Multiple sequence alignment - TraesCS5B01G385200

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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 TraesCS5B01G385200 chr5B 100.000 2549 0 0 1 2549 564497785 564500333 0.000000e+00 4708
1 TraesCS5B01G385200 chr5B 98.692 1988 21 3 565 2549 641128786 641126801 0.000000e+00 3522
2 TraesCS5B01G385200 chr5B 82.833 600 54 22 1 570 377133052 377132472 2.280000e-135 492
3 TraesCS5B01G385200 chr5B 83.843 458 38 19 1 437 333529 333971 1.100000e-108 403
4 TraesCS5B01G385200 chr5B 83.624 458 38 22 1 437 1682351 1682792 1.840000e-106 396
5 TraesCS5B01G385200 chrUn 98.989 1979 18 1 571 2549 175762113 175764089 0.000000e+00 3542
6 TraesCS5B01G385200 chrUn 83.736 455 38 19 4 437 144591864 144591425 5.110000e-107 398
7 TraesCS5B01G385200 chrUn 83.297 455 40 19 4 437 235241781 235241342 1.110000e-103 387
8 TraesCS5B01G385200 chrUn 82.969 458 42 19 1 437 146576478 146576920 5.150000e-102 381
9 TraesCS5B01G385200 chr7B 98.990 1980 16 2 570 2549 202776915 202778890 0.000000e+00 3542
10 TraesCS5B01G385200 chr2B 98.841 1984 20 2 567 2549 776222958 776224939 0.000000e+00 3533
11 TraesCS5B01G385200 chr2B 98.548 1997 24 4 554 2549 781094226 781096218 0.000000e+00 3522
12 TraesCS5B01G385200 chr2B 93.878 147 8 1 427 573 186237703 186237558 1.190000e-53 220
13 TraesCS5B01G385200 chr3B 98.838 1980 21 1 570 2549 702857655 702855678 0.000000e+00 3528
14 TraesCS5B01G385200 chr7A 98.789 1982 21 2 569 2549 39015366 39017345 0.000000e+00 3524
15 TraesCS5B01G385200 chr3A 98.788 1981 22 1 569 2549 54951916 54953894 0.000000e+00 3524
16 TraesCS5B01G385200 chr1B 98.691 1986 23 2 565 2549 302243306 302241323 0.000000e+00 3520
17 TraesCS5B01G385200 chr1B 85.549 346 35 8 233 569 25257133 25257472 5.220000e-92 348
18 TraesCS5B01G385200 chr1B 85.185 351 35 14 232 573 25841019 25840677 6.750000e-91 344
19 TraesCS5B01G385200 chr1B 84.682 346 39 12 232 570 25865560 25865222 1.460000e-87 333
20 TraesCS5B01G385200 chr1B 83.668 349 43 12 232 573 25858902 25858561 1.470000e-82 316
21 TraesCS5B01G385200 chr1B 84.615 325 37 11 254 572 25869036 25868719 6.850000e-81 311
22 TraesCS5B01G385200 chr6B 83.527 601 53 23 1 570 690886027 690886612 1.050000e-143 520
23 TraesCS5B01G385200 chr6B 83.547 468 59 15 111 570 678993257 678993714 3.030000e-114 422
24 TraesCS5B01G385200 chr4A 76.531 392 63 25 119 501 571916128 571915757 1.200000e-43 187
25 TraesCS5B01G385200 chr6A 74.300 393 71 24 119 501 8824630 8824258 3.420000e-29 139
26 TraesCS5B01G385200 chr6A 74.807 389 56 23 64 429 176989763 176990132 1.230000e-28 137
27 TraesCS5B01G385200 chr5A 74.760 313 62 16 119 429 655307881 655308178 9.580000e-25 124


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 TraesCS5B01G385200 chr5B 564497785 564500333 2548 False 4708 4708 100.0000 1 2549 1 chr5B.!!$F3 2548
1 TraesCS5B01G385200 chr5B 641126801 641128786 1985 True 3522 3522 98.6920 565 2549 1 chr5B.!!$R2 1984
2 TraesCS5B01G385200 chr5B 377132472 377133052 580 True 492 492 82.8330 1 570 1 chr5B.!!$R1 569
3 TraesCS5B01G385200 chrUn 175762113 175764089 1976 False 3542 3542 98.9890 571 2549 1 chrUn.!!$F2 1978
4 TraesCS5B01G385200 chr7B 202776915 202778890 1975 False 3542 3542 98.9900 570 2549 1 chr7B.!!$F1 1979
5 TraesCS5B01G385200 chr2B 776222958 776224939 1981 False 3533 3533 98.8410 567 2549 1 chr2B.!!$F1 1982
6 TraesCS5B01G385200 chr2B 781094226 781096218 1992 False 3522 3522 98.5480 554 2549 1 chr2B.!!$F2 1995
7 TraesCS5B01G385200 chr3B 702855678 702857655 1977 True 3528 3528 98.8380 570 2549 1 chr3B.!!$R1 1979
8 TraesCS5B01G385200 chr7A 39015366 39017345 1979 False 3524 3524 98.7890 569 2549 1 chr7A.!!$F1 1980
9 TraesCS5B01G385200 chr3A 54951916 54953894 1978 False 3524 3524 98.7880 569 2549 1 chr3A.!!$F1 1980
10 TraesCS5B01G385200 chr1B 302241323 302243306 1983 True 3520 3520 98.6910 565 2549 1 chr1B.!!$R3 1984
11 TraesCS5B01G385200 chr1B 25865222 25869036 3814 True 322 333 84.6485 232 572 2 chr1B.!!$R4 340
12 TraesCS5B01G385200 chr6B 690886027 690886612 585 False 520 520 83.5270 1 570 1 chr6B.!!$F2 569

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
152 153 0.234625 TTTGTCGCACGAAGCATCAC 59.765 50.0 0.0 0.0 46.13 3.06 F
154 155 0.670239 TGTCGCACGAAGCATCACAT 60.670 50.0 0.0 0.0 46.13 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1216 1223 5.163784 CCTGCATGAACACTAAACAGATCAG 60.164 44.000 0.00 0.0 0.00 2.90 R
1960 2035 9.305925 GAATTGGATTAATTAACAGCTCCAAAG 57.694 33.333 24.51 0.0 43.71 2.77 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
55 56 4.610605 TTTTTGTGGTCCATCTCGTAGA 57.389 40.909 0.00 0.00 0.00 2.59
56 57 4.610605 TTTTGTGGTCCATCTCGTAGAA 57.389 40.909 0.00 0.00 34.09 2.10
57 58 4.610605 TTTGTGGTCCATCTCGTAGAAA 57.389 40.909 0.00 0.00 34.09 2.52
58 59 4.610605 TTGTGGTCCATCTCGTAGAAAA 57.389 40.909 0.00 0.00 34.09 2.29
59 60 4.610605 TGTGGTCCATCTCGTAGAAAAA 57.389 40.909 0.00 0.00 34.09 1.94
83 84 5.818136 AATGTCCAGAATTTCGTACATGG 57.182 39.130 12.14 5.55 0.00 3.66
84 85 3.605634 TGTCCAGAATTTCGTACATGGG 58.394 45.455 0.00 0.00 0.00 4.00
85 86 2.354821 GTCCAGAATTTCGTACATGGGC 59.645 50.000 0.00 0.00 0.00 5.36
86 87 2.238646 TCCAGAATTTCGTACATGGGCT 59.761 45.455 0.00 0.00 0.00 5.19
87 88 3.016736 CCAGAATTTCGTACATGGGCTT 58.983 45.455 0.00 0.00 0.00 4.35
88 89 3.181497 CCAGAATTTCGTACATGGGCTTG 60.181 47.826 0.00 0.00 0.00 4.01
89 90 2.423538 AGAATTTCGTACATGGGCTTGC 59.576 45.455 0.00 0.00 0.00 4.01
90 91 1.832883 ATTTCGTACATGGGCTTGCA 58.167 45.000 0.00 0.00 0.00 4.08
91 92 0.878416 TTTCGTACATGGGCTTGCAC 59.122 50.000 0.00 0.00 0.00 4.57
92 93 1.295357 TTCGTACATGGGCTTGCACG 61.295 55.000 0.00 7.21 37.65 5.34
93 94 2.485122 GTACATGGGCTTGCACGC 59.515 61.111 6.64 6.64 0.00 5.34
94 95 3.124270 TACATGGGCTTGCACGCG 61.124 61.111 3.53 3.53 0.00 6.01
97 98 4.776322 ATGGGCTTGCACGCGCTA 62.776 61.111 28.14 17.17 42.62 4.26
98 99 4.998400 TGGGCTTGCACGCGCTAA 62.998 61.111 28.14 10.50 42.62 3.09
99 100 4.166011 GGGCTTGCACGCGCTAAG 62.166 66.667 22.65 9.70 39.48 2.18
100 101 4.166011 GGCTTGCACGCGCTAAGG 62.166 66.667 5.73 0.00 39.64 2.69
101 102 4.818835 GCTTGCACGCGCTAAGGC 62.819 66.667 5.73 2.84 39.64 4.35
102 103 4.166011 CTTGCACGCGCTAAGGCC 62.166 66.667 5.73 0.00 39.64 5.19
106 107 4.451150 CACGCGCTAAGGCCCAGA 62.451 66.667 5.73 0.00 34.44 3.86
107 108 4.148825 ACGCGCTAAGGCCCAGAG 62.149 66.667 5.73 0.00 34.44 3.35
108 109 3.838271 CGCGCTAAGGCCCAGAGA 61.838 66.667 5.56 0.00 34.44 3.10
109 110 2.584608 GCGCTAAGGCCCAGAGAA 59.415 61.111 9.53 0.00 34.44 2.87
110 111 1.522580 GCGCTAAGGCCCAGAGAAG 60.523 63.158 9.53 0.15 34.44 2.85
111 112 1.522580 CGCTAAGGCCCAGAGAAGC 60.523 63.158 0.00 0.00 34.44 3.86
116 117 3.650950 GGCCCAGAGAAGCCCACA 61.651 66.667 0.00 0.00 43.76 4.17
117 118 2.045536 GCCCAGAGAAGCCCACAG 60.046 66.667 0.00 0.00 0.00 3.66
118 119 2.596851 GCCCAGAGAAGCCCACAGA 61.597 63.158 0.00 0.00 0.00 3.41
119 120 1.601171 CCCAGAGAAGCCCACAGAG 59.399 63.158 0.00 0.00 0.00 3.35
120 121 1.078567 CCAGAGAAGCCCACAGAGC 60.079 63.158 0.00 0.00 0.00 4.09
121 122 1.551908 CCAGAGAAGCCCACAGAGCT 61.552 60.000 0.00 0.00 44.19 4.09
122 123 0.391395 CAGAGAAGCCCACAGAGCTG 60.391 60.000 0.00 0.00 40.49 4.24
123 124 1.078567 GAGAAGCCCACAGAGCTGG 60.079 63.158 0.00 0.00 40.49 4.85
143 144 2.846693 GGAAACCTTATTTGTCGCACG 58.153 47.619 0.00 0.00 0.00 5.34
144 145 2.481185 GGAAACCTTATTTGTCGCACGA 59.519 45.455 0.00 0.00 0.00 4.35
145 146 3.058777 GGAAACCTTATTTGTCGCACGAA 60.059 43.478 0.00 0.00 0.00 3.85
146 147 3.806316 AACCTTATTTGTCGCACGAAG 57.194 42.857 0.00 0.00 0.00 3.79
147 148 1.463444 ACCTTATTTGTCGCACGAAGC 59.537 47.619 0.00 0.00 40.87 3.86
148 149 1.463056 CCTTATTTGTCGCACGAAGCA 59.537 47.619 0.00 0.00 46.13 3.91
149 150 2.095853 CCTTATTTGTCGCACGAAGCAT 59.904 45.455 0.00 0.00 46.13 3.79
150 151 3.345714 CTTATTTGTCGCACGAAGCATC 58.654 45.455 0.00 0.00 46.13 3.91
151 152 1.155889 ATTTGTCGCACGAAGCATCA 58.844 45.000 0.00 0.00 46.13 3.07
152 153 0.234625 TTTGTCGCACGAAGCATCAC 59.765 50.000 0.00 0.00 46.13 3.06
153 154 0.878086 TTGTCGCACGAAGCATCACA 60.878 50.000 0.00 0.00 46.13 3.58
154 155 0.670239 TGTCGCACGAAGCATCACAT 60.670 50.000 0.00 0.00 46.13 3.21
155 156 1.277326 GTCGCACGAAGCATCACATA 58.723 50.000 0.00 0.00 46.13 2.29
156 157 1.256376 GTCGCACGAAGCATCACATAG 59.744 52.381 0.00 0.00 46.13 2.23
157 158 1.135112 TCGCACGAAGCATCACATAGT 60.135 47.619 0.00 0.00 46.13 2.12
158 159 1.660607 CGCACGAAGCATCACATAGTT 59.339 47.619 0.00 0.00 46.13 2.24
159 160 2.535534 CGCACGAAGCATCACATAGTTG 60.536 50.000 0.00 0.00 46.13 3.16
160 161 2.223112 GCACGAAGCATCACATAGTTGG 60.223 50.000 0.00 0.00 44.79 3.77
161 162 3.261580 CACGAAGCATCACATAGTTGGA 58.738 45.455 0.00 0.00 0.00 3.53
162 163 3.873361 CACGAAGCATCACATAGTTGGAT 59.127 43.478 0.00 0.00 0.00 3.41
163 164 4.025396 CACGAAGCATCACATAGTTGGATC 60.025 45.833 0.00 0.00 0.00 3.36
164 165 4.141846 ACGAAGCATCACATAGTTGGATCT 60.142 41.667 0.00 0.00 0.00 2.75
165 166 4.813161 CGAAGCATCACATAGTTGGATCTT 59.187 41.667 0.00 0.00 0.00 2.40
166 167 5.050499 CGAAGCATCACATAGTTGGATCTTC 60.050 44.000 0.00 0.00 0.00 2.87
167 168 4.375272 AGCATCACATAGTTGGATCTTCG 58.625 43.478 0.00 0.00 0.00 3.79
168 169 3.059325 GCATCACATAGTTGGATCTTCGC 60.059 47.826 0.00 0.00 0.00 4.70
169 170 3.885724 TCACATAGTTGGATCTTCGCA 57.114 42.857 0.00 0.00 0.00 5.10
170 171 4.406648 TCACATAGTTGGATCTTCGCAT 57.593 40.909 0.00 0.00 0.00 4.73
171 172 5.529581 TCACATAGTTGGATCTTCGCATA 57.470 39.130 0.00 0.00 0.00 3.14
172 173 5.532557 TCACATAGTTGGATCTTCGCATAG 58.467 41.667 0.00 0.00 0.00 2.23
173 174 4.687948 CACATAGTTGGATCTTCGCATAGG 59.312 45.833 0.00 0.00 0.00 2.57
174 175 4.345257 ACATAGTTGGATCTTCGCATAGGT 59.655 41.667 0.00 0.00 0.00 3.08
175 176 3.914426 AGTTGGATCTTCGCATAGGTT 57.086 42.857 0.00 0.00 0.00 3.50
176 177 3.535561 AGTTGGATCTTCGCATAGGTTG 58.464 45.455 0.00 0.00 0.00 3.77
205 206 3.266240 GGTCGGCCCATTCTCTTTT 57.734 52.632 0.00 0.00 0.00 2.27
206 207 1.545841 GGTCGGCCCATTCTCTTTTT 58.454 50.000 0.00 0.00 0.00 1.94
207 208 1.472878 GGTCGGCCCATTCTCTTTTTC 59.527 52.381 0.00 0.00 0.00 2.29
208 209 2.437413 GTCGGCCCATTCTCTTTTTCT 58.563 47.619 0.00 0.00 0.00 2.52
209 210 2.420372 GTCGGCCCATTCTCTTTTTCTC 59.580 50.000 0.00 0.00 0.00 2.87
210 211 2.305927 TCGGCCCATTCTCTTTTTCTCT 59.694 45.455 0.00 0.00 0.00 3.10
211 212 2.421424 CGGCCCATTCTCTTTTTCTCTG 59.579 50.000 0.00 0.00 0.00 3.35
212 213 3.425659 GGCCCATTCTCTTTTTCTCTGT 58.574 45.455 0.00 0.00 0.00 3.41
213 214 3.192212 GGCCCATTCTCTTTTTCTCTGTG 59.808 47.826 0.00 0.00 0.00 3.66
214 215 3.823304 GCCCATTCTCTTTTTCTCTGTGT 59.177 43.478 0.00 0.00 0.00 3.72
215 216 4.279420 GCCCATTCTCTTTTTCTCTGTGTT 59.721 41.667 0.00 0.00 0.00 3.32
216 217 5.563671 GCCCATTCTCTTTTTCTCTGTGTTC 60.564 44.000 0.00 0.00 0.00 3.18
217 218 5.767168 CCCATTCTCTTTTTCTCTGTGTTCT 59.233 40.000 0.00 0.00 0.00 3.01
218 219 6.264067 CCCATTCTCTTTTTCTCTGTGTTCTT 59.736 38.462 0.00 0.00 0.00 2.52
219 220 7.445402 CCCATTCTCTTTTTCTCTGTGTTCTTA 59.555 37.037 0.00 0.00 0.00 2.10
220 221 9.007901 CCATTCTCTTTTTCTCTGTGTTCTTAT 57.992 33.333 0.00 0.00 0.00 1.73
360 361 7.806409 ATTTCCAAATTTGTTCCCTTTTCAG 57.194 32.000 16.73 0.00 0.00 3.02
534 539 6.831727 TTGCTGAAATGTTCACAAATTCAG 57.168 33.333 22.50 22.50 45.95 3.02
537 542 6.476380 TGCTGAAATGTTCACAAATTCAGAAC 59.524 34.615 26.99 17.46 46.02 3.01
628 633 2.787994 CTCAGTTTTGCCCTCAGATGT 58.212 47.619 0.00 0.00 0.00 3.06
746 751 2.044946 GGACCAGGCGGCAGAAAT 60.045 61.111 13.08 0.00 34.57 2.17
858 863 4.760047 GGCGACAGCGGTGGTGAT 62.760 66.667 20.20 0.00 46.35 3.06
897 904 3.371063 GGTGACCACGGCGAGAGA 61.371 66.667 16.62 0.00 0.00 3.10
898 905 2.179517 GTGACCACGGCGAGAGAG 59.820 66.667 16.62 0.00 0.00 3.20
1216 1223 0.176449 GGGATGTTTGAGCAATGGGC 59.824 55.000 0.00 0.00 45.30 5.36
2465 5502 5.010282 AGTGGCACTTGGTTTAGGATTTAG 58.990 41.667 15.88 0.00 0.00 1.85
2501 5579 9.979578 ATTTGCATGTTAGTTCATGACTTTTTA 57.020 25.926 10.28 0.00 45.41 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 4.610605 TCTACGAGATGGACCACAAAAA 57.389 40.909 0.00 0.00 0.00 1.94
35 36 4.610605 TTCTACGAGATGGACCACAAAA 57.389 40.909 0.00 0.00 0.00 2.44
36 37 4.610605 TTTCTACGAGATGGACCACAAA 57.389 40.909 0.00 0.00 0.00 2.83
37 38 4.610605 TTTTCTACGAGATGGACCACAA 57.389 40.909 0.00 0.00 0.00 3.33
38 39 4.610605 TTTTTCTACGAGATGGACCACA 57.389 40.909 0.00 0.00 0.00 4.17
58 59 7.090173 CCATGTACGAAATTCTGGACATTTTT 58.910 34.615 11.15 0.00 0.00 1.94
59 60 6.350110 CCCATGTACGAAATTCTGGACATTTT 60.350 38.462 11.15 0.00 0.00 1.82
60 61 5.125417 CCCATGTACGAAATTCTGGACATTT 59.875 40.000 11.15 0.00 0.00 2.32
61 62 4.640201 CCCATGTACGAAATTCTGGACATT 59.360 41.667 11.15 0.00 0.00 2.71
62 63 4.199310 CCCATGTACGAAATTCTGGACAT 58.801 43.478 8.96 8.96 0.00 3.06
63 64 3.605634 CCCATGTACGAAATTCTGGACA 58.394 45.455 5.61 5.61 0.00 4.02
64 65 2.354821 GCCCATGTACGAAATTCTGGAC 59.645 50.000 0.00 0.00 0.00 4.02
65 66 2.238646 AGCCCATGTACGAAATTCTGGA 59.761 45.455 0.00 0.00 0.00 3.86
66 67 2.643551 AGCCCATGTACGAAATTCTGG 58.356 47.619 0.00 0.00 0.00 3.86
67 68 3.731867 GCAAGCCCATGTACGAAATTCTG 60.732 47.826 0.00 0.00 0.00 3.02
68 69 2.423538 GCAAGCCCATGTACGAAATTCT 59.576 45.455 0.00 0.00 0.00 2.40
69 70 2.163412 TGCAAGCCCATGTACGAAATTC 59.837 45.455 0.00 0.00 0.00 2.17
70 71 2.094752 GTGCAAGCCCATGTACGAAATT 60.095 45.455 0.00 0.00 0.00 1.82
71 72 1.472480 GTGCAAGCCCATGTACGAAAT 59.528 47.619 0.00 0.00 0.00 2.17
72 73 0.878416 GTGCAAGCCCATGTACGAAA 59.122 50.000 0.00 0.00 0.00 3.46
73 74 2.550487 GTGCAAGCCCATGTACGAA 58.450 52.632 0.00 0.00 0.00 3.85
74 75 4.294523 GTGCAAGCCCATGTACGA 57.705 55.556 0.00 0.00 0.00 3.43
76 77 2.485122 GCGTGCAAGCCCATGTAC 59.515 61.111 14.16 0.00 33.23 2.90
77 78 3.124270 CGCGTGCAAGCCCATGTA 61.124 61.111 19.11 0.00 0.00 2.29
80 81 4.776322 TAGCGCGTGCAAGCCCAT 62.776 61.111 24.79 7.51 46.23 4.00
81 82 4.998400 TTAGCGCGTGCAAGCCCA 62.998 61.111 24.79 1.16 46.23 5.36
82 83 4.166011 CTTAGCGCGTGCAAGCCC 62.166 66.667 24.79 10.29 46.23 5.19
83 84 4.166011 CCTTAGCGCGTGCAAGCC 62.166 66.667 24.79 11.54 46.23 4.35
84 85 4.818835 GCCTTAGCGCGTGCAAGC 62.819 66.667 24.79 15.13 46.23 4.01
85 86 4.166011 GGCCTTAGCGCGTGCAAG 62.166 66.667 24.79 21.58 46.23 4.01
93 94 1.522580 GCTTCTCTGGGCCTTAGCG 60.523 63.158 4.53 0.00 41.24 4.26
94 95 1.153066 GGCTTCTCTGGGCCTTAGC 60.153 63.158 4.53 6.25 44.48 3.09
95 96 1.529309 GGGCTTCTCTGGGCCTTAG 59.471 63.158 4.53 1.33 46.80 2.18
96 97 3.741325 GGGCTTCTCTGGGCCTTA 58.259 61.111 4.53 0.00 46.80 2.69
100 101 2.045536 CTGTGGGCTTCTCTGGGC 60.046 66.667 0.00 0.00 0.00 5.36
101 102 1.601171 CTCTGTGGGCTTCTCTGGG 59.399 63.158 0.00 0.00 0.00 4.45
102 103 1.078567 GCTCTGTGGGCTTCTCTGG 60.079 63.158 0.00 0.00 0.00 3.86
103 104 0.391395 CAGCTCTGTGGGCTTCTCTG 60.391 60.000 0.00 0.00 38.03 3.35
104 105 1.551908 CCAGCTCTGTGGGCTTCTCT 61.552 60.000 0.00 0.00 38.03 3.10
105 106 1.078567 CCAGCTCTGTGGGCTTCTC 60.079 63.158 0.00 0.00 38.03 2.87
106 107 3.076092 CCAGCTCTGTGGGCTTCT 58.924 61.111 0.00 0.00 38.03 2.85
112 113 0.111253 AAGGTTTCCCAGCTCTGTGG 59.889 55.000 0.00 0.00 37.34 4.17
113 114 2.859165 TAAGGTTTCCCAGCTCTGTG 57.141 50.000 0.00 0.00 30.69 3.66
114 115 4.082125 CAAATAAGGTTTCCCAGCTCTGT 58.918 43.478 0.00 0.00 30.69 3.41
115 116 4.082125 ACAAATAAGGTTTCCCAGCTCTG 58.918 43.478 0.00 0.00 30.69 3.35
116 117 4.336280 GACAAATAAGGTTTCCCAGCTCT 58.664 43.478 0.00 0.00 30.69 4.09
117 118 3.127030 CGACAAATAAGGTTTCCCAGCTC 59.873 47.826 0.00 0.00 30.69 4.09
118 119 3.081804 CGACAAATAAGGTTTCCCAGCT 58.918 45.455 0.00 0.00 33.27 4.24
119 120 2.415491 GCGACAAATAAGGTTTCCCAGC 60.415 50.000 0.00 0.00 0.00 4.85
120 121 2.817258 TGCGACAAATAAGGTTTCCCAG 59.183 45.455 0.00 0.00 0.00 4.45
121 122 2.554893 GTGCGACAAATAAGGTTTCCCA 59.445 45.455 0.00 0.00 0.00 4.37
122 123 2.413634 CGTGCGACAAATAAGGTTTCCC 60.414 50.000 0.00 0.00 0.00 3.97
123 124 2.481185 TCGTGCGACAAATAAGGTTTCC 59.519 45.455 0.00 0.00 0.00 3.13
124 125 3.799137 TCGTGCGACAAATAAGGTTTC 57.201 42.857 0.00 0.00 0.00 2.78
125 126 3.608474 GCTTCGTGCGACAAATAAGGTTT 60.608 43.478 0.00 0.00 0.00 3.27
126 127 2.095919 GCTTCGTGCGACAAATAAGGTT 60.096 45.455 0.00 0.00 0.00 3.50
127 128 1.463444 GCTTCGTGCGACAAATAAGGT 59.537 47.619 0.00 0.00 0.00 3.50
128 129 1.463056 TGCTTCGTGCGACAAATAAGG 59.537 47.619 0.00 0.00 46.63 2.69
129 130 2.873170 TGCTTCGTGCGACAAATAAG 57.127 45.000 0.00 0.00 46.63 1.73
130 131 2.739379 TGATGCTTCGTGCGACAAATAA 59.261 40.909 0.00 0.00 46.63 1.40
131 132 2.093625 GTGATGCTTCGTGCGACAAATA 59.906 45.455 0.00 0.00 46.63 1.40
132 133 1.135972 GTGATGCTTCGTGCGACAAAT 60.136 47.619 0.00 0.00 46.63 2.32
133 134 0.234625 GTGATGCTTCGTGCGACAAA 59.765 50.000 0.00 0.00 46.63 2.83
134 135 0.878086 TGTGATGCTTCGTGCGACAA 60.878 50.000 0.00 0.00 46.63 3.18
135 136 0.670239 ATGTGATGCTTCGTGCGACA 60.670 50.000 0.00 0.00 46.63 4.35
136 137 1.256376 CTATGTGATGCTTCGTGCGAC 59.744 52.381 0.00 0.00 46.63 5.19
137 138 1.135112 ACTATGTGATGCTTCGTGCGA 60.135 47.619 0.00 0.00 46.63 5.10
138 139 1.280982 ACTATGTGATGCTTCGTGCG 58.719 50.000 0.00 0.00 46.63 5.34
139 140 2.223112 CCAACTATGTGATGCTTCGTGC 60.223 50.000 0.00 0.00 43.25 5.34
140 141 3.261580 TCCAACTATGTGATGCTTCGTG 58.738 45.455 0.00 0.00 0.00 4.35
141 142 3.610040 TCCAACTATGTGATGCTTCGT 57.390 42.857 0.00 0.00 0.00 3.85
142 143 4.375272 AGATCCAACTATGTGATGCTTCG 58.625 43.478 0.00 0.00 0.00 3.79
143 144 5.050499 CGAAGATCCAACTATGTGATGCTTC 60.050 44.000 0.00 0.00 0.00 3.86
144 145 4.813161 CGAAGATCCAACTATGTGATGCTT 59.187 41.667 0.00 0.00 0.00 3.91
145 146 4.375272 CGAAGATCCAACTATGTGATGCT 58.625 43.478 0.00 0.00 0.00 3.79
146 147 3.059325 GCGAAGATCCAACTATGTGATGC 60.059 47.826 0.00 0.00 0.00 3.91
147 148 4.122046 TGCGAAGATCCAACTATGTGATG 58.878 43.478 0.00 0.00 0.00 3.07
148 149 4.406648 TGCGAAGATCCAACTATGTGAT 57.593 40.909 0.00 0.00 0.00 3.06
149 150 3.885724 TGCGAAGATCCAACTATGTGA 57.114 42.857 0.00 0.00 0.00 3.58
150 151 4.687948 CCTATGCGAAGATCCAACTATGTG 59.312 45.833 0.00 0.00 0.00 3.21
151 152 4.345257 ACCTATGCGAAGATCCAACTATGT 59.655 41.667 0.00 0.00 0.00 2.29
152 153 4.887748 ACCTATGCGAAGATCCAACTATG 58.112 43.478 0.00 0.00 0.00 2.23
153 154 5.300752 CAACCTATGCGAAGATCCAACTAT 58.699 41.667 0.00 0.00 0.00 2.12
154 155 4.693283 CAACCTATGCGAAGATCCAACTA 58.307 43.478 0.00 0.00 0.00 2.24
155 156 3.535561 CAACCTATGCGAAGATCCAACT 58.464 45.455 0.00 0.00 0.00 3.16
156 157 2.032178 GCAACCTATGCGAAGATCCAAC 59.968 50.000 0.00 0.00 46.87 3.77
157 158 2.288666 GCAACCTATGCGAAGATCCAA 58.711 47.619 0.00 0.00 46.87 3.53
158 159 1.953559 GCAACCTATGCGAAGATCCA 58.046 50.000 0.00 0.00 46.87 3.41
187 188 1.472878 GAAAAAGAGAATGGGCCGACC 59.527 52.381 0.00 0.00 40.81 4.79
188 189 2.420372 GAGAAAAAGAGAATGGGCCGAC 59.580 50.000 0.00 0.00 0.00 4.79
189 190 2.305927 AGAGAAAAAGAGAATGGGCCGA 59.694 45.455 0.00 0.00 0.00 5.54
190 191 2.421424 CAGAGAAAAAGAGAATGGGCCG 59.579 50.000 0.00 0.00 0.00 6.13
191 192 3.192212 CACAGAGAAAAAGAGAATGGGCC 59.808 47.826 0.00 0.00 0.00 5.80
192 193 3.823304 ACACAGAGAAAAAGAGAATGGGC 59.177 43.478 0.00 0.00 0.00 5.36
193 194 5.767168 AGAACACAGAGAAAAAGAGAATGGG 59.233 40.000 0.00 0.00 0.00 4.00
194 195 6.874288 AGAACACAGAGAAAAAGAGAATGG 57.126 37.500 0.00 0.00 0.00 3.16
340 341 7.806409 ATTTCTGAAAAGGGAACAAATTTGG 57.194 32.000 21.74 4.79 0.00 3.28
495 500 8.991026 CATTTCAGCAAACAGGAATATTTTTCA 58.009 29.630 0.00 0.00 0.00 2.69
628 633 2.224018 GGGCAAAACTGAGCACAATTCA 60.224 45.455 0.00 0.00 33.42 2.57
746 751 3.426615 ACGGTCTGAATAAAATTGGCCA 58.573 40.909 0.00 0.00 0.00 5.36
802 807 0.392193 CCAACGGCTCTCTGCTCAAT 60.392 55.000 0.00 0.00 42.39 2.57
858 863 2.983592 TGCTCTCTGTCGCCGTGA 60.984 61.111 0.00 0.00 0.00 4.35
1216 1223 5.163784 CCTGCATGAACACTAAACAGATCAG 60.164 44.000 0.00 0.00 0.00 2.90
1960 2035 9.305925 GAATTGGATTAATTAACAGCTCCAAAG 57.694 33.333 24.51 0.00 43.71 2.77
2465 5502 8.250332 TGAACTAACATGCAAATTTATTCCCTC 58.750 33.333 0.00 0.00 0.00 4.30
2501 5579 5.082425 AGAAGCCCTCTGTTTCATTCAAAT 58.918 37.500 0.00 0.00 36.71 2.32


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

AutoCloner maintained by Alex Coulton.