Multiple sequence alignment - TraesCS7A01G365900

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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 TraesCS7A01G365900 chr7A 100.000 4078 0 0 1 4078 539711444 539715521 0.000000e+00 7531
1 TraesCS7A01G365900 chr7B 97.475 2693 63 2 808 3495 482090290 482087598 0.000000e+00 4591
2 TraesCS7A01G365900 chr7B 96.010 401 13 1 3681 4078 482087609 482087209 0.000000e+00 649
3 TraesCS7A01G365900 chr7B 100.000 184 0 0 3498 3681 41525063 41524880 1.400000e-89 340
4 TraesCS7A01G365900 chr7B 99.459 185 1 0 3496 3680 83032714 83032898 1.820000e-88 337
5 TraesCS7A01G365900 chr7D 97.346 2675 68 3 823 3495 459801992 459799319 0.000000e+00 4543
6 TraesCS7A01G365900 chr7D 98.254 401 4 1 3681 4078 459799330 459798930 0.000000e+00 699
7 TraesCS7A01G365900 chr3A 90.201 796 65 8 1 789 481163570 481164359 0.000000e+00 1026
8 TraesCS7A01G365900 chr1B 90.095 737 65 4 60 789 553446641 553445906 0.000000e+00 950
9 TraesCS7A01G365900 chr1A 88.020 793 77 4 1 789 415169815 415170593 0.000000e+00 922
10 TraesCS7A01G365900 chr1A 85.850 735 78 21 72 789 470501696 470500971 0.000000e+00 758
11 TraesCS7A01G365900 chr3D 87.531 802 82 7 1 789 433982202 433981406 0.000000e+00 911
12 TraesCS7A01G365900 chr6B 88.011 759 72 9 1 746 436809176 436808424 0.000000e+00 880
13 TraesCS7A01G365900 chr6B 97.409 193 5 0 3495 3687 164392388 164392196 3.040000e-86 329
14 TraesCS7A01G365900 chr4D 84.975 812 92 17 1 792 456264056 456264857 0.000000e+00 797
15 TraesCS7A01G365900 chr6A 84.834 811 93 17 1 789 584005587 584004785 0.000000e+00 789
16 TraesCS7A01G365900 chr6A 85.969 449 54 2 2132 2580 300213760 300213321 4.770000e-129 472
17 TraesCS7A01G365900 chr6A 97.906 191 4 0 3498 3688 127185358 127185168 8.450000e-87 331
18 TraesCS7A01G365900 chr6A 87.129 101 13 0 3005 3105 300213294 300213194 9.260000e-22 115
19 TraesCS7A01G365900 chr2A 84.236 812 96 21 11 801 376693684 376692884 0.000000e+00 761
20 TraesCS7A01G365900 chr2A 97.475 198 5 0 3496 3693 117158990 117158793 5.050000e-89 339
21 TraesCS7A01G365900 chr2A 98.930 187 2 0 3498 3684 286445866 286446052 6.530000e-88 335
22 TraesCS7A01G365900 chr2B 99.457 184 1 0 3498 3681 654443302 654443119 6.530000e-88 335
23 TraesCS7A01G365900 chr5A 98.925 186 2 0 3495 3680 13889427 13889612 2.350000e-87 333
24 TraesCS7A01G365900 chr3B 98.925 186 2 0 3498 3683 79948908 79949093 2.350000e-87 333


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 TraesCS7A01G365900 chr7A 539711444 539715521 4077 False 7531.0 7531 100.0000 1 4078 1 chr7A.!!$F1 4077
1 TraesCS7A01G365900 chr7B 482087209 482090290 3081 True 2620.0 4591 96.7425 808 4078 2 chr7B.!!$R2 3270
2 TraesCS7A01G365900 chr7D 459798930 459801992 3062 True 2621.0 4543 97.8000 823 4078 2 chr7D.!!$R1 3255
3 TraesCS7A01G365900 chr3A 481163570 481164359 789 False 1026.0 1026 90.2010 1 789 1 chr3A.!!$F1 788
4 TraesCS7A01G365900 chr1B 553445906 553446641 735 True 950.0 950 90.0950 60 789 1 chr1B.!!$R1 729
5 TraesCS7A01G365900 chr1A 415169815 415170593 778 False 922.0 922 88.0200 1 789 1 chr1A.!!$F1 788
6 TraesCS7A01G365900 chr1A 470500971 470501696 725 True 758.0 758 85.8500 72 789 1 chr1A.!!$R1 717
7 TraesCS7A01G365900 chr3D 433981406 433982202 796 True 911.0 911 87.5310 1 789 1 chr3D.!!$R1 788
8 TraesCS7A01G365900 chr6B 436808424 436809176 752 True 880.0 880 88.0110 1 746 1 chr6B.!!$R2 745
9 TraesCS7A01G365900 chr4D 456264056 456264857 801 False 797.0 797 84.9750 1 792 1 chr4D.!!$F1 791
10 TraesCS7A01G365900 chr6A 584004785 584005587 802 True 789.0 789 84.8340 1 789 1 chr6A.!!$R2 788
11 TraesCS7A01G365900 chr6A 300213194 300213760 566 True 293.5 472 86.5490 2132 3105 2 chr6A.!!$R3 973
12 TraesCS7A01G365900 chr2A 376692884 376693684 800 True 761.0 761 84.2360 11 801 1 chr2A.!!$R2 790

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
791 836 0.255890 ACGGGCCATGTTTGCTATCT 59.744 50.0 4.39 0.0 0.00 1.98 F
1728 1777 0.395862 ACATCTGGATCGACCTCGGT 60.396 55.0 0.00 0.0 40.29 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2478 2527 0.179084 ACTGGTGTGTTGGTGAGACG 60.179 55.0 0.0 0.0 0.00 4.18 R
3528 3577 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.0 0.0 0.0 44.78 4.85 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
91 101 8.462016 AGGAGATACTGTTGTGATTATTTTTGC 58.538 33.333 0.00 0.00 0.00 3.68
92 102 8.462016 GGAGATACTGTTGTGATTATTTTTGCT 58.538 33.333 0.00 0.00 0.00 3.91
155 167 9.702494 TTTCAATTTGAAAAGGCAAACATTTTT 57.298 22.222 19.57 0.00 42.72 1.94
235 272 8.983702 ATACCTATTAATAAAACTTGGCGGAA 57.016 30.769 0.00 0.00 0.00 4.30
255 292 5.336849 CGGAATTTTTAAATGTGCCCACCTA 60.337 40.000 0.00 0.00 0.00 3.08
311 348 7.191918 AGGGATATGGAAGGAATCTTTTTGTT 58.808 34.615 0.00 0.00 32.52 2.83
318 355 3.977427 AGGAATCTTTTTGTTTGTCGCC 58.023 40.909 0.00 0.00 0.00 5.54
323 360 4.712122 TCTTTTTGTTTGTCGCCTCTTT 57.288 36.364 0.00 0.00 0.00 2.52
367 410 4.082081 GTGACTCCCATCAAAATGCATGAA 60.082 41.667 0.00 0.00 0.00 2.57
368 411 4.527427 TGACTCCCATCAAAATGCATGAAA 59.473 37.500 0.00 0.00 0.00 2.69
573 617 4.227300 TGGCCAACCTAGATTAGTGACAAT 59.773 41.667 0.61 0.00 36.63 2.71
617 661 1.679680 AGGACGACAAAGACGACAAGA 59.320 47.619 0.00 0.00 34.70 3.02
618 662 2.100252 AGGACGACAAAGACGACAAGAA 59.900 45.455 0.00 0.00 34.70 2.52
669 713 3.309296 GGAGGATGTGGACCTGAGAATA 58.691 50.000 0.00 0.00 37.93 1.75
680 724 7.402071 TGTGGACCTGAGAATAAGGTATTAGTT 59.598 37.037 0.00 0.00 35.85 2.24
711 755 4.860802 ATGTTATGGTCATGAGGGTGAA 57.139 40.909 0.00 0.00 0.00 3.18
712 756 4.649267 TGTTATGGTCATGAGGGTGAAA 57.351 40.909 0.00 0.00 0.00 2.69
719 763 5.886609 TGGTCATGAGGGTGAAATCTTTAA 58.113 37.500 0.00 0.00 0.00 1.52
732 776 7.148188 GGTGAAATCTTTAATCATGCTCAGTGA 60.148 37.037 0.00 0.00 0.00 3.41
750 795 0.663153 GAATAATGGCGTGTGAGGGC 59.337 55.000 0.00 0.00 0.00 5.19
762 807 1.214175 TGTGAGGGCTGTTTTCTTCCA 59.786 47.619 0.00 0.00 0.00 3.53
764 809 2.489722 GTGAGGGCTGTTTTCTTCCATC 59.510 50.000 0.00 0.00 0.00 3.51
770 815 2.287547 GCTGTTTTCTTCCATCGCAACA 60.288 45.455 0.00 0.00 0.00 3.33
778 823 4.101790 CATCGCAACACACGGGCC 62.102 66.667 0.00 0.00 0.00 5.80
779 824 4.634703 ATCGCAACACACGGGCCA 62.635 61.111 4.39 0.00 0.00 5.36
780 825 3.918253 ATCGCAACACACGGGCCAT 62.918 57.895 4.39 0.00 0.00 4.40
781 826 4.403137 CGCAACACACGGGCCATG 62.403 66.667 4.39 0.00 0.00 3.66
782 827 3.294493 GCAACACACGGGCCATGT 61.294 61.111 0.00 0.00 0.00 3.21
783 828 2.855514 GCAACACACGGGCCATGTT 61.856 57.895 0.61 7.28 37.02 2.71
784 829 1.739049 CAACACACGGGCCATGTTT 59.261 52.632 0.61 0.00 34.36 2.83
785 830 0.597118 CAACACACGGGCCATGTTTG 60.597 55.000 0.61 7.82 34.36 2.93
786 831 2.049248 CACACGGGCCATGTTTGC 60.049 61.111 0.61 0.00 0.00 3.68
787 832 2.203480 ACACGGGCCATGTTTGCT 60.203 55.556 0.00 0.00 0.00 3.91
788 833 1.074072 ACACGGGCCATGTTTGCTA 59.926 52.632 0.00 0.00 0.00 3.49
789 834 0.323360 ACACGGGCCATGTTTGCTAT 60.323 50.000 0.00 0.00 0.00 2.97
790 835 0.381801 CACGGGCCATGTTTGCTATC 59.618 55.000 4.39 0.00 0.00 2.08
791 836 0.255890 ACGGGCCATGTTTGCTATCT 59.744 50.000 4.39 0.00 0.00 1.98
792 837 0.947244 CGGGCCATGTTTGCTATCTC 59.053 55.000 4.39 0.00 0.00 2.75
793 838 1.475751 CGGGCCATGTTTGCTATCTCT 60.476 52.381 4.39 0.00 0.00 3.10
794 839 2.224281 CGGGCCATGTTTGCTATCTCTA 60.224 50.000 4.39 0.00 0.00 2.43
795 840 3.557898 CGGGCCATGTTTGCTATCTCTAT 60.558 47.826 4.39 0.00 0.00 1.98
796 841 4.322725 CGGGCCATGTTTGCTATCTCTATA 60.323 45.833 4.39 0.00 0.00 1.31
797 842 5.560724 GGGCCATGTTTGCTATCTCTATAA 58.439 41.667 4.39 0.00 0.00 0.98
798 843 6.003950 GGGCCATGTTTGCTATCTCTATAAA 58.996 40.000 4.39 0.00 0.00 1.40
799 844 6.490040 GGGCCATGTTTGCTATCTCTATAAAA 59.510 38.462 4.39 0.00 0.00 1.52
800 845 7.308830 GGGCCATGTTTGCTATCTCTATAAAAG 60.309 40.741 4.39 0.00 0.00 2.27
801 846 7.445402 GGCCATGTTTGCTATCTCTATAAAAGA 59.555 37.037 0.00 0.00 0.00 2.52
802 847 8.286097 GCCATGTTTGCTATCTCTATAAAAGAC 58.714 37.037 0.00 0.00 0.00 3.01
803 848 9.553064 CCATGTTTGCTATCTCTATAAAAGACT 57.447 33.333 0.00 0.00 0.00 3.24
826 871 7.328737 ACTTATACGGAGAAAAATAGCACACT 58.671 34.615 0.00 0.00 0.00 3.55
833 878 5.438761 AGAAAAATAGCACACTCACAACC 57.561 39.130 0.00 0.00 0.00 3.77
835 880 4.836125 AAAATAGCACACTCACAACCAG 57.164 40.909 0.00 0.00 0.00 4.00
861 906 1.989165 GTCAATCAGCAGTCGAGACAC 59.011 52.381 5.99 0.00 0.00 3.67
864 909 0.961753 ATCAGCAGTCGAGACACACA 59.038 50.000 5.99 0.00 0.00 3.72
875 920 0.672342 AGACACACACGGGACTACAC 59.328 55.000 0.00 0.00 0.00 2.90
948 997 2.426738 CCCCATCTCAGATCGATCTAGC 59.573 54.545 26.87 0.09 34.85 3.42
952 1001 2.789213 TCTCAGATCGATCTAGCCCTG 58.211 52.381 26.87 14.74 34.85 4.45
975 1024 1.003233 GAACCCAGCACCTCTGTCC 60.003 63.158 0.00 0.00 41.25 4.02
1056 1105 1.238896 TCCTCCCCCTCATCCTCCTT 61.239 60.000 0.00 0.00 0.00 3.36
1314 1363 2.260822 CTCCTCCCTTCCTTTGTCTCA 58.739 52.381 0.00 0.00 0.00 3.27
1728 1777 0.395862 ACATCTGGATCGACCTCGGT 60.396 55.000 0.00 0.00 40.29 4.69
1833 1882 2.742372 CGCCCCAAGTCGGACAAG 60.742 66.667 11.27 1.92 36.56 3.16
1916 1965 2.097825 GCTCAGAATCCCAGTGCATTT 58.902 47.619 0.00 0.00 0.00 2.32
2054 2103 3.366781 GGCCAGAGCTTGAAGTTTGATTC 60.367 47.826 0.00 0.00 39.73 2.52
2208 2257 1.735920 GCAGGTGCTGTCAGACTCG 60.736 63.158 3.32 0.00 38.21 4.18
2218 2267 1.088306 GTCAGACTCGTCGGATGAGT 58.912 55.000 28.13 28.13 46.43 3.41
2406 2455 3.832490 TCAGTGACTACAGCTGTAATGGT 59.168 43.478 25.95 20.21 31.87 3.55
2409 2458 3.086282 TGACTACAGCTGTAATGGTCGA 58.914 45.455 26.73 18.36 30.44 4.20
2580 2629 2.154798 TTGGGCCGTTCTCAGAGACG 62.155 60.000 0.00 7.46 0.00 4.18
2868 2917 5.321959 TGTATGCCATTTACATGTTGGTG 57.678 39.130 14.95 6.92 32.90 4.17
2892 2941 0.326427 AGGCTTCTCAGGAGCTGGAT 60.326 55.000 4.49 0.00 31.51 3.41
3497 3546 5.603170 AAATCAACATATTTGAGCTGGGG 57.397 39.130 0.00 0.00 0.00 4.96
3498 3547 4.524802 ATCAACATATTTGAGCTGGGGA 57.475 40.909 0.00 0.00 0.00 4.81
3499 3548 4.314522 TCAACATATTTGAGCTGGGGAA 57.685 40.909 0.00 0.00 0.00 3.97
3500 3549 4.272489 TCAACATATTTGAGCTGGGGAAG 58.728 43.478 0.00 0.00 0.00 3.46
3501 3550 3.303351 ACATATTTGAGCTGGGGAAGG 57.697 47.619 0.00 0.00 0.00 3.46
3502 3551 2.091665 ACATATTTGAGCTGGGGAAGGG 60.092 50.000 0.00 0.00 0.00 3.95
3503 3552 0.926293 TATTTGAGCTGGGGAAGGGG 59.074 55.000 0.00 0.00 0.00 4.79
3504 3553 0.850883 ATTTGAGCTGGGGAAGGGGA 60.851 55.000 0.00 0.00 0.00 4.81
3505 3554 1.500783 TTTGAGCTGGGGAAGGGGAG 61.501 60.000 0.00 0.00 0.00 4.30
3506 3555 3.803162 GAGCTGGGGAAGGGGAGC 61.803 72.222 0.00 0.00 0.00 4.70
3509 3558 2.615288 CTGGGGAAGGGGAGCCTT 60.615 66.667 0.00 0.00 0.00 4.35
3510 3559 1.307866 CTGGGGAAGGGGAGCCTTA 60.308 63.158 0.00 0.00 0.00 2.69
3511 3560 1.307866 TGGGGAAGGGGAGCCTTAG 60.308 63.158 0.00 0.00 0.00 2.18
3512 3561 2.758207 GGGGAAGGGGAGCCTTAGC 61.758 68.421 0.00 0.00 40.32 3.09
3513 3562 2.506472 GGAAGGGGAGCCTTAGCG 59.494 66.667 0.00 0.00 46.67 4.26
3514 3563 2.203084 GAAGGGGAGCCTTAGCGC 60.203 66.667 0.00 0.00 46.67 5.92
3515 3564 3.009115 AAGGGGAGCCTTAGCGCA 61.009 61.111 11.47 0.00 46.67 6.09
3516 3565 2.932130 GAAGGGGAGCCTTAGCGCAG 62.932 65.000 11.47 0.00 46.67 5.18
3517 3566 3.787001 GGGGAGCCTTAGCGCAGT 61.787 66.667 11.47 0.00 46.67 4.40
3518 3567 2.512515 GGGAGCCTTAGCGCAGTG 60.513 66.667 11.47 0.00 46.67 3.66
3519 3568 2.512515 GGAGCCTTAGCGCAGTGG 60.513 66.667 11.47 9.34 46.67 4.00
3520 3569 2.266055 GAGCCTTAGCGCAGTGGT 59.734 61.111 11.47 0.00 46.67 4.16
3521 3570 1.515954 GAGCCTTAGCGCAGTGGTA 59.484 57.895 11.47 0.00 46.67 3.25
3522 3571 0.108329 GAGCCTTAGCGCAGTGGTAA 60.108 55.000 11.47 5.53 46.67 2.85
3523 3572 0.323629 AGCCTTAGCGCAGTGGTAAA 59.676 50.000 11.47 0.00 46.67 2.01
3524 3573 0.727398 GCCTTAGCGCAGTGGTAAAG 59.273 55.000 11.47 2.53 39.86 1.85
3525 3574 0.727398 CCTTAGCGCAGTGGTAAAGC 59.273 55.000 11.47 0.00 39.86 3.51
3526 3575 1.676014 CCTTAGCGCAGTGGTAAAGCT 60.676 52.381 11.47 0.00 39.86 3.74
3527 3576 1.394917 CTTAGCGCAGTGGTAAAGCTG 59.605 52.381 11.47 0.00 39.86 4.24
3532 3581 1.878775 CAGTGGTAAAGCTGCTGCC 59.121 57.895 12.44 7.07 40.80 4.85
3533 3582 0.607489 CAGTGGTAAAGCTGCTGCCT 60.607 55.000 12.44 2.45 40.80 4.75
3534 3583 0.111253 AGTGGTAAAGCTGCTGCCTT 59.889 50.000 12.44 8.34 40.80 4.35
3535 3584 0.242017 GTGGTAAAGCTGCTGCCTTG 59.758 55.000 12.44 0.00 40.80 3.61
3536 3585 0.178992 TGGTAAAGCTGCTGCCTTGT 60.179 50.000 12.44 0.00 40.80 3.16
3537 3586 0.242017 GGTAAAGCTGCTGCCTTGTG 59.758 55.000 12.44 0.00 40.80 3.33
3538 3587 1.238439 GTAAAGCTGCTGCCTTGTGA 58.762 50.000 12.44 0.00 40.80 3.58
3539 3588 1.068954 GTAAAGCTGCTGCCTTGTGAC 60.069 52.381 12.44 0.00 40.80 3.67
3540 3589 1.458639 AAAGCTGCTGCCTTGTGACC 61.459 55.000 12.44 0.00 40.80 4.02
3541 3590 2.595463 GCTGCTGCCTTGTGACCA 60.595 61.111 3.85 0.00 0.00 4.02
3542 3591 1.975407 GCTGCTGCCTTGTGACCAT 60.975 57.895 3.85 0.00 0.00 3.55
3543 3592 1.880894 CTGCTGCCTTGTGACCATG 59.119 57.895 0.00 0.00 0.00 3.66
3544 3593 0.607217 CTGCTGCCTTGTGACCATGA 60.607 55.000 0.00 0.00 0.00 3.07
3545 3594 0.607217 TGCTGCCTTGTGACCATGAG 60.607 55.000 0.00 0.00 0.00 2.90
3546 3595 1.310933 GCTGCCTTGTGACCATGAGG 61.311 60.000 0.00 0.00 42.21 3.86
3556 3605 4.617875 CCATGAGGTCACGGGTTC 57.382 61.111 0.00 0.00 0.00 3.62
3557 3606 1.676968 CCATGAGGTCACGGGTTCA 59.323 57.895 0.00 0.00 0.00 3.18
3558 3607 0.036164 CCATGAGGTCACGGGTTCAA 59.964 55.000 0.00 0.00 0.00 2.69
3559 3608 1.442769 CATGAGGTCACGGGTTCAAG 58.557 55.000 0.00 0.00 0.00 3.02
3560 3609 1.056660 ATGAGGTCACGGGTTCAAGT 58.943 50.000 0.00 0.00 0.00 3.16
3561 3610 0.391597 TGAGGTCACGGGTTCAAGTC 59.608 55.000 0.00 0.00 0.00 3.01
3562 3611 0.320508 GAGGTCACGGGTTCAAGTCC 60.321 60.000 0.00 0.00 0.00 3.85
3563 3612 0.763223 AGGTCACGGGTTCAAGTCCT 60.763 55.000 0.00 0.00 0.00 3.85
3564 3613 0.602905 GGTCACGGGTTCAAGTCCTG 60.603 60.000 0.00 0.00 37.36 3.86
3565 3614 0.602905 GTCACGGGTTCAAGTCCTGG 60.603 60.000 0.00 0.00 35.79 4.45
3566 3615 0.761323 TCACGGGTTCAAGTCCTGGA 60.761 55.000 0.00 0.00 35.79 3.86
3567 3616 0.107831 CACGGGTTCAAGTCCTGGAA 59.892 55.000 0.00 0.00 35.79 3.53
3568 3617 0.841289 ACGGGTTCAAGTCCTGGAAA 59.159 50.000 0.00 0.00 35.79 3.13
3569 3618 1.235724 CGGGTTCAAGTCCTGGAAAC 58.764 55.000 0.00 0.00 0.00 2.78
3570 3619 1.476110 CGGGTTCAAGTCCTGGAAACA 60.476 52.381 0.00 0.00 32.36 2.83
3584 3633 4.431416 TGGAAACAGCCTCTTACAGAAA 57.569 40.909 0.00 0.00 35.01 2.52
3585 3634 4.985538 TGGAAACAGCCTCTTACAGAAAT 58.014 39.130 0.00 0.00 35.01 2.17
3586 3635 4.761739 TGGAAACAGCCTCTTACAGAAATG 59.238 41.667 0.00 0.00 35.01 2.32
3587 3636 4.762251 GGAAACAGCCTCTTACAGAAATGT 59.238 41.667 0.00 0.00 0.00 2.71
3588 3637 5.938125 GGAAACAGCCTCTTACAGAAATGTA 59.062 40.000 0.00 0.00 0.00 2.29
3589 3638 6.092807 GGAAACAGCCTCTTACAGAAATGTAG 59.907 42.308 0.00 0.00 0.00 2.74
3590 3639 5.091261 ACAGCCTCTTACAGAAATGTAGG 57.909 43.478 0.00 0.00 0.00 3.18
3591 3640 4.080863 ACAGCCTCTTACAGAAATGTAGGG 60.081 45.833 0.00 0.66 0.00 3.53
3592 3641 4.162320 CAGCCTCTTACAGAAATGTAGGGA 59.838 45.833 0.00 0.00 0.00 4.20
3593 3642 4.783227 AGCCTCTTACAGAAATGTAGGGAA 59.217 41.667 0.00 0.00 0.00 3.97
3594 3643 5.250774 AGCCTCTTACAGAAATGTAGGGAAA 59.749 40.000 0.00 0.00 0.00 3.13
3595 3644 5.586643 GCCTCTTACAGAAATGTAGGGAAAG 59.413 44.000 0.00 0.00 0.00 2.62
3596 3645 6.116126 CCTCTTACAGAAATGTAGGGAAAGG 58.884 44.000 0.00 0.00 0.00 3.11
3597 3646 5.497474 TCTTACAGAAATGTAGGGAAAGGC 58.503 41.667 0.00 0.00 0.00 4.35
3598 3647 5.250774 TCTTACAGAAATGTAGGGAAAGGCT 59.749 40.000 0.00 0.00 0.00 4.58
3599 3648 3.690460 ACAGAAATGTAGGGAAAGGCTG 58.310 45.455 0.00 0.00 0.00 4.85
3600 3649 2.424956 CAGAAATGTAGGGAAAGGCTGC 59.575 50.000 0.00 0.00 0.00 5.25
3601 3650 1.401905 GAAATGTAGGGAAAGGCTGCG 59.598 52.381 0.00 0.00 0.00 5.18
3602 3651 0.328258 AATGTAGGGAAAGGCTGCGT 59.672 50.000 0.00 0.00 0.00 5.24
3603 3652 1.200519 ATGTAGGGAAAGGCTGCGTA 58.799 50.000 0.00 0.00 0.00 4.42
3604 3653 0.248289 TGTAGGGAAAGGCTGCGTAC 59.752 55.000 0.00 0.00 37.28 3.67
3605 3654 0.248289 GTAGGGAAAGGCTGCGTACA 59.752 55.000 0.00 0.00 36.89 2.90
3606 3655 0.978151 TAGGGAAAGGCTGCGTACAA 59.022 50.000 0.00 0.00 0.00 2.41
3607 3656 0.328258 AGGGAAAGGCTGCGTACAAT 59.672 50.000 0.00 0.00 0.00 2.71
3608 3657 1.557832 AGGGAAAGGCTGCGTACAATA 59.442 47.619 0.00 0.00 0.00 1.90
3609 3658 1.940613 GGGAAAGGCTGCGTACAATAG 59.059 52.381 0.00 0.00 0.00 1.73
3610 3659 2.419574 GGGAAAGGCTGCGTACAATAGA 60.420 50.000 0.00 0.00 0.00 1.98
3611 3660 2.608090 GGAAAGGCTGCGTACAATAGAC 59.392 50.000 0.00 0.00 0.00 2.59
3612 3661 2.311124 AAGGCTGCGTACAATAGACC 57.689 50.000 0.00 0.00 0.00 3.85
3613 3662 0.464452 AGGCTGCGTACAATAGACCC 59.536 55.000 0.00 0.00 0.00 4.46
3614 3663 0.177141 GGCTGCGTACAATAGACCCA 59.823 55.000 0.00 0.00 0.00 4.51
3615 3664 1.406341 GGCTGCGTACAATAGACCCAA 60.406 52.381 0.00 0.00 0.00 4.12
3616 3665 2.352388 GCTGCGTACAATAGACCCAAA 58.648 47.619 0.00 0.00 0.00 3.28
3617 3666 2.351726 GCTGCGTACAATAGACCCAAAG 59.648 50.000 0.00 0.00 0.00 2.77
3618 3667 3.596214 CTGCGTACAATAGACCCAAAGT 58.404 45.455 0.00 0.00 0.00 2.66
3619 3668 3.331150 TGCGTACAATAGACCCAAAGTG 58.669 45.455 0.00 0.00 0.00 3.16
3620 3669 2.676342 GCGTACAATAGACCCAAAGTGG 59.324 50.000 0.00 0.00 37.25 4.00
3621 3670 3.867216 GCGTACAATAGACCCAAAGTGGT 60.867 47.826 0.00 0.00 42.79 4.16
3626 3675 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
3627 3676 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
3628 3677 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
3629 3678 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
3630 3679 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
3631 3680 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
3632 3681 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
3633 3682 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
3634 3683 3.714001 GTGGTCGGACCCTTCCCC 61.714 72.222 23.81 0.00 38.99 4.81
3635 3684 4.257810 TGGTCGGACCCTTCCCCA 62.258 66.667 23.81 0.69 38.99 4.96
3636 3685 3.400054 GGTCGGACCCTTCCCCAG 61.400 72.222 16.55 0.00 38.99 4.45
3637 3686 2.284405 GTCGGACCCTTCCCCAGA 60.284 66.667 0.00 0.00 38.99 3.86
3638 3687 2.284405 TCGGACCCTTCCCCAGAC 60.284 66.667 0.00 0.00 38.99 3.51
3639 3688 3.400054 CGGACCCTTCCCCAGACC 61.400 72.222 0.00 0.00 38.99 3.85
3640 3689 3.015753 GGACCCTTCCCCAGACCC 61.016 72.222 0.00 0.00 35.57 4.46
3641 3690 2.125225 GACCCTTCCCCAGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
3642 3691 2.204151 ACCCTTCCCCAGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
3643 3692 3.732849 CCCTTCCCCAGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
3644 3693 4.101448 CCTTCCCCAGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
3645 3694 4.785453 CTTCCCCAGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
3666 3715 4.115279 CGGGAGCTACATGCACTG 57.885 61.111 0.00 0.00 45.94 3.66
3667 3716 1.522355 CGGGAGCTACATGCACTGG 60.522 63.158 0.00 0.00 45.94 4.00
3668 3717 1.153086 GGGAGCTACATGCACTGGG 60.153 63.158 0.00 0.00 45.94 4.45
3669 3718 1.153086 GGAGCTACATGCACTGGGG 60.153 63.158 0.00 0.00 45.94 4.96
3670 3719 1.821332 GAGCTACATGCACTGGGGC 60.821 63.158 0.00 0.00 45.94 5.80
3671 3720 2.262774 GAGCTACATGCACTGGGGCT 62.263 60.000 13.29 13.29 45.94 5.19
3672 3721 2.117156 GCTACATGCACTGGGGCTG 61.117 63.158 0.00 0.00 42.31 4.85
3673 3722 2.045045 TACATGCACTGGGGCTGC 60.045 61.111 0.00 0.00 35.03 5.25
3674 3723 3.643595 TACATGCACTGGGGCTGCC 62.644 63.158 11.05 11.05 33.36 4.85
3862 3914 4.689612 TGAGAAGCTTAAGTTGTGTCCT 57.310 40.909 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
91 101 7.848716 TGTGTTTTTCAAATGTTTGCAAAAG 57.151 28.000 14.67 2.18 41.44 2.27
92 102 8.633075 TTTGTGTTTTTCAAATGTTTGCAAAA 57.367 23.077 14.67 10.49 39.63 2.44
158 170 9.119418 CCTCCCAATTTTAAAGAAAACATGTTT 57.881 29.630 18.13 18.13 37.37 2.83
235 272 5.879777 GCATTAGGTGGGCACATTTAAAAAT 59.120 36.000 0.00 0.00 0.00 1.82
284 321 8.343787 ACAAAAAGATTCCTTCCATATCCCTAA 58.656 33.333 0.00 0.00 0.00 2.69
311 348 3.504863 GTCGTACATAAAGAGGCGACAA 58.495 45.455 9.53 0.00 45.17 3.18
318 355 3.692576 CCGAGTGGTCGTACATAAAGAG 58.307 50.000 0.00 0.00 45.30 2.85
323 360 1.386525 GGGCCGAGTGGTCGTACATA 61.387 60.000 0.00 0.00 45.30 2.29
367 410 5.454966 ACCATGAAACCTTAGTTGGACTTT 58.545 37.500 0.00 0.00 35.97 2.66
368 411 5.061721 ACCATGAAACCTTAGTTGGACTT 57.938 39.130 0.00 0.00 35.97 3.01
617 661 8.677148 AGTATAACACAAGACACATGTTTCTT 57.323 30.769 19.27 19.27 37.68 2.52
618 662 9.772973 TTAGTATAACACAAGACACATGTTTCT 57.227 29.630 8.74 8.74 37.68 2.52
683 727 9.300681 CACCCTCATGACCATAACATAATAAAT 57.699 33.333 0.00 0.00 0.00 1.40
719 763 3.501062 CGCCATTATTCACTGAGCATGAT 59.499 43.478 0.00 0.00 0.00 2.45
732 776 0.255890 AGCCCTCACACGCCATTATT 59.744 50.000 0.00 0.00 0.00 1.40
750 795 3.243035 TGTGTTGCGATGGAAGAAAACAG 60.243 43.478 0.00 0.00 0.00 3.16
762 807 3.918253 ATGGCCCGTGTGTTGCGAT 62.918 57.895 0.00 0.00 0.00 4.58
764 809 4.403137 CATGGCCCGTGTGTTGCG 62.403 66.667 0.00 0.00 0.00 4.85
770 815 0.323360 ATAGCAAACATGGCCCGTGT 60.323 50.000 1.74 1.74 34.83 4.49
796 841 9.444600 TGCTATTTTTCTCCGTATAAGTCTTTT 57.555 29.630 0.00 0.00 0.00 2.27
797 842 8.880750 GTGCTATTTTTCTCCGTATAAGTCTTT 58.119 33.333 0.00 0.00 0.00 2.52
798 843 8.038944 TGTGCTATTTTTCTCCGTATAAGTCTT 58.961 33.333 0.00 0.00 0.00 3.01
799 844 7.491696 GTGTGCTATTTTTCTCCGTATAAGTCT 59.508 37.037 0.00 0.00 0.00 3.24
800 845 7.491696 AGTGTGCTATTTTTCTCCGTATAAGTC 59.508 37.037 0.00 0.00 0.00 3.01
801 846 7.328737 AGTGTGCTATTTTTCTCCGTATAAGT 58.671 34.615 0.00 0.00 0.00 2.24
802 847 7.491372 TGAGTGTGCTATTTTTCTCCGTATAAG 59.509 37.037 0.00 0.00 0.00 1.73
803 848 7.277098 GTGAGTGTGCTATTTTTCTCCGTATAA 59.723 37.037 0.00 0.00 0.00 0.98
804 849 6.755141 GTGAGTGTGCTATTTTTCTCCGTATA 59.245 38.462 0.00 0.00 0.00 1.47
805 850 5.581085 GTGAGTGTGCTATTTTTCTCCGTAT 59.419 40.000 0.00 0.00 0.00 3.06
806 851 4.927425 GTGAGTGTGCTATTTTTCTCCGTA 59.073 41.667 0.00 0.00 0.00 4.02
821 866 5.965922 TGACTATATCTGGTTGTGAGTGTG 58.034 41.667 0.00 0.00 0.00 3.82
826 871 6.127083 TGCTGATTGACTATATCTGGTTGTGA 60.127 38.462 0.00 0.00 0.00 3.58
833 878 6.006759 TCGACTGCTGATTGACTATATCTG 57.993 41.667 0.00 0.00 0.00 2.90
835 880 6.083630 GTCTCGACTGCTGATTGACTATATC 58.916 44.000 0.00 0.00 0.00 1.63
861 906 1.671850 GGATGTGTGTAGTCCCGTGTG 60.672 57.143 0.00 0.00 0.00 3.82
864 909 1.275291 CAAGGATGTGTGTAGTCCCGT 59.725 52.381 0.00 0.00 32.31 5.28
952 1001 1.003233 GAGGTGCTGGGTTCAGTCC 60.003 63.158 0.00 0.00 42.78 3.85
1006 1055 1.305802 GGGTTTGGGGTGGGGATTC 60.306 63.158 0.00 0.00 0.00 2.52
1291 1340 1.304617 CAAAGGAAGGGAGGAGGCC 59.695 63.158 0.00 0.00 0.00 5.19
1314 1363 3.148279 GAGGAGGACACGGCGGAT 61.148 66.667 13.24 0.00 0.00 4.18
1369 1418 1.222936 GGTGGATGCTGTGGGAGAG 59.777 63.158 0.00 0.00 0.00 3.20
1842 1891 2.685017 AGTGAGGCCAGATCCGCA 60.685 61.111 5.01 0.00 33.47 5.69
2034 2083 3.669023 GCGAATCAAACTTCAAGCTCTGG 60.669 47.826 0.00 0.00 0.00 3.86
2054 2103 2.054363 CAGAGTACTTGACACTGTGCG 58.946 52.381 7.90 0.00 40.69 5.34
2208 2257 0.647410 CACGATGCAACTCATCCGAC 59.353 55.000 0.00 0.00 46.93 4.79
2218 2267 2.482796 ATCCCAGCCACACGATGCAA 62.483 55.000 0.00 0.00 0.00 4.08
2406 2455 9.863845 TTTCTAGTCATTGTAATTACATGTCGA 57.136 29.630 18.69 10.10 35.89 4.20
2478 2527 0.179084 ACTGGTGTGTTGGTGAGACG 60.179 55.000 0.00 0.00 0.00 4.18
2580 2629 5.173774 TCTGCACAAAAGACAGTGATTTC 57.826 39.130 0.00 0.00 37.97 2.17
2700 2749 9.975218 TGCCTTTTCTTTCTAAGGAGTATATTT 57.025 29.630 5.11 0.00 42.90 1.40
2806 2855 4.518970 TCTCAAAAGGTACATTGCCTTGTC 59.481 41.667 0.00 0.00 44.84 3.18
2868 2917 2.038659 AGCTCCTGAGAAGCCTGATAC 58.961 52.381 0.00 0.00 0.00 2.24
2892 2941 0.106769 TGAAGCAAACCAGTGAGGCA 60.107 50.000 0.00 0.00 43.14 4.75
3400 3449 8.843262 ACTTGTAACACCTATTAAAACTGTTCC 58.157 33.333 0.00 0.00 0.00 3.62
3475 3524 5.271598 TCCCCAGCTCAAATATGTTGATTT 58.728 37.500 0.00 0.00 0.00 2.17
3478 3527 4.272489 CTTCCCCAGCTCAAATATGTTGA 58.728 43.478 0.00 0.00 0.00 3.18
3479 3528 3.382546 CCTTCCCCAGCTCAAATATGTTG 59.617 47.826 0.00 0.00 0.00 3.33
3480 3529 3.628257 CCCTTCCCCAGCTCAAATATGTT 60.628 47.826 0.00 0.00 0.00 2.71
3482 3531 2.590821 CCCTTCCCCAGCTCAAATATG 58.409 52.381 0.00 0.00 0.00 1.78
3483 3532 1.500736 CCCCTTCCCCAGCTCAAATAT 59.499 52.381 0.00 0.00 0.00 1.28
3484 3533 0.926293 CCCCTTCCCCAGCTCAAATA 59.074 55.000 0.00 0.00 0.00 1.40
3485 3534 0.850883 TCCCCTTCCCCAGCTCAAAT 60.851 55.000 0.00 0.00 0.00 2.32
3486 3535 1.465188 TCCCCTTCCCCAGCTCAAA 60.465 57.895 0.00 0.00 0.00 2.69
3487 3536 1.925455 CTCCCCTTCCCCAGCTCAA 60.925 63.158 0.00 0.00 0.00 3.02
3488 3537 2.285668 CTCCCCTTCCCCAGCTCA 60.286 66.667 0.00 0.00 0.00 4.26
3489 3538 3.803162 GCTCCCCTTCCCCAGCTC 61.803 72.222 0.00 0.00 0.00 4.09
3499 3548 3.474570 CTGCGCTAAGGCTCCCCT 61.475 66.667 9.73 0.00 45.77 4.79
3500 3549 3.787001 ACTGCGCTAAGGCTCCCC 61.787 66.667 9.73 0.00 36.09 4.81
3501 3550 2.512515 CACTGCGCTAAGGCTCCC 60.513 66.667 9.73 0.00 36.09 4.30
3502 3551 1.956629 TACCACTGCGCTAAGGCTCC 61.957 60.000 9.73 0.00 36.09 4.70
3503 3552 0.108329 TTACCACTGCGCTAAGGCTC 60.108 55.000 9.73 0.00 36.09 4.70
3504 3553 0.323629 TTTACCACTGCGCTAAGGCT 59.676 50.000 9.73 1.47 36.09 4.58
3505 3554 0.727398 CTTTACCACTGCGCTAAGGC 59.273 55.000 9.73 0.00 0.00 4.35
3506 3555 0.727398 GCTTTACCACTGCGCTAAGG 59.273 55.000 9.73 10.10 0.00 2.69
3507 3556 1.394917 CAGCTTTACCACTGCGCTAAG 59.605 52.381 9.73 0.00 0.00 2.18
3508 3557 1.438651 CAGCTTTACCACTGCGCTAA 58.561 50.000 9.73 0.00 0.00 3.09
3509 3558 3.137484 CAGCTTTACCACTGCGCTA 57.863 52.632 9.73 0.00 0.00 4.26
3510 3559 3.972227 CAGCTTTACCACTGCGCT 58.028 55.556 9.73 0.00 0.00 5.92
3514 3563 0.607489 AGGCAGCAGCTTTACCACTG 60.607 55.000 0.00 0.00 41.70 3.66
3515 3564 0.111253 AAGGCAGCAGCTTTACCACT 59.889 50.000 0.00 0.00 38.40 4.00
3516 3565 0.242017 CAAGGCAGCAGCTTTACCAC 59.758 55.000 0.00 0.00 38.07 4.16
3517 3566 0.178992 ACAAGGCAGCAGCTTTACCA 60.179 50.000 0.00 0.00 38.07 3.25
3518 3567 0.242017 CACAAGGCAGCAGCTTTACC 59.758 55.000 0.00 0.00 38.07 2.85
3519 3568 1.068954 GTCACAAGGCAGCAGCTTTAC 60.069 52.381 0.00 0.00 38.07 2.01
3520 3569 1.238439 GTCACAAGGCAGCAGCTTTA 58.762 50.000 0.00 0.00 38.07 1.85
3521 3570 1.458639 GGTCACAAGGCAGCAGCTTT 61.459 55.000 0.00 0.00 41.17 3.51
3522 3571 1.900498 GGTCACAAGGCAGCAGCTT 60.900 57.895 0.00 0.00 41.70 3.74
3523 3572 2.282040 GGTCACAAGGCAGCAGCT 60.282 61.111 0.00 0.00 41.70 4.24
3524 3573 1.975407 ATGGTCACAAGGCAGCAGC 60.975 57.895 0.00 0.00 41.10 5.25
3525 3574 0.607217 TCATGGTCACAAGGCAGCAG 60.607 55.000 0.00 0.00 0.00 4.24
3526 3575 0.607217 CTCATGGTCACAAGGCAGCA 60.607 55.000 0.00 0.00 0.00 4.41
3527 3576 1.310933 CCTCATGGTCACAAGGCAGC 61.311 60.000 0.00 0.00 0.00 5.25
3528 3577 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.00 44.78 4.85
3529 3578 2.154139 ACCTCATGGTCACAAGGCA 58.846 52.632 0.00 0.00 44.78 4.75
3540 3589 1.270839 ACTTGAACCCGTGACCTCATG 60.271 52.381 0.00 0.00 0.00 3.07
3541 3590 1.002087 GACTTGAACCCGTGACCTCAT 59.998 52.381 0.00 0.00 0.00 2.90
3542 3591 0.391597 GACTTGAACCCGTGACCTCA 59.608 55.000 0.00 0.00 0.00 3.86
3543 3592 0.320508 GGACTTGAACCCGTGACCTC 60.321 60.000 0.00 0.00 0.00 3.85
3544 3593 0.763223 AGGACTTGAACCCGTGACCT 60.763 55.000 0.00 0.00 0.00 3.85
3545 3594 0.602905 CAGGACTTGAACCCGTGACC 60.603 60.000 0.00 0.00 0.00 4.02
3546 3595 0.602905 CCAGGACTTGAACCCGTGAC 60.603 60.000 0.00 0.00 0.00 3.67
3547 3596 0.761323 TCCAGGACTTGAACCCGTGA 60.761 55.000 0.00 0.00 0.00 4.35
3548 3597 0.107831 TTCCAGGACTTGAACCCGTG 59.892 55.000 0.00 0.00 0.00 4.94
3549 3598 0.841289 TTTCCAGGACTTGAACCCGT 59.159 50.000 0.00 0.00 0.00 5.28
3550 3599 1.235724 GTTTCCAGGACTTGAACCCG 58.764 55.000 0.00 0.00 0.00 5.28
3551 3600 2.230660 CTGTTTCCAGGACTTGAACCC 58.769 52.381 0.00 0.00 34.90 4.11
3552 3601 1.609072 GCTGTTTCCAGGACTTGAACC 59.391 52.381 0.00 0.00 39.22 3.62
3553 3602 1.609072 GGCTGTTTCCAGGACTTGAAC 59.391 52.381 0.00 0.00 39.22 3.18
3554 3603 1.494721 AGGCTGTTTCCAGGACTTGAA 59.505 47.619 0.00 0.00 39.22 2.69
3555 3604 1.072331 GAGGCTGTTTCCAGGACTTGA 59.928 52.381 0.00 0.00 39.22 3.02
3556 3605 1.072965 AGAGGCTGTTTCCAGGACTTG 59.927 52.381 0.00 0.00 39.22 3.16
3557 3606 1.439543 AGAGGCTGTTTCCAGGACTT 58.560 50.000 0.00 0.00 39.22 3.01
3558 3607 1.439543 AAGAGGCTGTTTCCAGGACT 58.560 50.000 0.00 0.00 39.22 3.85
3559 3608 2.038557 TGTAAGAGGCTGTTTCCAGGAC 59.961 50.000 0.90 0.00 39.22 3.85
3560 3609 2.303022 CTGTAAGAGGCTGTTTCCAGGA 59.697 50.000 0.90 0.00 35.89 3.86
3561 3610 2.303022 TCTGTAAGAGGCTGTTTCCAGG 59.697 50.000 17.71 5.83 38.67 4.45
3562 3611 3.685139 TCTGTAAGAGGCTGTTTCCAG 57.315 47.619 0.90 9.48 38.67 3.86
3574 3623 5.250774 AGCCTTTCCCTACATTTCTGTAAGA 59.749 40.000 0.00 0.00 44.68 2.10
3575 3624 5.355350 CAGCCTTTCCCTACATTTCTGTAAG 59.645 44.000 0.00 0.00 37.41 2.34
3576 3625 5.253330 CAGCCTTTCCCTACATTTCTGTAA 58.747 41.667 0.00 0.00 37.41 2.41
3577 3626 4.843728 CAGCCTTTCCCTACATTTCTGTA 58.156 43.478 0.00 0.00 36.79 2.74
3578 3627 3.690460 CAGCCTTTCCCTACATTTCTGT 58.310 45.455 0.00 0.00 39.49 3.41
3579 3628 2.424956 GCAGCCTTTCCCTACATTTCTG 59.575 50.000 0.00 0.00 0.00 3.02
3580 3629 2.728007 GCAGCCTTTCCCTACATTTCT 58.272 47.619 0.00 0.00 0.00 2.52
3581 3630 1.401905 CGCAGCCTTTCCCTACATTTC 59.598 52.381 0.00 0.00 0.00 2.17
3582 3631 1.271926 ACGCAGCCTTTCCCTACATTT 60.272 47.619 0.00 0.00 0.00 2.32
3583 3632 0.328258 ACGCAGCCTTTCCCTACATT 59.672 50.000 0.00 0.00 0.00 2.71
3584 3633 1.134491 GTACGCAGCCTTTCCCTACAT 60.134 52.381 0.00 0.00 0.00 2.29
3585 3634 0.248289 GTACGCAGCCTTTCCCTACA 59.752 55.000 0.00 0.00 0.00 2.74
3586 3635 0.248289 TGTACGCAGCCTTTCCCTAC 59.752 55.000 0.00 0.00 0.00 3.18
3587 3636 0.978151 TTGTACGCAGCCTTTCCCTA 59.022 50.000 0.00 0.00 0.00 3.53
3588 3637 0.328258 ATTGTACGCAGCCTTTCCCT 59.672 50.000 0.00 0.00 0.00 4.20
3589 3638 1.940613 CTATTGTACGCAGCCTTTCCC 59.059 52.381 0.00 0.00 0.00 3.97
3590 3639 2.608090 GTCTATTGTACGCAGCCTTTCC 59.392 50.000 0.00 0.00 0.00 3.13
3591 3640 2.608090 GGTCTATTGTACGCAGCCTTTC 59.392 50.000 0.00 0.00 0.00 2.62
3592 3641 2.629051 GGTCTATTGTACGCAGCCTTT 58.371 47.619 0.00 0.00 0.00 3.11
3593 3642 1.134491 GGGTCTATTGTACGCAGCCTT 60.134 52.381 0.00 0.00 0.00 4.35
3594 3643 0.464452 GGGTCTATTGTACGCAGCCT 59.536 55.000 0.00 0.00 0.00 4.58
3595 3644 0.177141 TGGGTCTATTGTACGCAGCC 59.823 55.000 0.00 0.00 35.18 4.85
3596 3645 2.018542 TTGGGTCTATTGTACGCAGC 57.981 50.000 0.00 0.00 40.36 5.25
3597 3646 3.370978 CACTTTGGGTCTATTGTACGCAG 59.629 47.826 0.00 0.00 40.36 5.18
3598 3647 3.331150 CACTTTGGGTCTATTGTACGCA 58.669 45.455 0.00 0.00 37.94 5.24
3599 3648 2.676342 CCACTTTGGGTCTATTGTACGC 59.324 50.000 0.00 0.00 32.67 4.42
3600 3649 3.934068 ACCACTTTGGGTCTATTGTACG 58.066 45.455 0.00 0.00 43.37 3.67
3610 3659 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
3611 3660 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
3612 3661 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
3613 3662 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
3614 3663 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
3615 3664 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
3616 3665 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
3617 3666 3.714001 GGGGAAGGGTCCGACCAC 61.714 72.222 19.43 8.70 46.04 4.16
3618 3667 4.257810 TGGGGAAGGGTCCGACCA 62.258 66.667 19.43 0.00 46.04 4.02
3619 3668 3.400054 CTGGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
3620 3669 2.284405 TCTGGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
3621 3670 2.284405 GTCTGGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
3622 3671 3.400054 GGTCTGGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
3623 3672 3.015753 GGGTCTGGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
3624 3673 2.125225 AGGGTCTGGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
3625 3674 2.204151 CAGGGTCTGGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
3626 3675 3.732849 GCAGGGTCTGGGGAAGGG 61.733 72.222 0.00 0.00 31.21 3.95
3627 3676 4.101448 CGCAGGGTCTGGGGAAGG 62.101 72.222 4.35 0.00 40.11 3.46
3628 3677 4.785453 GCGCAGGGTCTGGGGAAG 62.785 72.222 0.30 0.00 43.28 3.46
3640 3689 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
3643 3692 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
3644 3693 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
3645 3694 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
3646 3695 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
3648 3697 2.176273 CAGTGCATGTAGCTCCCGC 61.176 63.158 0.00 0.00 45.94 6.13
3649 3698 1.522355 CCAGTGCATGTAGCTCCCG 60.522 63.158 0.00 0.00 45.94 5.14
3650 3699 1.153086 CCCAGTGCATGTAGCTCCC 60.153 63.158 0.00 0.00 45.94 4.30
3651 3700 1.153086 CCCCAGTGCATGTAGCTCC 60.153 63.158 0.00 0.00 45.94 4.70
3652 3701 1.821332 GCCCCAGTGCATGTAGCTC 60.821 63.158 0.00 0.00 45.94 4.09
3653 3702 2.273449 GCCCCAGTGCATGTAGCT 59.727 61.111 0.00 0.00 45.94 3.32
3654 3703 2.117156 CAGCCCCAGTGCATGTAGC 61.117 63.158 0.00 0.00 45.96 3.58
3655 3704 2.117156 GCAGCCCCAGTGCATGTAG 61.117 63.158 0.00 0.00 40.86 2.74
3656 3705 2.045045 GCAGCCCCAGTGCATGTA 60.045 61.111 0.00 0.00 40.86 2.29
3667 3716 2.893489 CTCAAATATAAAGGGGCAGCCC 59.107 50.000 24.23 24.23 44.51 5.19
3668 3717 2.297315 GCTCAAATATAAAGGGGCAGCC 59.703 50.000 1.26 1.26 0.00 4.85
3669 3718 3.005155 CAGCTCAAATATAAAGGGGCAGC 59.995 47.826 0.00 0.00 0.00 5.25
3670 3719 4.210331 ACAGCTCAAATATAAAGGGGCAG 58.790 43.478 0.00 0.00 0.00 4.85
3671 3720 4.207165 GACAGCTCAAATATAAAGGGGCA 58.793 43.478 0.00 0.00 0.00 5.36
3672 3721 4.207165 TGACAGCTCAAATATAAAGGGGC 58.793 43.478 0.00 0.00 0.00 5.80
3673 3722 7.884877 TCATATGACAGCTCAAATATAAAGGGG 59.115 37.037 0.00 0.00 0.00 4.79
3674 3723 8.853077 TCATATGACAGCTCAAATATAAAGGG 57.147 34.615 0.00 0.00 0.00 3.95
3675 3724 9.499479 ACTCATATGACAGCTCAAATATAAAGG 57.501 33.333 0.00 0.00 0.00 3.11
3679 3728 9.866798 GATGACTCATATGACAGCTCAAATATA 57.133 33.333 0.00 0.00 0.00 0.86
3745 3794 2.568623 AGGGTTGAAGGCACTACTTG 57.431 50.000 0.00 0.00 38.49 3.16
3862 3914 4.505039 GGAAAACAGGGAGAGCAAGAAGTA 60.505 45.833 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.