Multiple sequence alignment - TraesCS2A01G474900

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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 TraesCS2A01G474900 chr2A 100.000 3614 0 0 1 3614 715818987 715815374 0.000000e+00 6674.0
1 TraesCS2A01G474900 chr2D 95.918 3381 98 16 257 3614 577596984 577600347 0.000000e+00 5443.0
2 TraesCS2A01G474900 chr2D 86.728 761 70 17 1550 2292 577573181 577573928 0.000000e+00 817.0
3 TraesCS2A01G474900 chr2D 88.660 194 10 9 1281 1467 577573153 577573341 3.630000e-55 226.0
4 TraesCS2A01G474900 chr2B 94.053 3363 119 20 292 3614 695000230 694996909 0.000000e+00 5027.0
5 TraesCS2A01G474900 chr7A 85.859 99 13 1 1 98 7868407 7868309 1.770000e-18 104.0
6 TraesCS2A01G474900 chr7A 89.610 77 7 1 3409 3485 62841767 62841842 2.970000e-16 97.1
7 TraesCS2A01G474900 chr1B 87.097 93 11 1 1 92 564794426 564794334 1.770000e-18 104.0
8 TraesCS2A01G474900 chr1D 97.297 37 0 1 3410 3445 346394444 346394480 1.080000e-05 62.1
9 TraesCS2A01G474900 chr1D 90.000 40 4 0 46 85 382749211 382749250 7.000000e-03 52.8
10 TraesCS2A01G474900 chr7D 92.500 40 3 0 46 85 568938272 568938311 1.400000e-04 58.4


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 TraesCS2A01G474900 chr2A 715815374 715818987 3613 True 6674.0 6674 100.000 1 3614 1 chr2A.!!$R1 3613
1 TraesCS2A01G474900 chr2D 577596984 577600347 3363 False 5443.0 5443 95.918 257 3614 1 chr2D.!!$F1 3357
2 TraesCS2A01G474900 chr2D 577573153 577573928 775 False 521.5 817 87.694 1281 2292 2 chr2D.!!$F2 1011
3 TraesCS2A01G474900 chr2B 694996909 695000230 3321 True 5027.0 5027 94.053 292 3614 1 chr2B.!!$R1 3322

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
49 50 0.035739 ACGCCACCAAACCGTTCTAT 59.964 50.0 0.00 0.0 0.0 1.98 F
328 329 0.039256 TCACCGAAACGTCCTTACCG 60.039 55.0 0.00 0.0 0.0 4.02 F
855 856 0.319900 AGAAGCATCGACGCAACACT 60.320 50.0 6.14 0.0 0.0 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1080 1086 0.322008 GCTTCCAGTCCACCCTTGAG 60.322 60.000 0.0 0.0 0.00 3.02 R
1971 2003 0.668535 GGATGTTATTCAAGCCGCCC 59.331 55.000 0.0 0.0 0.00 6.13 R
2698 2730 1.893062 GCTCCACATCCAAAAGGGC 59.107 57.895 0.0 0.0 36.21 5.19 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
18 19 3.706373 GTCGCCCCAGGAGCTGAA 61.706 66.667 0.00 0.00 32.44 3.02
19 20 3.706373 TCGCCCCAGGAGCTGAAC 61.706 66.667 0.00 0.00 32.44 3.18
20 21 3.710722 CGCCCCAGGAGCTGAACT 61.711 66.667 0.00 0.00 32.44 3.01
21 22 2.359169 CGCCCCAGGAGCTGAACTA 61.359 63.158 0.00 0.00 32.44 2.24
22 23 1.524482 GCCCCAGGAGCTGAACTAG 59.476 63.158 0.00 0.00 32.44 2.57
30 31 2.493030 GCTGAACTAGCGCCGGTA 59.507 61.111 2.29 0.00 43.63 4.02
31 32 1.877165 GCTGAACTAGCGCCGGTAC 60.877 63.158 2.29 0.00 43.63 3.34
45 46 3.735143 GTACGCCACCAAACCGTT 58.265 55.556 0.00 0.00 36.51 4.44
46 47 1.570967 GTACGCCACCAAACCGTTC 59.429 57.895 0.00 0.00 36.51 3.95
47 48 0.881600 GTACGCCACCAAACCGTTCT 60.882 55.000 0.00 0.00 36.51 3.01
48 49 0.678395 TACGCCACCAAACCGTTCTA 59.322 50.000 0.00 0.00 36.51 2.10
49 50 0.035739 ACGCCACCAAACCGTTCTAT 59.964 50.000 0.00 0.00 0.00 1.98
50 51 1.161843 CGCCACCAAACCGTTCTATT 58.838 50.000 0.00 0.00 0.00 1.73
51 52 1.538075 CGCCACCAAACCGTTCTATTT 59.462 47.619 0.00 0.00 0.00 1.40
52 53 2.743126 CGCCACCAAACCGTTCTATTTA 59.257 45.455 0.00 0.00 0.00 1.40
53 54 3.181514 CGCCACCAAACCGTTCTATTTAG 60.182 47.826 0.00 0.00 0.00 1.85
54 55 4.004982 GCCACCAAACCGTTCTATTTAGA 58.995 43.478 0.00 0.00 0.00 2.10
55 56 4.142752 GCCACCAAACCGTTCTATTTAGAC 60.143 45.833 0.00 0.00 30.81 2.59
56 57 4.092383 CCACCAAACCGTTCTATTTAGACG 59.908 45.833 0.00 0.00 30.81 4.18
57 58 3.681417 ACCAAACCGTTCTATTTAGACGC 59.319 43.478 0.00 0.00 30.81 5.19
58 59 3.063045 CCAAACCGTTCTATTTAGACGCC 59.937 47.826 0.00 0.00 30.81 5.68
59 60 2.591571 ACCGTTCTATTTAGACGCCC 57.408 50.000 0.00 0.00 30.81 6.13
60 61 2.105766 ACCGTTCTATTTAGACGCCCT 58.894 47.619 0.00 0.00 30.81 5.19
61 62 2.159142 ACCGTTCTATTTAGACGCCCTG 60.159 50.000 0.00 0.00 30.81 4.45
62 63 2.100252 CCGTTCTATTTAGACGCCCTGA 59.900 50.000 0.00 0.00 30.81 3.86
63 64 3.372954 CGTTCTATTTAGACGCCCTGAG 58.627 50.000 0.00 0.00 30.81 3.35
64 65 3.718815 GTTCTATTTAGACGCCCTGAGG 58.281 50.000 0.00 0.00 30.81 3.86
65 66 2.698797 TTCTATTTAGACGCCCTGAGGG 59.301 50.000 14.80 14.80 37.77 4.30
75 76 4.785453 CCTGAGGGGCCGAACAGC 62.785 72.222 14.71 0.00 0.00 4.40
76 77 3.710722 CTGAGGGGCCGAACAGCT 61.711 66.667 0.00 0.00 0.00 4.24
77 78 3.965539 CTGAGGGGCCGAACAGCTG 62.966 68.421 13.48 13.48 0.00 4.24
78 79 4.785453 GAGGGGCCGAACAGCTGG 62.785 72.222 19.93 0.08 0.00 4.85
80 81 4.785453 GGGGCCGAACAGCTGGAG 62.785 72.222 19.93 8.49 0.00 3.86
81 82 3.706373 GGGCCGAACAGCTGGAGA 61.706 66.667 19.93 0.00 0.00 3.71
82 83 2.586792 GGCCGAACAGCTGGAGAT 59.413 61.111 19.93 0.44 0.00 2.75
83 84 1.817099 GGCCGAACAGCTGGAGATG 60.817 63.158 19.93 3.41 37.48 2.90
84 85 2.467826 GCCGAACAGCTGGAGATGC 61.468 63.158 19.93 10.05 34.24 3.91
85 86 1.817099 CCGAACAGCTGGAGATGCC 60.817 63.158 19.93 0.00 34.24 4.40
86 87 1.817099 CGAACAGCTGGAGATGCCC 60.817 63.158 19.93 0.00 34.24 5.36
87 88 1.606531 GAACAGCTGGAGATGCCCT 59.393 57.895 19.93 0.00 34.24 5.19
88 89 0.833287 GAACAGCTGGAGATGCCCTA 59.167 55.000 19.93 0.00 34.24 3.53
89 90 1.210478 GAACAGCTGGAGATGCCCTAA 59.790 52.381 19.93 0.00 34.24 2.69
90 91 0.835941 ACAGCTGGAGATGCCCTAAG 59.164 55.000 19.93 0.00 34.24 2.18
91 92 0.108207 CAGCTGGAGATGCCCTAAGG 59.892 60.000 5.57 0.00 34.97 2.69
108 109 1.593265 GGCTTTCACCTTGCCATGG 59.407 57.895 7.63 7.63 45.46 3.66
109 110 1.187567 GGCTTTCACCTTGCCATGGT 61.188 55.000 14.67 0.00 45.46 3.55
110 111 1.544724 GCTTTCACCTTGCCATGGTA 58.455 50.000 14.67 5.86 35.80 3.25
111 112 1.892474 GCTTTCACCTTGCCATGGTAA 59.108 47.619 15.02 15.02 35.80 2.85
112 113 2.094545 GCTTTCACCTTGCCATGGTAAG 60.095 50.000 29.86 29.86 35.80 2.34
113 114 1.544724 TTCACCTTGCCATGGTAAGC 58.455 50.000 31.01 10.62 36.68 3.09
114 115 0.403655 TCACCTTGCCATGGTAAGCA 59.596 50.000 31.01 17.13 36.68 3.91
115 116 1.202989 TCACCTTGCCATGGTAAGCAA 60.203 47.619 31.01 19.11 46.26 3.91
119 120 1.102154 TTGCCATGGTAAGCAATCGG 58.898 50.000 11.68 0.00 43.74 4.18
120 121 1.360192 GCCATGGTAAGCAATCGGC 59.640 57.895 14.67 0.00 45.30 5.54
130 131 2.481212 GCAATCGGCAGGTCAATGA 58.519 52.632 0.00 0.00 43.97 2.57
131 132 1.027357 GCAATCGGCAGGTCAATGAT 58.973 50.000 0.00 0.00 43.97 2.45
132 133 2.221169 GCAATCGGCAGGTCAATGATA 58.779 47.619 0.00 0.00 43.97 2.15
133 134 2.031682 GCAATCGGCAGGTCAATGATAC 60.032 50.000 0.00 0.00 43.97 2.24
134 135 2.154854 ATCGGCAGGTCAATGATACG 57.845 50.000 0.00 0.00 0.00 3.06
135 136 1.107945 TCGGCAGGTCAATGATACGA 58.892 50.000 0.00 0.00 0.00 3.43
136 137 1.067060 TCGGCAGGTCAATGATACGAG 59.933 52.381 0.00 0.00 0.00 4.18
137 138 1.221414 GGCAGGTCAATGATACGAGC 58.779 55.000 0.00 0.00 0.00 5.03
138 139 1.221414 GCAGGTCAATGATACGAGCC 58.779 55.000 0.00 0.00 0.00 4.70
139 140 1.491670 CAGGTCAATGATACGAGCCG 58.508 55.000 0.00 0.00 0.00 5.52
140 141 1.067060 CAGGTCAATGATACGAGCCGA 59.933 52.381 1.50 0.00 0.00 5.54
141 142 1.338337 AGGTCAATGATACGAGCCGAG 59.662 52.381 1.50 0.00 0.00 4.63
142 143 1.337071 GGTCAATGATACGAGCCGAGA 59.663 52.381 1.50 0.00 0.00 4.04
143 144 2.029828 GGTCAATGATACGAGCCGAGAT 60.030 50.000 1.50 0.00 0.00 2.75
144 145 3.238441 GTCAATGATACGAGCCGAGATC 58.762 50.000 1.50 4.95 0.00 2.75
145 146 3.057876 GTCAATGATACGAGCCGAGATCT 60.058 47.826 0.00 0.00 0.00 2.75
146 147 3.189495 TCAATGATACGAGCCGAGATCTC 59.811 47.826 13.05 13.05 0.00 2.75
159 160 3.626389 GAGATCTCGAACGTGAAAAGC 57.374 47.619 7.04 0.00 0.00 3.51
160 161 3.246619 GAGATCTCGAACGTGAAAAGCT 58.753 45.455 7.04 0.00 0.00 3.74
161 162 3.246619 AGATCTCGAACGTGAAAAGCTC 58.753 45.455 0.00 0.00 0.00 4.09
162 163 2.795175 TCTCGAACGTGAAAAGCTCT 57.205 45.000 0.00 0.00 0.00 4.09
163 164 3.909776 TCTCGAACGTGAAAAGCTCTA 57.090 42.857 0.00 0.00 0.00 2.43
164 165 4.436242 TCTCGAACGTGAAAAGCTCTAT 57.564 40.909 0.00 0.00 0.00 1.98
165 166 4.166523 TCTCGAACGTGAAAAGCTCTATG 58.833 43.478 0.00 0.00 0.00 2.23
166 167 3.250744 TCGAACGTGAAAAGCTCTATGG 58.749 45.455 0.00 0.00 0.00 2.74
167 168 2.993899 CGAACGTGAAAAGCTCTATGGT 59.006 45.455 0.00 0.00 0.00 3.55
168 169 3.060895 CGAACGTGAAAAGCTCTATGGTC 59.939 47.826 0.00 0.00 0.00 4.02
169 170 2.607187 ACGTGAAAAGCTCTATGGTCG 58.393 47.619 0.00 0.00 0.00 4.79
170 171 2.029290 ACGTGAAAAGCTCTATGGTCGT 60.029 45.455 0.00 0.00 0.00 4.34
171 172 2.599082 CGTGAAAAGCTCTATGGTCGTC 59.401 50.000 0.00 0.00 0.00 4.20
172 173 2.599082 GTGAAAAGCTCTATGGTCGTCG 59.401 50.000 0.00 0.00 0.00 5.12
173 174 2.194271 GAAAAGCTCTATGGTCGTCGG 58.806 52.381 0.00 0.00 0.00 4.79
174 175 0.179108 AAAGCTCTATGGTCGTCGGC 60.179 55.000 0.00 0.00 0.00 5.54
175 176 1.038130 AAGCTCTATGGTCGTCGGCT 61.038 55.000 0.00 0.00 0.00 5.52
176 177 1.038130 AGCTCTATGGTCGTCGGCTT 61.038 55.000 0.00 0.00 0.00 4.35
177 178 0.872021 GCTCTATGGTCGTCGGCTTG 60.872 60.000 0.00 0.00 0.00 4.01
178 179 0.249073 CTCTATGGTCGTCGGCTTGG 60.249 60.000 0.00 0.00 0.00 3.61
179 180 0.968901 TCTATGGTCGTCGGCTTGGT 60.969 55.000 0.00 0.00 0.00 3.67
180 181 0.806102 CTATGGTCGTCGGCTTGGTG 60.806 60.000 0.00 0.00 0.00 4.17
181 182 1.537814 TATGGTCGTCGGCTTGGTGT 61.538 55.000 0.00 0.00 0.00 4.16
182 183 1.537814 ATGGTCGTCGGCTTGGTGTA 61.538 55.000 0.00 0.00 0.00 2.90
183 184 1.735559 GGTCGTCGGCTTGGTGTAC 60.736 63.158 0.00 0.00 0.00 2.90
184 185 1.735559 GTCGTCGGCTTGGTGTACC 60.736 63.158 0.00 0.00 0.00 3.34
185 186 2.433664 CGTCGGCTTGGTGTACCC 60.434 66.667 0.00 0.00 34.29 3.69
186 187 2.745037 GTCGGCTTGGTGTACCCA 59.255 61.111 0.00 0.00 43.27 4.51
187 188 1.298667 GTCGGCTTGGTGTACCCAT 59.701 57.895 4.19 0.00 44.74 4.00
188 189 0.743345 GTCGGCTTGGTGTACCCATC 60.743 60.000 4.19 0.96 44.74 3.51
189 190 1.195442 TCGGCTTGGTGTACCCATCA 61.195 55.000 4.19 0.00 44.74 3.07
190 191 0.107214 CGGCTTGGTGTACCCATCAT 60.107 55.000 4.19 0.00 44.74 2.45
191 192 1.140052 CGGCTTGGTGTACCCATCATA 59.860 52.381 4.19 0.00 44.74 2.15
192 193 2.224523 CGGCTTGGTGTACCCATCATAT 60.225 50.000 4.19 0.00 44.74 1.78
193 194 3.149196 GGCTTGGTGTACCCATCATATG 58.851 50.000 0.00 0.00 44.74 1.78
204 205 3.416119 CCATCATATGGCGCAATGATC 57.584 47.619 22.00 1.16 44.70 2.92
205 206 2.750712 CCATCATATGGCGCAATGATCA 59.249 45.455 22.00 0.00 44.70 2.92
206 207 3.427098 CCATCATATGGCGCAATGATCAC 60.427 47.826 22.00 0.00 44.70 3.06
207 208 3.130280 TCATATGGCGCAATGATCACT 57.870 42.857 10.83 0.00 0.00 3.41
208 209 2.809696 TCATATGGCGCAATGATCACTG 59.190 45.455 10.83 0.00 0.00 3.66
209 210 1.596603 TATGGCGCAATGATCACTGG 58.403 50.000 10.83 0.00 0.00 4.00
210 211 0.107066 ATGGCGCAATGATCACTGGA 60.107 50.000 10.83 0.00 0.00 3.86
211 212 0.107066 TGGCGCAATGATCACTGGAT 60.107 50.000 10.83 0.00 36.13 3.41
212 213 1.027357 GGCGCAATGATCACTGGATT 58.973 50.000 10.83 0.00 32.67 3.01
213 214 1.406539 GGCGCAATGATCACTGGATTT 59.593 47.619 10.83 0.00 32.67 2.17
214 215 2.542411 GGCGCAATGATCACTGGATTTC 60.542 50.000 10.83 0.00 32.67 2.17
215 216 2.542411 GCGCAATGATCACTGGATTTCC 60.542 50.000 6.26 0.00 32.67 3.13
216 217 2.286595 CGCAATGATCACTGGATTTCCG 60.287 50.000 6.26 0.00 39.43 4.30
217 218 2.684881 GCAATGATCACTGGATTTCCGT 59.315 45.455 6.26 0.00 39.43 4.69
218 219 3.876914 GCAATGATCACTGGATTTCCGTA 59.123 43.478 6.26 0.00 39.43 4.02
219 220 4.335315 GCAATGATCACTGGATTTCCGTAA 59.665 41.667 6.26 0.00 39.43 3.18
220 221 5.163663 GCAATGATCACTGGATTTCCGTAAA 60.164 40.000 6.26 0.00 39.43 2.01
221 222 6.489675 CAATGATCACTGGATTTCCGTAAAG 58.510 40.000 0.00 0.00 39.43 1.85
222 223 5.160607 TGATCACTGGATTTCCGTAAAGT 57.839 39.130 0.00 0.00 39.43 2.66
223 224 4.935205 TGATCACTGGATTTCCGTAAAGTG 59.065 41.667 7.98 7.98 37.55 3.16
224 225 4.345859 TCACTGGATTTCCGTAAAGTGT 57.654 40.909 12.12 0.00 37.50 3.55
225 226 4.062293 TCACTGGATTTCCGTAAAGTGTG 58.938 43.478 12.12 0.00 37.50 3.82
226 227 3.188460 CACTGGATTTCCGTAAAGTGTGG 59.812 47.826 6.63 0.00 39.43 4.17
227 228 3.181448 ACTGGATTTCCGTAAAGTGTGGT 60.181 43.478 0.00 0.00 39.43 4.16
228 229 3.818773 CTGGATTTCCGTAAAGTGTGGTT 59.181 43.478 0.00 0.00 39.43 3.67
229 230 4.208746 TGGATTTCCGTAAAGTGTGGTTT 58.791 39.130 0.00 0.00 39.43 3.27
230 231 5.374921 TGGATTTCCGTAAAGTGTGGTTTA 58.625 37.500 0.00 0.00 39.43 2.01
231 232 5.826737 TGGATTTCCGTAAAGTGTGGTTTAA 59.173 36.000 0.00 0.00 39.43 1.52
232 233 6.016943 TGGATTTCCGTAAAGTGTGGTTTAAG 60.017 38.462 0.00 0.00 39.43 1.85
233 234 6.205270 GGATTTCCGTAAAGTGTGGTTTAAGA 59.795 38.462 0.00 0.00 0.00 2.10
234 235 7.094506 GGATTTCCGTAAAGTGTGGTTTAAGAT 60.095 37.037 0.00 0.00 0.00 2.40
235 236 6.790285 TTCCGTAAAGTGTGGTTTAAGATC 57.210 37.500 0.00 0.00 0.00 2.75
236 237 6.105397 TCCGTAAAGTGTGGTTTAAGATCT 57.895 37.500 0.00 0.00 0.00 2.75
237 238 7.230849 TCCGTAAAGTGTGGTTTAAGATCTA 57.769 36.000 0.00 0.00 0.00 1.98
238 239 7.669427 TCCGTAAAGTGTGGTTTAAGATCTAA 58.331 34.615 0.00 0.00 0.00 2.10
239 240 8.316214 TCCGTAAAGTGTGGTTTAAGATCTAAT 58.684 33.333 0.00 0.00 0.00 1.73
240 241 8.943002 CCGTAAAGTGTGGTTTAAGATCTAATT 58.057 33.333 0.00 0.00 0.00 1.40
245 246 8.480643 AGTGTGGTTTAAGATCTAATTTCTCG 57.519 34.615 0.00 0.00 0.00 4.04
246 247 8.095169 AGTGTGGTTTAAGATCTAATTTCTCGT 58.905 33.333 0.00 0.00 0.00 4.18
247 248 8.718734 GTGTGGTTTAAGATCTAATTTCTCGTT 58.281 33.333 0.00 0.00 0.00 3.85
248 249 8.717821 TGTGGTTTAAGATCTAATTTCTCGTTG 58.282 33.333 0.00 0.00 0.00 4.10
249 250 8.932791 GTGGTTTAAGATCTAATTTCTCGTTGA 58.067 33.333 0.00 0.00 0.00 3.18
250 251 9.151471 TGGTTTAAGATCTAATTTCTCGTTGAG 57.849 33.333 0.00 0.00 0.00 3.02
251 252 8.604890 GGTTTAAGATCTAATTTCTCGTTGAGG 58.395 37.037 0.00 0.00 0.00 3.86
252 253 9.367444 GTTTAAGATCTAATTTCTCGTTGAGGA 57.633 33.333 0.00 0.00 0.00 3.71
254 255 9.534565 TTAAGATCTAATTTCTCGTTGAGGATG 57.465 33.333 0.00 0.00 0.00 3.51
255 256 7.353414 AGATCTAATTTCTCGTTGAGGATGA 57.647 36.000 0.00 0.00 0.00 2.92
265 266 2.354704 CGTTGAGGATGAGTTGGGCTTA 60.355 50.000 0.00 0.00 0.00 3.09
270 271 2.503356 AGGATGAGTTGGGCTTACTCTG 59.497 50.000 16.48 0.00 41.99 3.35
279 280 2.647299 TGGGCTTACTCTGAATTTCCCA 59.353 45.455 0.00 0.00 39.96 4.37
282 283 3.440522 GGCTTACTCTGAATTTCCCACAC 59.559 47.826 0.00 0.00 0.00 3.82
328 329 0.039256 TCACCGAAACGTCCTTACCG 60.039 55.000 0.00 0.00 0.00 4.02
444 445 1.289109 ACACCGTCGCATTTCTTCCG 61.289 55.000 0.00 0.00 0.00 4.30
722 723 2.596851 CCCCATCCTATCCCCTGCG 61.597 68.421 0.00 0.00 0.00 5.18
746 747 4.064768 CCCCTCCATTGGCTGCCA 62.065 66.667 19.30 19.30 0.00 4.92
750 751 4.349503 TCCATTGGCTGCCACGCT 62.350 61.111 23.30 6.30 30.78 5.07
855 856 0.319900 AGAAGCATCGACGCAACACT 60.320 50.000 6.14 0.00 0.00 3.55
927 929 2.924290 GTTCGTCACATCTCCTGCTAAC 59.076 50.000 0.00 0.00 0.00 2.34
939 945 6.994421 TCTCCTGCTAACAATATACCATGA 57.006 37.500 0.00 0.00 0.00 3.07
977 983 9.480053 CTGTCCTTATGAAAAACAATTGTGAAT 57.520 29.630 12.82 0.59 0.00 2.57
1023 1029 2.203280 TTTATGGGGCGGATGGCG 60.203 61.111 0.00 0.00 44.92 5.69
1080 1086 3.632604 TCGTGAATCTGAGGATGTACTCC 59.367 47.826 0.00 0.00 45.33 3.85
1137 1143 5.740290 TTCTAAAGAGGATCAAGAACCGT 57.260 39.130 0.00 0.00 37.82 4.83
1173 1179 1.116308 TCAAGCGAATGATCCCGGTA 58.884 50.000 0.00 0.00 35.32 4.02
1200 1206 2.224159 GGTGGTCAGGGCCAGAGAA 61.224 63.158 6.18 0.00 39.53 2.87
1209 1215 1.065854 AGGGCCAGAGAAATTCTCACG 60.066 52.381 23.20 14.01 45.73 4.35
1276 1282 4.333926 GCAAGTAAGGGCAAGAAGTATGAG 59.666 45.833 0.00 0.00 0.00 2.90
1286 1292 8.718656 AGGGCAAGAAGTATGAGATTATTAAGT 58.281 33.333 0.00 0.00 0.00 2.24
1540 1559 5.715921 TCCACTTGATCATAGGAGGATACA 58.284 41.667 0.00 0.00 41.41 2.29
1541 1560 6.143206 TCCACTTGATCATAGGAGGATACAA 58.857 40.000 0.00 0.00 41.41 2.41
1542 1561 6.268617 TCCACTTGATCATAGGAGGATACAAG 59.731 42.308 0.00 0.00 36.75 3.16
1543 1562 6.042552 CCACTTGATCATAGGAGGATACAAGT 59.957 42.308 0.00 0.00 40.09 3.16
1544 1563 7.233553 CCACTTGATCATAGGAGGATACAAGTA 59.766 40.741 0.00 0.00 38.96 2.24
1545 1564 8.811017 CACTTGATCATAGGAGGATACAAGTAT 58.189 37.037 0.00 0.00 38.96 2.12
1638 1657 7.148171 GCAAAGGTATTGCTAAGAAGTCTGAAT 60.148 37.037 5.94 0.00 41.87 2.57
1838 1870 8.334263 TCAGATGTTTTATGTGCTGTCATTTA 57.666 30.769 0.00 0.00 0.00 1.40
1883 1915 2.561478 TCCTGTAGGTTTTGTCCTGC 57.439 50.000 0.00 0.00 39.95 4.85
1971 2003 4.820744 CCTCACCAATGGGGCCCG 62.821 72.222 19.83 5.76 40.56 6.13
2442 2474 4.262121 CCTCAAAAGATTGTGTGGCATCAA 60.262 41.667 9.70 9.70 37.79 2.57
2698 2730 3.325135 AGGTAACAAGAGACCACAAGAGG 59.675 47.826 0.00 0.00 38.27 3.69
2877 2909 8.843885 TTAGCTGAATTTCCTCTGATGATATG 57.156 34.615 0.00 0.00 0.00 1.78
2879 2911 7.515586 AGCTGAATTTCCTCTGATGATATGAA 58.484 34.615 0.00 0.00 0.00 2.57
2911 2943 2.037251 TCAGTGGGAGACTTAACTGCAC 59.963 50.000 7.79 0.00 39.88 4.57
3265 3298 6.645003 TGTGATCTGTACACACAACATAACTC 59.355 38.462 13.64 0.00 42.20 3.01
3266 3299 6.645003 GTGATCTGTACACACAACATAACTCA 59.355 38.462 9.55 0.00 38.05 3.41
3371 3426 4.883585 AGTGTGTATATGCTTTCCACATGG 59.116 41.667 0.00 0.00 38.21 3.66
3432 3488 7.690256 ACAAGTACTCCCTCTGTATCAAAATT 58.310 34.615 0.00 0.00 0.00 1.82
3438 3494 8.794335 ACTCCCTCTGTATCAAAATTTAAGAC 57.206 34.615 0.00 0.00 0.00 3.01
3467 3523 9.581099 TTTTGAGTCTCAATCTAAACCAAAAAC 57.419 29.630 15.95 0.00 36.11 2.43
3468 3524 7.272037 TGAGTCTCAATCTAAACCAAAAACC 57.728 36.000 0.00 0.00 0.00 3.27
3512 3570 3.134804 AGTGCTTTGTACTGAGTGGACTT 59.865 43.478 0.00 0.00 0.00 3.01
3529 3587 3.440522 GGACTTTGTTAGGGCATCTTCAC 59.559 47.826 0.00 0.00 0.00 3.18
3594 3652 3.303881 TGTCGTCTGTCATTCTGGAAG 57.696 47.619 0.00 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.706373 TTCAGCTCCTGGGGCGAC 61.706 66.667 13.94 0.00 34.52 5.19
2 3 2.798445 TAGTTCAGCTCCTGGGGCGA 62.798 60.000 13.94 10.90 34.52 5.54
3 4 2.303549 CTAGTTCAGCTCCTGGGGCG 62.304 65.000 13.94 8.50 34.52 6.13
4 5 1.524482 CTAGTTCAGCTCCTGGGGC 59.476 63.158 11.59 11.59 31.51 5.80
14 15 1.585521 CGTACCGGCGCTAGTTCAG 60.586 63.158 7.64 0.00 0.00 3.02
15 16 2.486504 CGTACCGGCGCTAGTTCA 59.513 61.111 7.64 0.00 0.00 3.18
28 29 0.881600 AGAACGGTTTGGTGGCGTAC 60.882 55.000 0.00 0.00 0.00 3.67
29 30 0.678395 TAGAACGGTTTGGTGGCGTA 59.322 50.000 0.00 0.00 0.00 4.42
30 31 0.035739 ATAGAACGGTTTGGTGGCGT 59.964 50.000 0.00 0.00 0.00 5.68
31 32 1.161843 AATAGAACGGTTTGGTGGCG 58.838 50.000 0.00 0.00 0.00 5.69
32 33 4.004982 TCTAAATAGAACGGTTTGGTGGC 58.995 43.478 0.00 0.00 0.00 5.01
33 34 4.092383 CGTCTAAATAGAACGGTTTGGTGG 59.908 45.833 0.00 0.00 33.47 4.61
34 35 4.435121 GCGTCTAAATAGAACGGTTTGGTG 60.435 45.833 0.00 0.00 33.47 4.17
35 36 3.681417 GCGTCTAAATAGAACGGTTTGGT 59.319 43.478 0.00 0.00 33.47 3.67
36 37 3.063045 GGCGTCTAAATAGAACGGTTTGG 59.937 47.826 0.00 0.00 33.47 3.28
37 38 3.063045 GGGCGTCTAAATAGAACGGTTTG 59.937 47.826 0.00 0.00 33.47 2.93
38 39 3.055602 AGGGCGTCTAAATAGAACGGTTT 60.056 43.478 0.00 0.00 33.47 3.27
39 40 2.498885 AGGGCGTCTAAATAGAACGGTT 59.501 45.455 0.00 0.00 33.47 4.44
40 41 2.105766 AGGGCGTCTAAATAGAACGGT 58.894 47.619 11.54 0.00 33.47 4.83
41 42 2.100252 TCAGGGCGTCTAAATAGAACGG 59.900 50.000 11.54 0.03 33.47 4.44
42 43 3.372954 CTCAGGGCGTCTAAATAGAACG 58.627 50.000 0.00 0.91 33.47 3.95
43 44 3.492829 CCCTCAGGGCGTCTAAATAGAAC 60.493 52.174 0.00 0.00 35.35 3.01
44 45 2.698797 CCCTCAGGGCGTCTAAATAGAA 59.301 50.000 0.00 0.00 35.35 2.10
45 46 2.317040 CCCTCAGGGCGTCTAAATAGA 58.683 52.381 0.00 0.00 35.35 1.98
46 47 2.821991 CCCTCAGGGCGTCTAAATAG 57.178 55.000 0.00 0.00 35.35 1.73
58 59 4.785453 GCTGTTCGGCCCCTCAGG 62.785 72.222 14.63 0.00 39.47 3.86
59 60 3.710722 AGCTGTTCGGCCCCTCAG 61.711 66.667 0.00 4.17 0.00 3.35
60 61 4.020617 CAGCTGTTCGGCCCCTCA 62.021 66.667 5.25 0.00 0.00 3.86
61 62 4.785453 CCAGCTGTTCGGCCCCTC 62.785 72.222 13.81 0.00 0.00 4.30
63 64 4.785453 CTCCAGCTGTTCGGCCCC 62.785 72.222 13.81 0.00 0.00 5.80
64 65 3.036429 ATCTCCAGCTGTTCGGCCC 62.036 63.158 13.81 0.00 0.00 5.80
65 66 1.817099 CATCTCCAGCTGTTCGGCC 60.817 63.158 13.81 0.00 0.00 6.13
66 67 2.467826 GCATCTCCAGCTGTTCGGC 61.468 63.158 13.81 5.93 0.00 5.54
67 68 1.817099 GGCATCTCCAGCTGTTCGG 60.817 63.158 13.81 0.00 34.01 4.30
68 69 1.817099 GGGCATCTCCAGCTGTTCG 60.817 63.158 13.81 0.00 36.21 3.95
69 70 0.833287 TAGGGCATCTCCAGCTGTTC 59.167 55.000 13.81 0.00 36.21 3.18
70 71 1.211457 CTTAGGGCATCTCCAGCTGTT 59.789 52.381 13.81 0.00 36.21 3.16
71 72 0.835941 CTTAGGGCATCTCCAGCTGT 59.164 55.000 13.81 0.00 36.21 4.40
72 73 0.108207 CCTTAGGGCATCTCCAGCTG 59.892 60.000 6.78 6.78 36.21 4.24
73 74 2.537600 CCTTAGGGCATCTCCAGCT 58.462 57.895 0.00 0.00 36.21 4.24
84 85 1.177401 GCAAGGTGAAAGCCTTAGGG 58.823 55.000 0.00 0.00 46.33 3.53
85 86 1.177401 GGCAAGGTGAAAGCCTTAGG 58.823 55.000 0.00 0.00 46.33 2.69
86 87 1.909700 TGGCAAGGTGAAAGCCTTAG 58.090 50.000 4.18 0.00 46.33 2.18
87 88 2.170166 CATGGCAAGGTGAAAGCCTTA 58.830 47.619 4.18 0.00 46.33 2.69
91 92 1.544724 TACCATGGCAAGGTGAAAGC 58.455 50.000 23.80 0.00 40.26 3.51
92 93 2.094545 GCTTACCATGGCAAGGTGAAAG 60.095 50.000 23.80 19.61 40.26 2.62
93 94 1.892474 GCTTACCATGGCAAGGTGAAA 59.108 47.619 23.80 10.46 40.26 2.69
94 95 1.202989 TGCTTACCATGGCAAGGTGAA 60.203 47.619 23.80 12.64 40.26 3.18
95 96 0.403655 TGCTTACCATGGCAAGGTGA 59.596 50.000 23.80 15.11 40.26 4.02
96 97 1.255882 TTGCTTACCATGGCAAGGTG 58.744 50.000 23.80 9.61 42.45 4.00
97 98 3.763931 TTGCTTACCATGGCAAGGT 57.236 47.368 23.48 19.39 42.45 3.50
101 102 1.383456 GCCGATTGCTTACCATGGCA 61.383 55.000 13.04 0.00 36.88 4.92
102 103 1.360192 GCCGATTGCTTACCATGGC 59.640 57.895 13.04 0.00 36.87 4.40
103 104 0.664761 CTGCCGATTGCTTACCATGG 59.335 55.000 11.19 11.19 42.00 3.66
104 105 0.664761 CCTGCCGATTGCTTACCATG 59.335 55.000 0.00 0.00 42.00 3.66
105 106 0.255890 ACCTGCCGATTGCTTACCAT 59.744 50.000 0.00 0.00 42.00 3.55
106 107 0.392461 GACCTGCCGATTGCTTACCA 60.392 55.000 0.00 0.00 42.00 3.25
107 108 0.392461 TGACCTGCCGATTGCTTACC 60.392 55.000 0.00 0.00 42.00 2.85
108 109 1.448985 TTGACCTGCCGATTGCTTAC 58.551 50.000 0.00 0.00 42.00 2.34
109 110 2.016318 CATTGACCTGCCGATTGCTTA 58.984 47.619 0.00 0.00 42.00 3.09
110 111 0.813184 CATTGACCTGCCGATTGCTT 59.187 50.000 0.00 0.00 42.00 3.91
111 112 0.035152 TCATTGACCTGCCGATTGCT 60.035 50.000 0.00 0.00 42.00 3.91
112 113 1.027357 ATCATTGACCTGCCGATTGC 58.973 50.000 0.00 0.00 41.77 3.56
113 114 2.221749 CGTATCATTGACCTGCCGATTG 59.778 50.000 0.00 0.00 0.00 2.67
114 115 2.102420 TCGTATCATTGACCTGCCGATT 59.898 45.455 0.00 0.00 0.00 3.34
115 116 1.686587 TCGTATCATTGACCTGCCGAT 59.313 47.619 0.00 0.00 0.00 4.18
116 117 1.067060 CTCGTATCATTGACCTGCCGA 59.933 52.381 0.00 0.00 0.00 5.54
117 118 1.491670 CTCGTATCATTGACCTGCCG 58.508 55.000 0.00 0.00 0.00 5.69
118 119 1.221414 GCTCGTATCATTGACCTGCC 58.779 55.000 0.00 0.00 0.00 4.85
119 120 1.221414 GGCTCGTATCATTGACCTGC 58.779 55.000 0.00 0.00 0.00 4.85
120 121 1.067060 TCGGCTCGTATCATTGACCTG 59.933 52.381 0.00 0.00 0.00 4.00
121 122 1.338337 CTCGGCTCGTATCATTGACCT 59.662 52.381 0.00 0.00 0.00 3.85
122 123 1.337071 TCTCGGCTCGTATCATTGACC 59.663 52.381 0.00 0.00 0.00 4.02
123 124 2.776312 TCTCGGCTCGTATCATTGAC 57.224 50.000 0.00 0.00 0.00 3.18
124 125 3.149981 AGATCTCGGCTCGTATCATTGA 58.850 45.455 0.00 0.00 0.00 2.57
125 126 3.497118 GAGATCTCGGCTCGTATCATTG 58.503 50.000 7.04 0.00 0.00 2.82
126 127 3.840890 GAGATCTCGGCTCGTATCATT 57.159 47.619 7.04 0.00 0.00 2.57
139 140 3.246619 AGCTTTTCACGTTCGAGATCTC 58.753 45.455 13.05 13.05 0.00 2.75
140 141 3.057174 AGAGCTTTTCACGTTCGAGATCT 60.057 43.478 0.00 0.00 0.00 2.75
141 142 3.246619 AGAGCTTTTCACGTTCGAGATC 58.753 45.455 0.00 0.00 0.00 2.75
142 143 3.305398 AGAGCTTTTCACGTTCGAGAT 57.695 42.857 0.00 0.00 0.00 2.75
143 144 2.795175 AGAGCTTTTCACGTTCGAGA 57.205 45.000 0.00 0.00 0.00 4.04
144 145 3.304559 CCATAGAGCTTTTCACGTTCGAG 59.695 47.826 0.00 0.00 0.00 4.04
145 146 3.250744 CCATAGAGCTTTTCACGTTCGA 58.749 45.455 0.00 0.00 0.00 3.71
146 147 2.993899 ACCATAGAGCTTTTCACGTTCG 59.006 45.455 0.00 0.00 0.00 3.95
147 148 3.060895 CGACCATAGAGCTTTTCACGTTC 59.939 47.826 0.00 0.00 0.00 3.95
148 149 2.993899 CGACCATAGAGCTTTTCACGTT 59.006 45.455 0.00 0.00 0.00 3.99
149 150 2.029290 ACGACCATAGAGCTTTTCACGT 60.029 45.455 0.00 0.00 0.00 4.49
150 151 2.599082 GACGACCATAGAGCTTTTCACG 59.401 50.000 0.00 0.00 0.00 4.35
151 152 2.599082 CGACGACCATAGAGCTTTTCAC 59.401 50.000 0.00 0.00 0.00 3.18
152 153 2.416836 CCGACGACCATAGAGCTTTTCA 60.417 50.000 0.00 0.00 0.00 2.69
153 154 2.194271 CCGACGACCATAGAGCTTTTC 58.806 52.381 0.00 0.00 0.00 2.29
154 155 1.739371 GCCGACGACCATAGAGCTTTT 60.739 52.381 0.00 0.00 0.00 2.27
155 156 0.179108 GCCGACGACCATAGAGCTTT 60.179 55.000 0.00 0.00 0.00 3.51
156 157 1.038130 AGCCGACGACCATAGAGCTT 61.038 55.000 0.00 0.00 0.00 3.74
157 158 1.038130 AAGCCGACGACCATAGAGCT 61.038 55.000 0.00 0.00 0.00 4.09
158 159 0.872021 CAAGCCGACGACCATAGAGC 60.872 60.000 0.00 0.00 0.00 4.09
159 160 0.249073 CCAAGCCGACGACCATAGAG 60.249 60.000 0.00 0.00 0.00 2.43
160 161 0.968901 ACCAAGCCGACGACCATAGA 60.969 55.000 0.00 0.00 0.00 1.98
161 162 0.806102 CACCAAGCCGACGACCATAG 60.806 60.000 0.00 0.00 0.00 2.23
162 163 1.216977 CACCAAGCCGACGACCATA 59.783 57.895 0.00 0.00 0.00 2.74
163 164 1.537814 TACACCAAGCCGACGACCAT 61.538 55.000 0.00 0.00 0.00 3.55
164 165 2.201708 TACACCAAGCCGACGACCA 61.202 57.895 0.00 0.00 0.00 4.02
165 166 1.735559 GTACACCAAGCCGACGACC 60.736 63.158 0.00 0.00 0.00 4.79
166 167 1.735559 GGTACACCAAGCCGACGAC 60.736 63.158 0.00 0.00 35.64 4.34
167 168 2.652530 GGTACACCAAGCCGACGA 59.347 61.111 0.00 0.00 35.64 4.20
168 169 2.433664 GGGTACACCAAGCCGACG 60.434 66.667 0.00 0.00 39.85 5.12
185 186 3.439129 AGTGATCATTGCGCCATATGATG 59.561 43.478 25.12 12.27 40.58 3.07
186 187 3.439129 CAGTGATCATTGCGCCATATGAT 59.561 43.478 22.10 22.10 42.57 2.45
187 188 2.809696 CAGTGATCATTGCGCCATATGA 59.190 45.455 16.11 16.11 35.43 2.15
188 189 2.095415 CCAGTGATCATTGCGCCATATG 60.095 50.000 12.50 6.42 0.00 1.78
189 190 2.156917 CCAGTGATCATTGCGCCATAT 58.843 47.619 12.50 0.00 0.00 1.78
190 191 1.140652 TCCAGTGATCATTGCGCCATA 59.859 47.619 12.50 0.00 0.00 2.74
191 192 0.107066 TCCAGTGATCATTGCGCCAT 60.107 50.000 12.50 0.00 0.00 4.40
192 193 0.107066 ATCCAGTGATCATTGCGCCA 60.107 50.000 12.50 0.00 0.00 5.69
193 194 1.027357 AATCCAGTGATCATTGCGCC 58.973 50.000 12.50 0.00 0.00 6.53
194 195 2.542411 GGAAATCCAGTGATCATTGCGC 60.542 50.000 12.50 0.00 35.64 6.09
195 196 2.286595 CGGAAATCCAGTGATCATTGCG 60.287 50.000 12.50 8.17 35.14 4.85
196 197 2.684881 ACGGAAATCCAGTGATCATTGC 59.315 45.455 12.50 0.00 35.14 3.56
197 198 6.094048 ACTTTACGGAAATCCAGTGATCATTG 59.906 38.462 11.09 11.09 35.14 2.82
198 199 6.094048 CACTTTACGGAAATCCAGTGATCATT 59.906 38.462 4.21 0.00 38.09 2.57
199 200 5.586243 CACTTTACGGAAATCCAGTGATCAT 59.414 40.000 4.21 0.00 38.09 2.45
200 201 4.935205 CACTTTACGGAAATCCAGTGATCA 59.065 41.667 4.21 0.00 38.09 2.92
201 202 4.935808 ACACTTTACGGAAATCCAGTGATC 59.064 41.667 15.27 0.00 38.09 2.92
202 203 4.695455 CACACTTTACGGAAATCCAGTGAT 59.305 41.667 15.27 0.00 38.09 3.06
203 204 4.062293 CACACTTTACGGAAATCCAGTGA 58.938 43.478 15.27 5.20 38.09 3.41
204 205 3.188460 CCACACTTTACGGAAATCCAGTG 59.812 47.826 8.14 8.14 40.28 3.66
205 206 3.181448 ACCACACTTTACGGAAATCCAGT 60.181 43.478 0.00 1.75 35.14 4.00
206 207 3.408634 ACCACACTTTACGGAAATCCAG 58.591 45.455 0.00 0.00 35.14 3.86
207 208 3.495434 ACCACACTTTACGGAAATCCA 57.505 42.857 0.00 0.00 35.14 3.41
208 209 4.841443 AAACCACACTTTACGGAAATCC 57.159 40.909 0.00 0.00 0.00 3.01
209 210 7.193377 TCTTAAACCACACTTTACGGAAATC 57.807 36.000 0.00 0.00 0.00 2.17
210 211 7.664318 AGATCTTAAACCACACTTTACGGAAAT 59.336 33.333 0.00 0.00 0.00 2.17
211 212 6.993902 AGATCTTAAACCACACTTTACGGAAA 59.006 34.615 0.00 0.00 0.00 3.13
212 213 6.527423 AGATCTTAAACCACACTTTACGGAA 58.473 36.000 0.00 0.00 0.00 4.30
213 214 6.105397 AGATCTTAAACCACACTTTACGGA 57.895 37.500 0.00 0.00 0.00 4.69
214 215 7.894376 TTAGATCTTAAACCACACTTTACGG 57.106 36.000 0.00 0.00 0.00 4.02
219 220 8.936864 CGAGAAATTAGATCTTAAACCACACTT 58.063 33.333 0.00 0.00 0.00 3.16
220 221 8.095169 ACGAGAAATTAGATCTTAAACCACACT 58.905 33.333 0.00 0.00 0.00 3.55
221 222 8.252964 ACGAGAAATTAGATCTTAAACCACAC 57.747 34.615 0.00 0.00 0.00 3.82
222 223 8.717821 CAACGAGAAATTAGATCTTAAACCACA 58.282 33.333 0.00 0.00 0.00 4.17
223 224 8.932791 TCAACGAGAAATTAGATCTTAAACCAC 58.067 33.333 0.00 0.00 0.00 4.16
224 225 9.151471 CTCAACGAGAAATTAGATCTTAAACCA 57.849 33.333 0.00 0.00 0.00 3.67
225 226 8.604890 CCTCAACGAGAAATTAGATCTTAAACC 58.395 37.037 0.00 0.00 0.00 3.27
226 227 9.367444 TCCTCAACGAGAAATTAGATCTTAAAC 57.633 33.333 0.00 0.00 0.00 2.01
228 229 9.534565 CATCCTCAACGAGAAATTAGATCTTAA 57.465 33.333 0.00 0.00 0.00 1.85
229 230 8.914011 TCATCCTCAACGAGAAATTAGATCTTA 58.086 33.333 0.00 0.00 0.00 2.10
230 231 7.786030 TCATCCTCAACGAGAAATTAGATCTT 58.214 34.615 0.00 0.00 0.00 2.40
231 232 7.069331 ACTCATCCTCAACGAGAAATTAGATCT 59.931 37.037 0.00 0.00 0.00 2.75
232 233 7.206687 ACTCATCCTCAACGAGAAATTAGATC 58.793 38.462 0.00 0.00 0.00 2.75
233 234 7.118496 ACTCATCCTCAACGAGAAATTAGAT 57.882 36.000 0.00 0.00 0.00 1.98
234 235 6.531503 ACTCATCCTCAACGAGAAATTAGA 57.468 37.500 0.00 0.00 0.00 2.10
235 236 6.036517 CCAACTCATCCTCAACGAGAAATTAG 59.963 42.308 0.00 0.00 0.00 1.73
236 237 5.874810 CCAACTCATCCTCAACGAGAAATTA 59.125 40.000 0.00 0.00 0.00 1.40
237 238 4.697352 CCAACTCATCCTCAACGAGAAATT 59.303 41.667 0.00 0.00 0.00 1.82
238 239 4.256920 CCAACTCATCCTCAACGAGAAAT 58.743 43.478 0.00 0.00 0.00 2.17
239 240 3.557054 CCCAACTCATCCTCAACGAGAAA 60.557 47.826 0.00 0.00 0.00 2.52
240 241 2.028112 CCCAACTCATCCTCAACGAGAA 60.028 50.000 0.00 0.00 0.00 2.87
241 242 1.550524 CCCAACTCATCCTCAACGAGA 59.449 52.381 0.00 0.00 0.00 4.04
242 243 2.009042 GCCCAACTCATCCTCAACGAG 61.009 57.143 0.00 0.00 0.00 4.18
243 244 0.036388 GCCCAACTCATCCTCAACGA 60.036 55.000 0.00 0.00 0.00 3.85
244 245 0.036010 AGCCCAACTCATCCTCAACG 60.036 55.000 0.00 0.00 0.00 4.10
245 246 2.206576 AAGCCCAACTCATCCTCAAC 57.793 50.000 0.00 0.00 0.00 3.18
246 247 2.912956 AGTAAGCCCAACTCATCCTCAA 59.087 45.455 0.00 0.00 0.00 3.02
247 248 2.501723 GAGTAAGCCCAACTCATCCTCA 59.498 50.000 5.97 0.00 42.43 3.86
248 249 2.769095 AGAGTAAGCCCAACTCATCCTC 59.231 50.000 11.85 0.00 44.77 3.71
249 250 2.503356 CAGAGTAAGCCCAACTCATCCT 59.497 50.000 11.85 0.00 44.77 3.24
250 251 2.501723 TCAGAGTAAGCCCAACTCATCC 59.498 50.000 11.85 0.00 44.77 3.51
251 252 3.895232 TCAGAGTAAGCCCAACTCATC 57.105 47.619 11.85 0.00 44.77 2.92
252 253 4.851639 ATTCAGAGTAAGCCCAACTCAT 57.148 40.909 11.85 0.00 44.77 2.90
253 254 4.640771 AATTCAGAGTAAGCCCAACTCA 57.359 40.909 11.85 0.00 44.77 3.41
254 255 4.396478 GGAAATTCAGAGTAAGCCCAACTC 59.604 45.833 0.00 3.17 43.06 3.01
255 256 4.336280 GGAAATTCAGAGTAAGCCCAACT 58.664 43.478 0.00 0.00 0.00 3.16
265 266 5.930837 TTTTTGTGTGGGAAATTCAGAGT 57.069 34.783 0.00 0.00 0.00 3.24
288 289 2.290323 ACATCTAAGCCCAGCGAACTTT 60.290 45.455 0.00 0.00 0.00 2.66
520 521 4.416738 AGCTTTGAGGGAGGCGGC 62.417 66.667 0.00 0.00 0.00 6.53
525 526 1.153469 GGAGCGAGCTTTGAGGGAG 60.153 63.158 0.00 0.00 0.00 4.30
722 723 4.883354 CAATGGAGGGGAGCGGCC 62.883 72.222 0.00 0.00 0.00 6.13
750 751 2.922503 TCCTTGAGCTCGGTGGCA 60.923 61.111 9.64 0.00 34.17 4.92
755 756 2.492090 CGGTCTCCTTGAGCTCGG 59.508 66.667 9.64 5.19 40.75 4.63
787 788 1.003233 GGGGATGACGGATGATTACCC 59.997 57.143 0.00 0.00 35.80 3.69
855 856 2.727123 TTGTTGCTTTCTCCACCTGA 57.273 45.000 0.00 0.00 0.00 3.86
897 898 0.941542 ATGTGACGAACAACAACGGG 59.058 50.000 0.00 0.00 43.61 5.28
927 929 7.650504 CAGGAAACAAGCATTCATGGTATATTG 59.349 37.037 0.00 0.00 37.57 1.90
939 945 5.324409 TCATAAGGACAGGAAACAAGCATT 58.676 37.500 0.00 0.00 0.00 3.56
977 983 3.006756 GCGCACAGAGCCCTACAGA 62.007 63.158 0.30 0.00 41.38 3.41
1023 1029 0.449388 CTGAGAAAATGCGACTGCCC 59.551 55.000 0.00 0.00 41.78 5.36
1080 1086 0.322008 GCTTCCAGTCCACCCTTGAG 60.322 60.000 0.00 0.00 0.00 3.02
1083 1089 1.763770 CTGCTTCCAGTCCACCCTT 59.236 57.895 0.00 0.00 34.31 3.95
1137 1143 7.297936 TCGCTTGATAGGATAATCCTTTGTA 57.702 36.000 0.00 0.00 46.91 2.41
1209 1215 3.119101 TGAGAAGTATTGAGACGCCTTCC 60.119 47.826 0.00 0.00 33.63 3.46
1511 1530 5.945784 CCTCCTATGATCAAGTGGAAAACAA 59.054 40.000 0.00 0.00 0.00 2.83
1883 1915 2.933906 GCCATTGCTCCAACATGAATTG 59.066 45.455 0.00 0.00 33.53 2.32
1971 2003 0.668535 GGATGTTATTCAAGCCGCCC 59.331 55.000 0.00 0.00 0.00 6.13
2442 2474 3.717294 GGTGGGTCATGAGGCCGT 61.717 66.667 0.00 0.00 0.00 5.68
2698 2730 1.893062 GCTCCACATCCAAAAGGGC 59.107 57.895 0.00 0.00 36.21 5.19
2877 2909 4.520492 TCTCCCACTGAAAGAAATTGCTTC 59.480 41.667 0.00 0.00 37.43 3.86
2879 2911 3.823304 GTCTCCCACTGAAAGAAATTGCT 59.177 43.478 0.00 0.00 37.43 3.91
2911 2943 5.684704 TCTGGCCTTCTGGATAATTTACAG 58.315 41.667 3.32 0.00 34.57 2.74
2946 2978 1.228737 GCACAAACTAAGGGCCCCA 60.229 57.895 21.43 5.68 0.00 4.96
3259 3292 3.165071 CACAAAAAGGGGGCTGAGTTAT 58.835 45.455 0.00 0.00 0.00 1.89
3262 3295 0.261696 ACACAAAAAGGGGGCTGAGT 59.738 50.000 0.00 0.00 0.00 3.41
3265 3298 1.613437 CAGTACACAAAAAGGGGGCTG 59.387 52.381 0.00 0.00 0.00 4.85
3266 3299 1.497286 TCAGTACACAAAAAGGGGGCT 59.503 47.619 0.00 0.00 0.00 5.19
3432 3488 9.537192 TTAGATTGAGACTCAAAAACGTCTTAA 57.463 29.630 21.29 10.91 40.12 1.85
3438 3494 6.954944 TGGTTTAGATTGAGACTCAAAAACG 58.045 36.000 24.29 0.00 40.12 3.60
3467 3523 6.598064 ACTCCCTTTATCAAAATGTAAGACGG 59.402 38.462 0.00 0.00 0.00 4.79
3468 3524 7.464358 CACTCCCTTTATCAAAATGTAAGACG 58.536 38.462 0.00 0.00 0.00 4.18
3512 3570 6.719370 ACAAATTAGTGAAGATGCCCTAACAA 59.281 34.615 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.