Multiple sequence alignment - TraesCS7B01G483400

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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 TraesCS7B01G483400 chr7B 100.000 2648 0 0 1 2648 741354450 741351803 0.000000e+00 4891.0
1 TraesCS7B01G483400 chr7B 90.244 328 29 2 610 935 741366573 741366247 2.440000e-115 425.0
2 TraesCS7B01G483400 chr7B 91.250 160 12 1 852 1009 741366493 741366334 1.600000e-52 217.0
3 TraesCS7B01G483400 chr7B 90.683 161 13 2 689 848 741353601 741353442 2.060000e-51 213.0
4 TraesCS7B01G483400 chr7B 90.683 161 13 2 850 1009 741353762 741353603 2.060000e-51 213.0
5 TraesCS7B01G483400 chr7D 94.094 1998 87 12 11 2003 634804044 634806015 0.000000e+00 3007.0
6 TraesCS7B01G483400 chr7D 88.991 436 20 10 2230 2648 634806189 634806613 5.050000e-142 514.0
7 TraesCS7B01G483400 chr7D 92.357 157 12 0 689 845 634804862 634805018 9.540000e-55 224.0
8 TraesCS7B01G483400 chr7D 91.772 158 11 2 850 1006 634804701 634804857 4.440000e-53 219.0
9 TraesCS7B01G483400 chr7D 96.491 57 2 0 542 598 634800861 634800917 7.800000e-16 95.3
10 TraesCS7B01G483400 chr7A 93.515 1357 62 7 651 2003 730750339 730749005 0.000000e+00 1995.0
11 TraesCS7B01G483400 chr7A 81.675 382 47 4 2283 2648 676588489 676588115 1.990000e-76 296.0
12 TraesCS7B01G483400 chr7A 87.085 271 13 7 2230 2482 730748749 730748483 1.200000e-73 287.0
13 TraesCS7B01G483400 chr7A 90.566 159 13 1 690 848 730750156 730750000 2.670000e-50 209.0
14 TraesCS7B01G483400 chr7A 89.610 154 14 2 848 1000 730750306 730750154 7.480000e-46 195.0
15 TraesCS7B01G483400 chr7A 87.611 113 9 4 2103 2211 730748846 730748735 2.770000e-25 126.0
16 TraesCS7B01G483400 chr7A 72.161 273 58 16 148 411 676366016 676366279 1.700000e-07 67.6
17 TraesCS7B01G483400 chr7A 94.737 38 2 0 148 185 676352427 676352390 2.850000e-05 60.2
18 TraesCS7B01G483400 chr3A 82.850 379 44 3 2284 2648 644497862 644497491 1.180000e-83 320.0
19 TraesCS7B01G483400 chr3A 82.322 379 46 3 2284 2648 642270946 642271317 2.560000e-80 309.0
20 TraesCS7B01G483400 chr3A 80.526 380 52 5 2284 2648 707238788 707238416 3.360000e-69 272.0
21 TraesCS7B01G483400 chr5A 87.302 63 3 2 3 65 609829426 609829483 1.700000e-07 67.6


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 TraesCS7B01G483400 chr7B 741351803 741354450 2647 True 1772.333333 4891 93.788667 1 2648 3 chr7B.!!$R1 2647
1 TraesCS7B01G483400 chr7D 634800861 634806613 5752 False 811.860000 3007 92.741000 11 2648 5 chr7D.!!$F1 2637
2 TraesCS7B01G483400 chr7A 730748483 730750339 1856 True 562.400000 1995 89.677400 651 2482 5 chr7A.!!$R3 1831

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
514 3689 0.036765 TCCGGAGCATTGGTACACAC 60.037 55.0 0.0 0.0 39.29 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2455 5744 0.24445 CCTGTTTTGCATGCACCGAT 59.756 50.0 22.58 0.0 0.0 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
25 3199 6.902948 CAGACGAAAAACAGACAAAATTACGA 59.097 34.615 0.00 0.00 0.00 3.43
32 3206 8.791355 AAAACAGACAAAATTACGATGGTAAC 57.209 30.769 2.11 0.00 41.19 2.50
55 3229 3.026694 AGCAAAGCAATAGCCCCTTTAG 58.973 45.455 0.00 0.00 43.56 1.85
58 3232 4.202020 GCAAAGCAATAGCCCCTTTAGTAC 60.202 45.833 0.00 0.00 43.56 2.73
63 3237 4.347292 GCAATAGCCCCTTTAGTACTAGGT 59.653 45.833 10.25 4.00 33.58 3.08
64 3238 5.541484 GCAATAGCCCCTTTAGTACTAGGTA 59.459 44.000 10.25 5.88 33.58 3.08
179 3353 1.302511 GGCTTGGTTGAAGAGGCGA 60.303 57.895 0.00 0.00 32.82 5.54
225 3400 7.114754 TCCTCTACTTAAGTTCCGTCATCTTA 58.885 38.462 14.49 0.00 0.00 2.10
240 3415 1.204146 TCTTATCCCAGGCACAGTCC 58.796 55.000 0.00 0.00 0.00 3.85
280 3455 0.827368 TTGCCTTTTGTCCCACCAAC 59.173 50.000 0.00 0.00 0.00 3.77
281 3456 1.045911 TGCCTTTTGTCCCACCAACC 61.046 55.000 0.00 0.00 0.00 3.77
290 3465 1.886542 GTCCCACCAACCAATTCTGAC 59.113 52.381 0.00 0.00 0.00 3.51
345 3520 5.394663 CCACAGTTTGAAAACACCCATTGTA 60.395 40.000 8.53 0.00 41.30 2.41
451 3626 5.691754 CCAAATATTTTTATGCGAAGGCCTC 59.308 40.000 5.23 0.00 38.85 4.70
470 3645 3.629398 CCTCATCTTGGATTTGTAGCACC 59.371 47.826 0.00 0.00 0.00 5.01
475 3650 2.093306 TGGATTTGTAGCACCTCACG 57.907 50.000 0.00 0.00 0.00 4.35
491 3666 3.057734 CTCACGTACCTCTTGGTTGTTC 58.942 50.000 0.00 0.00 46.05 3.18
493 3668 3.133362 TCACGTACCTCTTGGTTGTTCTT 59.867 43.478 0.00 0.00 46.05 2.52
514 3689 0.036765 TCCGGAGCATTGGTACACAC 60.037 55.000 0.00 0.00 39.29 3.82
515 3690 0.321210 CCGGAGCATTGGTACACACA 60.321 55.000 0.00 0.00 39.29 3.72
600 3775 5.953183 TGTGAAATGTGATGTATTTCCAGC 58.047 37.500 0.00 0.00 41.55 4.85
631 3806 1.268899 ACTAAGGACCAGTCGAACACG 59.731 52.381 0.00 0.00 0.00 4.49
632 3807 0.599558 TAAGGACCAGTCGAACACGG 59.400 55.000 0.00 0.00 0.00 4.94
633 3808 2.710724 AAGGACCAGTCGAACACGGC 62.711 60.000 0.00 0.00 0.00 5.68
634 3809 2.028484 GACCAGTCGAACACGGCA 59.972 61.111 0.00 0.00 33.88 5.69
635 3810 1.593209 GACCAGTCGAACACGGCAA 60.593 57.895 0.00 0.00 33.88 4.52
636 3811 1.557443 GACCAGTCGAACACGGCAAG 61.557 60.000 0.00 0.00 33.88 4.01
637 3812 1.300620 CCAGTCGAACACGGCAAGA 60.301 57.895 0.00 0.00 33.88 3.02
638 3813 0.878523 CCAGTCGAACACGGCAAGAA 60.879 55.000 0.00 0.00 33.88 2.52
639 3814 0.508641 CAGTCGAACACGGCAAGAAG 59.491 55.000 0.00 0.00 33.88 2.85
640 3815 1.204312 GTCGAACACGGCAAGAAGC 59.796 57.895 0.00 0.00 44.65 3.86
655 3830 5.413499 GCAAGAAGCATCCAAATACACAAT 58.587 37.500 0.00 0.00 44.79 2.71
871 4046 2.472695 TTGCGTGGTTCTAGCTTCAT 57.527 45.000 0.00 0.00 0.00 2.57
921 4096 7.201565 GCTAGTTTGTCCACTCATGTAGAATTC 60.202 40.741 0.00 0.00 0.00 2.17
924 4099 5.089970 TGTCCACTCATGTAGAATTCCTG 57.910 43.478 0.65 0.00 0.00 3.86
1076 4251 1.867615 GAGCACAGCAAGAGCACTG 59.132 57.895 1.96 0.00 45.49 3.66
1131 4306 1.904032 GGTGCTCTTCCTCCTCCTG 59.096 63.158 0.00 0.00 0.00 3.86
1565 4740 2.380433 TACCAACACCCCAACGACCG 62.380 60.000 0.00 0.00 0.00 4.79
1655 4830 3.398954 GCACCGCGAATCAATAAAAGA 57.601 42.857 8.23 0.00 0.00 2.52
1675 4850 5.364921 AGACGTACGTAGATAAACGGCCG 62.365 52.174 26.86 26.86 44.39 6.13
1714 4889 9.961265 GTGTACTGCTTAATACTACATCACATA 57.039 33.333 0.00 0.00 0.00 2.29
1737 4915 9.631452 CATAGTCATATTACATCCACTGTACTG 57.369 37.037 0.00 0.00 40.06 2.74
1789 4967 8.180317 TCATTGATATTTGTGTACACAGTACG 57.820 34.615 26.52 11.01 42.94 3.67
1842 5021 2.122413 ACAGCACCCTGACCCAGA 60.122 61.111 0.00 0.00 41.77 3.86
1856 5035 2.877975 CCAGAAGGGTCAGCCATTG 58.122 57.895 0.00 0.00 39.10 2.82
1874 5053 7.452559 GCCATTGCTATTACTTGCTCATGCA 62.453 44.000 0.00 0.00 40.23 3.96
1899 5079 1.864711 CACGACTTTGACATCGGTGTT 59.135 47.619 1.13 0.00 42.67 3.32
1981 5161 3.990318 ACAGCTAGCTTGTTTGTTTCC 57.010 42.857 16.46 0.00 0.00 3.13
1991 5171 4.214332 GCTTGTTTGTTTCCACACCAAAAA 59.786 37.500 0.00 0.00 30.32 1.94
2037 5217 3.542648 ACTGATCTCCTGCATGTTGATG 58.457 45.455 0.00 0.00 0.00 3.07
2038 5218 2.879026 CTGATCTCCTGCATGTTGATGG 59.121 50.000 0.00 0.00 0.00 3.51
2039 5219 2.506644 TGATCTCCTGCATGTTGATGGA 59.493 45.455 0.00 0.00 0.00 3.41
2040 5220 2.704464 TCTCCTGCATGTTGATGGAG 57.296 50.000 9.14 9.14 45.32 3.86
2044 5224 2.704464 CTGCATGTTGATGGAGGAGA 57.296 50.000 0.00 0.00 42.76 3.71
2046 5226 3.139850 CTGCATGTTGATGGAGGAGATC 58.860 50.000 0.00 0.00 42.76 2.75
2047 5227 2.506644 TGCATGTTGATGGAGGAGATCA 59.493 45.455 0.00 0.00 0.00 2.92
2051 5231 4.478206 TGTTGATGGAGGAGATCAGTTC 57.522 45.455 0.00 0.00 31.52 3.01
2052 5232 3.118992 TGTTGATGGAGGAGATCAGTTCG 60.119 47.826 0.00 0.00 31.52 3.95
2056 5236 2.536066 TGGAGGAGATCAGTTCGGAAA 58.464 47.619 0.00 0.00 0.00 3.13
2057 5237 2.903784 TGGAGGAGATCAGTTCGGAAAA 59.096 45.455 0.00 0.00 0.00 2.29
2058 5238 3.519510 TGGAGGAGATCAGTTCGGAAAAT 59.480 43.478 0.00 0.00 0.00 1.82
2059 5239 4.714802 TGGAGGAGATCAGTTCGGAAAATA 59.285 41.667 0.00 0.00 0.00 1.40
2060 5240 5.188948 TGGAGGAGATCAGTTCGGAAAATAA 59.811 40.000 0.00 0.00 0.00 1.40
2061 5241 6.113411 GGAGGAGATCAGTTCGGAAAATAAA 58.887 40.000 0.00 0.00 0.00 1.40
2062 5242 6.598064 GGAGGAGATCAGTTCGGAAAATAAAA 59.402 38.462 0.00 0.00 0.00 1.52
2063 5243 7.120726 GGAGGAGATCAGTTCGGAAAATAAAAA 59.879 37.037 0.00 0.00 0.00 1.94
2066 5246 8.244113 GGAGATCAGTTCGGAAAATAAAAACAT 58.756 33.333 0.00 0.00 0.00 2.71
2092 5272 8.305441 ACGATTTGTTGTTGTTCTTTTCTTTT 57.695 26.923 0.00 0.00 0.00 2.27
2097 5277 8.460831 TTGTTGTTGTTCTTTTCTTTTAGCTC 57.539 30.769 0.00 0.00 0.00 4.09
2113 5381 3.345508 AGCTCTGCATCATGTCAAAGA 57.654 42.857 0.00 0.00 0.00 2.52
2163 5435 0.323725 AAGGATTTGCCATGCGAGGT 60.324 50.000 0.00 0.00 40.02 3.85
2172 5444 1.813513 CCATGCGAGGTGAGTTTTCT 58.186 50.000 0.00 0.00 0.00 2.52
2173 5445 1.466167 CCATGCGAGGTGAGTTTTCTG 59.534 52.381 0.00 0.00 0.00 3.02
2174 5446 2.146342 CATGCGAGGTGAGTTTTCTGT 58.854 47.619 0.00 0.00 0.00 3.41
2211 5483 6.493115 TCCTTTTCCTTTGCATCAAGTCAATA 59.507 34.615 0.00 0.00 0.00 1.90
2212 5484 7.178983 TCCTTTTCCTTTGCATCAAGTCAATAT 59.821 33.333 0.00 0.00 0.00 1.28
2213 5485 8.469200 CCTTTTCCTTTGCATCAAGTCAATATA 58.531 33.333 0.00 0.00 0.00 0.86
2351 5624 1.718396 CAAGCGATGCTGAGAGTTCA 58.282 50.000 0.00 0.00 39.62 3.18
2378 5667 2.356741 GGGCTGTGGTTAGCAAGGAATA 60.357 50.000 0.00 0.00 45.46 1.75
2380 5669 3.954258 GGCTGTGGTTAGCAAGGAATAAT 59.046 43.478 0.00 0.00 45.46 1.28
2453 5742 1.100510 CAATCATGCACAGGAGTGGG 58.899 55.000 4.95 0.00 45.98 4.61
2491 5780 2.032634 GGCAACGATCAAGACGCCA 61.033 57.895 0.00 0.00 39.38 5.69
2541 5830 6.840090 TGACCAAGGAATAAGGATGGATTA 57.160 37.500 0.00 0.00 0.00 1.75
2595 5884 0.765510 AGACAACAGGGGAGGTTGAC 59.234 55.000 11.76 6.03 46.56 3.18
2627 5916 4.646572 GGGATCAAGAAGGTGCTTATAGG 58.353 47.826 0.00 0.00 0.00 2.57
2635 5924 1.581149 AGGTGCTTATAGGGGAGGAGT 59.419 52.381 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 6.902948 TCGTAATTTTGTCTGTTTTTCGTCTG 59.097 34.615 0.00 0.00 0.00 3.51
1 2 7.007313 TCGTAATTTTGTCTGTTTTTCGTCT 57.993 32.000 0.00 0.00 0.00 4.18
2 3 7.149192 CCATCGTAATTTTGTCTGTTTTTCGTC 60.149 37.037 0.00 0.00 0.00 4.20
4 5 6.635239 ACCATCGTAATTTTGTCTGTTTTTCG 59.365 34.615 0.00 0.00 0.00 3.46
5 6 7.924103 ACCATCGTAATTTTGTCTGTTTTTC 57.076 32.000 0.00 0.00 0.00 2.29
6 7 9.240159 GTTACCATCGTAATTTTGTCTGTTTTT 57.760 29.630 0.00 0.00 36.84 1.94
7 8 8.407064 TGTTACCATCGTAATTTTGTCTGTTTT 58.593 29.630 0.00 0.00 36.84 2.43
10 11 7.499321 TTGTTACCATCGTAATTTTGTCTGT 57.501 32.000 0.00 0.00 36.84 3.41
11 12 6.523201 GCTTGTTACCATCGTAATTTTGTCTG 59.477 38.462 0.00 0.00 36.84 3.51
12 13 6.205853 TGCTTGTTACCATCGTAATTTTGTCT 59.794 34.615 0.00 0.00 36.84 3.41
13 14 6.375377 TGCTTGTTACCATCGTAATTTTGTC 58.625 36.000 0.00 0.00 36.84 3.18
14 15 6.320494 TGCTTGTTACCATCGTAATTTTGT 57.680 33.333 0.00 0.00 36.84 2.83
15 16 7.619161 GCTTTGCTTGTTACCATCGTAATTTTG 60.619 37.037 0.00 0.00 36.84 2.44
25 3199 4.381932 GGCTATTGCTTTGCTTGTTACCAT 60.382 41.667 0.00 0.00 39.59 3.55
32 3206 1.188863 AGGGGCTATTGCTTTGCTTG 58.811 50.000 0.00 0.00 39.59 4.01
33 3207 1.942776 AAGGGGCTATTGCTTTGCTT 58.057 45.000 0.00 0.00 39.59 3.91
34 3208 1.942776 AAAGGGGCTATTGCTTTGCT 58.057 45.000 0.00 0.00 39.59 3.91
35 3209 2.760650 ACTAAAGGGGCTATTGCTTTGC 59.239 45.455 0.00 0.00 39.59 3.68
36 3210 5.193679 AGTACTAAAGGGGCTATTGCTTTG 58.806 41.667 0.00 0.00 39.59 2.77
37 3211 5.452341 AGTACTAAAGGGGCTATTGCTTT 57.548 39.130 0.00 0.00 39.59 3.51
120 3294 0.868406 GGCTCGTGACAAAACCAGAG 59.132 55.000 0.00 0.00 0.00 3.35
123 3297 2.539338 GCGGCTCGTGACAAAACCA 61.539 57.895 0.00 0.00 0.00 3.67
179 3353 4.033009 GAGGGTTGGGATTCCATGATTTT 58.967 43.478 4.80 0.00 43.63 1.82
225 3400 1.539869 ACTGGACTGTGCCTGGGAT 60.540 57.895 0.00 0.00 0.00 3.85
258 3433 0.469144 GGTGGGACAAAAGGCAAGGA 60.469 55.000 0.00 0.00 44.16 3.36
280 3455 5.242393 ACCTCACAAATCTTGTCAGAATTGG 59.758 40.000 5.30 0.00 42.29 3.16
281 3456 6.016860 TGACCTCACAAATCTTGTCAGAATTG 60.017 38.462 0.00 0.00 43.24 2.32
368 3543 4.513442 CAAGGGGACGATGACAAAATCTA 58.487 43.478 0.00 0.00 0.00 1.98
434 3609 3.620488 AGATGAGGCCTTCGCATAAAAA 58.380 40.909 6.77 0.00 36.02 1.94
441 3616 0.179034 ATCCAAGATGAGGCCTTCGC 60.179 55.000 6.77 0.00 0.00 4.70
451 3626 4.095483 GTGAGGTGCTACAAATCCAAGATG 59.905 45.833 0.00 0.00 0.00 2.90
491 3666 1.207089 TGTACCAATGCTCCGGAGAAG 59.793 52.381 35.69 15.76 0.00 2.85
493 3668 0.535335 GTGTACCAATGCTCCGGAGA 59.465 55.000 35.69 19.84 0.00 3.71
514 3689 7.359262 TCCTCAAATCAAAGTACAACGTATG 57.641 36.000 0.00 0.00 0.00 2.39
515 3690 7.660208 ACTTCCTCAAATCAAAGTACAACGTAT 59.340 33.333 0.00 0.00 30.47 3.06
600 3775 3.170717 TGGTCCTTAGTGACTAAGTGGG 58.829 50.000 25.70 15.03 41.09 4.61
631 3806 3.193267 TGTGTATTTGGATGCTTCTTGCC 59.807 43.478 0.00 0.00 42.00 4.52
632 3807 4.439305 TGTGTATTTGGATGCTTCTTGC 57.561 40.909 0.00 0.00 43.25 4.01
633 3808 6.038356 GGATTGTGTATTTGGATGCTTCTTG 58.962 40.000 0.00 0.00 0.00 3.02
634 3809 5.163622 CGGATTGTGTATTTGGATGCTTCTT 60.164 40.000 0.00 0.00 0.00 2.52
635 3810 4.336433 CGGATTGTGTATTTGGATGCTTCT 59.664 41.667 0.00 0.00 0.00 2.85
636 3811 4.096382 ACGGATTGTGTATTTGGATGCTTC 59.904 41.667 0.00 0.00 0.00 3.86
637 3812 4.016444 ACGGATTGTGTATTTGGATGCTT 58.984 39.130 0.00 0.00 0.00 3.91
638 3813 3.378112 CACGGATTGTGTATTTGGATGCT 59.622 43.478 0.00 0.00 43.88 3.79
639 3814 3.694734 CACGGATTGTGTATTTGGATGC 58.305 45.455 0.00 0.00 43.88 3.91
655 3830 2.223900 TGCATTGAACATTTTGCACGGA 60.224 40.909 0.00 0.00 39.98 4.69
871 4046 5.647658 CAGCAGGTTTGACCATTACTTATGA 59.352 40.000 0.00 0.00 41.95 2.15
1093 4268 3.512516 GGAGGTCGCCATTGCTGC 61.513 66.667 0.00 0.00 34.43 5.25
1392 4567 4.752879 TACTCGGCCAGCGTTGCC 62.753 66.667 2.24 4.33 45.70 4.52
1583 4758 6.464465 GGTGATCTGGTAGTTACTATTGCCAT 60.464 42.308 0.00 0.00 0.00 4.40
1592 4767 4.434520 GCAGAAGGTGATCTGGTAGTTAC 58.565 47.826 6.46 0.00 45.60 2.50
1655 4830 1.268032 CGGCCGTTTATCTACGTACGT 60.268 52.381 25.98 25.98 39.81 3.57
1668 4843 3.379057 CACCTTTTATTTATCCGGCCGTT 59.621 43.478 26.12 13.96 0.00 4.44
1705 4880 8.874156 AGTGGATGTAATATGACTATGTGATGT 58.126 33.333 0.00 0.00 0.00 3.06
1706 4881 9.148104 CAGTGGATGTAATATGACTATGTGATG 57.852 37.037 0.00 0.00 0.00 3.07
1714 4889 6.098266 TGCAGTACAGTGGATGTAATATGACT 59.902 38.462 0.00 0.00 45.88 3.41
1726 4901 2.354704 GGCTAACATGCAGTACAGTGGA 60.355 50.000 0.00 0.00 34.04 4.02
1737 4915 4.310769 CTCATAGTAGTGGGCTAACATGC 58.689 47.826 0.00 0.00 0.00 4.06
1899 5079 2.855770 ATGGGGTGGCTCCTTTGCA 61.856 57.895 5.46 0.00 36.25 4.08
1923 5103 2.040544 GGGTCCCATGTGCTGTTCG 61.041 63.158 1.78 0.00 0.00 3.95
2010 5190 6.489700 TCAACATGCAGGAGATCAGTTAAAAA 59.510 34.615 4.84 0.00 0.00 1.94
2011 5191 6.003326 TCAACATGCAGGAGATCAGTTAAAA 58.997 36.000 4.84 0.00 0.00 1.52
2012 5192 5.559770 TCAACATGCAGGAGATCAGTTAAA 58.440 37.500 4.84 0.00 0.00 1.52
2013 5193 5.164620 TCAACATGCAGGAGATCAGTTAA 57.835 39.130 4.84 0.00 0.00 2.01
2014 5194 4.824479 TCAACATGCAGGAGATCAGTTA 57.176 40.909 4.84 0.00 0.00 2.24
2015 5195 3.708403 TCAACATGCAGGAGATCAGTT 57.292 42.857 4.84 0.00 0.00 3.16
2016 5196 3.542648 CATCAACATGCAGGAGATCAGT 58.457 45.455 4.84 0.00 0.00 3.41
2017 5197 2.879026 CCATCAACATGCAGGAGATCAG 59.121 50.000 4.84 0.00 0.00 2.90
2018 5198 2.506644 TCCATCAACATGCAGGAGATCA 59.493 45.455 4.84 0.00 0.00 2.92
2019 5199 3.139850 CTCCATCAACATGCAGGAGATC 58.860 50.000 4.84 0.00 46.89 2.75
2020 5200 2.158652 CCTCCATCAACATGCAGGAGAT 60.159 50.000 15.51 10.50 40.19 2.75
2037 5217 3.611766 TTTTCCGAACTGATCTCCTCC 57.388 47.619 0.00 0.00 0.00 4.30
2038 5218 7.611213 TTTTATTTTCCGAACTGATCTCCTC 57.389 36.000 0.00 0.00 0.00 3.71
2039 5219 7.447238 TGTTTTTATTTTCCGAACTGATCTCCT 59.553 33.333 0.00 0.00 0.00 3.69
2040 5220 7.590279 TGTTTTTATTTTCCGAACTGATCTCC 58.410 34.615 0.00 0.00 0.00 3.71
2043 5223 8.995906 CGTATGTTTTTATTTTCCGAACTGATC 58.004 33.333 0.00 0.00 0.00 2.92
2044 5224 8.723311 TCGTATGTTTTTATTTTCCGAACTGAT 58.277 29.630 0.00 0.00 0.00 2.90
2046 5226 8.889849 ATCGTATGTTTTTATTTTCCGAACTG 57.110 30.769 0.00 0.00 0.00 3.16
2047 5227 9.902196 AAATCGTATGTTTTTATTTTCCGAACT 57.098 25.926 0.00 0.00 0.00 3.01
2051 5231 9.720569 CAACAAATCGTATGTTTTTATTTTCCG 57.279 29.630 1.53 0.00 38.90 4.30
2058 5238 9.790389 AGAACAACAACAAATCGTATGTTTTTA 57.210 25.926 0.00 0.00 38.90 1.52
2059 5239 8.696410 AGAACAACAACAAATCGTATGTTTTT 57.304 26.923 0.00 0.00 38.90 1.94
2060 5240 8.696410 AAGAACAACAACAAATCGTATGTTTT 57.304 26.923 0.00 0.00 38.90 2.43
2061 5241 8.696410 AAAGAACAACAACAAATCGTATGTTT 57.304 26.923 0.00 0.00 38.90 2.83
2062 5242 8.696410 AAAAGAACAACAACAAATCGTATGTT 57.304 26.923 0.00 0.00 41.50 2.71
2063 5243 8.188139 AGAAAAGAACAACAACAAATCGTATGT 58.812 29.630 0.00 0.00 0.00 2.29
2066 5246 8.973835 AAAGAAAAGAACAACAACAAATCGTA 57.026 26.923 0.00 0.00 0.00 3.43
2092 5272 4.186926 GTCTTTGACATGATGCAGAGCTA 58.813 43.478 0.00 0.00 32.09 3.32
2097 5277 4.778534 AAAGGTCTTTGACATGATGCAG 57.221 40.909 0.00 0.00 33.68 4.41
2141 5412 1.203052 CTCGCATGGCAAATCCTTTGT 59.797 47.619 0.00 0.00 42.56 2.83
2156 5428 1.540363 GGACAGAAAACTCACCTCGCA 60.540 52.381 0.00 0.00 0.00 5.10
2163 5435 1.416401 AGGCTTCGGACAGAAAACTCA 59.584 47.619 0.00 0.00 38.57 3.41
2172 5444 1.056660 AAAGGAAGAGGCTTCGGACA 58.943 50.000 0.00 0.00 0.00 4.02
2173 5445 2.077627 GAAAAGGAAGAGGCTTCGGAC 58.922 52.381 0.00 0.00 0.00 4.79
2174 5446 1.003233 GGAAAAGGAAGAGGCTTCGGA 59.997 52.381 0.00 0.00 0.00 4.55
2217 5489 4.775440 CTTGATGCAAGTTTCGCAAAAA 57.225 36.364 0.00 0.00 43.84 1.94
2228 5500 3.508762 GAGCCAATTGACTTGATGCAAG 58.491 45.455 7.12 5.67 45.85 4.01
2233 5505 1.470098 GTGCGAGCCAATTGACTTGAT 59.530 47.619 12.81 0.00 36.97 2.57
2348 5621 4.103943 TGCTAACCACAGCCCATATATGAA 59.896 41.667 14.54 0.00 41.04 2.57
2349 5622 3.650461 TGCTAACCACAGCCCATATATGA 59.350 43.478 14.54 0.00 41.04 2.15
2350 5623 4.019792 TGCTAACCACAGCCCATATATG 57.980 45.455 5.68 5.68 41.04 1.78
2351 5624 4.507335 CCTTGCTAACCACAGCCCATATAT 60.507 45.833 0.00 0.00 41.04 0.86
2378 5667 9.739276 TGTAATTTTCTTACCATCTCTCACATT 57.261 29.630 0.00 0.00 0.00 2.71
2380 5669 8.593679 TCTGTAATTTTCTTACCATCTCTCACA 58.406 33.333 0.00 0.00 0.00 3.58
2454 5743 1.342555 CTGTTTTGCATGCACCGATG 58.657 50.000 22.58 7.33 0.00 3.84
2455 5744 0.244450 CCTGTTTTGCATGCACCGAT 59.756 50.000 22.58 0.00 0.00 4.18
2491 5780 2.660552 CAACGCTCGACCGGTGTT 60.661 61.111 14.63 6.63 40.82 3.32
2509 5798 1.691196 TTCCTTGGTCAGGCTGTTTG 58.309 50.000 15.27 1.99 43.55 2.93
2510 5799 2.683211 ATTCCTTGGTCAGGCTGTTT 57.317 45.000 15.27 0.00 43.55 2.83
2541 5830 8.922676 CGACACAACACTATCTGTATTAACTTT 58.077 33.333 0.00 0.00 30.51 2.66
2556 5845 0.107897 TGCACCTTCGACACAACACT 60.108 50.000 0.00 0.00 0.00 3.55
2560 5849 1.295792 GTCTTGCACCTTCGACACAA 58.704 50.000 0.00 0.00 0.00 3.33
2612 5901 2.250273 TCCTCCCCTATAAGCACCTTCT 59.750 50.000 0.00 0.00 0.00 2.85
2627 5916 0.250338 AGAACGTTGCAACTCCTCCC 60.250 55.000 26.09 9.89 0.00 4.30


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

AutoCloner maintained by Alex Coulton.