Multiple sequence alignment - TraesCS2B01G412700

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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 TraesCS2B01G412700 chr2B 100.000 3587 0 0 1 3587 588065995 588069581 0.000000e+00 6625
1 TraesCS2B01G412700 chr2D 95.056 3317 93 17 325 3587 500361548 500364847 0.000000e+00 5151
2 TraesCS2B01G412700 chr2D 89.017 173 15 1 1 169 500361381 500361553 1.010000e-50 211
3 TraesCS2B01G412700 chr2A 93.116 3065 97 44 228 3206 645310177 645313213 0.000000e+00 4386
4 TraesCS2B01G412700 chr2A 93.355 301 9 3 3287 3587 645313613 645313902 5.500000e-118 435
5 TraesCS2B01G412700 chr6D 80.420 761 107 29 1182 1920 342473209 342472469 3.150000e-150 542
6 TraesCS2B01G412700 chr6A 84.954 545 65 14 1386 1920 482620228 482619691 1.470000e-148 536
7 TraesCS2B01G412700 chr6B 86.193 507 53 14 1424 1920 516880223 516879724 1.900000e-147 532
8 TraesCS2B01G412700 chr7D 89.908 327 33 0 1428 1754 10507710 10508036 4.280000e-114 422
9 TraesCS2B01G412700 chrUn 87.465 359 43 2 1397 1755 365429977 365429621 2.580000e-111 412
10 TraesCS2B01G412700 chr4B 87.187 359 44 2 1397 1755 641891323 641890967 1.200000e-109 407
11 TraesCS2B01G412700 chr4A 88.754 329 37 0 1426 1754 728510461 728510789 1.550000e-108 403
12 TraesCS2B01G412700 chr4A 81.319 91 17 0 2100 2190 729287906 729287816 1.380000e-09 75


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 TraesCS2B01G412700 chr2B 588065995 588069581 3586 False 6625.0 6625 100.0000 1 3587 1 chr2B.!!$F1 3586
1 TraesCS2B01G412700 chr2D 500361381 500364847 3466 False 2681.0 5151 92.0365 1 3587 2 chr2D.!!$F1 3586
2 TraesCS2B01G412700 chr2A 645310177 645313902 3725 False 2410.5 4386 93.2355 228 3587 2 chr2A.!!$F1 3359
3 TraesCS2B01G412700 chr6D 342472469 342473209 740 True 542.0 542 80.4200 1182 1920 1 chr6D.!!$R1 738
4 TraesCS2B01G412700 chr6A 482619691 482620228 537 True 536.0 536 84.9540 1386 1920 1 chr6A.!!$R1 534

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
904 974 0.03438 TTCCCGTCTCGTCATCTCCT 60.034 55.0 0.0 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2895 3054 0.251354 ATCAATGTCACTGCCTCGCT 59.749 50.0 0.0 0.0 0.0 4.93 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
20 21 0.758734 CTCACCACACCAAGGAGACA 59.241 55.000 0.00 0.00 0.00 3.41
22 23 1.134220 TCACCACACCAAGGAGACAAC 60.134 52.381 0.00 0.00 0.00 3.32
24 25 1.283613 ACCACACCAAGGAGACAACAA 59.716 47.619 0.00 0.00 0.00 2.83
35 36 7.287696 ACCAAGGAGACAACAAAAATCTATGTT 59.712 33.333 0.00 0.00 40.24 2.71
60 65 4.834534 AGCTCGACTACGTATAGATGGAT 58.165 43.478 0.00 0.00 40.69 3.41
83 88 4.740235 CGAGAAGGATCGAAGGCC 57.260 61.111 0.00 0.00 45.56 5.19
96 101 1.605753 GAAGGCCGGAAGACAAACTT 58.394 50.000 5.05 0.00 42.03 2.66
122 127 2.141122 AAAGCGTTGCCATTCACCCG 62.141 55.000 0.00 0.00 0.00 5.28
126 131 1.875963 GTTGCCATTCACCCGAGTG 59.124 57.895 0.00 0.00 46.00 3.51
165 170 9.948964 GGACTAAAAACCTAATCTAAACTACCA 57.051 33.333 0.00 0.00 0.00 3.25
169 174 7.677454 AAAACCTAATCTAAACTACCAACCG 57.323 36.000 0.00 0.00 0.00 4.44
170 175 5.349061 ACCTAATCTAAACTACCAACCGG 57.651 43.478 0.00 0.00 38.77 5.28
171 176 5.025453 ACCTAATCTAAACTACCAACCGGA 58.975 41.667 9.46 0.00 35.59 5.14
172 177 5.105187 ACCTAATCTAAACTACCAACCGGAC 60.105 44.000 9.46 0.00 35.59 4.79
173 178 3.900966 ATCTAAACTACCAACCGGACC 57.099 47.619 9.46 0.00 35.59 4.46
174 179 2.607499 TCTAAACTACCAACCGGACCA 58.393 47.619 9.46 0.00 35.59 4.02
175 180 2.971330 TCTAAACTACCAACCGGACCAA 59.029 45.455 9.46 0.00 35.59 3.67
176 181 2.732844 AAACTACCAACCGGACCAAA 57.267 45.000 9.46 0.00 35.59 3.28
177 182 2.732844 AACTACCAACCGGACCAAAA 57.267 45.000 9.46 0.00 35.59 2.44
178 183 2.265589 ACTACCAACCGGACCAAAAG 57.734 50.000 9.46 0.18 35.59 2.27
179 184 0.879090 CTACCAACCGGACCAAAAGC 59.121 55.000 9.46 0.00 35.59 3.51
180 185 0.183014 TACCAACCGGACCAAAAGCA 59.817 50.000 9.46 0.00 35.59 3.91
181 186 1.362355 CCAACCGGACCAAAAGCAC 59.638 57.895 9.46 0.00 0.00 4.40
182 187 1.362355 CAACCGGACCAAAAGCACC 59.638 57.895 9.46 0.00 0.00 5.01
183 188 2.190841 AACCGGACCAAAAGCACCG 61.191 57.895 9.46 0.00 44.16 4.94
184 189 2.281208 CCGGACCAAAAGCACCGA 60.281 61.111 0.00 0.00 46.94 4.69
185 190 2.325082 CCGGACCAAAAGCACCGAG 61.325 63.158 0.00 0.00 46.94 4.63
186 191 1.301401 CGGACCAAAAGCACCGAGA 60.301 57.895 0.00 0.00 46.94 4.04
187 192 0.673644 CGGACCAAAAGCACCGAGAT 60.674 55.000 0.00 0.00 46.94 2.75
188 193 1.534729 GGACCAAAAGCACCGAGATT 58.465 50.000 0.00 0.00 0.00 2.40
189 194 1.468914 GGACCAAAAGCACCGAGATTC 59.531 52.381 0.00 0.00 0.00 2.52
190 195 1.468914 GACCAAAAGCACCGAGATTCC 59.531 52.381 0.00 0.00 0.00 3.01
191 196 0.811281 CCAAAAGCACCGAGATTCCC 59.189 55.000 0.00 0.00 0.00 3.97
192 197 0.811281 CAAAAGCACCGAGATTCCCC 59.189 55.000 0.00 0.00 0.00 4.81
193 198 0.698818 AAAAGCACCGAGATTCCCCT 59.301 50.000 0.00 0.00 0.00 4.79
194 199 0.253327 AAAGCACCGAGATTCCCCTC 59.747 55.000 0.00 0.00 0.00 4.30
195 200 1.627297 AAGCACCGAGATTCCCCTCC 61.627 60.000 0.00 0.00 0.00 4.30
196 201 3.108288 GCACCGAGATTCCCCTCCC 62.108 68.421 0.00 0.00 0.00 4.30
197 202 2.040779 ACCGAGATTCCCCTCCCC 60.041 66.667 0.00 0.00 0.00 4.81
198 203 3.234730 CCGAGATTCCCCTCCCCG 61.235 72.222 0.00 0.00 0.00 5.73
199 204 3.930012 CGAGATTCCCCTCCCCGC 61.930 72.222 0.00 0.00 0.00 6.13
200 205 3.561241 GAGATTCCCCTCCCCGCC 61.561 72.222 0.00 0.00 0.00 6.13
201 206 4.431524 AGATTCCCCTCCCCGCCA 62.432 66.667 0.00 0.00 0.00 5.69
202 207 4.191015 GATTCCCCTCCCCGCCAC 62.191 72.222 0.00 0.00 0.00 5.01
219 224 2.717485 CCGGATCGGCATGCAAAG 59.283 61.111 21.36 10.35 41.17 2.77
220 225 1.819208 CCGGATCGGCATGCAAAGA 60.819 57.895 21.36 15.58 41.17 2.52
221 226 1.645455 CGGATCGGCATGCAAAGAG 59.355 57.895 21.36 5.06 0.00 2.85
222 227 1.779025 CGGATCGGCATGCAAAGAGG 61.779 60.000 21.36 0.00 0.00 3.69
223 228 1.450531 GGATCGGCATGCAAAGAGGG 61.451 60.000 21.36 0.00 0.00 4.30
224 229 1.450531 GATCGGCATGCAAAGAGGGG 61.451 60.000 21.36 0.00 0.00 4.79
225 230 2.916527 ATCGGCATGCAAAGAGGGGG 62.917 60.000 21.36 0.00 0.00 5.40
252 257 2.225017 GGGGGTGAATCAAACTTGGAGA 60.225 50.000 0.00 0.00 0.00 3.71
266 271 1.074850 GGAGAGGAGGGAGGGAAGG 60.075 68.421 0.00 0.00 0.00 3.46
295 301 6.394345 AGAAACCCTAAGATTGGTTCTCAT 57.606 37.500 0.00 0.00 43.94 2.90
307 313 2.972021 TGGTTCTCATCTTCTGTCCACA 59.028 45.455 0.00 0.00 0.00 4.17
396 402 3.475494 ACACACGGTGCACCCTCA 61.475 61.111 29.95 0.00 36.98 3.86
466 474 1.668337 GCATCATGCTCGATCGCTACT 60.668 52.381 11.09 0.00 40.96 2.57
472 480 1.867865 TGCTCGATCGCTACTCTACAG 59.132 52.381 11.09 0.00 0.00 2.74
709 750 0.606604 ACACACTAACCGCTACCCAG 59.393 55.000 0.00 0.00 0.00 4.45
737 778 4.681483 AGCAGAAAAGATAAAAACAAGCGC 59.319 37.500 0.00 0.00 0.00 5.92
846 916 4.218578 CGCGAGATCCAGCCAGCT 62.219 66.667 0.00 0.00 0.00 4.24
904 974 0.034380 TTCCCGTCTCGTCATCTCCT 60.034 55.000 0.00 0.00 0.00 3.69
917 987 0.923358 ATCTCCTCTCCTGTCGTCCT 59.077 55.000 0.00 0.00 0.00 3.85
1134 1217 0.908198 GAGGAGCCATGGAGTTCACT 59.092 55.000 18.40 0.45 0.00 3.41
1143 1226 2.375766 GGAGTTCACTGCTGCGTCG 61.376 63.158 0.00 0.00 0.00 5.12
1178 1270 1.576272 CTCTAAAGAGGGGGAGGAGGA 59.424 57.143 0.00 0.00 38.48 3.71
1208 1300 2.018086 AGGAGGAGGAGGAGGAGGG 61.018 68.421 0.00 0.00 0.00 4.30
1212 1304 2.416923 GGAGGAGGAGGAGGGGGAT 61.417 68.421 0.00 0.00 0.00 3.85
1300 1398 4.514577 CCGCGGCGTCTCCTTCAT 62.515 66.667 22.00 0.00 0.00 2.57
1497 1637 1.304381 GCTGGTGATCCCCAAGCAA 60.304 57.895 11.71 0.00 33.07 3.91
1914 2060 1.153745 CCAGAGCTTCGACTTCCGG 60.154 63.158 0.00 0.00 39.14 5.14
1986 2132 2.958576 GGAATTTTCCCGCACGCA 59.041 55.556 0.00 0.00 41.62 5.24
2070 2216 2.755469 GTCGGCATGCCCATGGTT 60.755 61.111 30.79 0.00 39.16 3.67
2148 2294 1.254026 TCGGAGTCAACCTCGACAAT 58.746 50.000 0.00 0.00 41.46 2.71
2154 2300 0.249120 TCAACCTCGACAATCCGCAT 59.751 50.000 0.00 0.00 0.00 4.73
2371 2517 4.184629 GTGAACGATATTTGGTGAGCTCT 58.815 43.478 16.19 0.00 0.00 4.09
2493 2645 5.726980 AGAAGCCAGCATTTAACATTTCA 57.273 34.783 0.00 0.00 0.00 2.69
2527 2679 4.749099 CGTTTTGGCCAATCAAATTCTTGA 59.251 37.500 21.26 0.00 45.53 3.02
2723 2878 2.702478 TGGTTGACCAATTCCATTTGCA 59.298 40.909 0.00 0.00 44.35 4.08
2746 2901 4.141482 ACCCACATATGATAACACACCTCC 60.141 45.833 10.38 0.00 0.00 4.30
2895 3054 3.319137 ACGCAGCTCTCAGAAACAATA 57.681 42.857 0.00 0.00 0.00 1.90
2904 3063 2.606725 CTCAGAAACAATAGCGAGGCAG 59.393 50.000 0.00 0.00 0.00 4.85
2998 3157 3.883830 TCCTTCACTTCTGATCTGAGC 57.116 47.619 2.33 0.00 0.00 4.26
3184 3349 4.743955 GCAAAGATCATAGGGACTGGTACC 60.744 50.000 4.43 4.43 41.52 3.34
3312 3796 1.069258 GGCCTGGAGTGGTATACGC 59.931 63.158 0.00 0.00 0.00 4.42
3313 3797 1.400530 GGCCTGGAGTGGTATACGCT 61.401 60.000 0.00 0.00 44.13 5.07
3400 3884 2.568003 GCCACTGGCCTTAACTTCC 58.432 57.895 9.13 0.00 44.06 3.46
3418 3902 7.797038 AACTTCCTTGTACGTCTGTTAAAAT 57.203 32.000 0.00 0.00 0.00 1.82
3430 3914 6.152154 ACGTCTGTTAAAATTTTATGGGGGAG 59.848 38.462 11.33 4.43 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 5.520376 AGATTTTTGTTGTCTCCTTGGTG 57.480 39.130 0.00 0.00 0.00 4.17
9 10 6.777580 ACATAGATTTTTGTTGTCTCCTTGGT 59.222 34.615 0.00 0.00 0.00 3.67
11 12 8.511465 CAACATAGATTTTTGTTGTCTCCTTG 57.489 34.615 10.25 0.00 44.79 3.61
20 21 7.041098 AGTCGAGCTTCAACATAGATTTTTGTT 60.041 33.333 0.00 0.00 36.53 2.83
22 23 6.835914 AGTCGAGCTTCAACATAGATTTTTG 58.164 36.000 0.00 0.00 0.00 2.44
24 25 6.253727 CGTAGTCGAGCTTCAACATAGATTTT 59.746 38.462 0.00 0.00 39.71 1.82
35 36 4.451435 CCATCTATACGTAGTCGAGCTTCA 59.549 45.833 0.08 0.00 43.93 3.02
37 38 4.639334 TCCATCTATACGTAGTCGAGCTT 58.361 43.478 0.08 0.00 43.93 3.74
80 85 1.266989 CTTCAAGTTTGTCTTCCGGCC 59.733 52.381 0.00 0.00 33.63 6.13
83 88 5.230097 GCTTTTTCTTCAAGTTTGTCTTCCG 59.770 40.000 0.00 0.00 33.63 4.30
96 101 3.181482 TGAATGGCAACGCTTTTTCTTCA 60.181 39.130 0.00 0.00 42.51 3.02
122 127 2.740055 CTCACAGGTGCGGCACTC 60.740 66.667 29.92 20.39 34.40 3.51
126 131 2.167398 TTAGTCCTCACAGGTGCGGC 62.167 60.000 3.58 0.00 35.52 6.53
135 140 9.722184 AGTTTAGATTAGGTTTTTAGTCCTCAC 57.278 33.333 0.00 0.00 35.51 3.51
163 168 1.362355 GTGCTTTTGGTCCGGTTGG 59.638 57.895 0.00 0.00 0.00 3.77
164 169 1.362355 GGTGCTTTTGGTCCGGTTG 59.638 57.895 0.00 0.00 0.00 3.77
165 170 2.190841 CGGTGCTTTTGGTCCGGTT 61.191 57.895 0.00 0.00 39.41 4.44
166 171 2.593436 CGGTGCTTTTGGTCCGGT 60.593 61.111 0.00 0.00 39.41 5.28
167 172 2.281208 TCGGTGCTTTTGGTCCGG 60.281 61.111 0.00 0.00 42.71 5.14
168 173 0.673644 ATCTCGGTGCTTTTGGTCCG 60.674 55.000 0.00 0.00 43.65 4.79
169 174 1.468914 GAATCTCGGTGCTTTTGGTCC 59.531 52.381 0.00 0.00 0.00 4.46
170 175 1.468914 GGAATCTCGGTGCTTTTGGTC 59.531 52.381 0.00 0.00 0.00 4.02
171 176 1.534729 GGAATCTCGGTGCTTTTGGT 58.465 50.000 0.00 0.00 0.00 3.67
172 177 0.811281 GGGAATCTCGGTGCTTTTGG 59.189 55.000 0.00 0.00 0.00 3.28
173 178 0.811281 GGGGAATCTCGGTGCTTTTG 59.189 55.000 0.00 0.00 0.00 2.44
174 179 0.698818 AGGGGAATCTCGGTGCTTTT 59.301 50.000 0.00 0.00 0.00 2.27
175 180 0.253327 GAGGGGAATCTCGGTGCTTT 59.747 55.000 0.00 0.00 0.00 3.51
176 181 1.627297 GGAGGGGAATCTCGGTGCTT 61.627 60.000 0.00 0.00 34.74 3.91
177 182 2.066999 GGAGGGGAATCTCGGTGCT 61.067 63.158 0.00 0.00 34.74 4.40
178 183 2.506472 GGAGGGGAATCTCGGTGC 59.494 66.667 0.00 0.00 34.74 5.01
179 184 2.444256 GGGGAGGGGAATCTCGGTG 61.444 68.421 0.00 0.00 34.74 4.94
180 185 2.040779 GGGGAGGGGAATCTCGGT 60.041 66.667 0.00 0.00 34.74 4.69
181 186 3.234730 CGGGGAGGGGAATCTCGG 61.235 72.222 0.00 0.00 34.74 4.63
182 187 3.930012 GCGGGGAGGGGAATCTCG 61.930 72.222 0.00 0.00 34.74 4.04
183 188 3.561241 GGCGGGGAGGGGAATCTC 61.561 72.222 0.00 0.00 0.00 2.75
184 189 4.431524 TGGCGGGGAGGGGAATCT 62.432 66.667 0.00 0.00 0.00 2.40
185 190 4.191015 GTGGCGGGGAGGGGAATC 62.191 72.222 0.00 0.00 0.00 2.52
203 208 1.645455 CTCTTTGCATGCCGATCCG 59.355 57.895 16.68 0.00 0.00 4.18
204 209 1.450531 CCCTCTTTGCATGCCGATCC 61.451 60.000 16.68 0.00 0.00 3.36
205 210 1.450531 CCCCTCTTTGCATGCCGATC 61.451 60.000 16.68 0.00 0.00 3.69
206 211 1.454479 CCCCTCTTTGCATGCCGAT 60.454 57.895 16.68 0.00 0.00 4.18
207 212 2.045045 CCCCTCTTTGCATGCCGA 60.045 61.111 16.68 8.20 0.00 5.54
208 213 3.142838 CCCCCTCTTTGCATGCCG 61.143 66.667 16.68 3.68 0.00 5.69
231 236 2.171003 CTCCAAGTTTGATTCACCCCC 58.829 52.381 0.00 0.00 0.00 5.40
232 237 3.084786 CTCTCCAAGTTTGATTCACCCC 58.915 50.000 0.00 0.00 0.00 4.95
233 238 3.084786 CCTCTCCAAGTTTGATTCACCC 58.915 50.000 0.00 0.00 0.00 4.61
234 239 4.006319 CTCCTCTCCAAGTTTGATTCACC 58.994 47.826 0.00 0.00 0.00 4.02
235 240 4.006319 CCTCCTCTCCAAGTTTGATTCAC 58.994 47.826 0.00 0.00 0.00 3.18
236 241 3.009473 CCCTCCTCTCCAAGTTTGATTCA 59.991 47.826 0.00 0.00 0.00 2.57
237 242 3.264450 TCCCTCCTCTCCAAGTTTGATTC 59.736 47.826 0.00 0.00 0.00 2.52
238 243 3.260205 TCCCTCCTCTCCAAGTTTGATT 58.740 45.455 0.00 0.00 0.00 2.57
239 244 2.843113 CTCCCTCCTCTCCAAGTTTGAT 59.157 50.000 0.00 0.00 0.00 2.57
240 245 2.260822 CTCCCTCCTCTCCAAGTTTGA 58.739 52.381 0.00 0.00 0.00 2.69
241 246 1.280421 CCTCCCTCCTCTCCAAGTTTG 59.720 57.143 0.00 0.00 0.00 2.93
242 247 1.662686 CCTCCCTCCTCTCCAAGTTT 58.337 55.000 0.00 0.00 0.00 2.66
243 248 0.252927 CCCTCCCTCCTCTCCAAGTT 60.253 60.000 0.00 0.00 0.00 2.66
244 249 1.156322 TCCCTCCCTCCTCTCCAAGT 61.156 60.000 0.00 0.00 0.00 3.16
252 257 3.711782 CCCCCTTCCCTCCCTCCT 61.712 72.222 0.00 0.00 0.00 3.69
270 275 5.180810 AGAACCAATCTTAGGGTTTCTCC 57.819 43.478 0.00 0.00 46.97 3.71
283 288 4.633565 GTGGACAGAAGATGAGAACCAATC 59.366 45.833 0.00 0.00 0.00 2.67
284 289 4.042062 TGTGGACAGAAGATGAGAACCAAT 59.958 41.667 0.00 0.00 0.00 3.16
295 301 1.538204 GCTGACGTTGTGGACAGAAGA 60.538 52.381 4.04 0.00 32.90 2.87
307 313 4.070552 GAGGAGCCCGCTGACGTT 62.071 66.667 0.00 0.00 37.70 3.99
396 402 2.033141 AGCGTGCCATGTGCTCTT 59.967 55.556 7.54 0.00 42.00 2.85
430 436 2.102925 TGATGCTCACTTGACTGTGTCA 59.897 45.455 0.00 0.00 41.09 3.58
431 437 2.759191 TGATGCTCACTTGACTGTGTC 58.241 47.619 0.00 0.00 38.90 3.67
432 438 2.916702 TGATGCTCACTTGACTGTGT 57.083 45.000 0.00 0.00 38.90 3.72
433 439 2.159558 GCATGATGCTCACTTGACTGTG 60.160 50.000 10.72 0.00 40.96 3.66
462 470 1.649815 CGCGCTCCCTGTAGAGTAG 59.350 63.158 5.56 0.00 36.20 2.57
466 474 2.123854 ATCCGCGCTCCCTGTAGA 60.124 61.111 5.56 0.00 0.00 2.59
472 480 2.738213 AATGGATGATCCGCGCTCCC 62.738 60.000 5.56 0.00 40.17 4.30
709 750 8.058328 GCTTGTTTTTATCTTTTCTGCTTGTTC 58.942 33.333 0.00 0.00 0.00 3.18
737 778 2.681344 GTGAAGGGGCGTGGTAATTAAG 59.319 50.000 0.00 0.00 0.00 1.85
904 974 1.979155 CAGCCAGGACGACAGGAGA 60.979 63.158 0.00 0.00 0.00 3.71
917 987 1.533625 CGAAGGATTTTGACCAGCCA 58.466 50.000 0.00 0.00 0.00 4.75
1045 1128 1.748329 CTGGGCTGCTGGCGTAGATA 61.748 60.000 11.02 0.00 42.94 1.98
1158 1241 1.576272 TCCTCCTCCCCCTCTTTAGAG 59.424 57.143 0.00 0.00 41.71 2.43
1161 1244 0.642710 CCTCCTCCTCCCCCTCTTTA 59.357 60.000 0.00 0.00 0.00 1.85
1178 1270 0.859760 CTCCTCCTCCATCTCCTCCT 59.140 60.000 0.00 0.00 0.00 3.69
1290 1388 2.586357 GCGGCCGATGAAGGAGAC 60.586 66.667 33.48 2.06 0.00 3.36
1497 1637 0.243095 GGAAGTACTTCTCGGCGTGT 59.757 55.000 29.66 4.88 39.45 4.49
1647 1787 0.741221 GGCGCTTCTCCTTGACGAAT 60.741 55.000 7.64 0.00 0.00 3.34
1937 2083 0.752376 GTAGAGTACCTGCGGCCTCT 60.752 60.000 0.00 16.01 37.80 3.69
2070 2216 1.428219 GAGTGGCGTCGAATCGAGA 59.572 57.895 5.25 0.00 36.23 4.04
2298 2444 5.214293 TCTCTCTTGGAGGATGATGATGAA 58.786 41.667 0.00 0.00 42.10 2.57
2493 2645 3.522553 TGGCCAAAACGAAAACGAAAAT 58.477 36.364 0.61 0.00 0.00 1.82
2723 2878 4.141482 GGAGGTGTGTTATCATATGTGGGT 60.141 45.833 1.90 0.00 0.00 4.51
2746 2901 2.617774 CTGTTGGGGGTTTGCAAATTTG 59.382 45.455 16.21 14.03 0.00 2.32
2895 3054 0.251354 ATCAATGTCACTGCCTCGCT 59.749 50.000 0.00 0.00 0.00 4.93
2904 3063 2.031682 GCTAATCCGCCATCAATGTCAC 60.032 50.000 0.00 0.00 0.00 3.67
2998 3157 8.943909 AGTAAACTACAGGAATTTAAGGATCG 57.056 34.615 0.00 0.00 0.00 3.69
3184 3349 6.183360 GCGACAGAAATTCCTTAAATTTGCTG 60.183 38.462 0.00 14.28 45.47 4.41
3312 3796 1.627834 AGAACTCTTGGAGGCTTGGAG 59.372 52.381 0.00 0.00 33.35 3.86
3313 3797 1.734655 AGAACTCTTGGAGGCTTGGA 58.265 50.000 0.00 0.00 33.35 3.53
3314 3798 2.575805 AAGAACTCTTGGAGGCTTGG 57.424 50.000 0.00 0.00 34.38 3.61
3315 3799 5.006386 ACATAAAGAACTCTTGGAGGCTTG 58.994 41.667 0.00 0.00 36.12 4.01
3316 3800 5.248380 ACATAAAGAACTCTTGGAGGCTT 57.752 39.130 0.00 0.53 36.12 4.35
3317 3801 4.917906 ACATAAAGAACTCTTGGAGGCT 57.082 40.909 0.00 0.00 36.12 4.58
3318 3802 5.249420 AGAACATAAAGAACTCTTGGAGGC 58.751 41.667 0.00 0.00 36.12 4.70
3319 3803 7.138692 CAAGAACATAAAGAACTCTTGGAGG 57.861 40.000 2.83 0.00 39.42 4.30
3400 3884 9.337091 CCCATAAAATTTTAACAGACGTACAAG 57.663 33.333 14.35 0.00 0.00 3.16
3418 3902 1.630894 CCTCCTCCCTCCCCCATAAAA 60.631 57.143 0.00 0.00 0.00 1.52
3449 3933 4.669318 TGTTATAGCAACAGTCGAGCTAC 58.331 43.478 5.56 0.00 42.94 3.58


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

AutoCloner maintained by Alex Coulton.