Multiple sequence alignment - TraesCS2B01G548700

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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 TraesCS2B01G548700 chr2B 100.000 3134 0 0 1 3134 744521642 744518509 0.000000e+00 5788
1 TraesCS2B01G548700 chr2B 93.333 2265 124 17 875 3134 744835084 744832842 0.000000e+00 3321
2 TraesCS2B01G548700 chr2B 82.699 1630 182 53 677 2273 744454536 744452974 0.000000e+00 1356
3 TraesCS2B01G548700 chr2B 83.837 1225 158 22 1048 2268 745579543 745580731 0.000000e+00 1129
4 TraesCS2B01G548700 chr2B 75.552 589 108 24 1001 1568 746170117 746170690 1.120000e-64 257
5 TraesCS2B01G548700 chr2B 86.740 181 8 5 160 324 170394651 170394471 1.480000e-43 187
6 TraesCS2B01G548700 chr2B 85.484 186 8 5 157 324 66033420 66033236 3.210000e-40 176
7 TraesCS2B01G548700 chr2B 84.828 145 15 3 663 801 744835265 744835122 4.210000e-29 139
8 TraesCS2B01G548700 chr2D 92.832 2274 127 17 875 3134 609893409 609891158 0.000000e+00 3264
9 TraesCS2B01G548700 chr2D 92.361 1584 99 10 986 2565 609935857 609934292 0.000000e+00 2235
10 TraesCS2B01G548700 chr2D 93.391 575 28 1 2560 3134 609925514 609924950 0.000000e+00 843
11 TraesCS2B01G548700 chr2D 85.458 502 29 20 428 915 609936433 609935962 1.690000e-132 483
12 TraesCS2B01G548700 chr2D 83.478 460 48 10 1443 1895 610065490 610065052 1.350000e-108 403
13 TraesCS2B01G548700 chr2D 91.525 118 7 3 1 115 609954308 609954191 3.240000e-35 159
14 TraesCS2B01G548700 chr2D 85.821 134 16 1 1001 1134 611244727 611244857 4.210000e-29 139
15 TraesCS2B01G548700 chr2A 74.312 1199 247 40 998 2167 744080517 744081683 4.770000e-123 451
16 TraesCS2B01G548700 chr2A 91.034 290 19 2 324 606 742766655 742766366 4.900000e-103 385
17 TraesCS2B01G548700 chr2A 84.874 238 18 11 632 859 742766027 742765798 1.130000e-54 224
18 TraesCS2B01G548700 chr2A 89.855 138 12 1 25 160 742766784 742766647 3.210000e-40 176
19 TraesCS2B01G548700 chr4B 88.333 180 6 2 159 323 666696783 666696962 5.300000e-48 202
20 TraesCS2B01G548700 chr4B 87.363 182 6 2 159 323 666660157 666660338 3.190000e-45 193
21 TraesCS2B01G548700 chr4B 85.475 179 8 3 157 318 18780335 18780158 1.490000e-38 171
22 TraesCS2B01G548700 chr4B 83.673 196 12 4 157 336 519489431 519489240 1.930000e-37 167
23 TraesCS2B01G548700 chr7B 87.027 185 8 1 158 326 683465875 683466059 8.870000e-46 195
24 TraesCS2B01G548700 chr7B 85.119 168 8 4 176 327 567883520 567883686 4.190000e-34 156
25 TraesCS2B01G548700 chr7B 86.184 152 6 3 188 324 567883426 567883275 1.950000e-32 150
26 TraesCS2B01G548700 chr5B 86.264 182 8 6 159 323 45709979 45710160 6.900000e-42 182
27 TraesCS2B01G548700 chr5B 86.188 181 9 3 160 324 79812250 79812070 6.900000e-42 182
28 TraesCS2B01G548700 chr6B 86.188 181 7 4 161 323 87632146 87631966 2.480000e-41 180
29 TraesCS2B01G548700 chr6B 85.475 179 11 3 161 324 579888313 579888491 4.160000e-39 172
30 TraesCS2B01G548700 chr6B 83.920 199 10 6 152 330 67175622 67175818 1.490000e-38 171
31 TraesCS2B01G548700 chr5A 86.188 181 8 3 161 324 429509084 429509264 2.480000e-41 180
32 TraesCS2B01G548700 chr5A 84.828 145 12 4 2990 3134 566046572 566046706 1.520000e-28 137
33 TraesCS2B01G548700 chr3B 86.034 179 9 2 161 323 116083662 116083484 8.930000e-41 178
34 TraesCS2B01G548700 chr6A 85.027 187 11 5 153 323 591098789 591098974 1.160000e-39 174
35 TraesCS2B01G548700 chr4A 85.083 181 10 2 160 323 669393163 669392983 5.380000e-38 169
36 TraesCS2B01G548700 chrUn 75.439 228 52 4 1256 1481 87002981 87003206 1.190000e-19 108
37 TraesCS2B01G548700 chrUn 75.439 228 52 4 1256 1481 298337166 298337391 1.190000e-19 108
38 TraesCS2B01G548700 chrUn 75.439 228 52 4 1256 1481 298383348 298383123 1.190000e-19 108


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 TraesCS2B01G548700 chr2B 744518509 744521642 3133 True 5788.000000 5788 100.000000 1 3134 1 chr2B.!!$R4 3133
1 TraesCS2B01G548700 chr2B 744832842 744835265 2423 True 1730.000000 3321 89.080500 663 3134 2 chr2B.!!$R5 2471
2 TraesCS2B01G548700 chr2B 744452974 744454536 1562 True 1356.000000 1356 82.699000 677 2273 1 chr2B.!!$R3 1596
3 TraesCS2B01G548700 chr2B 745579543 745580731 1188 False 1129.000000 1129 83.837000 1048 2268 1 chr2B.!!$F1 1220
4 TraesCS2B01G548700 chr2B 746170117 746170690 573 False 257.000000 257 75.552000 1001 1568 1 chr2B.!!$F2 567
5 TraesCS2B01G548700 chr2D 609891158 609893409 2251 True 3264.000000 3264 92.832000 875 3134 1 chr2D.!!$R1 2259
6 TraesCS2B01G548700 chr2D 609934292 609936433 2141 True 1359.000000 2235 88.909500 428 2565 2 chr2D.!!$R5 2137
7 TraesCS2B01G548700 chr2D 609924950 609925514 564 True 843.000000 843 93.391000 2560 3134 1 chr2D.!!$R2 574
8 TraesCS2B01G548700 chr2A 744080517 744081683 1166 False 451.000000 451 74.312000 998 2167 1 chr2A.!!$F1 1169
9 TraesCS2B01G548700 chr2A 742765798 742766784 986 True 261.666667 385 88.587667 25 859 3 chr2A.!!$R1 834

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
260 263 0.179092 GACCGCACCGCTTACCTATT 60.179 55.0 0.0 0.0 0.0 1.73 F
1240 1663 0.171455 ACTCGAACGCTCCATCTCAC 59.829 55.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1336 1761 0.102481 GCGTCCATGTCGTACAGGAT 59.898 55.0 8.80 0.0 30.30 3.24 R
2721 3165 0.602905 TCTAGCGCGAGATCCATCGA 60.603 55.0 16.75 0.0 45.56 3.59 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 2.182791 AGTCGCGCTGTCATGGAG 59.817 61.111 5.56 0.00 0.00 3.86
18 19 2.887568 GTCGCGCTGTCATGGAGG 60.888 66.667 5.56 0.00 0.00 4.30
19 20 3.068064 TCGCGCTGTCATGGAGGA 61.068 61.111 5.56 0.00 0.00 3.71
20 21 2.584418 CGCGCTGTCATGGAGGAG 60.584 66.667 5.56 0.00 0.00 3.69
21 22 2.202987 GCGCTGTCATGGAGGAGG 60.203 66.667 0.00 0.00 0.00 4.30
22 23 2.503061 CGCTGTCATGGAGGAGGG 59.497 66.667 0.00 0.00 0.00 4.30
23 24 2.191641 GCTGTCATGGAGGAGGGC 59.808 66.667 0.00 0.00 0.00 5.19
49 50 3.370103 CCGTTGGGGAGCAATAGACTAAA 60.370 47.826 0.00 0.00 38.47 1.85
51 52 4.200092 GTTGGGGAGCAATAGACTAAAGG 58.800 47.826 0.00 0.00 0.00 3.11
52 53 2.172717 TGGGGAGCAATAGACTAAAGGC 59.827 50.000 0.00 0.00 0.00 4.35
60 61 2.667473 TAGACTAAAGGCCGCAAGAC 57.333 50.000 0.00 0.00 43.02 3.01
105 106 4.349636 TCGAGATAGAGGAAGGAGAGTCAT 59.650 45.833 0.00 0.00 0.00 3.06
106 107 5.070001 CGAGATAGAGGAAGGAGAGTCATT 58.930 45.833 0.00 0.00 0.00 2.57
107 108 5.534654 CGAGATAGAGGAAGGAGAGTCATTT 59.465 44.000 0.00 0.00 0.00 2.32
109 110 3.625649 AGAGGAAGGAGAGTCATTTGC 57.374 47.619 0.00 0.00 0.00 3.68
110 111 2.909006 AGAGGAAGGAGAGTCATTTGCA 59.091 45.455 0.00 0.00 0.00 4.08
111 112 3.055240 AGAGGAAGGAGAGTCATTTGCAG 60.055 47.826 0.00 0.00 0.00 4.41
123 126 2.164219 TCATTTGCAGCGGATTCCTTTC 59.836 45.455 0.30 0.00 0.00 2.62
125 128 0.251121 TTGCAGCGGATTCCTTTCCA 60.251 50.000 0.30 0.00 35.34 3.53
145 148 2.264109 ATTATCTATCGCACCGCTCG 57.736 50.000 0.00 0.00 0.00 5.03
160 163 2.284417 CCGCTCGGTTCTGTTATAAAGC 59.716 50.000 0.00 0.00 0.00 3.51
161 164 2.927477 CGCTCGGTTCTGTTATAAAGCA 59.073 45.455 3.26 0.00 0.00 3.91
162 165 3.369756 CGCTCGGTTCTGTTATAAAGCAA 59.630 43.478 3.26 0.00 0.00 3.91
163 166 4.142988 CGCTCGGTTCTGTTATAAAGCAAA 60.143 41.667 3.26 0.00 0.00 3.68
164 167 5.615984 CGCTCGGTTCTGTTATAAAGCAAAA 60.616 40.000 3.26 0.00 0.00 2.44
165 168 6.146898 GCTCGGTTCTGTTATAAAGCAAAAA 58.853 36.000 0.00 0.00 0.00 1.94
166 169 6.806739 GCTCGGTTCTGTTATAAAGCAAAAAT 59.193 34.615 0.00 0.00 0.00 1.82
167 170 7.201350 GCTCGGTTCTGTTATAAAGCAAAAATG 60.201 37.037 0.00 0.00 0.00 2.32
168 171 6.584563 TCGGTTCTGTTATAAAGCAAAAATGC 59.415 34.615 0.00 0.00 0.00 3.56
170 173 7.753132 CGGTTCTGTTATAAAGCAAAAATGCTA 59.247 33.333 3.44 0.00 45.54 3.49
171 174 9.076596 GGTTCTGTTATAAAGCAAAAATGCTAG 57.923 33.333 3.44 0.00 45.54 3.42
172 175 9.840427 GTTCTGTTATAAAGCAAAAATGCTAGA 57.160 29.630 3.44 0.00 45.54 2.43
173 176 9.840427 TTCTGTTATAAAGCAAAAATGCTAGAC 57.160 29.630 3.44 0.61 45.54 2.59
174 177 9.008965 TCTGTTATAAAGCAAAAATGCTAGACA 57.991 29.630 3.44 4.65 45.54 3.41
175 178 9.793252 CTGTTATAAAGCAAAAATGCTAGACAT 57.207 29.630 3.44 0.00 45.54 3.06
181 184 8.524870 AAAGCAAAAATGCTAGACATACAAAG 57.475 30.769 3.44 0.00 45.54 2.77
182 185 7.452880 AGCAAAAATGCTAGACATACAAAGA 57.547 32.000 0.67 0.00 44.28 2.52
183 186 7.308435 AGCAAAAATGCTAGACATACAAAGAC 58.692 34.615 0.67 0.00 44.28 3.01
184 187 7.175641 AGCAAAAATGCTAGACATACAAAGACT 59.824 33.333 0.67 0.00 44.28 3.24
185 188 7.809806 GCAAAAATGCTAGACATACAAAGACTT 59.190 33.333 0.00 0.00 38.34 3.01
188 191 9.502091 AAAATGCTAGACATACAAAGACTTACA 57.498 29.630 0.00 0.00 38.34 2.41
189 192 8.480643 AATGCTAGACATACAAAGACTTACAC 57.519 34.615 0.00 0.00 38.34 2.90
190 193 6.090783 TGCTAGACATACAAAGACTTACACG 58.909 40.000 0.00 0.00 0.00 4.49
191 194 5.004535 GCTAGACATACAAAGACTTACACGC 59.995 44.000 0.00 0.00 0.00 5.34
192 195 5.135508 AGACATACAAAGACTTACACGCT 57.864 39.130 0.00 0.00 0.00 5.07
193 196 5.539048 AGACATACAAAGACTTACACGCTT 58.461 37.500 0.00 0.00 0.00 4.68
194 197 5.989777 AGACATACAAAGACTTACACGCTTT 59.010 36.000 0.00 0.00 32.46 3.51
195 198 6.482308 AGACATACAAAGACTTACACGCTTTT 59.518 34.615 0.00 0.00 30.00 2.27
196 199 7.654520 AGACATACAAAGACTTACACGCTTTTA 59.345 33.333 0.00 0.00 30.00 1.52
197 200 7.570161 ACATACAAAGACTTACACGCTTTTAC 58.430 34.615 0.00 0.00 30.00 2.01
198 201 7.225145 ACATACAAAGACTTACACGCTTTTACA 59.775 33.333 0.00 0.00 30.00 2.41
199 202 5.803118 ACAAAGACTTACACGCTTTTACAC 58.197 37.500 0.00 0.00 30.00 2.90
200 203 4.703899 AAGACTTACACGCTTTTACACG 57.296 40.909 0.00 0.00 0.00 4.49
201 204 2.473984 AGACTTACACGCTTTTACACGC 59.526 45.455 0.00 0.00 0.00 5.34
202 205 2.473984 GACTTACACGCTTTTACACGCT 59.526 45.455 0.00 0.00 0.00 5.07
203 206 2.473984 ACTTACACGCTTTTACACGCTC 59.526 45.455 0.00 0.00 0.00 5.03
204 207 1.421382 TACACGCTTTTACACGCTCC 58.579 50.000 0.00 0.00 0.00 4.70
205 208 0.249741 ACACGCTTTTACACGCTCCT 60.250 50.000 0.00 0.00 0.00 3.69
206 209 0.865769 CACGCTTTTACACGCTCCTT 59.134 50.000 0.00 0.00 0.00 3.36
207 210 1.136336 CACGCTTTTACACGCTCCTTC 60.136 52.381 0.00 0.00 0.00 3.46
208 211 0.442699 CGCTTTTACACGCTCCTTCC 59.557 55.000 0.00 0.00 0.00 3.46
209 212 1.519408 GCTTTTACACGCTCCTTCCA 58.481 50.000 0.00 0.00 0.00 3.53
210 213 2.084546 GCTTTTACACGCTCCTTCCAT 58.915 47.619 0.00 0.00 0.00 3.41
211 214 2.096013 GCTTTTACACGCTCCTTCCATC 59.904 50.000 0.00 0.00 0.00 3.51
212 215 3.600388 CTTTTACACGCTCCTTCCATCT 58.400 45.455 0.00 0.00 0.00 2.90
213 216 4.755411 CTTTTACACGCTCCTTCCATCTA 58.245 43.478 0.00 0.00 0.00 1.98
214 217 4.811969 TTTACACGCTCCTTCCATCTAA 57.188 40.909 0.00 0.00 0.00 2.10
215 218 2.674796 ACACGCTCCTTCCATCTAAC 57.325 50.000 0.00 0.00 0.00 2.34
216 219 1.899814 ACACGCTCCTTCCATCTAACA 59.100 47.619 0.00 0.00 0.00 2.41
217 220 2.301870 ACACGCTCCTTCCATCTAACAA 59.698 45.455 0.00 0.00 0.00 2.83
218 221 2.673368 CACGCTCCTTCCATCTAACAAC 59.327 50.000 0.00 0.00 0.00 3.32
219 222 2.280628 CGCTCCTTCCATCTAACAACC 58.719 52.381 0.00 0.00 0.00 3.77
220 223 2.354704 CGCTCCTTCCATCTAACAACCA 60.355 50.000 0.00 0.00 0.00 3.67
221 224 3.686016 GCTCCTTCCATCTAACAACCAA 58.314 45.455 0.00 0.00 0.00 3.67
222 225 4.273318 GCTCCTTCCATCTAACAACCAAT 58.727 43.478 0.00 0.00 0.00 3.16
223 226 4.336713 GCTCCTTCCATCTAACAACCAATC 59.663 45.833 0.00 0.00 0.00 2.67
224 227 5.500234 CTCCTTCCATCTAACAACCAATCA 58.500 41.667 0.00 0.00 0.00 2.57
225 228 5.253330 TCCTTCCATCTAACAACCAATCAC 58.747 41.667 0.00 0.00 0.00 3.06
226 229 5.009631 CCTTCCATCTAACAACCAATCACA 58.990 41.667 0.00 0.00 0.00 3.58
227 230 5.476599 CCTTCCATCTAACAACCAATCACAA 59.523 40.000 0.00 0.00 0.00 3.33
228 231 6.015519 CCTTCCATCTAACAACCAATCACAAA 60.016 38.462 0.00 0.00 0.00 2.83
229 232 7.309990 CCTTCCATCTAACAACCAATCACAAAT 60.310 37.037 0.00 0.00 0.00 2.32
230 233 7.156876 TCCATCTAACAACCAATCACAAATC 57.843 36.000 0.00 0.00 0.00 2.17
231 234 6.947733 TCCATCTAACAACCAATCACAAATCT 59.052 34.615 0.00 0.00 0.00 2.40
232 235 7.121168 TCCATCTAACAACCAATCACAAATCTC 59.879 37.037 0.00 0.00 0.00 2.75
233 236 7.121759 CCATCTAACAACCAATCACAAATCTCT 59.878 37.037 0.00 0.00 0.00 3.10
234 237 7.672983 TCTAACAACCAATCACAAATCTCTC 57.327 36.000 0.00 0.00 0.00 3.20
235 238 5.712152 AACAACCAATCACAAATCTCTCC 57.288 39.130 0.00 0.00 0.00 3.71
236 239 4.082125 ACAACCAATCACAAATCTCTCCC 58.918 43.478 0.00 0.00 0.00 4.30
237 240 3.372440 ACCAATCACAAATCTCTCCCC 57.628 47.619 0.00 0.00 0.00 4.81
238 241 2.024941 ACCAATCACAAATCTCTCCCCC 60.025 50.000 0.00 0.00 0.00 5.40
254 257 4.077184 CCCTGACCGCACCGCTTA 62.077 66.667 0.00 0.00 0.00 3.09
255 258 2.813908 CCTGACCGCACCGCTTAC 60.814 66.667 0.00 0.00 0.00 2.34
256 259 2.813908 CTGACCGCACCGCTTACC 60.814 66.667 0.00 0.00 0.00 2.85
257 260 3.296709 CTGACCGCACCGCTTACCT 62.297 63.158 0.00 0.00 0.00 3.08
258 261 1.940883 CTGACCGCACCGCTTACCTA 61.941 60.000 0.00 0.00 0.00 3.08
259 262 1.324740 TGACCGCACCGCTTACCTAT 61.325 55.000 0.00 0.00 0.00 2.57
260 263 0.179092 GACCGCACCGCTTACCTATT 60.179 55.000 0.00 0.00 0.00 1.73
261 264 0.461339 ACCGCACCGCTTACCTATTG 60.461 55.000 0.00 0.00 0.00 1.90
262 265 0.179094 CCGCACCGCTTACCTATTGA 60.179 55.000 0.00 0.00 0.00 2.57
263 266 0.928229 CGCACCGCTTACCTATTGAC 59.072 55.000 0.00 0.00 0.00 3.18
264 267 1.296727 GCACCGCTTACCTATTGACC 58.703 55.000 0.00 0.00 0.00 4.02
265 268 1.406341 GCACCGCTTACCTATTGACCA 60.406 52.381 0.00 0.00 0.00 4.02
266 269 2.937873 GCACCGCTTACCTATTGACCAA 60.938 50.000 0.00 0.00 0.00 3.67
267 270 3.541632 CACCGCTTACCTATTGACCAAT 58.458 45.455 0.64 0.64 34.93 3.16
268 271 3.560068 CACCGCTTACCTATTGACCAATC 59.440 47.826 0.00 0.00 32.50 2.67
269 272 3.199071 ACCGCTTACCTATTGACCAATCA 59.801 43.478 0.00 0.00 32.50 2.57
281 284 5.975693 TTGACCAATCAAGGTTAACCATC 57.024 39.130 26.26 10.34 43.38 3.51
282 285 4.340617 TGACCAATCAAGGTTAACCATCC 58.659 43.478 26.26 0.00 43.38 3.51
283 286 4.044065 TGACCAATCAAGGTTAACCATCCT 59.956 41.667 26.26 2.59 43.38 3.24
284 287 4.344104 ACCAATCAAGGTTAACCATCCTG 58.656 43.478 26.26 16.38 39.34 3.86
285 288 4.202673 ACCAATCAAGGTTAACCATCCTGT 60.203 41.667 26.26 11.13 39.34 4.00
286 289 5.014755 ACCAATCAAGGTTAACCATCCTGTA 59.985 40.000 26.26 5.02 39.34 2.74
287 290 5.949354 CCAATCAAGGTTAACCATCCTGTAA 59.051 40.000 26.26 3.53 38.89 2.41
288 291 6.435904 CCAATCAAGGTTAACCATCCTGTAAA 59.564 38.462 26.26 3.51 38.89 2.01
289 292 7.039363 CCAATCAAGGTTAACCATCCTGTAAAA 60.039 37.037 26.26 3.19 38.89 1.52
290 293 7.703058 ATCAAGGTTAACCATCCTGTAAAAG 57.297 36.000 26.26 0.00 38.89 2.27
291 294 6.607019 TCAAGGTTAACCATCCTGTAAAAGT 58.393 36.000 26.26 0.00 38.89 2.66
292 295 6.488683 TCAAGGTTAACCATCCTGTAAAAGTG 59.511 38.462 26.26 0.17 38.89 3.16
293 296 5.948842 AGGTTAACCATCCTGTAAAAGTGT 58.051 37.500 26.26 0.00 38.89 3.55
294 297 5.768164 AGGTTAACCATCCTGTAAAAGTGTG 59.232 40.000 26.26 0.00 38.89 3.82
295 298 5.533528 GGTTAACCATCCTGTAAAAGTGTGT 59.466 40.000 20.12 0.00 35.64 3.72
296 299 6.711645 GGTTAACCATCCTGTAAAAGTGTGTA 59.288 38.462 20.12 0.00 35.64 2.90
297 300 7.229106 GGTTAACCATCCTGTAAAAGTGTGTAA 59.771 37.037 20.12 0.00 35.64 2.41
298 301 8.623030 GTTAACCATCCTGTAAAAGTGTGTAAA 58.377 33.333 0.00 0.00 0.00 2.01
299 302 7.833285 AACCATCCTGTAAAAGTGTGTAAAT 57.167 32.000 0.00 0.00 0.00 1.40
300 303 7.448748 ACCATCCTGTAAAAGTGTGTAAATC 57.551 36.000 0.00 0.00 0.00 2.17
301 304 6.148811 ACCATCCTGTAAAAGTGTGTAAATCG 59.851 38.462 0.00 0.00 0.00 3.34
302 305 6.148811 CCATCCTGTAAAAGTGTGTAAATCGT 59.851 38.462 0.00 0.00 0.00 3.73
303 306 7.308348 CCATCCTGTAAAAGTGTGTAAATCGTT 60.308 37.037 0.00 0.00 0.00 3.85
304 307 7.556733 TCCTGTAAAAGTGTGTAAATCGTTT 57.443 32.000 0.00 0.00 0.00 3.60
305 308 7.411274 TCCTGTAAAAGTGTGTAAATCGTTTG 58.589 34.615 0.00 0.00 0.00 2.93
306 309 7.066043 TCCTGTAAAAGTGTGTAAATCGTTTGT 59.934 33.333 0.00 0.00 0.00 2.83
307 310 8.336806 CCTGTAAAAGTGTGTAAATCGTTTGTA 58.663 33.333 0.00 0.00 0.00 2.41
308 311 9.150653 CTGTAAAAGTGTGTAAATCGTTTGTAC 57.849 33.333 0.00 0.00 0.00 2.90
309 312 8.663025 TGTAAAAGTGTGTAAATCGTTTGTACA 58.337 29.630 0.00 0.00 0.00 2.90
310 313 9.654417 GTAAAAGTGTGTAAATCGTTTGTACAT 57.346 29.630 0.00 0.00 30.87 2.29
311 314 8.555166 AAAAGTGTGTAAATCGTTTGTACATG 57.445 30.769 0.00 0.00 30.87 3.21
312 315 6.854496 AGTGTGTAAATCGTTTGTACATGT 57.146 33.333 2.69 2.69 30.87 3.21
313 316 7.949903 AGTGTGTAAATCGTTTGTACATGTA 57.050 32.000 0.08 0.08 30.87 2.29
314 317 8.014322 AGTGTGTAAATCGTTTGTACATGTAG 57.986 34.615 5.62 0.00 30.87 2.74
315 318 6.735063 GTGTGTAAATCGTTTGTACATGTAGC 59.265 38.462 5.62 2.31 30.87 3.58
316 319 6.424207 TGTGTAAATCGTTTGTACATGTAGCA 59.576 34.615 5.62 5.01 30.87 3.49
317 320 7.118535 TGTGTAAATCGTTTGTACATGTAGCAT 59.881 33.333 5.62 0.00 30.87 3.79
318 321 7.960738 GTGTAAATCGTTTGTACATGTAGCATT 59.039 33.333 5.62 1.51 30.87 3.56
319 322 7.960195 TGTAAATCGTTTGTACATGTAGCATTG 59.040 33.333 5.62 0.00 0.00 2.82
320 323 4.335082 TCGTTTGTACATGTAGCATTGC 57.665 40.909 5.62 0.00 0.00 3.56
321 324 3.126171 TCGTTTGTACATGTAGCATTGCC 59.874 43.478 5.62 0.00 0.00 4.52
322 325 3.425404 GTTTGTACATGTAGCATTGCCG 58.575 45.455 5.62 0.00 0.00 5.69
323 326 1.662517 TGTACATGTAGCATTGCCGG 58.337 50.000 5.62 0.00 0.00 6.13
366 369 0.519961 CCGGTTTTAAGGCCGTCAAG 59.480 55.000 15.45 1.10 45.91 3.02
373 376 1.448985 TAAGGCCGTCAAGTTGCATC 58.551 50.000 0.00 0.00 0.00 3.91
405 408 2.414138 GCTTTGTAATCGTTAGTGCCGT 59.586 45.455 0.00 0.00 0.00 5.68
464 467 6.875948 TCTGAATTTTTGTGCTTAGTGCTA 57.124 33.333 0.00 0.00 43.37 3.49
567 576 8.081633 TGCATAACAGGTTCAGTTATTCTTTTG 58.918 33.333 0.00 0.00 39.46 2.44
606 616 7.930325 TGAGAATCTAAATATGGAGAGTGCTTG 59.070 37.037 0.00 0.00 34.92 4.01
634 947 0.387239 CTTTTGCTGCCCGTGCTTAC 60.387 55.000 0.00 0.00 38.71 2.34
701 1026 1.306997 TCTTCCCTTGGGCCGATCT 60.307 57.895 0.00 0.00 0.00 2.75
722 1047 5.201243 TCTCCTCCGTTAGATCTTGAATGA 58.799 41.667 0.00 0.00 0.00 2.57
732 1057 7.514280 CGTTAGATCTTGAATGAACGACAGATG 60.514 40.741 17.29 0.00 41.52 2.90
773 1098 1.902508 TGTCACCTGATCTCTGTTCCC 59.097 52.381 0.00 0.00 0.00 3.97
788 1119 3.170672 CCCATCCGATCCCAGCCA 61.171 66.667 0.00 0.00 0.00 4.75
974 1372 9.841295 TCATTCATCATCTAATTCATGAACTCA 57.159 29.630 11.07 0.00 37.92 3.41
978 1376 9.708092 TCATCATCTAATTCATGAACTCATCTC 57.292 33.333 11.07 0.00 33.94 2.75
1203 1626 0.824109 TGGAGACCATCACACGGATC 59.176 55.000 0.00 0.00 32.57 3.36
1230 1653 1.803519 CAGGCTCAGACTCGAACGC 60.804 63.158 0.00 0.00 0.00 4.84
1235 1658 0.453793 CTCAGACTCGAACGCTCCAT 59.546 55.000 0.00 0.00 0.00 3.41
1236 1659 0.452184 TCAGACTCGAACGCTCCATC 59.548 55.000 0.00 0.00 0.00 3.51
1237 1660 0.453793 CAGACTCGAACGCTCCATCT 59.546 55.000 0.00 0.00 0.00 2.90
1238 1661 0.736053 AGACTCGAACGCTCCATCTC 59.264 55.000 0.00 0.00 0.00 2.75
1239 1662 0.452184 GACTCGAACGCTCCATCTCA 59.548 55.000 0.00 0.00 0.00 3.27
1240 1663 0.171455 ACTCGAACGCTCCATCTCAC 59.829 55.000 0.00 0.00 0.00 3.51
1282 1705 2.220653 TTTCCTGCCCTTCCATGAAG 57.779 50.000 0.00 0.00 39.17 3.02
1341 1766 2.273449 GAGGGGCACACCATCCTG 59.727 66.667 0.00 0.00 44.24 3.86
1496 1921 1.221021 GGTTCCCTTCCAGCTACGG 59.779 63.158 0.00 0.00 0.00 4.02
1548 1973 0.712380 ACCCTTCCAATGGCAGGAAT 59.288 50.000 19.68 4.25 43.74 3.01
1588 2013 0.670546 CAAGCTACCGTCACCACCTG 60.671 60.000 0.00 0.00 0.00 4.00
1589 2014 2.434359 GCTACCGTCACCACCTGC 60.434 66.667 0.00 0.00 0.00 4.85
1590 2015 3.056458 CTACCGTCACCACCTGCA 58.944 61.111 0.00 0.00 0.00 4.41
1797 2225 2.561569 CTCGACAACCTCTTGTTTGGT 58.438 47.619 0.00 0.00 40.93 3.67
1875 2309 3.589139 AGGGGTCCACCTTTGGTC 58.411 61.111 0.00 0.00 44.35 4.02
2088 2528 4.866921 TCGTTATGGTCAATCATAGGTCG 58.133 43.478 0.00 0.00 32.05 4.79
2143 2583 5.120208 CAGTGTGTCTTGTAAGGGTAAATCG 59.880 44.000 0.00 0.00 0.00 3.34
2192 2635 4.814771 GGTATTTCCTACAGGATTGGAACG 59.185 45.833 0.00 0.00 44.98 3.95
2273 2716 7.945664 TCAGGTATGTTAGTTTTTGGGTTGTAT 59.054 33.333 0.00 0.00 0.00 2.29
2338 2782 2.368655 AATTCCACAATGAAAGGCGC 57.631 45.000 0.00 0.00 0.00 6.53
2422 2866 0.250252 TGCTCATTTCGTGCAGGACA 60.250 50.000 8.96 2.65 39.14 4.02
2831 3275 1.737363 GCTTCTCCTTGCGACTAGTGG 60.737 57.143 0.00 0.00 0.00 4.00
2841 3285 1.592400 CGACTAGTGGAGGCAACCGA 61.592 60.000 0.00 0.00 28.99 4.69
2899 3343 1.408702 GCTCTCTGCTAGGAGTTGGAG 59.591 57.143 11.39 16.12 38.95 3.86
3073 3518 3.172824 GTCACCGAAAGATCTTCGAGAC 58.827 50.000 21.29 21.30 43.97 3.36
3083 3528 6.516739 AAGATCTTCGAGACTGTTCATGTA 57.483 37.500 0.88 0.00 0.00 2.29
3096 3541 9.911788 AGACTGTTCATGTATAAAGATCCAATT 57.088 29.630 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 2.191641 GCCCTCCTCCATGACAGC 59.808 66.667 0.00 0.00 0.00 4.40
8 9 2.692368 GGGCCCTCCTCCATGACA 60.692 66.667 17.04 0.00 0.00 3.58
52 53 4.680237 TCCACAGCGGTCTTGCGG 62.680 66.667 0.00 0.00 40.67 5.69
76 77 4.537751 TCCTTCCTCTATCTCGACATTGT 58.462 43.478 0.00 0.00 0.00 2.71
105 106 0.887933 GGAAAGGAATCCGCTGCAAA 59.112 50.000 0.00 0.00 0.00 3.68
106 107 0.251121 TGGAAAGGAATCCGCTGCAA 60.251 50.000 0.00 0.00 42.76 4.08
107 108 0.251121 TTGGAAAGGAATCCGCTGCA 60.251 50.000 0.00 0.00 42.76 4.41
109 110 4.823989 AGATAATTGGAAAGGAATCCGCTG 59.176 41.667 0.00 0.00 42.76 5.18
110 111 5.053978 AGATAATTGGAAAGGAATCCGCT 57.946 39.130 0.00 0.00 42.76 5.52
111 112 6.183360 CGATAGATAATTGGAAAGGAATCCGC 60.183 42.308 0.00 0.00 39.87 5.54
123 126 2.668457 GAGCGGTGCGATAGATAATTGG 59.332 50.000 0.00 0.00 39.76 3.16
125 128 2.596452 CGAGCGGTGCGATAGATAATT 58.404 47.619 0.00 0.00 39.76 1.40
145 148 7.889589 AGCATTTTTGCTTTATAACAGAACC 57.110 32.000 0.00 0.00 43.52 3.62
155 158 9.624697 CTTTGTATGTCTAGCATTTTTGCTTTA 57.375 29.630 5.72 0.00 43.52 1.85
156 159 8.359642 TCTTTGTATGTCTAGCATTTTTGCTTT 58.640 29.630 5.72 0.00 43.52 3.51
157 160 7.809806 GTCTTTGTATGTCTAGCATTTTTGCTT 59.190 33.333 5.72 0.00 43.52 3.91
159 162 7.308435 AGTCTTTGTATGTCTAGCATTTTTGC 58.692 34.615 5.22 0.00 38.94 3.68
162 165 9.502091 TGTAAGTCTTTGTATGTCTAGCATTTT 57.498 29.630 5.22 0.00 38.94 1.82
163 166 8.936864 GTGTAAGTCTTTGTATGTCTAGCATTT 58.063 33.333 5.22 0.00 38.94 2.32
164 167 7.275779 CGTGTAAGTCTTTGTATGTCTAGCATT 59.724 37.037 5.22 0.00 38.94 3.56
165 168 6.752351 CGTGTAAGTCTTTGTATGTCTAGCAT 59.248 38.462 0.00 5.25 41.42 3.79
166 169 6.090783 CGTGTAAGTCTTTGTATGTCTAGCA 58.909 40.000 0.00 0.00 0.00 3.49
167 170 5.004535 GCGTGTAAGTCTTTGTATGTCTAGC 59.995 44.000 0.00 0.00 0.00 3.42
168 171 6.323266 AGCGTGTAAGTCTTTGTATGTCTAG 58.677 40.000 0.00 0.00 0.00 2.43
169 172 6.263516 AGCGTGTAAGTCTTTGTATGTCTA 57.736 37.500 0.00 0.00 0.00 2.59
170 173 5.135508 AGCGTGTAAGTCTTTGTATGTCT 57.864 39.130 0.00 0.00 0.00 3.41
171 174 5.840940 AAGCGTGTAAGTCTTTGTATGTC 57.159 39.130 0.00 0.00 0.00 3.06
172 175 6.613755 AAAAGCGTGTAAGTCTTTGTATGT 57.386 33.333 0.00 0.00 31.21 2.29
173 176 7.529519 GTGTAAAAGCGTGTAAGTCTTTGTATG 59.470 37.037 0.00 0.00 31.21 2.39
174 177 7.568134 CGTGTAAAAGCGTGTAAGTCTTTGTAT 60.568 37.037 0.00 0.00 31.21 2.29
175 178 6.291743 CGTGTAAAAGCGTGTAAGTCTTTGTA 60.292 38.462 0.00 0.00 31.21 2.41
176 179 5.501252 CGTGTAAAAGCGTGTAAGTCTTTGT 60.501 40.000 0.00 0.00 31.21 2.83
177 180 4.896238 CGTGTAAAAGCGTGTAAGTCTTTG 59.104 41.667 0.00 0.00 31.21 2.77
178 181 4.551410 GCGTGTAAAAGCGTGTAAGTCTTT 60.551 41.667 0.00 0.00 0.00 2.52
179 182 3.060070 GCGTGTAAAAGCGTGTAAGTCTT 60.060 43.478 0.00 0.00 0.00 3.01
180 183 2.473984 GCGTGTAAAAGCGTGTAAGTCT 59.526 45.455 0.00 0.00 0.00 3.24
181 184 2.473984 AGCGTGTAAAAGCGTGTAAGTC 59.526 45.455 0.00 0.00 38.61 3.01
182 185 2.473984 GAGCGTGTAAAAGCGTGTAAGT 59.526 45.455 0.00 0.00 38.61 2.24
183 186 2.159881 GGAGCGTGTAAAAGCGTGTAAG 60.160 50.000 0.00 0.00 38.61 2.34
184 187 1.794116 GGAGCGTGTAAAAGCGTGTAA 59.206 47.619 0.00 0.00 38.61 2.41
185 188 1.000060 AGGAGCGTGTAAAAGCGTGTA 60.000 47.619 0.00 0.00 38.61 2.90
186 189 0.249741 AGGAGCGTGTAAAAGCGTGT 60.250 50.000 0.00 0.00 38.61 4.49
187 190 0.865769 AAGGAGCGTGTAAAAGCGTG 59.134 50.000 0.00 0.00 38.61 5.34
188 191 1.145803 GAAGGAGCGTGTAAAAGCGT 58.854 50.000 0.00 0.00 38.61 5.07
189 192 0.442699 GGAAGGAGCGTGTAAAAGCG 59.557 55.000 0.00 0.00 38.61 4.68
190 193 1.519408 TGGAAGGAGCGTGTAAAAGC 58.481 50.000 0.00 0.00 0.00 3.51
191 194 3.600388 AGATGGAAGGAGCGTGTAAAAG 58.400 45.455 0.00 0.00 0.00 2.27
192 195 3.695830 AGATGGAAGGAGCGTGTAAAA 57.304 42.857 0.00 0.00 0.00 1.52
193 196 4.020928 TGTTAGATGGAAGGAGCGTGTAAA 60.021 41.667 0.00 0.00 0.00 2.01
194 197 3.512329 TGTTAGATGGAAGGAGCGTGTAA 59.488 43.478 0.00 0.00 0.00 2.41
195 198 3.093814 TGTTAGATGGAAGGAGCGTGTA 58.906 45.455 0.00 0.00 0.00 2.90
196 199 1.899814 TGTTAGATGGAAGGAGCGTGT 59.100 47.619 0.00 0.00 0.00 4.49
197 200 2.672961 TGTTAGATGGAAGGAGCGTG 57.327 50.000 0.00 0.00 0.00 5.34
198 201 2.354805 GGTTGTTAGATGGAAGGAGCGT 60.355 50.000 0.00 0.00 0.00 5.07
199 202 2.280628 GGTTGTTAGATGGAAGGAGCG 58.719 52.381 0.00 0.00 0.00 5.03
200 203 3.350219 TGGTTGTTAGATGGAAGGAGC 57.650 47.619 0.00 0.00 0.00 4.70
201 204 5.355350 GTGATTGGTTGTTAGATGGAAGGAG 59.645 44.000 0.00 0.00 0.00 3.69
202 205 5.222027 TGTGATTGGTTGTTAGATGGAAGGA 60.222 40.000 0.00 0.00 0.00 3.36
203 206 5.009631 TGTGATTGGTTGTTAGATGGAAGG 58.990 41.667 0.00 0.00 0.00 3.46
204 207 6.573664 TTGTGATTGGTTGTTAGATGGAAG 57.426 37.500 0.00 0.00 0.00 3.46
205 208 6.968263 TTTGTGATTGGTTGTTAGATGGAA 57.032 33.333 0.00 0.00 0.00 3.53
206 209 6.947733 AGATTTGTGATTGGTTGTTAGATGGA 59.052 34.615 0.00 0.00 0.00 3.41
207 210 7.121759 AGAGATTTGTGATTGGTTGTTAGATGG 59.878 37.037 0.00 0.00 0.00 3.51
208 211 8.048534 AGAGATTTGTGATTGGTTGTTAGATG 57.951 34.615 0.00 0.00 0.00 2.90
209 212 7.337942 GGAGAGATTTGTGATTGGTTGTTAGAT 59.662 37.037 0.00 0.00 0.00 1.98
210 213 6.655003 GGAGAGATTTGTGATTGGTTGTTAGA 59.345 38.462 0.00 0.00 0.00 2.10
211 214 6.127897 GGGAGAGATTTGTGATTGGTTGTTAG 60.128 42.308 0.00 0.00 0.00 2.34
212 215 5.710099 GGGAGAGATTTGTGATTGGTTGTTA 59.290 40.000 0.00 0.00 0.00 2.41
213 216 4.524328 GGGAGAGATTTGTGATTGGTTGTT 59.476 41.667 0.00 0.00 0.00 2.83
214 217 4.082125 GGGAGAGATTTGTGATTGGTTGT 58.918 43.478 0.00 0.00 0.00 3.32
215 218 3.445096 GGGGAGAGATTTGTGATTGGTTG 59.555 47.826 0.00 0.00 0.00 3.77
216 219 3.564352 GGGGGAGAGATTTGTGATTGGTT 60.564 47.826 0.00 0.00 0.00 3.67
217 220 2.024941 GGGGGAGAGATTTGTGATTGGT 60.025 50.000 0.00 0.00 0.00 3.67
218 221 2.659428 GGGGGAGAGATTTGTGATTGG 58.341 52.381 0.00 0.00 0.00 3.16
237 240 4.077184 TAAGCGGTGCGGTCAGGG 62.077 66.667 0.00 0.00 36.27 4.45
238 241 2.813908 GTAAGCGGTGCGGTCAGG 60.814 66.667 0.00 0.00 36.27 3.86
239 242 1.940883 TAGGTAAGCGGTGCGGTCAG 61.941 60.000 0.00 0.00 36.27 3.51
240 243 1.324740 ATAGGTAAGCGGTGCGGTCA 61.325 55.000 0.00 0.00 36.27 4.02
241 244 0.179092 AATAGGTAAGCGGTGCGGTC 60.179 55.000 0.00 0.00 36.27 4.79
242 245 0.461339 CAATAGGTAAGCGGTGCGGT 60.461 55.000 0.00 0.00 40.00 5.68
243 246 0.179094 TCAATAGGTAAGCGGTGCGG 60.179 55.000 0.00 0.00 0.00 5.69
244 247 0.928229 GTCAATAGGTAAGCGGTGCG 59.072 55.000 0.00 0.00 0.00 5.34
245 248 1.296727 GGTCAATAGGTAAGCGGTGC 58.703 55.000 0.00 0.00 0.00 5.01
246 249 2.684001 TGGTCAATAGGTAAGCGGTG 57.316 50.000 0.00 0.00 0.00 4.94
247 250 3.199071 TGATTGGTCAATAGGTAAGCGGT 59.801 43.478 0.00 0.00 0.00 5.68
248 251 3.804036 TGATTGGTCAATAGGTAAGCGG 58.196 45.455 0.00 0.00 0.00 5.52
249 252 4.273480 CCTTGATTGGTCAATAGGTAAGCG 59.727 45.833 0.00 0.00 43.08 4.68
250 253 5.193679 ACCTTGATTGGTCAATAGGTAAGC 58.806 41.667 13.56 0.00 41.59 3.09
251 254 8.674607 GTTAACCTTGATTGGTCAATAGGTAAG 58.325 37.037 14.86 9.11 42.22 2.34
252 255 7.612633 GGTTAACCTTGATTGGTCAATAGGTAA 59.387 37.037 17.83 9.25 42.22 2.85
253 256 7.114095 GGTTAACCTTGATTGGTCAATAGGTA 58.886 38.462 17.83 2.84 42.22 3.08
254 257 5.949952 GGTTAACCTTGATTGGTCAATAGGT 59.050 40.000 17.83 10.70 43.99 3.08
255 258 5.949354 TGGTTAACCTTGATTGGTCAATAGG 59.051 40.000 24.78 9.71 43.08 2.57
256 259 7.201821 GGATGGTTAACCTTGATTGGTCAATAG 60.202 40.741 24.78 0.00 43.08 1.73
257 260 6.605594 GGATGGTTAACCTTGATTGGTCAATA 59.394 38.462 24.78 0.07 43.08 1.90
258 261 5.422012 GGATGGTTAACCTTGATTGGTCAAT 59.578 40.000 24.78 5.84 43.08 2.57
259 262 4.770010 GGATGGTTAACCTTGATTGGTCAA 59.230 41.667 24.78 0.73 41.89 3.18
260 263 4.044065 AGGATGGTTAACCTTGATTGGTCA 59.956 41.667 24.78 1.27 39.83 4.02
261 264 4.399303 CAGGATGGTTAACCTTGATTGGTC 59.601 45.833 24.78 9.78 39.83 4.02
262 265 4.202673 ACAGGATGGTTAACCTTGATTGGT 60.203 41.667 24.78 11.57 43.62 3.67
263 266 4.344104 ACAGGATGGTTAACCTTGATTGG 58.656 43.478 24.78 11.00 43.62 3.16
264 267 7.461182 TTTACAGGATGGTTAACCTTGATTG 57.539 36.000 24.78 17.36 43.62 2.67
265 268 7.728532 ACTTTTACAGGATGGTTAACCTTGATT 59.271 33.333 24.78 8.08 43.62 2.57
266 269 7.176690 CACTTTTACAGGATGGTTAACCTTGAT 59.823 37.037 24.78 10.77 43.62 2.57
267 270 6.488683 CACTTTTACAGGATGGTTAACCTTGA 59.511 38.462 24.78 5.89 43.62 3.02
268 271 6.264518 ACACTTTTACAGGATGGTTAACCTTG 59.735 38.462 24.78 18.27 43.62 3.61
269 272 6.264518 CACACTTTTACAGGATGGTTAACCTT 59.735 38.462 24.78 18.87 43.62 3.50
270 273 5.768164 CACACTTTTACAGGATGGTTAACCT 59.232 40.000 24.78 10.91 43.62 3.50
271 274 5.533528 ACACACTTTTACAGGATGGTTAACC 59.466 40.000 18.27 18.27 43.62 2.85
272 275 6.628919 ACACACTTTTACAGGATGGTTAAC 57.371 37.500 0.00 0.00 43.62 2.01
273 276 8.749026 TTTACACACTTTTACAGGATGGTTAA 57.251 30.769 0.00 0.00 43.62 2.01
274 277 8.927675 ATTTACACACTTTTACAGGATGGTTA 57.072 30.769 0.00 0.00 43.62 2.85
275 278 7.308348 CGATTTACACACTTTTACAGGATGGTT 60.308 37.037 0.00 0.00 43.62 3.67
276 279 6.148811 CGATTTACACACTTTTACAGGATGGT 59.851 38.462 0.00 0.00 43.62 3.55
277 280 6.148811 ACGATTTACACACTTTTACAGGATGG 59.851 38.462 0.00 0.00 43.62 3.51
278 281 7.129109 ACGATTTACACACTTTTACAGGATG 57.871 36.000 0.00 0.00 46.00 3.51
279 282 7.739498 AACGATTTACACACTTTTACAGGAT 57.261 32.000 0.00 0.00 0.00 3.24
280 283 7.066043 ACAAACGATTTACACACTTTTACAGGA 59.934 33.333 0.00 0.00 0.00 3.86
281 284 7.190871 ACAAACGATTTACACACTTTTACAGG 58.809 34.615 0.00 0.00 0.00 4.00
282 285 9.150653 GTACAAACGATTTACACACTTTTACAG 57.849 33.333 0.00 0.00 0.00 2.74
283 286 8.663025 TGTACAAACGATTTACACACTTTTACA 58.337 29.630 0.00 0.00 0.00 2.41
284 287 9.654417 ATGTACAAACGATTTACACACTTTTAC 57.346 29.630 0.00 0.00 0.00 2.01
285 288 9.653067 CATGTACAAACGATTTACACACTTTTA 57.347 29.630 0.00 0.00 0.00 1.52
286 289 8.185505 ACATGTACAAACGATTTACACACTTTT 58.814 29.630 0.00 0.00 0.00 2.27
287 290 7.699566 ACATGTACAAACGATTTACACACTTT 58.300 30.769 0.00 0.00 0.00 2.66
288 291 7.254227 ACATGTACAAACGATTTACACACTT 57.746 32.000 0.00 0.00 0.00 3.16
289 292 6.854496 ACATGTACAAACGATTTACACACT 57.146 33.333 0.00 0.00 0.00 3.55
290 293 6.735063 GCTACATGTACAAACGATTTACACAC 59.265 38.462 0.08 0.00 0.00 3.82
291 294 6.424207 TGCTACATGTACAAACGATTTACACA 59.576 34.615 0.08 0.00 0.00 3.72
292 295 6.823531 TGCTACATGTACAAACGATTTACAC 58.176 36.000 0.08 0.00 0.00 2.90
293 296 7.603963 ATGCTACATGTACAAACGATTTACA 57.396 32.000 0.08 0.00 0.00 2.41
294 297 7.044966 GCAATGCTACATGTACAAACGATTTAC 60.045 37.037 0.08 0.00 0.00 2.01
295 298 6.964370 GCAATGCTACATGTACAAACGATTTA 59.036 34.615 0.08 0.00 0.00 1.40
296 299 5.799936 GCAATGCTACATGTACAAACGATTT 59.200 36.000 0.08 0.00 0.00 2.17
297 300 5.331902 GCAATGCTACATGTACAAACGATT 58.668 37.500 0.08 0.00 0.00 3.34
298 301 4.201910 GGCAATGCTACATGTACAAACGAT 60.202 41.667 4.82 0.00 0.00 3.73
299 302 3.126171 GGCAATGCTACATGTACAAACGA 59.874 43.478 4.82 0.00 0.00 3.85
300 303 3.425404 GGCAATGCTACATGTACAAACG 58.575 45.455 4.82 0.00 0.00 3.60
301 304 3.425404 CGGCAATGCTACATGTACAAAC 58.575 45.455 4.82 0.73 0.00 2.93
302 305 2.421775 CCGGCAATGCTACATGTACAAA 59.578 45.455 4.82 0.00 0.00 2.83
303 306 2.013400 CCGGCAATGCTACATGTACAA 58.987 47.619 4.82 0.00 0.00 2.41
304 307 1.065782 ACCGGCAATGCTACATGTACA 60.066 47.619 4.82 0.00 0.00 2.90
305 308 1.663695 ACCGGCAATGCTACATGTAC 58.336 50.000 4.82 0.16 0.00 2.90
306 309 2.411628 AACCGGCAATGCTACATGTA 57.588 45.000 4.82 5.25 0.00 2.29
307 310 2.411628 TAACCGGCAATGCTACATGT 57.588 45.000 4.82 2.69 0.00 3.21
308 311 5.008613 ACTTTATAACCGGCAATGCTACATG 59.991 40.000 4.82 0.00 0.00 3.21
309 312 5.130350 ACTTTATAACCGGCAATGCTACAT 58.870 37.500 4.82 0.00 0.00 2.29
310 313 4.519213 ACTTTATAACCGGCAATGCTACA 58.481 39.130 4.82 0.00 0.00 2.74
311 314 4.573201 TGACTTTATAACCGGCAATGCTAC 59.427 41.667 4.82 0.00 0.00 3.58
312 315 4.771903 TGACTTTATAACCGGCAATGCTA 58.228 39.130 4.82 0.00 0.00 3.49
313 316 3.616219 TGACTTTATAACCGGCAATGCT 58.384 40.909 4.82 0.00 0.00 3.79
314 317 3.377172 ACTGACTTTATAACCGGCAATGC 59.623 43.478 0.00 0.00 0.00 3.56
315 318 5.277345 GCTACTGACTTTATAACCGGCAATG 60.277 44.000 0.00 0.00 0.00 2.82
316 319 4.814771 GCTACTGACTTTATAACCGGCAAT 59.185 41.667 0.00 0.00 0.00 3.56
317 320 4.186159 GCTACTGACTTTATAACCGGCAA 58.814 43.478 0.00 0.00 0.00 4.52
318 321 3.196039 TGCTACTGACTTTATAACCGGCA 59.804 43.478 0.00 0.00 0.00 5.69
319 322 3.788937 TGCTACTGACTTTATAACCGGC 58.211 45.455 0.00 0.00 0.00 6.13
320 323 4.270325 GCTTGCTACTGACTTTATAACCGG 59.730 45.833 0.00 0.00 0.00 5.28
321 324 5.109903 AGCTTGCTACTGACTTTATAACCG 58.890 41.667 0.00 0.00 0.00 4.44
322 325 6.342111 AGAGCTTGCTACTGACTTTATAACC 58.658 40.000 0.00 0.00 0.00 2.85
323 326 6.477360 GGAGAGCTTGCTACTGACTTTATAAC 59.523 42.308 0.00 0.00 0.00 1.89
373 376 2.430546 TTACAAAGCACCGGCAAATG 57.569 45.000 0.00 0.00 44.61 2.32
379 382 2.997986 ACTAACGATTACAAAGCACCGG 59.002 45.455 0.00 0.00 0.00 5.28
381 384 3.425758 GGCACTAACGATTACAAAGCACC 60.426 47.826 0.00 0.00 0.00 5.01
405 408 9.469807 CAATTGTAGTTGCACTAACCATTTAAA 57.530 29.630 0.00 0.00 40.24 1.52
606 616 0.459063 GGCAGCAAAAGCTATGCACC 60.459 55.000 22.17 18.80 46.22 5.01
650 973 4.557695 CGTAGTCAGTTTTCAGCAGAGACT 60.558 45.833 0.00 0.00 38.33 3.24
701 1026 5.661458 GTTCATTCAAGATCTAACGGAGGA 58.339 41.667 0.00 0.00 0.00 3.71
722 1047 1.299976 GCCCCCTTCATCTGTCGTT 59.700 57.895 0.00 0.00 0.00 3.85
732 1057 2.203625 TGCAACTTGGCCCCCTTC 60.204 61.111 0.00 0.00 0.00 3.46
773 1098 2.111878 GGTGGCTGGGATCGGATG 59.888 66.667 0.00 0.00 0.00 3.51
873 1212 9.255304 GCAAGAGAAGTAAGGAGTAATTGATAG 57.745 37.037 0.00 0.00 0.00 2.08
877 1216 5.586643 GGGCAAGAGAAGTAAGGAGTAATTG 59.413 44.000 0.00 0.00 0.00 2.32
970 1368 4.223923 CCACTCCTACCAAAAGAGATGAGT 59.776 45.833 0.00 0.00 32.38 3.41
974 1372 4.168101 TCACCACTCCTACCAAAAGAGAT 58.832 43.478 0.00 0.00 0.00 2.75
975 1373 3.578716 CTCACCACTCCTACCAAAAGAGA 59.421 47.826 0.00 0.00 0.00 3.10
976 1374 3.866449 GCTCACCACTCCTACCAAAAGAG 60.866 52.174 0.00 0.00 0.00 2.85
978 1376 2.427506 GCTCACCACTCCTACCAAAAG 58.572 52.381 0.00 0.00 0.00 2.27
980 1378 0.320374 CGCTCACCACTCCTACCAAA 59.680 55.000 0.00 0.00 0.00 3.28
1230 1653 2.613595 CTCGTCTGAGAGTGAGATGGAG 59.386 54.545 5.90 0.00 45.57 3.86
1235 1658 2.861147 TTCCTCGTCTGAGAGTGAGA 57.139 50.000 11.94 0.00 45.57 3.27
1236 1659 2.163412 CCTTTCCTCGTCTGAGAGTGAG 59.837 54.545 5.00 5.00 45.57 3.51
1237 1660 2.163509 CCTTTCCTCGTCTGAGAGTGA 58.836 52.381 0.00 0.00 45.57 3.41
1238 1661 2.163509 TCCTTTCCTCGTCTGAGAGTG 58.836 52.381 0.00 0.00 45.57 3.51
1239 1662 2.588464 TCCTTTCCTCGTCTGAGAGT 57.412 50.000 0.00 0.00 45.57 3.24
1240 1663 2.100584 CCATCCTTTCCTCGTCTGAGAG 59.899 54.545 0.00 0.00 45.57 3.20
1336 1761 0.102481 GCGTCCATGTCGTACAGGAT 59.898 55.000 8.80 0.00 30.30 3.24
1341 1766 2.581409 CCGGCGTCCATGTCGTAC 60.581 66.667 6.01 0.00 34.56 3.67
1452 1877 0.179137 TGACGTAGAAGGCATCAGCG 60.179 55.000 0.00 4.84 43.41 5.18
1496 1921 3.087781 AGTACCTCGAAGTTGTAGGGAC 58.912 50.000 7.20 7.20 43.56 4.46
1528 1953 4.023137 CCTGCCATTGGAAGGGTG 57.977 61.111 21.13 0.00 44.92 4.61
1548 1973 0.833287 GCCAGTTCCAGCCTCTCATA 59.167 55.000 0.00 0.00 0.00 2.15
1588 2013 1.002366 CACTCGTCAACATAGGCTGC 58.998 55.000 0.00 0.00 0.00 5.25
1589 2014 1.002366 GCACTCGTCAACATAGGCTG 58.998 55.000 0.00 0.00 0.00 4.85
1590 2015 0.108138 GGCACTCGTCAACATAGGCT 60.108 55.000 0.00 0.00 0.00 4.58
1650 2075 3.069443 GTCCAGAGGAGATGACAAGGATC 59.931 52.174 0.00 0.00 29.39 3.36
1797 2225 7.523293 AAAGTGGTGTTCATCATTGTCAATA 57.477 32.000 0.00 0.00 0.00 1.90
1875 2309 1.202758 TCAAGGTGTGGCCAAGTGTAG 60.203 52.381 7.24 0.00 40.61 2.74
2088 2528 8.579006 TCATCCCATATGCAATTGTAGAATTTC 58.421 33.333 7.40 0.00 28.65 2.17
2143 2583 5.897377 TTATTTGCTCCCTTTTCACTAGC 57.103 39.130 0.00 0.00 0.00 3.42
2192 2635 3.762288 GGAAATTAAGGGGAAGACACACC 59.238 47.826 0.00 0.00 0.00 4.16
2273 2716 7.486407 AGAAAAAGTAACGGAGGGAGTATTA 57.514 36.000 0.00 0.00 0.00 0.98
2371 2815 2.329267 CATACATGCTAGGTGGAGGGA 58.671 52.381 0.00 0.00 0.00 4.20
2417 2861 2.316108 GTGTTTTTCACCCCATGTCCT 58.684 47.619 0.00 0.00 40.84 3.85
2473 2917 3.998672 GCTTCACCGACCGACCCA 61.999 66.667 0.00 0.00 0.00 4.51
2721 3165 0.602905 TCTAGCGCGAGATCCATCGA 60.603 55.000 16.75 0.00 45.56 3.59
2758 3202 1.879380 CACGTGTGGTTGTTGATCCAT 59.121 47.619 7.58 0.00 36.09 3.41
2831 3275 2.022129 CACACTCGTCGGTTGCCTC 61.022 63.158 0.00 0.00 0.00 4.70
3083 3528 7.123247 CCCTGAAGTCAACAATTGGATCTTTAT 59.877 37.037 10.83 0.00 0.00 1.40
3096 3541 1.801242 TCTCACCCCTGAAGTCAACA 58.199 50.000 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.