Multiple sequence alignment - TraesCS3A01G200600

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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 TraesCS3A01G200600 chr3A 100.000 2465 0 0 1 2465 332220979 332218515 0.000000e+00 4553.0
1 TraesCS3A01G200600 chr3D 96.719 1646 27 13 231 1874 252334199 252335819 0.000000e+00 2715.0
2 TraesCS3A01G200600 chr3D 92.032 251 19 1 1873 2122 252337495 252337745 3.900000e-93 351.0
3 TraesCS3A01G200600 chr3D 90.840 131 8 4 2173 2300 252337741 252337870 3.260000e-39 172.0
4 TraesCS3A01G200600 chr3D 84.884 172 5 5 2294 2465 252340075 252340225 1.180000e-33 154.0
5 TraesCS3A01G200600 chr3B 94.354 1541 54 21 231 1768 313807426 313808936 0.000000e+00 2333.0
6 TraesCS3A01G200600 chr3B 90.782 358 32 1 1766 2122 313810245 313810602 6.170000e-131 477.0
7 TraesCS3A01G200600 chr3B 89.202 213 18 4 2173 2385 313817332 313817539 6.760000e-66 261.0
8 TraesCS3A01G200600 chr3B 85.567 194 12 10 2 179 605004368 605004175 3.240000e-44 189.0
9 TraesCS3A01G200600 chr5B 95.361 194 9 0 1 194 437771017 437771210 2.380000e-80 309.0
10 TraesCS3A01G200600 chr5B 96.552 58 0 2 835 891 322858705 322858761 7.260000e-16 95.3
11 TraesCS3A01G200600 chr2B 81.347 193 15 12 2 179 262528452 262528638 1.190000e-28 137.0
12 TraesCS3A01G200600 chr6D 98.182 55 1 0 841 895 52724695 52724641 2.020000e-16 97.1
13 TraesCS3A01G200600 chr6B 98.182 55 1 0 841 895 119849607 119849553 2.020000e-16 97.1
14 TraesCS3A01G200600 chr6A 98.182 55 1 0 841 895 63610635 63610581 2.020000e-16 97.1
15 TraesCS3A01G200600 chr5D 96.552 58 0 2 835 891 285247432 285247488 7.260000e-16 95.3
16 TraesCS3A01G200600 chr5D 88.235 51 6 0 846 896 113391895 113391845 7.360000e-06 62.1
17 TraesCS3A01G200600 chr5A 96.552 58 0 2 835 891 377119601 377119657 7.260000e-16 95.3


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 TraesCS3A01G200600 chr3A 332218515 332220979 2464 True 4553 4553 100.00000 1 2465 1 chr3A.!!$R1 2464
1 TraesCS3A01G200600 chr3D 252334199 252340225 6026 False 848 2715 91.11875 231 2465 4 chr3D.!!$F1 2234
2 TraesCS3A01G200600 chr3B 313807426 313810602 3176 False 1405 2333 92.56800 231 2122 2 chr3B.!!$F2 1891

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
201 202 0.033504 GGTTTCGGAGCTGAGTGACA 59.966 55.0 0.0 0.0 0.0 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1911 4908 0.033503 CCGGGTTTAGCAAATCCCCT 60.034 55.0 0.0 0.0 38.49 4.79 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
21 22 4.615815 GATGCCGGGCTCGCAGAT 62.616 66.667 21.46 3.48 33.89 2.90
22 23 4.615815 ATGCCGGGCTCGCAGATC 62.616 66.667 21.46 0.00 33.89 2.75
25 26 3.933722 CCGGGCTCGCAGATCCAT 61.934 66.667 0.00 0.00 46.11 3.41
26 27 2.356793 CGGGCTCGCAGATCCATC 60.357 66.667 0.00 0.00 46.11 3.51
27 28 2.031768 GGGCTCGCAGATCCATCC 59.968 66.667 0.00 0.00 46.11 3.51
28 29 2.356793 GGCTCGCAGATCCATCCG 60.357 66.667 0.00 0.00 43.32 4.18
29 30 3.040763 GCTCGCAGATCCATCCGC 61.041 66.667 0.00 0.00 33.89 5.54
30 31 2.356793 CTCGCAGATCCATCCGCC 60.357 66.667 0.00 0.00 33.89 6.13
31 32 3.153781 TCGCAGATCCATCCGCCA 61.154 61.111 0.00 0.00 0.00 5.69
32 33 2.031616 CGCAGATCCATCCGCCAT 59.968 61.111 0.00 0.00 0.00 4.40
33 34 2.322830 CGCAGATCCATCCGCCATG 61.323 63.158 0.00 0.00 0.00 3.66
39 40 2.124193 CCATCCGCCATGGCAAGA 60.124 61.111 34.93 29.31 46.18 3.02
40 41 2.191513 CCATCCGCCATGGCAAGAG 61.192 63.158 34.93 21.03 46.18 2.85
41 42 1.153107 CATCCGCCATGGCAAGAGA 60.153 57.895 34.93 24.46 42.06 3.10
42 43 1.153086 ATCCGCCATGGCAAGAGAC 60.153 57.895 34.93 5.33 42.06 3.36
43 44 2.930385 ATCCGCCATGGCAAGAGACG 62.930 60.000 34.93 17.21 42.06 4.18
44 45 2.125552 CGCCATGGCAAGAGACGA 60.126 61.111 34.93 0.00 42.06 4.20
45 46 2.169789 CGCCATGGCAAGAGACGAG 61.170 63.158 34.93 12.63 42.06 4.18
46 47 1.219124 GCCATGGCAAGAGACGAGA 59.781 57.895 32.08 0.00 41.49 4.04
47 48 0.391661 GCCATGGCAAGAGACGAGAA 60.392 55.000 32.08 0.00 41.49 2.87
48 49 1.649664 CCATGGCAAGAGACGAGAAG 58.350 55.000 0.00 0.00 0.00 2.85
49 50 1.005340 CATGGCAAGAGACGAGAAGC 58.995 55.000 0.00 0.00 0.00 3.86
51 52 1.213013 GGCAAGAGACGAGAAGCGA 59.787 57.895 0.00 0.00 44.57 4.93
52 53 0.800300 GGCAAGAGACGAGAAGCGAG 60.800 60.000 0.00 0.00 44.57 5.03
53 54 0.800300 GCAAGAGACGAGAAGCGAGG 60.800 60.000 0.00 0.00 44.57 4.63
54 55 0.179150 CAAGAGACGAGAAGCGAGGG 60.179 60.000 0.00 0.00 44.57 4.30
55 56 0.322636 AAGAGACGAGAAGCGAGGGA 60.323 55.000 0.00 0.00 44.57 4.20
56 57 0.322636 AGAGACGAGAAGCGAGGGAA 60.323 55.000 0.00 0.00 44.57 3.97
57 58 0.526662 GAGACGAGAAGCGAGGGAAA 59.473 55.000 0.00 0.00 44.57 3.13
58 59 0.528470 AGACGAGAAGCGAGGGAAAG 59.472 55.000 0.00 0.00 44.57 2.62
59 60 1.079317 GACGAGAAGCGAGGGAAAGC 61.079 60.000 0.00 0.00 44.57 3.51
60 61 1.079819 CGAGAAGCGAGGGAAAGCA 60.080 57.895 0.00 0.00 44.57 3.91
61 62 1.355066 CGAGAAGCGAGGGAAAGCAC 61.355 60.000 0.00 0.00 44.57 4.40
62 63 1.003233 AGAAGCGAGGGAAAGCACC 60.003 57.895 0.00 0.00 35.48 5.01
63 64 1.302511 GAAGCGAGGGAAAGCACCA 60.303 57.895 0.00 0.00 35.48 4.17
64 65 1.301677 GAAGCGAGGGAAAGCACCAG 61.302 60.000 0.00 0.00 35.48 4.00
65 66 1.768684 AAGCGAGGGAAAGCACCAGA 61.769 55.000 0.00 0.00 35.48 3.86
66 67 2.035442 GCGAGGGAAAGCACCAGAC 61.035 63.158 0.00 0.00 0.00 3.51
67 68 1.376037 CGAGGGAAAGCACCAGACC 60.376 63.158 0.00 0.00 0.00 3.85
68 69 1.831652 CGAGGGAAAGCACCAGACCT 61.832 60.000 0.00 0.00 0.00 3.85
69 70 1.276622 GAGGGAAAGCACCAGACCTA 58.723 55.000 0.00 0.00 0.00 3.08
70 71 1.208293 GAGGGAAAGCACCAGACCTAG 59.792 57.143 0.00 0.00 0.00 3.02
71 72 1.203313 AGGGAAAGCACCAGACCTAGA 60.203 52.381 0.00 0.00 0.00 2.43
72 73 1.208293 GGGAAAGCACCAGACCTAGAG 59.792 57.143 0.00 0.00 0.00 2.43
73 74 1.903183 GGAAAGCACCAGACCTAGAGT 59.097 52.381 0.00 0.00 0.00 3.24
74 75 2.093921 GGAAAGCACCAGACCTAGAGTC 60.094 54.545 0.00 0.00 46.71 3.36
81 82 3.217743 GACCTAGAGTCCGCCGGG 61.218 72.222 1.90 0.00 39.84 5.73
82 83 4.835891 ACCTAGAGTCCGCCGGGG 62.836 72.222 12.43 12.43 37.02 5.73
83 84 4.517934 CCTAGAGTCCGCCGGGGA 62.518 72.222 21.95 14.05 44.68 4.81
137 138 3.369388 GGGGGAGAGGAGGAGGGT 61.369 72.222 0.00 0.00 0.00 4.34
138 139 2.041405 GGGGAGAGGAGGAGGGTG 60.041 72.222 0.00 0.00 0.00 4.61
139 140 2.041405 GGGAGAGGAGGAGGGTGG 60.041 72.222 0.00 0.00 0.00 4.61
140 141 2.637640 GGGAGAGGAGGAGGGTGGA 61.638 68.421 0.00 0.00 0.00 4.02
141 142 1.382009 GGAGAGGAGGAGGGTGGAC 60.382 68.421 0.00 0.00 0.00 4.02
142 143 1.755008 GAGAGGAGGAGGGTGGACG 60.755 68.421 0.00 0.00 0.00 4.79
143 144 3.462678 GAGGAGGAGGGTGGACGC 61.463 72.222 0.00 0.00 0.00 5.19
183 184 4.803908 GAAAGGGAGCGCTGGGGG 62.804 72.222 18.48 0.00 0.00 5.40
193 194 4.035102 GCTGGGGGTTTCGGAGCT 62.035 66.667 0.00 0.00 0.00 4.09
194 195 2.045926 CTGGGGGTTTCGGAGCTG 60.046 66.667 0.00 0.00 0.00 4.24
195 196 2.528127 TGGGGGTTTCGGAGCTGA 60.528 61.111 0.00 0.00 0.00 4.26
196 197 2.269241 GGGGGTTTCGGAGCTGAG 59.731 66.667 0.00 0.00 0.00 3.35
197 198 2.593956 GGGGGTTTCGGAGCTGAGT 61.594 63.158 0.00 0.00 0.00 3.41
198 199 1.376037 GGGGTTTCGGAGCTGAGTG 60.376 63.158 0.00 0.00 0.00 3.51
199 200 1.671742 GGGTTTCGGAGCTGAGTGA 59.328 57.895 0.00 0.00 0.00 3.41
200 201 0.670854 GGGTTTCGGAGCTGAGTGAC 60.671 60.000 0.00 0.00 0.00 3.67
201 202 0.033504 GGTTTCGGAGCTGAGTGACA 59.966 55.000 0.00 0.00 0.00 3.58
202 203 1.540363 GGTTTCGGAGCTGAGTGACAA 60.540 52.381 0.00 0.00 0.00 3.18
203 204 2.417719 GTTTCGGAGCTGAGTGACAAT 58.582 47.619 0.00 0.00 0.00 2.71
204 205 2.370281 TTCGGAGCTGAGTGACAATC 57.630 50.000 0.00 0.00 0.00 2.67
205 206 0.171231 TCGGAGCTGAGTGACAATCG 59.829 55.000 0.00 0.00 0.00 3.34
206 207 0.171231 CGGAGCTGAGTGACAATCGA 59.829 55.000 0.00 0.00 0.00 3.59
207 208 1.402852 CGGAGCTGAGTGACAATCGAA 60.403 52.381 0.00 0.00 0.00 3.71
208 209 1.996191 GGAGCTGAGTGACAATCGAAC 59.004 52.381 0.00 0.00 0.00 3.95
209 210 2.610479 GGAGCTGAGTGACAATCGAACA 60.610 50.000 0.00 0.00 0.00 3.18
210 211 2.408050 AGCTGAGTGACAATCGAACAC 58.592 47.619 0.00 0.00 35.15 3.32
211 212 2.135139 GCTGAGTGACAATCGAACACA 58.865 47.619 14.31 2.32 37.05 3.72
212 213 2.156504 GCTGAGTGACAATCGAACACAG 59.843 50.000 14.31 10.99 36.14 3.66
213 214 3.642705 CTGAGTGACAATCGAACACAGA 58.357 45.455 5.92 0.00 35.37 3.41
214 215 4.051237 CTGAGTGACAATCGAACACAGAA 58.949 43.478 5.92 0.00 35.37 3.02
215 216 4.438148 TGAGTGACAATCGAACACAGAAA 58.562 39.130 14.31 0.03 37.05 2.52
216 217 4.873259 TGAGTGACAATCGAACACAGAAAA 59.127 37.500 14.31 0.00 37.05 2.29
217 218 5.352846 TGAGTGACAATCGAACACAGAAAAA 59.647 36.000 14.31 0.00 37.05 1.94
218 219 5.810525 AGTGACAATCGAACACAGAAAAAG 58.189 37.500 14.31 0.00 37.05 2.27
219 220 5.584649 AGTGACAATCGAACACAGAAAAAGA 59.415 36.000 14.31 0.00 37.05 2.52
220 221 6.260936 AGTGACAATCGAACACAGAAAAAGAT 59.739 34.615 14.31 0.00 37.05 2.40
221 222 7.441157 AGTGACAATCGAACACAGAAAAAGATA 59.559 33.333 14.31 0.00 37.05 1.98
222 223 7.742089 GTGACAATCGAACACAGAAAAAGATAG 59.258 37.037 0.00 0.00 35.06 2.08
223 224 7.655732 TGACAATCGAACACAGAAAAAGATAGA 59.344 33.333 0.00 0.00 0.00 1.98
224 225 8.023050 ACAATCGAACACAGAAAAAGATAGAG 57.977 34.615 0.00 0.00 0.00 2.43
225 226 7.872993 ACAATCGAACACAGAAAAAGATAGAGA 59.127 33.333 0.00 0.00 0.00 3.10
226 227 8.712363 CAATCGAACACAGAAAAAGATAGAGAA 58.288 33.333 0.00 0.00 0.00 2.87
227 228 7.639162 TCGAACACAGAAAAAGATAGAGAAC 57.361 36.000 0.00 0.00 0.00 3.01
228 229 6.645415 TCGAACACAGAAAAAGATAGAGAACC 59.355 38.462 0.00 0.00 0.00 3.62
229 230 6.423905 CGAACACAGAAAAAGATAGAGAACCA 59.576 38.462 0.00 0.00 0.00 3.67
259 260 4.017126 GCCCACTTAACTCCTAAGCAAAT 58.983 43.478 0.00 0.00 40.78 2.32
293 294 2.548067 CGCCTATAAATTGCGTCCCTCT 60.548 50.000 0.00 0.00 43.12 3.69
327 328 3.108847 TCCCTTTTCCCTCTCTCTCTC 57.891 52.381 0.00 0.00 0.00 3.20
328 329 2.657459 TCCCTTTTCCCTCTCTCTCTCT 59.343 50.000 0.00 0.00 0.00 3.10
329 330 3.031013 CCCTTTTCCCTCTCTCTCTCTC 58.969 54.545 0.00 0.00 0.00 3.20
330 331 3.309848 CCCTTTTCCCTCTCTCTCTCTCT 60.310 52.174 0.00 0.00 0.00 3.10
331 332 3.954258 CCTTTTCCCTCTCTCTCTCTCTC 59.046 52.174 0.00 0.00 0.00 3.20
332 333 4.325344 CCTTTTCCCTCTCTCTCTCTCTCT 60.325 50.000 0.00 0.00 0.00 3.10
339 340 2.434336 TCTCTCTCTCTCTCTTCTCCCG 59.566 54.545 0.00 0.00 0.00 5.14
368 369 5.770162 TGGAAGGACTTGGATTCTTTCTTTC 59.230 40.000 0.00 0.00 31.47 2.62
431 432 3.953775 ACAACCACCCTGCTCCCG 61.954 66.667 0.00 0.00 0.00 5.14
509 510 4.453819 CCTTGGAGATTCTGTGTGAAAGTC 59.546 45.833 0.00 0.00 38.29 3.01
511 512 4.635223 TGGAGATTCTGTGTGAAAGTCTG 58.365 43.478 0.00 0.00 38.29 3.51
588 591 0.978146 ACCTAGCTGTTCAGGGCGAT 60.978 55.000 5.27 0.00 36.15 4.58
655 658 1.394917 CTCTGCCGAAATTTCCTGTCG 59.605 52.381 12.54 1.02 34.58 4.35
701 704 3.132824 CACCCTGCTCAAATATTTTCCCC 59.867 47.826 0.00 0.00 0.00 4.81
1101 1104 1.513622 GCTGACGGAGGAGAGGAAC 59.486 63.158 0.00 0.00 0.00 3.62
1487 1490 2.016318 GATCGCATCATGTTGGTTCCA 58.984 47.619 5.93 0.00 0.00 3.53
1493 1496 3.696051 GCATCATGTTGGTTCCATGTAGT 59.304 43.478 5.93 0.00 40.43 2.73
1494 1497 4.881273 GCATCATGTTGGTTCCATGTAGTA 59.119 41.667 5.93 0.00 40.43 1.82
1495 1498 5.008019 GCATCATGTTGGTTCCATGTAGTAG 59.992 44.000 5.93 0.00 40.43 2.57
1510 1513 5.624344 TGTAGTAGCTCTGTGTTGTCTAC 57.376 43.478 0.00 0.00 0.00 2.59
1543 1552 2.424956 GTGCTTATGCTTTTCCTCCCAG 59.575 50.000 1.96 0.00 40.48 4.45
1544 1553 1.406898 GCTTATGCTTTTCCTCCCAGC 59.593 52.381 0.00 0.00 36.03 4.85
1545 1554 2.027385 CTTATGCTTTTCCTCCCAGCC 58.973 52.381 0.00 0.00 32.11 4.85
1546 1555 0.107214 TATGCTTTTCCTCCCAGCCG 60.107 55.000 0.00 0.00 32.11 5.52
1547 1556 2.034221 GCTTTTCCTCCCAGCCGT 59.966 61.111 0.00 0.00 0.00 5.68
1548 1557 2.041115 GCTTTTCCTCCCAGCCGTC 61.041 63.158 0.00 0.00 0.00 4.79
1549 1558 1.377333 CTTTTCCTCCCAGCCGTCC 60.377 63.158 0.00 0.00 0.00 4.79
1550 1559 2.821679 CTTTTCCTCCCAGCCGTCCC 62.822 65.000 0.00 0.00 0.00 4.46
1551 1560 4.649705 TTCCTCCCAGCCGTCCCA 62.650 66.667 0.00 0.00 0.00 4.37
1567 1576 4.205587 CGTCCCAGGTAGAGTAGTGTTAT 58.794 47.826 0.00 0.00 0.00 1.89
1616 1625 0.249155 AGTGGTTGTACGTGTGTCGG 60.249 55.000 0.00 0.00 44.69 4.79
1750 1759 2.968574 ACATCGCCTATCACTCTCCAAT 59.031 45.455 0.00 0.00 0.00 3.16
1774 3094 7.311092 TGGAGAAAAGAGTAATAACTGACCA 57.689 36.000 0.00 0.00 35.56 4.02
1911 4908 2.232941 GACATCGGTGAACCTTAGGTGA 59.767 50.000 3.99 0.00 35.34 4.02
1913 4910 1.263356 TCGGTGAACCTTAGGTGAGG 58.737 55.000 3.99 0.00 42.75 3.86
1925 4922 4.325030 CCTTAGGTGAGGGGATTTGCTAAA 60.325 45.833 0.00 0.00 32.94 1.85
1939 4936 5.811796 TTTGCTAAACCCGGCTATAGATA 57.188 39.130 3.21 0.00 0.00 1.98
1951 4948 5.339365 CCGGCTATAGATACTCTTAGGACCT 60.339 48.000 3.21 0.00 0.00 3.85
1967 4964 2.721167 CCTGGATTCGCCCGTCAGA 61.721 63.158 0.00 0.00 34.97 3.27
2011 5008 5.349690 TGATATAGGACCAAGCCATATGGA 58.650 41.667 26.47 0.78 40.56 3.41
2016 5013 1.771255 GACCAAGCCATATGGAGGTCT 59.229 52.381 32.81 18.79 43.58 3.85
2025 5022 4.563168 GCCATATGGAGGTCTGATCTTCAG 60.563 50.000 26.47 0.00 40.87 3.02
2100 5097 2.794282 GCGAAACACACAAATCAGCACA 60.794 45.455 0.00 0.00 0.00 4.57
2119 5116 7.121020 TCAGCACACATAGATGCAATAAAAGAA 59.879 33.333 0.00 0.00 44.59 2.52
2120 5117 7.919091 CAGCACACATAGATGCAATAAAAGAAT 59.081 33.333 0.00 0.00 44.59 2.40
2121 5118 9.123902 AGCACACATAGATGCAATAAAAGAATA 57.876 29.630 0.00 0.00 44.59 1.75
2122 5119 9.173939 GCACACATAGATGCAATAAAAGAATAC 57.826 33.333 0.00 0.00 41.65 1.89
2129 5126 8.109705 AGATGCAATAAAAGAATACACACACA 57.890 30.769 0.00 0.00 0.00 3.72
2130 5127 8.023128 AGATGCAATAAAAGAATACACACACAC 58.977 33.333 0.00 0.00 0.00 3.82
2131 5128 7.032377 TGCAATAAAAGAATACACACACACA 57.968 32.000 0.00 0.00 0.00 3.72
2132 5129 6.915300 TGCAATAAAAGAATACACACACACAC 59.085 34.615 0.00 0.00 0.00 3.82
2133 5130 6.915300 GCAATAAAAGAATACACACACACACA 59.085 34.615 0.00 0.00 0.00 3.72
2134 5131 7.096640 GCAATAAAAGAATACACACACACACAC 60.097 37.037 0.00 0.00 0.00 3.82
2135 5132 5.888691 AAAAGAATACACACACACACACA 57.111 34.783 0.00 0.00 0.00 3.72
2136 5133 4.875544 AAGAATACACACACACACACAC 57.124 40.909 0.00 0.00 0.00 3.82
2137 5134 3.867857 AGAATACACACACACACACACA 58.132 40.909 0.00 0.00 0.00 3.72
2138 5135 3.621268 AGAATACACACACACACACACAC 59.379 43.478 0.00 0.00 0.00 3.82
2139 5136 2.457366 TACACACACACACACACACA 57.543 45.000 0.00 0.00 0.00 3.72
2140 5137 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2141 5138 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2142 5139 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2143 5140 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2144 5141 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2145 5142 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2146 5143 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2147 5144 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2148 5145 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2149 5146 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2150 5147 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2151 5148 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2152 5149 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2153 5150 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2154 5151 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2155 5152 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2156 5153 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2157 5154 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2158 5155 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2159 5156 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2160 5157 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2161 5158 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2162 5159 1.468127 CACACACACACACACACACAT 59.532 47.619 0.00 0.00 0.00 3.21
2163 5160 2.675348 CACACACACACACACACACATA 59.325 45.455 0.00 0.00 0.00 2.29
2164 5161 3.312146 CACACACACACACACACACATAT 59.688 43.478 0.00 0.00 0.00 1.78
2165 5162 4.509600 CACACACACACACACACACATATA 59.490 41.667 0.00 0.00 0.00 0.86
2166 5163 5.179182 CACACACACACACACACACATATAT 59.821 40.000 0.00 0.00 0.00 0.86
2167 5164 6.367422 CACACACACACACACACACATATATA 59.633 38.462 0.00 0.00 0.00 0.86
2168 5165 7.064490 CACACACACACACACACACATATATAT 59.936 37.037 0.00 0.00 0.00 0.86
2169 5166 8.254508 ACACACACACACACACACATATATATA 58.745 33.333 0.00 0.00 0.00 0.86
2170 5167 9.260002 CACACACACACACACACATATATATAT 57.740 33.333 0.00 0.00 0.00 0.86
2286 5283 6.509418 TTTTCATGAAGGAATCTTTACCCG 57.491 37.500 8.41 0.00 32.52 5.28
2304 7511 8.648698 TTTACCCGTATGTAGCCATAATACTA 57.351 34.615 0.00 0.00 35.37 1.82
2320 7527 0.920271 ACTACTCGGAGTCTCCCCCT 60.920 60.000 15.05 0.00 31.13 4.79
2348 7555 3.272574 TGCCTTCATCTTCATGAGGAC 57.727 47.619 10.05 0.00 40.28 3.85
2361 7568 4.560739 TCATGAGGACCTATCTCCAATGT 58.439 43.478 0.00 0.00 32.36 2.71
2377 7584 4.290985 TCCAATGTAGGAATCCACAAGGAA 59.709 41.667 17.84 8.89 39.21 3.36
2378 7585 5.222233 TCCAATGTAGGAATCCACAAGGAAA 60.222 40.000 17.84 5.95 39.21 3.13
2379 7586 7.028526 TCCAATGTAGGAATCCACAAGGAAAG 61.029 42.308 17.84 5.17 39.21 2.62
2380 7587 9.122433 TCCAATGTAGGAATCCACAAGGAAAGA 62.122 40.741 17.84 6.61 39.21 2.52
2390 7597 6.753913 TCCACAAGGAAAGATATATGAGCT 57.246 37.500 0.00 0.00 42.23 4.09
2391 7598 7.855784 TCCACAAGGAAAGATATATGAGCTA 57.144 36.000 0.00 0.00 42.23 3.32
2392 7599 8.262601 TCCACAAGGAAAGATATATGAGCTAA 57.737 34.615 0.00 0.00 42.23 3.09
2393 7600 8.370940 TCCACAAGGAAAGATATATGAGCTAAG 58.629 37.037 0.00 0.00 42.23 2.18
2394 7601 7.118971 CCACAAGGAAAGATATATGAGCTAAGC 59.881 40.741 0.00 0.00 36.89 3.09
2395 7602 7.877097 CACAAGGAAAGATATATGAGCTAAGCT 59.123 37.037 0.00 0.00 43.88 3.74
2459 7666 5.340027 GGAGGAATCCCATAAAGGAAGAACA 60.340 44.000 0.00 0.00 40.04 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 4.615815 ATCTGCGAGCCCGGCATC 62.616 66.667 13.15 5.53 40.09 3.91
5 6 4.615815 GATCTGCGAGCCCGGCAT 62.616 66.667 13.15 0.00 40.09 4.40
8 9 3.873026 GATGGATCTGCGAGCCCGG 62.873 68.421 9.73 0.00 37.30 5.73
9 10 2.356793 GATGGATCTGCGAGCCCG 60.357 66.667 9.73 0.00 37.30 6.13
10 11 2.031768 GGATGGATCTGCGAGCCC 59.968 66.667 9.73 2.75 37.30 5.19
11 12 2.356793 CGGATGGATCTGCGAGCC 60.357 66.667 5.99 5.99 38.78 4.70
23 24 1.153107 TCTCTTGCCATGGCGGATG 60.153 57.895 30.87 20.31 45.51 3.51
24 25 1.153086 GTCTCTTGCCATGGCGGAT 60.153 57.895 30.87 0.00 45.51 4.18
25 26 2.268920 GTCTCTTGCCATGGCGGA 59.731 61.111 30.87 27.13 45.51 5.54
26 27 3.197790 CGTCTCTTGCCATGGCGG 61.198 66.667 30.87 24.68 45.51 6.13
27 28 2.125552 TCGTCTCTTGCCATGGCG 60.126 61.111 30.87 18.27 45.51 5.69
28 29 0.391661 TTCTCGTCTCTTGCCATGGC 60.392 55.000 30.54 30.54 42.35 4.40
29 30 1.649664 CTTCTCGTCTCTTGCCATGG 58.350 55.000 7.63 7.63 0.00 3.66
30 31 1.005340 GCTTCTCGTCTCTTGCCATG 58.995 55.000 0.00 0.00 0.00 3.66
31 32 0.459237 CGCTTCTCGTCTCTTGCCAT 60.459 55.000 0.00 0.00 0.00 4.40
32 33 1.080501 CGCTTCTCGTCTCTTGCCA 60.081 57.895 0.00 0.00 0.00 4.92
33 34 0.800300 CTCGCTTCTCGTCTCTTGCC 60.800 60.000 0.00 0.00 39.67 4.52
34 35 0.800300 CCTCGCTTCTCGTCTCTTGC 60.800 60.000 0.00 0.00 39.67 4.01
35 36 0.179150 CCCTCGCTTCTCGTCTCTTG 60.179 60.000 0.00 0.00 39.67 3.02
36 37 0.322636 TCCCTCGCTTCTCGTCTCTT 60.323 55.000 0.00 0.00 39.67 2.85
37 38 0.322636 TTCCCTCGCTTCTCGTCTCT 60.323 55.000 0.00 0.00 39.67 3.10
38 39 0.526662 TTTCCCTCGCTTCTCGTCTC 59.473 55.000 0.00 0.00 39.67 3.36
39 40 0.528470 CTTTCCCTCGCTTCTCGTCT 59.472 55.000 0.00 0.00 39.67 4.18
40 41 1.079317 GCTTTCCCTCGCTTCTCGTC 61.079 60.000 0.00 0.00 39.67 4.20
41 42 1.079750 GCTTTCCCTCGCTTCTCGT 60.080 57.895 0.00 0.00 39.67 4.18
42 43 1.079819 TGCTTTCCCTCGCTTCTCG 60.080 57.895 0.00 0.00 40.15 4.04
43 44 1.021920 GGTGCTTTCCCTCGCTTCTC 61.022 60.000 0.00 0.00 0.00 2.87
44 45 1.003233 GGTGCTTTCCCTCGCTTCT 60.003 57.895 0.00 0.00 0.00 2.85
45 46 1.301677 CTGGTGCTTTCCCTCGCTTC 61.302 60.000 0.00 0.00 0.00 3.86
46 47 1.302832 CTGGTGCTTTCCCTCGCTT 60.303 57.895 0.00 0.00 0.00 4.68
47 48 2.217038 TCTGGTGCTTTCCCTCGCT 61.217 57.895 0.00 0.00 0.00 4.93
48 49 2.035442 GTCTGGTGCTTTCCCTCGC 61.035 63.158 0.00 0.00 0.00 5.03
49 50 1.376037 GGTCTGGTGCTTTCCCTCG 60.376 63.158 0.00 0.00 0.00 4.63
50 51 1.208293 CTAGGTCTGGTGCTTTCCCTC 59.792 57.143 0.00 0.00 0.00 4.30
51 52 1.203313 TCTAGGTCTGGTGCTTTCCCT 60.203 52.381 0.00 0.00 0.00 4.20
52 53 1.208293 CTCTAGGTCTGGTGCTTTCCC 59.792 57.143 0.00 0.00 0.00 3.97
53 54 1.903183 ACTCTAGGTCTGGTGCTTTCC 59.097 52.381 0.00 0.00 0.00 3.13
54 55 2.093921 GGACTCTAGGTCTGGTGCTTTC 60.094 54.545 10.11 0.00 43.97 2.62
55 56 1.903183 GGACTCTAGGTCTGGTGCTTT 59.097 52.381 10.11 0.00 43.97 3.51
56 57 1.562783 GGACTCTAGGTCTGGTGCTT 58.437 55.000 10.11 0.00 43.97 3.91
57 58 0.681564 CGGACTCTAGGTCTGGTGCT 60.682 60.000 10.69 0.00 45.09 4.40
58 59 1.810532 CGGACTCTAGGTCTGGTGC 59.189 63.158 10.69 0.00 45.09 5.01
63 64 2.124236 CCGGCGGACTCTAGGTCT 60.124 66.667 24.41 0.00 43.97 3.85
64 65 3.217743 CCCGGCGGACTCTAGGTC 61.218 72.222 30.79 3.50 43.79 3.85
65 66 4.835891 CCCCGGCGGACTCTAGGT 62.836 72.222 30.79 0.00 0.00 3.08
66 67 4.517934 TCCCCGGCGGACTCTAGG 62.518 72.222 30.79 19.18 34.86 3.02
67 68 2.441532 TTCCCCGGCGGACTCTAG 60.442 66.667 30.79 9.35 41.83 2.43
68 69 2.441532 CTTCCCCGGCGGACTCTA 60.442 66.667 30.79 6.76 41.83 2.43
120 121 3.369388 ACCCTCCTCCTCTCCCCC 61.369 72.222 0.00 0.00 0.00 5.40
121 122 2.041405 CACCCTCCTCCTCTCCCC 60.041 72.222 0.00 0.00 0.00 4.81
122 123 2.041405 CCACCCTCCTCCTCTCCC 60.041 72.222 0.00 0.00 0.00 4.30
123 124 1.382009 GTCCACCCTCCTCCTCTCC 60.382 68.421 0.00 0.00 0.00 3.71
124 125 1.755008 CGTCCACCCTCCTCCTCTC 60.755 68.421 0.00 0.00 0.00 3.20
125 126 2.360980 CGTCCACCCTCCTCCTCT 59.639 66.667 0.00 0.00 0.00 3.69
126 127 3.462678 GCGTCCACCCTCCTCCTC 61.463 72.222 0.00 0.00 0.00 3.71
166 167 4.803908 CCCCCAGCGCTCCCTTTC 62.804 72.222 7.13 0.00 0.00 2.62
176 177 4.035102 AGCTCCGAAACCCCCAGC 62.035 66.667 0.00 0.00 0.00 4.85
177 178 2.045926 CAGCTCCGAAACCCCCAG 60.046 66.667 0.00 0.00 0.00 4.45
178 179 2.528127 TCAGCTCCGAAACCCCCA 60.528 61.111 0.00 0.00 0.00 4.96
179 180 2.269241 CTCAGCTCCGAAACCCCC 59.731 66.667 0.00 0.00 0.00 5.40
180 181 1.376037 CACTCAGCTCCGAAACCCC 60.376 63.158 0.00 0.00 0.00 4.95
181 182 0.670854 GTCACTCAGCTCCGAAACCC 60.671 60.000 0.00 0.00 0.00 4.11
182 183 0.033504 TGTCACTCAGCTCCGAAACC 59.966 55.000 0.00 0.00 0.00 3.27
183 184 1.865865 TTGTCACTCAGCTCCGAAAC 58.134 50.000 0.00 0.00 0.00 2.78
184 185 2.688507 GATTGTCACTCAGCTCCGAAA 58.311 47.619 0.00 0.00 0.00 3.46
185 186 1.402852 CGATTGTCACTCAGCTCCGAA 60.403 52.381 0.00 0.00 0.00 4.30
186 187 0.171231 CGATTGTCACTCAGCTCCGA 59.829 55.000 0.00 0.00 0.00 4.55
187 188 0.171231 TCGATTGTCACTCAGCTCCG 59.829 55.000 0.00 0.00 0.00 4.63
188 189 1.996191 GTTCGATTGTCACTCAGCTCC 59.004 52.381 0.00 0.00 0.00 4.70
189 190 2.410053 GTGTTCGATTGTCACTCAGCTC 59.590 50.000 0.00 0.00 0.00 4.09
190 191 2.224042 TGTGTTCGATTGTCACTCAGCT 60.224 45.455 10.56 0.00 33.82 4.24
191 192 2.135139 TGTGTTCGATTGTCACTCAGC 58.865 47.619 10.56 0.00 33.82 4.26
192 193 3.642705 TCTGTGTTCGATTGTCACTCAG 58.357 45.455 9.07 9.07 34.68 3.35
193 194 3.726291 TCTGTGTTCGATTGTCACTCA 57.274 42.857 10.56 1.91 33.82 3.41
194 195 5.403897 TTTTCTGTGTTCGATTGTCACTC 57.596 39.130 10.56 0.00 33.82 3.51
195 196 5.584649 TCTTTTTCTGTGTTCGATTGTCACT 59.415 36.000 10.56 0.00 33.82 3.41
196 197 5.806286 TCTTTTTCTGTGTTCGATTGTCAC 58.194 37.500 0.00 0.00 0.00 3.67
197 198 6.618287 ATCTTTTTCTGTGTTCGATTGTCA 57.382 33.333 0.00 0.00 0.00 3.58
198 199 8.018677 TCTATCTTTTTCTGTGTTCGATTGTC 57.981 34.615 0.00 0.00 0.00 3.18
199 200 7.872993 TCTCTATCTTTTTCTGTGTTCGATTGT 59.127 33.333 0.00 0.00 0.00 2.71
200 201 8.244494 TCTCTATCTTTTTCTGTGTTCGATTG 57.756 34.615 0.00 0.00 0.00 2.67
201 202 8.713271 GTTCTCTATCTTTTTCTGTGTTCGATT 58.287 33.333 0.00 0.00 0.00 3.34
202 203 7.332182 GGTTCTCTATCTTTTTCTGTGTTCGAT 59.668 37.037 0.00 0.00 0.00 3.59
203 204 6.645415 GGTTCTCTATCTTTTTCTGTGTTCGA 59.355 38.462 0.00 0.00 0.00 3.71
204 205 6.423905 TGGTTCTCTATCTTTTTCTGTGTTCG 59.576 38.462 0.00 0.00 0.00 3.95
205 206 7.308049 GGTGGTTCTCTATCTTTTTCTGTGTTC 60.308 40.741 0.00 0.00 0.00 3.18
206 207 6.486993 GGTGGTTCTCTATCTTTTTCTGTGTT 59.513 38.462 0.00 0.00 0.00 3.32
207 208 5.998363 GGTGGTTCTCTATCTTTTTCTGTGT 59.002 40.000 0.00 0.00 0.00 3.72
208 209 5.412904 GGGTGGTTCTCTATCTTTTTCTGTG 59.587 44.000 0.00 0.00 0.00 3.66
209 210 5.073144 TGGGTGGTTCTCTATCTTTTTCTGT 59.927 40.000 0.00 0.00 0.00 3.41
210 211 5.412904 GTGGGTGGTTCTCTATCTTTTTCTG 59.587 44.000 0.00 0.00 0.00 3.02
211 212 5.515008 GGTGGGTGGTTCTCTATCTTTTTCT 60.515 44.000 0.00 0.00 0.00 2.52
212 213 4.700692 GGTGGGTGGTTCTCTATCTTTTTC 59.299 45.833 0.00 0.00 0.00 2.29
213 214 4.508584 GGGTGGGTGGTTCTCTATCTTTTT 60.509 45.833 0.00 0.00 0.00 1.94
214 215 3.010250 GGGTGGGTGGTTCTCTATCTTTT 59.990 47.826 0.00 0.00 0.00 2.27
215 216 2.576648 GGGTGGGTGGTTCTCTATCTTT 59.423 50.000 0.00 0.00 0.00 2.52
216 217 2.197465 GGGTGGGTGGTTCTCTATCTT 58.803 52.381 0.00 0.00 0.00 2.40
217 218 1.880941 GGGTGGGTGGTTCTCTATCT 58.119 55.000 0.00 0.00 0.00 1.98
218 219 0.464452 CGGGTGGGTGGTTCTCTATC 59.536 60.000 0.00 0.00 0.00 2.08
219 220 1.623542 GCGGGTGGGTGGTTCTCTAT 61.624 60.000 0.00 0.00 0.00 1.98
220 221 2.288025 GCGGGTGGGTGGTTCTCTA 61.288 63.158 0.00 0.00 0.00 2.43
221 222 3.637273 GCGGGTGGGTGGTTCTCT 61.637 66.667 0.00 0.00 0.00 3.10
222 223 4.717313 GGCGGGTGGGTGGTTCTC 62.717 72.222 0.00 0.00 0.00 2.87
228 229 3.198953 TTAAGTGGGCGGGTGGGTG 62.199 63.158 0.00 0.00 0.00 4.61
229 230 2.855014 TTAAGTGGGCGGGTGGGT 60.855 61.111 0.00 0.00 0.00 4.51
293 294 0.491371 AAGGGAATTGGGGCTTGGAA 59.509 50.000 0.00 0.00 0.00 3.53
327 328 1.065053 TCCAGAGACGGGAGAAGAGAG 60.065 57.143 0.00 0.00 0.00 3.20
328 329 0.992695 TCCAGAGACGGGAGAAGAGA 59.007 55.000 0.00 0.00 0.00 3.10
329 330 1.748493 CTTCCAGAGACGGGAGAAGAG 59.252 57.143 0.00 0.00 36.83 2.85
330 331 1.617263 CCTTCCAGAGACGGGAGAAGA 60.617 57.143 0.00 0.00 36.83 2.87
331 332 0.820871 CCTTCCAGAGACGGGAGAAG 59.179 60.000 0.00 0.00 35.46 2.85
332 333 0.408309 TCCTTCCAGAGACGGGAGAA 59.592 55.000 0.00 0.00 35.46 2.87
339 340 3.517500 AGAATCCAAGTCCTTCCAGAGAC 59.482 47.826 0.00 0.00 0.00 3.36
509 510 8.190122 GCTAGATGGTAGATCTTGTATGATCAG 58.810 40.741 0.00 0.00 43.76 2.90
511 512 8.292444 AGCTAGATGGTAGATCTTGTATGATC 57.708 38.462 0.00 0.00 42.18 2.92
588 591 5.012046 TCTGACTGGAAATTTCAGCAGAGTA 59.988 40.000 23.26 12.16 38.80 2.59
712 715 2.224402 ACAGAGTTTCTCCTGACCAAGC 60.224 50.000 0.00 0.00 0.00 4.01
1101 1104 3.793144 GACTCCTTGCGCTTGCGG 61.793 66.667 16.79 3.58 43.34 5.69
1260 1263 2.676822 AGCTCGTTCTCGGCCTGA 60.677 61.111 0.00 0.00 37.69 3.86
1487 1490 5.163744 CGTAGACAACACAGAGCTACTACAT 60.164 44.000 0.00 0.00 31.61 2.29
1493 1496 1.135774 CGCGTAGACAACACAGAGCTA 60.136 52.381 0.00 0.00 0.00 3.32
1494 1497 0.387367 CGCGTAGACAACACAGAGCT 60.387 55.000 0.00 0.00 0.00 4.09
1495 1498 0.663568 ACGCGTAGACAACACAGAGC 60.664 55.000 11.67 0.00 0.00 4.09
1510 1513 2.405357 GCATAAGCACATACTAGACGCG 59.595 50.000 3.53 3.53 41.58 6.01
1543 1552 0.395448 ACTACTCTACCTGGGACGGC 60.395 60.000 0.00 0.00 0.00 5.68
1544 1553 1.340795 ACACTACTCTACCTGGGACGG 60.341 57.143 0.00 0.00 0.00 4.79
1545 1554 2.125773 ACACTACTCTACCTGGGACG 57.874 55.000 0.00 0.00 0.00 4.79
1546 1555 6.338937 CAAATAACACTACTCTACCTGGGAC 58.661 44.000 0.00 0.00 0.00 4.46
1547 1556 5.424252 CCAAATAACACTACTCTACCTGGGA 59.576 44.000 0.00 0.00 0.00 4.37
1548 1557 5.396436 CCCAAATAACACTACTCTACCTGGG 60.396 48.000 0.00 0.00 33.15 4.45
1549 1558 5.189145 ACCCAAATAACACTACTCTACCTGG 59.811 44.000 0.00 0.00 0.00 4.45
1550 1559 6.106673 CACCCAAATAACACTACTCTACCTG 58.893 44.000 0.00 0.00 0.00 4.00
1551 1560 5.189145 CCACCCAAATAACACTACTCTACCT 59.811 44.000 0.00 0.00 0.00 3.08
1616 1625 5.230306 GTCGATGTCACACTATAAAGTCAGC 59.770 44.000 0.00 0.00 31.97 4.26
1653 1662 2.765699 GGGCATCCAATAAACCACACAT 59.234 45.455 0.00 0.00 0.00 3.21
1750 1759 7.311092 TGGTCAGTTATTACTCTTTTCTCCA 57.689 36.000 0.00 0.00 30.26 3.86
1774 3094 3.763897 CCGTCCATCTTTCTTTTTCCCAT 59.236 43.478 0.00 0.00 0.00 4.00
1911 4908 0.033503 CCGGGTTTAGCAAATCCCCT 60.034 55.000 0.00 0.00 38.49 4.79
1913 4910 0.683179 AGCCGGGTTTAGCAAATCCC 60.683 55.000 0.00 2.15 38.49 3.85
1939 4936 1.757699 GCGAATCCAGGTCCTAAGAGT 59.242 52.381 0.00 0.00 0.00 3.24
1951 4948 1.326951 TGATCTGACGGGCGAATCCA 61.327 55.000 0.00 0.00 36.21 3.41
2016 5013 4.289410 TCCACCTTTCATTCCTGAAGATCA 59.711 41.667 0.00 0.00 42.19 2.92
2025 5022 5.982890 TTCTCAAATCCACCTTTCATTCC 57.017 39.130 0.00 0.00 0.00 3.01
2071 5068 1.080298 TGTGTGTTTCGCTCGTGTTT 58.920 45.000 0.00 0.00 0.00 2.83
2119 5116 2.675844 GTGTGTGTGTGTGTGTGTGTAT 59.324 45.455 0.00 0.00 0.00 2.29
2120 5117 2.070028 GTGTGTGTGTGTGTGTGTGTA 58.930 47.619 0.00 0.00 0.00 2.90
2121 5118 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2122 5119 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2123 5120 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2124 5121 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2125 5122 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2126 5123 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2127 5124 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2128 5125 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2129 5126 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2130 5127 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2131 5128 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2132 5129 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2133 5130 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2134 5131 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2135 5132 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2136 5133 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2137 5134 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2138 5135 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2139 5136 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2140 5137 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2141 5138 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2142 5139 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2143 5140 1.819928 ATGTGTGTGTGTGTGTGTGT 58.180 45.000 0.00 0.00 0.00 3.72
2144 5141 5.861222 ATATATGTGTGTGTGTGTGTGTG 57.139 39.130 0.00 0.00 0.00 3.82
2232 5229 3.323979 TCCTTGTCTTAGGACTTGGTGAC 59.676 47.826 6.54 0.00 39.40 3.67
2234 5231 4.040461 TCTTCCTTGTCTTAGGACTTGGTG 59.960 45.833 6.54 6.46 43.91 4.17
2235 5232 4.040584 GTCTTCCTTGTCTTAGGACTTGGT 59.959 45.833 6.54 0.00 43.91 3.67
2266 5263 4.837093 ACGGGTAAAGATTCCTTCATGA 57.163 40.909 0.00 0.00 0.00 3.07
2271 5268 5.454329 GGCTACATACGGGTAAAGATTCCTT 60.454 44.000 0.00 0.00 0.00 3.36
2282 5279 6.251471 AGTAGTATTATGGCTACATACGGGT 58.749 40.000 9.93 0.00 39.21 5.28
2283 5280 6.457934 CGAGTAGTATTATGGCTACATACGGG 60.458 46.154 9.93 0.00 39.21 5.28
2286 5283 7.336427 ACTCCGAGTAGTATTATGGCTACATAC 59.664 40.741 0.00 0.00 39.21 2.39
2348 7555 5.307976 TGTGGATTCCTACATTGGAGATAGG 59.692 44.000 3.95 0.00 37.43 2.57
2361 7568 9.392506 TCATATATCTTTCCTTGTGGATTCCTA 57.607 33.333 3.95 0.00 42.81 2.94
2394 7601 7.021196 GCTAAGATAGAGCTCAAACGATAGAG 58.979 42.308 17.77 3.08 36.96 2.43
2395 7602 6.904498 GCTAAGATAGAGCTCAAACGATAGA 58.096 40.000 17.77 0.00 36.96 1.98
2428 7635 5.537674 CCTTTATGGGATTCCTCCATTGAAG 59.462 44.000 2.01 6.69 41.87 3.02


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

AutoCloner maintained by Alex Coulton.