Multiple sequence alignment - TraesCS6A01G159500

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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 TraesCS6A01G159500 chr6A 100.000 3179 0 0 1 3179 151529412 151526234 0.000000e+00 5871
1 TraesCS6A01G159500 chr6A 89.231 260 28 0 1 260 195937388 195937129 3.060000e-85 326
2 TraesCS6A01G159500 chr6D 93.082 2992 119 34 266 3179 127083116 127086097 0.000000e+00 4298
3 TraesCS6A01G159500 chr6B 93.132 2941 127 37 269 3179 226139238 226142133 0.000000e+00 4242
4 TraesCS6A01G159500 chr7A 90.038 261 24 2 1 260 233432522 233432781 1.410000e-88 337
5 TraesCS6A01G159500 chr3A 90.038 261 24 2 1 260 633037547 633037806 1.410000e-88 337
6 TraesCS6A01G159500 chr3A 89.189 259 28 0 2 260 405927832 405928090 1.100000e-84 324
7 TraesCS6A01G159500 chr2A 89.231 260 28 0 1 260 218116770 218117029 3.060000e-85 326
8 TraesCS6A01G159500 chr2A 88.346 266 31 0 1 266 382069026 382069291 1.420000e-83 320
9 TraesCS6A01G159500 chr1A 88.722 266 28 2 1 265 109077187 109076923 1.100000e-84 324
10 TraesCS6A01G159500 chr4D 88.846 260 29 0 1 260 152843454 152843195 1.420000e-83 320
11 TraesCS6A01G159500 chr4A 88.889 261 28 1 1 260 211304054 211303794 1.420000e-83 320


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 TraesCS6A01G159500 chr6A 151526234 151529412 3178 True 5871 5871 100.000 1 3179 1 chr6A.!!$R1 3178
1 TraesCS6A01G159500 chr6D 127083116 127086097 2981 False 4298 4298 93.082 266 3179 1 chr6D.!!$F1 2913
2 TraesCS6A01G159500 chr6B 226139238 226142133 2895 False 4242 4242 93.132 269 3179 1 chr6B.!!$F1 2910

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
155 156 0.033601 TTGGGTGTTGTCTTGGCAGT 60.034 50.0 0.00 0.0 0.0 4.40 F
181 182 0.037303 TCTTTGCTTCCTCTGCCCTG 59.963 55.0 0.00 0.0 0.0 4.45 F
214 215 0.179134 CAGGTGTAGCTACGACTGCC 60.179 60.0 25.24 18.2 0.0 4.85 F
218 219 0.459899 TGTAGCTACGACTGCCCATG 59.540 55.0 18.74 0.0 0.0 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2068 2092 1.079405 GGTAGTGTAGCCGCAGCAA 60.079 57.895 0.00 0.0 43.56 3.91 R
2076 2100 1.722636 CCTCCGACGGGTAGTGTAGC 61.723 65.000 15.25 0.0 33.83 3.58 R
2079 2103 2.362120 CCCTCCGACGGGTAGTGT 60.362 66.667 15.25 0.0 39.51 3.55 R
2249 2274 1.009222 GCAATGCGATGCAGTAGCC 60.009 57.895 8.51 0.0 43.65 3.93 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
17 18 3.832175 AGGCTCAAGGATGGCAGT 58.168 55.556 0.00 0.00 0.00 4.40
18 19 1.606531 AGGCTCAAGGATGGCAGTC 59.393 57.895 0.00 0.00 0.00 3.51
19 20 0.913451 AGGCTCAAGGATGGCAGTCT 60.913 55.000 0.00 0.00 0.00 3.24
20 21 0.034670 GGCTCAAGGATGGCAGTCTT 60.035 55.000 0.00 0.00 0.00 3.01
21 22 1.093159 GCTCAAGGATGGCAGTCTTG 58.907 55.000 20.00 20.00 39.20 3.02
31 32 1.656441 GCAGTCTTGCTGGTGTTGG 59.344 57.895 0.00 0.00 46.95 3.77
32 33 1.799258 GCAGTCTTGCTGGTGTTGGG 61.799 60.000 0.00 0.00 46.95 4.12
33 34 1.529244 AGTCTTGCTGGTGTTGGGC 60.529 57.895 0.00 0.00 0.00 5.36
34 35 1.827789 GTCTTGCTGGTGTTGGGCA 60.828 57.895 0.00 0.00 0.00 5.36
35 36 1.076412 TCTTGCTGGTGTTGGGCAA 60.076 52.632 0.00 0.00 42.54 4.52
36 37 3.536164 TTGCTGGTGTTGGGCAAG 58.464 55.556 0.00 0.00 40.38 4.01
37 38 1.381056 TTGCTGGTGTTGGGCAAGT 60.381 52.632 0.00 0.00 40.38 3.16
38 39 0.975040 TTGCTGGTGTTGGGCAAGTT 60.975 50.000 0.00 0.00 40.38 2.66
39 40 1.067916 GCTGGTGTTGGGCAAGTTG 59.932 57.895 0.00 0.00 0.00 3.16
40 41 1.067916 CTGGTGTTGGGCAAGTTGC 59.932 57.895 19.87 19.87 44.08 4.17
68 69 3.771160 CTCTTGCCGGGGCTACGT 61.771 66.667 11.55 0.00 42.51 3.57
69 70 2.362760 TCTTGCCGGGGCTACGTA 60.363 61.111 11.55 0.00 42.51 3.57
70 71 2.106332 CTTGCCGGGGCTACGTAG 59.894 66.667 18.47 18.47 42.51 3.51
71 72 3.441011 CTTGCCGGGGCTACGTAGG 62.441 68.421 23.47 8.98 42.51 3.18
84 85 4.832608 GTAGGCCGCCCCGACAAG 62.833 72.222 5.55 0.00 38.90 3.16
92 93 2.747855 CCCCGACAAGGCTCTTGC 60.748 66.667 13.00 6.93 39.21 4.01
102 103 3.443925 GCTCTTGCCGGGGAAAGC 61.444 66.667 15.42 15.42 30.92 3.51
103 104 2.751837 CTCTTGCCGGGGAAAGCC 60.752 66.667 2.18 0.00 30.92 4.35
114 115 2.887790 GGAAAGCCCATCTTGTCCC 58.112 57.895 0.00 0.00 34.67 4.46
115 116 0.332972 GGAAAGCCCATCTTGTCCCT 59.667 55.000 0.00 0.00 34.67 4.20
116 117 1.272704 GGAAAGCCCATCTTGTCCCTT 60.273 52.381 0.00 0.00 34.67 3.95
117 118 2.095461 GAAAGCCCATCTTGTCCCTTC 58.905 52.381 0.00 0.00 34.67 3.46
118 119 0.035056 AAGCCCATCTTGTCCCTTCG 60.035 55.000 0.00 0.00 32.79 3.79
119 120 2.115291 GCCCATCTTGTCCCTTCGC 61.115 63.158 0.00 0.00 0.00 4.70
120 121 1.604378 CCCATCTTGTCCCTTCGCT 59.396 57.895 0.00 0.00 0.00 4.93
121 122 0.462759 CCCATCTTGTCCCTTCGCTC 60.463 60.000 0.00 0.00 0.00 5.03
122 123 0.539051 CCATCTTGTCCCTTCGCTCT 59.461 55.000 0.00 0.00 0.00 4.09
123 124 1.065854 CCATCTTGTCCCTTCGCTCTT 60.066 52.381 0.00 0.00 0.00 2.85
124 125 2.275318 CATCTTGTCCCTTCGCTCTTC 58.725 52.381 0.00 0.00 0.00 2.87
125 126 1.338107 TCTTGTCCCTTCGCTCTTCA 58.662 50.000 0.00 0.00 0.00 3.02
126 127 1.902508 TCTTGTCCCTTCGCTCTTCAT 59.097 47.619 0.00 0.00 0.00 2.57
127 128 2.005451 CTTGTCCCTTCGCTCTTCATG 58.995 52.381 0.00 0.00 0.00 3.07
128 129 0.391661 TGTCCCTTCGCTCTTCATGC 60.392 55.000 0.00 0.00 0.00 4.06
129 130 0.107945 GTCCCTTCGCTCTTCATGCT 60.108 55.000 0.00 0.00 0.00 3.79
130 131 0.615331 TCCCTTCGCTCTTCATGCTT 59.385 50.000 0.00 0.00 0.00 3.91
131 132 1.012841 CCCTTCGCTCTTCATGCTTC 58.987 55.000 0.00 0.00 0.00 3.86
132 133 1.406614 CCCTTCGCTCTTCATGCTTCT 60.407 52.381 0.00 0.00 0.00 2.85
133 134 1.664659 CCTTCGCTCTTCATGCTTCTG 59.335 52.381 0.00 0.00 0.00 3.02
134 135 1.664659 CTTCGCTCTTCATGCTTCTGG 59.335 52.381 0.00 0.00 0.00 3.86
135 136 0.742281 TCGCTCTTCATGCTTCTGGC 60.742 55.000 0.00 0.00 42.22 4.85
136 137 0.743701 CGCTCTTCATGCTTCTGGCT 60.744 55.000 0.00 0.00 42.39 4.75
137 138 1.461559 GCTCTTCATGCTTCTGGCTT 58.538 50.000 0.00 0.00 42.39 4.35
138 139 1.132643 GCTCTTCATGCTTCTGGCTTG 59.867 52.381 0.00 0.00 44.36 4.01
139 140 1.743958 CTCTTCATGCTTCTGGCTTGG 59.256 52.381 0.00 0.00 43.54 3.61
140 141 0.815734 CTTCATGCTTCTGGCTTGGG 59.184 55.000 0.00 0.00 43.54 4.12
141 142 0.112995 TTCATGCTTCTGGCTTGGGT 59.887 50.000 0.00 0.00 43.54 4.51
142 143 0.609957 TCATGCTTCTGGCTTGGGTG 60.610 55.000 0.00 0.00 43.54 4.61
143 144 0.896940 CATGCTTCTGGCTTGGGTGT 60.897 55.000 0.00 0.00 40.86 4.16
144 145 0.178953 ATGCTTCTGGCTTGGGTGTT 60.179 50.000 0.00 0.00 42.39 3.32
145 146 1.108727 TGCTTCTGGCTTGGGTGTTG 61.109 55.000 0.00 0.00 42.39 3.33
146 147 1.109323 GCTTCTGGCTTGGGTGTTGT 61.109 55.000 0.00 0.00 38.06 3.32
147 148 0.954452 CTTCTGGCTTGGGTGTTGTC 59.046 55.000 0.00 0.00 0.00 3.18
148 149 0.550914 TTCTGGCTTGGGTGTTGTCT 59.449 50.000 0.00 0.00 0.00 3.41
149 150 0.550914 TCTGGCTTGGGTGTTGTCTT 59.449 50.000 0.00 0.00 0.00 3.01
150 151 0.670162 CTGGCTTGGGTGTTGTCTTG 59.330 55.000 0.00 0.00 0.00 3.02
151 152 0.754957 TGGCTTGGGTGTTGTCTTGG 60.755 55.000 0.00 0.00 0.00 3.61
152 153 1.363807 GCTTGGGTGTTGTCTTGGC 59.636 57.895 0.00 0.00 0.00 4.52
153 154 1.391157 GCTTGGGTGTTGTCTTGGCA 61.391 55.000 0.00 0.00 0.00 4.92
154 155 0.670162 CTTGGGTGTTGTCTTGGCAG 59.330 55.000 0.00 0.00 0.00 4.85
155 156 0.033601 TTGGGTGTTGTCTTGGCAGT 60.034 50.000 0.00 0.00 0.00 4.40
156 157 0.465460 TGGGTGTTGTCTTGGCAGTC 60.465 55.000 0.00 0.00 0.00 3.51
157 158 0.179018 GGGTGTTGTCTTGGCAGTCT 60.179 55.000 0.00 0.00 0.00 3.24
158 159 1.680338 GGTGTTGTCTTGGCAGTCTT 58.320 50.000 0.00 0.00 0.00 3.01
159 160 2.024414 GGTGTTGTCTTGGCAGTCTTT 58.976 47.619 0.00 0.00 0.00 2.52
160 161 2.427095 GGTGTTGTCTTGGCAGTCTTTT 59.573 45.455 0.00 0.00 0.00 2.27
161 162 3.630312 GGTGTTGTCTTGGCAGTCTTTTA 59.370 43.478 0.00 0.00 0.00 1.52
162 163 4.278419 GGTGTTGTCTTGGCAGTCTTTTAT 59.722 41.667 0.00 0.00 0.00 1.40
163 164 5.452777 GTGTTGTCTTGGCAGTCTTTTATC 58.547 41.667 0.00 0.00 0.00 1.75
164 165 5.239525 GTGTTGTCTTGGCAGTCTTTTATCT 59.760 40.000 0.00 0.00 0.00 1.98
165 166 5.827797 TGTTGTCTTGGCAGTCTTTTATCTT 59.172 36.000 0.00 0.00 0.00 2.40
166 167 6.321181 TGTTGTCTTGGCAGTCTTTTATCTTT 59.679 34.615 0.00 0.00 0.00 2.52
167 168 6.317789 TGTCTTGGCAGTCTTTTATCTTTG 57.682 37.500 0.00 0.00 0.00 2.77
168 169 5.157067 GTCTTGGCAGTCTTTTATCTTTGC 58.843 41.667 0.00 0.00 0.00 3.68
169 170 5.048434 GTCTTGGCAGTCTTTTATCTTTGCT 60.048 40.000 0.00 0.00 0.00 3.91
170 171 5.536161 TCTTGGCAGTCTTTTATCTTTGCTT 59.464 36.000 0.00 0.00 0.00 3.91
171 172 5.376854 TGGCAGTCTTTTATCTTTGCTTC 57.623 39.130 0.00 0.00 0.00 3.86
172 173 4.218417 TGGCAGTCTTTTATCTTTGCTTCC 59.782 41.667 0.00 0.00 0.00 3.46
173 174 4.460731 GGCAGTCTTTTATCTTTGCTTCCT 59.539 41.667 0.00 0.00 0.00 3.36
174 175 5.392487 GGCAGTCTTTTATCTTTGCTTCCTC 60.392 44.000 0.00 0.00 0.00 3.71
175 176 5.414144 GCAGTCTTTTATCTTTGCTTCCTCT 59.586 40.000 0.00 0.00 0.00 3.69
176 177 6.622462 GCAGTCTTTTATCTTTGCTTCCTCTG 60.622 42.308 0.00 0.00 0.00 3.35
177 178 5.414144 AGTCTTTTATCTTTGCTTCCTCTGC 59.586 40.000 0.00 0.00 0.00 4.26
178 179 4.702131 TCTTTTATCTTTGCTTCCTCTGCC 59.298 41.667 0.00 0.00 0.00 4.85
179 180 2.717639 TATCTTTGCTTCCTCTGCCC 57.282 50.000 0.00 0.00 0.00 5.36
180 181 0.998145 ATCTTTGCTTCCTCTGCCCT 59.002 50.000 0.00 0.00 0.00 5.19
181 182 0.037303 TCTTTGCTTCCTCTGCCCTG 59.963 55.000 0.00 0.00 0.00 4.45
182 183 1.593296 CTTTGCTTCCTCTGCCCTGC 61.593 60.000 0.00 0.00 0.00 4.85
183 184 3.574074 TTGCTTCCTCTGCCCTGCC 62.574 63.158 0.00 0.00 0.00 4.85
184 185 4.039092 GCTTCCTCTGCCCTGCCA 62.039 66.667 0.00 0.00 0.00 4.92
185 186 2.759114 CTTCCTCTGCCCTGCCAA 59.241 61.111 0.00 0.00 0.00 4.52
186 187 1.378250 CTTCCTCTGCCCTGCCAAG 60.378 63.158 0.00 0.00 0.00 3.61
187 188 3.574074 TTCCTCTGCCCTGCCAAGC 62.574 63.158 0.00 0.00 0.00 4.01
210 211 4.379221 CGCAGGTGTAGCTACGAC 57.621 61.111 18.74 16.25 0.00 4.34
211 212 1.801332 CGCAGGTGTAGCTACGACT 59.199 57.895 18.74 15.50 0.00 4.18
212 213 0.523546 CGCAGGTGTAGCTACGACTG 60.524 60.000 29.16 29.16 36.36 3.51
213 214 0.802607 GCAGGTGTAGCTACGACTGC 60.803 60.000 35.83 35.83 44.82 4.40
214 215 0.179134 CAGGTGTAGCTACGACTGCC 60.179 60.000 25.24 18.20 0.00 4.85
215 216 1.141234 GGTGTAGCTACGACTGCCC 59.859 63.158 18.74 7.84 0.00 5.36
216 217 1.601419 GGTGTAGCTACGACTGCCCA 61.601 60.000 18.74 0.00 0.00 5.36
217 218 0.460311 GTGTAGCTACGACTGCCCAT 59.540 55.000 18.74 0.00 0.00 4.00
218 219 0.459899 TGTAGCTACGACTGCCCATG 59.540 55.000 18.74 0.00 0.00 3.66
219 220 0.876342 GTAGCTACGACTGCCCATGC 60.876 60.000 8.40 0.00 38.26 4.06
221 222 2.464459 GCTACGACTGCCCATGCAC 61.464 63.158 0.00 0.00 44.23 4.57
222 223 1.079197 CTACGACTGCCCATGCACA 60.079 57.895 0.00 0.00 44.23 4.57
223 224 0.673333 CTACGACTGCCCATGCACAA 60.673 55.000 0.00 0.00 44.23 3.33
224 225 0.673333 TACGACTGCCCATGCACAAG 60.673 55.000 0.00 0.00 44.23 3.16
225 226 1.968017 CGACTGCCCATGCACAAGT 60.968 57.895 0.00 0.00 44.23 3.16
226 227 0.673333 CGACTGCCCATGCACAAGTA 60.673 55.000 0.00 0.00 44.23 2.24
227 228 1.533625 GACTGCCCATGCACAAGTAA 58.466 50.000 0.00 0.00 44.23 2.24
228 229 1.885887 GACTGCCCATGCACAAGTAAA 59.114 47.619 0.00 0.00 44.23 2.01
229 230 1.888512 ACTGCCCATGCACAAGTAAAG 59.111 47.619 0.00 0.00 44.23 1.85
230 231 2.161855 CTGCCCATGCACAAGTAAAGA 58.838 47.619 0.00 0.00 44.23 2.52
231 232 2.161855 TGCCCATGCACAAGTAAAGAG 58.838 47.619 0.00 0.00 44.23 2.85
232 233 2.224744 TGCCCATGCACAAGTAAAGAGA 60.225 45.455 0.00 0.00 44.23 3.10
233 234 3.019564 GCCCATGCACAAGTAAAGAGAT 58.980 45.455 0.00 0.00 37.47 2.75
234 235 4.199310 GCCCATGCACAAGTAAAGAGATA 58.801 43.478 0.00 0.00 37.47 1.98
235 236 4.035675 GCCCATGCACAAGTAAAGAGATAC 59.964 45.833 0.00 0.00 37.47 2.24
236 237 5.185454 CCCATGCACAAGTAAAGAGATACA 58.815 41.667 0.00 0.00 0.00 2.29
237 238 5.295292 CCCATGCACAAGTAAAGAGATACAG 59.705 44.000 0.00 0.00 0.00 2.74
238 239 6.108687 CCATGCACAAGTAAAGAGATACAGA 58.891 40.000 0.00 0.00 0.00 3.41
239 240 6.595326 CCATGCACAAGTAAAGAGATACAGAA 59.405 38.462 0.00 0.00 0.00 3.02
240 241 7.201591 CCATGCACAAGTAAAGAGATACAGAAG 60.202 40.741 0.00 0.00 0.00 2.85
241 242 6.166279 TGCACAAGTAAAGAGATACAGAAGG 58.834 40.000 0.00 0.00 0.00 3.46
242 243 5.582665 GCACAAGTAAAGAGATACAGAAGGG 59.417 44.000 0.00 0.00 0.00 3.95
243 244 5.582665 CACAAGTAAAGAGATACAGAAGGGC 59.417 44.000 0.00 0.00 0.00 5.19
244 245 5.485708 ACAAGTAAAGAGATACAGAAGGGCT 59.514 40.000 0.00 0.00 0.00 5.19
245 246 5.862678 AGTAAAGAGATACAGAAGGGCTC 57.137 43.478 0.00 0.00 0.00 4.70
246 247 4.651962 AGTAAAGAGATACAGAAGGGCTCC 59.348 45.833 0.00 0.00 0.00 4.70
247 248 3.413105 AAGAGATACAGAAGGGCTCCT 57.587 47.619 0.00 0.00 33.87 3.69
248 249 4.544564 AAGAGATACAGAAGGGCTCCTA 57.455 45.455 0.00 0.00 31.13 2.94
249 250 3.839778 AGAGATACAGAAGGGCTCCTAC 58.160 50.000 0.00 0.00 31.13 3.18
250 251 3.465588 AGAGATACAGAAGGGCTCCTACT 59.534 47.826 0.00 0.00 31.13 2.57
251 252 4.078863 AGAGATACAGAAGGGCTCCTACTT 60.079 45.833 0.00 0.00 31.13 2.24
252 253 4.625963 AGATACAGAAGGGCTCCTACTTT 58.374 43.478 0.00 0.00 31.13 2.66
253 254 5.033522 AGATACAGAAGGGCTCCTACTTTT 58.966 41.667 0.00 0.00 31.13 2.27
254 255 3.425162 ACAGAAGGGCTCCTACTTTTG 57.575 47.619 0.00 0.00 35.60 2.44
255 256 2.711547 ACAGAAGGGCTCCTACTTTTGT 59.288 45.455 0.00 0.00 37.25 2.83
256 257 3.908103 ACAGAAGGGCTCCTACTTTTGTA 59.092 43.478 0.00 0.00 39.38 2.41
257 258 4.254492 CAGAAGGGCTCCTACTTTTGTAC 58.746 47.826 0.00 0.00 31.13 2.90
258 259 3.908103 AGAAGGGCTCCTACTTTTGTACA 59.092 43.478 0.00 0.00 31.13 2.90
259 260 3.697619 AGGGCTCCTACTTTTGTACAC 57.302 47.619 0.00 0.00 28.47 2.90
260 261 3.248888 AGGGCTCCTACTTTTGTACACT 58.751 45.455 0.00 0.00 28.47 3.55
261 262 3.651423 AGGGCTCCTACTTTTGTACACTT 59.349 43.478 0.00 0.00 28.47 3.16
262 263 4.842380 AGGGCTCCTACTTTTGTACACTTA 59.158 41.667 0.00 0.00 28.47 2.24
263 264 4.934001 GGGCTCCTACTTTTGTACACTTAC 59.066 45.833 0.00 0.00 0.00 2.34
264 265 5.511888 GGGCTCCTACTTTTGTACACTTACA 60.512 44.000 0.00 0.00 36.36 2.41
265 266 5.638234 GGCTCCTACTTTTGTACACTTACAG 59.362 44.000 0.00 0.00 39.44 2.74
266 267 6.221659 GCTCCTACTTTTGTACACTTACAGT 58.778 40.000 0.00 0.00 39.44 3.55
296 297 4.928661 CACTAAGGAGTGTTTCGGATTG 57.071 45.455 0.00 0.00 46.88 2.67
326 327 5.674525 AGTTTGATCCTAGAATCGCATTCA 58.325 37.500 10.26 0.00 41.71 2.57
349 350 3.130633 GGAAGTTGTGGCAAAACAATCC 58.869 45.455 21.96 22.02 41.81 3.01
355 356 0.749649 TGGCAAAACAATCCGTGCTT 59.250 45.000 0.00 0.00 37.17 3.91
375 376 7.306749 CGTGCTTCAAAAATGCTACTTTCAAAT 60.307 33.333 0.00 0.00 0.00 2.32
376 377 8.006027 GTGCTTCAAAAATGCTACTTTCAAATC 58.994 33.333 0.00 0.00 0.00 2.17
399 400 5.942826 TCCATTTTGGAGCTTTGTTGTTTTT 59.057 32.000 0.00 0.00 42.67 1.94
480 482 8.908786 TTAATGTTTGCCACCAAATAAATTCA 57.091 26.923 0.00 0.00 42.44 2.57
482 484 7.814264 ATGTTTGCCACCAAATAAATTCAAA 57.186 28.000 0.00 0.00 42.44 2.69
519 521 9.961265 AAATTACTGTTCATATCATGAGCATTG 57.039 29.630 0.09 0.00 46.88 2.82
524 526 6.124340 TGTTCATATCATGAGCATTGGAACT 58.876 36.000 18.07 0.00 44.01 3.01
563 565 7.550551 TCATGATCTAACAAGGTAAGCTTTCTG 59.449 37.037 3.20 0.00 0.00 3.02
748 754 2.979814 TCTCTCGTCTCTCTCTCCTG 57.020 55.000 0.00 0.00 0.00 3.86
768 774 2.293924 TGTCCCCTCCTAGAGAGAGAGA 60.294 54.545 9.16 3.27 46.50 3.10
769 775 2.372172 GTCCCCTCCTAGAGAGAGAGAG 59.628 59.091 9.16 0.00 46.50 3.20
770 776 1.705186 CCCCTCCTAGAGAGAGAGAGG 59.295 61.905 9.16 6.03 46.50 3.69
773 779 3.461831 CCCTCCTAGAGAGAGAGAGGAAA 59.538 52.174 9.74 0.00 46.50 3.13
774 780 4.079443 CCCTCCTAGAGAGAGAGAGGAAAA 60.079 50.000 9.74 0.00 46.50 2.29
1447 1471 2.587194 CGCTCCTTCAGGCCATCG 60.587 66.667 5.01 0.00 34.44 3.84
1596 1620 3.672295 CTTCCACCCGCTGCTCCTC 62.672 68.421 0.00 0.00 0.00 3.71
1809 1833 1.422950 GAGGAGAGGACGACGACGAG 61.423 65.000 15.32 0.00 42.66 4.18
2204 2228 2.225963 GCAAGTGATCTATCCATGCTGC 59.774 50.000 0.00 0.00 0.00 5.25
2206 2230 3.681593 AGTGATCTATCCATGCTGCTC 57.318 47.619 0.00 0.00 0.00 4.26
2219 2243 3.726631 CTGCTCGACCTCTCGCGTC 62.727 68.421 5.77 0.00 39.96 5.19
2289 2314 4.389374 CCGCAATGAAGTATATGGAACCT 58.611 43.478 0.00 0.00 0.00 3.50
2301 2326 0.391661 TGGAACCTGATCGAGCAAGC 60.392 55.000 4.32 0.00 0.00 4.01
2302 2327 1.092345 GGAACCTGATCGAGCAAGCC 61.092 60.000 4.32 0.00 0.00 4.35
2412 2437 1.813859 CATGCATGCAAGGACCAGG 59.186 57.895 26.68 0.00 0.00 4.45
2419 2471 0.252513 TGCAAGGACCAGGGCTACTA 60.253 55.000 0.00 0.00 0.00 1.82
2444 2496 1.177401 GCCATTCTTGTTGGAGGGAC 58.823 55.000 0.00 0.00 36.26 4.46
2657 2709 9.539825 TCTTTGCTTTACATCTTCATCTATCTC 57.460 33.333 0.00 0.00 0.00 2.75
2674 2726 9.770097 CATCTATCTCTATTTGCTTCCACTTTA 57.230 33.333 0.00 0.00 0.00 1.85
2981 3060 4.445452 TTCTAGGACGCGATGTACTTTT 57.555 40.909 15.93 0.00 39.37 2.27
3167 3251 7.890127 AGGATCTTGTGGATTGAGTTCATTTTA 59.110 33.333 0.00 0.00 34.33 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.913451 AGACTGCCATCCTTGAGCCT 60.913 55.000 0.00 0.00 0.00 4.58
3 4 1.093159 GCAAGACTGCCATCCTTGAG 58.907 55.000 9.52 0.00 43.26 3.02
4 5 3.254629 GCAAGACTGCCATCCTTGA 57.745 52.632 9.52 0.00 43.26 3.02
14 15 1.799258 GCCCAACACCAGCAAGACTG 61.799 60.000 0.00 0.00 46.77 3.51
15 16 1.529244 GCCCAACACCAGCAAGACT 60.529 57.895 0.00 0.00 0.00 3.24
16 17 1.391157 TTGCCCAACACCAGCAAGAC 61.391 55.000 0.00 0.00 41.35 3.01
17 18 1.076412 TTGCCCAACACCAGCAAGA 60.076 52.632 0.00 0.00 41.35 3.02
18 19 3.536164 TTGCCCAACACCAGCAAG 58.464 55.556 0.00 0.00 41.35 4.01
19 20 0.975040 AACTTGCCCAACACCAGCAA 60.975 50.000 0.00 0.00 43.83 3.91
20 21 1.381056 AACTTGCCCAACACCAGCA 60.381 52.632 0.00 0.00 33.97 4.41
21 22 1.067916 CAACTTGCCCAACACCAGC 59.932 57.895 0.00 0.00 0.00 4.85
22 23 1.067916 GCAACTTGCCCAACACCAG 59.932 57.895 1.95 0.00 37.42 4.00
23 24 3.215245 GCAACTTGCCCAACACCA 58.785 55.556 1.95 0.00 37.42 4.17
51 52 2.351336 CTACGTAGCCCCGGCAAGAG 62.351 65.000 10.14 0.00 44.88 2.85
52 53 2.362760 TACGTAGCCCCGGCAAGA 60.363 61.111 8.74 0.00 44.88 3.02
53 54 2.106332 CTACGTAGCCCCGGCAAG 59.894 66.667 10.14 1.12 44.88 4.01
54 55 3.463585 CCTACGTAGCCCCGGCAA 61.464 66.667 17.41 0.00 44.88 4.52
67 68 4.832608 CTTGTCGGGGCGGCCTAC 62.833 72.222 28.80 24.56 0.00 3.18
75 76 2.747855 GCAAGAGCCTTGTCGGGG 60.748 66.667 14.04 0.00 33.58 5.73
85 86 3.443925 GCTTTCCCCGGCAAGAGC 61.444 66.667 9.76 5.90 41.10 4.09
86 87 2.751837 GGCTTTCCCCGGCAAGAG 60.752 66.667 9.76 0.00 0.00 2.85
96 97 0.332972 AGGGACAAGATGGGCTTTCC 59.667 55.000 0.00 0.00 33.60 3.13
97 98 2.095461 GAAGGGACAAGATGGGCTTTC 58.905 52.381 0.00 0.00 33.60 2.62
98 99 1.614317 CGAAGGGACAAGATGGGCTTT 60.614 52.381 0.00 0.00 33.60 3.51
99 100 0.035056 CGAAGGGACAAGATGGGCTT 60.035 55.000 0.00 0.00 37.29 4.35
100 101 1.604378 CGAAGGGACAAGATGGGCT 59.396 57.895 0.00 0.00 0.00 5.19
101 102 2.115291 GCGAAGGGACAAGATGGGC 61.115 63.158 0.00 0.00 0.00 5.36
102 103 0.462759 GAGCGAAGGGACAAGATGGG 60.463 60.000 0.00 0.00 0.00 4.00
103 104 0.539051 AGAGCGAAGGGACAAGATGG 59.461 55.000 0.00 0.00 0.00 3.51
104 105 2.275318 GAAGAGCGAAGGGACAAGATG 58.725 52.381 0.00 0.00 0.00 2.90
105 106 1.902508 TGAAGAGCGAAGGGACAAGAT 59.097 47.619 0.00 0.00 0.00 2.40
106 107 1.338107 TGAAGAGCGAAGGGACAAGA 58.662 50.000 0.00 0.00 0.00 3.02
107 108 2.005451 CATGAAGAGCGAAGGGACAAG 58.995 52.381 0.00 0.00 0.00 3.16
108 109 1.945819 GCATGAAGAGCGAAGGGACAA 60.946 52.381 0.00 0.00 0.00 3.18
109 110 0.391661 GCATGAAGAGCGAAGGGACA 60.392 55.000 0.00 0.00 0.00 4.02
110 111 0.107945 AGCATGAAGAGCGAAGGGAC 60.108 55.000 0.00 0.00 37.01 4.46
111 112 0.615331 AAGCATGAAGAGCGAAGGGA 59.385 50.000 0.00 0.00 37.01 4.20
112 113 1.012841 GAAGCATGAAGAGCGAAGGG 58.987 55.000 0.00 0.00 37.01 3.95
113 114 1.664659 CAGAAGCATGAAGAGCGAAGG 59.335 52.381 0.00 0.00 37.01 3.46
114 115 1.664659 CCAGAAGCATGAAGAGCGAAG 59.335 52.381 0.00 0.00 37.01 3.79
115 116 1.730501 CCAGAAGCATGAAGAGCGAA 58.269 50.000 0.00 0.00 37.01 4.70
116 117 0.742281 GCCAGAAGCATGAAGAGCGA 60.742 55.000 0.00 0.00 42.97 4.93
117 118 1.720301 GCCAGAAGCATGAAGAGCG 59.280 57.895 0.00 0.00 42.97 5.03
118 119 1.132643 CAAGCCAGAAGCATGAAGAGC 59.867 52.381 0.00 0.00 42.92 4.09
119 120 1.743958 CCAAGCCAGAAGCATGAAGAG 59.256 52.381 0.00 0.00 42.92 2.85
120 121 1.615116 CCCAAGCCAGAAGCATGAAGA 60.615 52.381 0.00 0.00 42.92 2.87
121 122 0.815734 CCCAAGCCAGAAGCATGAAG 59.184 55.000 0.00 0.00 42.92 3.02
122 123 0.112995 ACCCAAGCCAGAAGCATGAA 59.887 50.000 0.00 0.00 42.92 2.57
123 124 0.609957 CACCCAAGCCAGAAGCATGA 60.610 55.000 0.00 0.00 42.92 3.07
127 128 1.109323 ACAACACCCAAGCCAGAAGC 61.109 55.000 0.00 0.00 44.25 3.86
128 129 0.954452 GACAACACCCAAGCCAGAAG 59.046 55.000 0.00 0.00 0.00 2.85
129 130 0.550914 AGACAACACCCAAGCCAGAA 59.449 50.000 0.00 0.00 0.00 3.02
130 131 0.550914 AAGACAACACCCAAGCCAGA 59.449 50.000 0.00 0.00 0.00 3.86
131 132 0.670162 CAAGACAACACCCAAGCCAG 59.330 55.000 0.00 0.00 0.00 4.85
132 133 0.754957 CCAAGACAACACCCAAGCCA 60.755 55.000 0.00 0.00 0.00 4.75
133 134 2.041153 CCAAGACAACACCCAAGCC 58.959 57.895 0.00 0.00 0.00 4.35
134 135 1.363807 GCCAAGACAACACCCAAGC 59.636 57.895 0.00 0.00 0.00 4.01
135 136 0.670162 CTGCCAAGACAACACCCAAG 59.330 55.000 0.00 0.00 0.00 3.61
136 137 0.033601 ACTGCCAAGACAACACCCAA 60.034 50.000 0.00 0.00 0.00 4.12
137 138 0.465460 GACTGCCAAGACAACACCCA 60.465 55.000 0.00 0.00 0.00 4.51
138 139 0.179018 AGACTGCCAAGACAACACCC 60.179 55.000 0.00 0.00 0.00 4.61
139 140 1.680338 AAGACTGCCAAGACAACACC 58.320 50.000 0.00 0.00 0.00 4.16
140 141 3.782889 AAAAGACTGCCAAGACAACAC 57.217 42.857 0.00 0.00 0.00 3.32
141 142 5.376625 AGATAAAAGACTGCCAAGACAACA 58.623 37.500 0.00 0.00 0.00 3.33
142 143 5.948992 AGATAAAAGACTGCCAAGACAAC 57.051 39.130 0.00 0.00 0.00 3.32
143 144 6.735694 GCAAAGATAAAAGACTGCCAAGACAA 60.736 38.462 0.00 0.00 0.00 3.18
144 145 5.278463 GCAAAGATAAAAGACTGCCAAGACA 60.278 40.000 0.00 0.00 0.00 3.41
145 146 5.048434 AGCAAAGATAAAAGACTGCCAAGAC 60.048 40.000 0.00 0.00 0.00 3.01
146 147 5.072741 AGCAAAGATAAAAGACTGCCAAGA 58.927 37.500 0.00 0.00 0.00 3.02
147 148 5.382618 AGCAAAGATAAAAGACTGCCAAG 57.617 39.130 0.00 0.00 0.00 3.61
148 149 5.278957 GGAAGCAAAGATAAAAGACTGCCAA 60.279 40.000 0.00 0.00 0.00 4.52
149 150 4.218417 GGAAGCAAAGATAAAAGACTGCCA 59.782 41.667 0.00 0.00 0.00 4.92
150 151 4.460731 AGGAAGCAAAGATAAAAGACTGCC 59.539 41.667 0.00 0.00 0.00 4.85
151 152 5.414144 AGAGGAAGCAAAGATAAAAGACTGC 59.586 40.000 0.00 0.00 0.00 4.40
152 153 6.622462 GCAGAGGAAGCAAAGATAAAAGACTG 60.622 42.308 0.00 0.00 0.00 3.51
153 154 5.414144 GCAGAGGAAGCAAAGATAAAAGACT 59.586 40.000 0.00 0.00 0.00 3.24
154 155 5.392487 GGCAGAGGAAGCAAAGATAAAAGAC 60.392 44.000 0.00 0.00 0.00 3.01
155 156 4.702131 GGCAGAGGAAGCAAAGATAAAAGA 59.298 41.667 0.00 0.00 0.00 2.52
156 157 4.142293 GGGCAGAGGAAGCAAAGATAAAAG 60.142 45.833 0.00 0.00 0.00 2.27
157 158 3.763897 GGGCAGAGGAAGCAAAGATAAAA 59.236 43.478 0.00 0.00 0.00 1.52
158 159 3.010584 AGGGCAGAGGAAGCAAAGATAAA 59.989 43.478 0.00 0.00 0.00 1.40
159 160 2.578021 AGGGCAGAGGAAGCAAAGATAA 59.422 45.455 0.00 0.00 0.00 1.75
160 161 2.092753 CAGGGCAGAGGAAGCAAAGATA 60.093 50.000 0.00 0.00 0.00 1.98
161 162 0.998145 AGGGCAGAGGAAGCAAAGAT 59.002 50.000 0.00 0.00 0.00 2.40
162 163 0.037303 CAGGGCAGAGGAAGCAAAGA 59.963 55.000 0.00 0.00 0.00 2.52
163 164 1.593296 GCAGGGCAGAGGAAGCAAAG 61.593 60.000 0.00 0.00 0.00 2.77
164 165 1.604593 GCAGGGCAGAGGAAGCAAA 60.605 57.895 0.00 0.00 0.00 3.68
165 166 2.034687 GCAGGGCAGAGGAAGCAA 59.965 61.111 0.00 0.00 0.00 3.91
166 167 4.039092 GGCAGGGCAGAGGAAGCA 62.039 66.667 0.00 0.00 0.00 3.91
167 168 3.574074 TTGGCAGGGCAGAGGAAGC 62.574 63.158 0.00 0.00 0.00 3.86
168 169 1.378250 CTTGGCAGGGCAGAGGAAG 60.378 63.158 0.00 0.00 0.00 3.46
169 170 2.759114 CTTGGCAGGGCAGAGGAA 59.241 61.111 0.00 0.00 0.00 3.36
170 171 4.039092 GCTTGGCAGGGCAGAGGA 62.039 66.667 9.15 0.00 0.00 3.71
186 187 4.814294 CTACACCTGCGGTCGGGC 62.814 72.222 0.00 0.00 42.73 6.13
187 188 4.814294 GCTACACCTGCGGTCGGG 62.814 72.222 0.00 0.00 44.58 5.14
188 189 2.412323 TAGCTACACCTGCGGTCGG 61.412 63.158 0.00 0.00 31.02 4.79
189 190 1.226603 GTAGCTACACCTGCGGTCG 60.227 63.158 19.15 0.00 31.02 4.79
190 191 1.226603 CGTAGCTACACCTGCGGTC 60.227 63.158 23.21 0.00 37.31 4.79
191 192 1.676635 TCGTAGCTACACCTGCGGT 60.677 57.895 23.21 0.00 40.60 5.68
192 193 1.226603 GTCGTAGCTACACCTGCGG 60.227 63.158 23.21 5.59 40.60 5.69
193 194 0.523546 CAGTCGTAGCTACACCTGCG 60.524 60.000 23.21 8.65 41.39 5.18
194 195 0.802607 GCAGTCGTAGCTACACCTGC 60.803 60.000 32.11 32.11 40.17 4.85
195 196 0.179134 GGCAGTCGTAGCTACACCTG 60.179 60.000 24.97 24.97 0.00 4.00
196 197 1.321074 GGGCAGTCGTAGCTACACCT 61.321 60.000 23.21 14.47 0.00 4.00
197 198 1.141234 GGGCAGTCGTAGCTACACC 59.859 63.158 23.21 14.62 0.00 4.16
198 199 0.460311 ATGGGCAGTCGTAGCTACAC 59.540 55.000 23.21 18.42 0.00 2.90
199 200 0.459899 CATGGGCAGTCGTAGCTACA 59.540 55.000 23.21 8.16 0.00 2.74
200 201 0.876342 GCATGGGCAGTCGTAGCTAC 60.876 60.000 14.19 14.19 40.72 3.58
201 202 1.441729 GCATGGGCAGTCGTAGCTA 59.558 57.895 0.00 0.00 40.72 3.32
202 203 2.187946 GCATGGGCAGTCGTAGCT 59.812 61.111 0.00 0.00 40.72 3.32
212 213 2.436417 TCTCTTTACTTGTGCATGGGC 58.564 47.619 0.00 0.00 41.68 5.36
213 214 5.185454 TGTATCTCTTTACTTGTGCATGGG 58.815 41.667 0.00 0.00 0.00 4.00
214 215 6.108687 TCTGTATCTCTTTACTTGTGCATGG 58.891 40.000 0.00 0.00 0.00 3.66
215 216 7.201591 CCTTCTGTATCTCTTTACTTGTGCATG 60.202 40.741 0.00 0.00 0.00 4.06
216 217 6.820656 CCTTCTGTATCTCTTTACTTGTGCAT 59.179 38.462 0.00 0.00 0.00 3.96
217 218 6.166279 CCTTCTGTATCTCTTTACTTGTGCA 58.834 40.000 0.00 0.00 0.00 4.57
218 219 5.582665 CCCTTCTGTATCTCTTTACTTGTGC 59.417 44.000 0.00 0.00 0.00 4.57
219 220 5.582665 GCCCTTCTGTATCTCTTTACTTGTG 59.417 44.000 0.00 0.00 0.00 3.33
220 221 5.485708 AGCCCTTCTGTATCTCTTTACTTGT 59.514 40.000 0.00 0.00 0.00 3.16
221 222 5.983540 AGCCCTTCTGTATCTCTTTACTTG 58.016 41.667 0.00 0.00 0.00 3.16
222 223 5.129650 GGAGCCCTTCTGTATCTCTTTACTT 59.870 44.000 0.00 0.00 0.00 2.24
223 224 4.651962 GGAGCCCTTCTGTATCTCTTTACT 59.348 45.833 0.00 0.00 0.00 2.24
224 225 4.651962 AGGAGCCCTTCTGTATCTCTTTAC 59.348 45.833 0.00 0.00 0.00 2.01
225 226 4.884961 AGGAGCCCTTCTGTATCTCTTTA 58.115 43.478 0.00 0.00 0.00 1.85
226 227 3.730269 AGGAGCCCTTCTGTATCTCTTT 58.270 45.455 0.00 0.00 0.00 2.52
227 228 3.413105 AGGAGCCCTTCTGTATCTCTT 57.587 47.619 0.00 0.00 0.00 2.85
228 229 3.465588 AGTAGGAGCCCTTCTGTATCTCT 59.534 47.826 0.00 0.00 34.61 3.10
229 230 3.839778 AGTAGGAGCCCTTCTGTATCTC 58.160 50.000 0.00 0.00 34.61 2.75
230 231 3.983533 AGTAGGAGCCCTTCTGTATCT 57.016 47.619 0.00 0.00 34.61 1.98
231 232 5.119694 CAAAAGTAGGAGCCCTTCTGTATC 58.880 45.833 0.00 0.00 31.66 2.24
232 233 4.536489 ACAAAAGTAGGAGCCCTTCTGTAT 59.464 41.667 0.00 0.00 31.66 2.29
233 234 3.908103 ACAAAAGTAGGAGCCCTTCTGTA 59.092 43.478 0.00 0.00 31.66 2.74
234 235 2.711547 ACAAAAGTAGGAGCCCTTCTGT 59.288 45.455 0.00 0.00 31.66 3.41
235 236 3.425162 ACAAAAGTAGGAGCCCTTCTG 57.575 47.619 0.00 0.00 31.66 3.02
236 237 3.908103 TGTACAAAAGTAGGAGCCCTTCT 59.092 43.478 0.00 0.00 34.61 2.85
237 238 4.001652 GTGTACAAAAGTAGGAGCCCTTC 58.998 47.826 0.00 0.00 34.61 3.46
238 239 3.651423 AGTGTACAAAAGTAGGAGCCCTT 59.349 43.478 0.00 0.00 34.61 3.95
239 240 3.248888 AGTGTACAAAAGTAGGAGCCCT 58.751 45.455 0.00 0.00 37.71 5.19
240 241 3.697619 AGTGTACAAAAGTAGGAGCCC 57.302 47.619 0.00 0.00 0.00 5.19
241 242 5.544650 TGTAAGTGTACAAAAGTAGGAGCC 58.455 41.667 0.00 0.00 37.29 4.70
242 243 6.707599 CTGTAAGTGTACAAAAGTAGGAGC 57.292 41.667 0.00 0.00 39.75 4.70
266 267 2.571212 CACTCCTTAGTGTTTGCCACA 58.429 47.619 0.00 0.00 46.76 4.17
277 278 3.612860 CGACAATCCGAAACACTCCTTAG 59.387 47.826 0.00 0.00 0.00 2.18
293 294 7.979444 TTCTAGGATCAAACTTTTCGACAAT 57.021 32.000 0.00 0.00 0.00 2.71
296 297 6.697152 CGATTCTAGGATCAAACTTTTCGAC 58.303 40.000 11.68 0.00 0.00 4.20
326 327 3.902881 TTGTTTTGCCACAACTTCCAT 57.097 38.095 0.00 0.00 31.48 3.41
349 350 4.975502 TGAAAGTAGCATTTTTGAAGCACG 59.024 37.500 0.00 0.00 0.00 5.34
355 356 9.558396 AAATGGATTTGAAAGTAGCATTTTTGA 57.442 25.926 0.00 0.00 0.00 2.69
375 376 4.751767 AACAACAAAGCTCCAAAATGGA 57.248 36.364 0.00 0.00 45.98 3.41
376 377 5.816449 AAAACAACAAAGCTCCAAAATGG 57.184 34.783 0.00 0.00 39.43 3.16
400 401 9.958234 TCATAAAATCACATTTTTGAAAGTCGA 57.042 25.926 0.00 0.00 42.13 4.20
491 493 8.969260 TGCTCATGATATGAACAGTAATTTCT 57.031 30.769 0.00 0.00 39.11 2.52
493 495 9.961265 CAATGCTCATGATATGAACAGTAATTT 57.039 29.630 0.00 0.00 38.60 1.82
494 496 8.573885 CCAATGCTCATGATATGAACAGTAATT 58.426 33.333 0.00 0.00 38.60 1.40
495 497 7.940688 TCCAATGCTCATGATATGAACAGTAAT 59.059 33.333 0.00 0.00 38.60 1.89
511 513 0.391661 GCTCGGAGTTCCAATGCTCA 60.392 55.000 6.90 0.00 35.14 4.26
519 521 3.314541 TGAAAGTAAGCTCGGAGTTCC 57.685 47.619 6.90 0.00 0.00 3.62
524 526 6.127451 TGTTAGATCATGAAAGTAAGCTCGGA 60.127 38.462 0.00 0.00 0.00 4.55
635 639 9.559732 TCAAGATGTTCTTCTGTATCTTTTGAA 57.440 29.630 0.00 0.00 37.68 2.69
672 676 1.729284 TTTATCCCGTGGACTTTCGC 58.271 50.000 0.00 0.00 32.98 4.70
674 678 4.320870 TGTCTTTTATCCCGTGGACTTTC 58.679 43.478 0.00 0.00 32.98 2.62
748 754 2.372172 CTCTCTCTCTCTAGGAGGGGAC 59.628 59.091 7.90 0.00 42.63 4.46
768 774 5.520748 AGAGAGAGAGAGAGAGTTTTCCT 57.479 43.478 0.00 0.00 0.00 3.36
769 775 6.650120 TCTAGAGAGAGAGAGAGAGTTTTCC 58.350 44.000 0.00 0.00 0.00 3.13
803 816 3.887621 TCCACCAGTAGACTATGCAAC 57.112 47.619 0.00 0.00 0.00 4.17
1289 1313 1.153147 TTGTTGTACGCCAGGTGCA 60.153 52.632 0.00 0.00 41.33 4.57
1900 1924 4.020617 CTCCTGCTCCACCGCCAA 62.021 66.667 0.00 0.00 0.00 4.52
2067 2091 1.359459 GGTAGTGTAGCCGCAGCAAC 61.359 60.000 0.00 0.00 43.56 4.17
2068 2092 1.079405 GGTAGTGTAGCCGCAGCAA 60.079 57.895 0.00 0.00 43.56 3.91
2076 2100 1.722636 CCTCCGACGGGTAGTGTAGC 61.723 65.000 15.25 0.00 33.83 3.58
2079 2103 2.362120 CCCTCCGACGGGTAGTGT 60.362 66.667 15.25 0.00 39.51 3.55
2249 2274 1.009222 GCAATGCGATGCAGTAGCC 60.009 57.895 8.51 0.00 43.65 3.93
2289 2314 2.496341 CTCCGGCTTGCTCGATCA 59.504 61.111 0.00 0.00 0.00 2.92
2419 2471 4.019174 CCTCCAACAAGAATGGCAAGTAT 58.981 43.478 0.00 0.00 37.88 2.12
2444 2496 0.533032 GTCGACCTCCCCTTCTCTTG 59.467 60.000 3.51 0.00 0.00 3.02
2657 2709 8.816640 ACAAACAATAAAGTGGAAGCAAATAG 57.183 30.769 0.00 0.00 0.00 1.73
2663 2715 6.756542 AGTTGAACAAACAATAAAGTGGAAGC 59.243 34.615 0.00 0.00 41.61 3.86
2674 2726 4.546674 AGAGGGGAAGTTGAACAAACAAT 58.453 39.130 0.00 0.00 41.61 2.71
2742 2794 9.784531 AACACCATCCACTCTAGAATATATTTG 57.215 33.333 0.00 0.00 0.00 2.32
2746 2821 7.255836 CGGAAACACCATCCACTCTAGAATATA 60.256 40.741 0.00 0.00 36.74 0.86
2749 2824 4.383118 CGGAAACACCATCCACTCTAGAAT 60.383 45.833 0.00 0.00 36.74 2.40
2859 2936 8.830201 TGTACCATTGGATTTTTCATGAAAAG 57.170 30.769 27.52 18.12 40.35 2.27


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

AutoCloner maintained by Alex Coulton.