Multiple sequence alignment - TraesCS7B01G179800

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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 TraesCS7B01G179800 chr7B 100.000 2086 0 0 1 2086 266565573 266563488 0.000000e+00 3853.0
1 TraesCS7B01G179800 chr7B 100.000 47 0 0 2191 2237 266563383 266563337 1.100000e-13 87.9
2 TraesCS7B01G179800 chr7D 90.537 1416 57 25 702 2083 271936555 271937927 0.000000e+00 1801.0
3 TraesCS7B01G179800 chr7D 88.060 134 7 5 569 694 271936371 271936503 1.380000e-32 150.0
4 TraesCS7B01G179800 chr7A 93.727 1100 30 15 702 1793 304328570 304329638 0.000000e+00 1613.0
5 TraesCS7B01G179800 chr7A 85.294 306 27 6 387 675 304327522 304327826 1.300000e-77 300.0
6 TraesCS7B01G179800 chr7A 90.698 172 16 0 1829 2000 304330814 304330985 1.730000e-56 230.0
7 TraesCS7B01G179800 chr7A 92.308 117 9 0 559 675 304328378 304328494 1.370000e-37 167.0


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 TraesCS7B01G179800 chr7B 266563337 266565573 2236 True 1970.45 3853 100.00000 1 2237 2 chr7B.!!$R1 2236
1 TraesCS7B01G179800 chr7D 271936371 271937927 1556 False 975.50 1801 89.29850 569 2083 2 chr7D.!!$F1 1514
2 TraesCS7B01G179800 chr7A 304327522 304330985 3463 False 577.50 1613 90.50675 387 2000 4 chr7A.!!$F1 1613

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
698 1389 0.726827 CGTAGTTGACGTACGGCCTA 59.273 55.0 20.48 10.93 46.86 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1803 2607 0.24912 TATGTGCTGGACTTCCACCG 59.751 55.0 0.0 0.0 42.01 4.94 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
211 212 7.772721 TTTTTGAAAACAAGCACATTTTTCG 57.227 28.000 0.00 0.00 40.58 3.46
212 213 4.513000 TGAAAACAAGCACATTTTTCGC 57.487 36.364 0.00 0.00 40.58 4.70
213 214 3.928992 TGAAAACAAGCACATTTTTCGCA 59.071 34.783 0.00 0.00 40.58 5.10
214 215 4.389992 TGAAAACAAGCACATTTTTCGCAA 59.610 33.333 0.00 0.00 40.58 4.85
215 216 5.064452 TGAAAACAAGCACATTTTTCGCAAT 59.936 32.000 0.00 0.00 40.58 3.56
216 217 5.482686 AAACAAGCACATTTTTCGCAATT 57.517 30.435 0.00 0.00 0.00 2.32
217 218 6.595772 AAACAAGCACATTTTTCGCAATTA 57.404 29.167 0.00 0.00 0.00 1.40
218 219 6.783892 AACAAGCACATTTTTCGCAATTAT 57.216 29.167 0.00 0.00 0.00 1.28
219 220 6.155691 ACAAGCACATTTTTCGCAATTATG 57.844 33.333 0.00 0.00 0.00 1.90
220 221 5.695816 ACAAGCACATTTTTCGCAATTATGT 59.304 32.000 0.00 0.00 0.00 2.29
221 222 5.766702 AGCACATTTTTCGCAATTATGTG 57.233 34.783 14.65 14.65 45.42 3.21
222 223 5.468592 AGCACATTTTTCGCAATTATGTGA 58.531 33.333 19.84 0.00 45.46 3.58
257 258 9.880064 TGAATTTATGAACAATTTGCAAACATG 57.120 25.926 15.41 18.17 0.00 3.21
260 261 8.883954 TTTATGAACAATTTGCAAACATGAGA 57.116 26.923 25.44 13.23 0.00 3.27
261 262 8.883954 TTATGAACAATTTGCAAACATGAGAA 57.116 26.923 25.44 14.11 0.00 2.87
262 263 7.972832 ATGAACAATTTGCAAACATGAGAAT 57.027 28.000 25.44 15.25 0.00 2.40
263 264 7.789273 TGAACAATTTGCAAACATGAGAATT 57.211 28.000 25.44 13.75 0.00 2.17
264 265 8.211116 TGAACAATTTGCAAACATGAGAATTT 57.789 26.923 25.44 13.47 0.00 1.82
265 266 8.675504 TGAACAATTTGCAAACATGAGAATTTT 58.324 25.926 25.44 12.94 0.00 1.82
266 267 9.505995 GAACAATTTGCAAACATGAGAATTTTT 57.494 25.926 25.44 10.22 0.00 1.94
359 360 9.967451 AAAAGAAAAATAAACTGGAAAAGGGAA 57.033 25.926 0.00 0.00 0.00 3.97
360 361 9.967451 AAAGAAAAATAAACTGGAAAAGGGAAA 57.033 25.926 0.00 0.00 0.00 3.13
361 362 9.967451 AAGAAAAATAAACTGGAAAAGGGAAAA 57.033 25.926 0.00 0.00 0.00 2.29
362 363 9.967451 AGAAAAATAAACTGGAAAAGGGAAAAA 57.033 25.926 0.00 0.00 0.00 1.94
365 366 9.913310 AAAATAAACTGGAAAAGGGAAAAATGA 57.087 25.926 0.00 0.00 0.00 2.57
366 367 9.559732 AAATAAACTGGAAAAGGGAAAAATGAG 57.440 29.630 0.00 0.00 0.00 2.90
367 368 5.551305 AACTGGAAAAGGGAAAAATGAGG 57.449 39.130 0.00 0.00 0.00 3.86
368 369 4.556697 ACTGGAAAAGGGAAAAATGAGGT 58.443 39.130 0.00 0.00 0.00 3.85
369 370 5.711698 ACTGGAAAAGGGAAAAATGAGGTA 58.288 37.500 0.00 0.00 0.00 3.08
370 371 5.775195 ACTGGAAAAGGGAAAAATGAGGTAG 59.225 40.000 0.00 0.00 0.00 3.18
371 372 5.959512 TGGAAAAGGGAAAAATGAGGTAGA 58.040 37.500 0.00 0.00 0.00 2.59
372 373 6.377912 TGGAAAAGGGAAAAATGAGGTAGAA 58.622 36.000 0.00 0.00 0.00 2.10
373 374 6.841755 TGGAAAAGGGAAAAATGAGGTAGAAA 59.158 34.615 0.00 0.00 0.00 2.52
374 375 7.345914 TGGAAAAGGGAAAAATGAGGTAGAAAA 59.654 33.333 0.00 0.00 0.00 2.29
375 376 8.375506 GGAAAAGGGAAAAATGAGGTAGAAAAT 58.624 33.333 0.00 0.00 0.00 1.82
388 389 9.807921 ATGAGGTAGAAAATAAAAAGGAACAGA 57.192 29.630 0.00 0.00 0.00 3.41
389 390 9.635404 TGAGGTAGAAAATAAAAAGGAACAGAA 57.365 29.630 0.00 0.00 0.00 3.02
447 448 3.996614 CGAAAACCGGCCAGGAAT 58.003 55.556 18.74 5.90 45.00 3.01
451 452 1.472878 GAAAACCGGCCAGGAATCTTC 59.527 52.381 18.74 11.25 45.00 2.87
453 454 2.203070 CCGGCCAGGAATCTTCGG 60.203 66.667 2.24 0.00 45.00 4.30
464 465 3.073946 AGGAATCTTCGGGAAGGTTTTCA 59.926 43.478 8.24 0.00 41.47 2.69
500 501 1.134580 CCGCTCACTCAATGGATGACT 60.135 52.381 0.00 0.00 33.47 3.41
502 503 2.417787 CGCTCACTCAATGGATGACTCA 60.418 50.000 0.00 0.00 33.47 3.41
503 504 2.935201 GCTCACTCAATGGATGACTCAC 59.065 50.000 0.00 0.00 33.47 3.51
526 542 0.975556 TCCGCCACTATGGAGAAGCA 60.976 55.000 0.00 0.00 39.92 3.91
537 553 1.519719 GAGAAGCAGCCGAGGATGT 59.480 57.895 9.26 0.00 33.56 3.06
605 621 4.114997 GCGGTGCGACAAATGGGG 62.115 66.667 0.00 0.00 0.00 4.96
617 1301 4.079253 GACAAATGGGGCTCTAGTTTTGA 58.921 43.478 3.31 0.00 0.00 2.69
696 1387 4.062183 CGTAGTTGACGTACGGCC 57.938 61.111 20.48 10.81 46.86 6.13
697 1388 1.503542 CGTAGTTGACGTACGGCCT 59.496 57.895 20.48 12.06 46.86 5.19
698 1389 0.726827 CGTAGTTGACGTACGGCCTA 59.273 55.000 20.48 10.93 46.86 3.93
699 1390 1.331756 CGTAGTTGACGTACGGCCTAT 59.668 52.381 20.48 6.47 46.86 2.57
700 1391 2.543848 CGTAGTTGACGTACGGCCTATA 59.456 50.000 20.48 5.37 46.86 1.31
704 1438 3.887716 AGTTGACGTACGGCCTATAAGAT 59.112 43.478 20.48 0.00 0.00 2.40
864 1598 6.425114 GCCCGTCCTAGAATTGCATATATATG 59.575 42.308 17.01 17.01 36.78 1.78
865 1599 7.500992 CCCGTCCTAGAATTGCATATATATGT 58.499 38.462 21.10 4.22 36.11 2.29
866 1600 8.638873 CCCGTCCTAGAATTGCATATATATGTA 58.361 37.037 21.10 15.57 36.11 2.29
909 1643 1.067212 AGCACGAATAGCCGGAACTAG 59.933 52.381 5.05 0.00 0.00 2.57
1066 1800 1.810532 GACGGGAAGATCTCGCTGT 59.189 57.895 0.00 0.00 45.98 4.40
1080 1814 1.515020 GCTGTCTGAGCTGACGGAT 59.485 57.895 15.39 0.00 45.21 4.18
1460 2200 2.684001 TCGTCACAACTTTCCAGTGT 57.316 45.000 0.00 0.00 34.94 3.55
1570 2311 2.104111 AGTAACCTGTGCACTTGTGCTA 59.896 45.455 23.53 13.25 35.49 3.49
1571 2312 1.308998 AACCTGTGCACTTGTGCTAC 58.691 50.000 23.53 19.18 35.49 3.58
1629 2371 9.696917 CTTTCTAAACTTTAACCAATTGATGCT 57.303 29.630 7.12 0.00 0.00 3.79
1639 2381 3.640029 ACCAATTGATGCTTCCCATGATC 59.360 43.478 7.12 0.00 33.29 2.92
1640 2382 3.006537 CCAATTGATGCTTCCCATGATCC 59.993 47.826 7.12 0.00 33.29 3.36
1658 2400 5.439721 TGATCCAGTATCATGTTTTCCCAG 58.560 41.667 0.00 0.00 39.77 4.45
1659 2401 4.927267 TCCAGTATCATGTTTTCCCAGT 57.073 40.909 0.00 0.00 0.00 4.00
1660 2402 6.157820 TGATCCAGTATCATGTTTTCCCAGTA 59.842 38.462 0.00 0.00 39.77 2.74
1661 2403 5.741011 TCCAGTATCATGTTTTCCCAGTAC 58.259 41.667 0.00 0.00 0.00 2.73
1662 2404 5.487488 TCCAGTATCATGTTTTCCCAGTACT 59.513 40.000 0.00 0.00 0.00 2.73
1663 2405 6.670464 TCCAGTATCATGTTTTCCCAGTACTA 59.330 38.462 0.00 0.00 0.00 1.82
1664 2406 6.761714 CCAGTATCATGTTTTCCCAGTACTAC 59.238 42.308 0.00 0.00 0.00 2.73
1677 2419 8.757982 TTCCCAGTACTACGTAAGATTAATCT 57.242 34.615 12.37 12.37 43.62 2.40
1694 2436 1.728323 TCTGGTCAGGTGATTCCACA 58.272 50.000 0.00 0.00 44.93 4.17
1754 2501 2.075355 ATCAGGTTGGCCGGTGGAAA 62.075 55.000 1.90 0.00 40.50 3.13
1766 2513 0.804989 GGTGGAAATCGAGCCAACTG 59.195 55.000 11.35 0.00 38.84 3.16
1770 2517 2.293122 TGGAAATCGAGCCAACTGTTTG 59.707 45.455 2.31 0.00 0.00 2.93
1780 2528 3.634910 AGCCAACTGTTTGTTTATCCGTT 59.365 39.130 0.00 0.00 36.63 4.44
1787 2535 8.436200 CAACTGTTTGTTTATCCGTTTCAAAAA 58.564 29.630 0.00 0.00 36.63 1.94
1814 2618 2.671963 GTTGGCCGGTGGAAGTCC 60.672 66.667 1.90 0.00 0.00 3.85
1827 2631 1.279271 GGAAGTCCAGCACATACAGGT 59.721 52.381 0.00 0.00 35.64 4.00
1859 3769 1.215655 GCTGCGTGTGTTTCTCTCGT 61.216 55.000 0.00 0.00 0.00 4.18
1904 3814 4.519906 TCCTGAATCATTACCCCCTTTC 57.480 45.455 0.00 0.00 0.00 2.62
1910 3820 3.713826 TCATTACCCCCTTTCACACTC 57.286 47.619 0.00 0.00 0.00 3.51
1933 3843 4.818546 CGGTAGGATTCATGCAATTCTCTT 59.181 41.667 0.00 0.00 31.95 2.85
1964 3874 0.403271 ACCTGCCTGCAAAGATGACT 59.597 50.000 0.00 0.00 0.00 3.41
1967 3877 2.421424 CCTGCCTGCAAAGATGACTAAC 59.579 50.000 0.00 0.00 0.00 2.34
1970 3880 2.421424 GCCTGCAAAGATGACTAACAGG 59.579 50.000 0.00 0.00 40.47 4.00
1971 3881 3.869912 GCCTGCAAAGATGACTAACAGGA 60.870 47.826 10.20 0.00 40.20 3.86
2018 3928 4.220602 GCCCCGCTTTATGGATAAATCAAT 59.779 41.667 0.00 0.00 32.36 2.57
2021 3931 6.153340 CCCCGCTTTATGGATAAATCAATGAT 59.847 38.462 0.00 0.00 32.36 2.45
2032 3942 9.577222 TGGATAAATCAATGATCTTTGCATAGA 57.423 29.630 14.84 9.39 0.00 1.98
2037 3947 9.760077 AAATCAATGATCTTTGCATAGAAATCC 57.240 29.630 11.02 2.43 0.00 3.01
2038 3948 7.885009 TCAATGATCTTTGCATAGAAATCCA 57.115 32.000 11.02 7.46 0.00 3.41
2057 3967 5.738619 TCCACACACACACAACTAGATAT 57.261 39.130 0.00 0.00 0.00 1.63
2062 3972 6.423604 CACACACACACAACTAGATATCACAA 59.576 38.462 5.32 0.00 0.00 3.33
2068 3979 7.042051 ACACACAACTAGATATCACAAACACAC 60.042 37.037 5.32 0.00 0.00 3.82
2069 3980 7.171508 CACACAACTAGATATCACAAACACACT 59.828 37.037 5.32 0.00 0.00 3.55
2070 3981 8.364894 ACACAACTAGATATCACAAACACACTA 58.635 33.333 5.32 0.00 0.00 2.74
2083 3994 5.702670 ACAAACACACTATCAAGACAGGATG 59.297 40.000 0.00 0.00 46.00 3.51
2084 3995 5.745312 AACACACTATCAAGACAGGATGA 57.255 39.130 0.00 0.00 39.69 2.92
2085 3996 5.745312 ACACACTATCAAGACAGGATGAA 57.255 39.130 0.00 0.00 39.69 2.57
2225 4136 7.801716 ATTTCTGAAAGCGTAATATAGCCAA 57.198 32.000 8.95 0.00 0.00 4.52
2226 4137 7.618502 TTTCTGAAAGCGTAATATAGCCAAA 57.381 32.000 0.00 0.00 0.00 3.28
2227 4138 6.844696 TCTGAAAGCGTAATATAGCCAAAG 57.155 37.500 0.00 0.00 0.00 2.77
2228 4139 5.236478 TCTGAAAGCGTAATATAGCCAAAGC 59.764 40.000 0.00 0.00 40.32 3.51
2229 4140 4.274950 TGAAAGCGTAATATAGCCAAAGCC 59.725 41.667 0.00 0.00 41.25 4.35
2230 4141 2.413837 AGCGTAATATAGCCAAAGCCG 58.586 47.619 0.00 0.00 41.25 5.52
2231 4142 2.036733 AGCGTAATATAGCCAAAGCCGA 59.963 45.455 0.00 0.00 41.25 5.54
2232 4143 3.000727 GCGTAATATAGCCAAAGCCGAT 58.999 45.455 0.00 0.00 41.25 4.18
2233 4144 3.435671 GCGTAATATAGCCAAAGCCGATT 59.564 43.478 0.00 0.00 41.25 3.34
2234 4145 4.628333 GCGTAATATAGCCAAAGCCGATTA 59.372 41.667 0.00 0.00 41.25 1.75
2235 4146 5.445540 GCGTAATATAGCCAAAGCCGATTAC 60.446 44.000 0.00 0.00 41.25 1.89
2236 4147 5.636121 CGTAATATAGCCAAAGCCGATTACA 59.364 40.000 11.58 0.00 41.25 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
187 188 6.304208 GCGAAAAATGTGCTTGTTTTCAAAAA 59.696 30.769 8.36 0.00 39.93 1.94
188 189 5.792468 GCGAAAAATGTGCTTGTTTTCAAAA 59.208 32.000 8.36 0.00 39.93 2.44
189 190 5.106948 TGCGAAAAATGTGCTTGTTTTCAAA 60.107 32.000 8.36 0.00 39.93 2.69
190 191 4.389992 TGCGAAAAATGTGCTTGTTTTCAA 59.610 33.333 8.36 0.00 39.93 2.69
191 192 3.928992 TGCGAAAAATGTGCTTGTTTTCA 59.071 34.783 8.36 0.00 39.93 2.69
192 193 4.513000 TGCGAAAAATGTGCTTGTTTTC 57.487 36.364 0.00 0.00 37.71 2.29
193 194 4.935885 TTGCGAAAAATGTGCTTGTTTT 57.064 31.818 0.00 0.00 0.00 2.43
194 195 5.482686 AATTGCGAAAAATGTGCTTGTTT 57.517 30.435 0.00 0.00 0.00 2.83
195 196 6.202570 ACATAATTGCGAAAAATGTGCTTGTT 59.797 30.769 6.67 0.00 29.93 2.83
196 197 5.695816 ACATAATTGCGAAAAATGTGCTTGT 59.304 32.000 6.67 0.00 29.93 3.16
197 198 6.010675 CACATAATTGCGAAAAATGTGCTTG 58.989 36.000 17.38 0.91 40.48 4.01
198 199 5.925397 TCACATAATTGCGAAAAATGTGCTT 59.075 32.000 21.80 0.00 44.43 3.91
199 200 5.468592 TCACATAATTGCGAAAAATGTGCT 58.531 33.333 21.80 0.00 44.43 4.40
200 201 5.760193 TCACATAATTGCGAAAAATGTGC 57.240 34.783 21.80 0.00 44.43 4.57
231 232 9.880064 CATGTTTGCAAATTGTTCATAAATTCA 57.120 25.926 16.21 3.54 0.00 2.57
234 235 9.491675 TCTCATGTTTGCAAATTGTTCATAAAT 57.508 25.926 16.21 0.00 0.00 1.40
235 236 8.883954 TCTCATGTTTGCAAATTGTTCATAAA 57.116 26.923 16.21 4.86 0.00 1.40
236 237 8.883954 TTCTCATGTTTGCAAATTGTTCATAA 57.116 26.923 16.21 0.00 0.00 1.90
237 238 9.491675 AATTCTCATGTTTGCAAATTGTTCATA 57.508 25.926 16.21 0.00 0.00 2.15
238 239 7.972832 ATTCTCATGTTTGCAAATTGTTCAT 57.027 28.000 16.21 10.55 0.00 2.57
239 240 7.789273 AATTCTCATGTTTGCAAATTGTTCA 57.211 28.000 16.21 8.52 0.00 3.18
240 241 9.505995 AAAAATTCTCATGTTTGCAAATTGTTC 57.494 25.926 16.21 2.28 0.00 3.18
333 334 9.967451 TTCCCTTTTCCAGTTTATTTTTCTTTT 57.033 25.926 0.00 0.00 0.00 2.27
334 335 9.967451 TTTCCCTTTTCCAGTTTATTTTTCTTT 57.033 25.926 0.00 0.00 0.00 2.52
335 336 9.967451 TTTTCCCTTTTCCAGTTTATTTTTCTT 57.033 25.926 0.00 0.00 0.00 2.52
336 337 9.967451 TTTTTCCCTTTTCCAGTTTATTTTTCT 57.033 25.926 0.00 0.00 0.00 2.52
339 340 9.913310 TCATTTTTCCCTTTTCCAGTTTATTTT 57.087 25.926 0.00 0.00 0.00 1.82
340 341 9.559732 CTCATTTTTCCCTTTTCCAGTTTATTT 57.440 29.630 0.00 0.00 0.00 1.40
341 342 8.156820 CCTCATTTTTCCCTTTTCCAGTTTATT 58.843 33.333 0.00 0.00 0.00 1.40
342 343 7.292356 ACCTCATTTTTCCCTTTTCCAGTTTAT 59.708 33.333 0.00 0.00 0.00 1.40
343 344 6.613679 ACCTCATTTTTCCCTTTTCCAGTTTA 59.386 34.615 0.00 0.00 0.00 2.01
344 345 5.428457 ACCTCATTTTTCCCTTTTCCAGTTT 59.572 36.000 0.00 0.00 0.00 2.66
345 346 4.968719 ACCTCATTTTTCCCTTTTCCAGTT 59.031 37.500 0.00 0.00 0.00 3.16
346 347 4.556697 ACCTCATTTTTCCCTTTTCCAGT 58.443 39.130 0.00 0.00 0.00 4.00
347 348 6.010219 TCTACCTCATTTTTCCCTTTTCCAG 58.990 40.000 0.00 0.00 0.00 3.86
348 349 5.959512 TCTACCTCATTTTTCCCTTTTCCA 58.040 37.500 0.00 0.00 0.00 3.53
349 350 6.911250 TTCTACCTCATTTTTCCCTTTTCC 57.089 37.500 0.00 0.00 0.00 3.13
362 363 9.807921 TCTGTTCCTTTTTATTTTCTACCTCAT 57.192 29.630 0.00 0.00 0.00 2.90
363 364 9.635404 TTCTGTTCCTTTTTATTTTCTACCTCA 57.365 29.630 0.00 0.00 0.00 3.86
376 377 9.500785 TTTTTCACTGATTTTCTGTTCCTTTTT 57.499 25.926 0.00 0.00 0.00 1.94
377 378 8.935844 GTTTTTCACTGATTTTCTGTTCCTTTT 58.064 29.630 0.00 0.00 0.00 2.27
378 379 8.314021 AGTTTTTCACTGATTTTCTGTTCCTTT 58.686 29.630 0.00 0.00 32.83 3.11
379 380 7.840931 AGTTTTTCACTGATTTTCTGTTCCTT 58.159 30.769 0.00 0.00 32.83 3.36
380 381 7.410120 AGTTTTTCACTGATTTTCTGTTCCT 57.590 32.000 0.00 0.00 32.83 3.36
394 395 2.341846 TTCCGAGCCAGTTTTTCACT 57.658 45.000 0.00 0.00 35.35 3.41
395 396 2.543031 GGTTTCCGAGCCAGTTTTTCAC 60.543 50.000 0.00 0.00 0.00 3.18
396 397 1.679153 GGTTTCCGAGCCAGTTTTTCA 59.321 47.619 0.00 0.00 0.00 2.69
397 398 1.954382 AGGTTTCCGAGCCAGTTTTTC 59.046 47.619 0.00 0.00 0.00 2.29
405 406 1.807142 CTTCTTGAAGGTTTCCGAGCC 59.193 52.381 2.63 0.00 0.00 4.70
436 437 2.203070 CCGAAGATTCCTGGCCGG 60.203 66.667 3.88 3.88 0.00 6.13
443 444 3.418047 TGAAAACCTTCCCGAAGATTCC 58.582 45.455 6.01 0.00 40.79 3.01
447 448 3.382227 GGTTTTGAAAACCTTCCCGAAGA 59.618 43.478 27.76 0.00 40.79 2.87
451 452 1.269361 CCGGTTTTGAAAACCTTCCCG 60.269 52.381 30.44 19.89 38.15 5.14
453 454 2.427812 TGACCGGTTTTGAAAACCTTCC 59.572 45.455 30.44 20.61 38.15 3.46
482 483 2.935201 GTGAGTCATCCATTGAGTGAGC 59.065 50.000 0.00 0.00 38.16 4.26
500 501 1.613317 CCATAGTGGCGGAGGTGTGA 61.613 60.000 0.00 0.00 0.00 3.58
502 503 1.305802 TCCATAGTGGCGGAGGTGT 60.306 57.895 0.00 0.00 37.47 4.16
503 504 1.443407 CTCCATAGTGGCGGAGGTG 59.557 63.158 0.00 0.00 44.37 4.00
522 538 0.687757 TCCTACATCCTCGGCTGCTT 60.688 55.000 0.00 0.00 0.00 3.91
526 542 1.115467 CACTTCCTACATCCTCGGCT 58.885 55.000 0.00 0.00 0.00 5.52
537 553 1.987855 CGGTCAGGCCCACTTCCTA 60.988 63.158 0.00 0.00 31.52 2.94
570 586 0.605589 GCCGCCTACTTCACAACCTT 60.606 55.000 0.00 0.00 0.00 3.50
605 621 7.974482 TTACCTTTACCTTCAAAACTAGAGC 57.026 36.000 0.00 0.00 0.00 4.09
617 1301 7.988249 ATGGCCAATTTATTACCTTTACCTT 57.012 32.000 10.96 0.00 0.00 3.50
649 1333 2.045438 TCATGCGAAACGGCCCAT 60.045 55.556 0.00 0.00 0.00 4.00
690 1381 3.247948 TCCACCATCTTATAGGCCGTA 57.752 47.619 0.00 0.00 0.00 4.02
691 1382 2.097110 TCCACCATCTTATAGGCCGT 57.903 50.000 0.00 0.00 0.00 5.68
692 1383 3.338249 CATTCCACCATCTTATAGGCCG 58.662 50.000 0.00 0.00 0.00 6.13
693 1384 3.330701 TCCATTCCACCATCTTATAGGCC 59.669 47.826 0.00 0.00 0.00 5.19
694 1385 4.640771 TCCATTCCACCATCTTATAGGC 57.359 45.455 0.00 0.00 0.00 3.93
695 1386 5.014544 ACCATCCATTCCACCATCTTATAGG 59.985 44.000 0.00 0.00 0.00 2.57
696 1387 6.131972 ACCATCCATTCCACCATCTTATAG 57.868 41.667 0.00 0.00 0.00 1.31
697 1388 6.102468 TCAACCATCCATTCCACCATCTTATA 59.898 38.462 0.00 0.00 0.00 0.98
698 1389 5.103558 TCAACCATCCATTCCACCATCTTAT 60.104 40.000 0.00 0.00 0.00 1.73
699 1390 4.229353 TCAACCATCCATTCCACCATCTTA 59.771 41.667 0.00 0.00 0.00 2.10
700 1391 3.011595 TCAACCATCCATTCCACCATCTT 59.988 43.478 0.00 0.00 0.00 2.40
704 1438 2.806434 CTTCAACCATCCATTCCACCA 58.194 47.619 0.00 0.00 0.00 4.17
866 1600 9.700831 TGCTCGCACCTATCCATATATATATAT 57.299 33.333 9.12 9.12 0.00 0.86
867 1601 8.957466 GTGCTCGCACCTATCCATATATATATA 58.043 37.037 10.82 4.92 40.79 0.86
868 1602 7.362142 CGTGCTCGCACCTATCCATATATATAT 60.362 40.741 15.65 0.00 43.49 0.86
869 1603 6.072673 CGTGCTCGCACCTATCCATATATATA 60.073 42.308 15.65 0.00 43.49 0.86
870 1604 5.278512 CGTGCTCGCACCTATCCATATATAT 60.279 44.000 15.65 0.00 43.49 0.86
871 1605 4.036380 CGTGCTCGCACCTATCCATATATA 59.964 45.833 15.65 0.00 43.49 0.86
872 1606 3.181486 CGTGCTCGCACCTATCCATATAT 60.181 47.826 15.65 0.00 43.49 0.86
873 1607 2.163613 CGTGCTCGCACCTATCCATATA 59.836 50.000 15.65 0.00 43.49 0.86
874 1608 1.067565 CGTGCTCGCACCTATCCATAT 60.068 52.381 15.65 0.00 43.49 1.78
875 1609 0.313987 CGTGCTCGCACCTATCCATA 59.686 55.000 15.65 0.00 43.49 2.74
876 1610 1.068083 CGTGCTCGCACCTATCCAT 59.932 57.895 15.65 0.00 43.49 3.41
877 1611 1.600511 TTCGTGCTCGCACCTATCCA 61.601 55.000 15.65 0.00 43.49 3.41
878 1612 0.249489 ATTCGTGCTCGCACCTATCC 60.249 55.000 15.65 0.00 43.49 2.59
909 1643 1.956620 GCTCGCGTGTCTTGGTTAGC 61.957 60.000 5.77 0.00 0.00 3.09
1066 1800 2.491621 CGCATCCGTCAGCTCAGA 59.508 61.111 0.00 0.00 0.00 3.27
1149 1883 1.080093 GTCGATGAAGCCGTCACCA 60.080 57.895 0.00 0.00 39.72 4.17
1443 2183 4.965119 AGAAACACTGGAAAGTTGTGAC 57.035 40.909 0.00 0.00 35.83 3.67
1450 2190 7.766283 AGAGAAAGAAAAGAAACACTGGAAAG 58.234 34.615 0.00 0.00 0.00 2.62
1456 2196 8.809468 AAAGGTAGAGAAAGAAAAGAAACACT 57.191 30.769 0.00 0.00 0.00 3.55
1570 2311 6.457355 TGCAATGCTTCAACTGATTAATTGT 58.543 32.000 6.82 0.00 0.00 2.71
1571 2312 6.954616 TGCAATGCTTCAACTGATTAATTG 57.045 33.333 6.82 0.00 0.00 2.32
1639 2381 5.745227 AGTACTGGGAAAACATGATACTGG 58.255 41.667 0.00 0.00 0.00 4.00
1640 2382 6.475727 CGTAGTACTGGGAAAACATGATACTG 59.524 42.308 5.39 0.00 0.00 2.74
1658 2400 8.074972 CCTGACCAGATTAATCTTACGTAGTAC 58.925 40.741 15.49 2.07 45.76 2.73
1659 2401 7.776969 ACCTGACCAGATTAATCTTACGTAGTA 59.223 37.037 15.49 2.86 43.63 1.82
1660 2402 6.606395 ACCTGACCAGATTAATCTTACGTAGT 59.394 38.462 15.49 7.08 39.07 2.73
1661 2403 6.918569 CACCTGACCAGATTAATCTTACGTAG 59.081 42.308 15.49 9.99 34.22 3.51
1662 2404 6.604396 TCACCTGACCAGATTAATCTTACGTA 59.396 38.462 15.49 0.00 34.22 3.57
1663 2405 5.421056 TCACCTGACCAGATTAATCTTACGT 59.579 40.000 15.49 11.50 34.22 3.57
1664 2406 5.902681 TCACCTGACCAGATTAATCTTACG 58.097 41.667 15.49 8.53 34.22 3.18
1677 2419 1.072173 CACTGTGGAATCACCTGACCA 59.928 52.381 0.00 0.00 42.98 4.02
1694 2436 0.740868 CCCATCAATCACGTCGCACT 60.741 55.000 0.00 0.00 0.00 4.40
1754 2501 4.156008 GGATAAACAAACAGTTGGCTCGAT 59.844 41.667 0.00 0.00 41.19 3.59
1787 2535 2.037902 CCACCGGCCAACCTTTATTTTT 59.962 45.455 0.00 0.00 0.00 1.94
1802 2606 2.358737 GTGCTGGACTTCCACCGG 60.359 66.667 0.00 0.00 42.01 5.28
1803 2607 0.249120 TATGTGCTGGACTTCCACCG 59.751 55.000 0.00 0.00 42.01 4.94
1841 3751 0.504384 CACGAGAGAAACACACGCAG 59.496 55.000 0.00 0.00 0.00 5.18
1844 3754 1.125021 GATGCACGAGAGAAACACACG 59.875 52.381 0.00 0.00 0.00 4.49
1879 3789 2.447047 GGGGGTAATGATTCAGGATGGT 59.553 50.000 0.00 0.00 36.16 3.55
1904 3814 2.205074 GCATGAATCCTACCGAGTGTG 58.795 52.381 0.00 0.00 0.00 3.82
1910 3820 4.384056 AGAGAATTGCATGAATCCTACCG 58.616 43.478 0.00 0.00 0.00 4.02
1933 3843 2.413351 GCAGGTAGCGCATCGAGA 59.587 61.111 11.47 0.00 0.00 4.04
1964 3874 6.732896 TTTTTGGGTTAAATGCTCCTGTTA 57.267 33.333 0.00 0.00 0.00 2.41
2018 3928 5.945191 TGTGTGGATTTCTATGCAAAGATCA 59.055 36.000 0.00 0.00 33.61 2.92
2021 3931 5.048782 GTGTGTGTGGATTTCTATGCAAAGA 60.049 40.000 0.00 0.00 33.61 2.52
2027 3937 5.239306 AGTTGTGTGTGTGTGGATTTCTATG 59.761 40.000 0.00 0.00 0.00 2.23
2029 3939 4.776349 AGTTGTGTGTGTGTGGATTTCTA 58.224 39.130 0.00 0.00 0.00 2.10
2031 3941 4.814234 TCTAGTTGTGTGTGTGTGGATTTC 59.186 41.667 0.00 0.00 0.00 2.17
2032 3942 4.776349 TCTAGTTGTGTGTGTGTGGATTT 58.224 39.130 0.00 0.00 0.00 2.17
2033 3943 4.415881 TCTAGTTGTGTGTGTGTGGATT 57.584 40.909 0.00 0.00 0.00 3.01
2034 3944 4.623932 ATCTAGTTGTGTGTGTGTGGAT 57.376 40.909 0.00 0.00 0.00 3.41
2035 3945 5.245075 TGATATCTAGTTGTGTGTGTGTGGA 59.755 40.000 3.98 0.00 0.00 4.02
2036 3946 5.348724 GTGATATCTAGTTGTGTGTGTGTGG 59.651 44.000 3.98 0.00 0.00 4.17
2037 3947 5.925969 TGTGATATCTAGTTGTGTGTGTGTG 59.074 40.000 3.98 0.00 0.00 3.82
2038 3948 6.096673 TGTGATATCTAGTTGTGTGTGTGT 57.903 37.500 3.98 0.00 0.00 3.72
2057 3967 5.056480 CCTGTCTTGATAGTGTGTTTGTGA 58.944 41.667 0.00 0.00 0.00 3.58
2062 3972 5.745312 TCATCCTGTCTTGATAGTGTGTT 57.255 39.130 0.00 0.00 0.00 3.32
2199 4110 9.502091 TTGGCTATATTACGCTTTCAGAAATAT 57.498 29.630 0.00 0.00 0.00 1.28
2200 4111 8.896320 TTGGCTATATTACGCTTTCAGAAATA 57.104 30.769 0.00 0.00 0.00 1.40
2201 4112 7.801716 TTGGCTATATTACGCTTTCAGAAAT 57.198 32.000 0.00 0.00 0.00 2.17
2202 4113 7.618502 TTTGGCTATATTACGCTTTCAGAAA 57.381 32.000 0.00 0.00 0.00 2.52
2203 4114 6.238374 GCTTTGGCTATATTACGCTTTCAGAA 60.238 38.462 0.00 0.00 35.22 3.02
2204 4115 5.236478 GCTTTGGCTATATTACGCTTTCAGA 59.764 40.000 0.00 0.00 35.22 3.27
2205 4116 5.444122 GCTTTGGCTATATTACGCTTTCAG 58.556 41.667 0.00 0.00 35.22 3.02
2206 4117 4.274950 GGCTTTGGCTATATTACGCTTTCA 59.725 41.667 0.00 0.00 38.73 2.69
2207 4118 4.610680 CGGCTTTGGCTATATTACGCTTTC 60.611 45.833 0.00 0.00 38.73 2.62
2208 4119 3.250040 CGGCTTTGGCTATATTACGCTTT 59.750 43.478 0.00 0.00 38.73 3.51
2209 4120 2.806244 CGGCTTTGGCTATATTACGCTT 59.194 45.455 0.00 0.00 38.73 4.68
2210 4121 2.036733 TCGGCTTTGGCTATATTACGCT 59.963 45.455 0.00 0.00 38.73 5.07
2211 4122 2.409975 TCGGCTTTGGCTATATTACGC 58.590 47.619 0.00 0.00 38.73 4.42
2212 4123 5.636121 TGTAATCGGCTTTGGCTATATTACG 59.364 40.000 0.00 0.00 38.49 3.18


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

AutoCloner maintained by Alex Coulton.