Multiple sequence alignment - TraesCS6D01G062100

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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 TraesCS6D01G062100 chr6D 100.000 2312 0 0 1 2312 28993664 28991353 0.000000e+00 4270.0
1 TraesCS6D01G062100 chr6D 92.625 461 22 6 998 1456 29384819 29385269 0.000000e+00 652.0
2 TraesCS6D01G062100 chr6B 89.756 1064 74 14 757 1806 60928179 60929221 0.000000e+00 1328.0
3 TraesCS6D01G062100 chr6B 89.687 543 44 9 774 1310 54663174 54662638 0.000000e+00 682.0
4 TraesCS6D01G062100 chr6B 87.143 560 51 17 778 1320 55695492 55694937 1.170000e-172 616.0
5 TraesCS6D01G062100 chr6B 90.611 458 29 9 1001 1456 78151289 78150844 1.530000e-166 595.0
6 TraesCS6D01G062100 chr6B 88.501 487 38 14 828 1310 55121669 55122141 7.170000e-160 573.0
7 TraesCS6D01G062100 chr6B 87.112 419 28 9 347 742 60927520 60927935 3.500000e-123 451.0
8 TraesCS6D01G062100 chr6B 89.030 237 20 5 1 237 60927278 60927508 2.910000e-74 289.0
9 TraesCS6D01G062100 chr6B 85.667 300 13 5 2025 2294 60929479 60929778 2.910000e-74 289.0
10 TraesCS6D01G062100 chr6B 86.420 162 3 10 1806 1949 60929302 60929462 2.380000e-35 159.0
11 TraesCS6D01G062100 chr6B 81.944 144 16 4 2029 2169 61491494 61491630 1.880000e-21 113.0
12 TraesCS6D01G062100 chr6B 97.778 45 1 0 1412 1456 58319372 58319328 6.850000e-11 78.7
13 TraesCS6D01G062100 chr6B 80.556 108 10 6 1843 1945 78149934 78149833 3.190000e-09 73.1
14 TraesCS6D01G062100 chr6B 91.667 48 4 0 1843 1890 77922490 77922443 1.480000e-07 67.6
15 TraesCS6D01G062100 chr6B 93.333 45 2 1 1849 1892 77879207 77879163 5.330000e-07 65.8
16 TraesCS6D01G062100 chr6A 88.088 1041 59 25 778 1806 33547884 33548871 0.000000e+00 1175.0
17 TraesCS6D01G062100 chr6A 90.393 458 18 15 1001 1454 33008596 33008161 1.540000e-161 579.0
18 TraesCS6D01G062100 chr6A 92.105 418 22 5 1024 1438 33546739 33547148 1.540000e-161 579.0
19 TraesCS6D01G062100 chr6A 89.671 426 37 6 90 513 33545617 33546037 9.400000e-149 536.0
20 TraesCS6D01G062100 chr6A 81.609 522 43 34 1839 2312 33549564 33550080 1.300000e-102 383.0
21 TraesCS6D01G062100 chr6A 88.571 140 15 1 774 912 33546211 33546350 3.950000e-38 169.0
22 TraesCS6D01G062100 chrUn 87.674 576 40 25 760 1319 103527696 103527136 1.940000e-180 641.0
23 TraesCS6D01G062100 chrUn 97.297 37 1 0 1952 1988 217768904 217768868 1.920000e-06 63.9
24 TraesCS6D01G062100 chrUn 97.297 37 1 0 1952 1988 255509111 255509075 1.920000e-06 63.9
25 TraesCS6D01G062100 chrUn 100.000 34 0 0 1952 1985 392871091 392871124 1.920000e-06 63.9
26 TraesCS6D01G062100 chrUn 97.297 37 1 0 1952 1988 393074855 393074819 1.920000e-06 63.9
27 TraesCS6D01G062100 chrUn 97.297 37 1 0 1952 1988 393191013 393190977 1.920000e-06 63.9
28 TraesCS6D01G062100 chrUn 100.000 34 0 0 1952 1985 435267370 435267403 1.920000e-06 63.9
29 TraesCS6D01G062100 chrUn 91.111 45 3 1 1511 1555 112566806 112566849 2.480000e-05 60.2
30 TraesCS6D01G062100 chr7A 89.773 88 8 1 1943 2029 660456420 660456507 6.750000e-21 111.0
31 TraesCS6D01G062100 chr3D 97.143 35 1 0 1954 1988 593077453 593077487 2.480000e-05 60.2
32 TraesCS6D01G062100 chr3A 91.892 37 3 0 1942 1978 12912334 12912298 4.000000e-03 52.8


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 TraesCS6D01G062100 chr6D 28991353 28993664 2311 True 4270.00 4270 100.0000 1 2312 1 chr6D.!!$R1 2311
1 TraesCS6D01G062100 chr6B 54662638 54663174 536 True 682.00 682 89.6870 774 1310 1 chr6B.!!$R1 536
2 TraesCS6D01G062100 chr6B 55694937 55695492 555 True 616.00 616 87.1430 778 1320 1 chr6B.!!$R2 542
3 TraesCS6D01G062100 chr6B 60927278 60929778 2500 False 503.20 1328 87.5970 1 2294 5 chr6B.!!$F3 2293
4 TraesCS6D01G062100 chr6B 78149833 78151289 1456 True 334.05 595 85.5835 1001 1945 2 chr6B.!!$R6 944
5 TraesCS6D01G062100 chr6A 33545617 33550080 4463 False 568.40 1175 88.0088 90 2312 5 chr6A.!!$F1 2222
6 TraesCS6D01G062100 chrUn 103527136 103527696 560 True 641.00 641 87.6740 760 1319 1 chrUn.!!$R1 559

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
394 397 0.318445 CCACTCGGTCGACTCGTTTT 60.318 55.0 16.46 3.94 0.0 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1458 3418 0.039978 AGACGCACTCTGACGAACTG 60.04 55.0 0.0 0.0 0.0 3.16 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
66 67 9.779237 CGACATATAAAATCGTACTCAACATTC 57.221 33.333 0.00 0.00 0.00 2.67
79 80 9.146984 CGTACTCAACATTCAGGAAAGTTATTA 57.853 33.333 2.73 0.00 31.91 0.98
122 123 4.572909 ACTCCTACAACCCGAATAACAAC 58.427 43.478 0.00 0.00 0.00 3.32
131 132 5.094429 ACCCGAATAACAACGTAAACAAC 57.906 39.130 0.00 0.00 0.00 3.32
132 133 4.574013 ACCCGAATAACAACGTAAACAACA 59.426 37.500 0.00 0.00 0.00 3.33
133 134 4.905295 CCCGAATAACAACGTAAACAACAC 59.095 41.667 0.00 0.00 0.00 3.32
137 138 6.633634 CGAATAACAACGTAAACAACACCAAT 59.366 34.615 0.00 0.00 0.00 3.16
149 150 4.432712 ACAACACCAATCTGCTTTTTGAC 58.567 39.130 0.00 0.00 0.00 3.18
150 151 4.081752 ACAACACCAATCTGCTTTTTGACA 60.082 37.500 0.00 0.00 0.00 3.58
151 152 4.045636 ACACCAATCTGCTTTTTGACAC 57.954 40.909 0.00 0.00 0.00 3.67
152 153 3.181476 ACACCAATCTGCTTTTTGACACC 60.181 43.478 0.00 0.00 0.00 4.16
178 179 6.838612 CCCCATTTGATCCCTAAAAATCTACA 59.161 38.462 0.00 0.00 0.00 2.74
183 184 6.266131 TGATCCCTAAAAATCTACAGCCAT 57.734 37.500 0.00 0.00 0.00 4.40
193 194 8.814038 AAAAATCTACAGCCATAACTCATTCT 57.186 30.769 0.00 0.00 0.00 2.40
229 230 4.335416 TCTCAGGAATTTGTAGCCCAAAG 58.665 43.478 5.52 0.00 45.79 2.77
251 252 0.540597 AGGGGCCTTGCTTTCACTTC 60.541 55.000 0.84 0.00 0.00 3.01
256 257 1.581447 CTTGCTTTCACTTCGGCCC 59.419 57.895 0.00 0.00 0.00 5.80
258 259 3.431725 GCTTTCACTTCGGCCCCG 61.432 66.667 0.00 0.00 41.35 5.73
266 267 3.952628 CTTCGGCCCCGTGGAGAAC 62.953 68.421 6.61 0.00 40.74 3.01
271 272 3.717294 CCCCGTGGAGAACCCTGG 61.717 72.222 0.00 0.00 35.38 4.45
276 277 1.003718 GTGGAGAACCCTGGGAACG 60.004 63.158 22.23 0.00 35.38 3.95
277 278 2.046217 GGAGAACCCTGGGAACGC 60.046 66.667 22.23 13.69 0.00 4.84
278 279 2.593956 GGAGAACCCTGGGAACGCT 61.594 63.158 22.23 10.30 0.00 5.07
279 280 1.079057 GAGAACCCTGGGAACGCTC 60.079 63.158 22.23 15.13 0.00 5.03
330 333 1.070914 GGGAGCTCCTATTTAGCGCTT 59.929 52.381 31.36 0.00 44.87 4.68
351 354 3.951775 AAGGCGAAGATGGCTCTATAG 57.048 47.619 0.00 0.00 45.07 1.31
394 397 0.318445 CCACTCGGTCGACTCGTTTT 60.318 55.000 16.46 3.94 0.00 2.43
548 551 9.880064 TTTAAATCGTTCGTGAATTATGTTCAA 57.120 25.926 0.00 0.00 0.00 2.69
703 728 5.415221 GGTGATTCACAAAACCTGTTGAAA 58.585 37.500 18.09 0.00 35.47 2.69
714 739 9.495572 ACAAAACCTGTTGAAATTTTCTTTACA 57.504 25.926 10.33 10.13 32.99 2.41
907 2828 1.810030 CCGGAAACCTCGCAGCTAC 60.810 63.158 0.00 0.00 0.00 3.58
974 2899 3.591835 CGCAACCACCACCACCAC 61.592 66.667 0.00 0.00 0.00 4.16
977 2902 1.827789 CAACCACCACCACCACCAG 60.828 63.158 0.00 0.00 0.00 4.00
983 2919 3.289834 CACCACCACCAGCAGCAC 61.290 66.667 0.00 0.00 0.00 4.40
986 2922 2.516695 CACCACCAGCAGCACACA 60.517 61.111 0.00 0.00 0.00 3.72
988 2924 2.203252 CCACCAGCAGCACACACT 60.203 61.111 0.00 0.00 0.00 3.55
989 2925 2.256591 CCACCAGCAGCACACACTC 61.257 63.158 0.00 0.00 0.00 3.51
1029 2973 4.448976 GGCAAGGGAGGGAAGGGC 62.449 72.222 0.00 0.00 0.00 5.19
1410 3370 2.052237 GAGTGCGTGCGTTGTTGG 60.052 61.111 0.00 0.00 0.00 3.77
1458 3418 1.530293 GCGATGGATCTGAATGCAGTC 59.470 52.381 7.33 7.33 42.84 3.51
1476 3436 0.040336 TCAGTTCGTCAGAGTGCGTC 60.040 55.000 0.00 0.00 0.00 5.19
1510 3470 3.422796 GGTCTCTGTAGTCAGTTCCTCA 58.577 50.000 0.00 0.00 41.91 3.86
1541 3501 4.740268 CGATGAATATGAATGCAATGGGG 58.260 43.478 0.00 0.00 0.00 4.96
1543 3503 5.620654 CGATGAATATGAATGCAATGGGGTC 60.621 44.000 0.00 0.00 0.00 4.46
1637 3988 7.933728 AGTTATTTGCGGTAATTTTCGTTTT 57.066 28.000 0.00 0.00 0.00 2.43
1638 3989 9.460906 AAGTTATTTGCGGTAATTTTCGTTTTA 57.539 25.926 0.00 0.00 0.00 1.52
1653 4015 5.459110 TCGTTTTAATCTTCATACCGTGC 57.541 39.130 0.00 0.00 0.00 5.34
1654 4016 4.031991 TCGTTTTAATCTTCATACCGTGCG 59.968 41.667 0.00 0.00 0.00 5.34
1655 4017 3.936902 TTTAATCTTCATACCGTGCGC 57.063 42.857 0.00 0.00 0.00 6.09
1656 4018 1.483316 TAATCTTCATACCGTGCGCG 58.517 50.000 13.88 13.88 37.95 6.86
1658 4020 0.382873 ATCTTCATACCGTGCGCGTA 59.617 50.000 19.61 11.27 36.15 4.42
1674 4036 3.606384 GCGCGTACAGAGATCGAAATAGA 60.606 47.826 8.43 0.00 0.00 1.98
1675 4037 3.901290 CGCGTACAGAGATCGAAATAGAC 59.099 47.826 0.00 0.00 0.00 2.59
1682 4044 4.526262 CAGAGATCGAAATAGACAGGGGAT 59.474 45.833 0.00 0.00 0.00 3.85
1683 4045 4.770010 AGAGATCGAAATAGACAGGGGATC 59.230 45.833 0.00 0.00 0.00 3.36
1705 4067 1.341209 CAGCCCCCTTTGTTCTGTTTC 59.659 52.381 0.00 0.00 0.00 2.78
1707 4069 1.341209 GCCCCCTTTGTTCTGTTTCTG 59.659 52.381 0.00 0.00 0.00 3.02
1750 4120 0.772124 TCCCAAACCCAGCTCCTCTT 60.772 55.000 0.00 0.00 0.00 2.85
1762 4132 1.681793 GCTCCTCTTCAGCCGTATGTA 59.318 52.381 0.00 0.00 0.00 2.29
1806 4241 3.330267 GTCCAACTGTCTCCATCTGAAC 58.670 50.000 0.00 0.00 0.00 3.18
1807 4242 3.007398 GTCCAACTGTCTCCATCTGAACT 59.993 47.826 0.00 0.00 0.00 3.01
1808 4243 4.220821 GTCCAACTGTCTCCATCTGAACTA 59.779 45.833 0.00 0.00 0.00 2.24
1809 4244 4.220821 TCCAACTGTCTCCATCTGAACTAC 59.779 45.833 0.00 0.00 0.00 2.73
1811 4353 5.406649 CAACTGTCTCCATCTGAACTACTC 58.593 45.833 0.00 0.00 0.00 2.59
1813 4355 5.329399 ACTGTCTCCATCTGAACTACTCTT 58.671 41.667 0.00 0.00 0.00 2.85
1835 4377 1.468520 CGTTGGAATGCTGTACTTGGG 59.531 52.381 0.00 0.00 0.00 4.12
1900 5019 6.018669 GCGATCCTCCTGTTTTTCTGTAATAG 60.019 42.308 0.00 0.00 0.00 1.73
1902 5021 7.549488 CGATCCTCCTGTTTTTCTGTAATAGTT 59.451 37.037 0.00 0.00 0.00 2.24
1906 5040 7.355332 TCCTGTTTTTCTGTAATAGTTACGC 57.645 36.000 0.00 0.00 38.98 4.42
1907 5041 6.930164 TCCTGTTTTTCTGTAATAGTTACGCA 59.070 34.615 0.00 0.00 38.98 5.24
1967 5105 3.070525 ACCCCCTCCGTTCCTAAATAT 57.929 47.619 0.00 0.00 0.00 1.28
1968 5106 4.217924 ACCCCCTCCGTTCCTAAATATA 57.782 45.455 0.00 0.00 0.00 0.86
1969 5107 3.906218 ACCCCCTCCGTTCCTAAATATAC 59.094 47.826 0.00 0.00 0.00 1.47
1970 5108 3.056322 CCCCCTCCGTTCCTAAATATACG 60.056 52.174 0.00 0.00 0.00 3.06
1971 5109 3.828451 CCCCTCCGTTCCTAAATATACGA 59.172 47.826 0.00 0.00 36.16 3.43
1972 5110 4.321527 CCCCTCCGTTCCTAAATATACGAC 60.322 50.000 0.00 0.00 36.16 4.34
1973 5111 4.470462 CCTCCGTTCCTAAATATACGACG 58.530 47.826 0.00 0.00 36.16 5.12
1974 5112 4.023707 CCTCCGTTCCTAAATATACGACGT 60.024 45.833 5.52 5.52 36.16 4.34
2020 5162 6.663093 ACCAAAATGTCATGTATTTAGGAGCA 59.337 34.615 9.84 0.00 0.00 4.26
2023 5165 7.798596 AAATGTCATGTATTTAGGAGCAGAG 57.201 36.000 8.31 0.00 0.00 3.35
2029 5171 3.706594 TGTATTTAGGAGCAGAGGGAGTG 59.293 47.826 0.00 0.00 0.00 3.51
2051 5193 5.049405 GTGTGTTCTAAAACTCTGGTGATGG 60.049 44.000 0.00 0.00 36.30 3.51
2058 5200 3.733443 AACTCTGGTGATGGCAAAAAC 57.267 42.857 0.00 0.00 0.00 2.43
2173 5345 2.450476 ACAATCATCTTGTGCTTCCCC 58.550 47.619 0.00 0.00 0.00 4.81
2174 5347 1.753073 CAATCATCTTGTGCTTCCCCC 59.247 52.381 0.00 0.00 0.00 5.40
2236 5410 2.040145 TCTCTGATGATGTGTGCCCAAA 59.960 45.455 0.00 0.00 0.00 3.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 7.228706 ACTTTCCTGAATGTTGAGTACGATTTT 59.771 33.333 0.00 0.00 0.00 1.82
66 67 9.233232 GTTTGTGAAGTGTTAATAACTTTCCTG 57.767 33.333 4.67 0.00 37.98 3.86
79 80 4.039852 AGTTGTTTGGGTTTGTGAAGTGTT 59.960 37.500 0.00 0.00 0.00 3.32
122 123 3.896648 AGCAGATTGGTGTTGTTTACG 57.103 42.857 0.00 0.00 0.00 3.18
131 132 3.383761 GGTGTCAAAAAGCAGATTGGTG 58.616 45.455 0.00 0.00 0.00 4.17
132 133 2.365293 GGGTGTCAAAAAGCAGATTGGT 59.635 45.455 0.00 0.00 0.00 3.67
133 134 2.289010 GGGGTGTCAAAAAGCAGATTGG 60.289 50.000 0.00 0.00 0.00 3.16
137 138 3.125520 GGGGGTGTCAAAAAGCAGA 57.874 52.632 0.00 0.00 0.00 4.26
152 153 5.218959 AGATTTTTAGGGATCAAATGGGGG 58.781 41.667 0.00 0.00 0.00 5.40
157 158 7.125391 TGGCTGTAGATTTTTAGGGATCAAAT 58.875 34.615 0.00 0.00 0.00 2.32
168 169 8.814038 AGAATGAGTTATGGCTGTAGATTTTT 57.186 30.769 0.00 0.00 0.00 1.94
178 179 7.066766 GTGAATTCTTGAGAATGAGTTATGGCT 59.933 37.037 7.05 0.00 43.41 4.75
183 184 9.730705 AGAATGTGAATTCTTGAGAATGAGTTA 57.269 29.630 7.05 0.00 43.41 2.24
193 194 8.301720 CAAATTCCTGAGAATGTGAATTCTTGA 58.698 33.333 7.05 0.00 46.75 3.02
229 230 0.318441 GTGAAAGCAAGGCCCCTTTC 59.682 55.000 23.84 23.84 44.39 2.62
256 257 2.221299 TTCCCAGGGTTCTCCACGG 61.221 63.158 5.01 0.00 38.24 4.94
258 259 1.003718 CGTTCCCAGGGTTCTCCAC 60.004 63.158 5.01 0.00 38.24 4.02
262 263 2.593956 GGAGCGTTCCCAGGGTTCT 61.594 63.158 7.13 0.00 37.53 3.01
271 272 5.124936 ACAAATATAAACTTGGGAGCGTTCC 59.875 40.000 10.28 10.28 43.23 3.62
276 277 6.806739 GTGTCAACAAATATAAACTTGGGAGC 59.193 38.462 0.00 0.00 0.00 4.70
277 278 7.040062 TGGTGTCAACAAATATAAACTTGGGAG 60.040 37.037 0.00 0.00 0.00 4.30
278 279 6.778069 TGGTGTCAACAAATATAAACTTGGGA 59.222 34.615 0.00 0.00 0.00 4.37
279 280 6.987386 TGGTGTCAACAAATATAAACTTGGG 58.013 36.000 0.00 0.00 0.00 4.12
285 286 9.319143 CCAAGTTTTGGTGTCAACAAATATAAA 57.681 29.630 16.58 0.00 45.93 1.40
330 333 3.193691 GCTATAGAGCCATCTTCGCCTTA 59.806 47.826 3.21 0.00 43.49 2.69
351 354 4.994201 TGTCGGTCGAGCGTGTGC 62.994 66.667 32.99 21.75 43.24 4.57
356 359 1.371267 TTTGAGTGTCGGTCGAGCG 60.371 57.895 29.80 29.80 0.00 5.03
413 416 4.365514 TTTTCTGTGGGAGAGCATACAA 57.634 40.909 0.00 0.00 30.18 2.41
529 532 8.686418 TGAAATTTTGAACATAATTCACGAACG 58.314 29.630 0.00 0.00 0.00 3.95
642 661 3.396260 TTCCACTCGGGTTTTGTCTAG 57.604 47.619 0.00 0.00 38.11 2.43
684 709 8.791327 AGAAAATTTCAACAGGTTTTGTGAAT 57.209 26.923 8.55 0.00 40.74 2.57
685 710 8.614469 AAGAAAATTTCAACAGGTTTTGTGAA 57.386 26.923 8.55 0.00 40.74 3.18
724 749 9.601217 ACGCTCATATAAAGACTATTTGTTTCT 57.399 29.630 0.00 0.00 0.00 2.52
725 750 9.638300 CACGCTCATATAAAGACTATTTGTTTC 57.362 33.333 0.00 0.00 0.00 2.78
726 751 8.122952 GCACGCTCATATAAAGACTATTTGTTT 58.877 33.333 0.00 0.00 0.00 2.83
729 754 7.169813 TGAGCACGCTCATATAAAGACTATTTG 59.830 37.037 17.54 0.00 46.80 2.32
749 833 3.050275 GTGGGCGGAAGTGAGCAC 61.050 66.667 0.00 0.00 37.28 4.40
811 2731 1.915769 GGCTGTGAGTGGGGAGACT 60.916 63.158 0.00 0.00 0.00 3.24
812 2732 1.557269 ATGGCTGTGAGTGGGGAGAC 61.557 60.000 0.00 0.00 0.00 3.36
907 2828 4.418328 TCGGGCGTGGGGGATTTG 62.418 66.667 0.00 0.00 0.00 2.32
927 2849 2.109126 GCGAGGTGAGTTGGATGGC 61.109 63.158 0.00 0.00 0.00 4.40
935 2857 2.842462 TGTGGTGGCGAGGTGAGT 60.842 61.111 0.00 0.00 0.00 3.41
963 2888 2.595463 CTGCTGGTGGTGGTGGTG 60.595 66.667 0.00 0.00 0.00 4.17
974 2899 0.533531 TTCTGAGTGTGTGCTGCTGG 60.534 55.000 0.00 0.00 0.00 4.85
977 2902 1.573436 GCTTCTGAGTGTGTGCTGC 59.427 57.895 0.00 0.00 0.00 5.25
983 2919 2.665537 GACATCTTCGCTTCTGAGTGTG 59.334 50.000 0.00 0.00 34.94 3.82
986 2922 1.135257 CGGACATCTTCGCTTCTGAGT 60.135 52.381 0.00 0.00 0.00 3.41
988 2924 0.173481 CCGGACATCTTCGCTTCTGA 59.827 55.000 0.00 0.00 0.00 3.27
989 2925 1.424493 GCCGGACATCTTCGCTTCTG 61.424 60.000 5.05 0.00 0.00 3.02
1068 3012 3.499737 CCCTGGATGTTGTCGCGC 61.500 66.667 0.00 0.00 0.00 6.86
1325 3270 3.323115 TCGATGGAGATTGGAGATTGGAG 59.677 47.826 0.00 0.00 0.00 3.86
1327 3272 3.070734 AGTCGATGGAGATTGGAGATTGG 59.929 47.826 0.00 0.00 0.00 3.16
1329 3274 4.039004 CAGAGTCGATGGAGATTGGAGATT 59.961 45.833 0.00 0.00 0.00 2.40
1330 3275 3.573538 CAGAGTCGATGGAGATTGGAGAT 59.426 47.826 0.00 0.00 0.00 2.75
1331 3276 2.954989 CAGAGTCGATGGAGATTGGAGA 59.045 50.000 0.00 0.00 0.00 3.71
1410 3370 3.442977 ACTAACTACACAGACCGATGGAC 59.557 47.826 0.00 0.00 0.00 4.02
1458 3418 0.039978 AGACGCACTCTGACGAACTG 60.040 55.000 0.00 0.00 0.00 3.16
1476 3436 4.909696 ACAGAGACCGATAGATCAACAG 57.090 45.455 0.00 0.00 39.76 3.16
1482 3442 5.298989 ACTGACTACAGAGACCGATAGAT 57.701 43.478 0.00 0.00 46.03 1.98
1510 3470 4.422073 TTCATATTCATCGCCTTCCACT 57.578 40.909 0.00 0.00 0.00 4.00
1541 3501 7.746475 CAGATTCAAATAGAAAGAACCAACGAC 59.254 37.037 0.00 0.00 40.22 4.34
1543 3503 7.023575 CCAGATTCAAATAGAAAGAACCAACG 58.976 38.462 0.00 0.00 40.22 4.10
1618 3969 8.576936 AAGATTAAAACGAAAATTACCGCAAA 57.423 26.923 0.00 0.00 0.00 3.68
1637 3988 1.202325 ACGCGCACGGTATGAAGATTA 60.202 47.619 5.73 0.00 46.04 1.75
1638 3989 0.459585 ACGCGCACGGTATGAAGATT 60.460 50.000 5.73 0.00 46.04 2.40
1650 4012 0.522705 TTCGATCTCTGTACGCGCAC 60.523 55.000 5.73 3.42 0.00 5.34
1651 4013 0.169451 TTTCGATCTCTGTACGCGCA 59.831 50.000 5.73 0.00 0.00 6.09
1653 4015 3.901290 GTCTATTTCGATCTCTGTACGCG 59.099 47.826 3.53 3.53 0.00 6.01
1654 4016 4.845387 TGTCTATTTCGATCTCTGTACGC 58.155 43.478 0.00 0.00 0.00 4.42
1655 4017 5.444983 CCTGTCTATTTCGATCTCTGTACG 58.555 45.833 0.00 0.00 0.00 3.67
1656 4018 5.278561 CCCCTGTCTATTTCGATCTCTGTAC 60.279 48.000 0.00 0.00 0.00 2.90
1658 4020 3.639094 CCCCTGTCTATTTCGATCTCTGT 59.361 47.826 0.00 0.00 0.00 3.41
1682 4044 1.778383 AGAACAAAGGGGGCTGGGA 60.778 57.895 0.00 0.00 0.00 4.37
1683 4045 1.607467 CAGAACAAAGGGGGCTGGG 60.607 63.158 0.00 0.00 0.00 4.45
1705 4067 2.843077 CTGCACAACGAAATACAGCAG 58.157 47.619 0.00 0.00 41.45 4.24
1707 4069 2.480419 AGACTGCACAACGAAATACAGC 59.520 45.455 0.00 0.00 0.00 4.40
1750 4120 1.820519 ACCTCGTTTACATACGGCTGA 59.179 47.619 0.00 0.00 41.67 4.26
1762 4132 0.328258 CATCCCCTTCCACCTCGTTT 59.672 55.000 0.00 0.00 0.00 3.60
1806 4241 2.094894 CAGCATTCCAACGCAAGAGTAG 59.905 50.000 0.00 0.00 43.62 2.57
1807 4242 2.076100 CAGCATTCCAACGCAAGAGTA 58.924 47.619 0.00 0.00 43.62 2.59
1808 4243 0.877071 CAGCATTCCAACGCAAGAGT 59.123 50.000 0.00 0.00 43.62 3.24
1809 4244 0.877071 ACAGCATTCCAACGCAAGAG 59.123 50.000 0.00 0.00 43.62 2.85
1813 4355 1.535028 CAAGTACAGCATTCCAACGCA 59.465 47.619 0.00 0.00 0.00 5.24
1900 5019 8.556517 AAAAACTTAAATTCAGAGTGCGTAAC 57.443 30.769 0.00 0.00 0.00 2.50
1927 5065 7.792736 AGGGGGTACATAAGTATAACTGATGAA 59.207 37.037 10.73 0.00 39.04 2.57
1942 5080 0.638292 AGGAACGGAGGGGGTACATA 59.362 55.000 0.00 0.00 0.00 2.29
1949 5087 3.828451 TCGTATATTTAGGAACGGAGGGG 59.172 47.826 0.00 0.00 36.08 4.79
1967 5105 7.706281 TCAATTAAACTACCAAAACGTCGTA 57.294 32.000 0.00 0.00 0.00 3.43
1968 5106 6.601741 TCAATTAAACTACCAAAACGTCGT 57.398 33.333 0.00 0.00 0.00 4.34
1969 5107 7.127686 AGTTCAATTAAACTACCAAAACGTCG 58.872 34.615 0.00 0.00 37.71 5.12
2002 5144 4.101585 CCCTCTGCTCCTAAATACATGACA 59.898 45.833 0.00 0.00 0.00 3.58
2020 5162 4.902448 AGAGTTTTAGAACACACTCCCTCT 59.098 41.667 0.00 0.00 37.02 3.69
2023 5165 4.065789 CCAGAGTTTTAGAACACACTCCC 58.934 47.826 0.00 0.00 37.02 4.30
2029 5171 4.083271 GCCATCACCAGAGTTTTAGAACAC 60.083 45.833 0.00 0.00 38.26 3.32
2197 5370 5.053145 CAGAGAGGAGAAAAATATGTCCCG 58.947 45.833 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.