Multiple sequence alignment - TraesCS5B01G246700

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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 TraesCS5B01G246700 chr5B 100.000 3003 0 0 1 3003 428460602 428463604 0.000000e+00 5546
1 TraesCS5B01G246700 chr5B 95.539 269 12 0 1 269 587110645 587110377 5.950000e-117 431
2 TraesCS5B01G246700 chr5D 92.597 2796 87 46 286 3003 362547008 362549761 0.000000e+00 3906
3 TraesCS5B01G246700 chr5A 91.997 2574 115 39 474 3003 463451515 463454041 0.000000e+00 3528
4 TraesCS5B01G246700 chr5A 94.318 176 9 1 312 486 463449899 463450074 4.930000e-68 268
5 TraesCS5B01G246700 chr1B 96.727 275 9 0 1 275 638773661 638773935 2.730000e-125 459
6 TraesCS5B01G246700 chr1B 96.283 269 10 0 1 269 629100514 629100246 2.750000e-120 442
7 TraesCS5B01G246700 chr1B 93.993 283 17 0 1 283 554014414 554014696 2.140000e-116 429
8 TraesCS5B01G246700 chr6B 96.654 269 9 0 1 269 458003645 458003377 5.910000e-122 448
9 TraesCS5B01G246700 chr6B 96.283 269 9 1 1 269 474199111 474199378 9.880000e-120 440
10 TraesCS5B01G246700 chr4B 96.283 269 10 0 1 269 10429844 10429576 2.750000e-120 442
11 TraesCS5B01G246700 chr4B 87.132 272 29 5 1250 1518 593422869 593423137 1.350000e-78 303
12 TraesCS5B01G246700 chr3B 95.926 270 8 3 1 269 637055667 637055934 4.600000e-118 435
13 TraesCS5B01G246700 chr2B 95.238 273 13 0 1 273 766226915 766226643 1.650000e-117 433
14 TraesCS5B01G246700 chr4A 88.489 278 26 5 1250 1524 678872400 678872674 6.210000e-87 331
15 TraesCS5B01G246700 chr4D 88.129 278 27 5 1250 1524 471961656 471961930 2.890000e-85 326


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 TraesCS5B01G246700 chr5B 428460602 428463604 3002 False 5546 5546 100.0000 1 3003 1 chr5B.!!$F1 3002
1 TraesCS5B01G246700 chr5D 362547008 362549761 2753 False 3906 3906 92.5970 286 3003 1 chr5D.!!$F1 2717
2 TraesCS5B01G246700 chr5A 463449899 463454041 4142 False 1898 3528 93.1575 312 3003 2 chr5A.!!$F1 2691

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
169 170 0.033781 AAACGGACGGAATTCGGACA 59.966 50.0 18.83 0.00 44.45 4.02 F
234 235 0.034863 TTACCCCAAACGGATGGAGC 60.035 55.0 10.06 0.00 43.54 4.70 F
250 251 0.318762 GAGCCGGACATGATAGGGTC 59.681 60.0 5.05 16.56 42.82 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1531 3040 0.666374 GCGGCATAATTTAAGCGGGT 59.334 50.000 11.52 0.00 0.0 5.28 R
1795 3304 2.444895 GTCCCCATCTCCGGAGCT 60.445 66.667 27.39 15.33 0.0 4.09 R
2219 3740 3.970640 ACAAGCAAAAGGGTTTATGGGAA 59.029 39.130 0.00 0.00 34.3 3.97 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 3.622514 CGGGGAGAGAGGGTGAAG 58.377 66.667 0.00 0.00 0.00 3.02
18 19 2.726351 CGGGGAGAGAGGGTGAAGC 61.726 68.421 0.00 0.00 0.00 3.86
19 20 2.726351 GGGGAGAGAGGGTGAAGCG 61.726 68.421 0.00 0.00 0.00 4.68
20 21 1.985116 GGGAGAGAGGGTGAAGCGT 60.985 63.158 0.00 0.00 0.00 5.07
21 22 1.545706 GGGAGAGAGGGTGAAGCGTT 61.546 60.000 0.00 0.00 0.00 4.84
22 23 0.390472 GGAGAGAGGGTGAAGCGTTG 60.390 60.000 0.00 0.00 0.00 4.10
23 24 0.390472 GAGAGAGGGTGAAGCGTTGG 60.390 60.000 0.00 0.00 0.00 3.77
24 25 1.376037 GAGAGGGTGAAGCGTTGGG 60.376 63.158 0.00 0.00 0.00 4.12
25 26 1.827399 GAGAGGGTGAAGCGTTGGGA 61.827 60.000 0.00 0.00 0.00 4.37
26 27 1.376037 GAGGGTGAAGCGTTGGGAG 60.376 63.158 0.00 0.00 0.00 4.30
27 28 3.056328 GGGTGAAGCGTTGGGAGC 61.056 66.667 0.00 0.00 0.00 4.70
28 29 3.423154 GGTGAAGCGTTGGGAGCG 61.423 66.667 0.00 0.00 40.04 5.03
29 30 3.423154 GTGAAGCGTTGGGAGCGG 61.423 66.667 0.00 0.00 40.04 5.52
30 31 3.621805 TGAAGCGTTGGGAGCGGA 61.622 61.111 0.00 0.00 40.04 5.54
31 32 2.815647 GAAGCGTTGGGAGCGGAG 60.816 66.667 0.00 0.00 40.04 4.63
32 33 4.394712 AAGCGTTGGGAGCGGAGG 62.395 66.667 0.00 0.00 40.04 4.30
35 36 4.452733 CGTTGGGAGCGGAGGGAC 62.453 72.222 0.00 0.00 0.00 4.46
37 38 3.003173 TTGGGAGCGGAGGGACTG 61.003 66.667 0.00 0.00 41.55 3.51
49 50 2.893398 GGACTGCTAGTGTCCCCG 59.107 66.667 19.74 0.00 46.01 5.73
50 51 1.681327 GGACTGCTAGTGTCCCCGA 60.681 63.158 19.74 0.00 46.01 5.14
51 52 1.511768 GACTGCTAGTGTCCCCGAC 59.488 63.158 6.72 0.00 0.00 4.79
52 53 1.228769 ACTGCTAGTGTCCCCGACA 60.229 57.895 0.00 0.00 40.50 4.35
53 54 1.251527 ACTGCTAGTGTCCCCGACAG 61.252 60.000 0.00 0.00 43.57 3.51
54 55 1.949847 CTGCTAGTGTCCCCGACAGG 61.950 65.000 0.00 0.00 43.57 4.00
55 56 2.893398 CTAGTGTCCCCGACAGGC 59.107 66.667 0.00 0.00 43.57 4.85
56 57 3.064987 CTAGTGTCCCCGACAGGCG 62.065 68.421 0.00 0.00 43.57 5.52
117 118 2.973600 CGTCCGTTTCGCCCCAAA 60.974 61.111 0.00 0.00 0.00 3.28
118 119 2.640989 GTCCGTTTCGCCCCAAAC 59.359 61.111 0.00 0.00 33.57 2.93
119 120 2.595172 TCCGTTTCGCCCCAAACC 60.595 61.111 0.00 0.00 33.37 3.27
120 121 4.032987 CCGTTTCGCCCCAAACCG 62.033 66.667 0.00 0.00 33.37 4.44
121 122 2.973600 CGTTTCGCCCCAAACCGA 60.974 61.111 0.00 0.00 33.37 4.69
122 123 2.951458 GTTTCGCCCCAAACCGAG 59.049 61.111 0.00 0.00 34.68 4.63
123 124 2.981350 TTTCGCCCCAAACCGAGC 60.981 61.111 0.00 0.00 34.68 5.03
128 129 3.737172 CCCCAAACCGAGCGCAAG 61.737 66.667 11.47 1.89 43.44 4.01
129 130 2.978010 CCCAAACCGAGCGCAAGT 60.978 61.111 11.47 0.00 41.68 3.16
130 131 2.551912 CCCAAACCGAGCGCAAGTT 61.552 57.895 11.47 7.07 41.68 2.66
131 132 1.358759 CCAAACCGAGCGCAAGTTT 59.641 52.632 11.47 13.31 41.68 2.66
132 133 0.934436 CCAAACCGAGCGCAAGTTTG 60.934 55.000 28.51 28.51 46.28 2.93
141 142 4.986708 GCAAGTTTGGGCCGGGGA 62.987 66.667 2.18 0.00 0.00 4.81
142 143 2.037208 CAAGTTTGGGCCGGGGAT 59.963 61.111 2.18 0.00 0.00 3.85
143 144 2.037208 AAGTTTGGGCCGGGGATG 59.963 61.111 2.18 0.00 0.00 3.51
144 145 3.600410 AAGTTTGGGCCGGGGATGG 62.600 63.158 2.18 0.00 0.00 3.51
151 152 4.104183 GCCGGGGATGGGTCGAAA 62.104 66.667 2.18 0.00 0.00 3.46
152 153 2.672295 CCGGGGATGGGTCGAAAA 59.328 61.111 0.00 0.00 0.00 2.29
153 154 1.747745 CCGGGGATGGGTCGAAAAC 60.748 63.158 0.00 0.00 0.00 2.43
154 155 2.104253 CGGGGATGGGTCGAAAACG 61.104 63.158 0.00 0.00 0.00 3.60
155 156 1.747745 GGGGATGGGTCGAAAACGG 60.748 63.158 0.00 0.00 0.00 4.44
156 157 1.297364 GGGATGGGTCGAAAACGGA 59.703 57.895 0.00 0.00 0.00 4.69
157 158 1.022982 GGGATGGGTCGAAAACGGAC 61.023 60.000 0.00 0.00 0.00 4.79
158 159 1.356527 GGATGGGTCGAAAACGGACG 61.357 60.000 0.00 0.00 35.24 4.79
159 160 1.356527 GATGGGTCGAAAACGGACGG 61.357 60.000 0.00 0.00 35.24 4.79
160 161 1.818959 ATGGGTCGAAAACGGACGGA 61.819 55.000 0.00 0.00 35.24 4.69
161 162 1.300853 GGGTCGAAAACGGACGGAA 60.301 57.895 0.00 0.00 35.24 4.30
162 163 0.671472 GGGTCGAAAACGGACGGAAT 60.671 55.000 0.00 0.00 35.24 3.01
163 164 1.150827 GGTCGAAAACGGACGGAATT 58.849 50.000 0.00 0.00 35.24 2.17
164 165 1.127397 GGTCGAAAACGGACGGAATTC 59.873 52.381 0.00 0.00 35.24 2.17
165 166 1.062258 TCGAAAACGGACGGAATTCG 58.938 50.000 16.75 16.75 42.97 3.34
166 167 0.094046 CGAAAACGGACGGAATTCGG 59.906 55.000 11.17 11.17 44.45 4.30
167 168 1.431496 GAAAACGGACGGAATTCGGA 58.569 50.000 18.83 0.00 44.45 4.55
168 169 1.127397 GAAAACGGACGGAATTCGGAC 59.873 52.381 18.83 12.63 44.45 4.79
169 170 0.033781 AAACGGACGGAATTCGGACA 59.966 50.000 18.83 0.00 44.45 4.02
170 171 0.248289 AACGGACGGAATTCGGACAT 59.752 50.000 18.83 3.39 44.45 3.06
171 172 0.248289 ACGGACGGAATTCGGACATT 59.752 50.000 18.83 1.91 44.45 2.71
172 173 1.338389 ACGGACGGAATTCGGACATTT 60.338 47.619 18.83 0.00 44.45 2.32
173 174 1.062002 CGGACGGAATTCGGACATTTG 59.938 52.381 18.83 2.05 44.45 2.32
174 175 2.081462 GGACGGAATTCGGACATTTGT 58.919 47.619 18.83 0.00 44.45 2.83
175 176 2.095372 GGACGGAATTCGGACATTTGTC 59.905 50.000 18.83 1.99 44.45 3.18
186 187 3.537793 GACATTTGTCCGTTTGAGACC 57.462 47.619 0.00 0.00 39.07 3.85
187 188 1.871039 ACATTTGTCCGTTTGAGACCG 59.129 47.619 0.00 0.00 33.09 4.79
188 189 0.872388 ATTTGTCCGTTTGAGACCGC 59.128 50.000 0.00 0.00 33.09 5.68
189 190 1.492319 TTTGTCCGTTTGAGACCGCG 61.492 55.000 0.00 0.00 33.09 6.46
190 191 3.774702 GTCCGTTTGAGACCGCGC 61.775 66.667 0.00 0.00 0.00 6.86
194 195 4.430423 GTTTGAGACCGCGCGCTG 62.430 66.667 30.48 25.90 0.00 5.18
208 209 3.752339 GCTGGGCCGCCTCTTTTG 61.752 66.667 9.86 0.00 0.00 2.44
209 210 2.282462 CTGGGCCGCCTCTTTTGT 60.282 61.111 9.86 0.00 0.00 2.83
210 211 2.282180 TGGGCCGCCTCTTTTGTC 60.282 61.111 9.86 0.00 0.00 3.18
211 212 3.062466 GGGCCGCCTCTTTTGTCC 61.062 66.667 9.86 0.00 0.00 4.02
212 213 3.062466 GGCCGCCTCTTTTGTCCC 61.062 66.667 0.71 0.00 0.00 4.46
213 214 2.034221 GCCGCCTCTTTTGTCCCT 59.966 61.111 0.00 0.00 0.00 4.20
214 215 1.603739 GCCGCCTCTTTTGTCCCTT 60.604 57.895 0.00 0.00 0.00 3.95
215 216 1.179174 GCCGCCTCTTTTGTCCCTTT 61.179 55.000 0.00 0.00 0.00 3.11
216 217 1.328279 CCGCCTCTTTTGTCCCTTTT 58.672 50.000 0.00 0.00 0.00 2.27
217 218 2.510613 CCGCCTCTTTTGTCCCTTTTA 58.489 47.619 0.00 0.00 0.00 1.52
218 219 2.228103 CCGCCTCTTTTGTCCCTTTTAC 59.772 50.000 0.00 0.00 0.00 2.01
219 220 2.228103 CGCCTCTTTTGTCCCTTTTACC 59.772 50.000 0.00 0.00 0.00 2.85
220 221 2.561419 GCCTCTTTTGTCCCTTTTACCC 59.439 50.000 0.00 0.00 0.00 3.69
221 222 3.162666 CCTCTTTTGTCCCTTTTACCCC 58.837 50.000 0.00 0.00 0.00 4.95
222 223 3.437344 CCTCTTTTGTCCCTTTTACCCCA 60.437 47.826 0.00 0.00 0.00 4.96
223 224 4.219919 CTCTTTTGTCCCTTTTACCCCAA 58.780 43.478 0.00 0.00 0.00 4.12
224 225 4.621769 TCTTTTGTCCCTTTTACCCCAAA 58.378 39.130 0.00 0.00 0.00 3.28
225 226 4.406326 TCTTTTGTCCCTTTTACCCCAAAC 59.594 41.667 0.00 0.00 0.00 2.93
226 227 1.984066 TGTCCCTTTTACCCCAAACG 58.016 50.000 0.00 0.00 0.00 3.60
227 228 1.250328 GTCCCTTTTACCCCAAACGG 58.750 55.000 0.00 0.00 35.72 4.44
228 229 1.147333 TCCCTTTTACCCCAAACGGA 58.853 50.000 0.00 0.00 37.67 4.69
229 230 1.711942 TCCCTTTTACCCCAAACGGAT 59.288 47.619 0.00 0.00 37.67 4.18
230 231 1.822371 CCCTTTTACCCCAAACGGATG 59.178 52.381 0.00 0.00 37.67 3.51
231 232 1.822371 CCTTTTACCCCAAACGGATGG 59.178 52.381 1.96 1.96 37.67 3.51
232 233 2.555670 CCTTTTACCCCAAACGGATGGA 60.556 50.000 10.06 0.00 43.54 3.41
233 234 2.500392 TTTACCCCAAACGGATGGAG 57.500 50.000 10.06 0.00 43.54 3.86
234 235 0.034863 TTACCCCAAACGGATGGAGC 60.035 55.000 10.06 0.00 43.54 4.70
235 236 1.917336 TACCCCAAACGGATGGAGCC 61.917 60.000 10.06 0.00 43.54 4.70
243 244 3.230284 GGATGGAGCCGGACATGA 58.770 61.111 5.05 0.00 0.00 3.07
244 245 1.757306 GGATGGAGCCGGACATGAT 59.243 57.895 5.05 0.00 0.00 2.45
245 246 0.976641 GGATGGAGCCGGACATGATA 59.023 55.000 5.05 0.00 0.00 2.15
246 247 1.066573 GGATGGAGCCGGACATGATAG 60.067 57.143 5.05 0.00 0.00 2.08
247 248 0.979665 ATGGAGCCGGACATGATAGG 59.020 55.000 5.05 0.00 0.00 2.57
248 249 1.121407 TGGAGCCGGACATGATAGGG 61.121 60.000 5.05 0.00 0.00 3.53
249 250 1.122019 GGAGCCGGACATGATAGGGT 61.122 60.000 5.05 4.51 37.17 4.34
250 251 0.318762 GAGCCGGACATGATAGGGTC 59.681 60.000 5.05 16.56 42.82 4.46
251 252 1.006102 GCCGGACATGATAGGGTCG 60.006 63.158 5.05 0.00 34.87 4.79
252 253 1.006102 CCGGACATGATAGGGTCGC 60.006 63.158 0.00 0.00 34.87 5.19
253 254 1.371758 CGGACATGATAGGGTCGCG 60.372 63.158 0.00 0.00 34.87 5.87
254 255 1.664965 GGACATGATAGGGTCGCGC 60.665 63.158 0.00 0.00 34.87 6.86
255 256 2.016704 GACATGATAGGGTCGCGCG 61.017 63.158 26.76 26.76 0.00 6.86
256 257 2.734723 CATGATAGGGTCGCGCGG 60.735 66.667 31.69 11.75 0.00 6.46
257 258 3.224324 ATGATAGGGTCGCGCGGT 61.224 61.111 31.69 14.72 0.00 5.68
258 259 3.499929 ATGATAGGGTCGCGCGGTG 62.500 63.158 31.69 1.17 0.00 4.94
259 260 4.944372 GATAGGGTCGCGCGGTGG 62.944 72.222 31.69 0.71 0.00 4.61
270 271 4.329545 GCGGTGGAGTTGGCCTGA 62.330 66.667 3.32 0.00 0.00 3.86
271 272 2.671070 CGGTGGAGTTGGCCTGAT 59.329 61.111 3.32 0.00 0.00 2.90
272 273 1.746615 CGGTGGAGTTGGCCTGATG 60.747 63.158 3.32 0.00 0.00 3.07
273 274 1.380302 GGTGGAGTTGGCCTGATGT 59.620 57.895 3.32 0.00 0.00 3.06
274 275 0.678048 GGTGGAGTTGGCCTGATGTC 60.678 60.000 3.32 0.00 0.00 3.06
275 276 0.326264 GTGGAGTTGGCCTGATGTCT 59.674 55.000 3.32 0.00 0.00 3.41
276 277 1.555075 GTGGAGTTGGCCTGATGTCTA 59.445 52.381 3.32 0.00 0.00 2.59
277 278 2.171448 GTGGAGTTGGCCTGATGTCTAT 59.829 50.000 3.32 0.00 0.00 1.98
278 279 2.846206 TGGAGTTGGCCTGATGTCTATT 59.154 45.455 3.32 0.00 0.00 1.73
279 280 3.266772 TGGAGTTGGCCTGATGTCTATTT 59.733 43.478 3.32 0.00 0.00 1.40
280 281 4.263905 TGGAGTTGGCCTGATGTCTATTTT 60.264 41.667 3.32 0.00 0.00 1.82
281 282 4.096984 GGAGTTGGCCTGATGTCTATTTTG 59.903 45.833 3.32 0.00 0.00 2.44
282 283 4.019174 AGTTGGCCTGATGTCTATTTTGG 58.981 43.478 3.32 0.00 0.00 3.28
283 284 3.017048 TGGCCTGATGTCTATTTTGGG 57.983 47.619 3.32 0.00 0.00 4.12
284 285 2.310538 GGCCTGATGTCTATTTTGGGG 58.689 52.381 0.00 0.00 0.00 4.96
291 292 5.398236 TGATGTCTATTTTGGGGGTGAAAA 58.602 37.500 0.00 0.00 0.00 2.29
354 358 7.322222 GCGCAAAGAATAGTAAGATGCTAATTG 59.678 37.037 0.30 0.00 0.00 2.32
468 473 1.703438 GCAGCAGCTCTGAACCGATG 61.703 60.000 14.86 0.00 45.72 3.84
472 477 1.638133 CAGCTCTGAACCGATGAGTG 58.362 55.000 0.00 0.00 0.00 3.51
553 2011 4.007644 CAGCTCCTGACCGCACCA 62.008 66.667 0.00 0.00 32.44 4.17
554 2012 4.008933 AGCTCCTGACCGCACCAC 62.009 66.667 0.00 0.00 0.00 4.16
582 2040 3.823330 CTAACCCGAGCGCCGAGT 61.823 66.667 17.96 9.42 41.76 4.18
671 2136 1.077357 ACGCAGTGTTGGGGAAACA 60.077 52.632 0.00 0.00 46.66 2.83
768 2239 3.258872 TCTTGGATCGTAAGGAAACGGAA 59.741 43.478 8.07 0.00 43.05 4.30
774 2249 6.044682 GGATCGTAAGGAAACGGAAGAAATA 58.955 40.000 0.00 0.00 43.05 1.40
839 2317 3.885521 GGCCGAGACGAGGGTACG 61.886 72.222 0.00 0.00 39.31 3.67
846 2324 2.203538 ACGAGGGTACGTGGTGGT 60.204 61.111 0.00 0.00 44.84 4.16
859 2337 1.227263 GGTGGTCGTCATGGATCGG 60.227 63.158 0.00 0.00 0.00 4.18
1067 2551 1.554160 CAGCCCCAATGGTAAATTGCA 59.446 47.619 0.00 0.00 36.04 4.08
1081 2587 4.694760 AAATTGCAAGCCCTCTTTCTTT 57.305 36.364 4.94 0.00 0.00 2.52
1116 2622 2.036387 TCGTTCTGTTGAGGTGAAGGA 58.964 47.619 0.00 0.00 33.90 3.36
1128 2634 1.439679 GTGAAGGACGCGGAAATCTT 58.560 50.000 12.47 6.22 0.00 2.40
1140 2646 4.438336 CGCGGAAATCTTAGTCTCTGTGTA 60.438 45.833 0.00 0.00 0.00 2.90
1188 2694 3.234730 GTCGGGATGGAGGCGGAT 61.235 66.667 0.00 0.00 0.00 4.18
1500 3009 4.735132 CTCCGCCGCGACAAGGAA 62.735 66.667 15.93 0.00 31.67 3.36
1545 3054 2.612212 CGCTCACACCCGCTTAAATTAT 59.388 45.455 0.00 0.00 0.00 1.28
1548 3057 2.685897 TCACACCCGCTTAAATTATGCC 59.314 45.455 5.47 0.00 0.00 4.40
1568 3077 2.787680 CCGCTGCTTAGTATTGTACGTC 59.212 50.000 0.00 0.00 0.00 4.34
1645 3154 3.327404 GGGAAGCTGGGGGACGAA 61.327 66.667 0.00 0.00 0.00 3.85
1738 3247 1.226717 GTCATCCGACAGCGACTCC 60.227 63.158 0.00 0.00 42.13 3.85
1795 3304 4.020617 CCAACAGAGGAGGCGCCA 62.021 66.667 31.54 0.00 40.02 5.69
2139 3654 2.359975 CCTGTCAAACCCTCGCCC 60.360 66.667 0.00 0.00 0.00 6.13
2219 3740 6.918626 GCTCTTTCAGCTATTTCCTTTTTCT 58.081 36.000 0.00 0.00 45.83 2.52
2234 3755 6.147473 TCCTTTTTCTTCCCATAAACCCTTT 58.853 36.000 0.00 0.00 0.00 3.11
2235 3756 6.617784 TCCTTTTTCTTCCCATAAACCCTTTT 59.382 34.615 0.00 0.00 0.00 2.27
2238 3759 4.126520 TCTTCCCATAAACCCTTTTGCT 57.873 40.909 0.00 0.00 0.00 3.91
2240 3761 4.283212 TCTTCCCATAAACCCTTTTGCTTG 59.717 41.667 0.00 0.00 0.00 4.01
2281 3810 6.260050 TGTTAAGCTGGACTCAAGTGTAAAAG 59.740 38.462 0.00 0.00 0.00 2.27
2284 3813 2.480419 CTGGACTCAAGTGTAAAAGGCG 59.520 50.000 0.00 0.00 0.00 5.52
2288 3817 0.948678 TCAAGTGTAAAAGGCGCCAC 59.051 50.000 31.54 18.84 0.00 5.01
2289 3818 0.385473 CAAGTGTAAAAGGCGCCACG 60.385 55.000 31.54 0.78 33.14 4.94
2339 3868 1.181741 TGGAGCGAGCAGTGAAGAGT 61.182 55.000 0.00 0.00 0.00 3.24
2450 3980 2.070039 CCTCCCATTGACCGGGCTA 61.070 63.158 9.82 0.00 44.11 3.93
2476 4006 0.524180 GCTTTAGCGCTTGATGGCAC 60.524 55.000 18.68 0.00 0.00 5.01
2477 4007 0.247814 CTTTAGCGCTTGATGGCACG 60.248 55.000 18.68 0.00 0.00 5.34
2722 4268 1.215382 CCGTCGAACCTGATGCAGA 59.785 57.895 0.00 0.00 32.44 4.26
2725 4271 1.132453 CGTCGAACCTGATGCAGAGTA 59.868 52.381 0.00 0.00 32.44 2.59
2735 4281 2.202810 GCAGAGTAGTGCTCCGGC 60.203 66.667 4.42 5.73 45.21 6.13
2736 4282 2.496817 CAGAGTAGTGCTCCGGCC 59.503 66.667 4.42 0.00 45.21 6.13
2737 4283 2.055042 CAGAGTAGTGCTCCGGCCT 61.055 63.158 4.42 0.00 45.21 5.19
2777 4323 5.491070 ACAAAGAAATCATGTGGAGATCGA 58.509 37.500 0.00 0.00 0.00 3.59
2939 4491 1.807886 GGCACGTACTCGATCCAGT 59.192 57.895 0.00 0.00 40.62 4.00
2963 4515 1.914764 TAGACCGTGGTGGGGGAAC 60.915 63.158 0.00 0.00 44.64 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.726351 GCTTCACCCTCTCTCCCCG 61.726 68.421 0.00 0.00 0.00 5.73
1 2 2.726351 CGCTTCACCCTCTCTCCCC 61.726 68.421 0.00 0.00 0.00 4.81
2 3 1.545706 AACGCTTCACCCTCTCTCCC 61.546 60.000 0.00 0.00 0.00 4.30
3 4 0.390472 CAACGCTTCACCCTCTCTCC 60.390 60.000 0.00 0.00 0.00 3.71
4 5 0.390472 CCAACGCTTCACCCTCTCTC 60.390 60.000 0.00 0.00 0.00 3.20
5 6 1.674057 CCAACGCTTCACCCTCTCT 59.326 57.895 0.00 0.00 0.00 3.10
6 7 1.376037 CCCAACGCTTCACCCTCTC 60.376 63.158 0.00 0.00 0.00 3.20
7 8 1.831652 CTCCCAACGCTTCACCCTCT 61.832 60.000 0.00 0.00 0.00 3.69
8 9 1.376037 CTCCCAACGCTTCACCCTC 60.376 63.158 0.00 0.00 0.00 4.30
9 10 2.750350 CTCCCAACGCTTCACCCT 59.250 61.111 0.00 0.00 0.00 4.34
10 11 3.056328 GCTCCCAACGCTTCACCC 61.056 66.667 0.00 0.00 0.00 4.61
11 12 3.423154 CGCTCCCAACGCTTCACC 61.423 66.667 0.00 0.00 0.00 4.02
12 13 3.423154 CCGCTCCCAACGCTTCAC 61.423 66.667 0.00 0.00 0.00 3.18
13 14 3.589654 CTCCGCTCCCAACGCTTCA 62.590 63.158 0.00 0.00 0.00 3.02
14 15 2.815647 CTCCGCTCCCAACGCTTC 60.816 66.667 0.00 0.00 0.00 3.86
15 16 4.394712 CCTCCGCTCCCAACGCTT 62.395 66.667 0.00 0.00 0.00 4.68
18 19 4.452733 GTCCCTCCGCTCCCAACG 62.453 72.222 0.00 0.00 0.00 4.10
19 20 3.003763 AGTCCCTCCGCTCCCAAC 61.004 66.667 0.00 0.00 0.00 3.77
20 21 3.003173 CAGTCCCTCCGCTCCCAA 61.003 66.667 0.00 0.00 0.00 4.12
23 24 2.442272 TAGCAGTCCCTCCGCTCC 60.442 66.667 0.00 0.00 37.20 4.70
24 25 1.755008 ACTAGCAGTCCCTCCGCTC 60.755 63.158 0.00 0.00 37.20 5.03
25 26 2.055042 CACTAGCAGTCCCTCCGCT 61.055 63.158 0.00 0.00 39.80 5.52
26 27 2.286127 GACACTAGCAGTCCCTCCGC 62.286 65.000 4.92 0.00 0.00 5.54
27 28 1.810532 GACACTAGCAGTCCCTCCG 59.189 63.158 4.92 0.00 0.00 4.63
33 34 1.248785 TGTCGGGGACACTAGCAGTC 61.249 60.000 7.26 7.26 37.67 3.51
34 35 1.228769 TGTCGGGGACACTAGCAGT 60.229 57.895 0.00 0.00 37.67 4.40
35 36 1.513158 CTGTCGGGGACACTAGCAG 59.487 63.158 0.00 0.00 37.67 4.24
36 37 1.982395 CCTGTCGGGGACACTAGCA 60.982 63.158 0.00 0.00 37.67 3.49
37 38 2.893398 CCTGTCGGGGACACTAGC 59.107 66.667 0.00 0.00 37.67 3.42
38 39 2.893398 GCCTGTCGGGGACACTAG 59.107 66.667 0.00 0.00 37.67 2.57
39 40 3.066190 CGCCTGTCGGGGACACTA 61.066 66.667 0.00 0.00 45.63 2.74
100 101 2.973600 TTTGGGGCGAAACGGACG 60.974 61.111 0.00 0.00 0.00 4.79
101 102 2.640989 GTTTGGGGCGAAACGGAC 59.359 61.111 0.00 0.00 0.00 4.79
102 103 2.595172 GGTTTGGGGCGAAACGGA 60.595 61.111 0.00 0.00 36.80 4.69
103 104 4.032987 CGGTTTGGGGCGAAACGG 62.033 66.667 0.00 4.86 34.65 4.44
104 105 2.961669 CTCGGTTTGGGGCGAAACG 61.962 63.158 0.00 0.00 39.08 3.60
105 106 2.951458 CTCGGTTTGGGGCGAAAC 59.049 61.111 0.00 2.92 35.45 2.78
106 107 2.981350 GCTCGGTTTGGGGCGAAA 60.981 61.111 0.00 0.00 0.00 3.46
111 112 3.737172 CTTGCGCTCGGTTTGGGG 61.737 66.667 9.73 0.00 0.00 4.96
112 113 2.070654 AAACTTGCGCTCGGTTTGGG 62.071 55.000 19.08 0.36 32.84 4.12
113 114 0.934436 CAAACTTGCGCTCGGTTTGG 60.934 55.000 28.14 17.85 43.19 3.28
114 115 0.934436 CCAAACTTGCGCTCGGTTTG 60.934 55.000 28.50 28.50 45.14 2.93
115 116 1.358759 CCAAACTTGCGCTCGGTTT 59.641 52.632 9.73 13.79 34.10 3.27
116 117 2.551912 CCCAAACTTGCGCTCGGTT 61.552 57.895 9.73 8.16 0.00 4.44
117 118 2.978010 CCCAAACTTGCGCTCGGT 60.978 61.111 9.73 1.34 0.00 4.69
118 119 4.404654 GCCCAAACTTGCGCTCGG 62.405 66.667 9.73 0.61 0.00 4.63
119 120 4.404654 GGCCCAAACTTGCGCTCG 62.405 66.667 9.73 1.27 32.76 5.03
120 121 4.404654 CGGCCCAAACTTGCGCTC 62.405 66.667 9.73 0.00 32.76 5.03
124 125 4.986708 TCCCCGGCCCAAACTTGC 62.987 66.667 0.00 0.00 0.00 4.01
125 126 2.037208 ATCCCCGGCCCAAACTTG 59.963 61.111 0.00 0.00 0.00 3.16
126 127 2.037208 CATCCCCGGCCCAAACTT 59.963 61.111 0.00 0.00 0.00 2.66
127 128 4.060667 CCATCCCCGGCCCAAACT 62.061 66.667 0.00 0.00 0.00 2.66
134 135 3.631952 TTTTCGACCCATCCCCGGC 62.632 63.158 0.00 0.00 0.00 6.13
135 136 1.747745 GTTTTCGACCCATCCCCGG 60.748 63.158 0.00 0.00 0.00 5.73
136 137 3.899395 GTTTTCGACCCATCCCCG 58.101 61.111 0.00 0.00 0.00 5.73
145 146 4.345465 CCGAATTCCGTCCGTTTTCGAC 62.345 54.545 13.67 0.00 41.09 4.20
146 147 2.260550 CCGAATTCCGTCCGTTTTCGA 61.261 52.381 13.67 0.00 41.09 3.71
147 148 0.094046 CCGAATTCCGTCCGTTTTCG 59.906 55.000 0.00 0.00 39.00 3.46
148 149 1.127397 GTCCGAATTCCGTCCGTTTTC 59.873 52.381 0.00 0.00 36.31 2.29
149 150 1.150827 GTCCGAATTCCGTCCGTTTT 58.849 50.000 0.00 0.00 36.31 2.43
150 151 0.033781 TGTCCGAATTCCGTCCGTTT 59.966 50.000 0.00 0.00 36.31 3.60
151 152 0.248289 ATGTCCGAATTCCGTCCGTT 59.752 50.000 0.00 0.00 36.31 4.44
152 153 0.248289 AATGTCCGAATTCCGTCCGT 59.752 50.000 0.00 0.00 36.31 4.69
153 154 1.062002 CAAATGTCCGAATTCCGTCCG 59.938 52.381 0.00 0.00 36.31 4.79
154 155 2.081462 ACAAATGTCCGAATTCCGTCC 58.919 47.619 0.00 0.00 36.31 4.79
155 156 3.385079 GACAAATGTCCGAATTCCGTC 57.615 47.619 2.04 0.00 39.07 4.79
166 167 2.096417 CGGTCTCAAACGGACAAATGTC 60.096 50.000 4.96 4.96 44.04 3.06
167 168 1.871039 CGGTCTCAAACGGACAAATGT 59.129 47.619 0.00 0.00 35.61 2.71
168 169 1.399727 GCGGTCTCAAACGGACAAATG 60.400 52.381 0.00 0.00 35.61 2.32
169 170 0.872388 GCGGTCTCAAACGGACAAAT 59.128 50.000 0.00 0.00 35.61 2.32
170 171 1.492319 CGCGGTCTCAAACGGACAAA 61.492 55.000 0.00 0.00 35.61 2.83
171 172 1.952133 CGCGGTCTCAAACGGACAA 60.952 57.895 0.00 0.00 35.61 3.18
172 173 2.355363 CGCGGTCTCAAACGGACA 60.355 61.111 0.00 0.00 35.61 4.02
173 174 3.774702 GCGCGGTCTCAAACGGAC 61.775 66.667 8.83 0.00 0.00 4.79
177 178 4.430423 CAGCGCGCGGTCTCAAAC 62.430 66.667 33.80 11.99 0.00 2.93
191 192 3.752339 CAAAAGAGGCGGCCCAGC 61.752 66.667 17.02 5.66 0.00 4.85
192 193 2.282462 ACAAAAGAGGCGGCCCAG 60.282 61.111 17.02 1.90 0.00 4.45
193 194 2.282180 GACAAAAGAGGCGGCCCA 60.282 61.111 17.02 0.00 0.00 5.36
194 195 3.062466 GGACAAAAGAGGCGGCCC 61.062 66.667 17.02 7.43 0.00 5.80
195 196 3.062466 GGGACAAAAGAGGCGGCC 61.062 66.667 12.11 12.11 0.00 6.13
196 197 1.179174 AAAGGGACAAAAGAGGCGGC 61.179 55.000 0.00 0.00 0.00 6.53
197 198 1.328279 AAAAGGGACAAAAGAGGCGG 58.672 50.000 0.00 0.00 0.00 6.13
198 199 2.228103 GGTAAAAGGGACAAAAGAGGCG 59.772 50.000 0.00 0.00 0.00 5.52
199 200 2.561419 GGGTAAAAGGGACAAAAGAGGC 59.439 50.000 0.00 0.00 0.00 4.70
200 201 3.162666 GGGGTAAAAGGGACAAAAGAGG 58.837 50.000 0.00 0.00 0.00 3.69
201 202 3.839778 TGGGGTAAAAGGGACAAAAGAG 58.160 45.455 0.00 0.00 0.00 2.85
202 203 3.975479 TGGGGTAAAAGGGACAAAAGA 57.025 42.857 0.00 0.00 0.00 2.52
203 204 4.699637 GTTTGGGGTAAAAGGGACAAAAG 58.300 43.478 0.00 0.00 30.73 2.27
204 205 3.132467 CGTTTGGGGTAAAAGGGACAAAA 59.868 43.478 0.00 0.00 30.73 2.44
205 206 2.694109 CGTTTGGGGTAAAAGGGACAAA 59.306 45.455 0.00 0.00 0.00 2.83
206 207 2.308690 CGTTTGGGGTAAAAGGGACAA 58.691 47.619 0.00 0.00 0.00 3.18
207 208 1.479021 CCGTTTGGGGTAAAAGGGACA 60.479 52.381 2.96 0.00 44.29 4.02
208 209 1.202915 TCCGTTTGGGGTAAAAGGGAC 60.203 52.381 6.93 0.00 44.84 4.46
209 210 1.147333 TCCGTTTGGGGTAAAAGGGA 58.853 50.000 6.93 6.93 46.53 4.20
210 211 1.822371 CATCCGTTTGGGGTAAAAGGG 59.178 52.381 0.00 2.72 44.83 3.95
211 212 1.822371 CCATCCGTTTGGGGTAAAAGG 59.178 52.381 0.00 0.00 45.73 3.11
212 213 2.752903 CTCCATCCGTTTGGGGTAAAAG 59.247 50.000 1.44 0.00 37.37 2.27
213 214 2.797786 CTCCATCCGTTTGGGGTAAAA 58.202 47.619 1.44 0.00 37.37 1.52
214 215 1.614850 GCTCCATCCGTTTGGGGTAAA 60.615 52.381 3.00 0.00 39.64 2.01
215 216 0.034863 GCTCCATCCGTTTGGGGTAA 60.035 55.000 3.00 0.00 39.64 2.85
216 217 1.605453 GCTCCATCCGTTTGGGGTA 59.395 57.895 3.00 0.00 39.64 3.69
217 218 2.355115 GCTCCATCCGTTTGGGGT 59.645 61.111 3.00 0.00 39.64 4.95
218 219 2.440247 GGCTCCATCCGTTTGGGG 60.440 66.667 1.44 0.00 40.51 4.96
219 220 2.824041 CGGCTCCATCCGTTTGGG 60.824 66.667 1.44 0.00 44.18 4.12
226 227 0.976641 TATCATGTCCGGCTCCATCC 59.023 55.000 0.00 0.00 0.00 3.51
227 228 1.066573 CCTATCATGTCCGGCTCCATC 60.067 57.143 0.00 0.00 0.00 3.51
228 229 0.979665 CCTATCATGTCCGGCTCCAT 59.020 55.000 0.00 0.00 0.00 3.41
229 230 1.121407 CCCTATCATGTCCGGCTCCA 61.121 60.000 0.00 0.00 0.00 3.86
230 231 1.122019 ACCCTATCATGTCCGGCTCC 61.122 60.000 0.00 0.00 0.00 4.70
231 232 0.318762 GACCCTATCATGTCCGGCTC 59.681 60.000 0.00 0.00 0.00 4.70
232 233 1.464376 CGACCCTATCATGTCCGGCT 61.464 60.000 0.00 0.00 0.00 5.52
233 234 1.006102 CGACCCTATCATGTCCGGC 60.006 63.158 0.00 0.00 0.00 6.13
234 235 1.006102 GCGACCCTATCATGTCCGG 60.006 63.158 0.00 0.00 0.00 5.14
235 236 1.371758 CGCGACCCTATCATGTCCG 60.372 63.158 0.00 0.00 0.00 4.79
236 237 1.664965 GCGCGACCCTATCATGTCC 60.665 63.158 12.10 0.00 0.00 4.02
237 238 2.016704 CGCGCGACCCTATCATGTC 61.017 63.158 28.94 0.00 0.00 3.06
238 239 2.027605 CGCGCGACCCTATCATGT 59.972 61.111 28.94 0.00 0.00 3.21
239 240 2.734723 CCGCGCGACCCTATCATG 60.735 66.667 34.63 6.11 0.00 3.07
240 241 3.224324 ACCGCGCGACCCTATCAT 61.224 61.111 34.63 1.32 0.00 2.45
241 242 4.201679 CACCGCGCGACCCTATCA 62.202 66.667 34.63 0.00 0.00 2.15
242 243 4.944372 CCACCGCGCGACCCTATC 62.944 72.222 34.63 0.00 0.00 2.08
253 254 3.628646 ATCAGGCCAACTCCACCGC 62.629 63.158 5.01 0.00 0.00 5.68
254 255 1.746615 CATCAGGCCAACTCCACCG 60.747 63.158 5.01 0.00 0.00 4.94
255 256 0.678048 GACATCAGGCCAACTCCACC 60.678 60.000 5.01 0.00 0.00 4.61
256 257 0.326264 AGACATCAGGCCAACTCCAC 59.674 55.000 5.01 0.00 0.00 4.02
257 258 1.951209 TAGACATCAGGCCAACTCCA 58.049 50.000 5.01 0.00 0.00 3.86
258 259 3.567478 AATAGACATCAGGCCAACTCC 57.433 47.619 5.01 0.00 0.00 3.85
259 260 4.096984 CCAAAATAGACATCAGGCCAACTC 59.903 45.833 5.01 0.00 0.00 3.01
260 261 4.019174 CCAAAATAGACATCAGGCCAACT 58.981 43.478 5.01 0.00 0.00 3.16
261 262 3.131046 CCCAAAATAGACATCAGGCCAAC 59.869 47.826 5.01 0.00 0.00 3.77
262 263 3.364549 CCCAAAATAGACATCAGGCCAA 58.635 45.455 5.01 0.00 0.00 4.52
263 264 2.358090 CCCCAAAATAGACATCAGGCCA 60.358 50.000 5.01 0.00 0.00 5.36
264 265 2.310538 CCCCAAAATAGACATCAGGCC 58.689 52.381 0.00 0.00 0.00 5.19
265 266 2.310538 CCCCCAAAATAGACATCAGGC 58.689 52.381 0.00 0.00 0.00 4.85
266 267 3.053693 TCACCCCCAAAATAGACATCAGG 60.054 47.826 0.00 0.00 0.00 3.86
267 268 4.235079 TCACCCCCAAAATAGACATCAG 57.765 45.455 0.00 0.00 0.00 2.90
268 269 4.666412 TTCACCCCCAAAATAGACATCA 57.334 40.909 0.00 0.00 0.00 3.07
269 270 5.993748 TTTTCACCCCCAAAATAGACATC 57.006 39.130 0.00 0.00 0.00 3.06
270 271 6.730507 AGAATTTTCACCCCCAAAATAGACAT 59.269 34.615 0.00 0.00 33.24 3.06
271 272 6.081356 AGAATTTTCACCCCCAAAATAGACA 58.919 36.000 0.00 0.00 33.24 3.41
272 273 6.605471 AGAATTTTCACCCCCAAAATAGAC 57.395 37.500 0.00 0.00 33.24 2.59
273 274 7.475299 ACTAGAATTTTCACCCCCAAAATAGA 58.525 34.615 0.00 0.00 33.24 1.98
274 275 7.718334 ACTAGAATTTTCACCCCCAAAATAG 57.282 36.000 0.00 0.00 33.24 1.73
275 276 8.499288 AAACTAGAATTTTCACCCCCAAAATA 57.501 30.769 0.00 0.00 33.24 1.40
276 277 7.387265 AAACTAGAATTTTCACCCCCAAAAT 57.613 32.000 0.00 0.00 35.40 1.82
277 278 6.816616 AAACTAGAATTTTCACCCCCAAAA 57.183 33.333 0.00 0.00 0.00 2.44
278 279 6.816616 AAAACTAGAATTTTCACCCCCAAA 57.183 33.333 0.00 0.00 0.00 3.28
279 280 6.816616 AAAAACTAGAATTTTCACCCCCAA 57.183 33.333 0.00 0.00 31.35 4.12
305 306 5.648960 GCACTAGAACTTCCACTACTAGACT 59.351 44.000 0.00 0.00 35.80 3.24
306 307 5.447548 CGCACTAGAACTTCCACTACTAGAC 60.448 48.000 0.00 0.00 35.80 2.59
307 308 4.634883 CGCACTAGAACTTCCACTACTAGA 59.365 45.833 0.00 0.00 35.80 2.43
308 309 4.731193 GCGCACTAGAACTTCCACTACTAG 60.731 50.000 0.30 0.00 37.25 2.57
354 358 3.430895 CAGTTCATGCTTCACAATTTGGC 59.569 43.478 0.78 0.00 0.00 4.52
455 460 2.370281 TTCACTCATCGGTTCAGAGC 57.630 50.000 0.00 0.00 32.71 4.09
468 473 2.282820 CCTAGCGCGATCTTTTTCACTC 59.717 50.000 12.10 0.00 0.00 3.51
472 477 0.305009 GCCCTAGCGCGATCTTTTTC 59.695 55.000 12.10 0.00 0.00 2.29
671 2136 3.588210 TCTTTTCCGGGTTTCCTTTCT 57.412 42.857 0.00 0.00 0.00 2.52
734 2199 3.194542 ACGATCCAAGAAAGAGTGAGGAG 59.805 47.826 0.00 0.00 0.00 3.69
768 2239 2.394708 CACGATCGCGGATGTATTTCT 58.605 47.619 16.60 0.00 43.17 2.52
774 2249 2.413351 CTCCACGATCGCGGATGT 59.587 61.111 24.17 0.00 43.17 3.06
825 2303 2.037136 ACCACGTACCCTCGTCTCG 61.037 63.158 0.00 0.00 42.27 4.04
839 2317 0.806102 CGATCCATGACGACCACCAC 60.806 60.000 0.00 0.00 0.00 4.16
846 2324 3.911698 CGCCCCGATCCATGACGA 61.912 66.667 0.00 0.00 0.00 4.20
901 2379 3.391382 CGGGAGAAAGGGCTCGGT 61.391 66.667 0.00 0.00 35.74 4.69
902 2380 4.840005 GCGGGAGAAAGGGCTCGG 62.840 72.222 0.00 0.00 35.74 4.63
1081 2587 2.955660 AGAACGAATTGCCACCAGAAAA 59.044 40.909 0.00 0.00 0.00 2.29
1092 2598 4.319766 CCTTCACCTCAACAGAACGAATTG 60.320 45.833 0.00 0.00 0.00 2.32
1116 2622 2.492484 ACAGAGACTAAGATTTCCGCGT 59.508 45.455 4.92 0.00 0.00 6.01
1128 2634 5.700722 ATCAAACACGTACACAGAGACTA 57.299 39.130 0.00 0.00 0.00 2.59
1140 2646 6.916387 CGTAGTCCATATCTAATCAAACACGT 59.084 38.462 0.00 0.00 0.00 4.49
1531 3040 0.666374 GCGGCATAATTTAAGCGGGT 59.334 50.000 11.52 0.00 0.00 5.28
1545 3054 2.546778 GTACAATACTAAGCAGCGGCA 58.453 47.619 12.44 0.00 44.61 5.69
1548 3057 2.787680 GGACGTACAATACTAAGCAGCG 59.212 50.000 0.00 0.00 0.00 5.18
1568 3077 2.719979 GAGCATCAGCCATTGCGG 59.280 61.111 0.00 0.00 43.61 5.69
1669 3178 3.394836 GCCGGCTCCTCCTTCACT 61.395 66.667 22.15 0.00 0.00 3.41
1795 3304 2.444895 GTCCCCATCTCCGGAGCT 60.445 66.667 27.39 15.33 0.00 4.09
1978 3487 4.271816 CAGGGATCCGTCGGCTCG 62.272 72.222 6.34 0.00 0.00 5.03
2219 3740 3.970640 ACAAGCAAAAGGGTTTATGGGAA 59.029 39.130 0.00 0.00 34.30 3.97
2252 3773 4.999950 CACTTGAGTCCAGCTTAACAGATT 59.000 41.667 0.00 0.00 0.00 2.40
2253 3774 4.040952 ACACTTGAGTCCAGCTTAACAGAT 59.959 41.667 0.00 0.00 0.00 2.90
2255 3776 3.733337 ACACTTGAGTCCAGCTTAACAG 58.267 45.455 0.00 0.00 0.00 3.16
2256 3777 3.838244 ACACTTGAGTCCAGCTTAACA 57.162 42.857 0.00 0.00 0.00 2.41
2284 3813 4.603946 GTCCCTATCCCGCGTGGC 62.604 72.222 10.27 0.00 0.00 5.01
2288 3817 2.421739 CCTTGTCCCTATCCCGCG 59.578 66.667 0.00 0.00 0.00 6.46
2289 3818 2.819284 CCCCTTGTCCCTATCCCGC 61.819 68.421 0.00 0.00 0.00 6.13
2339 3868 1.915078 GCTTGCTGCTCCCTCCCTTA 61.915 60.000 0.00 0.00 38.95 2.69
2476 4006 2.152699 CGGTTACGACTCTGCTGCG 61.153 63.158 0.00 0.00 44.60 5.18
2477 4007 1.211969 TCGGTTACGACTCTGCTGC 59.788 57.895 0.00 0.00 45.59 5.25
2647 4193 4.760047 GGAAAGCGCGAGGCCAGA 62.760 66.667 12.10 0.00 45.17 3.86
2648 4194 4.767255 AGGAAAGCGCGAGGCCAG 62.767 66.667 12.10 0.00 45.17 4.85
2649 4195 4.329545 AAGGAAAGCGCGAGGCCA 62.330 61.111 12.10 0.00 45.17 5.36
2686 4232 1.491563 GCGGCACAACAACTACTCG 59.508 57.895 0.00 0.00 0.00 4.18
2687 4233 1.866925 GGCGGCACAACAACTACTC 59.133 57.895 3.07 0.00 0.00 2.59
2688 4234 1.959226 CGGCGGCACAACAACTACT 60.959 57.895 10.53 0.00 0.00 2.57
2689 4235 2.166584 GACGGCGGCACAACAACTAC 62.167 60.000 8.47 0.00 0.00 2.73
2690 4236 1.957186 GACGGCGGCACAACAACTA 60.957 57.895 8.47 0.00 0.00 2.24
2722 4268 2.760385 GGAGGCCGGAGCACTACT 60.760 66.667 5.05 0.00 42.56 2.57
2736 4282 5.526111 TCTTTGTTTCTTTCTTGTACCGGAG 59.474 40.000 9.46 0.00 0.00 4.63
2737 4283 5.430007 TCTTTGTTTCTTTCTTGTACCGGA 58.570 37.500 9.46 0.00 0.00 5.14
2777 4323 1.886313 CATCATGAGAGCCGCGCTT 60.886 57.895 5.56 0.00 39.88 4.68
2863 4412 0.238289 AAAACGCACTCGATTGGCAG 59.762 50.000 4.82 0.41 39.41 4.85
2939 4491 0.612732 CCCACCACGGTCTACCACTA 60.613 60.000 0.00 0.00 35.14 2.74
2963 4515 1.299468 CTCCGGCGATCTTTCCTCG 60.299 63.158 9.30 0.00 39.11 4.63


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

AutoCloner maintained by Alex Coulton.