Multiple sequence alignment - TraesCS4B01G208400

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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 TraesCS4B01G208400 chr4B 100.000 5304 0 0 1 5304 445327874 445333177 0.000000e+00 9795
1 TraesCS4B01G208400 chr4B 99.082 5119 42 4 1 5116 622887765 622882649 0.000000e+00 9188
2 TraesCS4B01G208400 chr4B 96.757 185 6 0 5120 5304 42867544 42867360 5.160000e-80 309
3 TraesCS4B01G208400 chr4B 96.721 183 6 0 5120 5302 480944613 480944431 6.670000e-79 305
4 TraesCS4B01G208400 chr3B 99.082 5118 44 3 1 5116 777040623 777035507 0.000000e+00 9188
5 TraesCS4B01G208400 chr3B 96.757 185 6 0 5120 5304 717243231 717243047 5.160000e-80 309
6 TraesCS4B01G208400 chr6A 99.043 5120 42 5 1 5116 46108759 46113875 0.000000e+00 9177
7 TraesCS4B01G208400 chr6A 98.914 2762 25 3 1 2758 46139675 46142435 0.000000e+00 4929
8 TraesCS4B01G208400 chr6A 99.033 931 8 1 4186 5116 46114727 46115656 0.000000e+00 1668
9 TraesCS4B01G208400 chr2A 99.145 4794 37 2 327 5116 171835557 171840350 0.000000e+00 8623
10 TraesCS4B01G208400 chr2B 99.061 4793 41 2 327 5116 93121446 93126237 0.000000e+00 8599
11 TraesCS4B01G208400 chrUn 98.247 4164 70 3 953 5116 269555828 269559988 0.000000e+00 7282
12 TraesCS4B01G208400 chr5A 99.090 3736 33 1 1382 5116 617311019 617307284 0.000000e+00 6709
13 TraesCS4B01G208400 chr6D 96.617 3045 86 13 1479 4516 360751640 360748606 0.000000e+00 5036
14 TraesCS4B01G208400 chr6D 97.075 1470 40 1 1 1467 360753185 360751716 0.000000e+00 2473
15 TraesCS4B01G208400 chr1D 96.025 3044 112 6 1479 4516 42042619 42039579 0.000000e+00 4942
16 TraesCS4B01G208400 chr1D 97.493 1476 28 5 1 1474 42044145 42042677 0.000000e+00 2512
17 TraesCS4B01G208400 chr1D 96.364 605 22 0 4514 5118 485423217 485422613 0.000000e+00 996
18 TraesCS4B01G208400 chr7D 97.021 1477 36 4 1 1474 346629936 346628465 0.000000e+00 2477
19 TraesCS4B01G208400 chr6B 97.297 185 5 0 5120 5304 188057057 188056873 1.110000e-81 315
20 TraesCS4B01G208400 chr6B 96.277 188 7 0 5117 5304 675557252 675557439 5.160000e-80 309
21 TraesCS4B01G208400 chr6B 96.757 185 6 0 5120 5304 692522071 692521887 5.160000e-80 309
22 TraesCS4B01G208400 chr7B 96.277 188 7 0 5117 5304 79829990 79830177 5.160000e-80 309
23 TraesCS4B01G208400 chr5B 96.757 185 6 0 5120 5304 487872476 487872292 5.160000e-80 309
24 TraesCS4B01G208400 chr1B 96.757 185 6 0 5120 5304 453829191 453829007 5.160000e-80 309


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 TraesCS4B01G208400 chr4B 445327874 445333177 5303 False 9795.0 9795 100.000 1 5304 1 chr4B.!!$F1 5303
1 TraesCS4B01G208400 chr4B 622882649 622887765 5116 True 9188.0 9188 99.082 1 5116 1 chr4B.!!$R3 5115
2 TraesCS4B01G208400 chr3B 777035507 777040623 5116 True 9188.0 9188 99.082 1 5116 1 chr3B.!!$R2 5115
3 TraesCS4B01G208400 chr6A 46108759 46115656 6897 False 5422.5 9177 99.038 1 5116 2 chr6A.!!$F2 5115
4 TraesCS4B01G208400 chr6A 46139675 46142435 2760 False 4929.0 4929 98.914 1 2758 1 chr6A.!!$F1 2757
5 TraesCS4B01G208400 chr2A 171835557 171840350 4793 False 8623.0 8623 99.145 327 5116 1 chr2A.!!$F1 4789
6 TraesCS4B01G208400 chr2B 93121446 93126237 4791 False 8599.0 8599 99.061 327 5116 1 chr2B.!!$F1 4789
7 TraesCS4B01G208400 chrUn 269555828 269559988 4160 False 7282.0 7282 98.247 953 5116 1 chrUn.!!$F1 4163
8 TraesCS4B01G208400 chr5A 617307284 617311019 3735 True 6709.0 6709 99.090 1382 5116 1 chr5A.!!$R1 3734
9 TraesCS4B01G208400 chr6D 360748606 360753185 4579 True 3754.5 5036 96.846 1 4516 2 chr6D.!!$R1 4515
10 TraesCS4B01G208400 chr1D 42039579 42044145 4566 True 3727.0 4942 96.759 1 4516 2 chr1D.!!$R2 4515
11 TraesCS4B01G208400 chr1D 485422613 485423217 604 True 996.0 996 96.364 4514 5118 1 chr1D.!!$R1 604
12 TraesCS4B01G208400 chr7D 346628465 346629936 1471 True 2477.0 2477 97.021 1 1474 1 chr7D.!!$R1 1473

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
521 523 2.550277 TGTGGAGCTTGATCCCTCTA 57.450 50.000 2.26 0.0 38.72 2.43 F
1313 1321 1.935873 CAACGCTCGTGATCCATCAAT 59.064 47.619 0.00 0.0 38.75 2.57 F
3236 3312 4.225942 ACCCAAGAGAAATGACTGATGCTA 59.774 41.667 0.00 0.0 0.00 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1711 1784 2.104622 ACTGCCAAAAACCATCCCAAAG 59.895 45.455 0.00 0.00 0.00 2.77 R
3236 3312 9.342308 CCTATCAACCATCAAGTATTTACATGT 57.658 33.333 2.69 2.69 0.00 3.21 R
5176 7044 1.140252 ACCGGTTCAGTTGCTAAGTGT 59.860 47.619 0.00 0.00 33.51 3.55 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
128 130 8.443953 AATTATCAAAGTATCCTTCACAGCTC 57.556 34.615 0.00 0.00 0.00 4.09
521 523 2.550277 TGTGGAGCTTGATCCCTCTA 57.450 50.000 2.26 0.00 38.72 2.43
754 756 6.260936 CACTTGTCATTTTCTGTCTTGGTACT 59.739 38.462 0.00 0.00 0.00 2.73
1066 1074 2.180276 GGTCTTCTTCTAGTGCCTCCA 58.820 52.381 0.00 0.00 0.00 3.86
1313 1321 1.935873 CAACGCTCGTGATCCATCAAT 59.064 47.619 0.00 0.00 38.75 2.57
3236 3312 4.225942 ACCCAAGAGAAATGACTGATGCTA 59.774 41.667 0.00 0.00 0.00 3.49
3594 3673 8.793592 GCTAACCATCCGGAATATTTTTCTTAT 58.206 33.333 9.01 0.00 35.59 1.73
4258 4345 3.514539 TGGAGATGAGGATGACTATGGG 58.485 50.000 0.00 0.00 0.00 4.00
4838 4926 3.146783 CGGGAAGCAATAACCGTCA 57.853 52.632 0.00 0.00 41.34 4.35
5124 6992 8.824756 TGAAATATCTAGTAGTGTCTTCACCT 57.175 34.615 0.00 0.00 44.83 4.00
5125 6993 8.904834 TGAAATATCTAGTAGTGTCTTCACCTC 58.095 37.037 0.00 0.00 44.83 3.85
5126 6994 7.499321 AATATCTAGTAGTGTCTTCACCTCG 57.501 40.000 0.00 0.00 44.83 4.63
5127 6995 3.008330 TCTAGTAGTGTCTTCACCTCGC 58.992 50.000 0.00 0.00 44.83 5.03
5128 6996 0.889306 AGTAGTGTCTTCACCTCGCC 59.111 55.000 0.00 0.00 44.83 5.54
5129 6997 0.889306 GTAGTGTCTTCACCTCGCCT 59.111 55.000 0.00 0.00 44.83 5.52
5130 6998 1.272769 GTAGTGTCTTCACCTCGCCTT 59.727 52.381 0.00 0.00 44.83 4.35
5131 6999 0.759346 AGTGTCTTCACCTCGCCTTT 59.241 50.000 0.00 0.00 44.83 3.11
5132 7000 1.968493 AGTGTCTTCACCTCGCCTTTA 59.032 47.619 0.00 0.00 44.83 1.85
5133 7001 2.028930 AGTGTCTTCACCTCGCCTTTAG 60.029 50.000 0.00 0.00 44.83 1.85
5134 7002 1.337823 TGTCTTCACCTCGCCTTTAGC 60.338 52.381 0.00 0.00 38.52 3.09
5135 7003 1.066787 GTCTTCACCTCGCCTTTAGCT 60.067 52.381 0.00 0.00 40.39 3.32
5136 7004 2.165845 GTCTTCACCTCGCCTTTAGCTA 59.834 50.000 0.00 0.00 40.39 3.32
5137 7005 2.427453 TCTTCACCTCGCCTTTAGCTAG 59.573 50.000 0.00 0.00 40.39 3.42
5138 7006 1.848652 TCACCTCGCCTTTAGCTAGT 58.151 50.000 0.00 0.00 40.39 2.57
5139 7007 1.749634 TCACCTCGCCTTTAGCTAGTC 59.250 52.381 0.00 0.00 40.39 2.59
5140 7008 1.751924 CACCTCGCCTTTAGCTAGTCT 59.248 52.381 0.00 0.00 40.39 3.24
5141 7009 2.025898 ACCTCGCCTTTAGCTAGTCTC 58.974 52.381 0.00 0.00 40.39 3.36
5142 7010 2.303175 CCTCGCCTTTAGCTAGTCTCT 58.697 52.381 0.00 0.00 40.39 3.10
5143 7011 2.034053 CCTCGCCTTTAGCTAGTCTCTG 59.966 54.545 0.00 0.00 40.39 3.35
5144 7012 2.685897 CTCGCCTTTAGCTAGTCTCTGT 59.314 50.000 0.00 0.00 40.39 3.41
5145 7013 3.090037 TCGCCTTTAGCTAGTCTCTGTT 58.910 45.455 0.00 0.00 40.39 3.16
5146 7014 3.510360 TCGCCTTTAGCTAGTCTCTGTTT 59.490 43.478 0.00 0.00 40.39 2.83
5147 7015 4.703575 TCGCCTTTAGCTAGTCTCTGTTTA 59.296 41.667 0.00 0.00 40.39 2.01
5148 7016 5.360144 TCGCCTTTAGCTAGTCTCTGTTTAT 59.640 40.000 0.00 0.00 40.39 1.40
5149 7017 6.043411 CGCCTTTAGCTAGTCTCTGTTTATT 58.957 40.000 0.00 0.00 40.39 1.40
5150 7018 6.199342 CGCCTTTAGCTAGTCTCTGTTTATTC 59.801 42.308 0.00 0.00 40.39 1.75
5151 7019 7.269316 GCCTTTAGCTAGTCTCTGTTTATTCT 58.731 38.462 0.00 0.00 38.99 2.40
5152 7020 7.223777 GCCTTTAGCTAGTCTCTGTTTATTCTG 59.776 40.741 0.00 0.00 38.99 3.02
5153 7021 8.254508 CCTTTAGCTAGTCTCTGTTTATTCTGT 58.745 37.037 0.00 0.00 0.00 3.41
5156 7024 6.801575 AGCTAGTCTCTGTTTATTCTGTAGC 58.198 40.000 0.00 0.00 0.00 3.58
5157 7025 5.980715 GCTAGTCTCTGTTTATTCTGTAGCC 59.019 44.000 0.00 0.00 0.00 3.93
5158 7026 6.183360 GCTAGTCTCTGTTTATTCTGTAGCCT 60.183 42.308 0.00 0.00 0.00 4.58
5159 7027 6.613153 AGTCTCTGTTTATTCTGTAGCCTT 57.387 37.500 0.00 0.00 0.00 4.35
5160 7028 7.010339 AGTCTCTGTTTATTCTGTAGCCTTT 57.990 36.000 0.00 0.00 0.00 3.11
5161 7029 7.454225 AGTCTCTGTTTATTCTGTAGCCTTTT 58.546 34.615 0.00 0.00 0.00 2.27
5162 7030 8.594550 AGTCTCTGTTTATTCTGTAGCCTTTTA 58.405 33.333 0.00 0.00 0.00 1.52
5163 7031 9.384764 GTCTCTGTTTATTCTGTAGCCTTTTAT 57.615 33.333 0.00 0.00 0.00 1.40
5164 7032 9.959721 TCTCTGTTTATTCTGTAGCCTTTTATT 57.040 29.630 0.00 0.00 0.00 1.40
5174 7042 9.569122 TTCTGTAGCCTTTTATTTTGAGTTACT 57.431 29.630 0.00 0.00 0.00 2.24
5180 7048 9.350951 AGCCTTTTATTTTGAGTTACTAACACT 57.649 29.630 1.79 0.00 0.00 3.55
5181 7049 9.961265 GCCTTTTATTTTGAGTTACTAACACTT 57.039 29.630 1.79 0.00 0.00 3.16
5189 7057 7.709269 TTGAGTTACTAACACTTAGCAACTG 57.291 36.000 10.91 0.00 45.34 3.16
5190 7058 7.046292 TGAGTTACTAACACTTAGCAACTGA 57.954 36.000 10.91 2.46 45.34 3.41
5191 7059 7.494211 TGAGTTACTAACACTTAGCAACTGAA 58.506 34.615 10.91 0.23 45.34 3.02
5192 7060 7.437267 TGAGTTACTAACACTTAGCAACTGAAC 59.563 37.037 10.91 1.14 45.34 3.18
5193 7061 6.704937 AGTTACTAACACTTAGCAACTGAACC 59.295 38.462 6.77 0.00 44.28 3.62
5194 7062 4.056050 ACTAACACTTAGCAACTGAACCG 58.944 43.478 0.00 0.00 36.71 4.44
5195 7063 1.878953 ACACTTAGCAACTGAACCGG 58.121 50.000 0.00 0.00 0.00 5.28
5196 7064 1.140252 ACACTTAGCAACTGAACCGGT 59.860 47.619 0.00 0.00 0.00 5.28
5197 7065 2.366266 ACACTTAGCAACTGAACCGGTA 59.634 45.455 8.00 0.00 0.00 4.02
5198 7066 3.007614 ACACTTAGCAACTGAACCGGTAT 59.992 43.478 8.00 0.00 0.00 2.73
5199 7067 3.617263 CACTTAGCAACTGAACCGGTATC 59.383 47.826 8.00 8.74 0.00 2.24
5200 7068 3.514309 ACTTAGCAACTGAACCGGTATCT 59.486 43.478 8.00 0.00 0.00 1.98
5201 7069 4.708421 ACTTAGCAACTGAACCGGTATCTA 59.292 41.667 8.00 0.00 0.00 1.98
5202 7070 5.363005 ACTTAGCAACTGAACCGGTATCTAT 59.637 40.000 8.00 0.00 0.00 1.98
5203 7071 4.755266 AGCAACTGAACCGGTATCTATT 57.245 40.909 8.00 4.18 0.00 1.73
5204 7072 5.864418 AGCAACTGAACCGGTATCTATTA 57.136 39.130 8.00 0.00 0.00 0.98
5205 7073 5.598769 AGCAACTGAACCGGTATCTATTAC 58.401 41.667 8.00 2.36 0.00 1.89
5206 7074 4.748600 GCAACTGAACCGGTATCTATTACC 59.251 45.833 8.00 0.00 46.10 2.85
5220 7088 8.268850 GTATCTATTACCATGGTGCAATTAGG 57.731 38.462 28.17 12.69 0.00 2.69
5221 7089 6.508030 TCTATTACCATGGTGCAATTAGGA 57.492 37.500 28.17 14.46 0.00 2.94
5222 7090 6.533730 TCTATTACCATGGTGCAATTAGGAG 58.466 40.000 28.17 13.26 0.00 3.69
5223 7091 4.584638 TTACCATGGTGCAATTAGGAGT 57.415 40.909 28.17 0.00 0.00 3.85
5224 7092 5.702065 TTACCATGGTGCAATTAGGAGTA 57.298 39.130 28.17 0.00 0.00 2.59
5225 7093 3.886123 ACCATGGTGCAATTAGGAGTAC 58.114 45.455 18.99 0.00 0.00 2.73
5226 7094 3.523564 ACCATGGTGCAATTAGGAGTACT 59.476 43.478 18.99 0.00 0.00 2.73
5227 7095 4.719773 ACCATGGTGCAATTAGGAGTACTA 59.280 41.667 18.99 0.00 0.00 1.82
5228 7096 5.163301 ACCATGGTGCAATTAGGAGTACTAG 60.163 44.000 18.99 0.00 32.16 2.57
5229 7097 5.163301 CCATGGTGCAATTAGGAGTACTAGT 60.163 44.000 2.57 0.00 32.16 2.57
5230 7098 6.041637 CCATGGTGCAATTAGGAGTACTAGTA 59.958 42.308 2.57 0.00 32.16 1.82
5231 7099 6.710597 TGGTGCAATTAGGAGTACTAGTAG 57.289 41.667 1.87 0.00 32.16 2.57
5232 7100 6.429151 TGGTGCAATTAGGAGTACTAGTAGA 58.571 40.000 1.87 0.00 32.16 2.59
5233 7101 6.546403 TGGTGCAATTAGGAGTACTAGTAGAG 59.454 42.308 1.87 0.00 32.16 2.43
5234 7102 6.546772 GGTGCAATTAGGAGTACTAGTAGAGT 59.453 42.308 1.87 0.00 42.69 3.24
5235 7103 7.718753 GGTGCAATTAGGAGTACTAGTAGAGTA 59.281 40.741 1.87 0.00 39.81 2.59
5278 7146 9.698309 ATATTCAATATACTTCTGTCGACCTTG 57.302 33.333 14.12 3.49 0.00 3.61
5279 7147 5.348986 TCAATATACTTCTGTCGACCTTGC 58.651 41.667 14.12 0.00 0.00 4.01
5280 7148 2.674796 ATACTTCTGTCGACCTTGCC 57.325 50.000 14.12 0.00 0.00 4.52
5281 7149 1.629043 TACTTCTGTCGACCTTGCCT 58.371 50.000 14.12 0.00 0.00 4.75
5282 7150 0.034059 ACTTCTGTCGACCTTGCCTG 59.966 55.000 14.12 0.00 0.00 4.85
5283 7151 1.294659 CTTCTGTCGACCTTGCCTGC 61.295 60.000 14.12 0.00 0.00 4.85
5284 7152 2.731691 TTCTGTCGACCTTGCCTGCC 62.732 60.000 14.12 0.00 0.00 4.85
5285 7153 3.241530 TGTCGACCTTGCCTGCCT 61.242 61.111 14.12 0.00 0.00 4.75
5286 7154 2.032681 GTCGACCTTGCCTGCCTT 59.967 61.111 3.51 0.00 0.00 4.35
5287 7155 2.035442 GTCGACCTTGCCTGCCTTC 61.035 63.158 3.51 0.00 0.00 3.46
5288 7156 2.217038 TCGACCTTGCCTGCCTTCT 61.217 57.895 0.00 0.00 0.00 2.85
5289 7157 1.302832 CGACCTTGCCTGCCTTCTT 60.303 57.895 0.00 0.00 0.00 2.52
5290 7158 0.036388 CGACCTTGCCTGCCTTCTTA 60.036 55.000 0.00 0.00 0.00 2.10
5291 7159 1.407437 CGACCTTGCCTGCCTTCTTAT 60.407 52.381 0.00 0.00 0.00 1.73
5292 7160 2.293170 GACCTTGCCTGCCTTCTTATC 58.707 52.381 0.00 0.00 0.00 1.75
5293 7161 1.918957 ACCTTGCCTGCCTTCTTATCT 59.081 47.619 0.00 0.00 0.00 1.98
5294 7162 3.115390 ACCTTGCCTGCCTTCTTATCTA 58.885 45.455 0.00 0.00 0.00 1.98
5295 7163 3.118223 ACCTTGCCTGCCTTCTTATCTAC 60.118 47.826 0.00 0.00 0.00 2.59
5296 7164 3.471680 CTTGCCTGCCTTCTTATCTACC 58.528 50.000 0.00 0.00 0.00 3.18
5297 7165 2.477245 TGCCTGCCTTCTTATCTACCA 58.523 47.619 0.00 0.00 0.00 3.25
5298 7166 2.843730 TGCCTGCCTTCTTATCTACCAA 59.156 45.455 0.00 0.00 0.00 3.67
5299 7167 3.118261 TGCCTGCCTTCTTATCTACCAAG 60.118 47.826 0.00 0.00 0.00 3.61
5300 7168 3.118223 GCCTGCCTTCTTATCTACCAAGT 60.118 47.826 0.00 0.00 0.00 3.16
5301 7169 4.101119 GCCTGCCTTCTTATCTACCAAGTA 59.899 45.833 0.00 0.00 0.00 2.24
5302 7170 5.221742 GCCTGCCTTCTTATCTACCAAGTAT 60.222 44.000 0.00 0.00 0.00 2.12
5303 7171 6.459923 CCTGCCTTCTTATCTACCAAGTATC 58.540 44.000 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
128 130 8.480643 AAGAGTACCATCTCAATTTTTCTACG 57.519 34.615 0.00 0.00 36.97 3.51
1066 1074 6.725364 ACTGAGTTGATCCATTGTTTCCTAT 58.275 36.000 0.00 0.00 0.00 2.57
1455 1463 4.700692 TGTGCGCATATACTTACCCAAAAA 59.299 37.500 15.91 0.00 0.00 1.94
1711 1784 2.104622 ACTGCCAAAAACCATCCCAAAG 59.895 45.455 0.00 0.00 0.00 2.77
3236 3312 9.342308 CCTATCAACCATCAAGTATTTACATGT 57.658 33.333 2.69 2.69 0.00 3.21
3594 3673 7.914427 TGCTTAGATAAAGGAAGAGTATCCA 57.086 36.000 0.00 0.00 42.27 3.41
3766 3851 1.553248 ACTAACAGACCGCTATTGGCA 59.447 47.619 0.00 0.00 41.91 4.92
4258 4345 1.966451 GCCACCGCCATAGCCATAC 60.966 63.158 0.00 0.00 34.57 2.39
4484 4572 5.373222 ACACAAGCACAAGGTATTGAGTTA 58.627 37.500 0.00 0.00 38.83 2.24
4677 4765 2.805353 CGAGGGTGAGCGAACACG 60.805 66.667 6.38 0.00 41.12 4.49
4838 4926 2.356382 CCTCGTCGAGCATTTACTCTCT 59.644 50.000 17.02 0.00 34.35 3.10
5118 6986 2.165845 GACTAGCTAAAGGCGAGGTGAA 59.834 50.000 0.00 0.00 45.82 3.18
5119 6987 1.749634 GACTAGCTAAAGGCGAGGTGA 59.250 52.381 0.00 0.00 45.82 4.02
5120 6988 1.751924 AGACTAGCTAAAGGCGAGGTG 59.248 52.381 0.00 0.00 45.82 4.00
5121 6989 2.025898 GAGACTAGCTAAAGGCGAGGT 58.974 52.381 0.00 0.00 45.82 3.85
5122 6990 2.034053 CAGAGACTAGCTAAAGGCGAGG 59.966 54.545 0.00 0.00 45.82 4.63
5123 6991 2.685897 ACAGAGACTAGCTAAAGGCGAG 59.314 50.000 0.00 0.00 46.71 5.03
5126 6994 7.223777 CAGAATAAACAGAGACTAGCTAAAGGC 59.776 40.741 0.00 0.00 42.19 4.35
5127 6995 8.254508 ACAGAATAAACAGAGACTAGCTAAAGG 58.745 37.037 0.00 0.00 0.00 3.11
5130 6998 8.407064 GCTACAGAATAAACAGAGACTAGCTAA 58.593 37.037 0.00 0.00 0.00 3.09
5131 6999 7.013464 GGCTACAGAATAAACAGAGACTAGCTA 59.987 40.741 0.00 0.00 0.00 3.32
5132 7000 6.183360 GGCTACAGAATAAACAGAGACTAGCT 60.183 42.308 0.00 0.00 0.00 3.32
5133 7001 5.980715 GGCTACAGAATAAACAGAGACTAGC 59.019 44.000 0.00 0.00 0.00 3.42
5134 7002 7.341445 AGGCTACAGAATAAACAGAGACTAG 57.659 40.000 0.00 0.00 0.00 2.57
5135 7003 7.719871 AAGGCTACAGAATAAACAGAGACTA 57.280 36.000 0.00 0.00 0.00 2.59
5136 7004 6.613153 AAGGCTACAGAATAAACAGAGACT 57.387 37.500 0.00 0.00 0.00 3.24
5137 7005 7.674471 AAAAGGCTACAGAATAAACAGAGAC 57.326 36.000 0.00 0.00 0.00 3.36
5138 7006 9.959721 AATAAAAGGCTACAGAATAAACAGAGA 57.040 29.630 0.00 0.00 0.00 3.10
5148 7016 9.569122 AGTAACTCAAAATAAAAGGCTACAGAA 57.431 29.630 0.00 0.00 0.00 3.02
5154 7022 9.350951 AGTGTTAGTAACTCAAAATAAAAGGCT 57.649 29.630 14.00 0.00 0.00 4.58
5155 7023 9.961265 AAGTGTTAGTAACTCAAAATAAAAGGC 57.039 29.630 14.00 0.00 0.00 4.35
5170 7038 5.693104 CGGTTCAGTTGCTAAGTGTTAGTAA 59.307 40.000 0.00 0.00 35.84 2.24
5171 7039 5.224888 CGGTTCAGTTGCTAAGTGTTAGTA 58.775 41.667 0.00 0.00 35.66 1.82
5172 7040 4.056050 CGGTTCAGTTGCTAAGTGTTAGT 58.944 43.478 0.00 0.00 35.66 2.24
5173 7041 3.432252 CCGGTTCAGTTGCTAAGTGTTAG 59.568 47.826 0.00 0.00 36.32 2.34
5174 7042 3.181463 ACCGGTTCAGTTGCTAAGTGTTA 60.181 43.478 0.00 0.00 33.51 2.41
5175 7043 2.218603 CCGGTTCAGTTGCTAAGTGTT 58.781 47.619 0.00 0.00 33.51 3.32
5176 7044 1.140252 ACCGGTTCAGTTGCTAAGTGT 59.860 47.619 0.00 0.00 33.51 3.55
5177 7045 1.878953 ACCGGTTCAGTTGCTAAGTG 58.121 50.000 0.00 0.00 0.00 3.16
5178 7046 3.514309 AGATACCGGTTCAGTTGCTAAGT 59.486 43.478 15.04 0.00 0.00 2.24
5179 7047 4.124851 AGATACCGGTTCAGTTGCTAAG 57.875 45.455 15.04 0.00 0.00 2.18
5180 7048 5.864418 ATAGATACCGGTTCAGTTGCTAA 57.136 39.130 15.04 0.00 0.00 3.09
5181 7049 5.864418 AATAGATACCGGTTCAGTTGCTA 57.136 39.130 15.04 4.86 0.00 3.49
5182 7050 4.755266 AATAGATACCGGTTCAGTTGCT 57.245 40.909 15.04 2.57 0.00 3.91
5183 7051 4.748600 GGTAATAGATACCGGTTCAGTTGC 59.251 45.833 15.04 11.70 44.57 4.17
5195 7063 8.100791 TCCTAATTGCACCATGGTAATAGATAC 58.899 37.037 19.28 0.48 0.00 2.24
5196 7064 8.213489 TCCTAATTGCACCATGGTAATAGATA 57.787 34.615 19.28 6.21 0.00 1.98
5197 7065 7.090319 TCCTAATTGCACCATGGTAATAGAT 57.910 36.000 19.28 4.88 0.00 1.98
5198 7066 6.101150 ACTCCTAATTGCACCATGGTAATAGA 59.899 38.462 19.28 11.21 0.00 1.98
5199 7067 6.299141 ACTCCTAATTGCACCATGGTAATAG 58.701 40.000 19.28 14.27 0.00 1.73
5200 7068 6.260700 ACTCCTAATTGCACCATGGTAATA 57.739 37.500 19.28 5.72 0.00 0.98
5201 7069 5.129368 ACTCCTAATTGCACCATGGTAAT 57.871 39.130 19.28 12.23 0.00 1.89
5202 7070 4.584638 ACTCCTAATTGCACCATGGTAA 57.415 40.909 19.28 10.11 0.00 2.85
5203 7071 4.719773 AGTACTCCTAATTGCACCATGGTA 59.280 41.667 19.28 1.82 0.00 3.25
5204 7072 3.523564 AGTACTCCTAATTGCACCATGGT 59.476 43.478 13.00 13.00 0.00 3.55
5205 7073 4.156455 AGTACTCCTAATTGCACCATGG 57.844 45.455 11.19 11.19 0.00 3.66
5206 7074 5.918608 ACTAGTACTCCTAATTGCACCATG 58.081 41.667 0.00 0.00 0.00 3.66
5207 7075 7.067421 TCTACTAGTACTCCTAATTGCACCAT 58.933 38.462 0.00 0.00 0.00 3.55
5208 7076 6.429151 TCTACTAGTACTCCTAATTGCACCA 58.571 40.000 0.00 0.00 0.00 4.17
5209 7077 6.546772 ACTCTACTAGTACTCCTAATTGCACC 59.453 42.308 0.00 0.00 36.36 5.01
5210 7078 7.571080 ACTCTACTAGTACTCCTAATTGCAC 57.429 40.000 0.00 0.00 36.36 4.57
5252 7120 9.698309 CAAGGTCGACAGAAGTATATTGAATAT 57.302 33.333 18.91 2.91 0.00 1.28
5253 7121 7.652105 GCAAGGTCGACAGAAGTATATTGAATA 59.348 37.037 18.91 0.00 0.00 1.75
5254 7122 6.480320 GCAAGGTCGACAGAAGTATATTGAAT 59.520 38.462 18.91 0.00 0.00 2.57
5255 7123 5.810587 GCAAGGTCGACAGAAGTATATTGAA 59.189 40.000 18.91 0.00 0.00 2.69
5256 7124 5.348986 GCAAGGTCGACAGAAGTATATTGA 58.651 41.667 18.91 0.00 0.00 2.57
5257 7125 4.508124 GGCAAGGTCGACAGAAGTATATTG 59.492 45.833 18.91 8.25 0.00 1.90
5258 7126 4.406003 AGGCAAGGTCGACAGAAGTATATT 59.594 41.667 18.91 0.00 0.00 1.28
5259 7127 3.961408 AGGCAAGGTCGACAGAAGTATAT 59.039 43.478 18.91 0.00 0.00 0.86
5260 7128 3.130516 CAGGCAAGGTCGACAGAAGTATA 59.869 47.826 18.91 0.00 0.00 1.47
5261 7129 2.093973 CAGGCAAGGTCGACAGAAGTAT 60.094 50.000 18.91 0.00 0.00 2.12
5262 7130 1.272490 CAGGCAAGGTCGACAGAAGTA 59.728 52.381 18.91 0.00 0.00 2.24
5263 7131 0.034059 CAGGCAAGGTCGACAGAAGT 59.966 55.000 18.91 0.00 0.00 3.01
5264 7132 1.294659 GCAGGCAAGGTCGACAGAAG 61.295 60.000 18.91 5.05 0.00 2.85
5265 7133 1.301716 GCAGGCAAGGTCGACAGAA 60.302 57.895 18.91 0.00 0.00 3.02
5266 7134 2.343758 GCAGGCAAGGTCGACAGA 59.656 61.111 18.91 0.00 0.00 3.41
5267 7135 2.738213 AAGGCAGGCAAGGTCGACAG 62.738 60.000 18.91 7.70 0.00 3.51
5268 7136 2.731691 GAAGGCAGGCAAGGTCGACA 62.732 60.000 18.91 0.00 0.00 4.35
5269 7137 2.032681 AAGGCAGGCAAGGTCGAC 59.967 61.111 7.13 7.13 0.00 4.20
5270 7138 1.768684 AAGAAGGCAGGCAAGGTCGA 61.769 55.000 0.00 0.00 0.00 4.20
5271 7139 0.036388 TAAGAAGGCAGGCAAGGTCG 60.036 55.000 0.00 0.00 0.00 4.79
5272 7140 2.092699 AGATAAGAAGGCAGGCAAGGTC 60.093 50.000 0.00 0.00 0.00 3.85
5273 7141 1.918957 AGATAAGAAGGCAGGCAAGGT 59.081 47.619 0.00 0.00 0.00 3.50
5274 7142 2.725221 AGATAAGAAGGCAGGCAAGG 57.275 50.000 0.00 0.00 0.00 3.61
5275 7143 3.118261 TGGTAGATAAGAAGGCAGGCAAG 60.118 47.826 0.00 0.00 0.00 4.01
5276 7144 2.843730 TGGTAGATAAGAAGGCAGGCAA 59.156 45.455 0.00 0.00 0.00 4.52
5277 7145 2.477245 TGGTAGATAAGAAGGCAGGCA 58.523 47.619 0.00 0.00 0.00 4.75
5278 7146 3.118223 ACTTGGTAGATAAGAAGGCAGGC 60.118 47.826 0.00 0.00 0.00 4.85
5279 7147 4.762289 ACTTGGTAGATAAGAAGGCAGG 57.238 45.455 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.