Multiple sequence alignment - TraesCS6D01G340500

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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 TraesCS6D01G340500 chr6D 100.000 4572 0 0 1 4572 439663116 439658545 0.000000e+00 8444.0
1 TraesCS6D01G340500 chr6D 93.179 2243 134 12 603 2839 439616051 439618280 0.000000e+00 3277.0
2 TraesCS6D01G340500 chr6D 80.334 2573 381 58 619 3144 2133977 2136471 0.000000e+00 1832.0
3 TraesCS6D01G340500 chr6D 84.264 788 101 12 2867 3634 439618357 439619141 0.000000e+00 747.0
4 TraesCS6D01G340500 chr6D 78.740 762 104 30 1540 2290 4209039 4209753 1.500000e-124 457.0
5 TraesCS6D01G340500 chr6A 92.772 3611 178 21 193 3778 587972589 587969037 0.000000e+00 5145.0
6 TraesCS6D01G340500 chr6A 90.501 3053 251 20 603 3631 587890288 587893325 0.000000e+00 3995.0
7 TraesCS6D01G340500 chr6A 81.051 1694 241 41 619 2290 775007 773372 0.000000e+00 1277.0
8 TraesCS6D01G340500 chr6A 97.462 197 5 0 1 197 587974948 587974752 2.040000e-88 337.0
9 TraesCS6D01G340500 chr6A 80.682 264 41 9 3929 4187 74717871 74718129 3.610000e-46 196.0
10 TraesCS6D01G340500 chr6A 80.682 264 41 9 3929 4187 74729551 74729809 3.610000e-46 196.0
11 TraesCS6D01G340500 chr6A 80.682 264 41 9 3929 4187 74741626 74741884 3.610000e-46 196.0
12 TraesCS6D01G340500 chr6A 97.500 40 1 0 565 604 587890087 587890126 8.210000e-08 69.4
13 TraesCS6D01G340500 chr6B 93.435 2026 114 8 604 2624 664477306 664479317 0.000000e+00 2987.0
14 TraesCS6D01G340500 chr6B 93.216 1990 95 13 148 2134 664525622 664523670 0.000000e+00 2891.0
15 TraesCS6D01G340500 chr6B 90.943 1623 97 21 2173 3778 664523577 664521988 0.000000e+00 2137.0
16 TraesCS6D01G340500 chr6B 80.181 2205 339 50 619 2787 3799634 3801776 0.000000e+00 1561.0
17 TraesCS6D01G340500 chr6B 80.721 2080 333 39 1098 3144 664506677 664504633 0.000000e+00 1557.0
18 TraesCS6D01G340500 chr6B 83.206 786 111 10 2867 3634 664479711 664480493 0.000000e+00 701.0
19 TraesCS6D01G340500 chr6B 88.650 326 34 1 2514 2839 664479318 664479640 1.190000e-105 394.0
20 TraesCS6D01G340500 chr6B 81.959 194 19 6 1561 1753 3836157 3836335 2.850000e-32 150.0
21 TraesCS6D01G340500 chr6B 93.137 102 5 2 1 102 664525709 664525610 1.020000e-31 148.0
22 TraesCS6D01G340500 chr6B 94.318 88 4 1 971 1058 664507917 664508003 2.870000e-27 134.0
23 TraesCS6D01G340500 chr6B 94.667 75 4 0 1725 1799 664508049 664508123 2.890000e-22 117.0
24 TraesCS6D01G340500 chr7D 99.064 641 6 0 3932 4572 492211883 492212523 0.000000e+00 1151.0
25 TraesCS6D01G340500 chr7D 87.085 271 19 7 4314 4572 412584787 412585053 4.470000e-75 292.0
26 TraesCS6D01G340500 chr7D 100.000 62 0 0 4511 4572 492212726 492212787 1.040000e-21 115.0
27 TraesCS6D01G340500 chr2D 98.746 638 8 0 3935 4572 120257157 120257794 0.000000e+00 1134.0
28 TraesCS6D01G340500 chr4D 97.516 644 14 2 3929 4572 29026160 29026801 0.000000e+00 1099.0
29 TraesCS6D01G340500 chr7B 95.662 461 18 2 4113 4572 521587078 521587537 0.000000e+00 739.0
30 TraesCS6D01G340500 chr7B 84.488 664 77 17 3929 4572 426834132 426834789 2.320000e-177 632.0
31 TraesCS6D01G340500 chrUn 80.308 843 114 24 1561 2388 255514960 255515765 1.420000e-164 590.0
32 TraesCS6D01G340500 chr7A 83.876 645 74 22 3929 4564 473808301 473808924 5.100000e-164 588.0
33 TraesCS6D01G340500 chr7A 100.000 28 0 0 35 62 239524113 239524140 8.000000e-03 52.8
34 TraesCS6D01G340500 chr1D 82.627 236 37 4 3935 4167 32487577 32487343 6.000000e-49 206.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G340500 chr6D 439658545 439663116 4571 True 8444.000000 8444 100.000000 1 4572 1 chr6D.!!$R1 4571
1 TraesCS6D01G340500 chr6D 439616051 439619141 3090 False 2012.000000 3277 88.721500 603 3634 2 chr6D.!!$F3 3031
2 TraesCS6D01G340500 chr6D 2133977 2136471 2494 False 1832.000000 1832 80.334000 619 3144 1 chr6D.!!$F1 2525
3 TraesCS6D01G340500 chr6D 4209039 4209753 714 False 457.000000 457 78.740000 1540 2290 1 chr6D.!!$F2 750
4 TraesCS6D01G340500 chr6A 587969037 587974948 5911 True 2741.000000 5145 95.117000 1 3778 2 chr6A.!!$R2 3777
5 TraesCS6D01G340500 chr6A 587890087 587893325 3238 False 2032.200000 3995 94.000500 565 3631 2 chr6A.!!$F4 3066
6 TraesCS6D01G340500 chr6A 773372 775007 1635 True 1277.000000 1277 81.051000 619 2290 1 chr6A.!!$R1 1671
7 TraesCS6D01G340500 chr6B 664521988 664525709 3721 True 1725.333333 2891 92.432000 1 3778 3 chr6B.!!$R2 3777
8 TraesCS6D01G340500 chr6B 3799634 3801776 2142 False 1561.000000 1561 80.181000 619 2787 1 chr6B.!!$F1 2168
9 TraesCS6D01G340500 chr6B 664504633 664506677 2044 True 1557.000000 1557 80.721000 1098 3144 1 chr6B.!!$R1 2046
10 TraesCS6D01G340500 chr6B 664477306 664480493 3187 False 1360.666667 2987 88.430333 604 3634 3 chr6B.!!$F3 3030
11 TraesCS6D01G340500 chr7D 492211883 492212787 904 False 633.000000 1151 99.532000 3932 4572 2 chr7D.!!$F2 640
12 TraesCS6D01G340500 chr2D 120257157 120257794 637 False 1134.000000 1134 98.746000 3935 4572 1 chr2D.!!$F1 637
13 TraesCS6D01G340500 chr4D 29026160 29026801 641 False 1099.000000 1099 97.516000 3929 4572 1 chr4D.!!$F1 643
14 TraesCS6D01G340500 chr7B 426834132 426834789 657 False 632.000000 632 84.488000 3929 4572 1 chr7B.!!$F1 643
15 TraesCS6D01G340500 chrUn 255514960 255515765 805 False 590.000000 590 80.308000 1561 2388 1 chrUn.!!$F1 827
16 TraesCS6D01G340500 chr7A 473808301 473808924 623 False 588.000000 588 83.876000 3929 4564 1 chr7A.!!$F2 635

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
27 28 4.232221 GCATCATGGACAAACTCAACAAG 58.768 43.478 0.00 0.0 0.0 3.16 F
1288 3651 3.256136 CGGCTTTTAACCACCCATTGTTA 59.744 43.478 0.00 0.0 0.0 2.41 F
2116 4516 0.831307 AATGAAGGGCCTCGTACTCC 59.169 55.000 6.46 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1543 3924 1.491670 ATGCATCAGACGATACGCAC 58.508 50.0 0.00 0.0 34.45 5.34 R
2748 5340 0.320374 TCCGATCTGTGTGTTGTCCC 59.680 55.0 0.00 0.0 0.00 4.46 R
3811 6504 0.179089 TTTGCGCATGGCTTTTGTGT 60.179 45.0 12.75 0.0 44.05 3.72 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
27 28 4.232221 GCATCATGGACAAACTCAACAAG 58.768 43.478 0.00 0.00 0.00 3.16
407 2575 5.777732 AGAGTTGTTCCTAGTCTCTCACAAT 59.222 40.000 0.00 0.00 30.98 2.71
480 2650 6.713762 AAAATCTTGAACTGATGGTGTTGA 57.286 33.333 0.00 0.00 0.00 3.18
517 2687 8.918202 AGCCGATGGTATAAAATATTTCAAGA 57.082 30.769 0.10 0.00 0.00 3.02
518 2688 8.784043 AGCCGATGGTATAAAATATTTCAAGAC 58.216 33.333 0.10 0.99 0.00 3.01
849 3212 9.015367 TCTAGAGGTGATATATCTTAGTGCAAC 57.985 37.037 13.79 1.28 0.00 4.17
1051 3414 8.150296 TGACTCTTCTCATGTCATTTCTTGTTA 58.850 33.333 0.00 0.00 36.03 2.41
1288 3651 3.256136 CGGCTTTTAACCACCCATTGTTA 59.744 43.478 0.00 0.00 0.00 2.41
1421 3786 5.820947 GTGTTCTACTCCCTTCTTGTTTCAA 59.179 40.000 0.00 0.00 0.00 2.69
1498 3879 7.427318 GTGAACTAAAGTAACAACCTTTTCACG 59.573 37.037 0.00 0.00 32.23 4.35
1546 3928 8.812329 TGAATAAAACTACAACATGTTTTGTGC 58.188 29.630 8.77 0.00 43.46 4.57
1551 3933 5.685841 ACTACAACATGTTTTGTGCGTATC 58.314 37.500 8.77 0.00 40.04 2.24
1669 4052 5.699839 ACATTTCCTTCGGATTCTTTTTCG 58.300 37.500 0.00 0.00 0.00 3.46
1701 4084 4.141088 ACCATCTATCATCAAGTGCCCAAT 60.141 41.667 0.00 0.00 0.00 3.16
1938 4321 8.768397 TGTTGGATTAAAGATGTACCATAGACT 58.232 33.333 0.00 0.00 0.00 3.24
2116 4516 0.831307 AATGAAGGGCCTCGTACTCC 59.169 55.000 6.46 0.00 0.00 3.85
2168 4596 3.953712 TGCCTTCAGATTTCTACGTCA 57.046 42.857 0.00 0.00 0.00 4.35
2512 4993 6.500049 TGGTCCAATTAAAAATTCTGATGGGT 59.500 34.615 0.00 0.00 0.00 4.51
2531 5012 2.734606 GGTTTGGCGCCTTACATTTTTC 59.265 45.455 29.70 7.60 0.00 2.29
2539 5020 4.854839 GCGCCTTACATTTTTCATAACGTT 59.145 37.500 5.88 5.88 0.00 3.99
2714 5306 7.701257 AGGTTAATAAAGGTAGCCAGGATTA 57.299 36.000 0.00 0.00 0.00 1.75
2748 5340 8.710749 TTTGGATAGATATTGAAAATGGAGGG 57.289 34.615 0.00 0.00 0.00 4.30
2815 5407 4.942761 ACATTGAGTGGTGATGCTTTTT 57.057 36.364 0.00 0.00 0.00 1.94
2816 5408 4.874970 ACATTGAGTGGTGATGCTTTTTC 58.125 39.130 0.00 0.00 0.00 2.29
2989 5661 1.557443 GCGTTGACTTCAGGTGTCCG 61.557 60.000 0.00 0.00 33.83 4.79
3013 5685 1.999648 ATGTGCAAGTCCACCACAAT 58.000 45.000 0.00 0.00 42.10 2.71
3026 5698 1.993956 CCACAATGTTGGTCCTGGAA 58.006 50.000 0.00 0.00 0.00 3.53
3059 5731 3.246301 CCATCCTCTGTCTATGGTGGAT 58.754 50.000 0.00 0.00 36.26 3.41
3232 5925 1.526575 GCCATTGGTGGGTGAGTGTG 61.527 60.000 4.26 0.00 46.14 3.82
3415 6108 2.408050 GCGTTCATAGAAGGCATCGAT 58.592 47.619 16.67 0.00 0.00 3.59
3425 6118 4.252073 AGAAGGCATCGATATTGCTGATC 58.748 43.478 9.20 5.77 40.03 2.92
3484 6177 1.301244 GCATGGGTCGAGCGATCAT 60.301 57.895 9.29 4.16 0.00 2.45
3521 6214 3.502211 CGGTGGATTTGAAGTTAGCAAGT 59.498 43.478 0.00 0.00 0.00 3.16
3524 6217 6.537301 CGGTGGATTTGAAGTTAGCAAGTATA 59.463 38.462 0.00 0.00 0.00 1.47
3568 6261 3.414193 CCAGGCTCCATGAGGGCA 61.414 66.667 8.11 0.00 36.21 5.36
3590 6283 8.918116 GGGCATGATCTGATGATAGTAGTAATA 58.082 37.037 0.00 0.00 32.19 0.98
3620 6313 7.481798 GCATGGTCTCGACAAAGTTAATAAAAG 59.518 37.037 0.00 0.00 0.00 2.27
3623 6316 7.386848 TGGTCTCGACAAAGTTAATAAAAGAGG 59.613 37.037 0.00 0.00 0.00 3.69
3660 6353 4.078537 AGTGGTGTTGCAGCATTATGTAA 58.921 39.130 6.50 0.00 43.70 2.41
3661 6354 4.706476 AGTGGTGTTGCAGCATTATGTAAT 59.294 37.500 6.50 0.00 43.70 1.89
3662 6355 4.799949 GTGGTGTTGCAGCATTATGTAATG 59.200 41.667 6.50 8.11 43.70 1.90
3663 6356 4.462132 TGGTGTTGCAGCATTATGTAATGT 59.538 37.500 6.50 0.25 43.72 2.71
3664 6357 5.649831 TGGTGTTGCAGCATTATGTAATGTA 59.350 36.000 6.50 0.00 43.72 2.29
3672 6365 6.593072 CAGCATTATGTAATGTATGTCCGTG 58.407 40.000 12.80 0.00 43.72 4.94
3680 6373 7.045126 TGTAATGTATGTCCGTGTATCATCA 57.955 36.000 0.00 0.00 0.00 3.07
3685 6378 5.810074 TGTATGTCCGTGTATCATCAACTTG 59.190 40.000 0.00 0.00 0.00 3.16
3691 6384 3.122780 CGTGTATCATCAACTTGCGTTCA 59.877 43.478 0.00 0.00 0.00 3.18
3694 6387 4.934602 TGTATCATCAACTTGCGTTCATGA 59.065 37.500 0.00 0.00 43.33 3.07
3696 6389 6.760770 TGTATCATCAACTTGCGTTCATGATA 59.239 34.615 6.87 6.87 45.66 2.15
3697 6390 6.872628 ATCATCAACTTGCGTTCATGATAT 57.127 33.333 2.76 0.00 45.66 1.63
3698 6391 6.051646 TCATCAACTTGCGTTCATGATATG 57.948 37.500 0.00 0.00 35.99 1.78
3699 6392 4.277257 TCAACTTGCGTTCATGATATGC 57.723 40.909 0.00 5.74 0.00 3.14
3700 6393 3.065233 TCAACTTGCGTTCATGATATGCC 59.935 43.478 15.13 3.71 0.00 4.40
3701 6394 1.949525 ACTTGCGTTCATGATATGCCC 59.050 47.619 15.13 0.00 0.00 5.36
3702 6395 2.224606 CTTGCGTTCATGATATGCCCT 58.775 47.619 15.13 0.00 0.00 5.19
3703 6396 1.596603 TGCGTTCATGATATGCCCTG 58.403 50.000 15.13 0.00 0.00 4.45
3704 6397 1.140652 TGCGTTCATGATATGCCCTGA 59.859 47.619 15.13 0.35 0.00 3.86
3733 6426 2.926838 TGTTTCTTGTTTCTTTTGCCGC 59.073 40.909 0.00 0.00 0.00 6.53
3749 6442 3.436001 CGCGAGGGAGTGTAAATGT 57.564 52.632 0.00 0.00 0.00 2.71
3750 6443 1.278238 CGCGAGGGAGTGTAAATGTC 58.722 55.000 0.00 0.00 0.00 3.06
3759 6452 1.141645 GTGTAAATGTCACGCCACGA 58.858 50.000 0.00 0.00 0.00 4.35
3763 6456 1.651987 AAATGTCACGCCACGATAGG 58.348 50.000 0.00 0.00 43.77 2.57
3778 6471 4.565166 CACGATAGGCGATACAAGTTGAAA 59.435 41.667 10.54 0.00 44.57 2.69
3779 6472 4.804139 ACGATAGGCGATACAAGTTGAAAG 59.196 41.667 10.54 0.00 44.57 2.62
3780 6473 5.041287 CGATAGGCGATACAAGTTGAAAGA 58.959 41.667 10.54 0.00 44.57 2.52
3781 6474 5.518847 CGATAGGCGATACAAGTTGAAAGAA 59.481 40.000 10.54 0.00 44.57 2.52
3782 6475 6.291849 CGATAGGCGATACAAGTTGAAAGAAG 60.292 42.308 10.54 0.00 44.57 2.85
3783 6476 4.894784 AGGCGATACAAGTTGAAAGAAGA 58.105 39.130 10.54 0.00 0.00 2.87
3784 6477 5.305585 AGGCGATACAAGTTGAAAGAAGAA 58.694 37.500 10.54 0.00 0.00 2.52
3785 6478 5.409826 AGGCGATACAAGTTGAAAGAAGAAG 59.590 40.000 10.54 0.00 0.00 2.85
3786 6479 5.408604 GGCGATACAAGTTGAAAGAAGAAGA 59.591 40.000 10.54 0.00 0.00 2.87
3787 6480 6.073222 GGCGATACAAGTTGAAAGAAGAAGAA 60.073 38.462 10.54 0.00 0.00 2.52
3788 6481 7.352739 GCGATACAAGTTGAAAGAAGAAGAAA 58.647 34.615 10.54 0.00 0.00 2.52
3789 6482 7.855904 GCGATACAAGTTGAAAGAAGAAGAAAA 59.144 33.333 10.54 0.00 0.00 2.29
3790 6483 9.716507 CGATACAAGTTGAAAGAAGAAGAAAAA 57.283 29.630 10.54 0.00 0.00 1.94
3794 6487 9.143631 ACAAGTTGAAAGAAGAAGAAAAACATG 57.856 29.630 10.54 0.00 0.00 3.21
3795 6488 9.357652 CAAGTTGAAAGAAGAAGAAAAACATGA 57.642 29.630 0.00 0.00 0.00 3.07
3796 6489 8.917415 AGTTGAAAGAAGAAGAAAAACATGAC 57.083 30.769 0.00 0.00 0.00 3.06
3797 6490 7.698130 AGTTGAAAGAAGAAGAAAAACATGACG 59.302 33.333 0.00 0.00 0.00 4.35
3798 6491 5.971202 TGAAAGAAGAAGAAAAACATGACGC 59.029 36.000 0.00 0.00 0.00 5.19
3799 6492 4.133856 AGAAGAAGAAAAACATGACGCG 57.866 40.909 3.53 3.53 0.00 6.01
3800 6493 3.807622 AGAAGAAGAAAAACATGACGCGA 59.192 39.130 15.93 0.00 0.00 5.87
3801 6494 4.452455 AGAAGAAGAAAAACATGACGCGAT 59.548 37.500 15.93 0.00 0.00 4.58
3802 6495 4.070581 AGAAGAAAAACATGACGCGATG 57.929 40.909 15.93 10.09 0.00 3.84
3803 6496 3.498397 AGAAGAAAAACATGACGCGATGT 59.502 39.130 15.93 10.88 38.23 3.06
3804 6497 3.896648 AGAAAAACATGACGCGATGTT 57.103 38.095 15.93 16.99 46.35 2.71
3805 6498 3.554524 AGAAAAACATGACGCGATGTTG 58.445 40.909 22.22 12.60 44.15 3.33
3806 6499 3.249799 AGAAAAACATGACGCGATGTTGA 59.750 39.130 22.22 0.00 44.15 3.18
3807 6500 2.880822 AAACATGACGCGATGTTGAG 57.119 45.000 22.22 5.29 44.15 3.02
3808 6501 1.795768 AACATGACGCGATGTTGAGT 58.204 45.000 21.22 5.19 43.45 3.41
3809 6502 1.795768 ACATGACGCGATGTTGAGTT 58.204 45.000 15.93 0.00 32.38 3.01
3810 6503 1.726791 ACATGACGCGATGTTGAGTTC 59.273 47.619 15.93 0.00 32.38 3.01
3811 6504 1.726248 CATGACGCGATGTTGAGTTCA 59.274 47.619 15.93 2.20 0.00 3.18
3812 6505 1.136690 TGACGCGATGTTGAGTTCAC 58.863 50.000 15.93 0.00 0.00 3.18
3813 6506 1.136690 GACGCGATGTTGAGTTCACA 58.863 50.000 15.93 0.00 0.00 3.58
3814 6507 0.859232 ACGCGATGTTGAGTTCACAC 59.141 50.000 15.93 0.00 0.00 3.82
3815 6508 0.858583 CGCGATGTTGAGTTCACACA 59.141 50.000 0.00 1.59 0.00 3.72
3816 6509 1.260297 CGCGATGTTGAGTTCACACAA 59.740 47.619 0.00 0.00 0.00 3.33
3817 6510 2.286125 CGCGATGTTGAGTTCACACAAA 60.286 45.455 0.00 0.00 0.00 2.83
3818 6511 3.690422 GCGATGTTGAGTTCACACAAAA 58.310 40.909 0.00 0.00 0.00 2.44
3819 6512 3.725740 GCGATGTTGAGTTCACACAAAAG 59.274 43.478 0.00 0.00 0.00 2.27
3820 6513 3.725740 CGATGTTGAGTTCACACAAAAGC 59.274 43.478 0.00 0.00 0.00 3.51
3821 6514 3.502191 TGTTGAGTTCACACAAAAGCC 57.498 42.857 0.00 0.00 0.00 4.35
3822 6515 2.822561 TGTTGAGTTCACACAAAAGCCA 59.177 40.909 0.00 0.00 0.00 4.75
3823 6516 3.446873 TGTTGAGTTCACACAAAAGCCAT 59.553 39.130 0.00 0.00 0.00 4.40
3824 6517 3.713858 TGAGTTCACACAAAAGCCATG 57.286 42.857 0.00 0.00 0.00 3.66
3825 6518 2.223782 TGAGTTCACACAAAAGCCATGC 60.224 45.455 0.00 0.00 0.00 4.06
3826 6519 1.130955 GTTCACACAAAAGCCATGCG 58.869 50.000 0.00 0.00 0.00 4.73
3827 6520 0.597118 TTCACACAAAAGCCATGCGC 60.597 50.000 0.00 0.00 37.98 6.09
3828 6521 1.300003 CACACAAAAGCCATGCGCA 60.300 52.632 14.96 14.96 41.38 6.09
3829 6522 0.875040 CACACAAAAGCCATGCGCAA 60.875 50.000 17.11 0.00 41.38 4.85
3830 6523 0.179089 ACACAAAAGCCATGCGCAAA 60.179 45.000 17.11 0.00 41.38 3.68
3831 6524 1.149987 CACAAAAGCCATGCGCAAAT 58.850 45.000 17.11 0.00 41.38 2.32
3832 6525 1.127213 CACAAAAGCCATGCGCAAATC 59.873 47.619 17.11 6.06 41.38 2.17
3833 6526 1.270199 ACAAAAGCCATGCGCAAATCA 60.270 42.857 17.11 0.00 41.38 2.57
3834 6527 1.799403 CAAAAGCCATGCGCAAATCAA 59.201 42.857 17.11 0.00 41.38 2.57
3835 6528 2.166821 AAAGCCATGCGCAAATCAAA 57.833 40.000 17.11 0.00 41.38 2.69
3836 6529 1.431496 AAGCCATGCGCAAATCAAAC 58.569 45.000 17.11 0.00 41.38 2.93
3837 6530 0.733566 AGCCATGCGCAAATCAAACG 60.734 50.000 17.11 0.00 41.38 3.60
3838 6531 1.685640 GCCATGCGCAAATCAAACGG 61.686 55.000 17.11 6.15 37.47 4.44
3839 6532 0.388391 CCATGCGCAAATCAAACGGT 60.388 50.000 17.11 0.00 0.00 4.83
3840 6533 0.709467 CATGCGCAAATCAAACGGTG 59.291 50.000 17.11 0.00 0.00 4.94
3841 6534 0.388391 ATGCGCAAATCAAACGGTGG 60.388 50.000 17.11 0.00 0.00 4.61
3842 6535 1.007849 GCGCAAATCAAACGGTGGT 60.008 52.632 0.30 0.00 0.00 4.16
3843 6536 1.274798 GCGCAAATCAAACGGTGGTG 61.275 55.000 0.30 0.00 0.00 4.17
3844 6537 0.662970 CGCAAATCAAACGGTGGTGG 60.663 55.000 0.00 0.00 0.00 4.61
3845 6538 0.387565 GCAAATCAAACGGTGGTGGT 59.612 50.000 0.00 0.00 0.00 4.16
3846 6539 1.202475 GCAAATCAAACGGTGGTGGTT 60.202 47.619 0.00 0.00 0.00 3.67
3847 6540 2.740256 GCAAATCAAACGGTGGTGGTTT 60.740 45.455 0.00 0.00 38.07 3.27
3848 6541 3.491104 GCAAATCAAACGGTGGTGGTTTA 60.491 43.478 3.74 0.00 35.93 2.01
3849 6542 4.295051 CAAATCAAACGGTGGTGGTTTAG 58.705 43.478 3.74 0.00 35.93 1.85
3850 6543 2.713863 TCAAACGGTGGTGGTTTAGT 57.286 45.000 0.00 0.00 35.93 2.24
3851 6544 2.563702 TCAAACGGTGGTGGTTTAGTC 58.436 47.619 0.00 0.00 35.93 2.59
3852 6545 2.093075 TCAAACGGTGGTGGTTTAGTCA 60.093 45.455 0.00 0.00 35.93 3.41
3853 6546 2.882137 CAAACGGTGGTGGTTTAGTCAT 59.118 45.455 0.00 0.00 35.93 3.06
3854 6547 2.943036 ACGGTGGTGGTTTAGTCATT 57.057 45.000 0.00 0.00 0.00 2.57
3855 6548 4.354893 AACGGTGGTGGTTTAGTCATTA 57.645 40.909 0.00 0.00 0.00 1.90
3856 6549 3.934068 ACGGTGGTGGTTTAGTCATTAG 58.066 45.455 0.00 0.00 0.00 1.73
3857 6550 3.579586 ACGGTGGTGGTTTAGTCATTAGA 59.420 43.478 0.00 0.00 0.00 2.10
3858 6551 4.224370 ACGGTGGTGGTTTAGTCATTAGAT 59.776 41.667 0.00 0.00 0.00 1.98
3859 6552 5.183228 CGGTGGTGGTTTAGTCATTAGATT 58.817 41.667 0.00 0.00 0.00 2.40
3860 6553 6.070653 ACGGTGGTGGTTTAGTCATTAGATTA 60.071 38.462 0.00 0.00 0.00 1.75
3861 6554 6.819649 CGGTGGTGGTTTAGTCATTAGATTAA 59.180 38.462 0.00 0.00 0.00 1.40
3862 6555 7.334921 CGGTGGTGGTTTAGTCATTAGATTAAA 59.665 37.037 0.00 0.00 34.70 1.52
3863 6556 9.016438 GGTGGTGGTTTAGTCATTAGATTAAAA 57.984 33.333 0.00 0.00 37.58 1.52
3866 6559 9.931210 GGTGGTTTAGTCATTAGATTAAAATCG 57.069 33.333 0.00 0.00 37.58 3.34
3872 6565 9.590451 TTAGTCATTAGATTAAAATCGAACGGT 57.410 29.630 0.00 0.00 40.35 4.83
3873 6566 7.906160 AGTCATTAGATTAAAATCGAACGGTG 58.094 34.615 0.00 0.00 40.35 4.94
3874 6567 7.762615 AGTCATTAGATTAAAATCGAACGGTGA 59.237 33.333 0.00 0.20 40.35 4.02
3875 6568 8.548721 GTCATTAGATTAAAATCGAACGGTGAT 58.451 33.333 0.00 0.00 40.35 3.06
3876 6569 8.761497 TCATTAGATTAAAATCGAACGGTGATC 58.239 33.333 0.00 0.00 40.35 2.92
3877 6570 5.986004 AGATTAAAATCGAACGGTGATCC 57.014 39.130 0.00 0.00 40.35 3.36
3878 6571 5.671493 AGATTAAAATCGAACGGTGATCCT 58.329 37.500 0.00 0.00 40.35 3.24
3879 6572 6.113411 AGATTAAAATCGAACGGTGATCCTT 58.887 36.000 0.00 0.00 40.35 3.36
3880 6573 5.789710 TTAAAATCGAACGGTGATCCTTC 57.210 39.130 0.00 0.00 0.00 3.46
3881 6574 3.611766 AAATCGAACGGTGATCCTTCT 57.388 42.857 0.00 0.00 0.00 2.85
3882 6575 3.611766 AATCGAACGGTGATCCTTCTT 57.388 42.857 0.00 0.00 0.00 2.52
3883 6576 3.611766 ATCGAACGGTGATCCTTCTTT 57.388 42.857 0.00 0.00 0.00 2.52
3884 6577 2.955614 TCGAACGGTGATCCTTCTTTC 58.044 47.619 0.00 0.00 0.00 2.62
3885 6578 2.561419 TCGAACGGTGATCCTTCTTTCT 59.439 45.455 0.00 0.00 0.00 2.52
3886 6579 3.006537 TCGAACGGTGATCCTTCTTTCTT 59.993 43.478 0.00 0.00 0.00 2.52
3887 6580 3.368236 CGAACGGTGATCCTTCTTTCTTC 59.632 47.826 0.00 0.00 0.00 2.87
3888 6581 4.570930 GAACGGTGATCCTTCTTTCTTCT 58.429 43.478 0.00 0.00 0.00 2.85
3889 6582 4.625607 ACGGTGATCCTTCTTTCTTCTT 57.374 40.909 0.00 0.00 0.00 2.52
3890 6583 4.570930 ACGGTGATCCTTCTTTCTTCTTC 58.429 43.478 0.00 0.00 0.00 2.87
3891 6584 3.935828 CGGTGATCCTTCTTTCTTCTTCC 59.064 47.826 0.00 0.00 0.00 3.46
3892 6585 4.323104 CGGTGATCCTTCTTTCTTCTTCCT 60.323 45.833 0.00 0.00 0.00 3.36
3893 6586 5.182487 GGTGATCCTTCTTTCTTCTTCCTC 58.818 45.833 0.00 0.00 0.00 3.71
3894 6587 5.182487 GTGATCCTTCTTTCTTCTTCCTCC 58.818 45.833 0.00 0.00 0.00 4.30
3895 6588 3.963428 TCCTTCTTTCTTCTTCCTCCG 57.037 47.619 0.00 0.00 0.00 4.63
3896 6589 3.507411 TCCTTCTTTCTTCTTCCTCCGA 58.493 45.455 0.00 0.00 0.00 4.55
3897 6590 3.258622 TCCTTCTTTCTTCTTCCTCCGAC 59.741 47.826 0.00 0.00 0.00 4.79
3898 6591 3.259625 CCTTCTTTCTTCTTCCTCCGACT 59.740 47.826 0.00 0.00 0.00 4.18
3899 6592 4.262678 CCTTCTTTCTTCTTCCTCCGACTT 60.263 45.833 0.00 0.00 0.00 3.01
3900 6593 4.957684 TCTTTCTTCTTCCTCCGACTTT 57.042 40.909 0.00 0.00 0.00 2.66
3901 6594 4.884247 TCTTTCTTCTTCCTCCGACTTTC 58.116 43.478 0.00 0.00 0.00 2.62
3902 6595 4.589374 TCTTTCTTCTTCCTCCGACTTTCT 59.411 41.667 0.00 0.00 0.00 2.52
3903 6596 4.957684 TTCTTCTTCCTCCGACTTTCTT 57.042 40.909 0.00 0.00 0.00 2.52
3904 6597 4.522722 TCTTCTTCCTCCGACTTTCTTC 57.477 45.455 0.00 0.00 0.00 2.87
3905 6598 3.057456 TCTTCTTCCTCCGACTTTCTTCG 60.057 47.826 0.00 0.00 38.80 3.79
3906 6599 2.236766 TCTTCCTCCGACTTTCTTCGT 58.763 47.619 0.00 0.00 37.29 3.85
3907 6600 2.228343 TCTTCCTCCGACTTTCTTCGTC 59.772 50.000 0.00 0.00 37.29 4.20
3908 6601 0.886563 TCCTCCGACTTTCTTCGTCC 59.113 55.000 0.00 0.00 37.29 4.79
3909 6602 0.889306 CCTCCGACTTTCTTCGTCCT 59.111 55.000 0.00 0.00 37.29 3.85
3910 6603 1.272769 CCTCCGACTTTCTTCGTCCTT 59.727 52.381 0.00 0.00 37.29 3.36
3911 6604 2.597520 CTCCGACTTTCTTCGTCCTTC 58.402 52.381 0.00 0.00 37.29 3.46
3912 6605 1.958579 TCCGACTTTCTTCGTCCTTCA 59.041 47.619 0.00 0.00 37.29 3.02
3913 6606 2.363038 TCCGACTTTCTTCGTCCTTCAA 59.637 45.455 0.00 0.00 37.29 2.69
3914 6607 2.475487 CCGACTTTCTTCGTCCTTCAAC 59.525 50.000 0.00 0.00 37.29 3.18
3915 6608 2.475487 CGACTTTCTTCGTCCTTCAACC 59.525 50.000 0.00 0.00 34.16 3.77
3916 6609 2.475487 GACTTTCTTCGTCCTTCAACCG 59.525 50.000 0.00 0.00 0.00 4.44
3917 6610 2.159000 ACTTTCTTCGTCCTTCAACCGT 60.159 45.455 0.00 0.00 0.00 4.83
3918 6611 2.607631 TTCTTCGTCCTTCAACCGTT 57.392 45.000 0.00 0.00 0.00 4.44
3919 6612 2.144482 TCTTCGTCCTTCAACCGTTC 57.856 50.000 0.00 0.00 0.00 3.95
3920 6613 1.145803 CTTCGTCCTTCAACCGTTCC 58.854 55.000 0.00 0.00 0.00 3.62
3921 6614 0.754472 TTCGTCCTTCAACCGTTCCT 59.246 50.000 0.00 0.00 0.00 3.36
3922 6615 0.754472 TCGTCCTTCAACCGTTCCTT 59.246 50.000 0.00 0.00 0.00 3.36
3923 6616 1.145803 CGTCCTTCAACCGTTCCTTC 58.854 55.000 0.00 0.00 0.00 3.46
3924 6617 1.270147 CGTCCTTCAACCGTTCCTTCT 60.270 52.381 0.00 0.00 0.00 2.85
3925 6618 2.414806 GTCCTTCAACCGTTCCTTCTC 58.585 52.381 0.00 0.00 0.00 2.87
3926 6619 2.037381 GTCCTTCAACCGTTCCTTCTCT 59.963 50.000 0.00 0.00 0.00 3.10
3927 6620 2.299297 TCCTTCAACCGTTCCTTCTCTC 59.701 50.000 0.00 0.00 0.00 3.20
3928 6621 2.037251 CCTTCAACCGTTCCTTCTCTCA 59.963 50.000 0.00 0.00 0.00 3.27
3929 6622 3.494398 CCTTCAACCGTTCCTTCTCTCAA 60.494 47.826 0.00 0.00 0.00 3.02
3930 6623 4.319177 CTTCAACCGTTCCTTCTCTCAAT 58.681 43.478 0.00 0.00 0.00 2.57
4093 6787 1.626654 CTTCCGTGGCGTGACATGAC 61.627 60.000 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 7.041098 AGTGATGGTTATCTTGTTGAGTTTGTC 60.041 37.037 0.00 0.00 34.31 3.18
27 28 6.690194 AGAATGCTTTGAGTGATGGTTATC 57.310 37.500 0.00 0.00 0.00 1.75
72 73 3.904800 TGGGGACACATGTATACACAG 57.095 47.619 7.96 6.66 34.40 3.66
407 2575 8.160765 TCTGGTTATGAGGTGAGTTTAATTTGA 58.839 33.333 0.00 0.00 0.00 2.69
462 2631 3.125829 CCGATCAACACCATCAGTTCAAG 59.874 47.826 0.00 0.00 0.00 3.02
517 2687 8.206189 ACTCACATTTTCTTTCAATCATTTGGT 58.794 29.630 0.00 0.00 33.44 3.67
518 2688 8.597662 ACTCACATTTTCTTTCAATCATTTGG 57.402 30.769 0.00 0.00 33.44 3.28
740 3073 7.621285 TCCCTAAGATATGATCATCGATCCTTT 59.379 37.037 12.53 5.08 38.20 3.11
872 3235 9.832445 ATCATAAGGAATTAGTTCATTGTACGT 57.168 29.630 7.99 0.00 38.64 3.57
910 3273 5.576384 ACCGCACATTTAATGTTGCAAATAG 59.424 36.000 22.15 11.74 42.70 1.73
1051 3414 3.452627 ACATCTTTTCCTCTGGTCGCTAT 59.547 43.478 0.00 0.00 0.00 2.97
1332 3695 7.683437 ATACTGAGCAATTCATGGATGTATG 57.317 36.000 0.00 0.00 34.68 2.39
1421 3786 8.031277 GTGAAAAAGCATATCCAGAAAGATTGT 58.969 33.333 0.00 0.00 0.00 2.71
1498 3879 9.627395 ATTCATCGTTGACATAGCTTATACTAC 57.373 33.333 0.00 0.00 0.00 2.73
1543 3924 1.491670 ATGCATCAGACGATACGCAC 58.508 50.000 0.00 0.00 34.45 5.34
1669 4052 3.628942 TGATGATAGATGGTTGCACTTGC 59.371 43.478 0.00 0.00 42.50 4.01
1701 4084 4.839121 ACGCAGTATTGGAATTGTTCCTA 58.161 39.130 9.87 3.10 46.12 2.94
2007 4394 5.505780 TGTGACCCTCGATGGAAAATTAAT 58.494 37.500 14.21 0.00 38.35 1.40
2081 4472 6.515832 CCCTTCATTCACTATAAAATTGCCC 58.484 40.000 0.00 0.00 0.00 5.36
2116 4516 8.322906 TCATTCCTAACTACTCAAATGTTGTG 57.677 34.615 0.00 0.00 0.00 3.33
2193 4648 9.788960 GGAATTCCTTCATGTACAACTAAAATC 57.211 33.333 17.73 0.00 32.70 2.17
2435 4916 7.837505 ACGTGACACACATAAATCATATTACG 58.162 34.615 6.37 0.00 33.40 3.18
2454 4935 7.083230 AGCTAAGAAGTTCTAAGTTACGTGAC 58.917 38.462 5.65 1.53 0.00 3.67
2455 4936 7.211966 AGCTAAGAAGTTCTAAGTTACGTGA 57.788 36.000 5.65 0.00 0.00 4.35
2512 4993 3.735237 TGAAAAATGTAAGGCGCCAAA 57.265 38.095 31.54 13.71 0.00 3.28
2748 5340 0.320374 TCCGATCTGTGTGTTGTCCC 59.680 55.000 0.00 0.00 0.00 4.46
2815 5407 4.922206 ACCCAAGCAACATGAAATCTAGA 58.078 39.130 0.00 0.00 0.00 2.43
2816 5408 5.220662 CGTACCCAAGCAACATGAAATCTAG 60.221 44.000 0.00 0.00 0.00 2.43
2912 5584 3.753797 TGTTCCAAGGCCAAAAACAAAAC 59.246 39.130 5.01 0.00 0.00 2.43
2983 5655 1.299541 CTTGCACATATCCCGGACAC 58.700 55.000 0.73 0.00 0.00 3.67
2989 5661 1.064758 TGGTGGACTTGCACATATCCC 60.065 52.381 3.13 0.00 0.00 3.85
3013 5685 3.593442 ATTCTTGTTCCAGGACCAACA 57.407 42.857 0.00 0.00 0.00 3.33
3026 5698 5.249393 AGACAGAGGATGGTTGTATTCTTGT 59.751 40.000 0.00 0.00 0.00 3.16
3393 6086 1.806247 CGATGCCTTCTATGAACGCCA 60.806 52.381 0.00 0.00 0.00 5.69
3415 6108 3.395607 ACCTGCCCTTATGATCAGCAATA 59.604 43.478 0.09 0.00 32.14 1.90
3425 6118 1.818674 GGTCACAAACCTGCCCTTATG 59.181 52.381 0.00 0.00 45.45 1.90
3484 6177 1.375706 ACCGGCGGTGTATTTGGAA 59.624 52.632 33.71 0.00 32.98 3.53
3521 6214 7.718314 ACCATAGAAGATACGCATACCGATATA 59.282 37.037 0.00 0.00 41.02 0.86
3524 6217 4.705507 ACCATAGAAGATACGCATACCGAT 59.294 41.667 0.00 0.00 41.02 4.18
3590 6283 4.142609 ACTTTGTCGAGACCATGCATAT 57.857 40.909 0.00 0.00 0.00 1.78
3595 6288 8.717821 TCTTTTATTAACTTTGTCGAGACCATG 58.282 33.333 0.34 0.00 0.00 3.66
3600 6293 6.932400 TGCCTCTTTTATTAACTTTGTCGAGA 59.068 34.615 0.00 0.00 0.00 4.04
3620 6313 3.254166 CCACTTTGCATATATGGTGCCTC 59.746 47.826 14.51 0.00 41.83 4.70
3644 6337 6.857964 GGACATACATTACATAATGCTGCAAC 59.142 38.462 6.36 0.00 45.24 4.17
3649 6342 6.288294 ACACGGACATACATTACATAATGCT 58.712 36.000 10.84 2.86 45.24 3.79
3660 6353 6.161855 AGTTGATGATACACGGACATACAT 57.838 37.500 0.00 0.00 0.00 2.29
3661 6354 5.592104 AGTTGATGATACACGGACATACA 57.408 39.130 0.00 0.00 0.00 2.29
3662 6355 5.276868 GCAAGTTGATGATACACGGACATAC 60.277 44.000 7.16 0.00 0.00 2.39
3663 6356 4.808895 GCAAGTTGATGATACACGGACATA 59.191 41.667 7.16 0.00 0.00 2.29
3664 6357 3.623060 GCAAGTTGATGATACACGGACAT 59.377 43.478 7.16 0.00 0.00 3.06
3685 6378 1.882912 TCAGGGCATATCATGAACGC 58.117 50.000 0.00 2.40 0.00 4.84
3691 6384 6.989155 ACAAAAATCATCAGGGCATATCAT 57.011 33.333 0.00 0.00 0.00 2.45
3694 6387 7.427989 AGAAACAAAAATCATCAGGGCATAT 57.572 32.000 0.00 0.00 0.00 1.78
3695 6388 6.855763 AGAAACAAAAATCATCAGGGCATA 57.144 33.333 0.00 0.00 0.00 3.14
3696 6389 5.750352 AGAAACAAAAATCATCAGGGCAT 57.250 34.783 0.00 0.00 0.00 4.40
3697 6390 5.163322 ACAAGAAACAAAAATCATCAGGGCA 60.163 36.000 0.00 0.00 0.00 5.36
3698 6391 5.299949 ACAAGAAACAAAAATCATCAGGGC 58.700 37.500 0.00 0.00 0.00 5.19
3699 6392 7.712205 AGAAACAAGAAACAAAAATCATCAGGG 59.288 33.333 0.00 0.00 0.00 4.45
3700 6393 8.652810 AGAAACAAGAAACAAAAATCATCAGG 57.347 30.769 0.00 0.00 0.00 3.86
3704 6397 9.558648 GCAAAAGAAACAAGAAACAAAAATCAT 57.441 25.926 0.00 0.00 0.00 2.45
3733 6426 2.259618 CGTGACATTTACACTCCCTCG 58.740 52.381 0.00 0.00 36.29 4.63
3743 6436 2.816689 CCTATCGTGGCGTGACATTTA 58.183 47.619 0.00 0.00 0.00 1.40
3759 6452 6.640518 TCTTCTTTCAACTTGTATCGCCTAT 58.359 36.000 0.00 0.00 0.00 2.57
3763 6456 6.467723 TCTTCTTCTTTCAACTTGTATCGC 57.532 37.500 0.00 0.00 0.00 4.58
3778 6471 3.807622 TCGCGTCATGTTTTTCTTCTTCT 59.192 39.130 5.77 0.00 0.00 2.85
3779 6472 4.128554 TCGCGTCATGTTTTTCTTCTTC 57.871 40.909 5.77 0.00 0.00 2.87
3780 6473 4.024048 ACATCGCGTCATGTTTTTCTTCTT 60.024 37.500 5.77 0.00 32.81 2.52
3781 6474 3.498397 ACATCGCGTCATGTTTTTCTTCT 59.502 39.130 5.77 0.00 32.81 2.85
3782 6475 3.810373 ACATCGCGTCATGTTTTTCTTC 58.190 40.909 5.77 0.00 32.81 2.87
3783 6476 3.896648 ACATCGCGTCATGTTTTTCTT 57.103 38.095 5.77 0.00 32.81 2.52
3784 6477 3.249799 TCAACATCGCGTCATGTTTTTCT 59.750 39.130 19.93 0.73 43.17 2.52
3785 6478 3.550561 TCAACATCGCGTCATGTTTTTC 58.449 40.909 19.93 0.00 43.17 2.29
3786 6479 3.003275 ACTCAACATCGCGTCATGTTTTT 59.997 39.130 19.93 7.67 43.17 1.94
3787 6480 2.548057 ACTCAACATCGCGTCATGTTTT 59.452 40.909 19.93 7.96 43.17 2.43
3788 6481 2.143122 ACTCAACATCGCGTCATGTTT 58.857 42.857 19.93 6.90 43.17 2.83
3789 6482 1.795768 ACTCAACATCGCGTCATGTT 58.204 45.000 17.57 17.57 46.00 2.71
3790 6483 1.726791 GAACTCAACATCGCGTCATGT 59.273 47.619 5.77 6.83 38.74 3.21
3791 6484 1.726248 TGAACTCAACATCGCGTCATG 59.274 47.619 5.77 6.07 0.00 3.07
3792 6485 1.726791 GTGAACTCAACATCGCGTCAT 59.273 47.619 5.77 0.00 0.00 3.06
3793 6486 1.136690 GTGAACTCAACATCGCGTCA 58.863 50.000 5.77 0.00 0.00 4.35
3794 6487 1.136611 GTGTGAACTCAACATCGCGTC 60.137 52.381 5.77 0.00 0.00 5.19
3795 6488 0.859232 GTGTGAACTCAACATCGCGT 59.141 50.000 5.77 0.00 0.00 6.01
3796 6489 0.858583 TGTGTGAACTCAACATCGCG 59.141 50.000 0.00 0.00 0.00 5.87
3797 6490 3.332761 TTTGTGTGAACTCAACATCGC 57.667 42.857 0.00 0.00 0.00 4.58
3798 6491 3.725740 GCTTTTGTGTGAACTCAACATCG 59.274 43.478 0.00 0.00 0.00 3.84
3799 6492 4.044426 GGCTTTTGTGTGAACTCAACATC 58.956 43.478 0.00 0.00 0.00 3.06
3800 6493 3.446873 TGGCTTTTGTGTGAACTCAACAT 59.553 39.130 0.00 0.00 0.00 2.71
3801 6494 2.822561 TGGCTTTTGTGTGAACTCAACA 59.177 40.909 0.00 0.00 0.00 3.33
3802 6495 3.502191 TGGCTTTTGTGTGAACTCAAC 57.498 42.857 0.00 0.00 0.00 3.18
3803 6496 3.737663 GCATGGCTTTTGTGTGAACTCAA 60.738 43.478 0.00 0.00 0.00 3.02
3804 6497 2.223782 GCATGGCTTTTGTGTGAACTCA 60.224 45.455 0.00 0.00 0.00 3.41
3805 6498 2.397549 GCATGGCTTTTGTGTGAACTC 58.602 47.619 0.00 0.00 0.00 3.01
3806 6499 1.269206 CGCATGGCTTTTGTGTGAACT 60.269 47.619 0.00 0.00 0.00 3.01
3807 6500 1.130955 CGCATGGCTTTTGTGTGAAC 58.869 50.000 0.00 0.00 0.00 3.18
3808 6501 0.597118 GCGCATGGCTTTTGTGTGAA 60.597 50.000 0.30 0.00 39.11 3.18
3809 6502 1.007502 GCGCATGGCTTTTGTGTGA 60.008 52.632 0.30 0.00 39.11 3.58
3810 6503 0.875040 TTGCGCATGGCTTTTGTGTG 60.875 50.000 12.75 0.00 44.05 3.82
3811 6504 0.179089 TTTGCGCATGGCTTTTGTGT 60.179 45.000 12.75 0.00 44.05 3.72
3812 6505 1.127213 GATTTGCGCATGGCTTTTGTG 59.873 47.619 12.75 0.00 44.05 3.33
3813 6506 1.270199 TGATTTGCGCATGGCTTTTGT 60.270 42.857 12.75 0.00 44.05 2.83
3814 6507 1.430479 TGATTTGCGCATGGCTTTTG 58.570 45.000 12.75 0.00 44.05 2.44
3815 6508 2.166821 TTGATTTGCGCATGGCTTTT 57.833 40.000 12.75 0.00 44.05 2.27
3816 6509 1.799994 GTTTGATTTGCGCATGGCTTT 59.200 42.857 12.75 0.00 44.05 3.51
3817 6510 1.431496 GTTTGATTTGCGCATGGCTT 58.569 45.000 12.75 0.00 44.05 4.35
3818 6511 0.733566 CGTTTGATTTGCGCATGGCT 60.734 50.000 12.75 0.00 44.05 4.75
3819 6512 1.685640 CCGTTTGATTTGCGCATGGC 61.686 55.000 12.75 3.64 43.96 4.40
3820 6513 0.388391 ACCGTTTGATTTGCGCATGG 60.388 50.000 12.75 4.36 0.00 3.66
3821 6514 0.709467 CACCGTTTGATTTGCGCATG 59.291 50.000 12.75 0.00 0.00 4.06
3822 6515 0.388391 CCACCGTTTGATTTGCGCAT 60.388 50.000 12.75 0.00 0.00 4.73
3823 6516 1.007964 CCACCGTTTGATTTGCGCA 60.008 52.632 5.66 5.66 0.00 6.09
3824 6517 1.007849 ACCACCGTTTGATTTGCGC 60.008 52.632 0.00 0.00 0.00 6.09
3825 6518 0.662970 CCACCACCGTTTGATTTGCG 60.663 55.000 0.00 0.00 0.00 4.85
3826 6519 0.387565 ACCACCACCGTTTGATTTGC 59.612 50.000 0.00 0.00 0.00 3.68
3827 6520 2.880963 AACCACCACCGTTTGATTTG 57.119 45.000 0.00 0.00 0.00 2.32
3828 6521 3.955551 ACTAAACCACCACCGTTTGATTT 59.044 39.130 0.00 0.00 35.19 2.17
3829 6522 3.558033 ACTAAACCACCACCGTTTGATT 58.442 40.909 0.00 0.00 35.19 2.57
3830 6523 3.143728 GACTAAACCACCACCGTTTGAT 58.856 45.455 0.00 0.00 35.19 2.57
3831 6524 2.093075 TGACTAAACCACCACCGTTTGA 60.093 45.455 0.00 0.00 35.19 2.69
3832 6525 2.290464 TGACTAAACCACCACCGTTTG 58.710 47.619 0.00 0.00 35.19 2.93
3833 6526 2.713863 TGACTAAACCACCACCGTTT 57.286 45.000 0.00 0.00 37.25 3.60
3834 6527 2.943036 ATGACTAAACCACCACCGTT 57.057 45.000 0.00 0.00 0.00 4.44
3835 6528 2.943036 AATGACTAAACCACCACCGT 57.057 45.000 0.00 0.00 0.00 4.83
3836 6529 4.196626 TCTAATGACTAAACCACCACCG 57.803 45.455 0.00 0.00 0.00 4.94
3837 6530 8.570068 TTTAATCTAATGACTAAACCACCACC 57.430 34.615 0.00 0.00 0.00 4.61
3840 6533 9.931210 CGATTTTAATCTAATGACTAAACCACC 57.069 33.333 1.41 0.00 33.24 4.61
3846 6539 9.590451 ACCGTTCGATTTTAATCTAATGACTAA 57.410 29.630 9.34 0.00 32.07 2.24
3847 6540 9.027129 CACCGTTCGATTTTAATCTAATGACTA 57.973 33.333 9.34 0.00 32.07 2.59
3848 6541 7.762615 TCACCGTTCGATTTTAATCTAATGACT 59.237 33.333 9.34 0.00 32.07 3.41
3849 6542 7.902032 TCACCGTTCGATTTTAATCTAATGAC 58.098 34.615 9.34 0.00 32.07 3.06
3850 6543 8.657074 ATCACCGTTCGATTTTAATCTAATGA 57.343 30.769 9.34 3.61 32.07 2.57
3851 6544 8.009974 GGATCACCGTTCGATTTTAATCTAATG 58.990 37.037 0.00 2.46 33.24 1.90
3852 6545 7.931948 AGGATCACCGTTCGATTTTAATCTAAT 59.068 33.333 0.00 0.00 41.83 1.73
3853 6546 7.270047 AGGATCACCGTTCGATTTTAATCTAA 58.730 34.615 0.00 0.00 41.83 2.10
3854 6547 6.812998 AGGATCACCGTTCGATTTTAATCTA 58.187 36.000 0.00 0.00 41.83 1.98
3855 6548 5.671493 AGGATCACCGTTCGATTTTAATCT 58.329 37.500 0.00 0.00 41.83 2.40
3856 6549 5.986004 AGGATCACCGTTCGATTTTAATC 57.014 39.130 0.00 0.00 41.83 1.75
3857 6550 6.113411 AGAAGGATCACCGTTCGATTTTAAT 58.887 36.000 0.00 0.00 41.83 1.40
3858 6551 5.484715 AGAAGGATCACCGTTCGATTTTAA 58.515 37.500 0.00 0.00 41.83 1.52
3859 6552 5.080969 AGAAGGATCACCGTTCGATTTTA 57.919 39.130 0.00 0.00 41.83 1.52
3860 6553 3.939066 AGAAGGATCACCGTTCGATTTT 58.061 40.909 0.00 0.00 41.83 1.82
3861 6554 3.611766 AGAAGGATCACCGTTCGATTT 57.388 42.857 0.00 0.00 41.83 2.17
3862 6555 3.611766 AAGAAGGATCACCGTTCGATT 57.388 42.857 0.00 0.00 41.83 3.34
3863 6556 3.195825 AGAAAGAAGGATCACCGTTCGAT 59.804 43.478 0.00 0.00 41.83 3.59
3864 6557 2.561419 AGAAAGAAGGATCACCGTTCGA 59.439 45.455 0.00 0.00 41.83 3.71
3865 6558 2.960819 AGAAAGAAGGATCACCGTTCG 58.039 47.619 0.00 0.00 41.83 3.95
3866 6559 4.570930 AGAAGAAAGAAGGATCACCGTTC 58.429 43.478 0.00 0.00 41.83 3.95
3867 6560 4.625607 AGAAGAAAGAAGGATCACCGTT 57.374 40.909 0.00 0.00 41.83 4.44
3868 6561 4.563786 GGAAGAAGAAAGAAGGATCACCGT 60.564 45.833 0.00 0.00 41.83 4.83
3869 6562 3.935828 GGAAGAAGAAAGAAGGATCACCG 59.064 47.826 0.00 0.00 41.83 4.94
3870 6563 5.172687 AGGAAGAAGAAAGAAGGATCACC 57.827 43.478 0.00 0.00 0.00 4.02
3871 6564 5.182487 GGAGGAAGAAGAAAGAAGGATCAC 58.818 45.833 0.00 0.00 0.00 3.06
3872 6565 4.081420 CGGAGGAAGAAGAAAGAAGGATCA 60.081 45.833 0.00 0.00 0.00 2.92
3873 6566 4.160626 TCGGAGGAAGAAGAAAGAAGGATC 59.839 45.833 0.00 0.00 0.00 3.36
3874 6567 4.081365 GTCGGAGGAAGAAGAAAGAAGGAT 60.081 45.833 0.00 0.00 0.00 3.24
3875 6568 3.258622 GTCGGAGGAAGAAGAAAGAAGGA 59.741 47.826 0.00 0.00 0.00 3.36
3876 6569 3.259625 AGTCGGAGGAAGAAGAAAGAAGG 59.740 47.826 0.00 0.00 0.00 3.46
3877 6570 4.529109 AGTCGGAGGAAGAAGAAAGAAG 57.471 45.455 0.00 0.00 0.00 2.85
3878 6571 4.957684 AAGTCGGAGGAAGAAGAAAGAA 57.042 40.909 0.00 0.00 0.00 2.52
3879 6572 4.589374 AGAAAGTCGGAGGAAGAAGAAAGA 59.411 41.667 0.00 0.00 0.00 2.52
3880 6573 4.888917 AGAAAGTCGGAGGAAGAAGAAAG 58.111 43.478 0.00 0.00 0.00 2.62
3881 6574 4.957684 AGAAAGTCGGAGGAAGAAGAAA 57.042 40.909 0.00 0.00 0.00 2.52
3882 6575 4.558898 CGAAGAAAGTCGGAGGAAGAAGAA 60.559 45.833 0.00 0.00 37.37 2.52
3883 6576 3.057456 CGAAGAAAGTCGGAGGAAGAAGA 60.057 47.826 0.00 0.00 37.37 2.87
3884 6577 3.246619 CGAAGAAAGTCGGAGGAAGAAG 58.753 50.000 0.00 0.00 37.37 2.85
3885 6578 2.626743 ACGAAGAAAGTCGGAGGAAGAA 59.373 45.455 0.00 0.00 45.40 2.52
3886 6579 2.228343 GACGAAGAAAGTCGGAGGAAGA 59.772 50.000 0.00 0.00 45.40 2.87
3887 6580 2.597520 GACGAAGAAAGTCGGAGGAAG 58.402 52.381 0.00 0.00 45.40 3.46
3888 6581 1.271656 GGACGAAGAAAGTCGGAGGAA 59.728 52.381 0.00 0.00 45.40 3.36
3889 6582 0.886563 GGACGAAGAAAGTCGGAGGA 59.113 55.000 0.00 0.00 45.40 3.71
3890 6583 0.889306 AGGACGAAGAAAGTCGGAGG 59.111 55.000 0.00 0.00 45.40 4.30
3891 6584 2.030185 TGAAGGACGAAGAAAGTCGGAG 60.030 50.000 0.00 0.00 45.40 4.63
3892 6585 1.958579 TGAAGGACGAAGAAAGTCGGA 59.041 47.619 0.00 0.00 45.40 4.55
3893 6586 2.433868 TGAAGGACGAAGAAAGTCGG 57.566 50.000 0.00 0.00 45.40 4.79
3894 6587 2.475487 GGTTGAAGGACGAAGAAAGTCG 59.525 50.000 0.00 0.00 46.54 4.18
3895 6588 2.475487 CGGTTGAAGGACGAAGAAAGTC 59.525 50.000 0.00 0.00 37.86 3.01
3896 6589 2.159000 ACGGTTGAAGGACGAAGAAAGT 60.159 45.455 0.00 0.00 0.00 2.66
3897 6590 2.480845 ACGGTTGAAGGACGAAGAAAG 58.519 47.619 0.00 0.00 0.00 2.62
3898 6591 2.607631 ACGGTTGAAGGACGAAGAAA 57.392 45.000 0.00 0.00 0.00 2.52
3899 6592 2.476821 GAACGGTTGAAGGACGAAGAA 58.523 47.619 0.00 0.00 0.00 2.52
3900 6593 1.269936 GGAACGGTTGAAGGACGAAGA 60.270 52.381 0.00 0.00 0.00 2.87
3901 6594 1.145803 GGAACGGTTGAAGGACGAAG 58.854 55.000 0.00 0.00 0.00 3.79
3902 6595 0.754472 AGGAACGGTTGAAGGACGAA 59.246 50.000 0.00 0.00 0.00 3.85
3903 6596 0.754472 AAGGAACGGTTGAAGGACGA 59.246 50.000 0.00 0.00 0.00 4.20
3904 6597 1.145803 GAAGGAACGGTTGAAGGACG 58.854 55.000 0.00 0.00 0.00 4.79
3905 6598 2.037381 AGAGAAGGAACGGTTGAAGGAC 59.963 50.000 0.00 0.00 0.00 3.85
3906 6599 2.299297 GAGAGAAGGAACGGTTGAAGGA 59.701 50.000 0.00 0.00 0.00 3.36
3907 6600 2.037251 TGAGAGAAGGAACGGTTGAAGG 59.963 50.000 0.00 0.00 0.00 3.46
3908 6601 3.386768 TGAGAGAAGGAACGGTTGAAG 57.613 47.619 0.00 0.00 0.00 3.02
3909 6602 3.830744 TTGAGAGAAGGAACGGTTGAA 57.169 42.857 0.00 0.00 0.00 2.69
3910 6603 5.477607 TTATTGAGAGAAGGAACGGTTGA 57.522 39.130 0.00 0.00 0.00 3.18
3911 6604 5.932303 TCTTTATTGAGAGAAGGAACGGTTG 59.068 40.000 0.00 0.00 0.00 3.77
3912 6605 6.110411 TCTTTATTGAGAGAAGGAACGGTT 57.890 37.500 0.00 0.00 0.00 4.44
3913 6606 5.337652 CCTCTTTATTGAGAGAAGGAACGGT 60.338 44.000 3.58 0.00 44.78 4.83
3914 6607 5.112686 CCTCTTTATTGAGAGAAGGAACGG 58.887 45.833 3.58 0.00 44.78 4.44
3915 6608 5.725362 ACCTCTTTATTGAGAGAAGGAACG 58.275 41.667 3.58 0.00 44.78 3.95
3916 6609 9.674068 ATTTACCTCTTTATTGAGAGAAGGAAC 57.326 33.333 3.58 0.00 44.78 3.62
3917 6610 9.672673 CATTTACCTCTTTATTGAGAGAAGGAA 57.327 33.333 3.58 0.00 44.78 3.36
3918 6611 7.770897 GCATTTACCTCTTTATTGAGAGAAGGA 59.229 37.037 3.58 0.00 44.78 3.36
3919 6612 7.254590 CGCATTTACCTCTTTATTGAGAGAAGG 60.255 40.741 3.58 0.00 44.78 3.46
3920 6613 7.625553 CGCATTTACCTCTTTATTGAGAGAAG 58.374 38.462 3.58 0.00 44.78 2.85
3921 6614 6.037172 GCGCATTTACCTCTTTATTGAGAGAA 59.963 38.462 0.30 0.00 44.78 2.87
3922 6615 5.523916 GCGCATTTACCTCTTTATTGAGAGA 59.476 40.000 0.30 0.00 44.78 3.10
3923 6616 5.277538 GGCGCATTTACCTCTTTATTGAGAG 60.278 44.000 10.83 0.00 42.26 3.20
3924 6617 4.574828 GGCGCATTTACCTCTTTATTGAGA 59.425 41.667 10.83 0.00 36.23 3.27
3925 6618 4.552767 CGGCGCATTTACCTCTTTATTGAG 60.553 45.833 10.83 0.00 0.00 3.02
3926 6619 3.311322 CGGCGCATTTACCTCTTTATTGA 59.689 43.478 10.83 0.00 0.00 2.57
3927 6620 3.548014 CCGGCGCATTTACCTCTTTATTG 60.548 47.826 10.83 0.00 0.00 1.90
3928 6621 2.616842 CCGGCGCATTTACCTCTTTATT 59.383 45.455 10.83 0.00 0.00 1.40
3929 6622 2.218603 CCGGCGCATTTACCTCTTTAT 58.781 47.619 10.83 0.00 0.00 1.40
3930 6623 1.065998 ACCGGCGCATTTACCTCTTTA 60.066 47.619 10.83 0.00 0.00 1.85
4220 6922 6.481976 CCTGTGTCGGCACTATTTTTCATATA 59.518 38.462 22.43 0.00 45.44 0.86


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

AutoCloner maintained by Alex Coulton.