Multiple sequence alignment - TraesCS7B01G393100

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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 TraesCS7B01G393100 chr7B 100.000 2687 0 0 1 2687 659929758 659927072 0.000000e+00 4963
1 TraesCS7B01G393100 chr3D 95.815 2270 66 4 421 2687 420455839 420458082 0.000000e+00 3639
2 TraesCS7B01G393100 chr2D 95.551 2270 70 6 421 2687 577711624 577709383 0.000000e+00 3603
3 TraesCS7B01G393100 chr2D 95.419 2270 74 5 421 2687 8943764 8946006 0.000000e+00 3589
4 TraesCS7B01G393100 chr2D 95.374 2270 76 4 421 2687 616986074 616988317 0.000000e+00 3583
5 TraesCS7B01G393100 chr2D 94.670 2270 103 6 421 2687 536086254 536084000 0.000000e+00 3506
6 TraesCS7B01G393100 chr2D 93.062 418 25 1 1 418 381560306 381559893 2.290000e-170 608
7 TraesCS7B01G393100 chr7A 95.288 2271 101 5 421 2687 483752319 483750051 0.000000e+00 3596
8 TraesCS7B01G393100 chr5D 95.332 2271 76 5 421 2687 357882231 357884475 0.000000e+00 3579
9 TraesCS7B01G393100 chr5D 92.124 419 29 2 1 418 138810064 138809649 2.980000e-164 588
10 TraesCS7B01G393100 chr2B 91.361 2292 154 21 421 2687 679650852 679648580 0.000000e+00 3096
11 TraesCS7B01G393100 chr6B 81.309 2322 354 66 421 2687 4273934 4276230 0.000000e+00 1810
12 TraesCS7B01G393100 chr6B 89.946 1293 101 12 421 1686 671710442 671709152 0.000000e+00 1640
13 TraesCS7B01G393100 chr6B 95.323 898 34 2 421 1311 638984624 638985520 0.000000e+00 1419
14 TraesCS7B01G393100 chr1A 93.269 416 25 1 3 418 181550581 181550169 6.360000e-171 610
15 TraesCS7B01G393100 chrUn 93.062 418 26 1 1 418 22759399 22759813 2.290000e-170 608
16 TraesCS7B01G393100 chr3B 93.029 416 26 1 3 418 610216590 610216178 2.960000e-169 604
17 TraesCS7B01G393100 chr2A 93.029 416 26 1 3 418 535841933 535842345 2.960000e-169 604
18 TraesCS7B01G393100 chr3A 92.143 420 28 2 1 418 678037132 678037548 2.980000e-164 588
19 TraesCS7B01G393100 chr3A 91.866 418 31 1 1 418 604498110 604497696 4.990000e-162 580
20 TraesCS7B01G393100 chr6A 91.943 422 27 4 1 418 581968307 581968725 3.850000e-163 584


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 TraesCS7B01G393100 chr7B 659927072 659929758 2686 True 4963 4963 100.000 1 2687 1 chr7B.!!$R1 2686
1 TraesCS7B01G393100 chr3D 420455839 420458082 2243 False 3639 3639 95.815 421 2687 1 chr3D.!!$F1 2266
2 TraesCS7B01G393100 chr2D 577709383 577711624 2241 True 3603 3603 95.551 421 2687 1 chr2D.!!$R3 2266
3 TraesCS7B01G393100 chr2D 8943764 8946006 2242 False 3589 3589 95.419 421 2687 1 chr2D.!!$F1 2266
4 TraesCS7B01G393100 chr2D 616986074 616988317 2243 False 3583 3583 95.374 421 2687 1 chr2D.!!$F2 2266
5 TraesCS7B01G393100 chr2D 536084000 536086254 2254 True 3506 3506 94.670 421 2687 1 chr2D.!!$R2 2266
6 TraesCS7B01G393100 chr7A 483750051 483752319 2268 True 3596 3596 95.288 421 2687 1 chr7A.!!$R1 2266
7 TraesCS7B01G393100 chr5D 357882231 357884475 2244 False 3579 3579 95.332 421 2687 1 chr5D.!!$F1 2266
8 TraesCS7B01G393100 chr2B 679648580 679650852 2272 True 3096 3096 91.361 421 2687 1 chr2B.!!$R1 2266
9 TraesCS7B01G393100 chr6B 4273934 4276230 2296 False 1810 1810 81.309 421 2687 1 chr6B.!!$F1 2266
10 TraesCS7B01G393100 chr6B 671709152 671710442 1290 True 1640 1640 89.946 421 1686 1 chr6B.!!$R1 1265
11 TraesCS7B01G393100 chr6B 638984624 638985520 896 False 1419 1419 95.323 421 1311 1 chr6B.!!$F2 890

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
262 263 0.107848 CGGCCCAAATTCTAGTCCGT 60.108 55.0 0.0 0.0 0.0 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1828 1946 2.224744 TGAATCACCTGCAAGCCAACTA 60.225 45.455 0.0 0.0 0.0 2.24 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
89 90 9.844790 TGAAATGCTAATAGAGTTGATTTTGTG 57.155 29.630 0.00 0.00 0.00 3.33
90 91 8.693542 AAATGCTAATAGAGTTGATTTTGTGC 57.306 30.769 0.00 0.00 0.00 4.57
91 92 5.868257 TGCTAATAGAGTTGATTTTGTGCG 58.132 37.500 0.00 0.00 0.00 5.34
92 93 5.641636 TGCTAATAGAGTTGATTTTGTGCGA 59.358 36.000 0.00 0.00 0.00 5.10
93 94 6.148645 TGCTAATAGAGTTGATTTTGTGCGAA 59.851 34.615 0.00 0.00 0.00 4.70
94 95 7.021196 GCTAATAGAGTTGATTTTGTGCGAAA 58.979 34.615 0.00 0.00 0.00 3.46
95 96 7.007456 GCTAATAGAGTTGATTTTGTGCGAAAC 59.993 37.037 0.00 0.00 0.00 2.78
96 97 4.630894 AGAGTTGATTTTGTGCGAAACA 57.369 36.364 0.00 0.00 36.85 2.83
109 110 4.849111 TGCGAAACACAAAATTCCAAAC 57.151 36.364 0.00 0.00 0.00 2.93
110 111 4.245660 TGCGAAACACAAAATTCCAAACA 58.754 34.783 0.00 0.00 0.00 2.83
111 112 4.328440 TGCGAAACACAAAATTCCAAACAG 59.672 37.500 0.00 0.00 0.00 3.16
112 113 4.328712 GCGAAACACAAAATTCCAAACAGT 59.671 37.500 0.00 0.00 0.00 3.55
113 114 5.500131 GCGAAACACAAAATTCCAAACAGTC 60.500 40.000 0.00 0.00 0.00 3.51
114 115 5.804979 CGAAACACAAAATTCCAAACAGTCT 59.195 36.000 0.00 0.00 0.00 3.24
115 116 6.310224 CGAAACACAAAATTCCAAACAGTCTT 59.690 34.615 0.00 0.00 0.00 3.01
116 117 7.148656 CGAAACACAAAATTCCAAACAGTCTTT 60.149 33.333 0.00 0.00 0.00 2.52
117 118 7.977789 AACACAAAATTCCAAACAGTCTTTT 57.022 28.000 0.00 0.00 0.00 2.27
118 119 9.495572 AAACACAAAATTCCAAACAGTCTTTTA 57.504 25.926 0.00 0.00 0.00 1.52
119 120 9.495572 AACACAAAATTCCAAACAGTCTTTTAA 57.504 25.926 0.00 0.00 0.00 1.52
120 121 9.495572 ACACAAAATTCCAAACAGTCTTTTAAA 57.504 25.926 0.00 0.00 0.00 1.52
130 131 9.894439 CCAAACAGTCTTTTAAAATACAAAACG 57.106 29.630 16.14 4.56 0.00 3.60
145 146 7.719689 ATACAAAACGAATTGAATTAGTGCG 57.280 32.000 4.46 0.27 34.38 5.34
146 147 5.753744 ACAAAACGAATTGAATTAGTGCGA 58.246 33.333 4.46 0.00 34.38 5.10
147 148 6.202937 ACAAAACGAATTGAATTAGTGCGAA 58.797 32.000 4.46 0.00 34.38 4.70
148 149 6.693545 ACAAAACGAATTGAATTAGTGCGAAA 59.306 30.769 4.46 0.00 34.38 3.46
149 150 7.221067 ACAAAACGAATTGAATTAGTGCGAAAA 59.779 29.630 4.46 0.00 34.38 2.29
150 151 7.687005 AAACGAATTGAATTAGTGCGAAAAA 57.313 28.000 4.46 0.00 0.00 1.94
151 152 7.867445 AACGAATTGAATTAGTGCGAAAAAT 57.133 28.000 4.46 0.00 0.00 1.82
152 153 8.958175 AACGAATTGAATTAGTGCGAAAAATA 57.042 26.923 4.46 0.00 0.00 1.40
153 154 8.601243 ACGAATTGAATTAGTGCGAAAAATAG 57.399 30.769 2.85 0.00 0.00 1.73
154 155 8.447833 ACGAATTGAATTAGTGCGAAAAATAGA 58.552 29.630 2.85 0.00 0.00 1.98
155 156 9.272901 CGAATTGAATTAGTGCGAAAAATAGAA 57.727 29.630 0.00 0.00 0.00 2.10
160 161 9.352784 TGAATTAGTGCGAAAAATAGAAAATGG 57.647 29.630 0.00 0.00 0.00 3.16
161 162 9.567848 GAATTAGTGCGAAAAATAGAAAATGGA 57.432 29.630 0.00 0.00 0.00 3.41
162 163 9.921637 AATTAGTGCGAAAAATAGAAAATGGAA 57.078 25.926 0.00 0.00 0.00 3.53
163 164 9.921637 ATTAGTGCGAAAAATAGAAAATGGAAA 57.078 25.926 0.00 0.00 0.00 3.13
164 165 7.637709 AGTGCGAAAAATAGAAAATGGAAAC 57.362 32.000 0.00 0.00 0.00 2.78
197 198 9.986833 AACTTTTGAACAATTTTAGAAATGTGC 57.013 25.926 0.00 0.00 29.59 4.57
198 199 8.327429 ACTTTTGAACAATTTTAGAAATGTGCG 58.673 29.630 0.00 0.00 28.25 5.34
199 200 7.993821 TTTGAACAATTTTAGAAATGTGCGA 57.006 28.000 0.00 0.00 28.25 5.10
200 201 7.993821 TTGAACAATTTTAGAAATGTGCGAA 57.006 28.000 0.00 0.00 28.25 4.70
201 202 7.388290 TGAACAATTTTAGAAATGTGCGAAC 57.612 32.000 0.00 0.00 28.25 3.95
202 203 6.975197 TGAACAATTTTAGAAATGTGCGAACA 59.025 30.769 0.00 0.00 28.25 3.18
203 204 7.651304 TGAACAATTTTAGAAATGTGCGAACAT 59.349 29.630 2.13 2.13 28.25 2.71
204 205 7.945033 ACAATTTTAGAAATGTGCGAACATT 57.055 28.000 16.39 16.39 41.59 2.71
206 207 8.825745 ACAATTTTAGAAATGTGCGAACATTTT 58.174 25.926 30.45 22.27 46.56 1.82
207 208 9.649024 CAATTTTAGAAATGTGCGAACATTTTT 57.351 25.926 30.45 27.06 46.56 1.94
230 231 8.973835 TTTTAAACTTCACGAATTCTTGTTGT 57.026 26.923 11.31 8.69 0.00 3.32
231 232 7.962934 TTAAACTTCACGAATTCTTGTTGTG 57.037 32.000 11.31 7.76 0.00 3.33
232 233 5.560966 AACTTCACGAATTCTTGTTGTGT 57.439 34.783 11.31 4.57 32.55 3.72
233 234 5.560966 ACTTCACGAATTCTTGTTGTGTT 57.439 34.783 11.31 0.00 32.55 3.32
234 235 6.671614 ACTTCACGAATTCTTGTTGTGTTA 57.328 33.333 11.31 1.51 32.55 2.41
235 236 7.259290 ACTTCACGAATTCTTGTTGTGTTAT 57.741 32.000 11.31 0.00 32.55 1.89
236 237 8.373048 ACTTCACGAATTCTTGTTGTGTTATA 57.627 30.769 11.31 0.00 32.55 0.98
237 238 8.495949 ACTTCACGAATTCTTGTTGTGTTATAG 58.504 33.333 11.31 7.17 32.55 1.31
238 239 7.956420 TCACGAATTCTTGTTGTGTTATAGT 57.044 32.000 11.31 0.00 32.55 2.12
239 240 7.792925 TCACGAATTCTTGTTGTGTTATAGTG 58.207 34.615 11.31 3.51 32.55 2.74
240 241 7.015289 CACGAATTCTTGTTGTGTTATAGTGG 58.985 38.462 3.52 0.00 0.00 4.00
241 242 6.148811 ACGAATTCTTGTTGTGTTATAGTGGG 59.851 38.462 3.52 0.00 0.00 4.61
242 243 5.897377 ATTCTTGTTGTGTTATAGTGGGC 57.103 39.130 0.00 0.00 0.00 5.36
243 244 3.681593 TCTTGTTGTGTTATAGTGGGCC 58.318 45.455 0.00 0.00 0.00 5.80
244 245 2.102070 TGTTGTGTTATAGTGGGCCG 57.898 50.000 0.00 0.00 0.00 6.13
245 246 1.339247 TGTTGTGTTATAGTGGGCCGG 60.339 52.381 0.00 0.00 0.00 6.13
246 247 0.393267 TTGTGTTATAGTGGGCCGGC 60.393 55.000 21.18 21.18 0.00 6.13
247 248 1.525306 GTGTTATAGTGGGCCGGCC 60.525 63.158 38.57 38.57 0.00 6.13
257 258 3.841870 GGCCGGCCCAAATTCTAG 58.158 61.111 36.64 0.00 0.00 2.43
258 259 1.076995 GGCCGGCCCAAATTCTAGT 60.077 57.895 36.64 0.00 0.00 2.57
259 260 1.101635 GGCCGGCCCAAATTCTAGTC 61.102 60.000 36.64 4.14 0.00 2.59
260 261 1.101635 GCCGGCCCAAATTCTAGTCC 61.102 60.000 18.11 0.00 0.00 3.85
261 262 0.814010 CCGGCCCAAATTCTAGTCCG 60.814 60.000 0.00 0.00 35.60 4.79
262 263 0.107848 CGGCCCAAATTCTAGTCCGT 60.108 55.000 0.00 0.00 0.00 4.69
263 264 1.379527 GGCCCAAATTCTAGTCCGTG 58.620 55.000 0.00 0.00 0.00 4.94
264 265 1.065709 GGCCCAAATTCTAGTCCGTGA 60.066 52.381 0.00 0.00 0.00 4.35
265 266 2.280628 GCCCAAATTCTAGTCCGTGAG 58.719 52.381 0.00 0.00 0.00 3.51
266 267 2.093658 GCCCAAATTCTAGTCCGTGAGA 60.094 50.000 0.00 0.00 0.00 3.27
267 268 3.786635 CCCAAATTCTAGTCCGTGAGAG 58.213 50.000 0.00 0.00 0.00 3.20
268 269 3.195825 CCCAAATTCTAGTCCGTGAGAGT 59.804 47.826 0.00 0.00 0.00 3.24
269 270 4.401519 CCCAAATTCTAGTCCGTGAGAGTA 59.598 45.833 0.00 0.00 0.00 2.59
270 271 5.450688 CCCAAATTCTAGTCCGTGAGAGTAG 60.451 48.000 0.00 0.00 46.21 2.57
271 272 4.904253 AATTCTAGTCCGTGAGAGTAGC 57.096 45.455 0.55 0.00 44.99 3.58
272 273 3.630892 TTCTAGTCCGTGAGAGTAGCT 57.369 47.619 0.00 0.00 44.99 3.32
273 274 2.907634 TCTAGTCCGTGAGAGTAGCTG 58.092 52.381 0.00 0.00 44.99 4.24
274 275 1.944024 CTAGTCCGTGAGAGTAGCTGG 59.056 57.143 0.00 0.00 40.74 4.85
275 276 0.328592 AGTCCGTGAGAGTAGCTGGA 59.671 55.000 0.00 0.00 0.00 3.86
276 277 1.174783 GTCCGTGAGAGTAGCTGGAA 58.825 55.000 0.00 0.00 0.00 3.53
277 278 1.751924 GTCCGTGAGAGTAGCTGGAAT 59.248 52.381 0.00 0.00 0.00 3.01
278 279 2.025155 TCCGTGAGAGTAGCTGGAATC 58.975 52.381 0.00 0.00 0.00 2.52
279 280 1.067821 CCGTGAGAGTAGCTGGAATCC 59.932 57.143 0.00 0.00 0.00 3.01
280 281 1.067821 CGTGAGAGTAGCTGGAATCCC 59.932 57.143 0.00 0.00 0.00 3.85
281 282 1.067821 GTGAGAGTAGCTGGAATCCCG 59.932 57.143 0.00 0.00 34.29 5.14
282 283 0.676736 GAGAGTAGCTGGAATCCCGG 59.323 60.000 0.00 0.00 41.93 5.73
296 297 2.108362 CCGGCCGGGATTGTAGTC 59.892 66.667 37.42 0.00 38.47 2.59
297 298 2.432300 CCGGCCGGGATTGTAGTCT 61.432 63.158 37.42 0.00 38.47 3.24
298 299 1.520666 CGGCCGGGATTGTAGTCTT 59.479 57.895 20.10 0.00 0.00 3.01
299 300 0.529992 CGGCCGGGATTGTAGTCTTC 60.530 60.000 20.10 0.00 0.00 2.87
300 301 0.179054 GGCCGGGATTGTAGTCTTCC 60.179 60.000 2.18 0.00 0.00 3.46
301 302 0.179054 GCCGGGATTGTAGTCTTCCC 60.179 60.000 2.18 0.00 44.83 3.97
305 306 1.941325 GGATTGTAGTCTTCCCAGCG 58.059 55.000 0.00 0.00 0.00 5.18
306 307 1.207329 GGATTGTAGTCTTCCCAGCGT 59.793 52.381 0.00 0.00 0.00 5.07
307 308 2.271800 GATTGTAGTCTTCCCAGCGTG 58.728 52.381 0.00 0.00 0.00 5.34
308 309 0.320421 TTGTAGTCTTCCCAGCGTGC 60.320 55.000 0.00 0.00 0.00 5.34
309 310 1.448013 GTAGTCTTCCCAGCGTGCC 60.448 63.158 0.00 0.00 0.00 5.01
310 311 1.911269 TAGTCTTCCCAGCGTGCCA 60.911 57.895 0.00 0.00 0.00 4.92
311 312 1.476845 TAGTCTTCCCAGCGTGCCAA 61.477 55.000 0.00 0.00 0.00 4.52
312 313 1.896660 GTCTTCCCAGCGTGCCAAA 60.897 57.895 0.00 0.00 0.00 3.28
313 314 1.896660 TCTTCCCAGCGTGCCAAAC 60.897 57.895 0.00 0.00 0.00 2.93
314 315 2.124109 TTCCCAGCGTGCCAAACA 60.124 55.556 0.00 0.00 0.00 2.83
315 316 1.526575 CTTCCCAGCGTGCCAAACAT 61.527 55.000 0.00 0.00 0.00 2.71
316 317 1.804396 TTCCCAGCGTGCCAAACATG 61.804 55.000 0.00 0.00 38.41 3.21
317 318 2.563798 CCCAGCGTGCCAAACATGT 61.564 57.895 0.00 0.00 37.62 3.21
318 319 1.081242 CCAGCGTGCCAAACATGTC 60.081 57.895 0.00 0.00 37.62 3.06
319 320 1.518056 CCAGCGTGCCAAACATGTCT 61.518 55.000 0.00 0.00 37.62 3.41
320 321 1.155889 CAGCGTGCCAAACATGTCTA 58.844 50.000 0.00 0.00 37.62 2.59
321 322 1.129251 CAGCGTGCCAAACATGTCTAG 59.871 52.381 0.00 0.00 37.62 2.43
322 323 0.447801 GCGTGCCAAACATGTCTAGG 59.552 55.000 0.00 2.58 37.62 3.02
323 324 1.086696 CGTGCCAAACATGTCTAGGG 58.913 55.000 0.00 0.00 0.00 3.53
324 325 1.610624 CGTGCCAAACATGTCTAGGGT 60.611 52.381 0.00 0.00 0.00 4.34
325 326 2.084546 GTGCCAAACATGTCTAGGGTC 58.915 52.381 0.00 0.00 0.00 4.46
326 327 1.338674 TGCCAAACATGTCTAGGGTCG 60.339 52.381 0.00 0.00 0.00 4.79
327 328 1.066430 GCCAAACATGTCTAGGGTCGA 60.066 52.381 0.00 0.00 0.00 4.20
328 329 2.614481 GCCAAACATGTCTAGGGTCGAA 60.614 50.000 0.00 0.00 0.00 3.71
329 330 3.670625 CCAAACATGTCTAGGGTCGAAA 58.329 45.455 0.00 0.00 0.00 3.46
330 331 4.069304 CCAAACATGTCTAGGGTCGAAAA 58.931 43.478 0.00 0.00 0.00 2.29
331 332 4.700213 CCAAACATGTCTAGGGTCGAAAAT 59.300 41.667 0.00 0.00 0.00 1.82
332 333 5.878116 CCAAACATGTCTAGGGTCGAAAATA 59.122 40.000 0.00 0.00 0.00 1.40
333 334 6.037172 CCAAACATGTCTAGGGTCGAAAATAG 59.963 42.308 0.00 0.00 0.00 1.73
334 335 6.540438 AACATGTCTAGGGTCGAAAATAGA 57.460 37.500 0.00 0.00 0.00 1.98
335 336 6.732896 ACATGTCTAGGGTCGAAAATAGAT 57.267 37.500 0.00 0.00 0.00 1.98
336 337 6.750148 ACATGTCTAGGGTCGAAAATAGATC 58.250 40.000 0.00 0.00 0.00 2.75
337 338 5.434352 TGTCTAGGGTCGAAAATAGATCG 57.566 43.478 5.37 0.00 41.53 3.69
338 339 5.128205 TGTCTAGGGTCGAAAATAGATCGA 58.872 41.667 5.37 0.00 46.18 3.59
350 351 9.234384 TCGAAAATAGATCGAGATTACAAGTTC 57.766 33.333 0.00 0.00 43.76 3.01
351 352 9.020813 CGAAAATAGATCGAGATTACAAGTTCA 57.979 33.333 0.00 0.00 42.76 3.18
354 355 9.743057 AAATAGATCGAGATTACAAGTTCAGAG 57.257 33.333 0.00 0.00 0.00 3.35
355 356 6.767524 AGATCGAGATTACAAGTTCAGAGT 57.232 37.500 0.00 0.00 0.00 3.24
356 357 6.559810 AGATCGAGATTACAAGTTCAGAGTG 58.440 40.000 0.00 0.00 0.00 3.51
357 358 4.486090 TCGAGATTACAAGTTCAGAGTGC 58.514 43.478 0.00 0.00 0.00 4.40
358 359 3.614616 CGAGATTACAAGTTCAGAGTGCC 59.385 47.826 0.00 0.00 0.00 5.01
359 360 4.569943 GAGATTACAAGTTCAGAGTGCCA 58.430 43.478 0.00 0.00 0.00 4.92
360 361 4.973168 AGATTACAAGTTCAGAGTGCCAA 58.027 39.130 0.00 0.00 0.00 4.52
361 362 5.564550 AGATTACAAGTTCAGAGTGCCAAT 58.435 37.500 0.00 0.00 0.00 3.16
362 363 6.006449 AGATTACAAGTTCAGAGTGCCAATT 58.994 36.000 0.00 0.00 0.00 2.32
363 364 6.491403 AGATTACAAGTTCAGAGTGCCAATTT 59.509 34.615 0.00 0.00 0.00 1.82
364 365 4.574599 ACAAGTTCAGAGTGCCAATTTC 57.425 40.909 0.00 0.00 0.00 2.17
365 366 3.319122 ACAAGTTCAGAGTGCCAATTTCC 59.681 43.478 0.00 0.00 0.00 3.13
366 367 2.154462 AGTTCAGAGTGCCAATTTCCG 58.846 47.619 0.00 0.00 0.00 4.30
367 368 1.200020 GTTCAGAGTGCCAATTTCCGG 59.800 52.381 0.00 0.00 0.00 5.14
368 369 0.322456 TCAGAGTGCCAATTTCCGGG 60.322 55.000 0.00 0.00 0.00 5.73
369 370 0.322456 CAGAGTGCCAATTTCCGGGA 60.322 55.000 0.00 0.00 0.00 5.14
370 371 0.625849 AGAGTGCCAATTTCCGGGAT 59.374 50.000 0.00 0.00 0.00 3.85
371 372 1.005924 AGAGTGCCAATTTCCGGGATT 59.994 47.619 0.00 0.00 0.00 3.01
372 373 1.405463 GAGTGCCAATTTCCGGGATTC 59.595 52.381 0.00 0.00 0.00 2.52
373 374 1.181786 GTGCCAATTTCCGGGATTCA 58.818 50.000 0.00 0.00 0.00 2.57
374 375 1.548269 GTGCCAATTTCCGGGATTCAA 59.452 47.619 0.00 0.00 0.00 2.69
375 376 2.028567 GTGCCAATTTCCGGGATTCAAA 60.029 45.455 0.00 0.00 0.00 2.69
376 377 2.233431 TGCCAATTTCCGGGATTCAAAG 59.767 45.455 0.00 0.00 0.00 2.77
377 378 2.233676 GCCAATTTCCGGGATTCAAAGT 59.766 45.455 0.00 0.00 0.00 2.66
378 379 3.306710 GCCAATTTCCGGGATTCAAAGTT 60.307 43.478 0.00 0.00 0.00 2.66
379 380 4.494484 CCAATTTCCGGGATTCAAAGTTC 58.506 43.478 0.00 0.00 0.00 3.01
380 381 4.021544 CCAATTTCCGGGATTCAAAGTTCA 60.022 41.667 0.00 0.00 0.00 3.18
381 382 5.163513 CAATTTCCGGGATTCAAAGTTCAG 58.836 41.667 0.00 0.00 0.00 3.02
382 383 2.489938 TCCGGGATTCAAAGTTCAGG 57.510 50.000 0.00 0.00 0.00 3.86
383 384 1.004277 TCCGGGATTCAAAGTTCAGGG 59.996 52.381 0.00 0.00 0.00 4.45
384 385 1.271926 CCGGGATTCAAAGTTCAGGGT 60.272 52.381 0.00 0.00 0.00 4.34
385 386 2.514803 CGGGATTCAAAGTTCAGGGTT 58.485 47.619 0.00 0.00 0.00 4.11
386 387 2.890945 CGGGATTCAAAGTTCAGGGTTT 59.109 45.455 0.00 0.00 0.00 3.27
387 388 3.305335 CGGGATTCAAAGTTCAGGGTTTG 60.305 47.826 0.00 0.00 35.38 2.93
388 389 3.895041 GGGATTCAAAGTTCAGGGTTTGA 59.105 43.478 0.00 0.00 40.16 2.69
389 390 4.528206 GGGATTCAAAGTTCAGGGTTTGAT 59.472 41.667 0.00 0.00 41.20 2.57
390 391 5.012046 GGGATTCAAAGTTCAGGGTTTGATT 59.988 40.000 0.00 0.00 41.20 2.57
391 392 6.464322 GGGATTCAAAGTTCAGGGTTTGATTT 60.464 38.462 0.00 0.00 41.20 2.17
392 393 7.256154 GGGATTCAAAGTTCAGGGTTTGATTTA 60.256 37.037 0.00 0.00 41.20 1.40
393 394 7.814587 GGATTCAAAGTTCAGGGTTTGATTTAG 59.185 37.037 0.00 0.00 41.20 1.85
394 395 6.648879 TCAAAGTTCAGGGTTTGATTTAGG 57.351 37.500 0.00 0.00 37.67 2.69
395 396 6.133356 TCAAAGTTCAGGGTTTGATTTAGGT 58.867 36.000 0.00 0.00 37.67 3.08
396 397 6.609616 TCAAAGTTCAGGGTTTGATTTAGGTT 59.390 34.615 0.00 0.00 37.67 3.50
397 398 7.125053 TCAAAGTTCAGGGTTTGATTTAGGTTT 59.875 33.333 0.00 0.00 37.67 3.27
398 399 6.650427 AGTTCAGGGTTTGATTTAGGTTTC 57.350 37.500 0.00 0.00 35.27 2.78
399 400 6.133356 AGTTCAGGGTTTGATTTAGGTTTCA 58.867 36.000 0.00 0.00 35.27 2.69
400 401 6.782494 AGTTCAGGGTTTGATTTAGGTTTCAT 59.218 34.615 0.00 0.00 35.27 2.57
401 402 6.834168 TCAGGGTTTGATTTAGGTTTCATC 57.166 37.500 0.00 0.00 0.00 2.92
402 403 6.552008 TCAGGGTTTGATTTAGGTTTCATCT 58.448 36.000 0.00 0.00 0.00 2.90
403 404 7.695055 TCAGGGTTTGATTTAGGTTTCATCTA 58.305 34.615 0.00 0.00 0.00 1.98
404 405 7.610305 TCAGGGTTTGATTTAGGTTTCATCTAC 59.390 37.037 0.00 0.00 0.00 2.59
405 406 7.393234 CAGGGTTTGATTTAGGTTTCATCTACA 59.607 37.037 0.00 0.00 0.00 2.74
406 407 7.947890 AGGGTTTGATTTAGGTTTCATCTACAA 59.052 33.333 0.00 0.00 0.00 2.41
407 408 8.027189 GGGTTTGATTTAGGTTTCATCTACAAC 58.973 37.037 0.00 0.00 0.00 3.32
408 409 8.793592 GGTTTGATTTAGGTTTCATCTACAACT 58.206 33.333 0.00 0.00 0.00 3.16
411 412 9.567776 TTGATTTAGGTTTCATCTACAACTTCA 57.432 29.630 0.00 0.00 0.00 3.02
412 413 9.567776 TGATTTAGGTTTCATCTACAACTTCAA 57.432 29.630 0.00 0.00 0.00 2.69
414 415 7.979444 TTAGGTTTCATCTACAACTTCAAGG 57.021 36.000 0.00 0.00 0.00 3.61
415 416 5.941788 AGGTTTCATCTACAACTTCAAGGT 58.058 37.500 0.00 0.00 0.00 3.50
416 417 6.365520 AGGTTTCATCTACAACTTCAAGGTT 58.634 36.000 0.00 0.00 0.00 3.50
417 418 6.833933 AGGTTTCATCTACAACTTCAAGGTTT 59.166 34.615 0.00 0.00 0.00 3.27
418 419 7.342026 AGGTTTCATCTACAACTTCAAGGTTTT 59.658 33.333 0.00 0.00 0.00 2.43
419 420 7.979537 GGTTTCATCTACAACTTCAAGGTTTTT 59.020 33.333 0.00 0.00 0.00 1.94
456 457 5.655532 TGAACTCGTAGACCCTAGCTAAATT 59.344 40.000 0.00 0.00 0.00 1.82
478 479 2.766828 CGAACCCTCAACTCCTAATCCT 59.233 50.000 0.00 0.00 0.00 3.24
502 503 4.081972 GGTAATCAGCACTCTCAACTCTCA 60.082 45.833 0.00 0.00 0.00 3.27
718 728 2.586792 GCATTCCCCTGCTCGAGT 59.413 61.111 15.13 0.00 39.12 4.18
821 831 0.476338 CTCCGATCTCCTCCTCCTCA 59.524 60.000 0.00 0.00 0.00 3.86
868 878 4.528920 TGCACTGTTACTGTTAGGGTTTT 58.471 39.130 0.00 0.00 0.00 2.43
943 955 6.250527 CGATTTTCTGTTCGTTTTTGTCAGTT 59.749 34.615 0.00 0.00 0.00 3.16
1020 1033 5.359194 TCATGGACCCTAGTGAGATTTTC 57.641 43.478 0.00 0.00 0.00 2.29
1028 1041 6.725364 ACCCTAGTGAGATTTTCAATGTCAT 58.275 36.000 0.18 0.00 37.61 3.06
1320 1343 1.303898 TGGAATACCATGGGGAGCAA 58.696 50.000 18.09 0.00 41.77 3.91
1342 1365 3.882888 AGATAGTGAGAGTAGCAGCAGTC 59.117 47.826 0.00 0.00 0.00 3.51
1350 1373 2.755655 GAGTAGCAGCAGTCCTAGTGAA 59.244 50.000 0.00 0.00 0.00 3.18
1502 1525 0.459489 GCAAGCAAAACCACAGTGGA 59.541 50.000 27.39 0.00 40.96 4.02
1544 1567 6.374333 GTGGCAGGAACTCAGTTGATATTTTA 59.626 38.462 0.00 0.00 34.60 1.52
1716 1834 5.242393 ACAATGCAGTTTCAGCTAGTGATTT 59.758 36.000 0.00 0.00 34.17 2.17
1806 1924 7.065216 TCAGAAGACATGCTCGAAAATTTAG 57.935 36.000 0.00 0.00 0.00 1.85
1828 1946 8.789767 TTAGGAAGAGGATGAGAGATACAAAT 57.210 34.615 0.00 0.00 0.00 2.32
1851 1969 1.927487 TGGCTTGCAGGTGATTCAAT 58.073 45.000 0.00 0.00 0.00 2.57
1913 2031 5.213868 TCAGTTAGAGGGAGAGGAGAAAT 57.786 43.478 0.00 0.00 0.00 2.17
1975 2094 3.054213 TGAAGATTCTGATGGGCACATGA 60.054 43.478 5.94 0.00 37.47 3.07
2222 2342 4.936891 AGAACAAGCAGGTTTCAAATCAC 58.063 39.130 0.00 0.00 0.00 3.06
2283 2403 6.407525 GGGAGAACAGACTTGTGATAGCTAAT 60.408 42.308 0.00 0.00 37.67 1.73
2437 2557 3.585289 TGTCATGGACAAGTTAAGGGCTA 59.415 43.478 0.00 0.00 39.78 3.93
2500 2620 6.490721 GCTGGAGCTACTTAGAAGTAATCCTA 59.509 42.308 22.11 13.78 42.43 2.94
2672 2792 4.202357 TGTCAAAGGAGAGCTATTGTGTGT 60.202 41.667 0.00 0.00 0.00 3.72
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
63 64 9.844790 CACAAAATCAACTCTATTAGCATTTCA 57.155 29.630 0.00 0.00 0.00 2.69
64 65 8.801913 GCACAAAATCAACTCTATTAGCATTTC 58.198 33.333 0.00 0.00 0.00 2.17
65 66 7.485913 CGCACAAAATCAACTCTATTAGCATTT 59.514 33.333 0.00 0.00 0.00 2.32
66 67 6.968904 CGCACAAAATCAACTCTATTAGCATT 59.031 34.615 0.00 0.00 0.00 3.56
67 68 6.316140 TCGCACAAAATCAACTCTATTAGCAT 59.684 34.615 0.00 0.00 0.00 3.79
68 69 5.641636 TCGCACAAAATCAACTCTATTAGCA 59.358 36.000 0.00 0.00 0.00 3.49
69 70 6.106877 TCGCACAAAATCAACTCTATTAGC 57.893 37.500 0.00 0.00 0.00 3.09
70 71 8.015087 TGTTTCGCACAAAATCAACTCTATTAG 58.985 33.333 0.00 0.00 29.87 1.73
71 72 7.801315 GTGTTTCGCACAAAATCAACTCTATTA 59.199 33.333 0.00 0.00 46.91 0.98
72 73 6.636850 GTGTTTCGCACAAAATCAACTCTATT 59.363 34.615 0.00 0.00 46.91 1.73
73 74 6.142817 GTGTTTCGCACAAAATCAACTCTAT 58.857 36.000 0.00 0.00 46.91 1.98
74 75 5.507077 GTGTTTCGCACAAAATCAACTCTA 58.493 37.500 0.00 0.00 46.91 2.43
75 76 4.351192 GTGTTTCGCACAAAATCAACTCT 58.649 39.130 0.00 0.00 46.91 3.24
76 77 4.676061 GTGTTTCGCACAAAATCAACTC 57.324 40.909 0.00 0.00 46.91 3.01
88 89 4.245660 TGTTTGGAATTTTGTGTTTCGCA 58.754 34.783 0.00 0.00 0.00 5.10
89 90 4.328712 ACTGTTTGGAATTTTGTGTTTCGC 59.671 37.500 0.00 0.00 0.00 4.70
90 91 5.804979 AGACTGTTTGGAATTTTGTGTTTCG 59.195 36.000 0.00 0.00 0.00 3.46
91 92 7.595311 AAGACTGTTTGGAATTTTGTGTTTC 57.405 32.000 0.00 0.00 0.00 2.78
92 93 7.977789 AAAGACTGTTTGGAATTTTGTGTTT 57.022 28.000 0.00 0.00 0.00 2.83
93 94 7.977789 AAAAGACTGTTTGGAATTTTGTGTT 57.022 28.000 0.00 0.00 0.00 3.32
94 95 9.495572 TTTAAAAGACTGTTTGGAATTTTGTGT 57.504 25.926 0.00 0.00 0.00 3.72
104 105 9.894439 CGTTTTGTATTTTAAAAGACTGTTTGG 57.106 29.630 22.37 7.66 31.71 3.28
119 120 8.635124 CGCACTAATTCAATTCGTTTTGTATTT 58.365 29.630 9.03 2.61 31.61 1.40
120 121 8.018520 TCGCACTAATTCAATTCGTTTTGTATT 58.981 29.630 0.00 8.84 33.14 1.89
121 122 7.523219 TCGCACTAATTCAATTCGTTTTGTAT 58.477 30.769 0.00 0.00 0.00 2.29
122 123 6.889494 TCGCACTAATTCAATTCGTTTTGTA 58.111 32.000 0.00 0.00 0.00 2.41
123 124 5.753744 TCGCACTAATTCAATTCGTTTTGT 58.246 33.333 0.00 0.00 0.00 2.83
124 125 6.667981 TTCGCACTAATTCAATTCGTTTTG 57.332 33.333 0.00 0.00 0.00 2.44
125 126 7.687005 TTTTCGCACTAATTCAATTCGTTTT 57.313 28.000 0.00 0.00 0.00 2.43
126 127 7.687005 TTTTTCGCACTAATTCAATTCGTTT 57.313 28.000 0.00 0.00 0.00 3.60
127 128 7.867445 ATTTTTCGCACTAATTCAATTCGTT 57.133 28.000 0.00 0.00 0.00 3.85
128 129 8.447833 TCTATTTTTCGCACTAATTCAATTCGT 58.552 29.630 0.00 0.00 0.00 3.85
129 130 8.820628 TCTATTTTTCGCACTAATTCAATTCG 57.179 30.769 0.00 0.00 0.00 3.34
134 135 9.352784 CCATTTTCTATTTTTCGCACTAATTCA 57.647 29.630 0.00 0.00 0.00 2.57
135 136 9.567848 TCCATTTTCTATTTTTCGCACTAATTC 57.432 29.630 0.00 0.00 0.00 2.17
136 137 9.921637 TTCCATTTTCTATTTTTCGCACTAATT 57.078 25.926 0.00 0.00 0.00 1.40
137 138 9.921637 TTTCCATTTTCTATTTTTCGCACTAAT 57.078 25.926 0.00 0.00 0.00 1.73
138 139 9.187455 GTTTCCATTTTCTATTTTTCGCACTAA 57.813 29.630 0.00 0.00 0.00 2.24
139 140 8.353684 TGTTTCCATTTTCTATTTTTCGCACTA 58.646 29.630 0.00 0.00 0.00 2.74
140 141 7.206687 TGTTTCCATTTTCTATTTTTCGCACT 58.793 30.769 0.00 0.00 0.00 4.40
141 142 7.401484 TGTTTCCATTTTCTATTTTTCGCAC 57.599 32.000 0.00 0.00 0.00 5.34
142 143 8.600449 AATGTTTCCATTTTCTATTTTTCGCA 57.400 26.923 0.00 0.00 38.10 5.10
171 172 9.986833 GCACATTTCTAAAATTGTTCAAAAGTT 57.013 25.926 0.00 0.00 28.93 2.66
172 173 8.327429 CGCACATTTCTAAAATTGTTCAAAAGT 58.673 29.630 0.00 0.00 28.93 2.66
173 174 8.538856 TCGCACATTTCTAAAATTGTTCAAAAG 58.461 29.630 0.00 0.00 28.93 2.27
174 175 8.412608 TCGCACATTTCTAAAATTGTTCAAAA 57.587 26.923 0.00 0.00 28.93 2.44
175 176 7.993821 TCGCACATTTCTAAAATTGTTCAAA 57.006 28.000 0.00 0.00 28.93 2.69
176 177 7.489435 TGTTCGCACATTTCTAAAATTGTTCAA 59.511 29.630 0.00 0.00 28.93 2.69
177 178 6.975197 TGTTCGCACATTTCTAAAATTGTTCA 59.025 30.769 0.00 0.00 28.93 3.18
178 179 7.388290 TGTTCGCACATTTCTAAAATTGTTC 57.612 32.000 0.00 0.00 28.93 3.18
179 180 7.945033 ATGTTCGCACATTTCTAAAATTGTT 57.055 28.000 0.00 0.00 41.16 2.83
204 205 9.413048 ACAACAAGAATTCGTGAAGTTTAAAAA 57.587 25.926 25.27 0.00 0.00 1.94
205 206 8.855279 CACAACAAGAATTCGTGAAGTTTAAAA 58.145 29.630 25.27 0.00 0.00 1.52
206 207 8.024285 ACACAACAAGAATTCGTGAAGTTTAAA 58.976 29.630 25.27 0.00 0.00 1.52
207 208 7.531716 ACACAACAAGAATTCGTGAAGTTTAA 58.468 30.769 25.27 0.00 0.00 1.52
208 209 7.079182 ACACAACAAGAATTCGTGAAGTTTA 57.921 32.000 25.27 0.00 0.00 2.01
209 210 5.949735 ACACAACAAGAATTCGTGAAGTTT 58.050 33.333 25.27 13.69 0.00 2.66
210 211 5.560966 ACACAACAAGAATTCGTGAAGTT 57.439 34.783 25.27 11.89 0.00 2.66
211 212 5.560966 AACACAACAAGAATTCGTGAAGT 57.439 34.783 25.27 18.86 0.00 3.01
212 213 8.495949 ACTATAACACAACAAGAATTCGTGAAG 58.504 33.333 25.27 18.32 0.00 3.02
213 214 8.279800 CACTATAACACAACAAGAATTCGTGAA 58.720 33.333 25.27 9.56 0.00 3.18
214 215 7.095397 CCACTATAACACAACAAGAATTCGTGA 60.095 37.037 25.27 4.03 0.00 4.35
215 216 7.015289 CCACTATAACACAACAAGAATTCGTG 58.985 38.462 18.27 18.27 0.00 4.35
216 217 6.148811 CCCACTATAACACAACAAGAATTCGT 59.851 38.462 0.00 0.00 0.00 3.85
217 218 6.542852 CCCACTATAACACAACAAGAATTCG 58.457 40.000 0.00 0.00 0.00 3.34
218 219 6.322491 GCCCACTATAACACAACAAGAATTC 58.678 40.000 0.00 0.00 0.00 2.17
219 220 5.185056 GGCCCACTATAACACAACAAGAATT 59.815 40.000 0.00 0.00 0.00 2.17
220 221 4.705023 GGCCCACTATAACACAACAAGAAT 59.295 41.667 0.00 0.00 0.00 2.40
221 222 4.076394 GGCCCACTATAACACAACAAGAA 58.924 43.478 0.00 0.00 0.00 2.52
222 223 3.681593 GGCCCACTATAACACAACAAGA 58.318 45.455 0.00 0.00 0.00 3.02
223 224 2.418628 CGGCCCACTATAACACAACAAG 59.581 50.000 0.00 0.00 0.00 3.16
224 225 2.428491 CGGCCCACTATAACACAACAA 58.572 47.619 0.00 0.00 0.00 2.83
225 226 1.339247 CCGGCCCACTATAACACAACA 60.339 52.381 0.00 0.00 0.00 3.33
226 227 1.375551 CCGGCCCACTATAACACAAC 58.624 55.000 0.00 0.00 0.00 3.32
227 228 0.393267 GCCGGCCCACTATAACACAA 60.393 55.000 18.11 0.00 0.00 3.33
228 229 1.222387 GCCGGCCCACTATAACACA 59.778 57.895 18.11 0.00 0.00 3.72
229 230 1.525306 GGCCGGCCCACTATAACAC 60.525 63.158 36.64 4.38 0.00 3.32
230 231 2.912714 GGCCGGCCCACTATAACA 59.087 61.111 36.64 0.00 0.00 2.41
240 241 1.076995 ACTAGAATTTGGGCCGGCC 60.077 57.895 38.57 38.57 0.00 6.13
241 242 1.101635 GGACTAGAATTTGGGCCGGC 61.102 60.000 21.18 21.18 0.00 6.13
242 243 0.814010 CGGACTAGAATTTGGGCCGG 60.814 60.000 11.19 0.00 34.08 6.13
243 244 0.107848 ACGGACTAGAATTTGGGCCG 60.108 55.000 15.66 15.66 42.64 6.13
244 245 1.065709 TCACGGACTAGAATTTGGGCC 60.066 52.381 0.00 0.00 0.00 5.80
245 246 2.093658 TCTCACGGACTAGAATTTGGGC 60.094 50.000 0.00 0.00 0.00 5.36
246 247 3.195825 ACTCTCACGGACTAGAATTTGGG 59.804 47.826 0.00 0.00 0.00 4.12
247 248 4.457834 ACTCTCACGGACTAGAATTTGG 57.542 45.455 0.00 0.00 0.00 3.28
248 249 5.038033 GCTACTCTCACGGACTAGAATTTG 58.962 45.833 0.00 0.00 0.00 2.32
249 250 4.951094 AGCTACTCTCACGGACTAGAATTT 59.049 41.667 0.00 0.00 0.00 1.82
250 251 4.336993 CAGCTACTCTCACGGACTAGAATT 59.663 45.833 0.00 0.00 0.00 2.17
251 252 3.880490 CAGCTACTCTCACGGACTAGAAT 59.120 47.826 0.00 0.00 0.00 2.40
252 253 3.271729 CAGCTACTCTCACGGACTAGAA 58.728 50.000 0.00 0.00 0.00 2.10
253 254 2.420269 CCAGCTACTCTCACGGACTAGA 60.420 54.545 0.00 0.00 0.00 2.43
254 255 1.944024 CCAGCTACTCTCACGGACTAG 59.056 57.143 0.00 0.00 0.00 2.57
255 256 1.558294 TCCAGCTACTCTCACGGACTA 59.442 52.381 0.00 0.00 0.00 2.59
256 257 0.328592 TCCAGCTACTCTCACGGACT 59.671 55.000 0.00 0.00 0.00 3.85
257 258 1.174783 TTCCAGCTACTCTCACGGAC 58.825 55.000 0.00 0.00 0.00 4.79
258 259 2.025155 GATTCCAGCTACTCTCACGGA 58.975 52.381 0.00 0.00 0.00 4.69
259 260 1.067821 GGATTCCAGCTACTCTCACGG 59.932 57.143 0.00 0.00 0.00 4.94
260 261 1.067821 GGGATTCCAGCTACTCTCACG 59.932 57.143 4.80 0.00 0.00 4.35
261 262 1.067821 CGGGATTCCAGCTACTCTCAC 59.932 57.143 4.80 0.00 0.00 3.51
262 263 1.403814 CGGGATTCCAGCTACTCTCA 58.596 55.000 4.80 0.00 0.00 3.27
263 264 0.676736 CCGGGATTCCAGCTACTCTC 59.323 60.000 4.80 0.00 0.00 3.20
264 265 1.403687 GCCGGGATTCCAGCTACTCT 61.404 60.000 2.18 0.00 33.72 3.24
265 266 1.069935 GCCGGGATTCCAGCTACTC 59.930 63.158 2.18 0.00 33.72 2.59
266 267 2.444256 GGCCGGGATTCCAGCTACT 61.444 63.158 2.18 0.00 36.69 2.57
267 268 2.111251 GGCCGGGATTCCAGCTAC 59.889 66.667 2.18 0.02 36.69 3.58
268 269 3.546543 CGGCCGGGATTCCAGCTA 61.547 66.667 20.10 0.00 36.69 3.32
279 280 1.968050 AAGACTACAATCCCGGCCGG 61.968 60.000 37.99 37.99 0.00 6.13
280 281 0.529992 GAAGACTACAATCCCGGCCG 60.530 60.000 21.04 21.04 0.00 6.13
281 282 0.179054 GGAAGACTACAATCCCGGCC 60.179 60.000 0.00 0.00 0.00 6.13
282 283 0.179054 GGGAAGACTACAATCCCGGC 60.179 60.000 0.00 0.00 43.20 6.13
286 287 1.207329 ACGCTGGGAAGACTACAATCC 59.793 52.381 0.00 0.00 0.00 3.01
287 288 2.271800 CACGCTGGGAAGACTACAATC 58.728 52.381 0.00 0.00 0.00 2.67
288 289 1.676014 GCACGCTGGGAAGACTACAAT 60.676 52.381 0.00 0.00 0.00 2.71
289 290 0.320421 GCACGCTGGGAAGACTACAA 60.320 55.000 0.00 0.00 0.00 2.41
290 291 1.292223 GCACGCTGGGAAGACTACA 59.708 57.895 0.00 0.00 0.00 2.74
291 292 1.448013 GGCACGCTGGGAAGACTAC 60.448 63.158 0.00 0.00 0.00 2.73
292 293 1.476845 TTGGCACGCTGGGAAGACTA 61.477 55.000 0.00 0.00 0.00 2.59
293 294 2.337879 TTTGGCACGCTGGGAAGACT 62.338 55.000 0.00 0.00 0.00 3.24
294 295 1.896660 TTTGGCACGCTGGGAAGAC 60.897 57.895 0.00 0.00 0.00 3.01
295 296 1.896660 GTTTGGCACGCTGGGAAGA 60.897 57.895 0.00 0.00 0.00 2.87
296 297 1.526575 ATGTTTGGCACGCTGGGAAG 61.527 55.000 0.00 0.00 0.00 3.46
297 298 1.530419 ATGTTTGGCACGCTGGGAA 60.530 52.632 0.00 0.00 0.00 3.97
298 299 2.115052 ATGTTTGGCACGCTGGGA 59.885 55.556 0.00 0.00 0.00 4.37
299 300 2.259204 CATGTTTGGCACGCTGGG 59.741 61.111 0.00 0.00 0.00 4.45
300 301 1.081242 GACATGTTTGGCACGCTGG 60.081 57.895 0.00 0.00 0.00 4.85
301 302 1.129251 CTAGACATGTTTGGCACGCTG 59.871 52.381 0.00 0.00 30.96 5.18
302 303 1.442769 CTAGACATGTTTGGCACGCT 58.557 50.000 0.00 0.00 30.96 5.07
303 304 0.447801 CCTAGACATGTTTGGCACGC 59.552 55.000 0.00 0.00 30.96 5.34
304 305 1.086696 CCCTAGACATGTTTGGCACG 58.913 55.000 0.00 0.00 30.96 5.34
305 306 2.084546 GACCCTAGACATGTTTGGCAC 58.915 52.381 0.00 0.00 30.96 5.01
306 307 1.338674 CGACCCTAGACATGTTTGGCA 60.339 52.381 0.00 0.00 30.96 4.92
307 308 1.066430 TCGACCCTAGACATGTTTGGC 60.066 52.381 0.00 0.00 0.00 4.52
308 309 3.328382 TTCGACCCTAGACATGTTTGG 57.672 47.619 0.00 2.72 0.00 3.28
309 310 5.880054 ATTTTCGACCCTAGACATGTTTG 57.120 39.130 0.00 0.00 0.00 2.93
310 311 6.942976 TCTATTTTCGACCCTAGACATGTTT 58.057 36.000 0.00 0.00 0.00 2.83
311 312 6.540438 TCTATTTTCGACCCTAGACATGTT 57.460 37.500 0.00 0.00 0.00 2.71
312 313 6.515200 CGATCTATTTTCGACCCTAGACATGT 60.515 42.308 0.00 0.00 38.88 3.21
313 314 5.859114 CGATCTATTTTCGACCCTAGACATG 59.141 44.000 0.00 0.00 38.88 3.21
314 315 5.768662 TCGATCTATTTTCGACCCTAGACAT 59.231 40.000 0.00 0.00 40.44 3.06
315 316 5.128205 TCGATCTATTTTCGACCCTAGACA 58.872 41.667 0.00 0.00 40.44 3.41
316 317 5.469421 TCTCGATCTATTTTCGACCCTAGAC 59.531 44.000 0.00 0.00 40.44 2.59
317 318 5.618236 TCTCGATCTATTTTCGACCCTAGA 58.382 41.667 0.00 0.00 40.44 2.43
318 319 5.943706 TCTCGATCTATTTTCGACCCTAG 57.056 43.478 0.00 0.00 40.44 3.02
319 320 6.896021 AATCTCGATCTATTTTCGACCCTA 57.104 37.500 0.00 0.00 40.44 3.53
320 321 5.793030 AATCTCGATCTATTTTCGACCCT 57.207 39.130 0.00 0.00 40.44 4.34
321 322 6.444633 TGTAATCTCGATCTATTTTCGACCC 58.555 40.000 0.00 0.00 40.44 4.46
322 323 7.648510 ACTTGTAATCTCGATCTATTTTCGACC 59.351 37.037 0.00 0.00 40.44 4.79
323 324 8.563289 ACTTGTAATCTCGATCTATTTTCGAC 57.437 34.615 0.00 0.00 40.44 4.20
324 325 9.234384 GAACTTGTAATCTCGATCTATTTTCGA 57.766 33.333 0.00 0.00 42.87 3.71
325 326 9.020813 TGAACTTGTAATCTCGATCTATTTTCG 57.979 33.333 0.00 0.00 37.94 3.46
328 329 9.743057 CTCTGAACTTGTAATCTCGATCTATTT 57.257 33.333 0.00 0.00 0.00 1.40
329 330 8.908903 ACTCTGAACTTGTAATCTCGATCTATT 58.091 33.333 0.00 0.00 0.00 1.73
330 331 8.349245 CACTCTGAACTTGTAATCTCGATCTAT 58.651 37.037 0.00 0.00 0.00 1.98
331 332 7.679875 GCACTCTGAACTTGTAATCTCGATCTA 60.680 40.741 0.00 0.00 0.00 1.98
332 333 6.559810 CACTCTGAACTTGTAATCTCGATCT 58.440 40.000 0.00 0.00 0.00 2.75
333 334 5.231147 GCACTCTGAACTTGTAATCTCGATC 59.769 44.000 0.00 0.00 0.00 3.69
334 335 5.105752 GCACTCTGAACTTGTAATCTCGAT 58.894 41.667 0.00 0.00 0.00 3.59
335 336 4.486090 GCACTCTGAACTTGTAATCTCGA 58.514 43.478 0.00 0.00 0.00 4.04
336 337 3.614616 GGCACTCTGAACTTGTAATCTCG 59.385 47.826 0.00 0.00 0.00 4.04
337 338 4.569943 TGGCACTCTGAACTTGTAATCTC 58.430 43.478 0.00 0.00 0.00 2.75
338 339 4.623932 TGGCACTCTGAACTTGTAATCT 57.376 40.909 0.00 0.00 0.00 2.40
339 340 5.886960 ATTGGCACTCTGAACTTGTAATC 57.113 39.130 0.00 0.00 0.00 1.75
340 341 6.294731 GGAAATTGGCACTCTGAACTTGTAAT 60.295 38.462 0.00 0.00 0.00 1.89
341 342 5.009610 GGAAATTGGCACTCTGAACTTGTAA 59.990 40.000 0.00 0.00 0.00 2.41
342 343 4.518970 GGAAATTGGCACTCTGAACTTGTA 59.481 41.667 0.00 0.00 0.00 2.41
343 344 3.319122 GGAAATTGGCACTCTGAACTTGT 59.681 43.478 0.00 0.00 0.00 3.16
344 345 3.610114 CGGAAATTGGCACTCTGAACTTG 60.610 47.826 0.00 0.00 0.00 3.16
345 346 2.554032 CGGAAATTGGCACTCTGAACTT 59.446 45.455 0.00 0.00 0.00 2.66
346 347 2.154462 CGGAAATTGGCACTCTGAACT 58.846 47.619 0.00 0.00 0.00 3.01
347 348 1.200020 CCGGAAATTGGCACTCTGAAC 59.800 52.381 0.00 0.00 0.00 3.18
348 349 1.533625 CCGGAAATTGGCACTCTGAA 58.466 50.000 0.00 0.00 0.00 3.02
349 350 0.322456 CCCGGAAATTGGCACTCTGA 60.322 55.000 0.73 0.00 0.00 3.27
350 351 0.322456 TCCCGGAAATTGGCACTCTG 60.322 55.000 0.73 0.00 0.00 3.35
351 352 0.625849 ATCCCGGAAATTGGCACTCT 59.374 50.000 0.73 0.00 0.00 3.24
352 353 1.405463 GAATCCCGGAAATTGGCACTC 59.595 52.381 0.73 0.00 0.00 3.51
353 354 1.272425 TGAATCCCGGAAATTGGCACT 60.272 47.619 0.73 0.00 0.00 4.40
354 355 1.181786 TGAATCCCGGAAATTGGCAC 58.818 50.000 0.73 0.00 0.00 5.01
355 356 1.930251 TTGAATCCCGGAAATTGGCA 58.070 45.000 0.73 0.00 0.00 4.92
356 357 2.233676 ACTTTGAATCCCGGAAATTGGC 59.766 45.455 0.73 0.00 0.00 4.52
357 358 4.021544 TGAACTTTGAATCCCGGAAATTGG 60.022 41.667 0.73 0.00 0.00 3.16
358 359 5.132897 TGAACTTTGAATCCCGGAAATTG 57.867 39.130 0.73 0.00 0.00 2.32
359 360 4.220602 CCTGAACTTTGAATCCCGGAAATT 59.779 41.667 0.73 1.59 0.00 1.82
360 361 3.763897 CCTGAACTTTGAATCCCGGAAAT 59.236 43.478 0.73 0.00 0.00 2.17
361 362 3.153919 CCTGAACTTTGAATCCCGGAAA 58.846 45.455 0.73 0.00 0.00 3.13
362 363 2.554344 CCCTGAACTTTGAATCCCGGAA 60.554 50.000 0.73 0.00 0.00 4.30
363 364 1.004277 CCCTGAACTTTGAATCCCGGA 59.996 52.381 0.73 0.00 0.00 5.14
364 365 1.271926 ACCCTGAACTTTGAATCCCGG 60.272 52.381 0.00 0.00 0.00 5.73
365 366 2.200373 ACCCTGAACTTTGAATCCCG 57.800 50.000 0.00 0.00 0.00 5.14
366 367 3.895041 TCAAACCCTGAACTTTGAATCCC 59.105 43.478 0.00 0.00 34.24 3.85
367 368 5.728637 ATCAAACCCTGAACTTTGAATCC 57.271 39.130 0.00 0.00 39.28 3.01
368 369 7.814587 CCTAAATCAAACCCTGAACTTTGAATC 59.185 37.037 0.00 0.00 39.28 2.52
369 370 7.290014 ACCTAAATCAAACCCTGAACTTTGAAT 59.710 33.333 0.00 0.00 39.28 2.57
370 371 6.609616 ACCTAAATCAAACCCTGAACTTTGAA 59.390 34.615 0.00 0.00 39.28 2.69
371 372 6.133356 ACCTAAATCAAACCCTGAACTTTGA 58.867 36.000 0.00 0.00 39.95 2.69
372 373 6.405278 ACCTAAATCAAACCCTGAACTTTG 57.595 37.500 0.00 0.00 37.67 2.77
373 374 7.125053 TGAAACCTAAATCAAACCCTGAACTTT 59.875 33.333 0.00 0.00 37.67 2.66
374 375 6.609616 TGAAACCTAAATCAAACCCTGAACTT 59.390 34.615 0.00 0.00 37.67 2.66
375 376 6.133356 TGAAACCTAAATCAAACCCTGAACT 58.867 36.000 0.00 0.00 37.67 3.01
376 377 6.399639 TGAAACCTAAATCAAACCCTGAAC 57.600 37.500 0.00 0.00 37.67 3.18
377 378 7.010160 AGATGAAACCTAAATCAAACCCTGAA 58.990 34.615 0.00 0.00 37.67 3.02
378 379 6.552008 AGATGAAACCTAAATCAAACCCTGA 58.448 36.000 0.00 0.00 38.81 3.86
379 380 6.840780 AGATGAAACCTAAATCAAACCCTG 57.159 37.500 0.00 0.00 0.00 4.45
380 381 7.466804 TGTAGATGAAACCTAAATCAAACCCT 58.533 34.615 0.00 0.00 0.00 4.34
381 382 7.696992 TGTAGATGAAACCTAAATCAAACCC 57.303 36.000 0.00 0.00 0.00 4.11
382 383 8.793592 AGTTGTAGATGAAACCTAAATCAAACC 58.206 33.333 0.00 0.00 0.00 3.27
385 386 9.567776 TGAAGTTGTAGATGAAACCTAAATCAA 57.432 29.630 0.00 0.00 0.00 2.57
386 387 9.567776 TTGAAGTTGTAGATGAAACCTAAATCA 57.432 29.630 0.00 0.00 0.00 2.57
388 389 9.014297 CCTTGAAGTTGTAGATGAAACCTAAAT 57.986 33.333 0.00 0.00 0.00 1.40
389 390 7.996644 ACCTTGAAGTTGTAGATGAAACCTAAA 59.003 33.333 0.00 0.00 0.00 1.85
390 391 7.514721 ACCTTGAAGTTGTAGATGAAACCTAA 58.485 34.615 0.00 0.00 0.00 2.69
391 392 7.074653 ACCTTGAAGTTGTAGATGAAACCTA 57.925 36.000 0.00 0.00 0.00 3.08
392 393 5.941788 ACCTTGAAGTTGTAGATGAAACCT 58.058 37.500 0.00 0.00 0.00 3.50
393 394 6.635030 AACCTTGAAGTTGTAGATGAAACC 57.365 37.500 0.00 0.00 0.00 3.27
394 395 8.926715 AAAAACCTTGAAGTTGTAGATGAAAC 57.073 30.769 0.00 0.00 0.00 2.78
395 396 8.744652 TGAAAAACCTTGAAGTTGTAGATGAAA 58.255 29.630 0.00 0.00 0.00 2.69
396 397 8.287439 TGAAAAACCTTGAAGTTGTAGATGAA 57.713 30.769 0.00 0.00 0.00 2.57
397 398 7.873719 TGAAAAACCTTGAAGTTGTAGATGA 57.126 32.000 0.00 0.00 0.00 2.92
398 399 8.925161 TTTGAAAAACCTTGAAGTTGTAGATG 57.075 30.769 0.00 0.00 0.00 2.90
414 415 7.490079 ACGAGTTCAGGGTTTATTTTGAAAAAC 59.510 33.333 0.00 0.00 35.34 2.43
415 416 7.548967 ACGAGTTCAGGGTTTATTTTGAAAAA 58.451 30.769 0.00 0.00 31.98 1.94
416 417 7.102847 ACGAGTTCAGGGTTTATTTTGAAAA 57.897 32.000 0.00 0.00 31.98 2.29
417 418 6.702716 ACGAGTTCAGGGTTTATTTTGAAA 57.297 33.333 0.00 0.00 31.98 2.69
418 419 7.172019 GTCTACGAGTTCAGGGTTTATTTTGAA 59.828 37.037 0.00 0.00 0.00 2.69
419 420 6.647895 GTCTACGAGTTCAGGGTTTATTTTGA 59.352 38.462 0.00 0.00 0.00 2.69
456 457 2.764572 GGATTAGGAGTTGAGGGTTCGA 59.235 50.000 0.00 0.00 0.00 3.71
478 479 3.834813 AGAGTTGAGAGTGCTGATTACCA 59.165 43.478 0.00 0.00 0.00 3.25
502 503 2.565391 GGTTCATTTTGGACCGGGATTT 59.435 45.455 6.32 0.00 0.00 2.17
645 650 0.811616 CGTGGGCTGGCTCTGATTAC 60.812 60.000 0.00 0.00 0.00 1.89
821 831 1.203994 GAGCTTCAATTGCAGCCACAT 59.796 47.619 23.79 7.78 34.84 3.21
868 878 6.209391 CAGAAAAGCCCCAATTTTTCTCTCTA 59.791 38.462 8.73 0.00 45.58 2.43
1020 1033 5.528320 GCCCCCAAAATGAAATATGACATTG 59.472 40.000 0.00 0.89 36.92 2.82
1028 1041 3.197927 ACTGGCCCCCAAAATGAAATA 57.802 42.857 0.00 0.00 30.80 1.40
1320 1343 3.882888 GACTGCTGCTACTCTCACTATCT 59.117 47.826 0.00 0.00 0.00 1.98
1342 1365 9.775854 AACAATCTCATTCTCATATTCACTAGG 57.224 33.333 0.00 0.00 0.00 3.02
1350 1373 9.623000 TCAACATCAACAATCTCATTCTCATAT 57.377 29.630 0.00 0.00 0.00 1.78
1502 1525 3.896888 TGCCACTTCATCAACCTCATTTT 59.103 39.130 0.00 0.00 0.00 1.82
1544 1567 7.172875 GCACTTCATCTAGACTGCATATTTGAT 59.827 37.037 0.00 0.00 32.66 2.57
1716 1834 8.467598 GTGGTATGTACTCTGTATCTTCTTCAA 58.532 37.037 0.00 0.00 0.00 2.69
1789 1907 5.355350 CCTCTTCCTAAATTTTCGAGCATGT 59.645 40.000 0.00 0.00 0.00 3.21
1796 1914 7.268586 TCTCTCATCCTCTTCCTAAATTTTCG 58.731 38.462 0.00 0.00 0.00 3.46
1806 1924 8.189119 ACTATTTGTATCTCTCATCCTCTTCC 57.811 38.462 0.00 0.00 0.00 3.46
1828 1946 2.224744 TGAATCACCTGCAAGCCAACTA 60.225 45.455 0.00 0.00 0.00 2.24
1878 1996 8.337118 TCCCTCTAACTGATCTTCCATATTTT 57.663 34.615 0.00 0.00 0.00 1.82
1913 2031 3.653164 TCAATGAGTCATAGCCCCACTA 58.347 45.455 5.94 0.00 34.64 2.74
1975 2094 2.856760 TACTGGCTCTTCCTCCTCAT 57.143 50.000 0.00 0.00 35.26 2.90
2222 2342 5.803461 CAGTGGTGCTCATCATTAAATGTTG 59.197 40.000 0.00 0.00 0.00 3.33
2283 2403 6.825213 AGTGCTCATATCTTTCAGCAATAACA 59.175 34.615 0.00 0.00 43.35 2.41
2437 2557 6.125029 CCCTGGTGTATTCATTCTTCATTCT 58.875 40.000 0.00 0.00 0.00 2.40
2519 2639 5.071519 TGTTCCATGTTTGTTGGATCCAAAT 59.928 36.000 28.64 15.21 42.69 2.32


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

AutoCloner maintained by Alex Coulton.