.615 0.00 0.00 0.00 3.67
4521 6398 3.534357 TGTGGCCCCTTCATCTTTTTA 57.466 42.857 0.00 0.00 0.00 1.52
4527 6404 0.603065 GTGTTTGTGGCCCCTTCATC 59.397 55.000 0.00 0.00 0.00 2.92
4558 6436 2.954316 TCGAGATTTAGCGCTTTCACA 58.046 42.857 18.68 0.00 0.00 3.58
4582 6460 1.574428 CTGTGCTACCGTGTTTGGC 59.426 57.895 0.00 0.00 0.00 4.52
4622 6512 3.949132 TCTGCTTGGCCTTTTTGTTTTT 58.051 36.364 3.32 0.00 0.00 1.94
4629 6519 3.704061 TGTACTTTTCTGCTTGGCCTTTT 59.296 39.130 3.32 0.00 0.00 2.27
4680 6572 4.380867 GCACAAATCGAGAAATGGTCCAAT 60.381 41.667 0.00 0.00 0.00 3.16
4727 6619 4.912766 GGAACGATACAGAGAAGATTAGCG 59.087 45.833 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.