Multiple sequence alignment - TraesCS3D01G030800

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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 TraesCS3D01G030800 chr3D 100.000 4263 0 0 1 4263 11367432 11363170 0.000000e+00 7873.0
1 TraesCS3D01G030800 chr3D 96.855 159 5 0 1070 1228 505842093 505842251 2.530000e-67 267.0
2 TraesCS3D01G030800 chr3B 92.469 2855 147 38 834 3676 25273779 25276577 0.000000e+00 4019.0
3 TraesCS3D01G030800 chr3B 96.207 2241 70 6 2028 4263 16039775 16037545 0.000000e+00 3653.0
4 TraesCS3D01G030800 chr3B 89.661 1238 93 20 788 1997 16041003 16039773 0.000000e+00 1544.0
5 TraesCS3D01G030800 chr3B 95.738 610 25 1 3655 4263 25279419 25280028 0.000000e+00 981.0
6 TraesCS3D01G030800 chr3B 93.631 471 30 0 2130 2600 25243796 25244266 0.000000e+00 704.0
7 TraesCS3D01G030800 chr3B 89.925 268 25 2 1510 1775 510238378 510238645 1.130000e-90 344.0
8 TraesCS3D01G030800 chr3B 86.716 271 19 9 1771 2028 25242615 25242881 6.980000e-73 285.0
9 TraesCS3D01G030800 chr3B 97.315 149 4 0 1105 1253 49142098 49142246 1.970000e-63 254.0
10 TraesCS3D01G030800 chr3A 92.901 2099 107 25 1945 4015 25907567 25909651 0.000000e+00 3013.0
11 TraesCS3D01G030800 chr3A 90.269 966 65 17 834 1777 25905987 25906945 0.000000e+00 1236.0
12 TraesCS3D01G030800 chr3A 86.985 753 81 14 2 743 725919766 725919020 0.000000e+00 832.0
13 TraesCS3D01G030800 chr3A 95.868 242 10 0 4022 4263 25909689 25909930 4.000000e-105 392.0
14 TraesCS3D01G030800 chr2D 90.094 747 53 13 2 738 125316899 125317634 0.000000e+00 950.0
15 TraesCS3D01G030800 chr2D 88.000 50 5 1 1727 1775 29241285 29241236 1.660000e-04 58.4
16 TraesCS3D01G030800 chr6D 89.702 738 64 9 2 732 405819749 405820481 0.000000e+00 931.0
17 TraesCS3D01G030800 chr4D 89.145 737 60 14 2 731 385472765 385473488 0.000000e+00 900.0
18 TraesCS3D01G030800 chr6A 87.940 738 72 13 2 730 579003673 579004402 0.000000e+00 854.0
19 TraesCS3D01G030800 chr7D 87.752 743 71 14 2 731 595646744 595647479 0.000000e+00 850.0
20 TraesCS3D01G030800 chr7A 87.583 749 72 17 2 739 462990063 462990801 0.000000e+00 848.0
21 TraesCS3D01G030800 chr1D 87.871 742 64 17 2 731 467241326 467242053 0.000000e+00 848.0
22 TraesCS3D01G030800 chr5A 87.788 737 73 12 2 731 30859464 30860190 0.000000e+00 846.0
23 TraesCS3D01G030800 chr5A 86.816 713 78 13 1070 1775 51359217 51359920 0.000000e+00 782.0
24 TraesCS3D01G030800 chr2B 86.730 633 70 13 1070 1696 98118450 98117826 0.000000e+00 691.0
25 TraesCS3D01G030800 chr4A 88.182 330 35 4 1449 1775 308388729 308388401 1.440000e-104 390.0
26 TraesCS3D01G030800 chr4A 97.315 149 4 0 1105 1253 647245335 647245187 1.970000e-63 254.0
27 TraesCS3D01G030800 chrUn 87.761 335 38 3 1435 1767 36456229 36455896 5.170000e-104 388.0
28 TraesCS3D01G030800 chr6B 87.888 322 35 4 1070 1388 210085739 210085419 4.020000e-100 375.0
29 TraesCS3D01G030800 chr5D 78.261 644 95 35 2665 3279 564760952 564761579 5.210000e-99 372.0
30 TraesCS3D01G030800 chr5D 100.000 29 0 0 1727 1755 438350048 438350076 2.000000e-03 54.7
31 TraesCS3D01G030800 chr4B 88.344 163 16 3 1437 1597 365506975 365507136 4.350000e-45 193.0


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 TraesCS3D01G030800 chr3D 11363170 11367432 4262 True 7873.0 7873 100.000000 1 4263 1 chr3D.!!$R1 4262
1 TraesCS3D01G030800 chr3B 16037545 16041003 3458 True 2598.5 3653 92.934000 788 4263 2 chr3B.!!$R1 3475
2 TraesCS3D01G030800 chr3B 25273779 25280028 6249 False 2500.0 4019 94.103500 834 4263 2 chr3B.!!$F4 3429
3 TraesCS3D01G030800 chr3B 25242615 25244266 1651 False 494.5 704 90.173500 1771 2600 2 chr3B.!!$F3 829
4 TraesCS3D01G030800 chr3A 25905987 25909930 3943 False 1547.0 3013 93.012667 834 4263 3 chr3A.!!$F1 3429
5 TraesCS3D01G030800 chr3A 725919020 725919766 746 True 832.0 832 86.985000 2 743 1 chr3A.!!$R1 741
6 TraesCS3D01G030800 chr2D 125316899 125317634 735 False 950.0 950 90.094000 2 738 1 chr2D.!!$F1 736
7 TraesCS3D01G030800 chr6D 405819749 405820481 732 False 931.0 931 89.702000 2 732 1 chr6D.!!$F1 730
8 TraesCS3D01G030800 chr4D 385472765 385473488 723 False 900.0 900 89.145000 2 731 1 chr4D.!!$F1 729
9 TraesCS3D01G030800 chr6A 579003673 579004402 729 False 854.0 854 87.940000 2 730 1 chr6A.!!$F1 728
10 TraesCS3D01G030800 chr7D 595646744 595647479 735 False 850.0 850 87.752000 2 731 1 chr7D.!!$F1 729
11 TraesCS3D01G030800 chr7A 462990063 462990801 738 False 848.0 848 87.583000 2 739 1 chr7A.!!$F1 737
12 TraesCS3D01G030800 chr1D 467241326 467242053 727 False 848.0 848 87.871000 2 731 1 chr1D.!!$F1 729
13 TraesCS3D01G030800 chr5A 30859464 30860190 726 False 846.0 846 87.788000 2 731 1 chr5A.!!$F1 729
14 TraesCS3D01G030800 chr5A 51359217 51359920 703 False 782.0 782 86.816000 1070 1775 1 chr5A.!!$F2 705
15 TraesCS3D01G030800 chr2B 98117826 98118450 624 True 691.0 691 86.730000 1070 1696 1 chr2B.!!$R1 626
16 TraesCS3D01G030800 chr5D 564760952 564761579 627 False 372.0 372 78.261000 2665 3279 1 chr5D.!!$F2 614

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
325 349 0.035739 GGGTGTGCCTCTTACGGAAA 59.964 55.0 0.0 0.00 34.45 3.13 F
328 354 0.323629 TGTGCCTCTTACGGAAAGGG 59.676 55.0 9.7 3.02 35.75 3.95 F
1340 1402 0.325272 GTCCCACTTCCTCCCTTCAC 59.675 60.0 0.0 0.00 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1721 1796 0.033699 AGCCATTCCTGCTTTCCCTC 60.034 55.0 0.0 0.0 34.87 4.30 R
1869 2325 0.610509 TGTGTGCCTTTGTGGTGTGT 60.611 50.0 0.0 0.0 38.35 3.72 R
3299 4763 1.028905 CGCAACCTGAAAACCCAAGA 58.971 50.0 0.0 0.0 0.00 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
319 341 3.065306 CCACGGGTGTGCCTCTTA 58.935 61.111 0.00 0.00 45.04 2.10
322 346 2.125673 CGGGTGTGCCTCTTACGG 60.126 66.667 0.00 0.00 34.45 4.02
325 349 0.035739 GGGTGTGCCTCTTACGGAAA 59.964 55.000 0.00 0.00 34.45 3.13
328 354 0.323629 TGTGCCTCTTACGGAAAGGG 59.676 55.000 9.70 3.02 35.75 3.95
408 436 2.517402 ACGGGCGTGCCTTTTTCA 60.517 55.556 11.25 0.00 36.10 2.69
534 568 6.405953 GGGATCTAGTTTTGAAGATCTCGACA 60.406 42.308 11.05 0.00 37.77 4.35
557 591 3.505680 CGAGGAATCCAATGGTGAAAACA 59.494 43.478 0.61 0.00 0.00 2.83
563 597 4.399004 TCCAATGGTGAAAACAGTTTGG 57.601 40.909 0.00 0.00 34.75 3.28
649 685 0.753867 TACCAGGTTGCGACAAGTGA 59.246 50.000 6.39 0.00 0.00 3.41
673 709 2.336088 GCATGTGCGCCACTTGTT 59.664 55.556 4.18 0.00 40.25 2.83
739 776 9.651718 CCTTAATTAGTGATTTCGTCTTAATGC 57.348 33.333 0.00 0.00 0.00 3.56
742 779 6.903883 TTAGTGATTTCGTCTTAATGCTCC 57.096 37.500 0.00 0.00 0.00 4.70
743 780 4.192317 AGTGATTTCGTCTTAATGCTCCC 58.808 43.478 0.00 0.00 0.00 4.30
744 781 3.312697 GTGATTTCGTCTTAATGCTCCCC 59.687 47.826 0.00 0.00 0.00 4.81
745 782 3.054728 TGATTTCGTCTTAATGCTCCCCA 60.055 43.478 0.00 0.00 0.00 4.96
746 783 3.644966 TTTCGTCTTAATGCTCCCCAT 57.355 42.857 0.00 0.00 35.06 4.00
747 784 3.644966 TTCGTCTTAATGCTCCCCATT 57.355 42.857 0.00 0.00 45.75 3.16
748 785 3.194005 TCGTCTTAATGCTCCCCATTC 57.806 47.619 0.00 0.00 42.99 2.67
749 786 2.158813 TCGTCTTAATGCTCCCCATTCC 60.159 50.000 0.00 0.00 42.99 3.01
750 787 2.421388 CGTCTTAATGCTCCCCATTCCA 60.421 50.000 0.00 0.00 42.99 3.53
751 788 3.748668 CGTCTTAATGCTCCCCATTCCAT 60.749 47.826 0.00 0.00 42.99 3.41
752 789 4.218312 GTCTTAATGCTCCCCATTCCATT 58.782 43.478 0.00 0.00 42.99 3.16
753 790 4.651045 GTCTTAATGCTCCCCATTCCATTT 59.349 41.667 0.00 0.00 42.99 2.32
754 791 5.129320 GTCTTAATGCTCCCCATTCCATTTT 59.871 40.000 0.00 0.00 42.99 1.82
755 792 5.725822 TCTTAATGCTCCCCATTCCATTTTT 59.274 36.000 0.00 0.00 42.99 1.94
756 793 6.900186 TCTTAATGCTCCCCATTCCATTTTTA 59.100 34.615 0.00 0.00 42.99 1.52
757 794 7.401493 TCTTAATGCTCCCCATTCCATTTTTAA 59.599 33.333 0.00 0.00 42.99 1.52
758 795 6.385766 AATGCTCCCCATTCCATTTTTAAA 57.614 33.333 0.00 0.00 40.02 1.52
759 796 6.579850 ATGCTCCCCATTCCATTTTTAAAT 57.420 33.333 0.00 0.00 0.00 1.40
760 797 5.988287 TGCTCCCCATTCCATTTTTAAATC 58.012 37.500 0.00 0.00 0.00 2.17
761 798 5.486775 TGCTCCCCATTCCATTTTTAAATCA 59.513 36.000 0.00 0.00 0.00 2.57
762 799 6.013032 TGCTCCCCATTCCATTTTTAAATCAA 60.013 34.615 0.00 0.00 0.00 2.57
763 800 7.056006 GCTCCCCATTCCATTTTTAAATCAAT 58.944 34.615 0.00 0.00 0.00 2.57
764 801 8.210265 GCTCCCCATTCCATTTTTAAATCAATA 58.790 33.333 0.00 0.00 0.00 1.90
828 865 2.567049 CTCTCGTCTTTCGGCCGT 59.433 61.111 27.15 0.00 40.32 5.68
829 866 1.514443 CTCTCGTCTTTCGGCCGTC 60.514 63.158 27.15 10.59 40.32 4.79
832 869 1.413767 CTCGTCTTTCGGCCGTCATG 61.414 60.000 27.15 14.98 40.32 3.07
848 895 3.335356 ATGAGCCCTGAAGCCCACG 62.335 63.158 0.00 0.00 0.00 4.94
901 948 4.316446 GCTTCGTTTTGTTCTTTTCTTCGC 60.316 41.667 0.00 0.00 0.00 4.70
902 949 4.609691 TCGTTTTGTTCTTTTCTTCGCT 57.390 36.364 0.00 0.00 0.00 4.93
919 966 2.069273 CGCTCCGGCCTTTGATTATAG 58.931 52.381 0.00 0.00 34.44 1.31
921 968 3.305813 CGCTCCGGCCTTTGATTATAGTA 60.306 47.826 0.00 0.00 34.44 1.82
922 969 4.246458 GCTCCGGCCTTTGATTATAGTAG 58.754 47.826 0.00 0.00 0.00 2.57
923 970 4.262506 GCTCCGGCCTTTGATTATAGTAGT 60.263 45.833 0.00 0.00 0.00 2.73
924 971 5.464030 TCCGGCCTTTGATTATAGTAGTC 57.536 43.478 0.00 0.00 0.00 2.59
926 973 4.989168 CCGGCCTTTGATTATAGTAGTCAC 59.011 45.833 0.00 0.00 0.00 3.67
1325 1379 2.776053 TACTTCCCCACCCAGGTCCC 62.776 65.000 0.00 0.00 34.66 4.46
1326 1380 4.209620 TTCCCCACCCAGGTCCCA 62.210 66.667 0.00 0.00 34.66 4.37
1340 1402 0.325272 GTCCCACTTCCTCCCTTCAC 59.675 60.000 0.00 0.00 0.00 3.18
1372 1438 1.482182 TCCATCCACATTCTCGACTGG 59.518 52.381 0.00 0.00 0.00 4.00
1463 1531 4.300803 CAGCAGCAGAATTAACAAGCAAA 58.699 39.130 0.00 0.00 0.00 3.68
1464 1532 4.746115 CAGCAGCAGAATTAACAAGCAAAA 59.254 37.500 0.00 0.00 0.00 2.44
1486 1555 9.820725 CAAAAGAATCCTATTTATGCATCCAAA 57.179 29.630 0.19 0.00 0.00 3.28
1490 1559 9.597681 AGAATCCTATTTATGCATCCAAAATCT 57.402 29.630 0.19 0.00 0.00 2.40
1604 1677 1.600636 TGGCCCTCAAACTTGCTCG 60.601 57.895 0.00 0.00 0.00 5.03
1615 1688 3.348055 CTTGCTCGCGGCTCTGAGA 62.348 63.158 18.14 0.00 42.39 3.27
1721 1796 8.507249 GGCTAGTTGTAAATTTATATCTGGCAG 58.493 37.037 27.05 8.58 33.16 4.85
1791 2239 4.860907 GCACTGCCAGATTTATCACAAAAG 59.139 41.667 0.00 0.00 0.00 2.27
1807 2256 2.493907 AAAGACAGAGGCCTCGTCGC 62.494 60.000 32.71 22.70 37.81 5.19
1820 2276 0.787787 TCGTCGCGTCTTCAAAATGG 59.212 50.000 5.77 0.00 0.00 3.16
1821 2277 0.787787 CGTCGCGTCTTCAAAATGGA 59.212 50.000 5.77 0.00 0.00 3.41
1852 2308 1.102154 CCACTGGGCGCAATATGAAA 58.898 50.000 10.83 0.00 0.00 2.69
1869 2325 8.415553 CAATATGAAAAATCAAGGCTCCACATA 58.584 33.333 0.00 0.00 0.00 2.29
1918 2452 6.321945 TGTCATAATGGTTATGCAGCTGAATT 59.678 34.615 20.43 0.00 42.12 2.17
1965 2508 6.376299 TCTCTTTTCTGTATAACCAGTCGCTA 59.624 38.462 0.00 0.00 34.02 4.26
1966 2509 6.927416 TCTTTTCTGTATAACCAGTCGCTAA 58.073 36.000 0.00 0.00 34.02 3.09
2103 3535 8.907222 ATTATTTTCTGCAGGTTTTGTGAAAT 57.093 26.923 15.13 9.72 34.21 2.17
2104 3536 9.995003 ATTATTTTCTGCAGGTTTTGTGAAATA 57.005 25.926 15.13 8.89 34.21 1.40
2105 3537 7.713764 ATTTTCTGCAGGTTTTGTGAAATAC 57.286 32.000 15.13 0.00 34.21 1.89
2106 3538 5.843673 TTCTGCAGGTTTTGTGAAATACA 57.156 34.783 15.13 0.00 37.56 2.29
2107 3539 5.437289 TCTGCAGGTTTTGTGAAATACAG 57.563 39.130 15.13 0.00 41.10 2.74
2309 3741 4.082274 TGCTGTCACAATTATTTCTGCG 57.918 40.909 0.00 0.00 0.00 5.18
2336 3768 7.064728 GGTTTTGTGTAATAGCTAAGAGTGAGG 59.935 40.741 0.00 0.00 0.00 3.86
2751 4191 4.814234 GCAACTGATGGTATTCGTGGATTA 59.186 41.667 0.00 0.00 0.00 1.75
2890 4343 3.405823 TGTGTCATCTGCATCTCACAA 57.594 42.857 0.00 0.00 33.81 3.33
3294 4758 2.441532 ATCTGCATGTGCCTGGGC 60.442 61.111 4.43 4.43 41.18 5.36
3368 4834 3.895232 ACAATTACCGAGCTCACAGAT 57.105 42.857 15.40 0.00 0.00 2.90
3445 4911 4.043310 ACATTTCCTGGAGGTGAATCTTCA 59.957 41.667 14.82 0.00 36.34 3.02
3707 8041 2.586425 ACATTAGTTTGCTGCCACACT 58.414 42.857 0.00 0.00 36.12 3.55
3712 8046 1.550072 AGTTTGCTGCCACACTTTTGT 59.450 42.857 0.00 0.00 35.84 2.83
3766 8101 2.098280 CCATTGTTGTCGTTGTTGTGGA 59.902 45.455 0.00 0.00 0.00 4.02
3839 8174 0.673644 CTTCCGGCCTTGTTGATCGT 60.674 55.000 0.00 0.00 0.00 3.73
3966 8301 6.764308 ACCACAAACTAGATCATGGAATTG 57.236 37.500 12.66 0.00 0.00 2.32
3969 8304 6.457392 CCACAAACTAGATCATGGAATTGTCG 60.457 42.308 0.00 0.00 0.00 4.35
4186 8552 4.697352 AGTTATCTGGTGTGAACTGCAATC 59.303 41.667 0.00 0.00 31.05 2.67
4231 8597 9.549078 TTGATTGGAATTTAGTGTTTTTAACCC 57.451 29.630 0.00 0.00 0.00 4.11
4240 8606 2.363038 GTGTTTTTAACCCCCACTGACC 59.637 50.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 35 2.325583 AGCAAAACCGTGACTCTCAA 57.674 45.000 0.00 0.00 0.00 3.02
32 36 2.325583 AAGCAAAACCGTGACTCTCA 57.674 45.000 0.00 0.00 0.00 3.27
176 184 1.933853 GTGACTCACGAAAGCACAACT 59.066 47.619 0.00 0.00 0.00 3.16
250 271 3.610677 CGAAAGCAAAACCGTGACTTTTT 59.389 39.130 0.00 0.00 31.04 1.94
253 274 2.468532 CGAAAGCAAAACCGTGACTT 57.531 45.000 0.00 0.00 0.00 3.01
302 324 1.375523 GTAAGAGGCACACCCGTGG 60.376 63.158 0.00 0.00 43.81 4.94
309 331 0.323629 CCCTTTCCGTAAGAGGCACA 59.676 55.000 0.00 0.00 43.02 4.57
422 452 0.310854 CCAAACCAGGAGCACGTTTC 59.689 55.000 0.00 0.00 0.00 2.78
423 453 0.395173 ACCAAACCAGGAGCACGTTT 60.395 50.000 0.00 0.00 0.00 3.60
424 454 0.395173 AACCAAACCAGGAGCACGTT 60.395 50.000 0.00 0.00 0.00 3.99
425 455 0.395173 AAACCAAACCAGGAGCACGT 60.395 50.000 0.00 0.00 0.00 4.49
495 529 6.426646 ACTAGATCCCATGTTGATAGGTTC 57.573 41.667 0.00 0.00 0.00 3.62
534 568 3.433306 TTTCACCATTGGATTCCTCGT 57.567 42.857 10.37 0.00 0.00 4.18
557 591 0.958822 GTGCGTCCAAATCCCAAACT 59.041 50.000 0.00 0.00 0.00 2.66
563 597 1.158434 TAAACCGTGCGTCCAAATCC 58.842 50.000 0.00 0.00 0.00 3.01
631 667 0.814010 GTCACTTGTCGCAACCTGGT 60.814 55.000 0.00 0.00 0.00 4.00
782 819 4.519906 CCTAGAATGGGCTCCCTAAAAA 57.480 45.455 6.50 0.00 36.94 1.94
806 843 2.646175 CCGAAAGACGAGAGCCCCA 61.646 63.158 0.00 0.00 45.77 4.96
807 844 2.184579 CCGAAAGACGAGAGCCCC 59.815 66.667 0.00 0.00 45.77 5.80
828 865 1.924939 TGGGCTTCAGGGCTCATGA 60.925 57.895 0.00 0.00 37.83 3.07
829 866 1.751927 GTGGGCTTCAGGGCTCATG 60.752 63.158 0.00 0.00 44.97 3.07
832 869 2.579684 CTACGTGGGCTTCAGGGCTC 62.580 65.000 0.00 0.00 40.65 4.70
838 885 1.275291 CCTTCTTCTACGTGGGCTTCA 59.725 52.381 0.00 0.00 0.00 3.02
848 895 4.554960 AGTTAACTGGGCCTTCTTCTAC 57.445 45.455 7.48 0.00 0.00 2.59
901 948 5.010719 TGACTACTATAATCAAAGGCCGGAG 59.989 44.000 5.05 0.00 0.00 4.63
902 949 4.897076 TGACTACTATAATCAAAGGCCGGA 59.103 41.667 5.05 0.00 0.00 5.14
919 966 3.129287 CCATGGCCAGATTTTGTGACTAC 59.871 47.826 13.05 0.00 0.00 2.73
921 968 2.173519 CCATGGCCAGATTTTGTGACT 58.826 47.619 13.05 0.00 0.00 3.41
922 969 2.170166 TCCATGGCCAGATTTTGTGAC 58.830 47.619 13.05 0.00 0.00 3.67
923 970 2.601240 TCCATGGCCAGATTTTGTGA 57.399 45.000 13.05 1.04 0.00 3.58
924 971 3.681593 TTTCCATGGCCAGATTTTGTG 57.318 42.857 13.05 1.76 0.00 3.33
926 973 3.432608 GGGATTTCCATGGCCAGATTTTG 60.433 47.826 13.05 3.50 37.91 2.44
933 980 2.252141 TGGGGGATTTCCATGGCCA 61.252 57.895 8.56 8.56 37.91 5.36
1284 1338 1.586154 GGATGACGTTGGCCTGGTTG 61.586 60.000 3.32 0.00 0.00 3.77
1325 1379 1.650528 AGGAGTGAAGGGAGGAAGTG 58.349 55.000 0.00 0.00 0.00 3.16
1326 1380 2.261729 GAAGGAGTGAAGGGAGGAAGT 58.738 52.381 0.00 0.00 0.00 3.01
1340 1402 2.507058 TGTGGATGGATCAAGGAAGGAG 59.493 50.000 0.00 0.00 0.00 3.69
1372 1438 2.325583 TAATCAGACGGGTGGATTGC 57.674 50.000 0.00 0.00 33.59 3.56
1464 1532 9.597681 AGATTTTGGATGCATAAATAGGATTCT 57.402 29.630 0.00 0.00 0.00 2.40
1604 1677 0.313672 CCTCACTATCTCAGAGCCGC 59.686 60.000 0.00 0.00 0.00 6.53
1615 1688 2.495270 CAGTCAGACAGCACCTCACTAT 59.505 50.000 2.66 0.00 0.00 2.12
1703 1778 8.691661 TTTCCCTCTGCCAGATATAAATTTAC 57.308 34.615 0.00 0.00 0.00 2.01
1721 1796 0.033699 AGCCATTCCTGCTTTCCCTC 60.034 55.000 0.00 0.00 34.87 4.30
1791 2239 4.838486 CGCGACGAGGCCTCTGTC 62.838 72.222 31.19 31.19 33.26 3.51
1807 2256 7.232945 ACAATTTTGTTCCATTTTGAAGACG 57.767 32.000 0.00 0.00 38.47 4.18
1838 2294 3.803778 CCTTGATTTTTCATATTGCGCCC 59.196 43.478 4.18 0.00 0.00 6.13
1839 2295 3.245990 GCCTTGATTTTTCATATTGCGCC 59.754 43.478 4.18 0.00 0.00 6.53
1840 2296 4.114794 AGCCTTGATTTTTCATATTGCGC 58.885 39.130 0.00 0.00 0.00 6.09
1852 2308 3.758554 GTGTGTATGTGGAGCCTTGATTT 59.241 43.478 0.00 0.00 0.00 2.17
1869 2325 0.610509 TGTGTGCCTTTGTGGTGTGT 60.611 50.000 0.00 0.00 38.35 3.72
1918 2452 1.624336 ACAGTAGTCCGCCAAGTACA 58.376 50.000 0.00 0.00 0.00 2.90
2103 3535 6.988622 GAGTTCTCACTCTTAGCTACTGTA 57.011 41.667 0.00 0.00 45.54 2.74
2104 3536 5.890424 GAGTTCTCACTCTTAGCTACTGT 57.110 43.478 0.00 0.00 45.54 3.55
2309 3741 6.877322 TCACTCTTAGCTATTACACAAAACCC 59.123 38.462 0.00 0.00 0.00 4.11
2466 3906 2.621763 CACAGAAGGTGCACAGGTC 58.378 57.895 20.43 12.07 41.36 3.85
2751 4191 1.204941 GACACACTGAAGCCTCGGTAT 59.795 52.381 0.00 0.00 39.28 2.73
3109 4572 6.071108 CTCTGAATAGAGTGAAGAACCCTTCA 60.071 42.308 3.97 3.97 46.27 3.02
3294 4758 4.797275 GCAACCTGAAAACCCAAGAATCTG 60.797 45.833 0.00 0.00 0.00 2.90
3299 4763 1.028905 CGCAACCTGAAAACCCAAGA 58.971 50.000 0.00 0.00 0.00 3.02
3368 4834 1.946081 TGCACGCATTTCAAGTTCTGA 59.054 42.857 0.00 0.00 0.00 3.27
3445 4911 2.981921 TGATGCCATCTCCTATCCTGT 58.018 47.619 6.21 0.00 0.00 4.00
3451 4917 1.072806 GCACCATGATGCCATCTCCTA 59.927 52.381 0.00 0.00 39.86 2.94
3707 8041 4.815308 AGCAATACAGCAAATGCAACAAAA 59.185 33.333 8.28 0.00 45.16 2.44
3712 8046 5.183713 AGTCTTAGCAATACAGCAAATGCAA 59.816 36.000 8.28 0.00 45.16 4.08
3839 8174 6.073447 TCATCATTAGTTGGGCCTTCTAAA 57.927 37.500 18.98 8.99 0.00 1.85
3969 8304 8.283291 CCACATAGAGAGTTTTACACTGAAAAC 58.717 37.037 4.04 4.04 45.60 2.43
4231 8597 3.703001 AGTAAAGTCATGGTCAGTGGG 57.297 47.619 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.