Multiple sequence alignment - TraesCS5D01G265000

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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 TraesCS5D01G265000 chr5D 100.000 2612 0 0 1 2612 369426831 369429442 0.000000e+00 4824.0
1 TraesCS5D01G265000 chr5D 93.636 110 7 0 2292 2401 65990485 65990594 5.780000e-37 165.0
2 TraesCS5D01G265000 chr5B 93.463 1851 79 17 733 2570 438556903 438558724 0.000000e+00 2710.0
3 TraesCS5D01G265000 chr5B 86.230 305 39 2 355 659 438556287 438556588 6.970000e-86 327.0
4 TraesCS5D01G265000 chr5B 83.962 106 12 3 60 164 438529570 438529671 2.140000e-16 97.1
5 TraesCS5D01G265000 chr5B 100.000 28 0 0 2573 2600 438558740 438558767 5.000000e-03 52.8
6 TraesCS5D01G265000 chr5A 92.226 1698 87 24 274 1946 471945785 471947462 0.000000e+00 2362.0
7 TraesCS5D01G265000 chr5A 90.816 588 34 9 1971 2553 471947569 471948141 0.000000e+00 769.0
8 TraesCS5D01G265000 chr5A 90.798 163 6 2 1 163 471945629 471945782 2.630000e-50 209.0
9 TraesCS5D01G265000 chr5A 94.915 59 0 1 743 801 471946298 471946353 3.580000e-14 89.8
10 TraesCS5D01G265000 chr7D 89.313 524 36 13 1011 1515 200765052 200765574 7.880000e-180 640.0
11 TraesCS5D01G265000 chr7D 79.755 326 56 9 1150 1470 578465361 578465681 7.270000e-56 228.0
12 TraesCS5D01G265000 chr7A 89.313 524 36 13 1011 1515 214301757 214302279 7.880000e-180 640.0
13 TraesCS5D01G265000 chr7A 79.141 326 58 9 1150 1470 670536893 670537213 1.570000e-52 217.0
14 TraesCS5D01G265000 chr7B 88.931 524 38 14 1011 1515 165098616 165099138 1.710000e-176 628.0
15 TraesCS5D01G265000 chr4B 82.111 341 46 12 1166 1494 467717983 467718320 7.120000e-71 278.0
16 TraesCS5D01G265000 chr4A 81.525 341 48 12 1166 1494 83572035 83571698 1.540000e-67 267.0
17 TraesCS5D01G265000 chr1B 97.143 105 3 0 2297 2401 572529456 572529352 7.430000e-41 178.0
18 TraesCS5D01G265000 chr2D 97.059 102 3 0 2293 2394 445894879 445894980 3.460000e-39 172.0
19 TraesCS5D01G265000 chr6D 96.117 103 4 0 2292 2394 68866249 68866147 4.470000e-38 169.0
20 TraesCS5D01G265000 chr4D 96.040 101 4 0 2294 2394 375134918 375135018 5.780000e-37 165.0
21 TraesCS5D01G265000 chr2A 95.146 103 5 0 2295 2397 587158360 587158258 2.080000e-36 163.0
22 TraesCS5D01G265000 chr6B 94.286 105 6 0 2293 2397 684940403 684940299 7.480000e-36 161.0
23 TraesCS5D01G265000 chr3D 98.333 60 0 1 1 60 293193806 293193864 1.280000e-18 104.0
24 TraesCS5D01G265000 chr3B 98.333 60 0 1 1 60 386525428 386525486 1.280000e-18 104.0
25 TraesCS5D01G265000 chr3A 97.917 48 0 1 1 48 386220788 386220834 5.990000e-12 82.4
26 TraesCS5D01G265000 chr6A 87.879 66 5 2 4 67 15314630 15314566 1.000000e-09 75.0


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 TraesCS5D01G265000 chr5D 369426831 369429442 2611 False 4824.000000 4824 100.00000 1 2612 1 chr5D.!!$F2 2611
1 TraesCS5D01G265000 chr5B 438556287 438558767 2480 False 1029.933333 2710 93.23100 355 2600 3 chr5B.!!$F2 2245
2 TraesCS5D01G265000 chr5A 471945629 471948141 2512 False 857.450000 2362 92.18875 1 2553 4 chr5A.!!$F1 2552
3 TraesCS5D01G265000 chr7D 200765052 200765574 522 False 640.000000 640 89.31300 1011 1515 1 chr7D.!!$F1 504
4 TraesCS5D01G265000 chr7A 214301757 214302279 522 False 640.000000 640 89.31300 1011 1515 1 chr7A.!!$F1 504
5 TraesCS5D01G265000 chr7B 165098616 165099138 522 False 628.000000 628 88.93100 1011 1515 1 chr7B.!!$F1 504

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
173 174 0.031449 CGCTCGAGAAAGGGAGATCC 59.969 60.0 18.75 0.0 31.9 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2158 2606 0.183492 GGAAGCCATACTCCCATGCA 59.817 55.0 0.0 0.0 0.0 3.96 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
41 42 9.226606 TCGATTTTGATATTTGTAACAACCTCT 57.773 29.630 0.00 0.00 0.00 3.69
42 43 9.840427 CGATTTTGATATTTGTAACAACCTCTT 57.160 29.630 0.00 0.00 0.00 2.85
45 46 9.757227 TTTTGATATTTGTAACAACCTCTTTGG 57.243 29.630 0.00 0.00 39.84 3.28
46 47 6.919721 TGATATTTGTAACAACCTCTTTGGC 58.080 36.000 0.00 0.00 39.84 4.52
47 48 6.491745 TGATATTTGTAACAACCTCTTTGGCA 59.508 34.615 0.00 0.00 39.84 4.92
48 49 4.647424 TTTGTAACAACCTCTTTGGCAG 57.353 40.909 0.00 0.00 39.84 4.85
67 68 4.214971 GGCAGTCTGATGCTATTAACATGG 59.785 45.833 3.32 0.00 45.75 3.66
83 84 7.913674 TTAACATGGGAAATTTGTTAATGGC 57.086 32.000 7.87 0.00 32.27 4.40
85 86 6.064735 ACATGGGAAATTTGTTAATGGCAT 57.935 33.333 0.00 0.00 0.00 4.40
169 170 3.037485 GAACGCTCGAGAAAGGGAG 57.963 57.895 18.75 0.03 33.67 4.30
170 171 0.526662 GAACGCTCGAGAAAGGGAGA 59.473 55.000 18.75 0.00 33.67 3.71
171 172 1.135333 GAACGCTCGAGAAAGGGAGAT 59.865 52.381 18.75 0.00 33.67 2.75
172 173 0.741915 ACGCTCGAGAAAGGGAGATC 59.258 55.000 18.75 0.00 33.67 2.75
173 174 0.031449 CGCTCGAGAAAGGGAGATCC 59.969 60.000 18.75 0.00 31.90 3.36
174 175 1.115467 GCTCGAGAAAGGGAGATCCA 58.885 55.000 18.75 0.00 38.24 3.41
175 176 1.691434 GCTCGAGAAAGGGAGATCCAT 59.309 52.381 18.75 0.00 38.24 3.41
176 177 2.103941 GCTCGAGAAAGGGAGATCCATT 59.896 50.000 18.75 0.00 42.51 3.16
177 178 3.801983 GCTCGAGAAAGGGAGATCCATTC 60.802 52.174 18.75 4.19 39.36 2.67
178 179 2.700897 TCGAGAAAGGGAGATCCATTCC 59.299 50.000 0.00 0.00 39.36 3.01
185 186 2.875094 GGAGATCCATTCCCCTGATG 57.125 55.000 0.00 0.00 35.64 3.07
186 187 2.342659 GGAGATCCATTCCCCTGATGA 58.657 52.381 0.00 0.00 35.64 2.92
187 188 2.713167 GGAGATCCATTCCCCTGATGAA 59.287 50.000 0.00 0.00 35.64 2.57
188 189 3.139025 GGAGATCCATTCCCCTGATGAAA 59.861 47.826 0.00 0.00 35.64 2.69
189 190 4.202652 GGAGATCCATTCCCCTGATGAAAT 60.203 45.833 0.00 0.00 35.64 2.17
190 191 4.737578 AGATCCATTCCCCTGATGAAATG 58.262 43.478 0.00 0.00 0.00 2.32
191 192 4.169461 AGATCCATTCCCCTGATGAAATGT 59.831 41.667 0.00 0.00 0.00 2.71
192 193 3.902218 TCCATTCCCCTGATGAAATGTC 58.098 45.455 0.00 0.00 0.00 3.06
193 194 2.961062 CCATTCCCCTGATGAAATGTCC 59.039 50.000 0.00 0.00 0.00 4.02
194 195 2.826674 TTCCCCTGATGAAATGTCCC 57.173 50.000 0.00 0.00 0.00 4.46
195 196 1.985622 TCCCCTGATGAAATGTCCCT 58.014 50.000 0.00 0.00 0.00 4.20
196 197 2.287584 TCCCCTGATGAAATGTCCCTT 58.712 47.619 0.00 0.00 0.00 3.95
197 198 2.654385 TCCCCTGATGAAATGTCCCTTT 59.346 45.455 0.00 0.00 0.00 3.11
198 199 3.855599 TCCCCTGATGAAATGTCCCTTTA 59.144 43.478 0.00 0.00 0.00 1.85
199 200 3.954258 CCCCTGATGAAATGTCCCTTTAC 59.046 47.826 0.00 0.00 0.00 2.01
200 201 4.569653 CCCCTGATGAAATGTCCCTTTACA 60.570 45.833 0.00 0.00 0.00 2.41
201 202 5.016173 CCCTGATGAAATGTCCCTTTACAA 58.984 41.667 0.00 0.00 32.02 2.41
202 203 5.480073 CCCTGATGAAATGTCCCTTTACAAA 59.520 40.000 0.00 0.00 32.02 2.83
203 204 6.389906 CCTGATGAAATGTCCCTTTACAAAC 58.610 40.000 0.00 0.00 32.02 2.93
204 205 6.007936 TGATGAAATGTCCCTTTACAAACG 57.992 37.500 0.00 0.00 32.02 3.60
205 206 5.533154 TGATGAAATGTCCCTTTACAAACGT 59.467 36.000 0.00 0.00 32.02 3.99
206 207 5.838531 TGAAATGTCCCTTTACAAACGTT 57.161 34.783 0.00 0.00 32.02 3.99
207 208 6.210287 TGAAATGTCCCTTTACAAACGTTT 57.790 33.333 7.96 7.96 34.46 3.60
208 209 6.267070 TGAAATGTCCCTTTACAAACGTTTC 58.733 36.000 11.37 10.56 43.23 2.78
209 210 3.948196 TGTCCCTTTACAAACGTTTCG 57.052 42.857 11.37 9.51 0.00 3.46
210 211 3.269178 TGTCCCTTTACAAACGTTTCGT 58.731 40.909 11.37 14.66 43.97 3.85
221 222 1.856802 ACGTTTCGTTCACTACCCAC 58.143 50.000 0.00 0.00 36.35 4.61
222 223 1.142474 CGTTTCGTTCACTACCCACC 58.858 55.000 0.00 0.00 0.00 4.61
223 224 1.269936 CGTTTCGTTCACTACCCACCT 60.270 52.381 0.00 0.00 0.00 4.00
224 225 2.804212 CGTTTCGTTCACTACCCACCTT 60.804 50.000 0.00 0.00 0.00 3.50
225 226 2.804527 GTTTCGTTCACTACCCACCTTC 59.195 50.000 0.00 0.00 0.00 3.46
226 227 0.971386 TCGTTCACTACCCACCTTCC 59.029 55.000 0.00 0.00 0.00 3.46
227 228 0.036671 CGTTCACTACCCACCTTCCC 60.037 60.000 0.00 0.00 0.00 3.97
228 229 1.061546 GTTCACTACCCACCTTCCCA 58.938 55.000 0.00 0.00 0.00 4.37
229 230 1.633945 GTTCACTACCCACCTTCCCAT 59.366 52.381 0.00 0.00 0.00 4.00
230 231 1.580059 TCACTACCCACCTTCCCATC 58.420 55.000 0.00 0.00 0.00 3.51
231 232 1.080498 TCACTACCCACCTTCCCATCT 59.920 52.381 0.00 0.00 0.00 2.90
232 233 2.316677 TCACTACCCACCTTCCCATCTA 59.683 50.000 0.00 0.00 0.00 1.98
233 234 3.112263 CACTACCCACCTTCCCATCTAA 58.888 50.000 0.00 0.00 0.00 2.10
234 235 3.113043 ACTACCCACCTTCCCATCTAAC 58.887 50.000 0.00 0.00 0.00 2.34
235 236 0.909623 ACCCACCTTCCCATCTAACG 59.090 55.000 0.00 0.00 0.00 3.18
236 237 0.180406 CCCACCTTCCCATCTAACGG 59.820 60.000 0.00 0.00 0.00 4.44
237 238 0.909623 CCACCTTCCCATCTAACGGT 59.090 55.000 0.00 0.00 0.00 4.83
238 239 1.134491 CCACCTTCCCATCTAACGGTC 60.134 57.143 0.00 0.00 0.00 4.79
239 240 1.553248 CACCTTCCCATCTAACGGTCA 59.447 52.381 0.00 0.00 0.00 4.02
240 241 2.027561 CACCTTCCCATCTAACGGTCAA 60.028 50.000 0.00 0.00 0.00 3.18
241 242 2.640826 ACCTTCCCATCTAACGGTCAAA 59.359 45.455 0.00 0.00 0.00 2.69
242 243 3.007635 CCTTCCCATCTAACGGTCAAAC 58.992 50.000 0.00 0.00 0.00 2.93
243 244 2.773993 TCCCATCTAACGGTCAAACC 57.226 50.000 0.00 0.00 34.05 3.27
244 245 1.279846 TCCCATCTAACGGTCAAACCC 59.720 52.381 0.00 0.00 33.75 4.11
245 246 1.003812 CCCATCTAACGGTCAAACCCA 59.996 52.381 0.00 0.00 33.75 4.51
246 247 2.356135 CCATCTAACGGTCAAACCCAG 58.644 52.381 0.00 0.00 33.75 4.45
247 248 2.290071 CCATCTAACGGTCAAACCCAGT 60.290 50.000 0.00 0.00 33.75 4.00
248 249 3.408634 CATCTAACGGTCAAACCCAGTT 58.591 45.455 0.00 0.00 33.75 3.16
249 250 4.563993 CCATCTAACGGTCAAACCCAGTTA 60.564 45.833 0.00 0.00 33.75 2.24
250 251 4.261578 TCTAACGGTCAAACCCAGTTAG 57.738 45.455 13.45 13.45 39.82 2.34
251 252 2.265589 AACGGTCAAACCCAGTTAGG 57.734 50.000 0.00 0.00 33.75 2.69
268 269 7.225011 CCAGTTAGGGTCCTAAATATTTCTCC 58.775 42.308 10.71 3.60 39.82 3.71
269 270 7.225011 CAGTTAGGGTCCTAAATATTTCTCCC 58.775 42.308 10.71 11.70 39.82 4.30
270 271 7.072581 CAGTTAGGGTCCTAAATATTTCTCCCT 59.927 40.741 23.35 23.35 44.91 4.20
271 272 7.632164 AGTTAGGGTCCTAAATATTTCTCCCTT 59.368 37.037 24.23 12.98 43.05 3.95
272 273 6.267492 AGGGTCCTAAATATTTCTCCCTTG 57.733 41.667 18.47 0.61 40.79 3.61
273 274 4.827835 GGGTCCTAAATATTTCTCCCTTGC 59.172 45.833 3.39 0.00 0.00 4.01
274 275 4.827835 GGTCCTAAATATTTCTCCCTTGCC 59.172 45.833 3.39 0.00 0.00 4.52
275 276 4.827835 GTCCTAAATATTTCTCCCTTGCCC 59.172 45.833 3.39 0.00 0.00 5.36
276 277 4.731929 TCCTAAATATTTCTCCCTTGCCCT 59.268 41.667 3.39 0.00 0.00 5.19
277 278 5.073428 CCTAAATATTTCTCCCTTGCCCTC 58.927 45.833 3.39 0.00 0.00 4.30
278 279 2.938956 ATATTTCTCCCTTGCCCTCG 57.061 50.000 0.00 0.00 0.00 4.63
279 280 1.874129 TATTTCTCCCTTGCCCTCGA 58.126 50.000 0.00 0.00 0.00 4.04
280 281 0.991920 ATTTCTCCCTTGCCCTCGAA 59.008 50.000 0.00 0.00 0.00 3.71
281 282 0.324943 TTTCTCCCTTGCCCTCGAAG 59.675 55.000 0.00 0.00 0.00 3.79
282 283 0.544357 TTCTCCCTTGCCCTCGAAGA 60.544 55.000 0.00 0.00 0.00 2.87
316 317 4.376223 TCCCCACTATGACCCAAAGATTA 58.624 43.478 0.00 0.00 0.00 1.75
334 335 6.443934 AGATTATCCTCGATATTGACGGAG 57.556 41.667 13.42 1.58 0.00 4.63
353 354 1.110518 GTCGAGGGGAAGGCTAGGAG 61.111 65.000 0.00 0.00 0.00 3.69
374 375 3.742369 AGGCATGAATTTGTTGCGAAAAG 59.258 39.130 0.00 0.00 37.25 2.27
395 396 5.397142 AGCCCTTGCATTTCTAAGAAAAG 57.603 39.130 0.00 0.00 41.13 2.27
399 400 6.572314 GCCCTTGCATTTCTAAGAAAAGCTAA 60.572 38.462 0.00 0.00 37.47 3.09
448 449 9.424659 CACAAAAACTACAAAGAAATGAAATGC 57.575 29.630 0.00 0.00 0.00 3.56
467 468 8.948145 TGAAATGCATAAAATTCCCAAGAAATG 58.052 29.630 0.00 0.00 35.09 2.32
557 560 2.036475 CGGAGGTCATGTAAGGATCCAG 59.964 54.545 15.82 0.00 0.00 3.86
645 648 0.039256 CCCTCAAACATGCACGTTGG 60.039 55.000 0.00 0.00 0.00 3.77
646 649 0.039256 CCTCAAACATGCACGTTGGG 60.039 55.000 0.00 0.00 0.00 4.12
647 650 0.667993 CTCAAACATGCACGTTGGGT 59.332 50.000 0.00 0.00 0.00 4.51
659 662 3.917985 GCACGTTGGGTTGTAAATTCATC 59.082 43.478 0.00 0.00 0.00 2.92
666 925 3.759618 GGGTTGTAAATTCATCGGACCAA 59.240 43.478 0.00 0.00 0.00 3.67
693 952 3.615496 GCACCATGTCAAGCAATTTGATC 59.385 43.478 0.00 0.00 46.85 2.92
695 954 4.081862 CACCATGTCAAGCAATTTGATCCT 60.082 41.667 0.00 0.00 46.85 3.24
703 962 6.587608 GTCAAGCAATTTGATCCTTGTTTAGG 59.412 38.462 0.00 0.00 46.85 2.69
805 1133 9.787435 AAAATTCAGTAAGTATCTAACACCACA 57.213 29.630 0.00 0.00 0.00 4.17
806 1134 8.773404 AATTCAGTAAGTATCTAACACCACAC 57.227 34.615 0.00 0.00 0.00 3.82
807 1135 6.904463 TCAGTAAGTATCTAACACCACACA 57.096 37.500 0.00 0.00 0.00 3.72
808 1136 6.684686 TCAGTAAGTATCTAACACCACACAC 58.315 40.000 0.00 0.00 0.00 3.82
809 1137 6.265876 TCAGTAAGTATCTAACACCACACACA 59.734 38.462 0.00 0.00 0.00 3.72
810 1138 6.365247 CAGTAAGTATCTAACACCACACACAC 59.635 42.308 0.00 0.00 0.00 3.82
811 1139 4.948341 AGTATCTAACACCACACACACA 57.052 40.909 0.00 0.00 0.00 3.72
812 1140 4.628074 AGTATCTAACACCACACACACAC 58.372 43.478 0.00 0.00 0.00 3.82
813 1141 1.929230 TCTAACACCACACACACACG 58.071 50.000 0.00 0.00 0.00 4.49
814 1142 0.303493 CTAACACCACACACACACGC 59.697 55.000 0.00 0.00 0.00 5.34
815 1143 1.422179 TAACACCACACACACACGCG 61.422 55.000 3.53 3.53 0.00 6.01
816 1144 4.589700 CACCACACACACACGCGC 62.590 66.667 5.73 0.00 0.00 6.86
821 1149 3.882013 CACACACACGCGCCCAAA 61.882 61.111 5.73 0.00 0.00 3.28
822 1150 3.134792 ACACACACGCGCCCAAAA 61.135 55.556 5.73 0.00 0.00 2.44
823 1151 2.334653 CACACACGCGCCCAAAAT 59.665 55.556 5.73 0.00 0.00 1.82
824 1152 1.299773 CACACACGCGCCCAAAATT 60.300 52.632 5.73 0.00 0.00 1.82
825 1153 0.039978 CACACACGCGCCCAAAATTA 60.040 50.000 5.73 0.00 0.00 1.40
826 1154 0.669077 ACACACGCGCCCAAAATTAA 59.331 45.000 5.73 0.00 0.00 1.40
827 1155 1.271102 ACACACGCGCCCAAAATTAAT 59.729 42.857 5.73 0.00 0.00 1.40
828 1156 2.488545 ACACACGCGCCCAAAATTAATA 59.511 40.909 5.73 0.00 0.00 0.98
829 1157 3.105203 CACACGCGCCCAAAATTAATAG 58.895 45.455 5.73 0.00 0.00 1.73
830 1158 2.116366 CACGCGCCCAAAATTAATAGC 58.884 47.619 5.73 0.00 0.00 2.97
831 1159 1.746220 ACGCGCCCAAAATTAATAGCA 59.254 42.857 5.73 0.00 0.00 3.49
832 1160 2.116366 CGCGCCCAAAATTAATAGCAC 58.884 47.619 0.00 0.00 0.00 4.40
833 1161 2.223479 CGCGCCCAAAATTAATAGCACT 60.223 45.455 0.00 0.00 0.00 4.40
834 1162 3.002862 CGCGCCCAAAATTAATAGCACTA 59.997 43.478 0.00 0.00 0.00 2.74
835 1163 4.496673 CGCGCCCAAAATTAATAGCACTAA 60.497 41.667 0.00 0.00 0.00 2.24
836 1164 4.738252 GCGCCCAAAATTAATAGCACTAAC 59.262 41.667 0.00 0.00 0.00 2.34
837 1165 5.677598 GCGCCCAAAATTAATAGCACTAACA 60.678 40.000 0.00 0.00 0.00 2.41
870 1198 6.426646 TTTCTCCAGAGAAGGGATAATAGC 57.573 41.667 9.87 0.00 46.80 2.97
871 1199 4.421131 TCTCCAGAGAAGGGATAATAGCC 58.579 47.826 0.00 0.00 33.91 3.93
890 1218 1.228862 ACCAGCACCCACAAATCCC 60.229 57.895 0.00 0.00 0.00 3.85
896 1224 1.703411 CACCCACAAATCCCAACACT 58.297 50.000 0.00 0.00 0.00 3.55
923 1251 1.712081 CTCCAGCTGAAACGCATCG 59.288 57.895 17.39 0.00 0.00 3.84
936 1264 3.108288 GCATCGTCCCCTTCCTCCC 62.108 68.421 0.00 0.00 0.00 4.30
937 1265 2.040779 ATCGTCCCCTTCCTCCCC 60.041 66.667 0.00 0.00 0.00 4.81
938 1266 3.715848 ATCGTCCCCTTCCTCCCCC 62.716 68.421 0.00 0.00 0.00 5.40
1587 1939 3.524606 ACCGACCCGAGTATGGCG 61.525 66.667 0.00 0.00 0.00 5.69
1643 1995 4.582459 GCTCTAAACTTGCGCATTTCTAG 58.418 43.478 12.75 7.89 0.00 2.43
1673 2025 2.161410 TGTGTTGTTGTTCTGTGACTGC 59.839 45.455 0.00 0.00 0.00 4.40
1744 2097 5.125097 CCTGAGCTTATGAATTGAGCTGTTT 59.875 40.000 1.33 0.00 46.08 2.83
1752 2105 8.579850 TTATGAATTGAGCTGTTTGGTTCTAT 57.420 30.769 0.00 0.00 0.00 1.98
1801 2154 0.603975 GGGAGGCCGTATGATTGCTC 60.604 60.000 0.00 0.00 0.00 4.26
1842 2195 2.438021 GGCCACCCAGTGTAATCTGATA 59.562 50.000 0.00 0.00 37.61 2.15
1866 2219 0.692756 TTATCCGGTGCCTCCCATGA 60.693 55.000 0.00 0.00 0.00 3.07
1875 2228 3.327757 GGTGCCTCCCATGATTACTATGA 59.672 47.826 0.00 0.00 0.00 2.15
1876 2229 4.018960 GGTGCCTCCCATGATTACTATGAT 60.019 45.833 0.00 0.00 0.00 2.45
1877 2230 5.189736 GGTGCCTCCCATGATTACTATGATA 59.810 44.000 0.00 0.00 0.00 2.15
1878 2231 6.344500 GTGCCTCCCATGATTACTATGATAG 58.656 44.000 0.00 0.00 0.00 2.08
1898 2260 0.109964 TGTTTTCGCCGTGCATTAGC 60.110 50.000 0.00 0.00 42.57 3.09
1935 2298 8.257306 TCTATGATAGTGTTGTGCTGTGATTAA 58.743 33.333 0.00 0.00 0.00 1.40
2011 2456 7.710676 TGTAATTAGGCCTTTGAAGCAATAA 57.289 32.000 12.58 0.00 0.00 1.40
2013 2458 4.718940 TTAGGCCTTTGAAGCAATAAGC 57.281 40.909 12.58 0.00 46.19 3.09
2078 2523 5.359009 AGAATCTTGCTTCATATTGGTGTGG 59.641 40.000 0.00 0.00 0.00 4.17
2088 2533 7.041780 GCTTCATATTGGTGTGGTAGTAAGATG 60.042 40.741 0.00 0.00 0.00 2.90
2089 2534 6.826668 TCATATTGGTGTGGTAGTAAGATGG 58.173 40.000 0.00 0.00 0.00 3.51
2151 2599 9.846248 AGCAAGATTTACTATGAAACATTGAAC 57.154 29.630 0.00 0.00 0.00 3.18
2152 2600 9.846248 GCAAGATTTACTATGAAACATTGAACT 57.154 29.630 0.00 0.00 0.00 3.01
2160 2608 8.524870 ACTATGAAACATTGAACTCAAAATGC 57.475 30.769 0.00 0.00 39.55 3.56
2161 2609 8.143193 ACTATGAAACATTGAACTCAAAATGCA 58.857 29.630 0.00 0.00 39.55 3.96
2163 2611 7.179927 TGAAACATTGAACTCAAAATGCATG 57.820 32.000 0.00 0.00 39.55 4.06
2165 2613 4.571919 ACATTGAACTCAAAATGCATGGG 58.428 39.130 0.00 0.00 39.55 4.00
2171 2619 5.125900 TGAACTCAAAATGCATGGGAGTATG 59.874 40.000 21.45 6.47 37.82 2.39
2174 2622 2.696707 CAAAATGCATGGGAGTATGGCT 59.303 45.455 0.00 0.00 0.00 4.75
2196 2644 6.071728 GGCTTCCTGCATGCTTTGTATAATAT 60.072 38.462 20.33 0.00 45.15 1.28
2224 2683 5.620206 TGACAGGTCTTCAGCTATTTTTCA 58.380 37.500 0.65 0.00 0.00 2.69
2225 2684 6.240894 TGACAGGTCTTCAGCTATTTTTCAT 58.759 36.000 0.65 0.00 0.00 2.57
2226 2685 6.716628 TGACAGGTCTTCAGCTATTTTTCATT 59.283 34.615 0.65 0.00 0.00 2.57
2227 2686 7.231317 TGACAGGTCTTCAGCTATTTTTCATTT 59.769 33.333 0.65 0.00 0.00 2.32
2228 2687 7.597386 ACAGGTCTTCAGCTATTTTTCATTTC 58.403 34.615 0.00 0.00 0.00 2.17
2229 2688 7.031975 CAGGTCTTCAGCTATTTTTCATTTCC 58.968 38.462 0.00 0.00 0.00 3.13
2230 2689 6.950619 AGGTCTTCAGCTATTTTTCATTTCCT 59.049 34.615 0.00 0.00 0.00 3.36
2231 2690 7.452813 AGGTCTTCAGCTATTTTTCATTTCCTT 59.547 33.333 0.00 0.00 0.00 3.36
2232 2691 8.090831 GGTCTTCAGCTATTTTTCATTTCCTTT 58.909 33.333 0.00 0.00 0.00 3.11
2233 2692 9.481340 GTCTTCAGCTATTTTTCATTTCCTTTT 57.519 29.630 0.00 0.00 0.00 2.27
2267 2726 2.957680 TCCAGTTGATCAGCTTTGCAAA 59.042 40.909 9.66 12.14 0.00 3.68
2281 2740 7.273164 TCAGCTTTGCAAACAACATATTTATCG 59.727 33.333 8.05 0.00 34.87 2.92
2401 2860 2.426381 GGACGGAGGGAGTAACAAGTAG 59.574 54.545 0.00 0.00 0.00 2.57
2408 2867 2.415512 GGGAGTAACAAGTAGCTTTGCG 59.584 50.000 0.00 0.00 0.00 4.85
2415 2874 5.880054 AACAAGTAGCTTTGCGATATGTT 57.120 34.783 0.00 0.00 0.00 2.71
2600 3072 1.934589 TCACCATTACTTCGGCATCG 58.065 50.000 0.00 0.00 37.82 3.84
2601 3073 1.206132 TCACCATTACTTCGGCATCGT 59.794 47.619 0.00 0.00 37.69 3.73
2602 3074 2.006888 CACCATTACTTCGGCATCGTT 58.993 47.619 0.00 0.00 37.69 3.85
2603 3075 2.030457 CACCATTACTTCGGCATCGTTC 59.970 50.000 0.00 0.00 37.69 3.95
2604 3076 1.597663 CCATTACTTCGGCATCGTTCC 59.402 52.381 0.00 0.00 37.69 3.62
2605 3077 2.276201 CATTACTTCGGCATCGTTCCA 58.724 47.619 0.00 0.00 37.69 3.53
2606 3078 2.684001 TTACTTCGGCATCGTTCCAT 57.316 45.000 0.00 0.00 37.69 3.41
2607 3079 2.684001 TACTTCGGCATCGTTCCATT 57.316 45.000 0.00 0.00 37.69 3.16
2608 3080 1.821216 ACTTCGGCATCGTTCCATTT 58.179 45.000 0.00 0.00 37.69 2.32
2609 3081 2.159382 ACTTCGGCATCGTTCCATTTT 58.841 42.857 0.00 0.00 37.69 1.82
2610 3082 2.161609 ACTTCGGCATCGTTCCATTTTC 59.838 45.455 0.00 0.00 37.69 2.29
2611 3083 1.814793 TCGGCATCGTTCCATTTTCA 58.185 45.000 0.00 0.00 37.69 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 7.914871 TGTTACAAATATCAAAATCGATGCAGG 59.085 33.333 0.00 0.00 0.00 4.85
41 42 5.252547 TGTTAATAGCATCAGACTGCCAAA 58.747 37.500 0.00 0.00 43.33 3.28
42 43 4.842574 TGTTAATAGCATCAGACTGCCAA 58.157 39.130 0.00 0.00 43.33 4.52
43 44 4.486125 TGTTAATAGCATCAGACTGCCA 57.514 40.909 0.00 0.00 43.33 4.92
44 45 4.214971 CCATGTTAATAGCATCAGACTGCC 59.785 45.833 0.00 0.00 43.33 4.85
45 46 4.214971 CCCATGTTAATAGCATCAGACTGC 59.785 45.833 0.00 0.00 42.62 4.40
46 47 5.614308 TCCCATGTTAATAGCATCAGACTG 58.386 41.667 0.00 0.00 0.00 3.51
47 48 5.894298 TCCCATGTTAATAGCATCAGACT 57.106 39.130 0.00 0.00 0.00 3.24
48 49 6.942532 TTTCCCATGTTAATAGCATCAGAC 57.057 37.500 0.00 0.00 0.00 3.51
101 102 2.919096 GCCCAGGGCCCAGTTAACT 61.919 63.158 27.56 1.12 44.06 2.24
114 115 3.579302 TGACCCCAGTTGGCCCAG 61.579 66.667 0.00 0.00 0.00 4.45
167 168 4.443978 TTTCATCAGGGGAATGGATCTC 57.556 45.455 0.00 0.00 0.00 2.75
168 169 4.169461 ACATTTCATCAGGGGAATGGATCT 59.831 41.667 0.00 0.00 0.00 2.75
169 170 4.477249 ACATTTCATCAGGGGAATGGATC 58.523 43.478 0.00 0.00 0.00 3.36
170 171 4.477249 GACATTTCATCAGGGGAATGGAT 58.523 43.478 0.00 0.00 0.00 3.41
171 172 3.373001 GGACATTTCATCAGGGGAATGGA 60.373 47.826 0.00 0.00 0.00 3.41
172 173 2.961062 GGACATTTCATCAGGGGAATGG 59.039 50.000 0.00 0.00 0.00 3.16
173 174 2.961062 GGGACATTTCATCAGGGGAATG 59.039 50.000 0.00 0.00 0.00 2.67
174 175 2.861317 AGGGACATTTCATCAGGGGAAT 59.139 45.455 0.00 0.00 0.00 3.01
175 176 2.287584 AGGGACATTTCATCAGGGGAA 58.712 47.619 0.00 0.00 0.00 3.97
176 177 1.985622 AGGGACATTTCATCAGGGGA 58.014 50.000 0.00 0.00 0.00 4.81
177 178 2.834638 AAGGGACATTTCATCAGGGG 57.165 50.000 0.00 0.00 0.00 4.79
178 179 4.599041 TGTAAAGGGACATTTCATCAGGG 58.401 43.478 0.00 0.00 0.00 4.45
179 180 6.389906 GTTTGTAAAGGGACATTTCATCAGG 58.610 40.000 0.00 0.00 0.00 3.86
180 181 6.086222 CGTTTGTAAAGGGACATTTCATCAG 58.914 40.000 0.00 0.00 0.00 2.90
181 182 5.533154 ACGTTTGTAAAGGGACATTTCATCA 59.467 36.000 2.64 0.00 0.00 3.07
182 183 6.009115 ACGTTTGTAAAGGGACATTTCATC 57.991 37.500 2.64 0.00 0.00 2.92
183 184 6.399639 AACGTTTGTAAAGGGACATTTCAT 57.600 33.333 0.00 0.00 0.00 2.57
184 185 5.838531 AACGTTTGTAAAGGGACATTTCA 57.161 34.783 0.00 0.00 0.00 2.69
185 186 5.397240 CGAAACGTTTGTAAAGGGACATTTC 59.603 40.000 20.10 0.00 0.00 2.17
186 187 5.163632 ACGAAACGTTTGTAAAGGGACATTT 60.164 36.000 20.10 0.00 36.35 2.32
187 188 4.336153 ACGAAACGTTTGTAAAGGGACATT 59.664 37.500 20.10 0.00 36.35 2.71
188 189 3.878699 ACGAAACGTTTGTAAAGGGACAT 59.121 39.130 20.10 0.00 36.35 3.06
189 190 3.269178 ACGAAACGTTTGTAAAGGGACA 58.731 40.909 20.10 0.00 36.35 4.02
190 191 3.950087 ACGAAACGTTTGTAAAGGGAC 57.050 42.857 20.10 0.00 36.35 4.46
202 203 1.538849 GGTGGGTAGTGAACGAAACGT 60.539 52.381 0.00 0.00 43.97 3.99
203 204 1.142474 GGTGGGTAGTGAACGAAACG 58.858 55.000 0.00 0.00 0.00 3.60
204 205 2.538512 AGGTGGGTAGTGAACGAAAC 57.461 50.000 0.00 0.00 0.00 2.78
205 206 2.224354 GGAAGGTGGGTAGTGAACGAAA 60.224 50.000 0.00 0.00 0.00 3.46
206 207 1.345415 GGAAGGTGGGTAGTGAACGAA 59.655 52.381 0.00 0.00 0.00 3.85
207 208 0.971386 GGAAGGTGGGTAGTGAACGA 59.029 55.000 0.00 0.00 0.00 3.85
208 209 0.036671 GGGAAGGTGGGTAGTGAACG 60.037 60.000 0.00 0.00 0.00 3.95
209 210 1.061546 TGGGAAGGTGGGTAGTGAAC 58.938 55.000 0.00 0.00 0.00 3.18
210 211 1.913419 GATGGGAAGGTGGGTAGTGAA 59.087 52.381 0.00 0.00 0.00 3.18
211 212 1.080498 AGATGGGAAGGTGGGTAGTGA 59.920 52.381 0.00 0.00 0.00 3.41
212 213 1.584724 AGATGGGAAGGTGGGTAGTG 58.415 55.000 0.00 0.00 0.00 2.74
213 214 3.113043 GTTAGATGGGAAGGTGGGTAGT 58.887 50.000 0.00 0.00 0.00 2.73
214 215 2.102588 CGTTAGATGGGAAGGTGGGTAG 59.897 54.545 0.00 0.00 0.00 3.18
215 216 2.112998 CGTTAGATGGGAAGGTGGGTA 58.887 52.381 0.00 0.00 0.00 3.69
216 217 0.909623 CGTTAGATGGGAAGGTGGGT 59.090 55.000 0.00 0.00 0.00 4.51
217 218 0.180406 CCGTTAGATGGGAAGGTGGG 59.820 60.000 0.00 0.00 0.00 4.61
218 219 0.909623 ACCGTTAGATGGGAAGGTGG 59.090 55.000 0.00 0.00 0.00 4.61
219 220 1.553248 TGACCGTTAGATGGGAAGGTG 59.447 52.381 0.00 0.00 31.35 4.00
220 221 1.946984 TGACCGTTAGATGGGAAGGT 58.053 50.000 0.00 0.00 34.27 3.50
221 222 3.007635 GTTTGACCGTTAGATGGGAAGG 58.992 50.000 0.00 0.00 0.00 3.46
222 223 3.007635 GGTTTGACCGTTAGATGGGAAG 58.992 50.000 0.00 0.00 0.00 3.46
223 224 2.290450 GGGTTTGACCGTTAGATGGGAA 60.290 50.000 0.00 0.00 39.83 3.97
224 225 1.279846 GGGTTTGACCGTTAGATGGGA 59.720 52.381 0.00 0.00 39.83 4.37
225 226 1.003812 TGGGTTTGACCGTTAGATGGG 59.996 52.381 0.00 0.00 39.83 4.00
226 227 2.290071 ACTGGGTTTGACCGTTAGATGG 60.290 50.000 0.00 0.00 39.83 3.51
227 228 3.053831 ACTGGGTTTGACCGTTAGATG 57.946 47.619 0.00 0.00 39.83 2.90
228 229 3.782656 AACTGGGTTTGACCGTTAGAT 57.217 42.857 0.00 0.00 39.83 1.98
229 230 3.007182 CCTAACTGGGTTTGACCGTTAGA 59.993 47.826 18.47 0.00 42.92 2.10
230 231 3.332034 CCTAACTGGGTTTGACCGTTAG 58.668 50.000 13.50 13.50 41.64 2.34
231 232 3.405823 CCTAACTGGGTTTGACCGTTA 57.594 47.619 0.00 0.00 39.83 3.18
232 233 2.265589 CCTAACTGGGTTTGACCGTT 57.734 50.000 0.00 0.00 39.83 4.44
243 244 7.225011 GGAGAAATATTTAGGACCCTAACTGG 58.775 42.308 7.96 0.00 38.14 4.00
244 245 7.072581 AGGGAGAAATATTTAGGACCCTAACTG 59.927 40.741 21.75 0.00 43.67 3.16
245 246 7.147195 AGGGAGAAATATTTAGGACCCTAACT 58.853 38.462 21.75 6.05 43.67 2.24
246 247 7.390013 AGGGAGAAATATTTAGGACCCTAAC 57.610 40.000 21.75 5.61 43.67 2.34
247 248 7.639534 GCAAGGGAGAAATATTTAGGACCCTAA 60.640 40.741 22.62 4.48 44.56 2.69
248 249 6.183361 GCAAGGGAGAAATATTTAGGACCCTA 60.183 42.308 22.62 0.00 44.56 3.53
249 250 5.399152 GCAAGGGAGAAATATTTAGGACCCT 60.399 44.000 19.42 19.42 46.86 4.34
250 251 4.827835 GCAAGGGAGAAATATTTAGGACCC 59.172 45.833 16.81 16.81 36.67 4.46
251 252 4.827835 GGCAAGGGAGAAATATTTAGGACC 59.172 45.833 0.00 2.06 0.00 4.46
252 253 4.827835 GGGCAAGGGAGAAATATTTAGGAC 59.172 45.833 0.00 0.00 0.00 3.85
253 254 4.731929 AGGGCAAGGGAGAAATATTTAGGA 59.268 41.667 0.00 0.00 0.00 2.94
254 255 5.066913 AGGGCAAGGGAGAAATATTTAGG 57.933 43.478 0.00 0.00 0.00 2.69
255 256 4.757149 CGAGGGCAAGGGAGAAATATTTAG 59.243 45.833 0.00 0.00 0.00 1.85
256 257 4.410883 TCGAGGGCAAGGGAGAAATATTTA 59.589 41.667 0.00 0.00 0.00 1.40
257 258 3.202151 TCGAGGGCAAGGGAGAAATATTT 59.798 43.478 0.00 0.00 0.00 1.40
258 259 2.777692 TCGAGGGCAAGGGAGAAATATT 59.222 45.455 0.00 0.00 0.00 1.28
259 260 2.408565 TCGAGGGCAAGGGAGAAATAT 58.591 47.619 0.00 0.00 0.00 1.28
260 261 1.874129 TCGAGGGCAAGGGAGAAATA 58.126 50.000 0.00 0.00 0.00 1.40
261 262 0.991920 TTCGAGGGCAAGGGAGAAAT 59.008 50.000 0.00 0.00 0.00 2.17
262 263 0.324943 CTTCGAGGGCAAGGGAGAAA 59.675 55.000 0.00 0.00 0.00 2.52
263 264 0.544357 TCTTCGAGGGCAAGGGAGAA 60.544 55.000 0.00 0.00 0.00 2.87
264 265 0.544357 TTCTTCGAGGGCAAGGGAGA 60.544 55.000 0.00 0.00 0.00 3.71
265 266 0.324943 TTTCTTCGAGGGCAAGGGAG 59.675 55.000 0.00 0.00 0.00 4.30
266 267 0.768622 TTTTCTTCGAGGGCAAGGGA 59.231 50.000 0.00 0.00 0.00 4.20
267 268 1.616159 TTTTTCTTCGAGGGCAAGGG 58.384 50.000 0.00 0.00 0.00 3.95
297 298 6.192970 AGGATAATCTTTGGGTCATAGTGG 57.807 41.667 0.00 0.00 0.00 4.00
316 317 2.484651 CGACTCCGTCAATATCGAGGAT 59.515 50.000 0.00 0.00 34.77 3.24
334 335 1.076192 TCCTAGCCTTCCCCTCGAC 60.076 63.158 0.00 0.00 0.00 4.20
337 338 2.144078 GCCTCCTAGCCTTCCCCTC 61.144 68.421 0.00 0.00 0.00 4.30
339 340 1.772156 ATGCCTCCTAGCCTTCCCC 60.772 63.158 0.00 0.00 0.00 4.81
343 344 3.294214 CAAATTCATGCCTCCTAGCCTT 58.706 45.455 0.00 0.00 0.00 4.35
353 354 3.665060 GCTTTTCGCAACAAATTCATGCC 60.665 43.478 4.95 0.00 36.75 4.40
374 375 3.928992 GCTTTTCTTAGAAATGCAAGGGC 59.071 43.478 28.73 13.43 41.68 5.19
395 396 8.693542 AGAGTTTGTGCATTTTGATTATTAGC 57.306 30.769 0.00 0.00 0.00 3.09
399 400 8.575589 TGTGTAGAGTTTGTGCATTTTGATTAT 58.424 29.630 0.00 0.00 0.00 1.28
448 449 9.709495 TCAAAGACATTTCTTGGGAATTTTATG 57.291 29.630 0.00 0.00 41.56 1.90
467 468 9.129209 GTTTTAAGGCATGTTTATCTCAAAGAC 57.871 33.333 0.00 0.00 0.00 3.01
557 560 3.732721 GGTACTATAATGTCGCGTTGGTC 59.267 47.826 5.77 0.00 0.00 4.02
594 597 8.697846 TGATTAGTAGAATTGTAAAGACACCG 57.302 34.615 0.00 0.00 34.48 4.94
645 648 5.576447 ATTGGTCCGATGAATTTACAACC 57.424 39.130 0.00 0.00 0.00 3.77
646 649 7.621219 GCAAAATTGGTCCGATGAATTTACAAC 60.621 37.037 0.00 0.00 30.81 3.32
647 650 6.367422 GCAAAATTGGTCCGATGAATTTACAA 59.633 34.615 0.00 0.00 30.81 2.41
659 662 1.000731 ACATGGTGCAAAATTGGTCCG 59.999 47.619 0.00 0.00 0.00 4.79
666 925 3.472283 TTGCTTGACATGGTGCAAAAT 57.528 38.095 12.21 0.00 41.58 1.82
725 984 8.545229 ACATTGTTTCAGTTTCAGAGATAGAG 57.455 34.615 0.00 0.00 0.00 2.43
804 1132 2.676016 ATTTTGGGCGCGTGTGTGTG 62.676 55.000 8.43 0.00 0.00 3.82
805 1133 2.010582 AATTTTGGGCGCGTGTGTGT 62.011 50.000 8.43 0.00 0.00 3.72
806 1134 0.039978 TAATTTTGGGCGCGTGTGTG 60.040 50.000 8.43 0.00 0.00 3.82
807 1135 0.669077 TTAATTTTGGGCGCGTGTGT 59.331 45.000 8.43 0.00 0.00 3.72
808 1136 1.989430 ATTAATTTTGGGCGCGTGTG 58.011 45.000 8.43 0.00 0.00 3.82
809 1137 2.478879 GCTATTAATTTTGGGCGCGTGT 60.479 45.455 8.43 0.00 0.00 4.49
810 1138 2.116366 GCTATTAATTTTGGGCGCGTG 58.884 47.619 8.43 0.00 0.00 5.34
811 1139 1.746220 TGCTATTAATTTTGGGCGCGT 59.254 42.857 8.43 0.00 0.00 6.01
812 1140 2.116366 GTGCTATTAATTTTGGGCGCG 58.884 47.619 0.00 0.00 0.00 6.86
813 1141 3.436700 AGTGCTATTAATTTTGGGCGC 57.563 42.857 0.00 0.00 0.00 6.53
814 1142 5.885881 TGTTAGTGCTATTAATTTTGGGCG 58.114 37.500 0.00 0.00 0.00 6.13
815 1143 8.440059 GTTTTGTTAGTGCTATTAATTTTGGGC 58.560 33.333 0.00 0.00 0.00 5.36
816 1144 8.931775 GGTTTTGTTAGTGCTATTAATTTTGGG 58.068 33.333 0.00 0.00 0.00 4.12
817 1145 9.482627 TGGTTTTGTTAGTGCTATTAATTTTGG 57.517 29.630 0.00 0.00 0.00 3.28
819 1147 9.483916 GGTGGTTTTGTTAGTGCTATTAATTTT 57.516 29.630 0.00 0.00 0.00 1.82
820 1148 8.643324 TGGTGGTTTTGTTAGTGCTATTAATTT 58.357 29.630 0.00 0.00 0.00 1.82
821 1149 8.184304 TGGTGGTTTTGTTAGTGCTATTAATT 57.816 30.769 0.00 0.00 0.00 1.40
822 1150 7.768807 TGGTGGTTTTGTTAGTGCTATTAAT 57.231 32.000 0.00 0.00 0.00 1.40
823 1151 7.768807 ATGGTGGTTTTGTTAGTGCTATTAA 57.231 32.000 0.00 0.00 0.00 1.40
824 1152 7.768807 AATGGTGGTTTTGTTAGTGCTATTA 57.231 32.000 0.00 0.00 0.00 0.98
825 1153 6.664428 AATGGTGGTTTTGTTAGTGCTATT 57.336 33.333 0.00 0.00 0.00 1.73
826 1154 6.493458 AGAAATGGTGGTTTTGTTAGTGCTAT 59.507 34.615 0.00 0.00 0.00 2.97
827 1155 5.830991 AGAAATGGTGGTTTTGTTAGTGCTA 59.169 36.000 0.00 0.00 0.00 3.49
828 1156 4.649218 AGAAATGGTGGTTTTGTTAGTGCT 59.351 37.500 0.00 0.00 0.00 4.40
829 1157 4.944048 AGAAATGGTGGTTTTGTTAGTGC 58.056 39.130 0.00 0.00 0.00 4.40
830 1158 5.068460 TGGAGAAATGGTGGTTTTGTTAGTG 59.932 40.000 0.00 0.00 0.00 2.74
831 1159 5.205056 TGGAGAAATGGTGGTTTTGTTAGT 58.795 37.500 0.00 0.00 0.00 2.24
832 1160 5.534654 TCTGGAGAAATGGTGGTTTTGTTAG 59.465 40.000 0.00 0.00 0.00 2.34
833 1161 5.450453 TCTGGAGAAATGGTGGTTTTGTTA 58.550 37.500 0.00 0.00 0.00 2.41
834 1162 4.285863 TCTGGAGAAATGGTGGTTTTGTT 58.714 39.130 0.00 0.00 0.00 2.83
835 1163 3.891366 CTCTGGAGAAATGGTGGTTTTGT 59.109 43.478 0.00 0.00 0.00 2.83
836 1164 4.144297 TCTCTGGAGAAATGGTGGTTTTG 58.856 43.478 0.00 0.00 33.91 2.44
837 1165 4.453480 TCTCTGGAGAAATGGTGGTTTT 57.547 40.909 0.00 0.00 33.91 2.43
870 1198 1.535204 GGATTTGTGGGTGCTGGTGG 61.535 60.000 0.00 0.00 0.00 4.61
871 1199 1.535204 GGGATTTGTGGGTGCTGGTG 61.535 60.000 0.00 0.00 0.00 4.17
890 1218 2.030805 GCTGGAGCTGGTTTTAGTGTTG 60.031 50.000 0.00 0.00 38.21 3.33
917 1245 2.107141 GAGGAAGGGGACGATGCG 59.893 66.667 0.00 0.00 0.00 4.73
936 1264 2.614595 GGGATTGGGGATTGGGGG 59.385 66.667 0.00 0.00 0.00 5.40
937 1265 2.316576 CTGGGGATTGGGGATTGGGG 62.317 65.000 0.00 0.00 0.00 4.96
938 1266 1.233949 CTGGGGATTGGGGATTGGG 59.766 63.158 0.00 0.00 0.00 4.12
939 1267 0.106015 GACTGGGGATTGGGGATTGG 60.106 60.000 0.00 0.00 0.00 3.16
940 1268 0.106015 GGACTGGGGATTGGGGATTG 60.106 60.000 0.00 0.00 0.00 2.67
941 1269 1.296662 GGGACTGGGGATTGGGGATT 61.297 60.000 0.00 0.00 0.00 3.01
942 1270 1.701390 GGGACTGGGGATTGGGGAT 60.701 63.158 0.00 0.00 0.00 3.85
1567 1919 2.056223 CCATACTCGGGTCGGTGGT 61.056 63.158 0.00 0.00 0.00 4.16
1587 1939 2.628657 CTGCTGGGGGACATAGTAGTAC 59.371 54.545 0.00 0.00 0.00 2.73
1643 1995 0.951558 ACAACAACACATTCTCCGCC 59.048 50.000 0.00 0.00 0.00 6.13
1673 2025 0.963962 AGCAACAACAGCATCAAGGG 59.036 50.000 0.00 0.00 0.00 3.95
1780 2133 1.073199 CAATCATACGGCCTCCCCC 59.927 63.158 0.00 0.00 0.00 5.40
1801 2154 3.525537 CCAGTTAGTCATGCACTACTGG 58.474 50.000 21.63 21.63 43.24 4.00
1842 2195 1.697982 GGGAGGCACCGGATAATAGTT 59.302 52.381 9.46 0.00 40.11 2.24
1866 2219 6.200286 CACGGCGAAAACACTATCATAGTAAT 59.800 38.462 16.62 0.00 37.23 1.89
1875 2228 1.448985 ATGCACGGCGAAAACACTAT 58.551 45.000 16.62 0.00 0.00 2.12
1876 2229 1.231221 AATGCACGGCGAAAACACTA 58.769 45.000 16.62 0.00 0.00 2.74
1877 2230 1.196808 CTAATGCACGGCGAAAACACT 59.803 47.619 16.62 0.00 0.00 3.55
1878 2231 1.602191 CTAATGCACGGCGAAAACAC 58.398 50.000 16.62 0.00 0.00 3.32
1898 2260 9.897744 ACAACACTATCATAGAACAACAAAATG 57.102 29.630 0.00 0.00 0.00 2.32
1899 2261 9.897744 CACAACACTATCATAGAACAACAAAAT 57.102 29.630 0.00 0.00 0.00 1.82
1920 2283 8.292448 CCTAATATGGATTAATCACAGCACAAC 58.708 37.037 17.07 0.00 0.00 3.32
1935 2298 5.140454 GGAACCTTGCAACCTAATATGGAT 58.860 41.667 0.00 0.00 0.00 3.41
2013 2458 6.381801 ACAATCAGTTTATTCAAAGCTTCCG 58.618 36.000 0.00 0.00 0.00 4.30
2048 2493 7.994911 ACCAATATGAAGCAAGATTCTATGTCA 59.005 33.333 0.00 0.00 0.00 3.58
2056 2501 5.018809 ACCACACCAATATGAAGCAAGATT 58.981 37.500 0.00 0.00 0.00 2.40
2078 2523 5.793030 AGCTATCCACACCATCTTACTAC 57.207 43.478 0.00 0.00 0.00 2.73
2088 2533 3.702045 AGAGAACACTAGCTATCCACACC 59.298 47.826 0.00 0.00 0.00 4.16
2089 2534 4.399618 TGAGAGAACACTAGCTATCCACAC 59.600 45.833 0.00 0.00 0.00 3.82
2135 2582 8.143193 TGCATTTTGAGTTCAATGTTTCATAGT 58.857 29.630 0.00 0.00 35.55 2.12
2151 2599 3.243636 GCCATACTCCCATGCATTTTGAG 60.244 47.826 12.92 12.92 0.00 3.02
2152 2600 2.694628 GCCATACTCCCATGCATTTTGA 59.305 45.455 0.00 0.00 0.00 2.69
2153 2601 2.696707 AGCCATACTCCCATGCATTTTG 59.303 45.455 0.00 0.00 0.00 2.44
2154 2602 3.036452 AGCCATACTCCCATGCATTTT 57.964 42.857 0.00 0.00 0.00 1.82
2156 2604 2.590821 GAAGCCATACTCCCATGCATT 58.409 47.619 0.00 0.00 0.00 3.56
2158 2606 0.183492 GGAAGCCATACTCCCATGCA 59.817 55.000 0.00 0.00 0.00 3.96
2159 2607 0.475906 AGGAAGCCATACTCCCATGC 59.524 55.000 0.00 0.00 0.00 4.06
2160 2608 1.816961 GCAGGAAGCCATACTCCCATG 60.817 57.143 0.00 0.00 37.23 3.66
2161 2609 0.475906 GCAGGAAGCCATACTCCCAT 59.524 55.000 0.00 0.00 37.23 4.00
2163 2611 0.475906 ATGCAGGAAGCCATACTCCC 59.524 55.000 0.00 0.00 44.83 4.30
2165 2613 0.950116 GCATGCAGGAAGCCATACTC 59.050 55.000 14.21 0.00 44.83 2.59
2171 2619 1.176527 TACAAAGCATGCAGGAAGCC 58.823 50.000 21.98 0.00 44.83 4.35
2174 2622 7.443879 TCGAATATTATACAAAGCATGCAGGAA 59.556 33.333 21.98 4.15 0.00 3.36
2196 2644 1.895798 AGCTGAAGACCTGTCATCGAA 59.104 47.619 0.00 0.00 30.57 3.71
2227 2686 9.762933 CAACTGGATTATGAAAAAGAAAAAGGA 57.237 29.630 0.00 0.00 0.00 3.36
2228 2687 9.762933 TCAACTGGATTATGAAAAAGAAAAAGG 57.237 29.630 0.00 0.00 0.00 3.11
2233 2692 8.246180 GCTGATCAACTGGATTATGAAAAAGAA 58.754 33.333 0.00 0.00 36.00 2.52
2234 2693 7.613022 AGCTGATCAACTGGATTATGAAAAAGA 59.387 33.333 0.00 0.00 36.00 2.52
2235 2694 7.769220 AGCTGATCAACTGGATTATGAAAAAG 58.231 34.615 0.00 0.00 36.00 2.27
2243 2702 4.334552 TGCAAAGCTGATCAACTGGATTA 58.665 39.130 0.00 0.00 36.00 1.75
2247 2706 3.054878 GTTTGCAAAGCTGATCAACTGG 58.945 45.455 13.26 0.00 0.00 4.00
2281 2740 8.936864 CGGATGGAGTATAAAATATGACCTTTC 58.063 37.037 0.00 0.00 0.00 2.62
2303 2762 4.019681 TGAGACACTTATTTTGGGACGGAT 60.020 41.667 0.00 0.00 0.00 4.18
2364 2823 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
2380 2839 1.264295 ACTTGTTACTCCCTCCGTCC 58.736 55.000 0.00 0.00 0.00 4.79
2415 2874 8.514594 CCTGAAGATTTACAGTTAGAATTGCAA 58.485 33.333 0.00 0.00 32.93 4.08
2467 2926 7.711772 CCAATTATAAATTTCTCCATTGCAGCA 59.288 33.333 0.00 0.00 0.00 4.41
2510 2969 7.338800 ACAACAGTTGATTTTGAACTCAGAT 57.661 32.000 20.56 0.00 31.05 2.90


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

AutoCloner maintained by Alex Coulton.