Multiple sequence alignment - TraesCS5B01G334000

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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 TraesCS5B01G334000 chr5B 100.000 4000 0 0 1 4000 517653612 517649613 0.000000e+00 7387.0
1 TraesCS5B01G334000 chr5B 93.409 789 37 2 3227 4000 670933281 670934069 0.000000e+00 1155.0
2 TraesCS5B01G334000 chr5B 80.175 1029 167 23 2090 3102 687879817 687880824 0.000000e+00 736.0
3 TraesCS5B01G334000 chr5B 86.347 271 35 2 1710 1979 687879370 687879639 1.090000e-75 294.0
4 TraesCS5B01G334000 chr5D 90.941 2815 148 46 327 3108 428475495 428472755 0.000000e+00 3687.0
5 TraesCS5B01G334000 chr5D 91.594 1713 90 24 286 1988 428461999 428460331 0.000000e+00 2316.0
6 TraesCS5B01G334000 chr5D 88.062 1357 100 26 653 1988 428466902 428465587 0.000000e+00 1552.0
7 TraesCS5B01G334000 chr5D 91.889 1048 75 5 2032 3070 428460321 428459275 0.000000e+00 1456.0
8 TraesCS5B01G334000 chr5D 87.053 1174 130 12 2032 3187 428465577 428464408 0.000000e+00 1306.0
9 TraesCS5B01G334000 chr5D 93.703 794 34 3 3222 4000 333368709 333369501 0.000000e+00 1175.0
10 TraesCS5B01G334000 chr5D 93.663 789 34 3 3227 3999 560380542 560381330 0.000000e+00 1166.0
11 TraesCS5B01G334000 chr5D 96.196 184 7 0 1 184 428462283 428462100 6.500000e-78 302.0
12 TraesCS5B01G334000 chr5D 97.087 103 2 1 183 285 428461997 428462098 5.310000e-39 172.0
13 TraesCS5B01G334000 chr5D 91.011 89 3 3 196 284 428475493 428475576 9.080000e-22 115.0
14 TraesCS5B01G334000 chr5D 97.727 44 1 0 502 545 530069374 530069331 4.290000e-10 76.8
15 TraesCS5B01G334000 chr5A 89.543 1444 117 10 1658 3088 544035497 544034075 0.000000e+00 1799.0
16 TraesCS5B01G334000 chr5A 93.443 793 35 4 3222 3999 549947760 549946970 0.000000e+00 1160.0
17 TraesCS5B01G334000 chr5A 90.977 665 41 8 550 1200 544036353 544035694 0.000000e+00 878.0
18 TraesCS5B01G334000 chr5A 91.459 281 16 6 286 565 544036649 544036376 2.920000e-101 379.0
19 TraesCS5B01G334000 chr5A 93.011 186 8 3 1 184 544036932 544036750 2.370000e-67 267.0
20 TraesCS5B01G334000 chr5A 94.231 104 3 3 183 285 544036647 544036748 5.350000e-34 156.0
21 TraesCS5B01G334000 chr5A 93.878 49 2 1 496 543 582390095 582390143 5.550000e-09 73.1
22 TraesCS5B01G334000 chr1A 94.207 794 30 3 3222 4000 25549931 25550723 0.000000e+00 1197.0
23 TraesCS5B01G334000 chr4D 93.821 793 32 4 3222 3999 296664273 296665063 0.000000e+00 1177.0
24 TraesCS5B01G334000 chr1B 93.916 789 31 4 3227 4000 323682358 323681572 0.000000e+00 1175.0
25 TraesCS5B01G334000 chr1B 92.000 50 3 1 499 548 67444549 67444597 7.170000e-08 69.4
26 TraesCS5B01G334000 chr1B 97.436 39 0 1 499 537 604324905 604324868 9.280000e-07 65.8
27 TraesCS5B01G334000 chr7D 93.577 794 35 3 3222 4000 576947341 576948133 0.000000e+00 1170.0
28 TraesCS5B01G334000 chr7D 92.308 39 2 1 510 548 383274275 383274312 2.000000e-03 54.7
29 TraesCS5B01G334000 chr3D 93.577 794 35 3 3222 4000 588339345 588340137 0.000000e+00 1170.0
30 TraesCS5B01G334000 chr2D 93.782 788 34 2 3227 3999 552601450 552600663 0.000000e+00 1170.0
31 TraesCS5B01G334000 chr6B 93.663 789 34 3 3227 4000 30957939 30958726 0.000000e+00 1166.0
32 TraesCS5B01G334000 chr6B 95.000 60 2 1 489 548 530560357 530560415 4.260000e-15 93.5
33 TraesCS5B01G334000 chr2B 93.569 793 33 4 3222 3999 306894334 306893545 0.000000e+00 1166.0
34 TraesCS5B01G334000 chr2B 94.444 54 3 0 499 552 228981943 228981996 2.560000e-12 84.2
35 TraesCS5B01G334000 chr4A 93.283 789 37 3 3227 4000 696047413 696046626 0.000000e+00 1149.0
36 TraesCS5B01G334000 chr1D 93.274 788 38 3 3227 3999 224694 225481 0.000000e+00 1147.0
37 TraesCS5B01G334000 chr1D 94.872 39 1 1 499 537 39238932 39238895 4.320000e-05 60.2
38 TraesCS5B01G334000 chr6D 92.513 788 44 2 3227 3999 187655076 187655863 0.000000e+00 1114.0
39 TraesCS5B01G334000 chr6D 93.333 60 3 1 489 548 349927779 349927721 1.980000e-13 87.9
40 TraesCS5B01G334000 chr6D 95.349 43 2 0 498 540 96709942 96709984 7.170000e-08 69.4
41 TraesCS5B01G334000 chr6A 93.333 60 3 1 489 548 494464988 494465046 1.980000e-13 87.9
42 TraesCS5B01G334000 chr4B 95.556 45 2 0 496 540 602333323 602333367 5.550000e-09 73.1


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 TraesCS5B01G334000 chr5B 517649613 517653612 3999 True 7387.00 7387 100.0000 1 4000 1 chr5B.!!$R1 3999
1 TraesCS5B01G334000 chr5B 670933281 670934069 788 False 1155.00 1155 93.4090 3227 4000 1 chr5B.!!$F1 773
2 TraesCS5B01G334000 chr5B 687879370 687880824 1454 False 515.00 736 83.2610 1710 3102 2 chr5B.!!$F2 1392
3 TraesCS5B01G334000 chr5D 428472755 428475495 2740 True 3687.00 3687 90.9410 327 3108 1 chr5D.!!$R1 2781
4 TraesCS5B01G334000 chr5D 428459275 428466902 7627 True 1386.40 2316 90.9588 1 3187 5 chr5D.!!$R3 3186
5 TraesCS5B01G334000 chr5D 333368709 333369501 792 False 1175.00 1175 93.7030 3222 4000 1 chr5D.!!$F1 778
6 TraesCS5B01G334000 chr5D 560380542 560381330 788 False 1166.00 1166 93.6630 3227 3999 1 chr5D.!!$F4 772
7 TraesCS5B01G334000 chr5A 549946970 549947760 790 True 1160.00 1160 93.4430 3222 3999 1 chr5A.!!$R1 777
8 TraesCS5B01G334000 chr5A 544034075 544036932 2857 True 830.75 1799 91.2475 1 3088 4 chr5A.!!$R2 3087
9 TraesCS5B01G334000 chr1A 25549931 25550723 792 False 1197.00 1197 94.2070 3222 4000 1 chr1A.!!$F1 778
10 TraesCS5B01G334000 chr4D 296664273 296665063 790 False 1177.00 1177 93.8210 3222 3999 1 chr4D.!!$F1 777
11 TraesCS5B01G334000 chr1B 323681572 323682358 786 True 1175.00 1175 93.9160 3227 4000 1 chr1B.!!$R1 773
12 TraesCS5B01G334000 chr7D 576947341 576948133 792 False 1170.00 1170 93.5770 3222 4000 1 chr7D.!!$F2 778
13 TraesCS5B01G334000 chr3D 588339345 588340137 792 False 1170.00 1170 93.5770 3222 4000 1 chr3D.!!$F1 778
14 TraesCS5B01G334000 chr2D 552600663 552601450 787 True 1170.00 1170 93.7820 3227 3999 1 chr2D.!!$R1 772
15 TraesCS5B01G334000 chr6B 30957939 30958726 787 False 1166.00 1166 93.6630 3227 4000 1 chr6B.!!$F1 773
16 TraesCS5B01G334000 chr2B 306893545 306894334 789 True 1166.00 1166 93.5690 3222 3999 1 chr2B.!!$R1 777
17 TraesCS5B01G334000 chr4A 696046626 696047413 787 True 1149.00 1149 93.2830 3227 4000 1 chr4A.!!$R1 773
18 TraesCS5B01G334000 chr1D 224694 225481 787 False 1147.00 1147 93.2740 3227 3999 1 chr1D.!!$F1 772
19 TraesCS5B01G334000 chr6D 187655076 187655863 787 False 1114.00 1114 92.5130 3227 3999 1 chr6D.!!$F2 772

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
698 5372 0.106708 ACTTTGTTCGCTGGCAGAGA 59.893 50.0 20.86 18.98 0.00 3.10 F
1281 5966 0.467290 ACAAATGGGCCGCCGATTAT 60.467 50.0 18.86 8.70 30.87 1.28 F
2852 7653 0.531532 CCATGATCGAGGTGCAGACC 60.532 60.0 0.00 0.00 43.52 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1559 6257 0.652592 GATGCCGTTTCCAGTCATCG 59.347 55.000 0.0 0.0 0.00 3.84 R
2922 7723 1.134580 CCTAGGTGCCAGTGTGATGAG 60.135 57.143 0.0 0.0 0.00 2.90 R
3708 8523 1.002792 GAAGCAACCCACAGTTTCGAC 60.003 52.381 0.0 0.0 36.18 4.20 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
29 4649 6.387465 CAAGTGACGGATTACTTTCTAGACA 58.613 40.000 0.00 0.00 35.08 3.41
134 4754 5.412594 ACACATGTTCAGCATCTCGTTATTT 59.587 36.000 0.00 0.00 35.19 1.40
184 4806 5.049543 GCAAACATGGCAAAAATGCTTCTAA 60.050 36.000 10.28 0.00 34.73 2.10
185 4807 6.513066 GCAAACATGGCAAAAATGCTTCTAAA 60.513 34.615 10.28 0.00 34.73 1.85
186 4808 7.416022 CAAACATGGCAAAAATGCTTCTAAAA 58.584 30.769 0.00 0.00 34.73 1.52
188 4810 7.748691 ACATGGCAAAAATGCTTCTAAAATT 57.251 28.000 0.00 0.00 34.73 1.82
190 4812 8.077386 ACATGGCAAAAATGCTTCTAAAATTTG 58.923 29.630 0.00 0.00 34.73 2.32
191 4813 6.437094 TGGCAAAAATGCTTCTAAAATTTGC 58.563 32.000 10.83 10.83 46.20 3.68
192 4814 6.586543 GCAAAAATGCTTCTAAAATTTGCG 57.413 33.333 4.80 0.00 40.87 4.85
193 4815 6.361899 GCAAAAATGCTTCTAAAATTTGCGA 58.638 32.000 4.80 0.00 40.87 5.10
194 4816 6.300668 GCAAAAATGCTTCTAAAATTTGCGAC 59.699 34.615 4.80 0.00 40.87 5.19
195 4817 6.466308 AAAATGCTTCTAAAATTTGCGACC 57.534 33.333 0.00 0.00 0.00 4.79
196 4818 4.782019 ATGCTTCTAAAATTTGCGACCA 57.218 36.364 0.00 0.00 0.00 4.02
197 4819 4.576216 TGCTTCTAAAATTTGCGACCAA 57.424 36.364 0.00 0.00 0.00 3.67
199 4821 4.277174 TGCTTCTAAAATTTGCGACCAAGA 59.723 37.500 0.00 0.00 31.52 3.02
200 4822 5.048083 TGCTTCTAAAATTTGCGACCAAGAT 60.048 36.000 0.00 0.00 31.52 2.40
201 4823 5.863935 GCTTCTAAAATTTGCGACCAAGATT 59.136 36.000 0.00 0.00 31.52 2.40
202 4824 6.183360 GCTTCTAAAATTTGCGACCAAGATTG 60.183 38.462 0.00 0.00 31.52 2.67
203 4825 6.567687 TCTAAAATTTGCGACCAAGATTGA 57.432 33.333 0.00 0.00 31.52 2.57
204 4826 6.976088 TCTAAAATTTGCGACCAAGATTGAA 58.024 32.000 0.00 0.00 31.52 2.69
206 4828 3.575965 ATTTGCGACCAAGATTGAACC 57.424 42.857 0.00 0.00 31.52 3.62
207 4829 1.974265 TTGCGACCAAGATTGAACCA 58.026 45.000 0.00 0.00 0.00 3.67
208 4830 1.522668 TGCGACCAAGATTGAACCAG 58.477 50.000 0.00 0.00 0.00 4.00
209 4831 1.071542 TGCGACCAAGATTGAACCAGA 59.928 47.619 0.00 0.00 0.00 3.86
210 4832 2.151202 GCGACCAAGATTGAACCAGAA 58.849 47.619 0.00 0.00 0.00 3.02
211 4833 2.552315 GCGACCAAGATTGAACCAGAAA 59.448 45.455 0.00 0.00 0.00 2.52
212 4834 3.004315 GCGACCAAGATTGAACCAGAAAA 59.996 43.478 0.00 0.00 0.00 2.29
213 4835 4.787598 CGACCAAGATTGAACCAGAAAAG 58.212 43.478 0.00 0.00 0.00 2.27
214 4836 4.275936 CGACCAAGATTGAACCAGAAAAGT 59.724 41.667 0.00 0.00 0.00 2.66
215 4837 5.468746 CGACCAAGATTGAACCAGAAAAGTA 59.531 40.000 0.00 0.00 0.00 2.24
216 4838 6.017440 CGACCAAGATTGAACCAGAAAAGTAA 60.017 38.462 0.00 0.00 0.00 2.24
217 4839 7.308589 CGACCAAGATTGAACCAGAAAAGTAAT 60.309 37.037 0.00 0.00 0.00 1.89
219 4841 9.362151 ACCAAGATTGAACCAGAAAAGTAATTA 57.638 29.630 0.00 0.00 0.00 1.40
241 4863 9.897744 AATTATAGAAAATATGCATGGTTCGTG 57.102 29.630 10.16 0.00 0.00 4.35
244 4866 6.064846 AGAAAATATGCATGGTTCGTGATC 57.935 37.500 10.16 0.00 0.00 2.92
245 4867 5.589855 AGAAAATATGCATGGTTCGTGATCA 59.410 36.000 10.16 0.00 0.00 2.92
246 4868 5.833406 AAATATGCATGGTTCGTGATCAA 57.167 34.783 10.16 0.00 0.00 2.57
247 4869 6.395426 AAATATGCATGGTTCGTGATCAAT 57.605 33.333 10.16 0.00 0.00 2.57
248 4870 3.703286 ATGCATGGTTCGTGATCAATG 57.297 42.857 0.00 0.00 0.00 2.82
249 4871 1.744522 TGCATGGTTCGTGATCAATGG 59.255 47.619 0.00 0.00 0.00 3.16
250 4872 1.534595 GCATGGTTCGTGATCAATGGC 60.535 52.381 0.00 0.00 0.00 4.40
251 4873 1.744522 CATGGTTCGTGATCAATGGCA 59.255 47.619 0.00 0.00 0.00 4.92
252 4874 1.452110 TGGTTCGTGATCAATGGCAG 58.548 50.000 0.00 0.00 0.00 4.85
253 4875 1.003003 TGGTTCGTGATCAATGGCAGA 59.997 47.619 0.00 0.00 0.00 4.26
255 4877 2.684881 GGTTCGTGATCAATGGCAGAAT 59.315 45.455 0.00 0.00 0.00 2.40
256 4878 3.876914 GGTTCGTGATCAATGGCAGAATA 59.123 43.478 0.00 0.00 0.00 1.75
257 4879 4.024556 GGTTCGTGATCAATGGCAGAATAG 60.025 45.833 0.00 0.00 0.00 1.73
258 4880 4.670896 TCGTGATCAATGGCAGAATAGA 57.329 40.909 0.00 0.00 0.00 1.98
259 4881 4.371786 TCGTGATCAATGGCAGAATAGAC 58.628 43.478 0.00 0.00 0.00 2.59
260 4882 4.122046 CGTGATCAATGGCAGAATAGACA 58.878 43.478 0.00 0.00 0.00 3.41
263 4885 4.517832 TGATCAATGGCAGAATAGACATGC 59.482 41.667 0.00 0.00 37.31 4.06
264 4886 3.888583 TCAATGGCAGAATAGACATGCA 58.111 40.909 0.00 0.00 41.78 3.96
265 4887 4.271661 TCAATGGCAGAATAGACATGCAA 58.728 39.130 0.00 0.00 41.78 4.08
266 4888 4.337274 TCAATGGCAGAATAGACATGCAAG 59.663 41.667 0.00 0.00 41.78 4.01
267 4889 3.354948 TGGCAGAATAGACATGCAAGT 57.645 42.857 0.00 0.00 41.78 3.16
268 4890 3.689347 TGGCAGAATAGACATGCAAGTT 58.311 40.909 0.00 0.00 41.78 2.66
270 4892 4.082625 TGGCAGAATAGACATGCAAGTTTG 60.083 41.667 0.00 0.00 41.78 2.93
324 4946 2.574006 TCTGTTGGCAGCTGATCTTT 57.426 45.000 20.43 0.00 42.29 2.52
446 5070 3.879295 ACTCAGTGGTGTCTGAATTTGTG 59.121 43.478 0.00 0.00 42.73 3.33
451 5075 5.527214 CAGTGGTGTCTGAATTTGTGTAAGA 59.473 40.000 0.00 0.00 37.61 2.10
452 5076 6.205464 CAGTGGTGTCTGAATTTGTGTAAGAT 59.795 38.462 0.00 0.00 37.61 2.40
698 5372 0.106708 ACTTTGTTCGCTGGCAGAGA 59.893 50.000 20.86 18.98 0.00 3.10
699 5373 0.514691 CTTTGTTCGCTGGCAGAGAC 59.485 55.000 20.85 15.37 0.00 3.36
859 5534 8.882415 TTATAAGACACTTCCCGAAATATCAC 57.118 34.615 0.00 0.00 0.00 3.06
866 5541 4.102524 ACTTCCCGAAATATCACTATGGCA 59.897 41.667 0.00 0.00 0.00 4.92
867 5542 4.908601 TCCCGAAATATCACTATGGCAT 57.091 40.909 4.88 4.88 0.00 4.40
868 5543 6.013725 ACTTCCCGAAATATCACTATGGCATA 60.014 38.462 7.06 7.06 0.00 3.14
869 5544 6.560003 TCCCGAAATATCACTATGGCATAT 57.440 37.500 7.81 0.00 0.00 1.78
892 5567 4.090761 TGAAGCTCCAACAGATCAACTT 57.909 40.909 0.00 0.00 0.00 2.66
932 5616 1.660575 GGGACAGTGACACACGTCG 60.661 63.158 17.15 0.00 45.80 5.12
943 5627 3.497262 TGACACACGTCGAGCCTATATAG 59.503 47.826 0.00 2.46 45.80 1.31
961 5645 2.969628 AGTTAGCCACGATCCAAGAG 57.030 50.000 0.00 0.00 0.00 2.85
1012 5697 1.207329 GTATATCCATGGAGGCGACCC 59.793 57.143 21.33 0.38 37.29 4.46
1281 5966 0.467290 ACAAATGGGCCGCCGATTAT 60.467 50.000 18.86 8.70 30.87 1.28
1480 6178 4.127171 GTCAAGCAAGTACTGGAAGACAA 58.873 43.478 0.00 0.00 37.43 3.18
1612 6310 1.469940 CCCGATCTTCAACCACGAGAG 60.470 57.143 0.00 0.00 0.00 3.20
1632 6330 1.545651 GCCTCAAGGTTGTTGCCTAGT 60.546 52.381 0.00 0.00 38.03 2.57
1641 6339 4.898328 GTTGTTGCCTAGTACTACAACG 57.102 45.455 21.90 6.07 44.13 4.10
1649 6347 4.498323 GCCTAGTACTACAACGAATGAACG 59.502 45.833 0.00 0.00 39.31 3.95
1651 6349 6.675486 GCCTAGTACTACAACGAATGAACGTA 60.675 42.308 0.00 0.00 45.83 3.57
1656 6367 5.393962 ACTACAACGAATGAACGTAGTACC 58.606 41.667 0.00 0.00 45.00 3.34
1754 6472 1.656652 CTATGACAAGGGAAGGCACG 58.343 55.000 0.00 0.00 0.00 5.34
1893 6611 1.686052 TCGGCCAAAACAGCAAAGAAT 59.314 42.857 2.24 0.00 0.00 2.40
1913 6631 2.280524 CGGGAGGTGTTTGTCGCA 60.281 61.111 0.00 0.00 0.00 5.10
2323 7115 3.640407 GGGCAGGACTCAGGTGCA 61.640 66.667 0.00 0.00 39.05 4.57
2340 7132 2.936032 AACCCTCCTCACCTGGGC 60.936 66.667 0.00 0.00 44.56 5.36
2387 7179 1.283347 ATGGCAAGAGAAGCTCAGGA 58.717 50.000 0.00 0.00 32.06 3.86
2389 7181 1.421268 TGGCAAGAGAAGCTCAGGAAA 59.579 47.619 0.00 0.00 32.06 3.13
2676 7477 5.110814 AGGAACCATGATAACAATTCCGA 57.889 39.130 0.00 0.00 39.46 4.55
2717 7518 0.695803 AGGAGATTTGGGGCCTCGAT 60.696 55.000 0.84 0.00 0.00 3.59
2777 7578 1.151908 GGGGGCTACCAACAACACA 59.848 57.895 0.60 0.00 42.91 3.72
2852 7653 0.531532 CCATGATCGAGGTGCAGACC 60.532 60.000 0.00 0.00 43.52 3.85
2862 7663 1.372997 GTGCAGACCGTGATGACGT 60.373 57.895 3.53 0.00 44.54 4.34
2922 7723 0.539438 TGTTCACATGCCCAGGAACC 60.539 55.000 0.00 0.00 39.02 3.62
2970 7771 3.433740 GCTTCCCCTAATCGTGAGGAATT 60.434 47.826 0.00 0.00 36.09 2.17
2982 7783 2.424956 GTGAGGAATTTGCTGGATGGAC 59.575 50.000 0.00 0.00 0.00 4.02
3084 7890 1.536766 GATGTGTGGTGTGTGATGTGG 59.463 52.381 0.00 0.00 0.00 4.17
3093 7899 4.277174 TGGTGTGTGATGTGGTTTATGAAC 59.723 41.667 0.00 0.00 34.96 3.18
3109 7915 6.817765 TTATGAACCTGTGATTTGAGAACC 57.182 37.500 0.00 0.00 0.00 3.62
3111 7917 4.136796 TGAACCTGTGATTTGAGAACCAG 58.863 43.478 0.00 0.00 0.00 4.00
3112 7918 2.508526 ACCTGTGATTTGAGAACCAGC 58.491 47.619 0.00 0.00 0.00 4.85
3113 7919 1.466167 CCTGTGATTTGAGAACCAGCG 59.534 52.381 0.00 0.00 0.00 5.18
3114 7920 2.416747 CTGTGATTTGAGAACCAGCGA 58.583 47.619 0.00 0.00 0.00 4.93
3115 7921 2.807967 CTGTGATTTGAGAACCAGCGAA 59.192 45.455 0.00 0.00 0.00 4.70
3116 7922 3.210227 TGTGATTTGAGAACCAGCGAAA 58.790 40.909 0.00 0.00 0.00 3.46
3117 7923 3.629855 TGTGATTTGAGAACCAGCGAAAA 59.370 39.130 0.00 0.00 0.00 2.29
3118 7924 4.097135 TGTGATTTGAGAACCAGCGAAAAA 59.903 37.500 0.00 0.00 0.00 1.94
3142 7948 7.649533 AAAATTGTGATATGAGAAGATGGCA 57.350 32.000 0.00 0.00 0.00 4.92
3143 7949 6.630444 AATTGTGATATGAGAAGATGGCAC 57.370 37.500 0.00 0.00 0.00 5.01
3167 7973 8.029642 ACATAAGTGAATAAACTCGGTTCTTG 57.970 34.615 0.00 0.00 0.00 3.02
3168 7974 5.941948 AAGTGAATAAACTCGGTTCTTGG 57.058 39.130 0.00 0.00 0.00 3.61
3169 7975 4.969484 AGTGAATAAACTCGGTTCTTGGT 58.031 39.130 0.00 0.00 0.00 3.67
3170 7976 5.374071 AGTGAATAAACTCGGTTCTTGGTT 58.626 37.500 0.00 0.00 0.00 3.67
3171 7977 5.238650 AGTGAATAAACTCGGTTCTTGGTTG 59.761 40.000 0.00 0.00 0.00 3.77
3172 7978 5.008316 GTGAATAAACTCGGTTCTTGGTTGT 59.992 40.000 0.00 0.00 0.00 3.32
3173 7979 5.008217 TGAATAAACTCGGTTCTTGGTTGTG 59.992 40.000 0.00 0.00 0.00 3.33
3174 7980 2.413310 AACTCGGTTCTTGGTTGTGT 57.587 45.000 0.00 0.00 0.00 3.72
3175 7981 3.547054 AACTCGGTTCTTGGTTGTGTA 57.453 42.857 0.00 0.00 0.00 2.90
3176 7982 3.764237 ACTCGGTTCTTGGTTGTGTAT 57.236 42.857 0.00 0.00 0.00 2.29
3177 7983 3.399330 ACTCGGTTCTTGGTTGTGTATG 58.601 45.455 0.00 0.00 0.00 2.39
3178 7984 3.181458 ACTCGGTTCTTGGTTGTGTATGT 60.181 43.478 0.00 0.00 0.00 2.29
3179 7985 4.039488 ACTCGGTTCTTGGTTGTGTATGTA 59.961 41.667 0.00 0.00 0.00 2.29
3180 7986 4.562082 TCGGTTCTTGGTTGTGTATGTAG 58.438 43.478 0.00 0.00 0.00 2.74
3181 7987 4.039488 TCGGTTCTTGGTTGTGTATGTAGT 59.961 41.667 0.00 0.00 0.00 2.73
3182 7988 4.753107 CGGTTCTTGGTTGTGTATGTAGTT 59.247 41.667 0.00 0.00 0.00 2.24
3183 7989 5.107220 CGGTTCTTGGTTGTGTATGTAGTTC 60.107 44.000 0.00 0.00 0.00 3.01
3184 7990 5.995897 GGTTCTTGGTTGTGTATGTAGTTCT 59.004 40.000 0.00 0.00 0.00 3.01
3185 7991 7.156673 GGTTCTTGGTTGTGTATGTAGTTCTA 58.843 38.462 0.00 0.00 0.00 2.10
3186 7992 7.822822 GGTTCTTGGTTGTGTATGTAGTTCTAT 59.177 37.037 0.00 0.00 0.00 1.98
3187 7993 9.865321 GTTCTTGGTTGTGTATGTAGTTCTATA 57.135 33.333 0.00 0.00 0.00 1.31
3188 7994 9.865321 TTCTTGGTTGTGTATGTAGTTCTATAC 57.135 33.333 0.00 0.00 0.00 1.47
3189 7995 9.251440 TCTTGGTTGTGTATGTAGTTCTATACT 57.749 33.333 0.00 0.00 41.04 2.12
3190 7996 9.871238 CTTGGTTGTGTATGTAGTTCTATACTT 57.129 33.333 0.00 0.00 38.33 2.24
3191 7997 9.647797 TTGGTTGTGTATGTAGTTCTATACTTG 57.352 33.333 0.00 0.00 38.33 3.16
3192 7998 8.809066 TGGTTGTGTATGTAGTTCTATACTTGT 58.191 33.333 0.00 0.00 38.33 3.16
3205 8011 9.134055 AGTTCTATACTTGTATGTCTAGGTTCC 57.866 37.037 3.75 0.00 31.29 3.62
3206 8012 7.741027 TCTATACTTGTATGTCTAGGTTCCG 57.259 40.000 3.75 0.00 0.00 4.30
3207 8013 7.285566 TCTATACTTGTATGTCTAGGTTCCGT 58.714 38.462 3.75 0.00 0.00 4.69
3208 8014 6.786967 ATACTTGTATGTCTAGGTTCCGTT 57.213 37.500 0.00 0.00 0.00 4.44
3209 8015 5.069501 ACTTGTATGTCTAGGTTCCGTTC 57.930 43.478 0.00 0.00 0.00 3.95
3210 8016 4.771054 ACTTGTATGTCTAGGTTCCGTTCT 59.229 41.667 0.00 0.00 0.00 3.01
3211 8017 5.948162 ACTTGTATGTCTAGGTTCCGTTCTA 59.052 40.000 0.00 0.00 0.00 2.10
3212 8018 5.824904 TGTATGTCTAGGTTCCGTTCTAC 57.175 43.478 0.00 0.00 0.00 2.59
3213 8019 5.255687 TGTATGTCTAGGTTCCGTTCTACA 58.744 41.667 0.00 0.00 0.00 2.74
3214 8020 5.889853 TGTATGTCTAGGTTCCGTTCTACAT 59.110 40.000 0.00 0.00 0.00 2.29
3215 8021 7.056006 TGTATGTCTAGGTTCCGTTCTACATA 58.944 38.462 0.00 0.00 0.00 2.29
3216 8022 5.824904 TGTCTAGGTTCCGTTCTACATAC 57.175 43.478 0.00 0.00 0.00 2.39
3217 8023 5.503927 TGTCTAGGTTCCGTTCTACATACT 58.496 41.667 0.00 0.00 0.00 2.12
3218 8024 6.653020 TGTCTAGGTTCCGTTCTACATACTA 58.347 40.000 0.00 0.00 0.00 1.82
3219 8025 6.540189 TGTCTAGGTTCCGTTCTACATACTAC 59.460 42.308 0.00 0.00 0.00 2.73
3220 8026 4.889832 AGGTTCCGTTCTACATACTACG 57.110 45.455 0.00 0.00 0.00 3.51
3225 8031 4.621068 CCGTTCTACATACTACGGTTGA 57.379 45.455 0.00 0.00 46.25 3.18
3229 8035 6.532657 CCGTTCTACATACTACGGTTGAAAAT 59.467 38.462 0.00 0.00 46.25 1.82
3261 8068 0.248866 GTTTTGCGTGGGTGGTTGAG 60.249 55.000 0.00 0.00 0.00 3.02
3364 8172 4.724798 ACTAGACCCTATTTTACATGCCCA 59.275 41.667 0.00 0.00 0.00 5.36
3400 8209 9.520515 AACTACATACAAGATTCAGATTGGTTT 57.479 29.630 0.00 0.00 0.00 3.27
3490 8303 2.505819 ACCTGACTTCCAGTTCACAAGT 59.494 45.455 0.00 0.00 41.33 3.16
3546 8361 3.064207 TCAATGTGTTTAGTCCGAGCAC 58.936 45.455 0.00 0.00 0.00 4.40
3550 8365 1.719780 GTGTTTAGTCCGAGCACGAAG 59.280 52.381 4.70 0.00 42.66 3.79
3616 8431 0.758734 AATATAGGAGTGCGCTGCCA 59.241 50.000 15.78 1.40 33.13 4.92
3674 8489 2.114670 GGCTTCAGCTGCGCCATTA 61.115 57.895 30.24 3.68 43.25 1.90
3708 8523 1.078918 TCTGCCTCGGTGCTTGATG 60.079 57.895 0.00 0.00 0.00 3.07
3713 8528 0.389817 CCTCGGTGCTTGATGTCGAA 60.390 55.000 0.00 0.00 0.00 3.71
3963 8789 1.072331 ACTTGGTTCACTGCGAAGGAT 59.928 47.619 0.00 0.00 33.09 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 5.805994 GTCTAGAAAGTAATCCGTCACTTGG 59.194 44.000 0.00 0.00 35.23 3.61
13 4633 3.552294 GCACGCTGTCTAGAAAGTAATCC 59.448 47.826 11.67 0.00 0.00 3.01
29 4649 3.923864 TCGGAGTGGTTGCACGCT 61.924 61.111 0.00 0.00 0.00 5.07
134 4754 3.859443 AGCAAAGCAAACATGAAACACA 58.141 36.364 0.00 0.00 0.00 3.72
171 4793 6.481644 TGGTCGCAAATTTTAGAAGCATTTTT 59.518 30.769 0.00 0.00 0.00 1.94
184 4806 4.202202 TGGTTCAATCTTGGTCGCAAATTT 60.202 37.500 0.00 0.00 0.00 1.82
185 4807 3.320541 TGGTTCAATCTTGGTCGCAAATT 59.679 39.130 0.00 0.00 0.00 1.82
186 4808 2.890311 TGGTTCAATCTTGGTCGCAAAT 59.110 40.909 0.00 0.00 0.00 2.32
188 4810 1.879380 CTGGTTCAATCTTGGTCGCAA 59.121 47.619 0.00 0.00 0.00 4.85
190 4812 1.808411 TCTGGTTCAATCTTGGTCGC 58.192 50.000 0.00 0.00 0.00 5.19
191 4813 4.275936 ACTTTTCTGGTTCAATCTTGGTCG 59.724 41.667 0.00 0.00 0.00 4.79
192 4814 5.774498 ACTTTTCTGGTTCAATCTTGGTC 57.226 39.130 0.00 0.00 0.00 4.02
193 4815 7.839680 ATTACTTTTCTGGTTCAATCTTGGT 57.160 32.000 0.00 0.00 0.00 3.67
215 4837 9.897744 CACGAACCATGCATATTTTCTATAATT 57.102 29.630 0.00 0.00 0.00 1.40
216 4838 9.283768 TCACGAACCATGCATATTTTCTATAAT 57.716 29.630 0.00 0.00 0.00 1.28
217 4839 8.669946 TCACGAACCATGCATATTTTCTATAA 57.330 30.769 0.00 0.00 0.00 0.98
219 4841 7.445096 TGATCACGAACCATGCATATTTTCTAT 59.555 33.333 0.00 0.00 0.00 1.98
220 4842 6.765512 TGATCACGAACCATGCATATTTTCTA 59.234 34.615 0.00 0.00 0.00 2.10
221 4843 5.589855 TGATCACGAACCATGCATATTTTCT 59.410 36.000 0.00 0.00 0.00 2.52
222 4844 5.820131 TGATCACGAACCATGCATATTTTC 58.180 37.500 0.00 1.42 0.00 2.29
223 4845 5.833406 TGATCACGAACCATGCATATTTT 57.167 34.783 0.00 0.00 0.00 1.82
224 4846 5.833406 TTGATCACGAACCATGCATATTT 57.167 34.783 0.00 0.00 0.00 1.40
225 4847 5.278610 CCATTGATCACGAACCATGCATATT 60.279 40.000 0.00 0.00 0.00 1.28
228 4850 2.359848 CCATTGATCACGAACCATGCAT 59.640 45.455 0.00 0.00 0.00 3.96
229 4851 1.744522 CCATTGATCACGAACCATGCA 59.255 47.619 0.00 0.00 0.00 3.96
230 4852 1.534595 GCCATTGATCACGAACCATGC 60.535 52.381 0.00 0.00 0.00 4.06
231 4853 1.744522 TGCCATTGATCACGAACCATG 59.255 47.619 0.00 0.00 0.00 3.66
233 4855 1.003003 TCTGCCATTGATCACGAACCA 59.997 47.619 0.00 0.00 0.00 3.67
234 4856 1.737838 TCTGCCATTGATCACGAACC 58.262 50.000 0.00 0.00 0.00 3.62
236 4858 4.811024 GTCTATTCTGCCATTGATCACGAA 59.189 41.667 0.00 0.00 0.00 3.85
238 4860 4.122046 TGTCTATTCTGCCATTGATCACG 58.878 43.478 0.00 0.00 0.00 4.35
239 4861 5.562307 GCATGTCTATTCTGCCATTGATCAC 60.562 44.000 0.00 0.00 0.00 3.06
240 4862 4.517832 GCATGTCTATTCTGCCATTGATCA 59.482 41.667 0.00 0.00 0.00 2.92
241 4863 4.517832 TGCATGTCTATTCTGCCATTGATC 59.482 41.667 0.00 0.00 35.02 2.92
244 4866 4.097437 ACTTGCATGTCTATTCTGCCATTG 59.903 41.667 0.00 0.00 35.02 2.82
245 4867 4.275810 ACTTGCATGTCTATTCTGCCATT 58.724 39.130 0.00 0.00 35.02 3.16
246 4868 3.894759 ACTTGCATGTCTATTCTGCCAT 58.105 40.909 0.00 0.00 35.02 4.40
247 4869 3.354948 ACTTGCATGTCTATTCTGCCA 57.645 42.857 0.00 0.00 35.02 4.92
248 4870 4.418392 CAAACTTGCATGTCTATTCTGCC 58.582 43.478 5.61 0.00 35.02 4.85
265 4887 9.734984 ACTATAAGTTATTACTTGGTGCAAACT 57.265 29.630 7.36 0.00 44.22 2.66
283 4905 8.958506 ACAGAAGTCGTTCAGAATACTATAAGT 58.041 33.333 2.43 0.00 34.82 2.24
284 4906 9.790389 AACAGAAGTCGTTCAGAATACTATAAG 57.210 33.333 2.43 0.00 34.82 1.73
324 4946 6.872020 GTGCTTGGATAAGTAAGACTACAACA 59.128 38.462 0.00 0.00 36.27 3.33
393 5015 6.142139 TCGCATGAAAACTCATTTTGTAGTG 58.858 36.000 0.00 0.00 38.17 2.74
667 5341 3.484683 CGAACAAAGTGAACGTGTTGTT 58.515 40.909 11.81 11.81 44.61 2.83
741 5416 8.812147 TCACACTCATAATATAACTTTAGGCG 57.188 34.615 0.00 0.00 0.00 5.52
859 5534 6.175471 TGTTGGAGCTTCATATATGCCATAG 58.825 40.000 7.92 4.21 0.00 2.23
866 5541 7.743749 AGTTGATCTGTTGGAGCTTCATATAT 58.256 34.615 0.00 0.00 0.00 0.86
867 5542 7.129457 AGTTGATCTGTTGGAGCTTCATATA 57.871 36.000 0.00 0.00 0.00 0.86
868 5543 5.999044 AGTTGATCTGTTGGAGCTTCATAT 58.001 37.500 0.00 0.00 0.00 1.78
869 5544 5.426689 AGTTGATCTGTTGGAGCTTCATA 57.573 39.130 0.00 0.00 0.00 2.15
892 5567 1.068895 TCGTTTCCGGCTGTGAAGTAA 59.931 47.619 0.00 0.00 33.95 2.24
932 5616 5.221087 GGATCGTGGCTAACTATATAGGCTC 60.221 48.000 14.25 2.28 45.83 4.70
943 5627 2.673368 CAACTCTTGGATCGTGGCTAAC 59.327 50.000 0.00 0.00 0.00 2.34
961 5645 8.999431 TCTAGTCAATGGTGAGTTTTATTCAAC 58.001 33.333 0.00 0.00 38.44 3.18
1200 5885 0.178068 TATCCAGAGGCGCCTTTGTC 59.822 55.000 36.53 23.13 0.00 3.18
1201 5886 0.839946 ATATCCAGAGGCGCCTTTGT 59.160 50.000 36.53 25.43 0.00 2.83
1202 5887 1.517242 GATATCCAGAGGCGCCTTTG 58.483 55.000 34.13 34.13 0.00 2.77
1207 5892 2.433318 GCCGATATCCAGAGGCGC 60.433 66.667 0.00 0.00 40.17 6.53
1281 5966 6.867816 GTGAGAAACATTTCATGCATTTACCA 59.132 34.615 0.00 0.00 39.61 3.25
1374 6068 4.720273 CCCTAAGTAGATACCCACACCTTT 59.280 45.833 0.00 0.00 0.00 3.11
1377 6071 3.919834 TCCCTAAGTAGATACCCACACC 58.080 50.000 0.00 0.00 0.00 4.16
1559 6257 0.652592 GATGCCGTTTCCAGTCATCG 59.347 55.000 0.00 0.00 0.00 3.84
1612 6310 1.168714 CTAGGCAACAACCTTGAGGC 58.831 55.000 0.00 0.00 41.50 4.70
1632 6330 6.148645 TGGTACTACGTTCATTCGTTGTAGTA 59.851 38.462 11.90 6.48 45.94 1.82
1649 6347 7.547019 AGACGGCTAAAATAAACTTGGTACTAC 59.453 37.037 0.00 0.00 0.00 2.73
1650 6348 7.546667 CAGACGGCTAAAATAAACTTGGTACTA 59.453 37.037 0.00 0.00 0.00 1.82
1651 6349 6.370718 CAGACGGCTAAAATAAACTTGGTACT 59.629 38.462 0.00 0.00 0.00 2.73
1656 6367 7.434013 ACAAAACAGACGGCTAAAATAAACTTG 59.566 33.333 0.00 0.00 0.00 3.16
1754 6472 2.029970 CCATTGCGCAATCATCTTTTGC 59.970 45.455 31.88 0.00 44.68 3.68
1893 6611 2.874664 CGACAAACACCTCCCGGGA 61.875 63.158 25.06 25.06 38.76 5.14
2323 7115 2.936032 GCCCAGGTGAGGAGGGTT 60.936 66.667 0.00 0.00 44.69 4.11
2340 7132 2.277969 AGATGCTGAGCAAGAACATCG 58.722 47.619 12.69 0.00 43.62 3.84
2387 7179 3.748083 TGCATTCTCTCAGCACTTCTTT 58.252 40.909 0.00 0.00 32.55 2.52
2389 7181 2.354906 CCTGCATTCTCTCAGCACTTCT 60.355 50.000 0.00 0.00 34.13 2.85
2432 7224 5.316158 AGGACTTGGATGCTATTGCTATT 57.684 39.130 0.00 0.00 40.48 1.73
2676 7477 1.671979 CTCCGGTGCAACATCATGAT 58.328 50.000 0.98 1.18 39.98 2.45
2717 7518 2.029964 GGGTTGAACTCGTCGGCA 59.970 61.111 0.00 0.00 0.00 5.69
2777 7578 3.634504 TGAGAAGGCCAACATTGCATAT 58.365 40.909 5.01 0.00 0.00 1.78
2812 7613 1.338136 ATAGTTCCTCCCAGGGCACG 61.338 60.000 0.00 0.00 35.59 5.34
2922 7723 1.134580 CCTAGGTGCCAGTGTGATGAG 60.135 57.143 0.00 0.00 0.00 2.90
3084 7890 7.084486 GGTTCTCAAATCACAGGTTCATAAAC 58.916 38.462 0.00 0.00 34.46 2.01
3093 7899 1.466167 CGCTGGTTCTCAAATCACAGG 59.534 52.381 0.00 0.00 0.00 4.00
3117 7923 7.977853 GTGCCATCTTCTCATATCACAATTTTT 59.022 33.333 0.00 0.00 0.00 1.94
3118 7924 7.123098 TGTGCCATCTTCTCATATCACAATTTT 59.877 33.333 0.00 0.00 31.31 1.82
3119 7925 6.604396 TGTGCCATCTTCTCATATCACAATTT 59.396 34.615 0.00 0.00 31.31 1.82
3120 7926 6.124340 TGTGCCATCTTCTCATATCACAATT 58.876 36.000 0.00 0.00 31.31 2.32
3121 7927 5.687780 TGTGCCATCTTCTCATATCACAAT 58.312 37.500 0.00 0.00 31.31 2.71
3122 7928 5.101648 TGTGCCATCTTCTCATATCACAA 57.898 39.130 0.00 0.00 31.31 3.33
3123 7929 4.758773 TGTGCCATCTTCTCATATCACA 57.241 40.909 0.00 0.00 0.00 3.58
3124 7930 6.933521 ACTTATGTGCCATCTTCTCATATCAC 59.066 38.462 0.00 0.00 0.00 3.06
3125 7931 6.932960 CACTTATGTGCCATCTTCTCATATCA 59.067 38.462 0.00 0.00 37.38 2.15
3126 7932 7.157347 TCACTTATGTGCCATCTTCTCATATC 58.843 38.462 3.90 0.00 43.49 1.63
3127 7933 7.071069 TCACTTATGTGCCATCTTCTCATAT 57.929 36.000 3.90 0.00 43.49 1.78
3128 7934 6.484364 TCACTTATGTGCCATCTTCTCATA 57.516 37.500 3.90 0.00 43.49 2.15
3129 7935 5.363562 TCACTTATGTGCCATCTTCTCAT 57.636 39.130 3.90 0.00 43.49 2.90
3130 7936 4.824479 TCACTTATGTGCCATCTTCTCA 57.176 40.909 3.90 0.00 43.49 3.27
3131 7937 7.792374 TTATTCACTTATGTGCCATCTTCTC 57.208 36.000 3.90 0.00 43.49 2.87
3132 7938 7.831193 AGTTTATTCACTTATGTGCCATCTTCT 59.169 33.333 3.90 0.00 43.49 2.85
3133 7939 7.989826 AGTTTATTCACTTATGTGCCATCTTC 58.010 34.615 3.90 0.00 43.49 2.87
3134 7940 7.201644 CGAGTTTATTCACTTATGTGCCATCTT 60.202 37.037 3.90 0.00 43.49 2.40
3135 7941 6.258727 CGAGTTTATTCACTTATGTGCCATCT 59.741 38.462 3.90 0.00 43.49 2.90
3136 7942 6.422223 CGAGTTTATTCACTTATGTGCCATC 58.578 40.000 3.90 0.00 43.49 3.51
3137 7943 5.296780 CCGAGTTTATTCACTTATGTGCCAT 59.703 40.000 3.90 2.13 43.49 4.40
3138 7944 4.634004 CCGAGTTTATTCACTTATGTGCCA 59.366 41.667 3.90 0.00 43.49 4.92
3139 7945 4.634443 ACCGAGTTTATTCACTTATGTGCC 59.366 41.667 3.90 0.00 43.49 5.01
3140 7946 5.796350 ACCGAGTTTATTCACTTATGTGC 57.204 39.130 3.90 0.00 43.49 4.57
3141 7947 7.596749 AGAACCGAGTTTATTCACTTATGTG 57.403 36.000 2.36 2.36 45.07 3.21
3142 7948 7.119262 CCAAGAACCGAGTTTATTCACTTATGT 59.881 37.037 0.00 0.00 0.00 2.29
3143 7949 7.119262 ACCAAGAACCGAGTTTATTCACTTATG 59.881 37.037 0.00 0.00 0.00 1.90
3144 7950 7.166167 ACCAAGAACCGAGTTTATTCACTTAT 58.834 34.615 0.00 0.00 0.00 1.73
3145 7951 6.527423 ACCAAGAACCGAGTTTATTCACTTA 58.473 36.000 0.00 0.00 0.00 2.24
3146 7952 5.374071 ACCAAGAACCGAGTTTATTCACTT 58.626 37.500 0.00 0.00 0.00 3.16
3147 7953 4.969484 ACCAAGAACCGAGTTTATTCACT 58.031 39.130 0.00 0.00 0.00 3.41
3148 7954 5.008316 ACAACCAAGAACCGAGTTTATTCAC 59.992 40.000 0.00 0.00 0.00 3.18
3149 7955 5.008217 CACAACCAAGAACCGAGTTTATTCA 59.992 40.000 0.00 0.00 0.00 2.57
3150 7956 5.008316 ACACAACCAAGAACCGAGTTTATTC 59.992 40.000 0.00 0.00 0.00 1.75
3151 7957 4.885325 ACACAACCAAGAACCGAGTTTATT 59.115 37.500 0.00 0.00 0.00 1.40
3152 7958 4.457466 ACACAACCAAGAACCGAGTTTAT 58.543 39.130 0.00 0.00 0.00 1.40
3153 7959 3.876341 ACACAACCAAGAACCGAGTTTA 58.124 40.909 0.00 0.00 0.00 2.01
3154 7960 2.718563 ACACAACCAAGAACCGAGTTT 58.281 42.857 0.00 0.00 0.00 2.66
3155 7961 2.413310 ACACAACCAAGAACCGAGTT 57.587 45.000 0.00 0.00 0.00 3.01
3156 7962 3.181458 ACATACACAACCAAGAACCGAGT 60.181 43.478 0.00 0.00 0.00 4.18
3157 7963 3.399330 ACATACACAACCAAGAACCGAG 58.601 45.455 0.00 0.00 0.00 4.63
3158 7964 3.478857 ACATACACAACCAAGAACCGA 57.521 42.857 0.00 0.00 0.00 4.69
3159 7965 4.312443 ACTACATACACAACCAAGAACCG 58.688 43.478 0.00 0.00 0.00 4.44
3160 7966 5.995897 AGAACTACATACACAACCAAGAACC 59.004 40.000 0.00 0.00 0.00 3.62
3161 7967 8.773404 ATAGAACTACATACACAACCAAGAAC 57.227 34.615 0.00 0.00 0.00 3.01
3162 7968 9.865321 GTATAGAACTACATACACAACCAAGAA 57.135 33.333 0.00 0.00 0.00 2.52
3163 7969 9.251440 AGTATAGAACTACATACACAACCAAGA 57.749 33.333 0.00 0.00 36.36 3.02
3164 7970 9.871238 AAGTATAGAACTACATACACAACCAAG 57.129 33.333 0.00 0.00 37.50 3.61
3165 7971 9.647797 CAAGTATAGAACTACATACACAACCAA 57.352 33.333 0.00 0.00 37.50 3.67
3166 7972 8.809066 ACAAGTATAGAACTACATACACAACCA 58.191 33.333 0.00 0.00 37.50 3.67
3179 7985 9.134055 GGAACCTAGACATACAAGTATAGAACT 57.866 37.037 0.00 0.00 41.49 3.01
3180 7986 8.074972 CGGAACCTAGACATACAAGTATAGAAC 58.925 40.741 0.00 0.00 35.81 3.01
3181 7987 7.776969 ACGGAACCTAGACATACAAGTATAGAA 59.223 37.037 0.00 0.00 35.81 2.10
3182 7988 7.285566 ACGGAACCTAGACATACAAGTATAGA 58.714 38.462 0.00 0.00 35.81 1.98
3183 7989 7.507733 ACGGAACCTAGACATACAAGTATAG 57.492 40.000 0.00 0.00 34.07 1.31
3184 7990 7.776969 AGAACGGAACCTAGACATACAAGTATA 59.223 37.037 0.00 0.00 0.00 1.47
3185 7991 6.606395 AGAACGGAACCTAGACATACAAGTAT 59.394 38.462 0.00 0.00 0.00 2.12
3186 7992 5.948162 AGAACGGAACCTAGACATACAAGTA 59.052 40.000 0.00 0.00 0.00 2.24
3187 7993 4.771054 AGAACGGAACCTAGACATACAAGT 59.229 41.667 0.00 0.00 0.00 3.16
3188 7994 5.326200 AGAACGGAACCTAGACATACAAG 57.674 43.478 0.00 0.00 0.00 3.16
3189 7995 5.711506 TGTAGAACGGAACCTAGACATACAA 59.288 40.000 0.00 0.00 0.00 2.41
3190 7996 5.255687 TGTAGAACGGAACCTAGACATACA 58.744 41.667 0.00 0.00 0.00 2.29
3191 7997 5.824904 TGTAGAACGGAACCTAGACATAC 57.175 43.478 0.00 0.00 0.00 2.39
3192 7998 7.285566 AGTATGTAGAACGGAACCTAGACATA 58.714 38.462 0.00 0.00 0.00 2.29
3193 7999 6.127793 AGTATGTAGAACGGAACCTAGACAT 58.872 40.000 0.00 0.00 0.00 3.06
3194 8000 5.503927 AGTATGTAGAACGGAACCTAGACA 58.496 41.667 0.00 0.00 0.00 3.41
3195 8001 6.292596 CGTAGTATGTAGAACGGAACCTAGAC 60.293 46.154 0.00 0.00 0.00 2.59
3196 8002 5.755375 CGTAGTATGTAGAACGGAACCTAGA 59.245 44.000 0.00 0.00 0.00 2.43
3197 8003 5.983475 CGTAGTATGTAGAACGGAACCTAG 58.017 45.833 0.00 0.00 0.00 3.02
3198 8004 5.991328 CGTAGTATGTAGAACGGAACCTA 57.009 43.478 0.00 0.00 0.00 3.08
3199 8005 4.889832 CGTAGTATGTAGAACGGAACCT 57.110 45.455 0.00 0.00 0.00 3.50
3205 8011 6.932901 TTTTCAACCGTAGTATGTAGAACG 57.067 37.500 0.00 0.00 35.20 3.95
3206 8012 9.357652 TGTATTTTCAACCGTAGTATGTAGAAC 57.642 33.333 0.00 0.00 0.00 3.01
3207 8013 9.926158 TTGTATTTTCAACCGTAGTATGTAGAA 57.074 29.630 0.00 0.00 0.00 2.10
3208 8014 9.577110 CTTGTATTTTCAACCGTAGTATGTAGA 57.423 33.333 0.00 0.00 0.00 2.59
3209 8015 8.814235 CCTTGTATTTTCAACCGTAGTATGTAG 58.186 37.037 0.00 0.00 0.00 2.74
3210 8016 8.313292 ACCTTGTATTTTCAACCGTAGTATGTA 58.687 33.333 0.00 0.00 0.00 2.29
3211 8017 7.163441 ACCTTGTATTTTCAACCGTAGTATGT 58.837 34.615 0.00 0.00 0.00 2.29
3212 8018 7.605410 ACCTTGTATTTTCAACCGTAGTATG 57.395 36.000 0.00 0.00 0.00 2.39
3213 8019 8.625786 AAACCTTGTATTTTCAACCGTAGTAT 57.374 30.769 0.00 0.00 0.00 2.12
3214 8020 9.206870 CTAAACCTTGTATTTTCAACCGTAGTA 57.793 33.333 0.00 0.00 0.00 1.82
3215 8021 6.947644 AAACCTTGTATTTTCAACCGTAGT 57.052 33.333 0.00 0.00 0.00 2.73
3216 8022 7.361457 CCCTAAACCTTGTATTTTCAACCGTAG 60.361 40.741 0.00 0.00 0.00 3.51
3217 8023 6.430616 CCCTAAACCTTGTATTTTCAACCGTA 59.569 38.462 0.00 0.00 0.00 4.02
3218 8024 5.242171 CCCTAAACCTTGTATTTTCAACCGT 59.758 40.000 0.00 0.00 0.00 4.83
3219 8025 5.242171 ACCCTAAACCTTGTATTTTCAACCG 59.758 40.000 0.00 0.00 0.00 4.44
3220 8026 6.659745 ACCCTAAACCTTGTATTTTCAACC 57.340 37.500 0.00 0.00 0.00 3.77
3221 8027 8.822855 CAAAACCCTAAACCTTGTATTTTCAAC 58.177 33.333 0.00 0.00 0.00 3.18
3222 8028 7.496263 GCAAAACCCTAAACCTTGTATTTTCAA 59.504 33.333 0.00 0.00 0.00 2.69
3223 8029 6.987404 GCAAAACCCTAAACCTTGTATTTTCA 59.013 34.615 0.00 0.00 0.00 2.69
3224 8030 6.144886 CGCAAAACCCTAAACCTTGTATTTTC 59.855 38.462 0.00 0.00 0.00 2.29
3225 8031 5.986741 CGCAAAACCCTAAACCTTGTATTTT 59.013 36.000 0.00 0.00 0.00 1.82
3229 8035 3.315749 CACGCAAAACCCTAAACCTTGTA 59.684 43.478 0.00 0.00 0.00 2.41
3364 8172 9.593134 GAATCTTGTATGTAGTTCAGATTGAGT 57.407 33.333 0.00 0.00 0.00 3.41
3400 8209 8.004087 ACTAGACATATGCTAGACCGTTTTAA 57.996 34.615 26.95 1.68 38.89 1.52
3490 8303 4.760715 ACTTTGTGAGAGAACGAGTAGCTA 59.239 41.667 0.00 0.00 0.00 3.32
3546 8361 2.802667 CGGCGAATCCAGTGCTTCG 61.803 63.158 17.05 17.05 45.27 3.79
3550 8365 2.434185 TGACGGCGAATCCAGTGC 60.434 61.111 16.62 0.00 34.01 4.40
3616 8431 2.304180 CTCACAGAACTTGGAGTCCCAT 59.696 50.000 6.74 0.00 43.12 4.00
3674 8489 2.487986 GGCAGAGTATAAGGCATTGGCT 60.488 50.000 6.96 6.96 41.24 4.75
3708 8523 1.002792 GAAGCAACCCACAGTTTCGAC 60.003 52.381 0.00 0.00 36.18 4.20
3713 8528 1.134220 TCGAAGAAGCAACCCACAGTT 60.134 47.619 0.00 0.00 40.16 3.16
3947 8773 4.883083 TGATATATCCTTCGCAGTGAACC 58.117 43.478 10.25 0.00 31.87 3.62
3963 8789 3.498121 GGACCCTCACTCGTCCTGATATA 60.498 52.174 0.00 0.00 44.40 0.86


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

AutoCloner maintained by Alex Coulton.