Multiple sequence alignment - TraesCS4D01G129300

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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 TraesCS4D01G129300 chr4D 100.000 4420 0 0 1 4420 115049956 115054375 0.000000e+00 8163.0
1 TraesCS4D01G129300 chr4D 100.000 741 0 0 4643 5383 115054598 115055338 0.000000e+00 1369.0
2 TraesCS4D01G129300 chr4A 95.761 4246 140 20 192 4416 462216889 462212663 0.000000e+00 6807.0
3 TraesCS4D01G129300 chr4A 94.058 589 27 6 4801 5383 462212514 462211928 0.000000e+00 887.0
4 TraesCS4D01G129300 chr4A 95.327 107 5 0 2 108 462217413 462217307 2.580000e-38 171.0
5 TraesCS4D01G129300 chr4B 96.005 2303 61 16 192 2477 175539265 175541553 0.000000e+00 3714.0
6 TraesCS4D01G129300 chr4B 94.290 1909 79 13 2460 4362 175541567 175543451 0.000000e+00 2894.0
7 TraesCS4D01G129300 chr4B 96.063 254 8 1 5130 5383 175543984 175544235 3.880000e-111 412.0
8 TraesCS4D01G129300 chr4B 91.837 147 11 1 2 147 175538838 175538984 2.540000e-48 204.0
9 TraesCS4D01G129300 chr4B 77.953 254 50 6 4682 4933 37555812 37555563 2.600000e-33 154.0
10 TraesCS4D01G129300 chr4B 93.333 60 2 2 5014 5071 175543544 175543603 2.670000e-13 87.9
11 TraesCS4D01G129300 chr4B 94.545 55 1 2 4363 4416 175543498 175543551 3.460000e-12 84.2
12 TraesCS4D01G129300 chr2D 80.533 375 60 12 4645 5013 481611073 481610706 5.310000e-70 276.0
13 TraesCS4D01G129300 chr2D 79.921 254 43 5 4682 4932 591946456 591946704 4.280000e-41 180.0
14 TraesCS4D01G129300 chr3D 79.444 360 61 12 4679 5029 6302370 6302725 5.390000e-60 243.0
15 TraesCS4D01G129300 chr3D 78.333 360 66 9 4662 5013 545256734 545256379 7.020000e-54 222.0
16 TraesCS4D01G129300 chr3D 77.083 336 64 10 4682 5014 293807916 293807591 1.190000e-41 182.0
17 TraesCS4D01G129300 chr1D 78.529 340 59 12 4682 5010 33857323 33857659 1.520000e-50 211.0
18 TraesCS4D01G129300 chr2B 81.707 246 37 7 4781 5020 621066036 621066279 1.180000e-46 198.0
19 TraesCS4D01G129300 chr2B 83.654 104 13 4 4869 4969 624888855 624888753 1.600000e-15 95.3
20 TraesCS4D01G129300 chr5A 77.259 343 60 11 4682 5014 447316537 447316203 9.210000e-43 185.0
21 TraesCS4D01G129300 chr7B 75.000 344 66 12 4682 5013 589393385 589393050 2.020000e-29 141.0


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 TraesCS4D01G129300 chr4D 115049956 115055338 5382 False 4766.000000 8163 100.000000 1 5383 2 chr4D.!!$F1 5382
1 TraesCS4D01G129300 chr4A 462211928 462217413 5485 True 2621.666667 6807 95.048667 2 5383 3 chr4A.!!$R1 5381
2 TraesCS4D01G129300 chr4B 175538838 175544235 5397 False 1232.683333 3714 94.345500 2 5383 6 chr4B.!!$F1 5381

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
406 755 3.359950 GGACTTGCCTCCTTCATTTGAT 58.640 45.455 0.00 0.00 0.00 2.57 F
1152 1517 1.686325 GCGAGCTTGATAGGTCCCCA 61.686 60.000 4.70 0.00 44.25 4.96 F
1646 2011 0.179092 CAGACTGCAGCATCGATGGA 60.179 55.000 26.00 2.85 0.00 3.41 F
1886 2251 0.605589 ACTTTCGGACTCTGCTCCAG 59.394 55.000 0.00 0.00 0.00 3.86 F
3539 3944 1.002134 AGCGGCATTACACTGGCTT 60.002 52.632 1.45 0.00 39.42 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1391 1756 0.038159 GATGAGGTCCTTATCGCGGG 60.038 60.000 6.13 0.0 0.00 6.13 R
2871 3274 1.398692 TCCCAAGAACAAGTGCAACC 58.601 50.000 0.00 0.0 37.80 3.77 R
3508 3913 0.541392 TGCCGCTCATCATAACCACT 59.459 50.000 0.00 0.0 0.00 4.00 R
3848 4254 0.392336 GCTTTTGGTGTTCCATGCCA 59.608 50.000 0.00 0.0 43.91 4.92 R
5083 5546 1.137086 GGGAGCATACACATCACGACT 59.863 52.381 0.00 0.0 0.00 4.18 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
84 85 6.622896 GCAGGTACAGTGAACCATTTCAATAC 60.623 42.308 0.00 0.00 43.52 1.89
85 86 5.642063 AGGTACAGTGAACCATTTCAATACG 59.358 40.000 0.00 0.00 43.52 3.06
96 97 6.801575 ACCATTTCAATACGTCTTTTTGTGT 58.198 32.000 0.00 0.00 0.00 3.72
109 110 6.402550 CGTCTTTTTGTGTCATTCCCTATCTG 60.403 42.308 0.00 0.00 0.00 2.90
110 111 5.945784 TCTTTTTGTGTCATTCCCTATCTGG 59.054 40.000 0.00 0.00 0.00 3.86
132 134 4.380531 GGAAGACAACTGAGAACATGTGA 58.619 43.478 0.00 0.00 0.00 3.58
151 153 6.463995 TGTGAAACATAGCCAATATTTCCC 57.536 37.500 0.00 0.00 45.67 3.97
152 154 5.362430 TGTGAAACATAGCCAATATTTCCCC 59.638 40.000 0.00 0.00 45.67 4.81
153 155 4.898861 TGAAACATAGCCAATATTTCCCCC 59.101 41.667 0.00 0.00 0.00 5.40
174 523 4.275689 CCCCCAAACTTTTCAATTTGAAGC 59.724 41.667 11.41 0.00 37.70 3.86
175 524 4.275689 CCCCAAACTTTTCAATTTGAAGCC 59.724 41.667 11.41 0.00 37.70 4.35
177 526 5.532032 CCCAAACTTTTCAATTTGAAGCCAT 59.468 36.000 11.41 0.00 37.70 4.40
178 527 6.709846 CCCAAACTTTTCAATTTGAAGCCATA 59.290 34.615 11.41 0.00 37.70 2.74
179 528 7.391275 CCCAAACTTTTCAATTTGAAGCCATAT 59.609 33.333 11.41 0.00 37.70 1.78
180 529 8.785946 CCAAACTTTTCAATTTGAAGCCATATT 58.214 29.630 11.41 2.69 37.70 1.28
181 530 9.601971 CAAACTTTTCAATTTGAAGCCATATTG 57.398 29.630 11.41 9.69 40.65 1.90
182 531 7.368480 ACTTTTCAATTTGAAGCCATATTGC 57.632 32.000 11.41 0.00 39.77 3.56
183 532 6.372381 ACTTTTCAATTTGAAGCCATATTGCC 59.628 34.615 11.41 0.00 39.77 4.52
184 533 5.417754 TTCAATTTGAAGCCATATTGCCA 57.582 34.783 7.74 0.00 39.77 4.92
185 534 5.417754 TCAATTTGAAGCCATATTGCCAA 57.582 34.783 0.00 0.00 39.77 4.52
186 535 5.421277 TCAATTTGAAGCCATATTGCCAAG 58.579 37.500 0.00 0.00 39.77 3.61
187 536 3.891422 TTTGAAGCCATATTGCCAAGG 57.109 42.857 0.00 0.00 0.00 3.61
406 755 3.359950 GGACTTGCCTCCTTCATTTGAT 58.640 45.455 0.00 0.00 0.00 2.57
1152 1517 1.686325 GCGAGCTTGATAGGTCCCCA 61.686 60.000 4.70 0.00 44.25 4.96
1391 1756 0.249657 GCGGAGATCATCTGGGACAC 60.250 60.000 0.00 0.00 34.56 3.67
1532 1897 1.216178 GTGCTTGCGGAAATGCCAT 59.784 52.632 0.00 0.00 35.94 4.40
1535 1900 0.249031 GCTTGCGGAAATGCCATACC 60.249 55.000 0.00 0.00 35.94 2.73
1547 1912 2.041976 CCATACCGACGAGCTGGAT 58.958 57.895 1.44 0.00 0.00 3.41
1548 1913 0.389391 CCATACCGACGAGCTGGATT 59.611 55.000 1.44 0.00 0.00 3.01
1646 2011 0.179092 CAGACTGCAGCATCGATGGA 60.179 55.000 26.00 2.85 0.00 3.41
1736 2101 2.684881 CAAGTCAGTTCTTGTGGTTGCT 59.315 45.455 0.00 0.00 39.66 3.91
1886 2251 0.605589 ACTTTCGGACTCTGCTCCAG 59.394 55.000 0.00 0.00 0.00 3.86
1975 2340 4.094442 CCTTAACCGCTTAAATCAGGTGAC 59.906 45.833 0.00 0.00 37.03 3.67
2071 2436 7.147312 TGAAATTTGAGTTTCATGCTTACTGG 58.853 34.615 0.00 0.00 41.70 4.00
2184 2549 2.674220 GGAACTAGCAGGGCAGCCT 61.674 63.158 12.43 0.00 34.23 4.58
2255 2620 5.816258 GGATACAACCTAGGTGCTTTAGAAC 59.184 44.000 17.14 1.54 0.00 3.01
2284 2649 7.178274 TGTGCAGGATATTTAGGTGTTTTCATT 59.822 33.333 0.00 0.00 0.00 2.57
2347 2715 6.235231 ACAATACATCCTCAGTACGGAAAT 57.765 37.500 0.00 0.00 33.55 2.17
2561 2963 5.050702 GGCTTCTTGCGAAGTAATAGATGAC 60.051 44.000 3.71 0.00 46.65 3.06
2651 3053 9.607285 CCACTGTTTTAATAAGACAACACATAC 57.393 33.333 0.00 0.00 0.00 2.39
2671 3073 7.173907 CACATACTGTTTCCAGAGAAAACAGAT 59.826 37.037 26.62 16.23 43.48 2.90
2683 3085 8.759641 CCAGAGAAAACAGATATGAAGTAATCG 58.240 37.037 0.00 0.00 0.00 3.34
2722 3125 7.437862 TGTGGTTTAATCTTTTGCTCATGTTTC 59.562 33.333 0.00 0.00 0.00 2.78
2737 3140 6.531948 GCTCATGTTTCTATTTCGTACAGACT 59.468 38.462 0.00 0.00 0.00 3.24
2742 3145 5.481200 TTCTATTTCGTACAGACTCCGAG 57.519 43.478 0.00 0.00 31.54 4.63
2961 3364 3.891977 TGATCTAGACACCTATGGCAGTC 59.108 47.826 0.00 0.00 35.60 3.51
3132 3537 5.124617 TGTCATACAGCGCCAATTTATTTCA 59.875 36.000 2.29 0.00 0.00 2.69
3189 3594 2.703007 ACACTTTCAGGCTCAGAAGACT 59.297 45.455 7.73 0.00 43.85 3.24
3396 3801 2.045536 GGTCCAAGAGGCTGCTGG 60.046 66.667 0.00 0.00 33.74 4.85
3508 3913 8.410141 CAAAAGGTTAGACCATTTACAGTTTCA 58.590 33.333 0.00 0.00 37.09 2.69
3535 3940 1.655484 TGATGAGCGGCATTACACTG 58.345 50.000 1.45 0.00 37.34 3.66
3539 3944 1.002134 AGCGGCATTACACTGGCTT 60.002 52.632 1.45 0.00 39.42 4.35
3610 4015 5.817816 AGATGAATTCATTACGAAGACACCC 59.182 40.000 21.57 4.82 36.95 4.61
3694 4099 3.557185 TGTTAAAGCTATCTCATGCGCAG 59.443 43.478 18.32 8.46 0.00 5.18
3718 4124 1.279271 GGCTGGCACCTTTCTCTAAGA 59.721 52.381 0.00 0.00 35.80 2.10
3848 4254 1.073923 GTTCAGTCTGGTTGGATGGGT 59.926 52.381 0.00 0.00 0.00 4.51
3876 4282 4.097286 TGGAACACCAAAAGCTAAAGACAC 59.903 41.667 0.00 0.00 0.00 3.67
4221 4627 7.973048 TGTACAGAGGTAATTAACATCTCCT 57.027 36.000 2.78 0.00 45.96 3.69
4222 4628 7.782049 TGTACAGAGGTAATTAACATCTCCTG 58.218 38.462 2.78 4.70 45.96 3.86
4398 4855 9.748708 CATAAGTTTCCAAAAGAAGATTTGTCA 57.251 29.630 0.00 0.00 38.37 3.58
4680 5137 6.561737 TTTTAAAAATGCCGGGGAAAATTC 57.438 33.333 2.18 0.00 0.00 2.17
4712 5171 4.961730 TGGGATTTTGGGATATCAAACTGG 59.038 41.667 4.83 0.00 36.49 4.00
4725 5184 7.038799 GGATATCAAACTGGATGCCCAATAAAT 60.039 37.037 4.83 0.00 42.98 1.40
4729 5188 3.308401 ACTGGATGCCCAATAAATTCCC 58.692 45.455 0.00 0.00 42.98 3.97
4731 5190 2.316108 GGATGCCCAATAAATTCCCGT 58.684 47.619 0.00 0.00 0.00 5.28
4734 5193 3.367646 TGCCCAATAAATTCCCGTGTA 57.632 42.857 0.00 0.00 0.00 2.90
4740 5199 6.693466 CCCAATAAATTCCCGTGTAAAGTTT 58.307 36.000 0.00 0.00 0.00 2.66
4744 5203 9.124807 CAATAAATTCCCGTGTAAAGTTTCTTC 57.875 33.333 0.00 0.00 0.00 2.87
4773 5232 8.814038 AAAATAGCAGGAAATGTATTCTCAGT 57.186 30.769 0.00 0.00 0.00 3.41
4839 5298 5.279708 GGATGGATCATAGGTTGGACTGTAG 60.280 48.000 0.00 0.00 0.00 2.74
4863 5322 4.471904 TCTTCGCCACAGATACATTTCT 57.528 40.909 0.00 0.00 0.00 2.52
5059 5521 9.709495 ATTGTTTCAACAGTATTATTTGTGCAT 57.291 25.926 0.00 0.00 40.50 3.96
5060 5522 8.518151 TGTTTCAACAGTATTATTTGTGCATG 57.482 30.769 0.00 0.00 34.30 4.06
5062 5524 7.459795 TTCAACAGTATTATTTGTGCATGGA 57.540 32.000 0.00 0.00 0.00 3.41
5064 5526 7.890515 TCAACAGTATTATTTGTGCATGGAAA 58.109 30.769 0.00 0.00 0.00 3.13
5106 5569 2.170397 TCGTGATGTGTATGCTCCCAAT 59.830 45.455 0.00 0.00 0.00 3.16
5110 5573 3.455543 TGATGTGTATGCTCCCAATCTCA 59.544 43.478 0.00 0.00 0.00 3.27
5125 5588 4.637534 CCAATCTCAGTGGTTATCAACTGG 59.362 45.833 8.22 0.95 0.00 4.00
5141 5604 3.458044 ACTGGTGACTGGTGAGAGATA 57.542 47.619 0.00 0.00 0.00 1.98
5150 5613 2.755655 CTGGTGAGAGATAACGTGGACT 59.244 50.000 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.389374 TCACTGTGAGGATTTCCAGTTTC 58.611 43.478 6.36 0.00 36.08 2.78
12 13 2.286872 GAGCCATCATTCACTGTGAGG 58.713 52.381 10.77 9.37 0.00 3.86
84 85 5.643777 AGATAGGGAATGACACAAAAAGACG 59.356 40.000 0.00 0.00 0.00 4.18
85 86 6.127897 CCAGATAGGGAATGACACAAAAAGAC 60.128 42.308 0.00 0.00 0.00 3.01
109 110 3.499918 CACATGTTCTCAGTTGTCTTCCC 59.500 47.826 0.00 0.00 0.00 3.97
110 111 4.380531 TCACATGTTCTCAGTTGTCTTCC 58.619 43.478 0.00 0.00 0.00 3.46
151 153 4.275689 GCTTCAAATTGAAAAGTTTGGGGG 59.724 41.667 9.85 0.00 35.73 5.40
152 154 4.275689 GGCTTCAAATTGAAAAGTTTGGGG 59.724 41.667 9.85 0.00 35.73 4.96
153 155 4.880696 TGGCTTCAAATTGAAAAGTTTGGG 59.119 37.500 9.85 0.00 35.73 4.12
155 504 9.601971 CAATATGGCTTCAAATTGAAAAGTTTG 57.398 29.630 9.85 5.85 35.73 2.93
168 517 1.481772 GCCTTGGCAATATGGCTTCAA 59.518 47.619 18.69 0.00 44.10 2.69
173 522 1.207811 ACAAAGCCTTGGCAATATGGC 59.792 47.619 18.41 18.41 45.21 4.40
174 523 2.234414 ACACAAAGCCTTGGCAATATGG 59.766 45.455 14.54 0.00 36.82 2.74
175 524 3.598019 ACACAAAGCCTTGGCAATATG 57.402 42.857 14.54 9.01 36.82 1.78
177 526 4.141846 TGAAAACACAAAGCCTTGGCAATA 60.142 37.500 14.54 0.00 36.82 1.90
178 527 3.205338 GAAAACACAAAGCCTTGGCAAT 58.795 40.909 14.54 0.00 36.82 3.56
179 528 2.027745 TGAAAACACAAAGCCTTGGCAA 60.028 40.909 14.54 0.00 36.82 4.52
180 529 1.552337 TGAAAACACAAAGCCTTGGCA 59.448 42.857 14.54 0.00 36.82 4.92
181 530 1.933181 GTGAAAACACAAAGCCTTGGC 59.067 47.619 2.97 2.97 36.82 4.52
182 531 3.525268 AGTGAAAACACAAAGCCTTGG 57.475 42.857 0.00 0.00 36.82 3.61
183 532 4.928615 TGAAAGTGAAAACACAAAGCCTTG 59.071 37.500 0.00 0.00 38.61 3.61
184 533 5.047377 TCTGAAAGTGAAAACACAAAGCCTT 60.047 36.000 0.00 0.00 33.76 4.35
185 534 4.462483 TCTGAAAGTGAAAACACAAAGCCT 59.538 37.500 0.00 0.00 33.76 4.58
186 535 4.743493 TCTGAAAGTGAAAACACAAAGCC 58.257 39.130 0.00 0.00 33.76 4.35
187 536 6.892310 AATCTGAAAGTGAAAACACAAAGC 57.108 33.333 0.00 0.00 33.76 3.51
246 595 1.985473 ATGTCACAGTGCCACAACAT 58.015 45.000 0.00 0.00 0.00 2.71
887 1240 8.361139 CCTTCCATTCAAGAAGACGTATAGTAT 58.639 37.037 2.16 0.00 42.80 2.12
1391 1756 0.038159 GATGAGGTCCTTATCGCGGG 60.038 60.000 6.13 0.00 0.00 6.13
1532 1897 2.289195 ACAAAAATCCAGCTCGTCGGTA 60.289 45.455 0.00 0.00 0.00 4.02
1535 1900 2.969443 AACAAAAATCCAGCTCGTCG 57.031 45.000 0.00 0.00 0.00 5.12
1547 1912 1.494960 AGAGCCCCTGCAAACAAAAA 58.505 45.000 0.00 0.00 41.13 1.94
1548 1913 1.138661 CAAGAGCCCCTGCAAACAAAA 59.861 47.619 0.00 0.00 41.13 2.44
1736 2101 2.031245 CGCTTGGTTAACTGCATTGTGA 60.031 45.455 5.42 0.00 0.00 3.58
1798 2163 7.040686 ACGCCCTAATCATTATAACATCCAAAC 60.041 37.037 0.00 0.00 0.00 2.93
1815 2180 2.151202 CAACTGTGAACACGCCCTAAT 58.849 47.619 0.57 0.00 0.00 1.73
1886 2251 1.374758 ACTAGCGCCACAGTTGCTC 60.375 57.895 2.29 0.00 40.06 4.26
1934 2299 3.357079 CACACACTTGGAGGGCGC 61.357 66.667 0.00 0.00 0.00 6.53
1975 2340 7.915397 AGTTCAGTTATGCAAACAAAGTTACAG 59.085 33.333 12.28 0.00 0.00 2.74
2051 2416 5.827797 ACTTCCAGTAAGCATGAAACTCAAA 59.172 36.000 0.00 0.00 38.93 2.69
2071 2436 9.309516 TCATATTAATAGTGTGTTTCGGACTTC 57.690 33.333 1.02 0.00 0.00 3.01
2227 2592 1.684983 GCACCTAGGTTGTATCCGCTA 59.315 52.381 13.15 0.00 0.00 4.26
2255 2620 6.455360 AACACCTAAATATCCTGCACATTG 57.545 37.500 0.00 0.00 0.00 2.82
2466 2868 8.486210 TGGTATTGAGACAGATAAGTAATGCTT 58.514 33.333 0.00 0.00 41.05 3.91
2573 2975 9.415008 AGTACTAGAAACTGACATGACAGATAT 57.585 33.333 28.00 16.63 40.63 1.63
2577 2979 9.295214 CATAAGTACTAGAAACTGACATGACAG 57.705 37.037 21.25 21.25 42.78 3.51
2596 2998 3.544684 CCACCATGCTTGCTCATAAGTA 58.455 45.455 0.00 0.00 0.00 2.24
2722 3125 3.312973 AGCTCGGAGTCTGTACGAAATAG 59.687 47.826 6.90 0.00 36.08 1.73
2737 3140 1.683917 GCAGAAATAGGAGAGCTCGGA 59.316 52.381 8.37 0.00 0.00 4.55
2742 3145 2.604046 TTCGGCAGAAATAGGAGAGC 57.396 50.000 0.00 0.00 32.65 4.09
2871 3274 1.398692 TCCCAAGAACAAGTGCAACC 58.601 50.000 0.00 0.00 37.80 3.77
2898 3301 7.637511 AGAAAATAAGATCCTGGTGTCTTCAT 58.362 34.615 16.41 7.74 36.23 2.57
3119 3524 8.655970 GTTGTACTGGAAATGAAATAAATTGGC 58.344 33.333 0.00 0.00 0.00 4.52
3132 3537 4.911390 AGCTTAGCTGTTGTACTGGAAAT 58.089 39.130 5.70 0.00 37.57 2.17
3189 3594 2.103373 AGATCTAGAAGCAGTTCCGCA 58.897 47.619 0.00 0.00 32.48 5.69
3347 3752 1.494824 CATGAGATCAGATCGCGCAA 58.505 50.000 8.75 0.00 31.20 4.85
3396 3801 1.532868 CACAGTCAGCACCTAAGCAAC 59.467 52.381 0.00 0.00 36.85 4.17
3508 3913 0.541392 TGCCGCTCATCATAACCACT 59.459 50.000 0.00 0.00 0.00 4.00
3535 3940 4.336889 AAAAGGCCTTCAAAGTAAAGCC 57.663 40.909 20.79 0.00 0.00 4.35
3539 3944 8.113462 AGGACATATAAAAGGCCTTCAAAGTAA 58.887 33.333 20.79 1.25 0.00 2.24
3694 4099 0.813821 GAGAAAGGTGCCAGCCAATC 59.186 55.000 0.00 0.00 0.00 2.67
3718 4124 7.668492 AGTTTCCGAGTAACAGTCTAATTTCT 58.332 34.615 0.00 0.00 0.00 2.52
3848 4254 0.392336 GCTTTTGGTGTTCCATGCCA 59.608 50.000 0.00 0.00 43.91 4.92
3876 4282 0.902048 TCCTCTGACTGAGCCCACAG 60.902 60.000 3.89 0.00 41.35 3.66
4103 4509 2.666022 CGTGTAATTCGTGCATCTGACA 59.334 45.455 0.00 0.00 0.00 3.58
4659 5116 5.228945 TGAATTTTCCCCGGCATTTTTAA 57.771 34.783 0.00 0.00 0.00 1.52
4660 5117 4.891992 TGAATTTTCCCCGGCATTTTTA 57.108 36.364 0.00 0.00 0.00 1.52
4700 5159 6.899393 TTATTGGGCATCCAGTTTGATATC 57.101 37.500 0.00 0.00 45.04 1.63
4712 5171 2.693074 ACACGGGAATTTATTGGGCATC 59.307 45.455 0.00 0.00 0.00 3.91
4725 5184 6.512342 TTTTGAAGAAACTTTACACGGGAA 57.488 33.333 0.00 0.00 0.00 3.97
4839 5298 4.946784 AATGTATCTGTGGCGAAGAAAC 57.053 40.909 0.00 0.00 0.00 2.78
5064 5526 9.516546 TCACGACTGGAGTATATCTATACAAAT 57.483 33.333 9.42 0.00 40.70 2.32
5079 5541 2.159184 AGCATACACATCACGACTGGAG 60.159 50.000 0.00 0.00 0.00 3.86
5083 5546 1.137086 GGGAGCATACACATCACGACT 59.863 52.381 0.00 0.00 0.00 4.18
5086 5549 2.022764 TTGGGAGCATACACATCACG 57.977 50.000 0.00 0.00 0.00 4.35
5106 5569 3.901222 TCACCAGTTGATAACCACTGAGA 59.099 43.478 5.86 1.74 32.38 3.27
5110 5573 3.244561 CCAGTCACCAGTTGATAACCACT 60.245 47.826 0.00 0.00 36.32 4.00
5125 5588 3.502920 CACGTTATCTCTCACCAGTCAC 58.497 50.000 0.00 0.00 0.00 3.67
5141 5604 1.400494 GCTTTTGTCACAGTCCACGTT 59.600 47.619 0.00 0.00 0.00 3.99
5150 5613 1.435515 GCCAACCGCTTTTGTCACA 59.564 52.632 0.00 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.