Multiple sequence alignment - TraesCS1B01G316500

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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 TraesCS1B01G316500 chr1B 100.000 5702 0 0 1 5702 540999540 541005241 0.000000e+00 10530.0
1 TraesCS1B01G316500 chr1A 94.683 4025 133 29 1 3995 498162909 498166882 0.000000e+00 6172.0
2 TraesCS1B01G316500 chr1A 93.790 1417 76 8 4290 5701 498167363 498168772 0.000000e+00 2119.0
3 TraesCS1B01G316500 chr1A 91.722 302 21 3 3992 4289 498166985 498167286 3.180000e-112 416.0
4 TraesCS1B01G316500 chr1D 94.299 3561 152 28 2161 5702 403050398 403053926 0.000000e+00 5404.0
5 TraesCS1B01G316500 chr1D 91.996 2174 86 31 1 2155 403048247 403050351 0.000000e+00 2970.0
6 TraesCS1B01G316500 chr1D 96.491 57 2 0 2213 2269 403050347 403050403 1.690000e-15 95.3
7 TraesCS1B01G316500 chr3D 79.597 397 72 6 3254 3642 443710792 443710397 5.630000e-70 276.0
8 TraesCS1B01G316500 chr3D 80.899 178 32 2 3760 3935 443710183 443710006 7.700000e-29 139.0
9 TraesCS1B01G316500 chr3B 79.397 398 71 7 3254 3642 581705672 581705277 2.620000e-68 270.0
10 TraesCS1B01G316500 chr3B 80.541 185 33 3 3760 3941 581704936 581704752 7.700000e-29 139.0
11 TraesCS1B01G316500 chr3A 84.236 203 32 0 3254 3456 584934343 584934141 1.250000e-46 198.0
12 TraesCS1B01G316500 chr3A 81.871 171 30 1 3760 3929 584933569 584933399 5.960000e-30 143.0


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 TraesCS1B01G316500 chr1B 540999540 541005241 5701 False 10530.000000 10530 100.000000 1 5702 1 chr1B.!!$F1 5701
1 TraesCS1B01G316500 chr1A 498162909 498168772 5863 False 2902.333333 6172 93.398333 1 5701 3 chr1A.!!$F1 5700
2 TraesCS1B01G316500 chr1D 403048247 403053926 5679 False 2823.100000 5404 94.262000 1 5702 3 chr1D.!!$F1 5701
3 TraesCS1B01G316500 chr3D 443710006 443710792 786 True 207.500000 276 80.248000 3254 3935 2 chr3D.!!$R1 681
4 TraesCS1B01G316500 chr3B 581704752 581705672 920 True 204.500000 270 79.969000 3254 3941 2 chr3B.!!$R1 687

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
989 1018 0.885596 TTCGGTTGTTTTCGGCGGAT 60.886 50.0 7.21 0.0 0.00 4.18 F
2448 2534 0.584396 CCGCACGCTAAACAGAACAA 59.416 50.0 0.00 0.0 0.00 2.83 F
3785 4144 0.033366 TCAGCTTAACACTGAGCGCA 59.967 50.0 11.47 0.0 43.53 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2789 2875 1.406898 TGATCACTAGAGGCAGAAGCG 59.593 52.381 0.00 0.0 43.41 4.68 R
4359 4904 1.153107 CTGCGCAATCCCATCTCCA 60.153 57.895 13.05 0.0 0.00 3.86 R
4921 5470 0.538287 AAACTGTGCAGAGGCTTCCC 60.538 55.000 16.19 0.0 41.91 3.97 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
46 47 0.983378 CGGAGGGGGAGGTGAATTCT 60.983 60.000 7.05 0.00 0.00 2.40
66 67 1.765074 TTTTTCTCGGGTGGGAGGG 59.235 57.895 0.00 0.00 34.74 4.30
67 68 1.785353 TTTTTCTCGGGTGGGAGGGG 61.785 60.000 0.00 0.00 34.74 4.79
68 69 2.699607 TTTTCTCGGGTGGGAGGGGA 62.700 60.000 0.00 0.00 34.74 4.81
74 75 2.041405 GGTGGGAGGGGAGGAGAG 60.041 72.222 0.00 0.00 0.00 3.20
270 284 2.762043 GCCGCTCCTCTTCCTCCT 60.762 66.667 0.00 0.00 0.00 3.69
440 457 2.676471 GGTGGCCGGATTTGCTGT 60.676 61.111 5.05 0.00 0.00 4.40
513 530 6.477688 CACTGCTGTGATTTCTGTTTCATTTT 59.522 34.615 18.08 0.00 46.55 1.82
522 539 7.333921 TGATTTCTGTTTCATTTTGTGCTGTTT 59.666 29.630 0.00 0.00 0.00 2.83
538 555 4.202398 TGCTGTTTTCTCTCCTGTTCATCT 60.202 41.667 0.00 0.00 0.00 2.90
707 724 4.640771 TGGGCCATATATCTGTTCTTCC 57.359 45.455 0.00 0.00 0.00 3.46
709 726 4.202461 TGGGCCATATATCTGTTCTTCCAC 60.202 45.833 0.00 0.00 0.00 4.02
710 727 3.997021 GGCCATATATCTGTTCTTCCACG 59.003 47.826 0.00 0.00 0.00 4.94
711 728 4.503296 GGCCATATATCTGTTCTTCCACGT 60.503 45.833 0.00 0.00 0.00 4.49
800 820 8.841300 GGTGTAAATATTCTCCTTCATTTCCTC 58.159 37.037 0.00 0.00 0.00 3.71
837 861 7.116075 TGGGACAAGTATATGTACATGCTTTT 58.884 34.615 18.81 11.97 35.75 2.27
872 896 5.869753 ATTTGTGCTGATGTCAGAGTTAC 57.130 39.130 13.94 7.07 46.59 2.50
913 942 4.770795 AGTATTTCCTTGAGATGAACCGG 58.229 43.478 0.00 0.00 0.00 5.28
931 960 5.830000 ACCGGGCAATCTTTAATTTCTAC 57.170 39.130 6.32 0.00 0.00 2.59
933 962 4.642885 CCGGGCAATCTTTAATTTCTACCA 59.357 41.667 0.00 0.00 0.00 3.25
957 986 1.091771 ATGCGGTCAGATTTGAGCCG 61.092 55.000 17.22 17.22 46.56 5.52
989 1018 0.885596 TTCGGTTGTTTTCGGCGGAT 60.886 50.000 7.21 0.00 0.00 4.18
997 1026 2.287909 TGTTTTCGGCGGATTTCAAAGG 60.288 45.455 7.21 0.00 0.00 3.11
1144 1173 0.693049 AGGGCTGTCGTCCAAAGATT 59.307 50.000 0.00 0.00 37.38 2.40
1147 1176 2.296190 GGGCTGTCGTCCAAAGATTTTT 59.704 45.455 0.00 0.00 34.11 1.94
1274 1303 4.446385 TGTAGCAACGTGATCACAAGTAAC 59.554 41.667 24.93 14.84 37.71 2.50
1288 1317 5.063438 TCACAAGTAACAAATAGATGAGCGC 59.937 40.000 0.00 0.00 0.00 5.92
1307 1336 8.755696 TGAGCGCAATTTTATCAAAATTTAGT 57.244 26.923 11.47 0.00 46.01 2.24
1320 1349 7.831691 TCAAAATTTAGTTCATCTGGGTTCA 57.168 32.000 0.00 0.00 0.00 3.18
1395 1424 6.750501 TGTCAACTTCGTATAATCAGTGCTAC 59.249 38.462 0.00 0.00 0.00 3.58
1408 1437 1.975327 TGCTACGAAGAAGCAGCCT 59.025 52.632 0.00 0.00 44.78 4.58
1538 1581 3.603532 TCCATGTTCTCTTGTCATCTGC 58.396 45.455 0.00 0.00 0.00 4.26
1698 1741 7.873719 TCTTGTGTTTCTTTGGACTAATTGA 57.126 32.000 0.00 0.00 0.00 2.57
1721 1764 2.009042 GCAGAAGTTAGGAGCATGCGT 61.009 52.381 13.01 3.63 0.00 5.24
1724 1767 1.929836 GAAGTTAGGAGCATGCGTGAG 59.070 52.381 13.01 0.00 0.00 3.51
1728 1771 1.480789 TAGGAGCATGCGTGAGGTTA 58.519 50.000 13.01 0.00 0.00 2.85
1780 1823 5.183140 CCCGTTCTCCAAGTGTCATAAAAAT 59.817 40.000 0.00 0.00 0.00 1.82
1806 1849 6.262273 TGAATCTTTTAGGTCAGGTCAAACAC 59.738 38.462 0.00 0.00 0.00 3.32
2101 2145 9.994432 GAAAATTCATAGAAGAATACACAGTGG 57.006 33.333 5.31 0.00 37.24 4.00
2287 2373 8.088365 GCTGTATTTTCCTTGGAGTTAAATTGT 58.912 33.333 3.93 0.00 0.00 2.71
2307 2393 3.938963 TGTCTTGTTTCAGTGAACAGACC 59.061 43.478 23.80 13.66 40.33 3.85
2318 2404 5.056480 CAGTGAACAGACCACATTCTTACA 58.944 41.667 0.00 0.00 37.01 2.41
2320 2406 5.702670 AGTGAACAGACCACATTCTTACATG 59.297 40.000 0.00 0.00 37.01 3.21
2448 2534 0.584396 CCGCACGCTAAACAGAACAA 59.416 50.000 0.00 0.00 0.00 2.83
2468 2554 3.795688 ATTGACGGGGATGCTGATATT 57.204 42.857 0.00 0.00 0.00 1.28
2789 2875 2.678336 GGTTGATGGAGTGATTTCGTCC 59.322 50.000 0.00 0.00 0.00 4.79
2858 2944 6.563196 GCAAACGAATGGTTGGTATTTTTGTC 60.563 38.462 0.00 0.00 39.30 3.18
3096 3189 9.326413 ACAAAGACAATTATGTAGTACTATGCC 57.674 33.333 5.75 0.00 40.74 4.40
3167 3267 2.552315 ACAACAATAACAACTCCGCCAG 59.448 45.455 0.00 0.00 0.00 4.85
3522 3631 9.390795 GCTGTTATCTGATTATTGTGCTATTTG 57.609 33.333 0.00 0.00 0.00 2.32
3785 4144 0.033366 TCAGCTTAACACTGAGCGCA 59.967 50.000 11.47 0.00 43.53 6.09
3977 4336 8.880750 GTTACAAATAACTCCTACTTTAGCAGG 58.119 37.037 0.00 0.00 38.15 4.85
3979 4338 7.104290 ACAAATAACTCCTACTTTAGCAGGTC 58.896 38.462 0.00 0.00 33.37 3.85
4002 4467 8.092687 GGTCTGACAACCTTCAGTAGTATTAAA 58.907 37.037 10.38 0.00 43.19 1.52
4029 4494 7.780008 TTAATTATGACGGTATGACCACAAG 57.220 36.000 0.00 0.00 38.47 3.16
4037 4502 7.428020 TGACGGTATGACCACAAGTTATATAC 58.572 38.462 0.00 0.00 38.47 1.47
4039 4504 7.205297 ACGGTATGACCACAAGTTATATACAC 58.795 38.462 0.00 0.00 38.47 2.90
4055 4521 3.087638 CACACCTGTGTACGACGAG 57.912 57.895 0.00 0.00 42.83 4.18
4144 4612 4.451900 ACCAGGTATATTAGCACAAGCAC 58.548 43.478 0.00 0.00 45.49 4.40
4234 4703 9.847224 AAGAGGTTTAAAAATCTGAGTCTACAA 57.153 29.630 4.62 0.00 27.28 2.41
4334 4879 5.916883 TGTACGCTAAGTAGTTCAACTTGTC 59.083 40.000 0.00 0.00 39.95 3.18
4359 4904 6.296087 CCAGGTGTGATAGAATACTATGGCAT 60.296 42.308 4.88 4.88 39.16 4.40
4601 5146 2.781646 GTGCAAAATAAATCGCGCCTAC 59.218 45.455 0.00 0.00 0.00 3.18
4612 5157 0.022853 CGCGCCTACGAAAGTTTACG 59.977 55.000 0.00 0.00 46.40 3.18
4760 5308 1.081175 GAAACTTTCTGCGGCTGCC 60.081 57.895 16.57 9.11 41.78 4.85
4921 5470 0.320374 TGTTGGTTCGGGTAGAGCAG 59.680 55.000 0.00 0.00 0.00 4.24
4923 5472 1.550130 TTGGTTCGGGTAGAGCAGGG 61.550 60.000 0.00 0.00 0.00 4.45
4989 5538 6.988522 TGTAGTTGTAGATGTGTCAAGCTTA 58.011 36.000 0.00 0.00 0.00 3.09
4997 5546 5.523369 AGATGTGTCAAGCTTAAGTTTTGC 58.477 37.500 0.00 5.84 0.00 3.68
5155 5705 4.133820 TGTGTTTGTGATCTCATTCGGTT 58.866 39.130 0.00 0.00 0.00 4.44
5165 5715 7.122204 TGTGATCTCATTCGGTTAAAGTAGAGA 59.878 37.037 0.00 0.00 35.61 3.10
5172 5722 8.145767 TCATTCGGTTAAAGTAGAGAGAAAACA 58.854 33.333 0.00 0.00 0.00 2.83
5248 5798 1.004277 GGTTCATGACCTGGTAAGCCA 59.996 52.381 0.00 0.00 45.55 4.75
5336 5886 7.254852 GTGTTCAACCACATCTTTCTGTTTTA 58.745 34.615 0.00 0.00 35.38 1.52
5350 5900 9.925268 TCTTTCTGTTTTAACGAAAGAACATAC 57.075 29.630 23.83 0.00 44.82 2.39
5382 5932 2.234414 CCATGCCATAAAAGCCACTTGT 59.766 45.455 0.00 0.00 0.00 3.16
5390 5940 6.818142 GCCATAAAAGCCACTTGTGAATTTAT 59.182 34.615 1.89 7.24 0.00 1.40
5412 5962 2.958355 ACATAAAACCACACAAGCAGCT 59.042 40.909 0.00 0.00 0.00 4.24
5417 5967 1.376466 CCACACAAGCAGCTAGGGT 59.624 57.895 0.00 0.00 0.00 4.34
5483 6033 6.347696 TCAGGCAACAAACAGAAAAATTCAT 58.652 32.000 0.00 0.00 41.41 2.57
5486 6036 8.277713 CAGGCAACAAACAGAAAAATTCATAAG 58.722 33.333 0.00 0.00 41.41 1.73
5496 6046 9.354673 ACAGAAAAATTCATAAGTCAAAGAGGA 57.645 29.630 0.00 0.00 0.00 3.71
5497 6047 9.837525 CAGAAAAATTCATAAGTCAAAGAGGAG 57.162 33.333 0.00 0.00 0.00 3.69
5510 6060 7.116736 AGTCAAAGAGGAGTTTTAACCTGAAA 58.883 34.615 0.00 0.00 36.57 2.69
5557 6107 7.915508 AGAATATATTCGTGCGAAAAACATCA 58.084 30.769 17.69 0.00 41.56 3.07
5602 6152 7.415541 CGGATGGCTTGAAATTCAAATTAGAGA 60.416 37.037 9.85 0.00 35.73 3.10
5670 6220 8.960591 TGAGCTTAGCTAAATTTGCTAGAATTT 58.039 29.630 15.61 0.52 42.89 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 68 4.200283 CAGCGGCGTCCTCTCCTC 62.200 72.222 9.37 0.00 0.00 3.71
88 89 0.249699 CAACTGTCCCGTACTGTGCA 60.250 55.000 0.00 0.00 39.89 4.57
193 201 4.787280 AGGTGCGGGAGGAGGAGG 62.787 72.222 0.00 0.00 0.00 4.30
194 202 3.465403 CAGGTGCGGGAGGAGGAG 61.465 72.222 0.00 0.00 0.00 3.69
267 281 2.597805 GCGAGGCGGATAGGAGGA 60.598 66.667 0.00 0.00 0.00 3.71
270 284 1.745320 GAAAGGCGAGGCGGATAGGA 61.745 60.000 0.00 0.00 0.00 2.94
459 476 1.002624 GCAGGAACCCACCGAATCA 60.003 57.895 0.00 0.00 34.73 2.57
513 530 3.206150 GAACAGGAGAGAAAACAGCACA 58.794 45.455 0.00 0.00 0.00 4.57
522 539 4.671831 AGACAGAGATGAACAGGAGAGAA 58.328 43.478 0.00 0.00 0.00 2.87
538 555 0.242286 GCTCGCAACAGAGAGACAGA 59.758 55.000 0.36 0.00 40.57 3.41
707 724 5.470368 TCAAATTCCTTCACTCTAGACGTG 58.530 41.667 13.19 13.19 0.00 4.49
709 726 7.602517 AATTCAAATTCCTTCACTCTAGACG 57.397 36.000 0.00 0.00 0.00 4.18
710 727 9.003658 TCAAATTCAAATTCCTTCACTCTAGAC 57.996 33.333 0.00 0.00 0.00 2.59
711 728 9.573166 TTCAAATTCAAATTCCTTCACTCTAGA 57.427 29.630 0.00 0.00 0.00 2.43
744 764 6.418946 AGAACCTCCTGGATCTAAATTGTTC 58.581 40.000 0.00 0.00 42.66 3.18
837 861 5.584913 TCAGCACAAATAAATAGGGGGAAA 58.415 37.500 0.00 0.00 0.00 3.13
840 864 4.895297 ACATCAGCACAAATAAATAGGGGG 59.105 41.667 0.00 0.00 0.00 5.40
931 960 5.247507 TCAAATCTGACCGCATTATTTGG 57.752 39.130 0.00 0.00 37.59 3.28
933 962 4.202050 GGCTCAAATCTGACCGCATTATTT 60.202 41.667 0.00 0.00 0.00 1.40
941 970 1.815421 CCCGGCTCAAATCTGACCG 60.815 63.158 0.00 3.84 41.74 4.79
957 986 5.830000 AACAACCGAAGCTTATTATTCCC 57.170 39.130 0.00 0.00 0.00 3.97
989 1018 2.036604 GGAAACGCCATTCCCTTTGAAA 59.963 45.455 4.19 0.00 42.57 2.69
1099 1128 8.353423 AGAGTACAATGATGTAAAGCCAAATT 57.647 30.769 0.00 0.00 43.41 1.82
1144 1173 4.321675 GCTTTCTTATCTTTCGCCCCAAAA 60.322 41.667 0.00 0.00 0.00 2.44
1147 1176 2.365582 GCTTTCTTATCTTTCGCCCCA 58.634 47.619 0.00 0.00 0.00 4.96
1237 1266 4.119862 GTTGCTACAAGACAGTGACTCAA 58.880 43.478 0.00 0.00 0.00 3.02
1274 1303 8.564648 TTGATAAAATTGCGCTCATCTATTTG 57.435 30.769 9.73 0.00 0.00 2.32
1395 1424 1.229428 TTGAACAGGCTGCTTCTTCG 58.771 50.000 15.89 0.00 0.00 3.79
1408 1437 8.750515 TGAATTCTAGCATATTCCATTGAACA 57.249 30.769 7.05 0.00 32.13 3.18
1538 1581 2.481952 GAGCTTGGTGCAGACTTAACTG 59.518 50.000 0.00 0.00 45.94 3.16
1698 1741 2.751806 GCATGCTCCTAACTTCTGCTTT 59.248 45.455 11.37 0.00 0.00 3.51
1721 1764 0.175760 GACGCATGCTCCTAACCTCA 59.824 55.000 17.13 0.00 0.00 3.86
1724 1767 0.175760 TCAGACGCATGCTCCTAACC 59.824 55.000 17.13 0.00 0.00 2.85
1728 1771 2.186384 GCTCAGACGCATGCTCCT 59.814 61.111 17.13 9.48 0.00 3.69
1780 1823 6.831353 TGTTTGACCTGACCTAAAAGATTCAA 59.169 34.615 0.00 0.00 0.00 2.69
1806 1849 6.808212 CACATAACTGAAAATGCAAGTTAGGG 59.192 38.462 18.74 12.99 33.01 3.53
1809 1852 7.860373 GTGACACATAACTGAAAATGCAAGTTA 59.140 33.333 9.70 9.70 0.00 2.24
2201 2286 3.568430 CACCCAAAGGACTGTAAGAAACC 59.432 47.826 0.00 0.00 35.04 3.27
2287 2373 3.938963 GTGGTCTGTTCACTGAAACAAGA 59.061 43.478 0.00 0.00 38.60 3.02
2448 2534 3.795688 AATATCAGCATCCCCGTCAAT 57.204 42.857 0.00 0.00 0.00 2.57
2468 2554 3.777106 AGAGATGGCTTGTGACAGAAA 57.223 42.857 0.00 0.00 32.90 2.52
2789 2875 1.406898 TGATCACTAGAGGCAGAAGCG 59.593 52.381 0.00 0.00 43.41 4.68
2858 2944 4.520492 AGTTCTTTCTTTGCCCATACTGTG 59.480 41.667 0.00 0.00 0.00 3.66
3096 3189 3.785486 TGATACGAGAAACAGAGCATGG 58.215 45.455 0.00 0.00 0.00 3.66
3522 3631 2.927028 ACCATATCACCCGGCTAAAAC 58.073 47.619 0.00 0.00 0.00 2.43
3785 4144 3.205282 CCCCTGAATACCCTTCCAGAATT 59.795 47.826 0.00 0.00 0.00 2.17
3977 4336 9.485206 TTTTAATACTACTGAAGGTTGTCAGAC 57.515 33.333 9.10 0.00 46.76 3.51
4002 4467 8.740123 TGTGGTCATACCGTCATAATTAATTT 57.260 30.769 5.91 0.00 42.58 1.82
4039 4504 2.975410 TTACTCGTCGTACACAGGTG 57.025 50.000 0.00 0.00 0.00 4.00
4053 4519 3.418995 AGATGGGCATGCATGATTACTC 58.581 45.455 30.64 17.36 0.00 2.59
4054 4520 3.520691 AGATGGGCATGCATGATTACT 57.479 42.857 30.64 17.20 0.00 2.24
4055 4521 4.202182 ACAAAGATGGGCATGCATGATTAC 60.202 41.667 30.64 15.70 0.00 1.89
4144 4612 4.942852 TGCTTCCACAACTTTAACCAATG 58.057 39.130 0.00 0.00 0.00 2.82
4207 4675 9.847224 TGTAGACTCAGATTTTTAAACCTCTTT 57.153 29.630 0.00 0.00 0.00 2.52
4225 4694 9.953697 AAGATACATCGACTTAATTGTAGACTC 57.046 33.333 0.00 0.00 0.00 3.36
4237 4706 7.199766 TGCAAAACAAAAAGATACATCGACTT 58.800 30.769 0.00 0.00 0.00 3.01
4314 4859 4.304110 TGGACAAGTTGAACTACTTAGCG 58.696 43.478 10.54 0.00 36.24 4.26
4334 4879 5.012046 TGCCATAGTATTCTATCACACCTGG 59.988 44.000 0.00 0.00 34.98 4.45
4359 4904 1.153107 CTGCGCAATCCCATCTCCA 60.153 57.895 13.05 0.00 0.00 3.86
4592 5137 1.339711 GTAAACTTTCGTAGGCGCGA 58.660 50.000 12.10 3.29 39.28 5.87
4601 5146 5.681880 TCCATTGCTTTACGTAAACTTTCG 58.318 37.500 16.59 8.10 0.00 3.46
4876 5424 9.846248 AAAAAGAATATCGTGGAAATTTCTGAG 57.154 29.630 17.42 9.05 0.00 3.35
4886 5434 6.566942 CGAACCAACAAAAAGAATATCGTGGA 60.567 38.462 0.00 0.00 0.00 4.02
4921 5470 0.538287 AAACTGTGCAGAGGCTTCCC 60.538 55.000 16.19 0.00 41.91 3.97
4923 5472 1.601412 GCAAAACTGTGCAGAGGCTTC 60.601 52.381 16.19 0.00 44.29 3.86
4949 5498 6.174760 ACAACTACAGTGGTTTGTAAGACAA 58.825 36.000 0.00 0.00 36.11 3.18
4997 5546 3.126001 TCAGTACAACTTTGCTCCAGG 57.874 47.619 0.00 0.00 0.00 4.45
5074 5623 5.473162 TCACAAGAAATTACCATCACACTGG 59.527 40.000 0.00 0.00 42.35 4.00
5139 5689 7.122204 TCTCTACTTTAACCGAATGAGATCACA 59.878 37.037 0.00 0.00 0.00 3.58
5165 5715 8.691797 ACATGTGTACTTTATTTGGTGTTTTCT 58.308 29.630 0.00 0.00 0.00 2.52
5336 5886 6.035327 GGTAGTAATGCGTATGTTCTTTCGTT 59.965 38.462 0.00 0.00 0.00 3.85
5382 5932 9.632807 GCTTGTGTGGTTTTATGTATAAATTCA 57.367 29.630 0.00 0.00 32.78 2.57
5390 5940 4.141287 AGCTGCTTGTGTGGTTTTATGTA 58.859 39.130 0.00 0.00 0.00 2.29
5438 5988 8.617809 GCCTGAATTTAACGGTTTCATATAGAA 58.382 33.333 0.00 0.00 0.00 2.10
5439 5989 7.771361 TGCCTGAATTTAACGGTTTCATATAGA 59.229 33.333 0.00 0.00 0.00 1.98
5440 5990 7.925993 TGCCTGAATTTAACGGTTTCATATAG 58.074 34.615 0.00 0.00 0.00 1.31
5447 5997 4.657436 TGTTGCCTGAATTTAACGGTTT 57.343 36.364 0.00 0.00 0.00 3.27
5451 6001 5.277825 TCTGTTTGTTGCCTGAATTTAACG 58.722 37.500 0.00 0.00 0.00 3.18
5483 6033 7.798071 TCAGGTTAAAACTCCTCTTTGACTTA 58.202 34.615 0.00 0.00 30.91 2.24
5486 6036 6.937436 TTCAGGTTAAAACTCCTCTTTGAC 57.063 37.500 0.00 0.00 30.91 3.18
5496 6046 7.562088 TGTAGACCCAATTTTCAGGTTAAAACT 59.438 33.333 0.00 0.00 32.81 2.66
5497 6047 7.718525 TGTAGACCCAATTTTCAGGTTAAAAC 58.281 34.615 0.00 0.00 32.81 2.43
5557 6107 2.540515 CGACTCAAGACCGCATAACAT 58.459 47.619 0.00 0.00 0.00 2.71
5602 6152 1.196808 CGCGTGAAATACTTGCCAAGT 59.803 47.619 15.44 15.44 45.40 3.16
5642 6192 7.308782 TCTAGCAAATTTAGCTAAGCTCAAC 57.691 36.000 18.19 4.34 43.39 3.18
5670 6220 2.292918 ACCAGGTCATAGTTCTGCCCTA 60.293 50.000 0.00 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.