Multiple sequence alignment - TraesCS6B01G286100

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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 TraesCS6B01G286100 chr6B 100.000 2697 0 0 1 2697 515186876 515184180 0.000000e+00 4981.0
1 TraesCS6B01G286100 chr6B 90.964 166 9 2 2537 2697 69436552 69436388 4.520000e-53 219.0
2 TraesCS6B01G286100 chr6B 91.195 159 8 2 2544 2697 687873214 687873371 7.570000e-51 211.0
3 TraesCS6B01G286100 chr6D 88.426 2350 114 64 7 2276 311299640 311301911 0.000000e+00 2687.0
4 TraesCS6B01G286100 chr6A 88.480 1849 86 56 757 2547 448060720 448062499 0.000000e+00 2117.0
5 TraesCS6B01G286100 chr6A 85.770 773 57 27 1 745 448059667 448060414 0.000000e+00 769.0
6 TraesCS6B01G286100 chr6A 91.176 408 31 3 2065 2471 448063067 448063470 1.410000e-152 549.0
7 TraesCS6B01G286100 chr6A 90.909 66 6 0 2211 2276 448063276 448063341 3.700000e-14 89.8
8 TraesCS6B01G286100 chr2A 92.453 159 7 1 2544 2697 72943253 72943095 3.490000e-54 222.0
9 TraesCS6B01G286100 chr3B 90.419 167 10 2 2537 2697 752167905 752168071 5.850000e-52 215.0
10 TraesCS6B01G286100 chr2B 90.854 164 9 2 2540 2697 330595320 330595157 5.850000e-52 215.0
11 TraesCS6B01G286100 chr2B 89.759 166 12 1 2537 2697 3710646 3710481 9.790000e-50 207.0
12 TraesCS6B01G286100 chr2B 89.759 166 12 1 2537 2697 3797507 3797342 9.790000e-50 207.0
13 TraesCS6B01G286100 chr4B 91.195 159 9 1 2544 2697 455907594 455907752 7.570000e-51 211.0
14 TraesCS6B01G286100 chrUn 89.759 166 12 1 2537 2697 368382090 368381925 9.790000e-50 207.0


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 TraesCS6B01G286100 chr6B 515184180 515186876 2696 True 4981.0 4981 100.00000 1 2697 1 chr6B.!!$R2 2696
1 TraesCS6B01G286100 chr6D 311299640 311301911 2271 False 2687.0 2687 88.42600 7 2276 1 chr6D.!!$F1 2269
2 TraesCS6B01G286100 chr6A 448059667 448063470 3803 False 881.2 2117 89.08375 1 2547 4 chr6A.!!$F1 2546

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
882 1246 0.040425 GACGCACAAAACGCTGGAAT 60.04 50.0 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2286 3849 0.029834 AAAGCAGCGCACTGTTTCTG 59.97 50.0 11.47 0.0 45.44 3.02 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
34 35 4.083484 CCTTTTACGAGTGCACCTAAAAGG 60.083 45.833 31.92 31.92 44.23 3.11
49 50 0.752658 AAAGGTTCCACTTTGCTGCC 59.247 50.000 0.00 0.00 39.11 4.85
64 65 1.135286 GCTGCCTGCTTTGGATGTTAC 60.135 52.381 0.00 0.00 38.95 2.50
65 66 2.440409 CTGCCTGCTTTGGATGTTACT 58.560 47.619 0.00 0.00 0.00 2.24
66 67 3.609853 CTGCCTGCTTTGGATGTTACTA 58.390 45.455 0.00 0.00 0.00 1.82
82 83 8.571336 GGATGTTACTAATTCTTGCATTATGCT 58.429 33.333 18.44 0.00 45.31 3.79
139 141 0.590195 CATAGATCCTGCTTTGCCGC 59.410 55.000 0.00 0.00 0.00 6.53
142 144 0.179062 AGATCCTGCTTTGCCGCTAG 60.179 55.000 0.00 0.00 0.00 3.42
156 158 1.026718 CGCTAGCCCTTTTGTCTGGG 61.027 60.000 9.66 0.00 46.00 4.45
166 168 2.655077 TTTGTCTGGGGCAGGTTGGG 62.655 60.000 0.00 0.00 31.51 4.12
222 230 0.393808 GAATTAGACCGGCCAAGGCA 60.394 55.000 13.87 0.00 44.11 4.75
249 258 3.051392 GCGTATGGTGGTTGCTGCC 62.051 63.158 0.00 0.00 0.00 4.85
251 260 1.000896 GTATGGTGGTTGCTGCCCT 60.001 57.895 0.00 0.00 0.00 5.19
287 296 2.202932 ACGGTCGATCTGCATGCC 60.203 61.111 16.68 0.00 0.00 4.40
338 351 2.106844 CAATAGGTTGCTTCCCGCC 58.893 57.895 0.00 0.00 38.05 6.13
346 371 1.178534 TTGCTTCCCGCCAAAAGAGG 61.179 55.000 0.00 0.00 38.05 3.69
347 372 1.303317 GCTTCCCGCCAAAAGAGGA 60.303 57.895 0.00 0.00 37.72 3.71
348 373 0.681243 GCTTCCCGCCAAAAGAGGAT 60.681 55.000 0.00 0.00 37.72 3.24
349 374 1.098050 CTTCCCGCCAAAAGAGGATG 58.902 55.000 0.00 0.00 37.72 3.51
350 375 0.323360 TTCCCGCCAAAAGAGGATGG 60.323 55.000 0.00 0.00 37.72 3.51
417 446 0.391661 ATTTCGTCCGACTGCAGCAT 60.392 50.000 15.27 0.00 0.00 3.79
466 495 4.935702 TCACAAACAGCTTGGATTGAAAG 58.064 39.130 1.73 0.00 39.56 2.62
567 605 2.741985 TGCCGCGGACATGTTCTG 60.742 61.111 33.48 0.00 0.00 3.02
629 670 5.477637 GGTATCACTAGGGTCTAGGATCAAC 59.522 48.000 6.86 3.77 0.00 3.18
691 754 2.868899 CCTCAAGGGAAAAGCTCAACT 58.131 47.619 0.00 0.00 37.23 3.16
745 812 5.032863 CCACATCAAGCGAATCTTTTCATC 58.967 41.667 0.00 0.00 31.27 2.92
751 818 7.447374 TCAAGCGAATCTTTTCATCCTTAAA 57.553 32.000 0.00 0.00 31.27 1.52
806 1170 6.927416 ACTTACGTACATCACCTGAATTACA 58.073 36.000 0.00 0.00 0.00 2.41
808 1172 7.544566 ACTTACGTACATCACCTGAATTACAAG 59.455 37.037 0.00 0.00 0.00 3.16
812 1176 5.505181 ACATCACCTGAATTACAAGTCCT 57.495 39.130 0.00 0.00 0.00 3.85
880 1244 1.163420 ATGACGCACAAAACGCTGGA 61.163 50.000 0.00 0.00 0.00 3.86
881 1245 1.353804 GACGCACAAAACGCTGGAA 59.646 52.632 0.00 0.00 0.00 3.53
882 1246 0.040425 GACGCACAAAACGCTGGAAT 60.040 50.000 0.00 0.00 0.00 3.01
883 1247 0.383949 ACGCACAAAACGCTGGAATT 59.616 45.000 0.00 0.00 0.00 2.17
884 1248 0.777631 CGCACAAAACGCTGGAATTG 59.222 50.000 0.00 0.00 0.00 2.32
885 1249 1.599171 CGCACAAAACGCTGGAATTGA 60.599 47.619 0.00 0.00 0.00 2.57
886 1250 2.676076 GCACAAAACGCTGGAATTGAT 58.324 42.857 0.00 0.00 0.00 2.57
887 1251 2.663119 GCACAAAACGCTGGAATTGATC 59.337 45.455 0.00 0.00 0.00 2.92
888 1252 3.856638 GCACAAAACGCTGGAATTGATCA 60.857 43.478 0.00 0.00 0.00 2.92
889 1253 3.670055 CACAAAACGCTGGAATTGATCAC 59.330 43.478 0.00 0.00 0.00 3.06
890 1254 3.569701 ACAAAACGCTGGAATTGATCACT 59.430 39.130 0.00 0.00 0.00 3.41
891 1255 4.161333 CAAAACGCTGGAATTGATCACTC 58.839 43.478 0.00 0.00 0.00 3.51
892 1256 1.645034 ACGCTGGAATTGATCACTCG 58.355 50.000 0.00 0.00 0.00 4.18
893 1257 1.204704 ACGCTGGAATTGATCACTCGA 59.795 47.619 0.00 0.00 0.00 4.04
994 1376 0.169672 CAAGCCATTGTCAAGCTCGG 59.830 55.000 0.21 0.00 35.30 4.63
1011 1403 2.743928 GTTCTGACCGCCCAGCTG 60.744 66.667 6.78 6.78 34.28 4.24
1474 1887 1.228033 GGTGCCGGTGGTGTACTTT 60.228 57.895 1.90 0.00 0.00 2.66
1658 2076 1.320344 CGGCTGCCTCCTGTACAGTA 61.320 60.000 21.18 4.92 33.87 2.74
1659 2077 0.175989 GGCTGCCTCCTGTACAGTAC 59.824 60.000 21.18 3.49 33.87 2.73
1660 2078 1.187087 GCTGCCTCCTGTACAGTACT 58.813 55.000 21.18 0.00 33.87 2.73
1722 2144 6.924111 AGTTGGATGGATGTGTGTATTTTTC 58.076 36.000 0.00 0.00 0.00 2.29
1723 2145 5.559427 TGGATGGATGTGTGTATTTTTCG 57.441 39.130 0.00 0.00 0.00 3.46
1724 2146 5.007034 TGGATGGATGTGTGTATTTTTCGT 58.993 37.500 0.00 0.00 0.00 3.85
1725 2147 5.475220 TGGATGGATGTGTGTATTTTTCGTT 59.525 36.000 0.00 0.00 0.00 3.85
1726 2148 6.015856 TGGATGGATGTGTGTATTTTTCGTTT 60.016 34.615 0.00 0.00 0.00 3.60
1727 2149 6.526674 GGATGGATGTGTGTATTTTTCGTTTC 59.473 38.462 0.00 0.00 0.00 2.78
1728 2150 6.627395 TGGATGTGTGTATTTTTCGTTTCT 57.373 33.333 0.00 0.00 0.00 2.52
1729 2151 7.033530 TGGATGTGTGTATTTTTCGTTTCTT 57.966 32.000 0.00 0.00 0.00 2.52
1785 2215 1.203563 GCTCATGCGATGCGATCAC 59.796 57.895 0.00 0.00 0.00 3.06
1822 2253 3.298686 TTAGAGAAGATGGAGGAGCGA 57.701 47.619 0.00 0.00 0.00 4.93
1824 2255 0.387565 GAGAAGATGGAGGAGCGACC 59.612 60.000 0.00 0.00 39.35 4.79
1825 2256 1.045911 AGAAGATGGAGGAGCGACCC 61.046 60.000 0.00 0.00 40.05 4.46
1826 2257 2.356818 GAAGATGGAGGAGCGACCCG 62.357 65.000 0.00 0.00 40.05 5.28
1827 2258 3.917760 GATGGAGGAGCGACCCGG 61.918 72.222 0.00 0.00 40.05 5.73
1917 2361 2.464865 GTGTGCGTCCTGTATGATCTC 58.535 52.381 0.00 0.00 0.00 2.75
1918 2362 2.099921 GTGTGCGTCCTGTATGATCTCT 59.900 50.000 0.00 0.00 0.00 3.10
1929 2373 0.683973 ATGATCTCTGGTGGCCGATC 59.316 55.000 8.62 8.62 34.36 3.69
1930 2374 0.397675 TGATCTCTGGTGGCCGATCT 60.398 55.000 14.65 0.00 34.75 2.75
1932 2376 1.543802 GATCTCTGGTGGCCGATCTAG 59.456 57.143 0.00 0.00 31.81 2.43
1933 2377 0.259065 TCTCTGGTGGCCGATCTAGT 59.741 55.000 0.00 0.00 0.00 2.57
1934 2378 1.493446 TCTCTGGTGGCCGATCTAGTA 59.507 52.381 0.00 0.00 0.00 1.82
1935 2379 1.883275 CTCTGGTGGCCGATCTAGTAG 59.117 57.143 0.00 0.00 0.00 2.57
1942 2386 1.464376 GCCGATCTAGTAGGCAGCCA 61.464 60.000 15.80 0.00 46.77 4.75
1993 2437 0.751643 CTGCCAATTAACCTCCCCGG 60.752 60.000 0.00 0.00 39.35 5.73
2012 2456 2.159476 CGGTTGAAATGTGATCTGCCTG 60.159 50.000 0.00 0.00 0.00 4.85
2093 3593 2.708514 GCGATTTCGGATCATGTGTTG 58.291 47.619 1.75 0.00 40.23 3.33
2173 3674 1.373812 GGCGTGTTGGAAGGTACCT 59.626 57.895 9.21 9.21 0.00 3.08
2193 3694 2.731976 CTCAAGCTACTTCGTGTTGTCC 59.268 50.000 0.00 0.00 0.00 4.02
2219 3720 2.359850 GCTGGCGTCCAATGGTGA 60.360 61.111 0.00 0.00 30.80 4.02
2245 3808 0.248621 GAAACAGTGCGCTGCTTTGT 60.249 50.000 26.78 5.14 46.30 2.83
2246 3809 0.248621 AAACAGTGCGCTGCTTTGTC 60.249 50.000 26.78 0.00 46.30 3.18
2247 3810 1.097547 AACAGTGCGCTGCTTTGTCT 61.098 50.000 26.78 2.59 46.30 3.41
2248 3811 1.082300 CAGTGCGCTGCTTTGTCTG 60.082 57.895 15.44 0.95 35.77 3.51
2249 3812 2.428071 GTGCGCTGCTTTGTCTGC 60.428 61.111 9.73 0.00 0.00 4.26
2250 3813 3.663176 TGCGCTGCTTTGTCTGCC 61.663 61.111 9.73 0.00 0.00 4.85
2251 3814 3.663176 GCGCTGCTTTGTCTGCCA 61.663 61.111 0.00 0.00 0.00 4.92
2252 3815 2.986306 GCGCTGCTTTGTCTGCCAT 61.986 57.895 0.00 0.00 0.00 4.40
2253 3816 1.154093 CGCTGCTTTGTCTGCCATG 60.154 57.895 0.00 0.00 0.00 3.66
2254 3817 1.579964 CGCTGCTTTGTCTGCCATGA 61.580 55.000 0.00 0.00 0.00 3.07
2255 3818 0.109412 GCTGCTTTGTCTGCCATGAC 60.109 55.000 0.00 0.00 37.47 3.06
2256 3819 1.241165 CTGCTTTGTCTGCCATGACA 58.759 50.000 0.00 0.00 44.17 3.58
2260 3823 3.654201 TGTCTGCCATGACAACGC 58.346 55.556 0.00 0.00 43.08 4.84
2261 3824 1.071299 TGTCTGCCATGACAACGCT 59.929 52.632 0.00 0.00 43.08 5.07
2262 3825 0.534877 TGTCTGCCATGACAACGCTT 60.535 50.000 0.00 0.00 43.08 4.68
2263 3826 0.593128 GTCTGCCATGACAACGCTTT 59.407 50.000 0.00 0.00 36.97 3.51
2264 3827 0.874390 TCTGCCATGACAACGCTTTC 59.126 50.000 0.00 0.00 0.00 2.62
2265 3828 0.453282 CTGCCATGACAACGCTTTCG 60.453 55.000 0.00 0.00 42.43 3.46
2266 3829 1.154225 GCCATGACAACGCTTTCGG 60.154 57.895 0.00 0.00 40.69 4.30
2267 3830 1.501741 CCATGACAACGCTTTCGGG 59.498 57.895 0.00 0.00 40.69 5.14
2268 3831 1.501741 CATGACAACGCTTTCGGGG 59.498 57.895 0.00 0.00 40.69 5.73
2269 3832 1.072505 ATGACAACGCTTTCGGGGT 59.927 52.632 0.00 0.00 43.11 4.95
2270 3833 1.234615 ATGACAACGCTTTCGGGGTG 61.235 55.000 0.00 0.00 45.48 4.61
2271 3834 3.249973 GACAACGCTTTCGGGGTGC 62.250 63.158 0.00 0.00 43.98 5.01
2272 3835 4.038080 CAACGCTTTCGGGGTGCC 62.038 66.667 0.00 0.00 41.04 5.01
2276 3839 3.680786 GCTTTCGGGGTGCCCAAC 61.681 66.667 9.76 0.00 45.83 3.77
2277 3840 3.361977 CTTTCGGGGTGCCCAACG 61.362 66.667 9.76 4.66 45.83 4.10
2278 3841 4.958897 TTTCGGGGTGCCCAACGG 62.959 66.667 9.76 0.00 45.83 4.44
2284 3847 2.281900 GGTGCCCAACGGTGCTTA 60.282 61.111 0.00 0.00 0.00 3.09
2285 3848 2.332654 GGTGCCCAACGGTGCTTAG 61.333 63.158 0.00 0.00 0.00 2.18
2286 3849 2.671619 TGCCCAACGGTGCTTAGC 60.672 61.111 0.00 0.00 0.00 3.09
2287 3850 2.671619 GCCCAACGGTGCTTAGCA 60.672 61.111 1.39 1.39 35.60 3.49
2288 3851 2.690778 GCCCAACGGTGCTTAGCAG 61.691 63.158 7.34 0.00 40.08 4.24
2289 3852 1.003839 CCCAACGGTGCTTAGCAGA 60.004 57.895 7.34 0.00 40.08 4.26
2290 3853 0.605319 CCCAACGGTGCTTAGCAGAA 60.605 55.000 7.34 0.00 40.08 3.02
2291 3854 1.234821 CCAACGGTGCTTAGCAGAAA 58.765 50.000 7.34 0.00 40.08 2.52
2292 3855 1.069227 CCAACGGTGCTTAGCAGAAAC 60.069 52.381 7.34 0.00 40.08 2.78
2293 3856 1.601903 CAACGGTGCTTAGCAGAAACA 59.398 47.619 7.34 0.00 40.08 2.83
2294 3857 1.512926 ACGGTGCTTAGCAGAAACAG 58.487 50.000 7.34 0.00 40.08 3.16
2295 3858 1.202651 ACGGTGCTTAGCAGAAACAGT 60.203 47.619 7.34 0.00 40.08 3.55
2296 3859 1.195448 CGGTGCTTAGCAGAAACAGTG 59.805 52.381 7.34 0.00 40.08 3.66
2297 3860 1.068954 GGTGCTTAGCAGAAACAGTGC 60.069 52.381 7.34 0.00 40.08 4.40
2298 3861 0.867746 TGCTTAGCAGAAACAGTGCG 59.132 50.000 1.39 0.00 46.06 5.34
2299 3862 0.453449 GCTTAGCAGAAACAGTGCGC 60.453 55.000 0.00 0.00 46.06 6.09
2300 3863 1.151668 CTTAGCAGAAACAGTGCGCT 58.848 50.000 9.73 0.00 46.06 5.92
2301 3864 0.867746 TTAGCAGAAACAGTGCGCTG 59.132 50.000 25.37 25.37 46.06 5.18
2302 3865 2.428071 GCAGAAACAGTGCGCTGC 60.428 61.111 26.78 11.07 46.30 5.25
2303 3866 3.337619 CAGAAACAGTGCGCTGCT 58.662 55.556 26.78 12.78 46.30 4.24
2304 3867 1.650912 CAGAAACAGTGCGCTGCTT 59.349 52.632 26.78 21.10 46.30 3.91
2305 3868 0.029834 CAGAAACAGTGCGCTGCTTT 59.970 50.000 26.78 22.94 46.30 3.51
2306 3869 0.029834 AGAAACAGTGCGCTGCTTTG 59.970 50.000 26.78 4.43 46.30 2.77
2307 3870 0.248621 GAAACAGTGCGCTGCTTTGT 60.249 50.000 26.78 5.14 46.30 2.83
2308 3871 0.248621 AAACAGTGCGCTGCTTTGTC 60.249 50.000 26.78 0.00 46.30 3.18
2309 3872 1.097547 AACAGTGCGCTGCTTTGTCT 61.098 50.000 26.78 2.59 46.30 3.41
2374 3937 1.135315 CAACGCTTTGTGATCCATGGG 60.135 52.381 13.02 0.00 0.00 4.00
2380 3943 3.368248 CTTTGTGATCCATGGGTCCATT 58.632 45.455 22.55 0.00 33.90 3.16
2383 3946 3.122480 TGTGATCCATGGGTCCATTAGT 58.878 45.455 22.55 0.00 33.90 2.24
2413 3976 5.925506 TGTTGATCCTACGGATAAAGTGA 57.074 39.130 0.00 0.00 43.27 3.41
2414 3977 6.479972 TGTTGATCCTACGGATAAAGTGAT 57.520 37.500 0.00 0.00 43.27 3.06
2415 3978 7.591421 TGTTGATCCTACGGATAAAGTGATA 57.409 36.000 0.00 0.00 43.27 2.15
2446 4009 8.999431 TCACTATCAAAACAAAGATGAAGTACC 58.001 33.333 0.00 0.00 0.00 3.34
2455 4018 7.016153 ACAAAGATGAAGTACCCACTAATCA 57.984 36.000 0.00 0.00 33.42 2.57
2490 4053 9.520515 AAATGTAAGACAAATATATGCCTAGGG 57.479 33.333 11.72 0.00 0.00 3.53
2491 4054 7.626999 TGTAAGACAAATATATGCCTAGGGT 57.373 36.000 11.72 0.00 0.00 4.34
2492 4055 7.676947 TGTAAGACAAATATATGCCTAGGGTC 58.323 38.462 11.72 5.93 0.00 4.46
2493 4056 5.407407 AGACAAATATATGCCTAGGGTCG 57.593 43.478 11.72 0.00 0.00 4.79
2494 4057 3.933332 GACAAATATATGCCTAGGGTCGC 59.067 47.826 11.72 0.00 0.00 5.19
2495 4058 3.583086 ACAAATATATGCCTAGGGTCGCT 59.417 43.478 11.72 0.00 0.00 4.93
2496 4059 4.775780 ACAAATATATGCCTAGGGTCGCTA 59.224 41.667 11.72 0.00 0.00 4.26
2497 4060 5.105310 ACAAATATATGCCTAGGGTCGCTAG 60.105 44.000 11.72 15.38 0.00 3.42
2498 4061 1.853963 ATATGCCTAGGGTCGCTAGG 58.146 55.000 30.03 30.03 45.03 3.02
2499 4062 0.775542 TATGCCTAGGGTCGCTAGGA 59.224 55.000 35.58 24.04 45.05 2.94
2500 4063 0.115349 ATGCCTAGGGTCGCTAGGAT 59.885 55.000 35.58 24.86 45.05 3.24
2501 4064 0.105658 TGCCTAGGGTCGCTAGGATT 60.106 55.000 35.58 0.00 45.05 3.01
2502 4065 0.318762 GCCTAGGGTCGCTAGGATTG 59.681 60.000 35.58 16.85 45.05 2.67
2503 4066 0.969894 CCTAGGGTCGCTAGGATTGG 59.030 60.000 30.44 10.25 45.05 3.16
2504 4067 1.705873 CTAGGGTCGCTAGGATTGGT 58.294 55.000 14.68 0.00 0.00 3.67
2505 4068 1.341531 CTAGGGTCGCTAGGATTGGTG 59.658 57.143 14.68 0.00 0.00 4.17
2506 4069 0.325296 AGGGTCGCTAGGATTGGTGA 60.325 55.000 0.00 0.00 0.00 4.02
2507 4070 0.759346 GGGTCGCTAGGATTGGTGAT 59.241 55.000 0.00 0.00 0.00 3.06
2508 4071 1.968493 GGGTCGCTAGGATTGGTGATA 59.032 52.381 0.00 0.00 0.00 2.15
2509 4072 2.567615 GGGTCGCTAGGATTGGTGATAT 59.432 50.000 0.00 0.00 0.00 1.63
2510 4073 3.368531 GGGTCGCTAGGATTGGTGATATC 60.369 52.174 0.00 0.00 0.00 1.63
2511 4074 3.368531 GGTCGCTAGGATTGGTGATATCC 60.369 52.174 0.00 0.00 41.59 2.59
2520 4083 6.506500 GGATTGGTGATATCCTTGCTAATG 57.493 41.667 0.00 0.00 38.81 1.90
2521 4084 6.240894 GGATTGGTGATATCCTTGCTAATGA 58.759 40.000 0.00 0.00 38.81 2.57
2522 4085 6.150140 GGATTGGTGATATCCTTGCTAATGAC 59.850 42.308 0.00 0.00 38.81 3.06
2523 4086 5.894298 TGGTGATATCCTTGCTAATGACT 57.106 39.130 0.00 0.00 0.00 3.41
2524 4087 5.614308 TGGTGATATCCTTGCTAATGACTG 58.386 41.667 0.00 0.00 0.00 3.51
2525 4088 4.999950 GGTGATATCCTTGCTAATGACTGG 59.000 45.833 0.00 0.00 0.00 4.00
2526 4089 5.455326 GGTGATATCCTTGCTAATGACTGGT 60.455 44.000 0.00 0.00 0.00 4.00
2527 4090 6.239600 GGTGATATCCTTGCTAATGACTGGTA 60.240 42.308 0.00 0.00 0.00 3.25
2528 4091 7.217200 GTGATATCCTTGCTAATGACTGGTAA 58.783 38.462 0.00 0.00 0.00 2.85
2529 4092 7.880195 GTGATATCCTTGCTAATGACTGGTAAT 59.120 37.037 0.00 0.00 0.00 1.89
2530 4093 8.439971 TGATATCCTTGCTAATGACTGGTAATT 58.560 33.333 0.00 0.00 0.00 1.40
2531 4094 9.944376 GATATCCTTGCTAATGACTGGTAATTA 57.056 33.333 0.00 0.00 0.00 1.40
2533 4096 8.682936 ATCCTTGCTAATGACTGGTAATTAAG 57.317 34.615 0.00 0.00 0.00 1.85
2534 4097 6.542370 TCCTTGCTAATGACTGGTAATTAAGC 59.458 38.462 0.00 0.00 0.00 3.09
2535 4098 6.238759 CCTTGCTAATGACTGGTAATTAAGCC 60.239 42.308 0.00 0.00 0.00 4.35
2536 4099 6.001449 TGCTAATGACTGGTAATTAAGCCT 57.999 37.500 0.00 0.00 0.00 4.58
2537 4100 7.131907 TGCTAATGACTGGTAATTAAGCCTA 57.868 36.000 0.00 0.00 0.00 3.93
2538 4101 7.570132 TGCTAATGACTGGTAATTAAGCCTAA 58.430 34.615 0.00 0.00 0.00 2.69
2539 4102 8.217799 TGCTAATGACTGGTAATTAAGCCTAAT 58.782 33.333 0.00 0.00 0.00 1.73
2540 4103 9.720769 GCTAATGACTGGTAATTAAGCCTAATA 57.279 33.333 0.00 0.00 0.00 0.98
2545 4108 9.778741 TGACTGGTAATTAAGCCTAATAATCAG 57.221 33.333 8.61 8.61 31.27 2.90
2546 4109 9.780186 GACTGGTAATTAAGCCTAATAATCAGT 57.220 33.333 12.76 12.76 35.69 3.41
2555 4118 9.899661 TTAAGCCTAATAATCAGTTTTGCTAGA 57.100 29.630 0.00 0.00 0.00 2.43
2556 4119 8.807948 AAGCCTAATAATCAGTTTTGCTAGAA 57.192 30.769 0.00 0.00 0.00 2.10
2557 4120 8.214721 AGCCTAATAATCAGTTTTGCTAGAAC 57.785 34.615 0.00 0.00 0.00 3.01
2558 4121 8.049721 AGCCTAATAATCAGTTTTGCTAGAACT 58.950 33.333 0.00 0.00 37.82 3.01
2559 4122 8.678199 GCCTAATAATCAGTTTTGCTAGAACTT 58.322 33.333 0.00 0.00 35.26 2.66
2602 4165 7.999679 TCTCATTCACTTTTTATAGCCATTGG 58.000 34.615 0.00 0.00 0.00 3.16
2603 4166 7.833682 TCTCATTCACTTTTTATAGCCATTGGA 59.166 33.333 6.95 0.00 0.00 3.53
2604 4167 8.537728 TCATTCACTTTTTATAGCCATTGGAT 57.462 30.769 6.95 1.78 0.00 3.41
2605 4168 9.639563 TCATTCACTTTTTATAGCCATTGGATA 57.360 29.630 6.95 4.68 0.00 2.59
2608 4171 9.639563 TTCACTTTTTATAGCCATTGGATATGA 57.360 29.630 21.07 11.91 34.94 2.15
2609 4172 9.812347 TCACTTTTTATAGCCATTGGATATGAT 57.188 29.630 21.07 2.11 34.94 2.45
2610 4173 9.850628 CACTTTTTATAGCCATTGGATATGATG 57.149 33.333 21.07 12.02 34.94 3.07
2611 4174 8.526147 ACTTTTTATAGCCATTGGATATGATGC 58.474 33.333 21.07 0.00 34.94 3.91
2612 4175 8.654485 TTTTTATAGCCATTGGATATGATGCT 57.346 30.769 21.07 4.64 34.94 3.79
2613 4176 9.752228 TTTTTATAGCCATTGGATATGATGCTA 57.248 29.630 21.07 6.59 34.94 3.49
2614 4177 9.925545 TTTTATAGCCATTGGATATGATGCTAT 57.074 29.630 21.07 12.50 34.94 2.97
2618 4181 7.204243 AGCCATTGGATATGATGCTATAAGA 57.796 36.000 6.95 0.00 0.00 2.10
2619 4182 7.813331 AGCCATTGGATATGATGCTATAAGAT 58.187 34.615 6.95 0.00 0.00 2.40
2620 4183 7.720074 AGCCATTGGATATGATGCTATAAGATG 59.280 37.037 6.95 0.00 0.00 2.90
2621 4184 7.501559 GCCATTGGATATGATGCTATAAGATGT 59.498 37.037 6.95 0.00 0.00 3.06
2622 4185 8.837389 CCATTGGATATGATGCTATAAGATGTG 58.163 37.037 0.00 0.00 0.00 3.21
2623 4186 9.392259 CATTGGATATGATGCTATAAGATGTGT 57.608 33.333 0.00 0.00 0.00 3.72
2624 4187 8.782339 TTGGATATGATGCTATAAGATGTGTG 57.218 34.615 0.00 0.00 0.00 3.82
2625 4188 7.910584 TGGATATGATGCTATAAGATGTGTGT 58.089 34.615 0.00 0.00 0.00 3.72
2626 4189 7.820872 TGGATATGATGCTATAAGATGTGTGTG 59.179 37.037 0.00 0.00 0.00 3.82
2627 4190 7.821359 GGATATGATGCTATAAGATGTGTGTGT 59.179 37.037 0.00 0.00 0.00 3.72
2628 4191 6.856135 ATGATGCTATAAGATGTGTGTGTG 57.144 37.500 0.00 0.00 0.00 3.82
2629 4192 4.571984 TGATGCTATAAGATGTGTGTGTGC 59.428 41.667 0.00 0.00 0.00 4.57
2630 4193 4.206477 TGCTATAAGATGTGTGTGTGCT 57.794 40.909 0.00 0.00 0.00 4.40
2631 4194 5.337578 TGCTATAAGATGTGTGTGTGCTA 57.662 39.130 0.00 0.00 0.00 3.49
2632 4195 5.729510 TGCTATAAGATGTGTGTGTGCTAA 58.270 37.500 0.00 0.00 0.00 3.09
2633 4196 5.580691 TGCTATAAGATGTGTGTGTGCTAAC 59.419 40.000 0.00 0.00 0.00 2.34
2634 4197 5.276395 GCTATAAGATGTGTGTGTGCTAACG 60.276 44.000 0.00 0.00 0.00 3.18
2635 4198 2.526304 AGATGTGTGTGTGCTAACGT 57.474 45.000 0.00 0.00 0.00 3.99
2636 4199 2.135139 AGATGTGTGTGTGCTAACGTG 58.865 47.619 0.00 0.00 0.00 4.49
2637 4200 1.194547 GATGTGTGTGTGCTAACGTGG 59.805 52.381 0.00 0.00 0.00 4.94
2638 4201 0.812014 TGTGTGTGTGCTAACGTGGG 60.812 55.000 0.00 0.00 0.00 4.61
2639 4202 0.812412 GTGTGTGTGCTAACGTGGGT 60.812 55.000 0.00 0.00 0.00 4.51
2640 4203 0.107606 TGTGTGTGCTAACGTGGGTT 60.108 50.000 0.00 0.00 40.20 4.11
2641 4204 0.306533 GTGTGTGCTAACGTGGGTTG 59.693 55.000 0.00 0.00 36.90 3.77
2642 4205 0.107606 TGTGTGCTAACGTGGGTTGT 60.108 50.000 0.00 0.00 36.90 3.32
2643 4206 1.138464 TGTGTGCTAACGTGGGTTGTA 59.862 47.619 0.00 0.00 36.90 2.41
2644 4207 2.224329 TGTGTGCTAACGTGGGTTGTAT 60.224 45.455 0.00 0.00 36.90 2.29
2645 4208 2.414138 GTGTGCTAACGTGGGTTGTATC 59.586 50.000 0.00 0.00 36.90 2.24
2646 4209 2.300723 TGTGCTAACGTGGGTTGTATCT 59.699 45.455 0.00 0.00 36.90 1.98
2647 4210 3.510753 TGTGCTAACGTGGGTTGTATCTA 59.489 43.478 0.00 0.00 36.90 1.98
2648 4211 4.160814 TGTGCTAACGTGGGTTGTATCTAT 59.839 41.667 0.00 0.00 36.90 1.98
2649 4212 5.114081 GTGCTAACGTGGGTTGTATCTATT 58.886 41.667 0.00 0.00 36.90 1.73
2650 4213 5.233689 GTGCTAACGTGGGTTGTATCTATTC 59.766 44.000 0.00 0.00 36.90 1.75
2651 4214 5.128171 TGCTAACGTGGGTTGTATCTATTCT 59.872 40.000 0.00 0.00 36.90 2.40
2652 4215 6.047231 GCTAACGTGGGTTGTATCTATTCTT 58.953 40.000 0.00 0.00 36.90 2.52
2653 4216 6.018994 GCTAACGTGGGTTGTATCTATTCTTG 60.019 42.308 0.00 0.00 36.90 3.02
2654 4217 5.416271 ACGTGGGTTGTATCTATTCTTGT 57.584 39.130 0.00 0.00 0.00 3.16
2655 4218 5.801380 ACGTGGGTTGTATCTATTCTTGTT 58.199 37.500 0.00 0.00 0.00 2.83
2656 4219 6.235664 ACGTGGGTTGTATCTATTCTTGTTT 58.764 36.000 0.00 0.00 0.00 2.83
2657 4220 6.713450 ACGTGGGTTGTATCTATTCTTGTTTT 59.287 34.615 0.00 0.00 0.00 2.43
2658 4221 7.229907 ACGTGGGTTGTATCTATTCTTGTTTTT 59.770 33.333 0.00 0.00 0.00 1.94
2659 4222 8.723311 CGTGGGTTGTATCTATTCTTGTTTTTA 58.277 33.333 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 4.142881 GGTGCACTCGTAAAAGGATTCTTC 60.143 45.833 17.98 0.00 31.82 2.87
34 35 1.006922 GCAGGCAGCAAAGTGGAAC 60.007 57.895 0.00 0.00 44.79 3.62
49 50 6.749118 GCAAGAATTAGTAACATCCAAAGCAG 59.251 38.462 0.00 0.00 0.00 4.24
82 83 0.559205 TCGGGTAGGAGGCTTATCCA 59.441 55.000 6.04 0.00 42.26 3.41
139 141 3.577389 CCCCAGACAAAAGGGCTAG 57.423 57.895 0.00 0.00 44.06 3.42
156 158 2.511600 CGATCGACCCAACCTGCC 60.512 66.667 10.26 0.00 0.00 4.85
166 168 3.245315 CGCAACGGACCGATCGAC 61.245 66.667 23.38 10.14 0.00 4.20
222 230 1.557832 ACCACCATACGCATACTTGGT 59.442 47.619 0.00 0.00 43.14 3.67
249 258 1.203994 CCAAATTTGCTGAGCAGGAGG 59.796 52.381 12.92 3.22 40.61 4.30
251 260 1.888512 GTCCAAATTTGCTGAGCAGGA 59.111 47.619 12.92 7.82 40.61 3.86
338 351 1.273327 GGTTGTGGCCATCCTCTTTTG 59.727 52.381 9.72 0.00 0.00 2.44
346 371 4.360405 ACCCGGGTTGTGGCCATC 62.360 66.667 24.16 3.12 0.00 3.51
347 372 4.360405 GACCCGGGTTGTGGCCAT 62.360 66.667 30.89 0.00 0.00 4.40
349 374 3.879180 AATGACCCGGGTTGTGGCC 62.879 63.158 30.89 14.75 0.00 5.36
350 375 1.468506 AAAATGACCCGGGTTGTGGC 61.469 55.000 30.89 15.59 0.00 5.01
351 376 0.601057 GAAAATGACCCGGGTTGTGG 59.399 55.000 30.89 0.00 0.00 4.17
352 377 1.323412 TGAAAATGACCCGGGTTGTG 58.677 50.000 30.89 0.00 0.00 3.33
353 378 1.684450 GTTGAAAATGACCCGGGTTGT 59.316 47.619 30.89 17.20 0.00 3.32
417 446 5.221702 TGAGTTCCACAGTTGATTCATCTGA 60.222 40.000 24.67 6.23 35.49 3.27
466 495 2.173519 ACATGCCAATATGCCATAGCC 58.826 47.619 0.00 0.00 38.69 3.93
567 605 1.726853 ATCTGCAAAGTACGCTCACC 58.273 50.000 0.00 0.00 0.00 4.02
609 650 3.687551 CGGTTGATCCTAGACCCTAGTGA 60.688 52.174 0.00 0.00 0.00 3.41
610 651 2.623889 CGGTTGATCCTAGACCCTAGTG 59.376 54.545 0.00 0.00 0.00 2.74
612 653 3.225177 TCGGTTGATCCTAGACCCTAG 57.775 52.381 0.00 0.00 0.00 3.02
613 654 3.675348 TTCGGTTGATCCTAGACCCTA 57.325 47.619 0.00 0.00 0.00 3.53
614 655 2.544844 TTCGGTTGATCCTAGACCCT 57.455 50.000 0.00 0.00 0.00 4.34
615 656 6.407074 CCATATATTCGGTTGATCCTAGACCC 60.407 46.154 0.00 0.00 0.00 4.46
616 657 6.574350 CCATATATTCGGTTGATCCTAGACC 58.426 44.000 0.00 0.00 0.00 3.85
617 658 6.043411 GCCATATATTCGGTTGATCCTAGAC 58.957 44.000 0.00 0.00 0.00 2.59
618 659 5.719563 TGCCATATATTCGGTTGATCCTAGA 59.280 40.000 0.00 0.00 0.00 2.43
629 670 5.939883 TCTGAAAGGAATGCCATATATTCGG 59.060 40.000 0.00 0.00 35.81 4.30
745 812 8.807118 AGAGAAAAGCCCTAGAAAAATTTAAGG 58.193 33.333 0.00 0.00 0.00 2.69
751 818 5.777223 AGCAAGAGAAAAGCCCTAGAAAAAT 59.223 36.000 0.00 0.00 0.00 1.82
806 1170 1.071699 TCGCACAAAGGCTTAGGACTT 59.928 47.619 0.00 0.00 43.75 3.01
808 1172 0.796927 GTCGCACAAAGGCTTAGGAC 59.203 55.000 0.00 0.42 0.00 3.85
812 1176 2.322081 GGCGTCGCACAAAGGCTTA 61.322 57.895 20.50 0.00 0.00 3.09
846 1210 4.323602 GTGCGTCATTTTAGGCTTTTTAGC 59.676 41.667 0.00 0.00 0.00 3.09
847 1211 5.457140 TGTGCGTCATTTTAGGCTTTTTAG 58.543 37.500 0.00 0.00 0.00 1.85
848 1212 5.440234 TGTGCGTCATTTTAGGCTTTTTA 57.560 34.783 0.00 0.00 0.00 1.52
849 1213 4.314740 TGTGCGTCATTTTAGGCTTTTT 57.685 36.364 0.00 0.00 0.00 1.94
850 1214 4.314740 TTGTGCGTCATTTTAGGCTTTT 57.685 36.364 0.00 0.00 0.00 2.27
851 1215 4.314740 TTTGTGCGTCATTTTAGGCTTT 57.685 36.364 0.00 0.00 0.00 3.51
855 1219 2.403698 GCGTTTTGTGCGTCATTTTAGG 59.596 45.455 0.00 0.00 0.00 2.69
880 1244 3.099905 TGGGACTCTCGAGTGATCAATT 58.900 45.455 20.64 0.00 42.66 2.32
881 1245 2.428890 GTGGGACTCTCGAGTGATCAAT 59.571 50.000 20.64 0.00 42.66 2.57
882 1246 1.819288 GTGGGACTCTCGAGTGATCAA 59.181 52.381 20.64 3.58 42.66 2.57
883 1247 1.271926 TGTGGGACTCTCGAGTGATCA 60.272 52.381 20.64 11.89 42.66 2.92
884 1248 1.133407 GTGTGGGACTCTCGAGTGATC 59.867 57.143 20.64 13.24 42.66 2.92
885 1249 1.178276 GTGTGGGACTCTCGAGTGAT 58.822 55.000 20.64 5.51 42.66 3.06
886 1250 1.235281 CGTGTGGGACTCTCGAGTGA 61.235 60.000 20.64 0.00 42.66 3.41
887 1251 1.210413 CGTGTGGGACTCTCGAGTG 59.790 63.158 13.13 12.94 42.66 3.51
888 1252 1.972223 CCGTGTGGGACTCTCGAGT 60.972 63.158 13.13 0.00 45.84 4.18
889 1253 2.878429 CCGTGTGGGACTCTCGAG 59.122 66.667 5.93 5.93 40.51 4.04
957 1324 4.810491 GGCTTGTTTTATATACGACGGGAA 59.190 41.667 0.00 0.00 0.00 3.97
994 1376 2.743928 CAGCTGGGCGGTCAGAAC 60.744 66.667 5.57 0.00 36.93 3.01
1011 1403 1.239347 GTGTGGAAGGAAGGAGTTGC 58.761 55.000 0.00 0.00 0.00 4.17
1400 1813 2.029964 CACGTACACCGCCACCTT 59.970 61.111 0.00 0.00 41.42 3.50
1438 1851 0.027716 CCACGTACCTCATCGACTCG 59.972 60.000 0.00 0.00 0.00 4.18
1510 1923 1.518302 GAAGCCGAACTCCTCCTCC 59.482 63.158 0.00 0.00 0.00 4.30
1543 1956 3.576356 GCGCACGGGATGGTGATG 61.576 66.667 0.30 0.00 40.38 3.07
1722 2144 7.806149 AAAGTCAAACTGGTAAAAAGAAACG 57.194 32.000 0.00 0.00 0.00 3.60
1806 2237 1.045911 GGGTCGCTCCTCCATCTTCT 61.046 60.000 0.00 0.00 36.25 2.85
1828 2259 2.476320 GCAAATCTGGCCTCCTCGC 61.476 63.158 3.32 0.00 0.00 5.03
1917 2361 0.962489 CCTACTAGATCGGCCACCAG 59.038 60.000 2.24 0.00 0.00 4.00
1918 2362 1.113517 GCCTACTAGATCGGCCACCA 61.114 60.000 2.24 0.00 37.86 4.17
1929 2373 4.823989 AGCAAATTAATGGCTGCCTACTAG 59.176 41.667 21.03 3.64 36.34 2.57
1930 2374 4.792068 AGCAAATTAATGGCTGCCTACTA 58.208 39.130 21.03 5.58 36.34 1.82
1942 2386 5.924254 CCATTGATCGATGCAGCAAATTAAT 59.076 36.000 16.49 0.75 0.00 1.40
1974 2418 0.751643 CCGGGGAGGTTAATTGGCAG 60.752 60.000 0.00 0.00 34.51 4.85
1993 2437 2.416431 GCCAGGCAGATCACATTTCAAC 60.416 50.000 6.55 0.00 0.00 3.18
2012 2456 4.025480 ACGAATATTTCATCCGTTTACGCC 60.025 41.667 0.00 0.00 38.18 5.68
2093 3593 4.604114 GGTACCACCGTTACCAGC 57.396 61.111 7.15 0.00 34.17 4.85
2173 3674 2.101750 TGGACAACACGAAGTAGCTTGA 59.898 45.455 0.00 0.00 41.61 3.02
2193 3694 2.633657 GACGCCAGCACAACACTG 59.366 61.111 0.00 0.00 34.82 3.66
2219 3720 2.673368 GCAGCGCACTGTTTCTACTAAT 59.327 45.455 11.47 0.00 46.30 1.73
2245 3808 0.874390 GAAAGCGTTGTCATGGCAGA 59.126 50.000 0.00 0.00 0.00 4.26
2246 3809 0.453282 CGAAAGCGTTGTCATGGCAG 60.453 55.000 0.00 0.00 0.00 4.85
2247 3810 1.573932 CGAAAGCGTTGTCATGGCA 59.426 52.632 0.00 0.00 0.00 4.92
2248 3811 1.154225 CCGAAAGCGTTGTCATGGC 60.154 57.895 0.00 0.00 35.23 4.40
2249 3812 1.501741 CCCGAAAGCGTTGTCATGG 59.498 57.895 0.00 0.00 35.23 3.66
2250 3813 1.234615 ACCCCGAAAGCGTTGTCATG 61.235 55.000 0.00 0.00 35.23 3.07
2251 3814 1.072505 ACCCCGAAAGCGTTGTCAT 59.927 52.632 0.00 0.00 35.23 3.06
2252 3815 1.890041 CACCCCGAAAGCGTTGTCA 60.890 57.895 0.00 0.00 35.23 3.58
2253 3816 2.943653 CACCCCGAAAGCGTTGTC 59.056 61.111 0.00 0.00 35.23 3.18
2254 3817 3.284449 GCACCCCGAAAGCGTTGT 61.284 61.111 0.00 0.00 35.23 3.32
2255 3818 4.038080 GGCACCCCGAAAGCGTTG 62.038 66.667 0.00 0.00 35.23 4.10
2268 3831 2.978018 GCTAAGCACCGTTGGGCAC 61.978 63.158 0.00 0.00 36.48 5.01
2269 3832 2.671619 GCTAAGCACCGTTGGGCA 60.672 61.111 0.00 0.00 36.48 5.36
2270 3833 2.671619 TGCTAAGCACCGTTGGGC 60.672 61.111 0.00 0.00 36.48 5.36
2271 3834 0.605319 TTCTGCTAAGCACCGTTGGG 60.605 55.000 0.00 0.00 33.79 4.12
2272 3835 1.069227 GTTTCTGCTAAGCACCGTTGG 60.069 52.381 0.00 0.00 33.79 3.77
2273 3836 1.601903 TGTTTCTGCTAAGCACCGTTG 59.398 47.619 0.00 0.00 33.79 4.10
2274 3837 1.873591 CTGTTTCTGCTAAGCACCGTT 59.126 47.619 0.00 0.00 33.79 4.44
2275 3838 1.202651 ACTGTTTCTGCTAAGCACCGT 60.203 47.619 0.00 0.00 33.79 4.83
2276 3839 1.195448 CACTGTTTCTGCTAAGCACCG 59.805 52.381 0.00 0.00 33.79 4.94
2277 3840 1.068954 GCACTGTTTCTGCTAAGCACC 60.069 52.381 0.00 0.00 33.79 5.01
2278 3841 1.398960 CGCACTGTTTCTGCTAAGCAC 60.399 52.381 0.00 0.00 33.79 4.40
2279 3842 0.867746 CGCACTGTTTCTGCTAAGCA 59.132 50.000 0.00 0.00 36.92 3.91
2280 3843 0.453449 GCGCACTGTTTCTGCTAAGC 60.453 55.000 0.30 0.00 32.03 3.09
2281 3844 1.136141 CAGCGCACTGTTTCTGCTAAG 60.136 52.381 11.47 0.00 39.22 2.18
2282 3845 0.867746 CAGCGCACTGTTTCTGCTAA 59.132 50.000 11.47 0.00 39.22 3.09
2283 3846 1.568612 GCAGCGCACTGTTTCTGCTA 61.569 55.000 11.47 0.00 46.30 3.49
2284 3847 2.901292 GCAGCGCACTGTTTCTGCT 61.901 57.895 11.47 3.57 46.30 4.24
2285 3848 2.398128 AAGCAGCGCACTGTTTCTGC 62.398 55.000 11.47 8.20 43.01 4.26
2286 3849 0.029834 AAAGCAGCGCACTGTTTCTG 59.970 50.000 11.47 0.00 45.44 3.02
2287 3850 0.029834 CAAAGCAGCGCACTGTTTCT 59.970 50.000 11.47 0.00 45.44 2.52
2288 3851 0.248621 ACAAAGCAGCGCACTGTTTC 60.249 50.000 11.47 0.00 45.44 2.78
2290 3853 1.097547 AGACAAAGCAGCGCACTGTT 61.098 50.000 11.47 0.00 46.30 3.16
2291 3854 1.097547 AAGACAAAGCAGCGCACTGT 61.098 50.000 11.47 4.74 46.30 3.55
2293 3856 0.533755 AGAAGACAAAGCAGCGCACT 60.534 50.000 11.47 2.96 0.00 4.40
2294 3857 0.385223 CAGAAGACAAAGCAGCGCAC 60.385 55.000 11.47 0.00 0.00 5.34
2295 3858 1.944035 CAGAAGACAAAGCAGCGCA 59.056 52.632 11.47 0.00 0.00 6.09
2296 3859 1.441682 GCAGAAGACAAAGCAGCGC 60.442 57.895 0.00 0.00 0.00 5.92
2297 3860 1.208614 GGCAGAAGACAAAGCAGCG 59.791 57.895 0.00 0.00 0.00 5.18
2298 3861 0.886563 ATGGCAGAAGACAAAGCAGC 59.113 50.000 0.00 0.00 35.50 5.25
2299 3862 2.095364 GTCATGGCAGAAGACAAAGCAG 60.095 50.000 11.24 0.00 35.50 4.24
2300 3863 1.881973 GTCATGGCAGAAGACAAAGCA 59.118 47.619 11.24 0.00 35.50 3.91
2301 3864 1.881973 TGTCATGGCAGAAGACAAAGC 59.118 47.619 15.10 0.00 39.15 3.51
2302 3865 2.227388 GGTGTCATGGCAGAAGACAAAG 59.773 50.000 17.94 0.00 43.16 2.77
2303 3866 2.229792 GGTGTCATGGCAGAAGACAAA 58.770 47.619 17.94 0.00 43.16 2.83
2304 3867 1.877680 CGGTGTCATGGCAGAAGACAA 60.878 52.381 17.94 4.47 43.16 3.18
2305 3868 0.320683 CGGTGTCATGGCAGAAGACA 60.321 55.000 0.00 13.91 39.74 3.41
2306 3869 1.639298 GCGGTGTCATGGCAGAAGAC 61.639 60.000 0.00 9.70 0.00 3.01
2307 3870 1.375908 GCGGTGTCATGGCAGAAGA 60.376 57.895 0.00 0.00 0.00 2.87
2308 3871 0.957395 AAGCGGTGTCATGGCAGAAG 60.957 55.000 0.00 0.00 0.00 2.85
2309 3872 0.537143 AAAGCGGTGTCATGGCAGAA 60.537 50.000 0.00 0.00 0.00 3.02
2346 3909 2.488952 TCACAAAGCGTTGTCATAGCA 58.511 42.857 15.40 0.00 45.00 3.49
2347 3910 3.485877 GGATCACAAAGCGTTGTCATAGC 60.486 47.826 15.40 6.86 45.00 2.97
2348 3911 3.684305 TGGATCACAAAGCGTTGTCATAG 59.316 43.478 15.40 4.73 45.00 2.23
2349 3912 3.669536 TGGATCACAAAGCGTTGTCATA 58.330 40.909 15.40 4.77 45.00 2.15
2350 3913 2.503331 TGGATCACAAAGCGTTGTCAT 58.497 42.857 15.40 8.48 45.00 3.06
2351 3914 1.960417 TGGATCACAAAGCGTTGTCA 58.040 45.000 15.40 2.72 45.00 3.58
2352 3915 2.414559 CCATGGATCACAAAGCGTTGTC 60.415 50.000 15.40 5.11 45.00 3.18
2354 3917 1.135315 CCCATGGATCACAAAGCGTTG 60.135 52.381 15.22 11.02 40.84 4.10
2355 3918 1.176527 CCCATGGATCACAAAGCGTT 58.823 50.000 15.22 0.00 0.00 4.84
2356 3919 0.038166 ACCCATGGATCACAAAGCGT 59.962 50.000 15.22 0.00 0.00 5.07
2357 3920 0.734889 GACCCATGGATCACAAAGCG 59.265 55.000 15.22 0.00 0.00 4.68
2358 3921 1.106285 GGACCCATGGATCACAAAGC 58.894 55.000 15.22 0.00 0.00 3.51
2363 3926 3.744660 GACTAATGGACCCATGGATCAC 58.255 50.000 15.22 0.00 36.68 3.06
2364 3927 2.368548 CGACTAATGGACCCATGGATCA 59.631 50.000 15.22 8.71 36.68 2.92
2414 3977 9.942850 TCATCTTTGTTTTGATAGTGATGACTA 57.057 29.630 0.00 0.00 39.07 2.59
2415 3978 8.853077 TCATCTTTGTTTTGATAGTGATGACT 57.147 30.769 0.00 0.00 35.59 3.41
2467 4030 7.524863 CGACCCTAGGCATATATTTGTCTTACA 60.525 40.741 5.58 0.00 32.77 2.41
2471 4034 4.322801 GCGACCCTAGGCATATATTTGTCT 60.323 45.833 2.05 5.59 35.33 3.41
2472 4035 3.933332 GCGACCCTAGGCATATATTTGTC 59.067 47.826 2.05 1.03 0.00 3.18
2473 4036 3.583086 AGCGACCCTAGGCATATATTTGT 59.417 43.478 2.05 0.00 0.00 2.83
2474 4037 4.207891 AGCGACCCTAGGCATATATTTG 57.792 45.455 2.05 0.00 0.00 2.32
2475 4038 5.599999 CTAGCGACCCTAGGCATATATTT 57.400 43.478 2.05 0.00 39.94 1.40
2485 4048 1.341531 CACCAATCCTAGCGACCCTAG 59.658 57.143 0.00 0.00 42.68 3.02
2486 4049 1.063492 TCACCAATCCTAGCGACCCTA 60.063 52.381 0.00 0.00 0.00 3.53
2487 4050 0.325296 TCACCAATCCTAGCGACCCT 60.325 55.000 0.00 0.00 0.00 4.34
2488 4051 0.759346 ATCACCAATCCTAGCGACCC 59.241 55.000 0.00 0.00 0.00 4.46
2489 4052 3.368531 GGATATCACCAATCCTAGCGACC 60.369 52.174 4.83 0.00 39.93 4.79
2490 4053 3.851098 GGATATCACCAATCCTAGCGAC 58.149 50.000 4.83 0.00 39.93 5.19
2497 4060 6.150140 GTCATTAGCAAGGATATCACCAATCC 59.850 42.308 4.83 0.00 42.85 3.01
2498 4061 6.939163 AGTCATTAGCAAGGATATCACCAATC 59.061 38.462 4.83 0.00 0.00 2.67
2499 4062 6.713903 CAGTCATTAGCAAGGATATCACCAAT 59.286 38.462 4.83 0.00 0.00 3.16
2500 4063 6.057533 CAGTCATTAGCAAGGATATCACCAA 58.942 40.000 4.83 0.00 0.00 3.67
2501 4064 5.455183 CCAGTCATTAGCAAGGATATCACCA 60.455 44.000 4.83 0.00 0.00 4.17
2502 4065 4.999950 CCAGTCATTAGCAAGGATATCACC 59.000 45.833 4.83 0.00 0.00 4.02
2503 4066 5.615289 ACCAGTCATTAGCAAGGATATCAC 58.385 41.667 4.83 0.00 0.00 3.06
2504 4067 5.894298 ACCAGTCATTAGCAAGGATATCA 57.106 39.130 4.83 0.00 0.00 2.15
2505 4068 8.854614 AATTACCAGTCATTAGCAAGGATATC 57.145 34.615 0.00 0.00 0.00 1.63
2507 4070 9.778741 CTTAATTACCAGTCATTAGCAAGGATA 57.221 33.333 0.00 0.00 0.00 2.59
2508 4071 7.229506 GCTTAATTACCAGTCATTAGCAAGGAT 59.770 37.037 0.00 0.00 0.00 3.24
2509 4072 6.542370 GCTTAATTACCAGTCATTAGCAAGGA 59.458 38.462 0.00 0.00 0.00 3.36
2510 4073 6.238759 GGCTTAATTACCAGTCATTAGCAAGG 60.239 42.308 0.00 0.00 0.00 3.61
2511 4074 6.543831 AGGCTTAATTACCAGTCATTAGCAAG 59.456 38.462 0.00 0.00 0.00 4.01
2512 4075 6.423182 AGGCTTAATTACCAGTCATTAGCAA 58.577 36.000 0.00 0.00 0.00 3.91
2513 4076 6.001449 AGGCTTAATTACCAGTCATTAGCA 57.999 37.500 0.00 0.00 0.00 3.49
2514 4077 8.622948 ATTAGGCTTAATTACCAGTCATTAGC 57.377 34.615 0.00 0.00 0.00 3.09
2519 4082 9.778741 CTGATTATTAGGCTTAATTACCAGTCA 57.221 33.333 6.38 1.14 31.97 3.41
2520 4083 9.780186 ACTGATTATTAGGCTTAATTACCAGTC 57.220 33.333 8.38 0.00 32.06 3.51
2529 4092 9.899661 TCTAGCAAAACTGATTATTAGGCTTAA 57.100 29.630 0.00 0.00 0.00 1.85
2530 4093 9.899661 TTCTAGCAAAACTGATTATTAGGCTTA 57.100 29.630 0.00 0.00 0.00 3.09
2531 4094 8.678199 GTTCTAGCAAAACTGATTATTAGGCTT 58.322 33.333 0.00 0.00 0.00 4.35
2532 4095 8.049721 AGTTCTAGCAAAACTGATTATTAGGCT 58.950 33.333 0.00 0.00 35.68 4.58
2533 4096 8.214721 AGTTCTAGCAAAACTGATTATTAGGC 57.785 34.615 0.00 0.00 35.68 3.93
2576 4139 8.636213 CCAATGGCTATAAAAAGTGAATGAGAT 58.364 33.333 0.00 0.00 0.00 2.75
2577 4140 7.833682 TCCAATGGCTATAAAAAGTGAATGAGA 59.166 33.333 0.00 0.00 0.00 3.27
2578 4141 7.999679 TCCAATGGCTATAAAAAGTGAATGAG 58.000 34.615 0.00 0.00 0.00 2.90
2579 4142 7.953005 TCCAATGGCTATAAAAAGTGAATGA 57.047 32.000 0.00 0.00 0.00 2.57
2582 4145 9.639563 TCATATCCAATGGCTATAAAAAGTGAA 57.360 29.630 0.00 0.00 0.00 3.18
2583 4146 9.812347 ATCATATCCAATGGCTATAAAAAGTGA 57.188 29.630 0.00 0.00 0.00 3.41
2584 4147 9.850628 CATCATATCCAATGGCTATAAAAAGTG 57.149 33.333 0.00 0.00 0.00 3.16
2585 4148 8.526147 GCATCATATCCAATGGCTATAAAAAGT 58.474 33.333 0.00 0.00 0.00 2.66
2586 4149 8.746530 AGCATCATATCCAATGGCTATAAAAAG 58.253 33.333 0.00 0.00 0.00 2.27
2587 4150 8.654485 AGCATCATATCCAATGGCTATAAAAA 57.346 30.769 0.00 0.00 0.00 1.94
2588 4151 9.925545 ATAGCATCATATCCAATGGCTATAAAA 57.074 29.630 0.00 0.00 0.00 1.52
2592 4155 8.942033 TCTTATAGCATCATATCCAATGGCTAT 58.058 33.333 0.00 0.00 32.32 2.97
2593 4156 8.322905 TCTTATAGCATCATATCCAATGGCTA 57.677 34.615 0.00 0.00 0.00 3.93
2594 4157 7.204243 TCTTATAGCATCATATCCAATGGCT 57.796 36.000 0.00 0.00 0.00 4.75
2595 4158 7.501559 ACATCTTATAGCATCATATCCAATGGC 59.498 37.037 0.00 0.00 0.00 4.40
2596 4159 8.837389 CACATCTTATAGCATCATATCCAATGG 58.163 37.037 0.00 0.00 0.00 3.16
2597 4160 9.392259 ACACATCTTATAGCATCATATCCAATG 57.608 33.333 0.00 0.00 0.00 2.82
2598 4161 9.392259 CACACATCTTATAGCATCATATCCAAT 57.608 33.333 0.00 0.00 0.00 3.16
2599 4162 8.377799 ACACACATCTTATAGCATCATATCCAA 58.622 33.333 0.00 0.00 0.00 3.53
2600 4163 7.820872 CACACACATCTTATAGCATCATATCCA 59.179 37.037 0.00 0.00 0.00 3.41
2601 4164 7.821359 ACACACACATCTTATAGCATCATATCC 59.179 37.037 0.00 0.00 0.00 2.59
2602 4165 8.654215 CACACACACATCTTATAGCATCATATC 58.346 37.037 0.00 0.00 0.00 1.63
2603 4166 7.118825 GCACACACACATCTTATAGCATCATAT 59.881 37.037 0.00 0.00 0.00 1.78
2604 4167 6.424812 GCACACACACATCTTATAGCATCATA 59.575 38.462 0.00 0.00 0.00 2.15
2605 4168 5.237996 GCACACACACATCTTATAGCATCAT 59.762 40.000 0.00 0.00 0.00 2.45
2606 4169 4.571984 GCACACACACATCTTATAGCATCA 59.428 41.667 0.00 0.00 0.00 3.07
2607 4170 4.813161 AGCACACACACATCTTATAGCATC 59.187 41.667 0.00 0.00 0.00 3.91
2608 4171 4.774124 AGCACACACACATCTTATAGCAT 58.226 39.130 0.00 0.00 0.00 3.79
2609 4172 4.206477 AGCACACACACATCTTATAGCA 57.794 40.909 0.00 0.00 0.00 3.49
2610 4173 5.276395 CGTTAGCACACACACATCTTATAGC 60.276 44.000 0.00 0.00 0.00 2.97
2611 4174 5.805486 ACGTTAGCACACACACATCTTATAG 59.195 40.000 0.00 0.00 0.00 1.31
2612 4175 5.575218 CACGTTAGCACACACACATCTTATA 59.425 40.000 0.00 0.00 0.00 0.98
2613 4176 4.388773 CACGTTAGCACACACACATCTTAT 59.611 41.667 0.00 0.00 0.00 1.73
2614 4177 3.738791 CACGTTAGCACACACACATCTTA 59.261 43.478 0.00 0.00 0.00 2.10
2615 4178 2.543848 CACGTTAGCACACACACATCTT 59.456 45.455 0.00 0.00 0.00 2.40
2616 4179 2.135139 CACGTTAGCACACACACATCT 58.865 47.619 0.00 0.00 0.00 2.90
2617 4180 1.194547 CCACGTTAGCACACACACATC 59.805 52.381 0.00 0.00 0.00 3.06
2618 4181 1.225855 CCACGTTAGCACACACACAT 58.774 50.000 0.00 0.00 0.00 3.21
2619 4182 0.812014 CCCACGTTAGCACACACACA 60.812 55.000 0.00 0.00 0.00 3.72
2620 4183 0.812412 ACCCACGTTAGCACACACAC 60.812 55.000 0.00 0.00 0.00 3.82
2621 4184 0.107606 AACCCACGTTAGCACACACA 60.108 50.000 0.00 0.00 0.00 3.72
2622 4185 0.306533 CAACCCACGTTAGCACACAC 59.693 55.000 0.00 0.00 0.00 3.82
2623 4186 0.107606 ACAACCCACGTTAGCACACA 60.108 50.000 0.00 0.00 0.00 3.72
2624 4187 1.868469 TACAACCCACGTTAGCACAC 58.132 50.000 0.00 0.00 0.00 3.82
2625 4188 2.300723 AGATACAACCCACGTTAGCACA 59.699 45.455 0.00 0.00 0.00 4.57
2626 4189 2.968675 AGATACAACCCACGTTAGCAC 58.031 47.619 0.00 0.00 0.00 4.40
2627 4190 5.128171 AGAATAGATACAACCCACGTTAGCA 59.872 40.000 0.00 0.00 0.00 3.49
2628 4191 5.598769 AGAATAGATACAACCCACGTTAGC 58.401 41.667 0.00 0.00 0.00 3.09
2629 4192 7.039882 ACAAGAATAGATACAACCCACGTTAG 58.960 38.462 0.00 0.00 0.00 2.34
2630 4193 6.938507 ACAAGAATAGATACAACCCACGTTA 58.061 36.000 0.00 0.00 0.00 3.18
2631 4194 5.801380 ACAAGAATAGATACAACCCACGTT 58.199 37.500 0.00 0.00 0.00 3.99
2632 4195 5.416271 ACAAGAATAGATACAACCCACGT 57.584 39.130 0.00 0.00 0.00 4.49
2633 4196 6.737254 AAACAAGAATAGATACAACCCACG 57.263 37.500 0.00 0.00 0.00 4.94


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

AutoCloner maintained by Alex Coulton.