Multiple sequence alignment - TraesCS3B01G078500

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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 TraesCS3B01G078500 chr3B 100.000 4671 0 0 1 4671 49605413 49610083 0 8626
1 TraesCS3B01G078500 chr4A 97.520 4678 103 11 1 4671 358773010 358777681 0 7984
2 TraesCS3B01G078500 chr4A 96.388 4208 138 8 1 4203 627837837 627842035 0 6916
3 TraesCS3B01G078500 chr4A 93.080 4364 277 18 1 4348 61129309 61133663 0 6362
4 TraesCS3B01G078500 chr7A 97.202 4253 92 14 1 4226 517282732 517286984 0 7169
5 TraesCS3B01G078500 chr7B 94.698 4583 215 20 1 4567 709404243 709408813 0 7092
6 TraesCS3B01G078500 chr7B 96.567 4049 128 8 1 4042 440585213 440581169 0 6697
7 TraesCS3B01G078500 chr6B 96.236 4277 150 8 1 4270 3595360 3599632 0 6996
8 TraesCS3B01G078500 chr5B 95.291 4205 186 9 1 4196 63750972 63755173 0 6658
9 TraesCS3B01G078500 chr1B 93.011 4364 282 16 1 4349 533978883 533974528 0 6348
10 TraesCS3B01G078500 chr2B 93.111 2221 133 5 2452 4671 673131971 673134172 0 3236
11 TraesCS3B01G078500 chr2A 89.406 1010 95 11 3564 4567 8437513 8438516 0 1262
12 TraesCS3B01G078500 chr2A 89.715 807 74 8 3866 4668 620267129 620266328 0 1022
13 TraesCS3B01G078500 chr3A 89.532 812 68 15 3866 4668 649559242 649558439 0 1013


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 TraesCS3B01G078500 chr3B 49605413 49610083 4670 False 8626 8626 100.000 1 4671 1 chr3B.!!$F1 4670
1 TraesCS3B01G078500 chr4A 358773010 358777681 4671 False 7984 7984 97.520 1 4671 1 chr4A.!!$F2 4670
2 TraesCS3B01G078500 chr4A 627837837 627842035 4198 False 6916 6916 96.388 1 4203 1 chr4A.!!$F3 4202
3 TraesCS3B01G078500 chr4A 61129309 61133663 4354 False 6362 6362 93.080 1 4348 1 chr4A.!!$F1 4347
4 TraesCS3B01G078500 chr7A 517282732 517286984 4252 False 7169 7169 97.202 1 4226 1 chr7A.!!$F1 4225
5 TraesCS3B01G078500 chr7B 709404243 709408813 4570 False 7092 7092 94.698 1 4567 1 chr7B.!!$F1 4566
6 TraesCS3B01G078500 chr7B 440581169 440585213 4044 True 6697 6697 96.567 1 4042 1 chr7B.!!$R1 4041
7 TraesCS3B01G078500 chr6B 3595360 3599632 4272 False 6996 6996 96.236 1 4270 1 chr6B.!!$F1 4269
8 TraesCS3B01G078500 chr5B 63750972 63755173 4201 False 6658 6658 95.291 1 4196 1 chr5B.!!$F1 4195
9 TraesCS3B01G078500 chr1B 533974528 533978883 4355 True 6348 6348 93.011 1 4349 1 chr1B.!!$R1 4348
10 TraesCS3B01G078500 chr2B 673131971 673134172 2201 False 3236 3236 93.111 2452 4671 1 chr2B.!!$F1 2219
11 TraesCS3B01G078500 chr2A 8437513 8438516 1003 False 1262 1262 89.406 3564 4567 1 chr2A.!!$F1 1003
12 TraesCS3B01G078500 chr2A 620266328 620267129 801 True 1022 1022 89.715 3866 4668 1 chr2A.!!$R1 802
13 TraesCS3B01G078500 chr3A 649558439 649559242 803 True 1013 1013 89.532 3866 4668 1 chr3A.!!$R1 802

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
467 468 0.539051 CCATGAGCTTTCCCGAGTCT 59.461 55.000 0.00 0.0 0.00 3.24 F
904 905 0.610687 GTACACTTGCTCTGCCCTCT 59.389 55.000 0.00 0.0 0.00 3.69 F
1707 1709 1.004560 CGCTGAAGCACAGGAGGAA 60.005 57.895 11.72 0.0 45.82 3.36 F
2787 2797 1.469335 TTGGTGAGACCCTGACGACC 61.469 60.000 0.00 0.0 37.50 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1317 1318 1.949257 CTTCGGCGCCTTTTCAGTT 59.051 52.632 26.68 0.00 0.00 3.16 R
2787 2797 2.223537 AACAAGCAAGGGAAAAAGCG 57.776 45.000 0.00 0.00 0.00 4.68 R
3002 3012 3.842925 TTGGTCGGTCAAGGCAGCC 62.843 63.158 1.84 1.84 0.00 4.85 R
4179 5032 0.033991 TCTCACTCGGAGGCTTAGCT 60.034 55.000 10.23 0.00 44.19 3.32 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
335 336 4.645588 TGGGGTTTGTTCAAACGTATCTTT 59.354 37.500 18.08 0.00 33.62 2.52
467 468 0.539051 CCATGAGCTTTCCCGAGTCT 59.461 55.000 0.00 0.00 0.00 3.24
509 510 0.690762 GGTTCTACTGCCAGGTCCAA 59.309 55.000 0.00 0.00 0.00 3.53
904 905 0.610687 GTACACTTGCTCTGCCCTCT 59.389 55.000 0.00 0.00 0.00 3.69
1263 1264 1.865788 CGACCGAACGTGGTAAGGGA 61.866 60.000 0.00 0.00 44.01 4.20
1707 1709 1.004560 CGCTGAAGCACAGGAGGAA 60.005 57.895 11.72 0.00 45.82 3.36
2002 2004 2.492088 CAATGTCCAGGTCAGTCGACTA 59.508 50.000 19.57 4.15 42.21 2.59
2089 2091 2.635915 TGGGTGTGTCGAATAAACTCCT 59.364 45.455 0.00 0.00 0.00 3.69
2201 2203 5.164233 GTCAATCTTTCTGTCAGTCGATCA 58.836 41.667 0.00 0.00 0.00 2.92
2787 2797 1.469335 TTGGTGAGACCCTGACGACC 61.469 60.000 0.00 0.00 37.50 4.79
3002 3012 3.304257 CAGTCGACTGAGAACTGACAAG 58.696 50.000 36.73 7.99 46.59 3.16
3643 3653 3.899734 TGACCTTGATGAATTTGTTGCG 58.100 40.909 0.00 0.00 0.00 4.85
3810 3824 2.742774 ACTTGAATTTGGCGCTTGAAC 58.257 42.857 7.64 0.00 0.00 3.18
3853 3867 2.119457 GTCTTTTGCAGGTTCAAAGCG 58.881 47.619 3.41 0.00 37.27 4.68
3889 3930 2.358003 GAGCGCTTGGACTGCAGT 60.358 61.111 21.88 21.88 0.00 4.40
3934 3975 4.464951 TGCTCTTCACTCGGTAGGATTTTA 59.535 41.667 0.00 0.00 0.00 1.52
3935 3976 5.046878 TGCTCTTCACTCGGTAGGATTTTAA 60.047 40.000 0.00 0.00 0.00 1.52
3950 3991 6.354130 AGGATTTTAATAACTTAGGCGAGCA 58.646 36.000 0.00 0.00 0.00 4.26
3955 3997 0.535335 TAACTTAGGCGAGCACTGGG 59.465 55.000 0.00 0.00 0.00 4.45
3957 3999 4.096003 TTAGGCGAGCACTGGGCC 62.096 66.667 0.00 0.00 46.50 5.80
3977 4019 3.083997 AGCTAAGCCCCCGAGTGG 61.084 66.667 0.00 0.00 0.00 4.00
3981 4023 1.229400 TAAGCCCCCGAGTGGAAGT 60.229 57.895 0.00 0.00 37.49 3.01
4030 4587 4.143333 TTAGGCGAGCACGAGGCC 62.143 66.667 8.01 0.00 46.50 5.19
4118 4971 2.894387 GCTGCAGCTAAGCCTCCG 60.894 66.667 31.33 0.00 38.21 4.63
4119 4972 2.895680 CTGCAGCTAAGCCTCCGA 59.104 61.111 0.00 0.00 0.00 4.55
4120 4973 1.227205 CTGCAGCTAAGCCTCCGAG 60.227 63.158 0.00 0.00 0.00 4.63
4121 4974 1.954362 CTGCAGCTAAGCCTCCGAGT 61.954 60.000 0.00 0.00 0.00 4.18
4122 4975 1.520342 GCAGCTAAGCCTCCGAGTG 60.520 63.158 0.00 0.00 0.00 3.51
4123 4976 1.142748 CAGCTAAGCCTCCGAGTGG 59.857 63.158 0.00 0.00 0.00 4.00
4124 4977 1.000486 AGCTAAGCCTCCGAGTGGA 60.000 57.895 0.00 0.00 43.88 4.02
4125 4978 0.614979 AGCTAAGCCTCCGAGTGGAA 60.615 55.000 0.00 0.00 45.87 3.53
4126 4979 0.179097 GCTAAGCCTCCGAGTGGAAG 60.179 60.000 0.00 0.00 45.87 3.46
4127 4980 0.461961 CTAAGCCTCCGAGTGGAAGG 59.538 60.000 0.00 0.00 45.87 3.46
4129 4982 3.394836 GCCTCCGAGTGGAAGGCT 61.395 66.667 13.91 0.00 46.55 4.58
4130 4983 2.581354 CCTCCGAGTGGAAGGCTG 59.419 66.667 0.00 0.00 45.87 4.85
4131 4984 2.581354 CTCCGAGTGGAAGGCTGG 59.419 66.667 0.00 0.00 45.87 4.85
4132 4985 3.672295 CTCCGAGTGGAAGGCTGGC 62.672 68.421 0.00 0.00 45.87 4.85
4133 4986 3.710722 CCGAGTGGAAGGCTGGCT 61.711 66.667 0.00 0.00 37.49 4.75
4134 4987 2.348998 CGAGTGGAAGGCTGGCTT 59.651 61.111 17.01 17.01 0.00 4.35
4135 4988 1.596934 CGAGTGGAAGGCTGGCTTA 59.403 57.895 17.01 0.00 0.00 3.09
4136 4989 0.741221 CGAGTGGAAGGCTGGCTTAC 60.741 60.000 18.59 18.59 0.00 2.34
4137 4990 0.393132 GAGTGGAAGGCTGGCTTACC 60.393 60.000 21.93 20.07 0.00 2.85
4138 4991 1.133809 AGTGGAAGGCTGGCTTACCA 61.134 55.000 21.93 22.01 46.51 3.25
4139 4992 0.960861 GTGGAAGGCTGGCTTACCAC 60.961 60.000 30.16 30.16 42.67 4.16
4140 4993 1.133809 TGGAAGGCTGGCTTACCACT 61.134 55.000 21.93 0.00 42.67 4.00
4141 4994 0.393132 GGAAGGCTGGCTTACCACTC 60.393 60.000 17.01 3.10 42.67 3.51
4142 4995 0.741221 GAAGGCTGGCTTACCACTCG 60.741 60.000 17.01 0.00 42.67 4.18
4143 4996 2.125106 GGCTGGCTTACCACTCGG 60.125 66.667 0.00 0.00 42.67 4.63
4145 4998 1.610554 GGCTGGCTTACCACTCGGTA 61.611 60.000 0.00 0.00 46.71 4.02
4157 5010 5.687166 ACCACTCGGTAGGATTTTGATAA 57.313 39.130 0.00 0.00 46.71 1.75
4158 5011 5.425630 ACCACTCGGTAGGATTTTGATAAC 58.574 41.667 0.00 0.00 46.71 1.89
4159 5012 5.189145 ACCACTCGGTAGGATTTTGATAACT 59.811 40.000 0.00 0.00 46.71 2.24
4160 5013 6.113411 CCACTCGGTAGGATTTTGATAACTT 58.887 40.000 0.00 0.00 0.00 2.66
4161 5014 7.093201 ACCACTCGGTAGGATTTTGATAACTTA 60.093 37.037 0.00 0.00 46.71 2.24
4162 5015 7.438459 CCACTCGGTAGGATTTTGATAACTTAG 59.562 40.741 0.00 0.00 0.00 2.18
4163 5016 7.438459 CACTCGGTAGGATTTTGATAACTTAGG 59.562 40.741 0.00 0.00 0.00 2.69
4164 5017 6.285990 TCGGTAGGATTTTGATAACTTAGGC 58.714 40.000 0.00 0.00 0.00 3.93
4165 5018 5.176958 CGGTAGGATTTTGATAACTTAGGCG 59.823 44.000 0.00 0.00 0.00 5.52
4166 5019 6.285990 GGTAGGATTTTGATAACTTAGGCGA 58.714 40.000 0.00 0.00 0.00 5.54
4167 5020 6.424207 GGTAGGATTTTGATAACTTAGGCGAG 59.576 42.308 0.00 0.00 0.00 5.03
4168 5021 4.816925 AGGATTTTGATAACTTAGGCGAGC 59.183 41.667 0.00 0.00 0.00 5.03
4169 5022 4.574828 GGATTTTGATAACTTAGGCGAGCA 59.425 41.667 0.00 0.00 0.00 4.26
4170 5023 5.239525 GGATTTTGATAACTTAGGCGAGCAT 59.760 40.000 0.00 0.00 0.00 3.79
4171 5024 5.484173 TTTTGATAACTTAGGCGAGCATG 57.516 39.130 0.00 0.00 0.00 4.06
4172 5025 4.400529 TTGATAACTTAGGCGAGCATGA 57.599 40.909 0.00 0.00 0.00 3.07
4173 5026 3.982475 TGATAACTTAGGCGAGCATGAG 58.018 45.455 0.00 0.05 0.00 2.90
4174 5027 2.890808 TAACTTAGGCGAGCATGAGG 57.109 50.000 0.00 0.00 0.00 3.86
4175 5028 0.462759 AACTTAGGCGAGCATGAGGC 60.463 55.000 0.00 0.00 45.30 4.70
4184 5037 4.230603 GCATGAGGCTGCAGCTAA 57.769 55.556 35.82 22.36 41.87 3.09
4185 5038 2.023318 GCATGAGGCTGCAGCTAAG 58.977 57.895 35.82 21.93 41.87 2.18
4186 5039 2.023318 CATGAGGCTGCAGCTAAGC 58.977 57.895 35.82 20.55 41.70 3.09
4217 5070 1.066587 GGATCGCTCTTCACTCGGG 59.933 63.158 0.00 0.00 0.00 5.14
4305 5158 7.617225 TCTTCACTCGGTAGGATTTTGATAAA 58.383 34.615 0.00 0.00 0.00 1.40
4306 5159 7.548075 TCTTCACTCGGTAGGATTTTGATAAAC 59.452 37.037 0.00 0.00 0.00 2.01
4307 5160 6.942976 TCACTCGGTAGGATTTTGATAAACT 58.057 36.000 0.00 0.00 0.00 2.66
4308 5161 7.391620 TCACTCGGTAGGATTTTGATAAACTT 58.608 34.615 0.00 0.00 0.00 2.66
4309 5162 8.533657 TCACTCGGTAGGATTTTGATAAACTTA 58.466 33.333 0.00 0.00 0.00 2.24
4310 5163 8.818057 CACTCGGTAGGATTTTGATAAACTTAG 58.182 37.037 0.00 0.00 0.00 2.18
4311 5164 7.985752 ACTCGGTAGGATTTTGATAAACTTAGG 59.014 37.037 0.00 0.00 0.00 2.69
4312 5165 6.764560 TCGGTAGGATTTTGATAAACTTAGGC 59.235 38.462 0.00 0.00 0.00 3.93
4313 5166 6.292703 CGGTAGGATTTTGATAAACTTAGGCG 60.293 42.308 0.00 0.00 0.00 5.52
4314 5167 6.764560 GGTAGGATTTTGATAAACTTAGGCGA 59.235 38.462 0.00 0.00 0.00 5.54
4315 5168 6.927294 AGGATTTTGATAAACTTAGGCGAG 57.073 37.500 0.00 0.00 0.00 5.03
4316 5169 5.297029 AGGATTTTGATAAACTTAGGCGAGC 59.703 40.000 0.00 0.00 0.00 5.03
4317 5170 5.065988 GGATTTTGATAAACTTAGGCGAGCA 59.934 40.000 0.00 0.00 0.00 4.26
4318 5171 4.939509 TTTGATAAACTTAGGCGAGCAC 57.060 40.909 0.00 0.00 0.00 4.40
4319 5172 2.536365 TGATAAACTTAGGCGAGCACG 58.464 47.619 0.00 0.00 42.93 5.34
4320 5173 2.164827 TGATAAACTTAGGCGAGCACGA 59.835 45.455 8.01 0.00 42.66 4.35
4321 5174 2.728690 TAAACTTAGGCGAGCACGAA 57.271 45.000 8.01 0.00 42.66 3.85
4322 5175 1.429463 AAACTTAGGCGAGCACGAAG 58.571 50.000 8.01 4.82 42.66 3.79
4323 5176 1.014564 AACTTAGGCGAGCACGAAGC 61.015 55.000 8.01 0.00 46.19 3.86
4373 5226 3.260884 TGCTCTTCACTCGGTAGGATTTT 59.739 43.478 0.00 0.00 0.00 1.82
4374 5227 4.254492 GCTCTTCACTCGGTAGGATTTTT 58.746 43.478 0.00 0.00 0.00 1.94
4375 5228 5.046878 TGCTCTTCACTCGGTAGGATTTTTA 60.047 40.000 0.00 0.00 0.00 1.52
4376 5229 6.049790 GCTCTTCACTCGGTAGGATTTTTAT 58.950 40.000 0.00 0.00 0.00 1.40
4377 5230 7.147794 TGCTCTTCACTCGGTAGGATTTTTATA 60.148 37.037 0.00 0.00 0.00 0.98
4378 5231 7.709613 GCTCTTCACTCGGTAGGATTTTTATAA 59.290 37.037 0.00 0.00 0.00 0.98
4388 5241 7.439056 CGGTAGGATTTTTATAACTTAGGCGAA 59.561 37.037 0.00 0.00 0.00 4.70
4459 5313 5.007682 GGTAGGATTTTCACAACTTAGGCA 58.992 41.667 0.00 0.00 0.00 4.75
4526 5453 6.057321 ACCACTCGGTAGGATTTTGATAAA 57.943 37.500 0.00 0.00 46.71 1.40
4533 5460 7.854337 TCGGTAGGATTTTGATAAACTTAGGT 58.146 34.615 0.00 0.00 0.00 3.08
4540 5467 5.856126 TTTGATAAACTTAGGTGAGCACG 57.144 39.130 0.00 0.00 0.00 5.34
4542 5469 5.142061 TGATAAACTTAGGTGAGCACGAA 57.858 39.130 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 0.613777 GGTCCTTCTCCGTGATGGTT 59.386 55.000 0.00 0.00 39.99 3.67
335 336 2.168947 GGTCTGAGAGCGACACGTA 58.831 57.895 0.00 0.00 33.11 3.57
467 468 2.935740 CGACTGCCAGCCTCTGACA 61.936 63.158 0.00 0.00 32.44 3.58
509 510 4.148825 GACTGCCCTGGCGTCGAT 62.149 66.667 14.22 0.00 45.51 3.59
904 905 6.525578 AATGAATACGACAAGGACTCAGTA 57.474 37.500 0.00 0.00 0.00 2.74
1317 1318 1.949257 CTTCGGCGCCTTTTCAGTT 59.051 52.632 26.68 0.00 0.00 3.16
2002 2004 5.072741 AGCATATCCAACAGAACAAACAGT 58.927 37.500 0.00 0.00 0.00 3.55
2201 2203 3.139077 GGTTTGTGAAATCCAGTCGACT 58.861 45.455 13.58 13.58 0.00 4.18
2787 2797 2.223537 AACAAGCAAGGGAAAAAGCG 57.776 45.000 0.00 0.00 0.00 4.68
3002 3012 3.842925 TTGGTCGGTCAAGGCAGCC 62.843 63.158 1.84 1.84 0.00 4.85
3853 3867 4.625800 CCTAAGCACAGGCACCTC 57.374 61.111 0.00 0.00 44.61 3.85
3889 3930 1.475403 CCTCTCACTCGGAGGCTTAA 58.525 55.000 10.23 0.00 42.95 1.85
3934 3975 2.420129 CCCAGTGCTCGCCTAAGTTATT 60.420 50.000 0.00 0.00 0.00 1.40
3935 3976 1.139058 CCCAGTGCTCGCCTAAGTTAT 59.861 52.381 0.00 0.00 0.00 1.89
3950 3991 4.785453 GCTTAGCTGCGGCCCAGT 62.785 66.667 15.55 0.00 43.71 4.00
3957 3999 4.899239 CTCGGGGGCTTAGCTGCG 62.899 72.222 3.59 0.00 0.00 5.18
4030 4587 2.279120 CTCGGAGGCTTAGCTGCG 60.279 66.667 3.59 7.64 35.78 5.18
4115 4968 3.706373 GCCAGCCTTCCACTCGGA 61.706 66.667 0.00 0.00 40.60 4.55
4116 4969 1.899437 TAAGCCAGCCTTCCACTCGG 61.899 60.000 0.00 0.00 34.95 4.63
4117 4970 0.741221 GTAAGCCAGCCTTCCACTCG 60.741 60.000 0.00 0.00 34.95 4.18
4118 4971 0.393132 GGTAAGCCAGCCTTCCACTC 60.393 60.000 0.00 0.00 34.95 3.51
4119 4972 1.133809 TGGTAAGCCAGCCTTCCACT 61.134 55.000 0.00 0.00 40.46 4.00
4120 4973 1.378762 TGGTAAGCCAGCCTTCCAC 59.621 57.895 0.00 0.00 40.46 4.02
4121 4974 3.914645 TGGTAAGCCAGCCTTCCA 58.085 55.556 0.00 0.00 40.46 3.53
4136 4989 5.671493 AGTTATCAAAATCCTACCGAGTGG 58.329 41.667 0.00 0.00 42.84 4.00
4137 4990 7.438459 CCTAAGTTATCAAAATCCTACCGAGTG 59.562 40.741 0.00 0.00 0.00 3.51
4138 4991 7.498443 CCTAAGTTATCAAAATCCTACCGAGT 58.502 38.462 0.00 0.00 0.00 4.18
4139 4992 6.424207 GCCTAAGTTATCAAAATCCTACCGAG 59.576 42.308 0.00 0.00 0.00 4.63
4140 4993 6.285990 GCCTAAGTTATCAAAATCCTACCGA 58.714 40.000 0.00 0.00 0.00 4.69
4141 4994 5.176958 CGCCTAAGTTATCAAAATCCTACCG 59.823 44.000 0.00 0.00 0.00 4.02
4142 4995 6.285990 TCGCCTAAGTTATCAAAATCCTACC 58.714 40.000 0.00 0.00 0.00 3.18
4143 4996 6.073711 GCTCGCCTAAGTTATCAAAATCCTAC 60.074 42.308 0.00 0.00 0.00 3.18
4144 4997 5.989777 GCTCGCCTAAGTTATCAAAATCCTA 59.010 40.000 0.00 0.00 0.00 2.94
4145 4998 4.816925 GCTCGCCTAAGTTATCAAAATCCT 59.183 41.667 0.00 0.00 0.00 3.24
4146 4999 4.574828 TGCTCGCCTAAGTTATCAAAATCC 59.425 41.667 0.00 0.00 0.00 3.01
4147 5000 5.734855 TGCTCGCCTAAGTTATCAAAATC 57.265 39.130 0.00 0.00 0.00 2.17
4148 5001 5.822519 TCATGCTCGCCTAAGTTATCAAAAT 59.177 36.000 0.00 0.00 0.00 1.82
4149 5002 5.182487 TCATGCTCGCCTAAGTTATCAAAA 58.818 37.500 0.00 0.00 0.00 2.44
4150 5003 4.765273 TCATGCTCGCCTAAGTTATCAAA 58.235 39.130 0.00 0.00 0.00 2.69
4151 5004 4.371786 CTCATGCTCGCCTAAGTTATCAA 58.628 43.478 0.00 0.00 0.00 2.57
4152 5005 3.243873 CCTCATGCTCGCCTAAGTTATCA 60.244 47.826 0.00 0.00 0.00 2.15
4153 5006 3.321497 CCTCATGCTCGCCTAAGTTATC 58.679 50.000 0.00 0.00 0.00 1.75
4154 5007 2.548920 GCCTCATGCTCGCCTAAGTTAT 60.549 50.000 0.00 0.00 36.87 1.89
4155 5008 1.202533 GCCTCATGCTCGCCTAAGTTA 60.203 52.381 0.00 0.00 36.87 2.24
4156 5009 0.462759 GCCTCATGCTCGCCTAAGTT 60.463 55.000 0.00 0.00 36.87 2.66
4157 5010 1.144936 GCCTCATGCTCGCCTAAGT 59.855 57.895 0.00 0.00 36.87 2.24
4158 5011 4.040068 GCCTCATGCTCGCCTAAG 57.960 61.111 0.00 0.00 36.87 2.18
4167 5020 2.023318 CTTAGCTGCAGCCTCATGC 58.977 57.895 34.39 9.63 46.68 4.06
4168 5021 2.023318 GCTTAGCTGCAGCCTCATG 58.977 57.895 34.39 21.14 43.38 3.07
4169 5022 4.555610 GCTTAGCTGCAGCCTCAT 57.444 55.556 34.39 18.95 43.38 2.90
4174 5027 2.894387 CGGAGGCTTAGCTGCAGC 60.894 66.667 31.53 31.53 42.49 5.25
4175 5028 1.227205 CTCGGAGGCTTAGCTGCAG 60.227 63.158 10.11 10.11 34.04 4.41
4176 5029 1.984570 ACTCGGAGGCTTAGCTGCA 60.985 57.895 10.23 0.00 34.04 4.41
4177 5030 1.520342 CACTCGGAGGCTTAGCTGC 60.520 63.158 10.23 0.00 0.00 5.25
4178 5031 0.102120 CTCACTCGGAGGCTTAGCTG 59.898 60.000 10.23 0.00 40.13 4.24
4179 5032 0.033991 TCTCACTCGGAGGCTTAGCT 60.034 55.000 10.23 0.00 44.19 3.32
4180 5033 0.383949 CTCTCACTCGGAGGCTTAGC 59.616 60.000 10.23 0.00 44.19 3.09
4181 5034 1.028905 CCTCTCACTCGGAGGCTTAG 58.971 60.000 10.23 1.80 42.95 2.18
4182 5035 3.192799 CCTCTCACTCGGAGGCTTA 57.807 57.895 10.23 0.00 42.95 3.09
4183 5036 4.026300 CCTCTCACTCGGAGGCTT 57.974 61.111 10.23 0.00 42.95 4.35
4187 5040 0.817634 AGCGATCCTCTCACTCGGAG 60.818 60.000 2.83 2.83 45.49 4.63
4217 5070 4.000988 TCGCCTAAGTTGTGAAAATCCTC 58.999 43.478 0.00 0.00 0.00 3.71
4305 5158 1.446272 GCTTCGTGCTCGCCTAAGT 60.446 57.895 2.69 0.00 38.95 2.24
4306 5159 3.389206 GCTTCGTGCTCGCCTAAG 58.611 61.111 2.69 3.67 38.95 2.18
4323 5176 3.746949 CTCGGGGGCTTAGCTGCAG 62.747 68.421 10.11 10.11 34.04 4.41
4324 5177 3.785859 CTCGGGGGCTTAGCTGCA 61.786 66.667 3.59 0.00 34.04 4.41
4325 5178 3.787001 ACTCGGGGGCTTAGCTGC 61.787 66.667 3.59 0.00 0.00 5.25
4326 5179 2.187946 CACTCGGGGGCTTAGCTG 59.812 66.667 3.59 0.00 0.00 4.24
4327 5180 2.038975 TCACTCGGGGGCTTAGCT 59.961 61.111 3.59 0.00 0.00 3.32
4328 5181 2.022240 CTCTCACTCGGGGGCTTAGC 62.022 65.000 0.00 0.00 0.00 3.09
4329 5182 1.395826 CCTCTCACTCGGGGGCTTAG 61.396 65.000 0.00 0.00 0.00 2.18
4330 5183 1.381327 CCTCTCACTCGGGGGCTTA 60.381 63.158 0.00 0.00 0.00 3.09
4331 5184 2.537714 ATCCTCTCACTCGGGGGCTT 62.538 60.000 0.00 0.00 0.00 4.35
4332 5185 2.537714 AATCCTCTCACTCGGGGGCT 62.538 60.000 0.00 0.00 0.00 5.19
4373 5226 4.158394 ACCTCGTGTTCGCCTAAGTTATAA 59.842 41.667 0.00 0.00 36.96 0.98
4374 5227 3.696051 ACCTCGTGTTCGCCTAAGTTATA 59.304 43.478 0.00 0.00 36.96 0.98
4375 5228 2.494870 ACCTCGTGTTCGCCTAAGTTAT 59.505 45.455 0.00 0.00 36.96 1.89
4376 5229 1.888512 ACCTCGTGTTCGCCTAAGTTA 59.111 47.619 0.00 0.00 36.96 2.24
4377 5230 0.677842 ACCTCGTGTTCGCCTAAGTT 59.322 50.000 0.00 0.00 36.96 2.66
4378 5231 0.243095 GACCTCGTGTTCGCCTAAGT 59.757 55.000 0.00 0.00 36.96 2.24
4459 5313 0.397941 TAGCTGCAGTCCAAGCACTT 59.602 50.000 16.64 0.00 37.02 3.16
4526 5453 3.516578 GCTTCGTGCTCACCTAAGT 57.483 52.632 9.86 0.00 38.95 2.24


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

AutoCloner maintained by Alex Coulton.