Multiple sequence alignment - TraesCS7B01G016900

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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 TraesCS7B01G016900 chr7B 100.000 2644 0 0 1 2644 14789539 14786896 0.000000e+00 4883.0
1 TraesCS7B01G016900 chr7B 92.690 1067 50 15 608 1655 14696625 14697682 0.000000e+00 1513.0
2 TraesCS7B01G016900 chr7B 95.250 821 34 4 735 1551 14866752 14865933 0.000000e+00 1295.0
3 TraesCS7B01G016900 chr7B 93.416 486 32 0 99 584 14694989 14695474 0.000000e+00 721.0
4 TraesCS7B01G016900 chr7B 88.265 196 18 2 1652 1842 14697839 14698034 2.050000e-56 230.0
5 TraesCS7B01G016900 chr7B 90.291 103 10 0 1 103 14550434 14550536 4.590000e-28 135.0
6 TraesCS7B01G016900 chr7D 89.517 1698 125 17 1 1655 71811524 71813211 0.000000e+00 2100.0
7 TraesCS7B01G016900 chr7D 86.390 867 89 22 697 1543 72128148 72129005 0.000000e+00 920.0
8 TraesCS7B01G016900 chr7D 87.089 821 68 21 740 1551 71864787 71863996 0.000000e+00 894.0
9 TraesCS7B01G016900 chr7D 84.615 156 14 3 1691 1843 71813282 71813430 2.120000e-31 147.0
10 TraesCS7B01G016900 chr7D 89.535 86 8 1 1649 1733 71862005 71861920 1.000000e-19 108.0
11 TraesCS7B01G016900 chrUn 89.470 1415 105 12 163 1551 82565061 82566457 0.000000e+00 1748.0
12 TraesCS7B01G016900 chrUn 92.539 831 42 14 733 1544 84318107 84317278 0.000000e+00 1173.0
13 TraesCS7B01G016900 chrUn 86.616 919 82 15 758 1655 84331365 84330467 0.000000e+00 977.0
14 TraesCS7B01G016900 chrUn 86.458 864 88 22 706 1549 273471200 273470346 0.000000e+00 920.0
15 TraesCS7B01G016900 chrUn 89.691 194 17 1 1652 1842 84330387 84330194 7.310000e-61 244.0
16 TraesCS7B01G016900 chrUn 88.235 102 10 2 1649 1749 84314670 84314570 1.290000e-23 121.0
17 TraesCS7B01G016900 chr5B 97.020 604 18 0 2041 2644 108985812 108986415 0.000000e+00 1016.0
18 TraesCS7B01G016900 chr5B 91.653 599 50 0 2046 2644 630456976 630457574 0.000000e+00 830.0
19 TraesCS7B01G016900 chr5B 100.000 30 0 0 2004 2033 542989084 542989113 3.680000e-04 56.5
20 TraesCS7B01G016900 chr4B 95.417 611 27 1 2034 2644 25772188 25772797 0.000000e+00 972.0
21 TraesCS7B01G016900 chr4B 88.216 611 52 7 2035 2644 280096848 280097439 0.000000e+00 712.0
22 TraesCS7B01G016900 chr4B 86.751 634 72 1 1 634 35517342 35517963 0.000000e+00 695.0
23 TraesCS7B01G016900 chr5D 86.169 629 86 1 1 628 217322778 217323406 0.000000e+00 678.0
24 TraesCS7B01G016900 chr7A 86.297 613 84 0 1 613 645899288 645899900 0.000000e+00 667.0
25 TraesCS7B01G016900 chr2D 85.423 638 91 2 1 636 315088001 315088638 0.000000e+00 662.0
26 TraesCS7B01G016900 chr2D 82.233 636 106 6 1 634 361240409 361241039 2.310000e-150 542.0
27 TraesCS7B01G016900 chr6D 86.248 589 79 2 1 589 427976197 427976783 2.870000e-179 638.0
28 TraesCS7B01G016900 chr6A 85.714 567 52 10 2080 2644 93770083 93770622 2.950000e-159 571.0
29 TraesCS7B01G016900 chr5A 85.714 567 52 11 2080 2644 290408174 290408713 2.950000e-159 571.0
30 TraesCS7B01G016900 chr1A 83.493 521 47 16 2126 2644 91685780 91685297 1.440000e-122 449.0
31 TraesCS7B01G016900 chr1A 84.533 375 30 9 2271 2644 91684950 91684603 1.950000e-91 346.0
32 TraesCS7B01G016900 chr3B 87.649 251 12 4 2395 2644 319815075 319815307 9.320000e-70 274.0
33 TraesCS7B01G016900 chr3D 85.799 169 22 2 469 635 14203087 14203255 7.520000e-41 178.0


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 TraesCS7B01G016900 chr7B 14786896 14789539 2643 True 4883.000000 4883 100.0000 1 2644 1 chr7B.!!$R1 2643
1 TraesCS7B01G016900 chr7B 14865933 14866752 819 True 1295.000000 1295 95.2500 735 1551 1 chr7B.!!$R2 816
2 TraesCS7B01G016900 chr7B 14694989 14698034 3045 False 821.333333 1513 91.4570 99 1842 3 chr7B.!!$F2 1743
3 TraesCS7B01G016900 chr7D 71811524 71813430 1906 False 1123.500000 2100 87.0660 1 1843 2 chr7D.!!$F2 1842
4 TraesCS7B01G016900 chr7D 72128148 72129005 857 False 920.000000 920 86.3900 697 1543 1 chr7D.!!$F1 846
5 TraesCS7B01G016900 chr7D 71861920 71864787 2867 True 501.000000 894 88.3120 740 1733 2 chr7D.!!$R1 993
6 TraesCS7B01G016900 chrUn 82565061 82566457 1396 False 1748.000000 1748 89.4700 163 1551 1 chrUn.!!$F1 1388
7 TraesCS7B01G016900 chrUn 273470346 273471200 854 True 920.000000 920 86.4580 706 1549 1 chrUn.!!$R1 843
8 TraesCS7B01G016900 chrUn 84314570 84318107 3537 True 647.000000 1173 90.3870 733 1749 2 chrUn.!!$R2 1016
9 TraesCS7B01G016900 chrUn 84330194 84331365 1171 True 610.500000 977 88.1535 758 1842 2 chrUn.!!$R3 1084
10 TraesCS7B01G016900 chr5B 108985812 108986415 603 False 1016.000000 1016 97.0200 2041 2644 1 chr5B.!!$F1 603
11 TraesCS7B01G016900 chr5B 630456976 630457574 598 False 830.000000 830 91.6530 2046 2644 1 chr5B.!!$F3 598
12 TraesCS7B01G016900 chr4B 25772188 25772797 609 False 972.000000 972 95.4170 2034 2644 1 chr4B.!!$F1 610
13 TraesCS7B01G016900 chr4B 280096848 280097439 591 False 712.000000 712 88.2160 2035 2644 1 chr4B.!!$F3 609
14 TraesCS7B01G016900 chr4B 35517342 35517963 621 False 695.000000 695 86.7510 1 634 1 chr4B.!!$F2 633
15 TraesCS7B01G016900 chr5D 217322778 217323406 628 False 678.000000 678 86.1690 1 628 1 chr5D.!!$F1 627
16 TraesCS7B01G016900 chr7A 645899288 645899900 612 False 667.000000 667 86.2970 1 613 1 chr7A.!!$F1 612
17 TraesCS7B01G016900 chr2D 315088001 315088638 637 False 662.000000 662 85.4230 1 636 1 chr2D.!!$F1 635
18 TraesCS7B01G016900 chr2D 361240409 361241039 630 False 542.000000 542 82.2330 1 634 1 chr2D.!!$F2 633
19 TraesCS7B01G016900 chr6D 427976197 427976783 586 False 638.000000 638 86.2480 1 589 1 chr6D.!!$F1 588
20 TraesCS7B01G016900 chr6A 93770083 93770622 539 False 571.000000 571 85.7140 2080 2644 1 chr6A.!!$F1 564
21 TraesCS7B01G016900 chr5A 290408174 290408713 539 False 571.000000 571 85.7140 2080 2644 1 chr5A.!!$F1 564
22 TraesCS7B01G016900 chr1A 91684603 91685780 1177 True 397.500000 449 84.0130 2126 2644 2 chr1A.!!$R1 518

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
452 458 0.859232 ATCAAATATGGCGCGTCGAC 59.141 50.0 6.09 5.18 34.27 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1929 3993 0.107703 GCACGGGAATCATCACCAGA 60.108 55.0 0.0 0.0 0.0 3.86 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
35 36 1.798813 CCCTGTTCGTACTGCTTTCAC 59.201 52.381 0.00 0.00 0.00 3.18
308 314 1.674057 CCTTGGCTCTTCGGTGAGT 59.326 57.895 7.27 0.00 36.51 3.41
324 330 3.226347 GTGAGTTGTTTATCTTGCACGC 58.774 45.455 0.00 0.00 0.00 5.34
353 359 1.303091 TGCGACTCGGTGATCTTCGA 61.303 55.000 0.00 9.77 0.00 3.71
368 374 2.937149 TCTTCGACTCCGACTGTCTATG 59.063 50.000 6.21 0.00 45.50 2.23
372 378 2.573369 GACTCCGACTGTCTATGCCTA 58.427 52.381 6.21 0.00 0.00 3.93
402 408 2.480419 GGTCAATTCTTCTGTCCGTGTG 59.520 50.000 0.00 0.00 0.00 3.82
452 458 0.859232 ATCAAATATGGCGCGTCGAC 59.141 50.000 6.09 5.18 34.27 4.20
512 519 9.617975 GCAATCTAATGTTTTAGCTCATTATCC 57.382 33.333 6.15 0.00 36.41 2.59
525 532 5.365025 AGCTCATTATCCAGCTAAGTCTTGA 59.635 40.000 0.00 0.00 44.45 3.02
561 568 6.801575 TGGTCTTTGTGTTTTTCATTCTACC 58.198 36.000 0.00 0.00 0.00 3.18
564 571 5.894393 TCTTTGTGTTTTTCATTCTACCCCA 59.106 36.000 0.00 0.00 0.00 4.96
620 1754 6.816134 TGCTTGATTAATAAAGTGCTGACA 57.184 33.333 13.19 0.49 0.00 3.58
800 1953 4.007940 CGTGACGCCACAAACCCG 62.008 66.667 1.96 0.00 43.34 5.28
852 2005 2.190578 CGCAGATTCCACCCTCCC 59.809 66.667 0.00 0.00 0.00 4.30
976 2141 2.498056 CCAACCCACCACAGCCAAC 61.498 63.158 0.00 0.00 0.00 3.77
1472 2664 3.887335 TTGGTTCGCCGGCAGTACC 62.887 63.158 28.98 28.05 41.18 3.34
1513 2713 1.118965 TGTGATCCGGGTGTGTGTCT 61.119 55.000 0.00 0.00 0.00 3.41
1560 2778 6.587608 TGATATGATGTATCGTGATGCTTGAC 59.412 38.462 0.00 0.00 0.00 3.18
1637 2857 7.702348 GTCACTGTTTGATTATAAATTGCTCCC 59.298 37.037 0.00 0.00 36.32 4.30
1733 3792 0.827507 GCTGGGTTGGTTGATGTGGT 60.828 55.000 0.00 0.00 0.00 4.16
1737 3796 2.959707 TGGGTTGGTTGATGTGGTTTAC 59.040 45.455 0.00 0.00 0.00 2.01
1771 3830 2.163010 CCTGCATCACATCAACAAGTCC 59.837 50.000 0.00 0.00 0.00 3.85
1824 3888 5.822519 TGCAATGGATGTGTACTTTATCTCC 59.177 40.000 0.00 0.00 0.00 3.71
1825 3889 5.822519 GCAATGGATGTGTACTTTATCTCCA 59.177 40.000 0.00 0.00 35.89 3.86
1826 3890 6.017605 GCAATGGATGTGTACTTTATCTCCAG 60.018 42.308 0.00 0.00 34.99 3.86
1827 3891 6.814954 ATGGATGTGTACTTTATCTCCAGT 57.185 37.500 0.00 0.00 34.99 4.00
1828 3892 6.620877 TGGATGTGTACTTTATCTCCAGTT 57.379 37.500 0.00 0.00 0.00 3.16
1829 3893 7.016153 TGGATGTGTACTTTATCTCCAGTTT 57.984 36.000 0.00 0.00 0.00 2.66
1830 3894 7.458397 TGGATGTGTACTTTATCTCCAGTTTT 58.542 34.615 0.00 0.00 0.00 2.43
1831 3895 7.390440 TGGATGTGTACTTTATCTCCAGTTTTG 59.610 37.037 0.00 0.00 0.00 2.44
1832 3896 7.606456 GGATGTGTACTTTATCTCCAGTTTTGA 59.394 37.037 0.00 0.00 0.00 2.69
1833 3897 9.167311 GATGTGTACTTTATCTCCAGTTTTGAT 57.833 33.333 0.00 0.00 0.00 2.57
1840 3904 9.965902 ACTTTATCTCCAGTTTTGATATCTTGT 57.034 29.630 3.98 0.00 0.00 3.16
1845 3909 9.918630 ATCTCCAGTTTTGATATCTTGTTTTTG 57.081 29.630 3.98 0.00 0.00 2.44
1846 3910 8.912988 TCTCCAGTTTTGATATCTTGTTTTTGT 58.087 29.630 3.98 0.00 0.00 2.83
1847 3911 9.533253 CTCCAGTTTTGATATCTTGTTTTTGTT 57.467 29.630 3.98 0.00 0.00 2.83
1848 3912 9.883142 TCCAGTTTTGATATCTTGTTTTTGTTT 57.117 25.926 3.98 0.00 0.00 2.83
1882 3946 8.801715 TTTTTACAACATTTCTCAGATCTTGC 57.198 30.769 0.00 0.00 0.00 4.01
1884 3948 5.624344 ACAACATTTCTCAGATCTTGCTG 57.376 39.130 0.00 0.00 37.24 4.41
1915 3979 5.953183 TCTGTCATTGGATGTTATGTTTGC 58.047 37.500 0.00 0.00 0.00 3.68
1920 3984 6.308766 GTCATTGGATGTTATGTTTGCTGAAC 59.691 38.462 0.00 0.00 38.78 3.18
1927 3991 6.358118 TGTTATGTTTGCTGAACGATATCC 57.642 37.500 0.00 0.00 41.29 2.59
1929 3993 6.597672 TGTTATGTTTGCTGAACGATATCCTT 59.402 34.615 0.00 0.00 41.29 3.36
1934 3998 2.766263 TGCTGAACGATATCCTTCTGGT 59.234 45.455 17.01 0.00 34.23 4.00
1935 3999 3.126831 GCTGAACGATATCCTTCTGGTG 58.873 50.000 17.01 7.58 34.23 4.17
1943 4007 5.174395 CGATATCCTTCTGGTGATGATTCC 58.826 45.833 0.00 0.00 34.23 3.01
1944 4008 3.872459 ATCCTTCTGGTGATGATTCCC 57.128 47.619 0.00 0.00 34.23 3.97
1951 4015 0.107703 GGTGATGATTCCCGTGCTGA 60.108 55.000 0.00 0.00 0.00 4.26
1952 4016 1.293924 GTGATGATTCCCGTGCTGAG 58.706 55.000 0.00 0.00 0.00 3.35
1999 4106 6.298441 TGTCTTCATGATGATACTTGTGGA 57.702 37.500 13.82 0.00 0.00 4.02
2001 4108 6.988580 TGTCTTCATGATGATACTTGTGGATC 59.011 38.462 13.82 0.00 0.00 3.36
2002 4109 6.145209 GTCTTCATGATGATACTTGTGGATCG 59.855 42.308 13.82 0.00 0.00 3.69
2003 4110 5.535753 TCATGATGATACTTGTGGATCGT 57.464 39.130 0.00 0.00 0.00 3.73
2004 4111 6.648879 TCATGATGATACTTGTGGATCGTA 57.351 37.500 0.00 0.00 0.00 3.43
2006 4113 7.092716 TCATGATGATACTTGTGGATCGTATG 58.907 38.462 0.00 0.00 0.00 2.39
2007 4114 6.648879 TGATGATACTTGTGGATCGTATGA 57.351 37.500 0.00 0.00 0.00 2.15
2008 4115 7.232118 TGATGATACTTGTGGATCGTATGAT 57.768 36.000 0.00 0.00 37.60 2.45
2009 4116 7.670364 TGATGATACTTGTGGATCGTATGATT 58.330 34.615 0.00 0.00 34.09 2.57
2010 4117 7.599998 TGATGATACTTGTGGATCGTATGATTG 59.400 37.037 0.00 0.00 34.09 2.67
2011 4118 6.223120 TGATACTTGTGGATCGTATGATTGG 58.777 40.000 0.00 0.00 34.09 3.16
2012 4119 4.487714 ACTTGTGGATCGTATGATTGGT 57.512 40.909 0.00 0.00 34.09 3.67
2013 4120 4.442706 ACTTGTGGATCGTATGATTGGTC 58.557 43.478 0.00 0.00 34.09 4.02
2014 4121 4.162320 ACTTGTGGATCGTATGATTGGTCT 59.838 41.667 0.00 0.00 34.09 3.85
2015 4122 4.058721 TGTGGATCGTATGATTGGTCTG 57.941 45.455 0.00 0.00 34.09 3.51
2016 4123 2.802816 GTGGATCGTATGATTGGTCTGC 59.197 50.000 0.00 0.00 34.09 4.26
2017 4124 2.700371 TGGATCGTATGATTGGTCTGCT 59.300 45.455 0.00 0.00 34.09 4.24
2018 4125 3.062763 GGATCGTATGATTGGTCTGCTG 58.937 50.000 0.00 0.00 34.09 4.41
2019 4126 3.493350 GGATCGTATGATTGGTCTGCTGT 60.493 47.826 0.00 0.00 34.09 4.40
2020 4127 3.165058 TCGTATGATTGGTCTGCTGTC 57.835 47.619 0.00 0.00 0.00 3.51
2021 4128 2.495669 TCGTATGATTGGTCTGCTGTCA 59.504 45.455 0.00 0.00 0.00 3.58
2022 4129 3.056179 TCGTATGATTGGTCTGCTGTCAA 60.056 43.478 5.14 5.14 0.00 3.18
2023 4130 3.308053 CGTATGATTGGTCTGCTGTCAAG 59.692 47.826 7.74 0.00 0.00 3.02
2024 4131 2.936919 TGATTGGTCTGCTGTCAAGT 57.063 45.000 7.74 0.00 0.00 3.16
2025 4132 2.497138 TGATTGGTCTGCTGTCAAGTG 58.503 47.619 7.74 0.00 0.00 3.16
2026 4133 2.158769 TGATTGGTCTGCTGTCAAGTGT 60.159 45.455 7.74 0.00 0.00 3.55
2027 4134 3.070878 TGATTGGTCTGCTGTCAAGTGTA 59.929 43.478 7.74 0.00 0.00 2.90
2028 4135 2.820059 TGGTCTGCTGTCAAGTGTAG 57.180 50.000 0.00 0.00 0.00 2.74
2029 4136 1.270305 TGGTCTGCTGTCAAGTGTAGC 60.270 52.381 0.00 0.00 37.93 3.58
2030 4137 1.001406 GGTCTGCTGTCAAGTGTAGCT 59.999 52.381 0.00 0.00 38.25 3.32
2031 4138 2.231478 GGTCTGCTGTCAAGTGTAGCTA 59.769 50.000 0.00 0.00 38.25 3.32
2032 4139 3.506810 GTCTGCTGTCAAGTGTAGCTAG 58.493 50.000 0.00 0.00 38.25 3.42
2379 6037 2.094906 GGGTTGGTTCTAATTTGCGGAC 60.095 50.000 0.00 0.00 0.00 4.79
2443 6101 1.754234 GGATGTGGCAAGCCCGATT 60.754 57.895 8.89 0.00 35.87 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 0.796927 GAAAGCAGTACGAACAGGGC 59.203 55.000 0.00 0.00 0.00 5.19
35 36 7.664082 ATCAGATCCACATAAGCTTTAATCG 57.336 36.000 3.20 0.00 0.00 3.34
123 125 4.394712 GGTGGCGGTGGAGACCAG 62.395 72.222 0.00 0.00 43.33 4.00
308 314 1.463056 CCTCGCGTGCAAGATAAACAA 59.537 47.619 5.77 0.00 0.00 2.83
324 330 1.298713 CGAGTCGCATCCTTCCTCG 60.299 63.158 0.00 0.00 39.02 4.63
353 359 2.092321 ACTAGGCATAGACAGTCGGAGT 60.092 50.000 13.23 0.00 32.93 3.85
368 374 0.543749 ATTGACCCTCTGCACTAGGC 59.456 55.000 5.00 0.00 45.13 3.93
372 378 2.641815 AGAAGAATTGACCCTCTGCACT 59.358 45.455 0.00 0.00 0.00 4.40
402 408 0.741221 CTAAGCCCACCAGCGAACTC 60.741 60.000 0.00 0.00 38.01 3.01
452 458 4.320057 GCTTGAACAACACAGAAGAGATGG 60.320 45.833 0.00 0.00 0.00 3.51
512 519 5.083533 AGAGTCCATTCAAGACTTAGCTG 57.916 43.478 0.00 0.00 44.55 4.24
525 532 5.880901 ACACAAAGACCATTAGAGTCCATT 58.119 37.500 0.00 0.00 34.67 3.16
564 571 2.119495 AGAGTATCCCGGATGCAAACT 58.881 47.619 16.87 8.99 33.66 2.66
800 1953 0.740737 CAAATGGAGGGTGGCGATTC 59.259 55.000 0.00 0.00 0.00 2.52
976 2141 3.428045 GCGTTTGGAGATTGGGATTTCAG 60.428 47.826 0.00 0.00 0.00 3.02
1192 2378 2.678190 GCTCTTCTGGTACTTGCGGATT 60.678 50.000 0.00 0.00 0.00 3.01
1472 2664 2.416972 GGACAAGAACAGCTACTACCCG 60.417 54.545 0.00 0.00 0.00 5.28
1513 2713 1.476085 CACCAACAAACAGAAGCACCA 59.524 47.619 0.00 0.00 0.00 4.17
1560 2778 6.480981 ACTGAACTTTTCCATTGCAATTTCAG 59.519 34.615 29.15 29.15 41.97 3.02
1733 3792 3.244875 TGCAGGATTCAGCTTCAGGTAAA 60.245 43.478 0.00 0.00 0.00 2.01
1737 3796 1.948145 GATGCAGGATTCAGCTTCAGG 59.052 52.381 0.00 0.00 35.65 3.86
1771 3830 1.625818 ACTAGCTGAAGGTGAAGTGGG 59.374 52.381 0.00 0.00 0.00 4.61
1857 3921 8.632679 AGCAAGATCTGAGAAATGTTGTAAAAA 58.367 29.630 0.00 0.00 31.82 1.94
1858 3922 8.077991 CAGCAAGATCTGAGAAATGTTGTAAAA 58.922 33.333 0.00 0.00 36.19 1.52
1859 3923 7.445096 TCAGCAAGATCTGAGAAATGTTGTAAA 59.555 33.333 0.00 0.00 38.11 2.01
1860 3924 6.936335 TCAGCAAGATCTGAGAAATGTTGTAA 59.064 34.615 0.00 0.00 38.11 2.41
1861 3925 6.466812 TCAGCAAGATCTGAGAAATGTTGTA 58.533 36.000 0.00 0.00 38.11 2.41
1862 3926 5.311265 TCAGCAAGATCTGAGAAATGTTGT 58.689 37.500 0.00 0.00 38.11 3.32
1863 3927 5.874895 TCAGCAAGATCTGAGAAATGTTG 57.125 39.130 0.00 0.00 38.11 3.33
1882 3946 5.646793 ACATCCAATGACAGAACTTGATCAG 59.353 40.000 0.00 0.00 0.00 2.90
1884 3948 6.506500 AACATCCAATGACAGAACTTGATC 57.493 37.500 0.00 0.00 0.00 2.92
1887 3951 7.149569 ACATAACATCCAATGACAGAACTTG 57.850 36.000 0.00 0.00 0.00 3.16
1897 3961 5.286797 CGTTCAGCAAACATAACATCCAATG 59.713 40.000 3.34 0.00 37.77 2.82
1915 3979 4.655762 TCACCAGAAGGATATCGTTCAG 57.344 45.455 29.95 24.29 41.65 3.02
1920 3984 5.174395 GGAATCATCACCAGAAGGATATCG 58.826 45.833 0.00 0.00 38.69 2.92
1927 3991 2.283298 CACGGGAATCATCACCAGAAG 58.717 52.381 0.00 0.00 0.00 2.85
1929 3993 0.107703 GCACGGGAATCATCACCAGA 60.108 55.000 0.00 0.00 0.00 3.86
1934 3998 0.904649 ACTCAGCACGGGAATCATCA 59.095 50.000 0.00 0.00 0.00 3.07
1935 3999 2.029838 AACTCAGCACGGGAATCATC 57.970 50.000 0.00 0.00 0.00 2.92
1959 4024 5.413523 TGAAGACATGAACAATCACATCCAG 59.586 40.000 0.00 0.00 38.69 3.86
1977 4084 6.145209 CGATCCACAAGTATCATCATGAAGAC 59.855 42.308 2.13 0.00 0.00 3.01
1989 4096 6.042093 AGACCAATCATACGATCCACAAGTAT 59.958 38.462 0.00 0.00 0.00 2.12
1991 4098 4.162320 AGACCAATCATACGATCCACAAGT 59.838 41.667 0.00 0.00 0.00 3.16
1993 4100 4.441792 CAGACCAATCATACGATCCACAA 58.558 43.478 0.00 0.00 0.00 3.33
1994 4101 3.741075 GCAGACCAATCATACGATCCACA 60.741 47.826 0.00 0.00 0.00 4.17
1995 4102 2.802816 GCAGACCAATCATACGATCCAC 59.197 50.000 0.00 0.00 0.00 4.02
1996 4103 2.700371 AGCAGACCAATCATACGATCCA 59.300 45.455 0.00 0.00 0.00 3.41
1997 4104 3.062763 CAGCAGACCAATCATACGATCC 58.937 50.000 0.00 0.00 0.00 3.36
1998 4105 3.722147 ACAGCAGACCAATCATACGATC 58.278 45.455 0.00 0.00 0.00 3.69
1999 4106 3.132824 TGACAGCAGACCAATCATACGAT 59.867 43.478 0.00 0.00 0.00 3.73
2001 4108 2.892374 TGACAGCAGACCAATCATACG 58.108 47.619 0.00 0.00 0.00 3.06
2002 4109 4.093998 CACTTGACAGCAGACCAATCATAC 59.906 45.833 0.00 0.00 0.00 2.39
2003 4110 4.256110 CACTTGACAGCAGACCAATCATA 58.744 43.478 0.00 0.00 0.00 2.15
2004 4111 3.079578 CACTTGACAGCAGACCAATCAT 58.920 45.455 0.00 0.00 0.00 2.45
2006 4113 2.498167 ACACTTGACAGCAGACCAATC 58.502 47.619 0.00 0.00 0.00 2.67
2007 4114 2.645838 ACACTTGACAGCAGACCAAT 57.354 45.000 0.00 0.00 0.00 3.16
2008 4115 2.806745 GCTACACTTGACAGCAGACCAA 60.807 50.000 0.00 0.00 35.35 3.67
2009 4116 1.270305 GCTACACTTGACAGCAGACCA 60.270 52.381 0.00 0.00 35.35 4.02
2010 4117 1.001406 AGCTACACTTGACAGCAGACC 59.999 52.381 9.28 0.00 37.78 3.85
2011 4118 2.447244 AGCTACACTTGACAGCAGAC 57.553 50.000 9.28 0.00 37.78 3.51
2012 4119 2.493675 CCTAGCTACACTTGACAGCAGA 59.506 50.000 0.00 0.00 37.78 4.26
2013 4120 2.493675 TCCTAGCTACACTTGACAGCAG 59.506 50.000 0.00 0.00 37.78 4.24
2014 4121 2.493675 CTCCTAGCTACACTTGACAGCA 59.506 50.000 0.00 0.00 37.78 4.41
2015 4122 2.755655 TCTCCTAGCTACACTTGACAGC 59.244 50.000 0.00 0.00 35.49 4.40
2016 4123 4.642437 TCATCTCCTAGCTACACTTGACAG 59.358 45.833 0.00 0.00 0.00 3.51
2017 4124 4.600062 TCATCTCCTAGCTACACTTGACA 58.400 43.478 0.00 0.00 0.00 3.58
2018 4125 4.037446 CCTCATCTCCTAGCTACACTTGAC 59.963 50.000 0.00 0.00 0.00 3.18
2019 4126 4.211125 CCTCATCTCCTAGCTACACTTGA 58.789 47.826 0.00 0.00 0.00 3.02
2020 4127 3.243704 GCCTCATCTCCTAGCTACACTTG 60.244 52.174 0.00 0.00 0.00 3.16
2021 4128 2.962421 GCCTCATCTCCTAGCTACACTT 59.038 50.000 0.00 0.00 0.00 3.16
2022 4129 2.593026 GCCTCATCTCCTAGCTACACT 58.407 52.381 0.00 0.00 0.00 3.55
2023 4130 1.268352 CGCCTCATCTCCTAGCTACAC 59.732 57.143 0.00 0.00 0.00 2.90
2024 4131 1.143073 TCGCCTCATCTCCTAGCTACA 59.857 52.381 0.00 0.00 0.00 2.74
2025 4132 1.810151 CTCGCCTCATCTCCTAGCTAC 59.190 57.143 0.00 0.00 0.00 3.58
2026 4133 1.271652 CCTCGCCTCATCTCCTAGCTA 60.272 57.143 0.00 0.00 0.00 3.32
2027 4134 0.539438 CCTCGCCTCATCTCCTAGCT 60.539 60.000 0.00 0.00 0.00 3.32
2028 4135 1.531739 CCCTCGCCTCATCTCCTAGC 61.532 65.000 0.00 0.00 0.00 3.42
2029 4136 1.531739 GCCCTCGCCTCATCTCCTAG 61.532 65.000 0.00 0.00 0.00 3.02
2030 4137 1.531840 GCCCTCGCCTCATCTCCTA 60.532 63.158 0.00 0.00 0.00 2.94
2031 4138 2.841988 GCCCTCGCCTCATCTCCT 60.842 66.667 0.00 0.00 0.00 3.69
2032 4139 4.292178 CGCCCTCGCCTCATCTCC 62.292 72.222 0.00 0.00 0.00 3.71
2165 4272 0.613572 TCACACCCAGCCACGATCTA 60.614 55.000 0.00 0.00 0.00 1.98
2353 6011 3.826729 GCAAATTAGAACCAACCCTCACT 59.173 43.478 0.00 0.00 0.00 3.41
2379 6037 3.614176 CACAACCACGTCATAGACATCAG 59.386 47.826 0.00 0.00 32.09 2.90
2443 6101 0.321741 AGGACGAGTCGAGAAGCTCA 60.322 55.000 21.50 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.