Multiple sequence alignment - TraesCS4A01G133100

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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 TraesCS4A01G133100 chr4A 100.000 3002 0 0 1 3002 179543630 179540629 0.000000e+00 5544
1 TraesCS4A01G133100 chr4A 93.807 872 46 4 2133 3002 631966983 631967848 0.000000e+00 1304
2 TraesCS4A01G133100 chr4A 92.669 873 56 3 2133 3002 179501513 179500646 0.000000e+00 1251
3 TraesCS4A01G133100 chr4D 92.943 1998 63 24 167 2120 301526679 301528642 0.000000e+00 2837
4 TraesCS4A01G133100 chr4B 90.207 1307 64 30 124 1394 375414588 375415866 0.000000e+00 1646
5 TraesCS4A01G133100 chr4B 94.933 375 7 3 1768 2133 375416242 375416613 7.220000e-161 577
6 TraesCS4A01G133100 chr4B 95.142 247 11 1 1480 1725 375415926 375416172 3.630000e-104 388
7 TraesCS4A01G133100 chr7D 93.005 872 57 4 2133 3001 18864178 18863308 0.000000e+00 1269
8 TraesCS4A01G133100 chr7D 92.457 875 60 5 2133 3002 511614662 511613789 0.000000e+00 1245
9 TraesCS4A01G133100 chr3A 92.816 877 56 5 2133 3002 57559095 57558219 0.000000e+00 1264
10 TraesCS4A01G133100 chr7B 92.686 875 50 8 2133 3002 237916882 237916017 0.000000e+00 1249
11 TraesCS4A01G133100 chr5D 92.652 871 53 6 2132 3001 271899140 271898280 0.000000e+00 1243
12 TraesCS4A01G133100 chr3D 92.529 870 59 5 2133 3001 392342007 392342871 0.000000e+00 1242
13 TraesCS4A01G133100 chr2D 92.457 875 48 7 2133 3001 447226783 447227645 0.000000e+00 1234
14 TraesCS4A01G133100 chr2D 84.615 260 40 0 1123 1382 55929103 55929362 2.970000e-65 259
15 TraesCS4A01G133100 chr2D 82.900 269 45 1 1123 1390 56077690 56077422 1.080000e-59 241
16 TraesCS4A01G133100 chr2A 85.660 265 38 0 1123 1387 57445375 57445639 2.280000e-71 279
17 TraesCS4A01G133100 chr2A 83.704 270 41 3 1123 1390 57462379 57462111 4.970000e-63 252
18 TraesCS4A01G133100 chr2B 84.758 269 40 1 1123 1390 88627664 88627396 4.930000e-68 268


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 TraesCS4A01G133100 chr4A 179540629 179543630 3001 True 5544.000000 5544 100.000000 1 3002 1 chr4A.!!$R2 3001
1 TraesCS4A01G133100 chr4A 631966983 631967848 865 False 1304.000000 1304 93.807000 2133 3002 1 chr4A.!!$F1 869
2 TraesCS4A01G133100 chr4A 179500646 179501513 867 True 1251.000000 1251 92.669000 2133 3002 1 chr4A.!!$R1 869
3 TraesCS4A01G133100 chr4D 301526679 301528642 1963 False 2837.000000 2837 92.943000 167 2120 1 chr4D.!!$F1 1953
4 TraesCS4A01G133100 chr4B 375414588 375416613 2025 False 870.333333 1646 93.427333 124 2133 3 chr4B.!!$F1 2009
5 TraesCS4A01G133100 chr7D 18863308 18864178 870 True 1269.000000 1269 93.005000 2133 3001 1 chr7D.!!$R1 868
6 TraesCS4A01G133100 chr7D 511613789 511614662 873 True 1245.000000 1245 92.457000 2133 3002 1 chr7D.!!$R2 869
7 TraesCS4A01G133100 chr3A 57558219 57559095 876 True 1264.000000 1264 92.816000 2133 3002 1 chr3A.!!$R1 869
8 TraesCS4A01G133100 chr7B 237916017 237916882 865 True 1249.000000 1249 92.686000 2133 3002 1 chr7B.!!$R1 869
9 TraesCS4A01G133100 chr5D 271898280 271899140 860 True 1243.000000 1243 92.652000 2132 3001 1 chr5D.!!$R1 869
10 TraesCS4A01G133100 chr3D 392342007 392342871 864 False 1242.000000 1242 92.529000 2133 3001 1 chr3D.!!$F1 868
11 TraesCS4A01G133100 chr2D 447226783 447227645 862 False 1234.000000 1234 92.457000 2133 3001 1 chr2D.!!$F2 868

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
428 446 0.107312 CAGCACCATCAGCTAGCCTT 60.107 55.0 12.13 0.0 41.14 4.35 F
1402 1481 0.443869 CGTGCGTCTCCATTTCCTTG 59.556 55.0 0.00 0.0 0.00 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1478 1567 0.319083 TCGTACGCCCTGAAACACAT 59.681 50.0 11.24 0.0 0.00 3.21 R
2767 2901 0.325296 AGGTAGGGCCACGATCTGAA 60.325 55.0 6.18 0.0 40.61 3.02 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
28 29 3.467776 GAGAACTCTCCATGGCACC 57.532 57.895 6.96 0.00 37.02 5.01
29 30 0.107459 GAGAACTCTCCATGGCACCC 60.107 60.000 6.96 0.00 37.02 4.61
30 31 0.548682 AGAACTCTCCATGGCACCCT 60.549 55.000 6.96 0.00 0.00 4.34
31 32 0.107459 GAACTCTCCATGGCACCCTC 60.107 60.000 6.96 0.00 0.00 4.30
32 33 1.566298 AACTCTCCATGGCACCCTCC 61.566 60.000 6.96 0.00 0.00 4.30
33 34 2.692368 TCTCCATGGCACCCTCCC 60.692 66.667 6.96 0.00 0.00 4.30
34 35 2.693864 CTCCATGGCACCCTCCCT 60.694 66.667 6.96 0.00 0.00 4.20
35 36 2.692368 TCCATGGCACCCTCCCTC 60.692 66.667 6.96 0.00 0.00 4.30
36 37 4.181010 CCATGGCACCCTCCCTCG 62.181 72.222 0.00 0.00 0.00 4.63
37 38 3.083349 CATGGCACCCTCCCTCGA 61.083 66.667 0.00 0.00 0.00 4.04
38 39 3.083997 ATGGCACCCTCCCTCGAC 61.084 66.667 0.00 0.00 0.00 4.20
39 40 3.924013 ATGGCACCCTCCCTCGACA 62.924 63.158 0.00 0.00 0.00 4.35
40 41 3.775654 GGCACCCTCCCTCGACAG 61.776 72.222 0.00 0.00 0.00 3.51
41 42 4.459089 GCACCCTCCCTCGACAGC 62.459 72.222 0.00 0.00 0.00 4.40
42 43 3.775654 CACCCTCCCTCGACAGCC 61.776 72.222 0.00 0.00 0.00 4.85
43 44 3.999285 ACCCTCCCTCGACAGCCT 61.999 66.667 0.00 0.00 0.00 4.58
44 45 3.151022 CCCTCCCTCGACAGCCTC 61.151 72.222 0.00 0.00 0.00 4.70
45 46 3.151022 CCTCCCTCGACAGCCTCC 61.151 72.222 0.00 0.00 0.00 4.30
46 47 3.151022 CTCCCTCGACAGCCTCCC 61.151 72.222 0.00 0.00 0.00 4.30
47 48 3.670629 CTCCCTCGACAGCCTCCCT 62.671 68.421 0.00 0.00 0.00 4.20
48 49 2.279073 CCCTCGACAGCCTCCCTA 59.721 66.667 0.00 0.00 0.00 3.53
49 50 1.152440 CCCTCGACAGCCTCCCTAT 60.152 63.158 0.00 0.00 0.00 2.57
50 51 0.112606 CCCTCGACAGCCTCCCTATA 59.887 60.000 0.00 0.00 0.00 1.31
51 52 1.480683 CCCTCGACAGCCTCCCTATAA 60.481 57.143 0.00 0.00 0.00 0.98
52 53 2.530701 CCTCGACAGCCTCCCTATAAT 58.469 52.381 0.00 0.00 0.00 1.28
53 54 3.563697 CCCTCGACAGCCTCCCTATAATA 60.564 52.174 0.00 0.00 0.00 0.98
54 55 3.697045 CCTCGACAGCCTCCCTATAATAG 59.303 52.174 0.00 0.00 0.00 1.73
55 56 3.697045 CTCGACAGCCTCCCTATAATAGG 59.303 52.174 0.00 0.00 45.81 2.57
78 79 8.567285 AGGCTAATACATATAAAACATGCTCC 57.433 34.615 0.00 0.00 0.00 4.70
79 80 7.334421 AGGCTAATACATATAAAACATGCTCCG 59.666 37.037 0.00 0.00 0.00 4.63
80 81 7.119262 GGCTAATACATATAAAACATGCTCCGT 59.881 37.037 0.00 0.00 0.00 4.69
81 82 9.146984 GCTAATACATATAAAACATGCTCCGTA 57.853 33.333 0.00 0.00 0.00 4.02
218 235 5.345418 CTCCATTATTCCTAGATCCCTCCA 58.655 45.833 0.00 0.00 0.00 3.86
297 315 2.339712 CACCGGCAAAAAGGGCAG 59.660 61.111 0.00 0.00 0.00 4.85
421 439 0.890542 TGTTGACCAGCACCATCAGC 60.891 55.000 0.00 0.00 0.00 4.26
422 440 0.607489 GTTGACCAGCACCATCAGCT 60.607 55.000 0.00 0.00 44.62 4.24
428 446 0.107312 CAGCACCATCAGCTAGCCTT 60.107 55.000 12.13 0.00 41.14 4.35
451 469 1.999735 TCGATTAACAAAGAGCAGCCG 59.000 47.619 0.00 0.00 0.00 5.52
595 620 0.616891 ACCATCGTCCTAACCCCAAC 59.383 55.000 0.00 0.00 0.00 3.77
653 691 4.397417 CCTATTCTTTTCCTTGCACTGGAG 59.603 45.833 7.57 0.00 34.76 3.86
655 693 0.600057 CTTTTCCTTGCACTGGAGGC 59.400 55.000 7.57 0.00 34.76 4.70
727 781 1.348276 TAAAATCCACACGTACGCCG 58.652 50.000 16.72 9.60 44.03 6.46
747 808 1.153745 CTGCTGCTACTCGGACACC 60.154 63.158 0.00 0.00 0.00 4.16
771 832 2.893398 GATCGACCCGTCTGCCTT 59.107 61.111 0.00 0.00 0.00 4.35
772 833 1.519455 GATCGACCCGTCTGCCTTG 60.519 63.158 0.00 0.00 0.00 3.61
773 834 3.665675 ATCGACCCGTCTGCCTTGC 62.666 63.158 0.00 0.00 0.00 4.01
775 836 4.021925 GACCCGTCTGCCTTGCCT 62.022 66.667 0.00 0.00 0.00 4.75
824 885 5.455872 TCCAGGTTAGATTACGATCTTCCT 58.544 41.667 0.00 0.00 42.55 3.36
825 886 5.897824 TCCAGGTTAGATTACGATCTTCCTT 59.102 40.000 0.00 0.00 42.55 3.36
826 887 7.064866 TCCAGGTTAGATTACGATCTTCCTTA 58.935 38.462 0.00 0.00 42.55 2.69
857 918 5.966853 TCCTTCCCTTTTTGTTTGGAAAT 57.033 34.783 0.00 0.00 36.50 2.17
896 960 2.554462 TGGAAAGAGTCTCTCACGACTG 59.446 50.000 1.96 0.00 43.91 3.51
952 1019 5.412594 ACGTACCAACTCATTACTTCGAGTA 59.587 40.000 0.00 0.00 41.60 2.59
1104 1171 4.140599 AGCTTCTGGCCGAGCTCG 62.141 66.667 29.06 29.06 43.05 5.03
1272 1339 4.457496 ATGGAGCAGGTGTCCGCG 62.457 66.667 0.00 0.00 36.82 6.46
1394 1464 3.740397 CGGGTACGTGCGTCTCCA 61.740 66.667 16.10 0.00 34.81 3.86
1399 1478 0.997196 GTACGTGCGTCTCCATTTCC 59.003 55.000 0.00 0.00 0.00 3.13
1402 1481 0.443869 CGTGCGTCTCCATTTCCTTG 59.556 55.000 0.00 0.00 0.00 3.61
1403 1482 1.523758 GTGCGTCTCCATTTCCTTGT 58.476 50.000 0.00 0.00 0.00 3.16
1432 1511 6.980795 AGTGCAACGAGAGAACGTGTTTCT 62.981 45.833 0.00 0.00 45.47 2.52
1442 1521 6.338937 AGAGAACGTGTTTCTACTTTCAAGT 58.661 36.000 0.00 0.00 45.24 3.16
1443 1522 6.817140 AGAGAACGTGTTTCTACTTTCAAGTT 59.183 34.615 0.00 0.00 45.24 2.66
1444 1523 7.333672 AGAGAACGTGTTTCTACTTTCAAGTTT 59.666 33.333 0.00 0.00 45.24 2.66
1446 1525 6.730960 ACGTGTTTCTACTTTCAAGTTTCA 57.269 33.333 0.00 0.00 40.37 2.69
1447 1526 7.136289 ACGTGTTTCTACTTTCAAGTTTCAA 57.864 32.000 0.00 0.00 40.37 2.69
1448 1527 7.241376 ACGTGTTTCTACTTTCAAGTTTCAAG 58.759 34.615 0.00 0.00 40.37 3.02
1449 1528 7.094933 ACGTGTTTCTACTTTCAAGTTTCAAGT 60.095 33.333 0.00 2.70 40.37 3.16
1450 1529 8.385111 CGTGTTTCTACTTTCAAGTTTCAAGTA 58.615 33.333 0.00 4.36 40.37 2.24
1451 1530 9.704098 GTGTTTCTACTTTCAAGTTTCAAGTAG 57.296 33.333 17.78 17.78 46.18 2.57
1528 1617 0.615331 TCAAGAAGTGGGCTAGCCAG 59.385 55.000 34.09 13.02 37.98 4.85
1560 1649 3.218974 GGATACCTCCGGTCCTTGA 57.781 57.895 0.00 0.00 37.09 3.02
1596 1685 1.467920 CAGGACAAGGGATTCAAGGC 58.532 55.000 0.00 0.00 0.00 4.35
1810 1938 3.391506 TCTGGCATAGAACATGATCGG 57.608 47.619 0.00 0.00 30.84 4.18
1855 1983 4.200283 GAGGGCAGAGCTCGTCGG 62.200 72.222 8.37 0.62 32.17 4.79
2124 2252 5.048713 GTGGCAAAACAAGCATAGTAGAACT 60.049 40.000 0.00 0.00 0.00 3.01
2209 2337 5.975344 GCATGACATGGACAACATTGATAAG 59.025 40.000 17.03 0.00 37.84 1.73
2278 2406 6.438259 AACATCTACGCATATCGCTAGTAT 57.562 37.500 0.00 0.00 43.23 2.12
2299 2428 8.396272 AGTATTGCTACAACAGAAAGAAACAT 57.604 30.769 0.00 0.00 0.00 2.71
2312 2441 8.592809 ACAGAAAGAAACATGAGAGAGATAAGT 58.407 33.333 0.00 0.00 0.00 2.24
2361 2490 2.899838 TGGTTGCGGTGACAGCAC 60.900 61.111 10.49 5.87 45.10 4.40
2538 2669 0.179026 CCGTACAGGATCCGGAGAGA 60.179 60.000 19.55 0.00 44.41 3.10
2552 2684 1.228800 AGAGACGGGTTTCGGAGGT 60.229 57.895 0.00 0.00 44.45 3.85
2656 2788 0.811616 GCGGAGATGGAGATGCGTTT 60.812 55.000 0.00 0.00 32.37 3.60
2670 2802 1.586564 CGTTTTGGTTTTCGCGGCA 60.587 52.632 6.13 0.00 0.00 5.69
2757 2891 1.117150 GTCCAAGTCGGTAGCCCATA 58.883 55.000 0.00 0.00 35.57 2.74
2767 2901 1.069668 GGTAGCCCATAATCCGACGTT 59.930 52.381 0.00 0.00 0.00 3.99
2799 2933 2.303311 GCCCTACCTGTCAAAGACTCTT 59.697 50.000 0.00 0.00 33.15 2.85
2859 2993 2.496341 CTCGGCTCGGCTCAATCA 59.504 61.111 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 0.107459 GGGTGCCATGGAGAGTTCTC 60.107 60.000 18.40 0.39 42.14 2.87
11 12 0.548682 AGGGTGCCATGGAGAGTTCT 60.549 55.000 18.40 1.27 0.00 3.01
13 14 1.566298 GGAGGGTGCCATGGAGAGTT 61.566 60.000 18.40 0.00 0.00 3.01
14 15 1.997874 GGAGGGTGCCATGGAGAGT 60.998 63.158 18.40 0.00 0.00 3.24
15 16 2.750657 GGGAGGGTGCCATGGAGAG 61.751 68.421 18.40 0.00 0.00 3.20
16 17 2.692368 GGGAGGGTGCCATGGAGA 60.692 66.667 18.40 0.00 0.00 3.71
17 18 2.693864 AGGGAGGGTGCCATGGAG 60.694 66.667 18.40 0.00 0.00 3.86
18 19 2.692368 GAGGGAGGGTGCCATGGA 60.692 66.667 18.40 0.00 0.00 3.41
19 20 4.181010 CGAGGGAGGGTGCCATGG 62.181 72.222 7.63 7.63 0.00 3.66
20 21 3.083349 TCGAGGGAGGGTGCCATG 61.083 66.667 0.00 0.00 0.00 3.66
21 22 3.083997 GTCGAGGGAGGGTGCCAT 61.084 66.667 0.00 0.00 0.00 4.40
22 23 4.631740 TGTCGAGGGAGGGTGCCA 62.632 66.667 0.00 0.00 0.00 4.92
23 24 3.775654 CTGTCGAGGGAGGGTGCC 61.776 72.222 0.00 0.00 0.00 5.01
24 25 4.459089 GCTGTCGAGGGAGGGTGC 62.459 72.222 0.00 0.00 0.00 5.01
25 26 3.775654 GGCTGTCGAGGGAGGGTG 61.776 72.222 0.00 0.00 0.00 4.61
26 27 3.966930 GAGGCTGTCGAGGGAGGGT 62.967 68.421 0.00 0.00 0.00 4.34
27 28 3.151022 GAGGCTGTCGAGGGAGGG 61.151 72.222 0.00 0.00 0.00 4.30
28 29 3.151022 GGAGGCTGTCGAGGGAGG 61.151 72.222 0.00 0.00 0.00 4.30
29 30 2.285889 TAGGGAGGCTGTCGAGGGAG 62.286 65.000 0.00 0.00 0.00 4.30
30 31 1.656092 ATAGGGAGGCTGTCGAGGGA 61.656 60.000 0.00 0.00 0.00 4.20
31 32 0.112606 TATAGGGAGGCTGTCGAGGG 59.887 60.000 0.00 0.00 0.00 4.30
32 33 1.996798 TTATAGGGAGGCTGTCGAGG 58.003 55.000 0.00 0.00 0.00 4.63
33 34 3.697045 CCTATTATAGGGAGGCTGTCGAG 59.303 52.174 10.34 0.00 42.42 4.04
34 35 3.698289 CCTATTATAGGGAGGCTGTCGA 58.302 50.000 10.34 0.00 42.42 4.20
52 53 9.667107 GGAGCATGTTTTATATGTATTAGCCTA 57.333 33.333 0.00 0.00 0.00 3.93
53 54 7.334421 CGGAGCATGTTTTATATGTATTAGCCT 59.666 37.037 0.00 0.00 0.00 4.58
54 55 7.119262 ACGGAGCATGTTTTATATGTATTAGCC 59.881 37.037 0.00 0.00 0.00 3.93
55 56 8.029642 ACGGAGCATGTTTTATATGTATTAGC 57.970 34.615 0.00 0.00 0.00 3.09
120 121 9.920133 TTTGTTAAAGCATATTTTGATGTGCTA 57.080 25.926 10.37 0.00 46.07 3.49
122 123 9.316859 GTTTTGTTAAAGCATATTTTGATGTGC 57.683 29.630 0.58 0.58 38.69 4.57
162 163 4.060900 TCTTAGCGGACTCGTCGTATTAT 58.939 43.478 0.00 0.00 38.89 1.28
163 164 3.457234 TCTTAGCGGACTCGTCGTATTA 58.543 45.455 0.00 0.00 38.89 0.98
297 315 2.127270 CGCCACGCACAACATGTC 60.127 61.111 0.00 0.00 0.00 3.06
421 439 6.292596 GCTCTTTGTTAATCGATCAAGGCTAG 60.293 42.308 0.00 0.00 0.00 3.42
422 440 5.523916 GCTCTTTGTTAATCGATCAAGGCTA 59.476 40.000 0.00 0.00 0.00 3.93
428 446 3.623060 GGCTGCTCTTTGTTAATCGATCA 59.377 43.478 0.00 0.00 0.00 2.92
583 601 3.074281 CCTGCGTTGGGGTTAGGA 58.926 61.111 0.00 0.00 0.00 2.94
585 603 2.750237 GGCCTGCGTTGGGGTTAG 60.750 66.667 0.00 0.00 0.00 2.34
586 604 4.708386 CGGCCTGCGTTGGGGTTA 62.708 66.667 0.00 0.00 0.00 2.85
609 634 3.882888 GGAATGATTACGCCATGGAAGAA 59.117 43.478 18.40 5.45 0.00 2.52
653 691 1.071605 GTTCGTGTCATGAGTCAGCC 58.928 55.000 0.00 0.00 0.00 4.85
655 693 2.732412 AGGTTCGTGTCATGAGTCAG 57.268 50.000 0.00 0.00 0.00 3.51
727 781 2.202810 GTCCGAGTAGCAGCAGCC 60.203 66.667 0.00 0.00 43.56 4.85
747 808 1.090625 AGACGGGTCGATCGAGACTG 61.091 60.000 20.09 20.63 40.76 3.51
787 848 0.240145 CCTGGATCGACGCGCTAATA 59.760 55.000 5.73 0.00 0.00 0.98
791 852 2.337749 CTAACCTGGATCGACGCGCT 62.338 60.000 5.73 0.00 0.00 5.92
824 885 7.532199 ACAAAAAGGGAAGGAAGGAGTAATAA 58.468 34.615 0.00 0.00 0.00 1.40
825 886 7.098845 ACAAAAAGGGAAGGAAGGAGTAATA 57.901 36.000 0.00 0.00 0.00 0.98
826 887 5.965486 ACAAAAAGGGAAGGAAGGAGTAAT 58.035 37.500 0.00 0.00 0.00 1.89
857 918 1.066215 CCAGGTCACGATCATGTTCCA 60.066 52.381 8.02 0.00 0.00 3.53
896 960 4.804139 CGTAGGAGAAACACACCACATATC 59.196 45.833 0.00 0.00 0.00 1.63
952 1019 1.068434 CAAACGTGGGCTGGACAAAAT 59.932 47.619 0.00 0.00 0.00 1.82
1432 1511 9.257651 GCTAACTCTACTTGAAACTTGAAAGTA 57.742 33.333 0.00 0.00 38.57 2.24
1442 1521 4.569943 CTGGCTGCTAACTCTACTTGAAA 58.430 43.478 0.00 0.00 0.00 2.69
1443 1522 3.617531 GCTGGCTGCTAACTCTACTTGAA 60.618 47.826 9.31 0.00 38.95 2.69
1444 1523 2.093973 GCTGGCTGCTAACTCTACTTGA 60.094 50.000 9.31 0.00 38.95 3.02
1446 1525 1.134965 CGCTGGCTGCTAACTCTACTT 60.135 52.381 14.58 0.00 40.11 2.24
1447 1526 0.457851 CGCTGGCTGCTAACTCTACT 59.542 55.000 14.58 0.00 40.11 2.57
1448 1527 0.456221 TCGCTGGCTGCTAACTCTAC 59.544 55.000 14.58 0.00 40.11 2.59
1449 1528 1.182667 TTCGCTGGCTGCTAACTCTA 58.817 50.000 14.58 0.00 40.11 2.43
1450 1529 0.539051 ATTCGCTGGCTGCTAACTCT 59.461 50.000 14.58 0.00 40.11 3.24
1451 1530 2.225068 TATTCGCTGGCTGCTAACTC 57.775 50.000 14.58 0.00 40.11 3.01
1452 1531 2.691409 TTATTCGCTGGCTGCTAACT 57.309 45.000 14.58 3.53 40.11 2.24
1453 1532 6.535150 TCATATATTATTCGCTGGCTGCTAAC 59.465 38.462 14.58 0.00 40.11 2.34
1454 1533 6.639563 TCATATATTATTCGCTGGCTGCTAA 58.360 36.000 14.58 10.15 40.11 3.09
1455 1534 6.220726 TCATATATTATTCGCTGGCTGCTA 57.779 37.500 14.58 0.06 40.11 3.49
1473 1552 3.281727 ACGCCCTGAAACACATCATAT 57.718 42.857 0.00 0.00 0.00 1.78
1474 1553 2.779755 ACGCCCTGAAACACATCATA 57.220 45.000 0.00 0.00 0.00 2.15
1478 1567 0.319083 TCGTACGCCCTGAAACACAT 59.681 50.000 11.24 0.00 0.00 3.21
1596 1685 1.617947 CCTCCCGGAGACAAGGAAGG 61.618 65.000 16.69 0.00 32.41 3.46
1660 1749 1.076677 TCGTACCCTGAGAACCCTTCT 59.923 52.381 0.00 0.00 44.21 2.85
1663 1752 0.702902 TCTCGTACCCTGAGAACCCT 59.297 55.000 0.00 0.00 39.44 4.34
1810 1938 2.350772 CGGGAGTTCTGCAAACACATTC 60.351 50.000 12.28 3.67 0.00 2.67
1855 1983 0.716108 CTCATCGCCGACTTGAACAC 59.284 55.000 0.00 0.00 0.00 3.32
1956 2084 1.670674 GGTATCTTGAACACGCGGTCA 60.671 52.381 12.47 8.30 0.00 4.02
2209 2337 5.683743 GCTCTGTTAGATCGTAATCAGTGTC 59.316 44.000 0.00 0.00 34.07 3.67
2278 2406 6.542005 TCTCATGTTTCTTTCTGTTGTAGCAA 59.458 34.615 0.00 0.00 0.00 3.91
2299 2428 7.760607 AGGGTATACATCACTTATCTCTCTCA 58.239 38.462 5.01 0.00 0.00 3.27
2312 2441 3.244422 GGCCGATTGAAGGGTATACATCA 60.244 47.826 5.01 3.39 0.00 3.07
2490 2619 3.014623 GCGATTAGGTTTTTGGGTAGCT 58.985 45.455 0.00 0.00 0.00 3.32
2538 2669 3.057337 CAGACCTCCGAAACCCGT 58.943 61.111 0.00 0.00 36.31 5.28
2552 2684 2.636412 CGGTTGACGGGAGAGCAGA 61.636 63.158 0.00 0.00 39.42 4.26
2602 2734 2.891928 TTCCTCTGCTGCTGCTGCT 61.892 57.895 27.67 0.00 40.48 4.24
2656 2788 1.573829 CTAGCTGCCGCGAAAACCAA 61.574 55.000 8.23 0.00 42.32 3.67
2670 2802 2.352805 GCACTGCCAACCCTAGCT 59.647 61.111 0.00 0.00 0.00 3.32
2706 2840 4.103103 CGTCTCTCCACGCGCAGA 62.103 66.667 5.73 4.20 31.96 4.26
2708 2842 4.700365 CACGTCTCTCCACGCGCA 62.700 66.667 5.73 0.00 43.93 6.09
2767 2901 0.325296 AGGTAGGGCCACGATCTGAA 60.325 55.000 6.18 0.00 40.61 3.02
2799 2933 0.464013 TTTTTGCCGGTCAGGAACGA 60.464 50.000 8.54 0.00 45.97 3.85


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

AutoCloner maintained by Alex Coulton.