Multiple sequence alignment - TraesCS6D01G264200

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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 TraesCS6D01G264200 chr6D 100.000 3172 0 0 3502 6673 372879452 372882623 0.000000e+00 5858
1 TraesCS6D01G264200 chr6D 100.000 2923 0 0 1 2923 372875951 372878873 0.000000e+00 5398
2 TraesCS6D01G264200 chr6D 95.181 83 4 0 3502 3584 51507503 51507421 1.510000e-26 132
3 TraesCS6D01G264200 chr6D 96.250 80 3 0 3502 3581 428262120 428262041 1.510000e-26 132
4 TraesCS6D01G264200 chr6A 92.349 2954 115 43 3673 6548 514892252 514895172 0.000000e+00 4100
5 TraesCS6D01G264200 chr6A 87.097 1705 104 42 1179 2783 514890545 514892233 0.000000e+00 1823
6 TraesCS6D01G264200 chr6A 93.064 1211 43 18 1 1188 514889322 514890514 0.000000e+00 1733
7 TraesCS6D01G264200 chr6A 94.048 84 5 0 3502 3585 40170338 40170255 1.950000e-25 128
8 TraesCS6D01G264200 chr6A 94.048 84 5 0 3502 3585 557906840 557906757 1.950000e-25 128
9 TraesCS6D01G264200 chr6B 95.775 1870 67 5 3905 5764 559040443 559038576 0.000000e+00 3005
10 TraesCS6D01G264200 chr6B 88.687 2201 120 40 781 2910 559042892 559040750 0.000000e+00 2566
11 TraesCS6D01G264200 chr6B 92.073 820 44 7 5748 6548 559024036 559023219 0.000000e+00 1134
12 TraesCS6D01G264200 chr6B 92.327 404 23 2 399 796 559063847 559063446 9.710000e-158 568
13 TraesCS6D01G264200 chr6B 96.053 304 7 3 1 303 559064403 559064104 2.160000e-134 490
14 TraesCS6D01G264200 chr6B 91.946 298 17 2 3580 3870 559040737 559040440 1.730000e-110 411
15 TraesCS6D01G264200 chr7A 79.227 1319 240 28 4365 5669 186542513 186541215 0.000000e+00 887
16 TraesCS6D01G264200 chr2A 96.250 80 3 0 3502 3581 186403758 186403679 1.510000e-26 132
17 TraesCS6D01G264200 chr2D 95.062 81 4 0 3502 3582 532305919 532305999 1.950000e-25 128
18 TraesCS6D01G264200 chr2D 92.222 90 7 0 3502 3591 593274322 593274233 1.950000e-25 128
19 TraesCS6D01G264200 chr2D 93.902 82 3 2 3502 3582 613097028 613097108 9.090000e-24 122
20 TraesCS6D01G264200 chr2B 91.209 91 6 2 3502 3592 752865587 752865499 9.090000e-24 122


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 TraesCS6D01G264200 chr6D 372875951 372882623 6672 False 5628 5858 100.000000 1 6673 2 chr6D.!!$F1 6672
1 TraesCS6D01G264200 chr6A 514889322 514895172 5850 False 2552 4100 90.836667 1 6548 3 chr6A.!!$F1 6547
2 TraesCS6D01G264200 chr6B 559038576 559042892 4316 True 1994 3005 92.136000 781 5764 3 chr6B.!!$R2 4983
3 TraesCS6D01G264200 chr6B 559023219 559024036 817 True 1134 1134 92.073000 5748 6548 1 chr6B.!!$R1 800
4 TraesCS6D01G264200 chr6B 559063446 559064403 957 True 529 568 94.190000 1 796 2 chr6B.!!$R3 795
5 TraesCS6D01G264200 chr7A 186541215 186542513 1298 True 887 887 79.227000 4365 5669 1 chr7A.!!$R1 1304

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
460 625 0.249489 CCTGATTCACCCGATCGACC 60.249 60.0 18.66 0.00 0.00 4.79 F
1584 1825 0.393077 ACCTGCAGTGTCTAAAGCGT 59.607 50.0 13.81 0.00 0.00 5.07 F
2205 2510 0.039074 CTCAGTGGTGTCTGGTCGAC 60.039 60.0 7.13 7.13 43.14 4.20 F
3883 4252 0.318614 CATGTGTTGTTGGTTCGGCC 60.319 55.0 0.00 0.00 37.90 6.13 F
3909 4281 0.528924 GCCATGCATGTGTGTGTGAT 59.471 50.0 24.58 0.00 0.00 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1811 2079 0.461339 AATACGTGCGCCTACCCAAG 60.461 55.000 4.18 0.0 0.00 3.61 R
2557 2894 0.107654 ACGCCCTCCATGACTTTAGC 60.108 55.000 0.00 0.0 0.00 3.09 R
3895 4264 0.095935 GCTCGATCACACACACATGC 59.904 55.000 0.00 0.0 0.00 4.06 R
5501 5914 1.736645 GTTCTGCGCCGACAGCTTA 60.737 57.895 4.18 0.0 40.39 3.09 R
5684 6097 2.050714 CTGCTTGCGTGCACCTTG 60.051 61.111 12.15 0.0 38.12 3.61 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
55 58 8.619146 TTAAGTAGAATTCGTACCGTACAATG 57.381 34.615 9.34 0.00 0.00 2.82
160 163 0.814457 CGCTAGCAGGTCACTCTCTT 59.186 55.000 16.45 0.00 0.00 2.85
208 211 1.540267 AGACTACACTGCACTGTACCG 59.460 52.381 2.45 0.00 0.00 4.02
382 474 4.932789 GCTAACCACTGCGATGGA 57.067 55.556 12.77 0.00 43.02 3.41
403 568 1.801113 CGCGCGTTACCCGTAAGAA 60.801 57.895 24.19 0.00 43.02 2.52
450 615 2.113860 TAACTGCCAGCCTGATTCAC 57.886 50.000 0.00 0.00 0.00 3.18
460 625 0.249489 CCTGATTCACCCGATCGACC 60.249 60.000 18.66 0.00 0.00 4.79
571 740 7.096189 CCGTCACAATACAGATACTAATTTCGG 60.096 40.741 0.00 0.00 0.00 4.30
616 785 6.963805 GCTTGTGTAACTGAAGAAAGCATATC 59.036 38.462 0.00 0.00 38.67 1.63
639 812 3.515611 AAAAAGAACACGCCGGCA 58.484 50.000 28.98 0.00 0.00 5.69
640 813 1.358759 AAAAAGAACACGCCGGCAG 59.641 52.632 28.98 20.85 0.00 4.85
641 814 1.381165 AAAAAGAACACGCCGGCAGT 61.381 50.000 28.98 21.60 0.00 4.40
663 836 6.423302 CAGTCAGTCAGTGCAGAATATATTCC 59.577 42.308 19.67 8.03 37.51 3.01
670 843 3.375299 GTGCAGAATATATTCCGATGCCC 59.625 47.826 24.35 15.65 35.72 5.36
743 934 2.009226 CGGCGTCGGTCACATATCG 61.009 63.158 0.00 0.00 0.00 2.92
746 937 1.274596 GCGTCGGTCACATATCGTTT 58.725 50.000 0.00 0.00 0.00 3.60
974 1169 2.019272 GAGGGGGAGAGAGGGGGTA 61.019 68.421 0.00 0.00 0.00 3.69
988 1183 2.305052 AGGGGGTAAGAAGAAGGTTTCG 59.695 50.000 0.00 0.00 34.02 3.46
993 1188 3.431233 GGTAAGAAGAAGGTTTCGGTTCG 59.569 47.826 0.00 0.00 34.02 3.95
995 1190 1.690352 AGAAGAAGGTTTCGGTTCGGA 59.310 47.619 0.00 0.00 34.02 4.55
1130 1325 8.495260 GGGTATATATAATTCCTTCCCTCCTTG 58.505 40.741 0.00 0.00 0.00 3.61
1170 1365 5.033589 AGACTGGCTAGATTTCTTGGATG 57.966 43.478 3.17 0.00 0.00 3.51
1211 1446 0.879839 ATTGCTTTGCCGTTGGTTGC 60.880 50.000 0.00 0.00 0.00 4.17
1300 1539 9.684448 ACGATGACTTGACATAGTATTAGATTG 57.316 33.333 0.00 0.00 35.16 2.67
1373 1614 5.390567 CGGAGAACTCGAAAATTTACAAGGG 60.391 44.000 0.00 0.00 0.00 3.95
1374 1615 5.472478 GGAGAACTCGAAAATTTACAAGGGT 59.528 40.000 0.00 0.00 0.00 4.34
1406 1647 5.970640 AGTCCTTAGGATGGGTTAATCTGAA 59.029 40.000 3.52 0.00 32.73 3.02
1412 1653 8.561536 TTAGGATGGGTTAATCTGAAGATGTA 57.438 34.615 0.00 0.00 34.49 2.29
1413 1654 7.639062 AGGATGGGTTAATCTGAAGATGTAT 57.361 36.000 0.00 0.00 34.49 2.29
1414 1655 7.684529 AGGATGGGTTAATCTGAAGATGTATC 58.315 38.462 0.00 0.00 34.49 2.24
1415 1656 6.881602 GGATGGGTTAATCTGAAGATGTATCC 59.118 42.308 0.00 0.00 34.49 2.59
1416 1657 7.256835 GGATGGGTTAATCTGAAGATGTATCCT 60.257 40.741 0.00 0.00 34.49 3.24
1417 1658 7.451731 TGGGTTAATCTGAAGATGTATCCTT 57.548 36.000 0.00 0.00 34.49 3.36
1418 1659 7.282585 TGGGTTAATCTGAAGATGTATCCTTG 58.717 38.462 0.00 0.00 34.49 3.61
1419 1660 6.712547 GGGTTAATCTGAAGATGTATCCTTGG 59.287 42.308 0.00 0.00 34.49 3.61
1420 1661 6.205658 GGTTAATCTGAAGATGTATCCTTGGC 59.794 42.308 0.00 0.00 34.49 4.52
1458 1699 3.686916 AGCCAGAAGGTTGAAGTACTC 57.313 47.619 0.00 0.00 37.19 2.59
1459 1700 3.243724 AGCCAGAAGGTTGAAGTACTCT 58.756 45.455 0.00 0.00 37.19 3.24
1487 1728 3.118555 TGACTCCTGAAACTGAACCGAAA 60.119 43.478 0.00 0.00 0.00 3.46
1575 1816 3.508845 ATACTTTCCAACCTGCAGTGT 57.491 42.857 13.81 7.51 0.00 3.55
1576 1817 1.680338 ACTTTCCAACCTGCAGTGTC 58.320 50.000 13.81 0.00 0.00 3.67
1584 1825 0.393077 ACCTGCAGTGTCTAAAGCGT 59.607 50.000 13.81 0.00 0.00 5.07
1601 1842 3.381949 AGCGTCTGTAACTGTCAAAGAC 58.618 45.455 0.00 0.00 35.09 3.01
1634 1877 4.776322 CGACAGCCATGGCCGGAA 62.776 66.667 33.14 0.00 43.17 4.30
1698 1958 4.829064 TTGTCAATTCTTTTCTCCACCG 57.171 40.909 0.00 0.00 0.00 4.94
1712 1972 2.358898 CTCCACCGGGAAGCAAATAATG 59.641 50.000 6.32 0.00 44.38 1.90
1751 2015 3.897141 TGTTAGGTGCATAATGACCGA 57.103 42.857 0.00 0.00 37.32 4.69
1788 2052 2.837883 CGCCGGAATTCCATGGCAG 61.838 63.158 31.02 22.88 41.03 4.85
1882 2155 0.592247 GCTTTACGCCAATCATGCCG 60.592 55.000 0.00 0.00 0.00 5.69
2160 2462 2.666190 CGCCGGCCAGGATGTATG 60.666 66.667 23.46 0.00 45.00 2.39
2173 2475 1.739466 GATGTATGCCCACACACACAG 59.261 52.381 0.00 0.00 0.00 3.66
2205 2510 0.039074 CTCAGTGGTGTCTGGTCGAC 60.039 60.000 7.13 7.13 43.14 4.20
2398 2722 1.824230 TCCAATTAATGCAGTGGTGGC 59.176 47.619 0.00 0.00 32.68 5.01
2399 2723 1.134729 CCAATTAATGCAGTGGTGGCC 60.135 52.381 0.00 0.00 0.00 5.36
2414 2738 2.064581 GGCCCTCCGGATGTACAGT 61.065 63.158 3.57 0.00 0.00 3.55
2415 2739 1.442148 GCCCTCCGGATGTACAGTC 59.558 63.158 3.57 0.00 0.00 3.51
2416 2740 1.734137 CCCTCCGGATGTACAGTCG 59.266 63.158 3.57 7.64 0.00 4.18
2417 2741 0.750546 CCCTCCGGATGTACAGTCGA 60.751 60.000 18.35 3.99 0.00 4.20
2461 2785 5.859495 GAGAAAAATATCTCATCTCCGGGT 58.141 41.667 0.00 0.00 44.29 5.28
2463 2787 5.131142 AGAAAAATATCTCATCTCCGGGTGT 59.869 40.000 0.00 0.00 0.00 4.16
2465 2789 4.608948 AATATCTCATCTCCGGGTGTTC 57.391 45.455 0.00 0.00 0.00 3.18
2466 2790 1.866015 ATCTCATCTCCGGGTGTTCA 58.134 50.000 0.00 0.00 0.00 3.18
2467 2791 0.895530 TCTCATCTCCGGGTGTTCAC 59.104 55.000 0.00 0.00 0.00 3.18
2469 2793 0.544357 TCATCTCCGGGTGTTCACCT 60.544 55.000 19.42 0.00 0.00 4.00
2471 2795 1.064825 ATCTCCGGGTGTTCACCTTT 58.935 50.000 19.42 0.00 0.00 3.11
2474 2798 2.438763 TCTCCGGGTGTTCACCTTTAAA 59.561 45.455 19.42 3.18 0.00 1.52
2475 2799 2.551032 CTCCGGGTGTTCACCTTTAAAC 59.449 50.000 19.42 3.37 0.00 2.01
2476 2800 1.610038 CCGGGTGTTCACCTTTAAACC 59.390 52.381 19.42 2.74 0.00 3.27
2557 2894 2.080286 AGTACTGTGTGCTTAAGGCG 57.920 50.000 4.29 0.00 45.43 5.52
2571 2909 2.029838 AAGGCGCTAAAGTCATGGAG 57.970 50.000 7.64 0.00 0.00 3.86
2661 3008 8.924511 AGTACTGTACTGTTAACTGTACCTAA 57.075 34.615 34.26 23.13 45.74 2.69
2669 3020 6.888632 ACTGTTAACTGTACCTAAGCTAGCTA 59.111 38.462 19.70 5.71 0.00 3.32
2743 3094 5.122512 TGGACTTTTCAACGTGACAAAAA 57.877 34.783 0.00 0.00 0.00 1.94
2768 3125 3.799755 ATTTCAGCGCCGCGAACC 61.800 61.111 18.91 0.00 0.00 3.62
2816 3177 8.116669 AGGTGACTGTATGTAGCTGGTATATAT 58.883 37.037 0.00 0.00 41.13 0.86
2817 3178 9.404848 GGTGACTGTATGTAGCTGGTATATATA 57.595 37.037 0.00 3.94 0.00 0.86
2830 3191 4.119862 GGTATATATACCCTGCATGCACG 58.880 47.826 25.85 13.32 45.62 5.34
2831 3192 2.093306 TATATACCCTGCATGCACGC 57.907 50.000 18.46 0.00 0.00 5.34
2859 3220 5.633830 ATGATGCAAAACTTGTGTAGGAG 57.366 39.130 0.00 0.00 0.00 3.69
2869 3230 4.887748 ACTTGTGTAGGAGTGTTGAGATG 58.112 43.478 0.00 0.00 0.00 2.90
2873 3234 0.824109 TAGGAGTGTTGAGATGGGCG 59.176 55.000 0.00 0.00 0.00 6.13
2875 3236 0.460987 GGAGTGTTGAGATGGGCGAG 60.461 60.000 0.00 0.00 0.00 5.03
2896 3257 5.349817 CGAGTCTAGATGAAATGTGCAAGTT 59.650 40.000 0.00 0.00 0.00 2.66
2910 3271 0.961019 CAAGTTCCACCCCACATGTG 59.039 55.000 19.31 19.31 0.00 3.21
2912 3273 0.850100 AGTTCCACCCCACATGTGAA 59.150 50.000 27.46 9.31 35.74 3.18
2913 3274 1.428912 AGTTCCACCCCACATGTGAAT 59.571 47.619 27.46 8.94 35.74 2.57
2914 3275 2.647299 AGTTCCACCCCACATGTGAATA 59.353 45.455 27.46 3.50 35.74 1.75
2915 3276 3.269381 AGTTCCACCCCACATGTGAATAT 59.731 43.478 27.46 6.72 35.74 1.28
2917 3278 5.134339 AGTTCCACCCCACATGTGAATATAT 59.866 40.000 27.46 3.47 35.74 0.86
2918 3279 6.331572 AGTTCCACCCCACATGTGAATATATA 59.668 38.462 27.46 4.83 35.74 0.86
2919 3280 6.968400 TCCACCCCACATGTGAATATATAT 57.032 37.500 27.46 0.82 35.74 0.86
2920 3281 8.325787 GTTCCACCCCACATGTGAATATATATA 58.674 37.037 27.46 0.00 35.74 0.86
2921 3282 8.637108 TCCACCCCACATGTGAATATATATAT 57.363 34.615 27.46 0.00 35.74 0.86
2922 3283 9.736819 TCCACCCCACATGTGAATATATATATA 57.263 33.333 27.46 4.92 35.74 0.86
3530 3891 9.003658 AGATGACTCAACCTTGTATTAACTTTG 57.996 33.333 0.00 0.00 0.00 2.77
3531 3892 8.691661 ATGACTCAACCTTGTATTAACTTTGT 57.308 30.769 0.00 0.00 0.00 2.83
3532 3893 9.787435 ATGACTCAACCTTGTATTAACTTTGTA 57.213 29.630 0.00 0.00 0.00 2.41
3533 3894 9.787435 TGACTCAACCTTGTATTAACTTTGTAT 57.213 29.630 0.00 0.00 0.00 2.29
3567 3928 9.778741 AGTACAAAGTTGAGTCATCTATTTTGA 57.221 29.630 15.99 3.46 38.91 2.69
3570 3931 9.736023 ACAAAGTTGAGTCATCTATTTTGAAAC 57.264 29.630 15.99 0.00 38.91 2.78
3571 3932 8.895845 CAAAGTTGAGTCATCTATTTTGAAACG 58.104 33.333 4.14 0.00 38.91 3.60
3572 3933 7.133891 AGTTGAGTCATCTATTTTGAAACGG 57.866 36.000 1.70 0.00 0.00 4.44
3573 3934 6.934645 AGTTGAGTCATCTATTTTGAAACGGA 59.065 34.615 1.70 0.00 0.00 4.69
3574 3935 6.968131 TGAGTCATCTATTTTGAAACGGAG 57.032 37.500 0.00 0.00 0.00 4.63
3575 3936 5.874810 TGAGTCATCTATTTTGAAACGGAGG 59.125 40.000 0.00 0.00 0.00 4.30
3576 3937 5.186198 AGTCATCTATTTTGAAACGGAGGG 58.814 41.667 0.00 0.00 0.00 4.30
3577 3938 5.045869 AGTCATCTATTTTGAAACGGAGGGA 60.046 40.000 0.00 0.00 0.00 4.20
3578 3939 5.294552 GTCATCTATTTTGAAACGGAGGGAG 59.705 44.000 0.00 0.00 0.00 4.30
3601 3962 6.586344 AGTATGTGACAGTATTGATTCCCAG 58.414 40.000 0.00 0.00 0.00 4.45
3627 3988 8.863872 AGAGTAAAAATAAACATGGTGCTACT 57.136 30.769 0.00 0.00 0.00 2.57
3628 3989 8.730680 AGAGTAAAAATAAACATGGTGCTACTG 58.269 33.333 0.00 0.00 0.00 2.74
3631 3992 5.982890 AAATAAACATGGTGCTACTGCTT 57.017 34.783 0.00 0.00 40.48 3.91
3633 3994 2.867109 AACATGGTGCTACTGCTTCT 57.133 45.000 0.00 0.00 40.48 2.85
3695 4056 2.355444 TCACAAGTCACATGTTGCAGTG 59.645 45.455 0.00 2.25 37.10 3.66
3761 4128 6.238538 CGATTTAATACGGTTATGGCCAGTTT 60.239 38.462 13.05 0.00 0.00 2.66
3810 4177 1.337110 GCCATTCTCGTGCGCAAAAC 61.337 55.000 14.00 0.00 0.00 2.43
3815 4183 0.736053 TCTCGTGCGCAAAACCTTTT 59.264 45.000 14.00 0.00 0.00 2.27
3833 4201 6.051717 ACCTTTTATCTTCTCATCGACATGG 58.948 40.000 0.00 0.00 0.00 3.66
3866 4235 1.185315 GCATACAACCACCCTTGCAT 58.815 50.000 0.00 0.00 0.00 3.96
3867 4236 1.135024 GCATACAACCACCCTTGCATG 60.135 52.381 0.00 0.00 30.75 4.06
3868 4237 2.170166 CATACAACCACCCTTGCATGT 58.830 47.619 0.00 0.00 0.00 3.21
3869 4238 1.614996 TACAACCACCCTTGCATGTG 58.385 50.000 0.00 0.00 0.00 3.21
3870 4239 0.396974 ACAACCACCCTTGCATGTGT 60.397 50.000 9.74 0.00 0.00 3.72
3874 4243 0.752054 CCACCCTTGCATGTGTTGTT 59.248 50.000 9.74 0.00 0.00 2.83
3875 4244 1.538634 CCACCCTTGCATGTGTTGTTG 60.539 52.381 9.74 0.00 0.00 3.33
3876 4245 0.752054 ACCCTTGCATGTGTTGTTGG 59.248 50.000 0.00 0.00 0.00 3.77
3877 4246 0.752054 CCCTTGCATGTGTTGTTGGT 59.248 50.000 0.00 0.00 0.00 3.67
3878 4247 1.138661 CCCTTGCATGTGTTGTTGGTT 59.861 47.619 0.00 0.00 0.00 3.67
3879 4248 2.472816 CCTTGCATGTGTTGTTGGTTC 58.527 47.619 0.00 0.00 0.00 3.62
3880 4249 2.118683 CTTGCATGTGTTGTTGGTTCG 58.881 47.619 0.00 0.00 0.00 3.95
3881 4250 0.383590 TGCATGTGTTGTTGGTTCGG 59.616 50.000 0.00 0.00 0.00 4.30
3882 4251 0.939106 GCATGTGTTGTTGGTTCGGC 60.939 55.000 0.00 0.00 0.00 5.54
3883 4252 0.318614 CATGTGTTGTTGGTTCGGCC 60.319 55.000 0.00 0.00 37.90 6.13
3899 4268 2.184836 CCGTTTGGGCCATGCATG 59.815 61.111 20.19 20.19 0.00 4.06
3909 4281 0.528924 GCCATGCATGTGTGTGTGAT 59.471 50.000 24.58 0.00 0.00 3.06
3913 4285 1.431496 TGCATGTGTGTGTGATCGAG 58.569 50.000 0.00 0.00 0.00 4.04
3916 4288 0.737367 ATGTGTGTGTGATCGAGCCG 60.737 55.000 0.00 0.00 0.00 5.52
3983 4356 4.065789 CTGGTGTCAGGTTTCTTTACTCC 58.934 47.826 0.00 0.00 37.36 3.85
4019 4392 4.267536 ACACCTCCAAATCTGATGACATG 58.732 43.478 0.00 0.00 0.00 3.21
4048 4431 1.071471 AGTAGCCACAGTGCCACAC 59.929 57.895 0.00 0.00 34.10 3.82
4077 4460 1.290955 GGTAGTACGTGGCACTGCA 59.709 57.895 16.72 0.00 31.02 4.41
4215 4612 1.827399 CGGTAGGTCCAGTGGTTGCT 61.827 60.000 9.54 0.00 35.57 3.91
4237 4634 1.269361 ACGATGCACACTGAACGTACA 60.269 47.619 0.00 0.00 32.42 2.90
4745 5158 2.219875 CCTCACCTGGCTCCAGTGT 61.220 63.158 14.27 9.14 42.15 3.55
5429 5842 1.033574 CCTACTCCATCCTCGACACC 58.966 60.000 0.00 0.00 0.00 4.16
5684 6097 4.440663 GGCTGCAGATAATTCCTTTGGAAC 60.441 45.833 20.43 0.00 45.07 3.62
5797 6217 1.256652 CCGATGTTGACGACTACACG 58.743 55.000 4.28 9.84 35.02 4.49
5955 6384 9.750783 AGGATTGAAGCTATTTATATTGCTCAT 57.249 29.630 2.97 0.00 41.09 2.90
5992 6427 6.594788 AGTGGAAATGCATAACTTGAATGT 57.405 33.333 0.00 0.00 0.00 2.71
6006 6441 2.683968 TGAATGTCACGTAGCCAGAAC 58.316 47.619 0.00 0.00 0.00 3.01
6015 6450 2.806244 ACGTAGCCAGAACATGTGAAAC 59.194 45.455 0.00 0.00 37.35 2.78
6056 6491 6.227298 TCTTTGGCAATTACTGGTCAAAAA 57.773 33.333 0.00 0.00 38.05 1.94
6070 6505 8.245195 ACTGGTCAAAAATAATGTACCACTTT 57.755 30.769 0.00 0.00 33.60 2.66
6146 6581 5.835257 TCAAAAATTGCTCCTGTTTGAGAG 58.165 37.500 0.00 0.00 34.24 3.20
6152 6587 2.724977 CTCCTGTTTGAGAGCACGTA 57.275 50.000 0.00 0.00 34.11 3.57
6266 6702 7.797062 TGTGCTATTTGTGGTATGGAGTATTA 58.203 34.615 0.00 0.00 0.00 0.98
6306 6742 5.182950 TGAGAAATATGTGGCGTGAACATTT 59.817 36.000 5.33 0.00 39.05 2.32
6307 6743 5.401550 AGAAATATGTGGCGTGAACATTTG 58.598 37.500 5.33 0.00 39.05 2.32
6326 6762 1.070275 CGCCTATGATGCAGCTCCA 59.930 57.895 2.53 0.00 0.00 3.86
6396 6847 0.109272 ATGTCACACACGCTAGTCCG 60.109 55.000 0.00 0.00 0.00 4.79
6441 6892 5.594317 AGTCAATGGCTCCATATTTTGTACC 59.406 40.000 1.24 0.00 35.31 3.34
6458 6909 8.867112 TTTTGTACCGTTGCAATTTGTAATTA 57.133 26.923 0.59 0.00 0.00 1.40
6459 6910 9.477484 TTTTGTACCGTTGCAATTTGTAATTAT 57.523 25.926 0.59 0.00 0.00 1.28
6494 6945 6.576185 AGTGGCTATTGCAAGGAAAATAATG 58.424 36.000 4.94 0.00 41.91 1.90
6502 6957 6.907206 TGCAAGGAAAATAATGCTAATTGC 57.093 33.333 0.00 0.00 40.57 3.56
6554 7009 8.458573 TTCAACTTAAAGTAAAGAATCCTGCA 57.541 30.769 0.00 0.00 0.00 4.41
6555 7010 8.458573 TCAACTTAAAGTAAAGAATCCTGCAA 57.541 30.769 0.00 0.00 0.00 4.08
6556 7011 8.908903 TCAACTTAAAGTAAAGAATCCTGCAAA 58.091 29.630 0.00 0.00 0.00 3.68
6557 7012 9.528018 CAACTTAAAGTAAAGAATCCTGCAAAA 57.472 29.630 0.00 0.00 0.00 2.44
6591 7046 8.451908 AAAGTAAAGAAACATTAGTGACTGCT 57.548 30.769 0.00 0.00 0.00 4.24
6592 7047 9.555727 AAAGTAAAGAAACATTAGTGACTGCTA 57.444 29.630 0.00 0.00 0.00 3.49
6593 7048 8.535690 AGTAAAGAAACATTAGTGACTGCTAC 57.464 34.615 0.00 0.00 0.00 3.58
6594 7049 8.148351 AGTAAAGAAACATTAGTGACTGCTACA 58.852 33.333 0.00 0.00 0.00 2.74
6595 7050 7.801716 AAAGAAACATTAGTGACTGCTACAA 57.198 32.000 0.00 0.00 0.00 2.41
6596 7051 7.426929 AAGAAACATTAGTGACTGCTACAAG 57.573 36.000 0.00 0.00 0.00 3.16
6597 7052 6.759272 AGAAACATTAGTGACTGCTACAAGA 58.241 36.000 0.00 0.00 0.00 3.02
6598 7053 7.217200 AGAAACATTAGTGACTGCTACAAGAA 58.783 34.615 0.00 0.00 0.00 2.52
6599 7054 7.386299 AGAAACATTAGTGACTGCTACAAGAAG 59.614 37.037 0.00 0.00 0.00 2.85
6600 7055 6.346477 ACATTAGTGACTGCTACAAGAAGA 57.654 37.500 0.00 0.00 0.00 2.87
6601 7056 6.759272 ACATTAGTGACTGCTACAAGAAGAA 58.241 36.000 0.00 0.00 0.00 2.52
6602 7057 7.390027 ACATTAGTGACTGCTACAAGAAGAAT 58.610 34.615 0.00 0.00 0.00 2.40
6603 7058 7.332926 ACATTAGTGACTGCTACAAGAAGAATG 59.667 37.037 0.00 0.00 0.00 2.67
6604 7059 5.474578 AGTGACTGCTACAAGAAGAATGA 57.525 39.130 0.00 0.00 0.00 2.57
6605 7060 5.477510 AGTGACTGCTACAAGAAGAATGAG 58.522 41.667 0.00 0.00 0.00 2.90
6606 7061 4.092675 GTGACTGCTACAAGAAGAATGAGC 59.907 45.833 0.00 0.00 0.00 4.26
6607 7062 4.248859 GACTGCTACAAGAAGAATGAGCA 58.751 43.478 0.00 0.00 37.58 4.26
6608 7063 4.841422 ACTGCTACAAGAAGAATGAGCAT 58.159 39.130 0.00 0.00 39.08 3.79
6609 7064 5.251764 ACTGCTACAAGAAGAATGAGCATT 58.748 37.500 0.00 0.00 39.08 3.56
6610 7065 6.409704 ACTGCTACAAGAAGAATGAGCATTA 58.590 36.000 0.00 0.00 39.08 1.90
6611 7066 6.538021 ACTGCTACAAGAAGAATGAGCATTAG 59.462 38.462 0.00 0.00 39.08 1.73
6612 7067 6.409704 TGCTACAAGAAGAATGAGCATTAGT 58.590 36.000 0.00 0.00 35.12 2.24
6613 7068 6.314648 TGCTACAAGAAGAATGAGCATTAGTG 59.685 38.462 0.00 0.00 35.12 2.74
6614 7069 6.314896 GCTACAAGAAGAATGAGCATTAGTGT 59.685 38.462 0.00 0.39 0.00 3.55
6615 7070 7.148340 GCTACAAGAAGAATGAGCATTAGTGTT 60.148 37.037 0.00 0.00 0.00 3.32
6616 7071 7.516198 ACAAGAAGAATGAGCATTAGTGTTT 57.484 32.000 0.00 0.00 0.00 2.83
6617 7072 7.365741 ACAAGAAGAATGAGCATTAGTGTTTG 58.634 34.615 0.00 1.88 0.00 2.93
6618 7073 6.506500 AGAAGAATGAGCATTAGTGTTTGG 57.493 37.500 0.00 0.00 0.00 3.28
6619 7074 6.240894 AGAAGAATGAGCATTAGTGTTTGGA 58.759 36.000 0.00 0.00 0.00 3.53
6620 7075 6.888632 AGAAGAATGAGCATTAGTGTTTGGAT 59.111 34.615 0.00 0.00 0.00 3.41
6621 7076 6.690194 AGAATGAGCATTAGTGTTTGGATC 57.310 37.500 0.00 0.00 0.00 3.36
6622 7077 5.295292 AGAATGAGCATTAGTGTTTGGATCG 59.705 40.000 0.00 0.00 0.00 3.69
6623 7078 3.937814 TGAGCATTAGTGTTTGGATCGT 58.062 40.909 0.00 0.00 0.00 3.73
6624 7079 4.323417 TGAGCATTAGTGTTTGGATCGTT 58.677 39.130 0.00 0.00 0.00 3.85
6625 7080 4.154015 TGAGCATTAGTGTTTGGATCGTTG 59.846 41.667 0.00 0.00 0.00 4.10
6626 7081 3.119849 AGCATTAGTGTTTGGATCGTTGC 60.120 43.478 0.00 0.00 0.00 4.17
6627 7082 3.365868 GCATTAGTGTTTGGATCGTTGCA 60.366 43.478 0.00 0.00 0.00 4.08
6628 7083 3.889196 TTAGTGTTTGGATCGTTGCAC 57.111 42.857 0.00 0.00 0.00 4.57
6629 7084 1.967319 AGTGTTTGGATCGTTGCACT 58.033 45.000 0.00 6.00 33.05 4.40
6630 7085 3.120321 AGTGTTTGGATCGTTGCACTA 57.880 42.857 9.02 0.00 35.71 2.74
6631 7086 2.806244 AGTGTTTGGATCGTTGCACTAC 59.194 45.455 9.02 0.00 35.71 2.73
6632 7087 2.546368 GTGTTTGGATCGTTGCACTACA 59.454 45.455 0.00 0.00 0.00 2.74
6633 7088 3.188460 GTGTTTGGATCGTTGCACTACAT 59.812 43.478 0.00 0.00 0.00 2.29
6634 7089 3.818210 TGTTTGGATCGTTGCACTACATT 59.182 39.130 0.00 0.00 0.00 2.71
6635 7090 4.083537 TGTTTGGATCGTTGCACTACATTC 60.084 41.667 0.00 0.00 0.00 2.67
6636 7091 3.326836 TGGATCGTTGCACTACATTCA 57.673 42.857 0.00 0.00 0.00 2.57
6637 7092 3.669536 TGGATCGTTGCACTACATTCAA 58.330 40.909 0.00 0.00 0.00 2.69
6638 7093 4.260985 TGGATCGTTGCACTACATTCAAT 58.739 39.130 0.00 0.00 0.00 2.57
6639 7094 4.332543 TGGATCGTTGCACTACATTCAATC 59.667 41.667 0.00 0.00 0.00 2.67
6640 7095 4.332543 GGATCGTTGCACTACATTCAATCA 59.667 41.667 0.00 0.00 0.00 2.57
6641 7096 5.008019 GGATCGTTGCACTACATTCAATCAT 59.992 40.000 0.00 0.00 0.00 2.45
6642 7097 5.878332 TCGTTGCACTACATTCAATCATT 57.122 34.783 0.00 0.00 0.00 2.57
6643 7098 5.630061 TCGTTGCACTACATTCAATCATTG 58.370 37.500 0.00 0.00 0.00 2.82
6644 7099 4.263677 CGTTGCACTACATTCAATCATTGC 59.736 41.667 0.00 0.00 0.00 3.56
6645 7100 5.162794 GTTGCACTACATTCAATCATTGCA 58.837 37.500 0.00 0.00 36.97 4.08
6646 7101 5.388408 TGCACTACATTCAATCATTGCAA 57.612 34.783 0.00 0.00 35.87 4.08
6647 7102 5.162794 TGCACTACATTCAATCATTGCAAC 58.837 37.500 0.00 0.00 35.87 4.17
6648 7103 5.162794 GCACTACATTCAATCATTGCAACA 58.837 37.500 0.00 0.00 0.00 3.33
6649 7104 5.634439 GCACTACATTCAATCATTGCAACAA 59.366 36.000 0.00 0.00 0.00 2.83
6650 7105 6.145858 GCACTACATTCAATCATTGCAACAAA 59.854 34.615 0.00 0.00 0.00 2.83
6651 7106 7.503991 CACTACATTCAATCATTGCAACAAAC 58.496 34.615 0.00 0.00 0.00 2.93
6652 7107 7.169476 CACTACATTCAATCATTGCAACAAACA 59.831 33.333 0.00 0.00 0.00 2.83
6653 7108 6.922247 ACATTCAATCATTGCAACAAACAA 57.078 29.167 0.00 0.00 0.00 2.83
6654 7109 7.317842 ACATTCAATCATTGCAACAAACAAA 57.682 28.000 0.00 0.00 0.00 2.83
6655 7110 7.411274 ACATTCAATCATTGCAACAAACAAAG 58.589 30.769 0.00 0.00 0.00 2.77
6656 7111 6.981762 TTCAATCATTGCAACAAACAAAGT 57.018 29.167 0.00 0.00 0.00 2.66
6657 7112 8.549548 CATTCAATCATTGCAACAAACAAAGTA 58.450 29.630 0.00 0.00 0.00 2.24
6658 7113 7.462109 TCAATCATTGCAACAAACAAAGTAC 57.538 32.000 0.00 0.00 0.00 2.73
6659 7114 7.038048 TCAATCATTGCAACAAACAAAGTACA 58.962 30.769 0.00 0.00 0.00 2.90
6660 7115 7.547019 TCAATCATTGCAACAAACAAAGTACAA 59.453 29.630 0.00 0.00 0.00 2.41
6661 7116 6.639671 TCATTGCAACAAACAAAGTACAAC 57.360 33.333 0.00 0.00 0.00 3.32
6662 7117 6.393990 TCATTGCAACAAACAAAGTACAACT 58.606 32.000 0.00 0.00 0.00 3.16
6663 7118 7.539436 TCATTGCAACAAACAAAGTACAACTA 58.461 30.769 0.00 0.00 0.00 2.24
6664 7119 7.700234 TCATTGCAACAAACAAAGTACAACTAG 59.300 33.333 0.00 0.00 0.00 2.57
6665 7120 6.503589 TGCAACAAACAAAGTACAACTAGT 57.496 33.333 0.00 0.00 0.00 2.57
6666 7121 6.548171 TGCAACAAACAAAGTACAACTAGTC 58.452 36.000 0.00 0.00 0.00 2.59
6667 7122 6.149640 TGCAACAAACAAAGTACAACTAGTCA 59.850 34.615 0.00 0.00 0.00 3.41
6668 7123 6.687105 GCAACAAACAAAGTACAACTAGTCAG 59.313 38.462 0.00 0.00 0.00 3.51
6669 7124 6.920569 ACAAACAAAGTACAACTAGTCAGG 57.079 37.500 0.00 0.00 0.00 3.86
6670 7125 6.412214 ACAAACAAAGTACAACTAGTCAGGT 58.588 36.000 0.00 0.00 0.00 4.00
6671 7126 7.558604 ACAAACAAAGTACAACTAGTCAGGTA 58.441 34.615 0.00 0.00 0.00 3.08
6672 7127 7.709613 ACAAACAAAGTACAACTAGTCAGGTAG 59.290 37.037 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 7.775053 TGCTCTTTTTATGGGTACTTTTGAT 57.225 32.000 0.00 0.00 0.00 2.57
160 163 5.517924 TGCTTGATAATCATGGAAAAGGGA 58.482 37.500 0.00 0.00 0.00 4.20
403 568 0.171007 CATCGCCAAATTGAAGCCGT 59.829 50.000 0.00 0.00 0.00 5.68
450 615 1.069204 ACATTCATGAGGTCGATCGGG 59.931 52.381 16.41 0.00 0.00 5.14
460 625 1.061411 CGGTGCGCACATTCATGAG 59.939 57.895 38.60 16.33 0.00 2.90
520 685 2.489528 AGGCAAGGCATAGGGTACTA 57.510 50.000 0.00 0.00 0.00 1.82
627 796 3.414700 CTGACTGCCGGCGTGTTC 61.415 66.667 24.85 16.83 0.00 3.18
638 811 6.423302 GGAATATATTCTGCACTGACTGACTG 59.577 42.308 21.80 0.00 37.00 3.51
639 812 6.520272 GGAATATATTCTGCACTGACTGACT 58.480 40.000 21.80 0.00 37.00 3.41
640 813 5.403766 CGGAATATATTCTGCACTGACTGAC 59.596 44.000 21.80 3.25 36.48 3.51
641 814 5.301805 TCGGAATATATTCTGCACTGACTGA 59.698 40.000 24.07 6.06 41.75 3.41
743 934 2.029739 CCAACCACCGGATTACCAAAAC 60.030 50.000 9.46 0.00 35.59 2.43
746 937 1.003812 CTCCAACCACCGGATTACCAA 59.996 52.381 9.46 0.00 35.59 3.67
774 965 4.161001 GGCTTTGAACCATCTTTCATCCAT 59.839 41.667 0.00 0.00 35.42 3.41
775 966 3.511146 GGCTTTGAACCATCTTTCATCCA 59.489 43.478 0.00 0.00 35.42 3.41
974 1169 2.103601 TCCGAACCGAAACCTTCTTCTT 59.896 45.455 0.00 0.00 0.00 2.52
988 1183 2.582498 CGCCATCTCGTCCGAACC 60.582 66.667 0.00 0.00 0.00 3.62
1130 1325 2.432874 GTCTAGGAGGAAGGAAGGAAGC 59.567 54.545 0.00 0.00 0.00 3.86
1170 1365 0.808125 TGCACACACACAAGAACACC 59.192 50.000 0.00 0.00 0.00 4.16
1275 1510 9.133627 CCAATCTAATACTATGTCAAGTCATCG 57.866 37.037 0.00 0.00 0.00 3.84
1300 1539 7.283354 CCCTTTTCTATTCCTACTGAACAATCC 59.717 40.741 0.00 0.00 35.31 3.01
1356 1596 7.041644 TGTTCTACACCCTTGTAAATTTTCGAG 60.042 37.037 0.00 0.09 37.77 4.04
1373 1614 4.141914 CCCATCCTAAGGACTGTTCTACAC 60.142 50.000 0.00 0.00 32.98 2.90
1374 1615 4.030913 CCCATCCTAAGGACTGTTCTACA 58.969 47.826 0.00 0.00 32.98 2.74
1406 1647 2.158696 GCAAGGAGCCAAGGATACATCT 60.159 50.000 0.00 0.00 36.46 2.90
1419 1660 2.338785 GGCCACTTCAGCAAGGAGC 61.339 63.158 0.00 0.00 46.19 4.70
1420 1661 0.959372 CTGGCCACTTCAGCAAGGAG 60.959 60.000 0.00 0.00 33.37 3.69
1449 1690 3.827302 GGAGTCAGGACAAGAGTACTTCA 59.173 47.826 0.00 0.00 36.55 3.02
1454 1695 3.808834 TCAGGAGTCAGGACAAGAGTA 57.191 47.619 1.84 0.00 0.00 2.59
1458 1699 3.070159 TCAGTTTCAGGAGTCAGGACAAG 59.930 47.826 1.84 0.00 0.00 3.16
1459 1700 3.038280 TCAGTTTCAGGAGTCAGGACAA 58.962 45.455 1.84 0.00 0.00 3.18
1548 1789 6.549736 ACTGCAGGTTGGAAAGTATTTTTACT 59.450 34.615 19.93 0.00 39.27 2.24
1575 1816 4.841443 TGACAGTTACAGACGCTTTAGA 57.159 40.909 0.00 0.00 0.00 2.10
1576 1817 5.690409 TCTTTGACAGTTACAGACGCTTTAG 59.310 40.000 0.00 0.00 0.00 1.85
1601 1842 3.816091 CTGTCGACTCTCACAGTTACTG 58.184 50.000 17.92 11.21 36.12 2.74
1634 1877 3.990959 TTGCCCTTTTGAAGTTTTGGT 57.009 38.095 0.00 0.00 0.00 3.67
1698 1958 7.722285 TGGTTATACTACCATTATTTGCTTCCC 59.278 37.037 0.00 0.00 43.14 3.97
1751 2015 4.243270 GGCGGAAAGTATGCGTAATCTAT 58.757 43.478 0.00 0.00 45.70 1.98
1788 2052 3.880846 CGCTTTCCATCCTGGCGC 61.881 66.667 0.00 0.00 37.47 6.53
1811 2079 0.461339 AATACGTGCGCCTACCCAAG 60.461 55.000 4.18 0.00 0.00 3.61
1813 2081 1.142314 GAATACGTGCGCCTACCCA 59.858 57.895 4.18 0.00 0.00 4.51
1814 2082 1.947642 CGAATACGTGCGCCTACCC 60.948 63.158 4.18 0.00 34.56 3.69
1815 2083 3.609258 CGAATACGTGCGCCTACC 58.391 61.111 4.18 0.00 34.56 3.18
1839 2107 2.203070 GATGAGGCGCCGATTGGT 60.203 61.111 23.20 0.68 37.67 3.67
2029 2314 0.962489 GATGGACCGATCGATGGACT 59.038 55.000 18.66 0.00 0.00 3.85
2160 2462 0.602905 GTACCTCTGTGTGTGTGGGC 60.603 60.000 0.00 0.00 0.00 5.36
2173 2475 3.080319 ACCACTGAGAACGTAGTACCTC 58.920 50.000 0.00 0.00 45.00 3.85
2205 2510 1.391485 CTGAAGCAGAATTGACGTCCG 59.609 52.381 14.12 0.00 32.44 4.79
2406 2730 1.802880 GCGCCAAGATCGACTGTACAT 60.803 52.381 0.00 0.00 0.00 2.29
2414 2738 1.065701 GAGAACTAGCGCCAAGATCGA 59.934 52.381 13.83 0.00 0.00 3.59
2415 2739 1.482278 GAGAACTAGCGCCAAGATCG 58.518 55.000 13.83 0.00 0.00 3.69
2416 2740 1.539280 GGGAGAACTAGCGCCAAGATC 60.539 57.143 13.83 11.20 0.00 2.75
2417 2741 0.466124 GGGAGAACTAGCGCCAAGAT 59.534 55.000 13.83 2.11 0.00 2.40
2460 2784 5.064198 GGCAAAAAGGTTTAAAGGTGAACAC 59.936 40.000 0.00 0.00 0.00 3.32
2461 2785 5.046231 AGGCAAAAAGGTTTAAAGGTGAACA 60.046 36.000 0.00 0.00 0.00 3.18
2463 2787 5.187967 TCAGGCAAAAAGGTTTAAAGGTGAA 59.812 36.000 0.00 0.00 0.00 3.18
2465 2789 5.017294 TCAGGCAAAAAGGTTTAAAGGTG 57.983 39.130 0.00 0.00 0.00 4.00
2466 2790 5.685520 TTCAGGCAAAAAGGTTTAAAGGT 57.314 34.783 0.00 0.00 0.00 3.50
2467 2791 8.846943 ATTATTCAGGCAAAAAGGTTTAAAGG 57.153 30.769 0.00 0.00 0.00 3.11
2557 2894 0.107654 ACGCCCTCCATGACTTTAGC 60.108 55.000 0.00 0.00 0.00 3.09
2571 2909 1.507141 CCAGTCAGTTCAACACGCCC 61.507 60.000 0.00 0.00 0.00 6.13
2638 2985 7.667219 AGCTTAGGTACAGTTAACAGTACAGTA 59.333 37.037 30.57 21.97 39.62 2.74
2643 2990 6.888632 AGCTAGCTTAGGTACAGTTAACAGTA 59.111 38.462 12.68 7.60 34.21 2.74
2644 2991 5.715753 AGCTAGCTTAGGTACAGTTAACAGT 59.284 40.000 12.68 8.71 34.21 3.55
2661 3008 2.437413 GCTTTTGGTTGGTAGCTAGCT 58.563 47.619 23.12 23.12 0.00 3.32
2669 3020 1.788067 GCCGTACGCTTTTGGTTGGT 61.788 55.000 10.49 0.00 0.00 3.67
2691 3042 2.030562 ACACGTCGGCAAGGAAGG 59.969 61.111 0.00 0.00 0.00 3.46
2695 3046 1.227999 ATGAACACACGTCGGCAAGG 61.228 55.000 0.00 0.00 0.00 3.61
2743 3094 0.238289 CGGCGCTGAAATGTGAGTTT 59.762 50.000 11.90 0.00 0.00 2.66
2758 3114 3.564027 GAATCCTGGTTCGCGGCG 61.564 66.667 17.70 17.70 0.00 6.46
2760 3116 0.958382 TTTGGAATCCTGGTTCGCGG 60.958 55.000 6.13 0.00 0.00 6.46
2768 3125 9.277783 CACCTAGAGTATTATTTTGGAATCCTG 57.722 37.037 0.00 0.00 0.00 3.86
2848 3209 4.248859 CCATCTCAACACTCCTACACAAG 58.751 47.826 0.00 0.00 0.00 3.16
2859 3220 0.247736 AGACTCGCCCATCTCAACAC 59.752 55.000 0.00 0.00 0.00 3.32
2869 3230 3.126831 CACATTTCATCTAGACTCGCCC 58.873 50.000 0.00 0.00 0.00 6.13
2873 3234 6.183360 GGAACTTGCACATTTCATCTAGACTC 60.183 42.308 0.00 0.00 0.00 3.36
2875 3236 5.412594 TGGAACTTGCACATTTCATCTAGAC 59.587 40.000 0.00 0.00 0.00 2.59
2896 3257 6.968400 ATATATATTCACATGTGGGGTGGA 57.032 37.500 25.16 7.73 36.90 4.02
3504 3865 9.003658 CAAAGTTAATACAAGGTTGAGTCATCT 57.996 33.333 0.00 0.00 0.00 2.90
3505 3866 8.784043 ACAAAGTTAATACAAGGTTGAGTCATC 58.216 33.333 0.00 0.00 0.00 2.92
3506 3867 8.691661 ACAAAGTTAATACAAGGTTGAGTCAT 57.308 30.769 0.00 0.00 0.00 3.06
3507 3868 9.787435 ATACAAAGTTAATACAAGGTTGAGTCA 57.213 29.630 0.00 0.00 0.00 3.41
3541 3902 9.778741 TCAAAATAGATGACTCAACTTTGTACT 57.221 29.630 0.00 0.00 0.00 2.73
3544 3905 9.736023 GTTTCAAAATAGATGACTCAACTTTGT 57.264 29.630 0.00 0.00 0.00 2.83
3545 3906 8.895845 CGTTTCAAAATAGATGACTCAACTTTG 58.104 33.333 0.00 0.00 0.00 2.77
3546 3907 8.076178 CCGTTTCAAAATAGATGACTCAACTTT 58.924 33.333 0.00 0.00 0.00 2.66
3547 3908 7.444183 TCCGTTTCAAAATAGATGACTCAACTT 59.556 33.333 0.00 0.00 0.00 2.66
3548 3909 6.934645 TCCGTTTCAAAATAGATGACTCAACT 59.065 34.615 0.00 0.00 0.00 3.16
3549 3910 7.129109 TCCGTTTCAAAATAGATGACTCAAC 57.871 36.000 0.00 0.00 0.00 3.18
3550 3911 6.371548 CCTCCGTTTCAAAATAGATGACTCAA 59.628 38.462 0.00 0.00 0.00 3.02
3551 3912 5.874810 CCTCCGTTTCAAAATAGATGACTCA 59.125 40.000 0.00 0.00 0.00 3.41
3552 3913 5.294552 CCCTCCGTTTCAAAATAGATGACTC 59.705 44.000 0.00 0.00 0.00 3.36
3553 3914 5.045869 TCCCTCCGTTTCAAAATAGATGACT 60.046 40.000 0.00 0.00 0.00 3.41
3554 3915 5.183228 TCCCTCCGTTTCAAAATAGATGAC 58.817 41.667 0.00 0.00 0.00 3.06
3555 3916 5.045869 ACTCCCTCCGTTTCAAAATAGATGA 60.046 40.000 0.00 0.00 0.00 2.92
3556 3917 5.186198 ACTCCCTCCGTTTCAAAATAGATG 58.814 41.667 0.00 0.00 0.00 2.90
3557 3918 5.437191 ACTCCCTCCGTTTCAAAATAGAT 57.563 39.130 0.00 0.00 0.00 1.98
3558 3919 4.903045 ACTCCCTCCGTTTCAAAATAGA 57.097 40.909 0.00 0.00 0.00 1.98
3559 3920 6.037172 CACATACTCCCTCCGTTTCAAAATAG 59.963 42.308 0.00 0.00 0.00 1.73
3560 3921 5.878116 CACATACTCCCTCCGTTTCAAAATA 59.122 40.000 0.00 0.00 0.00 1.40
3561 3922 4.700213 CACATACTCCCTCCGTTTCAAAAT 59.300 41.667 0.00 0.00 0.00 1.82
3562 3923 4.069304 CACATACTCCCTCCGTTTCAAAA 58.931 43.478 0.00 0.00 0.00 2.44
3563 3924 3.325425 TCACATACTCCCTCCGTTTCAAA 59.675 43.478 0.00 0.00 0.00 2.69
3564 3925 2.901192 TCACATACTCCCTCCGTTTCAA 59.099 45.455 0.00 0.00 0.00 2.69
3565 3926 2.232941 GTCACATACTCCCTCCGTTTCA 59.767 50.000 0.00 0.00 0.00 2.69
3566 3927 2.232941 TGTCACATACTCCCTCCGTTTC 59.767 50.000 0.00 0.00 0.00 2.78
3567 3928 2.233922 CTGTCACATACTCCCTCCGTTT 59.766 50.000 0.00 0.00 0.00 3.60
3568 3929 1.825474 CTGTCACATACTCCCTCCGTT 59.175 52.381 0.00 0.00 0.00 4.44
3569 3930 1.272536 ACTGTCACATACTCCCTCCGT 60.273 52.381 0.00 0.00 0.00 4.69
3570 3931 1.475403 ACTGTCACATACTCCCTCCG 58.525 55.000 0.00 0.00 0.00 4.63
3571 3932 4.649674 TCAATACTGTCACATACTCCCTCC 59.350 45.833 0.00 0.00 0.00 4.30
3572 3933 5.854010 TCAATACTGTCACATACTCCCTC 57.146 43.478 0.00 0.00 0.00 4.30
3573 3934 6.183361 GGAATCAATACTGTCACATACTCCCT 60.183 42.308 0.00 0.00 0.00 4.20
3574 3935 5.992217 GGAATCAATACTGTCACATACTCCC 59.008 44.000 0.00 0.00 0.00 4.30
3575 3936 5.992217 GGGAATCAATACTGTCACATACTCC 59.008 44.000 0.00 0.00 0.00 3.85
3576 3937 6.582636 TGGGAATCAATACTGTCACATACTC 58.417 40.000 0.00 0.00 0.00 2.59
3577 3938 6.384015 TCTGGGAATCAATACTGTCACATACT 59.616 38.462 0.00 0.00 0.00 2.12
3578 3939 6.582636 TCTGGGAATCAATACTGTCACATAC 58.417 40.000 0.00 0.00 0.00 2.39
3601 3962 8.947115 AGTAGCACCATGTTTATTTTTACTCTC 58.053 33.333 0.00 0.00 0.00 3.20
3627 3988 5.125417 GGCATATAGTGTGGAAAAAGAAGCA 59.875 40.000 0.00 0.00 0.00 3.91
3628 3989 5.582550 GGCATATAGTGTGGAAAAAGAAGC 58.417 41.667 0.00 0.00 0.00 3.86
3631 3992 4.839121 ACGGCATATAGTGTGGAAAAAGA 58.161 39.130 0.00 0.00 0.00 2.52
3633 3994 5.968528 AAACGGCATATAGTGTGGAAAAA 57.031 34.783 0.00 0.00 0.00 1.94
3810 4177 6.051717 ACCATGTCGATGAGAAGATAAAAGG 58.948 40.000 0.00 0.00 0.00 3.11
3866 4235 2.473760 CGGCCGAACCAACAACACA 61.474 57.895 24.07 0.00 39.03 3.72
3867 4236 1.995646 AACGGCCGAACCAACAACAC 61.996 55.000 35.90 0.00 39.03 3.32
3868 4237 1.313812 AAACGGCCGAACCAACAACA 61.314 50.000 35.90 0.00 39.03 3.33
3869 4238 0.868177 CAAACGGCCGAACCAACAAC 60.868 55.000 35.90 0.00 39.03 3.32
3870 4239 1.433879 CAAACGGCCGAACCAACAA 59.566 52.632 35.90 0.00 39.03 2.83
3882 4251 2.184836 CATGCATGGCCCAAACGG 59.815 61.111 19.40 0.00 0.00 4.44
3883 4252 1.446445 CACATGCATGGCCCAAACG 60.446 57.895 29.41 2.41 0.00 3.60
3895 4264 0.095935 GCTCGATCACACACACATGC 59.904 55.000 0.00 0.00 0.00 4.06
3899 4268 0.666274 TTCGGCTCGATCACACACAC 60.666 55.000 0.00 0.00 35.23 3.82
3916 4288 2.107141 CGATGGGCCTCCGAGTTC 59.893 66.667 4.53 0.00 35.24 3.01
3942 4314 4.202264 ACCAGATTATTCCTGTCCGTCATC 60.202 45.833 0.00 0.00 0.00 2.92
3983 4356 0.393077 AGGTGTCTGTCAGGGTTTCG 59.607 55.000 0.00 0.00 0.00 3.46
4215 4612 0.249280 ACGTTCAGTGTGCATCGTCA 60.249 50.000 0.00 0.00 0.00 4.35
4237 4634 1.941812 CAAGAGCGCAAGACCGTTT 59.058 52.632 11.47 0.00 43.02 3.60
4460 4867 3.112709 GTGAGCACCGCCGAGAAC 61.113 66.667 0.00 0.00 0.00 3.01
4631 5044 2.817834 CCGTACGACGTACCCGGA 60.818 66.667 27.55 0.00 40.58 5.14
5501 5914 1.736645 GTTCTGCGCCGACAGCTTA 60.737 57.895 4.18 0.00 40.39 3.09
5684 6097 2.050714 CTGCTTGCGTGCACCTTG 60.051 61.111 12.15 0.00 38.12 3.61
5744 6163 2.560504 TGAGAAAGTGAACGTGCATGT 58.439 42.857 5.51 5.51 0.00 3.21
5797 6217 4.640647 CCTCCTTTTTATCTACCTTGTGGC 59.359 45.833 0.00 0.00 36.63 5.01
5951 6380 8.737168 TTTCCACTTTCAATATCTGGTATGAG 57.263 34.615 0.00 0.00 0.00 2.90
5955 6384 6.889177 TGCATTTCCACTTTCAATATCTGGTA 59.111 34.615 0.00 0.00 0.00 3.25
5992 6427 1.616374 TCACATGTTCTGGCTACGTGA 59.384 47.619 0.00 0.00 36.31 4.35
6006 6441 4.923893 ACATGACACAAGTGTTTCACATG 58.076 39.130 21.40 21.40 45.05 3.21
6015 6450 6.144402 GCCAAAGAATTTACATGACACAAGTG 59.856 38.462 0.00 0.00 35.03 3.16
6022 6457 8.863049 CAGTAATTGCCAAAGAATTTACATGAC 58.137 33.333 0.00 0.00 35.03 3.06
6070 6505 6.110707 GCACACCCTTTAACTTAGCTATACA 58.889 40.000 0.00 0.00 0.00 2.29
6146 6581 9.352163 CAGTTTTCAATTTTACAAATTACGTGC 57.648 29.630 0.00 0.00 0.00 5.34
6230 6666 5.740569 CCACAAATAGCACATCTTGAAATCG 59.259 40.000 0.00 0.00 0.00 3.34
6266 6702 8.896744 CATATTTCTCATACATGACAAACACCT 58.103 33.333 0.00 0.00 29.66 4.00
6306 6742 1.596203 GAGCTGCATCATAGGCGCA 60.596 57.895 10.83 0.00 34.72 6.09
6307 6743 2.323580 GGAGCTGCATCATAGGCGC 61.324 63.158 0.00 0.00 0.00 6.53
6326 6762 3.122297 CGTGGTGCAACAAAATGTGATT 58.878 40.909 5.70 0.00 39.98 2.57
6430 6881 9.646427 ATTACAAATTGCAACGGTACAAAATAT 57.354 25.926 0.00 0.00 0.00 1.28
6458 6909 7.822161 TGCAATAGCCACTTGTGAAATATAT 57.178 32.000 1.89 0.00 41.13 0.86
6459 6910 7.201812 CCTTGCAATAGCCACTTGTGAAATATA 60.202 37.037 0.00 0.00 41.13 0.86
6531 6986 9.528018 TTTTGCAGGATTCTTTACTTTAAGTTG 57.472 29.630 1.94 0.00 0.00 3.16
6565 7020 9.555727 AGCAGTCACTAATGTTTCTTTACTTTA 57.444 29.630 0.00 0.00 0.00 1.85
6566 7021 8.451908 AGCAGTCACTAATGTTTCTTTACTTT 57.548 30.769 0.00 0.00 0.00 2.66
6567 7022 8.989980 GTAGCAGTCACTAATGTTTCTTTACTT 58.010 33.333 0.00 0.00 0.00 2.24
6568 7023 8.148351 TGTAGCAGTCACTAATGTTTCTTTACT 58.852 33.333 0.00 0.00 0.00 2.24
6569 7024 8.306680 TGTAGCAGTCACTAATGTTTCTTTAC 57.693 34.615 0.00 0.00 0.00 2.01
6570 7025 8.896320 TTGTAGCAGTCACTAATGTTTCTTTA 57.104 30.769 0.00 0.00 0.00 1.85
6571 7026 7.715249 TCTTGTAGCAGTCACTAATGTTTCTTT 59.285 33.333 0.00 0.00 0.00 2.52
6572 7027 7.217200 TCTTGTAGCAGTCACTAATGTTTCTT 58.783 34.615 0.00 0.00 0.00 2.52
6573 7028 6.759272 TCTTGTAGCAGTCACTAATGTTTCT 58.241 36.000 0.00 0.00 0.00 2.52
6574 7029 7.385205 TCTTCTTGTAGCAGTCACTAATGTTTC 59.615 37.037 0.00 0.00 0.00 2.78
6575 7030 7.217200 TCTTCTTGTAGCAGTCACTAATGTTT 58.783 34.615 0.00 0.00 0.00 2.83
6576 7031 6.759272 TCTTCTTGTAGCAGTCACTAATGTT 58.241 36.000 0.00 0.00 0.00 2.71
6577 7032 6.346477 TCTTCTTGTAGCAGTCACTAATGT 57.654 37.500 0.00 0.00 0.00 2.71
6578 7033 7.547019 TCATTCTTCTTGTAGCAGTCACTAATG 59.453 37.037 0.00 0.00 0.00 1.90
6579 7034 7.615403 TCATTCTTCTTGTAGCAGTCACTAAT 58.385 34.615 0.00 0.00 0.00 1.73
6580 7035 6.993079 TCATTCTTCTTGTAGCAGTCACTAA 58.007 36.000 0.00 0.00 0.00 2.24
6581 7036 6.590234 TCATTCTTCTTGTAGCAGTCACTA 57.410 37.500 0.00 0.00 0.00 2.74
6582 7037 5.474578 TCATTCTTCTTGTAGCAGTCACT 57.525 39.130 0.00 0.00 0.00 3.41
6583 7038 4.092675 GCTCATTCTTCTTGTAGCAGTCAC 59.907 45.833 0.00 0.00 0.00 3.67
6584 7039 4.248859 GCTCATTCTTCTTGTAGCAGTCA 58.751 43.478 0.00 0.00 0.00 3.41
6585 7040 4.248859 TGCTCATTCTTCTTGTAGCAGTC 58.751 43.478 0.00 0.00 35.20 3.51
6586 7041 4.277515 TGCTCATTCTTCTTGTAGCAGT 57.722 40.909 0.00 0.00 35.20 4.40
6587 7042 5.814764 AATGCTCATTCTTCTTGTAGCAG 57.185 39.130 0.00 0.00 42.64 4.24
6588 7043 6.314648 CACTAATGCTCATTCTTCTTGTAGCA 59.685 38.462 0.00 0.00 43.43 3.49
6589 7044 6.314896 ACACTAATGCTCATTCTTCTTGTAGC 59.685 38.462 0.00 0.00 32.50 3.58
6590 7045 7.840342 ACACTAATGCTCATTCTTCTTGTAG 57.160 36.000 0.00 0.00 32.50 2.74
6591 7046 8.506437 CAAACACTAATGCTCATTCTTCTTGTA 58.494 33.333 0.00 0.00 32.50 2.41
6592 7047 7.365741 CAAACACTAATGCTCATTCTTCTTGT 58.634 34.615 0.00 0.00 32.50 3.16
6593 7048 6.805271 CCAAACACTAATGCTCATTCTTCTTG 59.195 38.462 0.00 0.00 32.50 3.02
6594 7049 6.716628 TCCAAACACTAATGCTCATTCTTCTT 59.283 34.615 0.00 0.00 32.50 2.52
6595 7050 6.240894 TCCAAACACTAATGCTCATTCTTCT 58.759 36.000 0.00 0.00 32.50 2.85
6596 7051 6.500684 TCCAAACACTAATGCTCATTCTTC 57.499 37.500 0.00 0.00 32.50 2.87
6597 7052 6.183360 CGATCCAAACACTAATGCTCATTCTT 60.183 38.462 0.00 0.00 32.50 2.52
6598 7053 5.295292 CGATCCAAACACTAATGCTCATTCT 59.705 40.000 0.00 0.00 32.50 2.40
6599 7054 5.065218 ACGATCCAAACACTAATGCTCATTC 59.935 40.000 0.00 0.00 32.50 2.67
6600 7055 4.943705 ACGATCCAAACACTAATGCTCATT 59.056 37.500 0.00 0.49 34.93 2.57
6601 7056 4.517285 ACGATCCAAACACTAATGCTCAT 58.483 39.130 0.00 0.00 0.00 2.90
6602 7057 3.937814 ACGATCCAAACACTAATGCTCA 58.062 40.909 0.00 0.00 0.00 4.26
6603 7058 4.651994 CAACGATCCAAACACTAATGCTC 58.348 43.478 0.00 0.00 0.00 4.26
6604 7059 3.119849 GCAACGATCCAAACACTAATGCT 60.120 43.478 0.00 0.00 0.00 3.79
6605 7060 3.171277 GCAACGATCCAAACACTAATGC 58.829 45.455 0.00 0.00 0.00 3.56
6606 7061 4.083324 AGTGCAACGATCCAAACACTAATG 60.083 41.667 4.74 0.00 45.86 1.90
6607 7062 4.072131 AGTGCAACGATCCAAACACTAAT 58.928 39.130 4.74 0.00 45.86 1.73
6608 7063 3.472652 AGTGCAACGATCCAAACACTAA 58.527 40.909 4.74 0.00 45.86 2.24
6609 7064 3.120321 AGTGCAACGATCCAAACACTA 57.880 42.857 4.74 0.00 45.86 2.74
6610 7065 1.967319 AGTGCAACGATCCAAACACT 58.033 45.000 0.00 0.00 45.86 3.55
6611 7066 2.546368 TGTAGTGCAACGATCCAAACAC 59.454 45.455 0.00 0.00 45.86 3.32
6612 7067 2.839975 TGTAGTGCAACGATCCAAACA 58.160 42.857 0.00 0.00 45.86 2.83
6613 7068 4.083537 TGAATGTAGTGCAACGATCCAAAC 60.084 41.667 0.00 0.00 45.86 2.93
6614 7069 4.068599 TGAATGTAGTGCAACGATCCAAA 58.931 39.130 0.00 0.00 45.86 3.28
6615 7070 3.669536 TGAATGTAGTGCAACGATCCAA 58.330 40.909 0.00 0.00 45.86 3.53
6616 7071 3.326836 TGAATGTAGTGCAACGATCCA 57.673 42.857 0.00 0.00 45.86 3.41
6617 7072 4.332543 TGATTGAATGTAGTGCAACGATCC 59.667 41.667 12.66 0.00 45.86 3.36
6618 7073 5.469373 TGATTGAATGTAGTGCAACGATC 57.531 39.130 0.00 10.06 45.86 3.69
6619 7074 6.260377 CAATGATTGAATGTAGTGCAACGAT 58.740 36.000 0.00 0.00 45.86 3.73
6620 7075 5.630061 CAATGATTGAATGTAGTGCAACGA 58.370 37.500 0.00 0.00 45.86 3.85
6621 7076 4.263677 GCAATGATTGAATGTAGTGCAACG 59.736 41.667 9.76 0.00 45.86 4.10
6622 7077 5.162794 TGCAATGATTGAATGTAGTGCAAC 58.837 37.500 9.76 0.00 40.54 4.17
6623 7078 5.388408 TGCAATGATTGAATGTAGTGCAA 57.612 34.783 9.76 0.00 40.54 4.08
6624 7079 5.162794 GTTGCAATGATTGAATGTAGTGCA 58.837 37.500 9.76 9.19 41.56 4.57
6625 7080 5.162794 TGTTGCAATGATTGAATGTAGTGC 58.837 37.500 9.76 5.00 35.01 4.40
6626 7081 7.169476 TGTTTGTTGCAATGATTGAATGTAGTG 59.831 33.333 9.76 0.00 0.00 2.74
6627 7082 7.208777 TGTTTGTTGCAATGATTGAATGTAGT 58.791 30.769 9.76 0.00 0.00 2.73
6628 7083 7.640616 TGTTTGTTGCAATGATTGAATGTAG 57.359 32.000 9.76 0.00 0.00 2.74
6629 7084 8.429493 TTTGTTTGTTGCAATGATTGAATGTA 57.571 26.923 9.76 0.00 0.00 2.29
6630 7085 6.922247 TTGTTTGTTGCAATGATTGAATGT 57.078 29.167 9.76 0.00 0.00 2.71
6631 7086 7.411274 ACTTTGTTTGTTGCAATGATTGAATG 58.589 30.769 9.76 0.00 0.00 2.67
6632 7087 7.556733 ACTTTGTTTGTTGCAATGATTGAAT 57.443 28.000 9.76 0.00 0.00 2.57
6633 7088 6.981762 ACTTTGTTTGTTGCAATGATTGAA 57.018 29.167 9.76 0.00 0.00 2.69
6634 7089 7.038048 TGTACTTTGTTTGTTGCAATGATTGA 58.962 30.769 9.76 0.00 0.00 2.57
6635 7090 7.231705 TGTACTTTGTTTGTTGCAATGATTG 57.768 32.000 0.59 0.00 0.00 2.67
6636 7091 7.548780 AGTTGTACTTTGTTTGTTGCAATGATT 59.451 29.630 0.59 0.00 0.00 2.57
6637 7092 7.041107 AGTTGTACTTTGTTTGTTGCAATGAT 58.959 30.769 0.59 0.00 0.00 2.45
6638 7093 6.393990 AGTTGTACTTTGTTTGTTGCAATGA 58.606 32.000 0.59 0.00 0.00 2.57
6639 7094 6.645700 AGTTGTACTTTGTTTGTTGCAATG 57.354 33.333 0.59 0.00 0.00 2.82
6640 7095 7.543756 ACTAGTTGTACTTTGTTTGTTGCAAT 58.456 30.769 0.59 0.00 0.00 3.56
6641 7096 6.915349 ACTAGTTGTACTTTGTTTGTTGCAA 58.085 32.000 0.00 0.00 0.00 4.08
6642 7097 6.149640 TGACTAGTTGTACTTTGTTTGTTGCA 59.850 34.615 0.00 0.00 0.00 4.08
6643 7098 6.548171 TGACTAGTTGTACTTTGTTTGTTGC 58.452 36.000 0.00 0.00 0.00 4.17
6644 7099 7.148306 ACCTGACTAGTTGTACTTTGTTTGTTG 60.148 37.037 0.00 0.00 0.00 3.33
6645 7100 6.882678 ACCTGACTAGTTGTACTTTGTTTGTT 59.117 34.615 0.00 0.00 0.00 2.83
6646 7101 6.412214 ACCTGACTAGTTGTACTTTGTTTGT 58.588 36.000 0.00 0.00 0.00 2.83
6647 7102 6.920569 ACCTGACTAGTTGTACTTTGTTTG 57.079 37.500 0.00 0.00 0.00 2.93


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

AutoCloner maintained by Alex Coulton.