Multiple sequence alignment - TraesCS7D01G395700

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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 TraesCS7D01G395700 chr7D 100.000 2633 0 0 1 2633 510449077 510451709 0.000000e+00 4863.0
1 TraesCS7D01G395700 chr7B 91.310 2244 102 38 446 2633 538863526 538865732 0.000000e+00 2977.0
2 TraesCS7D01G395700 chr7B 88.811 143 16 0 1 143 538862596 538862738 2.690000e-40 176.0
3 TraesCS7D01G395700 chr7A 89.879 2233 122 46 446 2633 581344193 581346366 0.000000e+00 2776.0
4 TraesCS7D01G395700 chr7A 93.182 132 8 1 255 386 651205199 651205069 2.670000e-45 193.0
5 TraesCS7D01G395700 chr3B 83.694 1018 83 40 794 1786 225258342 225257383 0.000000e+00 883.0
6 TraesCS7D01G395700 chr3B 87.043 301 22 4 2080 2375 225255153 225254865 9.090000e-85 324.0
7 TraesCS7D01G395700 chr3B 89.143 175 13 1 1819 1993 225257175 225257007 2.050000e-51 213.0
8 TraesCS7D01G395700 chr3B 84.146 164 11 3 2368 2517 225254711 225254549 7.600000e-31 145.0
9 TraesCS7D01G395700 chr3B 77.320 194 35 9 65 256 238319494 238319680 3.580000e-19 106.0
10 TraesCS7D01G395700 chr3D 86.634 621 45 15 1403 2002 156246450 156247053 0.000000e+00 652.0
11 TraesCS7D01G395700 chr3D 84.615 585 42 22 2080 2633 156247141 156247708 2.980000e-149 538.0
12 TraesCS7D01G395700 chr3D 85.106 423 30 14 935 1344 156240860 156241262 4.080000e-108 401.0
13 TraesCS7D01G395700 chr5D 95.455 132 5 1 255 386 398655639 398655509 2.660000e-50 209.0
14 TraesCS7D01G395700 chrUn 93.939 132 7 1 255 386 362225010 362225140 5.750000e-47 198.0
15 TraesCS7D01G395700 chrUn 93.939 132 7 1 255 386 456271371 456271241 5.750000e-47 198.0
16 TraesCS7D01G395700 chr3A 93.939 132 7 1 255 386 670535029 670534899 5.750000e-47 198.0
17 TraesCS7D01G395700 chr3A 93.939 132 7 1 255 386 738544732 738544862 5.750000e-47 198.0
18 TraesCS7D01G395700 chr3A 93.939 132 7 1 255 386 738644903 738645033 5.750000e-47 198.0
19 TraesCS7D01G395700 chr1A 93.182 132 8 1 255 386 321107263 321107393 2.670000e-45 193.0
20 TraesCS7D01G395700 chr1A 81.707 82 12 3 78 158 495135907 495135828 6.080000e-07 65.8
21 TraesCS7D01G395700 chr2B 91.241 137 10 2 255 390 89567507 89567372 4.480000e-43 185.0
22 TraesCS7D01G395700 chr2B 78.947 114 18 5 38 149 49519823 49519932 3.640000e-09 73.1
23 TraesCS7D01G395700 chr4A 75.342 219 44 6 38 256 46145999 46146207 2.160000e-16 97.1
24 TraesCS7D01G395700 chr2D 75.229 218 45 7 38 255 59718338 59718546 7.760000e-16 95.3
25 TraesCS7D01G395700 chr1D 84.146 82 10 2 31 110 28613217 28613297 2.810000e-10 76.8
26 TraesCS7D01G395700 chr1B 73.585 212 47 5 46 256 138560361 138560158 3.640000e-09 73.1
27 TraesCS7D01G395700 chr4B 81.013 79 13 2 32 110 650624891 650624815 7.870000e-06 62.1


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 TraesCS7D01G395700 chr7D 510449077 510451709 2632 False 4863.00 4863 100.0000 1 2633 1 chr7D.!!$F1 2632
1 TraesCS7D01G395700 chr7B 538862596 538865732 3136 False 1576.50 2977 90.0605 1 2633 2 chr7B.!!$F1 2632
2 TraesCS7D01G395700 chr7A 581344193 581346366 2173 False 2776.00 2776 89.8790 446 2633 1 chr7A.!!$F1 2187
3 TraesCS7D01G395700 chr3B 225254549 225258342 3793 True 391.25 883 86.0065 794 2517 4 chr3B.!!$R1 1723
4 TraesCS7D01G395700 chr3D 156246450 156247708 1258 False 595.00 652 85.6245 1403 2633 2 chr3D.!!$F2 1230

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
298 299 0.031111 AGGGGTGTGCTCTATAGGCA 60.031 55.0 10.69 10.69 37.36 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1963 2843 1.067212 AGAAGTGCACCGGTATCGATC 59.933 52.381 14.63 3.55 39.0 3.69 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
26 27 6.232581 ACATAGTGGATCCTCTTTCTCTTG 57.767 41.667 20.90 11.54 0.00 3.02
56 57 6.480320 AGATCATATCTACAAAAGTTCACCGC 59.520 38.462 0.00 0.00 38.00 5.68
74 75 2.574322 CGCAAGTCCAAAAACATCTCG 58.426 47.619 0.00 0.00 0.00 4.04
111 112 4.371624 ACATCAAGATTCCAAGACCACA 57.628 40.909 0.00 0.00 0.00 4.17
112 113 4.728772 ACATCAAGATTCCAAGACCACAA 58.271 39.130 0.00 0.00 0.00 3.33
117 118 2.884639 AGATTCCAAGACCACAAAACGG 59.115 45.455 0.00 0.00 0.00 4.44
120 121 1.388065 CCAAGACCACAAAACGGCCA 61.388 55.000 2.24 0.00 0.00 5.36
122 123 0.395173 AAGACCACAAAACGGCCACT 60.395 50.000 2.24 0.00 0.00 4.00
123 124 1.101049 AGACCACAAAACGGCCACTG 61.101 55.000 2.24 0.00 0.00 3.66
124 125 1.379309 ACCACAAAACGGCCACTGT 60.379 52.632 2.24 0.00 0.00 3.55
126 127 0.527385 CCACAAAACGGCCACTGTTG 60.527 55.000 2.24 3.61 0.00 3.33
162 163 4.961511 GACGTGCCGCTGTGGTCA 62.962 66.667 9.31 4.77 41.21 4.02
164 165 4.969196 CGTGCCGCTGTGGTCACT 62.969 66.667 22.85 0.00 40.48 3.41
165 166 3.044305 GTGCCGCTGTGGTCACTC 61.044 66.667 20.22 2.20 39.90 3.51
166 167 4.314440 TGCCGCTGTGGTCACTCC 62.314 66.667 9.31 0.00 41.21 3.85
168 169 4.394712 CCGCTGTGGTCACTCCCC 62.395 72.222 0.00 0.00 34.77 4.81
169 170 3.625897 CGCTGTGGTCACTCCCCA 61.626 66.667 2.66 0.00 34.77 4.96
174 175 2.951813 TGGTCACTCCCCACTCCT 59.048 61.111 0.00 0.00 34.77 3.69
175 176 1.229209 TGGTCACTCCCCACTCCTC 60.229 63.158 0.00 0.00 34.77 3.71
176 177 1.079438 GGTCACTCCCCACTCCTCT 59.921 63.158 0.00 0.00 0.00 3.69
177 178 0.335361 GGTCACTCCCCACTCCTCTA 59.665 60.000 0.00 0.00 0.00 2.43
178 179 1.476477 GTCACTCCCCACTCCTCTAC 58.524 60.000 0.00 0.00 0.00 2.59
179 180 0.335361 TCACTCCCCACTCCTCTACC 59.665 60.000 0.00 0.00 0.00 3.18
180 181 1.038130 CACTCCCCACTCCTCTACCG 61.038 65.000 0.00 0.00 0.00 4.02
181 182 1.455959 CTCCCCACTCCTCTACCGG 60.456 68.421 0.00 0.00 0.00 5.28
182 183 1.932231 TCCCCACTCCTCTACCGGA 60.932 63.158 9.46 0.00 0.00 5.14
197 198 3.543680 ACCGGAGTAAGATTGACCATG 57.456 47.619 9.46 0.00 0.00 3.66
199 200 3.263425 ACCGGAGTAAGATTGACCATGTT 59.737 43.478 9.46 0.00 0.00 2.71
205 206 6.769822 GGAGTAAGATTGACCATGTTGATGAT 59.230 38.462 0.00 0.00 0.00 2.45
208 209 6.630444 AAGATTGACCATGTTGATGATAGC 57.370 37.500 0.00 0.00 0.00 2.97
209 210 5.938279 AGATTGACCATGTTGATGATAGCT 58.062 37.500 0.00 0.00 0.00 3.32
212 213 3.455543 TGACCATGTTGATGATAGCTGGA 59.544 43.478 0.00 0.00 0.00 3.86
220 221 6.240894 TGTTGATGATAGCTGGAAAGTCTTT 58.759 36.000 0.00 0.00 0.00 2.52
223 224 6.946340 TGATGATAGCTGGAAAGTCTTTGTA 58.054 36.000 1.60 0.00 0.00 2.41
226 227 5.932303 TGATAGCTGGAAAGTCTTTGTACAC 59.068 40.000 1.60 0.00 0.00 2.90
227 228 3.131396 AGCTGGAAAGTCTTTGTACACG 58.869 45.455 1.60 0.00 0.00 4.49
228 229 2.349532 GCTGGAAAGTCTTTGTACACGC 60.350 50.000 1.60 2.44 0.00 5.34
229 230 1.862201 TGGAAAGTCTTTGTACACGCG 59.138 47.619 3.53 3.53 0.00 6.01
230 231 1.398071 GGAAAGTCTTTGTACACGCGC 60.398 52.381 5.73 0.00 0.00 6.86
231 232 0.584876 AAAGTCTTTGTACACGCGCC 59.415 50.000 5.73 0.00 0.00 6.53
232 233 1.226030 AAGTCTTTGTACACGCGCCC 61.226 55.000 5.73 0.00 0.00 6.13
234 235 3.428282 CTTTGTACACGCGCCCCC 61.428 66.667 5.73 0.00 0.00 5.40
235 236 4.251771 TTTGTACACGCGCCCCCA 62.252 61.111 5.73 0.00 0.00 4.96
236 237 3.769369 TTTGTACACGCGCCCCCAA 62.769 57.895 5.73 1.32 0.00 4.12
237 238 4.690719 TGTACACGCGCCCCCAAG 62.691 66.667 5.73 0.00 0.00 3.61
238 239 4.382320 GTACACGCGCCCCCAAGA 62.382 66.667 5.73 0.00 0.00 3.02
240 241 3.887335 TACACGCGCCCCCAAGAAC 62.887 63.158 5.73 0.00 0.00 3.01
245 246 3.361977 CGCCCCCAAGAACCAACG 61.362 66.667 0.00 0.00 0.00 4.10
246 247 3.680786 GCCCCCAAGAACCAACGC 61.681 66.667 0.00 0.00 0.00 4.84
247 248 2.989253 CCCCCAAGAACCAACGCC 60.989 66.667 0.00 0.00 0.00 5.68
248 249 2.989253 CCCCAAGAACCAACGCCC 60.989 66.667 0.00 0.00 0.00 6.13
249 250 2.115266 CCCAAGAACCAACGCCCT 59.885 61.111 0.00 0.00 0.00 5.19
251 252 2.268076 CCAAGAACCAACGCCCTGG 61.268 63.158 0.00 0.00 42.68 4.45
252 253 1.228124 CAAGAACCAACGCCCTGGA 60.228 57.895 5.74 0.00 38.96 3.86
253 254 1.073199 AAGAACCAACGCCCTGGAG 59.927 57.895 5.74 0.00 38.96 3.86
254 255 3.056328 GAACCAACGCCCTGGAGC 61.056 66.667 5.74 0.00 38.96 4.70
255 256 4.660938 AACCAACGCCCTGGAGCC 62.661 66.667 5.74 0.00 38.96 4.70
258 259 4.335647 CAACGCCCTGGAGCCAGT 62.336 66.667 14.97 0.00 42.15 4.00
259 260 4.335647 AACGCCCTGGAGCCAGTG 62.336 66.667 14.97 5.22 42.15 3.66
262 263 4.106925 GCCCTGGAGCCAGTGGAG 62.107 72.222 15.20 0.15 42.15 3.86
263 264 4.106925 CCCTGGAGCCAGTGGAGC 62.107 72.222 15.20 2.88 42.15 4.70
264 265 4.106925 CCTGGAGCCAGTGGAGCC 62.107 72.222 15.20 13.57 42.15 4.70
265 266 4.463879 CTGGAGCCAGTGGAGCCG 62.464 72.222 15.20 5.86 39.10 5.52
272 273 4.659172 CAGTGGAGCCGGGGCAAA 62.659 66.667 12.97 0.00 44.88 3.68
273 274 3.897122 AGTGGAGCCGGGGCAAAA 61.897 61.111 12.97 0.00 44.88 2.44
274 275 2.679996 GTGGAGCCGGGGCAAAAT 60.680 61.111 12.97 0.00 44.88 1.82
275 276 1.379309 GTGGAGCCGGGGCAAAATA 60.379 57.895 12.97 0.00 44.88 1.40
276 277 1.379309 TGGAGCCGGGGCAAAATAC 60.379 57.895 12.97 0.00 44.88 1.89
277 278 1.379309 GGAGCCGGGGCAAAATACA 60.379 57.895 12.97 0.00 44.88 2.29
278 279 0.968393 GGAGCCGGGGCAAAATACAA 60.968 55.000 12.97 0.00 44.88 2.41
279 280 0.892063 GAGCCGGGGCAAAATACAAA 59.108 50.000 12.97 0.00 44.88 2.83
280 281 0.894835 AGCCGGGGCAAAATACAAAG 59.105 50.000 12.97 0.00 44.88 2.77
281 282 0.108377 GCCGGGGCAAAATACAAAGG 60.108 55.000 2.18 0.00 41.49 3.11
282 283 0.534873 CCGGGGCAAAATACAAAGGG 59.465 55.000 0.00 0.00 0.00 3.95
283 284 0.534873 CGGGGCAAAATACAAAGGGG 59.465 55.000 0.00 0.00 0.00 4.79
284 285 1.651737 GGGGCAAAATACAAAGGGGT 58.348 50.000 0.00 0.00 0.00 4.95
285 286 1.277842 GGGGCAAAATACAAAGGGGTG 59.722 52.381 0.00 0.00 0.00 4.61
286 287 1.974957 GGGCAAAATACAAAGGGGTGT 59.025 47.619 0.00 0.00 35.43 4.16
287 288 2.289382 GGGCAAAATACAAAGGGGTGTG 60.289 50.000 0.00 0.00 32.75 3.82
288 289 2.412870 GCAAAATACAAAGGGGTGTGC 58.587 47.619 0.00 0.00 32.75 4.57
289 290 2.037121 GCAAAATACAAAGGGGTGTGCT 59.963 45.455 0.00 0.00 32.75 4.40
290 291 3.860754 GCAAAATACAAAGGGGTGTGCTC 60.861 47.826 0.00 0.00 32.75 4.26
291 292 3.525800 AAATACAAAGGGGTGTGCTCT 57.474 42.857 0.00 0.00 32.75 4.09
292 293 4.650972 AAATACAAAGGGGTGTGCTCTA 57.349 40.909 0.00 0.00 32.75 2.43
293 294 4.862641 AATACAAAGGGGTGTGCTCTAT 57.137 40.909 0.00 0.00 32.75 1.98
294 295 5.968676 AATACAAAGGGGTGTGCTCTATA 57.031 39.130 0.00 0.00 32.75 1.31
295 296 3.914426 ACAAAGGGGTGTGCTCTATAG 57.086 47.619 0.00 0.00 0.00 1.31
296 297 2.505819 ACAAAGGGGTGTGCTCTATAGG 59.494 50.000 0.00 0.00 0.00 2.57
297 298 1.132500 AAGGGGTGTGCTCTATAGGC 58.868 55.000 0.00 3.21 0.00 3.93
298 299 0.031111 AGGGGTGTGCTCTATAGGCA 60.031 55.000 10.69 10.69 37.36 4.75
299 300 1.059913 GGGGTGTGCTCTATAGGCAT 58.940 55.000 15.91 0.00 41.86 4.40
300 301 1.421646 GGGGTGTGCTCTATAGGCATT 59.578 52.381 15.91 0.00 41.86 3.56
301 302 2.158608 GGGGTGTGCTCTATAGGCATTT 60.159 50.000 15.91 0.00 41.86 2.32
302 303 2.880890 GGGTGTGCTCTATAGGCATTTG 59.119 50.000 15.91 0.00 41.86 2.32
303 304 2.291741 GGTGTGCTCTATAGGCATTTGC 59.708 50.000 15.91 0.00 41.86 3.68
316 317 3.849064 TTTGCCCACAAAGACCGG 58.151 55.556 0.00 0.00 40.84 5.28
317 318 1.076632 TTTGCCCACAAAGACCGGT 60.077 52.632 6.92 6.92 40.84 5.28
318 319 1.388065 TTTGCCCACAAAGACCGGTG 61.388 55.000 14.63 0.00 40.84 4.94
319 320 2.112297 GCCCACAAAGACCGGTGA 59.888 61.111 14.63 0.00 37.18 4.02
320 321 1.303317 GCCCACAAAGACCGGTGAT 60.303 57.895 14.63 0.00 37.18 3.06
321 322 1.586154 GCCCACAAAGACCGGTGATG 61.586 60.000 14.63 10.84 37.18 3.07
322 323 0.036164 CCCACAAAGACCGGTGATGA 59.964 55.000 14.63 0.00 37.18 2.92
323 324 1.544537 CCCACAAAGACCGGTGATGAA 60.545 52.381 14.63 0.00 37.18 2.57
324 325 2.436417 CCACAAAGACCGGTGATGAAT 58.564 47.619 14.63 0.00 37.18 2.57
325 326 2.819608 CCACAAAGACCGGTGATGAATT 59.180 45.455 14.63 0.00 37.18 2.17
326 327 3.119849 CCACAAAGACCGGTGATGAATTC 60.120 47.826 14.63 0.00 37.18 2.17
327 328 3.753272 CACAAAGACCGGTGATGAATTCT 59.247 43.478 14.63 0.00 37.18 2.40
328 329 4.003648 ACAAAGACCGGTGATGAATTCTC 58.996 43.478 14.63 0.00 0.00 2.87
329 330 3.981071 AAGACCGGTGATGAATTCTCA 57.019 42.857 14.63 5.37 35.56 3.27
330 331 3.533606 AGACCGGTGATGAATTCTCAG 57.466 47.619 14.63 0.34 34.23 3.35
331 332 2.834549 AGACCGGTGATGAATTCTCAGT 59.165 45.455 14.63 3.21 34.23 3.41
332 333 3.261897 AGACCGGTGATGAATTCTCAGTT 59.738 43.478 14.63 0.00 34.23 3.16
333 334 4.003648 GACCGGTGATGAATTCTCAGTTT 58.996 43.478 14.63 0.00 34.23 2.66
334 335 4.003648 ACCGGTGATGAATTCTCAGTTTC 58.996 43.478 6.12 0.00 34.23 2.78
335 336 4.256920 CCGGTGATGAATTCTCAGTTTCT 58.743 43.478 7.05 0.00 34.23 2.52
336 337 4.697352 CCGGTGATGAATTCTCAGTTTCTT 59.303 41.667 7.05 0.00 34.23 2.52
337 338 5.874810 CCGGTGATGAATTCTCAGTTTCTTA 59.125 40.000 7.05 0.00 34.23 2.10
338 339 6.036517 CCGGTGATGAATTCTCAGTTTCTTAG 59.963 42.308 7.05 0.00 34.23 2.18
339 340 6.591834 CGGTGATGAATTCTCAGTTTCTTAGT 59.408 38.462 7.05 0.00 34.23 2.24
340 341 7.412346 CGGTGATGAATTCTCAGTTTCTTAGTG 60.412 40.741 7.05 0.00 34.23 2.74
341 342 7.389053 GGTGATGAATTCTCAGTTTCTTAGTGT 59.611 37.037 7.05 0.00 34.23 3.55
342 343 9.424319 GTGATGAATTCTCAGTTTCTTAGTGTA 57.576 33.333 7.05 0.00 34.23 2.90
343 344 9.996554 TGATGAATTCTCAGTTTCTTAGTGTAA 57.003 29.630 7.05 0.00 34.23 2.41
363 364 9.869757 AGTGTAATTTAATGAAAGTATTTGGGC 57.130 29.630 0.00 0.00 39.27 5.36
364 365 9.646427 GTGTAATTTAATGAAAGTATTTGGGCA 57.354 29.630 0.00 0.00 39.27 5.36
365 366 9.868277 TGTAATTTAATGAAAGTATTTGGGCAG 57.132 29.630 0.00 0.00 39.27 4.85
368 369 4.725790 AATGAAAGTATTTGGGCAGAGC 57.274 40.909 0.00 0.00 39.27 4.09
369 370 2.446435 TGAAAGTATTTGGGCAGAGCC 58.554 47.619 0.00 0.00 43.84 4.70
406 407 2.435586 CTTCGCCACTGCCTGGAG 60.436 66.667 0.00 0.00 43.95 3.86
428 447 1.390123 CGCAATCATCGTCGTTGAAGT 59.610 47.619 9.88 0.00 0.00 3.01
430 449 3.242944 CGCAATCATCGTCGTTGAAGTAT 59.757 43.478 9.88 0.00 0.00 2.12
431 450 4.604043 CGCAATCATCGTCGTTGAAGTATC 60.604 45.833 9.88 0.00 0.00 2.24
505 1176 6.267070 CCTAGGTTTTTGTTTTTACTCGCAA 58.733 36.000 0.00 0.00 0.00 4.85
574 1249 5.070862 GTCGCAAAGTTGTAAGACAATACG 58.929 41.667 0.00 0.00 40.59 3.06
674 1354 3.259902 GCCGACACCCTCTTTAAACTAG 58.740 50.000 0.00 0.00 0.00 2.57
675 1355 3.858247 CCGACACCCTCTTTAAACTAGG 58.142 50.000 0.00 5.25 0.00 3.02
742 1422 2.242043 CAGCCTTTGGAGATTGTTGGT 58.758 47.619 0.00 0.00 0.00 3.67
743 1423 2.629617 CAGCCTTTGGAGATTGTTGGTT 59.370 45.455 0.00 0.00 0.00 3.67
744 1424 3.070015 CAGCCTTTGGAGATTGTTGGTTT 59.930 43.478 0.00 0.00 0.00 3.27
745 1425 3.321968 AGCCTTTGGAGATTGTTGGTTTC 59.678 43.478 0.00 0.00 0.00 2.78
746 1426 3.554960 GCCTTTGGAGATTGTTGGTTTCC 60.555 47.826 0.00 0.00 0.00 3.13
747 1427 3.897505 CCTTTGGAGATTGTTGGTTTCCT 59.102 43.478 0.00 0.00 0.00 3.36
748 1428 4.021981 CCTTTGGAGATTGTTGGTTTCCTC 60.022 45.833 0.00 0.00 0.00 3.71
749 1429 4.453480 TTGGAGATTGTTGGTTTCCTCT 57.547 40.909 0.00 0.00 0.00 3.69
750 1430 4.453480 TGGAGATTGTTGGTTTCCTCTT 57.547 40.909 0.00 0.00 0.00 2.85
753 1433 3.759086 GAGATTGTTGGTTTCCTCTTCCC 59.241 47.826 0.00 0.00 0.00 3.97
758 1438 1.362224 TGGTTTCCTCTTCCCTCCTG 58.638 55.000 0.00 0.00 0.00 3.86
765 1445 1.613630 TCTTCCCTCCTGCTCACCC 60.614 63.158 0.00 0.00 0.00 4.61
824 1504 0.692756 CTTCCTCCTTCCTCCCTCCC 60.693 65.000 0.00 0.00 0.00 4.30
825 1505 2.444895 CCTCCTTCCTCCCTCCCG 60.445 72.222 0.00 0.00 0.00 5.14
827 1507 4.798682 TCCTTCCTCCCTCCCGCC 62.799 72.222 0.00 0.00 0.00 6.13
829 1509 2.770048 CTTCCTCCCTCCCGCCAT 60.770 66.667 0.00 0.00 0.00 4.40
830 1510 1.459539 CTTCCTCCCTCCCGCCATA 60.460 63.158 0.00 0.00 0.00 2.74
878 1558 1.715785 CCCTTCTCATCTCCTCCTCC 58.284 60.000 0.00 0.00 0.00 4.30
879 1559 1.715785 CCTTCTCATCTCCTCCTCCC 58.284 60.000 0.00 0.00 0.00 4.30
880 1560 1.715785 CTTCTCATCTCCTCCTCCCC 58.284 60.000 0.00 0.00 0.00 4.81
881 1561 0.266152 TTCTCATCTCCTCCTCCCCC 59.734 60.000 0.00 0.00 0.00 5.40
994 1679 1.673808 CTACACCCCGGCCTCTACAC 61.674 65.000 0.00 0.00 0.00 2.90
1030 1715 3.172575 CGTACGACCACAGCAGCG 61.173 66.667 10.44 0.00 0.00 5.18
1452 2146 0.031010 AGGAAGGAGGGTTCGGCTAT 60.031 55.000 0.00 0.00 0.00 2.97
1547 2244 0.391263 GACGTGTTCCAGGGGATGAC 60.391 60.000 0.00 0.00 0.00 3.06
1548 2245 1.447838 CGTGTTCCAGGGGATGACG 60.448 63.158 0.00 0.00 32.92 4.35
1549 2246 1.884075 CGTGTTCCAGGGGATGACGA 61.884 60.000 9.70 0.00 38.28 4.20
1704 2407 4.589216 TTTTTGCACTTTGGATGAGAGG 57.411 40.909 0.00 0.00 0.00 3.69
1739 2442 5.986501 TCTCTCTTCTTCCCTTTGTCTAC 57.013 43.478 0.00 0.00 0.00 2.59
1777 2480 4.724399 TGCAATGGTCTTGGAAGAACTTA 58.276 39.130 6.03 0.00 43.21 2.24
1787 2494 2.092323 GGAAGAACTTACACCCATGGC 58.908 52.381 6.09 0.00 0.00 4.40
1812 2682 8.499162 GCTGCAAATACTAGTGATTATGTAAGG 58.501 37.037 5.39 0.00 0.00 2.69
1938 2818 2.880443 AGTGCCATGTGGAGAACAATT 58.120 42.857 2.55 0.00 43.61 2.32
1949 2829 5.758296 TGTGGAGAACAATTAGAACAGTGAC 59.242 40.000 0.00 0.00 35.24 3.67
1955 2835 5.418310 ACAATTAGAACAGTGACGGTTTG 57.582 39.130 2.09 0.00 0.00 2.93
1963 2843 2.350498 ACAGTGACGGTTTGAAAACTCG 59.650 45.455 0.00 9.65 38.89 4.18
2025 4662 5.119125 GCACTTGCACTTGATTATCAAAACC 59.881 40.000 9.05 1.19 37.15 3.27
2038 4706 8.739039 TGATTATCAAAACCATACTCAAACTGG 58.261 33.333 0.00 0.00 36.09 4.00
2048 4716 9.927668 AACCATACTCAAACTGGAAATATTTTG 57.072 29.630 1.43 0.00 34.08 2.44
2112 4780 1.694150 AGTAGCTGCACCAGACAAAGA 59.306 47.619 4.12 0.00 32.44 2.52
2278 4948 4.251268 AGTCTTTAATAGTCCGGTTGTGC 58.749 43.478 0.00 0.00 0.00 4.57
2566 5422 4.391830 TGACTATTAGCTTTTGTTCAGCCG 59.608 41.667 0.00 0.00 38.09 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 9.383519 TGAACTTTTGTAGATATGATCTTGTCC 57.616 33.333 0.00 0.00 40.76 4.02
56 57 3.563808 TGTCCGAGATGTTTTTGGACTTG 59.436 43.478 10.66 0.00 45.58 3.16
99 100 0.741915 GCCGTTTTGTGGTCTTGGAA 59.258 50.000 0.00 0.00 0.00 3.53
103 104 0.395173 AGTGGCCGTTTTGTGGTCTT 60.395 50.000 0.00 0.00 30.50 3.01
111 112 2.811799 GGCAACAGTGGCCGTTTT 59.188 55.556 2.13 0.00 44.47 2.43
120 121 2.972505 CGTTCTGGCGGCAACAGT 60.973 61.111 14.48 0.00 37.25 3.55
122 123 2.664851 CTCGTTCTGGCGGCAACA 60.665 61.111 14.48 0.00 0.00 3.33
123 124 4.090057 GCTCGTTCTGGCGGCAAC 62.090 66.667 14.48 8.56 0.00 4.17
129 130 4.415332 TCGACGGCTCGTTCTGGC 62.415 66.667 0.00 0.00 41.37 4.85
148 149 3.044305 GAGTGACCACAGCGGCAC 61.044 66.667 1.45 0.00 40.24 5.01
149 150 4.314440 GGAGTGACCACAGCGGCA 62.314 66.667 1.45 0.00 39.03 5.69
151 152 4.394712 GGGGAGTGACCACAGCGG 62.395 72.222 2.78 0.00 42.69 5.52
157 158 1.229209 GAGGAGTGGGGAGTGACCA 60.229 63.158 0.00 0.00 41.20 4.02
158 159 0.335361 TAGAGGAGTGGGGAGTGACC 59.665 60.000 0.00 0.00 38.08 4.02
159 160 1.476477 GTAGAGGAGTGGGGAGTGAC 58.524 60.000 0.00 0.00 0.00 3.67
160 161 0.335361 GGTAGAGGAGTGGGGAGTGA 59.665 60.000 0.00 0.00 0.00 3.41
161 162 1.038130 CGGTAGAGGAGTGGGGAGTG 61.038 65.000 0.00 0.00 0.00 3.51
162 163 1.306970 CGGTAGAGGAGTGGGGAGT 59.693 63.158 0.00 0.00 0.00 3.85
163 164 1.455959 CCGGTAGAGGAGTGGGGAG 60.456 68.421 0.00 0.00 0.00 4.30
164 165 1.932231 TCCGGTAGAGGAGTGGGGA 60.932 63.158 0.00 0.00 34.92 4.81
165 166 2.687902 TCCGGTAGAGGAGTGGGG 59.312 66.667 0.00 0.00 34.92 4.96
174 175 3.972133 TGGTCAATCTTACTCCGGTAGA 58.028 45.455 0.00 0.84 0.00 2.59
175 176 4.099573 ACATGGTCAATCTTACTCCGGTAG 59.900 45.833 0.00 0.00 0.00 3.18
176 177 4.028131 ACATGGTCAATCTTACTCCGGTA 58.972 43.478 0.00 0.00 0.00 4.02
177 178 2.838202 ACATGGTCAATCTTACTCCGGT 59.162 45.455 0.00 0.00 0.00 5.28
178 179 3.543680 ACATGGTCAATCTTACTCCGG 57.456 47.619 0.00 0.00 0.00 5.14
179 180 4.503910 TCAACATGGTCAATCTTACTCCG 58.496 43.478 0.00 0.00 0.00 4.63
180 181 6.115446 TCATCAACATGGTCAATCTTACTCC 58.885 40.000 0.00 0.00 0.00 3.85
181 182 7.798596 ATCATCAACATGGTCAATCTTACTC 57.201 36.000 0.00 0.00 0.00 2.59
182 183 7.443575 GCTATCATCAACATGGTCAATCTTACT 59.556 37.037 0.00 0.00 0.00 2.24
183 184 7.443575 AGCTATCATCAACATGGTCAATCTTAC 59.556 37.037 0.00 0.00 0.00 2.34
184 185 7.443272 CAGCTATCATCAACATGGTCAATCTTA 59.557 37.037 0.00 0.00 0.00 2.10
185 186 6.262496 CAGCTATCATCAACATGGTCAATCTT 59.738 38.462 0.00 0.00 0.00 2.40
186 187 5.763698 CAGCTATCATCAACATGGTCAATCT 59.236 40.000 0.00 0.00 0.00 2.40
187 188 5.048921 CCAGCTATCATCAACATGGTCAATC 60.049 44.000 0.00 0.00 0.00 2.67
188 189 4.825634 CCAGCTATCATCAACATGGTCAAT 59.174 41.667 0.00 0.00 0.00 2.57
197 198 6.150140 ACAAAGACTTTCCAGCTATCATCAAC 59.850 38.462 0.00 0.00 0.00 3.18
199 200 5.809001 ACAAAGACTTTCCAGCTATCATCA 58.191 37.500 0.00 0.00 0.00 3.07
205 206 4.304110 CGTGTACAAAGACTTTCCAGCTA 58.696 43.478 0.00 0.00 0.00 3.32
208 209 2.096909 CGCGTGTACAAAGACTTTCCAG 60.097 50.000 0.00 0.00 0.00 3.86
209 210 1.862201 CGCGTGTACAAAGACTTTCCA 59.138 47.619 0.00 0.00 0.00 3.53
212 213 0.584876 GGCGCGTGTACAAAGACTTT 59.415 50.000 8.43 0.00 0.00 2.66
220 221 4.690719 CTTGGGGGCGCGTGTACA 62.691 66.667 8.43 0.00 0.00 2.90
227 228 3.680786 GTTGGTTCTTGGGGGCGC 61.681 66.667 0.00 0.00 0.00 6.53
228 229 3.361977 CGTTGGTTCTTGGGGGCG 61.362 66.667 0.00 0.00 0.00 6.13
229 230 3.680786 GCGTTGGTTCTTGGGGGC 61.681 66.667 0.00 0.00 0.00 5.80
230 231 2.989253 GGCGTTGGTTCTTGGGGG 60.989 66.667 0.00 0.00 0.00 5.40
231 232 2.989253 GGGCGTTGGTTCTTGGGG 60.989 66.667 0.00 0.00 0.00 4.96
232 233 2.115266 AGGGCGTTGGTTCTTGGG 59.885 61.111 0.00 0.00 0.00 4.12
234 235 1.228124 TCCAGGGCGTTGGTTCTTG 60.228 57.895 6.56 0.00 39.35 3.02
235 236 1.073199 CTCCAGGGCGTTGGTTCTT 59.927 57.895 6.56 0.00 39.35 2.52
236 237 2.750350 CTCCAGGGCGTTGGTTCT 59.250 61.111 6.56 0.00 39.35 3.01
237 238 3.056328 GCTCCAGGGCGTTGGTTC 61.056 66.667 6.56 0.00 39.35 3.62
238 239 4.660938 GGCTCCAGGGCGTTGGTT 62.661 66.667 6.56 0.00 39.35 3.67
245 246 4.106925 CTCCACTGGCTCCAGGGC 62.107 72.222 19.13 0.00 45.54 5.19
255 256 4.659172 TTTGCCCCGGCTCCACTG 62.659 66.667 7.35 0.00 42.51 3.66
256 257 1.858739 TATTTTGCCCCGGCTCCACT 61.859 55.000 7.35 0.00 42.51 4.00
258 259 1.379309 GTATTTTGCCCCGGCTCCA 60.379 57.895 7.35 0.00 42.51 3.86
259 260 0.968393 TTGTATTTTGCCCCGGCTCC 60.968 55.000 7.35 0.00 42.51 4.70
260 261 0.892063 TTTGTATTTTGCCCCGGCTC 59.108 50.000 7.35 0.00 42.51 4.70
261 262 0.894835 CTTTGTATTTTGCCCCGGCT 59.105 50.000 7.35 0.00 42.51 5.52
262 263 0.108377 CCTTTGTATTTTGCCCCGGC 60.108 55.000 0.00 0.00 42.35 6.13
263 264 0.534873 CCCTTTGTATTTTGCCCCGG 59.465 55.000 0.00 0.00 0.00 5.73
264 265 0.534873 CCCCTTTGTATTTTGCCCCG 59.465 55.000 0.00 0.00 0.00 5.73
265 266 1.277842 CACCCCTTTGTATTTTGCCCC 59.722 52.381 0.00 0.00 0.00 5.80
266 267 1.974957 ACACCCCTTTGTATTTTGCCC 59.025 47.619 0.00 0.00 0.00 5.36
267 268 2.870035 GCACACCCCTTTGTATTTTGCC 60.870 50.000 0.00 0.00 0.00 4.52
268 269 2.037121 AGCACACCCCTTTGTATTTTGC 59.963 45.455 0.00 0.00 0.00 3.68
269 270 3.573967 AGAGCACACCCCTTTGTATTTTG 59.426 43.478 0.00 0.00 0.00 2.44
270 271 3.844640 AGAGCACACCCCTTTGTATTTT 58.155 40.909 0.00 0.00 0.00 1.82
271 272 3.525800 AGAGCACACCCCTTTGTATTT 57.474 42.857 0.00 0.00 0.00 1.40
272 273 4.862641 ATAGAGCACACCCCTTTGTATT 57.137 40.909 0.00 0.00 0.00 1.89
273 274 4.348168 CCTATAGAGCACACCCCTTTGTAT 59.652 45.833 0.00 0.00 0.00 2.29
274 275 3.709653 CCTATAGAGCACACCCCTTTGTA 59.290 47.826 0.00 0.00 0.00 2.41
275 276 2.505819 CCTATAGAGCACACCCCTTTGT 59.494 50.000 0.00 0.00 0.00 2.83
276 277 2.746472 GCCTATAGAGCACACCCCTTTG 60.746 54.545 0.00 0.00 0.00 2.77
277 278 1.490910 GCCTATAGAGCACACCCCTTT 59.509 52.381 0.00 0.00 0.00 3.11
278 279 1.132500 GCCTATAGAGCACACCCCTT 58.868 55.000 0.00 0.00 0.00 3.95
279 280 0.031111 TGCCTATAGAGCACACCCCT 60.031 55.000 10.69 0.00 34.69 4.79
280 281 1.059913 ATGCCTATAGAGCACACCCC 58.940 55.000 15.38 0.00 44.40 4.95
281 282 2.880890 CAAATGCCTATAGAGCACACCC 59.119 50.000 15.38 0.00 44.40 4.61
282 283 2.291741 GCAAATGCCTATAGAGCACACC 59.708 50.000 15.38 4.56 44.40 4.16
283 284 3.615849 GCAAATGCCTATAGAGCACAC 57.384 47.619 15.38 5.10 44.40 3.82
296 297 0.667184 CGGTCTTTGTGGGCAAATGC 60.667 55.000 0.00 0.00 42.88 3.56
297 298 0.038343 CCGGTCTTTGTGGGCAAATG 60.038 55.000 0.00 0.00 42.88 2.32
298 299 0.469144 ACCGGTCTTTGTGGGCAAAT 60.469 50.000 0.00 0.00 42.88 2.32
299 300 1.076632 ACCGGTCTTTGTGGGCAAA 60.077 52.632 0.00 0.00 41.77 3.68
300 301 1.826054 CACCGGTCTTTGTGGGCAA 60.826 57.895 2.59 0.00 0.00 4.52
301 302 2.063015 ATCACCGGTCTTTGTGGGCA 62.063 55.000 2.59 0.00 33.29 5.36
302 303 1.303317 ATCACCGGTCTTTGTGGGC 60.303 57.895 2.59 0.00 33.29 5.36
303 304 0.036164 TCATCACCGGTCTTTGTGGG 59.964 55.000 2.59 0.00 33.29 4.61
304 305 1.890876 TTCATCACCGGTCTTTGTGG 58.109 50.000 2.59 0.00 33.29 4.17
305 306 3.753272 AGAATTCATCACCGGTCTTTGTG 59.247 43.478 2.59 0.00 0.00 3.33
306 307 4.003648 GAGAATTCATCACCGGTCTTTGT 58.996 43.478 2.59 0.00 0.00 2.83
307 308 4.002982 TGAGAATTCATCACCGGTCTTTG 58.997 43.478 2.59 2.36 0.00 2.77
308 309 4.256920 CTGAGAATTCATCACCGGTCTTT 58.743 43.478 2.59 0.00 31.68 2.52
309 310 3.261897 ACTGAGAATTCATCACCGGTCTT 59.738 43.478 2.59 0.00 31.68 3.01
310 311 2.834549 ACTGAGAATTCATCACCGGTCT 59.165 45.455 2.59 0.00 31.68 3.85
311 312 3.252974 ACTGAGAATTCATCACCGGTC 57.747 47.619 2.59 0.00 31.68 4.79
312 313 3.703001 AACTGAGAATTCATCACCGGT 57.297 42.857 0.00 0.00 31.68 5.28
313 314 4.256920 AGAAACTGAGAATTCATCACCGG 58.743 43.478 8.44 0.00 31.68 5.28
314 315 5.869753 AAGAAACTGAGAATTCATCACCG 57.130 39.130 8.44 1.42 31.68 4.94
315 316 7.389053 ACACTAAGAAACTGAGAATTCATCACC 59.611 37.037 8.44 0.00 31.68 4.02
316 317 8.316640 ACACTAAGAAACTGAGAATTCATCAC 57.683 34.615 8.44 0.00 31.68 3.06
317 318 9.996554 TTACACTAAGAAACTGAGAATTCATCA 57.003 29.630 8.44 7.68 31.68 3.07
337 338 9.869757 GCCCAAATACTTTCATTAAATTACACT 57.130 29.630 0.00 0.00 0.00 3.55
338 339 9.646427 TGCCCAAATACTTTCATTAAATTACAC 57.354 29.630 0.00 0.00 0.00 2.90
339 340 9.868277 CTGCCCAAATACTTTCATTAAATTACA 57.132 29.630 0.00 0.00 0.00 2.41
342 343 7.765819 GCTCTGCCCAAATACTTTCATTAAATT 59.234 33.333 0.00 0.00 0.00 1.82
343 344 7.267857 GCTCTGCCCAAATACTTTCATTAAAT 58.732 34.615 0.00 0.00 0.00 1.40
344 345 6.350949 GGCTCTGCCCAAATACTTTCATTAAA 60.351 38.462 0.00 0.00 44.06 1.52
345 346 5.127031 GGCTCTGCCCAAATACTTTCATTAA 59.873 40.000 0.00 0.00 44.06 1.40
346 347 4.644685 GGCTCTGCCCAAATACTTTCATTA 59.355 41.667 0.00 0.00 44.06 1.90
347 348 3.448660 GGCTCTGCCCAAATACTTTCATT 59.551 43.478 0.00 0.00 44.06 2.57
348 349 3.026694 GGCTCTGCCCAAATACTTTCAT 58.973 45.455 0.00 0.00 44.06 2.57
349 350 2.446435 GGCTCTGCCCAAATACTTTCA 58.554 47.619 0.00 0.00 44.06 2.69
396 397 3.984193 GATTGCGGCTCCAGGCAGT 62.984 63.158 0.00 0.00 44.01 4.40
397 398 3.207669 GATTGCGGCTCCAGGCAG 61.208 66.667 0.00 0.00 44.01 4.85
398 399 3.348554 ATGATTGCGGCTCCAGGCA 62.349 57.895 0.00 0.00 44.01 4.75
399 400 2.517875 ATGATTGCGGCTCCAGGC 60.518 61.111 0.00 0.00 40.90 4.85
404 405 1.421410 AACGACGATGATTGCGGCTC 61.421 55.000 0.00 0.00 33.81 4.70
406 407 1.296867 CAACGACGATGATTGCGGC 60.297 57.895 0.00 0.00 0.00 6.53
412 413 5.163652 TGTCAGATACTTCAACGACGATGAT 60.164 40.000 8.72 0.00 0.00 2.45
428 447 2.905075 CGGCAGATTTGGTGTCAGATA 58.095 47.619 0.00 0.00 0.00 1.98
430 449 0.955428 GCGGCAGATTTGGTGTCAGA 60.955 55.000 0.00 0.00 0.00 3.27
431 450 1.503542 GCGGCAGATTTGGTGTCAG 59.496 57.895 0.00 0.00 0.00 3.51
563 1238 2.427812 TGTGGGCGATCGTATTGTCTTA 59.572 45.455 17.81 0.00 0.00 2.10
574 1249 1.175983 TTGGGTTGTTGTGGGCGATC 61.176 55.000 0.00 0.00 0.00 3.69
675 1355 4.570874 GGCGGGAGGGGAGAATGC 62.571 72.222 0.00 0.00 0.00 3.56
738 1418 1.705186 CAGGAGGGAAGAGGAAACCAA 59.295 52.381 0.00 0.00 0.00 3.67
740 1420 0.034960 GCAGGAGGGAAGAGGAAACC 60.035 60.000 0.00 0.00 0.00 3.27
741 1421 0.988063 AGCAGGAGGGAAGAGGAAAC 59.012 55.000 0.00 0.00 0.00 2.78
742 1422 1.280457 GAGCAGGAGGGAAGAGGAAA 58.720 55.000 0.00 0.00 0.00 3.13
743 1423 0.117140 TGAGCAGGAGGGAAGAGGAA 59.883 55.000 0.00 0.00 0.00 3.36
744 1424 0.616111 GTGAGCAGGAGGGAAGAGGA 60.616 60.000 0.00 0.00 0.00 3.71
745 1425 1.621672 GGTGAGCAGGAGGGAAGAGG 61.622 65.000 0.00 0.00 0.00 3.69
746 1426 1.621672 GGGTGAGCAGGAGGGAAGAG 61.622 65.000 0.00 0.00 0.00 2.85
747 1427 1.613630 GGGTGAGCAGGAGGGAAGA 60.614 63.158 0.00 0.00 0.00 2.87
748 1428 1.614824 AGGGTGAGCAGGAGGGAAG 60.615 63.158 0.00 0.00 0.00 3.46
749 1429 1.613630 GAGGGTGAGCAGGAGGGAA 60.614 63.158 0.00 0.00 0.00 3.97
750 1430 2.039624 GAGGGTGAGCAGGAGGGA 59.960 66.667 0.00 0.00 0.00 4.20
753 1433 4.154347 GGCGAGGGTGAGCAGGAG 62.154 72.222 0.00 0.00 34.54 3.69
758 1438 2.512515 GTGATGGCGAGGGTGAGC 60.513 66.667 0.00 0.00 0.00 4.26
765 1445 2.969238 GCCGATGGTGATGGCGAG 60.969 66.667 0.00 0.00 39.30 5.03
824 1504 4.499188 CGTGGAGGTATATATGGTATGGCG 60.499 50.000 0.00 0.00 0.00 5.69
825 1505 4.739735 GCGTGGAGGTATATATGGTATGGC 60.740 50.000 0.00 0.00 0.00 4.40
827 1507 4.649674 AGGCGTGGAGGTATATATGGTATG 59.350 45.833 0.00 0.00 0.00 2.39
828 1508 4.880164 AGGCGTGGAGGTATATATGGTAT 58.120 43.478 0.00 0.00 0.00 2.73
829 1509 4.275810 GAGGCGTGGAGGTATATATGGTA 58.724 47.826 0.00 0.00 0.00 3.25
830 1510 3.097614 GAGGCGTGGAGGTATATATGGT 58.902 50.000 0.00 0.00 0.00 3.55
878 1558 0.622665 GAGCTATGGATGGATGGGGG 59.377 60.000 0.00 0.00 0.00 5.40
879 1559 1.558756 GAGAGCTATGGATGGATGGGG 59.441 57.143 0.00 0.00 0.00 4.96
880 1560 1.558756 GGAGAGCTATGGATGGATGGG 59.441 57.143 0.00 0.00 0.00 4.00
881 1561 2.263545 TGGAGAGCTATGGATGGATGG 58.736 52.381 0.00 0.00 0.00 3.51
939 1620 0.606673 GCCGGAGAGCCTTCTTTGTT 60.607 55.000 5.05 0.00 32.53 2.83
941 1624 0.742635 GAGCCGGAGAGCCTTCTTTG 60.743 60.000 5.05 0.00 32.53 2.77
943 1626 0.033011 TAGAGCCGGAGAGCCTTCTT 60.033 55.000 5.05 0.00 32.53 2.52
994 1679 1.447643 CGTGCTCCCCCATTAGAGG 59.552 63.158 0.00 0.00 0.00 3.69
1080 1765 4.228567 GAGGAGCCCCTACGCTGC 62.229 72.222 0.00 0.00 46.68 5.25
1081 1766 3.905678 CGAGGAGCCCCTACGCTG 61.906 72.222 0.00 0.00 44.53 5.18
1308 2002 1.439644 CTGCGGCTTCTCCTCTACC 59.560 63.158 0.00 0.00 0.00 3.18
1371 2065 2.664851 TCCTGTTGCGCCACGAAG 60.665 61.111 4.18 0.00 0.00 3.79
1547 2244 2.892425 GCAAGTCGGGAGCCATCG 60.892 66.667 0.00 0.00 0.00 3.84
1548 2245 1.817099 CAGCAAGTCGGGAGCCATC 60.817 63.158 0.00 0.00 0.00 3.51
1549 2246 2.270205 CAGCAAGTCGGGAGCCAT 59.730 61.111 0.00 0.00 0.00 4.40
1697 2400 5.725822 AGAGAAAAGAATCCAGTCCTCTCAT 59.274 40.000 0.00 0.00 0.00 2.90
1704 2407 6.593770 GGAAGAAGAGAGAAAAGAATCCAGTC 59.406 42.308 0.00 0.00 0.00 3.51
1739 2442 8.192774 AGACCATTGCAGTAAATTATGTTCATG 58.807 33.333 0.00 0.00 0.00 3.07
1756 2459 4.518970 TGTAAGTTCTTCCAAGACCATTGC 59.481 41.667 0.00 0.00 34.13 3.56
1777 2480 1.185315 GTATTTGCAGCCATGGGTGT 58.815 50.000 37.07 23.72 44.52 4.16
1787 2494 9.547753 ACCTTACATAATCACTAGTATTTGCAG 57.452 33.333 0.00 0.00 0.00 4.41
1905 2785 6.043590 TCCACATGGCACTATCAAGATAGAAT 59.956 38.462 20.71 8.18 38.61 2.40
1906 2786 5.366477 TCCACATGGCACTATCAAGATAGAA 59.634 40.000 20.71 6.56 38.61 2.10
1907 2787 4.901250 TCCACATGGCACTATCAAGATAGA 59.099 41.667 20.71 2.15 38.61 1.98
1908 2788 5.011431 TCTCCACATGGCACTATCAAGATAG 59.989 44.000 14.02 14.02 39.82 2.08
1909 2789 4.901250 TCTCCACATGGCACTATCAAGATA 59.099 41.667 0.00 0.00 34.44 1.98
1910 2790 3.713248 TCTCCACATGGCACTATCAAGAT 59.287 43.478 0.00 0.00 34.44 2.40
1938 2818 5.180271 AGTTTTCAAACCGTCACTGTTCTA 58.820 37.500 0.00 0.00 39.71 2.10
1949 2829 3.991605 ATCGATCGAGTTTTCAAACCG 57.008 42.857 23.84 3.51 39.71 4.44
1955 2835 2.787680 CACCGGTATCGATCGAGTTTTC 59.212 50.000 23.84 10.81 39.00 2.29
1963 2843 1.067212 AGAAGTGCACCGGTATCGATC 59.933 52.381 14.63 3.55 39.00 3.69
2016 4653 8.698973 TTTCCAGTTTGAGTATGGTTTTGATA 57.301 30.769 0.00 0.00 35.51 2.15
2022 4659 9.927668 CAAAATATTTCCAGTTTGAGTATGGTT 57.072 29.630 0.10 0.00 35.96 3.67
2023 4660 9.088987 ACAAAATATTTCCAGTTTGAGTATGGT 57.911 29.630 0.10 0.00 37.05 3.55
2048 4716 5.574443 GCTCCATCTTGTGCAAAAAGAATAC 59.426 40.000 15.03 3.18 44.83 1.89
2083 4751 4.162131 TCTGGTGCAGCTACTGAATTGATA 59.838 41.667 18.08 0.00 32.44 2.15
2112 4780 4.019860 ACAGACACCACTTATCAGAGCATT 60.020 41.667 0.00 0.00 0.00 3.56
2177 4847 6.183360 GCAGCTTTTCATAGTCACATACACAT 60.183 38.462 0.00 0.00 0.00 3.21
2278 4948 3.970610 GCTGCATATTGCTAATGACAACG 59.029 43.478 0.00 0.00 45.31 4.10
2371 5206 3.058293 TGTTTAAGATGCCAGAACAAGCG 60.058 43.478 0.00 0.00 0.00 4.68
2558 5414 2.828933 GACAAGGAGTCGGCTGAAC 58.171 57.895 0.00 0.00 37.53 3.18


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

AutoCloner maintained by Alex Coulton.