Multiple sequence alignment - TraesCS6A01G252800

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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 TraesCS6A01G252800 chr6A 100.000 3826 0 0 1 3826 467485099 467488924 0.000000e+00 7066.0
1 TraesCS6A01G252800 chr6A 94.386 570 31 1 1 569 220761299 220761868 0.000000e+00 874.0
2 TraesCS6A01G252800 chr6A 94.211 570 32 1 1 569 21206599 21206030 0.000000e+00 869.0
3 TraesCS6A01G252800 chr6A 94.035 570 33 1 1 569 22832419 22832988 0.000000e+00 863.0
4 TraesCS6A01G252800 chr6B 94.751 2591 113 13 778 3356 492490930 492493509 0.000000e+00 4010.0
5 TraesCS6A01G252800 chr6B 86.937 222 11 7 570 791 492490691 492490894 2.300000e-57 233.0
6 TraesCS6A01G252800 chr6B 86.574 216 22 4 3354 3566 492493601 492493812 8.270000e-57 231.0
7 TraesCS6A01G252800 chr6B 97.500 40 0 1 3739 3778 664477142 664477180 2.470000e-07 67.6
8 TraesCS6A01G252800 chr6B 95.122 41 1 1 3735 3775 133446795 133446834 3.190000e-06 63.9
9 TraesCS6A01G252800 chr6D 94.859 2587 81 24 778 3356 328612000 328614542 0.000000e+00 3993.0
10 TraesCS6A01G252800 chr6D 94.170 223 13 0 570 792 328611749 328611971 1.320000e-89 340.0
11 TraesCS6A01G252800 chr6D 85.714 224 27 4 3351 3573 328614624 328614843 8.270000e-57 231.0
12 TraesCS6A01G252800 chr5A 94.737 570 29 1 1 569 573564677 573565246 0.000000e+00 885.0
13 TraesCS6A01G252800 chr5A 94.386 570 30 2 1 569 462812639 462812071 0.000000e+00 874.0
14 TraesCS6A01G252800 chr5A 94.211 570 31 2 2 569 54472302 54472871 0.000000e+00 869.0
15 TraesCS6A01G252800 chr5A 94.035 570 33 1 1 569 362737025 362736456 0.000000e+00 863.0
16 TraesCS6A01G252800 chr5A 93.860 570 34 1 1 569 22590989 22591558 0.000000e+00 857.0
17 TraesCS6A01G252800 chr7A 93.870 571 33 2 1 569 603534483 603535053 0.000000e+00 859.0
18 TraesCS6A01G252800 chr2D 87.342 79 9 1 606 684 635150682 635150605 5.260000e-14 89.8
19 TraesCS6A01G252800 chr4B 95.556 45 1 1 3734 3778 562580535 562580492 1.910000e-08 71.3
20 TraesCS6A01G252800 chr3B 90.566 53 5 0 3573 3625 703508669 703508721 1.910000e-08 71.3
21 TraesCS6A01G252800 chr3B 97.368 38 0 1 3737 3774 46103212 46103176 3.190000e-06 63.9
22 TraesCS6A01G252800 chr3A 97.500 40 0 1 3736 3775 696229560 696229598 2.470000e-07 67.6
23 TraesCS6A01G252800 chr3A 97.368 38 0 1 3738 3775 433550641 433550677 3.190000e-06 63.9
24 TraesCS6A01G252800 chr3D 95.238 42 0 2 3735 3774 276744341 276744300 8.870000e-07 65.8
25 TraesCS6A01G252800 chr5B 95.122 41 1 1 3738 3778 19586477 19586438 3.190000e-06 63.9
26 TraesCS6A01G252800 chr5B 95.122 41 1 1 3734 3774 686202666 686202627 3.190000e-06 63.9


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 TraesCS6A01G252800 chr6A 467485099 467488924 3825 False 7066.000000 7066 100.000000 1 3826 1 chr6A.!!$F3 3825
1 TraesCS6A01G252800 chr6A 220761299 220761868 569 False 874.000000 874 94.386000 1 569 1 chr6A.!!$F2 568
2 TraesCS6A01G252800 chr6A 21206030 21206599 569 True 869.000000 869 94.211000 1 569 1 chr6A.!!$R1 568
3 TraesCS6A01G252800 chr6A 22832419 22832988 569 False 863.000000 863 94.035000 1 569 1 chr6A.!!$F1 568
4 TraesCS6A01G252800 chr6B 492490691 492493812 3121 False 1491.333333 4010 89.420667 570 3566 3 chr6B.!!$F3 2996
5 TraesCS6A01G252800 chr6D 328611749 328614843 3094 False 1521.333333 3993 91.581000 570 3573 3 chr6D.!!$F1 3003
6 TraesCS6A01G252800 chr5A 573564677 573565246 569 False 885.000000 885 94.737000 1 569 1 chr5A.!!$F3 568
7 TraesCS6A01G252800 chr5A 462812071 462812639 568 True 874.000000 874 94.386000 1 569 1 chr5A.!!$R2 568
8 TraesCS6A01G252800 chr5A 54472302 54472871 569 False 869.000000 869 94.211000 2 569 1 chr5A.!!$F2 567
9 TraesCS6A01G252800 chr5A 362736456 362737025 569 True 863.000000 863 94.035000 1 569 1 chr5A.!!$R1 568
10 TraesCS6A01G252800 chr5A 22590989 22591558 569 False 857.000000 857 93.860000 1 569 1 chr5A.!!$F1 568
11 TraesCS6A01G252800 chr7A 603534483 603535053 570 False 859.000000 859 93.870000 1 569 1 chr7A.!!$F1 568

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
314 317 0.599204 CTGCTGTCCCGTACGTGTTT 60.599 55.0 15.21 0.00 0.00 2.83 F
1702 1756 0.768221 TGGAGAGGAAACTGTGGCCT 60.768 55.0 3.32 1.75 44.43 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1761 1815 1.395045 CCAGCCTAGTCTCGCCATCA 61.395 60.0 0.00 0.0 0.00 3.07 R
3245 3306 0.455633 GCTTGCCAAGACGAATGCAG 60.456 55.0 9.04 0.0 34.81 4.41 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 93 3.468140 GGTCGGGACAGTAGGCCC 61.468 72.222 0.00 0.00 41.11 5.80
155 158 1.172812 GGTTTTTGGGAGCGCTCAGT 61.173 55.000 36.27 2.34 0.00 3.41
158 161 2.956799 TTTTGGGAGCGCTCAGTGCA 62.957 55.000 36.27 15.93 42.00 4.57
210 213 3.072468 CCGCCGACTACTTCCCCA 61.072 66.667 0.00 0.00 0.00 4.96
289 292 2.282462 CCCCAAGTCCAGCGCTTT 60.282 61.111 7.50 0.00 0.00 3.51
294 297 0.874390 CAAGTCCAGCGCTTTTGCTA 59.126 50.000 7.50 0.00 45.23 3.49
314 317 0.599204 CTGCTGTCCCGTACGTGTTT 60.599 55.000 15.21 0.00 0.00 2.83
324 327 3.063725 CCCGTACGTGTTTTTGTCTTTCA 59.936 43.478 15.21 0.00 0.00 2.69
371 374 5.187967 CCTTGTTCTAGTCCTTGTCCTACAT 59.812 44.000 0.00 0.00 0.00 2.29
385 388 9.261035 CCTTGTCCTACATATGATAGGTTCTAT 57.739 37.037 21.12 0.00 40.27 1.98
439 442 7.097834 GCTTTAGATATGATAGGCTACGGTTT 58.902 38.462 0.00 0.00 0.00 3.27
487 490 5.420104 TCTCTCTGTCAGAATGCATGACTTA 59.580 40.000 17.40 6.94 45.87 2.24
717 721 7.119699 GTCAGAGGTGTTCAACATAATCATTGA 59.880 37.037 0.00 0.00 33.03 2.57
803 856 5.713792 ATCGAATAGATGAATCAGACGGT 57.286 39.130 0.00 0.00 38.36 4.83
885 938 4.022329 GGATTTCTCCCTTGCGAAGAAAAA 60.022 41.667 3.90 0.00 41.06 1.94
917 971 4.511826 CCGTTTCTTTGTAGCTCTGTTTCT 59.488 41.667 0.00 0.00 0.00 2.52
921 975 7.472543 GTTTCTTTGTAGCTCTGTTTCTTTCA 58.527 34.615 0.00 0.00 0.00 2.69
993 1047 5.593502 TCTTTCTAAAAAGTAAAACCCCGCA 59.406 36.000 0.00 0.00 42.17 5.69
1702 1756 0.768221 TGGAGAGGAAACTGTGGCCT 60.768 55.000 3.32 1.75 44.43 5.19
1744 1798 2.680577 CAAAATCTGTTCCAGCAAGCC 58.319 47.619 0.00 0.00 0.00 4.35
1761 1815 2.330216 AGCCCTGTTACTGAGACTTGT 58.670 47.619 0.00 0.00 0.00 3.16
1765 1819 4.248859 CCCTGTTACTGAGACTTGTGATG 58.751 47.826 0.00 0.00 0.00 3.07
1767 1821 3.664107 TGTTACTGAGACTTGTGATGGC 58.336 45.455 0.00 0.00 0.00 4.40
1774 1828 2.423892 GAGACTTGTGATGGCGAGACTA 59.576 50.000 0.00 0.00 0.00 2.59
1782 1836 3.541713 GGCGAGACTAGGCTGGGG 61.542 72.222 0.42 0.00 0.00 4.96
1868 1922 3.200605 GGATCAAATGGGGCAGGAAAATT 59.799 43.478 0.00 0.00 0.00 1.82
1885 1939 7.063780 CAGGAAAATTTGATATTGAACCTGCAC 59.936 37.037 0.00 0.00 35.56 4.57
1897 1951 0.884704 ACCTGCACTTGGTACTTGCG 60.885 55.000 0.00 0.00 39.22 4.85
1950 2004 4.583871 AGACCATCTGTTCTGATTCAACC 58.416 43.478 0.00 0.00 0.00 3.77
1951 2005 4.288105 AGACCATCTGTTCTGATTCAACCT 59.712 41.667 0.00 0.00 0.00 3.50
1962 2016 6.187727 TCTGATTCAACCTTAGGTTCAGTT 57.812 37.500 22.67 7.61 43.05 3.16
2042 2096 5.356470 GTGAAAAGGAGAGAATGCAAGCTAT 59.644 40.000 0.00 0.00 0.00 2.97
2058 2112 8.613060 TGCAAGCTATAAATATTCAGAAGGAG 57.387 34.615 0.00 0.00 0.00 3.69
2534 2589 1.071471 CGAGGTTGGACTGCACCTT 59.929 57.895 0.00 0.00 43.94 3.50
2699 2754 1.947678 GCTGTAGCACTCTGGTTGCAT 60.948 52.381 0.00 0.00 41.59 3.96
2700 2755 1.736126 CTGTAGCACTCTGGTTGCATG 59.264 52.381 0.00 0.00 0.00 4.06
2702 2757 1.020861 TAGCACTCTGGTTGCATGCG 61.021 55.000 14.09 0.00 41.23 4.73
2889 2944 2.897969 GTCCTGTTCACCTGGAGAGTTA 59.102 50.000 0.00 0.00 41.39 2.24
2933 2988 1.809547 GAAGAGAAAGGGTTGCTGCTC 59.190 52.381 0.00 0.00 0.00 4.26
2950 3005 2.284190 GCTCTTGTCCTATGAAGTGCC 58.716 52.381 0.00 0.00 34.22 5.01
3091 3151 9.261180 TGTAATACTTTGAGACAGTTTTGAGAG 57.739 33.333 0.00 0.00 0.00 3.20
3093 3153 4.455606 ACTTTGAGACAGTTTTGAGAGGG 58.544 43.478 0.00 0.00 0.00 4.30
3095 3155 4.771114 TTGAGACAGTTTTGAGAGGGAA 57.229 40.909 0.00 0.00 0.00 3.97
3096 3156 4.073293 TGAGACAGTTTTGAGAGGGAAC 57.927 45.455 0.00 0.00 0.00 3.62
3187 3248 7.414540 GGCTTAGACCTGAAATATGTTGTTCTG 60.415 40.741 0.00 0.00 0.00 3.02
3269 3334 0.603707 TTCGTCTTGGCAAGCTCCAG 60.604 55.000 22.31 10.82 37.44 3.86
3277 3342 3.650281 TGGCAAGCTCCAGATTGATTA 57.350 42.857 8.75 0.00 43.50 1.75
3286 3351 6.289834 AGCTCCAGATTGATTAAGACTCATG 58.710 40.000 0.00 0.00 0.00 3.07
3299 3364 2.437281 AGACTCATGTCCATTGCTAGGG 59.563 50.000 0.00 0.00 43.91 3.53
3300 3365 2.435805 GACTCATGTCCATTGCTAGGGA 59.564 50.000 0.00 0.00 37.24 4.20
3330 3395 6.411630 TGTGTGTTTACTGTTACTTGACAC 57.588 37.500 0.00 0.00 37.14 3.67
3346 3412 6.985117 ACTTGACACATGTTAATTTGCTCAT 58.015 32.000 0.00 0.00 0.00 2.90
3352 3418 8.301730 ACACATGTTAATTTGCTCATTTTGAG 57.698 30.769 0.00 0.08 46.90 3.02
3358 3518 9.421806 TGTTAATTTGCTCATTTTGAGGTATTG 57.578 29.630 6.64 0.00 44.43 1.90
3359 3519 6.973229 AATTTGCTCATTTTGAGGTATTGC 57.027 33.333 6.64 0.00 44.43 3.56
3367 3527 7.087409 TCATTTTGAGGTATTGCACATACAG 57.913 36.000 15.97 0.00 0.00 2.74
3378 3538 9.931210 GGTATTGCACATACAGATTTAACTTAC 57.069 33.333 15.97 0.00 0.00 2.34
3409 3569 2.434185 ATGTACGCCTGTGCCACG 60.434 61.111 0.00 0.00 0.00 4.94
3414 3574 2.443260 TACGCCTGTGCCACGTGATT 62.443 55.000 19.30 0.00 40.78 2.57
3420 3580 1.065401 CTGTGCCACGTGATTTGTTGT 59.935 47.619 19.30 0.00 0.00 3.32
3421 3581 2.289274 CTGTGCCACGTGATTTGTTGTA 59.711 45.455 19.30 0.00 0.00 2.41
3422 3582 2.032302 TGTGCCACGTGATTTGTTGTAC 59.968 45.455 19.30 8.50 0.00 2.90
3424 3584 1.068816 GCCACGTGATTTGTTGTACCC 60.069 52.381 19.30 0.00 0.00 3.69
3454 3616 9.383519 CTGCTTGATTTAGTGATCTAAAAGGTA 57.616 33.333 4.86 0.00 45.40 3.08
3455 3617 9.162764 TGCTTGATTTAGTGATCTAAAAGGTAC 57.837 33.333 4.86 0.00 45.40 3.34
3480 3642 6.558009 TGTATTAGTTTACAGAGGCAGTACG 58.442 40.000 0.00 0.00 0.00 3.67
3566 3728 0.250727 ACAATGGTGTTCTGACCCCG 60.251 55.000 0.00 0.00 32.58 5.73
3567 3729 0.960364 CAATGGTGTTCTGACCCCGG 60.960 60.000 0.00 0.00 34.79 5.73
3573 3735 1.122632 TGTTCTGACCCCGGTTGCTA 61.123 55.000 0.00 0.00 0.00 3.49
3574 3736 0.672711 GTTCTGACCCCGGTTGCTAC 60.673 60.000 0.00 0.00 0.00 3.58
3575 3737 0.834687 TTCTGACCCCGGTTGCTACT 60.835 55.000 0.00 0.00 0.00 2.57
3576 3738 1.218316 CTGACCCCGGTTGCTACTC 59.782 63.158 0.00 0.00 0.00 2.59
3577 3739 2.240162 CTGACCCCGGTTGCTACTCC 62.240 65.000 0.00 0.00 0.00 3.85
3578 3740 1.988406 GACCCCGGTTGCTACTCCT 60.988 63.158 0.00 0.00 0.00 3.69
3579 3741 1.538135 ACCCCGGTTGCTACTCCTT 60.538 57.895 0.00 0.00 0.00 3.36
3580 3742 1.221021 CCCCGGTTGCTACTCCTTC 59.779 63.158 0.00 0.00 0.00 3.46
3581 3743 1.265454 CCCCGGTTGCTACTCCTTCT 61.265 60.000 0.00 0.00 0.00 2.85
3582 3744 0.108138 CCCGGTTGCTACTCCTTCTG 60.108 60.000 0.00 0.00 0.00 3.02
3583 3745 0.608640 CCGGTTGCTACTCCTTCTGT 59.391 55.000 0.00 0.00 0.00 3.41
3584 3746 1.002087 CCGGTTGCTACTCCTTCTGTT 59.998 52.381 0.00 0.00 0.00 3.16
3585 3747 2.338500 CGGTTGCTACTCCTTCTGTTC 58.662 52.381 0.00 0.00 0.00 3.18
3586 3748 2.701107 GGTTGCTACTCCTTCTGTTCC 58.299 52.381 0.00 0.00 0.00 3.62
3587 3749 2.615747 GGTTGCTACTCCTTCTGTTCCC 60.616 54.545 0.00 0.00 0.00 3.97
3588 3750 0.895530 TGCTACTCCTTCTGTTCCCG 59.104 55.000 0.00 0.00 0.00 5.14
3589 3751 1.183549 GCTACTCCTTCTGTTCCCGA 58.816 55.000 0.00 0.00 0.00 5.14
3590 3752 1.549170 GCTACTCCTTCTGTTCCCGAA 59.451 52.381 0.00 0.00 0.00 4.30
3591 3753 2.168728 GCTACTCCTTCTGTTCCCGAAT 59.831 50.000 0.00 0.00 0.00 3.34
3592 3754 3.383825 GCTACTCCTTCTGTTCCCGAATA 59.616 47.826 0.00 0.00 0.00 1.75
3593 3755 4.039366 GCTACTCCTTCTGTTCCCGAATAT 59.961 45.833 0.00 0.00 0.00 1.28
3594 3756 5.243283 GCTACTCCTTCTGTTCCCGAATATA 59.757 44.000 0.00 0.00 0.00 0.86
3595 3757 6.239232 GCTACTCCTTCTGTTCCCGAATATAA 60.239 42.308 0.00 0.00 0.00 0.98
3596 3758 6.163135 ACTCCTTCTGTTCCCGAATATAAG 57.837 41.667 0.00 0.00 0.00 1.73
3597 3759 5.661759 ACTCCTTCTGTTCCCGAATATAAGT 59.338 40.000 0.00 0.00 0.00 2.24
3598 3760 6.158023 TCCTTCTGTTCCCGAATATAAGTC 57.842 41.667 0.00 0.00 0.00 3.01
3599 3761 5.897824 TCCTTCTGTTCCCGAATATAAGTCT 59.102 40.000 0.00 0.00 0.00 3.24
3600 3762 6.383147 TCCTTCTGTTCCCGAATATAAGTCTT 59.617 38.462 0.00 0.00 0.00 3.01
3601 3763 7.048512 CCTTCTGTTCCCGAATATAAGTCTTT 58.951 38.462 0.00 0.00 0.00 2.52
3602 3764 7.224949 CCTTCTGTTCCCGAATATAAGTCTTTC 59.775 40.741 0.00 0.00 0.00 2.62
3603 3765 7.419711 TCTGTTCCCGAATATAAGTCTTTCT 57.580 36.000 0.00 0.00 0.00 2.52
3604 3766 8.529424 TCTGTTCCCGAATATAAGTCTTTCTA 57.471 34.615 0.00 0.00 0.00 2.10
3605 3767 8.974238 TCTGTTCCCGAATATAAGTCTTTCTAA 58.026 33.333 0.00 0.00 0.00 2.10
3606 3768 9.595823 CTGTTCCCGAATATAAGTCTTTCTAAA 57.404 33.333 0.00 0.00 0.00 1.85
3607 3769 9.595823 TGTTCCCGAATATAAGTCTTTCTAAAG 57.404 33.333 0.00 0.00 37.36 1.85
3608 3770 9.043079 GTTCCCGAATATAAGTCTTTCTAAAGG 57.957 37.037 2.77 0.00 36.67 3.11
3609 3771 8.315220 TCCCGAATATAAGTCTTTCTAAAGGT 57.685 34.615 2.77 0.00 36.67 3.50
3610 3772 8.765517 TCCCGAATATAAGTCTTTCTAAAGGTT 58.234 33.333 2.77 0.74 36.67 3.50
3611 3773 9.043079 CCCGAATATAAGTCTTTCTAAAGGTTC 57.957 37.037 2.77 0.00 36.67 3.62
3612 3774 9.043079 CCGAATATAAGTCTTTCTAAAGGTTCC 57.957 37.037 2.77 0.00 36.67 3.62
3613 3775 9.595823 CGAATATAAGTCTTTCTAAAGGTTCCA 57.404 33.333 2.77 0.00 36.67 3.53
3617 3779 8.990163 ATAAGTCTTTCTAAAGGTTCCAACAA 57.010 30.769 2.77 0.00 36.67 2.83
3618 3780 7.712204 AAGTCTTTCTAAAGGTTCCAACAAA 57.288 32.000 2.77 0.00 36.67 2.83
3619 3781 7.898014 AGTCTTTCTAAAGGTTCCAACAAAT 57.102 32.000 2.77 0.00 36.67 2.32
3620 3782 7.716612 AGTCTTTCTAAAGGTTCCAACAAATG 58.283 34.615 2.77 0.00 36.67 2.32
3621 3783 7.559897 AGTCTTTCTAAAGGTTCCAACAAATGA 59.440 33.333 2.77 0.00 36.67 2.57
3622 3784 7.648112 GTCTTTCTAAAGGTTCCAACAAATGAC 59.352 37.037 2.77 0.00 36.67 3.06
3623 3785 7.559897 TCTTTCTAAAGGTTCCAACAAATGACT 59.440 33.333 2.77 0.00 36.67 3.41
3624 3786 8.754991 TTTCTAAAGGTTCCAACAAATGACTA 57.245 30.769 0.00 0.00 0.00 2.59
3625 3787 8.934023 TTCTAAAGGTTCCAACAAATGACTAT 57.066 30.769 0.00 0.00 0.00 2.12
3630 3792 9.747898 AAAGGTTCCAACAAATGACTATATACA 57.252 29.630 0.00 0.00 0.00 2.29
3631 3793 8.964476 AGGTTCCAACAAATGACTATATACAG 57.036 34.615 0.00 0.00 0.00 2.74
3632 3794 8.768397 AGGTTCCAACAAATGACTATATACAGA 58.232 33.333 0.00 0.00 0.00 3.41
3633 3795 9.391006 GGTTCCAACAAATGACTATATACAGAA 57.609 33.333 0.00 0.00 0.00 3.02
3635 3797 9.952030 TTCCAACAAATGACTATATACAGAACA 57.048 29.630 0.00 0.00 0.00 3.18
3636 3798 9.952030 TCCAACAAATGACTATATACAGAACAA 57.048 29.630 0.00 0.00 0.00 2.83
3647 3809 9.507329 ACTATATACAGAACAATTAGCAATGGG 57.493 33.333 0.00 0.00 0.00 4.00
3648 3810 3.874392 ACAGAACAATTAGCAATGGGC 57.126 42.857 0.00 0.00 45.30 5.36
3660 3822 2.996631 GCAATGGGCTATCCTATCCAG 58.003 52.381 0.00 0.00 40.25 3.86
3661 3823 2.943199 GCAATGGGCTATCCTATCCAGC 60.943 54.545 0.00 0.00 40.25 4.85
3662 3824 2.306805 CAATGGGCTATCCTATCCAGCA 59.693 50.000 0.00 0.00 37.02 4.41
3663 3825 2.349167 TGGGCTATCCTATCCAGCAT 57.651 50.000 0.00 0.00 37.02 3.79
3664 3826 2.191400 TGGGCTATCCTATCCAGCATC 58.809 52.381 0.00 0.00 37.02 3.91
3665 3827 1.488393 GGGCTATCCTATCCAGCATCC 59.512 57.143 0.00 0.00 37.02 3.51
3666 3828 2.476199 GGCTATCCTATCCAGCATCCT 58.524 52.381 0.00 0.00 37.02 3.24
3667 3829 2.843113 GGCTATCCTATCCAGCATCCTT 59.157 50.000 0.00 0.00 37.02 3.36
3668 3830 3.118445 GGCTATCCTATCCAGCATCCTTC 60.118 52.174 0.00 0.00 37.02 3.46
3669 3831 3.118445 GCTATCCTATCCAGCATCCTTCC 60.118 52.174 0.00 0.00 35.35 3.46
3670 3832 1.342074 TCCTATCCAGCATCCTTCCG 58.658 55.000 0.00 0.00 0.00 4.30
3671 3833 1.051812 CCTATCCAGCATCCTTCCGT 58.948 55.000 0.00 0.00 0.00 4.69
3672 3834 2.158370 TCCTATCCAGCATCCTTCCGTA 60.158 50.000 0.00 0.00 0.00 4.02
3673 3835 2.834549 CCTATCCAGCATCCTTCCGTAT 59.165 50.000 0.00 0.00 0.00 3.06
3674 3836 3.261897 CCTATCCAGCATCCTTCCGTATT 59.738 47.826 0.00 0.00 0.00 1.89
3675 3837 2.910688 TCCAGCATCCTTCCGTATTC 57.089 50.000 0.00 0.00 0.00 1.75
3676 3838 2.398588 TCCAGCATCCTTCCGTATTCT 58.601 47.619 0.00 0.00 0.00 2.40
3677 3839 2.365617 TCCAGCATCCTTCCGTATTCTC 59.634 50.000 0.00 0.00 0.00 2.87
3678 3840 2.366916 CCAGCATCCTTCCGTATTCTCT 59.633 50.000 0.00 0.00 0.00 3.10
3679 3841 3.181461 CCAGCATCCTTCCGTATTCTCTT 60.181 47.826 0.00 0.00 0.00 2.85
3680 3842 4.039245 CCAGCATCCTTCCGTATTCTCTTA 59.961 45.833 0.00 0.00 0.00 2.10
3681 3843 4.985409 CAGCATCCTTCCGTATTCTCTTAC 59.015 45.833 0.00 0.00 0.00 2.34
3682 3844 4.039366 AGCATCCTTCCGTATTCTCTTACC 59.961 45.833 0.00 0.00 0.00 2.85
3683 3845 4.039366 GCATCCTTCCGTATTCTCTTACCT 59.961 45.833 0.00 0.00 0.00 3.08
3684 3846 5.533482 CATCCTTCCGTATTCTCTTACCTG 58.467 45.833 0.00 0.00 0.00 4.00
3685 3847 4.607239 TCCTTCCGTATTCTCTTACCTGT 58.393 43.478 0.00 0.00 0.00 4.00
3686 3848 4.401519 TCCTTCCGTATTCTCTTACCTGTG 59.598 45.833 0.00 0.00 0.00 3.66
3687 3849 4.159879 CCTTCCGTATTCTCTTACCTGTGT 59.840 45.833 0.00 0.00 0.00 3.72
3688 3850 5.337330 CCTTCCGTATTCTCTTACCTGTGTT 60.337 44.000 0.00 0.00 0.00 3.32
3689 3851 5.733620 TCCGTATTCTCTTACCTGTGTTT 57.266 39.130 0.00 0.00 0.00 2.83
3690 3852 5.475719 TCCGTATTCTCTTACCTGTGTTTG 58.524 41.667 0.00 0.00 0.00 2.93
3691 3853 5.244402 TCCGTATTCTCTTACCTGTGTTTGA 59.756 40.000 0.00 0.00 0.00 2.69
3692 3854 5.347907 CCGTATTCTCTTACCTGTGTTTGAC 59.652 44.000 0.00 0.00 0.00 3.18
3693 3855 5.347907 CGTATTCTCTTACCTGTGTTTGACC 59.652 44.000 0.00 0.00 0.00 4.02
3694 3856 3.380479 TCTCTTACCTGTGTTTGACCG 57.620 47.619 0.00 0.00 0.00 4.79
3695 3857 2.696707 TCTCTTACCTGTGTTTGACCGT 59.303 45.455 0.00 0.00 0.00 4.83
3696 3858 3.133362 TCTCTTACCTGTGTTTGACCGTT 59.867 43.478 0.00 0.00 0.00 4.44
3697 3859 4.341806 TCTCTTACCTGTGTTTGACCGTTA 59.658 41.667 0.00 0.00 0.00 3.18
3698 3860 5.011329 TCTCTTACCTGTGTTTGACCGTTAT 59.989 40.000 0.00 0.00 0.00 1.89
3699 3861 5.232463 TCTTACCTGTGTTTGACCGTTATC 58.768 41.667 0.00 0.00 0.00 1.75
3700 3862 3.478857 ACCTGTGTTTGACCGTTATCA 57.521 42.857 0.00 0.00 0.00 2.15
3701 3863 3.399330 ACCTGTGTTTGACCGTTATCAG 58.601 45.455 0.00 0.00 0.00 2.90
3702 3864 2.159627 CCTGTGTTTGACCGTTATCAGC 59.840 50.000 0.00 0.00 0.00 4.26
3703 3865 2.805671 CTGTGTTTGACCGTTATCAGCA 59.194 45.455 0.00 0.00 0.00 4.41
3704 3866 2.805671 TGTGTTTGACCGTTATCAGCAG 59.194 45.455 0.00 0.00 0.00 4.24
3705 3867 1.804151 TGTTTGACCGTTATCAGCAGC 59.196 47.619 0.00 0.00 0.00 5.25
3706 3868 1.804151 GTTTGACCGTTATCAGCAGCA 59.196 47.619 0.00 0.00 0.00 4.41
3707 3869 1.725641 TTGACCGTTATCAGCAGCAG 58.274 50.000 0.00 0.00 0.00 4.24
3708 3870 0.608130 TGACCGTTATCAGCAGCAGT 59.392 50.000 0.00 0.00 0.00 4.40
3709 3871 1.822371 TGACCGTTATCAGCAGCAGTA 59.178 47.619 0.00 0.00 0.00 2.74
3710 3872 2.430694 TGACCGTTATCAGCAGCAGTAT 59.569 45.455 0.00 0.00 0.00 2.12
3711 3873 3.634910 TGACCGTTATCAGCAGCAGTATA 59.365 43.478 0.00 0.00 0.00 1.47
3712 3874 4.098807 TGACCGTTATCAGCAGCAGTATAA 59.901 41.667 0.00 0.00 0.00 0.98
3713 3875 4.621991 ACCGTTATCAGCAGCAGTATAAG 58.378 43.478 0.00 0.00 0.00 1.73
3714 3876 4.099573 ACCGTTATCAGCAGCAGTATAAGT 59.900 41.667 0.00 0.00 0.00 2.24
3715 3877 4.681942 CCGTTATCAGCAGCAGTATAAGTC 59.318 45.833 0.00 0.00 0.00 3.01
3716 3878 5.281727 CGTTATCAGCAGCAGTATAAGTCA 58.718 41.667 0.00 0.00 0.00 3.41
3717 3879 5.923114 CGTTATCAGCAGCAGTATAAGTCAT 59.077 40.000 0.00 0.00 0.00 3.06
3718 3880 7.084486 CGTTATCAGCAGCAGTATAAGTCATA 58.916 38.462 0.00 0.00 0.00 2.15
3719 3881 7.272299 CGTTATCAGCAGCAGTATAAGTCATAG 59.728 40.741 0.00 0.00 0.00 2.23
3720 3882 6.907853 ATCAGCAGCAGTATAAGTCATAGA 57.092 37.500 0.00 0.00 0.00 1.98
3721 3883 6.324561 TCAGCAGCAGTATAAGTCATAGAG 57.675 41.667 0.00 0.00 0.00 2.43
3722 3884 4.922692 CAGCAGCAGTATAAGTCATAGAGC 59.077 45.833 0.00 0.00 0.00 4.09
3723 3885 4.586421 AGCAGCAGTATAAGTCATAGAGCA 59.414 41.667 0.00 0.00 0.00 4.26
3724 3886 5.245751 AGCAGCAGTATAAGTCATAGAGCAT 59.754 40.000 0.00 0.00 0.00 3.79
3725 3887 5.348179 GCAGCAGTATAAGTCATAGAGCATG 59.652 44.000 0.00 0.00 35.81 4.06
3726 3888 6.453943 CAGCAGTATAAGTCATAGAGCATGT 58.546 40.000 0.00 0.00 35.96 3.21
3727 3889 6.365518 CAGCAGTATAAGTCATAGAGCATGTG 59.634 42.308 0.00 0.00 35.96 3.21
3728 3890 5.119898 GCAGTATAAGTCATAGAGCATGTGC 59.880 44.000 0.00 0.00 42.49 4.57
3729 3891 5.636965 CAGTATAAGTCATAGAGCATGTGCC 59.363 44.000 0.57 0.00 43.38 5.01
3730 3892 2.338577 AAGTCATAGAGCATGTGCCC 57.661 50.000 0.57 0.00 43.38 5.36
3731 3893 1.504912 AGTCATAGAGCATGTGCCCT 58.495 50.000 0.57 0.00 43.38 5.19
3732 3894 1.140452 AGTCATAGAGCATGTGCCCTG 59.860 52.381 0.57 0.00 43.38 4.45
3733 3895 0.179037 TCATAGAGCATGTGCCCTGC 60.179 55.000 0.57 0.00 43.38 4.85
3734 3896 0.464916 CATAGAGCATGTGCCCTGCA 60.465 55.000 0.57 0.00 42.15 4.41
3735 3897 0.477204 ATAGAGCATGTGCCCTGCAT 59.523 50.000 0.57 0.00 41.91 3.96
3736 3898 1.130777 TAGAGCATGTGCCCTGCATA 58.869 50.000 0.57 0.00 41.91 3.14
3737 3899 0.465097 AGAGCATGTGCCCTGCATAC 60.465 55.000 0.57 0.00 41.91 2.39
3738 3900 0.465097 GAGCATGTGCCCTGCATACT 60.465 55.000 0.57 0.00 41.91 2.12
3739 3901 0.839277 AGCATGTGCCCTGCATACTA 59.161 50.000 0.57 0.00 41.91 1.82
3740 3902 0.947244 GCATGTGCCCTGCATACTAC 59.053 55.000 0.00 0.00 41.91 2.73
3741 3903 1.475751 GCATGTGCCCTGCATACTACT 60.476 52.381 0.00 0.00 41.91 2.57
3742 3904 2.923121 CATGTGCCCTGCATACTACTT 58.077 47.619 0.00 0.00 41.91 2.24
3743 3905 2.691409 TGTGCCCTGCATACTACTTC 57.309 50.000 0.00 0.00 41.91 3.01
3744 3906 1.209504 TGTGCCCTGCATACTACTTCC 59.790 52.381 0.00 0.00 41.91 3.46
3745 3907 1.486726 GTGCCCTGCATACTACTTCCT 59.513 52.381 0.00 0.00 41.91 3.36
3746 3908 1.762957 TGCCCTGCATACTACTTCCTC 59.237 52.381 0.00 0.00 31.71 3.71
3747 3909 1.070914 GCCCTGCATACTACTTCCTCC 59.929 57.143 0.00 0.00 0.00 4.30
3748 3910 1.341531 CCCTGCATACTACTTCCTCCG 59.658 57.143 0.00 0.00 0.00 4.63
3749 3911 2.032620 CCTGCATACTACTTCCTCCGT 58.967 52.381 0.00 0.00 0.00 4.69
3750 3912 2.431057 CCTGCATACTACTTCCTCCGTT 59.569 50.000 0.00 0.00 0.00 4.44
3751 3913 3.118738 CCTGCATACTACTTCCTCCGTTT 60.119 47.826 0.00 0.00 0.00 3.60
3752 3914 4.113354 CTGCATACTACTTCCTCCGTTTC 58.887 47.826 0.00 0.00 0.00 2.78
3753 3915 3.767673 TGCATACTACTTCCTCCGTTTCT 59.232 43.478 0.00 0.00 0.00 2.52
3754 3916 4.951715 TGCATACTACTTCCTCCGTTTCTA 59.048 41.667 0.00 0.00 0.00 2.10
3755 3917 5.419788 TGCATACTACTTCCTCCGTTTCTAA 59.580 40.000 0.00 0.00 0.00 2.10
3756 3918 6.071221 TGCATACTACTTCCTCCGTTTCTAAA 60.071 38.462 0.00 0.00 0.00 1.85
3757 3919 6.985059 GCATACTACTTCCTCCGTTTCTAAAT 59.015 38.462 0.00 0.00 0.00 1.40
3758 3920 8.139989 GCATACTACTTCCTCCGTTTCTAAATA 58.860 37.037 0.00 0.00 0.00 1.40
3765 3927 8.979534 ACTTCCTCCGTTTCTAAATATAAGTCT 58.020 33.333 0.00 0.00 0.00 3.24
3766 3928 9.819267 CTTCCTCCGTTTCTAAATATAAGTCTT 57.181 33.333 0.00 0.00 0.00 3.01
3785 3947 7.948278 AGTCTTATTTAGATGTTATGCGACC 57.052 36.000 0.00 0.00 34.79 4.79
3786 3948 7.497595 AGTCTTATTTAGATGTTATGCGACCA 58.502 34.615 0.00 0.00 34.79 4.02
3787 3949 7.985184 AGTCTTATTTAGATGTTATGCGACCAA 59.015 33.333 0.00 0.00 34.79 3.67
3788 3950 8.062448 GTCTTATTTAGATGTTATGCGACCAAC 58.938 37.037 0.00 0.00 34.79 3.77
3789 3951 7.985184 TCTTATTTAGATGTTATGCGACCAACT 59.015 33.333 0.00 0.00 0.00 3.16
3790 3952 8.500753 TTATTTAGATGTTATGCGACCAACTT 57.499 30.769 0.00 0.00 0.00 2.66
3791 3953 9.602568 TTATTTAGATGTTATGCGACCAACTTA 57.397 29.630 0.00 0.00 0.00 2.24
3792 3954 6.897259 TTAGATGTTATGCGACCAACTTAC 57.103 37.500 0.00 0.00 0.00 2.34
3793 3955 4.189231 AGATGTTATGCGACCAACTTACC 58.811 43.478 0.00 0.00 0.00 2.85
3794 3956 3.404224 TGTTATGCGACCAACTTACCA 57.596 42.857 0.00 0.00 0.00 3.25
3795 3957 3.945346 TGTTATGCGACCAACTTACCAT 58.055 40.909 0.00 0.00 0.00 3.55
3796 3958 3.687212 TGTTATGCGACCAACTTACCATG 59.313 43.478 0.00 0.00 0.00 3.66
3797 3959 1.750193 ATGCGACCAACTTACCATGG 58.250 50.000 11.19 11.19 42.60 3.66
3822 3984 8.248253 GGTAATACCAACCTTTTACATTTCTGG 58.752 37.037 4.24 0.00 38.42 3.86
3823 3985 4.600692 ACCAACCTTTTACATTTCTGGC 57.399 40.909 0.00 0.00 0.00 4.85
3824 3986 4.223144 ACCAACCTTTTACATTTCTGGCT 58.777 39.130 0.00 0.00 0.00 4.75
3825 3987 4.653801 ACCAACCTTTTACATTTCTGGCTT 59.346 37.500 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
91 93 1.001378 CTCAAAAGGTGCGGTTTCAGG 60.001 52.381 0.00 0.00 0.00 3.86
155 158 2.908688 TGAAGCAGTCAGTAGTTGCA 57.091 45.000 0.00 0.00 40.22 4.08
158 161 3.579709 CGTGATGAAGCAGTCAGTAGTT 58.420 45.455 0.00 0.00 40.43 2.24
196 199 0.108945 GTCGTTGGGGAAGTAGTCGG 60.109 60.000 0.00 0.00 0.00 4.79
210 213 1.174712 TCGGGGAAGAAGTCGTCGTT 61.175 55.000 0.00 0.00 0.00 3.85
289 292 0.245539 GTACGGGACAGCAGTAGCAA 59.754 55.000 0.00 0.00 45.49 3.91
294 297 1.741327 AACACGTACGGGACAGCAGT 61.741 55.000 27.01 0.00 0.00 4.40
314 317 7.867403 GGCAGAATCTTTAACATGAAAGACAAA 59.133 33.333 10.78 0.00 45.70 2.83
324 327 5.183904 GGAACTGTGGCAGAATCTTTAACAT 59.816 40.000 2.91 0.00 35.18 2.71
677 681 3.278574 CCTCTGACAACACTGAAAACCA 58.721 45.455 0.00 0.00 0.00 3.67
690 694 5.863965 TGATTATGTTGAACACCTCTGACA 58.136 37.500 0.00 0.00 0.00 3.58
775 779 8.759641 CGTCTGATTCATCTATTCGATTCTTTT 58.240 33.333 0.00 0.00 0.00 2.27
885 938 4.698780 GCTACAAAGAAACGGGAGGTTATT 59.301 41.667 0.00 0.00 43.81 1.40
886 939 4.019591 AGCTACAAAGAAACGGGAGGTTAT 60.020 41.667 0.00 0.00 41.96 1.89
917 971 0.610785 GAGGGGGCACGGAATTGAAA 60.611 55.000 0.00 0.00 0.00 2.69
921 975 2.614013 AGGAGGGGGCACGGAATT 60.614 61.111 0.00 0.00 0.00 2.17
1404 1458 4.498520 CGGATCTGTGGCGCGAGT 62.499 66.667 12.10 0.00 0.00 4.18
1702 1756 3.328931 GCATCCCCTAATTCTCCATGAGA 59.671 47.826 0.00 0.00 36.86 3.27
1744 1798 4.248859 CCATCACAAGTCTCAGTAACAGG 58.751 47.826 0.00 0.00 0.00 4.00
1761 1815 1.395045 CCAGCCTAGTCTCGCCATCA 61.395 60.000 0.00 0.00 0.00 3.07
1765 1819 3.541713 CCCCAGCCTAGTCTCGCC 61.542 72.222 0.00 0.00 0.00 5.54
1782 1836 7.327975 TCGGTATATCAATCATTACATCACCC 58.672 38.462 0.00 0.00 0.00 4.61
1868 1922 4.406456 ACCAAGTGCAGGTTCAATATCAA 58.594 39.130 0.00 0.00 35.33 2.57
1885 1939 3.181516 GCTTCAGAATCGCAAGTACCAAG 60.182 47.826 0.00 0.00 39.48 3.61
1897 1951 3.674997 TGGTTGGTACAGCTTCAGAATC 58.325 45.455 0.00 0.00 42.39 2.52
1950 2004 4.377431 GCAACGACATCAACTGAACCTAAG 60.377 45.833 0.00 0.00 0.00 2.18
1951 2005 3.496884 GCAACGACATCAACTGAACCTAA 59.503 43.478 0.00 0.00 0.00 2.69
1962 2016 2.560504 ACAACTGAAGCAACGACATCA 58.439 42.857 0.00 0.00 0.00 3.07
2442 2497 6.707161 ACAAACAATAAATCAGCAAGCAACAT 59.293 30.769 0.00 0.00 0.00 2.71
2516 2571 1.071471 AAGGTGCAGTCCAACCTCG 59.929 57.895 0.00 0.00 0.00 4.63
2534 2589 9.571816 TTATATGAGGTAAACATGCATTCATCA 57.428 29.630 10.30 6.70 0.00 3.07
2699 2754 1.378531 AGTTTCTGCTGTTCAACGCA 58.621 45.000 6.83 6.83 34.54 5.24
2700 2755 3.424962 GGATAGTTTCTGCTGTTCAACGC 60.425 47.826 0.00 0.00 0.00 4.84
2702 2757 4.997395 TCTGGATAGTTTCTGCTGTTCAAC 59.003 41.667 0.00 0.00 0.00 3.18
2833 2888 3.270027 CATCGGTCTTGCATGTTCCTTA 58.730 45.455 0.00 0.00 0.00 2.69
2889 2944 7.725251 TCAGTCTTTATTCCAAGCAATGTTTT 58.275 30.769 0.00 0.00 0.00 2.43
2933 2988 1.656652 CCGGCACTTCATAGGACAAG 58.343 55.000 0.00 0.00 0.00 3.16
2950 3005 0.808125 TTCCGACCATTTTGATGCCG 59.192 50.000 0.00 0.00 0.00 5.69
3001 3057 5.069119 TGATCTCCGCTGTAACAGATATTGT 59.931 40.000 0.00 0.00 43.45 2.71
3070 3130 5.365605 TCCCTCTCAAAACTGTCTCAAAGTA 59.634 40.000 0.00 0.00 0.00 2.24
3074 3134 4.164221 AGTTCCCTCTCAAAACTGTCTCAA 59.836 41.667 0.00 0.00 32.22 3.02
3091 3151 1.286305 TTCCAGGGGGCATAGTTCCC 61.286 60.000 0.00 0.00 43.15 3.97
3093 3153 2.525105 TTTTCCAGGGGGCATAGTTC 57.475 50.000 0.00 0.00 0.00 3.01
3095 3155 3.131252 AGTATTTTCCAGGGGGCATAGT 58.869 45.455 0.00 0.00 0.00 2.12
3096 3156 3.884037 AGTATTTTCCAGGGGGCATAG 57.116 47.619 0.00 0.00 0.00 2.23
3245 3306 0.455633 GCTTGCCAAGACGAATGCAG 60.456 55.000 9.04 0.00 34.81 4.41
3269 3334 7.013083 AGCAATGGACATGAGTCTTAATCAATC 59.987 37.037 0.00 0.00 44.36 2.67
3277 3342 3.118112 CCCTAGCAATGGACATGAGTCTT 60.118 47.826 0.00 0.00 44.36 3.01
3286 3351 3.026694 AGCAATTTCCCTAGCAATGGAC 58.973 45.455 0.00 0.00 0.00 4.02
3299 3364 7.193595 AGTAACAGTAAACACACAGCAATTTC 58.806 34.615 0.00 0.00 0.00 2.17
3300 3365 7.095695 AGTAACAGTAAACACACAGCAATTT 57.904 32.000 0.00 0.00 0.00 1.82
3330 3395 7.894376 ACCTCAAAATGAGCAAATTAACATG 57.106 32.000 1.79 0.00 42.98 3.21
3346 3412 7.701539 AATCTGTATGTGCAATACCTCAAAA 57.298 32.000 13.15 0.00 0.00 2.44
3352 3418 9.931210 GTAAGTTAAATCTGTATGTGCAATACC 57.069 33.333 13.15 0.00 0.00 2.73
3358 3518 8.029642 ACACAGTAAGTTAAATCTGTATGTGC 57.970 34.615 4.76 0.00 38.79 4.57
3378 3538 5.177511 CAGGCGTACATGGATATTAACACAG 59.822 44.000 0.00 0.00 0.00 3.66
3380 3540 5.050363 CACAGGCGTACATGGATATTAACAC 60.050 44.000 0.00 0.00 0.00 3.32
3385 3545 2.494059 GCACAGGCGTACATGGATATT 58.506 47.619 0.00 0.00 0.00 1.28
3424 3584 2.806945 TCACTAAATCAAGCAGGGGG 57.193 50.000 0.00 0.00 0.00 5.40
3429 3589 9.162764 GTACCTTTTAGATCACTAAATCAAGCA 57.837 33.333 0.00 0.00 44.59 3.91
3430 3590 9.384764 AGTACCTTTTAGATCACTAAATCAAGC 57.615 33.333 0.00 0.00 44.59 4.01
3457 3619 6.558909 ACGTACTGCCTCTGTAAACTAATAC 58.441 40.000 0.00 0.00 0.00 1.89
3468 3630 2.348666 GCAAATGTACGTACTGCCTCTG 59.651 50.000 25.12 14.35 0.00 3.35
3474 3636 5.050363 ACAAAGTGAGCAAATGTACGTACTG 60.050 40.000 25.12 16.51 0.00 2.74
3480 3642 4.468095 ACGACAAAGTGAGCAAATGTAC 57.532 40.909 0.00 0.00 0.00 2.90
3557 3719 1.229082 AGTAGCAACCGGGGTCAGA 60.229 57.895 6.32 0.00 0.00 3.27
3566 3728 2.615747 GGGAACAGAAGGAGTAGCAACC 60.616 54.545 0.00 0.00 0.00 3.77
3567 3729 2.701107 GGGAACAGAAGGAGTAGCAAC 58.299 52.381 0.00 0.00 0.00 4.17
3573 3735 5.661759 ACTTATATTCGGGAACAGAAGGAGT 59.338 40.000 0.00 0.00 0.00 3.85
3574 3736 6.041069 AGACTTATATTCGGGAACAGAAGGAG 59.959 42.308 0.00 0.00 0.00 3.69
3575 3737 5.897824 AGACTTATATTCGGGAACAGAAGGA 59.102 40.000 0.00 0.00 0.00 3.36
3576 3738 6.163135 AGACTTATATTCGGGAACAGAAGG 57.837 41.667 0.00 0.00 0.00 3.46
3577 3739 7.982354 AGAAAGACTTATATTCGGGAACAGAAG 59.018 37.037 0.00 0.00 0.00 2.85
3578 3740 7.848128 AGAAAGACTTATATTCGGGAACAGAA 58.152 34.615 0.00 0.00 0.00 3.02
3579 3741 7.419711 AGAAAGACTTATATTCGGGAACAGA 57.580 36.000 0.00 0.00 0.00 3.41
3580 3742 9.595823 TTTAGAAAGACTTATATTCGGGAACAG 57.404 33.333 0.00 0.00 0.00 3.16
3581 3743 9.595823 CTTTAGAAAGACTTATATTCGGGAACA 57.404 33.333 0.00 0.00 38.28 3.18
3582 3744 9.043079 CCTTTAGAAAGACTTATATTCGGGAAC 57.957 37.037 3.52 0.00 38.28 3.62
3583 3745 8.765517 ACCTTTAGAAAGACTTATATTCGGGAA 58.234 33.333 3.52 0.00 38.28 3.97
3584 3746 8.315220 ACCTTTAGAAAGACTTATATTCGGGA 57.685 34.615 3.52 0.00 38.28 5.14
3585 3747 8.959705 AACCTTTAGAAAGACTTATATTCGGG 57.040 34.615 3.52 0.00 38.28 5.14
3586 3748 9.043079 GGAACCTTTAGAAAGACTTATATTCGG 57.957 37.037 3.52 0.00 38.28 4.30
3587 3749 9.595823 TGGAACCTTTAGAAAGACTTATATTCG 57.404 33.333 3.52 0.00 38.28 3.34
3592 3754 8.990163 TTGTTGGAACCTTTAGAAAGACTTAT 57.010 30.769 3.52 0.00 38.28 1.73
3593 3755 8.810990 TTTGTTGGAACCTTTAGAAAGACTTA 57.189 30.769 3.52 0.00 38.28 2.24
3594 3756 7.712204 TTTGTTGGAACCTTTAGAAAGACTT 57.288 32.000 3.52 0.00 38.28 3.01
3595 3757 7.559897 TCATTTGTTGGAACCTTTAGAAAGACT 59.440 33.333 3.52 0.00 38.28 3.24
3596 3758 7.648112 GTCATTTGTTGGAACCTTTAGAAAGAC 59.352 37.037 3.52 0.00 38.28 3.01
3597 3759 7.559897 AGTCATTTGTTGGAACCTTTAGAAAGA 59.440 33.333 3.52 0.00 38.28 2.52
3598 3760 7.716612 AGTCATTTGTTGGAACCTTTAGAAAG 58.283 34.615 0.00 0.00 35.79 2.62
3599 3761 7.654022 AGTCATTTGTTGGAACCTTTAGAAA 57.346 32.000 0.00 0.00 0.00 2.52
3600 3762 8.934023 ATAGTCATTTGTTGGAACCTTTAGAA 57.066 30.769 0.00 0.00 0.00 2.10
3604 3766 9.747898 TGTATATAGTCATTTGTTGGAACCTTT 57.252 29.630 0.00 0.00 0.00 3.11
3605 3767 9.396022 CTGTATATAGTCATTTGTTGGAACCTT 57.604 33.333 0.00 0.00 0.00 3.50
3606 3768 8.768397 TCTGTATATAGTCATTTGTTGGAACCT 58.232 33.333 0.00 0.00 0.00 3.50
3607 3769 8.958119 TCTGTATATAGTCATTTGTTGGAACC 57.042 34.615 0.00 0.00 0.00 3.62
3609 3771 9.952030 TGTTCTGTATATAGTCATTTGTTGGAA 57.048 29.630 0.00 0.00 0.00 3.53
3610 3772 9.952030 TTGTTCTGTATATAGTCATTTGTTGGA 57.048 29.630 0.00 0.00 0.00 3.53
3621 3783 9.507329 CCCATTGCTAATTGTTCTGTATATAGT 57.493 33.333 0.00 0.00 0.00 2.12
3622 3784 8.454106 GCCCATTGCTAATTGTTCTGTATATAG 58.546 37.037 0.00 0.00 36.87 1.31
3623 3785 8.335532 GCCCATTGCTAATTGTTCTGTATATA 57.664 34.615 0.00 0.00 36.87 0.86
3624 3786 7.219484 GCCCATTGCTAATTGTTCTGTATAT 57.781 36.000 0.00 0.00 36.87 0.86
3625 3787 6.633500 GCCCATTGCTAATTGTTCTGTATA 57.367 37.500 0.00 0.00 36.87 1.47
3626 3788 5.520376 GCCCATTGCTAATTGTTCTGTAT 57.480 39.130 0.00 0.00 36.87 2.29
3627 3789 4.981806 GCCCATTGCTAATTGTTCTGTA 57.018 40.909 0.00 0.00 36.87 2.74
3628 3790 3.874392 GCCCATTGCTAATTGTTCTGT 57.126 42.857 0.00 0.00 36.87 3.41
3647 3809 3.118445 GGAAGGATGCTGGATAGGATAGC 60.118 52.174 0.00 0.00 34.85 2.97
3648 3810 3.131933 CGGAAGGATGCTGGATAGGATAG 59.868 52.174 0.00 0.00 34.85 2.08
3649 3811 3.099905 CGGAAGGATGCTGGATAGGATA 58.900 50.000 0.00 0.00 34.85 2.59
3650 3812 1.905215 CGGAAGGATGCTGGATAGGAT 59.095 52.381 0.00 0.00 37.73 3.24
3651 3813 1.342074 CGGAAGGATGCTGGATAGGA 58.658 55.000 0.00 0.00 0.00 2.94
3652 3814 1.051812 ACGGAAGGATGCTGGATAGG 58.948 55.000 0.00 0.00 0.00 2.57
3653 3815 4.221703 AGAATACGGAAGGATGCTGGATAG 59.778 45.833 0.00 0.00 39.55 2.08
3654 3816 4.160329 AGAATACGGAAGGATGCTGGATA 58.840 43.478 0.00 0.00 39.55 2.59
3655 3817 2.975489 AGAATACGGAAGGATGCTGGAT 59.025 45.455 0.00 0.00 39.55 3.41
3656 3818 2.365617 GAGAATACGGAAGGATGCTGGA 59.634 50.000 0.00 0.00 41.82 3.86
3657 3819 2.366916 AGAGAATACGGAAGGATGCTGG 59.633 50.000 0.00 0.00 41.82 4.85
3658 3820 3.742433 AGAGAATACGGAAGGATGCTG 57.258 47.619 0.00 0.00 41.82 4.41
3659 3821 4.039366 GGTAAGAGAATACGGAAGGATGCT 59.961 45.833 0.00 0.00 45.67 3.79
3660 3822 4.039366 AGGTAAGAGAATACGGAAGGATGC 59.961 45.833 0.00 0.00 32.52 3.91
3661 3823 5.069251 ACAGGTAAGAGAATACGGAAGGATG 59.931 44.000 0.00 0.00 32.52 3.51
3662 3824 5.069251 CACAGGTAAGAGAATACGGAAGGAT 59.931 44.000 0.00 0.00 34.80 3.24
3663 3825 4.401519 CACAGGTAAGAGAATACGGAAGGA 59.598 45.833 0.00 0.00 0.00 3.36
3664 3826 4.159879 ACACAGGTAAGAGAATACGGAAGG 59.840 45.833 0.00 0.00 0.00 3.46
3665 3827 5.326200 ACACAGGTAAGAGAATACGGAAG 57.674 43.478 0.00 0.00 0.00 3.46
3666 3828 5.733620 AACACAGGTAAGAGAATACGGAA 57.266 39.130 0.00 0.00 0.00 4.30
3667 3829 5.244402 TCAAACACAGGTAAGAGAATACGGA 59.756 40.000 0.00 0.00 0.00 4.69
3668 3830 5.347907 GTCAAACACAGGTAAGAGAATACGG 59.652 44.000 0.00 0.00 0.00 4.02
3669 3831 5.347907 GGTCAAACACAGGTAAGAGAATACG 59.652 44.000 0.00 0.00 0.00 3.06
3670 3832 5.347907 CGGTCAAACACAGGTAAGAGAATAC 59.652 44.000 0.00 0.00 0.00 1.89
3671 3833 5.011329 ACGGTCAAACACAGGTAAGAGAATA 59.989 40.000 0.00 0.00 0.00 1.75
3672 3834 4.202326 ACGGTCAAACACAGGTAAGAGAAT 60.202 41.667 0.00 0.00 0.00 2.40
3673 3835 3.133362 ACGGTCAAACACAGGTAAGAGAA 59.867 43.478 0.00 0.00 0.00 2.87
3674 3836 2.696707 ACGGTCAAACACAGGTAAGAGA 59.303 45.455 0.00 0.00 0.00 3.10
3675 3837 3.107642 ACGGTCAAACACAGGTAAGAG 57.892 47.619 0.00 0.00 0.00 2.85
3676 3838 3.547054 AACGGTCAAACACAGGTAAGA 57.453 42.857 0.00 0.00 0.00 2.10
3677 3839 4.992319 TGATAACGGTCAAACACAGGTAAG 59.008 41.667 0.00 0.00 0.00 2.34
3678 3840 4.958509 TGATAACGGTCAAACACAGGTAA 58.041 39.130 0.00 0.00 0.00 2.85
3679 3841 4.562082 CTGATAACGGTCAAACACAGGTA 58.438 43.478 0.00 0.00 0.00 3.08
3680 3842 3.399330 CTGATAACGGTCAAACACAGGT 58.601 45.455 0.00 0.00 0.00 4.00
3681 3843 2.159627 GCTGATAACGGTCAAACACAGG 59.840 50.000 0.00 0.00 0.00 4.00
3682 3844 2.805671 TGCTGATAACGGTCAAACACAG 59.194 45.455 0.00 0.00 0.00 3.66
3683 3845 2.805671 CTGCTGATAACGGTCAAACACA 59.194 45.455 0.00 0.00 0.00 3.72
3684 3846 2.412847 GCTGCTGATAACGGTCAAACAC 60.413 50.000 0.00 0.00 0.00 3.32
3685 3847 1.804151 GCTGCTGATAACGGTCAAACA 59.196 47.619 0.00 0.00 0.00 2.83
3686 3848 1.804151 TGCTGCTGATAACGGTCAAAC 59.196 47.619 0.00 0.00 0.00 2.93
3687 3849 2.076100 CTGCTGCTGATAACGGTCAAA 58.924 47.619 0.00 0.00 0.00 2.69
3688 3850 1.001974 ACTGCTGCTGATAACGGTCAA 59.998 47.619 13.69 0.00 0.00 3.18
3689 3851 0.608130 ACTGCTGCTGATAACGGTCA 59.392 50.000 13.69 0.00 0.00 4.02
3690 3852 2.579207 TACTGCTGCTGATAACGGTC 57.421 50.000 13.69 0.00 0.00 4.79
3691 3853 4.099573 ACTTATACTGCTGCTGATAACGGT 59.900 41.667 13.69 5.93 0.00 4.83
3692 3854 4.621991 ACTTATACTGCTGCTGATAACGG 58.378 43.478 13.69 5.45 0.00 4.44
3693 3855 5.281727 TGACTTATACTGCTGCTGATAACG 58.718 41.667 13.69 8.87 0.00 3.18
3694 3856 8.300286 TCTATGACTTATACTGCTGCTGATAAC 58.700 37.037 13.69 3.99 0.00 1.89
3695 3857 8.409358 TCTATGACTTATACTGCTGCTGATAA 57.591 34.615 13.69 10.91 0.00 1.75
3696 3858 7.362487 GCTCTATGACTTATACTGCTGCTGATA 60.362 40.741 13.69 4.47 0.00 2.15
3697 3859 6.572119 GCTCTATGACTTATACTGCTGCTGAT 60.572 42.308 13.69 5.35 0.00 2.90
3698 3860 5.278709 GCTCTATGACTTATACTGCTGCTGA 60.279 44.000 13.69 0.00 0.00 4.26
3699 3861 4.922692 GCTCTATGACTTATACTGCTGCTG 59.077 45.833 4.89 4.89 0.00 4.41
3700 3862 4.586421 TGCTCTATGACTTATACTGCTGCT 59.414 41.667 0.00 0.00 0.00 4.24
3701 3863 4.876125 TGCTCTATGACTTATACTGCTGC 58.124 43.478 0.00 0.00 0.00 5.25
3702 3864 6.365518 CACATGCTCTATGACTTATACTGCTG 59.634 42.308 0.00 0.00 39.21 4.41
3703 3865 6.453943 CACATGCTCTATGACTTATACTGCT 58.546 40.000 0.00 0.00 39.21 4.24
3704 3866 5.119898 GCACATGCTCTATGACTTATACTGC 59.880 44.000 0.00 0.00 39.21 4.40
3705 3867 5.636965 GGCACATGCTCTATGACTTATACTG 59.363 44.000 3.48 0.00 39.21 2.74
3706 3868 5.279708 GGGCACATGCTCTATGACTTATACT 60.280 44.000 3.48 0.00 39.21 2.12
3707 3869 4.932200 GGGCACATGCTCTATGACTTATAC 59.068 45.833 3.48 0.00 39.21 1.47
3708 3870 5.152623 GGGCACATGCTCTATGACTTATA 57.847 43.478 3.48 0.00 39.21 0.98
3709 3871 4.013267 GGGCACATGCTCTATGACTTAT 57.987 45.455 3.48 0.00 39.21 1.73
3710 3872 3.475566 GGGCACATGCTCTATGACTTA 57.524 47.619 3.48 0.00 39.21 2.24
3711 3873 2.338577 GGGCACATGCTCTATGACTT 57.661 50.000 3.48 0.00 39.21 3.01
3719 3881 0.465097 AGTATGCAGGGCACATGCTC 60.465 55.000 11.96 0.00 43.04 4.26
3720 3882 0.839277 TAGTATGCAGGGCACATGCT 59.161 50.000 11.96 9.37 43.04 3.79
3721 3883 0.947244 GTAGTATGCAGGGCACATGC 59.053 55.000 5.09 5.09 43.04 4.06
3722 3884 2.627515 AGTAGTATGCAGGGCACATG 57.372 50.000 0.00 0.00 43.04 3.21
3723 3885 2.158755 GGAAGTAGTATGCAGGGCACAT 60.159 50.000 0.00 0.00 43.04 3.21
3724 3886 1.209504 GGAAGTAGTATGCAGGGCACA 59.790 52.381 0.00 0.00 43.04 4.57
3725 3887 1.486726 AGGAAGTAGTATGCAGGGCAC 59.513 52.381 0.00 0.00 43.04 5.01
3726 3888 1.762957 GAGGAAGTAGTATGCAGGGCA 59.237 52.381 0.00 0.00 44.86 5.36
3727 3889 1.070914 GGAGGAAGTAGTATGCAGGGC 59.929 57.143 0.00 0.00 0.00 5.19
3728 3890 1.341531 CGGAGGAAGTAGTATGCAGGG 59.658 57.143 0.00 0.00 0.00 4.45
3729 3891 2.032620 ACGGAGGAAGTAGTATGCAGG 58.967 52.381 0.00 0.00 0.00 4.85
3730 3892 3.802948 AACGGAGGAAGTAGTATGCAG 57.197 47.619 0.00 0.00 0.00 4.41
3731 3893 3.767673 AGAAACGGAGGAAGTAGTATGCA 59.232 43.478 0.00 0.00 0.00 3.96
3732 3894 4.388378 AGAAACGGAGGAAGTAGTATGC 57.612 45.455 0.00 0.00 0.00 3.14
3739 3901 8.979534 AGACTTATATTTAGAAACGGAGGAAGT 58.020 33.333 0.00 0.00 0.00 3.01
3740 3902 9.819267 AAGACTTATATTTAGAAACGGAGGAAG 57.181 33.333 0.00 0.00 0.00 3.46
3759 3921 9.472361 GGTCGCATAACATCTAAATAAGACTTA 57.528 33.333 0.00 0.00 36.93 2.24
3760 3922 7.985184 TGGTCGCATAACATCTAAATAAGACTT 59.015 33.333 0.00 0.00 36.93 3.01
3761 3923 7.497595 TGGTCGCATAACATCTAAATAAGACT 58.502 34.615 0.00 0.00 36.93 3.24
3762 3924 7.709269 TGGTCGCATAACATCTAAATAAGAC 57.291 36.000 0.00 0.00 36.93 3.01
3763 3925 7.985184 AGTTGGTCGCATAACATCTAAATAAGA 59.015 33.333 0.00 0.00 39.02 2.10
3764 3926 8.142994 AGTTGGTCGCATAACATCTAAATAAG 57.857 34.615 0.00 0.00 0.00 1.73
3765 3927 8.500753 AAGTTGGTCGCATAACATCTAAATAA 57.499 30.769 0.00 0.00 0.00 1.40
3766 3928 9.037737 GTAAGTTGGTCGCATAACATCTAAATA 57.962 33.333 0.00 0.00 0.00 1.40
3767 3929 7.012044 GGTAAGTTGGTCGCATAACATCTAAAT 59.988 37.037 0.00 0.00 0.00 1.40
3768 3930 6.314400 GGTAAGTTGGTCGCATAACATCTAAA 59.686 38.462 0.00 0.00 0.00 1.85
3769 3931 5.813672 GGTAAGTTGGTCGCATAACATCTAA 59.186 40.000 0.00 0.00 0.00 2.10
3770 3932 5.105269 TGGTAAGTTGGTCGCATAACATCTA 60.105 40.000 0.00 0.00 0.00 1.98
3771 3933 4.189231 GGTAAGTTGGTCGCATAACATCT 58.811 43.478 0.00 0.00 0.00 2.90
3772 3934 3.936453 TGGTAAGTTGGTCGCATAACATC 59.064 43.478 0.00 0.00 0.00 3.06
3773 3935 3.945346 TGGTAAGTTGGTCGCATAACAT 58.055 40.909 0.00 0.00 0.00 2.71
3774 3936 3.404224 TGGTAAGTTGGTCGCATAACA 57.596 42.857 0.00 0.00 0.00 2.41
3775 3937 3.064820 CCATGGTAAGTTGGTCGCATAAC 59.935 47.826 2.57 0.00 0.00 1.89
3776 3938 3.275143 CCATGGTAAGTTGGTCGCATAA 58.725 45.455 2.57 0.00 0.00 1.90
3777 3939 2.237643 ACCATGGTAAGTTGGTCGCATA 59.762 45.455 18.10 0.00 42.61 3.14
3778 3940 1.004277 ACCATGGTAAGTTGGTCGCAT 59.996 47.619 18.10 0.00 42.61 4.73
3779 3941 0.398696 ACCATGGTAAGTTGGTCGCA 59.601 50.000 18.10 0.00 42.61 5.10
3780 3942 2.389962 TACCATGGTAAGTTGGTCGC 57.610 50.000 22.59 0.00 42.61 5.19
3781 3943 4.812626 GGTATTACCATGGTAAGTTGGTCG 59.187 45.833 34.31 0.00 42.61 4.79
3782 3944 5.747342 TGGTATTACCATGGTAAGTTGGTC 58.253 41.667 34.31 22.06 44.79 4.02
3783 3945 5.782677 TGGTATTACCATGGTAAGTTGGT 57.217 39.130 34.31 23.00 44.79 3.67
3796 3958 8.248253 CCAGAAATGTAAAAGGTTGGTATTACC 58.752 37.037 5.87 5.87 39.22 2.85
3797 3959 7.758076 GCCAGAAATGTAAAAGGTTGGTATTAC 59.242 37.037 0.00 0.00 0.00 1.89
3798 3960 7.672239 AGCCAGAAATGTAAAAGGTTGGTATTA 59.328 33.333 0.00 0.00 0.00 0.98
3799 3961 6.496911 AGCCAGAAATGTAAAAGGTTGGTATT 59.503 34.615 0.00 0.00 0.00 1.89
3800 3962 6.016555 AGCCAGAAATGTAAAAGGTTGGTAT 58.983 36.000 0.00 0.00 0.00 2.73
3801 3963 5.390387 AGCCAGAAATGTAAAAGGTTGGTA 58.610 37.500 0.00 0.00 0.00 3.25
3802 3964 4.223144 AGCCAGAAATGTAAAAGGTTGGT 58.777 39.130 0.00 0.00 0.00 3.67
3803 3965 4.871933 AGCCAGAAATGTAAAAGGTTGG 57.128 40.909 0.00 0.00 0.00 3.77


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

AutoCloner maintained by Alex Coulton.