Multiple sequence alignment - TraesCS6B01G462100

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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 TraesCS6B01G462100 chr6B 100.000 1708 0 0 890 2597 715448826 715450533 0.000000e+00 3155.0
1 TraesCS6B01G462100 chr6B 100.000 423 0 0 1 423 715447937 715448359 0.000000e+00 782.0
2 TraesCS6B01G462100 chr6B 87.019 208 26 1 956 1162 473055963 473056170 1.550000e-57 233.0
3 TraesCS6B01G462100 chr6D 88.448 1740 82 52 890 2578 469205294 469206965 0.000000e+00 1989.0
4 TraesCS6B01G462100 chr6D 93.860 228 12 2 1 227 469204320 469204546 2.470000e-90 342.0
5 TraesCS6B01G462100 chr6D 79.237 472 44 27 2129 2561 469224345 469224801 1.970000e-71 279.0
6 TraesCS6B01G462100 chr6D 92.268 194 14 1 230 423 469204581 469204773 9.160000e-70 274.0
7 TraesCS6B01G462100 chr6D 87.192 203 26 0 956 1158 306129277 306129479 5.590000e-57 231.0
8 TraesCS6B01G462100 chr6A 90.172 1048 63 25 926 1957 614381549 614382572 0.000000e+00 1328.0
9 TraesCS6B01G462100 chr6A 83.183 553 52 30 1987 2520 614382571 614383101 3.910000e-128 468.0
10 TraesCS6B01G462100 chr6A 84.439 437 48 10 1 423 614380699 614381129 1.860000e-111 412.0
11 TraesCS6B01G462100 chr6A 85.909 220 27 2 956 1172 441486255 441486473 5.590000e-57 231.0
12 TraesCS6B01G462100 chr6A 90.909 55 4 1 2540 2594 614383099 614383152 3.580000e-09 73.1
13 TraesCS6B01G462100 chr7A 87.970 665 51 8 896 1544 165448419 165447768 0.000000e+00 758.0
14 TraesCS6B01G462100 chr2B 87.168 226 26 3 954 1178 557227662 557227439 1.190000e-63 254.0
15 TraesCS6B01G462100 chr2D 86.017 236 29 4 943 1178 476345889 476345658 1.540000e-62 250.0
16 TraesCS6B01G462100 chr2A 86.076 237 27 6 943 1178 618267359 618267128 1.540000e-62 250.0


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 TraesCS6B01G462100 chr6B 715447937 715450533 2596 False 1968.500000 3155 100.000000 1 2597 2 chr6B.!!$F2 2596
1 TraesCS6B01G462100 chr6D 469204320 469206965 2645 False 868.333333 1989 91.525333 1 2578 3 chr6D.!!$F3 2577
2 TraesCS6B01G462100 chr6A 614380699 614383152 2453 False 570.275000 1328 87.175750 1 2594 4 chr6A.!!$F2 2593
3 TraesCS6B01G462100 chr7A 165447768 165448419 651 True 758.000000 758 87.970000 896 1544 1 chr7A.!!$R1 648

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
247 284 0.110486 GACCCACACCCACACAGAAT 59.89 55.0 0.0 0.0 0.0 2.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1962 2110 0.60478 GCACCACTGCACTCACTGAT 60.605 55.0 0.0 0.0 43.62 2.9 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
25 26 5.388890 GCACGTGTAGACTTTTCTTCTGATG 60.389 44.000 18.38 0.00 32.75 3.07
73 75 4.550395 TTTTTCTGCGCGAATGGC 57.450 50.000 12.10 0.00 38.69 4.40
83 85 2.046313 GCGCGAATGGCATTATTTCAG 58.954 47.619 13.65 3.30 43.84 3.02
93 95 4.142491 TGGCATTATTTCAGCAACGGTTAG 60.142 41.667 0.00 0.00 0.00 2.34
187 189 0.666374 GTCAAAAACGTCACCCCTGG 59.334 55.000 0.00 0.00 0.00 4.45
188 190 0.547075 TCAAAAACGTCACCCCTGGA 59.453 50.000 0.00 0.00 0.00 3.86
189 191 1.064611 TCAAAAACGTCACCCCTGGAA 60.065 47.619 0.00 0.00 0.00 3.53
190 192 1.751924 CAAAAACGTCACCCCTGGAAA 59.248 47.619 0.00 0.00 0.00 3.13
209 215 1.751437 AGAAAGAGGTAATTGCCGGC 58.249 50.000 22.73 22.73 0.00 6.13
227 233 4.332543 TTCCCGGTCCTGGCTCCT 62.333 66.667 0.00 0.00 0.00 3.69
230 236 3.775654 CCGGTCCTGGCTCCTGAC 61.776 72.222 0.00 0.00 0.00 3.51
233 270 2.607750 GTCCTGGCTCCTGACCCA 60.608 66.667 0.00 0.00 0.00 4.51
239 276 3.249189 GCTCCTGACCCACACCCA 61.249 66.667 0.00 0.00 0.00 4.51
247 284 0.110486 GACCCACACCCACACAGAAT 59.890 55.000 0.00 0.00 0.00 2.40
261 298 3.062763 CACAGAATCCACTCACTGACAC 58.937 50.000 0.00 0.00 34.88 3.67
267 304 1.410850 CCACTCACTGACACCTGGGT 61.411 60.000 0.00 0.00 0.00 4.51
314 351 4.898861 GTCATGGAAAGAGAGTAGGGATCT 59.101 45.833 0.00 0.00 0.00 2.75
318 355 4.027437 GGAAAGAGAGTAGGGATCTGTGT 58.973 47.826 0.00 0.00 0.00 3.72
1158 1261 1.040339 CCTCCTTCTCCACCTCCTCG 61.040 65.000 0.00 0.00 0.00 4.63
1597 1722 2.039624 AGGAGACCGCCCACTGAT 59.960 61.111 0.00 0.00 0.00 2.90
1600 1725 3.083997 AGACCGCCCACTGATCCC 61.084 66.667 0.00 0.00 0.00 3.85
1621 1754 0.889186 CGGCTGTGCAGGGTTTTAGT 60.889 55.000 1.11 0.00 0.00 2.24
1744 1882 1.149174 AGACAAGGTGGTGCTGGTG 59.851 57.895 0.00 0.00 0.00 4.17
1745 1883 1.898574 GACAAGGTGGTGCTGGTGG 60.899 63.158 0.00 0.00 0.00 4.61
1756 1894 1.891919 GCTGGTGGCGTCAGTCAAA 60.892 57.895 0.00 0.00 31.56 2.69
1757 1895 1.444119 GCTGGTGGCGTCAGTCAAAA 61.444 55.000 0.00 0.00 31.56 2.44
1758 1896 1.021202 CTGGTGGCGTCAGTCAAAAA 58.979 50.000 0.00 0.00 31.56 1.94
1780 1918 4.536364 TTCAGTGCGAATTAAGCTATGC 57.464 40.909 6.89 0.00 35.28 3.14
1781 1919 3.797039 TCAGTGCGAATTAAGCTATGCT 58.203 40.909 6.89 0.00 42.56 3.79
1797 1935 2.042686 TGCTCTCTGCTCTCTCTCTC 57.957 55.000 0.00 0.00 43.37 3.20
1799 1937 2.216898 GCTCTCTGCTCTCTCTCTCTC 58.783 57.143 0.00 0.00 38.95 3.20
1800 1938 2.158842 GCTCTCTGCTCTCTCTCTCTCT 60.159 54.545 0.00 0.00 38.95 3.10
1801 1939 3.726607 CTCTCTGCTCTCTCTCTCTCTC 58.273 54.545 0.00 0.00 0.00 3.20
1805 1943 3.386078 TCTGCTCTCTCTCTCTCTCTCTC 59.614 52.174 0.00 0.00 0.00 3.20
1806 1944 3.378512 TGCTCTCTCTCTCTCTCTCTCT 58.621 50.000 0.00 0.00 0.00 3.10
1807 1945 4.546674 TGCTCTCTCTCTCTCTCTCTCTA 58.453 47.826 0.00 0.00 0.00 2.43
1808 1946 4.586421 TGCTCTCTCTCTCTCTCTCTCTAG 59.414 50.000 0.00 0.00 0.00 2.43
1809 1947 4.586841 GCTCTCTCTCTCTCTCTCTCTAGT 59.413 50.000 0.00 0.00 0.00 2.57
1810 1948 5.278758 GCTCTCTCTCTCTCTCTCTCTAGTC 60.279 52.000 0.00 0.00 0.00 2.59
1818 1956 5.483937 TCTCTCTCTCTCTAGTCAGTTCAGT 59.516 44.000 0.00 0.00 0.00 3.41
1821 1959 5.626142 TCTCTCTCTAGTCAGTTCAGTTGT 58.374 41.667 0.00 0.00 0.00 3.32
1861 2009 5.418840 TCAATTGGGTCTCTAAATTTCTGCC 59.581 40.000 5.42 0.00 0.00 4.85
1918 2066 7.111247 TGTAAAAATCAATCATCATGGGTCC 57.889 36.000 0.00 0.00 0.00 4.46
1949 2097 5.486063 TGTGGGTTCCTATTACTTTCTAGCA 59.514 40.000 0.00 0.00 0.00 3.49
1957 2105 8.135382 TCCTATTACTTTCTAGCAAGTCAGTT 57.865 34.615 11.20 0.00 38.07 3.16
1958 2106 8.035394 TCCTATTACTTTCTAGCAAGTCAGTTG 58.965 37.037 11.20 0.31 38.07 3.16
1959 2107 7.278868 CCTATTACTTTCTAGCAAGTCAGTTGG 59.721 40.741 11.20 5.97 38.07 3.77
1961 2109 4.381411 ACTTTCTAGCAAGTCAGTTGGTC 58.619 43.478 0.00 0.00 43.62 4.02
1962 2110 4.141711 ACTTTCTAGCAAGTCAGTTGGTCA 60.142 41.667 0.00 0.00 43.62 4.02
1999 2147 3.004734 GGTGCTGCTGTCAAATGTAGTTT 59.995 43.478 0.00 0.00 0.00 2.66
2000 2148 3.976942 GTGCTGCTGTCAAATGTAGTTTG 59.023 43.478 0.00 0.00 46.86 2.93
2007 2155 5.175673 GCTGTCAAATGTAGTTTGCTTTTCC 59.824 40.000 0.00 0.00 45.45 3.13
2008 2156 6.463995 TGTCAAATGTAGTTTGCTTTTCCT 57.536 33.333 0.00 0.00 45.45 3.36
2044 2192 2.555757 GTGCTGCTGATTCCAAGAAAGT 59.444 45.455 0.00 0.00 0.00 2.66
2075 2223 4.839796 CAAGAAAAGGCTTGCACAATTTG 58.160 39.130 0.00 0.00 38.85 2.32
2102 2250 1.636988 GCCACAATTCTGCATCAAGC 58.363 50.000 0.00 0.00 45.96 4.01
2123 2271 0.106819 GGAGGATGAGCAAGCATGGT 60.107 55.000 0.00 0.00 40.72 3.55
2146 2294 1.276421 TCAGTAAGTTGCTCCTCTGCC 59.724 52.381 0.00 0.00 0.00 4.85
2196 2352 6.687105 AGATTTCTCGTTGTTTCTTTTGTTCG 59.313 34.615 0.00 0.00 0.00 3.95
2274 2435 3.046283 AGCCAGGTCCTGTATGTATCA 57.954 47.619 17.85 0.00 0.00 2.15
2275 2436 2.968574 AGCCAGGTCCTGTATGTATCAG 59.031 50.000 17.85 0.10 0.00 2.90
2277 2438 3.493350 GCCAGGTCCTGTATGTATCAGTG 60.493 52.174 17.85 0.00 0.00 3.66
2296 2461 1.617850 TGGATTGTTTGATGGGTGTGC 59.382 47.619 0.00 0.00 0.00 4.57
2356 2521 6.638468 GGACAAAAATAAGCACACAGAAGAAG 59.362 38.462 0.00 0.00 0.00 2.85
2357 2522 7.100458 ACAAAAATAAGCACACAGAAGAAGT 57.900 32.000 0.00 0.00 0.00 3.01
2360 2525 9.683069 CAAAAATAAGCACACAGAAGAAGTATT 57.317 29.630 0.00 0.00 0.00 1.89
2371 2536 4.337555 CAGAAGAAGTATTTGCCCATCCTG 59.662 45.833 0.00 0.00 0.00 3.86
2373 2538 3.891049 AGAAGTATTTGCCCATCCTGTC 58.109 45.455 0.00 0.00 0.00 3.51
2374 2539 3.266772 AGAAGTATTTGCCCATCCTGTCA 59.733 43.478 0.00 0.00 0.00 3.58
2375 2540 3.959495 AGTATTTGCCCATCCTGTCAT 57.041 42.857 0.00 0.00 0.00 3.06
2378 2543 2.905415 TTTGCCCATCCTGTCATCTT 57.095 45.000 0.00 0.00 0.00 2.40
2390 2568 5.624159 TCCTGTCATCTTTGAATTGTGACT 58.376 37.500 0.00 0.00 39.78 3.41
2397 2575 4.464008 TCTTTGAATTGTGACTGCTCCTT 58.536 39.130 0.00 0.00 0.00 3.36
2402 2586 2.462456 TTGTGACTGCTCCTTGCTAG 57.538 50.000 0.00 0.00 43.37 3.42
2431 2616 2.297315 TCTTGCATCCTAGTATCCTGCG 59.703 50.000 0.00 0.00 35.63 5.18
2442 2627 4.576216 AGTATCCTGCGACTCATACTTG 57.424 45.455 0.00 0.00 29.42 3.16
2445 2630 1.135139 TCCTGCGACTCATACTTGCTC 59.865 52.381 0.00 0.00 0.00 4.26
2446 2631 1.134995 CCTGCGACTCATACTTGCTCA 60.135 52.381 0.00 0.00 0.00 4.26
2447 2632 2.482664 CCTGCGACTCATACTTGCTCAT 60.483 50.000 0.00 0.00 0.00 2.90
2449 2634 3.706698 TGCGACTCATACTTGCTCATAC 58.293 45.455 0.00 0.00 0.00 2.39
2450 2635 3.381590 TGCGACTCATACTTGCTCATACT 59.618 43.478 0.00 0.00 0.00 2.12
2452 2637 5.067283 TGCGACTCATACTTGCTCATACTTA 59.933 40.000 0.00 0.00 0.00 2.24
2453 2638 6.153067 GCGACTCATACTTGCTCATACTTAT 58.847 40.000 0.00 0.00 0.00 1.73
2455 2640 7.358765 GCGACTCATACTTGCTCATACTTATTG 60.359 40.741 0.00 0.00 0.00 1.90
2456 2641 7.649705 CGACTCATACTTGCTCATACTTATTGT 59.350 37.037 0.00 0.00 0.00 2.71
2489 2674 4.529446 CATTGTTTGCAAAATTCAGGTGC 58.471 39.130 14.67 0.00 38.21 5.01
2519 2705 3.686726 CCCAGCAGCTTGTAGTTTAGAAG 59.313 47.826 0.00 0.00 32.66 2.85
2535 2721 7.298374 AGTTTAGAAGGGAATCAGACCTTTTT 58.702 34.615 0.00 0.00 46.64 1.94
2578 2764 2.127232 ACTGGTTTTGCGGCTGCTT 61.127 52.632 20.27 0.00 43.34 3.91
2579 2765 1.662446 CTGGTTTTGCGGCTGCTTG 60.662 57.895 20.27 0.00 43.34 4.01
2583 2769 4.627447 TTTGCGGCTGCTTGTGCG 62.627 61.111 20.27 0.00 43.34 5.34
2589 2775 4.395583 GCTGCTTGTGCGGTCAGC 62.396 66.667 0.00 0.00 46.77 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 75 6.422776 AGACTAACCGTTGCTGAAATAATG 57.577 37.500 0.00 0.00 0.00 1.90
83 85 5.292834 GGATTTTACCTAGACTAACCGTTGC 59.707 44.000 0.00 0.00 0.00 4.17
187 189 3.427638 GCCGGCAATTACCTCTTTCTTTC 60.428 47.826 24.80 0.00 0.00 2.62
188 190 2.492088 GCCGGCAATTACCTCTTTCTTT 59.508 45.455 24.80 0.00 0.00 2.52
189 191 2.092323 GCCGGCAATTACCTCTTTCTT 58.908 47.619 24.80 0.00 0.00 2.52
190 192 1.282157 AGCCGGCAATTACCTCTTTCT 59.718 47.619 31.54 0.00 0.00 2.52
209 215 3.787001 GGAGCCAGGACCGGGAAG 61.787 72.222 15.76 0.00 0.00 3.46
227 233 1.275421 TTCTGTGTGGGTGTGGGTCA 61.275 55.000 0.00 0.00 0.00 4.02
228 234 0.110486 ATTCTGTGTGGGTGTGGGTC 59.890 55.000 0.00 0.00 0.00 4.46
229 235 0.110486 GATTCTGTGTGGGTGTGGGT 59.890 55.000 0.00 0.00 0.00 4.51
230 236 0.609131 GGATTCTGTGTGGGTGTGGG 60.609 60.000 0.00 0.00 0.00 4.61
233 270 1.072331 GAGTGGATTCTGTGTGGGTGT 59.928 52.381 0.00 0.00 0.00 4.16
239 276 2.700371 TGTCAGTGAGTGGATTCTGTGT 59.300 45.455 0.00 0.00 0.00 3.72
247 284 1.121407 CCCAGGTGTCAGTGAGTGGA 61.121 60.000 10.88 0.00 0.00 4.02
267 304 0.620556 GGGGTCATGCTTCTCTGGAA 59.379 55.000 0.00 0.00 0.00 3.53
314 351 1.369692 CGCTGGACCCTACAACACA 59.630 57.895 0.00 0.00 0.00 3.72
318 355 3.065306 CCACGCTGGACCCTACAA 58.935 61.111 0.00 0.00 40.96 2.41
1023 1126 2.738521 CGGGTGAGCTGGAACACG 60.739 66.667 0.00 0.00 36.79 4.49
1134 1237 4.475135 GTGGAGAAGGAGGCCGGC 62.475 72.222 21.18 21.18 0.00 6.13
1621 1754 2.344093 AGAAGAAACCCTAGCCCTGA 57.656 50.000 0.00 0.00 0.00 3.86
1654 1788 5.847271 ATTGACCCCAAAAGGAAGCAATCC 61.847 45.833 0.42 0.42 41.25 3.01
1744 1882 3.300009 CACTGAATTTTTGACTGACGCC 58.700 45.455 0.00 0.00 0.00 5.68
1745 1883 2.721090 GCACTGAATTTTTGACTGACGC 59.279 45.455 0.00 0.00 0.00 5.19
1756 1894 7.941469 GAGCATAGCTTAATTCGCACTGAATTT 60.941 37.037 8.03 0.00 46.01 1.82
1758 1896 4.818546 AGCATAGCTTAATTCGCACTGAAT 59.181 37.500 0.00 0.00 42.24 2.57
1779 1917 2.158842 AGAGAGAGAGAGAGCAGAGAGC 60.159 54.545 0.00 0.00 46.19 4.09
1780 1918 3.387374 AGAGAGAGAGAGAGAGCAGAGAG 59.613 52.174 0.00 0.00 0.00 3.20
1781 1919 3.378512 AGAGAGAGAGAGAGAGCAGAGA 58.621 50.000 0.00 0.00 0.00 3.10
1797 1935 5.705441 ACAACTGAACTGACTAGAGAGAGAG 59.295 44.000 0.00 0.00 0.00 3.20
1799 1937 5.957842 ACAACTGAACTGACTAGAGAGAG 57.042 43.478 0.00 0.00 0.00 3.20
1800 1938 6.716934 AAACAACTGAACTGACTAGAGAGA 57.283 37.500 0.00 0.00 0.00 3.10
1801 1939 7.087639 CCTAAACAACTGAACTGACTAGAGAG 58.912 42.308 0.00 0.00 0.00 3.20
1805 1943 6.513180 TGACCTAAACAACTGAACTGACTAG 58.487 40.000 0.00 0.00 0.00 2.57
1806 1944 6.462487 CCTGACCTAAACAACTGAACTGACTA 60.462 42.308 0.00 0.00 0.00 2.59
1807 1945 5.353394 TGACCTAAACAACTGAACTGACT 57.647 39.130 0.00 0.00 0.00 3.41
1808 1946 4.511826 CCTGACCTAAACAACTGAACTGAC 59.488 45.833 0.00 0.00 0.00 3.51
1809 1947 4.163458 ACCTGACCTAAACAACTGAACTGA 59.837 41.667 0.00 0.00 0.00 3.41
1810 1948 4.451900 ACCTGACCTAAACAACTGAACTG 58.548 43.478 0.00 0.00 0.00 3.16
1818 1956 3.042682 TGACCTGACCTGACCTAAACAA 58.957 45.455 0.00 0.00 0.00 2.83
1821 1959 4.506625 CCAATTGACCTGACCTGACCTAAA 60.507 45.833 7.12 0.00 0.00 1.85
1861 2009 2.855180 CAAGAATTGCTGTTGCTACCG 58.145 47.619 0.00 0.00 40.39 4.02
1918 2066 0.902531 ATAGGAACCCACACGACCTG 59.097 55.000 0.00 0.00 32.90 4.00
1949 2097 3.389329 ACTCACTGATGACCAACTGACTT 59.611 43.478 0.00 0.00 0.00 3.01
1957 2105 1.051008 ACTGCACTCACTGATGACCA 58.949 50.000 0.00 0.00 0.00 4.02
1958 2106 1.436600 CACTGCACTCACTGATGACC 58.563 55.000 0.00 0.00 0.00 4.02
1959 2107 1.270518 ACCACTGCACTCACTGATGAC 60.271 52.381 0.00 0.00 0.00 3.06
1960 2108 1.051008 ACCACTGCACTCACTGATGA 58.949 50.000 0.00 0.00 0.00 2.92
1961 2109 1.154197 CACCACTGCACTCACTGATG 58.846 55.000 0.00 0.00 0.00 3.07
1962 2110 0.604780 GCACCACTGCACTCACTGAT 60.605 55.000 0.00 0.00 43.62 2.90
1999 2147 2.765699 AGCAAACCAAGAAGGAAAAGCA 59.234 40.909 0.00 0.00 41.22 3.91
2000 2148 3.459232 AGCAAACCAAGAAGGAAAAGC 57.541 42.857 0.00 0.00 41.22 3.51
2044 2192 5.359576 TGCAAGCCTTTTCTTGTTCTTCTTA 59.640 36.000 5.55 0.00 43.92 2.10
2072 2220 3.564644 CAGAATTGTGGCCATTTTGCAAA 59.435 39.130 9.72 8.05 0.00 3.68
2074 2222 2.768698 CAGAATTGTGGCCATTTTGCA 58.231 42.857 9.72 0.00 0.00 4.08
2075 2223 1.465777 GCAGAATTGTGGCCATTTTGC 59.534 47.619 9.72 13.17 0.00 3.68
2080 2228 1.855295 TGATGCAGAATTGTGGCCAT 58.145 45.000 9.72 0.00 0.00 4.40
2081 2229 1.546923 CTTGATGCAGAATTGTGGCCA 59.453 47.619 0.00 0.00 0.00 5.36
2082 2230 1.738030 GCTTGATGCAGAATTGTGGCC 60.738 52.381 4.57 0.00 42.31 5.36
2083 2231 1.203994 AGCTTGATGCAGAATTGTGGC 59.796 47.619 4.57 0.00 45.94 5.01
2102 2250 1.309950 CATGCTTGCTCATCCTCCAG 58.690 55.000 0.00 0.00 0.00 3.86
2123 2271 3.306364 GCAGAGGAGCAACTTACTGAAGA 60.306 47.826 0.00 0.00 36.45 2.87
2170 2326 7.304849 CGAACAAAAGAAACAACGAGAAATCTG 60.305 37.037 0.00 0.00 0.00 2.90
2177 2333 3.478516 CAGCGAACAAAAGAAACAACGAG 59.521 43.478 0.00 0.00 0.00 4.18
2180 2336 3.765026 TCCAGCGAACAAAAGAAACAAC 58.235 40.909 0.00 0.00 0.00 3.32
2182 2338 4.097135 TCAATCCAGCGAACAAAAGAAACA 59.903 37.500 0.00 0.00 0.00 2.83
2196 2352 3.445096 ACCAAGCACTAATTCAATCCAGC 59.555 43.478 0.00 0.00 0.00 4.85
2260 2421 5.918608 ACAATCCACTGATACATACAGGAC 58.081 41.667 0.00 0.00 39.38 3.85
2274 2435 2.892852 CACACCCATCAAACAATCCACT 59.107 45.455 0.00 0.00 0.00 4.00
2275 2436 2.610232 GCACACCCATCAAACAATCCAC 60.610 50.000 0.00 0.00 0.00 4.02
2277 2438 1.066929 GGCACACCCATCAAACAATCC 60.067 52.381 0.00 0.00 0.00 3.01
2327 2492 6.446318 TCTGTGTGCTTATTTTTGTCCATTC 58.554 36.000 0.00 0.00 0.00 2.67
2356 2521 3.825328 AGATGACAGGATGGGCAAATAC 58.175 45.455 0.00 0.00 43.62 1.89
2357 2522 4.524802 AAGATGACAGGATGGGCAAATA 57.475 40.909 0.00 0.00 43.62 1.40
2360 2525 2.041485 TCAAAGATGACAGGATGGGCAA 59.959 45.455 0.00 0.00 43.62 4.52
2371 2536 5.368256 AGCAGTCACAATTCAAAGATGAC 57.632 39.130 0.00 0.00 39.99 3.06
2373 2538 4.458295 AGGAGCAGTCACAATTCAAAGATG 59.542 41.667 0.00 0.00 0.00 2.90
2374 2539 4.660168 AGGAGCAGTCACAATTCAAAGAT 58.340 39.130 0.00 0.00 0.00 2.40
2375 2540 4.090761 AGGAGCAGTCACAATTCAAAGA 57.909 40.909 0.00 0.00 0.00 2.52
2378 2543 2.294233 GCAAGGAGCAGTCACAATTCAA 59.706 45.455 0.00 0.00 44.79 2.69
2397 2575 1.632589 TGCAAGACAGAGACCTAGCA 58.367 50.000 0.00 0.00 0.00 3.49
2402 2586 2.763448 ACTAGGATGCAAGACAGAGACC 59.237 50.000 0.00 0.00 0.00 3.85
2431 2616 8.879342 ACAATAAGTATGAGCAAGTATGAGTC 57.121 34.615 0.00 0.00 0.00 3.36
2442 2627 9.875691 TGGTATGATATGACAATAAGTATGAGC 57.124 33.333 0.00 0.00 0.00 4.26
2450 2635 9.964303 GCAAACAATGGTATGATATGACAATAA 57.036 29.630 0.00 0.00 0.00 1.40
2452 2637 8.009622 TGCAAACAATGGTATGATATGACAAT 57.990 30.769 0.00 0.00 0.00 2.71
2453 2638 7.401955 TGCAAACAATGGTATGATATGACAA 57.598 32.000 0.00 0.00 0.00 3.18
2455 2640 8.700722 TTTTGCAAACAATGGTATGATATGAC 57.299 30.769 12.39 0.00 35.21 3.06
2456 2641 9.887629 AATTTTGCAAACAATGGTATGATATGA 57.112 25.926 12.39 0.00 35.21 2.15
2510 2696 6.455690 AAAGGTCTGATTCCCTTCTAAACT 57.544 37.500 0.00 0.00 40.17 2.66
2519 2705 4.767409 ACTTGCTAAAAAGGTCTGATTCCC 59.233 41.667 0.00 0.00 0.00 3.97
2578 2764 3.519973 CTCCACAGCTGACCGCACA 62.520 63.158 23.35 0.00 42.61 4.57
2579 2765 2.740055 CTCCACAGCTGACCGCAC 60.740 66.667 23.35 0.00 42.61 5.34


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

AutoCloner maintained by Alex Coulton.