Multiple sequence alignment - TraesCS3B01G130700

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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 TraesCS3B01G130700 chr3B 100.000 2702 0 0 1 2702 112906576 112909277 0 4990
1 TraesCS3B01G130700 chr3B 97.466 2486 58 4 221 2702 16127514 16125030 0 4237
2 TraesCS3B01G130700 chr5B 98.390 2484 37 2 222 2702 464631029 464633512 0 4362
3 TraesCS3B01G130700 chr4B 98.148 2484 43 2 222 2702 29260153 29262636 0 4329
4 TraesCS3B01G130700 chr4B 98.106 2481 44 2 225 2702 402790276 402787796 0 4318
5 TraesCS3B01G130700 chr2B 97.908 2486 45 5 220 2702 594086538 594089019 0 4296
6 TraesCS3B01G130700 chr2B 97.340 2481 60 5 226 2702 42190331 42192809 0 4211
7 TraesCS3B01G130700 chr1B 97.746 2484 51 4 222 2702 38180316 38182797 0 4272
8 TraesCS3B01G130700 chr1B 97.304 2485 63 3 222 2702 357905209 357902725 0 4215
9 TraesCS3B01G130700 chr7B 97.431 2491 61 2 215 2702 687037539 687040029 0 4242


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 TraesCS3B01G130700 chr3B 112906576 112909277 2701 False 4990 4990 100.000 1 2702 1 chr3B.!!$F1 2701
1 TraesCS3B01G130700 chr3B 16125030 16127514 2484 True 4237 4237 97.466 221 2702 1 chr3B.!!$R1 2481
2 TraesCS3B01G130700 chr5B 464631029 464633512 2483 False 4362 4362 98.390 222 2702 1 chr5B.!!$F1 2480
3 TraesCS3B01G130700 chr4B 29260153 29262636 2483 False 4329 4329 98.148 222 2702 1 chr4B.!!$F1 2480
4 TraesCS3B01G130700 chr4B 402787796 402790276 2480 True 4318 4318 98.106 225 2702 1 chr4B.!!$R1 2477
5 TraesCS3B01G130700 chr2B 594086538 594089019 2481 False 4296 4296 97.908 220 2702 1 chr2B.!!$F2 2482
6 TraesCS3B01G130700 chr2B 42190331 42192809 2478 False 4211 4211 97.340 226 2702 1 chr2B.!!$F1 2476
7 TraesCS3B01G130700 chr1B 38180316 38182797 2481 False 4272 4272 97.746 222 2702 1 chr1B.!!$F1 2480
8 TraesCS3B01G130700 chr1B 357902725 357905209 2484 True 4215 4215 97.304 222 2702 1 chr1B.!!$R1 2480
9 TraesCS3B01G130700 chr7B 687037539 687040029 2490 False 4242 4242 97.431 215 2702 1 chr7B.!!$F1 2487

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
180 181 0.03601 ATCCAGACGGTTTGCCAGAG 60.036 55.0 0.0 0.0 34.09 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1888 1896 1.203492 ACCCTTGGTTCTCCTGGATCT 60.203 52.381 0.0 0.0 27.29 2.75 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
31 32 4.802051 GGGCGGCTCAATGGCAGA 62.802 66.667 9.56 0.00 41.89 4.26
32 33 2.751436 GGCGGCTCAATGGCAGAA 60.751 61.111 0.00 0.00 41.89 3.02
33 34 2.768492 GGCGGCTCAATGGCAGAAG 61.768 63.158 0.00 0.00 41.89 2.85
34 35 2.768492 GCGGCTCAATGGCAGAAGG 61.768 63.158 0.00 0.00 41.89 3.46
35 36 2.117156 CGGCTCAATGGCAGAAGGG 61.117 63.158 0.00 0.00 41.89 3.95
36 37 2.421399 GGCTCAATGGCAGAAGGGC 61.421 63.158 0.00 0.00 41.37 5.19
37 38 1.379576 GCTCAATGGCAGAAGGGCT 60.380 57.895 0.00 0.00 43.83 5.19
38 39 1.382692 GCTCAATGGCAGAAGGGCTC 61.383 60.000 0.00 0.00 43.83 4.70
39 40 1.078214 TCAATGGCAGAAGGGCTCG 60.078 57.895 0.00 0.00 43.83 5.03
40 41 2.439156 AATGGCAGAAGGGCTCGC 60.439 61.111 0.00 0.00 43.83 5.03
41 42 4.845580 ATGGCAGAAGGGCTCGCG 62.846 66.667 0.00 0.00 43.83 5.87
47 48 4.821589 GAAGGGCTCGCGGTGGAG 62.822 72.222 6.13 0.00 37.11 3.86
61 62 4.115199 GGAGGAGGCCGGCACAAT 62.115 66.667 30.85 11.40 0.00 2.71
62 63 2.825836 GAGGAGGCCGGCACAATG 60.826 66.667 30.85 0.00 0.00 2.82
63 64 4.431131 AGGAGGCCGGCACAATGG 62.431 66.667 30.85 0.00 0.00 3.16
64 65 4.424711 GGAGGCCGGCACAATGGA 62.425 66.667 30.85 0.00 0.00 3.41
65 66 3.134127 GAGGCCGGCACAATGGAC 61.134 66.667 30.85 8.01 0.00 4.02
73 74 3.499737 CACAATGGACGGCGGCTC 61.500 66.667 14.66 2.92 0.00 4.70
74 75 4.015406 ACAATGGACGGCGGCTCA 62.015 61.111 14.66 9.90 0.00 4.26
75 76 3.499737 CAATGGACGGCGGCTCAC 61.500 66.667 14.66 0.00 0.00 3.51
96 97 2.658422 GGGAACGGTCGCAGGTTA 59.342 61.111 13.35 0.00 36.72 2.85
97 98 1.739196 GGGAACGGTCGCAGGTTAC 60.739 63.158 13.35 0.00 36.72 2.50
98 99 1.291272 GGAACGGTCGCAGGTTACT 59.709 57.895 0.00 0.00 0.00 2.24
99 100 0.527565 GGAACGGTCGCAGGTTACTA 59.472 55.000 0.00 0.00 0.00 1.82
100 101 1.622232 GAACGGTCGCAGGTTACTAC 58.378 55.000 0.00 0.00 0.00 2.73
101 102 1.200948 GAACGGTCGCAGGTTACTACT 59.799 52.381 0.00 0.00 0.00 2.57
102 103 0.524862 ACGGTCGCAGGTTACTACTG 59.475 55.000 0.00 0.00 38.95 2.74
108 109 3.324170 CAGGTTACTACTGCGGACG 57.676 57.895 0.00 0.00 0.00 4.79
109 110 0.801067 CAGGTTACTACTGCGGACGC 60.801 60.000 10.13 10.13 42.35 5.19
110 111 1.870901 GGTTACTACTGCGGACGCG 60.871 63.158 3.53 3.53 45.51 6.01
145 146 4.345962 TCGACGCCGCCGAAGAAA 62.346 61.111 0.00 0.00 38.29 2.52
146 147 3.408020 CGACGCCGCCGAAGAAAA 61.408 61.111 0.00 0.00 38.29 2.29
147 148 2.940561 GACGCCGCCGAAGAAAAA 59.059 55.556 0.00 0.00 38.29 1.94
148 149 1.500396 GACGCCGCCGAAGAAAAAT 59.500 52.632 0.00 0.00 38.29 1.82
149 150 0.520619 GACGCCGCCGAAGAAAAATC 60.521 55.000 0.00 0.00 38.29 2.17
150 151 1.226295 CGCCGCCGAAGAAAAATCC 60.226 57.895 0.00 0.00 36.29 3.01
151 152 1.226295 GCCGCCGAAGAAAAATCCG 60.226 57.895 0.00 0.00 0.00 4.18
152 153 1.226295 CCGCCGAAGAAAAATCCGC 60.226 57.895 0.00 0.00 0.00 5.54
153 154 1.499949 CGCCGAAGAAAAATCCGCA 59.500 52.632 0.00 0.00 0.00 5.69
154 155 0.109964 CGCCGAAGAAAAATCCGCAA 60.110 50.000 0.00 0.00 0.00 4.85
155 156 1.336877 GCCGAAGAAAAATCCGCAAC 58.663 50.000 0.00 0.00 0.00 4.17
156 157 1.335506 GCCGAAGAAAAATCCGCAACA 60.336 47.619 0.00 0.00 0.00 3.33
157 158 2.584791 CCGAAGAAAAATCCGCAACAG 58.415 47.619 0.00 0.00 0.00 3.16
158 159 2.225491 CCGAAGAAAAATCCGCAACAGA 59.775 45.455 0.00 0.00 0.00 3.41
159 160 3.482786 CGAAGAAAAATCCGCAACAGAG 58.517 45.455 0.00 0.00 0.00 3.35
160 161 3.667960 CGAAGAAAAATCCGCAACAGAGG 60.668 47.826 0.00 0.00 0.00 3.69
161 162 3.140325 AGAAAAATCCGCAACAGAGGA 57.860 42.857 0.00 0.00 41.30 3.71
163 164 3.691609 AGAAAAATCCGCAACAGAGGATC 59.308 43.478 1.27 0.00 45.78 3.36
164 165 2.044123 AAATCCGCAACAGAGGATCC 57.956 50.000 2.48 2.48 45.78 3.36
165 166 0.911769 AATCCGCAACAGAGGATCCA 59.088 50.000 15.82 0.00 45.78 3.41
166 167 0.467384 ATCCGCAACAGAGGATCCAG 59.533 55.000 15.82 5.90 43.27 3.86
167 168 0.614697 TCCGCAACAGAGGATCCAGA 60.615 55.000 15.82 0.00 33.66 3.86
168 169 0.460987 CCGCAACAGAGGATCCAGAC 60.461 60.000 15.82 5.00 33.66 3.51
169 170 0.803768 CGCAACAGAGGATCCAGACG 60.804 60.000 15.82 3.80 33.66 4.18
170 171 0.460987 GCAACAGAGGATCCAGACGG 60.461 60.000 15.82 8.22 33.66 4.79
171 172 0.898320 CAACAGAGGATCCAGACGGT 59.102 55.000 15.82 8.86 33.66 4.83
172 173 1.276421 CAACAGAGGATCCAGACGGTT 59.724 52.381 15.82 14.06 33.66 4.44
173 174 1.645710 ACAGAGGATCCAGACGGTTT 58.354 50.000 15.82 0.00 33.66 3.27
174 175 1.276421 ACAGAGGATCCAGACGGTTTG 59.724 52.381 15.82 0.00 33.66 2.93
175 176 0.250513 AGAGGATCCAGACGGTTTGC 59.749 55.000 15.82 0.00 33.66 3.68
176 177 0.744771 GAGGATCCAGACGGTTTGCC 60.745 60.000 15.82 0.00 0.00 4.52
177 178 1.002624 GGATCCAGACGGTTTGCCA 60.003 57.895 6.95 0.00 34.09 4.92
178 179 1.026718 GGATCCAGACGGTTTGCCAG 61.027 60.000 6.95 0.00 34.09 4.85
179 180 0.036388 GATCCAGACGGTTTGCCAGA 60.036 55.000 0.00 0.00 34.09 3.86
180 181 0.036010 ATCCAGACGGTTTGCCAGAG 60.036 55.000 0.00 0.00 34.09 3.35
181 182 2.328099 CCAGACGGTTTGCCAGAGC 61.328 63.158 0.00 0.00 40.48 4.09
182 183 2.357517 AGACGGTTTGCCAGAGCG 60.358 61.111 5.21 5.21 44.31 5.03
183 184 2.357034 GACGGTTTGCCAGAGCGA 60.357 61.111 13.98 0.00 44.31 4.93
184 185 2.665185 ACGGTTTGCCAGAGCGAC 60.665 61.111 13.98 0.00 44.31 5.19
185 186 3.777925 CGGTTTGCCAGAGCGACG 61.778 66.667 0.00 0.00 44.31 5.12
186 187 3.423154 GGTTTGCCAGAGCGACGG 61.423 66.667 0.00 0.00 44.31 4.79
187 188 2.665185 GTTTGCCAGAGCGACGGT 60.665 61.111 0.00 0.00 44.31 4.83
188 189 2.357034 TTTGCCAGAGCGACGGTC 60.357 61.111 18.97 18.97 44.31 4.79
189 190 4.717629 TTGCCAGAGCGACGGTCG 62.718 66.667 25.18 25.18 44.31 4.79
208 209 4.003788 CAGGGGTGTCGGCTCGTT 62.004 66.667 0.00 0.00 0.00 3.85
209 210 4.003788 AGGGGTGTCGGCTCGTTG 62.004 66.667 0.00 0.00 0.00 4.10
211 212 4.309950 GGGTGTCGGCTCGTTGGT 62.310 66.667 0.00 0.00 0.00 3.67
212 213 2.652530 GGTGTCGGCTCGTTGGTA 59.347 61.111 0.00 0.00 0.00 3.25
213 214 1.445582 GGTGTCGGCTCGTTGGTAG 60.446 63.158 0.00 0.00 0.00 3.18
262 263 5.222048 TGACCTACAAGGCTAACAAAATCCT 60.222 40.000 0.00 0.00 39.63 3.24
331 333 1.904771 CCAACATCCCTGGCGTCTA 59.095 57.895 0.00 0.00 0.00 2.59
466 469 1.562475 GGCCCTGGTAAGTGGATAACA 59.438 52.381 0.00 0.00 0.00 2.41
641 644 3.084786 ACTTTGCTGCTCTTGGTAATCC 58.915 45.455 0.00 0.00 0.00 3.01
836 841 4.445564 AGTAGAAAGATTGGGGGTTAGGT 58.554 43.478 0.00 0.00 0.00 3.08
873 878 5.932455 AGGGTTAACTTTGCTTAGTGTGTA 58.068 37.500 5.42 0.00 0.00 2.90
1096 1102 5.806654 ACCATTGGTTTTTGATACAAGCT 57.193 34.783 1.37 0.00 27.29 3.74
1140 1146 6.219473 TGCAAAAGTGAGACAAGTTTTGAAA 58.781 32.000 17.20 5.60 46.48 2.69
1275 1281 9.403583 GTATACAAGGAAAAAGTATCCCAATCA 57.596 33.333 0.00 0.00 37.71 2.57
1593 1599 5.873712 GGATGAAGATGCTTATGATGACGAT 59.126 40.000 0.00 0.00 0.00 3.73
1727 1735 1.124780 TGACGAGGGTCCAGTTGAAA 58.875 50.000 0.00 0.00 42.73 2.69
1826 1834 6.772716 TCACTTGTTTAAAGATCTCAGCCTTT 59.227 34.615 0.00 0.00 36.64 3.11
1888 1896 2.283101 GAGCCAACACCATGCCCA 60.283 61.111 0.00 0.00 0.00 5.36
2113 2121 5.065988 TCGTGCAAGAAAGCTTAAAGAAACT 59.934 36.000 0.00 0.00 34.99 2.66
2151 2159 5.789643 AAAAGTTGTGTTGCCACTCATAT 57.210 34.783 0.00 0.00 42.34 1.78
2411 2419 2.581547 TTGTTGGCCGCCATTGCAT 61.582 52.632 14.30 0.00 37.32 3.96
2506 2514 1.336440 CAATGTGTGGAGGCGTTTCAA 59.664 47.619 0.00 0.00 0.00 2.69
2538 2546 3.259374 CCGGTCTTGTCTATAGATGGCAT 59.741 47.826 5.57 0.00 0.00 4.40
2658 2666 1.750682 GCACCAAGACAACTGGGAGTT 60.751 52.381 0.00 0.00 39.53 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 4.802051 TCTGCCATTGAGCCGCCC 62.802 66.667 0.00 0.00 0.00 6.13
15 16 2.751436 TTCTGCCATTGAGCCGCC 60.751 61.111 0.00 0.00 0.00 6.13
16 17 2.768492 CCTTCTGCCATTGAGCCGC 61.768 63.158 0.00 0.00 0.00 6.53
17 18 2.117156 CCCTTCTGCCATTGAGCCG 61.117 63.158 0.00 0.00 0.00 5.52
18 19 2.421399 GCCCTTCTGCCATTGAGCC 61.421 63.158 0.00 0.00 0.00 4.70
19 20 1.379576 AGCCCTTCTGCCATTGAGC 60.380 57.895 0.00 0.00 0.00 4.26
20 21 1.094073 CGAGCCCTTCTGCCATTGAG 61.094 60.000 0.00 0.00 0.00 3.02
21 22 1.078214 CGAGCCCTTCTGCCATTGA 60.078 57.895 0.00 0.00 0.00 2.57
22 23 2.768492 GCGAGCCCTTCTGCCATTG 61.768 63.158 0.00 0.00 0.00 2.82
23 24 2.439156 GCGAGCCCTTCTGCCATT 60.439 61.111 0.00 0.00 0.00 3.16
24 25 4.845580 CGCGAGCCCTTCTGCCAT 62.846 66.667 0.00 0.00 0.00 4.40
30 31 4.821589 CTCCACCGCGAGCCCTTC 62.822 72.222 8.23 0.00 0.00 3.46
44 45 4.115199 ATTGTGCCGGCCTCCTCC 62.115 66.667 26.77 5.15 0.00 4.30
45 46 2.825836 CATTGTGCCGGCCTCCTC 60.826 66.667 26.77 9.75 0.00 3.71
46 47 4.431131 CCATTGTGCCGGCCTCCT 62.431 66.667 26.77 2.95 0.00 3.69
47 48 4.424711 TCCATTGTGCCGGCCTCC 62.425 66.667 26.77 12.70 0.00 4.30
48 49 3.134127 GTCCATTGTGCCGGCCTC 61.134 66.667 26.77 17.83 0.00 4.70
56 57 3.499737 GAGCCGCCGTCCATTGTG 61.500 66.667 0.00 0.00 0.00 3.33
57 58 4.015406 TGAGCCGCCGTCCATTGT 62.015 61.111 0.00 0.00 0.00 2.71
58 59 3.499737 GTGAGCCGCCGTCCATTG 61.500 66.667 0.00 0.00 0.00 2.82
78 79 3.285523 TAACCTGCGACCGTTCCCG 62.286 63.158 0.00 0.00 0.00 5.14
79 80 1.739196 GTAACCTGCGACCGTTCCC 60.739 63.158 0.00 0.00 0.00 3.97
80 81 0.527565 TAGTAACCTGCGACCGTTCC 59.472 55.000 0.00 0.00 0.00 3.62
81 82 1.200948 AGTAGTAACCTGCGACCGTTC 59.799 52.381 0.00 0.00 0.00 3.95
82 83 1.068055 CAGTAGTAACCTGCGACCGTT 60.068 52.381 0.00 0.00 0.00 4.44
83 84 0.524862 CAGTAGTAACCTGCGACCGT 59.475 55.000 0.00 0.00 0.00 4.83
84 85 0.801067 GCAGTAGTAACCTGCGACCG 60.801 60.000 0.00 0.00 45.10 4.79
85 86 3.046280 GCAGTAGTAACCTGCGACC 57.954 57.895 0.00 0.00 45.10 4.79
90 91 0.801067 GCGTCCGCAGTAGTAACCTG 60.801 60.000 6.82 0.00 41.49 4.00
91 92 1.509923 GCGTCCGCAGTAGTAACCT 59.490 57.895 6.82 0.00 41.49 3.50
92 93 1.870901 CGCGTCCGCAGTAGTAACC 60.871 63.158 12.58 0.00 42.06 2.85
93 94 1.870901 CCGCGTCCGCAGTAGTAAC 60.871 63.158 12.58 0.00 42.06 2.50
94 95 2.486504 CCGCGTCCGCAGTAGTAA 59.513 61.111 12.58 0.00 42.06 2.24
95 96 4.183686 GCCGCGTCCGCAGTAGTA 62.184 66.667 12.58 0.00 42.06 1.82
128 129 3.844858 TTTTCTTCGGCGGCGTCGA 62.845 57.895 34.05 34.05 38.09 4.20
129 130 2.235536 ATTTTTCTTCGGCGGCGTCG 62.236 55.000 29.88 29.88 39.81 5.12
130 131 0.520619 GATTTTTCTTCGGCGGCGTC 60.521 55.000 31.06 14.69 0.00 5.19
131 132 1.500396 GATTTTTCTTCGGCGGCGT 59.500 52.632 31.06 9.14 0.00 5.68
132 133 1.226295 GGATTTTTCTTCGGCGGCG 60.226 57.895 27.15 27.15 0.00 6.46
133 134 1.226295 CGGATTTTTCTTCGGCGGC 60.226 57.895 7.21 0.00 0.00 6.53
134 135 1.226295 GCGGATTTTTCTTCGGCGG 60.226 57.895 7.21 0.00 31.17 6.13
135 136 0.109964 TTGCGGATTTTTCTTCGGCG 60.110 50.000 0.00 0.00 40.98 6.46
136 137 1.335506 TGTTGCGGATTTTTCTTCGGC 60.336 47.619 0.00 0.00 39.21 5.54
137 138 2.225491 TCTGTTGCGGATTTTTCTTCGG 59.775 45.455 0.00 0.00 0.00 4.30
138 139 3.482786 CTCTGTTGCGGATTTTTCTTCG 58.517 45.455 0.00 0.00 0.00 3.79
139 140 3.502211 TCCTCTGTTGCGGATTTTTCTTC 59.498 43.478 0.00 0.00 0.00 2.87
140 141 3.486383 TCCTCTGTTGCGGATTTTTCTT 58.514 40.909 0.00 0.00 0.00 2.52
141 142 3.140325 TCCTCTGTTGCGGATTTTTCT 57.860 42.857 0.00 0.00 0.00 2.52
142 143 3.181496 GGATCCTCTGTTGCGGATTTTTC 60.181 47.826 3.84 0.00 37.86 2.29
143 144 2.755103 GGATCCTCTGTTGCGGATTTTT 59.245 45.455 3.84 0.00 37.86 1.94
144 145 2.290896 TGGATCCTCTGTTGCGGATTTT 60.291 45.455 14.23 0.00 37.86 1.82
145 146 1.281867 TGGATCCTCTGTTGCGGATTT 59.718 47.619 14.23 0.00 37.86 2.17
146 147 0.911769 TGGATCCTCTGTTGCGGATT 59.088 50.000 14.23 0.00 37.86 3.01
147 148 0.467384 CTGGATCCTCTGTTGCGGAT 59.533 55.000 14.23 0.00 40.21 4.18
148 149 0.614697 TCTGGATCCTCTGTTGCGGA 60.615 55.000 14.23 0.00 0.00 5.54
149 150 0.460987 GTCTGGATCCTCTGTTGCGG 60.461 60.000 14.23 0.00 0.00 5.69
150 151 0.803768 CGTCTGGATCCTCTGTTGCG 60.804 60.000 14.23 4.39 0.00 4.85
151 152 0.460987 CCGTCTGGATCCTCTGTTGC 60.461 60.000 14.23 0.00 37.49 4.17
152 153 0.898320 ACCGTCTGGATCCTCTGTTG 59.102 55.000 14.23 0.00 39.21 3.33
153 154 1.645710 AACCGTCTGGATCCTCTGTT 58.354 50.000 14.23 9.22 39.21 3.16
154 155 1.276421 CAAACCGTCTGGATCCTCTGT 59.724 52.381 14.23 3.64 39.21 3.41
155 156 2.009042 GCAAACCGTCTGGATCCTCTG 61.009 57.143 14.23 3.49 39.21 3.35
156 157 0.250513 GCAAACCGTCTGGATCCTCT 59.749 55.000 14.23 0.00 39.21 3.69
157 158 0.744771 GGCAAACCGTCTGGATCCTC 60.745 60.000 14.23 2.81 39.21 3.71
158 159 1.299976 GGCAAACCGTCTGGATCCT 59.700 57.895 14.23 0.00 39.21 3.24
159 160 1.002624 TGGCAAACCGTCTGGATCC 60.003 57.895 4.20 4.20 39.70 3.36
160 161 0.036388 TCTGGCAAACCGTCTGGATC 60.036 55.000 0.00 0.00 39.70 3.36
161 162 0.036010 CTCTGGCAAACCGTCTGGAT 60.036 55.000 0.00 0.00 39.70 3.41
162 163 1.371183 CTCTGGCAAACCGTCTGGA 59.629 57.895 0.00 0.00 39.70 3.86
163 164 2.328099 GCTCTGGCAAACCGTCTGG 61.328 63.158 0.00 0.00 39.70 3.86
164 165 2.671177 CGCTCTGGCAAACCGTCTG 61.671 63.158 0.00 0.00 39.70 3.51
165 166 2.357517 CGCTCTGGCAAACCGTCT 60.358 61.111 0.00 0.00 39.70 4.18
166 167 2.357034 TCGCTCTGGCAAACCGTC 60.357 61.111 0.00 0.00 39.70 4.79
167 168 2.665185 GTCGCTCTGGCAAACCGT 60.665 61.111 0.00 0.00 39.70 4.83
168 169 3.777925 CGTCGCTCTGGCAAACCG 61.778 66.667 0.00 0.00 39.70 4.44
169 170 3.423154 CCGTCGCTCTGGCAAACC 61.423 66.667 0.00 0.00 38.60 3.27
170 171 2.665185 ACCGTCGCTCTGGCAAAC 60.665 61.111 0.00 0.00 38.60 2.93
171 172 2.357034 GACCGTCGCTCTGGCAAA 60.357 61.111 0.00 0.00 38.60 3.68
172 173 4.717629 CGACCGTCGCTCTGGCAA 62.718 66.667 8.21 0.00 38.60 4.52
191 192 4.003788 AACGAGCCGACACCCCTG 62.004 66.667 1.50 0.00 0.00 4.45
192 193 4.003788 CAACGAGCCGACACCCCT 62.004 66.667 1.50 0.00 0.00 4.79
194 195 2.830704 CTACCAACGAGCCGACACCC 62.831 65.000 1.50 0.00 0.00 4.61
195 196 1.445582 CTACCAACGAGCCGACACC 60.446 63.158 1.50 0.00 0.00 4.16
196 197 2.092882 GCTACCAACGAGCCGACAC 61.093 63.158 1.50 0.00 33.60 3.67
197 198 2.260434 GCTACCAACGAGCCGACA 59.740 61.111 1.50 0.00 33.60 4.35
198 199 2.879462 CGCTACCAACGAGCCGAC 60.879 66.667 1.50 0.00 36.53 4.79
199 200 4.124351 CCGCTACCAACGAGCCGA 62.124 66.667 1.50 0.00 36.53 5.54
202 203 4.752879 TGCCCGCTACCAACGAGC 62.753 66.667 0.00 0.00 34.56 5.03
203 204 2.509336 CTGCCCGCTACCAACGAG 60.509 66.667 0.00 0.00 0.00 4.18
204 205 4.077184 CCTGCCCGCTACCAACGA 62.077 66.667 0.00 0.00 0.00 3.85
206 207 3.712907 TCCCTGCCCGCTACCAAC 61.713 66.667 0.00 0.00 0.00 3.77
207 208 3.712907 GTCCCTGCCCGCTACCAA 61.713 66.667 0.00 0.00 0.00 3.67
209 210 2.757980 TTTTGTCCCTGCCCGCTACC 62.758 60.000 0.00 0.00 0.00 3.18
210 211 0.679960 ATTTTGTCCCTGCCCGCTAC 60.680 55.000 0.00 0.00 0.00 3.58
211 212 0.039035 AATTTTGTCCCTGCCCGCTA 59.961 50.000 0.00 0.00 0.00 4.26
212 213 0.039035 TAATTTTGTCCCTGCCCGCT 59.961 50.000 0.00 0.00 0.00 5.52
213 214 0.172578 GTAATTTTGTCCCTGCCCGC 59.827 55.000 0.00 0.00 0.00 6.13
245 246 5.123820 TCGAATCAGGATTTTGTTAGCCTTG 59.876 40.000 0.00 0.00 0.00 3.61
262 263 0.606096 TCCAAAGCGAGGTCGAATCA 59.394 50.000 2.94 0.00 43.02 2.57
391 393 0.106708 ACGTCAGCTGGTCAACATGT 59.893 50.000 15.13 1.55 0.00 3.21
1096 1102 4.162131 TGCAACAACATCCTCATAGCTAGA 59.838 41.667 0.00 0.00 0.00 2.43
1140 1146 3.454719 TCAACATTGGTGTCCATCCAT 57.545 42.857 0.83 0.00 37.67 3.41
1275 1281 7.253422 CAAACAATTCAAGTGACTTGTCTTCT 58.747 34.615 23.17 5.20 43.92 2.85
1593 1599 1.734655 ACCCTTCCTCTTGCTCTTCA 58.265 50.000 0.00 0.00 0.00 3.02
1727 1735 2.571653 TGAATCCATCCTCGTCCAACTT 59.428 45.455 0.00 0.00 0.00 2.66
1826 1834 2.811431 CGTCAACAACAGCTTTATGGGA 59.189 45.455 0.00 0.00 0.00 4.37
1888 1896 1.203492 ACCCTTGGTTCTCCTGGATCT 60.203 52.381 0.00 0.00 27.29 2.75
2113 2121 7.038659 CACAACTTTTTAACACCCATTCTTCA 58.961 34.615 0.00 0.00 0.00 3.02
2151 2159 4.873827 GTCGTTTAGATGGAGGTTTGCATA 59.126 41.667 0.00 0.00 35.28 3.14
2411 2419 1.513858 AACATGCCCGGGTTCCTATA 58.486 50.000 24.63 0.14 0.00 1.31
2506 2514 0.391597 ACAAGACCGGACGACAATGT 59.608 50.000 9.46 2.45 0.00 2.71
2538 2546 4.081862 CCTTGTATCTACCGGTCAAGAACA 60.082 45.833 26.32 19.53 38.06 3.18
2622 2630 1.074775 TGCTCGGAAGGCACCAAAT 59.925 52.632 2.06 0.00 33.43 2.32
2658 2666 2.040947 TGCCTAACATGACCCATGAACA 59.959 45.455 13.22 0.00 43.81 3.18


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

AutoCloner maintained by Alex Coulton.