Multiple sequence alignment - TraesCS4B01G170100

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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 TraesCS4B01G170100 chr4B 100.000 3207 0 0 1 3207 372254215 372251009 0.000000e+00 5923.0
1 TraesCS4B01G170100 chr4A 93.999 1783 62 14 778 2546 185178323 185180074 0.000000e+00 2658.0
2 TraesCS4B01G170100 chr4A 95.724 608 24 2 2601 3207 185180093 185180699 0.000000e+00 977.0
3 TraesCS4B01G170100 chr4A 96.648 358 12 0 416 773 185177875 185178232 2.130000e-166 595.0
4 TraesCS4B01G170100 chr4D 95.825 1581 36 8 1632 3207 299448575 299447020 0.000000e+00 2527.0
5 TraesCS4B01G170100 chr4D 94.832 1161 37 6 416 1572 299449706 299448565 0.000000e+00 1790.0
6 TraesCS4B01G170100 chr3A 98.353 425 6 1 1 424 645104317 645104741 0.000000e+00 745.0
7 TraesCS4B01G170100 chr3B 98.568 419 5 1 1 418 778760803 778760385 0.000000e+00 739.0
8 TraesCS4B01G170100 chr6A 98.565 418 5 1 1 417 555759585 555759168 0.000000e+00 737.0
9 TraesCS4B01G170100 chr1B 98.565 418 5 1 1 417 555343110 555342693 0.000000e+00 737.0
10 TraesCS4B01G170100 chr1B 98.325 418 6 1 1 417 552959786 552960203 0.000000e+00 732.0
11 TraesCS4B01G170100 chr1B 100.000 28 0 0 2619 2646 652927280 652927253 6.000000e-03 52.8
12 TraesCS4B01G170100 chr7A 98.104 422 5 1 1 419 213800465 213800044 0.000000e+00 732.0
13 TraesCS4B01G170100 chr5A 98.100 421 5 1 1 418 575275237 575275657 0.000000e+00 730.0
14 TraesCS4B01G170100 chrUn 98.091 419 4 2 1 418 321168029 321168444 0.000000e+00 726.0
15 TraesCS4B01G170100 chr6B 97.867 422 6 2 1 419 487130720 487131141 0.000000e+00 726.0


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 TraesCS4B01G170100 chr4B 372251009 372254215 3206 True 5923.0 5923 100.0000 1 3207 1 chr4B.!!$R1 3206
1 TraesCS4B01G170100 chr4A 185177875 185180699 2824 False 1410.0 2658 95.4570 416 3207 3 chr4A.!!$F1 2791
2 TraesCS4B01G170100 chr4D 299447020 299449706 2686 True 2158.5 2527 95.3285 416 3207 2 chr4D.!!$R1 2791

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
711 715 0.033796 ATGTGCAGTAGCCATGCCTT 60.034 50.0 0.00 0.0 43.18 4.35 F
1479 1571 0.108615 GCTTCTCTGGCAAGCGAGTA 60.109 55.0 4.03 0.0 37.14 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1752 1844 1.000359 TGGGTCTCGCAGATCTGGA 60.000 57.895 23.89 17.06 33.89 3.86 R
2541 2645 1.685517 TCTTCGGATCTGCTCATGGAG 59.314 52.381 0.00 0.00 0.00 3.86 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
51 52 4.530857 CCTGCCCGGGCGAAGTAG 62.531 72.222 39.00 29.12 45.51 2.57
77 78 4.214327 GGGAGCGCGAAGAGGGAG 62.214 72.222 12.10 0.00 34.27 4.30
78 79 4.882396 GGAGCGCGAAGAGGGAGC 62.882 72.222 12.10 0.00 34.27 4.70
79 80 4.882396 GAGCGCGAAGAGGGAGCC 62.882 72.222 12.10 0.00 34.27 4.70
82 83 4.856607 CGCGAAGAGGGAGCCGAC 62.857 72.222 0.00 0.00 34.27 4.79
83 84 4.856607 GCGAAGAGGGAGCCGACG 62.857 72.222 0.00 0.00 0.00 5.12
84 85 4.856607 CGAAGAGGGAGCCGACGC 62.857 72.222 0.00 0.00 0.00 5.19
97 98 3.823330 GACGCTCCGTGTCCCGAT 61.823 66.667 0.00 0.00 41.37 4.18
98 99 3.753070 GACGCTCCGTGTCCCGATC 62.753 68.421 0.00 0.00 41.37 3.69
99 100 4.907034 CGCTCCGTGTCCCGATCG 62.907 72.222 8.51 8.51 39.56 3.69
100 101 4.570663 GCTCCGTGTCCCGATCGG 62.571 72.222 27.65 27.65 44.76 4.18
101 102 4.570663 CTCCGTGTCCCGATCGGC 62.571 72.222 29.12 16.47 43.35 5.54
112 113 3.849951 GATCGGCGCCTGAAGGGA 61.850 66.667 26.68 13.78 37.23 4.20
113 114 3.798954 GATCGGCGCCTGAAGGGAG 62.799 68.421 26.68 6.06 37.23 4.30
120 121 3.801997 CCTGAAGGGAGGCGGCAT 61.802 66.667 13.08 0.00 37.23 4.40
121 122 2.203126 CTGAAGGGAGGCGGCATC 60.203 66.667 13.08 6.01 0.00 3.91
122 123 3.764160 CTGAAGGGAGGCGGCATCC 62.764 68.421 24.64 24.64 35.99 3.51
123 124 3.797353 GAAGGGAGGCGGCATCCA 61.797 66.667 31.80 0.00 38.70 3.41
124 125 3.764160 GAAGGGAGGCGGCATCCAG 62.764 68.421 31.80 0.00 38.70 3.86
135 136 3.531207 CATCCAGCGGCCTCGAGA 61.531 66.667 15.71 0.00 39.00 4.04
136 137 3.222855 ATCCAGCGGCCTCGAGAG 61.223 66.667 15.71 5.19 39.00 3.20
137 138 3.723097 ATCCAGCGGCCTCGAGAGA 62.723 63.158 15.71 0.00 39.00 3.10
138 139 3.452786 CCAGCGGCCTCGAGAGAA 61.453 66.667 15.71 0.00 41.32 2.87
139 140 2.103934 CAGCGGCCTCGAGAGAAG 59.896 66.667 15.71 3.38 41.32 2.85
140 141 2.361865 AGCGGCCTCGAGAGAAGT 60.362 61.111 15.71 0.00 41.32 3.01
141 142 2.202676 GCGGCCTCGAGAGAAGTG 60.203 66.667 15.71 0.00 41.32 3.16
142 143 2.202676 CGGCCTCGAGAGAAGTGC 60.203 66.667 15.71 7.31 41.32 4.40
143 144 2.185608 GGCCTCGAGAGAAGTGCC 59.814 66.667 15.71 13.28 41.32 5.01
144 145 2.202676 GCCTCGAGAGAAGTGCCG 60.203 66.667 15.71 0.00 41.32 5.69
145 146 2.202676 CCTCGAGAGAAGTGCCGC 60.203 66.667 15.71 0.00 41.32 6.53
146 147 2.578178 CTCGAGAGAAGTGCCGCG 60.578 66.667 6.58 0.00 41.32 6.46
147 148 3.040414 CTCGAGAGAAGTGCCGCGA 62.040 63.158 8.23 0.00 41.32 5.87
148 149 2.578178 CGAGAGAAGTGCCGCGAG 60.578 66.667 8.23 0.00 0.00 5.03
163 164 3.717294 GAGGGAGGCCGGCAGAAA 61.717 66.667 30.85 0.00 0.00 2.52
164 165 3.256960 AGGGAGGCCGGCAGAAAA 61.257 61.111 30.85 0.00 0.00 2.29
165 166 3.062466 GGGAGGCCGGCAGAAAAC 61.062 66.667 30.85 9.73 0.00 2.43
166 167 3.062466 GGAGGCCGGCAGAAAACC 61.062 66.667 30.85 16.82 0.00 3.27
173 174 4.038080 GGCAGAAAACCGGTGGCG 62.038 66.667 8.52 0.00 0.00 5.69
174 175 4.038080 GCAGAAAACCGGTGGCGG 62.038 66.667 8.52 2.28 0.00 6.13
175 176 2.593436 CAGAAAACCGGTGGCGGT 60.593 61.111 8.52 0.00 45.25 5.68
176 177 2.593436 AGAAAACCGGTGGCGGTG 60.593 61.111 8.52 0.00 42.06 4.94
177 178 3.666253 GAAAACCGGTGGCGGTGG 61.666 66.667 8.52 0.00 42.06 4.61
178 179 4.192453 AAAACCGGTGGCGGTGGA 62.192 61.111 8.52 0.00 42.06 4.02
179 180 4.636435 AAACCGGTGGCGGTGGAG 62.636 66.667 8.52 0.00 42.06 3.86
203 204 4.865761 GCAGCGGCGGACGTCATA 62.866 66.667 18.91 0.00 46.52 2.15
204 205 2.655364 CAGCGGCGGACGTCATAG 60.655 66.667 18.91 9.16 46.52 2.23
205 206 4.570663 AGCGGCGGACGTCATAGC 62.571 66.667 18.91 18.23 46.52 2.97
206 207 4.865761 GCGGCGGACGTCATAGCA 62.866 66.667 24.14 0.00 46.52 3.49
207 208 2.655364 CGGCGGACGTCATAGCAG 60.655 66.667 24.14 18.86 37.93 4.24
208 209 2.494918 GGCGGACGTCATAGCAGT 59.505 61.111 24.14 0.00 0.00 4.40
209 210 1.589196 GGCGGACGTCATAGCAGTC 60.589 63.158 24.14 9.45 0.00 3.51
210 211 1.939785 GCGGACGTCATAGCAGTCG 60.940 63.158 18.91 9.94 35.87 4.18
211 212 1.298413 CGGACGTCATAGCAGTCGG 60.298 63.158 18.91 0.00 35.87 4.79
212 213 1.065928 GGACGTCATAGCAGTCGGG 59.934 63.158 18.91 0.00 35.87 5.14
213 214 1.589196 GACGTCATAGCAGTCGGGC 60.589 63.158 11.55 0.00 0.00 6.13
214 215 2.655364 CGTCATAGCAGTCGGGCG 60.655 66.667 0.00 0.00 39.27 6.13
215 216 2.805546 GTCATAGCAGTCGGGCGA 59.194 61.111 0.00 0.00 39.27 5.54
216 217 1.589196 GTCATAGCAGTCGGGCGAC 60.589 63.158 0.00 0.00 44.86 5.19
264 265 2.674033 GGCGGCGGTTTAGGGTTT 60.674 61.111 9.78 0.00 0.00 3.27
265 266 2.270257 GGCGGCGGTTTAGGGTTTT 61.270 57.895 9.78 0.00 0.00 2.43
266 267 1.661480 GCGGCGGTTTAGGGTTTTT 59.339 52.632 9.78 0.00 0.00 1.94
267 268 0.880441 GCGGCGGTTTAGGGTTTTTA 59.120 50.000 9.78 0.00 0.00 1.52
268 269 1.135603 GCGGCGGTTTAGGGTTTTTAG 60.136 52.381 9.78 0.00 0.00 1.85
269 270 1.469703 CGGCGGTTTAGGGTTTTTAGG 59.530 52.381 0.00 0.00 0.00 2.69
270 271 1.203052 GGCGGTTTAGGGTTTTTAGGC 59.797 52.381 0.00 0.00 0.00 3.93
271 272 1.135603 GCGGTTTAGGGTTTTTAGGCG 60.136 52.381 0.00 0.00 0.00 5.52
272 273 1.469703 CGGTTTAGGGTTTTTAGGCGG 59.530 52.381 0.00 0.00 0.00 6.13
273 274 2.794103 GGTTTAGGGTTTTTAGGCGGA 58.206 47.619 0.00 0.00 0.00 5.54
274 275 3.156293 GGTTTAGGGTTTTTAGGCGGAA 58.844 45.455 0.00 0.00 0.00 4.30
275 276 3.192001 GGTTTAGGGTTTTTAGGCGGAAG 59.808 47.826 0.00 0.00 0.00 3.46
287 288 2.570181 CGGAAGCGGACGTAACCT 59.430 61.111 0.00 0.00 0.00 3.50
288 289 1.802636 CGGAAGCGGACGTAACCTA 59.197 57.895 0.00 0.00 0.00 3.08
289 290 0.248377 CGGAAGCGGACGTAACCTAG 60.248 60.000 0.00 0.00 0.00 3.02
290 291 0.527169 GGAAGCGGACGTAACCTAGC 60.527 60.000 0.00 0.00 0.00 3.42
291 292 0.864797 GAAGCGGACGTAACCTAGCG 60.865 60.000 0.00 0.00 0.00 4.26
292 293 1.589716 AAGCGGACGTAACCTAGCGT 61.590 55.000 0.00 0.00 44.50 5.07
293 294 1.870901 GCGGACGTAACCTAGCGTG 60.871 63.158 0.00 0.00 41.70 5.34
294 295 1.796151 CGGACGTAACCTAGCGTGA 59.204 57.895 0.00 0.00 41.70 4.35
295 296 0.379669 CGGACGTAACCTAGCGTGAT 59.620 55.000 0.00 0.00 41.70 3.06
296 297 1.599071 CGGACGTAACCTAGCGTGATA 59.401 52.381 0.00 0.00 41.70 2.15
297 298 2.600792 CGGACGTAACCTAGCGTGATAC 60.601 54.545 0.00 0.00 41.70 2.24
298 299 2.287248 GGACGTAACCTAGCGTGATACC 60.287 54.545 0.00 0.00 41.70 2.73
299 300 2.355756 GACGTAACCTAGCGTGATACCA 59.644 50.000 0.00 0.00 41.70 3.25
300 301 2.954318 ACGTAACCTAGCGTGATACCAT 59.046 45.455 0.00 0.00 40.03 3.55
301 302 3.243301 ACGTAACCTAGCGTGATACCATG 60.243 47.826 0.00 0.00 40.03 3.66
302 303 3.243301 CGTAACCTAGCGTGATACCATGT 60.243 47.826 0.00 0.00 0.00 3.21
303 304 4.023792 CGTAACCTAGCGTGATACCATGTA 60.024 45.833 0.00 0.00 0.00 2.29
304 305 5.506151 CGTAACCTAGCGTGATACCATGTAA 60.506 44.000 0.00 0.00 0.00 2.41
305 306 4.585955 ACCTAGCGTGATACCATGTAAG 57.414 45.455 0.00 0.00 0.00 2.34
306 307 4.212716 ACCTAGCGTGATACCATGTAAGA 58.787 43.478 0.00 0.00 0.00 2.10
307 308 4.037684 ACCTAGCGTGATACCATGTAAGAC 59.962 45.833 0.00 0.00 0.00 3.01
308 309 4.037565 CCTAGCGTGATACCATGTAAGACA 59.962 45.833 0.00 0.00 0.00 3.41
309 310 4.465632 AGCGTGATACCATGTAAGACAA 57.534 40.909 0.00 0.00 0.00 3.18
310 311 5.023533 AGCGTGATACCATGTAAGACAAT 57.976 39.130 0.00 0.00 0.00 2.71
311 312 6.156748 AGCGTGATACCATGTAAGACAATA 57.843 37.500 0.00 0.00 0.00 1.90
312 313 6.216569 AGCGTGATACCATGTAAGACAATAG 58.783 40.000 0.00 0.00 0.00 1.73
313 314 5.405571 GCGTGATACCATGTAAGACAATAGG 59.594 44.000 0.00 0.00 0.00 2.57
314 315 5.405571 CGTGATACCATGTAAGACAATAGGC 59.594 44.000 0.00 0.00 0.00 3.93
315 316 6.525629 GTGATACCATGTAAGACAATAGGCT 58.474 40.000 0.00 0.00 0.00 4.58
316 317 6.992715 GTGATACCATGTAAGACAATAGGCTT 59.007 38.462 0.00 0.00 0.00 4.35
317 318 7.499232 GTGATACCATGTAAGACAATAGGCTTT 59.501 37.037 0.00 0.00 0.00 3.51
318 319 7.498900 TGATACCATGTAAGACAATAGGCTTTG 59.501 37.037 0.00 0.00 0.00 2.77
319 320 4.949856 ACCATGTAAGACAATAGGCTTTGG 59.050 41.667 0.00 0.00 0.00 3.28
320 321 4.339247 CCATGTAAGACAATAGGCTTTGGG 59.661 45.833 0.00 0.00 0.00 4.12
321 322 4.919774 TGTAAGACAATAGGCTTTGGGA 57.080 40.909 0.00 0.00 0.00 4.37
322 323 4.843728 TGTAAGACAATAGGCTTTGGGAG 58.156 43.478 0.00 0.00 0.00 4.30
323 324 4.534500 TGTAAGACAATAGGCTTTGGGAGA 59.466 41.667 0.00 0.00 0.00 3.71
324 325 4.657814 AAGACAATAGGCTTTGGGAGAA 57.342 40.909 0.00 0.00 0.00 2.87
325 326 3.956744 AGACAATAGGCTTTGGGAGAAC 58.043 45.455 0.00 0.00 0.00 3.01
326 327 3.017442 GACAATAGGCTTTGGGAGAACC 58.983 50.000 0.00 0.00 40.81 3.62
327 328 2.017049 CAATAGGCTTTGGGAGAACCG 58.983 52.381 0.00 0.00 44.64 4.44
328 329 0.546598 ATAGGCTTTGGGAGAACCGG 59.453 55.000 0.00 0.00 44.64 5.28
329 330 2.193087 TAGGCTTTGGGAGAACCGGC 62.193 60.000 0.00 0.00 44.64 6.13
330 331 2.282180 GCTTTGGGAGAACCGGCA 60.282 61.111 0.00 0.00 44.64 5.69
331 332 2.626780 GCTTTGGGAGAACCGGCAC 61.627 63.158 0.00 0.00 44.64 5.01
332 333 1.228124 CTTTGGGAGAACCGGCACA 60.228 57.895 0.00 0.00 44.64 4.57
333 334 0.821711 CTTTGGGAGAACCGGCACAA 60.822 55.000 0.00 0.00 44.64 3.33
334 335 1.104577 TTTGGGAGAACCGGCACAAC 61.105 55.000 0.00 0.00 44.64 3.32
335 336 2.671963 GGGAGAACCGGCACAACC 60.672 66.667 0.00 3.89 36.97 3.77
336 337 2.671963 GGAGAACCGGCACAACCC 60.672 66.667 0.00 0.00 33.26 4.11
337 338 2.430367 GAGAACCGGCACAACCCT 59.570 61.111 0.00 0.00 33.26 4.34
338 339 1.675219 GAGAACCGGCACAACCCTA 59.325 57.895 0.00 0.00 33.26 3.53
339 340 0.252197 GAGAACCGGCACAACCCTAT 59.748 55.000 0.00 0.00 33.26 2.57
340 341 1.483415 GAGAACCGGCACAACCCTATA 59.517 52.381 0.00 0.00 33.26 1.31
341 342 1.485066 AGAACCGGCACAACCCTATAG 59.515 52.381 0.00 0.00 33.26 1.31
342 343 0.544697 AACCGGCACAACCCTATAGG 59.455 55.000 12.27 12.27 43.78 2.57
354 355 2.642171 CCTATAGGGGTGGCCTATCA 57.358 55.000 11.33 0.00 33.26 2.15
355 356 2.188817 CCTATAGGGGTGGCCTATCAC 58.811 57.143 11.33 0.00 36.95 3.06
356 357 2.494627 CCTATAGGGGTGGCCTATCACA 60.495 54.545 11.33 0.00 39.27 3.58
357 358 2.440494 ATAGGGGTGGCCTATCACAT 57.560 50.000 3.32 0.00 39.27 3.21
358 359 3.577968 ATAGGGGTGGCCTATCACATA 57.422 47.619 3.32 0.00 39.27 2.29
359 360 2.440494 AGGGGTGGCCTATCACATAT 57.560 50.000 3.32 0.00 39.27 1.78
360 361 3.577968 AGGGGTGGCCTATCACATATA 57.422 47.619 3.32 0.00 39.27 0.86
361 362 4.094216 AGGGGTGGCCTATCACATATAT 57.906 45.455 3.32 0.00 39.27 0.86
362 363 5.235003 AGGGGTGGCCTATCACATATATA 57.765 43.478 3.32 0.00 39.27 0.86
363 364 5.804013 AGGGGTGGCCTATCACATATATAT 58.196 41.667 3.32 0.00 39.27 0.86
364 365 6.945371 AGGGGTGGCCTATCACATATATATA 58.055 40.000 3.32 0.00 39.27 0.86
365 366 7.557283 AGGGGTGGCCTATCACATATATATAT 58.443 38.462 3.32 0.00 39.27 0.86
366 367 8.697529 AGGGGTGGCCTATCACATATATATATA 58.302 37.037 3.32 4.92 39.27 0.86
367 368 9.333961 GGGGTGGCCTATCACATATATATATAA 57.666 37.037 3.32 0.00 39.27 0.98
388 389 9.918630 ATATAATGAGGTGGTATACAACGTTAC 57.081 33.333 7.03 0.00 43.31 2.50
389 390 5.664294 ATGAGGTGGTATACAACGTTACA 57.336 39.130 7.03 2.59 43.31 2.41
390 391 5.465532 TGAGGTGGTATACAACGTTACAA 57.534 39.130 7.03 0.00 43.31 2.41
391 392 6.040209 TGAGGTGGTATACAACGTTACAAT 57.960 37.500 7.03 0.00 43.31 2.71
392 393 7.167924 TGAGGTGGTATACAACGTTACAATA 57.832 36.000 7.03 0.00 43.31 1.90
393 394 7.784037 TGAGGTGGTATACAACGTTACAATAT 58.216 34.615 7.03 0.00 43.31 1.28
394 395 8.911965 TGAGGTGGTATACAACGTTACAATATA 58.088 33.333 7.03 0.00 43.31 0.86
395 396 9.185192 GAGGTGGTATACAACGTTACAATATAC 57.815 37.037 7.03 10.70 43.31 1.47
396 397 8.694540 AGGTGGTATACAACGTTACAATATACA 58.305 33.333 20.89 12.28 43.31 2.29
397 398 8.755018 GGTGGTATACAACGTTACAATATACAC 58.245 37.037 20.89 18.40 32.62 2.90
398 399 9.299963 GTGGTATACAACGTTACAATATACACA 57.700 33.333 20.89 16.35 32.62 3.72
527 528 7.225538 ACGAAAGCACATAATCTAATTGGAGAG 59.774 37.037 0.00 0.00 0.00 3.20
584 585 3.005554 AGCATGACTGGATCGTTTTCAG 58.994 45.455 0.00 0.00 34.91 3.02
596 597 1.260544 GTTTTCAGCAAGGCCTGGAT 58.739 50.000 12.85 0.00 33.64 3.41
598 599 1.252904 TTTCAGCAAGGCCTGGATGC 61.253 55.000 21.25 19.76 40.34 3.91
711 715 0.033796 ATGTGCAGTAGCCATGCCTT 60.034 50.000 0.00 0.00 43.18 4.35
832 922 6.073440 CCTCATTGCTTTCAACATTTTCCTTG 60.073 38.462 0.00 0.00 34.60 3.61
835 925 4.121317 TGCTTTCAACATTTTCCTTGCTG 58.879 39.130 0.00 0.00 0.00 4.41
836 926 4.141981 TGCTTTCAACATTTTCCTTGCTGA 60.142 37.500 0.00 0.00 0.00 4.26
939 1031 3.898529 CGCCTACGCTAAAGCTTATAGT 58.101 45.455 0.00 0.54 39.32 2.12
1181 1273 4.057428 GTCCAGCGCTCTGTCGGT 62.057 66.667 7.13 0.00 41.17 4.69
1237 1329 3.861797 GATCGGCCGATGGGGTGT 61.862 66.667 43.46 20.95 38.44 4.16
1362 1454 4.971830 CAGTGTGTTGTGCTGATTAACTTG 59.028 41.667 0.00 0.00 32.39 3.16
1479 1571 0.108615 GCTTCTCTGGCAAGCGAGTA 60.109 55.000 4.03 0.00 37.14 2.59
1543 1635 4.984785 GGCAGAAAGAAATCCAAAACTCAC 59.015 41.667 0.00 0.00 0.00 3.51
1544 1636 5.451798 GGCAGAAAGAAATCCAAAACTCACA 60.452 40.000 0.00 0.00 0.00 3.58
1566 1658 3.084039 TCATCCGAGGTACGTACACTTT 58.916 45.455 26.02 9.22 40.78 2.66
1590 1682 6.959639 TTTTGTTTCCAAGAGAAGCACTAT 57.040 33.333 0.00 0.00 44.34 2.12
1593 1685 8.635765 TTTGTTTCCAAGAGAAGCACTATAAT 57.364 30.769 0.00 0.00 44.34 1.28
1622 1714 2.223135 GCTAGCACGATTTCTCTTTGCC 60.223 50.000 10.63 0.00 31.58 4.52
1650 1742 3.155093 GCACTGATTTGCGATGGAAAT 57.845 42.857 0.00 0.00 31.51 2.17
1668 1760 9.317936 GATGGAAATTGGAGGAAATTAAATCAC 57.682 33.333 0.00 0.00 0.00 3.06
1687 1779 2.806288 CGAGCTTCGTTATGGTTTGG 57.194 50.000 0.00 0.00 34.72 3.28
1771 1863 1.142748 CCAGATCTGCGAGACCCAC 59.857 63.158 17.76 0.00 0.00 4.61
1785 1877 0.322187 ACCCACCCAATCAAGTACGC 60.322 55.000 0.00 0.00 0.00 4.42
1789 1881 0.035739 ACCCAATCAAGTACGCCGTT 59.964 50.000 0.00 0.00 0.00 4.44
1838 1930 1.145738 CTCCCTCCAATACCCCAATGG 59.854 57.143 0.00 0.00 41.37 3.16
1849 1941 2.495866 CCAATGGTCATTGCCGCC 59.504 61.111 15.93 0.00 45.06 6.13
2131 2223 2.342648 GGCAGTTTCCCGTCGTCT 59.657 61.111 0.00 0.00 0.00 4.18
2210 2302 3.694043 TCCTGTTCGATCCATGACAAA 57.306 42.857 0.00 0.00 0.00 2.83
2687 2791 8.795786 TTTGTGCACAAACATAAAGAGATAAC 57.204 30.769 35.10 0.00 40.55 1.89
2977 3086 5.333416 CGAGTTAGGTTTTGCTTGAACTCTC 60.333 44.000 10.00 0.00 40.27 3.20
3132 3241 2.035576 GCAATTGGATGGAATGAGGCTC 59.964 50.000 7.79 7.79 0.00 4.70
3147 3256 3.589951 AGGCTCACCTCAATATGCAAT 57.410 42.857 0.00 0.00 46.34 3.56
3181 3290 1.422977 TACCCACCACCACATGCAGT 61.423 55.000 0.00 0.00 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 4.530857 CTACTTCGCCCGGGCAGG 62.531 72.222 42.78 31.65 42.06 4.85
60 61 4.214327 CTCCCTCTTCGCGCTCCC 62.214 72.222 5.56 0.00 0.00 4.30
61 62 4.882396 GCTCCCTCTTCGCGCTCC 62.882 72.222 5.56 0.00 0.00 4.70
62 63 4.882396 GGCTCCCTCTTCGCGCTC 62.882 72.222 5.56 0.00 0.00 5.03
65 66 4.856607 GTCGGCTCCCTCTTCGCG 62.857 72.222 0.00 0.00 0.00 5.87
66 67 4.856607 CGTCGGCTCCCTCTTCGC 62.857 72.222 0.00 0.00 0.00 4.70
67 68 4.856607 GCGTCGGCTCCCTCTTCG 62.857 72.222 0.00 0.00 35.83 3.79
80 81 3.753070 GATCGGGACACGGAGCGTC 62.753 68.421 0.00 0.00 44.45 5.19
81 82 3.823330 GATCGGGACACGGAGCGT 61.823 66.667 0.00 0.00 44.45 5.07
82 83 4.907034 CGATCGGGACACGGAGCG 62.907 72.222 7.38 0.00 46.36 5.03
95 96 3.798954 CTCCCTTCAGGCGCCGATC 62.799 68.421 23.20 0.00 34.51 3.69
96 97 3.854669 CTCCCTTCAGGCGCCGAT 61.855 66.667 23.20 0.00 34.51 4.18
103 104 3.764160 GATGCCGCCTCCCTTCAGG 62.764 68.421 0.00 0.00 36.50 3.86
104 105 2.203126 GATGCCGCCTCCCTTCAG 60.203 66.667 0.00 0.00 0.00 3.02
105 106 3.797353 GGATGCCGCCTCCCTTCA 61.797 66.667 3.36 0.00 0.00 3.02
106 107 3.764160 CTGGATGCCGCCTCCCTTC 62.764 68.421 11.73 0.00 31.32 3.46
107 108 3.801997 CTGGATGCCGCCTCCCTT 61.802 66.667 11.73 0.00 31.32 3.95
118 119 3.496875 CTCTCGAGGCCGCTGGATG 62.497 68.421 13.56 0.00 35.37 3.51
119 120 3.222855 CTCTCGAGGCCGCTGGAT 61.223 66.667 13.56 0.00 35.37 3.41
120 121 3.938637 TTCTCTCGAGGCCGCTGGA 62.939 63.158 13.56 1.48 35.37 3.86
121 122 3.423162 CTTCTCTCGAGGCCGCTGG 62.423 68.421 13.56 0.00 35.37 4.85
122 123 2.103934 CTTCTCTCGAGGCCGCTG 59.896 66.667 13.56 0.00 35.37 5.18
123 124 2.361865 ACTTCTCTCGAGGCCGCT 60.362 61.111 13.56 0.00 35.37 5.52
124 125 2.202676 CACTTCTCTCGAGGCCGC 60.203 66.667 13.56 0.00 35.37 6.53
125 126 2.202676 GCACTTCTCTCGAGGCCG 60.203 66.667 13.56 1.70 37.07 6.13
126 127 2.185608 GGCACTTCTCTCGAGGCC 59.814 66.667 13.56 12.42 0.00 5.19
127 128 2.202676 CGGCACTTCTCTCGAGGC 60.203 66.667 13.56 6.57 0.00 4.70
128 129 2.202676 GCGGCACTTCTCTCGAGG 60.203 66.667 13.56 3.44 0.00 4.63
129 130 2.578178 CGCGGCACTTCTCTCGAG 60.578 66.667 5.93 5.93 0.00 4.04
130 131 3.040414 CTCGCGGCACTTCTCTCGA 62.040 63.158 6.13 0.00 0.00 4.04
131 132 2.578178 CTCGCGGCACTTCTCTCG 60.578 66.667 6.13 0.00 0.00 4.04
132 133 2.202676 CCTCGCGGCACTTCTCTC 60.203 66.667 6.13 0.00 0.00 3.20
133 134 3.764466 CCCTCGCGGCACTTCTCT 61.764 66.667 6.13 0.00 0.00 3.10
134 135 3.708220 CTCCCTCGCGGCACTTCTC 62.708 68.421 6.13 0.00 0.00 2.87
135 136 3.764466 CTCCCTCGCGGCACTTCT 61.764 66.667 6.13 0.00 0.00 2.85
136 137 4.821589 CCTCCCTCGCGGCACTTC 62.822 72.222 6.13 0.00 0.00 3.01
146 147 3.268103 TTTTCTGCCGGCCTCCCTC 62.268 63.158 26.77 0.00 0.00 4.30
147 148 3.256960 TTTTCTGCCGGCCTCCCT 61.257 61.111 26.77 0.00 0.00 4.20
148 149 3.062466 GTTTTCTGCCGGCCTCCC 61.062 66.667 26.77 2.75 0.00 4.30
149 150 3.062466 GGTTTTCTGCCGGCCTCC 61.062 66.667 26.77 13.01 0.00 4.30
150 151 3.431725 CGGTTTTCTGCCGGCCTC 61.432 66.667 26.77 7.50 44.98 4.70
156 157 4.038080 CGCCACCGGTTTTCTGCC 62.038 66.667 2.97 0.00 0.00 4.85
186 187 4.865761 TATGACGTCCGCCGCTGC 62.866 66.667 14.12 0.00 41.42 5.25
187 188 2.655364 CTATGACGTCCGCCGCTG 60.655 66.667 14.12 0.00 41.42 5.18
188 189 4.570663 GCTATGACGTCCGCCGCT 62.571 66.667 14.12 0.00 41.42 5.52
189 190 4.865761 TGCTATGACGTCCGCCGC 62.866 66.667 14.12 10.82 41.42 6.53
190 191 2.655364 CTGCTATGACGTCCGCCG 60.655 66.667 14.12 5.90 44.03 6.46
191 192 1.589196 GACTGCTATGACGTCCGCC 60.589 63.158 14.12 0.00 0.00 6.13
192 193 1.939785 CGACTGCTATGACGTCCGC 60.940 63.158 14.12 13.34 0.00 5.54
193 194 1.298413 CCGACTGCTATGACGTCCG 60.298 63.158 14.12 6.35 0.00 4.79
194 195 1.065928 CCCGACTGCTATGACGTCC 59.934 63.158 14.12 0.00 0.00 4.79
195 196 1.589196 GCCCGACTGCTATGACGTC 60.589 63.158 9.11 9.11 0.00 4.34
196 197 2.494918 GCCCGACTGCTATGACGT 59.505 61.111 0.00 0.00 0.00 4.34
197 198 2.655364 CGCCCGACTGCTATGACG 60.655 66.667 0.00 0.00 0.00 4.35
198 199 1.589196 GTCGCCCGACTGCTATGAC 60.589 63.158 13.10 0.00 41.57 3.06
199 200 2.805546 GTCGCCCGACTGCTATGA 59.194 61.111 13.10 0.00 41.57 2.15
200 201 2.655364 CGTCGCCCGACTGCTATG 60.655 66.667 17.39 0.00 42.54 2.23
201 202 3.900892 CCGTCGCCCGACTGCTAT 61.901 66.667 17.39 0.00 42.54 2.97
247 248 1.808531 AAAAACCCTAAACCGCCGCC 61.809 55.000 0.00 0.00 0.00 6.13
248 249 0.880441 TAAAAACCCTAAACCGCCGC 59.120 50.000 0.00 0.00 0.00 6.53
249 250 1.469703 CCTAAAAACCCTAAACCGCCG 59.530 52.381 0.00 0.00 0.00 6.46
250 251 1.203052 GCCTAAAAACCCTAAACCGCC 59.797 52.381 0.00 0.00 0.00 6.13
251 252 1.135603 CGCCTAAAAACCCTAAACCGC 60.136 52.381 0.00 0.00 0.00 5.68
252 253 1.469703 CCGCCTAAAAACCCTAAACCG 59.530 52.381 0.00 0.00 0.00 4.44
253 254 2.794103 TCCGCCTAAAAACCCTAAACC 58.206 47.619 0.00 0.00 0.00 3.27
254 255 3.366679 GCTTCCGCCTAAAAACCCTAAAC 60.367 47.826 0.00 0.00 0.00 2.01
255 256 2.821378 GCTTCCGCCTAAAAACCCTAAA 59.179 45.455 0.00 0.00 0.00 1.85
256 257 2.439409 GCTTCCGCCTAAAAACCCTAA 58.561 47.619 0.00 0.00 0.00 2.69
257 258 1.676615 CGCTTCCGCCTAAAAACCCTA 60.677 52.381 0.00 0.00 0.00 3.53
258 259 0.958876 CGCTTCCGCCTAAAAACCCT 60.959 55.000 0.00 0.00 0.00 4.34
259 260 1.504900 CGCTTCCGCCTAAAAACCC 59.495 57.895 0.00 0.00 0.00 4.11
260 261 0.956902 TCCGCTTCCGCCTAAAAACC 60.957 55.000 0.00 0.00 0.00 3.27
261 262 0.167470 GTCCGCTTCCGCCTAAAAAC 59.833 55.000 0.00 0.00 0.00 2.43
262 263 1.293267 CGTCCGCTTCCGCCTAAAAA 61.293 55.000 0.00 0.00 0.00 1.94
263 264 1.738830 CGTCCGCTTCCGCCTAAAA 60.739 57.895 0.00 0.00 0.00 1.52
264 265 1.594194 TACGTCCGCTTCCGCCTAAA 61.594 55.000 0.00 0.00 0.00 1.85
265 266 1.594194 TTACGTCCGCTTCCGCCTAA 61.594 55.000 0.00 0.00 0.00 2.69
266 267 2.045708 TTACGTCCGCTTCCGCCTA 61.046 57.895 0.00 0.00 0.00 3.93
267 268 3.376078 TTACGTCCGCTTCCGCCT 61.376 61.111 0.00 0.00 0.00 5.52
268 269 3.184003 GTTACGTCCGCTTCCGCC 61.184 66.667 0.00 0.00 0.00 6.13
269 270 2.270297 TAGGTTACGTCCGCTTCCGC 62.270 60.000 0.00 0.00 0.00 5.54
270 271 0.248377 CTAGGTTACGTCCGCTTCCG 60.248 60.000 0.00 0.00 0.00 4.30
271 272 0.527169 GCTAGGTTACGTCCGCTTCC 60.527 60.000 0.00 0.00 0.00 3.46
272 273 0.864797 CGCTAGGTTACGTCCGCTTC 60.865 60.000 0.00 0.00 0.00 3.86
273 274 1.138247 CGCTAGGTTACGTCCGCTT 59.862 57.895 0.00 0.00 0.00 4.68
274 275 2.042831 ACGCTAGGTTACGTCCGCT 61.043 57.895 0.00 0.00 38.28 5.52
275 276 1.870901 CACGCTAGGTTACGTCCGC 60.871 63.158 0.00 0.00 41.32 5.54
276 277 0.379669 ATCACGCTAGGTTACGTCCG 59.620 55.000 0.00 0.00 41.32 4.79
277 278 2.287248 GGTATCACGCTAGGTTACGTCC 60.287 54.545 0.00 0.00 41.32 4.79
278 279 2.355756 TGGTATCACGCTAGGTTACGTC 59.644 50.000 0.00 0.00 41.32 4.34
279 280 2.368439 TGGTATCACGCTAGGTTACGT 58.632 47.619 0.00 0.00 44.75 3.57
280 281 3.243301 ACATGGTATCACGCTAGGTTACG 60.243 47.826 0.00 0.00 0.00 3.18
281 282 4.317671 ACATGGTATCACGCTAGGTTAC 57.682 45.455 0.00 0.00 0.00 2.50
282 283 5.829391 TCTTACATGGTATCACGCTAGGTTA 59.171 40.000 0.00 0.00 0.00 2.85
283 284 4.647853 TCTTACATGGTATCACGCTAGGTT 59.352 41.667 0.00 0.00 0.00 3.50
284 285 4.037684 GTCTTACATGGTATCACGCTAGGT 59.962 45.833 0.00 0.00 0.00 3.08
285 286 4.037565 TGTCTTACATGGTATCACGCTAGG 59.962 45.833 0.00 0.00 0.00 3.02
286 287 5.183014 TGTCTTACATGGTATCACGCTAG 57.817 43.478 0.00 0.00 0.00 3.42
287 288 5.585820 TTGTCTTACATGGTATCACGCTA 57.414 39.130 0.00 0.00 0.00 4.26
288 289 4.465632 TTGTCTTACATGGTATCACGCT 57.534 40.909 0.00 0.00 0.00 5.07
289 290 5.405571 CCTATTGTCTTACATGGTATCACGC 59.594 44.000 0.00 0.00 0.00 5.34
290 291 5.405571 GCCTATTGTCTTACATGGTATCACG 59.594 44.000 0.00 0.00 0.00 4.35
291 292 6.525629 AGCCTATTGTCTTACATGGTATCAC 58.474 40.000 0.00 0.00 0.00 3.06
292 293 6.747414 AGCCTATTGTCTTACATGGTATCA 57.253 37.500 0.00 0.00 0.00 2.15
293 294 7.041098 CCAAAGCCTATTGTCTTACATGGTATC 60.041 40.741 0.00 0.00 0.00 2.24
294 295 6.772716 CCAAAGCCTATTGTCTTACATGGTAT 59.227 38.462 0.00 0.00 0.00 2.73
295 296 6.119536 CCAAAGCCTATTGTCTTACATGGTA 58.880 40.000 0.00 0.00 0.00 3.25
296 297 4.949856 CCAAAGCCTATTGTCTTACATGGT 59.050 41.667 0.00 0.00 0.00 3.55
297 298 4.339247 CCCAAAGCCTATTGTCTTACATGG 59.661 45.833 0.00 0.00 0.00 3.66
298 299 5.192927 TCCCAAAGCCTATTGTCTTACATG 58.807 41.667 0.00 0.00 0.00 3.21
299 300 5.191722 TCTCCCAAAGCCTATTGTCTTACAT 59.808 40.000 0.00 0.00 0.00 2.29
300 301 4.534500 TCTCCCAAAGCCTATTGTCTTACA 59.466 41.667 0.00 0.00 0.00 2.41
301 302 5.099042 TCTCCCAAAGCCTATTGTCTTAC 57.901 43.478 0.00 0.00 0.00 2.34
302 303 5.497474 GTTCTCCCAAAGCCTATTGTCTTA 58.503 41.667 0.00 0.00 0.00 2.10
303 304 4.336280 GTTCTCCCAAAGCCTATTGTCTT 58.664 43.478 0.00 0.00 0.00 3.01
304 305 3.308473 GGTTCTCCCAAAGCCTATTGTCT 60.308 47.826 0.00 0.00 0.00 3.41
305 306 3.017442 GGTTCTCCCAAAGCCTATTGTC 58.983 50.000 0.00 0.00 0.00 3.18
306 307 2.618045 CGGTTCTCCCAAAGCCTATTGT 60.618 50.000 0.00 0.00 0.00 2.71
307 308 2.017049 CGGTTCTCCCAAAGCCTATTG 58.983 52.381 0.00 0.00 0.00 1.90
308 309 1.064685 CCGGTTCTCCCAAAGCCTATT 60.065 52.381 0.00 0.00 0.00 1.73
309 310 0.546598 CCGGTTCTCCCAAAGCCTAT 59.453 55.000 0.00 0.00 0.00 2.57
310 311 1.988015 CCGGTTCTCCCAAAGCCTA 59.012 57.895 0.00 0.00 0.00 3.93
311 312 2.757077 CCGGTTCTCCCAAAGCCT 59.243 61.111 0.00 0.00 0.00 4.58
312 313 3.062466 GCCGGTTCTCCCAAAGCC 61.062 66.667 1.90 0.00 0.00 4.35
313 314 2.282180 TGCCGGTTCTCCCAAAGC 60.282 61.111 1.90 0.00 0.00 3.51
314 315 0.821711 TTGTGCCGGTTCTCCCAAAG 60.822 55.000 1.90 0.00 0.00 2.77
315 316 1.104577 GTTGTGCCGGTTCTCCCAAA 61.105 55.000 1.90 0.00 0.00 3.28
316 317 1.527380 GTTGTGCCGGTTCTCCCAA 60.527 57.895 1.90 0.00 0.00 4.12
317 318 2.112297 GTTGTGCCGGTTCTCCCA 59.888 61.111 1.90 0.00 0.00 4.37
318 319 2.671963 GGTTGTGCCGGTTCTCCC 60.672 66.667 1.90 0.00 0.00 4.30
319 320 1.833787 TAGGGTTGTGCCGGTTCTCC 61.834 60.000 1.90 0.00 38.44 3.71
320 321 0.252197 ATAGGGTTGTGCCGGTTCTC 59.748 55.000 1.90 0.00 38.44 2.87
321 322 1.485066 CTATAGGGTTGTGCCGGTTCT 59.515 52.381 1.90 0.00 38.44 3.01
322 323 1.474498 CCTATAGGGTTGTGCCGGTTC 60.474 57.143 11.33 0.00 38.44 3.62
323 324 0.544697 CCTATAGGGTTGTGCCGGTT 59.455 55.000 11.33 0.00 38.44 4.44
324 325 2.218066 CCTATAGGGTTGTGCCGGT 58.782 57.895 11.33 0.00 38.44 5.28
341 342 7.814693 ATATATATATGTGATAGGCCACCCC 57.185 40.000 5.01 0.00 36.26 4.95
362 363 9.918630 GTAACGTTGTATACCACCTCATTATAT 57.081 33.333 11.99 0.00 0.00 0.86
363 364 8.911965 TGTAACGTTGTATACCACCTCATTATA 58.088 33.333 11.99 0.00 0.00 0.98
364 365 7.784037 TGTAACGTTGTATACCACCTCATTAT 58.216 34.615 11.99 0.00 0.00 1.28
365 366 7.167924 TGTAACGTTGTATACCACCTCATTA 57.832 36.000 11.99 0.00 0.00 1.90
366 367 6.040209 TGTAACGTTGTATACCACCTCATT 57.960 37.500 11.99 0.00 0.00 2.57
367 368 5.664294 TGTAACGTTGTATACCACCTCAT 57.336 39.130 11.99 0.00 0.00 2.90
368 369 5.465532 TTGTAACGTTGTATACCACCTCA 57.534 39.130 11.99 0.00 0.00 3.86
369 370 9.185192 GTATATTGTAACGTTGTATACCACCTC 57.815 37.037 11.99 0.00 0.00 3.85
370 371 8.694540 TGTATATTGTAACGTTGTATACCACCT 58.305 33.333 11.99 0.00 30.78 4.00
371 372 8.755018 GTGTATATTGTAACGTTGTATACCACC 58.245 37.037 11.99 6.07 30.78 4.61
372 373 9.299963 TGTGTATATTGTAACGTTGTATACCAC 57.700 33.333 11.99 14.15 30.78 4.16
394 395 9.502091 AATGTGTTAGACTGTATTTACATGTGT 57.498 29.630 9.11 0.00 35.36 3.72
399 400 8.705134 CGTCAAATGTGTTAGACTGTATTTACA 58.295 33.333 0.00 0.00 34.56 2.41
400 401 8.166706 CCGTCAAATGTGTTAGACTGTATTTAC 58.833 37.037 0.00 0.00 0.00 2.01
401 402 7.874016 ACCGTCAAATGTGTTAGACTGTATTTA 59.126 33.333 0.00 0.00 28.78 1.40
402 403 6.708949 ACCGTCAAATGTGTTAGACTGTATTT 59.291 34.615 0.00 0.00 28.78 1.40
403 404 6.228258 ACCGTCAAATGTGTTAGACTGTATT 58.772 36.000 0.00 0.00 28.78 1.89
404 405 5.790593 ACCGTCAAATGTGTTAGACTGTAT 58.209 37.500 0.00 0.00 28.78 2.29
405 406 5.010314 AGACCGTCAAATGTGTTAGACTGTA 59.990 40.000 0.40 0.00 30.35 2.74
406 407 4.056050 GACCGTCAAATGTGTTAGACTGT 58.944 43.478 0.00 0.00 32.38 3.55
407 408 4.307432 AGACCGTCAAATGTGTTAGACTG 58.693 43.478 0.40 0.00 0.00 3.51
408 409 4.602340 AGACCGTCAAATGTGTTAGACT 57.398 40.909 0.40 0.00 0.00 3.24
409 410 5.345202 CAGTAGACCGTCAAATGTGTTAGAC 59.655 44.000 0.40 0.00 0.00 2.59
410 411 5.466819 CAGTAGACCGTCAAATGTGTTAGA 58.533 41.667 0.40 0.00 0.00 2.10
411 412 4.091509 GCAGTAGACCGTCAAATGTGTTAG 59.908 45.833 0.40 0.00 0.00 2.34
412 413 3.991773 GCAGTAGACCGTCAAATGTGTTA 59.008 43.478 0.40 0.00 0.00 2.41
413 414 2.806244 GCAGTAGACCGTCAAATGTGTT 59.194 45.455 0.40 0.00 0.00 3.32
414 415 2.037251 AGCAGTAGACCGTCAAATGTGT 59.963 45.455 0.40 0.00 0.00 3.72
567 568 2.542020 TGCTGAAAACGATCCAGTCA 57.458 45.000 0.00 0.00 0.00 3.41
569 570 2.154462 CCTTGCTGAAAACGATCCAGT 58.846 47.619 0.00 0.00 0.00 4.00
581 582 2.044650 GCATCCAGGCCTTGCTGA 60.045 61.111 18.80 7.03 33.61 4.26
596 597 1.600636 CGGCAACTTCCTTCCTGCA 60.601 57.895 0.00 0.00 36.50 4.41
598 599 0.674895 CCTCGGCAACTTCCTTCCTG 60.675 60.000 0.00 0.00 0.00 3.86
711 715 2.665165 TCAAAGGAAGCAAGCAAAGGA 58.335 42.857 0.00 0.00 0.00 3.36
832 922 2.121538 GGGCGGGAGGAAAATCAGC 61.122 63.158 0.00 0.00 0.00 4.26
835 925 0.395312 TATCGGGCGGGAGGAAAATC 59.605 55.000 0.00 0.00 0.00 2.17
836 926 0.841289 TTATCGGGCGGGAGGAAAAT 59.159 50.000 0.00 0.00 0.00 1.82
939 1031 0.599991 CTACTGTGCAGCGTTCACCA 60.600 55.000 0.00 0.00 33.71 4.17
1089 1181 2.110967 CATGCCCTTCAGCCTCGTG 61.111 63.158 0.00 0.00 0.00 4.35
1123 1215 0.534412 ATCAGCTCTGTCAACTCCGG 59.466 55.000 0.00 0.00 0.00 5.14
1181 1273 4.182433 TGCAGCCGGTGTCCAACA 62.182 61.111 1.90 0.00 0.00 3.33
1221 1313 3.400599 GAACACCCCATCGGCCGAT 62.401 63.158 34.60 34.60 34.81 4.18
1262 1354 2.125633 GTTTCCTCGTCCTCCCGC 60.126 66.667 0.00 0.00 0.00 6.13
1479 1571 1.229428 CATCAACCAGCGTGTCAGTT 58.771 50.000 0.00 0.00 0.00 3.16
1543 1635 2.617308 AGTGTACGTACCTCGGATGATG 59.383 50.000 22.43 0.00 44.69 3.07
1544 1636 2.928334 AGTGTACGTACCTCGGATGAT 58.072 47.619 22.43 0.00 44.69 2.45
1593 1685 9.982651 AAAGAGAAATCGTGCTAGCTATTATAA 57.017 29.630 17.23 0.00 0.00 0.98
1622 1714 1.133253 CAAATCAGTGCGAGCGTGG 59.867 57.895 0.00 0.00 0.00 4.94
1650 1742 5.253330 AGCTCGTGATTTAATTTCCTCCAA 58.747 37.500 0.00 0.00 0.00 3.53
1668 1760 2.073816 ACCAAACCATAACGAAGCTCG 58.926 47.619 0.00 4.36 46.93 5.03
1687 1779 5.112686 CACCTGTAATAGCTCCTGAAAGAC 58.887 45.833 0.00 0.00 34.07 3.01
1752 1844 1.000359 TGGGTCTCGCAGATCTGGA 60.000 57.895 23.89 17.06 33.89 3.86
1771 1863 1.662122 GTAACGGCGTACTTGATTGGG 59.338 52.381 15.20 0.00 0.00 4.12
1789 1881 1.018752 TGTGCTCGCCGTAGTACGTA 61.019 55.000 20.60 5.81 40.58 3.57
2242 2336 1.283029 AGTGAAGTGATGGGTCATGGG 59.717 52.381 0.00 0.00 36.60 4.00
2243 2337 2.751259 CAAGTGAAGTGATGGGTCATGG 59.249 50.000 0.00 0.00 36.60 3.66
2244 2338 2.163010 GCAAGTGAAGTGATGGGTCATG 59.837 50.000 0.00 0.00 36.60 3.07
2245 2339 2.224843 TGCAAGTGAAGTGATGGGTCAT 60.225 45.455 0.00 0.00 36.60 3.06
2246 2340 1.142667 TGCAAGTGAAGTGATGGGTCA 59.857 47.619 0.00 0.00 0.00 4.02
2247 2341 1.896220 TGCAAGTGAAGTGATGGGTC 58.104 50.000 0.00 0.00 0.00 4.46
2248 2342 2.165167 CATGCAAGTGAAGTGATGGGT 58.835 47.619 0.00 0.00 0.00 4.51
2249 2343 1.135199 GCATGCAAGTGAAGTGATGGG 60.135 52.381 14.21 0.00 0.00 4.00
2336 2430 3.067106 AGTTGCACACTGGTTAGATTCG 58.933 45.455 0.00 0.00 32.83 3.34
2541 2645 1.685517 TCTTCGGATCTGCTCATGGAG 59.314 52.381 0.00 0.00 0.00 3.86
2665 2769 6.021596 CCGTTATCTCTTTATGTTTGTGCAC 58.978 40.000 10.75 10.75 0.00 4.57
3147 3256 3.513515 GGTGGGTATTTTTCCTTGCATGA 59.486 43.478 0.00 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.