Multiple sequence alignment - TraesCS7D01G264500

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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 TraesCS7D01G264500 chr7D 100.000 3092 0 0 1 3092 245402706 245399615 0 5710
1 TraesCS7D01G264500 chr7D 98.616 2817 37 2 276 3092 54583766 54580952 0 4985
2 TraesCS7D01G264500 chr7D 98.332 2817 47 0 276 3092 115100272 115103088 0 4942
3 TraesCS7D01G264500 chr5D 98.864 2818 31 1 275 3092 565815801 565818617 0 5025
4 TraesCS7D01G264500 chr5D 98.722 2817 35 1 276 3092 260689962 260687147 0 5001
5 TraesCS7D01G264500 chr5D 98.119 2817 51 2 276 3092 75136832 75134018 0 4907
6 TraesCS7D01G264500 chr6D 98.583 2823 34 4 271 3092 472510958 472513775 0 4987
7 TraesCS7D01G264500 chr6D 98.509 2817 41 1 276 3092 51499464 51502279 0 4968
8 TraesCS7D01G264500 chr1D 98.581 2818 37 3 275 3092 22577396 22574582 0 4979
9 TraesCS7D01G264500 chr4D 98.438 2817 38 3 276 3092 164897180 164899990 0 4953


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 TraesCS7D01G264500 chr7D 245399615 245402706 3091 True 5710 5710 100.000 1 3092 1 chr7D.!!$R2 3091
1 TraesCS7D01G264500 chr7D 54580952 54583766 2814 True 4985 4985 98.616 276 3092 1 chr7D.!!$R1 2816
2 TraesCS7D01G264500 chr7D 115100272 115103088 2816 False 4942 4942 98.332 276 3092 1 chr7D.!!$F1 2816
3 TraesCS7D01G264500 chr5D 565815801 565818617 2816 False 5025 5025 98.864 275 3092 1 chr5D.!!$F1 2817
4 TraesCS7D01G264500 chr5D 260687147 260689962 2815 True 5001 5001 98.722 276 3092 1 chr5D.!!$R2 2816
5 TraesCS7D01G264500 chr5D 75134018 75136832 2814 True 4907 4907 98.119 276 3092 1 chr5D.!!$R1 2816
6 TraesCS7D01G264500 chr6D 472510958 472513775 2817 False 4987 4987 98.583 271 3092 1 chr6D.!!$F2 2821
7 TraesCS7D01G264500 chr6D 51499464 51502279 2815 False 4968 4968 98.509 276 3092 1 chr6D.!!$F1 2816
8 TraesCS7D01G264500 chr1D 22574582 22577396 2814 True 4979 4979 98.581 275 3092 1 chr1D.!!$R1 2817
9 TraesCS7D01G264500 chr4D 164897180 164899990 2810 False 4953 4953 98.438 276 3092 1 chr4D.!!$F1 2816

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
271 272 0.035881 ATGATAGATGCACCGGGCTG 59.964 55.0 6.32 0.0 45.15 4.85 F
272 273 1.337384 TGATAGATGCACCGGGCTGT 61.337 55.0 6.32 0.0 45.15 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1785 1788 2.308570 TGCCTTCTGGTTATCCATGTGT 59.691 45.455 0.00 0.0 43.43 3.72 R
2426 2429 4.163649 GTGGAGTAGGCCTAGGTTTGTAAT 59.836 45.833 14.38 0.0 0.00 1.89 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
19 20 1.686355 CTCTCTCCGATGCAGGTACT 58.314 55.000 0.00 0.00 43.88 2.73
20 21 2.028130 CTCTCTCCGATGCAGGTACTT 58.972 52.381 0.00 0.00 34.60 2.24
21 22 2.025155 TCTCTCCGATGCAGGTACTTC 58.975 52.381 0.00 0.00 34.60 3.01
22 23 2.028130 CTCTCCGATGCAGGTACTTCT 58.972 52.381 0.00 0.00 34.60 2.85
23 24 2.428890 CTCTCCGATGCAGGTACTTCTT 59.571 50.000 0.00 0.00 34.60 2.52
24 25 2.166459 TCTCCGATGCAGGTACTTCTTG 59.834 50.000 0.00 0.00 34.60 3.02
25 26 2.166459 CTCCGATGCAGGTACTTCTTGA 59.834 50.000 0.00 0.00 34.60 3.02
26 27 2.766263 TCCGATGCAGGTACTTCTTGAT 59.234 45.455 0.00 0.00 34.60 2.57
27 28 2.868583 CCGATGCAGGTACTTCTTGATG 59.131 50.000 0.00 0.00 34.60 3.07
28 29 3.430790 CCGATGCAGGTACTTCTTGATGA 60.431 47.826 0.00 0.00 34.60 2.92
29 30 4.183865 CGATGCAGGTACTTCTTGATGAA 58.816 43.478 0.00 0.00 34.60 2.57
42 43 7.727331 CTTCTTGATGAAGTTCTTCAGACTT 57.273 36.000 17.87 4.23 45.26 3.01
43 44 7.721286 TTCTTGATGAAGTTCTTCAGACTTC 57.279 36.000 17.87 12.09 39.99 3.01
44 45 7.060383 TCTTGATGAAGTTCTTCAGACTTCT 57.940 36.000 17.87 3.28 40.17 2.85
45 46 7.151308 TCTTGATGAAGTTCTTCAGACTTCTC 58.849 38.462 17.87 11.24 40.17 2.87
46 47 5.465051 TGATGAAGTTCTTCAGACTTCTCG 58.535 41.667 15.48 0.00 40.17 4.04
47 48 4.920640 TGAAGTTCTTCAGACTTCTCGT 57.079 40.909 15.47 0.00 40.17 4.18
48 49 4.861210 TGAAGTTCTTCAGACTTCTCGTC 58.139 43.478 15.47 0.00 43.17 4.20
49 50 4.338400 TGAAGTTCTTCAGACTTCTCGTCA 59.662 41.667 15.47 0.00 45.32 4.35
50 51 4.920640 AGTTCTTCAGACTTCTCGTCAA 57.079 40.909 0.00 0.00 45.32 3.18
51 52 5.263968 AGTTCTTCAGACTTCTCGTCAAA 57.736 39.130 0.00 0.00 45.32 2.69
52 53 5.661458 AGTTCTTCAGACTTCTCGTCAAAA 58.339 37.500 0.00 0.00 45.32 2.44
53 54 6.284459 AGTTCTTCAGACTTCTCGTCAAAAT 58.716 36.000 0.00 0.00 45.32 1.82
54 55 7.434492 AGTTCTTCAGACTTCTCGTCAAAATA 58.566 34.615 0.00 0.00 45.32 1.40
55 56 8.091449 AGTTCTTCAGACTTCTCGTCAAAATAT 58.909 33.333 0.00 0.00 45.32 1.28
56 57 9.355215 GTTCTTCAGACTTCTCGTCAAAATATA 57.645 33.333 0.00 0.00 45.32 0.86
57 58 9.574458 TTCTTCAGACTTCTCGTCAAAATATAG 57.426 33.333 0.00 0.00 45.32 1.31
58 59 8.740906 TCTTCAGACTTCTCGTCAAAATATAGT 58.259 33.333 0.00 0.00 45.32 2.12
68 69 9.880064 TCTCGTCAAAATATAGTATTCTTCTCG 57.120 33.333 0.00 0.00 0.00 4.04
69 70 9.880064 CTCGTCAAAATATAGTATTCTTCTCGA 57.120 33.333 0.00 0.00 0.00 4.04
84 85 3.111405 TCGATATGCGAGGGACTGT 57.889 52.632 0.00 0.00 45.59 3.55
85 86 1.399714 TCGATATGCGAGGGACTGTT 58.600 50.000 0.00 0.00 45.59 3.16
86 87 1.754803 TCGATATGCGAGGGACTGTTT 59.245 47.619 0.00 0.00 45.59 2.83
87 88 2.167693 TCGATATGCGAGGGACTGTTTT 59.832 45.455 0.00 0.00 45.59 2.43
88 89 2.936498 CGATATGCGAGGGACTGTTTTT 59.064 45.455 0.00 0.00 41.55 1.94
120 121 5.947443 GCAGTAGCAAAGAAATCAATCACT 58.053 37.500 0.00 0.00 41.58 3.41
121 122 6.385033 GCAGTAGCAAAGAAATCAATCACTT 58.615 36.000 0.00 0.00 41.58 3.16
122 123 6.865205 GCAGTAGCAAAGAAATCAATCACTTT 59.135 34.615 0.00 0.00 41.58 2.66
123 124 7.383300 GCAGTAGCAAAGAAATCAATCACTTTT 59.617 33.333 0.00 0.00 41.58 2.27
124 125 9.252962 CAGTAGCAAAGAAATCAATCACTTTTT 57.747 29.630 0.00 0.00 31.52 1.94
147 148 5.713792 TTTGCGGGTAAAGAAATCAATCA 57.286 34.783 0.00 0.00 0.00 2.57
148 149 4.695217 TGCGGGTAAAGAAATCAATCAC 57.305 40.909 0.00 0.00 0.00 3.06
149 150 4.331968 TGCGGGTAAAGAAATCAATCACT 58.668 39.130 0.00 0.00 0.00 3.41
150 151 4.764823 TGCGGGTAAAGAAATCAATCACTT 59.235 37.500 0.00 0.00 0.00 3.16
151 152 5.941058 TGCGGGTAAAGAAATCAATCACTTA 59.059 36.000 0.00 0.00 0.00 2.24
152 153 6.128117 TGCGGGTAAAGAAATCAATCACTTAC 60.128 38.462 0.00 0.00 0.00 2.34
153 154 6.093633 GCGGGTAAAGAAATCAATCACTTACT 59.906 38.462 0.00 0.00 0.00 2.24
154 155 7.464358 CGGGTAAAGAAATCAATCACTTACTG 58.536 38.462 0.00 0.00 0.00 2.74
155 156 7.119262 CGGGTAAAGAAATCAATCACTTACTGT 59.881 37.037 0.00 0.00 0.00 3.55
156 157 8.793592 GGGTAAAGAAATCAATCACTTACTGTT 58.206 33.333 0.00 0.00 0.00 3.16
157 158 9.612620 GGTAAAGAAATCAATCACTTACTGTTG 57.387 33.333 0.00 0.00 0.00 3.33
158 159 9.118236 GTAAAGAAATCAATCACTTACTGTTGC 57.882 33.333 0.00 0.00 0.00 4.17
159 160 7.516198 AAGAAATCAATCACTTACTGTTGCT 57.484 32.000 0.00 0.00 0.00 3.91
160 161 6.906659 AGAAATCAATCACTTACTGTTGCTG 58.093 36.000 0.00 0.00 0.00 4.41
161 162 6.712095 AGAAATCAATCACTTACTGTTGCTGA 59.288 34.615 0.00 0.00 0.00 4.26
162 163 5.869753 ATCAATCACTTACTGTTGCTGAC 57.130 39.130 0.00 0.00 0.00 3.51
163 164 4.702831 TCAATCACTTACTGTTGCTGACA 58.297 39.130 0.00 0.00 36.65 3.58
164 165 5.122519 TCAATCACTTACTGTTGCTGACAA 58.877 37.500 0.00 0.00 37.93 3.18
174 175 2.708216 TTGCTGACAACAGTCTCCAA 57.292 45.000 0.00 0.00 45.04 3.53
175 176 2.708216 TGCTGACAACAGTCTCCAAA 57.292 45.000 0.00 0.00 45.04 3.28
176 177 2.997980 TGCTGACAACAGTCTCCAAAA 58.002 42.857 0.00 0.00 45.04 2.44
177 178 2.682856 TGCTGACAACAGTCTCCAAAAC 59.317 45.455 0.00 0.00 45.04 2.43
178 179 2.033424 GCTGACAACAGTCTCCAAAACC 59.967 50.000 0.00 0.00 45.04 3.27
179 180 2.285083 TGACAACAGTCTCCAAAACCG 58.715 47.619 0.00 0.00 33.41 4.44
180 181 2.093394 TGACAACAGTCTCCAAAACCGA 60.093 45.455 0.00 0.00 33.41 4.69
181 182 2.940410 GACAACAGTCTCCAAAACCGAA 59.060 45.455 0.00 0.00 0.00 4.30
182 183 2.943033 ACAACAGTCTCCAAAACCGAAG 59.057 45.455 0.00 0.00 0.00 3.79
207 208 3.004024 CAAGACATTGCACCAACACTC 57.996 47.619 0.00 0.00 0.00 3.51
208 209 2.620115 CAAGACATTGCACCAACACTCT 59.380 45.455 0.00 0.00 0.00 3.24
209 210 2.224606 AGACATTGCACCAACACTCTG 58.775 47.619 0.00 0.00 0.00 3.35
210 211 1.267806 GACATTGCACCAACACTCTGG 59.732 52.381 0.00 0.00 42.68 3.86
211 212 1.133823 ACATTGCACCAACACTCTGGA 60.134 47.619 0.00 0.00 38.96 3.86
212 213 2.165167 CATTGCACCAACACTCTGGAT 58.835 47.619 0.00 0.00 38.96 3.41
213 214 1.608055 TTGCACCAACACTCTGGATG 58.392 50.000 0.00 0.00 38.96 3.51
214 215 0.764271 TGCACCAACACTCTGGATGA 59.236 50.000 0.00 0.00 38.96 2.92
215 216 1.160137 GCACCAACACTCTGGATGAC 58.840 55.000 0.00 0.00 38.96 3.06
216 217 1.543208 GCACCAACACTCTGGATGACA 60.543 52.381 0.00 0.00 38.96 3.58
217 218 2.877300 GCACCAACACTCTGGATGACAT 60.877 50.000 0.00 0.00 38.96 3.06
218 219 2.745821 CACCAACACTCTGGATGACATG 59.254 50.000 0.00 0.00 38.96 3.21
219 220 2.290514 ACCAACACTCTGGATGACATGG 60.291 50.000 0.00 0.00 38.96 3.66
220 221 2.026915 CCAACACTCTGGATGACATGGA 60.027 50.000 0.00 0.00 38.96 3.41
221 222 3.268330 CAACACTCTGGATGACATGGAG 58.732 50.000 0.00 0.66 0.00 3.86
222 223 2.825223 ACACTCTGGATGACATGGAGA 58.175 47.619 13.33 5.24 0.00 3.71
223 224 3.382278 ACACTCTGGATGACATGGAGAT 58.618 45.455 13.33 0.00 0.00 2.75
224 225 3.387374 ACACTCTGGATGACATGGAGATC 59.613 47.826 13.33 0.00 0.00 2.75
225 226 2.627221 ACTCTGGATGACATGGAGATCG 59.373 50.000 13.33 0.00 0.00 3.69
226 227 2.889678 CTCTGGATGACATGGAGATCGA 59.110 50.000 0.00 0.00 0.00 3.59
227 228 3.504375 TCTGGATGACATGGAGATCGAT 58.496 45.455 0.00 0.00 0.00 3.59
228 229 3.257624 TCTGGATGACATGGAGATCGATG 59.742 47.826 0.54 3.59 37.95 3.84
229 230 2.967887 TGGATGACATGGAGATCGATGT 59.032 45.455 0.54 9.84 45.78 3.06
230 231 3.243975 TGGATGACATGGAGATCGATGTG 60.244 47.826 14.18 0.00 43.69 3.21
231 232 3.244009 GGATGACATGGAGATCGATGTGT 60.244 47.826 14.18 0.00 43.69 3.72
232 233 4.021981 GGATGACATGGAGATCGATGTGTA 60.022 45.833 14.18 5.00 43.69 2.90
233 234 5.337089 GGATGACATGGAGATCGATGTGTAT 60.337 44.000 14.18 8.89 43.69 2.29
234 235 4.874970 TGACATGGAGATCGATGTGTATG 58.125 43.478 14.18 8.27 43.69 2.39
235 236 4.342092 TGACATGGAGATCGATGTGTATGT 59.658 41.667 14.18 16.41 43.69 2.29
236 237 4.625028 ACATGGAGATCGATGTGTATGTG 58.375 43.478 15.95 5.08 42.41 3.21
237 238 4.100035 ACATGGAGATCGATGTGTATGTGT 59.900 41.667 15.95 5.57 42.41 3.72
238 239 4.736126 TGGAGATCGATGTGTATGTGTT 57.264 40.909 0.54 0.00 0.00 3.32
239 240 4.432712 TGGAGATCGATGTGTATGTGTTG 58.567 43.478 0.54 0.00 0.00 3.33
240 241 3.804325 GGAGATCGATGTGTATGTGTTGG 59.196 47.826 0.54 0.00 0.00 3.77
241 242 4.433615 GAGATCGATGTGTATGTGTTGGT 58.566 43.478 0.54 0.00 0.00 3.67
242 243 4.183865 AGATCGATGTGTATGTGTTGGTG 58.816 43.478 0.54 0.00 0.00 4.17
243 244 3.669251 TCGATGTGTATGTGTTGGTGA 57.331 42.857 0.00 0.00 0.00 4.02
244 245 4.200838 TCGATGTGTATGTGTTGGTGAT 57.799 40.909 0.00 0.00 0.00 3.06
245 246 3.932089 TCGATGTGTATGTGTTGGTGATG 59.068 43.478 0.00 0.00 0.00 3.07
246 247 3.063861 CGATGTGTATGTGTTGGTGATGG 59.936 47.826 0.00 0.00 0.00 3.51
247 248 3.500448 TGTGTATGTGTTGGTGATGGT 57.500 42.857 0.00 0.00 0.00 3.55
248 249 3.145286 TGTGTATGTGTTGGTGATGGTG 58.855 45.455 0.00 0.00 0.00 4.17
249 250 2.095263 GTGTATGTGTTGGTGATGGTGC 60.095 50.000 0.00 0.00 0.00 5.01
250 251 2.158559 GTATGTGTTGGTGATGGTGCA 58.841 47.619 0.00 0.00 0.00 4.57
251 252 1.250328 ATGTGTTGGTGATGGTGCAG 58.750 50.000 0.00 0.00 0.00 4.41
252 253 0.182299 TGTGTTGGTGATGGTGCAGA 59.818 50.000 0.00 0.00 0.00 4.26
253 254 1.202915 TGTGTTGGTGATGGTGCAGAT 60.203 47.619 0.00 0.00 0.00 2.90
254 255 1.200716 GTGTTGGTGATGGTGCAGATG 59.799 52.381 0.00 0.00 0.00 2.90
255 256 1.073603 TGTTGGTGATGGTGCAGATGA 59.926 47.619 0.00 0.00 0.00 2.92
256 257 2.291089 TGTTGGTGATGGTGCAGATGAT 60.291 45.455 0.00 0.00 0.00 2.45
257 258 3.054508 TGTTGGTGATGGTGCAGATGATA 60.055 43.478 0.00 0.00 0.00 2.15
258 259 3.480505 TGGTGATGGTGCAGATGATAG 57.519 47.619 0.00 0.00 0.00 2.08
259 260 3.040477 TGGTGATGGTGCAGATGATAGA 58.960 45.455 0.00 0.00 0.00 1.98
260 261 3.649502 TGGTGATGGTGCAGATGATAGAT 59.350 43.478 0.00 0.00 0.00 1.98
261 262 4.001652 GGTGATGGTGCAGATGATAGATG 58.998 47.826 0.00 0.00 0.00 2.90
262 263 3.436015 GTGATGGTGCAGATGATAGATGC 59.564 47.826 0.00 0.00 40.40 3.91
266 267 2.159327 TGCAGATGATAGATGCACCG 57.841 50.000 0.00 0.00 44.56 4.94
267 268 1.270465 TGCAGATGATAGATGCACCGG 60.270 52.381 0.00 0.00 44.56 5.28
268 269 1.943046 GCAGATGATAGATGCACCGGG 60.943 57.143 6.32 0.00 39.75 5.73
269 270 0.322975 AGATGATAGATGCACCGGGC 59.677 55.000 6.32 7.25 45.13 6.13
270 271 0.322975 GATGATAGATGCACCGGGCT 59.677 55.000 6.32 0.00 45.15 5.19
271 272 0.035881 ATGATAGATGCACCGGGCTG 59.964 55.000 6.32 0.00 45.15 4.85
272 273 1.337384 TGATAGATGCACCGGGCTGT 61.337 55.000 6.32 0.00 45.15 4.40
1686 1689 6.830873 AAGCAGAAGTATGAGAAGCATTTT 57.169 33.333 0.00 0.00 38.44 1.82
1785 1788 0.105142 GGCAGGATGGTAGGGTAGGA 60.105 60.000 0.00 0.00 35.86 2.94
2426 2429 2.452505 GGCTTTGTGGCCCAGTTATAA 58.547 47.619 0.00 0.00 45.92 0.98
2675 2678 0.326427 AGAGGAGGCTGGCAGAGAAT 60.326 55.000 20.86 0.00 0.00 2.40
3062 3067 4.281688 AGGTTTCAGCAAGCAAATACACAT 59.718 37.500 0.00 0.00 35.10 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.686355 AGTACCTGCATCGGAGAGAG 58.314 55.000 0.00 0.00 43.63 3.20
1 2 2.025155 GAAGTACCTGCATCGGAGAGA 58.975 52.381 0.00 0.00 43.63 3.10
2 3 2.028130 AGAAGTACCTGCATCGGAGAG 58.972 52.381 0.00 0.00 43.63 3.20
3 4 2.145397 AGAAGTACCTGCATCGGAGA 57.855 50.000 0.00 0.00 45.75 3.71
4 5 2.166459 TCAAGAAGTACCTGCATCGGAG 59.834 50.000 0.00 0.00 0.00 4.63
5 6 2.176045 TCAAGAAGTACCTGCATCGGA 58.824 47.619 0.00 0.00 0.00 4.55
6 7 2.672961 TCAAGAAGTACCTGCATCGG 57.327 50.000 0.00 0.00 0.00 4.18
7 8 3.785486 TCATCAAGAAGTACCTGCATCG 58.215 45.455 0.00 0.00 0.00 3.84
8 9 5.731599 CTTCATCAAGAAGTACCTGCATC 57.268 43.478 0.00 0.00 46.97 3.91
26 27 4.861210 GACGAGAAGTCTGAAGAACTTCA 58.139 43.478 15.05 15.05 46.13 3.02
42 43 9.880064 CGAGAAGAATACTATATTTTGACGAGA 57.120 33.333 0.00 0.00 0.00 4.04
43 44 9.880064 TCGAGAAGAATACTATATTTTGACGAG 57.120 33.333 0.00 0.00 0.00 4.18
66 67 1.399714 AACAGTCCCTCGCATATCGA 58.600 50.000 0.00 0.00 46.29 3.59
67 68 2.225068 AAACAGTCCCTCGCATATCG 57.775 50.000 0.00 0.00 40.15 2.92
97 98 5.947443 AGTGATTGATTTCTTTGCTACTGC 58.053 37.500 0.00 0.00 40.20 4.40
98 99 8.807667 AAAAGTGATTGATTTCTTTGCTACTG 57.192 30.769 0.00 0.00 31.75 2.74
123 124 6.422400 GTGATTGATTTCTTTACCCGCAAAAA 59.578 34.615 0.00 0.00 0.00 1.94
124 125 5.923684 GTGATTGATTTCTTTACCCGCAAAA 59.076 36.000 0.00 0.00 0.00 2.44
125 126 5.242838 AGTGATTGATTTCTTTACCCGCAAA 59.757 36.000 0.00 0.00 0.00 3.68
126 127 4.764823 AGTGATTGATTTCTTTACCCGCAA 59.235 37.500 0.00 0.00 0.00 4.85
127 128 4.331968 AGTGATTGATTTCTTTACCCGCA 58.668 39.130 0.00 0.00 0.00 5.69
128 129 4.965119 AGTGATTGATTTCTTTACCCGC 57.035 40.909 0.00 0.00 0.00 6.13
129 130 7.119262 ACAGTAAGTGATTGATTTCTTTACCCG 59.881 37.037 0.00 0.00 0.00 5.28
130 131 8.336801 ACAGTAAGTGATTGATTTCTTTACCC 57.663 34.615 0.00 0.00 0.00 3.69
131 132 9.612620 CAACAGTAAGTGATTGATTTCTTTACC 57.387 33.333 0.00 0.00 0.00 2.85
132 133 9.118236 GCAACAGTAAGTGATTGATTTCTTTAC 57.882 33.333 0.00 0.00 0.00 2.01
133 134 9.066892 AGCAACAGTAAGTGATTGATTTCTTTA 57.933 29.630 0.00 0.00 0.00 1.85
134 135 7.864379 CAGCAACAGTAAGTGATTGATTTCTTT 59.136 33.333 0.00 0.00 0.00 2.52
135 136 7.229306 TCAGCAACAGTAAGTGATTGATTTCTT 59.771 33.333 0.00 0.00 0.00 2.52
136 137 6.712095 TCAGCAACAGTAAGTGATTGATTTCT 59.288 34.615 0.00 0.00 0.00 2.52
137 138 6.798959 GTCAGCAACAGTAAGTGATTGATTTC 59.201 38.462 0.00 0.00 0.00 2.17
138 139 6.262944 TGTCAGCAACAGTAAGTGATTGATTT 59.737 34.615 0.00 0.00 32.81 2.17
139 140 5.764686 TGTCAGCAACAGTAAGTGATTGATT 59.235 36.000 0.00 0.00 32.81 2.57
140 141 5.308014 TGTCAGCAACAGTAAGTGATTGAT 58.692 37.500 0.00 0.00 32.81 2.57
141 142 4.702831 TGTCAGCAACAGTAAGTGATTGA 58.297 39.130 0.00 0.00 32.81 2.57
142 143 5.422666 TTGTCAGCAACAGTAAGTGATTG 57.577 39.130 0.00 0.00 39.58 2.67
155 156 2.708216 TTGGAGACTGTTGTCAGCAA 57.292 45.000 0.00 0.00 45.20 3.91
156 157 2.682856 GTTTTGGAGACTGTTGTCAGCA 59.317 45.455 0.00 0.00 45.20 4.41
157 158 2.033424 GGTTTTGGAGACTGTTGTCAGC 59.967 50.000 0.00 0.00 45.20 4.26
158 159 2.287915 CGGTTTTGGAGACTGTTGTCAG 59.712 50.000 0.00 0.00 45.20 3.51
159 160 2.093394 TCGGTTTTGGAGACTGTTGTCA 60.093 45.455 0.00 0.00 45.20 3.58
160 161 2.557317 TCGGTTTTGGAGACTGTTGTC 58.443 47.619 0.00 0.00 43.22 3.18
161 162 2.702592 TCGGTTTTGGAGACTGTTGT 57.297 45.000 0.00 0.00 0.00 3.32
162 163 2.290641 CCTTCGGTTTTGGAGACTGTTG 59.709 50.000 0.00 0.00 0.00 3.33
163 164 2.171870 TCCTTCGGTTTTGGAGACTGTT 59.828 45.455 0.00 0.00 0.00 3.16
164 165 1.766496 TCCTTCGGTTTTGGAGACTGT 59.234 47.619 0.00 0.00 0.00 3.55
165 166 2.543777 TCCTTCGGTTTTGGAGACTG 57.456 50.000 0.00 0.00 0.00 3.51
169 170 0.250727 TGCCTCCTTCGGTTTTGGAG 60.251 55.000 0.00 0.00 45.02 3.86
170 171 0.183971 TTGCCTCCTTCGGTTTTGGA 59.816 50.000 0.00 0.00 0.00 3.53
171 172 0.598065 CTTGCCTCCTTCGGTTTTGG 59.402 55.000 0.00 0.00 0.00 3.28
172 173 1.266989 GTCTTGCCTCCTTCGGTTTTG 59.733 52.381 0.00 0.00 0.00 2.44
173 174 1.133915 TGTCTTGCCTCCTTCGGTTTT 60.134 47.619 0.00 0.00 0.00 2.43
174 175 0.472471 TGTCTTGCCTCCTTCGGTTT 59.528 50.000 0.00 0.00 0.00 3.27
175 176 0.693049 ATGTCTTGCCTCCTTCGGTT 59.307 50.000 0.00 0.00 0.00 4.44
176 177 0.693049 AATGTCTTGCCTCCTTCGGT 59.307 50.000 0.00 0.00 0.00 4.69
177 178 1.089920 CAATGTCTTGCCTCCTTCGG 58.910 55.000 0.00 0.00 0.00 4.30
187 188 2.620115 AGAGTGTTGGTGCAATGTCTTG 59.380 45.455 0.00 0.00 35.36 3.02
188 189 2.620115 CAGAGTGTTGGTGCAATGTCTT 59.380 45.455 0.00 0.00 0.00 3.01
189 190 2.224606 CAGAGTGTTGGTGCAATGTCT 58.775 47.619 0.00 0.00 0.00 3.41
190 191 1.267806 CCAGAGTGTTGGTGCAATGTC 59.732 52.381 0.00 0.00 33.38 3.06
191 192 1.133823 TCCAGAGTGTTGGTGCAATGT 60.134 47.619 0.00 0.00 39.35 2.71
192 193 1.608055 TCCAGAGTGTTGGTGCAATG 58.392 50.000 0.00 0.00 39.35 2.82
193 194 2.165167 CATCCAGAGTGTTGGTGCAAT 58.835 47.619 0.00 0.00 39.35 3.56
194 195 1.142667 TCATCCAGAGTGTTGGTGCAA 59.857 47.619 0.00 0.00 39.35 4.08
195 196 0.764271 TCATCCAGAGTGTTGGTGCA 59.236 50.000 0.00 0.00 39.35 4.57
196 197 1.160137 GTCATCCAGAGTGTTGGTGC 58.840 55.000 0.00 0.00 39.35 5.01
197 198 2.549064 TGTCATCCAGAGTGTTGGTG 57.451 50.000 0.00 0.00 39.35 4.17
198 199 2.290514 CCATGTCATCCAGAGTGTTGGT 60.291 50.000 0.00 0.00 39.35 3.67
199 200 2.026915 TCCATGTCATCCAGAGTGTTGG 60.027 50.000 0.00 0.00 39.70 3.77
200 201 3.055602 TCTCCATGTCATCCAGAGTGTTG 60.056 47.826 0.00 0.00 0.00 3.33
201 202 3.176411 TCTCCATGTCATCCAGAGTGTT 58.824 45.455 0.00 0.00 0.00 3.32
202 203 2.825223 TCTCCATGTCATCCAGAGTGT 58.175 47.619 0.00 0.00 0.00 3.55
203 204 3.552478 CGATCTCCATGTCATCCAGAGTG 60.552 52.174 0.00 0.00 0.00 3.51
204 205 2.627221 CGATCTCCATGTCATCCAGAGT 59.373 50.000 0.00 0.00 0.00 3.24
205 206 2.889678 TCGATCTCCATGTCATCCAGAG 59.110 50.000 0.00 0.00 0.00 3.35
206 207 2.949447 TCGATCTCCATGTCATCCAGA 58.051 47.619 0.00 0.00 0.00 3.86
207 208 3.006644 ACATCGATCTCCATGTCATCCAG 59.993 47.826 0.00 0.00 0.00 3.86
208 209 2.967887 ACATCGATCTCCATGTCATCCA 59.032 45.455 0.00 0.00 0.00 3.41
209 210 3.244009 ACACATCGATCTCCATGTCATCC 60.244 47.826 0.00 0.00 30.48 3.51
210 211 3.987547 ACACATCGATCTCCATGTCATC 58.012 45.455 0.00 0.00 30.48 2.92
211 212 5.011431 ACATACACATCGATCTCCATGTCAT 59.989 40.000 0.00 0.00 30.48 3.06
212 213 4.342092 ACATACACATCGATCTCCATGTCA 59.658 41.667 0.00 0.00 30.48 3.58
213 214 4.683320 CACATACACATCGATCTCCATGTC 59.317 45.833 0.00 0.00 30.48 3.06
214 215 4.100035 ACACATACACATCGATCTCCATGT 59.900 41.667 0.00 0.67 33.29 3.21
215 216 4.625028 ACACATACACATCGATCTCCATG 58.375 43.478 0.00 0.01 0.00 3.66
216 217 4.944619 ACACATACACATCGATCTCCAT 57.055 40.909 0.00 0.00 0.00 3.41
217 218 4.432712 CAACACATACACATCGATCTCCA 58.567 43.478 0.00 0.00 0.00 3.86
218 219 3.804325 CCAACACATACACATCGATCTCC 59.196 47.826 0.00 0.00 0.00 3.71
219 220 4.268644 CACCAACACATACACATCGATCTC 59.731 45.833 0.00 0.00 0.00 2.75
220 221 4.081697 TCACCAACACATACACATCGATCT 60.082 41.667 0.00 0.00 0.00 2.75
221 222 4.180817 TCACCAACACATACACATCGATC 58.819 43.478 0.00 0.00 0.00 3.69
222 223 4.200838 TCACCAACACATACACATCGAT 57.799 40.909 0.00 0.00 0.00 3.59
223 224 3.669251 TCACCAACACATACACATCGA 57.331 42.857 0.00 0.00 0.00 3.59
224 225 3.063861 CCATCACCAACACATACACATCG 59.936 47.826 0.00 0.00 0.00 3.84
225 226 4.009675 ACCATCACCAACACATACACATC 58.990 43.478 0.00 0.00 0.00 3.06
226 227 3.758023 CACCATCACCAACACATACACAT 59.242 43.478 0.00 0.00 0.00 3.21
227 228 3.145286 CACCATCACCAACACATACACA 58.855 45.455 0.00 0.00 0.00 3.72
228 229 2.095263 GCACCATCACCAACACATACAC 60.095 50.000 0.00 0.00 0.00 2.90
229 230 2.158559 GCACCATCACCAACACATACA 58.841 47.619 0.00 0.00 0.00 2.29
230 231 2.158559 TGCACCATCACCAACACATAC 58.841 47.619 0.00 0.00 0.00 2.39
231 232 2.039613 TCTGCACCATCACCAACACATA 59.960 45.455 0.00 0.00 0.00 2.29
232 233 1.202915 TCTGCACCATCACCAACACAT 60.203 47.619 0.00 0.00 0.00 3.21
233 234 0.182299 TCTGCACCATCACCAACACA 59.818 50.000 0.00 0.00 0.00 3.72
234 235 1.200716 CATCTGCACCATCACCAACAC 59.799 52.381 0.00 0.00 0.00 3.32
235 236 1.073603 TCATCTGCACCATCACCAACA 59.926 47.619 0.00 0.00 0.00 3.33
236 237 1.825090 TCATCTGCACCATCACCAAC 58.175 50.000 0.00 0.00 0.00 3.77
237 238 2.812836 ATCATCTGCACCATCACCAA 57.187 45.000 0.00 0.00 0.00 3.67
238 239 3.040477 TCTATCATCTGCACCATCACCA 58.960 45.455 0.00 0.00 0.00 4.17
239 240 3.758755 TCTATCATCTGCACCATCACC 57.241 47.619 0.00 0.00 0.00 4.02
240 241 3.436015 GCATCTATCATCTGCACCATCAC 59.564 47.826 0.00 0.00 35.96 3.06
241 242 3.071892 TGCATCTATCATCTGCACCATCA 59.928 43.478 0.00 0.00 40.75 3.07
242 243 3.671716 TGCATCTATCATCTGCACCATC 58.328 45.455 0.00 0.00 40.75 3.51
243 244 3.782656 TGCATCTATCATCTGCACCAT 57.217 42.857 0.00 0.00 40.75 3.55
247 248 1.270465 CCGGTGCATCTATCATCTGCA 60.270 52.381 0.00 0.00 43.20 4.41
248 249 1.436600 CCGGTGCATCTATCATCTGC 58.563 55.000 0.00 0.00 36.45 4.26
249 250 1.943046 GCCCGGTGCATCTATCATCTG 60.943 57.143 9.72 0.00 40.77 2.90
250 251 0.322975 GCCCGGTGCATCTATCATCT 59.677 55.000 9.72 0.00 40.77 2.90
251 252 0.322975 AGCCCGGTGCATCTATCATC 59.677 55.000 15.92 0.00 44.83 2.92
252 253 0.035881 CAGCCCGGTGCATCTATCAT 59.964 55.000 15.92 0.00 44.83 2.45
253 254 1.337384 ACAGCCCGGTGCATCTATCA 61.337 55.000 15.92 0.00 44.83 2.15
254 255 0.679505 TACAGCCCGGTGCATCTATC 59.320 55.000 15.92 0.00 44.83 2.08
255 256 0.681733 CTACAGCCCGGTGCATCTAT 59.318 55.000 15.92 1.15 44.83 1.98
256 257 1.399744 CCTACAGCCCGGTGCATCTA 61.400 60.000 15.92 2.98 44.83 1.98
257 258 2.735772 CCTACAGCCCGGTGCATCT 61.736 63.158 15.92 2.07 44.83 2.90
258 259 2.203070 CCTACAGCCCGGTGCATC 60.203 66.667 15.92 0.00 44.83 3.91
259 260 2.687200 TCCTACAGCCCGGTGCAT 60.687 61.111 15.92 7.17 44.83 3.96
260 261 2.791613 TACTCCTACAGCCCGGTGCA 62.792 60.000 15.92 0.00 44.83 4.57
261 262 1.610554 TTACTCCTACAGCCCGGTGC 61.611 60.000 0.00 3.33 41.71 5.01
262 263 0.899720 TTTACTCCTACAGCCCGGTG 59.100 55.000 0.00 0.00 0.00 4.94
263 264 1.875488 ATTTACTCCTACAGCCCGGT 58.125 50.000 0.00 0.00 0.00 5.28
264 265 2.288886 GCTATTTACTCCTACAGCCCGG 60.289 54.545 0.00 0.00 0.00 5.73
265 266 2.364324 TGCTATTTACTCCTACAGCCCG 59.636 50.000 0.00 0.00 0.00 6.13
266 267 4.625607 ATGCTATTTACTCCTACAGCCC 57.374 45.455 0.00 0.00 0.00 5.19
267 268 7.715686 AGTTTTATGCTATTTACTCCTACAGCC 59.284 37.037 0.00 0.00 0.00 4.85
268 269 8.664211 AGTTTTATGCTATTTACTCCTACAGC 57.336 34.615 0.00 0.00 0.00 4.40
332 333 5.995282 TGGTAGGTATCAGTCACAAACAAAG 59.005 40.000 0.00 0.00 0.00 2.77
531 532 1.210478 GCAGGGGAGCAGAGTAATGAA 59.790 52.381 0.00 0.00 0.00 2.57
1374 1376 4.143115 CCTGCTTGTACAAGTACATTCACG 60.143 45.833 30.90 15.92 44.54 4.35
1440 1443 8.198807 ACTAAAGGTGAGGCTTAAGTAAACTA 57.801 34.615 4.02 0.00 0.00 2.24
1686 1689 4.826733 TCATTTTCAGTCTTAAGCTTGGCA 59.173 37.500 9.86 0.00 0.00 4.92
1785 1788 2.308570 TGCCTTCTGGTTATCCATGTGT 59.691 45.455 0.00 0.00 43.43 3.72
2426 2429 4.163649 GTGGAGTAGGCCTAGGTTTGTAAT 59.836 45.833 14.38 0.00 0.00 1.89
2545 2548 0.116342 TGTCACCTCCCCAAGCTCTA 59.884 55.000 0.00 0.00 0.00 2.43
2675 2678 4.528206 TCTGAGTTGCACTTCTCCAAGATA 59.472 41.667 9.32 0.00 33.34 1.98
2707 2710 1.980052 CCGCCAGGGACAAGAACTA 59.020 57.895 0.00 0.00 38.47 2.24
3062 3067 6.183360 ACCTGAGTGTTTGCATTTATGAAACA 60.183 34.615 12.33 12.33 36.46 2.83


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

AutoCloner maintained by Alex Coulton.