Multiple sequence alignment - TraesCS7B01G287200

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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 TraesCS7B01G287200 chr7B 100.000 2396 0 0 1 2396 522815397 522813002 0.000000e+00 4425
1 TraesCS7B01G287200 chr7A 86.493 2532 146 87 1 2396 560882862 560880391 0.000000e+00 2601
2 TraesCS7B01G287200 chr7D 89.952 2070 75 52 404 2396 494970474 494968461 0.000000e+00 2547
3 TraesCS7B01G287200 chr7D 87.200 375 22 13 1 372 494970829 494970478 1.030000e-108 403


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 TraesCS7B01G287200 chr7B 522813002 522815397 2395 True 4425 4425 100.000 1 2396 1 chr7B.!!$R1 2395
1 TraesCS7B01G287200 chr7A 560880391 560882862 2471 True 2601 2601 86.493 1 2396 1 chr7A.!!$R1 2395
2 TraesCS7B01G287200 chr7D 494968461 494970829 2368 True 1475 2547 88.576 1 2396 2 chr7D.!!$R1 2395

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
108 110 0.106469 TGTTTAGTGCCCACCAAGCA 60.106 50.0 0.0 0.0 38.08 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1493 1624 0.543277 ATCATCACATGCCTGACCGT 59.457 50.0 0.0 0.0 0.0 4.83 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
23 24 6.849588 TTTAGAACGGAGGAAAAAGTACAC 57.150 37.500 0.00 0.00 0.00 2.90
24 25 3.387397 AGAACGGAGGAAAAAGTACACG 58.613 45.455 0.00 0.00 0.00 4.49
41 43 2.222863 ACACGTGTTTTTGTCGCACTAC 60.223 45.455 17.22 0.00 0.00 2.73
45 47 3.301707 CGTGTTTTTGTCGCACTACGTAA 60.302 43.478 0.00 0.00 44.19 3.18
108 110 0.106469 TGTTTAGTGCCCACCAAGCA 60.106 50.000 0.00 0.00 38.08 3.91
109 111 1.036707 GTTTAGTGCCCACCAAGCAA 58.963 50.000 0.00 0.00 43.02 3.91
110 112 1.000274 GTTTAGTGCCCACCAAGCAAG 60.000 52.381 0.00 0.00 43.02 4.01
111 113 1.178534 TTAGTGCCCACCAAGCAAGC 61.179 55.000 0.00 0.00 43.02 4.01
112 114 2.067932 TAGTGCCCACCAAGCAAGCT 62.068 55.000 0.00 0.00 43.02 3.74
113 115 2.598394 TGCCCACCAAGCAAGCTC 60.598 61.111 0.00 0.00 37.28 4.09
114 116 2.282745 GCCCACCAAGCAAGCTCT 60.283 61.111 0.00 0.00 0.00 4.09
115 117 1.002134 GCCCACCAAGCAAGCTCTA 60.002 57.895 0.00 0.00 0.00 2.43
116 118 1.028868 GCCCACCAAGCAAGCTCTAG 61.029 60.000 0.00 0.00 0.00 2.43
136 138 1.253100 CTAGCCTCTACCCTAGCAGC 58.747 60.000 0.00 0.00 0.00 5.25
137 139 0.556258 TAGCCTCTACCCTAGCAGCA 59.444 55.000 0.00 0.00 0.00 4.41
138 140 0.758685 AGCCTCTACCCTAGCAGCAG 60.759 60.000 0.00 0.00 0.00 4.24
139 141 1.745264 CCTCTACCCTAGCAGCAGC 59.255 63.158 0.00 0.00 42.56 5.25
194 196 0.457166 TATGCGACACACGGCACTAC 60.457 55.000 0.00 0.00 42.83 2.73
206 208 1.781786 GGCACTACAGATCCCTCTCA 58.218 55.000 0.00 0.00 0.00 3.27
208 210 1.066303 GCACTACAGATCCCTCTCACG 59.934 57.143 0.00 0.00 0.00 4.35
279 281 3.709587 ACACACACAGTAGCCTACCTAT 58.290 45.455 0.00 0.00 0.00 2.57
280 282 4.863548 ACACACACAGTAGCCTACCTATA 58.136 43.478 0.00 0.00 0.00 1.31
281 283 4.643784 ACACACACAGTAGCCTACCTATAC 59.356 45.833 0.00 0.00 0.00 1.47
282 284 4.037684 CACACACAGTAGCCTACCTATACC 59.962 50.000 0.00 0.00 0.00 2.73
283 285 3.573110 CACACAGTAGCCTACCTATACCC 59.427 52.174 0.00 0.00 0.00 3.69
284 286 3.466344 ACACAGTAGCCTACCTATACCCT 59.534 47.826 0.00 0.00 0.00 4.34
285 287 3.827302 CACAGTAGCCTACCTATACCCTG 59.173 52.174 0.00 0.00 0.00 4.45
286 288 3.181420 ACAGTAGCCTACCTATACCCTGG 60.181 52.174 0.00 0.00 0.00 4.45
287 289 2.382649 AGTAGCCTACCTATACCCTGGG 59.617 54.545 12.28 12.28 0.00 4.45
292 294 0.946522 TACCTATACCCTGGGCCTGT 59.053 55.000 14.08 5.95 0.00 4.00
315 322 0.473501 GATCAGATGCCCCTCTCCCT 60.474 60.000 0.00 0.00 0.00 4.20
318 325 1.083706 AGATGCCCCTCTCCCTGTT 59.916 57.895 0.00 0.00 0.00 3.16
320 327 0.394899 GATGCCCCTCTCCCTGTTTG 60.395 60.000 0.00 0.00 0.00 2.93
321 328 1.142688 ATGCCCCTCTCCCTGTTTGT 61.143 55.000 0.00 0.00 0.00 2.83
323 330 0.919710 GCCCCTCTCCCTGTTTGTAT 59.080 55.000 0.00 0.00 0.00 2.29
324 331 1.285078 GCCCCTCTCCCTGTTTGTATT 59.715 52.381 0.00 0.00 0.00 1.89
325 332 2.684038 GCCCCTCTCCCTGTTTGTATTC 60.684 54.545 0.00 0.00 0.00 1.75
326 333 2.576191 CCCCTCTCCCTGTTTGTATTCA 59.424 50.000 0.00 0.00 0.00 2.57
327 334 3.010138 CCCCTCTCCCTGTTTGTATTCAA 59.990 47.826 0.00 0.00 0.00 2.69
328 335 4.508405 CCCCTCTCCCTGTTTGTATTCAAA 60.508 45.833 0.00 0.00 40.64 2.69
329 336 5.076873 CCCTCTCCCTGTTTGTATTCAAAA 58.923 41.667 0.00 0.00 43.78 2.44
330 337 5.183904 CCCTCTCCCTGTTTGTATTCAAAAG 59.816 44.000 0.00 0.86 43.78 2.27
331 338 6.003950 CCTCTCCCTGTTTGTATTCAAAAGA 58.996 40.000 0.00 0.00 43.78 2.52
475 506 2.431057 GCGAGATAAGGTTTCAGAGGGA 59.569 50.000 0.00 0.00 0.00 4.20
533 564 4.007659 AGATCGGCGTAAAACAGGAAAAT 58.992 39.130 6.85 0.00 0.00 1.82
534 565 5.180271 AGATCGGCGTAAAACAGGAAAATA 58.820 37.500 6.85 0.00 0.00 1.40
537 568 5.451039 TCGGCGTAAAACAGGAAAATAAAC 58.549 37.500 6.85 0.00 0.00 2.01
538 569 5.008415 TCGGCGTAAAACAGGAAAATAAACA 59.992 36.000 6.85 0.00 0.00 2.83
539 570 5.859648 CGGCGTAAAACAGGAAAATAAACAT 59.140 36.000 0.00 0.00 0.00 2.71
559 604 6.202516 ACATAACAATAAACGTGGGGATTG 57.797 37.500 0.00 0.00 35.77 2.67
631 706 4.825085 TGGCCAAAGATTTTCGATATACCC 59.175 41.667 0.61 0.00 0.00 3.69
649 724 1.375551 CCGGTGGAAAGATAAACGGG 58.624 55.000 0.00 0.00 36.45 5.28
657 732 4.161942 TGGAAAGATAAACGGGAATACGGA 59.838 41.667 0.00 0.00 38.39 4.69
658 733 5.163280 TGGAAAGATAAACGGGAATACGGAT 60.163 40.000 0.00 0.00 38.39 4.18
852 944 0.252742 ACCACCAACCCTAGCTAGCT 60.253 55.000 23.12 23.12 0.00 3.32
865 957 0.596341 GCTAGCTAGCCAGTCGAAGC 60.596 60.000 31.67 8.27 43.39 3.86
867 959 0.683179 TAGCTAGCCAGTCGAAGCCA 60.683 55.000 12.13 0.00 35.54 4.75
945 1050 2.202401 GTCGCCGTCGTGGTCTAC 60.202 66.667 0.00 0.00 41.21 2.59
946 1051 2.359107 TCGCCGTCGTGGTCTACT 60.359 61.111 0.00 0.00 41.21 2.57
950 1056 1.651240 GCCGTCGTGGTCTACTAGCA 61.651 60.000 0.00 0.00 41.21 3.49
1282 1391 1.450134 GTGCAGGCCATCATCGACA 60.450 57.895 5.01 0.00 0.00 4.35
1288 1397 1.144716 GCCATCATCGACAGCCAGA 59.855 57.895 0.00 0.00 0.00 3.86
1493 1624 9.344772 TGCTTTGTTAATTAGAGTTGGTTTAGA 57.655 29.630 0.00 0.00 0.00 2.10
1502 1633 1.154197 GTTGGTTTAGACGGTCAGGC 58.846 55.000 11.27 0.00 0.00 4.85
1549 1681 2.028020 GGGTTGAGTGCTAGCTAGTGTT 60.028 50.000 21.62 7.58 0.00 3.32
1550 1682 3.254892 GGTTGAGTGCTAGCTAGTGTTC 58.745 50.000 21.62 15.62 0.00 3.18
1551 1683 2.917971 GTTGAGTGCTAGCTAGTGTTCG 59.082 50.000 21.62 0.00 0.00 3.95
1552 1684 1.472878 TGAGTGCTAGCTAGTGTTCGG 59.527 52.381 21.62 0.00 0.00 4.30
1554 1686 0.531200 GTGCTAGCTAGTGTTCGGGT 59.469 55.000 21.62 0.00 0.00 5.28
1555 1687 0.815734 TGCTAGCTAGTGTTCGGGTC 59.184 55.000 21.62 2.71 0.00 4.46
1562 1700 4.309950 GTGTTCGGGTCTGCGGGT 62.310 66.667 0.00 0.00 0.00 5.28
1580 1718 2.698274 GGGTGTGTTGGAACTTGGAAAT 59.302 45.455 0.00 0.00 0.00 2.17
1660 1808 7.615582 TGAAAATCGAAGATATTTCAGTGCT 57.384 32.000 0.00 0.00 45.12 4.40
1696 1844 4.597507 ACCAGATGTTCTCTTGTCCCTTTA 59.402 41.667 0.00 0.00 29.16 1.85
1701 1849 6.937465 AGATGTTCTCTTGTCCCTTTACTTTC 59.063 38.462 0.00 0.00 0.00 2.62
1702 1850 5.054477 TGTTCTCTTGTCCCTTTACTTTCG 58.946 41.667 0.00 0.00 0.00 3.46
1788 1936 2.967745 TGGGGTGTTGTTCATCATGA 57.032 45.000 0.00 0.00 0.00 3.07
1839 1994 9.267084 GGCCAAAGAATTAATGAACAAACTTTA 57.733 29.630 0.00 0.00 0.00 1.85
1864 2019 4.675114 CACAACATTAAGTGGTTTCGAAGC 59.325 41.667 3.02 3.02 29.67 3.86
1870 2025 2.806608 AGTGGTTTCGAAGCGAGTAA 57.193 45.000 5.89 0.00 37.14 2.24
1876 2031 2.342910 TTCGAAGCGAGTAACTCCAC 57.657 50.000 0.00 0.00 37.14 4.02
1877 2032 1.241165 TCGAAGCGAGTAACTCCACA 58.759 50.000 0.00 0.00 0.00 4.17
1893 2048 9.048446 GTAACTCCACAAGTTTAGACACAATTA 57.952 33.333 0.00 0.00 46.26 1.40
1894 2049 8.514330 AACTCCACAAGTTTAGACACAATTAA 57.486 30.769 0.00 0.00 46.26 1.40
1895 2050 7.927048 ACTCCACAAGTTTAGACACAATTAAC 58.073 34.615 0.00 0.00 33.03 2.01
1896 2051 7.773690 ACTCCACAAGTTTAGACACAATTAACT 59.226 33.333 0.00 0.00 33.03 2.24
1897 2052 9.268268 CTCCACAAGTTTAGACACAATTAACTA 57.732 33.333 0.00 0.00 0.00 2.24
1898 2053 9.787435 TCCACAAGTTTAGACACAATTAACTAT 57.213 29.630 0.00 0.00 0.00 2.12
1904 2059 9.601217 AGTTTAGACACAATTAACTATAGCTGG 57.399 33.333 0.00 0.00 0.00 4.85
1905 2060 8.827677 GTTTAGACACAATTAACTATAGCTGGG 58.172 37.037 0.00 0.00 0.00 4.45
1906 2061 6.808321 AGACACAATTAACTATAGCTGGGA 57.192 37.500 0.00 0.00 0.00 4.37
1907 2062 7.380423 AGACACAATTAACTATAGCTGGGAT 57.620 36.000 0.00 0.00 0.00 3.85
1908 2063 7.220030 AGACACAATTAACTATAGCTGGGATG 58.780 38.462 0.00 0.00 0.00 3.51
1909 2064 7.071196 AGACACAATTAACTATAGCTGGGATGA 59.929 37.037 0.00 0.00 0.00 2.92
1910 2065 7.573710 ACACAATTAACTATAGCTGGGATGAA 58.426 34.615 0.00 0.00 0.00 2.57
1911 2066 8.052748 ACACAATTAACTATAGCTGGGATGAAA 58.947 33.333 0.00 0.00 0.00 2.69
1912 2067 8.902806 CACAATTAACTATAGCTGGGATGAAAA 58.097 33.333 0.00 0.00 0.00 2.29
1913 2068 9.474313 ACAATTAACTATAGCTGGGATGAAAAA 57.526 29.630 0.00 0.00 0.00 1.94
1977 2138 3.802866 AGCTAGCTTGCAAAGGATCTAC 58.197 45.455 22.05 0.00 46.35 2.59
1980 2141 5.129485 AGCTAGCTTGCAAAGGATCTACTTA 59.871 40.000 22.05 0.00 46.35 2.24
1981 2142 5.994668 GCTAGCTTGCAAAGGATCTACTTAT 59.005 40.000 15.53 0.00 46.35 1.73
2006 2188 8.603898 TTTTCTTTCTTTCTTTTAGGGACCTT 57.396 30.769 0.00 0.00 0.00 3.50
2100 2282 4.019174 CCAATCAAGCAAGGGATTAGTGT 58.981 43.478 0.00 0.00 32.71 3.55
2101 2283 5.192927 CCAATCAAGCAAGGGATTAGTGTA 58.807 41.667 0.00 0.00 32.71 2.90
2102 2284 5.297776 CCAATCAAGCAAGGGATTAGTGTAG 59.702 44.000 0.00 0.00 32.71 2.74
2103 2285 3.873910 TCAAGCAAGGGATTAGTGTAGC 58.126 45.455 0.00 0.00 0.00 3.58
2104 2286 3.519510 TCAAGCAAGGGATTAGTGTAGCT 59.480 43.478 0.00 0.00 0.00 3.32
2105 2287 3.550437 AGCAAGGGATTAGTGTAGCTG 57.450 47.619 0.00 0.00 0.00 4.24
2108 2290 3.181465 GCAAGGGATTAGTGTAGCTGCTA 60.181 47.826 5.02 5.02 0.00 3.49
2110 2292 2.630580 AGGGATTAGTGTAGCTGCTAGC 59.369 50.000 10.13 8.10 42.84 3.42
2176 2367 7.179966 TCTCCTACTCCACTACTAATCAACAA 58.820 38.462 0.00 0.00 0.00 2.83
2305 2496 5.946942 AGCTGATGTCTATCTGAAAGGAA 57.053 39.130 0.00 0.00 35.06 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 2.415857 TGCGACAAAAACACGTGTACTT 59.584 40.909 23.69 15.49 0.00 2.24
21 22 2.359598 GTAGTGCGACAAAAACACGTG 58.640 47.619 15.48 15.48 39.31 4.49
22 23 1.005766 CGTAGTGCGACAAAAACACGT 60.006 47.619 0.00 0.00 44.77 4.49
23 24 1.005766 ACGTAGTGCGACAAAAACACG 60.006 47.619 7.88 0.00 42.51 4.49
24 25 2.724744 ACGTAGTGCGACAAAAACAC 57.275 45.000 7.88 0.00 42.51 3.32
41 43 6.183360 GGTGAACAACTGTATACACCATTACG 60.183 42.308 19.51 0.00 41.64 3.18
45 47 4.250464 CGGTGAACAACTGTATACACCAT 58.750 43.478 21.90 0.00 41.86 3.55
110 112 1.074889 AGGGTAGAGGCTAGCTAGAGC 59.925 57.143 25.15 12.71 42.05 4.09
111 113 3.621461 GCTAGGGTAGAGGCTAGCTAGAG 60.621 56.522 25.15 9.40 40.91 2.43
112 114 2.306512 GCTAGGGTAGAGGCTAGCTAGA 59.693 54.545 25.15 0.00 40.91 2.43
113 115 2.040545 TGCTAGGGTAGAGGCTAGCTAG 59.959 54.545 16.84 16.84 43.51 3.42
114 116 2.040545 CTGCTAGGGTAGAGGCTAGCTA 59.959 54.545 15.72 0.00 43.51 3.32
115 117 0.854218 TGCTAGGGTAGAGGCTAGCT 59.146 55.000 15.72 0.00 43.51 3.32
116 118 1.253100 CTGCTAGGGTAGAGGCTAGC 58.747 60.000 6.04 6.04 43.45 3.42
136 138 1.137675 TGGTGATGCTACTGCTAGCTG 59.862 52.381 19.01 19.01 45.20 4.24
137 139 1.489481 TGGTGATGCTACTGCTAGCT 58.511 50.000 17.23 0.00 45.20 3.32
138 140 2.315925 TTGGTGATGCTACTGCTAGC 57.684 50.000 8.10 8.10 45.19 3.42
139 141 3.055591 CGATTGGTGATGCTACTGCTAG 58.944 50.000 0.00 0.00 40.48 3.42
140 142 2.693074 TCGATTGGTGATGCTACTGCTA 59.307 45.455 0.00 0.00 40.48 3.49
141 143 1.482182 TCGATTGGTGATGCTACTGCT 59.518 47.619 0.00 0.00 40.48 4.24
142 144 1.939974 TCGATTGGTGATGCTACTGC 58.060 50.000 0.00 0.00 40.20 4.40
143 145 3.308053 CACTTCGATTGGTGATGCTACTG 59.692 47.826 7.60 0.00 35.69 2.74
144 146 3.055819 ACACTTCGATTGGTGATGCTACT 60.056 43.478 16.71 0.00 37.22 2.57
145 147 3.262420 ACACTTCGATTGGTGATGCTAC 58.738 45.455 16.71 0.00 37.22 3.58
158 160 3.426292 CGCATAGTCTCTTGACACTTCGA 60.426 47.826 0.00 0.00 45.20 3.71
194 196 0.459237 GTGTGCGTGAGAGGGATCTG 60.459 60.000 0.00 0.00 0.00 2.90
274 276 0.694444 CACAGGCCCAGGGTATAGGT 60.694 60.000 7.55 0.00 0.00 3.08
282 284 3.813724 GATCCCCACAGGCCCAGG 61.814 72.222 0.00 0.00 34.51 4.45
283 285 3.016971 TGATCCCCACAGGCCCAG 61.017 66.667 0.00 0.00 34.51 4.45
284 286 2.863383 ATCTGATCCCCACAGGCCCA 62.863 60.000 0.00 0.00 36.22 5.36
285 287 2.081161 ATCTGATCCCCACAGGCCC 61.081 63.158 0.00 0.00 36.22 5.80
286 288 1.150081 CATCTGATCCCCACAGGCC 59.850 63.158 0.00 0.00 36.22 5.19
287 289 1.527844 GCATCTGATCCCCACAGGC 60.528 63.158 0.00 0.00 36.22 4.85
318 325 9.176181 GCGTTTTGAATACTCTTTTGAATACAA 57.824 29.630 0.00 0.00 0.00 2.41
320 327 8.950403 AGCGTTTTGAATACTCTTTTGAATAC 57.050 30.769 0.00 0.00 0.00 1.89
323 330 9.607285 GATTAGCGTTTTGAATACTCTTTTGAA 57.393 29.630 0.00 0.00 0.00 2.69
324 331 8.999431 AGATTAGCGTTTTGAATACTCTTTTGA 58.001 29.630 0.00 0.00 0.00 2.69
325 332 9.612620 AAGATTAGCGTTTTGAATACTCTTTTG 57.387 29.630 0.00 0.00 0.00 2.44
355 362 9.758651 TCTAATGCTGAAAAGATTAGCGTATTA 57.241 29.630 0.00 0.00 40.24 0.98
372 379 3.618594 TCGTTTTGCTAGCTCTAATGCTG 59.381 43.478 17.23 0.00 43.87 4.41
373 380 3.861840 TCGTTTTGCTAGCTCTAATGCT 58.138 40.909 17.23 0.00 46.11 3.79
374 381 4.600012 TTCGTTTTGCTAGCTCTAATGC 57.400 40.909 17.23 3.76 0.00 3.56
376 383 6.554334 TGTTTTCGTTTTGCTAGCTCTAAT 57.446 33.333 17.23 0.00 0.00 1.73
377 384 5.994887 TGTTTTCGTTTTGCTAGCTCTAA 57.005 34.783 17.23 4.88 0.00 2.10
378 385 5.994887 TTGTTTTCGTTTTGCTAGCTCTA 57.005 34.783 17.23 0.00 0.00 2.43
379 386 4.893424 TTGTTTTCGTTTTGCTAGCTCT 57.107 36.364 17.23 0.00 0.00 4.09
422 453 6.649436 CGCGCATTTATTTCTCAAGATAAGA 58.351 36.000 8.75 0.00 0.00 2.10
475 506 6.095021 GGGCTTATTTAGTTGAGATTCGGTTT 59.905 38.462 0.00 0.00 0.00 3.27
507 538 1.846782 CTGTTTTACGCCGATCTCGAG 59.153 52.381 5.93 5.93 43.02 4.04
508 539 1.468565 CCTGTTTTACGCCGATCTCGA 60.469 52.381 10.54 0.00 43.02 4.04
533 564 7.941431 ATCCCCACGTTTATTGTTATGTTTA 57.059 32.000 0.00 0.00 0.00 2.01
534 565 6.844097 ATCCCCACGTTTATTGTTATGTTT 57.156 33.333 0.00 0.00 0.00 2.83
537 568 6.443934 TCAATCCCCACGTTTATTGTTATG 57.556 37.500 0.00 0.00 32.43 1.90
538 569 6.831353 TGATCAATCCCCACGTTTATTGTTAT 59.169 34.615 0.00 0.00 32.43 1.89
539 570 6.094325 GTGATCAATCCCCACGTTTATTGTTA 59.906 38.462 0.00 0.00 32.43 2.41
611 656 5.049680 CACCGGGTATATCGAAAATCTTTGG 60.050 44.000 6.32 0.00 0.00 3.28
631 706 2.389962 TCCCGTTTATCTTTCCACCG 57.610 50.000 0.00 0.00 0.00 4.94
649 724 3.315470 GCTCCCTTTTCCAATCCGTATTC 59.685 47.826 0.00 0.00 0.00 1.75
657 732 0.967380 CTGCCGCTCCCTTTTCCAAT 60.967 55.000 0.00 0.00 0.00 3.16
658 733 1.603455 CTGCCGCTCCCTTTTCCAA 60.603 57.895 0.00 0.00 0.00 3.53
827 913 2.764637 CTAGGGTTGGTGGTGGTGCC 62.765 65.000 0.00 0.00 37.90 5.01
852 944 1.264749 ATGGTGGCTTCGACTGGCTA 61.265 55.000 11.44 0.35 0.00 3.93
855 947 2.401766 GCATGGTGGCTTCGACTGG 61.402 63.158 0.00 0.00 0.00 4.00
857 949 1.376424 CTGCATGGTGGCTTCGACT 60.376 57.895 0.00 0.00 34.04 4.18
858 950 3.044059 GCTGCATGGTGGCTTCGAC 62.044 63.158 0.00 0.00 34.04 4.20
859 951 2.747460 GCTGCATGGTGGCTTCGA 60.747 61.111 0.00 0.00 34.04 3.71
862 954 3.379445 GCTGCTGCATGGTGGCTT 61.379 61.111 11.11 0.00 39.41 4.35
865 957 3.807538 GACGCTGCTGCATGGTGG 61.808 66.667 16.29 0.45 39.64 4.61
867 959 4.334118 TGGACGCTGCTGCATGGT 62.334 61.111 16.29 3.88 39.64 3.55
945 1050 4.241681 AGAAAGAAACGCTCTCTTGCTAG 58.758 43.478 1.33 0.00 37.08 3.42
946 1051 4.258702 AGAAAGAAACGCTCTCTTGCTA 57.741 40.909 1.33 0.00 37.08 3.49
950 1056 3.809905 ACCAAGAAAGAAACGCTCTCTT 58.190 40.909 0.00 0.00 34.56 2.85
1493 1624 0.543277 ATCATCACATGCCTGACCGT 59.457 50.000 0.00 0.00 0.00 4.83
1550 1682 4.619227 AACACACCCGCAGACCCG 62.619 66.667 0.00 0.00 0.00 5.28
1551 1683 2.978010 CAACACACCCGCAGACCC 60.978 66.667 0.00 0.00 0.00 4.46
1552 1684 2.951475 TTCCAACACACCCGCAGACC 62.951 60.000 0.00 0.00 0.00 3.85
1554 1686 1.525077 GTTCCAACACACCCGCAGA 60.525 57.895 0.00 0.00 0.00 4.26
1555 1687 1.101049 AAGTTCCAACACACCCGCAG 61.101 55.000 0.00 0.00 0.00 5.18
1562 1700 5.441500 TCTGTATTTCCAAGTTCCAACACA 58.558 37.500 0.00 0.00 0.00 3.72
1580 1718 3.243737 CGAAATCCGGATGACCATCTGTA 60.244 47.826 19.95 2.86 41.50 2.74
1788 1936 2.390938 CGTACGTGCGTATGGATGAAT 58.609 47.619 18.32 0.00 34.82 2.57
1839 1994 3.880490 TCGAAACCACTTAATGTTGTGCT 59.120 39.130 0.00 0.00 33.26 4.40
1841 1996 4.675114 GCTTCGAAACCACTTAATGTTGTG 59.325 41.667 0.00 0.00 0.00 3.33
1843 1998 3.906008 CGCTTCGAAACCACTTAATGTTG 59.094 43.478 0.00 0.00 0.00 3.33
1870 2025 7.773690 AGTTAATTGTGTCTAAACTTGTGGAGT 59.226 33.333 0.00 0.00 41.47 3.85
1910 2065 5.163612 GCTTGTCAAGGAGTTCTCTGTTTTT 60.164 40.000 14.40 0.00 0.00 1.94
1911 2066 4.336713 GCTTGTCAAGGAGTTCTCTGTTTT 59.663 41.667 14.40 0.00 0.00 2.43
1912 2067 3.879892 GCTTGTCAAGGAGTTCTCTGTTT 59.120 43.478 14.40 0.00 0.00 2.83
1913 2068 3.118261 TGCTTGTCAAGGAGTTCTCTGTT 60.118 43.478 14.40 0.00 0.00 3.16
1914 2069 2.435805 TGCTTGTCAAGGAGTTCTCTGT 59.564 45.455 14.40 0.00 0.00 3.41
1915 2070 3.117491 TGCTTGTCAAGGAGTTCTCTG 57.883 47.619 14.40 0.00 0.00 3.35
1916 2071 3.845781 TTGCTTGTCAAGGAGTTCTCT 57.154 42.857 14.40 0.00 0.00 3.10
1917 2072 4.900635 TTTTGCTTGTCAAGGAGTTCTC 57.099 40.909 14.40 0.00 35.84 2.87
1941 2096 3.003480 GCTAGCTCGACAGTTCCATTTT 58.997 45.455 7.70 0.00 0.00 1.82
1944 2099 1.479709 AGCTAGCTCGACAGTTCCAT 58.520 50.000 12.68 0.00 0.00 3.41
1945 2100 1.067565 CAAGCTAGCTCGACAGTTCCA 60.068 52.381 19.65 0.00 0.00 3.53
1946 2101 1.634702 CAAGCTAGCTCGACAGTTCC 58.365 55.000 19.65 0.00 0.00 3.62
1947 2102 0.995728 GCAAGCTAGCTCGACAGTTC 59.004 55.000 19.65 0.00 0.00 3.01
1980 2141 8.783660 AGGTCCCTAAAAGAAAGAAAGAAAAT 57.216 30.769 0.00 0.00 0.00 1.82
1981 2142 8.603898 AAGGTCCCTAAAAGAAAGAAAGAAAA 57.396 30.769 0.00 0.00 0.00 2.29
2006 2188 7.944729 AGAAAATAGATCCTTTGCAAGCTAA 57.055 32.000 0.00 0.00 0.00 3.09
2105 2287 3.119101 TGTTTACTCCACTAGCAGCTAGC 60.119 47.826 26.79 6.62 46.19 3.42
2108 2290 4.020218 TGAATGTTTACTCCACTAGCAGCT 60.020 41.667 0.00 0.00 0.00 4.24
2110 2292 5.237815 TGTGAATGTTTACTCCACTAGCAG 58.762 41.667 0.00 0.00 0.00 4.24
2246 2437 2.386660 GCTCTCAACGGCTGCAGAC 61.387 63.158 20.43 15.64 0.00 3.51
2317 2508 2.507058 CTCCATCCATCCTTTCCACTGA 59.493 50.000 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.