Multiple sequence alignment - TraesCS7D01G127000

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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 TraesCS7D01G127000 chr7D 100.000 2444 0 0 1 2444 79521297 79523740 0.000000e+00 4514.0
1 TraesCS7D01G127000 chr7D 75.676 185 36 7 2263 2444 105252270 105252448 1.560000e-12 84.2
2 TraesCS7D01G127000 chr7A 89.710 1584 65 40 331 1888 82175831 82177342 0.000000e+00 1932.0
3 TraesCS7D01G127000 chr7A 89.730 555 46 7 1887 2438 82177499 82178045 0.000000e+00 699.0
4 TraesCS7D01G127000 chr7A 82.517 143 10 10 1 141 82175708 82175837 7.140000e-21 111.0
5 TraesCS7D01G127000 chr7B 89.342 1595 64 49 326 1847 26690764 26692325 0.000000e+00 1906.0
6 TraesCS7D01G127000 chr7B 90.333 600 45 9 1845 2439 26692356 26692947 0.000000e+00 774.0
7 TraesCS7D01G127000 chr7B 90.323 155 6 4 1 150 26690555 26690705 6.900000e-46 195.0
8 TraesCS7D01G127000 chr2D 95.139 144 7 0 167 310 80208758 80208615 6.800000e-56 228.0
9 TraesCS7D01G127000 chr1D 95.745 141 6 0 167 307 460656162 460656302 6.800000e-56 228.0
10 TraesCS7D01G127000 chr1D 94.531 128 6 1 164 290 460314121 460314248 1.920000e-46 196.0
11 TraesCS7D01G127000 chr5B 94.406 143 8 0 168 310 532584419 532584561 1.140000e-53 220.0
12 TraesCS7D01G127000 chr5B 97.414 116 3 0 1902 2017 557738356 557738241 5.330000e-47 198.0
13 TraesCS7D01G127000 chr5B 97.345 113 3 0 1902 2014 253036994 253037106 2.480000e-45 193.0
14 TraesCS7D01G127000 chr4D 91.724 145 12 0 167 311 406208052 406208196 4.120000e-48 202.0
15 TraesCS7D01G127000 chr1B 92.254 142 11 0 168 309 624673834 624673975 4.120000e-48 202.0
16 TraesCS7D01G127000 chr1B 97.345 113 3 0 1902 2014 20453847 20453959 2.480000e-45 193.0
17 TraesCS7D01G127000 chr4A 92.143 140 11 0 168 307 140764465 140764326 5.330000e-47 198.0
18 TraesCS7D01G127000 chr4A 91.549 142 8 3 168 307 144019902 144019763 2.480000e-45 193.0
19 TraesCS7D01G127000 chr3B 97.414 116 3 0 1902 2017 89816652 89816537 5.330000e-47 198.0
20 TraesCS7D01G127000 chr3B 98.230 113 2 0 1902 2014 220472503 220472615 5.330000e-47 198.0
21 TraesCS7D01G127000 chr2B 97.414 116 3 0 1902 2017 545923281 545923166 5.330000e-47 198.0
22 TraesCS7D01G127000 chr2B 76.744 172 34 6 2276 2444 769308225 769308393 9.310000e-15 91.6
23 TraesCS7D01G127000 chr2B 76.744 172 34 6 2276 2444 769336696 769336864 9.310000e-15 91.6
24 TraesCS7D01G127000 chr2B 76.744 172 34 6 2276 2444 769429698 769429866 9.310000e-15 91.6
25 TraesCS7D01G127000 chr1A 96.552 116 4 0 1902 2017 565237070 565236955 2.480000e-45 193.0
26 TraesCS7D01G127000 chr6D 94.118 85 5 0 167 251 432845003 432844919 1.970000e-26 130.0
27 TraesCS7D01G127000 chr6D 95.122 41 2 0 270 310 432844918 432844878 5.640000e-07 65.8
28 TraesCS7D01G127000 chr5A 77.647 170 34 4 2276 2444 559839604 559839438 1.550000e-17 100.0
29 TraesCS7D01G127000 chrUn 76.744 172 34 6 2276 2444 316525747 316525915 9.310000e-15 91.6
30 TraesCS7D01G127000 chrUn 76.744 172 34 6 2276 2444 316535238 316535070 9.310000e-15 91.6


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 TraesCS7D01G127000 chr7D 79521297 79523740 2443 False 4514.000000 4514 100.000000 1 2444 1 chr7D.!!$F1 2443
1 TraesCS7D01G127000 chr7A 82175708 82178045 2337 False 914.000000 1932 87.319000 1 2438 3 chr7A.!!$F1 2437
2 TraesCS7D01G127000 chr7B 26690555 26692947 2392 False 958.333333 1906 89.999333 1 2439 3 chr7B.!!$F1 2438

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
200 210 0.037605 ACGATCAACTCCCGTCCAAC 60.038 55.0 0.0 0.0 29.82 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1794 1905 0.392863 TGGCGCAATGTATGTCTGCT 60.393 50.0 10.83 0.0 33.82 4.24 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
61 70 3.797039 TCCATTCATGCTAGCACAGTAC 58.203 45.455 22.07 0.00 0.00 2.73
62 71 2.541346 CCATTCATGCTAGCACAGTACG 59.459 50.000 22.07 7.21 0.00 3.67
63 72 3.190079 CATTCATGCTAGCACAGTACGT 58.810 45.455 22.07 0.00 0.00 3.57
64 73 4.359706 CATTCATGCTAGCACAGTACGTA 58.640 43.478 22.07 0.00 0.00 3.57
95 104 2.159240 TGCTCACACGTCAGGATACATC 60.159 50.000 0.00 0.00 41.41 3.06
113 122 3.941483 ACATCCACGCAGAGAAATTAAGG 59.059 43.478 0.00 0.00 0.00 2.69
134 143 3.244181 GGGAGGCAATGAAAGCAAGAAAA 60.244 43.478 0.00 0.00 0.00 2.29
145 155 6.449698 TGAAAGCAAGAAAAATCATGGAGAC 58.550 36.000 0.00 0.00 0.00 3.36
160 170 2.838202 TGGAGACAGAGGTGATAAACCC 59.162 50.000 0.00 0.00 42.86 4.11
161 171 3.504156 TGGAGACAGAGGTGATAAACCCT 60.504 47.826 0.00 0.00 42.86 4.34
162 172 5.006277 TGGAGACAGAGGTGATAAACCCTT 61.006 45.833 0.00 0.00 42.86 3.95
171 181 5.801531 GGTGATAAACCCTTCAAAACCTT 57.198 39.130 0.00 0.00 44.02 3.50
172 182 5.538118 GGTGATAAACCCTTCAAAACCTTG 58.462 41.667 0.00 0.00 44.02 3.61
174 184 4.898861 TGATAAACCCTTCAAAACCTTGCT 59.101 37.500 0.00 0.00 32.14 3.91
175 185 6.015772 GTGATAAACCCTTCAAAACCTTGCTA 60.016 38.462 0.00 0.00 32.14 3.49
176 186 6.723977 TGATAAACCCTTCAAAACCTTGCTAT 59.276 34.615 0.00 0.00 32.14 2.97
177 187 7.891183 TGATAAACCCTTCAAAACCTTGCTATA 59.109 33.333 0.00 0.00 32.14 1.31
178 188 5.977489 AACCCTTCAAAACCTTGCTATAC 57.023 39.130 0.00 0.00 32.14 1.47
180 190 4.007659 CCCTTCAAAACCTTGCTATACGT 58.992 43.478 0.00 0.00 32.14 3.57
181 191 5.180271 CCCTTCAAAACCTTGCTATACGTA 58.820 41.667 0.00 0.00 32.14 3.57
182 192 5.064325 CCCTTCAAAACCTTGCTATACGTAC 59.936 44.000 0.00 0.00 32.14 3.67
185 195 5.653507 TCAAAACCTTGCTATACGTACGAT 58.346 37.500 24.41 13.27 32.14 3.73
186 196 5.745294 TCAAAACCTTGCTATACGTACGATC 59.255 40.000 24.41 6.19 32.14 3.69
187 197 4.906065 AACCTTGCTATACGTACGATCA 57.094 40.909 24.41 6.86 0.00 2.92
189 199 4.604976 ACCTTGCTATACGTACGATCAAC 58.395 43.478 24.41 8.74 0.00 3.18
190 200 4.337555 ACCTTGCTATACGTACGATCAACT 59.662 41.667 24.41 0.00 0.00 3.16
191 201 4.910456 CCTTGCTATACGTACGATCAACTC 59.090 45.833 24.41 5.14 0.00 3.01
192 202 4.478843 TGCTATACGTACGATCAACTCC 57.521 45.455 24.41 2.89 0.00 3.85
193 203 3.251729 TGCTATACGTACGATCAACTCCC 59.748 47.826 24.41 1.57 0.00 4.30
194 204 3.666374 GCTATACGTACGATCAACTCCCG 60.666 52.174 24.41 0.07 0.00 5.14
195 205 1.737838 TACGTACGATCAACTCCCGT 58.262 50.000 24.41 0.00 39.94 5.28
197 207 0.248377 CGTACGATCAACTCCCGTCC 60.248 60.000 10.44 0.00 37.69 4.79
200 210 0.037605 ACGATCAACTCCCGTCCAAC 60.038 55.000 0.00 0.00 29.82 3.77
201 211 0.037697 CGATCAACTCCCGTCCAACA 60.038 55.000 0.00 0.00 0.00 3.33
202 212 1.405526 CGATCAACTCCCGTCCAACAT 60.406 52.381 0.00 0.00 0.00 2.71
203 213 2.009774 GATCAACTCCCGTCCAACATG 58.990 52.381 0.00 0.00 0.00 3.21
205 215 1.972075 TCAACTCCCGTCCAACATGTA 59.028 47.619 0.00 0.00 0.00 2.29
206 216 2.073816 CAACTCCCGTCCAACATGTAC 58.926 52.381 0.00 0.00 0.00 2.90
207 217 0.245539 ACTCCCGTCCAACATGTACG 59.754 55.000 11.77 11.77 36.42 3.67
210 220 1.551430 TCCCGTCCAACATGTACGATT 59.449 47.619 18.73 0.00 38.89 3.34
211 221 1.663643 CCCGTCCAACATGTACGATTG 59.336 52.381 18.73 4.51 38.89 2.67
212 222 2.612604 CCGTCCAACATGTACGATTGA 58.387 47.619 18.73 0.00 38.89 2.57
213 223 2.997303 CCGTCCAACATGTACGATTGAA 59.003 45.455 18.73 0.00 38.89 2.69
214 224 3.062099 CCGTCCAACATGTACGATTGAAG 59.938 47.826 18.73 0.00 38.89 3.02
215 225 3.924073 CGTCCAACATGTACGATTGAAGA 59.076 43.478 13.15 0.00 38.89 2.87
216 226 4.201589 CGTCCAACATGTACGATTGAAGAC 60.202 45.833 13.15 4.37 38.89 3.01
217 227 4.688879 GTCCAACATGTACGATTGAAGACA 59.311 41.667 0.00 0.00 0.00 3.41
218 228 5.178623 GTCCAACATGTACGATTGAAGACAA 59.821 40.000 0.00 0.00 40.42 3.18
219 229 5.760743 TCCAACATGTACGATTGAAGACAAA 59.239 36.000 0.00 0.00 39.54 2.83
220 230 6.261158 TCCAACATGTACGATTGAAGACAAAA 59.739 34.615 0.00 0.00 39.54 2.44
221 231 7.040755 TCCAACATGTACGATTGAAGACAAAAT 60.041 33.333 0.00 0.00 39.54 1.82
222 232 7.060979 CCAACATGTACGATTGAAGACAAAATG 59.939 37.037 0.00 0.00 39.54 2.32
223 233 7.202016 ACATGTACGATTGAAGACAAAATGT 57.798 32.000 0.00 0.00 39.54 2.71
224 234 8.317891 ACATGTACGATTGAAGACAAAATGTA 57.682 30.769 0.00 0.00 39.54 2.29
225 235 8.443160 ACATGTACGATTGAAGACAAAATGTAG 58.557 33.333 0.00 0.00 39.54 2.74
226 236 8.655970 CATGTACGATTGAAGACAAAATGTAGA 58.344 33.333 0.00 0.00 39.54 2.59
227 237 8.771920 TGTACGATTGAAGACAAAATGTAGAT 57.228 30.769 0.00 0.00 39.54 1.98
228 238 8.655970 TGTACGATTGAAGACAAAATGTAGATG 58.344 33.333 0.00 0.00 39.54 2.90
229 239 7.905604 ACGATTGAAGACAAAATGTAGATGA 57.094 32.000 0.00 0.00 39.54 2.92
230 240 8.498054 ACGATTGAAGACAAAATGTAGATGAT 57.502 30.769 0.00 0.00 39.54 2.45
231 241 8.607459 ACGATTGAAGACAAAATGTAGATGATC 58.393 33.333 0.00 0.00 39.54 2.92
232 242 8.066595 CGATTGAAGACAAAATGTAGATGATCC 58.933 37.037 0.00 0.00 39.54 3.36
233 243 8.812513 ATTGAAGACAAAATGTAGATGATCCA 57.187 30.769 0.00 0.00 39.54 3.41
234 244 7.854557 TGAAGACAAAATGTAGATGATCCAG 57.145 36.000 0.00 0.00 0.00 3.86
235 245 7.397221 TGAAGACAAAATGTAGATGATCCAGT 58.603 34.615 0.00 0.00 0.00 4.00
236 246 7.884877 TGAAGACAAAATGTAGATGATCCAGTT 59.115 33.333 0.00 0.00 0.00 3.16
237 247 8.641498 AAGACAAAATGTAGATGATCCAGTTT 57.359 30.769 0.00 0.00 0.00 2.66
238 248 8.048534 AGACAAAATGTAGATGATCCAGTTTG 57.951 34.615 17.03 17.03 44.89 2.93
239 249 7.765695 ACAAAATGTAGATGATCCAGTTTGT 57.234 32.000 17.95 17.95 46.34 2.83
249 259 2.192605 CCAGTTTGTGGGCCATAGC 58.807 57.895 10.70 4.00 43.63 2.97
250 260 0.611618 CCAGTTTGTGGGCCATAGCA 60.612 55.000 10.70 0.00 43.63 3.49
251 261 1.477553 CAGTTTGTGGGCCATAGCAT 58.522 50.000 10.70 0.00 42.56 3.79
252 262 1.826720 CAGTTTGTGGGCCATAGCATT 59.173 47.619 10.70 0.00 42.56 3.56
253 263 2.234414 CAGTTTGTGGGCCATAGCATTT 59.766 45.455 10.70 0.00 42.56 2.32
254 264 2.234414 AGTTTGTGGGCCATAGCATTTG 59.766 45.455 10.70 0.00 42.56 2.32
255 265 0.536260 TTGTGGGCCATAGCATTTGC 59.464 50.000 10.70 0.00 42.56 3.68
256 266 0.614134 TGTGGGCCATAGCATTTGCA 60.614 50.000 10.70 0.00 45.16 4.08
257 267 0.103572 GTGGGCCATAGCATTTGCAG 59.896 55.000 10.70 0.00 45.16 4.41
258 268 0.324552 TGGGCCATAGCATTTGCAGT 60.325 50.000 0.00 0.00 45.16 4.40
259 269 0.386838 GGGCCATAGCATTTGCAGTC 59.613 55.000 4.39 0.00 45.16 3.51
260 270 1.396653 GGCCATAGCATTTGCAGTCT 58.603 50.000 0.00 0.00 45.16 3.24
261 271 1.066605 GGCCATAGCATTTGCAGTCTG 59.933 52.381 0.00 0.00 45.16 3.51
262 272 1.066605 GCCATAGCATTTGCAGTCTGG 59.933 52.381 5.20 6.79 45.16 3.86
263 273 2.372264 CCATAGCATTTGCAGTCTGGT 58.628 47.619 5.20 0.00 45.16 4.00
264 274 2.357009 CCATAGCATTTGCAGTCTGGTC 59.643 50.000 5.20 0.00 45.16 4.02
265 275 1.725641 TAGCATTTGCAGTCTGGTCG 58.274 50.000 5.20 0.00 45.16 4.79
266 276 0.250467 AGCATTTGCAGTCTGGTCGT 60.250 50.000 5.20 0.00 45.16 4.34
267 277 1.001974 AGCATTTGCAGTCTGGTCGTA 59.998 47.619 5.20 0.00 45.16 3.43
268 278 2.009774 GCATTTGCAGTCTGGTCGTAT 58.990 47.619 1.14 0.00 41.59 3.06
269 279 3.118775 AGCATTTGCAGTCTGGTCGTATA 60.119 43.478 5.20 0.00 45.16 1.47
270 280 3.246226 GCATTTGCAGTCTGGTCGTATAG 59.754 47.826 1.14 0.00 41.59 1.31
271 281 2.579207 TTGCAGTCTGGTCGTATAGC 57.421 50.000 1.14 0.00 0.00 2.97
272 282 1.763968 TGCAGTCTGGTCGTATAGCT 58.236 50.000 1.14 0.00 0.00 3.32
273 283 2.927028 TGCAGTCTGGTCGTATAGCTA 58.073 47.619 1.14 0.00 0.00 3.32
274 284 3.487372 TGCAGTCTGGTCGTATAGCTAT 58.513 45.455 11.77 11.77 0.00 2.97
275 285 3.502595 TGCAGTCTGGTCGTATAGCTATC 59.497 47.826 10.16 1.44 0.00 2.08
276 286 3.119779 GCAGTCTGGTCGTATAGCTATCC 60.120 52.174 10.16 5.86 0.00 2.59
277 287 4.072839 CAGTCTGGTCGTATAGCTATCCA 58.927 47.826 10.16 10.41 0.00 3.41
278 288 4.519350 CAGTCTGGTCGTATAGCTATCCAA 59.481 45.833 10.16 0.63 0.00 3.53
279 289 4.519730 AGTCTGGTCGTATAGCTATCCAAC 59.480 45.833 10.16 11.42 0.00 3.77
280 290 4.277672 GTCTGGTCGTATAGCTATCCAACA 59.722 45.833 10.16 3.41 0.00 3.33
281 291 4.891168 TCTGGTCGTATAGCTATCCAACAA 59.109 41.667 10.16 0.00 0.00 2.83
282 292 5.361571 TCTGGTCGTATAGCTATCCAACAAA 59.638 40.000 10.16 0.00 0.00 2.83
283 293 5.979993 TGGTCGTATAGCTATCCAACAAAA 58.020 37.500 10.16 0.00 0.00 2.44
284 294 6.408035 TGGTCGTATAGCTATCCAACAAAAA 58.592 36.000 10.16 0.00 0.00 1.94
285 295 7.051623 TGGTCGTATAGCTATCCAACAAAAAT 58.948 34.615 10.16 0.00 0.00 1.82
286 296 7.554835 TGGTCGTATAGCTATCCAACAAAAATT 59.445 33.333 10.16 0.00 0.00 1.82
287 297 9.048446 GGTCGTATAGCTATCCAACAAAAATTA 57.952 33.333 10.16 0.00 0.00 1.40
295 305 8.120465 AGCTATCCAACAAAAATTAATCGTACG 58.880 33.333 9.53 9.53 0.00 3.67
296 306 7.097168 GCTATCCAACAAAAATTAATCGTACGC 60.097 37.037 11.24 0.00 0.00 4.42
297 307 5.998553 TCCAACAAAAATTAATCGTACGCA 58.001 33.333 11.24 0.00 0.00 5.24
298 308 6.081049 TCCAACAAAAATTAATCGTACGCAG 58.919 36.000 11.24 0.00 0.00 5.18
299 309 6.073167 TCCAACAAAAATTAATCGTACGCAGA 60.073 34.615 11.24 0.00 0.00 4.26
300 310 6.248420 CCAACAAAAATTAATCGTACGCAGAG 59.752 38.462 11.24 0.00 0.00 3.35
301 311 5.321516 ACAAAAATTAATCGTACGCAGAGC 58.678 37.500 11.24 0.00 0.00 4.09
302 312 5.121768 ACAAAAATTAATCGTACGCAGAGCT 59.878 36.000 11.24 0.00 0.00 4.09
303 313 4.778842 AAATTAATCGTACGCAGAGCTG 57.221 40.909 11.24 0.00 0.00 4.24
304 314 2.933495 TTAATCGTACGCAGAGCTGT 57.067 45.000 11.24 0.00 0.00 4.40
305 315 2.933495 TAATCGTACGCAGAGCTGTT 57.067 45.000 11.24 0.00 0.00 3.16
306 316 2.080286 AATCGTACGCAGAGCTGTTT 57.920 45.000 11.24 0.00 0.00 2.83
307 317 1.630148 ATCGTACGCAGAGCTGTTTC 58.370 50.000 11.24 0.00 0.00 2.78
308 318 0.728129 TCGTACGCAGAGCTGTTTCG 60.728 55.000 11.24 0.00 0.00 3.46
309 319 1.002250 CGTACGCAGAGCTGTTTCGT 61.002 55.000 0.52 11.68 37.19 3.85
310 320 1.726892 CGTACGCAGAGCTGTTTCGTA 60.727 52.381 0.52 10.00 34.97 3.43
311 321 2.322161 GTACGCAGAGCTGTTTCGTAA 58.678 47.619 14.12 0.81 37.37 3.18
312 322 1.860676 ACGCAGAGCTGTTTCGTAAA 58.139 45.000 6.19 0.00 0.00 2.01
313 323 1.525619 ACGCAGAGCTGTTTCGTAAAC 59.474 47.619 6.19 4.24 41.73 2.01
314 324 1.136336 CGCAGAGCTGTTTCGTAAACC 60.136 52.381 0.00 0.00 40.67 3.27
315 325 1.197036 GCAGAGCTGTTTCGTAAACCC 59.803 52.381 0.00 1.38 40.67 4.11
316 326 1.804748 CAGAGCTGTTTCGTAAACCCC 59.195 52.381 0.00 1.13 40.67 4.95
317 327 1.697982 AGAGCTGTTTCGTAAACCCCT 59.302 47.619 0.00 4.74 40.67 4.79
318 328 2.105993 AGAGCTGTTTCGTAAACCCCTT 59.894 45.455 0.00 0.00 40.67 3.95
319 329 3.325716 AGAGCTGTTTCGTAAACCCCTTA 59.674 43.478 0.00 0.00 40.67 2.69
320 330 3.671716 AGCTGTTTCGTAAACCCCTTAG 58.328 45.455 0.00 1.47 40.67 2.18
321 331 2.745821 GCTGTTTCGTAAACCCCTTAGG 59.254 50.000 0.00 0.00 40.67 2.69
322 332 2.745821 CTGTTTCGTAAACCCCTTAGGC 59.254 50.000 0.00 0.00 40.67 3.93
323 333 2.106166 TGTTTCGTAAACCCCTTAGGCA 59.894 45.455 0.00 0.00 40.67 4.75
324 334 3.244981 TGTTTCGTAAACCCCTTAGGCAT 60.245 43.478 0.00 0.00 40.67 4.40
325 335 4.019501 TGTTTCGTAAACCCCTTAGGCATA 60.020 41.667 0.00 0.00 40.67 3.14
326 336 5.128205 GTTTCGTAAACCCCTTAGGCATAT 58.872 41.667 0.00 0.00 40.58 1.78
327 337 6.126825 TGTTTCGTAAACCCCTTAGGCATATA 60.127 38.462 0.00 0.00 40.67 0.86
328 338 6.691255 TTCGTAAACCCCTTAGGCATATAT 57.309 37.500 0.00 0.00 40.58 0.86
329 339 6.290294 TCGTAAACCCCTTAGGCATATATC 57.710 41.667 0.00 0.00 40.58 1.63
364 375 0.615331 TTTCCAGCTAGCCTGTGAGG 59.385 55.000 12.13 4.41 40.06 3.86
365 376 0.252239 TTCCAGCTAGCCTGTGAGGA 60.252 55.000 12.13 6.81 37.67 3.71
366 377 0.685785 TCCAGCTAGCCTGTGAGGAG 60.686 60.000 12.13 0.00 37.67 3.69
407 421 1.654317 CTGCATGCTTGGAGAGAGAC 58.346 55.000 20.33 0.00 43.52 3.36
408 422 0.251354 TGCATGCTTGGAGAGAGACC 59.749 55.000 20.33 0.00 0.00 3.85
409 423 0.809241 GCATGCTTGGAGAGAGACCG 60.809 60.000 11.37 0.00 0.00 4.79
410 424 0.179089 CATGCTTGGAGAGAGACCGG 60.179 60.000 0.00 0.00 0.00 5.28
607 621 4.628074 ACAGTGAAACGCAACTAGTACAT 58.372 39.130 0.00 0.00 45.86 2.29
608 622 4.447724 ACAGTGAAACGCAACTAGTACATG 59.552 41.667 0.00 0.00 45.86 3.21
609 623 3.432252 AGTGAAACGCAACTAGTACATGC 59.568 43.478 7.80 7.80 45.86 4.06
690 712 0.748367 CATCTCCTGTGCATGCTGCT 60.748 55.000 20.33 0.00 45.31 4.24
744 772 6.543465 AGAGATTGACTGAGACTGAGAGTATG 59.457 42.308 0.00 0.00 0.00 2.39
745 773 6.186957 AGATTGACTGAGACTGAGAGTATGT 58.813 40.000 0.00 0.00 0.00 2.29
746 774 5.635417 TTGACTGAGACTGAGAGTATGTG 57.365 43.478 0.00 0.00 0.00 3.21
747 775 4.657013 TGACTGAGACTGAGAGTATGTGT 58.343 43.478 0.00 0.00 0.00 3.72
769 797 1.144936 GCTAGCCAAGTCCATCGCT 59.855 57.895 2.29 0.00 35.34 4.93
789 817 1.713005 ATGATAGCACTGCCCAGGGG 61.713 60.000 7.91 3.48 38.57 4.79
790 818 2.042762 ATAGCACTGCCCAGGGGA 59.957 61.111 7.91 2.57 37.50 4.81
791 819 2.049627 GATAGCACTGCCCAGGGGAG 62.050 65.000 25.43 25.43 46.85 4.30
792 820 2.551856 ATAGCACTGCCCAGGGGAGA 62.552 60.000 33.09 11.46 44.17 3.71
793 821 4.106925 GCACTGCCCAGGGGAGAG 62.107 72.222 33.09 25.76 44.17 3.20
794 822 2.284921 CACTGCCCAGGGGAGAGA 60.285 66.667 33.09 0.36 44.17 3.10
795 823 2.040278 ACTGCCCAGGGGAGAGAG 59.960 66.667 33.09 8.31 44.17 3.20
796 824 2.366167 CTGCCCAGGGGAGAGAGA 59.634 66.667 22.97 0.00 44.17 3.10
797 825 1.761667 CTGCCCAGGGGAGAGAGAG 60.762 68.421 22.97 0.00 44.17 3.20
798 826 2.235602 CTGCCCAGGGGAGAGAGAGA 62.236 65.000 22.97 0.00 44.17 3.10
805 840 2.713167 CAGGGGAGAGAGAGAGAGAGAT 59.287 54.545 0.00 0.00 0.00 2.75
819 854 6.493115 AGAGAGAGAGATAGAGAGAGAGACTG 59.507 46.154 0.00 0.00 0.00 3.51
880 923 1.538687 GCCAGTGGCCATCAAGCTTT 61.539 55.000 24.53 0.00 44.06 3.51
881 924 1.838112 CCAGTGGCCATCAAGCTTTA 58.162 50.000 9.72 0.00 0.00 1.85
920 968 1.764571 TACCCAGTGCCGCTTCACTT 61.765 55.000 5.16 0.00 44.26 3.16
929 977 0.886490 CCGCTTCACTTCACTTGCCT 60.886 55.000 0.00 0.00 0.00 4.75
943 993 2.313317 CTTGCCTTGCCATACATCCAT 58.687 47.619 0.00 0.00 0.00 3.41
1049 1103 2.046023 ATGGCGCTACAGCTGCAA 60.046 55.556 15.27 0.64 40.46 4.08
1208 1265 4.421479 GCTTGCTGCTGCTGCTGG 62.421 66.667 27.67 20.85 40.48 4.85
1275 1347 3.107601 CAACCTCAACTATCCTCCTCCA 58.892 50.000 0.00 0.00 0.00 3.86
1282 1354 1.075525 TATCCTCCTCCACCACCGG 60.076 63.158 0.00 0.00 0.00 5.28
1463 1538 5.192327 TGATCGATCGAGCATATGCATAT 57.808 39.130 30.45 17.87 45.16 1.78
1466 1541 5.192327 TCGATCGAGCATATGCATATCAT 57.808 39.130 28.62 12.87 45.16 2.45
1467 1542 5.594926 TCGATCGAGCATATGCATATCATT 58.405 37.500 28.62 6.77 45.16 2.57
1468 1543 5.689068 TCGATCGAGCATATGCATATCATTC 59.311 40.000 28.62 14.50 45.16 2.67
1653 1760 5.358090 TGTATGGTCGTGTTCACTGTTTAA 58.642 37.500 1.53 0.00 0.00 1.52
1654 1761 5.992829 TGTATGGTCGTGTTCACTGTTTAAT 59.007 36.000 1.53 0.00 0.00 1.40
1655 1762 6.483974 TGTATGGTCGTGTTCACTGTTTAATT 59.516 34.615 1.53 0.00 0.00 1.40
1656 1763 7.656542 TGTATGGTCGTGTTCACTGTTTAATTA 59.343 33.333 1.53 0.00 0.00 1.40
1657 1764 6.533819 TGGTCGTGTTCACTGTTTAATTAG 57.466 37.500 1.53 0.00 0.00 1.73
1658 1765 5.467399 TGGTCGTGTTCACTGTTTAATTAGG 59.533 40.000 1.53 0.00 0.00 2.69
1666 1773 7.608761 TGTTCACTGTTTAATTAGGATGGTACC 59.391 37.037 4.43 4.43 0.00 3.34
1786 1897 1.208293 TGTTTGGTTTGGACCTTTGGC 59.792 47.619 0.00 0.00 46.66 4.52
1810 1921 2.478370 CCCAAAGCAGACATACATTGCG 60.478 50.000 0.00 0.00 42.47 4.85
1812 1923 0.734889 AAGCAGACATACATTGCGCC 59.265 50.000 4.18 0.00 42.47 6.53
1843 1954 7.495934 GGGATCGGGAAACTATATTATGACATG 59.504 40.741 0.00 0.00 0.00 3.21
1844 1955 7.011482 GGATCGGGAAACTATATTATGACATGC 59.989 40.741 0.00 0.00 0.00 4.06
1845 1956 7.004555 TCGGGAAACTATATTATGACATGCT 57.995 36.000 0.00 0.00 0.00 3.79
1875 2022 4.157840 GGTAAAATCAAGCCCCAACACTAG 59.842 45.833 0.00 0.00 0.00 2.57
1876 2023 1.839424 AATCAAGCCCCAACACTAGC 58.161 50.000 0.00 0.00 0.00 3.42
1944 2249 6.449635 TGTACATCATAGTTTGAAATGGCC 57.550 37.500 0.00 0.00 38.03 5.36
1959 2264 0.549902 TGGCCAGGGAGGAAATCTGA 60.550 55.000 0.00 0.00 41.22 3.27
2020 2327 3.031660 GTGCTCACCACGTAGCTAC 57.968 57.895 14.19 14.19 39.53 3.58
2094 2403 6.869206 AAACTATAGTGGGTAGAGCAAAGA 57.131 37.500 6.06 0.00 0.00 2.52
2101 2410 3.440522 GTGGGTAGAGCAAAGATTGAACC 59.559 47.826 0.00 0.00 0.00 3.62
2108 2417 5.196695 AGAGCAAAGATTGAACCCCTTATC 58.803 41.667 0.00 0.00 0.00 1.75
2155 2464 3.441572 GGACATGTCAGATTTGAACTGGG 59.558 47.826 26.47 0.00 34.49 4.45
2168 2477 1.434513 AACTGGGGGAGTTCCATGCA 61.435 55.000 0.00 0.00 41.37 3.96
2169 2478 1.217057 ACTGGGGGAGTTCCATGCAT 61.217 55.000 0.00 0.00 37.91 3.96
2170 2479 0.754217 CTGGGGGAGTTCCATGCATG 60.754 60.000 20.19 20.19 37.91 4.06
2193 2502 5.639506 TGCTCAGCTAAGAGTGATTGTTAAC 59.360 40.000 0.00 0.00 37.94 2.01
2214 2523 1.978580 AGAGTGGATTTTCTCCCGTGT 59.021 47.619 0.00 0.00 44.23 4.49
2216 2525 3.775316 AGAGTGGATTTTCTCCCGTGTAT 59.225 43.478 0.00 0.00 44.23 2.29
2219 2531 2.841266 TGGATTTTCTCCCGTGTATGGA 59.159 45.455 0.00 0.00 44.23 3.41
2228 2540 0.248289 CCGTGTATGGAAGGTCCGTT 59.752 55.000 0.00 0.00 40.17 4.44
2258 2570 7.881775 ACTAGTCCATTGATTATTTTGGGTC 57.118 36.000 0.00 0.00 0.00 4.46
2330 2642 9.487790 CCAACTTCCTTGATTTTTATTTTAGCA 57.512 29.630 0.00 0.00 30.42 3.49
2427 2739 4.318831 GCGACGAGGGCTTTCAAATAATAG 60.319 45.833 0.00 0.00 0.00 1.73
2430 2742 4.947388 ACGAGGGCTTTCAAATAATAGCAA 59.053 37.500 0.00 0.00 35.36 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
95 104 2.939103 CTCCCTTAATTTCTCTGCGTGG 59.061 50.000 0.00 0.00 0.00 4.94
113 122 3.665745 TTTCTTGCTTTCATTGCCTCC 57.334 42.857 0.00 0.00 0.00 4.30
134 143 6.352516 GTTTATCACCTCTGTCTCCATGATT 58.647 40.000 0.00 0.00 0.00 2.57
145 155 5.048013 GGTTTTGAAGGGTTTATCACCTCTG 60.048 44.000 0.00 0.00 46.38 3.35
150 160 4.988540 GCAAGGTTTTGAAGGGTTTATCAC 59.011 41.667 0.00 0.00 36.36 3.06
151 161 4.898861 AGCAAGGTTTTGAAGGGTTTATCA 59.101 37.500 0.00 0.00 36.36 2.15
152 162 5.468540 AGCAAGGTTTTGAAGGGTTTATC 57.531 39.130 0.00 0.00 36.36 1.75
153 163 7.148137 CGTATAGCAAGGTTTTGAAGGGTTTAT 60.148 37.037 0.00 0.00 36.36 1.40
154 164 6.149807 CGTATAGCAAGGTTTTGAAGGGTTTA 59.850 38.462 0.00 0.00 36.36 2.01
155 165 5.048294 CGTATAGCAAGGTTTTGAAGGGTTT 60.048 40.000 0.00 0.00 36.36 3.27
157 167 4.007659 CGTATAGCAAGGTTTTGAAGGGT 58.992 43.478 0.00 0.00 36.36 4.34
158 168 4.007659 ACGTATAGCAAGGTTTTGAAGGG 58.992 43.478 0.00 0.00 36.36 3.95
160 170 5.574055 TCGTACGTATAGCAAGGTTTTGAAG 59.426 40.000 16.05 0.00 36.36 3.02
161 171 5.468592 TCGTACGTATAGCAAGGTTTTGAA 58.531 37.500 16.05 0.00 36.36 2.69
162 172 5.058149 TCGTACGTATAGCAAGGTTTTGA 57.942 39.130 16.05 0.00 36.36 2.69
165 175 5.252969 TGATCGTACGTATAGCAAGGTTT 57.747 39.130 16.05 0.00 0.00 3.27
167 177 4.337555 AGTTGATCGTACGTATAGCAAGGT 59.662 41.667 16.05 0.00 0.00 3.50
168 178 4.856664 AGTTGATCGTACGTATAGCAAGG 58.143 43.478 16.05 0.00 0.00 3.61
169 179 4.910456 GGAGTTGATCGTACGTATAGCAAG 59.090 45.833 16.05 0.00 0.00 4.01
170 180 4.261322 GGGAGTTGATCGTACGTATAGCAA 60.261 45.833 16.05 8.59 0.00 3.91
171 181 3.251729 GGGAGTTGATCGTACGTATAGCA 59.748 47.826 16.05 1.77 0.00 3.49
172 182 3.666374 CGGGAGTTGATCGTACGTATAGC 60.666 52.174 16.05 0.00 0.00 2.97
174 184 3.466836 ACGGGAGTTGATCGTACGTATA 58.533 45.455 16.05 0.00 43.33 1.47
175 185 2.292267 ACGGGAGTTGATCGTACGTAT 58.708 47.619 16.05 7.52 43.33 3.06
176 186 1.737838 ACGGGAGTTGATCGTACGTA 58.262 50.000 16.05 2.34 43.33 3.57
177 187 2.559785 ACGGGAGTTGATCGTACGT 58.440 52.632 16.05 2.33 43.33 3.57
194 204 4.688879 TGTCTTCAATCGTACATGTTGGAC 59.311 41.667 2.30 0.00 0.00 4.02
195 205 4.888917 TGTCTTCAATCGTACATGTTGGA 58.111 39.130 2.30 1.86 0.00 3.53
197 207 7.591057 ACATTTTGTCTTCAATCGTACATGTTG 59.409 33.333 2.30 0.00 33.32 3.33
200 210 8.655970 TCTACATTTTGTCTTCAATCGTACATG 58.344 33.333 0.00 0.00 33.32 3.21
201 211 8.771920 TCTACATTTTGTCTTCAATCGTACAT 57.228 30.769 0.00 0.00 33.32 2.29
202 212 8.655970 CATCTACATTTTGTCTTCAATCGTACA 58.344 33.333 0.00 0.00 33.32 2.90
203 213 8.869897 TCATCTACATTTTGTCTTCAATCGTAC 58.130 33.333 0.00 0.00 33.32 3.67
205 215 7.905604 TCATCTACATTTTGTCTTCAATCGT 57.094 32.000 0.00 0.00 33.32 3.73
206 216 8.066595 GGATCATCTACATTTTGTCTTCAATCG 58.933 37.037 0.00 0.00 33.32 3.34
207 217 8.896744 TGGATCATCTACATTTTGTCTTCAATC 58.103 33.333 0.00 0.00 33.32 2.67
210 220 7.397221 ACTGGATCATCTACATTTTGTCTTCA 58.603 34.615 0.00 0.00 0.00 3.02
211 221 7.856145 ACTGGATCATCTACATTTTGTCTTC 57.144 36.000 0.00 0.00 0.00 2.87
212 222 8.517878 CAAACTGGATCATCTACATTTTGTCTT 58.482 33.333 0.00 0.00 33.09 3.01
213 223 7.667219 ACAAACTGGATCATCTACATTTTGTCT 59.333 33.333 9.83 0.00 41.20 3.41
214 224 7.752239 CACAAACTGGATCATCTACATTTTGTC 59.248 37.037 11.66 0.00 42.31 3.18
215 225 7.309377 CCACAAACTGGATCATCTACATTTTGT 60.309 37.037 9.83 9.83 43.84 2.83
216 226 7.031372 CCACAAACTGGATCATCTACATTTTG 58.969 38.462 0.00 3.03 43.95 2.44
217 227 6.153340 CCCACAAACTGGATCATCTACATTTT 59.847 38.462 0.00 0.00 43.95 1.82
218 228 5.653769 CCCACAAACTGGATCATCTACATTT 59.346 40.000 0.00 0.00 43.95 2.32
219 229 5.195940 CCCACAAACTGGATCATCTACATT 58.804 41.667 0.00 0.00 43.95 2.71
220 230 4.785301 CCCACAAACTGGATCATCTACAT 58.215 43.478 0.00 0.00 43.95 2.29
221 231 3.622206 GCCCACAAACTGGATCATCTACA 60.622 47.826 0.00 0.00 43.95 2.74
222 232 2.945668 GCCCACAAACTGGATCATCTAC 59.054 50.000 0.00 0.00 43.95 2.59
223 233 2.092429 GGCCCACAAACTGGATCATCTA 60.092 50.000 0.00 0.00 43.95 1.98
224 234 1.341383 GGCCCACAAACTGGATCATCT 60.341 52.381 0.00 0.00 43.95 2.90
225 235 1.106285 GGCCCACAAACTGGATCATC 58.894 55.000 0.00 0.00 43.95 2.92
226 236 0.409092 TGGCCCACAAACTGGATCAT 59.591 50.000 0.00 0.00 43.95 2.45
227 237 0.409092 ATGGCCCACAAACTGGATCA 59.591 50.000 0.00 0.00 43.95 2.92
228 238 2.301346 CTATGGCCCACAAACTGGATC 58.699 52.381 0.00 0.00 43.95 3.36
229 239 1.686115 GCTATGGCCCACAAACTGGAT 60.686 52.381 0.00 0.00 43.95 3.41
230 240 0.323360 GCTATGGCCCACAAACTGGA 60.323 55.000 0.00 0.00 43.95 3.86
231 241 0.611618 TGCTATGGCCCACAAACTGG 60.612 55.000 0.00 0.00 40.26 4.00
232 242 1.477553 ATGCTATGGCCCACAAACTG 58.522 50.000 0.00 0.00 37.74 3.16
233 243 2.234414 CAAATGCTATGGCCCACAAACT 59.766 45.455 0.00 0.00 37.74 2.66
234 244 2.620242 CAAATGCTATGGCCCACAAAC 58.380 47.619 0.00 0.00 37.74 2.93
235 245 1.066286 GCAAATGCTATGGCCCACAAA 60.066 47.619 0.00 0.00 38.21 2.83
236 246 0.536260 GCAAATGCTATGGCCCACAA 59.464 50.000 0.00 0.00 38.21 3.33
237 247 0.614134 TGCAAATGCTATGGCCCACA 60.614 50.000 0.00 0.00 42.66 4.17
238 248 0.103572 CTGCAAATGCTATGGCCCAC 59.896 55.000 0.00 0.00 42.66 4.61
239 249 0.324552 ACTGCAAATGCTATGGCCCA 60.325 50.000 0.00 0.00 42.66 5.36
240 250 0.386838 GACTGCAAATGCTATGGCCC 59.613 55.000 0.00 0.00 42.66 5.80
241 251 1.066605 CAGACTGCAAATGCTATGGCC 59.933 52.381 6.97 0.00 42.66 5.36
242 252 1.066605 CCAGACTGCAAATGCTATGGC 59.933 52.381 6.97 0.00 42.66 4.40
243 253 2.357009 GACCAGACTGCAAATGCTATGG 59.643 50.000 6.97 6.83 42.66 2.74
244 254 2.031314 CGACCAGACTGCAAATGCTATG 59.969 50.000 6.97 0.18 42.66 2.23
245 255 2.283298 CGACCAGACTGCAAATGCTAT 58.717 47.619 6.97 0.00 42.66 2.97
246 256 1.001974 ACGACCAGACTGCAAATGCTA 59.998 47.619 6.97 0.00 42.66 3.49
247 257 0.250467 ACGACCAGACTGCAAATGCT 60.250 50.000 6.97 0.00 42.66 3.79
248 258 1.438651 TACGACCAGACTGCAAATGC 58.561 50.000 0.00 0.00 42.50 3.56
249 259 3.246226 GCTATACGACCAGACTGCAAATG 59.754 47.826 0.00 0.00 0.00 2.32
250 260 3.133003 AGCTATACGACCAGACTGCAAAT 59.867 43.478 0.00 0.00 0.00 2.32
251 261 2.496070 AGCTATACGACCAGACTGCAAA 59.504 45.455 0.00 0.00 0.00 3.68
252 262 2.100197 AGCTATACGACCAGACTGCAA 58.900 47.619 0.00 0.00 0.00 4.08
253 263 1.763968 AGCTATACGACCAGACTGCA 58.236 50.000 0.00 0.00 0.00 4.41
254 264 3.119779 GGATAGCTATACGACCAGACTGC 60.120 52.174 6.13 0.00 0.00 4.40
255 265 4.072839 TGGATAGCTATACGACCAGACTG 58.927 47.826 11.42 0.00 0.00 3.51
256 266 4.368565 TGGATAGCTATACGACCAGACT 57.631 45.455 11.42 0.00 0.00 3.24
257 267 4.277672 TGTTGGATAGCTATACGACCAGAC 59.722 45.833 27.12 18.61 31.06 3.51
258 268 4.466827 TGTTGGATAGCTATACGACCAGA 58.533 43.478 27.12 11.26 31.06 3.86
259 269 4.848562 TGTTGGATAGCTATACGACCAG 57.151 45.455 27.12 0.00 31.06 4.00
260 270 5.601583 TTTGTTGGATAGCTATACGACCA 57.398 39.130 27.12 17.46 31.06 4.02
261 271 6.913873 TTTTTGTTGGATAGCTATACGACC 57.086 37.500 27.12 15.82 31.06 4.79
269 279 8.120465 CGTACGATTAATTTTTGTTGGATAGCT 58.880 33.333 10.44 0.00 0.00 3.32
270 280 7.097168 GCGTACGATTAATTTTTGTTGGATAGC 60.097 37.037 21.65 0.00 0.00 2.97
271 281 7.906010 TGCGTACGATTAATTTTTGTTGGATAG 59.094 33.333 21.65 0.00 0.00 2.08
272 282 7.749808 TGCGTACGATTAATTTTTGTTGGATA 58.250 30.769 21.65 0.00 0.00 2.59
273 283 6.613233 TGCGTACGATTAATTTTTGTTGGAT 58.387 32.000 21.65 0.00 0.00 3.41
274 284 5.998553 TGCGTACGATTAATTTTTGTTGGA 58.001 33.333 21.65 0.00 0.00 3.53
275 285 6.081049 TCTGCGTACGATTAATTTTTGTTGG 58.919 36.000 21.65 0.00 0.00 3.77
276 286 6.236941 GCTCTGCGTACGATTAATTTTTGTTG 60.237 38.462 21.65 0.00 0.00 3.33
277 287 5.793457 GCTCTGCGTACGATTAATTTTTGTT 59.207 36.000 21.65 0.00 0.00 2.83
278 288 5.121768 AGCTCTGCGTACGATTAATTTTTGT 59.878 36.000 21.65 0.00 0.00 2.83
279 289 5.449113 CAGCTCTGCGTACGATTAATTTTTG 59.551 40.000 21.65 1.78 0.00 2.44
280 290 5.121768 ACAGCTCTGCGTACGATTAATTTTT 59.878 36.000 21.65 0.00 0.00 1.94
281 291 4.630069 ACAGCTCTGCGTACGATTAATTTT 59.370 37.500 21.65 0.00 0.00 1.82
282 292 4.181578 ACAGCTCTGCGTACGATTAATTT 58.818 39.130 21.65 0.00 0.00 1.82
283 293 3.782046 ACAGCTCTGCGTACGATTAATT 58.218 40.909 21.65 0.00 0.00 1.40
284 294 3.438297 ACAGCTCTGCGTACGATTAAT 57.562 42.857 21.65 0.00 0.00 1.40
285 295 2.933495 ACAGCTCTGCGTACGATTAA 57.067 45.000 21.65 0.00 0.00 1.40
286 296 2.933495 AACAGCTCTGCGTACGATTA 57.067 45.000 21.65 3.14 0.00 1.75
287 297 1.993370 GAAACAGCTCTGCGTACGATT 59.007 47.619 21.65 0.00 0.00 3.34
288 298 1.630148 GAAACAGCTCTGCGTACGAT 58.370 50.000 21.65 0.00 0.00 3.73
289 299 0.728129 CGAAACAGCTCTGCGTACGA 60.728 55.000 21.65 3.19 0.00 3.43
290 300 1.002250 ACGAAACAGCTCTGCGTACG 61.002 55.000 11.84 11.84 32.94 3.67
291 301 1.973138 TACGAAACAGCTCTGCGTAC 58.027 50.000 2.04 0.00 36.51 3.67
292 302 2.710220 TTACGAAACAGCTCTGCGTA 57.290 45.000 2.04 2.04 36.51 4.42
293 303 1.525619 GTTTACGAAACAGCTCTGCGT 59.474 47.619 3.88 3.88 41.04 5.24
294 304 1.136336 GGTTTACGAAACAGCTCTGCG 60.136 52.381 10.99 0.00 43.15 5.18
295 305 1.197036 GGGTTTACGAAACAGCTCTGC 59.803 52.381 10.99 0.00 43.15 4.26
296 306 1.804748 GGGGTTTACGAAACAGCTCTG 59.195 52.381 10.99 0.00 43.15 3.35
297 307 1.697982 AGGGGTTTACGAAACAGCTCT 59.302 47.619 10.99 0.00 43.15 4.09
298 308 2.180432 AGGGGTTTACGAAACAGCTC 57.820 50.000 10.99 0.00 43.15 4.09
299 309 2.651382 AAGGGGTTTACGAAACAGCT 57.349 45.000 10.99 0.00 43.15 4.24
300 310 2.745821 CCTAAGGGGTTTACGAAACAGC 59.254 50.000 10.99 0.00 43.15 4.40
301 311 2.745821 GCCTAAGGGGTTTACGAAACAG 59.254 50.000 10.99 2.29 43.15 3.16
302 312 2.106166 TGCCTAAGGGGTTTACGAAACA 59.894 45.455 10.99 0.00 43.15 2.83
303 313 2.781923 TGCCTAAGGGGTTTACGAAAC 58.218 47.619 0.00 0.00 40.65 2.78
304 314 3.724732 ATGCCTAAGGGGTTTACGAAA 57.275 42.857 0.00 0.00 37.43 3.46
305 315 6.270463 TGATATATGCCTAAGGGGTTTACGAA 59.730 38.462 0.00 0.00 37.43 3.85
306 316 5.781306 TGATATATGCCTAAGGGGTTTACGA 59.219 40.000 0.00 0.00 37.43 3.43
307 317 6.045072 TGATATATGCCTAAGGGGTTTACG 57.955 41.667 0.00 0.00 37.43 3.18
311 321 8.386264 GCATATATGATATATGCCTAAGGGGTT 58.614 37.037 32.46 0.00 46.68 4.11
312 322 7.922382 GCATATATGATATATGCCTAAGGGGT 58.078 38.462 32.46 0.00 46.68 4.95
326 336 8.733458 GCTGGAAATTTGACTGCATATATGATA 58.267 33.333 17.10 3.64 0.00 2.15
327 337 7.450634 AGCTGGAAATTTGACTGCATATATGAT 59.549 33.333 17.10 0.62 0.00 2.45
328 338 6.774170 AGCTGGAAATTTGACTGCATATATGA 59.226 34.615 17.10 1.24 0.00 2.15
329 339 6.978338 AGCTGGAAATTTGACTGCATATATG 58.022 36.000 8.45 8.45 0.00 1.78
349 360 1.143620 GCTCCTCACAGGCTAGCTG 59.856 63.158 15.72 13.05 33.69 4.24
364 375 1.237285 ACCACGTGCAATCCAAGCTC 61.237 55.000 10.91 0.00 0.00 4.09
365 376 1.228245 ACCACGTGCAATCCAAGCT 60.228 52.632 10.91 0.00 0.00 3.74
366 377 1.210155 GACCACGTGCAATCCAAGC 59.790 57.895 10.91 0.00 0.00 4.01
465 479 0.250234 GCCCAGCAAAATCTTTCCCC 59.750 55.000 0.00 0.00 0.00 4.81
609 623 4.151297 ATCATGCACGCACGCACG 62.151 61.111 0.00 0.00 46.56 5.34
610 624 1.420641 TAGATCATGCACGCACGCAC 61.421 55.000 0.00 0.00 46.56 5.34
690 712 6.101881 TCTCTCTCTCTCTCTCTCTCTCTCTA 59.898 46.154 0.00 0.00 0.00 2.43
744 772 1.209504 TGGACTTGGCTAGCCATACAC 59.790 52.381 36.24 25.22 46.64 2.90
745 773 1.578897 TGGACTTGGCTAGCCATACA 58.421 50.000 36.24 26.22 46.64 2.29
746 774 2.772287 GATGGACTTGGCTAGCCATAC 58.228 52.381 36.24 26.67 46.64 2.39
747 775 1.344438 CGATGGACTTGGCTAGCCATA 59.656 52.381 36.24 24.12 46.64 2.74
769 797 1.059098 CCCTGGGCAGTGCTATCATA 58.941 55.000 16.11 0.00 0.00 2.15
789 817 6.945435 TCTCTCTCTATCTCTCTCTCTCTCTC 59.055 46.154 0.00 0.00 0.00 3.20
790 818 6.857848 TCTCTCTCTATCTCTCTCTCTCTCT 58.142 44.000 0.00 0.00 0.00 3.10
791 819 6.945435 TCTCTCTCTCTATCTCTCTCTCTCTC 59.055 46.154 0.00 0.00 0.00 3.20
792 820 6.719370 GTCTCTCTCTCTATCTCTCTCTCTCT 59.281 46.154 0.00 0.00 0.00 3.10
793 821 6.719370 AGTCTCTCTCTCTATCTCTCTCTCTC 59.281 46.154 0.00 0.00 0.00 3.20
794 822 6.493115 CAGTCTCTCTCTCTATCTCTCTCTCT 59.507 46.154 0.00 0.00 0.00 3.10
795 823 6.295011 CCAGTCTCTCTCTCTATCTCTCTCTC 60.295 50.000 0.00 0.00 0.00 3.20
796 824 5.541868 CCAGTCTCTCTCTCTATCTCTCTCT 59.458 48.000 0.00 0.00 0.00 3.10
797 825 5.305644 ACCAGTCTCTCTCTCTATCTCTCTC 59.694 48.000 0.00 0.00 0.00 3.20
798 826 5.070981 CACCAGTCTCTCTCTCTATCTCTCT 59.929 48.000 0.00 0.00 0.00 3.10
805 840 3.328050 TCACACACCAGTCTCTCTCTCTA 59.672 47.826 0.00 0.00 0.00 2.43
819 854 0.321653 GTCCCAGTCCATCACACACC 60.322 60.000 0.00 0.00 0.00 4.16
880 923 1.330234 TTGTACTGGCGACACAGGTA 58.670 50.000 0.00 0.00 42.75 3.08
881 924 0.466543 TTTGTACTGGCGACACAGGT 59.533 50.000 0.00 0.00 42.75 4.00
920 968 2.368439 GATGTATGGCAAGGCAAGTGA 58.632 47.619 0.00 0.00 0.00 3.41
929 977 1.479205 GGCTGGATGGATGTATGGCAA 60.479 52.381 0.00 0.00 0.00 4.52
943 993 1.867363 GAAGGTAGAAGAGGGCTGGA 58.133 55.000 0.00 0.00 0.00 3.86
1208 1265 1.485480 GTCTAGGGTTAGGGCTTCCAC 59.515 57.143 0.00 0.00 0.00 4.02
1248 1320 2.780010 AGGATAGTTGAGGTTGGGGATG 59.220 50.000 0.00 0.00 0.00 3.51
1335 1410 0.460459 GGCTCAACTCTAACGCCCTC 60.460 60.000 0.00 0.00 34.75 4.30
1336 1411 0.905337 AGGCTCAACTCTAACGCCCT 60.905 55.000 0.00 0.00 41.60 5.19
1362 1437 2.450502 ACACCAGCCTCCAACCCT 60.451 61.111 0.00 0.00 0.00 4.34
1478 1553 8.263854 ACCAACCTAGTGATGTAATTAGCTAT 57.736 34.615 0.00 0.00 0.00 2.97
1551 1655 2.806608 AGCAAACACCAATTCAGCTG 57.193 45.000 7.63 7.63 0.00 4.24
1552 1656 2.694628 TGAAGCAAACACCAATTCAGCT 59.305 40.909 0.00 0.00 0.00 4.24
1653 1760 1.056660 CTGGGCGGTACCATCCTAAT 58.943 55.000 13.54 0.00 40.36 1.73
1654 1761 1.052124 CCTGGGCGGTACCATCCTAA 61.052 60.000 13.54 4.65 40.36 2.69
1655 1762 1.458777 CCTGGGCGGTACCATCCTA 60.459 63.158 13.54 9.26 40.36 2.94
1656 1763 2.768344 CCTGGGCGGTACCATCCT 60.768 66.667 13.54 0.00 40.36 3.24
1657 1764 3.873812 CCCTGGGCGGTACCATCC 61.874 72.222 13.54 12.83 40.36 3.51
1658 1765 3.087906 ACCCTGGGCGGTACCATC 61.088 66.667 14.08 2.41 40.36 3.51
1666 1773 4.802051 CATGGGTCACCCTGGGCG 62.802 72.222 16.04 2.68 45.70 6.13
1786 1897 4.201950 GCAATGTATGTCTGCTTTGGGTAG 60.202 45.833 0.00 0.00 33.20 3.18
1794 1905 0.392863 TGGCGCAATGTATGTCTGCT 60.393 50.000 10.83 0.00 33.82 4.24
1810 1921 0.530744 GTTTCCCGATCCCTTTTGGC 59.469 55.000 0.00 0.00 38.58 4.52
1812 1923 8.730680 CATAATATAGTTTCCCGATCCCTTTTG 58.269 37.037 0.00 0.00 0.00 2.44
1843 1954 5.168569 GGGCTTGATTTTACCAAGTTTAGC 58.831 41.667 0.00 0.00 42.11 3.09
1844 1955 5.245075 TGGGGCTTGATTTTACCAAGTTTAG 59.755 40.000 0.00 0.00 42.11 1.85
1845 1956 5.148502 TGGGGCTTGATTTTACCAAGTTTA 58.851 37.500 0.00 0.00 42.11 2.01
1925 2230 4.202182 CCCTGGCCATTTCAAACTATGATG 60.202 45.833 5.51 0.00 38.03 3.07
1944 2249 2.568956 TGTCAGTCAGATTTCCTCCCTG 59.431 50.000 0.00 0.00 0.00 4.45
1959 2264 5.754890 GCCATTTTCTTCAACATTTGTCAGT 59.245 36.000 0.00 0.00 0.00 3.41
2064 2373 7.153315 GCTCTACCCACTATAGTTTTGTATCC 58.847 42.308 1.56 0.00 0.00 2.59
2094 2403 9.942526 ATCTAAGAATTTGATAAGGGGTTCAAT 57.057 29.630 0.00 0.00 38.74 2.57
2121 2430 6.653526 TCTGACATGTCCAACAAATCATTT 57.346 33.333 22.85 0.00 29.41 2.32
2155 2464 0.394762 TGAGCATGCATGGAACTCCC 60.395 55.000 27.34 9.30 34.29 4.30
2168 2477 4.484537 ACAATCACTCTTAGCTGAGCAT 57.515 40.909 7.39 0.00 37.58 3.79
2169 2478 3.969287 ACAATCACTCTTAGCTGAGCA 57.031 42.857 7.39 0.00 37.58 4.26
2170 2479 5.639506 TGTTAACAATCACTCTTAGCTGAGC 59.360 40.000 5.64 0.00 37.58 4.26
2214 2523 2.473070 TCCATGAACGGACCTTCCATA 58.527 47.619 0.00 0.00 35.91 2.74
2216 2525 2.766698 TCCATGAACGGACCTTCCA 58.233 52.632 0.00 0.00 35.91 3.53
2235 2547 6.765989 TCGACCCAAAATAATCAATGGACTAG 59.234 38.462 0.00 0.00 34.82 2.57
2258 2570 0.247185 AAAATTGCATGCAGGGGTCG 59.753 50.000 21.50 0.00 0.00 4.79
2356 2668 7.832503 AACAAAAATTGGACTTTCAGTTCAG 57.167 32.000 0.00 0.00 34.68 3.02
2383 2695 4.602957 CGCAAGAAACACAAATACGCAAAC 60.603 41.667 0.00 0.00 43.02 2.93


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

AutoCloner maintained by Alex Coulton.