Multiple sequence alignment - TraesCS6D01G289100

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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 TraesCS6D01G289100 chr6D 100.000 2333 0 0 1 2333 400078769 400076437 0.000000e+00 4309
1 TraesCS6D01G289100 chr6A 91.956 1554 66 30 399 1932 545830880 545829366 0.000000e+00 2122
2 TraesCS6D01G289100 chr6A 94.516 310 13 3 2028 2333 545829316 545829007 2.100000e-130 475
3 TraesCS6D01G289100 chr6B 89.586 1450 67 34 389 1798 599073451 599072046 0.000000e+00 1764
4 TraesCS6D01G289100 chr6B 83.628 904 69 38 470 1335 604597419 604598281 0.000000e+00 776
5 TraesCS6D01G289100 chr6B 81.646 474 36 26 1833 2270 599071942 599071484 1.720000e-91 346
6 TraesCS6D01G289100 chr6B 86.000 150 11 6 1472 1619 604598276 604598417 4.020000e-33 152
7 TraesCS6D01G289100 chr5D 95.479 376 15 2 9 383 510913722 510914096 1.190000e-167 599
8 TraesCS6D01G289100 chr5D 92.651 381 27 1 1 381 220670328 220670707 4.380000e-152 547
9 TraesCS6D01G289100 chr1D 93.750 384 23 1 10 393 28577057 28576675 2.010000e-160 575
10 TraesCS6D01G289100 chr1D 93.194 382 25 1 7 388 101869729 101869349 5.630000e-156 560
11 TraesCS6D01G289100 chr1D 84.750 400 34 19 996 1380 1836838 1836451 2.190000e-100 375
12 TraesCS6D01G289100 chr4D 93.194 382 23 3 3 383 478256236 478256615 2.020000e-155 558
13 TraesCS6D01G289100 chr3D 93.176 381 24 2 8 387 409019810 409020189 2.020000e-155 558
14 TraesCS6D01G289100 chr7D 93.369 377 23 2 7 382 584566060 584565685 7.280000e-155 556
15 TraesCS6D01G289100 chr7D 93.103 377 25 1 6 382 584572264 584571889 3.390000e-153 551
16 TraesCS6D01G289100 chr1A 93.369 377 23 2 7 382 143817300 143816925 7.280000e-155 556
17 TraesCS6D01G289100 chr2A 79.418 894 81 62 779 1619 176655353 176656196 9.490000e-149 536
18 TraesCS6D01G289100 chr2D 80.072 828 75 54 854 1619 163022901 163022102 1.230000e-147 532
19 TraesCS6D01G289100 chr2B 82.250 631 51 34 779 1380 224645772 224646370 2.690000e-134 488


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 TraesCS6D01G289100 chr6D 400076437 400078769 2332 True 4309.0 4309 100.000 1 2333 1 chr6D.!!$R1 2332
1 TraesCS6D01G289100 chr6A 545829007 545830880 1873 True 1298.5 2122 93.236 399 2333 2 chr6A.!!$R1 1934
2 TraesCS6D01G289100 chr6B 599071484 599073451 1967 True 1055.0 1764 85.616 389 2270 2 chr6B.!!$R1 1881
3 TraesCS6D01G289100 chr6B 604597419 604598417 998 False 464.0 776 84.814 470 1619 2 chr6B.!!$F1 1149
4 TraesCS6D01G289100 chr2A 176655353 176656196 843 False 536.0 536 79.418 779 1619 1 chr2A.!!$F1 840
5 TraesCS6D01G289100 chr2D 163022102 163022901 799 True 532.0 532 80.072 854 1619 1 chr2D.!!$R1 765
6 TraesCS6D01G289100 chr2B 224645772 224646370 598 False 488.0 488 82.250 779 1380 1 chr2B.!!$F1 601

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
382 383 0.036306 ACCTAGGAGCCAAAACACCG 59.964 55.0 17.98 0.0 0.0 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2285 2604 0.380733 TGCATGACTAGTAGCCGTCG 59.619 55.0 0.0 0.0 32.93 5.12 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 3.918294 AATCTGGAAATTGGGCAATGG 57.082 42.857 0.00 0.00 0.00 3.16
22 23 0.903942 TCTGGAAATTGGGCAATGGC 59.096 50.000 0.00 0.00 40.13 4.40
23 24 0.906775 CTGGAAATTGGGCAATGGCT 59.093 50.000 6.78 0.00 40.87 4.75
24 25 0.903942 TGGAAATTGGGCAATGGCTC 59.096 50.000 6.78 0.00 42.48 4.70
25 26 0.178767 GGAAATTGGGCAATGGCTCC 59.821 55.000 6.78 1.25 40.96 4.70
26 27 1.197812 GAAATTGGGCAATGGCTCCT 58.802 50.000 6.78 0.00 40.96 3.69
27 28 2.387757 GAAATTGGGCAATGGCTCCTA 58.612 47.619 6.78 0.00 40.96 2.94
28 29 2.077687 AATTGGGCAATGGCTCCTAG 57.922 50.000 6.78 0.00 40.96 3.02
29 30 0.186873 ATTGGGCAATGGCTCCTAGG 59.813 55.000 6.78 0.82 40.96 3.02
30 31 1.214305 TTGGGCAATGGCTCCTAGGT 61.214 55.000 9.08 0.00 40.96 3.08
31 32 1.152881 GGGCAATGGCTCCTAGGTG 60.153 63.158 9.08 7.68 40.87 4.00
32 33 1.825622 GGCAATGGCTCCTAGGTGC 60.826 63.158 24.68 24.68 40.87 5.01
33 34 1.077501 GCAATGGCTCCTAGGTGCA 60.078 57.895 31.19 19.96 36.47 4.57
34 35 0.466922 GCAATGGCTCCTAGGTGCAT 60.467 55.000 31.19 21.04 36.47 3.96
35 36 1.202806 GCAATGGCTCCTAGGTGCATA 60.203 52.381 31.19 21.70 36.47 3.14
36 37 2.553904 GCAATGGCTCCTAGGTGCATAT 60.554 50.000 31.19 22.72 36.47 1.78
37 38 3.079578 CAATGGCTCCTAGGTGCATATG 58.920 50.000 31.19 22.47 36.47 1.78
38 39 0.397941 TGGCTCCTAGGTGCATATGC 59.602 55.000 31.19 21.09 42.50 3.14
57 58 9.941664 GCATATGCATCCATTATCTAAATACAC 57.058 33.333 22.84 0.00 41.59 2.90
95 96 8.280909 TGAAAAATTCTGTACAAAAATCTCGC 57.719 30.769 0.00 0.00 0.00 5.03
96 97 6.911484 AAAATTCTGTACAAAAATCTCGCG 57.089 33.333 0.00 0.00 0.00 5.87
97 98 5.607119 AATTCTGTACAAAAATCTCGCGT 57.393 34.783 5.77 0.00 0.00 6.01
98 99 4.383774 TTCTGTACAAAAATCTCGCGTG 57.616 40.909 5.77 3.13 0.00 5.34
99 100 3.386486 TCTGTACAAAAATCTCGCGTGT 58.614 40.909 5.77 3.43 0.00 4.49
100 101 4.548494 TCTGTACAAAAATCTCGCGTGTA 58.452 39.130 5.77 2.29 0.00 2.90
101 102 5.165676 TCTGTACAAAAATCTCGCGTGTAT 58.834 37.500 5.77 0.00 0.00 2.29
102 103 6.324042 TCTGTACAAAAATCTCGCGTGTATA 58.676 36.000 5.77 3.05 0.00 1.47
103 104 6.976349 TCTGTACAAAAATCTCGCGTGTATAT 59.024 34.615 5.77 0.00 0.00 0.86
104 105 7.157050 TGTACAAAAATCTCGCGTGTATATC 57.843 36.000 5.77 0.00 0.00 1.63
105 106 5.652744 ACAAAAATCTCGCGTGTATATCC 57.347 39.130 5.77 0.00 0.00 2.59
106 107 4.208460 ACAAAAATCTCGCGTGTATATCCG 59.792 41.667 5.77 0.00 0.00 4.18
107 108 2.631418 AATCTCGCGTGTATATCCGG 57.369 50.000 5.77 0.00 0.00 5.14
108 109 1.817357 ATCTCGCGTGTATATCCGGA 58.183 50.000 6.61 6.61 0.00 5.14
109 110 1.817357 TCTCGCGTGTATATCCGGAT 58.183 50.000 22.95 22.95 0.00 4.18
110 111 2.976589 TCTCGCGTGTATATCCGGATA 58.023 47.619 25.97 25.97 0.00 2.59
111 112 3.538591 TCTCGCGTGTATATCCGGATAT 58.461 45.455 33.62 33.62 37.69 1.63
112 113 3.943381 TCTCGCGTGTATATCCGGATATT 59.057 43.478 35.62 21.93 35.71 1.28
113 114 4.034858 TCTCGCGTGTATATCCGGATATTC 59.965 45.833 35.62 30.52 35.71 1.75
114 115 3.943381 TCGCGTGTATATCCGGATATTCT 59.057 43.478 35.62 19.57 35.71 2.40
115 116 5.118286 TCGCGTGTATATCCGGATATTCTA 58.882 41.667 35.62 21.60 35.71 2.10
116 117 5.761726 TCGCGTGTATATCCGGATATTCTAT 59.238 40.000 35.62 19.83 35.71 1.98
117 118 5.851703 CGCGTGTATATCCGGATATTCTATG 59.148 44.000 35.62 26.23 35.71 2.23
118 119 6.512903 CGCGTGTATATCCGGATATTCTATGT 60.513 42.308 35.62 17.54 35.71 2.29
119 120 6.637254 GCGTGTATATCCGGATATTCTATGTG 59.363 42.308 35.62 21.36 35.71 3.21
120 121 6.637254 CGTGTATATCCGGATATTCTATGTGC 59.363 42.308 35.62 18.33 35.71 4.57
121 122 6.637254 GTGTATATCCGGATATTCTATGTGCG 59.363 42.308 35.62 0.00 35.71 5.34
122 123 5.854010 ATATCCGGATATTCTATGTGCGT 57.146 39.130 27.97 5.62 33.67 5.24
123 124 3.297830 TCCGGATATTCTATGTGCGTG 57.702 47.619 0.00 0.00 33.67 5.34
124 125 1.726791 CCGGATATTCTATGTGCGTGC 59.273 52.381 0.00 0.00 33.67 5.34
125 126 2.403259 CGGATATTCTATGTGCGTGCA 58.597 47.619 0.00 0.00 31.12 4.57
126 127 2.155732 CGGATATTCTATGTGCGTGCAC 59.844 50.000 17.72 17.72 46.33 4.57
136 137 0.565679 GTGCGTGCACAAAGTTTTCG 59.434 50.000 19.45 0.00 45.53 3.46
137 138 0.524392 TGCGTGCACAAAGTTTTCGG 60.524 50.000 18.64 0.00 0.00 4.30
138 139 0.524604 GCGTGCACAAAGTTTTCGGT 60.525 50.000 18.64 0.00 0.00 4.69
139 140 1.187715 CGTGCACAAAGTTTTCGGTG 58.812 50.000 18.64 1.23 0.00 4.94
140 141 1.202087 CGTGCACAAAGTTTTCGGTGA 60.202 47.619 18.64 0.00 33.16 4.02
141 142 2.729467 CGTGCACAAAGTTTTCGGTGAA 60.729 45.455 18.64 0.00 33.16 3.18
142 143 3.246619 GTGCACAAAGTTTTCGGTGAAA 58.753 40.909 13.17 0.00 33.16 2.69
143 144 3.675698 GTGCACAAAGTTTTCGGTGAAAA 59.324 39.130 13.17 0.81 38.90 2.29
144 145 4.150804 GTGCACAAAGTTTTCGGTGAAAAA 59.849 37.500 13.17 0.00 42.09 1.94
145 146 4.150804 TGCACAAAGTTTTCGGTGAAAAAC 59.849 37.500 6.31 4.01 42.09 2.43
150 151 3.409851 GTTTTCGGTGAAAAACGAGGT 57.590 42.857 6.31 0.00 42.09 3.85
151 152 3.761657 GTTTTCGGTGAAAAACGAGGTT 58.238 40.909 6.31 0.00 42.09 3.50
152 153 4.168014 GTTTTCGGTGAAAAACGAGGTTT 58.832 39.130 6.31 0.00 42.09 3.27
153 154 4.437772 TTTCGGTGAAAAACGAGGTTTT 57.562 36.364 0.00 0.00 45.94 2.43
193 194 8.897872 AAAAAGACAATTTCTGATGCTTCATT 57.102 26.923 2.33 0.00 33.46 2.57
194 195 9.985730 AAAAAGACAATTTCTGATGCTTCATTA 57.014 25.926 2.33 0.00 33.46 1.90
195 196 8.976986 AAAGACAATTTCTGATGCTTCATTAC 57.023 30.769 2.33 0.00 33.46 1.89
196 197 7.692460 AGACAATTTCTGATGCTTCATTACA 57.308 32.000 2.33 0.00 31.12 2.41
197 198 8.114331 AGACAATTTCTGATGCTTCATTACAA 57.886 30.769 2.33 0.00 31.12 2.41
198 199 8.025445 AGACAATTTCTGATGCTTCATTACAAC 58.975 33.333 2.33 0.00 31.12 3.32
199 200 7.889469 ACAATTTCTGATGCTTCATTACAACT 58.111 30.769 2.33 0.00 0.00 3.16
200 201 9.013229 ACAATTTCTGATGCTTCATTACAACTA 57.987 29.630 2.33 0.00 0.00 2.24
204 205 8.791327 TTCTGATGCTTCATTACAACTATTCA 57.209 30.769 2.33 0.00 0.00 2.57
205 206 8.969260 TCTGATGCTTCATTACAACTATTCAT 57.031 30.769 2.33 0.00 0.00 2.57
206 207 9.399797 TCTGATGCTTCATTACAACTATTCATT 57.600 29.630 2.33 0.00 0.00 2.57
210 211 8.464770 TGCTTCATTACAACTATTCATTTTGC 57.535 30.769 0.00 0.00 0.00 3.68
211 212 8.087136 TGCTTCATTACAACTATTCATTTTGCA 58.913 29.630 0.00 0.00 0.00 4.08
212 213 9.090692 GCTTCATTACAACTATTCATTTTGCAT 57.909 29.630 0.00 0.00 0.00 3.96
243 244 4.919653 TTGCACAAGCCGCAAAAA 57.080 44.444 0.00 0.00 45.91 1.94
263 264 5.689927 AAAACATCGTTTTTCACCGAAAC 57.310 34.783 0.00 0.00 36.57 2.78
264 265 4.625972 AACATCGTTTTTCACCGAAACT 57.374 36.364 0.00 0.00 36.57 2.66
265 266 4.625972 ACATCGTTTTTCACCGAAACTT 57.374 36.364 0.00 0.00 36.57 2.66
266 267 4.989044 ACATCGTTTTTCACCGAAACTTT 58.011 34.783 0.00 0.00 36.57 2.66
267 268 4.796312 ACATCGTTTTTCACCGAAACTTTG 59.204 37.500 0.00 0.00 36.57 2.77
268 269 4.422546 TCGTTTTTCACCGAAACTTTGT 57.577 36.364 0.00 0.00 35.40 2.83
269 270 4.159857 TCGTTTTTCACCGAAACTTTGTG 58.840 39.130 0.00 0.00 35.40 3.33
270 271 3.241520 CGTTTTTCACCGAAACTTTGTGC 60.242 43.478 0.00 0.00 35.40 4.57
271 272 3.577649 TTTTCACCGAAACTTTGTGCA 57.422 38.095 0.00 0.00 30.83 4.57
272 273 3.791973 TTTCACCGAAACTTTGTGCAT 57.208 38.095 0.00 0.00 0.00 3.96
273 274 2.772568 TCACCGAAACTTTGTGCATG 57.227 45.000 0.00 0.00 0.00 4.06
274 275 1.130955 CACCGAAACTTTGTGCATGC 58.869 50.000 11.82 11.82 0.00 4.06
275 276 0.743688 ACCGAAACTTTGTGCATGCA 59.256 45.000 18.46 18.46 0.00 3.96
276 277 1.130955 CCGAAACTTTGTGCATGCAC 58.869 50.000 38.00 38.00 46.33 4.57
287 288 3.344904 GTGCATGCACATAGAATGTCC 57.655 47.619 39.12 12.88 45.53 4.02
288 289 1.941975 TGCATGCACATAGAATGTCCG 59.058 47.619 18.46 0.00 42.70 4.79
289 290 1.265095 GCATGCACATAGAATGTCCGG 59.735 52.381 14.21 0.00 42.70 5.14
290 291 2.837498 CATGCACATAGAATGTCCGGA 58.163 47.619 0.00 0.00 42.70 5.14
291 292 3.405831 CATGCACATAGAATGTCCGGAT 58.594 45.455 7.81 0.00 42.70 4.18
292 293 4.568956 CATGCACATAGAATGTCCGGATA 58.431 43.478 7.81 4.93 42.70 2.59
293 294 4.890158 TGCACATAGAATGTCCGGATAT 57.110 40.909 7.81 7.95 42.70 1.63
294 295 5.993748 TGCACATAGAATGTCCGGATATA 57.006 39.130 14.71 0.00 42.70 0.86
295 296 5.720202 TGCACATAGAATGTCCGGATATAC 58.280 41.667 14.71 0.00 42.70 1.47
296 297 5.109903 GCACATAGAATGTCCGGATATACC 58.890 45.833 14.71 9.45 42.70 2.73
297 298 5.661458 CACATAGAATGTCCGGATATACCC 58.339 45.833 14.71 7.04 42.70 3.69
298 299 4.401519 ACATAGAATGTCCGGATATACCCG 59.598 45.833 14.71 0.00 39.92 5.28
299 300 7.127252 ACATAGAATGTCCGGATATACCCGC 62.127 48.000 14.71 2.49 40.26 6.13
313 314 3.116073 CCCGCGGGATTTTTGTTTC 57.884 52.632 41.82 0.00 37.50 2.78
314 315 0.315568 CCCGCGGGATTTTTGTTTCA 59.684 50.000 41.82 0.00 37.50 2.69
315 316 1.269831 CCCGCGGGATTTTTGTTTCAA 60.270 47.619 41.82 0.00 37.50 2.69
316 317 2.474816 CCGCGGGATTTTTGTTTCAAA 58.525 42.857 20.10 0.00 0.00 2.69
317 318 2.866762 CCGCGGGATTTTTGTTTCAAAA 59.133 40.909 20.10 3.93 0.00 2.44
318 319 3.309954 CCGCGGGATTTTTGTTTCAAAAA 59.690 39.130 20.10 18.22 34.15 1.94
319 320 4.024472 CCGCGGGATTTTTGTTTCAAAAAT 60.024 37.500 23.83 23.83 41.11 1.82
320 321 5.504830 CCGCGGGATTTTTGTTTCAAAAATT 60.505 36.000 20.10 13.96 39.23 1.82
321 322 5.968261 CGCGGGATTTTTGTTTCAAAAATTT 59.032 32.000 24.17 11.74 39.23 1.82
322 323 6.470556 CGCGGGATTTTTGTTTCAAAAATTTT 59.529 30.769 24.17 11.21 39.23 1.82
323 324 7.640240 CGCGGGATTTTTGTTTCAAAAATTTTA 59.360 29.630 24.17 6.67 39.23 1.52
324 325 9.290483 GCGGGATTTTTGTTTCAAAAATTTTAA 57.710 25.926 24.17 6.12 39.23 1.52
356 357 9.289303 CAAAATGTGTATTTAGACAATAGGTGC 57.711 33.333 0.00 0.00 35.50 5.01
357 358 8.574251 AAATGTGTATTTAGACAATAGGTGCA 57.426 30.769 0.00 0.00 34.81 4.57
358 359 8.752005 AATGTGTATTTAGACAATAGGTGCAT 57.248 30.769 0.00 0.00 32.98 3.96
359 360 9.845740 AATGTGTATTTAGACAATAGGTGCATA 57.154 29.630 0.00 0.00 32.98 3.14
361 362 9.271828 TGTGTATTTAGACAATAGGTGCATATG 57.728 33.333 0.00 0.00 0.00 1.78
362 363 8.230486 GTGTATTTAGACAATAGGTGCATATGC 58.770 37.037 21.09 21.09 42.50 3.14
373 374 3.239861 GCATATGCACCTAGGAGCC 57.760 57.895 25.94 8.49 41.59 4.70
374 375 0.397941 GCATATGCACCTAGGAGCCA 59.602 55.000 25.94 15.42 41.59 4.75
375 376 1.202806 GCATATGCACCTAGGAGCCAA 60.203 52.381 25.94 15.39 41.59 4.52
376 377 2.749466 GCATATGCACCTAGGAGCCAAA 60.749 50.000 25.94 13.05 41.59 3.28
377 378 3.554934 CATATGCACCTAGGAGCCAAAA 58.445 45.455 25.94 9.83 0.00 2.44
378 379 1.839424 ATGCACCTAGGAGCCAAAAC 58.161 50.000 25.94 0.85 0.00 2.43
379 380 0.476338 TGCACCTAGGAGCCAAAACA 59.524 50.000 25.94 5.69 0.00 2.83
380 381 0.881796 GCACCTAGGAGCCAAAACAC 59.118 55.000 19.57 0.00 0.00 3.32
381 382 1.534729 CACCTAGGAGCCAAAACACC 58.465 55.000 17.98 0.00 0.00 4.16
382 383 0.036306 ACCTAGGAGCCAAAACACCG 59.964 55.000 17.98 0.00 0.00 4.94
383 384 0.036306 CCTAGGAGCCAAAACACCGT 59.964 55.000 1.05 0.00 0.00 4.83
384 385 1.156736 CTAGGAGCCAAAACACCGTG 58.843 55.000 0.00 0.00 0.00 4.94
385 386 0.470766 TAGGAGCCAAAACACCGTGT 59.529 50.000 0.00 0.00 0.00 4.49
386 387 0.818040 AGGAGCCAAAACACCGTGTC 60.818 55.000 4.23 0.00 0.00 3.67
387 388 1.652563 GAGCCAAAACACCGTGTCC 59.347 57.895 4.23 0.00 0.00 4.02
701 736 1.822990 GACGTCATTCACACCCTAGGA 59.177 52.381 11.48 0.00 0.00 2.94
866 931 2.434359 GCCTTTACGCCACGCTCT 60.434 61.111 0.00 0.00 0.00 4.09
884 949 3.306780 GCTCTTCTATATAAGCCCGGCAA 60.307 47.826 13.15 0.00 0.00 4.52
1223 1349 3.717294 GGACCACAGCATCCCGGT 61.717 66.667 0.00 0.00 0.00 5.28
1335 1461 3.083997 ACGGAGTCCCCCTGATGC 61.084 66.667 2.80 0.00 29.74 3.91
1346 1472 0.395686 CCCTGATGCATGGATCGAGT 59.604 55.000 20.61 0.00 0.00 4.18
1452 1619 7.805071 GGTTGCTACAATAAAATAGCTGCTATG 59.195 37.037 21.93 12.67 43.54 2.23
1545 1740 4.405680 TGATTGGAGAGTGTACCTGTATGG 59.594 45.833 0.00 0.00 42.93 2.74
1687 1887 2.871182 ATGCATGATGAAGCTTGCTG 57.129 45.000 2.10 0.00 39.06 4.41
1798 2003 3.059393 GGTTAGAAGGGACGTTGTTTTCG 60.059 47.826 0.00 0.00 0.00 3.46
1841 2115 0.887387 TTAAGTTGTGTCGCCCTGCC 60.887 55.000 0.00 0.00 0.00 4.85
1862 2136 3.292159 GGCTTTTCGGGGCGTGTT 61.292 61.111 0.00 0.00 0.00 3.32
1891 2169 7.101652 TCTAGATGGATTAGTTGACACTCAC 57.898 40.000 0.00 0.00 34.06 3.51
1895 2173 6.876257 AGATGGATTAGTTGACACTCACTTTC 59.124 38.462 0.00 0.00 34.06 2.62
1954 2232 5.244851 TGGCAAATGTAAGCTCCATGTTAAA 59.755 36.000 0.00 0.00 0.00 1.52
1955 2233 5.576774 GGCAAATGTAAGCTCCATGTTAAAC 59.423 40.000 0.00 0.00 0.00 2.01
1957 2235 7.362574 GGCAAATGTAAGCTCCATGTTAAACTA 60.363 37.037 0.00 0.00 0.00 2.24
1967 2273 6.539103 GCTCCATGTTAAACTAAGTCCTAAGG 59.461 42.308 0.00 0.00 0.00 2.69
1969 2275 5.293569 CCATGTTAAACTAAGTCCTAAGGCG 59.706 44.000 0.00 0.00 0.00 5.52
2007 2313 7.096640 CGAAAGTGTAAAGTGTAAAAAGCATGG 60.097 37.037 0.00 0.00 0.00 3.66
2066 2372 1.301087 CAACCCACACGCGTCCTTA 60.301 57.895 9.86 0.00 0.00 2.69
2163 2469 4.748892 ACTTAGACACGATTGATGACCAG 58.251 43.478 0.00 0.00 0.00 4.00
2164 2470 4.220821 ACTTAGACACGATTGATGACCAGT 59.779 41.667 0.00 0.00 0.00 4.00
2167 2473 3.997021 AGACACGATTGATGACCAGTTTC 59.003 43.478 0.00 0.00 0.00 2.78
2168 2474 3.738982 ACACGATTGATGACCAGTTTCA 58.261 40.909 0.00 0.00 0.00 2.69
2169 2475 3.498397 ACACGATTGATGACCAGTTTCAC 59.502 43.478 0.00 0.00 0.00 3.18
2214 2533 0.883153 AGCAATTCAAGCGCACATGA 59.117 45.000 11.47 8.46 37.01 3.07
2241 2560 3.728845 CCATAACACAGCCGCTTAGTAT 58.271 45.455 0.00 0.00 0.00 2.12
2270 2589 2.126228 TAAACGAGTCGGGCAGCG 60.126 61.111 18.30 0.00 0.00 5.18
2285 2604 3.186613 GGGCAGCGTATATTTGCTTACTC 59.813 47.826 0.00 0.00 40.03 2.59
2295 2615 1.171308 TTGCTTACTCGACGGCTACT 58.829 50.000 0.00 0.00 0.00 2.57
2301 2621 2.328819 ACTCGACGGCTACTAGTCAT 57.671 50.000 0.00 0.00 37.23 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.622953 GCCATTGCCCAATTTCCAGATTT 60.623 43.478 0.00 0.00 0.00 2.17
1 2 2.092807 GCCATTGCCCAATTTCCAGATT 60.093 45.455 0.00 0.00 0.00 2.40
2 3 1.487558 GCCATTGCCCAATTTCCAGAT 59.512 47.619 0.00 0.00 0.00 2.90
3 4 0.903942 GCCATTGCCCAATTTCCAGA 59.096 50.000 0.00 0.00 0.00 3.86
4 5 0.906775 AGCCATTGCCCAATTTCCAG 59.093 50.000 0.00 0.00 38.69 3.86
5 6 0.903942 GAGCCATTGCCCAATTTCCA 59.096 50.000 0.00 0.00 38.69 3.53
6 7 0.178767 GGAGCCATTGCCCAATTTCC 59.821 55.000 0.00 0.00 38.69 3.13
7 8 1.197812 AGGAGCCATTGCCCAATTTC 58.802 50.000 0.00 0.00 38.69 2.17
8 9 2.391678 CTAGGAGCCATTGCCCAATTT 58.608 47.619 0.00 0.00 38.69 1.82
9 10 1.412074 CCTAGGAGCCATTGCCCAATT 60.412 52.381 1.05 0.00 38.69 2.32
10 11 0.186873 CCTAGGAGCCATTGCCCAAT 59.813 55.000 1.05 0.00 38.69 3.16
11 12 1.214305 ACCTAGGAGCCATTGCCCAA 61.214 55.000 17.98 0.00 38.69 4.12
12 13 1.619363 ACCTAGGAGCCATTGCCCA 60.619 57.895 17.98 0.00 38.69 5.36
13 14 1.152881 CACCTAGGAGCCATTGCCC 60.153 63.158 17.98 0.00 38.69 5.36
14 15 1.825622 GCACCTAGGAGCCATTGCC 60.826 63.158 19.57 0.00 38.69 4.52
15 16 0.466922 ATGCACCTAGGAGCCATTGC 60.467 55.000 25.94 18.71 37.95 3.56
16 17 2.936919 TATGCACCTAGGAGCCATTG 57.063 50.000 25.94 9.40 0.00 2.82
17 18 2.553904 GCATATGCACCTAGGAGCCATT 60.554 50.000 25.94 14.38 41.59 3.16
18 19 1.004044 GCATATGCACCTAGGAGCCAT 59.996 52.381 25.94 20.24 41.59 4.40
19 20 0.397941 GCATATGCACCTAGGAGCCA 59.602 55.000 25.94 15.42 41.59 4.75
20 21 3.239861 GCATATGCACCTAGGAGCC 57.760 57.895 25.94 8.49 41.59 4.70
31 32 9.941664 GTGTATTTAGATAATGGATGCATATGC 57.058 33.333 21.09 21.09 42.50 3.14
69 70 8.751335 GCGAGATTTTTGTACAGAATTTTTCAA 58.249 29.630 0.00 0.00 0.00 2.69
70 71 7.112844 CGCGAGATTTTTGTACAGAATTTTTCA 59.887 33.333 0.00 0.00 0.00 2.69
71 72 7.112984 ACGCGAGATTTTTGTACAGAATTTTTC 59.887 33.333 15.93 3.18 0.00 2.29
72 73 6.915843 ACGCGAGATTTTTGTACAGAATTTTT 59.084 30.769 15.93 0.00 0.00 1.94
73 74 6.359617 CACGCGAGATTTTTGTACAGAATTTT 59.640 34.615 15.93 0.00 0.00 1.82
74 75 5.851177 CACGCGAGATTTTTGTACAGAATTT 59.149 36.000 15.93 0.00 0.00 1.82
75 76 5.049680 ACACGCGAGATTTTTGTACAGAATT 60.050 36.000 15.93 0.00 0.00 2.17
76 77 4.451096 ACACGCGAGATTTTTGTACAGAAT 59.549 37.500 15.93 3.21 0.00 2.40
77 78 3.805422 ACACGCGAGATTTTTGTACAGAA 59.195 39.130 15.93 0.00 0.00 3.02
78 79 3.386486 ACACGCGAGATTTTTGTACAGA 58.614 40.909 15.93 0.00 0.00 3.41
79 80 3.788434 ACACGCGAGATTTTTGTACAG 57.212 42.857 15.93 0.00 0.00 2.74
80 81 6.199531 GGATATACACGCGAGATTTTTGTACA 59.800 38.462 15.93 0.00 0.00 2.90
81 82 6.578691 GGATATACACGCGAGATTTTTGTAC 58.421 40.000 15.93 0.00 0.00 2.90
82 83 5.400188 CGGATATACACGCGAGATTTTTGTA 59.600 40.000 15.93 9.76 0.00 2.41
83 84 4.208460 CGGATATACACGCGAGATTTTTGT 59.792 41.667 15.93 7.40 0.00 2.83
84 85 4.376008 CCGGATATACACGCGAGATTTTTG 60.376 45.833 15.93 0.00 0.00 2.44
85 86 3.739300 CCGGATATACACGCGAGATTTTT 59.261 43.478 15.93 0.00 0.00 1.94
86 87 3.005050 TCCGGATATACACGCGAGATTTT 59.995 43.478 15.93 0.00 0.00 1.82
87 88 2.555325 TCCGGATATACACGCGAGATTT 59.445 45.455 15.93 0.00 0.00 2.17
88 89 2.156917 TCCGGATATACACGCGAGATT 58.843 47.619 15.93 0.02 0.00 2.40
89 90 1.817357 TCCGGATATACACGCGAGAT 58.183 50.000 15.93 5.15 0.00 2.75
90 91 1.817357 ATCCGGATATACACGCGAGA 58.183 50.000 17.43 0.00 0.00 4.04
91 92 3.965292 ATATCCGGATATACACGCGAG 57.035 47.619 31.34 7.88 32.55 5.03
92 93 3.943381 AGAATATCCGGATATACACGCGA 59.057 43.478 32.23 8.75 33.86 5.87
93 94 4.288670 AGAATATCCGGATATACACGCG 57.711 45.455 32.23 3.53 33.86 6.01
94 95 6.637254 CACATAGAATATCCGGATATACACGC 59.363 42.308 32.23 19.92 33.86 5.34
95 96 6.637254 GCACATAGAATATCCGGATATACACG 59.363 42.308 32.23 22.10 33.86 4.49
96 97 6.637254 CGCACATAGAATATCCGGATATACAC 59.363 42.308 32.23 24.91 33.86 2.90
97 98 6.320418 ACGCACATAGAATATCCGGATATACA 59.680 38.462 32.23 21.45 33.86 2.29
98 99 6.637254 CACGCACATAGAATATCCGGATATAC 59.363 42.308 32.23 15.39 33.86 1.47
99 100 6.734871 GCACGCACATAGAATATCCGGATATA 60.735 42.308 32.23 20.03 33.86 0.86
100 101 5.592054 CACGCACATAGAATATCCGGATAT 58.408 41.667 27.97 27.97 35.63 1.63
101 102 4.676986 GCACGCACATAGAATATCCGGATA 60.677 45.833 25.97 25.97 0.00 2.59
102 103 3.849911 CACGCACATAGAATATCCGGAT 58.150 45.455 22.95 22.95 0.00 4.18
103 104 2.609491 GCACGCACATAGAATATCCGGA 60.609 50.000 6.61 6.61 0.00 5.14
104 105 1.726791 GCACGCACATAGAATATCCGG 59.273 52.381 0.00 0.00 0.00 5.14
105 106 2.155732 GTGCACGCACATAGAATATCCG 59.844 50.000 17.03 0.00 45.53 4.18
106 107 3.795561 GTGCACGCACATAGAATATCC 57.204 47.619 17.03 0.00 45.53 2.59
117 118 0.565679 CGAAAACTTTGTGCACGCAC 59.434 50.000 15.20 15.20 46.33 5.34
118 119 0.524392 CCGAAAACTTTGTGCACGCA 60.524 50.000 13.13 0.00 0.00 5.24
119 120 0.524604 ACCGAAAACTTTGTGCACGC 60.525 50.000 13.13 0.00 0.00 5.34
120 121 1.187715 CACCGAAAACTTTGTGCACG 58.812 50.000 13.13 0.00 0.00 5.34
121 122 2.553079 TCACCGAAAACTTTGTGCAC 57.447 45.000 10.75 10.75 0.00 4.57
122 123 3.577649 TTTCACCGAAAACTTTGTGCA 57.422 38.095 0.00 0.00 0.00 4.57
123 124 4.634000 GTTTTTCACCGAAAACTTTGTGC 58.366 39.130 1.50 0.00 43.04 4.57
124 125 4.617645 TCGTTTTTCACCGAAAACTTTGTG 59.382 37.500 10.38 0.00 43.77 3.33
125 126 4.796369 TCGTTTTTCACCGAAAACTTTGT 58.204 34.783 10.38 0.00 43.77 2.83
126 127 4.264380 CCTCGTTTTTCACCGAAAACTTTG 59.736 41.667 10.38 2.64 43.77 2.77
127 128 4.082625 ACCTCGTTTTTCACCGAAAACTTT 60.083 37.500 10.38 0.00 43.77 2.66
128 129 3.441222 ACCTCGTTTTTCACCGAAAACTT 59.559 39.130 10.38 0.00 43.77 2.66
129 130 3.011818 ACCTCGTTTTTCACCGAAAACT 58.988 40.909 10.38 0.00 43.77 2.66
130 131 3.409851 ACCTCGTTTTTCACCGAAAAC 57.590 42.857 1.50 1.39 40.56 2.43
131 132 4.437772 AAACCTCGTTTTTCACCGAAAA 57.562 36.364 0.00 0.00 39.36 2.29
132 133 4.437772 AAAACCTCGTTTTTCACCGAAA 57.562 36.364 0.00 0.00 42.11 3.46
168 169 8.897872 AATGAAGCATCAGAAATTGTCTTTTT 57.102 26.923 0.00 0.00 39.39 1.94
169 170 9.415544 GTAATGAAGCATCAGAAATTGTCTTTT 57.584 29.630 0.00 0.00 39.39 2.27
170 171 8.579006 TGTAATGAAGCATCAGAAATTGTCTTT 58.421 29.630 0.00 0.00 39.39 2.52
171 172 8.114331 TGTAATGAAGCATCAGAAATTGTCTT 57.886 30.769 0.00 0.00 39.39 3.01
172 173 7.692460 TGTAATGAAGCATCAGAAATTGTCT 57.308 32.000 0.00 0.00 39.39 3.41
173 174 8.025445 AGTTGTAATGAAGCATCAGAAATTGTC 58.975 33.333 0.00 0.00 39.39 3.18
174 175 7.889469 AGTTGTAATGAAGCATCAGAAATTGT 58.111 30.769 0.00 0.00 39.39 2.71
178 179 9.230122 TGAATAGTTGTAATGAAGCATCAGAAA 57.770 29.630 0.00 0.00 39.39 2.52
179 180 8.791327 TGAATAGTTGTAATGAAGCATCAGAA 57.209 30.769 0.00 0.00 39.39 3.02
180 181 8.969260 ATGAATAGTTGTAATGAAGCATCAGA 57.031 30.769 0.00 0.00 39.39 3.27
184 185 9.090692 GCAAAATGAATAGTTGTAATGAAGCAT 57.909 29.630 0.00 0.00 0.00 3.79
185 186 8.087136 TGCAAAATGAATAGTTGTAATGAAGCA 58.913 29.630 0.00 0.00 0.00 3.91
186 187 8.464770 TGCAAAATGAATAGTTGTAATGAAGC 57.535 30.769 0.00 0.00 0.00 3.86
240 241 5.865013 AGTTTCGGTGAAAAACGATGTTTTT 59.135 32.000 17.47 17.47 40.67 1.94
241 242 5.404096 AGTTTCGGTGAAAAACGATGTTTT 58.596 33.333 2.00 2.00 40.67 2.43
242 243 4.989044 AGTTTCGGTGAAAAACGATGTTT 58.011 34.783 0.00 0.00 40.67 2.83
243 244 4.625972 AGTTTCGGTGAAAAACGATGTT 57.374 36.364 0.00 0.00 40.67 2.71
244 245 4.625972 AAGTTTCGGTGAAAAACGATGT 57.374 36.364 0.00 0.00 40.67 3.06
245 246 4.796312 ACAAAGTTTCGGTGAAAAACGATG 59.204 37.500 0.00 0.00 40.67 3.84
246 247 4.796312 CACAAAGTTTCGGTGAAAAACGAT 59.204 37.500 0.82 0.00 40.67 3.73
247 248 4.159857 CACAAAGTTTCGGTGAAAAACGA 58.840 39.130 0.82 0.00 40.67 3.85
248 249 3.241520 GCACAAAGTTTCGGTGAAAAACG 60.242 43.478 9.60 0.00 40.67 3.60
249 250 3.675698 TGCACAAAGTTTCGGTGAAAAAC 59.324 39.130 9.60 0.00 33.14 2.43
250 251 3.914312 TGCACAAAGTTTCGGTGAAAAA 58.086 36.364 9.60 0.00 33.14 1.94
251 252 3.577649 TGCACAAAGTTTCGGTGAAAA 57.422 38.095 9.60 0.00 33.14 2.29
252 253 3.443037 CATGCACAAAGTTTCGGTGAAA 58.557 40.909 9.60 0.00 34.52 2.69
253 254 2.797792 GCATGCACAAAGTTTCGGTGAA 60.798 45.455 14.21 0.49 34.52 3.18
254 255 1.268999 GCATGCACAAAGTTTCGGTGA 60.269 47.619 14.21 0.00 34.52 4.02
255 256 1.130955 GCATGCACAAAGTTTCGGTG 58.869 50.000 14.21 2.48 35.68 4.94
256 257 0.743688 TGCATGCACAAAGTTTCGGT 59.256 45.000 18.46 0.00 0.00 4.69
257 258 1.130955 GTGCATGCACAAAGTTTCGG 58.869 50.000 39.12 0.00 45.53 4.30
273 274 5.109903 GGTATATCCGGACATTCTATGTGC 58.890 45.833 6.12 0.00 45.03 4.57
274 275 5.661458 GGGTATATCCGGACATTCTATGTG 58.339 45.833 6.12 0.00 39.49 3.21
275 276 4.401519 CGGGTATATCCGGACATTCTATGT 59.598 45.833 17.10 0.00 45.78 2.29
276 277 4.933330 CGGGTATATCCGGACATTCTATG 58.067 47.826 17.10 0.00 45.78 2.23
288 289 2.484742 AAAATCCCGCGGGTATATCC 57.515 50.000 41.57 0.00 36.47 2.59
289 290 3.143728 ACAAAAATCCCGCGGGTATATC 58.856 45.455 41.57 0.00 36.47 1.63
290 291 3.217681 ACAAAAATCCCGCGGGTATAT 57.782 42.857 41.57 26.64 36.47 0.86
291 292 2.713863 ACAAAAATCCCGCGGGTATA 57.286 45.000 41.57 25.51 36.47 1.47
292 293 1.842052 AACAAAAATCCCGCGGGTAT 58.158 45.000 41.57 29.53 36.47 2.73
293 294 1.540707 GAAACAAAAATCCCGCGGGTA 59.459 47.619 41.57 28.68 36.47 3.69
294 295 0.315886 GAAACAAAAATCCCGCGGGT 59.684 50.000 41.57 26.88 36.47 5.28
295 296 0.315568 TGAAACAAAAATCCCGCGGG 59.684 50.000 39.13 39.13 0.00 6.13
296 297 2.141535 TTGAAACAAAAATCCCGCGG 57.858 45.000 21.04 21.04 0.00 6.46
297 298 4.522297 TTTTTGAAACAAAAATCCCGCG 57.478 36.364 15.30 0.00 0.00 6.46
298 299 7.748031 AAAATTTTTGAAACAAAAATCCCGC 57.252 28.000 24.95 0.00 38.47 6.13
330 331 9.289303 GCACCTATTGTCTAAATACACATTTTG 57.711 33.333 0.00 0.00 35.88 2.44
331 332 9.019656 TGCACCTATTGTCTAAATACACATTTT 57.980 29.630 0.00 0.00 35.88 1.82
332 333 8.574251 TGCACCTATTGTCTAAATACACATTT 57.426 30.769 0.00 0.00 38.02 2.32
333 334 8.752005 ATGCACCTATTGTCTAAATACACATT 57.248 30.769 0.00 0.00 0.00 2.71
335 336 9.271828 CATATGCACCTATTGTCTAAATACACA 57.728 33.333 0.00 0.00 0.00 3.72
336 337 8.230486 GCATATGCACCTATTGTCTAAATACAC 58.770 37.037 22.84 0.00 41.59 2.90
337 338 8.322906 GCATATGCACCTATTGTCTAAATACA 57.677 34.615 22.84 0.00 41.59 2.29
355 356 0.397941 TGGCTCCTAGGTGCATATGC 59.602 55.000 31.19 21.09 42.50 3.14
356 357 2.936919 TTGGCTCCTAGGTGCATATG 57.063 50.000 31.19 0.00 36.47 1.78
357 358 3.053693 TGTTTTGGCTCCTAGGTGCATAT 60.054 43.478 31.19 0.00 36.47 1.78
358 359 2.307392 TGTTTTGGCTCCTAGGTGCATA 59.693 45.455 31.19 19.50 36.47 3.14
359 360 1.075374 TGTTTTGGCTCCTAGGTGCAT 59.925 47.619 31.19 0.00 36.47 3.96
360 361 0.476338 TGTTTTGGCTCCTAGGTGCA 59.524 50.000 31.19 17.76 36.47 4.57
361 362 0.881796 GTGTTTTGGCTCCTAGGTGC 59.118 55.000 24.68 24.68 0.00 5.01
362 363 1.534729 GGTGTTTTGGCTCCTAGGTG 58.465 55.000 9.08 7.68 0.00 4.00
363 364 0.036306 CGGTGTTTTGGCTCCTAGGT 59.964 55.000 9.08 0.00 0.00 3.08
364 365 0.036306 ACGGTGTTTTGGCTCCTAGG 59.964 55.000 0.82 0.82 0.00 3.02
365 366 1.156736 CACGGTGTTTTGGCTCCTAG 58.843 55.000 0.00 0.00 0.00 3.02
366 367 0.470766 ACACGGTGTTTTGGCTCCTA 59.529 50.000 8.21 0.00 0.00 2.94
367 368 0.818040 GACACGGTGTTTTGGCTCCT 60.818 55.000 15.94 0.00 0.00 3.69
368 369 1.652563 GACACGGTGTTTTGGCTCC 59.347 57.895 15.94 0.00 0.00 4.70
369 370 1.652563 GGACACGGTGTTTTGGCTC 59.347 57.895 15.94 0.16 0.00 4.70
370 371 2.184167 CGGACACGGTGTTTTGGCT 61.184 57.895 15.94 0.00 36.18 4.75
371 372 2.330041 CGGACACGGTGTTTTGGC 59.670 61.111 15.94 1.68 36.18 4.52
381 382 0.953471 TGGCAGATTTTCCGGACACG 60.953 55.000 1.83 0.00 40.55 4.49
382 383 0.521735 GTGGCAGATTTTCCGGACAC 59.478 55.000 1.83 2.13 0.00 3.67
383 384 0.109532 TGTGGCAGATTTTCCGGACA 59.890 50.000 1.83 0.00 0.00 4.02
384 385 0.521735 GTGTGGCAGATTTTCCGGAC 59.478 55.000 1.83 0.00 0.00 4.79
385 386 0.109532 TGTGTGGCAGATTTTCCGGA 59.890 50.000 0.00 0.00 0.00 5.14
386 387 0.958091 TTGTGTGGCAGATTTTCCGG 59.042 50.000 0.00 0.00 0.00 5.14
387 388 2.791383 TTTGTGTGGCAGATTTTCCG 57.209 45.000 0.00 0.00 0.00 4.30
417 418 7.437713 TTTCCTTTCTCTTGCTATATCTCCA 57.562 36.000 0.00 0.00 0.00 3.86
476 477 0.179000 ACCCTCGCCTGCTCTTTATG 59.821 55.000 0.00 0.00 0.00 1.90
865 930 3.600388 CCTTGCCGGGCTTATATAGAAG 58.400 50.000 21.46 12.06 0.00 2.85
866 931 3.695830 CCTTGCCGGGCTTATATAGAA 57.304 47.619 21.46 2.13 0.00 2.10
884 949 1.945394 GATGATGTTGATTGCTCGCCT 59.055 47.619 0.00 0.00 0.00 5.52
1092 1209 3.470888 ACCGCATCCTCCTTCCCG 61.471 66.667 0.00 0.00 0.00 5.14
1094 1211 0.462759 CTTCACCGCATCCTCCTTCC 60.463 60.000 0.00 0.00 0.00 3.46
1335 1461 2.355126 CGGCCGACTCGATCCATG 60.355 66.667 24.07 0.00 0.00 3.66
1375 1509 3.447586 GGCTAGCTACCCATTGATCGATA 59.552 47.826 15.72 0.00 0.00 2.92
1512 1700 4.704540 ACACTCTCCAATCACACACAAAAA 59.295 37.500 0.00 0.00 0.00 1.94
1705 1910 8.386606 GTCTTCTTTCATCTATACAAGCTTGTG 58.613 37.037 36.50 22.70 42.31 3.33
1798 2003 1.488393 AGAGCCTTTGCCTAGATCACC 59.512 52.381 0.00 0.00 38.69 4.02
1841 2115 4.398598 CGCCCCGAAAAGCCGTTG 62.399 66.667 0.00 0.00 0.00 4.10
1853 2127 2.973694 TCTAGAACATAACACGCCCC 57.026 50.000 0.00 0.00 0.00 5.80
1862 2136 9.201989 AGTGTCAACTAATCCATCTAGAACATA 57.798 33.333 0.00 0.00 33.79 2.29
1924 2202 5.387788 TGGAGCTTACATTTGCCATATGAT 58.612 37.500 3.65 0.00 0.00 2.45
1954 2232 3.335579 CTTTTGCGCCTTAGGACTTAGT 58.664 45.455 4.18 0.00 0.00 2.24
1955 2233 2.678336 CCTTTTGCGCCTTAGGACTTAG 59.322 50.000 4.18 0.00 0.00 2.18
1957 2235 1.073284 TCCTTTTGCGCCTTAGGACTT 59.927 47.619 15.10 0.00 32.00 3.01
1967 2273 2.034926 CACTTTCGTTTTCCTTTTGCGC 60.035 45.455 0.00 0.00 0.00 6.09
1969 2275 6.309494 ACTTTACACTTTCGTTTTCCTTTTGC 59.691 34.615 0.00 0.00 0.00 3.68
1995 2301 4.243007 ACACAAGAGCCATGCTTTTTAC 57.757 40.909 0.00 0.00 39.88 2.01
1997 2303 3.636300 TGTACACAAGAGCCATGCTTTTT 59.364 39.130 0.00 0.00 39.88 1.94
1999 2305 2.862541 TGTACACAAGAGCCATGCTTT 58.137 42.857 0.00 0.00 39.88 3.51
2000 2306 2.566833 TGTACACAAGAGCCATGCTT 57.433 45.000 0.00 0.00 39.88 3.91
2001 2307 2.362736 CATGTACACAAGAGCCATGCT 58.637 47.619 0.00 0.00 43.88 3.79
2007 2313 1.798223 TGAACGCATGTACACAAGAGC 59.202 47.619 0.00 0.00 0.00 4.09
2066 2372 1.002502 GGTAGGCGGTGGCTTTCTT 60.003 57.895 0.00 0.00 39.70 2.52
2163 2469 6.015504 CACATCACTAATTGCTACGTGAAAC 58.984 40.000 0.00 0.00 39.52 2.78
2164 2470 5.929415 TCACATCACTAATTGCTACGTGAAA 59.071 36.000 0.00 0.00 39.52 2.69
2167 2473 4.032900 GGTCACATCACTAATTGCTACGTG 59.967 45.833 0.00 0.00 0.00 4.49
2168 2474 4.081642 AGGTCACATCACTAATTGCTACGT 60.082 41.667 0.00 0.00 0.00 3.57
2169 2475 4.433615 AGGTCACATCACTAATTGCTACG 58.566 43.478 0.00 0.00 0.00 3.51
2214 2533 3.499737 GCTGTGTTATGGCGCGCT 61.500 61.111 32.29 15.35 0.00 5.92
2241 2560 4.865925 CCGACTCGTTTACAAATGGTATGA 59.134 41.667 0.00 0.00 0.00 2.15
2270 2589 4.296690 AGCCGTCGAGTAAGCAAATATAC 58.703 43.478 0.00 0.00 0.00 1.47
2285 2604 0.380733 TGCATGACTAGTAGCCGTCG 59.619 55.000 0.00 0.00 32.93 5.12
2295 2615 3.871006 CGGAGTAAAGCATTGCATGACTA 59.129 43.478 11.91 0.00 0.00 2.59
2301 2621 0.607762 TGCCGGAGTAAAGCATTGCA 60.608 50.000 5.05 0.00 0.00 4.08


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

AutoCloner maintained by Alex Coulton.