Multiple sequence alignment - TraesCS5A01G211600

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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 TraesCS5A01G211600 chr5A 100.000 2552 0 0 1 2552 426902902 426905453 0.000000e+00 4713.0
1 TraesCS5A01G211600 chr5D 89.775 1731 74 36 429 2097 329797251 329795562 0.000000e+00 2121.0
2 TraesCS5A01G211600 chr5D 88.983 354 23 7 2098 2447 329795525 329795184 8.440000e-115 424.0
3 TraesCS5A01G211600 chr5D 89.796 49 4 1 392 440 329797318 329797271 7.620000e-06 62.1
4 TraesCS5A01G211600 chr5B 86.576 1773 109 50 407 2097 382910601 382908876 0.000000e+00 1836.0
5 TraesCS5A01G211600 chr5B 89.443 341 21 8 2098 2433 382908839 382908509 1.410000e-112 416.0
6 TraesCS5A01G211600 chr5B 86.719 256 27 6 170 424 382914079 382913830 6.950000e-71 278.0
7 TraesCS5A01G211600 chr5B 95.556 45 2 0 76 120 340570449 340570405 3.520000e-09 73.1
8 TraesCS5A01G211600 chr7A 87.402 127 14 2 1000 1124 52278900 52279026 7.360000e-31 145.0
9 TraesCS5A01G211600 chr7A 92.593 54 4 0 70 123 693025480 693025533 7.570000e-11 78.7
10 TraesCS5A01G211600 chr7A 89.831 59 4 2 76 134 29807382 29807326 9.790000e-10 75.0
11 TraesCS5A01G211600 chr7A 85.333 75 8 3 61 134 72829592 72829520 9.790000e-10 75.0
12 TraesCS5A01G211600 chr7A 85.333 75 8 3 61 134 72866735 72866663 9.790000e-10 75.0
13 TraesCS5A01G211600 chr4A 86.614 127 15 2 1000 1124 663986137 663986263 3.420000e-29 139.0
14 TraesCS5A01G211600 chr7D 87.500 112 14 0 1000 1111 49381176 49381287 2.060000e-26 130.0
15 TraesCS5A01G211600 chr7D 85.227 88 12 1 2448 2535 162115776 162115862 3.500000e-14 89.8
16 TraesCS5A01G211600 chr3D 81.443 97 15 3 27 120 523639418 523639322 2.720000e-10 76.8
17 TraesCS5A01G211600 chr6B 79.630 108 18 4 28 133 512551509 512551404 9.790000e-10 75.0
18 TraesCS5A01G211600 chr1A 84.416 77 11 1 44 119 284175320 284175396 9.790000e-10 75.0
19 TraesCS5A01G211600 chr2D 79.592 98 18 2 27 122 478827528 478827625 4.560000e-08 69.4
20 TraesCS5A01G211600 chr1B 81.250 96 8 5 2446 2540 677915600 677915514 4.560000e-08 69.4


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 TraesCS5A01G211600 chr5A 426902902 426905453 2551 False 4713.000000 4713 100.000000 1 2552 1 chr5A.!!$F1 2551
1 TraesCS5A01G211600 chr5D 329795184 329797318 2134 True 869.033333 2121 89.518000 392 2447 3 chr5D.!!$R1 2055
2 TraesCS5A01G211600 chr5B 382908509 382914079 5570 True 843.333333 1836 87.579333 170 2433 3 chr5B.!!$R2 2263

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
557 3837 0.317603 CCGCGATTACCGACGAAGAT 60.318 55.0 8.23 0.0 41.76 2.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1689 5048 0.250234 TCTTGGTGGATCCGCTTCTG 59.75 55.0 24.15 12.28 39.52 3.02 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
31 32 9.590451 TTCTATAAAAAGTAGTATCGTGGGTTG 57.410 33.333 0.00 0.00 0.00 3.77
32 33 8.970020 TCTATAAAAAGTAGTATCGTGGGTTGA 58.030 33.333 0.00 0.00 0.00 3.18
33 34 9.590451 CTATAAAAAGTAGTATCGTGGGTTGAA 57.410 33.333 0.00 0.00 0.00 2.69
36 37 8.851541 AAAAAGTAGTATCGTGGGTTGAATAA 57.148 30.769 0.00 0.00 0.00 1.40
37 38 8.851541 AAAAGTAGTATCGTGGGTTGAATAAA 57.148 30.769 0.00 0.00 0.00 1.40
38 39 8.851541 AAAGTAGTATCGTGGGTTGAATAAAA 57.148 30.769 0.00 0.00 0.00 1.52
39 40 8.851541 AAGTAGTATCGTGGGTTGAATAAAAA 57.148 30.769 0.00 0.00 0.00 1.94
65 66 6.572167 CCACATGGGTTTTTATGCAAAATT 57.428 33.333 0.00 0.00 36.72 1.82
66 67 7.678947 CCACATGGGTTTTTATGCAAAATTA 57.321 32.000 0.00 0.00 36.72 1.40
67 68 7.525759 CCACATGGGTTTTTATGCAAAATTAC 58.474 34.615 0.00 0.00 36.72 1.89
68 69 7.232994 CACATGGGTTTTTATGCAAAATTACG 58.767 34.615 0.00 0.00 36.72 3.18
69 70 6.931840 ACATGGGTTTTTATGCAAAATTACGT 59.068 30.769 0.00 0.00 36.72 3.57
70 71 6.771188 TGGGTTTTTATGCAAAATTACGTG 57.229 33.333 0.00 0.00 36.72 4.49
71 72 6.513180 TGGGTTTTTATGCAAAATTACGTGA 58.487 32.000 0.00 0.00 36.72 4.35
72 73 7.155328 TGGGTTTTTATGCAAAATTACGTGAT 58.845 30.769 0.00 0.00 36.72 3.06
73 74 7.116948 TGGGTTTTTATGCAAAATTACGTGATG 59.883 33.333 0.00 0.00 36.72 3.07
74 75 7.329717 GGGTTTTTATGCAAAATTACGTGATGA 59.670 33.333 0.00 0.00 36.72 2.92
75 76 8.868916 GGTTTTTATGCAAAATTACGTGATGAT 58.131 29.630 0.00 0.00 36.72 2.45
76 77 9.674208 GTTTTTATGCAAAATTACGTGATGATG 57.326 29.630 0.00 0.00 36.72 3.07
77 78 9.631452 TTTTTATGCAAAATTACGTGATGATGA 57.369 25.926 0.00 0.00 33.72 2.92
78 79 9.631452 TTTTATGCAAAATTACGTGATGATGAA 57.369 25.926 0.00 0.00 0.00 2.57
79 80 8.613613 TTATGCAAAATTACGTGATGATGAAC 57.386 30.769 0.00 0.00 0.00 3.18
80 81 6.252967 TGCAAAATTACGTGATGATGAACT 57.747 33.333 0.00 0.00 0.00 3.01
81 82 6.676950 TGCAAAATTACGTGATGATGAACTT 58.323 32.000 0.00 0.00 0.00 2.66
82 83 6.581919 TGCAAAATTACGTGATGATGAACTTG 59.418 34.615 0.00 0.00 0.00 3.16
83 84 6.801377 GCAAAATTACGTGATGATGAACTTGA 59.199 34.615 0.00 0.00 0.00 3.02
84 85 7.201266 GCAAAATTACGTGATGATGAACTTGAC 60.201 37.037 0.00 0.00 0.00 3.18
85 86 5.702622 ATTACGTGATGATGAACTTGACG 57.297 39.130 0.00 0.00 38.64 4.35
86 87 2.337583 ACGTGATGATGAACTTGACGG 58.662 47.619 0.00 0.00 37.51 4.79
87 88 2.029380 ACGTGATGATGAACTTGACGGA 60.029 45.455 0.00 0.00 37.51 4.69
88 89 2.993220 CGTGATGATGAACTTGACGGAA 59.007 45.455 0.00 0.00 32.02 4.30
89 90 3.061295 CGTGATGATGAACTTGACGGAAG 59.939 47.826 0.00 0.00 37.73 3.46
90 91 3.002791 TGATGATGAACTTGACGGAAGC 58.997 45.455 0.00 0.00 34.68 3.86
91 92 2.542020 TGATGAACTTGACGGAAGCA 57.458 45.000 0.00 0.00 34.68 3.91
92 93 2.844946 TGATGAACTTGACGGAAGCAA 58.155 42.857 0.00 0.00 34.68 3.91
93 94 3.411446 TGATGAACTTGACGGAAGCAAT 58.589 40.909 0.00 0.00 34.68 3.56
94 95 3.189080 TGATGAACTTGACGGAAGCAATG 59.811 43.478 0.00 0.00 34.68 2.82
95 96 1.266718 TGAACTTGACGGAAGCAATGC 59.733 47.619 0.00 0.00 34.68 3.56
112 113 5.734855 CAATGCGTGCTTTATTAGTAGGT 57.265 39.130 0.00 0.00 0.00 3.08
113 114 6.838198 CAATGCGTGCTTTATTAGTAGGTA 57.162 37.500 0.00 0.00 0.00 3.08
114 115 7.241663 CAATGCGTGCTTTATTAGTAGGTAA 57.758 36.000 0.00 0.00 0.00 2.85
115 116 7.690228 CAATGCGTGCTTTATTAGTAGGTAAA 58.310 34.615 0.00 0.00 0.00 2.01
116 117 6.897259 TGCGTGCTTTATTAGTAGGTAAAG 57.103 37.500 10.51 10.51 39.66 1.85
117 118 6.632909 TGCGTGCTTTATTAGTAGGTAAAGA 58.367 36.000 15.74 4.58 39.24 2.52
118 119 7.270047 TGCGTGCTTTATTAGTAGGTAAAGAT 58.730 34.615 15.74 0.00 39.24 2.40
119 120 8.415553 TGCGTGCTTTATTAGTAGGTAAAGATA 58.584 33.333 15.74 6.16 39.24 1.98
120 121 9.420551 GCGTGCTTTATTAGTAGGTAAAGATAT 57.579 33.333 15.74 0.00 39.24 1.63
168 169 8.870075 AAATCATCTCTTAACTAAAAGGCAGT 57.130 30.769 0.00 0.00 0.00 4.40
174 175 7.088905 TCTCTTAACTAAAAGGCAGTACGAAG 58.911 38.462 0.00 0.00 0.00 3.79
181 182 1.739067 AGGCAGTACGAAGGCATTTC 58.261 50.000 11.00 0.00 0.00 2.17
194 195 1.616872 GCATTTCGCCGCCTGTTTTG 61.617 55.000 0.00 0.00 32.94 2.44
198 199 0.818445 TTCGCCGCCTGTTTTGGTTA 60.818 50.000 0.00 0.00 0.00 2.85
203 204 1.598430 CCGCCTGTTTTGGTTACAACG 60.598 52.381 0.00 0.00 36.06 4.10
206 207 1.331138 CCTGTTTTGGTTACAACGCGA 59.669 47.619 15.93 0.00 36.06 5.87
214 215 4.587211 TGGTTACAACGCGATATCAAAC 57.413 40.909 15.93 9.07 0.00 2.93
217 218 4.026310 GGTTACAACGCGATATCAAACGAT 60.026 41.667 15.93 2.59 0.00 3.73
218 219 3.569304 ACAACGCGATATCAAACGATG 57.431 42.857 15.93 14.45 0.00 3.84
224 225 4.136678 CGCGATATCAAACGATGACAATG 58.863 43.478 0.00 0.00 41.93 2.82
247 249 2.791004 CTGCTCGTTTTTGCCTCAAAAG 59.209 45.455 5.11 0.00 42.91 2.27
250 252 4.142359 TGCTCGTTTTTGCCTCAAAAGTTA 60.142 37.500 5.11 0.00 42.91 2.24
259 261 6.560253 TTGCCTCAAAAGTTACATCTTCTC 57.440 37.500 0.00 0.00 0.00 2.87
261 263 6.240894 TGCCTCAAAAGTTACATCTTCTCAT 58.759 36.000 0.00 0.00 0.00 2.90
293 295 6.984474 CCATGCTTATCTGAAGAAAATGCAAT 59.016 34.615 0.00 0.00 32.31 3.56
303 305 2.163010 AGAAAATGCAATGCGTCTCTGG 59.837 45.455 0.00 0.00 0.00 3.86
306 308 0.538584 ATGCAATGCGTCTCTGGAGA 59.461 50.000 0.00 0.00 34.56 3.71
311 313 2.376808 ATGCGTCTCTGGAGAAACTG 57.623 50.000 1.56 0.00 39.48 3.16
384 386 5.086104 TCTAGGTTTTCTGAGTATGCCAC 57.914 43.478 0.00 0.00 0.00 5.01
394 396 5.601662 TCTGAGTATGCCACATTTAGTAGC 58.398 41.667 0.00 0.00 35.27 3.58
400 402 3.334691 TGCCACATTTAGTAGCTGACAC 58.665 45.455 0.00 0.00 35.75 3.67
405 3653 5.163723 CCACATTTAGTAGCTGACACCATTG 60.164 44.000 0.00 0.00 0.00 2.82
437 3685 5.964958 TTGACACCTCAAGATCCATTTTC 57.035 39.130 0.00 0.00 32.33 2.29
491 3770 0.740737 GGAATCCGCATCCCAAACTG 59.259 55.000 0.00 0.00 0.00 3.16
542 3822 0.948623 TGTTTGACTCATCACCCGCG 60.949 55.000 0.00 0.00 33.38 6.46
557 3837 0.317603 CCGCGATTACCGACGAAGAT 60.318 55.000 8.23 0.00 41.76 2.40
578 3862 2.158652 TCCCGAAAATAACACCACACCA 60.159 45.455 0.00 0.00 0.00 4.17
594 3878 3.831911 CACACCACCCATTTTATCCACTT 59.168 43.478 0.00 0.00 0.00 3.16
606 3890 1.424638 ATCCACTTCCACCCTATCCG 58.575 55.000 0.00 0.00 0.00 4.18
735 4034 2.316792 CAAATATCTCGCCTACGTCCG 58.683 52.381 0.00 0.00 41.18 4.79
802 4101 3.149981 CTCCCTCCAACAAAGAAGGAAC 58.850 50.000 0.00 0.00 0.00 3.62
805 4104 3.412386 CCTCCAACAAAGAAGGAACGAT 58.588 45.455 0.00 0.00 0.00 3.73
807 4106 3.408634 TCCAACAAAGAAGGAACGATCC 58.591 45.455 2.97 2.97 46.98 3.36
815 4114 3.195698 GGAACGATCCACTGCGCC 61.196 66.667 4.18 0.00 45.79 6.53
846 4163 3.239253 ACACACCCCTCGACACCC 61.239 66.667 0.00 0.00 0.00 4.61
857 4174 3.528532 CCTCGACACCCAAGGTAATAAC 58.471 50.000 0.00 0.00 32.11 1.89
911 4247 0.371645 CGCGAGGCAAGAACAGATTC 59.628 55.000 0.00 0.00 34.78 2.52
921 4257 1.827969 AGAACAGATTCACCGGAGGAG 59.172 52.381 9.46 0.00 44.67 3.69
1293 4645 3.322254 CCTTCGGCACAGGTATCTTATCT 59.678 47.826 0.00 0.00 0.00 1.98
1294 4646 4.523173 CCTTCGGCACAGGTATCTTATCTA 59.477 45.833 0.00 0.00 0.00 1.98
1295 4647 5.449107 TTCGGCACAGGTATCTTATCTAC 57.551 43.478 0.00 0.00 0.00 2.59
1296 4648 3.825014 TCGGCACAGGTATCTTATCTACC 59.175 47.826 0.00 0.00 39.18 3.18
1314 4666 2.627933 ACCTACACCTTTGCCTCCTAA 58.372 47.619 0.00 0.00 0.00 2.69
1356 4708 4.760047 GAGGCCGGCGTGATGTGT 62.760 66.667 28.98 0.00 0.00 3.72
1357 4709 4.329545 AGGCCGGCGTGATGTGTT 62.330 61.111 22.97 0.00 0.00 3.32
1358 4710 4.101790 GGCCGGCGTGATGTGTTG 62.102 66.667 22.54 0.00 0.00 3.33
1374 4726 0.665369 GTTGTGGCTGACATGCTTGC 60.665 55.000 0.00 0.00 33.40 4.01
1375 4727 0.824595 TTGTGGCTGACATGCTTGCT 60.825 50.000 0.00 0.00 33.40 3.91
1376 4728 0.824595 TGTGGCTGACATGCTTGCTT 60.825 50.000 0.00 0.00 0.00 3.91
1382 4734 0.319211 TGACATGCTTGCTTGCTTGC 60.319 50.000 13.93 9.39 40.39 4.01
1398 4750 4.415501 GCGACTGCAGCAACGACG 62.416 66.667 24.96 16.78 42.15 5.12
1416 4768 3.086600 CCCAGGGGAGAGAGTGGC 61.087 72.222 0.00 0.00 37.50 5.01
1422 4774 2.730524 GGGAGAGAGTGGCTGGAGC 61.731 68.421 0.00 0.00 41.14 4.70
1473 4825 2.659610 GGCATAGAGGCTAGCCCG 59.340 66.667 30.42 14.44 41.25 6.13
1543 4895 3.118000 AGTTCAAACCGAATATCCCCTCC 60.118 47.826 0.00 0.00 35.63 4.30
1550 4902 4.042174 ACCGAATATCCCCTCCTGTTTTA 58.958 43.478 0.00 0.00 0.00 1.52
1551 4903 4.475747 ACCGAATATCCCCTCCTGTTTTAA 59.524 41.667 0.00 0.00 0.00 1.52
1604 4956 2.771943 TCCAACCACCATGACTCTATCC 59.228 50.000 0.00 0.00 0.00 2.59
1620 4976 6.242396 ACTCTATCCAGTACAGTAGCCATAG 58.758 44.000 0.00 0.00 0.00 2.23
1670 5026 1.021390 GGGTGGTGATCAGTTCGCTG 61.021 60.000 0.00 0.00 46.29 5.18
1689 5048 0.514255 GGACCGCTAACCGTGAAAAC 59.486 55.000 0.00 0.00 34.38 2.43
1696 5055 2.661979 GCTAACCGTGAAAACAGAAGCG 60.662 50.000 0.00 0.00 0.00 4.68
1730 5089 1.630244 GAGAAGCGCACGAGCACAAT 61.630 55.000 11.47 0.00 42.27 2.71
1761 5120 3.531538 TGCAAACTATGACCGGAAGATC 58.468 45.455 9.46 0.00 0.00 2.75
1773 5132 1.685148 GGAAGATCATGGAACCCTGC 58.315 55.000 0.00 0.00 0.00 4.85
1858 5218 1.188219 ACTCCACGTGAGATGGTGCT 61.188 55.000 19.30 0.00 44.42 4.40
1871 5231 2.088950 TGGTGCTAGTTTTCGTAGCC 57.911 50.000 0.00 0.00 42.00 3.93
1882 5242 0.392461 TTCGTAGCCAAGGATGTGCC 60.392 55.000 0.00 0.00 0.00 5.01
1883 5243 1.078497 CGTAGCCAAGGATGTGCCA 60.078 57.895 0.00 0.00 40.02 4.92
1884 5244 1.369091 CGTAGCCAAGGATGTGCCAC 61.369 60.000 0.00 0.00 40.02 5.01
1885 5245 1.032114 GTAGCCAAGGATGTGCCACC 61.032 60.000 0.00 0.00 40.02 4.61
1886 5246 2.535485 TAGCCAAGGATGTGCCACCG 62.535 60.000 0.00 0.00 40.02 4.94
1887 5247 2.034066 CCAAGGATGTGCCACCGT 59.966 61.111 0.00 0.00 40.02 4.83
1888 5248 2.334946 CCAAGGATGTGCCACCGTG 61.335 63.158 0.00 0.00 40.02 4.94
1895 5255 0.613260 ATGTGCCACCGTGTAGATGT 59.387 50.000 0.00 0.00 0.00 3.06
1896 5263 0.394938 TGTGCCACCGTGTAGATGTT 59.605 50.000 0.00 0.00 0.00 2.71
1899 5266 1.346395 TGCCACCGTGTAGATGTTTCT 59.654 47.619 0.00 0.00 35.90 2.52
1900 5267 2.563620 TGCCACCGTGTAGATGTTTCTA 59.436 45.455 0.00 0.00 33.17 2.10
1904 5271 4.863131 CCACCGTGTAGATGTTTCTAAGTC 59.137 45.833 0.00 0.00 36.23 3.01
1971 5339 1.227089 CTGAGGCGAATGAGACCGG 60.227 63.158 0.00 0.00 0.00 5.28
1979 5347 1.079503 GAATGAGACCGGTGTGAAGC 58.920 55.000 14.63 0.00 0.00 3.86
2021 5400 3.252554 AGGTGTAGATGAGAGGGGATC 57.747 52.381 0.00 0.00 0.00 3.36
2022 5401 2.158234 AGGTGTAGATGAGAGGGGATCC 60.158 54.545 1.92 1.92 0.00 3.36
2023 5402 2.252714 GTGTAGATGAGAGGGGATCCC 58.747 57.143 23.95 23.95 45.90 3.85
2085 5467 6.264832 TGCTAATGCATGCAGTGTAAAATAC 58.735 36.000 29.50 10.41 45.31 1.89
2122 5540 1.285078 GGCATCCTCCCTAGTTGGTTT 59.715 52.381 0.00 0.00 0.00 3.27
2123 5541 2.508300 GGCATCCTCCCTAGTTGGTTTA 59.492 50.000 0.00 0.00 0.00 2.01
2131 5549 5.395435 CCTCCCTAGTTGGTTTAGCTAGTTC 60.395 48.000 0.00 0.00 38.23 3.01
2248 5670 3.692406 GGACGGGCCTCTTGACGT 61.692 66.667 0.84 1.47 42.88 4.34
2266 5688 1.739067 GTTTTGACAGATCGGAGGGG 58.261 55.000 0.00 0.00 0.00 4.79
2275 5697 2.041206 GATCGGAGGGGGTACTTGCC 62.041 65.000 0.00 0.00 0.00 4.52
2288 5710 0.108804 ACTTGCCCGTGATACTGACG 60.109 55.000 0.00 0.00 36.56 4.35
2336 5758 5.574082 CCGACGAGAGCTAGGATATTTATG 58.426 45.833 0.00 0.00 0.00 1.90
2374 5796 2.035961 GGTGAAGGTTTTCAAGGAAGGC 59.964 50.000 0.00 0.00 44.49 4.35
2375 5797 2.035961 GTGAAGGTTTTCAAGGAAGGCC 59.964 50.000 0.00 0.00 44.49 5.19
2399 5821 1.251527 ATGACGGAGCCTGACGAGTT 61.252 55.000 0.00 0.00 0.00 3.01
2411 5834 2.679837 CTGACGAGTTTAATGCATGGCT 59.320 45.455 0.00 0.00 0.00 4.75
2412 5835 3.867857 TGACGAGTTTAATGCATGGCTA 58.132 40.909 0.00 0.00 0.00 3.93
2413 5836 4.257731 TGACGAGTTTAATGCATGGCTAA 58.742 39.130 0.00 0.00 0.00 3.09
2449 5872 4.088823 GCAGCATGGTCTTTCTAAACAG 57.911 45.455 0.00 0.00 35.86 3.16
2450 5873 3.503748 GCAGCATGGTCTTTCTAAACAGT 59.496 43.478 0.00 0.00 35.86 3.55
2451 5874 4.022849 GCAGCATGGTCTTTCTAAACAGTT 60.023 41.667 0.00 0.00 35.86 3.16
2452 5875 5.507985 GCAGCATGGTCTTTCTAAACAGTTT 60.508 40.000 3.49 3.49 35.86 2.66
2453 5876 5.916883 CAGCATGGTCTTTCTAAACAGTTTG 59.083 40.000 8.93 0.00 0.00 2.93
2454 5877 5.594317 AGCATGGTCTTTCTAAACAGTTTGT 59.406 36.000 8.93 0.00 0.00 2.83
2455 5878 5.915196 GCATGGTCTTTCTAAACAGTTTGTC 59.085 40.000 8.93 0.00 0.00 3.18
2456 5879 6.238759 GCATGGTCTTTCTAAACAGTTTGTCT 60.239 38.462 8.93 0.00 0.00 3.41
2457 5880 7.041372 GCATGGTCTTTCTAAACAGTTTGTCTA 60.041 37.037 8.93 0.00 0.00 2.59
2458 5881 8.499162 CATGGTCTTTCTAAACAGTTTGTCTAG 58.501 37.037 8.93 0.00 0.00 2.43
2459 5882 7.562135 TGGTCTTTCTAAACAGTTTGTCTAGT 58.438 34.615 8.93 0.00 0.00 2.57
2460 5883 8.044908 TGGTCTTTCTAAACAGTTTGTCTAGTT 58.955 33.333 8.93 0.00 0.00 2.24
2461 5884 8.549548 GGTCTTTCTAAACAGTTTGTCTAGTTC 58.450 37.037 8.93 1.21 0.00 3.01
2462 5885 9.095065 GTCTTTCTAAACAGTTTGTCTAGTTCA 57.905 33.333 8.93 0.00 0.00 3.18
2463 5886 9.095065 TCTTTCTAAACAGTTTGTCTAGTTCAC 57.905 33.333 8.93 0.00 0.00 3.18
2464 5887 7.459394 TTCTAAACAGTTTGTCTAGTTCACG 57.541 36.000 8.93 0.00 0.00 4.35
2465 5888 6.567050 TCTAAACAGTTTGTCTAGTTCACGT 58.433 36.000 8.93 0.00 0.00 4.49
2466 5889 7.037438 TCTAAACAGTTTGTCTAGTTCACGTT 58.963 34.615 8.93 0.00 0.00 3.99
2467 5890 5.713822 AACAGTTTGTCTAGTTCACGTTC 57.286 39.130 0.00 0.00 0.00 3.95
2468 5891 4.751060 ACAGTTTGTCTAGTTCACGTTCA 58.249 39.130 0.00 0.00 0.00 3.18
2469 5892 4.804139 ACAGTTTGTCTAGTTCACGTTCAG 59.196 41.667 0.00 0.00 0.00 3.02
2470 5893 5.041287 CAGTTTGTCTAGTTCACGTTCAGA 58.959 41.667 0.00 0.00 0.00 3.27
2471 5894 5.692204 CAGTTTGTCTAGTTCACGTTCAGAT 59.308 40.000 0.00 0.00 0.00 2.90
2472 5895 5.692204 AGTTTGTCTAGTTCACGTTCAGATG 59.308 40.000 0.00 0.00 0.00 2.90
2473 5896 4.848562 TGTCTAGTTCACGTTCAGATGT 57.151 40.909 0.00 0.00 0.00 3.06
2474 5897 5.196341 TGTCTAGTTCACGTTCAGATGTT 57.804 39.130 0.00 0.00 0.00 2.71
2475 5898 5.597806 TGTCTAGTTCACGTTCAGATGTTT 58.402 37.500 0.00 0.00 0.00 2.83
2476 5899 6.046593 TGTCTAGTTCACGTTCAGATGTTTT 58.953 36.000 0.00 0.00 0.00 2.43
2477 5900 6.537301 TGTCTAGTTCACGTTCAGATGTTTTT 59.463 34.615 0.00 0.00 0.00 1.94
2499 5922 8.736751 TTTTTAAGGATGTCGCATTTAAACTC 57.263 30.769 0.00 0.00 0.00 3.01
2500 5923 7.681939 TTTAAGGATGTCGCATTTAAACTCT 57.318 32.000 0.00 0.00 0.00 3.24
2501 5924 5.803020 AAGGATGTCGCATTTAAACTCTC 57.197 39.130 0.00 0.00 0.00 3.20
2502 5925 4.832248 AGGATGTCGCATTTAAACTCTCA 58.168 39.130 0.00 0.00 0.00 3.27
2503 5926 4.631813 AGGATGTCGCATTTAAACTCTCAC 59.368 41.667 0.00 0.00 0.00 3.51
2504 5927 4.391830 GGATGTCGCATTTAAACTCTCACA 59.608 41.667 0.00 0.00 0.00 3.58
2505 5928 5.106712 GGATGTCGCATTTAAACTCTCACAA 60.107 40.000 0.00 0.00 0.00 3.33
2506 5929 5.743026 TGTCGCATTTAAACTCTCACAAA 57.257 34.783 0.00 0.00 0.00 2.83
2507 5930 6.312399 TGTCGCATTTAAACTCTCACAAAT 57.688 33.333 0.00 0.00 0.00 2.32
2508 5931 7.428282 TGTCGCATTTAAACTCTCACAAATA 57.572 32.000 0.00 0.00 0.00 1.40
2509 5932 8.039603 TGTCGCATTTAAACTCTCACAAATAT 57.960 30.769 0.00 0.00 0.00 1.28
2510 5933 9.157104 TGTCGCATTTAAACTCTCACAAATATA 57.843 29.630 0.00 0.00 0.00 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 9.590451 CAACCCACGATACTACTTTTTATAGAA 57.410 33.333 0.00 0.00 0.00 2.10
6 7 8.970020 TCAACCCACGATACTACTTTTTATAGA 58.030 33.333 0.00 0.00 0.00 1.98
7 8 9.590451 TTCAACCCACGATACTACTTTTTATAG 57.410 33.333 0.00 0.00 0.00 1.31
10 11 9.941325 TTATTCAACCCACGATACTACTTTTTA 57.059 29.630 0.00 0.00 0.00 1.52
11 12 8.851541 TTATTCAACCCACGATACTACTTTTT 57.148 30.769 0.00 0.00 0.00 1.94
12 13 8.851541 TTTATTCAACCCACGATACTACTTTT 57.148 30.769 0.00 0.00 0.00 2.27
13 14 8.851541 TTTTATTCAACCCACGATACTACTTT 57.148 30.769 0.00 0.00 0.00 2.66
14 15 8.851541 TTTTTATTCAACCCACGATACTACTT 57.148 30.769 0.00 0.00 0.00 2.24
42 43 6.572167 AATTTTGCATAAAAACCCATGTGG 57.428 33.333 0.00 0.00 40.51 4.17
43 44 7.095439 ACGTAATTTTGCATAAAAACCCATGTG 60.095 33.333 0.00 0.00 40.51 3.21
44 45 6.931840 ACGTAATTTTGCATAAAAACCCATGT 59.068 30.769 0.00 0.00 40.51 3.21
45 46 7.116948 TCACGTAATTTTGCATAAAAACCCATG 59.883 33.333 0.00 0.00 40.51 3.66
46 47 7.155328 TCACGTAATTTTGCATAAAAACCCAT 58.845 30.769 0.00 0.00 40.51 4.00
47 48 6.513180 TCACGTAATTTTGCATAAAAACCCA 58.487 32.000 0.00 0.00 40.51 4.51
48 49 7.329717 TCATCACGTAATTTTGCATAAAAACCC 59.670 33.333 0.00 0.00 40.51 4.11
49 50 8.233692 TCATCACGTAATTTTGCATAAAAACC 57.766 30.769 0.00 0.00 40.51 3.27
50 51 9.674208 CATCATCACGTAATTTTGCATAAAAAC 57.326 29.630 0.00 0.00 40.51 2.43
51 52 9.631452 TCATCATCACGTAATTTTGCATAAAAA 57.369 25.926 0.00 0.00 41.88 1.94
52 53 9.631452 TTCATCATCACGTAATTTTGCATAAAA 57.369 25.926 0.00 0.00 39.86 1.52
53 54 9.071221 GTTCATCATCACGTAATTTTGCATAAA 57.929 29.630 0.00 0.00 0.00 1.40
54 55 8.458052 AGTTCATCATCACGTAATTTTGCATAA 58.542 29.630 0.00 0.00 0.00 1.90
55 56 7.984391 AGTTCATCATCACGTAATTTTGCATA 58.016 30.769 0.00 0.00 0.00 3.14
56 57 6.855836 AGTTCATCATCACGTAATTTTGCAT 58.144 32.000 0.00 0.00 0.00 3.96
57 58 6.252967 AGTTCATCATCACGTAATTTTGCA 57.747 33.333 0.00 0.00 0.00 4.08
58 59 6.801377 TCAAGTTCATCATCACGTAATTTTGC 59.199 34.615 0.00 0.00 0.00 3.68
59 60 7.006476 CGTCAAGTTCATCATCACGTAATTTTG 59.994 37.037 0.00 0.00 0.00 2.44
60 61 7.015289 CGTCAAGTTCATCATCACGTAATTTT 58.985 34.615 0.00 0.00 0.00 1.82
61 62 6.402118 CCGTCAAGTTCATCATCACGTAATTT 60.402 38.462 0.00 0.00 0.00 1.82
62 63 5.063438 CCGTCAAGTTCATCATCACGTAATT 59.937 40.000 0.00 0.00 0.00 1.40
63 64 4.566759 CCGTCAAGTTCATCATCACGTAAT 59.433 41.667 0.00 0.00 0.00 1.89
64 65 3.924073 CCGTCAAGTTCATCATCACGTAA 59.076 43.478 0.00 0.00 0.00 3.18
65 66 3.191791 TCCGTCAAGTTCATCATCACGTA 59.808 43.478 0.00 0.00 0.00 3.57
66 67 2.029380 TCCGTCAAGTTCATCATCACGT 60.029 45.455 0.00 0.00 0.00 4.49
67 68 2.606108 TCCGTCAAGTTCATCATCACG 58.394 47.619 0.00 0.00 0.00 4.35
68 69 3.181516 GCTTCCGTCAAGTTCATCATCAC 60.182 47.826 0.00 0.00 34.13 3.06
69 70 3.002791 GCTTCCGTCAAGTTCATCATCA 58.997 45.455 0.00 0.00 34.13 3.07
70 71 3.002791 TGCTTCCGTCAAGTTCATCATC 58.997 45.455 0.00 0.00 34.13 2.92
71 72 3.057969 TGCTTCCGTCAAGTTCATCAT 57.942 42.857 0.00 0.00 34.13 2.45
72 73 2.542020 TGCTTCCGTCAAGTTCATCA 57.458 45.000 0.00 0.00 34.13 3.07
73 74 3.751621 CATTGCTTCCGTCAAGTTCATC 58.248 45.455 0.00 0.00 34.13 2.92
74 75 2.095059 GCATTGCTTCCGTCAAGTTCAT 60.095 45.455 0.16 0.00 34.13 2.57
75 76 1.266718 GCATTGCTTCCGTCAAGTTCA 59.733 47.619 0.16 0.00 34.13 3.18
76 77 1.725931 CGCATTGCTTCCGTCAAGTTC 60.726 52.381 7.12 0.00 34.13 3.01
77 78 0.238289 CGCATTGCTTCCGTCAAGTT 59.762 50.000 7.12 0.00 34.13 2.66
78 79 0.884704 ACGCATTGCTTCCGTCAAGT 60.885 50.000 7.12 0.00 34.13 3.16
79 80 0.453282 CACGCATTGCTTCCGTCAAG 60.453 55.000 7.12 0.00 32.18 3.02
80 81 1.573932 CACGCATTGCTTCCGTCAA 59.426 52.632 7.12 0.00 32.18 3.18
81 82 3.252964 CACGCATTGCTTCCGTCA 58.747 55.556 7.12 0.00 32.18 4.35
90 91 5.734855 ACCTACTAATAAAGCACGCATTG 57.265 39.130 0.00 0.00 0.00 2.82
91 92 7.767198 TCTTTACCTACTAATAAAGCACGCATT 59.233 33.333 0.00 0.00 37.99 3.56
92 93 7.270047 TCTTTACCTACTAATAAAGCACGCAT 58.730 34.615 0.00 0.00 37.99 4.73
93 94 6.632909 TCTTTACCTACTAATAAAGCACGCA 58.367 36.000 0.00 0.00 37.99 5.24
94 95 7.710766 ATCTTTACCTACTAATAAAGCACGC 57.289 36.000 0.00 0.00 37.99 5.34
142 143 9.301897 ACTGCCTTTTAGTTAAGAGATGATTTT 57.698 29.630 0.00 0.00 0.00 1.82
143 144 8.870075 ACTGCCTTTTAGTTAAGAGATGATTT 57.130 30.769 0.00 0.00 0.00 2.17
144 145 9.384764 GTACTGCCTTTTAGTTAAGAGATGATT 57.615 33.333 0.00 0.00 0.00 2.57
145 146 7.707035 CGTACTGCCTTTTAGTTAAGAGATGAT 59.293 37.037 0.00 0.00 0.00 2.45
146 147 7.033791 CGTACTGCCTTTTAGTTAAGAGATGA 58.966 38.462 0.00 0.00 0.00 2.92
147 148 7.033791 TCGTACTGCCTTTTAGTTAAGAGATG 58.966 38.462 0.00 0.00 0.00 2.90
148 149 7.166691 TCGTACTGCCTTTTAGTTAAGAGAT 57.833 36.000 0.00 0.00 0.00 2.75
149 150 6.579666 TCGTACTGCCTTTTAGTTAAGAGA 57.420 37.500 0.00 0.00 0.00 3.10
150 151 6.310711 CCTTCGTACTGCCTTTTAGTTAAGAG 59.689 42.308 0.00 0.00 0.00 2.85
151 152 6.161381 CCTTCGTACTGCCTTTTAGTTAAGA 58.839 40.000 0.00 0.00 0.00 2.10
152 153 5.163884 GCCTTCGTACTGCCTTTTAGTTAAG 60.164 44.000 0.00 0.00 0.00 1.85
153 154 4.692155 GCCTTCGTACTGCCTTTTAGTTAA 59.308 41.667 0.00 0.00 0.00 2.01
154 155 4.248058 GCCTTCGTACTGCCTTTTAGTTA 58.752 43.478 0.00 0.00 0.00 2.24
155 156 3.072211 GCCTTCGTACTGCCTTTTAGTT 58.928 45.455 0.00 0.00 0.00 2.24
156 157 2.038033 TGCCTTCGTACTGCCTTTTAGT 59.962 45.455 0.00 0.00 0.00 2.24
157 158 2.695359 TGCCTTCGTACTGCCTTTTAG 58.305 47.619 0.00 0.00 0.00 1.85
158 159 2.843401 TGCCTTCGTACTGCCTTTTA 57.157 45.000 0.00 0.00 0.00 1.52
159 160 2.200373 ATGCCTTCGTACTGCCTTTT 57.800 45.000 0.00 0.00 0.00 2.27
160 161 2.200373 AATGCCTTCGTACTGCCTTT 57.800 45.000 0.00 0.00 0.00 3.11
161 162 2.084546 GAAATGCCTTCGTACTGCCTT 58.915 47.619 0.00 0.00 0.00 4.35
162 163 1.739067 GAAATGCCTTCGTACTGCCT 58.261 50.000 0.00 0.00 0.00 4.75
181 182 1.081708 GTAACCAAAACAGGCGGCG 60.082 57.895 0.51 0.51 0.00 6.46
188 189 4.451435 TGATATCGCGTTGTAACCAAAACA 59.549 37.500 5.77 0.00 30.94 2.83
194 195 3.304026 TCGTTTGATATCGCGTTGTAACC 59.696 43.478 5.77 0.00 0.00 2.85
198 199 3.000078 GTCATCGTTTGATATCGCGTTGT 60.000 43.478 5.77 0.00 36.54 3.32
203 204 5.050769 AGACATTGTCATCGTTTGATATCGC 60.051 40.000 18.57 0.00 36.54 4.58
206 207 5.819379 AGCAGACATTGTCATCGTTTGATAT 59.181 36.000 18.57 0.00 36.54 1.63
214 215 1.633561 ACGAGCAGACATTGTCATCG 58.366 50.000 24.86 24.86 39.40 3.84
217 218 3.791789 GCAAAAACGAGCAGACATTGTCA 60.792 43.478 18.57 0.00 34.60 3.58
218 219 2.721090 GCAAAAACGAGCAGACATTGTC 59.279 45.455 8.82 8.82 0.00 3.18
224 225 0.944386 TGAGGCAAAAACGAGCAGAC 59.056 50.000 0.00 0.00 0.00 3.51
247 249 5.118990 TGGCAGCTTATGAGAAGATGTAAC 58.881 41.667 6.94 0.00 36.17 2.50
250 252 3.920231 TGGCAGCTTATGAGAAGATGT 57.080 42.857 6.94 0.00 36.17 3.06
276 278 4.157289 AGACGCATTGCATTTTCTTCAGAT 59.843 37.500 9.69 0.00 0.00 2.90
293 295 0.319900 GCAGTTTCTCCAGAGACGCA 60.320 55.000 0.00 0.00 37.14 5.24
303 305 5.495502 CAACATTTTTGCTTGCAGTTTCTC 58.504 37.500 0.00 0.00 0.00 2.87
306 308 3.181498 GGCAACATTTTTGCTTGCAGTTT 60.181 39.130 7.41 0.00 44.36 2.66
357 359 7.669722 TGGCATACTCAGAAAACCTAGAAAAAT 59.330 33.333 0.00 0.00 0.00 1.82
358 360 7.001674 TGGCATACTCAGAAAACCTAGAAAAA 58.998 34.615 0.00 0.00 0.00 1.94
363 365 4.832248 TGTGGCATACTCAGAAAACCTAG 58.168 43.478 0.00 0.00 0.00 3.02
381 383 3.937814 TGGTGTCAGCTACTAAATGTGG 58.062 45.455 3.30 0.00 0.00 4.17
384 386 6.593770 TGTACAATGGTGTCAGCTACTAAATG 59.406 38.462 3.30 0.00 39.30 2.32
394 396 3.942829 AGGACATGTACAATGGTGTCAG 58.057 45.455 22.41 0.73 42.00 3.51
400 402 3.440173 GGTGTCAAGGACATGTACAATGG 59.560 47.826 11.55 0.00 44.63 3.16
405 3653 3.678056 TGAGGTGTCAAGGACATGTAC 57.322 47.619 0.00 0.00 44.63 2.90
437 3685 0.670546 ACTGAATCGGCTCAACGTGG 60.671 55.000 0.00 0.00 34.94 4.94
491 3770 8.788325 ATAGGGTTGTTATATCGGATAAAAGC 57.212 34.615 1.16 4.75 0.00 3.51
542 3822 1.605710 TCGGGATCTTCGTCGGTAATC 59.394 52.381 8.38 0.00 0.00 1.75
557 3837 2.158652 TGGTGTGGTGTTATTTTCGGGA 60.159 45.455 0.00 0.00 0.00 5.14
578 3862 3.565670 GGGTGGAAGTGGATAAAATGGGT 60.566 47.826 0.00 0.00 0.00 4.51
594 3878 2.852714 TAGGAAACGGATAGGGTGGA 57.147 50.000 0.00 0.00 0.00 4.02
606 3890 2.353323 AGCCGTCCGAAATTAGGAAAC 58.647 47.619 0.00 0.00 39.84 2.78
825 4142 2.665185 GTCGAGGGGTGTGTGTGC 60.665 66.667 0.00 0.00 0.00 4.57
846 4163 4.137543 GGATGGAGCTGGTTATTACCTTG 58.862 47.826 2.04 0.00 45.27 3.61
857 4174 3.174265 GGGAGGGGATGGAGCTGG 61.174 72.222 0.00 0.00 0.00 4.85
911 4247 1.112315 CCTCATCTCCTCCTCCGGTG 61.112 65.000 0.00 0.00 0.00 4.94
921 4257 6.944096 TCATACAATCATCATCCTCATCTCC 58.056 40.000 0.00 0.00 0.00 3.71
924 4260 6.648310 ACGTTCATACAATCATCATCCTCATC 59.352 38.462 0.00 0.00 0.00 2.92
925 4261 6.426025 CACGTTCATACAATCATCATCCTCAT 59.574 38.462 0.00 0.00 0.00 2.90
926 4262 5.754890 CACGTTCATACAATCATCATCCTCA 59.245 40.000 0.00 0.00 0.00 3.86
1293 4645 2.337359 AGGAGGCAAAGGTGTAGGTA 57.663 50.000 0.00 0.00 0.00 3.08
1294 4646 2.337359 TAGGAGGCAAAGGTGTAGGT 57.663 50.000 0.00 0.00 0.00 3.08
1295 4647 3.933861 ATTAGGAGGCAAAGGTGTAGG 57.066 47.619 0.00 0.00 0.00 3.18
1296 4648 6.590234 AAAAATTAGGAGGCAAAGGTGTAG 57.410 37.500 0.00 0.00 0.00 2.74
1320 4672 6.347888 CGGCCTCGAATGTAAAGTTAAGAAAA 60.348 38.462 0.00 0.00 39.00 2.29
1322 4674 4.628333 CGGCCTCGAATGTAAAGTTAAGAA 59.372 41.667 0.00 0.00 39.00 2.52
1325 4677 3.264104 CCGGCCTCGAATGTAAAGTTAA 58.736 45.455 0.00 0.00 39.00 2.01
1328 4680 0.743345 GCCGGCCTCGAATGTAAAGT 60.743 55.000 18.11 0.00 39.00 2.66
1329 4681 1.762222 CGCCGGCCTCGAATGTAAAG 61.762 60.000 23.46 0.00 39.00 1.85
1330 4682 1.812093 CGCCGGCCTCGAATGTAAA 60.812 57.895 23.46 0.00 39.00 2.01
1331 4683 2.202824 CGCCGGCCTCGAATGTAA 60.203 61.111 23.46 0.00 39.00 2.41
1332 4684 3.454573 ACGCCGGCCTCGAATGTA 61.455 61.111 23.46 0.00 39.00 2.29
1334 4686 4.812476 TCACGCCGGCCTCGAATG 62.812 66.667 23.46 7.36 39.00 2.67
1335 4687 3.849951 ATCACGCCGGCCTCGAAT 61.850 61.111 23.46 4.64 39.00 3.34
1336 4688 4.812476 CATCACGCCGGCCTCGAA 62.812 66.667 23.46 2.00 39.00 3.71
1354 4706 0.669619 CAAGCATGTCAGCCACAACA 59.330 50.000 0.00 0.00 38.97 3.33
1355 4707 0.665369 GCAAGCATGTCAGCCACAAC 60.665 55.000 0.00 0.00 38.97 3.32
1356 4708 0.824595 AGCAAGCATGTCAGCCACAA 60.825 50.000 0.00 0.00 38.97 3.33
1357 4709 0.824595 AAGCAAGCATGTCAGCCACA 60.825 50.000 0.00 0.00 40.18 4.17
1358 4710 0.388134 CAAGCAAGCATGTCAGCCAC 60.388 55.000 0.00 0.00 34.23 5.01
1382 4734 4.415501 GCGTCGTTGCTGCAGTCG 62.416 66.667 16.64 16.98 0.00 4.18
1398 4750 3.086600 CCACTCTCTCCCCTGGGC 61.087 72.222 7.39 0.00 34.68 5.36
1543 4895 4.930963 TGATGTGGTGCACTTTAAAACAG 58.069 39.130 17.98 0.00 35.11 3.16
1550 4902 2.297033 GGTTCATGATGTGGTGCACTTT 59.703 45.455 17.98 0.00 35.11 2.66
1551 4903 1.888512 GGTTCATGATGTGGTGCACTT 59.111 47.619 17.98 0.00 35.11 3.16
1604 4956 6.619744 CATCAGATCTATGGCTACTGTACTG 58.380 44.000 0.00 0.00 0.00 2.74
1620 4976 1.137872 ACGGTTCAGAGGCATCAGATC 59.862 52.381 0.00 0.00 0.00 2.75
1670 5026 0.514255 GTTTTCACGGTTAGCGGTCC 59.486 55.000 9.04 0.00 0.00 4.46
1689 5048 0.250234 TCTTGGTGGATCCGCTTCTG 59.750 55.000 24.15 12.28 39.52 3.02
1696 5055 0.902531 TTCTCCGTCTTGGTGGATCC 59.097 55.000 4.20 4.20 39.52 3.36
1730 5089 4.382040 GGTCATAGTTTGCAGCTACTCTCA 60.382 45.833 4.28 0.00 0.00 3.27
1761 5120 1.570857 TACTGGGGCAGGGTTCCATG 61.571 60.000 0.00 0.00 35.51 3.66
1773 5132 7.540474 ACTGATACAGTAACATATACTGGGG 57.460 40.000 17.22 7.07 46.70 4.96
1858 5218 4.250464 CACATCCTTGGCTACGAAAACTA 58.750 43.478 0.00 0.00 0.00 2.24
1871 5231 0.321210 TACACGGTGGCACATCCTTG 60.321 55.000 20.82 8.71 44.52 3.61
1882 5242 4.557690 CGACTTAGAAACATCTACACGGTG 59.442 45.833 6.58 6.58 0.00 4.94
1883 5243 4.217118 ACGACTTAGAAACATCTACACGGT 59.783 41.667 0.00 0.00 0.00 4.83
1884 5244 4.730657 ACGACTTAGAAACATCTACACGG 58.269 43.478 0.00 0.00 0.00 4.94
1885 5245 5.451662 GCTACGACTTAGAAACATCTACACG 59.548 44.000 0.00 0.00 0.00 4.49
1886 5246 6.553524 AGCTACGACTTAGAAACATCTACAC 58.446 40.000 0.00 0.00 0.00 2.90
1887 5247 6.373495 TGAGCTACGACTTAGAAACATCTACA 59.627 38.462 0.00 0.00 0.00 2.74
1888 5248 6.783162 TGAGCTACGACTTAGAAACATCTAC 58.217 40.000 0.00 0.00 0.00 2.59
1895 5255 5.717078 TTCCTTGAGCTACGACTTAGAAA 57.283 39.130 0.00 0.00 0.00 2.52
1896 5263 5.717078 TTTCCTTGAGCTACGACTTAGAA 57.283 39.130 0.00 0.00 0.00 2.10
1899 5266 5.464030 AGTTTTCCTTGAGCTACGACTTA 57.536 39.130 0.00 0.00 0.00 2.24
1900 5267 4.338379 AGTTTTCCTTGAGCTACGACTT 57.662 40.909 0.00 0.00 0.00 3.01
1971 5339 3.541711 GATTTACACACACGCTTCACAC 58.458 45.455 0.00 0.00 0.00 3.82
1979 5347 3.921677 ACTGGTAGGATTTACACACACG 58.078 45.455 0.00 0.00 0.00 4.49
2003 5379 2.252714 GGGATCCCCTCTCATCTACAC 58.747 57.143 21.42 0.00 41.34 2.90
2029 5408 1.308783 GGGCCTTGTACAGAGCAAGC 61.309 60.000 17.77 6.84 41.27 4.01
2030 5409 1.021390 CGGGCCTTGTACAGAGCAAG 61.021 60.000 17.77 9.17 42.00 4.01
2031 5410 1.003839 CGGGCCTTGTACAGAGCAA 60.004 57.895 17.77 0.00 0.00 3.91
2085 5467 2.635714 TGCCTGACATATTGCAGACAG 58.364 47.619 0.00 0.00 34.06 3.51
2122 5540 4.261801 GGTGCCATTTCTTGAACTAGCTA 58.738 43.478 0.00 0.00 0.00 3.32
2123 5541 3.084786 GGTGCCATTTCTTGAACTAGCT 58.915 45.455 0.00 0.00 0.00 3.32
2131 5549 7.852971 ATCAAATTATTGGTGCCATTTCTTG 57.147 32.000 0.00 0.00 37.15 3.02
2248 5670 0.618458 CCCCCTCCGATCTGTCAAAA 59.382 55.000 0.00 0.00 0.00 2.44
2266 5688 1.479323 TCAGTATCACGGGCAAGTACC 59.521 52.381 0.00 0.00 0.00 3.34
2300 5722 2.480555 GTCGGCAAATGAGGTGCG 59.519 61.111 0.00 0.00 43.18 5.34
2374 5796 3.461773 AGGCTCCGTCATGACCGG 61.462 66.667 20.03 21.69 46.83 5.28
2375 5797 2.202797 CAGGCTCCGTCATGACCG 60.203 66.667 20.03 13.74 0.00 4.79
2390 5812 2.679837 AGCCATGCATTAAACTCGTCAG 59.320 45.455 0.00 0.00 0.00 3.51
2411 5834 3.454447 TGCTGCTGAACTAGGCCTTATTA 59.546 43.478 12.58 0.00 0.00 0.98
2412 5835 2.239654 TGCTGCTGAACTAGGCCTTATT 59.760 45.455 12.58 5.56 0.00 1.40
2413 5836 1.839994 TGCTGCTGAACTAGGCCTTAT 59.160 47.619 12.58 0.00 0.00 1.73
2447 5870 5.041287 TCTGAACGTGAACTAGACAAACTG 58.959 41.667 0.00 0.00 0.00 3.16
2448 5871 5.258456 TCTGAACGTGAACTAGACAAACT 57.742 39.130 0.00 0.00 0.00 2.66
2449 5872 5.462398 ACATCTGAACGTGAACTAGACAAAC 59.538 40.000 0.00 0.00 0.00 2.93
2450 5873 5.597806 ACATCTGAACGTGAACTAGACAAA 58.402 37.500 0.00 0.00 0.00 2.83
2451 5874 5.196341 ACATCTGAACGTGAACTAGACAA 57.804 39.130 0.00 0.00 0.00 3.18
2452 5875 4.848562 ACATCTGAACGTGAACTAGACA 57.151 40.909 0.00 0.00 0.00 3.41
2453 5876 6.526566 AAAACATCTGAACGTGAACTAGAC 57.473 37.500 0.00 0.00 0.00 2.59
2474 5897 8.573035 AGAGTTTAAATGCGACATCCTTAAAAA 58.427 29.630 0.00 0.00 0.00 1.94
2475 5898 8.106247 AGAGTTTAAATGCGACATCCTTAAAA 57.894 30.769 0.00 0.00 0.00 1.52
2476 5899 7.389330 TGAGAGTTTAAATGCGACATCCTTAAA 59.611 33.333 0.00 0.00 0.00 1.52
2477 5900 6.876789 TGAGAGTTTAAATGCGACATCCTTAA 59.123 34.615 0.00 0.00 0.00 1.85
2478 5901 6.312918 GTGAGAGTTTAAATGCGACATCCTTA 59.687 38.462 0.00 0.00 0.00 2.69
2479 5902 5.122396 GTGAGAGTTTAAATGCGACATCCTT 59.878 40.000 0.00 0.00 0.00 3.36
2480 5903 4.631813 GTGAGAGTTTAAATGCGACATCCT 59.368 41.667 0.00 0.00 0.00 3.24
2481 5904 4.391830 TGTGAGAGTTTAAATGCGACATCC 59.608 41.667 0.00 0.00 0.00 3.51
2482 5905 5.530519 TGTGAGAGTTTAAATGCGACATC 57.469 39.130 0.00 0.00 0.00 3.06
2483 5906 5.940192 TTGTGAGAGTTTAAATGCGACAT 57.060 34.783 0.00 0.00 0.00 3.06
2484 5907 5.743026 TTTGTGAGAGTTTAAATGCGACA 57.257 34.783 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.