Multiple sequence alignment - TraesCS7A01G342400

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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 TraesCS7A01G342400 chr7A 100.000 2537 0 0 1 2537 502384401 502381865 0.000000e+00 4686
1 TraesCS7A01G342400 chr7A 87.624 1511 115 30 930 2407 502625135 502623664 0.000000e+00 1688
2 TraesCS7A01G342400 chr7A 94.239 243 14 0 2134 2376 665377221 665376979 3.080000e-99 372
3 TraesCS7A01G342400 chr7A 92.857 140 8 2 2388 2525 665376858 665376719 4.280000e-48 202
4 TraesCS7A01G342400 chr7D 86.810 1630 104 41 928 2521 430093815 430095369 0.000000e+00 1716
5 TraesCS7A01G342400 chr7D 87.654 1296 100 26 955 2227 429491660 429492918 0.000000e+00 1452
6 TraesCS7A01G342400 chr7B 86.966 1335 112 27 928 2227 447216365 447217672 0.000000e+00 1445
7 TraesCS7A01G342400 chr7B 91.106 922 63 9 963 1871 447451005 447451920 0.000000e+00 1230
8 TraesCS7A01G342400 chr7B 89.632 299 22 6 1738 2036 447451920 447452209 3.080000e-99 372
9 TraesCS7A01G342400 chr7B 86.266 233 12 8 1995 2225 386556504 386556290 4.220000e-58 235
10 TraesCS7A01G342400 chr7B 88.333 120 6 3 2045 2164 447460609 447460720 1.220000e-28 137
11 TraesCS7A01G342400 chr7B 91.176 102 8 1 2192 2292 447461102 447461203 1.220000e-28 137
12 TraesCS7A01G342400 chr2A 94.065 893 46 5 1 888 589541472 589542362 0.000000e+00 1349
13 TraesCS7A01G342400 chr2A 93.841 893 49 5 1 890 580722780 580723669 0.000000e+00 1339
14 TraesCS7A01G342400 chr2D 93.966 895 47 4 1 890 37232221 37233113 0.000000e+00 1347
15 TraesCS7A01G342400 chr6D 93.505 893 53 4 1 890 35886895 35887785 0.000000e+00 1323
16 TraesCS7A01G342400 chr5A 93.031 904 51 10 1 897 608851281 608850383 0.000000e+00 1310
17 TraesCS7A01G342400 chr4A 92.817 891 57 6 1 888 741264719 741265605 0.000000e+00 1284
18 TraesCS7A01G342400 chrUn 92.291 895 58 10 1 888 221207074 221206184 0.000000e+00 1260
19 TraesCS7A01G342400 chrUn 92.291 895 58 10 1 888 232062984 232063874 0.000000e+00 1260
20 TraesCS7A01G342400 chr5D 92.747 841 43 13 1 836 421857242 421856415 0.000000e+00 1199


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 TraesCS7A01G342400 chr7A 502381865 502384401 2536 True 4686 4686 100.000 1 2537 1 chr7A.!!$R1 2536
1 TraesCS7A01G342400 chr7A 502623664 502625135 1471 True 1688 1688 87.624 930 2407 1 chr7A.!!$R2 1477
2 TraesCS7A01G342400 chr7A 665376719 665377221 502 True 287 372 93.548 2134 2525 2 chr7A.!!$R3 391
3 TraesCS7A01G342400 chr7D 430093815 430095369 1554 False 1716 1716 86.810 928 2521 1 chr7D.!!$F2 1593
4 TraesCS7A01G342400 chr7D 429491660 429492918 1258 False 1452 1452 87.654 955 2227 1 chr7D.!!$F1 1272
5 TraesCS7A01G342400 chr7B 447216365 447217672 1307 False 1445 1445 86.966 928 2227 1 chr7B.!!$F1 1299
6 TraesCS7A01G342400 chr7B 447451005 447452209 1204 False 801 1230 90.369 963 2036 2 chr7B.!!$F2 1073
7 TraesCS7A01G342400 chr2A 589541472 589542362 890 False 1349 1349 94.065 1 888 1 chr2A.!!$F2 887
8 TraesCS7A01G342400 chr2A 580722780 580723669 889 False 1339 1339 93.841 1 890 1 chr2A.!!$F1 889
9 TraesCS7A01G342400 chr2D 37232221 37233113 892 False 1347 1347 93.966 1 890 1 chr2D.!!$F1 889
10 TraesCS7A01G342400 chr6D 35886895 35887785 890 False 1323 1323 93.505 1 890 1 chr6D.!!$F1 889
11 TraesCS7A01G342400 chr5A 608850383 608851281 898 True 1310 1310 93.031 1 897 1 chr5A.!!$R1 896
12 TraesCS7A01G342400 chr4A 741264719 741265605 886 False 1284 1284 92.817 1 888 1 chr4A.!!$F1 887
13 TraesCS7A01G342400 chrUn 221206184 221207074 890 True 1260 1260 92.291 1 888 1 chrUn.!!$R1 887
14 TraesCS7A01G342400 chrUn 232062984 232063874 890 False 1260 1260 92.291 1 888 1 chrUn.!!$F1 887
15 TraesCS7A01G342400 chr5D 421856415 421857242 827 True 1199 1199 92.747 1 836 1 chr5D.!!$R1 835

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
823 845 0.396435 TGATTGCTCGTGAGTGGGTT 59.604 50.0 0.0 0.0 0.0 4.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2082 2330 0.033796 ATGACACCTGGGAGCAATGG 60.034 55.0 0.0 0.0 0.0 3.16 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 84 3.005050 CCGCATGAATGGATGTAGCAAAT 59.995 43.478 0.00 0.00 0.00 2.32
89 92 6.539826 TGAATGGATGTAGCAAATACACAGAG 59.460 38.462 0.00 0.00 47.00 3.35
156 159 2.253610 TGAAGCTTTTCCCCTCTACGA 58.746 47.619 0.00 0.00 0.00 3.43
168 171 3.545703 CCCTCTACGATGGAAGCATTTT 58.454 45.455 0.00 0.00 0.00 1.82
178 182 6.640907 ACGATGGAAGCATTTTTGTAAAAGAC 59.359 34.615 0.00 0.00 0.00 3.01
279 286 5.403466 GGTTGTAGCGTTTTATATAGACGGG 59.597 44.000 17.18 0.00 37.28 5.28
282 289 3.387397 AGCGTTTTATATAGACGGGTGC 58.613 45.455 17.18 5.77 37.28 5.01
356 364 7.153985 TGAAGCATTTTTAATCTTGGGTTGAG 58.846 34.615 0.00 0.00 0.00 3.02
479 490 3.972502 GGTAGTAGCAAAAGCAAAACACG 59.027 43.478 0.00 0.00 0.00 4.49
513 529 1.030488 ATGGTCATCCGTCGTCTCGT 61.030 55.000 0.00 0.00 36.30 4.18
613 631 1.758906 GGCGAGGTAGGGAGAGCTT 60.759 63.158 0.00 0.00 0.00 3.74
631 649 2.642996 TTCGATGCACGCGGATCCAT 62.643 55.000 12.47 6.92 42.26 3.41
756 778 2.425312 GAGAGATGCGTGAGAGGAAGAA 59.575 50.000 0.00 0.00 0.00 2.52
823 845 0.396435 TGATTGCTCGTGAGTGGGTT 59.604 50.000 0.00 0.00 0.00 4.11
856 878 2.192175 GGATTGGACCGGCCGAAT 59.808 61.111 30.73 18.78 40.66 3.34
857 879 1.338890 TGGATTGGACCGGCCGAATA 61.339 55.000 30.73 7.02 40.66 1.75
890 912 1.526455 CGGTCCCAAACGTTTCCCA 60.526 57.895 11.37 0.00 0.00 4.37
892 914 1.112950 GGTCCCAAACGTTTCCCAAA 58.887 50.000 11.37 0.00 0.00 3.28
895 917 3.432467 GGTCCCAAACGTTTCCCAAAAAT 60.432 43.478 11.37 0.00 0.00 1.82
896 918 4.193090 GTCCCAAACGTTTCCCAAAAATT 58.807 39.130 11.37 0.00 0.00 1.82
897 919 5.358090 GTCCCAAACGTTTCCCAAAAATTA 58.642 37.500 11.37 0.00 0.00 1.40
899 921 6.483974 GTCCCAAACGTTTCCCAAAAATTATT 59.516 34.615 11.37 0.00 0.00 1.40
900 922 7.012515 GTCCCAAACGTTTCCCAAAAATTATTT 59.987 33.333 11.37 0.00 0.00 1.40
901 923 7.226918 TCCCAAACGTTTCCCAAAAATTATTTC 59.773 33.333 11.37 0.00 0.00 2.17
902 924 7.356540 CCAAACGTTTCCCAAAAATTATTTCC 58.643 34.615 11.37 0.00 0.00 3.13
903 925 7.227711 CCAAACGTTTCCCAAAAATTATTTCCT 59.772 33.333 11.37 0.00 0.00 3.36
904 926 8.616942 CAAACGTTTCCCAAAAATTATTTCCTT 58.383 29.630 11.37 0.00 0.00 3.36
905 927 8.740123 AACGTTTCCCAAAAATTATTTCCTTT 57.260 26.923 0.00 0.00 0.00 3.11
906 928 8.740123 ACGTTTCCCAAAAATTATTTCCTTTT 57.260 26.923 0.00 0.00 0.00 2.27
907 929 8.832521 ACGTTTCCCAAAAATTATTTCCTTTTC 58.167 29.630 0.00 0.00 0.00 2.29
908 930 9.051679 CGTTTCCCAAAAATTATTTCCTTTTCT 57.948 29.630 0.00 0.00 0.00 2.52
920 942 9.710900 ATTATTTCCTTTTCTTAAGTTGCCAAG 57.289 29.630 1.63 0.00 0.00 3.61
921 943 6.783708 TTTCCTTTTCTTAAGTTGCCAAGA 57.216 33.333 1.63 0.00 0.00 3.02
922 944 6.783708 TTCCTTTTCTTAAGTTGCCAAGAA 57.216 33.333 1.63 0.00 38.63 2.52
923 945 6.391227 TCCTTTTCTTAAGTTGCCAAGAAG 57.609 37.500 1.63 0.00 40.74 2.85
924 946 5.891551 TCCTTTTCTTAAGTTGCCAAGAAGT 59.108 36.000 1.63 0.00 40.74 3.01
925 947 6.379988 TCCTTTTCTTAAGTTGCCAAGAAGTT 59.620 34.615 1.63 0.00 40.74 2.66
926 948 7.041721 CCTTTTCTTAAGTTGCCAAGAAGTTT 58.958 34.615 1.63 0.00 40.74 2.66
936 958 6.589907 AGTTGCCAAGAAGTTTACAAAAAGTG 59.410 34.615 0.00 0.00 0.00 3.16
946 968 4.599047 TTACAAAAAGTGCCATTCCCAG 57.401 40.909 0.00 0.00 0.00 4.45
950 974 2.380064 AAAGTGCCATTCCCAGTTCA 57.620 45.000 0.00 0.00 0.00 3.18
973 997 1.963515 CCCCAAAGCAAAGCAAGTAGT 59.036 47.619 0.00 0.00 0.00 2.73
974 998 3.153919 CCCCAAAGCAAAGCAAGTAGTA 58.846 45.455 0.00 0.00 0.00 1.82
975 999 3.057526 CCCCAAAGCAAAGCAAGTAGTAC 60.058 47.826 0.00 0.00 0.00 2.73
1068 1093 0.249699 CCCGGGAAAACCTGCAAAAC 60.250 55.000 18.48 0.00 36.97 2.43
1083 1108 2.874457 GCAAAACAGGATCAGGTACCGT 60.874 50.000 6.18 0.00 0.00 4.83
1206 1231 4.410400 GGCAACCCCACCCTCGAG 62.410 72.222 5.13 5.13 0.00 4.04
1450 1475 4.749310 AGCTGCCAGAGTTCGCCG 62.749 66.667 0.00 0.00 0.00 6.46
1470 1495 2.410879 GCGCTCGATGCTCTCAGA 59.589 61.111 0.00 0.00 40.11 3.27
1580 1613 2.357327 CGGGTTCGTTCACTACATCA 57.643 50.000 0.00 0.00 0.00 3.07
1581 1614 2.259618 CGGGTTCGTTCACTACATCAG 58.740 52.381 0.00 0.00 0.00 2.90
1582 1615 2.618053 GGGTTCGTTCACTACATCAGG 58.382 52.381 0.00 0.00 0.00 3.86
1583 1616 2.028385 GGGTTCGTTCACTACATCAGGT 60.028 50.000 0.00 0.00 0.00 4.00
1584 1617 3.556423 GGGTTCGTTCACTACATCAGGTT 60.556 47.826 0.00 0.00 0.00 3.50
1592 1642 6.128282 CGTTCACTACATCAGGTTATTGCTTT 60.128 38.462 0.00 0.00 0.00 3.51
1603 1653 5.300286 CAGGTTATTGCTTTCCTAATCAGGG 59.700 44.000 0.00 0.00 42.87 4.45
1702 1753 5.221224 TGTGTTCATTGCTCGGAAAATCTTT 60.221 36.000 0.00 0.00 0.00 2.52
1704 1755 5.691305 TGTTCATTGCTCGGAAAATCTTTTG 59.309 36.000 0.00 0.00 0.00 2.44
1716 1768 8.313292 TCGGAAAATCTTTTGGATGATTGAATT 58.687 29.630 0.00 0.00 34.45 2.17
1729 1781 7.674772 TGGATGATTGAATTGGGATATATGCAA 59.325 33.333 6.56 0.00 0.00 4.08
1740 1792 9.772605 ATTGGGATATATGCAAAATCAGGAATA 57.227 29.630 6.56 0.00 0.00 1.75
1768 1820 5.007682 GGTAGAACAAATTGTTGCTCCCTA 58.992 41.667 16.78 7.96 41.28 3.53
1841 1933 9.122779 GTACAAGTATATAGTTCAGAGTGTCCT 57.877 37.037 0.00 0.00 0.00 3.85
1842 1934 8.001881 ACAAGTATATAGTTCAGAGTGTCCTG 57.998 38.462 0.00 0.00 35.55 3.86
1843 1935 7.834681 ACAAGTATATAGTTCAGAGTGTCCTGA 59.165 37.037 0.00 0.00 41.06 3.86
1844 1936 8.855110 CAAGTATATAGTTCAGAGTGTCCTGAT 58.145 37.037 0.00 0.00 42.18 2.90
1845 1937 8.630054 AGTATATAGTTCAGAGTGTCCTGATC 57.370 38.462 0.00 0.00 42.18 2.92
1846 1938 8.444783 AGTATATAGTTCAGAGTGTCCTGATCT 58.555 37.037 0.00 0.00 42.18 2.75
1847 1939 5.850557 ATAGTTCAGAGTGTCCTGATCTG 57.149 43.478 12.27 0.00 42.18 2.90
1848 1940 2.233431 AGTTCAGAGTGTCCTGATCTGC 59.767 50.000 0.00 0.00 42.18 4.26
1849 1941 1.928868 TCAGAGTGTCCTGATCTGCA 58.071 50.000 0.00 0.00 40.22 4.41
1850 1942 1.823610 TCAGAGTGTCCTGATCTGCAG 59.176 52.381 7.63 7.63 44.49 4.41
1851 1943 1.549620 CAGAGTGTCCTGATCTGCAGT 59.450 52.381 14.67 0.42 43.33 4.40
1852 1944 2.028294 CAGAGTGTCCTGATCTGCAGTT 60.028 50.000 14.67 5.03 43.33 3.16
1853 1945 2.233431 AGAGTGTCCTGATCTGCAGTTC 59.767 50.000 14.67 15.67 43.33 3.01
1854 1946 1.973515 AGTGTCCTGATCTGCAGTTCA 59.026 47.619 22.82 22.82 43.33 3.18
1952 2190 6.126863 TGACATCTAGGAACAAGGAACAAT 57.873 37.500 0.00 0.00 0.00 2.71
2038 2286 3.049708 ACATGTGGCCGATGATAGATG 57.950 47.619 18.95 7.67 0.00 2.90
2076 2324 7.925043 TTGTCAACTAAGTTTCCTGTTAACA 57.075 32.000 8.28 8.28 0.00 2.41
2078 2326 8.514330 TGTCAACTAAGTTTCCTGTTAACAAT 57.486 30.769 10.03 0.00 0.00 2.71
2079 2327 8.402472 TGTCAACTAAGTTTCCTGTTAACAATG 58.598 33.333 10.03 4.19 0.00 2.82
2080 2328 7.378728 GTCAACTAAGTTTCCTGTTAACAATGC 59.621 37.037 10.03 0.00 0.00 3.56
2081 2329 7.284489 TCAACTAAGTTTCCTGTTAACAATGCT 59.716 33.333 10.03 1.46 0.00 3.79
2082 2330 7.203255 ACTAAGTTTCCTGTTAACAATGCTC 57.797 36.000 10.03 1.27 0.00 4.26
2083 2331 5.453567 AAGTTTCCTGTTAACAATGCTCC 57.546 39.130 10.03 0.00 0.00 4.70
2084 2332 4.469657 AGTTTCCTGTTAACAATGCTCCA 58.530 39.130 10.03 0.00 0.00 3.86
2085 2333 5.079643 AGTTTCCTGTTAACAATGCTCCAT 58.920 37.500 10.03 0.00 0.00 3.41
2354 2606 9.991906 GCTAGTTACTATCCATAACCATTTGTA 57.008 33.333 0.00 0.00 33.74 2.41
2383 2744 3.494626 CGGAGCGTAATCAAGCATGTATT 59.505 43.478 0.00 0.00 35.48 1.89
2384 2745 4.024893 CGGAGCGTAATCAAGCATGTATTT 60.025 41.667 0.00 0.00 35.48 1.40
2386 2747 6.593978 GGAGCGTAATCAAGCATGTATTTAG 58.406 40.000 0.00 0.00 35.48 1.85
2452 2840 3.181446 CCCCAAAAGGCCAAAATTCTTCA 60.181 43.478 5.01 0.00 0.00 3.02
2464 2852 5.629020 CCAAAATTCTTCATGTGTACCGTTG 59.371 40.000 0.00 0.00 0.00 4.10
2481 2869 5.480205 ACCGTTGTTCTCCTTCTATCTTTC 58.520 41.667 0.00 0.00 0.00 2.62
2489 2877 2.497675 TCCTTCTATCTTTCGTGCTGCT 59.502 45.455 0.00 0.00 0.00 4.24
2521 2910 3.244345 GTCTCGTGACATTTGTTTCGTCA 59.756 43.478 12.54 0.00 42.48 4.35
2526 2915 2.542178 TGACATTTGTTTCGTCACCTCG 59.458 45.455 0.00 0.00 34.83 4.63
2527 2916 1.871039 ACATTTGTTTCGTCACCTCGG 59.129 47.619 0.00 0.00 0.00 4.63
2528 2917 1.871039 CATTTGTTTCGTCACCTCGGT 59.129 47.619 0.00 0.00 0.00 4.69
2529 2918 1.574134 TTTGTTTCGTCACCTCGGTC 58.426 50.000 0.00 0.00 0.00 4.79
2530 2919 0.595567 TTGTTTCGTCACCTCGGTCG 60.596 55.000 0.00 0.00 0.00 4.79
2531 2920 2.049802 TTTCGTCACCTCGGTCGC 60.050 61.111 0.00 0.00 0.00 5.19
2532 2921 3.884581 TTTCGTCACCTCGGTCGCG 62.885 63.158 0.00 0.00 0.00 5.87
2534 2923 4.175489 CGTCACCTCGGTCGCGAT 62.175 66.667 14.06 0.00 0.00 4.58
2535 2924 2.579787 GTCACCTCGGTCGCGATG 60.580 66.667 14.06 8.75 0.00 3.84
2536 2925 3.822192 TCACCTCGGTCGCGATGG 61.822 66.667 14.06 14.94 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 84 5.811796 TTTTTGCTACTACCCTCTGTGTA 57.188 39.130 0.00 0.00 0.00 2.90
156 159 7.725251 TCAGTCTTTTACAAAAATGCTTCCAT 58.275 30.769 0.00 0.00 0.00 3.41
279 286 0.933796 GCTATCGAGGAAAGCTGCAC 59.066 55.000 1.02 0.00 33.40 4.57
282 289 2.159184 TCAGTGCTATCGAGGAAAGCTG 60.159 50.000 11.56 6.43 37.16 4.24
356 364 0.310854 CAACCGTTGACAGGAAAGCC 59.689 55.000 5.23 0.00 0.00 4.35
470 481 2.196295 TTGCTACAACCGTGTTTTGC 57.804 45.000 0.00 0.00 39.30 3.68
513 529 1.848932 CTGGAACCTCGACGTCACGA 61.849 60.000 17.16 7.82 40.00 4.35
613 631 3.150647 ATGGATCCGCGTGCATCGA 62.151 57.895 7.39 1.06 42.86 3.59
631 649 2.892640 CCCTCGACCAGATTCGCA 59.107 61.111 0.00 0.00 38.95 5.10
635 653 4.162690 GCCGCCCTCGACCAGATT 62.163 66.667 0.00 0.00 38.10 2.40
699 721 1.303155 TGCCATGGTCAACGCATCA 60.303 52.632 14.67 0.00 0.00 3.07
756 778 5.847265 ACTAGTCCTCCTTCCTTTTCTCTTT 59.153 40.000 0.00 0.00 0.00 2.52
806 828 1.237285 GCAACCCACTCACGAGCAAT 61.237 55.000 0.00 0.00 0.00 3.56
842 864 0.531090 CGAATATTCGGCCGGTCCAA 60.531 55.000 27.83 12.99 46.30 3.53
895 917 8.919145 TCTTGGCAACTTAAGAAAAGGAAATAA 58.081 29.630 10.09 0.00 30.49 1.40
896 918 8.472007 TCTTGGCAACTTAAGAAAAGGAAATA 57.528 30.769 10.09 0.00 30.49 1.40
897 919 7.360113 TCTTGGCAACTTAAGAAAAGGAAAT 57.640 32.000 10.09 0.00 30.49 2.17
899 921 6.379988 ACTTCTTGGCAACTTAAGAAAAGGAA 59.620 34.615 10.09 5.09 41.02 3.36
900 922 5.891551 ACTTCTTGGCAACTTAAGAAAAGGA 59.108 36.000 10.09 0.00 41.02 3.36
901 923 6.149129 ACTTCTTGGCAACTTAAGAAAAGG 57.851 37.500 10.09 2.15 41.02 3.11
902 924 9.020813 GTAAACTTCTTGGCAACTTAAGAAAAG 57.979 33.333 10.09 5.45 41.02 2.27
903 925 8.524487 TGTAAACTTCTTGGCAACTTAAGAAAA 58.476 29.630 10.09 0.00 41.02 2.29
904 926 8.057536 TGTAAACTTCTTGGCAACTTAAGAAA 57.942 30.769 10.09 0.00 41.02 2.52
905 927 7.633193 TGTAAACTTCTTGGCAACTTAAGAA 57.367 32.000 10.09 8.34 39.77 2.52
906 928 7.633193 TTGTAAACTTCTTGGCAACTTAAGA 57.367 32.000 10.09 1.16 37.61 2.10
907 929 8.696410 TTTTGTAAACTTCTTGGCAACTTAAG 57.304 30.769 0.00 0.00 37.61 1.85
908 930 9.145865 CTTTTTGTAAACTTCTTGGCAACTTAA 57.854 29.630 0.00 0.00 37.61 1.85
909 931 8.308207 ACTTTTTGTAAACTTCTTGGCAACTTA 58.692 29.630 0.00 0.00 37.61 2.24
910 932 7.117667 CACTTTTTGTAAACTTCTTGGCAACTT 59.882 33.333 0.00 0.00 37.61 2.66
911 933 6.589907 CACTTTTTGTAAACTTCTTGGCAACT 59.410 34.615 0.00 0.00 37.61 3.16
912 934 6.672118 GCACTTTTTGTAAACTTCTTGGCAAC 60.672 38.462 0.00 0.00 0.00 4.17
913 935 5.350091 GCACTTTTTGTAAACTTCTTGGCAA 59.650 36.000 0.00 0.00 0.00 4.52
914 936 4.867608 GCACTTTTTGTAAACTTCTTGGCA 59.132 37.500 0.00 0.00 0.00 4.92
915 937 4.270084 GGCACTTTTTGTAAACTTCTTGGC 59.730 41.667 0.00 0.00 0.00 4.52
916 938 5.415221 TGGCACTTTTTGTAAACTTCTTGG 58.585 37.500 0.00 0.00 0.00 3.61
917 939 7.254421 GGAATGGCACTTTTTGTAAACTTCTTG 60.254 37.037 0.00 0.00 0.00 3.02
918 940 6.761242 GGAATGGCACTTTTTGTAAACTTCTT 59.239 34.615 0.00 0.00 0.00 2.52
919 941 6.280643 GGAATGGCACTTTTTGTAAACTTCT 58.719 36.000 0.00 0.00 0.00 2.85
920 942 5.465390 GGGAATGGCACTTTTTGTAAACTTC 59.535 40.000 0.00 0.00 0.00 3.01
921 943 5.104735 TGGGAATGGCACTTTTTGTAAACTT 60.105 36.000 0.00 0.00 0.00 2.66
922 944 4.407296 TGGGAATGGCACTTTTTGTAAACT 59.593 37.500 0.00 0.00 0.00 2.66
923 945 4.698575 TGGGAATGGCACTTTTTGTAAAC 58.301 39.130 0.00 0.00 0.00 2.01
924 946 4.407296 ACTGGGAATGGCACTTTTTGTAAA 59.593 37.500 0.00 0.00 0.00 2.01
925 947 3.964031 ACTGGGAATGGCACTTTTTGTAA 59.036 39.130 0.00 0.00 0.00 2.41
926 948 3.571590 ACTGGGAATGGCACTTTTTGTA 58.428 40.909 0.00 0.00 0.00 2.41
936 958 1.692411 GGGTATGAACTGGGAATGGC 58.308 55.000 0.00 0.00 0.00 4.40
946 968 2.298729 TGCTTTGCTTTGGGGTATGAAC 59.701 45.455 0.00 0.00 0.00 3.18
950 974 2.608623 ACTTGCTTTGCTTTGGGGTAT 58.391 42.857 0.00 0.00 0.00 2.73
973 997 1.679680 GGCGGTGATGCTAGTACTGTA 59.320 52.381 5.39 0.00 34.52 2.74
974 998 0.460311 GGCGGTGATGCTAGTACTGT 59.540 55.000 5.39 0.00 34.52 3.55
975 999 0.595053 CGGCGGTGATGCTAGTACTG 60.595 60.000 5.39 0.00 34.52 2.74
1068 1093 1.065928 GCGACGGTACCTGATCCTG 59.934 63.158 10.90 0.00 0.00 3.86
1206 1231 4.353437 ACGTTGCGGAGGACGGAC 62.353 66.667 6.12 0.00 44.72 4.79
1281 1306 4.819761 GCCTCACGCCTCATCGCA 62.820 66.667 0.00 0.00 0.00 5.10
1523 1548 1.418908 AAGCCACTACCACTGCCACT 61.419 55.000 0.00 0.00 0.00 4.00
1525 1550 1.374947 GAAGCCACTACCACTGCCA 59.625 57.895 0.00 0.00 0.00 4.92
1572 1605 6.067217 AGGAAAGCAATAACCTGATGTAGT 57.933 37.500 0.00 0.00 0.00 2.73
1573 1606 8.682936 ATTAGGAAAGCAATAACCTGATGTAG 57.317 34.615 0.00 0.00 34.42 2.74
1574 1607 8.271458 TGATTAGGAAAGCAATAACCTGATGTA 58.729 33.333 0.00 0.00 34.42 2.29
1575 1608 7.118723 TGATTAGGAAAGCAATAACCTGATGT 58.881 34.615 0.00 0.00 34.42 3.06
1576 1609 7.572523 TGATTAGGAAAGCAATAACCTGATG 57.427 36.000 0.00 0.00 34.42 3.07
1577 1610 7.814264 CTGATTAGGAAAGCAATAACCTGAT 57.186 36.000 0.00 0.00 34.42 2.90
1603 1653 1.402787 ATCCCAATCCCGAACAATGC 58.597 50.000 0.00 0.00 0.00 3.56
1648 1698 9.811995 ATTCAAGCTAAAGTTGTACGTATCATA 57.188 29.630 0.00 0.00 0.00 2.15
1655 1705 8.259194 CACAAAAATTCAAGCTAAAGTTGTACG 58.741 33.333 0.00 0.00 0.00 3.67
1702 1753 7.674772 TGCATATATCCCAATTCAATCATCCAA 59.325 33.333 0.00 0.00 0.00 3.53
1704 1755 7.649533 TGCATATATCCCAATTCAATCATCC 57.350 36.000 0.00 0.00 0.00 3.51
1716 1768 9.023962 GTTATTCCTGATTTTGCATATATCCCA 57.976 33.333 0.00 0.00 0.00 4.37
1729 1781 6.469410 TGTTCTACCACGTTATTCCTGATTT 58.531 36.000 0.00 0.00 0.00 2.17
1740 1792 4.097286 AGCAACAATTTGTTCTACCACGTT 59.903 37.500 11.78 0.00 38.77 3.99
1845 1937 6.304356 TCAACAATAGTTTCTGAACTGCAG 57.696 37.500 13.48 13.48 45.46 4.41
1846 1938 6.691754 TTCAACAATAGTTTCTGAACTGCA 57.308 33.333 2.25 0.00 45.46 4.41
1847 1939 8.579682 AATTTCAACAATAGTTTCTGAACTGC 57.420 30.769 2.25 0.00 45.46 4.40
1881 2106 1.341482 TGAACAAAGTGCCAGGACCAA 60.341 47.619 0.00 0.00 0.00 3.67
1888 2113 4.206375 TCTGAAATCTGAACAAAGTGCCA 58.794 39.130 0.00 0.00 0.00 4.92
1891 2116 6.369059 ACACTCTGAAATCTGAACAAAGTG 57.631 37.500 11.72 11.72 0.00 3.16
2010 2258 2.389962 TCGGCCACATGTTAACTACC 57.610 50.000 2.24 0.00 0.00 3.18
2038 2286 7.603024 ACTTAGTTGACAAATACTTAGTGGAGC 59.397 37.037 0.00 0.00 34.16 4.70
2076 2324 0.396695 CCTGGGAGCAATGGAGCATT 60.397 55.000 0.00 0.00 36.85 3.56
2078 2326 2.233566 ACCTGGGAGCAATGGAGCA 61.234 57.895 0.00 0.00 36.85 4.26
2079 2327 1.751927 CACCTGGGAGCAATGGAGC 60.752 63.158 0.00 0.00 0.00 4.70
2080 2328 0.393537 GACACCTGGGAGCAATGGAG 60.394 60.000 0.00 0.00 0.00 3.86
2081 2329 1.133181 TGACACCTGGGAGCAATGGA 61.133 55.000 0.00 0.00 0.00 3.41
2082 2330 0.033796 ATGACACCTGGGAGCAATGG 60.034 55.000 0.00 0.00 0.00 3.16
2083 2331 2.092753 ACTATGACACCTGGGAGCAATG 60.093 50.000 0.00 0.00 0.00 2.82
2084 2332 2.200081 ACTATGACACCTGGGAGCAAT 58.800 47.619 0.00 0.00 0.00 3.56
2085 2333 1.656587 ACTATGACACCTGGGAGCAA 58.343 50.000 0.00 0.00 0.00 3.91
2174 2422 8.607459 GCATAGACATTATACATGGCTTCATAC 58.393 37.037 8.09 0.00 38.54 2.39
2210 2462 9.887629 ATATCATCTCTCTTTAAGCACCATATG 57.112 33.333 0.00 0.00 0.00 1.78
2354 2606 1.745232 TGATTACGCTCCGGCAATTT 58.255 45.000 0.00 0.00 38.60 1.82
2357 2609 1.366111 GCTTGATTACGCTCCGGCAA 61.366 55.000 0.00 0.00 38.60 4.52
2452 2840 3.323979 AGAAGGAGAACAACGGTACACAT 59.676 43.478 0.00 0.00 0.00 3.21
2464 2852 4.564769 CAGCACGAAAGATAGAAGGAGAAC 59.435 45.833 0.00 0.00 0.00 3.01
2481 2869 0.523546 ACTTCGACGATAGCAGCACG 60.524 55.000 0.00 0.00 42.67 5.34


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

AutoCloner maintained by Alex Coulton.