Multiple sequence alignment - TraesCS1D01G153400

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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 TraesCS1D01G153400 chr1D 100.000 5073 0 0 1 5073 212716380 212721452 0.000000e+00 9369.0
1 TraesCS1D01G153400 chr1D 81.915 188 21 6 4494 4674 212533927 212534108 4.090000e-31 147.0
2 TraesCS1D01G153400 chr1D 96.386 83 1 1 1637 1719 344942804 344942724 8.860000e-28 135.0
3 TraesCS1D01G153400 chr1B 94.551 2441 53 15 2533 4952 302512487 302510106 0.000000e+00 3698.0
4 TraesCS1D01G153400 chr1B 98.413 1638 23 3 1 1636 302514968 302513332 0.000000e+00 2878.0
5 TraesCS1D01G153400 chr1B 84.389 1294 160 20 6 1282 282131030 282129762 0.000000e+00 1232.0
6 TraesCS1D01G153400 chr1B 99.505 404 1 1 1717 2120 302513332 302512930 0.000000e+00 734.0
7 TraesCS1D01G153400 chr1B 86.190 630 75 11 450 1070 307164985 307164359 0.000000e+00 671.0
8 TraesCS1D01G153400 chr1B 98.563 348 3 2 2188 2534 302512915 302512569 9.330000e-172 614.0
9 TraesCS1D01G153400 chr1B 87.065 402 38 9 2959 3353 282122895 282122501 4.660000e-120 442.0
10 TraesCS1D01G153400 chr1B 83.889 360 44 10 3736 4093 282121997 282121650 1.050000e-86 331.0
11 TraesCS1D01G153400 chr1B 100.000 82 0 0 4951 5032 302510026 302509945 8.800000e-33 152.0
12 TraesCS1D01G153400 chr1B 100.000 40 0 0 2130 2169 302512945 302512906 1.960000e-09 75.0
13 TraesCS1D01G153400 chr1A 93.783 1512 53 13 3142 4644 269574501 269575980 0.000000e+00 2233.0
14 TraesCS1D01G153400 chr1A 97.670 987 21 2 1 986 269571310 269572295 0.000000e+00 1694.0
15 TraesCS1D01G153400 chr1A 96.711 973 23 5 2188 3155 269573144 269574112 0.000000e+00 1611.0
16 TraesCS1D01G153400 chr1A 87.629 679 72 8 450 1120 551865787 551865113 0.000000e+00 778.0
17 TraesCS1D01G153400 chr1A 87.070 611 69 8 450 1052 570371224 570371832 0.000000e+00 682.0
18 TraesCS1D01G153400 chr1A 96.063 381 11 3 971 1349 269572475 269572853 7.220000e-173 617.0
19 TraesCS1D01G153400 chr1A 98.726 314 4 0 1856 2169 269572840 269573153 4.440000e-155 558.0
20 TraesCS1D01G153400 chr1A 90.000 440 27 11 4636 5073 269579353 269579777 2.060000e-153 553.0
21 TraesCS1D01G153400 chr1A 82.353 187 20 6 4495 4674 268936971 268937151 3.160000e-32 150.0
22 TraesCS1D01G153400 chr1A 95.745 47 0 2 4705 4751 268937157 268937201 1.960000e-09 75.0
23 TraesCS1D01G153400 chr5A 87.463 678 73 9 450 1120 522341445 522340773 0.000000e+00 771.0
24 TraesCS1D01G153400 chr5A 83.851 161 15 9 3587 3743 450552553 450552706 5.290000e-30 143.0
25 TraesCS1D01G153400 chr5A 94.872 78 4 0 3666 3743 265550130 265550207 6.900000e-24 122.0
26 TraesCS1D01G153400 chr5A 84.211 95 13 2 2867 2960 143658056 143658149 1.950000e-14 91.6
27 TraesCS1D01G153400 chr2A 87.518 681 68 12 450 1120 178146014 178146687 0.000000e+00 771.0
28 TraesCS1D01G153400 chr7A 87.056 479 55 6 450 923 720176463 720176939 7.480000e-148 534.0
29 TraesCS1D01G153400 chr7A 80.097 206 32 8 2480 2682 682176383 682176582 1.470000e-30 145.0
30 TraesCS1D01G153400 chr7D 90.446 157 14 1 2542 2698 530125568 530125413 6.660000e-49 206.0
31 TraesCS1D01G153400 chr7D 77.434 226 36 14 2480 2697 585666349 585666131 2.480000e-23 121.0
32 TraesCS1D01G153400 chr7D 89.286 84 5 3 3583 3666 604292930 604292851 8.990000e-18 102.0
33 TraesCS1D01G153400 chr3D 97.647 85 1 1 1635 1719 147164992 147164909 1.470000e-30 145.0
34 TraesCS1D01G153400 chr3D 97.590 83 2 0 1637 1719 380741994 380741912 5.290000e-30 143.0
35 TraesCS1D01G153400 chr3D 95.181 83 2 2 1637 1719 90922459 90922539 4.120000e-26 130.0
36 TraesCS1D01G153400 chr3D 93.827 81 5 0 3663 3743 263812287 263812367 6.900000e-24 122.0
37 TraesCS1D01G153400 chr3D 83.516 91 11 4 4316 4403 597211846 597211757 1.170000e-11 82.4
38 TraesCS1D01G153400 chr6D 83.030 165 21 5 4266 4427 336846042 336845882 5.290000e-30 143.0
39 TraesCS1D01G153400 chr6D 93.407 91 4 2 1630 1719 429154319 429154230 3.190000e-27 134.0
40 TraesCS1D01G153400 chr6D 89.888 89 9 0 2867 2955 110873577 110873489 1.150000e-21 115.0
41 TraesCS1D01G153400 chr5D 96.552 87 1 2 1635 1719 370830128 370830042 5.290000e-30 143.0
42 TraesCS1D01G153400 chr5D 94.872 78 4 0 3666 3743 206688093 206688170 6.900000e-24 122.0
43 TraesCS1D01G153400 chr5D 82.979 94 16 0 2576 2669 380012960 380013053 9.050000e-13 86.1
44 TraesCS1D01G153400 chr7B 96.512 86 1 2 1636 1719 413583912 413583997 1.900000e-29 141.0
45 TraesCS1D01G153400 chr7B 76.889 225 44 8 2477 2697 202077613 202077833 2.480000e-23 121.0
46 TraesCS1D01G153400 chr2D 95.506 89 2 2 1632 1719 539530750 539530663 1.900000e-29 141.0
47 TraesCS1D01G153400 chr2D 96.386 83 1 1 1637 1719 75633208 75633128 8.860000e-28 135.0
48 TraesCS1D01G153400 chr2D 88.095 84 6 3 3583 3666 456319042 456319121 4.180000e-16 97.1
49 TraesCS1D01G153400 chr2B 96.053 76 3 0 3664 3739 168836953 168836878 1.920000e-24 124.0
50 TraesCS1D01G153400 chrUn 94.872 78 4 0 3666 3743 730533 730456 6.900000e-24 122.0
51 TraesCS1D01G153400 chrUn 94.872 78 4 0 3666 3743 229396434 229396511 6.900000e-24 122.0
52 TraesCS1D01G153400 chrUn 88.750 80 5 3 3587 3666 235689541 235689616 1.500000e-15 95.3
53 TraesCS1D01G153400 chr6A 91.765 85 7 0 2867 2951 135229392 135229308 8.920000e-23 119.0
54 TraesCS1D01G153400 chr6A 87.234 94 12 0 2867 2960 529566730 529566823 1.930000e-19 108.0
55 TraesCS1D01G153400 chr6A 87.097 93 5 6 3576 3666 381088693 381088780 1.160000e-16 99.0
56 TraesCS1D01G153400 chr4D 89.130 92 10 0 2869 2960 477112318 477112227 1.150000e-21 115.0
57 TraesCS1D01G153400 chr4B 89.888 89 8 1 2869 2957 601527657 601527570 4.150000e-21 113.0
58 TraesCS1D01G153400 chr4B 90.123 81 5 2 3587 3667 252007327 252007404 8.990000e-18 102.0
59 TraesCS1D01G153400 chr3A 77.586 174 34 5 2507 2678 701177051 701176881 3.230000e-17 100.0
60 TraesCS1D01G153400 chr3A 81.915 94 9 4 2867 2960 20020463 20020378 7.050000e-09 73.1
61 TraesCS1D01G153400 chr6B 88.889 72 8 0 2867 2938 575328750 575328821 7.000000e-14 89.8
62 TraesCS1D01G153400 chr4A 79.389 131 20 6 2564 2692 576154278 576154403 9.050000e-13 86.1
63 TraesCS1D01G153400 chr5B 79.825 114 22 1 2579 2692 600518145 600518033 1.170000e-11 82.4


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 TraesCS1D01G153400 chr1D 212716380 212721452 5072 False 9369.0 9369 100.000000 1 5073 1 chr1D.!!$F2 5072
1 TraesCS1D01G153400 chr1B 302509945 302514968 5023 True 1358.5 3698 98.505333 1 5032 6 chr1B.!!$R4 5031
2 TraesCS1D01G153400 chr1B 282129762 282131030 1268 True 1232.0 1232 84.389000 6 1282 1 chr1B.!!$R1 1276
3 TraesCS1D01G153400 chr1B 307164359 307164985 626 True 671.0 671 86.190000 450 1070 1 chr1B.!!$R2 620
4 TraesCS1D01G153400 chr1B 282121650 282122895 1245 True 386.5 442 85.477000 2959 4093 2 chr1B.!!$R3 1134
5 TraesCS1D01G153400 chr1A 269571310 269579777 8467 False 1211.0 2233 95.492167 1 5073 6 chr1A.!!$F3 5072
6 TraesCS1D01G153400 chr1A 551865113 551865787 674 True 778.0 778 87.629000 450 1120 1 chr1A.!!$R1 670
7 TraesCS1D01G153400 chr1A 570371224 570371832 608 False 682.0 682 87.070000 450 1052 1 chr1A.!!$F1 602
8 TraesCS1D01G153400 chr5A 522340773 522341445 672 True 771.0 771 87.463000 450 1120 1 chr5A.!!$R1 670
9 TraesCS1D01G153400 chr2A 178146014 178146687 673 False 771.0 771 87.518000 450 1120 1 chr2A.!!$F1 670

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
647 654 2.287308 TGTTGTTCCAATTCTTTCGCCG 60.287 45.455 0.00 0.0 0.0 6.46 F
1338 1553 1.312371 TTTCAGCGCTGGTTATGGCC 61.312 55.000 35.36 0.0 0.0 5.36 F
1659 1874 0.673437 TTTGAAAGGAAAGCGGCAGG 59.327 50.000 1.45 0.0 0.0 4.85 F
1714 1929 0.966179 AAGAACCCAAATTCACGCCC 59.034 50.000 0.00 0.0 0.0 6.13 F
1715 1930 1.211709 GAACCCAAATTCACGCCCG 59.788 57.895 0.00 0.0 0.0 6.13 F
1716 1931 1.520600 GAACCCAAATTCACGCCCGT 61.521 55.000 0.00 0.0 0.0 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1640 1855 0.673437 CCTGCCGCTTTCCTTTCAAA 59.327 50.000 0.00 0.00 0.00 2.69 R
2711 3011 1.679977 ACTGATGGCCATGTGGTGC 60.680 57.895 26.56 8.07 37.57 5.01 R
2783 3083 3.569701 ACATTTCACCTCAAGCGTTGAAT 59.430 39.130 2.82 0.00 39.58 2.57 R
3515 4513 6.476243 AACACCTAACATAGTGCTAAAACG 57.524 37.500 0.00 0.00 37.51 3.60 R
4000 5006 2.882137 ACCAACCACATACTTCAAACCG 59.118 45.455 0.00 0.00 0.00 4.44 R
4346 5359 1.355381 TGGGCATCAATGAGACTGGTT 59.645 47.619 0.00 0.00 0.00 3.67 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
29 30 6.016192 TGTTAATGAGGCACCATCGTTTTTAA 60.016 34.615 0.00 0.00 0.00 1.52
68 69 6.286758 TGCTAGGCATTAGAGAAAGATGAAG 58.713 40.000 0.00 0.00 31.71 3.02
72 73 6.347696 AGGCATTAGAGAAAGATGAAGTCAG 58.652 40.000 0.00 0.00 0.00 3.51
281 283 5.815740 GTGGAACGTAACTGATCATATTGGT 59.184 40.000 0.00 0.00 0.00 3.67
486 489 5.132502 ACCATTTATTCCGCAGATGATCAA 58.867 37.500 0.00 0.00 0.00 2.57
647 654 2.287308 TGTTGTTCCAATTCTTTCGCCG 60.287 45.455 0.00 0.00 0.00 6.46
1263 1477 2.606213 TCTCCACCGGTGCCATGA 60.606 61.111 29.75 19.01 0.00 3.07
1338 1553 1.312371 TTTCAGCGCTGGTTATGGCC 61.312 55.000 35.36 0.00 0.00 5.36
1636 1851 6.491403 AGAAGTTAAAGGAGCATGTGATGTTT 59.509 34.615 0.00 0.00 0.00 2.83
1637 1852 6.655078 AGTTAAAGGAGCATGTGATGTTTT 57.345 33.333 0.00 0.00 0.00 2.43
1638 1853 7.054491 AGTTAAAGGAGCATGTGATGTTTTT 57.946 32.000 0.00 0.00 0.00 1.94
1657 1872 2.969628 TTTTTGAAAGGAAAGCGGCA 57.030 40.000 1.45 0.00 0.00 5.69
1658 1873 2.507339 TTTTGAAAGGAAAGCGGCAG 57.493 45.000 1.45 0.00 0.00 4.85
1659 1874 0.673437 TTTGAAAGGAAAGCGGCAGG 59.327 50.000 1.45 0.00 0.00 4.85
1660 1875 1.178534 TTGAAAGGAAAGCGGCAGGG 61.179 55.000 1.45 0.00 0.00 4.45
1661 1876 2.283173 AAAGGAAAGCGGCAGGGG 60.283 61.111 1.45 0.00 0.00 4.79
1662 1877 2.764637 GAAAGGAAAGCGGCAGGGGA 62.765 60.000 1.45 0.00 0.00 4.81
1663 1878 2.366153 AAAGGAAAGCGGCAGGGGAA 62.366 55.000 1.45 0.00 0.00 3.97
1664 1879 2.751837 GGAAAGCGGCAGGGGAAG 60.752 66.667 1.45 0.00 0.00 3.46
1665 1880 3.443925 GAAAGCGGCAGGGGAAGC 61.444 66.667 1.45 0.00 0.00 3.86
1683 1898 4.174305 CCCCCACAGCGAGTTTTT 57.826 55.556 0.00 0.00 0.00 1.94
1712 1927 9.575783 TTAAATAATAAGAACCCAAATTCACGC 57.424 29.630 0.00 0.00 0.00 5.34
1713 1928 4.450082 AATAAGAACCCAAATTCACGCC 57.550 40.909 0.00 0.00 0.00 5.68
1714 1929 0.966179 AAGAACCCAAATTCACGCCC 59.034 50.000 0.00 0.00 0.00 6.13
1715 1930 1.211709 GAACCCAAATTCACGCCCG 59.788 57.895 0.00 0.00 0.00 6.13
1716 1931 1.520600 GAACCCAAATTCACGCCCGT 61.521 55.000 0.00 0.00 0.00 5.28
1717 1932 1.801309 AACCCAAATTCACGCCCGTG 61.801 55.000 14.17 14.17 46.64 4.94
2171 2387 9.252962 CAAAATGTCAAATTAGATATTCCTGCC 57.747 33.333 0.00 0.00 30.35 4.85
2172 2388 8.537728 AAATGTCAAATTAGATATTCCTGCCA 57.462 30.769 0.00 0.00 30.35 4.92
2173 2389 6.942532 TGTCAAATTAGATATTCCTGCCAC 57.057 37.500 0.00 0.00 0.00 5.01
2174 2390 6.662755 TGTCAAATTAGATATTCCTGCCACT 58.337 36.000 0.00 0.00 0.00 4.00
2175 2391 7.118723 TGTCAAATTAGATATTCCTGCCACTT 58.881 34.615 0.00 0.00 0.00 3.16
2176 2392 7.283127 TGTCAAATTAGATATTCCTGCCACTTC 59.717 37.037 0.00 0.00 0.00 3.01
2177 2393 7.283127 GTCAAATTAGATATTCCTGCCACTTCA 59.717 37.037 0.00 0.00 0.00 3.02
2178 2394 7.833682 TCAAATTAGATATTCCTGCCACTTCAA 59.166 33.333 0.00 0.00 0.00 2.69
2179 2395 8.469200 CAAATTAGATATTCCTGCCACTTCAAA 58.531 33.333 0.00 0.00 0.00 2.69
2180 2396 8.593945 AATTAGATATTCCTGCCACTTCAAAA 57.406 30.769 0.00 0.00 0.00 2.44
2181 2397 8.593945 ATTAGATATTCCTGCCACTTCAAAAA 57.406 30.769 0.00 0.00 0.00 1.94
2438 2655 9.034800 AGCCAGGTTTCATTTATCAAATCTTAA 57.965 29.630 0.00 0.00 0.00 1.85
2711 3011 3.515901 AGGGAGTACAACCTAAAGAGCAG 59.484 47.826 6.58 0.00 34.71 4.24
2977 3280 2.965147 AGTACTTGCATTTTGTGGCCTT 59.035 40.909 3.32 0.00 0.00 4.35
3475 4470 5.415221 CACTCTGTCCTCCTCTCATTTTAC 58.585 45.833 0.00 0.00 0.00 2.01
3476 4471 5.186797 CACTCTGTCCTCCTCTCATTTTACT 59.813 44.000 0.00 0.00 0.00 2.24
3515 4513 6.049790 GGACCCTGTACATGTTCTCTTTATC 58.950 44.000 2.30 0.00 0.00 1.75
4188 5201 3.376859 TCGTGTTTGAAGCATGTTTGTCT 59.623 39.130 0.00 0.00 0.00 3.41
4346 5359 0.618981 TGTCCGTCTCTAGCTCCTGA 59.381 55.000 0.00 0.00 0.00 3.86
4361 5374 3.370315 GCTCCTGAACCAGTCTCATTGAT 60.370 47.826 0.00 0.00 0.00 2.57
4403 5416 4.322953 GGACCGGAGACACCTGTATTTTTA 60.323 45.833 9.46 0.00 36.26 1.52
4574 5587 2.808906 AATGAGGTTTAGCCAGGGAC 57.191 50.000 0.00 0.00 40.61 4.46
4588 5602 1.062488 AGGGACAGTGGCCTCAAACT 61.062 55.000 16.57 0.00 0.00 2.66
4630 5657 4.513442 CCCGAAGAATGGTGTTTCAGATA 58.487 43.478 0.00 0.00 0.00 1.98
4639 5666 5.762179 TGGTGTTTCAGATATTCTGTCCT 57.238 39.130 4.56 0.00 44.58 3.85
4663 9071 2.352342 CTCTCTCCGTCTCTTAACCGAC 59.648 54.545 0.00 0.00 0.00 4.79
4773 9181 8.882557 AACCATTATTCACCATATCATGCATA 57.117 30.769 0.00 0.00 0.00 3.14
4892 9302 3.318839 TCAACAAAGTTGGCTGATTCCAG 59.681 43.478 9.72 0.00 43.22 3.86
5052 9543 8.924303 TGTACATGCTTTACTTACTGGATATCT 58.076 33.333 2.05 0.00 0.00 1.98
5059 9550 7.227512 GCTTTACTTACTGGATATCTGCACAAT 59.772 37.037 2.05 0.00 0.00 2.71
5064 9555 8.870116 ACTTACTGGATATCTGCACAATACATA 58.130 33.333 2.05 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 3.633986 GCCTAGCAAATGAGCTACCAAAT 59.366 43.478 0.00 0.00 44.50 2.32
68 69 7.517259 GCAAATTTCAAAACACCAATCTCTGAC 60.517 37.037 0.00 0.00 0.00 3.51
72 73 5.759763 AGGCAAATTTCAAAACACCAATCTC 59.240 36.000 0.00 0.00 0.00 2.75
281 283 6.952773 AGCATGGTGAACTTAACTTTAACA 57.047 33.333 0.00 0.00 0.00 2.41
486 489 7.528996 TTTGAATGATCCAGAACTGAAACAT 57.471 32.000 3.19 3.38 0.00 2.71
1263 1477 1.985159 TCTGGCACAATACAGGACCTT 59.015 47.619 0.00 0.00 38.70 3.50
1338 1553 5.723672 TTCTGGGAGACACTAACACTTAG 57.276 43.478 0.00 0.00 39.18 2.18
1419 1634 6.676237 ACAATTGGGTTGATTTGTTTTCAC 57.324 33.333 10.83 0.00 40.37 3.18
1506 1721 7.309683 GGAAAGAGAAGCAAATCAAGGAAAGAT 60.310 37.037 0.00 0.00 0.00 2.40
1638 1853 2.482839 CCTGCCGCTTTCCTTTCAAAAA 60.483 45.455 0.00 0.00 0.00 1.94
1639 1854 1.068434 CCTGCCGCTTTCCTTTCAAAA 59.932 47.619 0.00 0.00 0.00 2.44
1640 1855 0.673437 CCTGCCGCTTTCCTTTCAAA 59.327 50.000 0.00 0.00 0.00 2.69
1641 1856 1.178534 CCCTGCCGCTTTCCTTTCAA 61.179 55.000 0.00 0.00 0.00 2.69
1642 1857 1.603455 CCCTGCCGCTTTCCTTTCA 60.603 57.895 0.00 0.00 0.00 2.69
1644 1859 2.283173 CCCCTGCCGCTTTCCTTT 60.283 61.111 0.00 0.00 0.00 3.11
1646 1861 3.256960 TTCCCCTGCCGCTTTCCT 61.257 61.111 0.00 0.00 0.00 3.36
1647 1862 2.751837 CTTCCCCTGCCGCTTTCC 60.752 66.667 0.00 0.00 0.00 3.13
1648 1863 3.443925 GCTTCCCCTGCCGCTTTC 61.444 66.667 0.00 0.00 0.00 2.62
1666 1881 4.174305 AAAAACTCGCTGTGGGGG 57.826 55.556 0.00 0.00 0.00 5.40
1686 1901 9.575783 GCGTGAATTTGGGTTCTTATTATTTAA 57.424 29.630 0.00 0.00 0.00 1.52
1687 1902 8.192110 GGCGTGAATTTGGGTTCTTATTATTTA 58.808 33.333 0.00 0.00 0.00 1.40
1688 1903 7.039270 GGCGTGAATTTGGGTTCTTATTATTT 58.961 34.615 0.00 0.00 0.00 1.40
1689 1904 6.406512 GGGCGTGAATTTGGGTTCTTATTATT 60.407 38.462 0.00 0.00 0.00 1.40
1690 1905 5.068591 GGGCGTGAATTTGGGTTCTTATTAT 59.931 40.000 0.00 0.00 0.00 1.28
1691 1906 4.399934 GGGCGTGAATTTGGGTTCTTATTA 59.600 41.667 0.00 0.00 0.00 0.98
1692 1907 3.194755 GGGCGTGAATTTGGGTTCTTATT 59.805 43.478 0.00 0.00 0.00 1.40
1693 1908 2.758423 GGGCGTGAATTTGGGTTCTTAT 59.242 45.455 0.00 0.00 0.00 1.73
1694 1909 2.164338 GGGCGTGAATTTGGGTTCTTA 58.836 47.619 0.00 0.00 0.00 2.10
1695 1910 0.966179 GGGCGTGAATTTGGGTTCTT 59.034 50.000 0.00 0.00 0.00 2.52
1696 1911 1.241315 CGGGCGTGAATTTGGGTTCT 61.241 55.000 0.00 0.00 0.00 3.01
1697 1912 1.211709 CGGGCGTGAATTTGGGTTC 59.788 57.895 0.00 0.00 0.00 3.62
1698 1913 1.529713 ACGGGCGTGAATTTGGGTT 60.530 52.632 0.00 0.00 0.00 4.11
1699 1914 2.114411 ACGGGCGTGAATTTGGGT 59.886 55.556 0.00 0.00 0.00 4.51
1715 1930 4.024048 CCATTTGATATACCCGTGCTTCAC 60.024 45.833 0.00 0.00 0.00 3.18
1716 1931 4.133820 CCATTTGATATACCCGTGCTTCA 58.866 43.478 0.00 0.00 0.00 3.02
1717 1932 3.502211 CCCATTTGATATACCCGTGCTTC 59.498 47.826 0.00 0.00 0.00 3.86
1718 1933 3.486383 CCCATTTGATATACCCGTGCTT 58.514 45.455 0.00 0.00 0.00 3.91
1719 1934 2.814097 GCCCATTTGATATACCCGTGCT 60.814 50.000 0.00 0.00 0.00 4.40
1720 1935 1.539827 GCCCATTTGATATACCCGTGC 59.460 52.381 0.00 0.00 0.00 5.34
1721 1936 3.140325 AGCCCATTTGATATACCCGTG 57.860 47.619 0.00 0.00 0.00 4.94
1722 1937 3.137544 TCAAGCCCATTTGATATACCCGT 59.862 43.478 0.00 0.00 32.39 5.28
1723 1938 3.750371 TCAAGCCCATTTGATATACCCG 58.250 45.455 0.00 0.00 32.39 5.28
1724 1939 4.021981 GCTTCAAGCCCATTTGATATACCC 60.022 45.833 0.00 0.00 36.97 3.69
1725 1940 4.584325 TGCTTCAAGCCCATTTGATATACC 59.416 41.667 7.01 0.00 41.51 2.73
1726 1941 5.523369 GTGCTTCAAGCCCATTTGATATAC 58.477 41.667 7.01 0.00 41.51 1.47
2125 2341 5.606348 TTGAAAACATAAAGCCAACCAGT 57.394 34.783 0.00 0.00 0.00 4.00
2128 2344 7.011857 TGACATTTTGAAAACATAAAGCCAACC 59.988 33.333 0.00 0.00 0.00 3.77
2185 2401 9.927081 ACATAATTGTTGGAGAGGAATATCTTT 57.073 29.630 0.00 0.00 29.55 2.52
2186 2402 9.927081 AACATAATTGTTGGAGAGGAATATCTT 57.073 29.630 0.00 0.00 44.36 2.40
2187 2403 9.927081 AAACATAATTGTTGGAGAGGAATATCT 57.073 29.630 0.00 0.00 45.30 1.98
2438 2655 6.886178 ATAAACCCACACAGAGGTAGTATT 57.114 37.500 0.00 0.00 34.45 1.89
2711 3011 1.679977 ACTGATGGCCATGTGGTGC 60.680 57.895 26.56 8.07 37.57 5.01
2783 3083 3.569701 ACATTTCACCTCAAGCGTTGAAT 59.430 39.130 2.82 0.00 39.58 2.57
2977 3280 7.941431 TGGAAGACAAAGTGTAAAACCTAAA 57.059 32.000 0.00 0.00 0.00 1.85
3495 4490 7.596749 AAACGATAAAGAGAACATGTACAGG 57.403 36.000 5.87 5.87 0.00 4.00
3515 4513 6.476243 AACACCTAACATAGTGCTAAAACG 57.524 37.500 0.00 0.00 37.51 3.60
4000 5006 2.882137 ACCAACCACATACTTCAAACCG 59.118 45.455 0.00 0.00 0.00 4.44
4346 5359 1.355381 TGGGCATCAATGAGACTGGTT 59.645 47.619 0.00 0.00 0.00 3.67
4361 5374 2.359850 GCTCCATCACGTTGGGCA 60.360 61.111 6.44 0.00 37.37 5.36
4541 5554 5.357742 AACCTCATTTCCCCAAAATATGC 57.642 39.130 0.00 0.00 35.77 3.14
4574 5587 4.894784 TCTTTAGTAGTTTGAGGCCACTG 58.105 43.478 5.01 0.00 0.00 3.66
4630 5657 3.436243 ACGGAGAGAGAAAGGACAGAAT 58.564 45.455 0.00 0.00 0.00 2.40
4639 5666 3.439476 CGGTTAAGAGACGGAGAGAGAAA 59.561 47.826 0.00 0.00 0.00 2.52
4687 9095 6.636705 TCGGTGTTATTTGCTAGTAGTTGAT 58.363 36.000 0.00 0.00 0.00 2.57
4773 9181 0.456221 CAGGTCGGAGCTAATCGTGT 59.544 55.000 9.71 0.00 0.00 4.49
4892 9302 2.682856 TGAATCGAAATGTTAGGCTGCC 59.317 45.455 11.65 11.65 0.00 4.85


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

AutoCloner maintained by Alex Coulton.