Multiple sequence alignment - TraesCS6D01G282300

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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 TraesCS6D01G282300 chr6D 100.000 2914 0 0 1 2914 389700018 389697105 0 5382
1 TraesCS6D01G282300 chr6A 87.947 1734 95 39 1 1670 536213955 536212272 0 1940
2 TraesCS6D01G282300 chr6A 86.757 959 63 28 2000 2914 536212238 536211300 0 1009
3 TraesCS6D01G282300 chr6B 87.877 1460 104 47 1 1440 583445468 583444062 0 1648
4 TraesCS6D01G282300 chr6B 87.033 1473 96 41 1488 2912 583444050 583442625 0 1574


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 TraesCS6D01G282300 chr6D 389697105 389700018 2913 True 5382.0 5382 100.000 1 2914 1 chr6D.!!$R1 2913
1 TraesCS6D01G282300 chr6A 536211300 536213955 2655 True 1474.5 1940 87.352 1 2914 2 chr6A.!!$R1 2913
2 TraesCS6D01G282300 chr6B 583442625 583445468 2843 True 1611.0 1648 87.455 1 2912 2 chr6B.!!$R1 2911

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
722 757 0.036306 GCTTTTCCCCGACCTCTTCA 59.964 55.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1997 2098 0.034059 AAGAGCGAACCCAGTGAGTG 59.966 55.0 0.0 0.0 0.0 3.51 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
81 82 2.460918 CCGTCGAACTTACATAGGCTG 58.539 52.381 0.00 0.00 0.00 4.85
169 170 8.318412 TCAGCAACTGAATAAACCTAACTGATA 58.682 33.333 0.00 0.00 37.57 2.15
171 172 9.167311 AGCAACTGAATAAACCTAACTGATAAG 57.833 33.333 0.00 0.00 0.00 1.73
199 200 5.353400 CCCTGTATATCGCATAAGTCTCGTA 59.647 44.000 0.00 0.00 0.00 3.43
247 248 3.129287 CGAGTTTAAGCGTAGGGGTAGAA 59.871 47.826 0.00 0.00 0.00 2.10
248 249 4.428209 GAGTTTAAGCGTAGGGGTAGAAC 58.572 47.826 0.00 0.00 0.00 3.01
283 284 2.014594 GAATGGGTCATTCGCCGAC 58.985 57.895 5.09 0.00 40.33 4.79
284 285 0.462047 GAATGGGTCATTCGCCGACT 60.462 55.000 5.09 0.00 40.33 4.18
397 407 2.300066 GCAAAAACCGTGAAGCCGC 61.300 57.895 0.00 0.00 0.00 6.53
412 428 1.441729 CCGCAGGCGAGGATAAGAA 59.558 57.895 16.21 0.00 46.14 2.52
424 440 4.675671 CGAGGATAAGAAGAAGAGCGTGTT 60.676 45.833 0.00 0.00 0.00 3.32
425 441 5.153950 AGGATAAGAAGAAGAGCGTGTTT 57.846 39.130 0.00 0.00 0.00 2.83
479 499 2.877691 GCATGTGCGAACCCCTTC 59.122 61.111 0.00 0.00 0.00 3.46
495 515 0.892358 CTTCTTCCCAAGCTGCAGCA 60.892 55.000 38.24 16.73 45.16 4.41
566 595 4.082523 CCGCTCTCCCAAAGCCGA 62.083 66.667 0.00 0.00 36.36 5.54
674 709 3.474570 GGAGAGGCCTCGCACCAT 61.475 66.667 33.61 14.14 40.33 3.55
719 754 1.911766 TCGCTTTTCCCCGACCTCT 60.912 57.895 0.00 0.00 0.00 3.69
722 757 0.036306 GCTTTTCCCCGACCTCTTCA 59.964 55.000 0.00 0.00 0.00 3.02
751 788 1.224069 CTTGTCAGCCTCCACACACG 61.224 60.000 0.00 0.00 0.00 4.49
752 789 3.044305 GTCAGCCTCCACACACGC 61.044 66.667 0.00 0.00 0.00 5.34
753 790 4.662961 TCAGCCTCCACACACGCG 62.663 66.667 3.53 3.53 0.00 6.01
781 827 4.135153 CACCAGCCCCGTCTCTCG 62.135 72.222 0.00 0.00 39.52 4.04
784 830 4.803426 CAGCCCCGTCTCTCGTGC 62.803 72.222 0.00 0.00 37.94 5.34
990 1036 2.570582 CTTCCAGTGAGCCTCTCGCC 62.571 65.000 4.00 0.00 41.38 5.54
1036 1086 4.326507 AGCTGCTGGCGAGCTTGT 62.327 61.111 21.84 2.94 44.65 3.16
1155 1205 1.667830 CGAGCGCCAGGTCAAGAAA 60.668 57.895 2.29 0.00 44.60 2.52
1222 1284 1.131126 CATTGAGGTCGGTCACATTGC 59.869 52.381 0.00 0.00 0.00 3.56
1245 1307 0.110644 GTTTTCTCTGCTCGTTGCCG 60.111 55.000 1.30 0.00 42.00 5.69
1268 1330 4.728780 CCTAGGAGGCTAGGGCAA 57.271 61.111 1.05 0.00 42.02 4.52
1306 1371 0.305313 GCCGTCTAGAGCGTAGACAG 59.695 60.000 21.93 15.17 42.94 3.51
1343 1413 0.605319 AATGCCCGTCGTGTCATGTT 60.605 50.000 0.00 0.00 0.00 2.71
1358 1428 3.840763 GTCATGTTCGCTTAAGCTTTTCG 59.159 43.478 24.33 9.25 39.32 3.46
1460 1531 7.756722 TGTCCAACTAGTTTACTTAGCGAATAC 59.243 37.037 5.07 0.00 0.00 1.89
1461 1532 7.221645 GTCCAACTAGTTTACTTAGCGAATACC 59.778 40.741 5.07 0.00 0.00 2.73
1462 1533 7.123247 TCCAACTAGTTTACTTAGCGAATACCT 59.877 37.037 5.07 0.00 0.00 3.08
1463 1534 7.763071 CCAACTAGTTTACTTAGCGAATACCTT 59.237 37.037 5.07 0.00 0.00 3.50
1464 1535 9.148104 CAACTAGTTTACTTAGCGAATACCTTT 57.852 33.333 5.07 0.00 0.00 3.11
1465 1536 8.923609 ACTAGTTTACTTAGCGAATACCTTTC 57.076 34.615 0.00 0.00 0.00 2.62
1466 1537 8.526147 ACTAGTTTACTTAGCGAATACCTTTCA 58.474 33.333 0.00 0.00 0.00 2.69
1467 1538 9.362539 CTAGTTTACTTAGCGAATACCTTTCAA 57.637 33.333 0.00 0.00 0.00 2.69
1468 1539 8.788325 AGTTTACTTAGCGAATACCTTTCAAT 57.212 30.769 0.00 0.00 0.00 2.57
1469 1540 9.880157 AGTTTACTTAGCGAATACCTTTCAATA 57.120 29.630 0.00 0.00 0.00 1.90
1505 1576 4.319984 GCGAATAGTCACGTTTTCCCTTTT 60.320 41.667 0.00 0.00 0.00 2.27
1547 1620 6.503524 TCCATTTTAACTTTTGTGAGCACTC 58.496 36.000 1.99 0.00 0.00 3.51
1550 1623 5.499139 TTTAACTTTTGTGAGCACTCCTG 57.501 39.130 1.99 0.00 0.00 3.86
1569 1656 1.073284 TGTTTAGGAGCTGGTGGTTCC 59.927 52.381 0.00 0.00 44.36 3.62
1683 1771 3.636231 CCCACAAGGTCCTGCGGA 61.636 66.667 0.00 0.00 0.00 5.54
1752 1840 0.678684 TCATCCTGGCTACGACGACA 60.679 55.000 0.00 0.00 0.00 4.35
1874 1962 2.280052 GAGCAGATCGCCAGCCTC 60.280 66.667 6.02 0.00 44.04 4.70
1886 1974 1.080501 CAGCCTCTTCAGCGACGAA 60.081 57.895 0.00 0.00 34.64 3.85
1936 2024 2.930887 GCCACAGCGTTTCATACAGAGA 60.931 50.000 0.00 0.00 0.00 3.10
1940 2028 5.161358 CACAGCGTTTCATACAGAGAAGTA 58.839 41.667 0.00 0.00 0.00 2.24
2084 2187 2.738139 GGGCATGCCAAACGTTGC 60.738 61.111 36.56 14.15 37.98 4.17
2099 2202 1.006337 TTGCTGGCGTGCCAAAATC 60.006 52.632 15.46 5.26 46.63 2.17
2112 2215 3.592898 CCAAAATCTTGGCTACCAACC 57.407 47.619 0.00 0.00 45.67 3.77
2113 2216 2.094752 CCAAAATCTTGGCTACCAACCG 60.095 50.000 0.00 0.00 45.67 4.44
2114 2217 2.817258 CAAAATCTTGGCTACCAACCGA 59.183 45.455 0.00 0.00 38.75 4.69
2115 2218 2.403252 AATCTTGGCTACCAACCGAG 57.597 50.000 0.00 0.00 38.75 4.63
2116 2219 0.107654 ATCTTGGCTACCAACCGAGC 60.108 55.000 0.00 0.00 38.75 5.03
2177 2299 1.134995 TCATGTCGTCACTGCATCTCC 60.135 52.381 0.00 0.00 0.00 3.71
2193 2315 5.171147 CATCTCCTGCTAGATTTTGCAAG 57.829 43.478 0.00 0.00 38.81 4.01
2194 2316 3.012518 TCTCCTGCTAGATTTTGCAAGC 58.987 45.455 0.00 0.00 38.81 4.01
2195 2317 3.015327 CTCCTGCTAGATTTTGCAAGCT 58.985 45.455 7.30 5.74 38.81 3.74
2196 2318 2.751259 TCCTGCTAGATTTTGCAAGCTG 59.249 45.455 7.30 6.55 38.81 4.24
2197 2319 2.527100 CTGCTAGATTTTGCAAGCTGC 58.473 47.619 7.30 9.26 45.29 5.25
2198 2320 2.163815 CTGCTAGATTTTGCAAGCTGCT 59.836 45.455 7.30 0.00 45.31 4.24
2199 2321 2.559668 TGCTAGATTTTGCAAGCTGCTT 59.440 40.909 9.53 9.53 45.31 3.91
2275 2405 0.471591 AGAGGCAGCCAGGATCTAGG 60.472 60.000 15.80 0.00 0.00 3.02
2339 2476 2.623915 CGGAGACTTCGACGTGGGT 61.624 63.158 0.00 0.00 0.00 4.51
2348 2485 2.509336 GACGTGGGTGAGATGCCG 60.509 66.667 0.00 0.00 0.00 5.69
2377 2522 2.983229 AGTTTATGCTCTGCTGTCTGG 58.017 47.619 0.00 0.00 0.00 3.86
2390 2535 1.735920 GTCTGGCTGTCTCTGTGCG 60.736 63.158 0.00 0.00 0.00 5.34
2408 2553 1.497722 GCTCCTCGCCGTTCTTTTG 59.502 57.895 0.00 0.00 0.00 2.44
2465 2610 1.733402 CTAGCTACAGCCAGCGAGCT 61.733 60.000 17.04 17.04 46.52 4.09
2554 2702 8.767944 GTTTAAAACGATCGATGATAAAGCAT 57.232 30.769 24.34 0.00 0.00 3.79
2580 2734 0.745845 CAGGGAGCAATGGAGGTTCG 60.746 60.000 0.00 0.00 0.00 3.95
2607 2761 1.542547 GGTGACAACATCCGTCAGGTT 60.543 52.381 0.00 0.00 43.75 3.50
2672 2830 3.574780 CGAACCCCTCGCTTTTCC 58.425 61.111 0.00 0.00 41.49 3.13
2732 2895 1.038130 TCTCCGGGCTTCTAGACTGC 61.038 60.000 0.00 8.06 0.00 4.40
2733 2896 2.105128 CCGGGCTTCTAGACTGCG 59.895 66.667 9.86 0.00 0.00 5.18
2822 2993 0.109179 CGTGGGTTGACGACGGATTA 60.109 55.000 0.00 0.00 45.90 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 82 2.558313 GAGCAACAGTTGGCGAGC 59.442 61.111 15.28 0.00 34.54 5.03
169 170 1.717032 TGCGATATACAGGGGCTCTT 58.283 50.000 0.00 0.00 0.00 2.85
171 172 3.195825 ACTTATGCGATATACAGGGGCTC 59.804 47.826 0.00 0.00 0.00 4.70
199 200 1.160137 GCTTCCGAAACAGCTGACAT 58.840 50.000 23.35 5.45 32.87 3.06
247 248 2.872388 CGCTGGTGGAGTGGAGTGT 61.872 63.158 0.00 0.00 0.00 3.55
248 249 2.047844 CGCTGGTGGAGTGGAGTG 60.048 66.667 0.00 0.00 0.00 3.51
281 282 9.856939 TTCTTCTAAGATTGGTGACGAGCAGTC 62.857 44.444 5.52 5.52 41.48 3.51
283 284 3.510388 TCTAAGATTGGTGACGAGCAG 57.490 47.619 0.00 0.00 30.42 4.24
284 285 3.509967 TCTTCTAAGATTGGTGACGAGCA 59.490 43.478 0.00 0.00 30.42 4.26
397 407 3.798548 GCTCTTCTTCTTATCCTCGCCTG 60.799 52.174 0.00 0.00 0.00 4.85
401 413 3.181495 ACACGCTCTTCTTCTTATCCTCG 60.181 47.826 0.00 0.00 0.00 4.63
403 415 4.810191 AACACGCTCTTCTTCTTATCCT 57.190 40.909 0.00 0.00 0.00 3.24
404 416 4.691216 ACAAACACGCTCTTCTTCTTATCC 59.309 41.667 0.00 0.00 0.00 2.59
405 417 5.612865 CACAAACACGCTCTTCTTCTTATC 58.387 41.667 0.00 0.00 0.00 1.75
407 419 3.247648 GCACAAACACGCTCTTCTTCTTA 59.752 43.478 0.00 0.00 0.00 2.10
408 420 2.032178 GCACAAACACGCTCTTCTTCTT 59.968 45.455 0.00 0.00 0.00 2.52
412 428 0.940126 CTGCACAAACACGCTCTTCT 59.060 50.000 0.00 0.00 0.00 2.85
424 440 0.246360 ATCGACGGATGACTGCACAA 59.754 50.000 0.00 0.00 0.00 3.33
425 441 1.890174 ATCGACGGATGACTGCACA 59.110 52.632 0.00 0.00 0.00 4.57
473 493 1.680314 GCAGCTTGGGAAGAAGGGG 60.680 63.158 0.00 0.00 0.00 4.79
479 499 0.108804 CAATGCTGCAGCTTGGGAAG 60.109 55.000 36.61 16.80 42.66 3.46
495 515 0.179156 CGCAAGAAATCGCCTGCAAT 60.179 50.000 0.00 0.00 43.02 3.56
572 601 2.031919 TGTGTTGCAGTAGGCCGG 59.968 61.111 0.00 0.00 43.89 6.13
625 656 1.232621 ATGTGACTGACGACGACGGA 61.233 55.000 13.01 0.00 44.46 4.69
703 738 0.036306 TGAAGAGGTCGGGGAAAAGC 59.964 55.000 0.00 0.00 0.00 3.51
719 754 2.928301 GCTGACAAGAGAGCACGATGAA 60.928 50.000 0.00 0.00 35.15 2.57
722 757 0.108424 GGCTGACAAGAGAGCACGAT 60.108 55.000 0.00 0.00 36.90 3.73
1024 1074 2.032528 TCCCAACAAGCTCGCCAG 59.967 61.111 0.00 0.00 0.00 4.85
1033 1083 3.494254 ACCCACCGCTCCCAACAA 61.494 61.111 0.00 0.00 0.00 2.83
1222 1284 2.603173 GCAACGAGCAGAGAAAACAAGG 60.603 50.000 0.00 0.00 44.79 3.61
1268 1330 1.755179 CGAGGAACATGGAAAGGCAT 58.245 50.000 0.00 0.00 0.00 4.40
1306 1371 4.453819 GGCATTATTGATCAGGAGCTACAC 59.546 45.833 0.00 0.00 0.00 2.90
1358 1428 1.138247 CGACAGGTGTACGGGCTAC 59.862 63.158 0.00 0.00 0.00 3.58
1425 1496 1.066858 ACTAGTTGGACATGAGTGCGG 60.067 52.381 0.00 0.00 39.20 5.69
1472 1543 7.642071 AACGTGACTATTCGCTAAGTAAAAA 57.358 32.000 0.00 0.00 0.00 1.94
1473 1544 7.642071 AAACGTGACTATTCGCTAAGTAAAA 57.358 32.000 0.00 0.00 0.00 1.52
1474 1545 7.148755 GGAAAACGTGACTATTCGCTAAGTAAA 60.149 37.037 0.00 0.00 0.00 2.01
1475 1546 6.308766 GGAAAACGTGACTATTCGCTAAGTAA 59.691 38.462 0.00 0.00 0.00 2.24
1476 1547 5.801947 GGAAAACGTGACTATTCGCTAAGTA 59.198 40.000 0.00 0.00 0.00 2.24
1477 1548 4.624452 GGAAAACGTGACTATTCGCTAAGT 59.376 41.667 0.00 0.00 0.00 2.24
1478 1549 4.032558 GGGAAAACGTGACTATTCGCTAAG 59.967 45.833 0.00 0.00 33.47 2.18
1479 1550 3.928375 GGGAAAACGTGACTATTCGCTAA 59.072 43.478 0.00 0.00 33.47 3.09
1480 1551 3.194116 AGGGAAAACGTGACTATTCGCTA 59.806 43.478 12.71 0.00 41.48 4.26
1481 1552 2.028385 AGGGAAAACGTGACTATTCGCT 60.028 45.455 0.00 0.52 39.39 4.93
1482 1553 2.344025 AGGGAAAACGTGACTATTCGC 58.656 47.619 0.00 0.00 35.63 4.70
1483 1554 5.352643 AAAAGGGAAAACGTGACTATTCG 57.647 39.130 0.00 0.00 0.00 3.34
1484 1555 6.416750 CACAAAAAGGGAAAACGTGACTATTC 59.583 38.462 0.00 0.00 0.00 1.75
1492 1563 4.873259 CCAAATCACAAAAAGGGAAAACGT 59.127 37.500 0.00 0.00 29.94 3.99
1522 1595 6.507023 AGTGCTCACAAAAGTTAAAATGGAG 58.493 36.000 2.63 0.00 0.00 3.86
1547 1620 0.693049 ACCACCAGCTCCTAAACAGG 59.307 55.000 0.00 0.00 0.00 4.00
1550 1623 1.351350 AGGAACCACCAGCTCCTAAAC 59.649 52.381 0.00 0.00 37.83 2.01
1561 1648 3.933332 CTCTCGTCAAATAAGGAACCACC 59.067 47.826 0.00 0.00 39.35 4.61
1774 1862 1.672356 GCTCCGATGGCGCCATAAT 60.672 57.895 40.56 22.53 36.70 1.28
1775 1863 2.280797 GCTCCGATGGCGCCATAA 60.281 61.111 40.56 26.51 36.70 1.90
1866 1954 2.817396 GTCGCTGAAGAGGCTGGC 60.817 66.667 0.00 0.00 0.00 4.85
1874 1962 0.942410 TCGGGTTTTCGTCGCTGAAG 60.942 55.000 0.00 0.00 0.00 3.02
1886 1974 2.668550 GAGCAGGCGTTCGGGTTT 60.669 61.111 0.00 0.00 0.00 3.27
1925 2013 8.974060 AAAAACCAACTACTTCTCTGTATGAA 57.026 30.769 0.00 0.00 0.00 2.57
1989 2090 0.683973 ACCCAGTGAGTGAGCTTCTG 59.316 55.000 0.00 0.00 0.00 3.02
1995 2096 0.389166 GAGCGAACCCAGTGAGTGAG 60.389 60.000 0.00 0.00 0.00 3.51
1996 2097 0.827925 AGAGCGAACCCAGTGAGTGA 60.828 55.000 0.00 0.00 0.00 3.41
1997 2098 0.034059 AAGAGCGAACCCAGTGAGTG 59.966 55.000 0.00 0.00 0.00 3.51
1998 2099 0.034059 CAAGAGCGAACCCAGTGAGT 59.966 55.000 0.00 0.00 0.00 3.41
2084 2187 0.388907 CCAAGATTTTGGCACGCCAG 60.389 55.000 11.22 0.00 46.84 4.85
2099 2202 0.605319 TTGCTCGGTTGGTAGCCAAG 60.605 55.000 0.22 0.00 44.82 3.61
2111 2214 2.753043 AAGGCCATGCTTGCTCGG 60.753 61.111 5.01 0.00 0.00 4.63
2112 2215 2.488355 CAAGGCCATGCTTGCTCG 59.512 61.111 5.01 0.00 0.00 5.03
2113 2216 1.980772 ACCAAGGCCATGCTTGCTC 60.981 57.895 5.01 0.00 0.00 4.26
2114 2217 2.118951 ACCAAGGCCATGCTTGCT 59.881 55.556 5.01 0.00 0.00 3.91
2115 2218 2.221906 CTCACCAAGGCCATGCTTGC 62.222 60.000 5.01 0.00 0.00 4.01
2116 2219 0.609957 TCTCACCAAGGCCATGCTTG 60.610 55.000 5.01 3.26 0.00 4.01
2177 2299 2.527100 GCAGCTTGCAAAATCTAGCAG 58.473 47.619 8.43 1.58 44.26 4.24
2190 2312 1.214367 CAAACCAGCAAAGCAGCTTG 58.786 50.000 8.88 4.35 43.70 4.01
2193 2315 0.531311 AAGCAAACCAGCAAAGCAGC 60.531 50.000 0.00 0.00 36.85 5.25
2194 2316 1.944032 AAAGCAAACCAGCAAAGCAG 58.056 45.000 0.00 0.00 36.85 4.24
2195 2317 3.069300 TCATAAAGCAAACCAGCAAAGCA 59.931 39.130 0.00 0.00 36.85 3.91
2196 2318 3.652274 TCATAAAGCAAACCAGCAAAGC 58.348 40.909 0.00 0.00 36.85 3.51
2197 2319 5.119588 CACATCATAAAGCAAACCAGCAAAG 59.880 40.000 0.00 0.00 36.85 2.77
2198 2320 4.989797 CACATCATAAAGCAAACCAGCAAA 59.010 37.500 0.00 0.00 36.85 3.68
2199 2321 4.558178 CACATCATAAAGCAAACCAGCAA 58.442 39.130 0.00 0.00 36.85 3.91
2275 2405 1.750399 ACAGGTGATTGATGGCGGC 60.750 57.895 0.00 0.00 0.00 6.53
2316 2453 2.675056 CGTCGAAGTCTCCGTCCGT 61.675 63.158 0.00 0.00 0.00 4.69
2317 2454 2.097918 CGTCGAAGTCTCCGTCCG 59.902 66.667 0.00 0.00 0.00 4.79
2318 2455 1.154263 CACGTCGAAGTCTCCGTCC 60.154 63.158 0.00 0.00 0.00 4.79
2348 2485 0.875059 GAGCATAAACTATGGCGCCC 59.125 55.000 26.77 6.44 36.68 6.13
2377 2522 2.813042 GGAGCGCACAGAGACAGC 60.813 66.667 11.47 0.00 0.00 4.40
2451 2596 2.434884 GCAAGCTCGCTGGCTGTA 60.435 61.111 10.95 0.00 42.24 2.74
2479 2627 1.641577 GGACGTATGTTGACCTCTGC 58.358 55.000 0.00 0.00 0.00 4.26
2513 2661 0.949397 AAACGAAAAAGAGGGACGGC 59.051 50.000 0.00 0.00 0.00 5.68
2542 2690 1.958579 TGGCCTGCATGCTTTATCATC 59.041 47.619 20.33 1.33 0.00 2.92
2543 2691 1.961394 CTGGCCTGCATGCTTTATCAT 59.039 47.619 20.33 0.00 0.00 2.45
2546 2694 0.757935 CCCTGGCCTGCATGCTTTAT 60.758 55.000 20.33 0.00 0.00 1.40
2547 2695 1.380246 CCCTGGCCTGCATGCTTTA 60.380 57.895 20.33 0.00 0.00 1.85
2548 2696 2.682494 CCCTGGCCTGCATGCTTT 60.682 61.111 20.33 0.00 0.00 3.51
2549 2697 3.657038 CTCCCTGGCCTGCATGCTT 62.657 63.158 20.33 0.00 0.00 3.91
2550 2698 4.124943 CTCCCTGGCCTGCATGCT 62.125 66.667 20.33 0.00 0.00 3.79
2552 2700 3.949885 TTGCTCCCTGGCCTGCATG 62.950 63.158 3.32 0.00 35.27 4.06
2554 2702 3.664888 ATTGCTCCCTGGCCTGCA 61.665 61.111 3.32 4.02 0.00 4.41
2580 2734 3.308878 GATGTTGTCACCGCGCACC 62.309 63.158 8.75 0.00 0.00 5.01
2755 2926 1.070445 GCCATAGATGCAGAGGCGT 59.930 57.895 0.00 0.00 45.35 5.68
2756 2927 3.963222 GCCATAGATGCAGAGGCG 58.037 61.111 0.00 0.00 45.35 5.52
2757 2928 0.686224 AGAGCCATAGATGCAGAGGC 59.314 55.000 8.96 8.96 45.54 4.70
2758 2929 1.693062 ACAGAGCCATAGATGCAGAGG 59.307 52.381 0.00 0.00 0.00 3.69
2759 2930 2.756829 CACAGAGCCATAGATGCAGAG 58.243 52.381 0.00 0.00 0.00 3.35
2760 2931 1.202615 GCACAGAGCCATAGATGCAGA 60.203 52.381 0.00 0.00 37.23 4.26
2761 2932 1.227639 GCACAGAGCCATAGATGCAG 58.772 55.000 0.00 0.00 37.23 4.41
2762 2933 3.391736 GCACAGAGCCATAGATGCA 57.608 52.632 0.00 0.00 37.23 3.96
2822 2993 3.845178 TCATCGTCGTTGTTAATCAGCT 58.155 40.909 3.38 0.00 0.00 4.24


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

AutoCloner maintained by Alex Coulton.