Multiple sequence alignment - TraesCS3B01G274700

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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 TraesCS3B01G274700 chr3B 100.000 2939 0 0 1 2939 443373650 443370712 0.000000e+00 5428
1 TraesCS3B01G274700 chr3B 88.889 405 40 4 2503 2904 61800995 61801397 7.320000e-136 494
2 TraesCS3B01G274700 chr3D 94.104 2612 96 17 371 2935 343449200 343451800 0.000000e+00 3917
3 TraesCS3B01G274700 chr3D 89.877 405 36 4 2503 2904 38938508 38938910 1.560000e-142 516
4 TraesCS3B01G274700 chr3D 90.244 246 24 0 11 256 343447476 343447721 3.650000e-84 322
5 TraesCS3B01G274700 chr3A 92.191 2036 95 27 466 2450 459053153 459051131 0.000000e+00 2820
6 TraesCS3B01G274700 chr3A 96.757 370 10 1 2446 2813 459050877 459050508 1.500000e-172 616
7 TraesCS3B01G274700 chr3A 88.835 412 40 6 2497 2905 9355667 9355259 4.370000e-138 501
8 TraesCS3B01G274700 chr4B 89.901 406 35 6 2504 2906 581070225 581070627 4.340000e-143 518
9 TraesCS3B01G274700 chr7B 88.164 414 41 8 2501 2910 609297309 609296900 1.220000e-133 486
10 TraesCS3B01G274700 chr7B 87.167 413 46 6 2501 2910 609200425 609200017 2.060000e-126 462
11 TraesCS3B01G274700 chr2D 88.136 413 39 8 2491 2899 650237625 650238031 1.580000e-132 483
12 TraesCS3B01G274700 chr2B 81.564 179 31 1 129 307 256383921 256384097 2.360000e-31 147


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 TraesCS3B01G274700 chr3B 443370712 443373650 2938 True 5428.0 5428 100.000 1 2939 1 chr3B.!!$R1 2938
1 TraesCS3B01G274700 chr3D 343447476 343451800 4324 False 2119.5 3917 92.174 11 2935 2 chr3D.!!$F2 2924
2 TraesCS3B01G274700 chr3A 459050508 459053153 2645 True 1718.0 2820 94.474 466 2813 2 chr3A.!!$R2 2347

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
630 2017 0.035317 AGTTGCAATGAGAGCGGTGA 59.965 50.0 0.59 0.0 33.85 4.02 F
657 2044 0.250234 AGGCGAACTATGAGCTGCAA 59.750 50.0 1.02 0.0 0.00 4.08 F
739 2126 0.323629 GGTGAAGGATTGACGGGACA 59.676 55.0 0.00 0.0 30.92 4.02 F
805 2214 0.675522 GCTACCAGCGCCCTTTACAA 60.676 55.0 2.29 0.0 0.00 2.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1473 2894 0.806492 GAGTTAGTGGCGGCAGTAGC 60.806 60.000 26.48 26.48 41.10 3.58 R
1545 2966 1.303888 AAGCTCCCCGACGTCTACA 60.304 57.895 14.70 0.00 0.00 2.74 R
1755 3176 1.616374 TGCATATCCTTCCGCATACGA 59.384 47.619 0.00 0.00 43.93 3.43 R
1951 3372 2.887152 ACCAACCTCATTTGCTGAACTC 59.113 45.455 0.00 0.00 32.14 3.01 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
30 31 7.803131 AGAGGTAAACCCTATGTCCTAATTTC 58.197 38.462 0.00 0.00 46.51 2.17
76 77 6.778559 GGACAGAGTATAGGTTGATCTACCTT 59.221 42.308 29.79 20.05 46.39 3.50
80 81 7.721842 CAGAGTATAGGTTGATCTACCTTGAGA 59.278 40.741 29.79 15.14 46.39 3.27
95 96 5.655488 ACCTTGAGATCGTAAGTGAATGAG 58.345 41.667 9.97 0.00 39.48 2.90
98 99 6.591834 CCTTGAGATCGTAAGTGAATGAGTTT 59.408 38.462 9.97 0.00 39.48 2.66
104 105 4.502431 TCGTAAGTGAATGAGTTTGCCTCA 60.502 41.667 0.00 0.00 46.81 3.86
105 106 5.971027 TCGTAAGTGAATGAGTTTGCCTCAA 60.971 40.000 0.00 0.00 46.24 3.02
121 122 1.621814 CTCAACGGTCTAAACCCCTCA 59.378 52.381 0.00 0.00 43.21 3.86
122 123 2.038033 CTCAACGGTCTAAACCCCTCAA 59.962 50.000 0.00 0.00 43.21 3.02
126 127 2.440627 ACGGTCTAAACCCCTCAACTTT 59.559 45.455 0.00 0.00 43.21 2.66
140 141 6.371825 CCCCTCAACTTTTATAGACACTTGTC 59.628 42.308 0.77 0.77 45.08 3.18
156 157 6.658831 ACACTTGTCGAAGATTGTATTTGTG 58.341 36.000 0.00 0.00 40.67 3.33
170 171 2.284754 TTTGTGCCTTGGAGTATGCA 57.715 45.000 0.00 0.00 30.91 3.96
190 191 3.311048 GCATCAAGTCTTCGGAAGATTCC 59.689 47.826 22.23 10.65 44.05 3.01
225 226 4.133796 GGGCTTGGCGAATGTGGC 62.134 66.667 0.00 0.00 0.00 5.01
241 242 0.692419 TGGCCCATTGGTTGGTTGTT 60.692 50.000 0.00 0.00 44.83 2.83
243 244 1.592064 GCCCATTGGTTGGTTGTTTG 58.408 50.000 1.20 0.00 44.83 2.93
252 253 0.105913 TTGGTTGTTTGGGGGTCCTC 60.106 55.000 0.00 0.00 0.00 3.71
264 265 4.083862 GTCCTCGACCCAGCCCAC 62.084 72.222 0.00 0.00 0.00 4.61
267 268 3.775654 CTCGACCCAGCCCACCTC 61.776 72.222 0.00 0.00 0.00 3.85
269 270 2.363795 CGACCCAGCCCACCTCTA 60.364 66.667 0.00 0.00 0.00 2.43
270 271 2.427245 CGACCCAGCCCACCTCTAG 61.427 68.421 0.00 0.00 0.00 2.43
271 272 2.041265 ACCCAGCCCACCTCTAGG 59.959 66.667 0.00 0.00 42.17 3.02
273 274 1.764054 CCCAGCCCACCTCTAGGAG 60.764 68.421 2.23 0.00 38.94 3.69
276 277 3.541713 GCCCACCTCTAGGAGCCG 61.542 72.222 2.23 0.00 38.94 5.52
277 278 2.279073 CCCACCTCTAGGAGCCGA 59.721 66.667 2.23 0.00 38.94 5.54
279 280 2.482333 CCACCTCTAGGAGCCGACG 61.482 68.421 2.23 0.00 38.94 5.12
280 281 1.749638 CACCTCTAGGAGCCGACGT 60.750 63.158 2.23 0.00 38.94 4.34
282 283 2.482333 CCTCTAGGAGCCGACGTGG 61.482 68.421 0.00 0.00 38.02 4.94
283 284 1.749638 CTCTAGGAGCCGACGTGGT 60.750 63.158 0.00 0.00 41.21 4.16
284 285 1.303888 TCTAGGAGCCGACGTGGTT 60.304 57.895 0.00 0.00 41.21 3.67
286 287 0.381089 CTAGGAGCCGACGTGGTTAG 59.619 60.000 0.00 0.00 41.21 2.34
290 291 1.146358 GAGCCGACGTGGTTAGCATC 61.146 60.000 0.00 0.00 41.21 3.91
291 292 2.171725 GCCGACGTGGTTAGCATCC 61.172 63.158 0.00 0.00 41.21 3.51
292 293 1.520787 CCGACGTGGTTAGCATCCC 60.521 63.158 0.00 0.00 0.00 3.85
293 294 1.520787 CGACGTGGTTAGCATCCCC 60.521 63.158 0.00 0.00 0.00 4.81
294 295 1.153229 GACGTGGTTAGCATCCCCC 60.153 63.158 0.00 0.00 0.00 5.40
295 296 1.615424 ACGTGGTTAGCATCCCCCT 60.615 57.895 0.00 0.00 0.00 4.79
296 297 0.325860 ACGTGGTTAGCATCCCCCTA 60.326 55.000 0.00 0.00 0.00 3.53
298 299 1.209621 GTGGTTAGCATCCCCCTACA 58.790 55.000 0.00 0.00 0.00 2.74
299 300 1.774856 GTGGTTAGCATCCCCCTACAT 59.225 52.381 0.00 0.00 0.00 2.29
300 301 2.976882 GTGGTTAGCATCCCCCTACATA 59.023 50.000 0.00 0.00 0.00 2.29
302 303 2.572104 GGTTAGCATCCCCCTACATAGG 59.428 54.545 0.00 0.00 43.25 2.57
303 304 3.517612 GTTAGCATCCCCCTACATAGGA 58.482 50.000 6.52 0.00 46.63 2.94
304 305 2.031495 AGCATCCCCCTACATAGGAC 57.969 55.000 6.52 0.00 46.63 3.85
305 306 1.223077 AGCATCCCCCTACATAGGACA 59.777 52.381 6.52 0.00 46.63 4.02
306 307 1.348036 GCATCCCCCTACATAGGACAC 59.652 57.143 6.52 0.00 46.63 3.67
307 308 2.689658 CATCCCCCTACATAGGACACA 58.310 52.381 6.52 0.00 46.63 3.72
308 309 2.170012 TCCCCCTACATAGGACACAC 57.830 55.000 6.52 0.00 46.63 3.82
309 310 1.129058 CCCCCTACATAGGACACACC 58.871 60.000 6.52 0.00 46.63 4.16
310 311 1.624113 CCCCCTACATAGGACACACCA 60.624 57.143 6.52 0.00 46.63 4.17
312 313 2.368875 CCCCTACATAGGACACACCATC 59.631 54.545 6.52 0.00 46.63 3.51
313 314 3.038280 CCCTACATAGGACACACCATCA 58.962 50.000 6.52 0.00 46.63 3.07
314 315 3.070159 CCCTACATAGGACACACCATCAG 59.930 52.174 6.52 0.00 46.63 2.90
315 316 3.706594 CCTACATAGGACACACCATCAGT 59.293 47.826 0.00 0.00 46.63 3.41
331 332 4.691175 CATCAGTGGAGTTGGAGATACTG 58.309 47.826 0.00 0.00 37.47 2.74
333 334 3.099905 CAGTGGAGTTGGAGATACTGGA 58.900 50.000 0.00 0.00 33.69 3.86
334 335 3.515502 CAGTGGAGTTGGAGATACTGGAA 59.484 47.826 0.00 0.00 33.69 3.53
335 336 3.515901 AGTGGAGTTGGAGATACTGGAAC 59.484 47.826 0.00 0.00 0.00 3.62
337 338 2.170817 GGAGTTGGAGATACTGGAACCC 59.829 54.545 0.00 0.00 0.00 4.11
341 342 1.553248 TGGAGATACTGGAACCCGTTG 59.447 52.381 0.00 0.00 0.00 4.10
342 343 1.829222 GGAGATACTGGAACCCGTTGA 59.171 52.381 0.00 0.00 0.00 3.18
344 345 3.307199 GGAGATACTGGAACCCGTTGAAA 60.307 47.826 0.00 0.00 0.00 2.69
346 347 1.886886 TACTGGAACCCGTTGAAAGC 58.113 50.000 0.00 0.00 0.00 3.51
347 348 1.164041 ACTGGAACCCGTTGAAAGCG 61.164 55.000 0.00 0.00 0.00 4.68
348 349 0.882927 CTGGAACCCGTTGAAAGCGA 60.883 55.000 0.00 0.00 0.00 4.93
350 351 0.168128 GGAACCCGTTGAAAGCGATG 59.832 55.000 0.00 0.00 0.00 3.84
351 352 0.872388 GAACCCGTTGAAAGCGATGT 59.128 50.000 0.00 0.00 0.00 3.06
352 353 1.265905 GAACCCGTTGAAAGCGATGTT 59.734 47.619 0.00 0.00 0.00 2.71
353 354 0.591170 ACCCGTTGAAAGCGATGTTG 59.409 50.000 0.00 0.00 0.00 3.33
354 355 0.729140 CCCGTTGAAAGCGATGTTGC 60.729 55.000 0.00 0.00 0.00 4.17
355 356 0.040514 CCGTTGAAAGCGATGTTGCA 60.041 50.000 0.00 0.00 37.31 4.08
356 357 1.599171 CCGTTGAAAGCGATGTTGCAA 60.599 47.619 0.00 0.00 37.31 4.08
357 358 2.115595 CGTTGAAAGCGATGTTGCAAA 58.884 42.857 0.00 0.00 37.31 3.68
376 1741 0.037303 ACACAACCTGAGGATGCTGG 59.963 55.000 4.99 0.00 0.00 4.85
382 1747 1.146485 CTGAGGATGCTGGAGCTGG 59.854 63.158 0.00 0.00 42.66 4.85
450 1815 0.788383 AGGGGGAGTGTGTGGTACTA 59.212 55.000 0.00 0.00 0.00 1.82
457 1822 3.057734 GAGTGTGTGGTACTACAGCAAC 58.942 50.000 12.89 11.24 36.14 4.17
496 1861 1.281899 GCTGTGCGTGATTAGTCCTC 58.718 55.000 0.00 0.00 0.00 3.71
501 1866 1.899814 TGCGTGATTAGTCCTCCAAGT 59.100 47.619 0.00 0.00 0.00 3.16
516 1881 2.102420 TCCAAGTGTCACAATCGAGTGT 59.898 45.455 13.61 13.61 40.37 3.55
568 1933 2.048503 GGCGACCAACTGCTACGT 60.049 61.111 0.00 0.00 0.00 3.57
569 1934 2.092882 GGCGACCAACTGCTACGTC 61.093 63.158 0.00 0.00 0.00 4.34
573 1943 0.601558 GACCAACTGCTACGTCAGGA 59.398 55.000 8.89 0.00 38.36 3.86
618 1988 1.008875 CAGCGAGCTACGAGTTGCAA 61.009 55.000 11.70 0.00 45.77 4.08
630 2017 0.035317 AGTTGCAATGAGAGCGGTGA 59.965 50.000 0.59 0.00 33.85 4.02
648 2035 2.939103 GTGAGCAATGAAGGCGAACTAT 59.061 45.455 0.00 0.00 36.08 2.12
657 2044 0.250234 AGGCGAACTATGAGCTGCAA 59.750 50.000 1.02 0.00 0.00 4.08
702 2089 1.156736 CGGTGACTTCATTGACCCAC 58.843 55.000 0.00 0.00 0.00 4.61
714 2101 2.575805 TGACCCACAATGCACATGTA 57.424 45.000 0.00 0.00 0.00 2.29
718 2105 3.429492 ACCCACAATGCACATGTATGAA 58.571 40.909 0.00 0.00 0.00 2.57
721 2108 4.426416 CCACAATGCACATGTATGAAAGG 58.574 43.478 0.00 0.38 0.00 3.11
739 2126 0.323629 GGTGAAGGATTGACGGGACA 59.676 55.000 0.00 0.00 30.92 4.02
753 2140 3.081804 ACGGGACAAGAATCAAATGACC 58.918 45.455 0.00 0.00 0.00 4.02
755 2142 3.696051 CGGGACAAGAATCAAATGACCAT 59.304 43.478 0.00 0.00 31.75 3.55
757 2144 4.463891 GGGACAAGAATCAAATGACCATGT 59.536 41.667 0.00 0.00 31.75 3.21
772 2181 1.404047 CCATGTGGCGGAAATTTGGAC 60.404 52.381 0.00 0.00 0.00 4.02
804 2213 1.078708 GCTACCAGCGCCCTTTACA 60.079 57.895 2.29 0.00 0.00 2.41
805 2214 0.675522 GCTACCAGCGCCCTTTACAA 60.676 55.000 2.29 0.00 0.00 2.41
894 2303 2.426024 TGAAGTACTAGTGGGCGATGTC 59.574 50.000 5.39 0.00 0.00 3.06
1176 2585 3.007973 GCCTGAGTGGACGGAGGAC 62.008 68.421 0.00 0.00 38.35 3.85
1194 2603 3.302347 CTCCACCTTCGCGCTCCTT 62.302 63.158 5.56 0.00 0.00 3.36
1548 2969 2.266372 CGCCGTTCATGGGGTGTA 59.734 61.111 0.00 0.00 37.20 2.90
1642 3063 4.282449 TGAGGGAAAAACAGACATACGAGA 59.718 41.667 0.00 0.00 0.00 4.04
1755 3176 2.183409 GCACATGGCGGAGTTGAAT 58.817 52.632 0.00 0.00 0.00 2.57
1917 3338 2.158623 TGTTGAGGAGCAGAACAATGGT 60.159 45.455 0.00 0.00 0.00 3.55
1918 3339 2.479566 TGAGGAGCAGAACAATGGTC 57.520 50.000 0.00 0.00 44.96 4.02
1951 3372 1.518572 CCTTAGCCCAGCACGTACG 60.519 63.158 15.01 15.01 0.00 3.67
2068 3495 4.263639 CCTCATGCTTATATCATGGTGGGT 60.264 45.833 12.70 0.00 41.11 4.51
2237 3664 5.913137 TTTGTAGGGTCTTGCATTTATGG 57.087 39.130 0.00 0.00 0.00 2.74
2432 3859 8.960591 GCAGCCAATGACTATGGTAATTATAAT 58.039 33.333 0.00 0.00 40.23 1.28
2537 4222 0.179119 GCTGCAGGAATTGGATGCAC 60.179 55.000 17.12 0.00 44.56 4.57
2748 4435 9.605275 CATGTTGAGAGAATTAAATCTAGTGGA 57.395 33.333 0.00 0.00 0.00 4.02
2813 4500 7.559590 AAGATAATTGAGTTAGTGGTGATGC 57.440 36.000 0.00 0.00 0.00 3.91
2822 4509 5.804639 AGTTAGTGGTGATGCACTATTTGA 58.195 37.500 0.00 0.00 34.36 2.69
2886 4573 9.620259 GATAAATAAGATAGTGGGGATGAATCC 57.380 37.037 0.26 0.26 46.41 3.01
2935 4622 2.159043 AGATCTGTGTTGCTACCATCGG 60.159 50.000 0.00 0.00 0.00 4.18
2936 4623 0.249120 TCTGTGTTGCTACCATCGGG 59.751 55.000 0.00 0.00 41.29 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 7.832685 ACAAGAAATTAGGACATAGGGTTTACC 59.167 37.037 0.00 0.00 40.67 2.85
9 10 8.803397 ACAAGAAATTAGGACATAGGGTTTAC 57.197 34.615 0.00 0.00 0.00 2.01
30 31 5.711976 GTCCCCCATCCATAATCAATACAAG 59.288 44.000 0.00 0.00 0.00 3.16
76 77 5.348724 GCAAACTCATTCACTTACGATCTCA 59.651 40.000 0.00 0.00 0.00 3.27
80 81 4.579869 AGGCAAACTCATTCACTTACGAT 58.420 39.130 0.00 0.00 0.00 3.73
95 96 2.031420 GGTTTAGACCGTTGAGGCAAAC 60.031 50.000 0.00 0.00 46.52 2.93
98 99 3.618171 GGTTTAGACCGTTGAGGCA 57.382 52.632 0.00 0.00 46.52 4.75
121 122 9.490379 AATCTTCGACAAGTGTCTATAAAAGTT 57.510 29.630 9.63 0.00 42.66 2.66
122 123 8.926710 CAATCTTCGACAAGTGTCTATAAAAGT 58.073 33.333 9.63 0.00 42.66 2.66
140 141 4.155826 TCCAAGGCACAAATACAATCTTCG 59.844 41.667 0.00 0.00 0.00 3.79
149 150 3.961849 TGCATACTCCAAGGCACAAATA 58.038 40.909 0.00 0.00 0.00 1.40
156 157 2.615912 GACTTGATGCATACTCCAAGGC 59.384 50.000 22.64 18.73 40.02 4.35
190 191 1.881973 CCCCATGGCGTATTCAAGATG 59.118 52.381 6.09 0.00 0.00 2.90
203 204 2.442643 ATTCGCCAAGCCCCATGG 60.443 61.111 4.14 4.14 41.08 3.66
215 216 1.887344 AACCAATGGGCCACATTCGC 61.887 55.000 9.28 0.00 46.67 4.70
229 230 0.252742 ACCCCCAAACAACCAACCAA 60.253 50.000 0.00 0.00 0.00 3.67
252 253 2.363795 TAGAGGTGGGCTGGGTCG 60.364 66.667 0.00 0.00 0.00 4.79
256 257 2.439104 GCTCCTAGAGGTGGGCTGG 61.439 68.421 0.00 0.00 36.34 4.85
257 258 2.439104 GGCTCCTAGAGGTGGGCTG 61.439 68.421 0.00 0.00 36.34 4.85
258 259 2.041405 GGCTCCTAGAGGTGGGCT 60.041 66.667 0.00 0.00 36.34 5.19
259 260 3.541713 CGGCTCCTAGAGGTGGGC 61.542 72.222 0.00 2.22 36.34 5.36
260 261 2.128507 GTCGGCTCCTAGAGGTGGG 61.129 68.421 0.00 0.00 36.34 4.61
262 263 1.749638 ACGTCGGCTCCTAGAGGTG 60.750 63.158 0.00 0.00 34.68 4.00
264 265 2.482333 CCACGTCGGCTCCTAGAGG 61.482 68.421 0.00 0.00 0.00 3.69
266 267 0.035152 TAACCACGTCGGCTCCTAGA 60.035 55.000 0.00 0.00 39.03 2.43
267 268 0.381089 CTAACCACGTCGGCTCCTAG 59.619 60.000 0.00 0.00 39.03 3.02
269 270 3.003113 GCTAACCACGTCGGCTCCT 62.003 63.158 0.00 0.00 39.03 3.69
270 271 2.508663 GCTAACCACGTCGGCTCC 60.509 66.667 0.00 0.00 39.03 4.70
271 272 1.146358 GATGCTAACCACGTCGGCTC 61.146 60.000 0.00 0.00 39.03 4.70
273 274 2.171725 GGATGCTAACCACGTCGGC 61.172 63.158 0.00 0.00 39.03 5.54
276 277 1.153229 GGGGGATGCTAACCACGTC 60.153 63.158 0.00 0.00 0.00 4.34
277 278 0.325860 TAGGGGGATGCTAACCACGT 60.326 55.000 0.00 0.00 34.59 4.49
279 280 1.209621 TGTAGGGGGATGCTAACCAC 58.790 55.000 0.00 0.00 0.00 4.16
280 281 2.206322 ATGTAGGGGGATGCTAACCA 57.794 50.000 0.00 0.00 0.00 3.67
282 283 3.261137 GTCCTATGTAGGGGGATGCTAAC 59.739 52.174 6.25 0.00 43.79 2.34
283 284 3.116512 TGTCCTATGTAGGGGGATGCTAA 60.117 47.826 6.25 0.00 43.79 3.09
284 285 2.453212 TGTCCTATGTAGGGGGATGCTA 59.547 50.000 6.25 0.00 43.79 3.49
286 287 1.348036 GTGTCCTATGTAGGGGGATGC 59.652 57.143 6.25 0.00 43.79 3.91
290 291 1.129058 GGTGTGTCCTATGTAGGGGG 58.871 60.000 6.25 0.00 43.79 5.40
291 292 1.874129 TGGTGTGTCCTATGTAGGGG 58.126 55.000 6.25 0.00 43.79 4.79
292 293 3.038280 TGATGGTGTGTCCTATGTAGGG 58.962 50.000 6.25 0.00 43.79 3.53
293 294 3.706594 ACTGATGGTGTGTCCTATGTAGG 59.293 47.826 0.00 0.00 45.02 3.18
294 295 4.442052 CCACTGATGGTGTGTCCTATGTAG 60.442 50.000 0.00 0.00 43.94 2.74
295 296 3.450817 CCACTGATGGTGTGTCCTATGTA 59.549 47.826 0.00 0.00 43.94 2.29
296 297 2.237143 CCACTGATGGTGTGTCCTATGT 59.763 50.000 0.00 0.00 43.94 2.29
309 310 4.442612 CCAGTATCTCCAACTCCACTGATG 60.443 50.000 0.00 0.00 36.37 3.07
310 311 3.708631 CCAGTATCTCCAACTCCACTGAT 59.291 47.826 0.00 0.00 36.37 2.90
312 313 3.099905 TCCAGTATCTCCAACTCCACTG 58.900 50.000 0.00 0.00 34.54 3.66
313 314 3.474798 TCCAGTATCTCCAACTCCACT 57.525 47.619 0.00 0.00 0.00 4.00
314 315 3.369576 GGTTCCAGTATCTCCAACTCCAC 60.370 52.174 0.00 0.00 0.00 4.02
315 316 2.838202 GGTTCCAGTATCTCCAACTCCA 59.162 50.000 0.00 0.00 0.00 3.86
316 317 2.170817 GGGTTCCAGTATCTCCAACTCC 59.829 54.545 0.00 0.00 0.00 3.85
318 319 1.831736 CGGGTTCCAGTATCTCCAACT 59.168 52.381 0.00 0.00 0.00 3.16
319 320 1.553704 ACGGGTTCCAGTATCTCCAAC 59.446 52.381 0.00 0.00 0.00 3.77
320 321 1.946984 ACGGGTTCCAGTATCTCCAA 58.053 50.000 0.00 0.00 0.00 3.53
321 322 1.553248 CAACGGGTTCCAGTATCTCCA 59.447 52.381 0.00 0.00 0.00 3.86
322 323 1.829222 TCAACGGGTTCCAGTATCTCC 59.171 52.381 0.00 0.00 0.00 3.71
323 324 3.604875 TTCAACGGGTTCCAGTATCTC 57.395 47.619 0.00 0.00 0.00 2.75
324 325 3.868754 GCTTTCAACGGGTTCCAGTATCT 60.869 47.826 0.00 0.00 0.00 1.98
325 326 2.418976 GCTTTCAACGGGTTCCAGTATC 59.581 50.000 0.00 0.00 0.00 2.24
327 328 1.874739 CGCTTTCAACGGGTTCCAGTA 60.875 52.381 0.00 0.00 0.00 2.74
328 329 1.164041 CGCTTTCAACGGGTTCCAGT 61.164 55.000 0.00 0.00 0.00 4.00
329 330 0.882927 TCGCTTTCAACGGGTTCCAG 60.883 55.000 0.00 0.00 0.00 3.86
330 331 0.250553 ATCGCTTTCAACGGGTTCCA 60.251 50.000 0.00 0.00 0.00 3.53
331 332 0.168128 CATCGCTTTCAACGGGTTCC 59.832 55.000 0.00 0.00 0.00 3.62
333 334 1.001815 CAACATCGCTTTCAACGGGTT 60.002 47.619 0.00 0.00 0.00 4.11
334 335 0.591170 CAACATCGCTTTCAACGGGT 59.409 50.000 0.00 0.00 0.00 5.28
335 336 0.729140 GCAACATCGCTTTCAACGGG 60.729 55.000 0.00 0.00 0.00 5.28
337 338 1.752753 TTGCAACATCGCTTTCAACG 58.247 45.000 0.00 0.00 0.00 4.10
341 342 2.458951 TGTGTTTGCAACATCGCTTTC 58.541 42.857 0.00 0.00 44.35 2.62
342 343 2.575694 TGTGTTTGCAACATCGCTTT 57.424 40.000 0.00 0.00 44.35 3.51
344 345 1.838913 GTTGTGTTTGCAACATCGCT 58.161 45.000 0.00 0.00 45.70 4.93
350 351 1.748493 TCCTCAGGTTGTGTTTGCAAC 59.252 47.619 0.00 0.00 45.68 4.17
351 352 2.136298 TCCTCAGGTTGTGTTTGCAA 57.864 45.000 0.00 0.00 0.00 4.08
352 353 1.955778 CATCCTCAGGTTGTGTTTGCA 59.044 47.619 0.00 0.00 0.00 4.08
353 354 1.336240 GCATCCTCAGGTTGTGTTTGC 60.336 52.381 3.62 0.00 0.00 3.68
354 355 2.030540 CAGCATCCTCAGGTTGTGTTTG 60.031 50.000 3.62 0.00 0.00 2.93
355 356 2.233271 CAGCATCCTCAGGTTGTGTTT 58.767 47.619 3.62 0.00 0.00 2.83
356 357 1.546323 CCAGCATCCTCAGGTTGTGTT 60.546 52.381 3.62 0.00 0.00 3.32
357 358 0.037303 CCAGCATCCTCAGGTTGTGT 59.963 55.000 3.62 0.00 0.00 3.72
358 359 0.325933 TCCAGCATCCTCAGGTTGTG 59.674 55.000 3.62 1.46 0.00 3.33
359 360 0.617413 CTCCAGCATCCTCAGGTTGT 59.383 55.000 3.62 0.00 0.00 3.32
360 361 0.747283 GCTCCAGCATCCTCAGGTTG 60.747 60.000 0.00 0.00 41.59 3.77
362 363 1.306825 AGCTCCAGCATCCTCAGGT 60.307 57.895 0.48 0.00 45.16 4.00
363 364 1.146485 CAGCTCCAGCATCCTCAGG 59.854 63.158 0.48 0.00 45.16 3.86
364 365 1.146485 CCAGCTCCAGCATCCTCAG 59.854 63.158 0.48 0.00 45.16 3.35
365 366 3.040206 GCCAGCTCCAGCATCCTCA 62.040 63.158 0.48 0.00 45.16 3.86
368 369 0.605860 CATAGCCAGCTCCAGCATCC 60.606 60.000 0.00 0.00 45.16 3.51
369 370 0.108207 ACATAGCCAGCTCCAGCATC 59.892 55.000 0.00 0.00 45.16 3.91
376 1741 2.540265 AGCATACACATAGCCAGCTC 57.460 50.000 0.00 0.00 0.00 4.09
382 1747 3.364889 TGGTCGTAGCATACACATAGC 57.635 47.619 0.00 0.00 43.24 2.97
429 1794 0.036306 GTACCACACACTCCCCCTTG 59.964 60.000 0.00 0.00 0.00 3.61
462 1827 3.790437 AGCATGCCCGACTCCAGG 61.790 66.667 15.66 0.00 0.00 4.45
496 1861 2.483876 ACACTCGATTGTGACACTTGG 58.516 47.619 7.71 0.00 40.12 3.61
516 1881 1.954146 GCTCGCCGTCAAGTCAACA 60.954 57.895 0.00 0.00 0.00 3.33
568 1933 3.270027 CAATAGCAATTGTCCGTCCTGA 58.730 45.455 7.40 0.00 38.15 3.86
569 1934 2.223340 GCAATAGCAATTGTCCGTCCTG 60.223 50.000 7.40 0.00 43.75 3.86
618 1988 0.538584 TCATTGCTCACCGCTCTCAT 59.461 50.000 0.00 0.00 40.11 2.90
630 2017 3.201290 CTCATAGTTCGCCTTCATTGCT 58.799 45.455 0.00 0.00 0.00 3.91
633 2020 3.201290 CAGCTCATAGTTCGCCTTCATT 58.799 45.455 0.00 0.00 0.00 2.57
638 2025 0.250234 TTGCAGCTCATAGTTCGCCT 59.750 50.000 0.00 0.00 0.00 5.52
702 2089 5.313520 TCACCTTTCATACATGTGCATTG 57.686 39.130 9.11 1.19 0.00 2.82
714 2101 3.347216 CCGTCAATCCTTCACCTTTCAT 58.653 45.455 0.00 0.00 0.00 2.57
718 2105 1.003233 GTCCCGTCAATCCTTCACCTT 59.997 52.381 0.00 0.00 0.00 3.50
721 2108 2.076863 CTTGTCCCGTCAATCCTTCAC 58.923 52.381 0.00 0.00 0.00 3.18
739 2126 3.119388 CGCCACATGGTCATTTGATTCTT 60.119 43.478 0.00 0.00 37.57 2.52
753 2140 1.404047 GGTCCAAATTTCCGCCACATG 60.404 52.381 0.00 0.00 0.00 3.21
755 2142 1.519751 CGGTCCAAATTTCCGCCACA 61.520 55.000 4.11 0.00 37.90 4.17
757 2144 1.974343 CCGGTCCAAATTTCCGCCA 60.974 57.895 10.49 0.00 42.48 5.69
908 2317 5.109903 CGAGGTTAGAATTTGGGAGTAGTG 58.890 45.833 0.00 0.00 0.00 2.74
1176 2585 3.302347 AAGGAGCGCGAAGGTGGAG 62.302 63.158 12.10 0.00 0.00 3.86
1297 2706 1.677942 GACTCGGAGAAGTATCCCGT 58.322 55.000 12.86 0.00 39.19 5.28
1473 2894 0.806492 GAGTTAGTGGCGGCAGTAGC 60.806 60.000 26.48 26.48 41.10 3.58
1545 2966 1.303888 AAGCTCCCCGACGTCTACA 60.304 57.895 14.70 0.00 0.00 2.74
1548 2969 2.600769 ACAAGCTCCCCGACGTCT 60.601 61.111 14.70 0.00 0.00 4.18
1755 3176 1.616374 TGCATATCCTTCCGCATACGA 59.384 47.619 0.00 0.00 43.93 3.43
1917 3338 3.370953 GCTAAGGAGAAGCATCCAAAGGA 60.371 47.826 5.55 0.00 42.26 3.36
1918 3339 2.948315 GCTAAGGAGAAGCATCCAAAGG 59.052 50.000 5.55 0.00 42.26 3.11
1951 3372 2.887152 ACCAACCTCATTTGCTGAACTC 59.113 45.455 0.00 0.00 32.14 3.01
2055 3476 3.535239 AGATAGGCACCCACCATGATAT 58.465 45.455 0.00 0.00 0.00 1.63
2237 3664 7.056002 ACCTCAAACAAAATTTCGAACAAAC 57.944 32.000 0.00 0.00 0.00 2.93
2351 3778 4.970662 GCAATTAGATGTGCCTTCTCAA 57.029 40.909 0.00 0.00 34.58 3.02
2432 3859 9.226606 CAAGGTTTGGTACTTAGACATATTTCA 57.773 33.333 0.00 0.00 0.00 2.69
2443 3870 7.842887 ATTTTAAGGCAAGGTTTGGTACTTA 57.157 32.000 0.00 0.00 0.00 2.24
2523 4208 9.866655 TTATAGAAATAAGTGCATCCAATTCCT 57.133 29.630 0.00 0.00 30.98 3.36
2813 4500 7.219322 TCATCATGTAGGTCCATCAAATAGTG 58.781 38.462 0.00 0.00 0.00 2.74
2822 4509 3.497405 GCCACATCATCATGTAGGTCCAT 60.497 47.826 0.00 0.00 41.69 3.41


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

AutoCloner maintained by Alex Coulton.