Multiple sequence alignment - TraesCS2B01G392300

Loading Multiple Alignment...

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 TraesCS2B01G392300 chr2B 100.000 2758 0 0 1 2758 556675304 556678061 0.000000e+00 5094.0
1 TraesCS2B01G392300 chr2B 83.779 1159 86 42 616 1741 556595451 556596540 0.000000e+00 1005.0
2 TraesCS2B01G392300 chr2B 89.440 786 53 16 964 1743 556517284 556518045 0.000000e+00 965.0
3 TraesCS2B01G392300 chr2B 90.769 195 12 4 725 914 556517088 556517281 3.520000e-64 255.0
4 TraesCS2B01G392300 chr2B 91.935 62 5 0 530 591 556595395 556595456 1.360000e-13 87.9
5 TraesCS2B01G392300 chr2D 90.737 2796 166 30 1 2758 475983938 475986678 0.000000e+00 3642.0
6 TraesCS2B01G392300 chr2D 91.039 1473 103 18 282 1741 475876248 475877704 0.000000e+00 1962.0
7 TraesCS2B01G392300 chr2D 87.002 1231 73 38 538 1741 475498830 475500000 0.000000e+00 1306.0
8 TraesCS2B01G392300 chr2A 91.872 1907 97 29 501 2387 617812442 617814310 0.000000e+00 2610.0
9 TraesCS2B01G392300 chr2A 85.811 1029 70 38 731 1741 617730579 617731549 0.000000e+00 1022.0
10 TraesCS2B01G392300 chr2A 91.886 493 25 6 1266 1743 617762322 617762814 0.000000e+00 675.0
11 TraesCS2B01G392300 chr2A 86.621 441 13 7 2357 2756 617814682 617815117 1.950000e-121 446.0
12 TraesCS2B01G392300 chr6B 82.405 449 77 2 1299 1746 473541094 473540647 9.260000e-105 390.0
13 TraesCS2B01G392300 chr4D 97.143 35 1 0 463 497 445099792 445099826 2.970000e-05 60.2


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 TraesCS2B01G392300 chr2B 556675304 556678061 2757 False 5094.00 5094 100.0000 1 2758 1 chr2B.!!$F1 2757
1 TraesCS2B01G392300 chr2B 556517088 556518045 957 False 610.00 965 90.1045 725 1743 2 chr2B.!!$F2 1018
2 TraesCS2B01G392300 chr2B 556595395 556596540 1145 False 546.45 1005 87.8570 530 1741 2 chr2B.!!$F3 1211
3 TraesCS2B01G392300 chr2D 475983938 475986678 2740 False 3642.00 3642 90.7370 1 2758 1 chr2D.!!$F3 2757
4 TraesCS2B01G392300 chr2D 475876248 475877704 1456 False 1962.00 1962 91.0390 282 1741 1 chr2D.!!$F2 1459
5 TraesCS2B01G392300 chr2D 475498830 475500000 1170 False 1306.00 1306 87.0020 538 1741 1 chr2D.!!$F1 1203
6 TraesCS2B01G392300 chr2A 617812442 617815117 2675 False 1528.00 2610 89.2465 501 2756 2 chr2A.!!$F3 2255
7 TraesCS2B01G392300 chr2A 617730579 617731549 970 False 1022.00 1022 85.8110 731 1741 1 chr2A.!!$F1 1010

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
187 188 0.039074 CTATCACTCCGATGGACCGC 60.039 60.0 0.00 0.0 34.60 5.68 F
220 221 0.039617 GGAGGCGATGATCGAGACAG 60.040 60.0 20.25 0.0 43.74 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1160 1227 0.457853 TCCTCGAGCGAATTTGTCCG 60.458 55.000 6.99 0.0 0.00 4.79 R
1971 2056 1.811195 CCGTGGCGACTGTACCATA 59.189 57.895 5.43 0.0 38.46 2.74 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
22 23 3.095912 TGTCGGATGAGGTCCTTTCTA 57.904 47.619 0.00 0.00 45.46 2.10
27 28 2.764572 GGATGAGGTCCTTTCTAACCGA 59.235 50.000 0.00 0.00 44.16 4.69
28 29 3.388350 GGATGAGGTCCTTTCTAACCGAT 59.612 47.826 0.00 0.00 44.16 4.18
30 31 2.426024 TGAGGTCCTTTCTAACCGATCG 59.574 50.000 8.51 8.51 40.63 3.69
34 35 2.360165 GTCCTTTCTAACCGATCGCCTA 59.640 50.000 10.32 1.82 0.00 3.93
40 41 1.378882 TAACCGATCGCCTACGCACT 61.379 55.000 10.32 0.00 39.84 4.40
44 45 3.716539 GATCGCCTACGCACTGCCA 62.717 63.158 0.00 0.00 39.84 4.92
53 54 0.179045 ACGCACTGCCAGACTTCTTT 60.179 50.000 0.00 0.00 0.00 2.52
87 88 2.665185 AGACGTTGCCTTCCACGC 60.665 61.111 0.00 0.00 0.00 5.34
89 90 4.250305 ACGTTGCCTTCCACGCCT 62.250 61.111 0.00 0.00 0.00 5.52
98 99 3.876589 TTCCACGCCTGCGACCTTC 62.877 63.158 19.52 0.00 42.83 3.46
135 136 4.344865 GGTCCTTTGGCTCCGGCA 62.345 66.667 0.00 0.00 40.87 5.69
156 157 0.876342 GGCGATGATCAACGGTCCTC 60.876 60.000 24.28 9.04 0.00 3.71
158 159 0.459899 CGATGATCAACGGTCCTCCA 59.540 55.000 16.83 0.00 0.00 3.86
164 165 2.283388 AACGGTCCTCCAGCGGTA 60.283 61.111 0.00 0.00 46.52 4.02
165 166 2.643232 AACGGTCCTCCAGCGGTAC 61.643 63.158 0.00 0.00 46.52 3.34
166 167 3.834799 CGGTCCTCCAGCGGTACC 61.835 72.222 0.16 0.16 42.55 3.34
167 168 2.363925 GGTCCTCCAGCGGTACCT 60.364 66.667 10.90 0.00 0.00 3.08
169 170 1.380112 GTCCTCCAGCGGTACCTCT 60.380 63.158 10.90 4.00 0.00 3.69
170 171 0.106819 GTCCTCCAGCGGTACCTCTA 60.107 60.000 10.90 0.00 0.00 2.43
171 172 0.851469 TCCTCCAGCGGTACCTCTAT 59.149 55.000 10.90 0.00 0.00 1.98
172 173 1.202903 TCCTCCAGCGGTACCTCTATC 60.203 57.143 10.90 0.00 0.00 2.08
173 174 1.478837 CCTCCAGCGGTACCTCTATCA 60.479 57.143 10.90 0.00 0.00 2.15
174 175 1.609555 CTCCAGCGGTACCTCTATCAC 59.390 57.143 10.90 0.00 0.00 3.06
175 176 1.214673 TCCAGCGGTACCTCTATCACT 59.785 52.381 10.90 0.00 0.00 3.41
176 177 1.609555 CCAGCGGTACCTCTATCACTC 59.390 57.143 10.90 0.00 0.00 3.51
177 178 1.609555 CAGCGGTACCTCTATCACTCC 59.390 57.143 10.90 0.00 0.00 3.85
178 179 0.592148 GCGGTACCTCTATCACTCCG 59.408 60.000 10.90 0.00 39.52 4.63
179 180 1.813092 GCGGTACCTCTATCACTCCGA 60.813 57.143 10.90 0.00 38.96 4.55
180 181 2.780714 CGGTACCTCTATCACTCCGAT 58.219 52.381 10.90 0.00 38.96 4.18
181 182 2.484651 CGGTACCTCTATCACTCCGATG 59.515 54.545 10.90 0.00 38.96 3.84
182 183 2.820787 GGTACCTCTATCACTCCGATGG 59.179 54.545 4.06 0.00 35.39 3.51
183 184 3.498121 GGTACCTCTATCACTCCGATGGA 60.498 52.174 4.06 0.00 39.14 3.41
184 185 2.588620 ACCTCTATCACTCCGATGGAC 58.411 52.381 0.00 0.00 36.75 4.02
185 186 1.889829 CCTCTATCACTCCGATGGACC 59.110 57.143 0.00 0.00 36.75 4.46
186 187 1.537638 CTCTATCACTCCGATGGACCG 59.462 57.143 0.00 0.00 36.75 4.79
187 188 0.039074 CTATCACTCCGATGGACCGC 60.039 60.000 0.00 0.00 34.60 5.68
188 189 1.461091 TATCACTCCGATGGACCGCC 61.461 60.000 0.00 0.00 35.39 6.13
189 190 3.461773 CACTCCGATGGACCGCCT 61.462 66.667 0.00 0.00 34.31 5.52
192 193 1.067582 CTCCGATGGACCGCCTAAC 59.932 63.158 0.00 0.00 34.31 2.34
217 218 0.891449 GAGGGAGGCGATGATCGAGA 60.891 60.000 20.25 0.00 43.74 4.04
220 221 0.039617 GGAGGCGATGATCGAGACAG 60.040 60.000 20.25 0.00 43.74 3.51
225 226 1.332065 GCGATGATCGAGACAGAGACA 59.668 52.381 20.25 0.00 43.74 3.41
226 227 2.031245 GCGATGATCGAGACAGAGACAT 60.031 50.000 20.25 0.00 43.74 3.06
247 248 1.204467 GGAAAATGGATGGCTTTCGCA 59.796 47.619 0.00 0.00 38.10 5.10
251 252 1.315690 ATGGATGGCTTTCGCATGAG 58.684 50.000 0.00 0.00 38.10 2.90
267 268 4.617959 GCATGAGAACATTGATGGGAATG 58.382 43.478 0.00 0.00 38.97 2.67
270 271 4.272489 TGAGAACATTGATGGGAATGTCC 58.728 43.478 0.00 0.00 44.15 4.02
275 276 6.214005 AGAACATTGATGGGAATGTCCAAATT 59.786 34.615 0.00 0.00 44.15 1.82
276 277 7.399765 AGAACATTGATGGGAATGTCCAAATTA 59.600 33.333 0.00 0.00 44.15 1.40
278 279 6.669154 ACATTGATGGGAATGTCCAAATTAGT 59.331 34.615 0.00 0.00 41.75 2.24
296 297 0.951040 GTGAGCTCGGGTGGAGTTTG 60.951 60.000 9.64 0.00 45.03 2.93
303 304 1.229076 GGGTGGAGTTTGTGGGTGT 59.771 57.895 0.00 0.00 0.00 4.16
305 306 1.074889 GGGTGGAGTTTGTGGGTGTAT 59.925 52.381 0.00 0.00 0.00 2.29
311 312 0.242555 GTTTGTGGGTGTATTGGGCG 59.757 55.000 0.00 0.00 0.00 6.13
317 318 1.079681 GGTGTATTGGGCGTGTCGA 60.080 57.895 0.00 0.00 0.00 4.20
352 353 2.746277 GTCTGGACGCCCGCAAAT 60.746 61.111 0.00 0.00 34.29 2.32
361 362 1.526225 GCCCGCAAATCTCCCCTAC 60.526 63.158 0.00 0.00 0.00 3.18
372 374 2.542550 TCTCCCCTACGTTTGATTCCA 58.457 47.619 0.00 0.00 0.00 3.53
387 389 7.381948 CGTTTGATTCCAATTTGTGAGATTTCA 59.618 33.333 0.00 0.00 31.46 2.69
388 390 9.044150 GTTTGATTCCAATTTGTGAGATTTCAA 57.956 29.630 0.00 0.00 31.38 2.69
399 401 3.435671 GTGAGATTTCAAACGTCCGGATT 59.564 43.478 7.81 0.00 34.49 3.01
428 433 8.814931 TCCAGACAAATTTAATGATTGTTGGAT 58.185 29.630 14.75 0.00 38.20 3.41
437 442 7.670009 TTAATGATTGTTGGATGGCAAAAAG 57.330 32.000 0.00 0.00 0.00 2.27
471 476 4.817318 TTTGATCCAAACATTTAGGGGC 57.183 40.909 0.00 0.00 0.00 5.80
478 483 4.009002 CCAAACATTTAGGGGCATTTTGG 58.991 43.478 0.00 0.00 36.56 3.28
507 512 2.378547 TGTTGGAGTTGCCCTTAAGGAT 59.621 45.455 23.74 3.08 38.24 3.24
521 526 6.475504 CCCTTAAGGATGGCAAATTTTTCTT 58.524 36.000 23.74 0.00 38.24 2.52
523 528 6.936335 CCTTAAGGATGGCAAATTTTTCTTGT 59.064 34.615 17.21 0.00 37.39 3.16
776 804 3.436577 TGGATAAACACCCGGCTTTTA 57.563 42.857 0.00 0.00 0.00 1.52
974 1038 2.090812 GCGTCTTACGAGAGAAACAAGC 59.909 50.000 3.22 0.00 46.05 4.01
997 1061 2.778299 TCGGTTCTTCATTCCAACAGG 58.222 47.619 0.00 0.00 0.00 4.00
1090 1154 1.078759 CGAGTTCACCAGCGATGGAC 61.079 60.000 29.47 14.75 0.00 4.02
1160 1227 3.830192 CAAATCGGGCAGGGCAGC 61.830 66.667 0.00 0.00 0.00 5.25
1234 1310 3.126831 CCGTCTGGATGAATCTTGTAGC 58.873 50.000 0.00 0.00 37.49 3.58
1254 1330 5.041191 AGCCTTTCCTGTTCATATGTAGG 57.959 43.478 13.66 13.66 0.00 3.18
1297 1380 7.495901 AGACACTGAACATAGATATGTCCTTG 58.504 38.462 5.97 4.72 45.55 3.61
1764 1847 1.918293 TCGCACCTCTGACCCCATT 60.918 57.895 0.00 0.00 0.00 3.16
1765 1848 1.746615 CGCACCTCTGACCCCATTG 60.747 63.158 0.00 0.00 0.00 2.82
1811 1894 1.950216 TGTGTGTGTTGTGTTGTGTGT 59.050 42.857 0.00 0.00 0.00 3.72
1812 1895 2.287248 TGTGTGTGTTGTGTTGTGTGTG 60.287 45.455 0.00 0.00 0.00 3.82
1813 1896 1.950216 TGTGTGTTGTGTTGTGTGTGT 59.050 42.857 0.00 0.00 0.00 3.72
1814 1897 2.287248 TGTGTGTTGTGTTGTGTGTGTG 60.287 45.455 0.00 0.00 0.00 3.82
1815 1898 1.335415 TGTGTTGTGTTGTGTGTGTGC 60.335 47.619 0.00 0.00 0.00 4.57
1816 1899 1.068610 GTGTTGTGTTGTGTGTGTGCT 60.069 47.619 0.00 0.00 0.00 4.40
1817 1900 1.068679 TGTTGTGTTGTGTGTGTGCTG 60.069 47.619 0.00 0.00 0.00 4.41
1818 1901 0.525311 TTGTGTTGTGTGTGTGCTGG 59.475 50.000 0.00 0.00 0.00 4.85
1820 1903 0.098728 GTGTTGTGTGTGTGCTGGTC 59.901 55.000 0.00 0.00 0.00 4.02
1821 1904 1.029408 TGTTGTGTGTGTGCTGGTCC 61.029 55.000 0.00 0.00 0.00 4.46
1822 1905 1.817520 TTGTGTGTGTGCTGGTCCG 60.818 57.895 0.00 0.00 0.00 4.79
1823 1906 2.972505 GTGTGTGTGCTGGTCCGG 60.973 66.667 0.00 0.00 0.00 5.14
1824 1907 3.475494 TGTGTGTGCTGGTCCGGT 61.475 61.111 0.00 0.00 0.00 5.28
1825 1908 2.203153 GTGTGTGCTGGTCCGGTT 60.203 61.111 0.00 0.00 0.00 4.44
1826 1909 1.070105 GTGTGTGCTGGTCCGGTTA 59.930 57.895 0.00 0.00 0.00 2.85
1827 1910 0.533308 GTGTGTGCTGGTCCGGTTAA 60.533 55.000 0.00 0.00 0.00 2.01
1828 1911 0.398696 TGTGTGCTGGTCCGGTTAAT 59.601 50.000 0.00 0.00 0.00 1.40
1829 1912 1.624312 TGTGTGCTGGTCCGGTTAATA 59.376 47.619 0.00 0.00 0.00 0.98
1830 1913 2.237643 TGTGTGCTGGTCCGGTTAATAT 59.762 45.455 0.00 0.00 0.00 1.28
1848 1931 8.899771 GGTTAATATGTTGTGCATAGGTAAGTT 58.100 33.333 0.00 0.00 42.68 2.66
1916 1999 5.541484 AGTCCGGTATACTTAAATGGTAGGG 59.459 44.000 0.00 0.00 0.00 3.53
1971 2056 7.441836 TCATGTTGAAGAAGTACTGTATGTGT 58.558 34.615 0.00 0.00 0.00 3.72
1995 2080 1.500512 TACAGTCGCCACGGCAAAAC 61.501 55.000 9.11 3.14 42.06 2.43
2068 2153 8.307483 TGAATTGTTTGTTCCACTTCTTTACAA 58.693 29.630 0.00 0.00 0.00 2.41
2184 2269 6.484643 CAGGCTGTGTATGCTTACATAAAGAT 59.515 38.462 14.79 4.81 40.42 2.40
2329 2415 4.943705 ACAGAAGAAAAGAAACAGCACTGA 59.056 37.500 4.31 0.00 0.00 3.41
2376 2863 3.871594 CCAAAGAACACCGGATGTCTATC 59.128 47.826 9.46 3.94 42.31 2.08
2646 3192 3.771216 AGGATTCATATGGAATGGGCAC 58.229 45.455 2.13 0.00 46.17 5.01
2661 3207 1.361668 GGCACTGTATGTCCACTGCG 61.362 60.000 0.00 0.00 0.00 5.18
2755 3306 6.345096 ACAAGAGAGAGAGAGAGAAAAAGG 57.655 41.667 0.00 0.00 0.00 3.11
2756 3307 5.245977 ACAAGAGAGAGAGAGAGAAAAAGGG 59.754 44.000 0.00 0.00 0.00 3.95
2757 3308 5.010708 AGAGAGAGAGAGAGAAAAAGGGT 57.989 43.478 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 2.426024 CGATCGGTTAGAAAGGACCTCA 59.574 50.000 7.38 0.00 33.69 3.86
15 16 2.740452 GTAGGCGATCGGTTAGAAAGG 58.260 52.381 18.30 0.00 0.00 3.11
17 18 1.534595 GCGTAGGCGATCGGTTAGAAA 60.535 52.381 18.30 0.00 41.33 2.52
18 19 0.029834 GCGTAGGCGATCGGTTAGAA 59.970 55.000 18.30 0.00 41.33 2.10
22 23 2.202703 GTGCGTAGGCGATCGGTT 60.203 61.111 18.30 0.00 44.10 4.44
27 28 3.723235 CTGGCAGTGCGTAGGCGAT 62.723 63.158 9.45 0.00 44.10 4.58
28 29 4.435436 CTGGCAGTGCGTAGGCGA 62.435 66.667 9.45 0.00 44.10 5.54
30 31 2.788191 AAGTCTGGCAGTGCGTAGGC 62.788 60.000 15.27 11.56 40.52 3.93
34 35 0.179045 AAAGAAGTCTGGCAGTGCGT 60.179 50.000 15.27 7.16 0.00 5.24
40 41 3.217242 GCGAGAAAGAAGTCTGGCA 57.783 52.632 4.57 0.00 45.63 4.92
44 45 2.548920 CCACAAGGCGAGAAAGAAGTCT 60.549 50.000 0.00 0.00 0.00 3.24
112 113 3.249189 AGCCAAAGGACCCGAGCA 61.249 61.111 0.00 0.00 0.00 4.26
113 114 2.436824 GAGCCAAAGGACCCGAGC 60.437 66.667 0.00 0.00 0.00 5.03
135 136 1.144057 GACCGTTGATCATCGCCCT 59.856 57.895 18.61 5.10 0.00 5.19
138 139 0.876342 GGAGGACCGTTGATCATCGC 60.876 60.000 18.61 7.72 0.00 4.58
142 143 1.596934 GCTGGAGGACCGTTGATCA 59.403 57.895 0.00 0.00 39.42 2.92
143 144 1.519455 CGCTGGAGGACCGTTGATC 60.519 63.158 0.00 0.00 39.42 2.92
156 157 1.609555 GAGTGATAGAGGTACCGCTGG 59.390 57.143 26.59 0.00 0.00 4.85
158 159 1.814634 CGGAGTGATAGAGGTACCGCT 60.815 57.143 22.43 22.43 33.03 5.52
164 165 2.588620 GTCCATCGGAGTGATAGAGGT 58.411 52.381 0.00 0.00 34.83 3.85
165 166 1.889829 GGTCCATCGGAGTGATAGAGG 59.110 57.143 0.00 0.00 34.83 3.69
166 167 1.537638 CGGTCCATCGGAGTGATAGAG 59.462 57.143 0.00 0.00 34.83 2.43
167 168 1.605753 CGGTCCATCGGAGTGATAGA 58.394 55.000 0.00 0.00 34.83 1.98
169 170 1.461091 GGCGGTCCATCGGAGTGATA 61.461 60.000 0.00 0.00 34.83 2.15
170 171 2.797278 GGCGGTCCATCGGAGTGAT 61.797 63.158 0.00 0.00 38.01 3.06
171 172 2.561467 TAGGCGGTCCATCGGAGTGA 62.561 60.000 0.00 0.00 29.39 3.41
172 173 1.672854 TTAGGCGGTCCATCGGAGTG 61.673 60.000 0.00 0.00 29.39 3.51
173 174 1.380785 TTAGGCGGTCCATCGGAGT 60.381 57.895 0.00 0.00 29.39 3.85
174 175 1.067582 GTTAGGCGGTCCATCGGAG 59.932 63.158 0.00 0.00 29.39 4.63
175 176 2.777972 CGTTAGGCGGTCCATCGGA 61.778 63.158 0.00 0.00 36.85 4.55
176 177 2.279252 CGTTAGGCGGTCCATCGG 60.279 66.667 0.00 0.00 36.85 4.18
185 186 1.453762 CTCCCTCCTACCGTTAGGCG 61.454 65.000 0.14 0.00 44.46 5.52
186 187 1.114119 CCTCCCTCCTACCGTTAGGC 61.114 65.000 0.14 0.00 44.46 3.93
187 188 1.114119 GCCTCCCTCCTACCGTTAGG 61.114 65.000 0.00 0.00 46.03 2.69
188 189 1.453762 CGCCTCCCTCCTACCGTTAG 61.454 65.000 0.00 0.00 0.00 2.34
189 190 1.454479 CGCCTCCCTCCTACCGTTA 60.454 63.158 0.00 0.00 0.00 3.18
192 193 2.203509 ATCGCCTCCCTCCTACCG 60.204 66.667 0.00 0.00 0.00 4.02
217 218 4.275810 CCATCCATTTTCCATGTCTCTGT 58.724 43.478 0.00 0.00 0.00 3.41
220 221 3.294214 AGCCATCCATTTTCCATGTCTC 58.706 45.455 0.00 0.00 0.00 3.36
225 226 3.806625 CGAAAGCCATCCATTTTCCAT 57.193 42.857 0.00 0.00 0.00 3.41
247 248 4.891756 GGACATTCCCATCAATGTTCTCAT 59.108 41.667 0.59 0.00 45.23 2.90
251 252 5.404466 TTTGGACATTCCCATCAATGTTC 57.596 39.130 0.59 0.00 45.23 3.18
267 268 2.280628 CCCGAGCTCACTAATTTGGAC 58.719 52.381 15.40 0.00 0.00 4.02
270 271 2.009774 CCACCCGAGCTCACTAATTTG 58.990 52.381 15.40 0.33 0.00 2.32
275 276 0.251653 AACTCCACCCGAGCTCACTA 60.252 55.000 15.40 0.00 43.01 2.74
276 277 1.122019 AAACTCCACCCGAGCTCACT 61.122 55.000 15.40 0.00 43.01 3.41
278 279 1.371183 CAAACTCCACCCGAGCTCA 59.629 57.895 15.40 0.00 43.01 4.26
296 297 1.302993 ACACGCCCAATACACCCAC 60.303 57.895 0.00 0.00 0.00 4.61
303 304 0.108520 GGACTTCGACACGCCCAATA 60.109 55.000 0.00 0.00 0.00 1.90
305 306 2.029964 GGACTTCGACACGCCCAA 59.970 61.111 0.00 0.00 0.00 4.12
338 339 2.435938 GAGATTTGCGGGCGTCCA 60.436 61.111 6.96 0.00 0.00 4.02
340 341 3.202706 GGGAGATTTGCGGGCGTC 61.203 66.667 0.00 0.00 0.00 5.19
352 353 2.542550 TGGAATCAAACGTAGGGGAGA 58.457 47.619 0.00 0.00 0.00 3.71
361 362 7.381948 TGAAATCTCACAAATTGGAATCAAACG 59.618 33.333 0.00 0.00 36.36 3.60
372 374 5.212194 CGGACGTTTGAAATCTCACAAATT 58.788 37.500 0.00 0.00 38.09 1.82
387 389 4.707791 GGACCAATCCGGACGTTT 57.292 55.556 6.12 0.00 38.63 3.60
399 401 7.537596 ACAATCATTAAATTTGTCTGGACCA 57.462 32.000 0.00 0.00 0.00 4.02
428 433 3.953612 ACAGTTCAGACATCTTTTTGCCA 59.046 39.130 0.00 0.00 0.00 4.92
437 442 5.947228 TTGGATCAAACAGTTCAGACATC 57.053 39.130 0.00 0.00 0.00 3.06
512 517 4.143543 CAATTGGGGGCACAAGAAAAATT 58.856 39.130 0.00 0.00 33.23 1.82
521 526 2.291801 CCATGCAATTGGGGGCACA 61.292 57.895 7.72 0.00 43.75 4.57
630 644 3.357079 GTGCAAGGGTCCACTGCG 61.357 66.667 9.25 0.00 0.00 5.18
776 804 5.528690 GGACGGAACCTGTAAAAACTTAACT 59.471 40.000 0.00 0.00 0.00 2.24
974 1038 5.868763 CCTGTTGGAATGAAGAACCGAAGG 61.869 50.000 0.00 0.00 46.76 3.46
997 1061 2.087646 GTGTCCTGCCTTCTCCATTTC 58.912 52.381 0.00 0.00 0.00 2.17
1090 1154 0.611200 TCACCGTGGACATTGGTAGG 59.389 55.000 0.00 0.00 33.82 3.18
1096 1160 1.614996 TTTGCATCACCGTGGACATT 58.385 45.000 0.00 0.00 0.00 2.71
1160 1227 0.457853 TCCTCGAGCGAATTTGTCCG 60.458 55.000 6.99 0.00 0.00 4.79
1167 1234 2.302260 TCTCTGATTCCTCGAGCGAAT 58.698 47.619 21.66 21.66 32.62 3.34
1234 1310 6.414732 TGAACCTACATATGAACAGGAAAGG 58.585 40.000 21.62 12.08 32.25 3.11
1254 1330 7.171508 TCAGTGTCTAATTCACAACTGATGAAC 59.828 37.037 8.92 0.00 38.84 3.18
1297 1380 2.433318 GGCCGAGACTCACTGCAC 60.433 66.667 2.82 0.00 0.00 4.57
1595 1678 4.659172 TTGGCCGCCTTCACCCTG 62.659 66.667 11.61 0.00 0.00 4.45
1764 1847 4.091365 CGTACGTGCTTCTTTGATCAATCA 59.909 41.667 9.40 0.00 34.44 2.57
1765 1848 4.569029 CGTACGTGCTTCTTTGATCAATC 58.431 43.478 9.40 0.00 0.00 2.67
1811 1894 2.237643 ACATATTAACCGGACCAGCACA 59.762 45.455 9.46 0.00 0.00 4.57
1812 1895 2.914059 ACATATTAACCGGACCAGCAC 58.086 47.619 9.46 0.00 0.00 4.40
1813 1896 3.275143 CAACATATTAACCGGACCAGCA 58.725 45.455 9.46 0.00 0.00 4.41
1814 1897 3.064820 CACAACATATTAACCGGACCAGC 59.935 47.826 9.46 0.00 0.00 4.85
1815 1898 3.064820 GCACAACATATTAACCGGACCAG 59.935 47.826 9.46 0.00 0.00 4.00
1816 1899 3.011119 GCACAACATATTAACCGGACCA 58.989 45.455 9.46 0.00 0.00 4.02
1817 1900 3.011119 TGCACAACATATTAACCGGACC 58.989 45.455 9.46 0.00 0.00 4.46
1818 1901 4.893424 ATGCACAACATATTAACCGGAC 57.107 40.909 9.46 0.00 37.17 4.79
1820 1903 4.819630 ACCTATGCACAACATATTAACCGG 59.180 41.667 0.00 0.00 40.48 5.28
1821 1904 7.225931 ACTTACCTATGCACAACATATTAACCG 59.774 37.037 0.00 0.00 40.48 4.44
1822 1905 8.446599 ACTTACCTATGCACAACATATTAACC 57.553 34.615 0.00 0.00 40.48 2.85
1825 1908 9.772973 CCTAACTTACCTATGCACAACATATTA 57.227 33.333 0.00 0.00 40.48 0.98
1826 1909 7.719633 CCCTAACTTACCTATGCACAACATATT 59.280 37.037 0.00 0.00 40.48 1.28
1827 1910 7.147373 ACCCTAACTTACCTATGCACAACATAT 60.147 37.037 0.00 0.00 40.48 1.78
1828 1911 6.157297 ACCCTAACTTACCTATGCACAACATA 59.843 38.462 0.00 0.00 40.38 2.29
1829 1912 5.045140 ACCCTAACTTACCTATGCACAACAT 60.045 40.000 0.00 0.00 43.18 2.71
1830 1913 4.287585 ACCCTAACTTACCTATGCACAACA 59.712 41.667 0.00 0.00 0.00 3.33
1848 1931 2.311542 AGCAATCCACCATGAAACCCTA 59.688 45.455 0.00 0.00 0.00 3.53
1916 1999 7.892778 TTTTCACGCCCTAAATTAAATTTCC 57.107 32.000 0.00 0.00 33.82 3.13
1971 2056 1.811195 CCGTGGCGACTGTACCATA 59.189 57.895 5.43 0.00 38.46 2.74
1995 2080 2.083774 ACCACACGTTTATGATGGCAG 58.916 47.619 0.00 0.00 33.46 4.85
2041 2126 7.757624 TGTAAAGAAGTGGAACAAACAATTCAC 59.242 33.333 8.08 0.00 43.21 3.18
2042 2127 7.831753 TGTAAAGAAGTGGAACAAACAATTCA 58.168 30.769 8.08 0.00 43.21 2.57
2068 2153 2.546494 GCTGGACGCACTTGCAAGT 61.546 57.895 26.36 26.36 42.21 3.16
2329 2415 7.926018 GGTATTGTTCCACAAATTTTGTTCTCT 59.074 33.333 12.02 0.00 41.96 3.10
2360 2446 1.136305 CACCGATAGACATCCGGTGTT 59.864 52.381 20.86 0.05 43.40 3.32
2376 2863 2.815211 CAGGTCCATGCGTCACCG 60.815 66.667 0.00 0.00 35.13 4.94
2383 2870 0.539438 TTGTGGTTCCAGGTCCATGC 60.539 55.000 8.86 0.21 36.09 4.06
2412 2899 1.072965 ACCCCTGAATATGCAGCTAGC 59.927 52.381 6.62 6.62 45.96 3.42
2646 3192 1.067565 ACAGTCGCAGTGGACATACAG 60.068 52.381 12.45 2.55 39.42 2.74
2661 3207 7.589574 TTGCCTTTGTTAAAAGAAAACAGTC 57.410 32.000 0.00 0.00 44.81 3.51


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

AutoCloner maintained by Alex Coulton.