Multiple sequence alignment - TraesCS3D01G278400

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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 TraesCS3D01G278400 chr3D 100.000 4009 0 0 1731 5739 385474919 385470911 0.000000e+00 7404.0
1 TraesCS3D01G278400 chr3D 100.000 1384 0 0 1 1384 385476649 385475266 0.000000e+00 2556.0
2 TraesCS3D01G278400 chr3A 96.978 1886 50 5 1731 3611 507640061 507638178 0.000000e+00 3160.0
3 TraesCS3D01G278400 chr3A 92.017 1854 79 30 3649 5441 507638038 507636193 0.000000e+00 2540.0
4 TraesCS3D01G278400 chr3A 87.482 1422 45 46 1 1384 507641420 507640094 0.000000e+00 1517.0
5 TraesCS3D01G278400 chr3A 90.826 109 2 6 5430 5531 507633100 507632993 7.750000e-29 139.0
6 TraesCS3D01G278400 chr3A 100.000 28 0 0 5674 5701 602275945 602275972 1.000000e-02 52.8
7 TraesCS3D01G278400 chr3B 95.871 1889 66 8 1731 3611 501501051 501499167 0.000000e+00 3046.0
8 TraesCS3D01G278400 chr3B 91.246 2079 87 40 3697 5739 501498909 501496890 0.000000e+00 2743.0
9 TraesCS3D01G278400 chr3B 91.133 1421 65 27 1 1384 501502480 501501084 0.000000e+00 1869.0
10 TraesCS3D01G278400 chr3B 100.000 54 0 0 3649 3702 501499026 501498973 3.660000e-17 100.0


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 TraesCS3D01G278400 chr3D 385470911 385476649 5738 True 4980.0 7404 100.00000 1 5739 2 chr3D.!!$R1 5738
1 TraesCS3D01G278400 chr3A 507632993 507641420 8427 True 1839.0 3160 91.82575 1 5531 4 chr3A.!!$R1 5530
2 TraesCS3D01G278400 chr3B 501496890 501502480 5590 True 1939.5 3046 94.56250 1 5739 4 chr3B.!!$R1 5738

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
69 70 0.582005 GCAACTTGCTTCGTCGTTCT 59.418 50.000 6.50 0.00 40.96 3.01 F
811 871 0.908910 TGTCGAGAGAGAGAGAGGCT 59.091 55.000 0.00 0.00 43.49 4.58 F
812 872 1.134521 TGTCGAGAGAGAGAGAGGCTC 60.135 57.143 6.34 6.34 43.49 4.70 F
2513 2594 0.920438 TTGGGTGTGTGTACAAGGGT 59.080 50.000 0.00 0.00 38.82 4.34 F
2667 2748 0.975556 TTGCGTATCAGAGGGCCAGA 60.976 55.000 6.18 0.09 0.00 3.86 F
3570 3658 0.466124 ATGCTCCTCGCTTTAGGTCC 59.534 55.000 0.00 0.00 40.11 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1242 1319 0.322816 GCAATGCTGGAGGAGGTGAA 60.323 55.000 0.00 0.0 0.00 3.18 R
2513 2594 0.106708 GGCGACCATCTGGCAAGATA 59.893 55.000 2.41 0.0 41.43 1.98 R
2561 2642 2.515523 CGCTCTCCCTGCCCATTG 60.516 66.667 0.00 0.0 0.00 2.82 R
3487 3575 1.000993 ACTCTCATCTCCCAGCGGT 59.999 57.895 0.00 0.0 0.00 5.68 R
4039 4312 1.532868 GACTCACCACAGCATGAACAC 59.467 52.381 0.00 0.0 39.69 3.32 R
5267 5588 0.103755 TCAGCGATCCATCAGAGCAC 59.896 55.000 0.00 0.0 0.00 4.40 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
20 21 3.659850 CGCAGGATGAACCATACGA 57.340 52.632 0.00 0.00 39.69 3.43
21 22 1.491670 CGCAGGATGAACCATACGAG 58.508 55.000 0.00 0.00 39.69 4.18
59 60 2.378445 AAAACAAACCGCAACTTGCT 57.622 40.000 11.93 0.00 42.25 3.91
69 70 0.582005 GCAACTTGCTTCGTCGTTCT 59.418 50.000 6.50 0.00 40.96 3.01
70 71 1.003866 GCAACTTGCTTCGTCGTTCTT 60.004 47.619 6.50 0.00 40.96 2.52
97 98 4.363990 CCGAGGCGAGTGTGCTGT 62.364 66.667 0.00 0.00 34.52 4.40
118 134 2.602267 TCGTCGCCCTTCCTTCCA 60.602 61.111 0.00 0.00 0.00 3.53
362 399 4.072088 CGCGCACACCCGAGAAAC 62.072 66.667 8.75 0.00 0.00 2.78
378 415 8.724229 ACCCGAGAAACAAAACAATATTAGTAC 58.276 33.333 0.00 0.00 0.00 2.73
379 416 8.943002 CCCGAGAAACAAAACAATATTAGTACT 58.057 33.333 0.00 0.00 0.00 2.73
579 620 2.202730 GAGCTCAGCTGAGGCGAC 60.203 66.667 37.86 24.22 39.88 5.19
581 628 2.813042 GCTCAGCTGAGGCGACAC 60.813 66.667 37.86 20.64 44.37 3.67
588 635 4.821935 TGAGGCGACACAGAGAGA 57.178 55.556 0.00 0.00 0.00 3.10
589 636 2.258317 TGAGGCGACACAGAGAGAC 58.742 57.895 0.00 0.00 0.00 3.36
591 638 1.299562 GAGGCGACACAGAGAGACGA 61.300 60.000 0.00 0.00 0.00 4.20
738 788 3.113979 CGTGCGTGATCTGCTGCA 61.114 61.111 0.88 0.88 34.44 4.41
739 789 2.670210 CGTGCGTGATCTGCTGCAA 61.670 57.895 3.02 0.00 39.34 4.08
797 857 1.082679 CCTCTCTACGTCGCTGTCGA 61.083 60.000 0.00 0.00 43.28 4.20
810 870 3.469564 TGTCGAGAGAGAGAGAGGC 57.530 57.895 0.00 0.00 43.49 4.70
811 871 0.908910 TGTCGAGAGAGAGAGAGGCT 59.091 55.000 0.00 0.00 43.49 4.58
812 872 1.134521 TGTCGAGAGAGAGAGAGGCTC 60.135 57.143 6.34 6.34 43.49 4.70
847 924 1.895131 GGCAGCTTCCTTCCATTGAAA 59.105 47.619 0.00 0.00 0.00 2.69
1242 1319 4.431131 CCACCCGAGCCATTGCCT 62.431 66.667 0.00 0.00 38.69 4.75
1934 2014 4.152402 CGCCATCATACTAAGCCACATTAC 59.848 45.833 0.00 0.00 0.00 1.89
1966 2046 2.883828 CGCCTGGGAGGTCACACTT 61.884 63.158 0.00 0.00 37.80 3.16
2132 2212 3.007920 CCTCCCTCAGCACTGCCT 61.008 66.667 0.00 0.00 0.00 4.75
2477 2558 4.351874 TGACTTTTCGGATGAGAACCTT 57.648 40.909 0.00 0.00 0.00 3.50
2513 2594 0.920438 TTGGGTGTGTGTACAAGGGT 59.080 50.000 0.00 0.00 38.82 4.34
2561 2642 4.261114 GCTATCAAGAAGCTGAAGATTGGC 60.261 45.833 0.00 0.00 37.01 4.52
2667 2748 0.975556 TTGCGTATCAGAGGGCCAGA 60.976 55.000 6.18 0.09 0.00 3.86
2979 3060 1.270839 CCCCTGAACTAGTGTGGTGTG 60.271 57.143 0.00 0.00 0.00 3.82
3025 3106 5.083821 TCATCAGGTCATCCACGGATTATA 58.916 41.667 0.00 0.00 35.89 0.98
3101 3182 6.821665 TCAGGTATGCTTTTACTTGGTGTATC 59.178 38.462 5.01 0.00 31.91 2.24
3308 3396 4.565564 GCCATTGCAATCTTCAGTCAATTC 59.434 41.667 9.53 0.00 37.47 2.17
3312 3400 7.386848 CCATTGCAATCTTCAGTCAATTCTTTT 59.613 33.333 9.53 0.00 0.00 2.27
3313 3401 8.770828 CATTGCAATCTTCAGTCAATTCTTTTT 58.229 29.630 9.53 0.00 0.00 1.94
3314 3402 7.935338 TGCAATCTTCAGTCAATTCTTTTTC 57.065 32.000 0.00 0.00 0.00 2.29
3315 3403 7.490840 TGCAATCTTCAGTCAATTCTTTTTCA 58.509 30.769 0.00 0.00 0.00 2.69
3397 3485 2.158842 GGCTCCAGAGTATGCATTGTCT 60.159 50.000 3.54 4.44 0.00 3.41
3487 3575 7.645058 AAGAAAACCTGTTGATTCTTCTCAA 57.355 32.000 4.60 0.00 37.52 3.02
3493 3581 3.461946 GTTGATTCTTCTCAACCGCTG 57.538 47.619 5.80 0.00 46.00 5.18
3523 3611 1.079503 GTCTTGTCGAATGGGTGAGC 58.920 55.000 0.00 0.00 0.00 4.26
3537 3625 8.190784 CGAATGGGTGAGCTTCTTAAAATATTT 58.809 33.333 0.00 0.00 0.00 1.40
3538 3626 9.305925 GAATGGGTGAGCTTCTTAAAATATTTG 57.694 33.333 0.39 0.00 0.00 2.32
3570 3658 0.466124 ATGCTCCTCGCTTTAGGTCC 59.534 55.000 0.00 0.00 40.11 4.46
3614 3702 9.663904 TCACATTCGCAAAATATATCTTTTAGC 57.336 29.630 0.00 5.15 0.00 3.09
3615 3703 9.669353 CACATTCGCAAAATATATCTTTTAGCT 57.331 29.630 13.47 0.00 0.00 3.32
3645 3755 9.886132 ACAAGTAAGAATTGACCTATCGTATTT 57.114 29.630 0.00 0.00 0.00 1.40
3704 3964 6.978674 TGATTTCCTGTCCATAGTACTAGG 57.021 41.667 8.85 8.21 0.00 3.02
3827 4087 0.741915 TCCAAAGTTGAACCGTTGGC 59.258 50.000 18.61 0.00 40.33 4.52
4007 4280 3.205056 TGATTATTCTTCCAGGGTGGCAT 59.795 43.478 0.00 0.00 37.47 4.40
4008 4281 3.756082 TTATTCTTCCAGGGTGGCATT 57.244 42.857 0.00 0.00 37.47 3.56
4041 4314 7.984391 TGGATACAGTGTTATTTAATGCAGTG 58.016 34.615 0.00 13.50 46.17 3.66
4162 4448 2.820059 TCACACAGATGACACCTCAC 57.180 50.000 0.00 0.00 0.00 3.51
4178 4464 3.693085 ACCTCACTGCTCTAAATGCATTG 59.307 43.478 13.82 1.06 40.77 2.82
4187 4473 2.947652 TCTAAATGCATTGCTCTCTGGC 59.052 45.455 13.82 0.00 0.00 4.85
4211 4497 7.201767 GGCTACTGTCTAAATGCATTTCTTCAT 60.202 37.037 27.28 12.67 0.00 2.57
4248 4534 9.096160 GACTGATAGATGGATGCATAATGTAAG 57.904 37.037 0.00 0.00 0.00 2.34
4255 4541 6.381481 TGGATGCATAATGTAAGCTCAAAG 57.619 37.500 0.00 0.00 0.00 2.77
4257 4543 6.377996 TGGATGCATAATGTAAGCTCAAAGTT 59.622 34.615 0.00 0.00 0.00 2.66
4273 4559 5.477510 TCAAAGTTTGCTCTTGCTGAAAAA 58.522 33.333 10.90 0.00 40.48 1.94
4297 4584 3.717294 GCCCGGCCCTTTCTCTCA 61.717 66.667 0.00 0.00 0.00 3.27
4390 4677 7.594351 TGAGATGTATCATATGATAGGAGCC 57.406 40.000 22.97 12.86 37.67 4.70
4494 4781 5.432885 TTCACCTCGTTCCTGAATTTTTC 57.567 39.130 0.00 0.00 0.00 2.29
4495 4782 4.456535 TCACCTCGTTCCTGAATTTTTCA 58.543 39.130 0.00 0.00 38.17 2.69
4655 4945 1.668101 GCGAACCGAGGAGATCAGGT 61.668 60.000 0.00 0.00 36.70 4.00
4757 5052 4.657824 CAACAGGCGTCGGTCGGT 62.658 66.667 0.00 0.00 40.26 4.69
4918 5222 5.707242 ATTCCTTCTTTCTTTTCCGTTCC 57.293 39.130 0.00 0.00 0.00 3.62
4922 5226 2.227194 TCTTTCTTTTCCGTTCCTGGC 58.773 47.619 0.00 0.00 0.00 4.85
5051 5362 0.177604 CTTCAGCAGGGTCTAGGCAG 59.822 60.000 0.00 0.00 0.00 4.85
5093 5410 2.364324 CTCGGGCCTTGTATTAGCACTA 59.636 50.000 0.84 0.00 0.00 2.74
5127 5444 7.121463 TCGTGCATGTTAACCCTAATGTTTATT 59.879 33.333 5.68 0.00 0.00 1.40
5272 5593 3.558411 GCGTCCGATGCTGTGCTC 61.558 66.667 5.27 0.00 0.00 4.26
5526 8959 1.675310 CAACTCGCCATGCCTTCCA 60.675 57.895 0.00 0.00 0.00 3.53
5528 8961 0.323725 AACTCGCCATGCCTTCCATT 60.324 50.000 0.00 0.00 29.71 3.16
5529 8962 0.749454 ACTCGCCATGCCTTCCATTC 60.749 55.000 0.00 0.00 29.71 2.67
5530 8963 0.465097 CTCGCCATGCCTTCCATTCT 60.465 55.000 0.00 0.00 29.71 2.40
5531 8964 0.034186 TCGCCATGCCTTCCATTCTT 60.034 50.000 0.00 0.00 29.71 2.52
5532 8965 0.819582 CGCCATGCCTTCCATTCTTT 59.180 50.000 0.00 0.00 29.71 2.52
5533 8966 2.023673 CGCCATGCCTTCCATTCTTTA 58.976 47.619 0.00 0.00 29.71 1.85
5536 8969 4.441913 CGCCATGCCTTCCATTCTTTATTT 60.442 41.667 0.00 0.00 29.71 1.40
5537 8970 5.221224 CGCCATGCCTTCCATTCTTTATTTA 60.221 40.000 0.00 0.00 29.71 1.40
5591 9029 2.519063 TGTGTTGCACTGGCCCAG 60.519 61.111 9.83 9.83 40.13 4.45
5624 9062 1.065199 TGAAGCCCAGCAAGGATGTAG 60.065 52.381 0.00 0.00 41.22 2.74
5640 9078 3.577649 TGTAGGTCTTCTGAAGCTTCG 57.422 47.619 21.11 15.42 0.00 3.79
5646 9084 4.273724 AGGTCTTCTGAAGCTTCGTTTTTC 59.726 41.667 21.11 10.21 0.00 2.29
5648 9086 3.564225 TCTTCTGAAGCTTCGTTTTTCCC 59.436 43.478 21.11 0.00 0.00 3.97
5668 9111 3.536570 CCTTTGAGAAGGCTAAGGCTAC 58.463 50.000 0.25 0.00 45.59 3.58
5675 9118 5.241064 TGAGAAGGCTAAGGCTACGTATTAG 59.759 44.000 9.21 9.21 37.50 1.73
5700 9143 5.952033 ACGAAATCACTAGTTGAGGAGTAC 58.048 41.667 0.00 0.00 37.77 2.73
5704 9147 2.306805 TCACTAGTTGAGGAGTACCCGA 59.693 50.000 0.00 0.00 40.87 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 60 2.048877 GCCGGGAAGAACGACGAA 60.049 61.111 2.18 0.00 0.00 3.85
85 86 3.418068 GAGGCACAGCACACTCGC 61.418 66.667 0.00 0.00 0.00 5.03
86 87 3.108289 CGAGGCACAGCACACTCG 61.108 66.667 0.00 0.00 45.34 4.18
87 88 2.024319 GACGAGGCACAGCACACTC 61.024 63.158 0.00 0.00 0.00 3.51
88 89 2.029666 GACGAGGCACAGCACACT 59.970 61.111 0.00 0.00 0.00 3.55
89 90 3.406361 CGACGAGGCACAGCACAC 61.406 66.667 0.00 0.00 0.00 3.82
242 263 0.468214 CATAGGGAGCTGAGTCGGGA 60.468 60.000 0.05 0.00 0.00 5.14
383 420 9.408648 TCCTTCTTTTCTCAAAACAAAGTCTAT 57.591 29.630 0.00 0.00 0.00 1.98
513 554 0.829990 CTCTTTCTGGCTCCTCCTCC 59.170 60.000 0.00 0.00 35.26 4.30
514 555 1.859302 TCTCTTTCTGGCTCCTCCTC 58.141 55.000 0.00 0.00 35.26 3.71
515 556 2.117865 CATCTCTTTCTGGCTCCTCCT 58.882 52.381 0.00 0.00 35.26 3.69
579 620 1.154131 CACCGCTCGTCTCTCTGTG 60.154 63.158 0.00 0.00 0.00 3.66
581 628 2.202544 GCACCGCTCGTCTCTCTG 60.203 66.667 0.00 0.00 0.00 3.35
769 819 2.409975 GACGTAGAGAGGAGATCCGAG 58.590 57.143 0.00 0.00 42.08 4.63
809 869 0.827368 CCACCCACCTTAGAGAGAGC 59.173 60.000 0.00 0.00 0.00 4.09
810 870 0.827368 GCCACCCACCTTAGAGAGAG 59.173 60.000 0.00 0.00 0.00 3.20
811 871 0.116342 TGCCACCCACCTTAGAGAGA 59.884 55.000 0.00 0.00 0.00 3.10
812 872 0.539051 CTGCCACCCACCTTAGAGAG 59.461 60.000 0.00 0.00 0.00 3.20
813 873 1.553690 GCTGCCACCCACCTTAGAGA 61.554 60.000 0.00 0.00 0.00 3.10
814 874 1.078143 GCTGCCACCCACCTTAGAG 60.078 63.158 0.00 0.00 0.00 2.43
815 875 1.133809 AAGCTGCCACCCACCTTAGA 61.134 55.000 0.00 0.00 0.00 2.10
816 876 0.678048 GAAGCTGCCACCCACCTTAG 60.678 60.000 0.00 0.00 0.00 2.18
817 877 1.378762 GAAGCTGCCACCCACCTTA 59.621 57.895 0.00 0.00 0.00 2.69
818 878 2.116125 GAAGCTGCCACCCACCTT 59.884 61.111 0.00 0.00 0.00 3.50
819 879 3.971702 GGAAGCTGCCACCCACCT 61.972 66.667 5.59 0.00 0.00 4.00
847 924 3.616721 AGCTGAGCGAACCACCGT 61.617 61.111 0.00 0.00 0.00 4.83
1242 1319 0.322816 GCAATGCTGGAGGAGGTGAA 60.323 55.000 0.00 0.00 0.00 3.18
1814 1891 3.044305 GTAGGCGATGGCGATGGC 61.044 66.667 7.17 7.17 41.24 4.40
1912 1989 4.152402 CGTAATGTGGCTTAGTATGATGGC 59.848 45.833 0.00 0.00 0.00 4.40
1913 1990 4.152402 GCGTAATGTGGCTTAGTATGATGG 59.848 45.833 0.00 0.00 0.00 3.51
1959 2039 1.603678 GCGGGTCGAGTTTAAGTGTGA 60.604 52.381 0.00 0.00 0.00 3.58
1966 2046 2.343101 CATTTGAGCGGGTCGAGTTTA 58.657 47.619 2.41 0.00 0.00 2.01
2132 2212 4.063529 GCTGGTTGCTGCTGTGTA 57.936 55.556 0.00 0.00 38.95 2.90
2477 2558 2.492567 CCCAAATCCACCTTCTCCCAAA 60.493 50.000 0.00 0.00 0.00 3.28
2513 2594 0.106708 GGCGACCATCTGGCAAGATA 59.893 55.000 2.41 0.00 41.43 1.98
2561 2642 2.515523 CGCTCTCCCTGCCCATTG 60.516 66.667 0.00 0.00 0.00 2.82
2667 2748 7.014615 GGGAACAAAATCATATACAAGCATCCT 59.985 37.037 0.00 0.00 0.00 3.24
2946 3027 5.379706 AGTTCAGGGGATTAATGAGAAGG 57.620 43.478 0.00 0.00 0.00 3.46
2979 3060 3.565905 ACAAACAGAGCAATGCTTAGC 57.434 42.857 9.91 0.00 39.88 3.09
3101 3182 4.038402 AGAAACAATTGGAAGCTGGAACTG 59.962 41.667 10.83 0.00 0.00 3.16
3397 3485 3.318839 CAGATTTTGCTGTCAACTTCCCA 59.681 43.478 0.00 0.00 30.75 4.37
3487 3575 1.000993 ACTCTCATCTCCCAGCGGT 59.999 57.895 0.00 0.00 0.00 5.68
3493 3581 2.370349 TCGACAAGACTCTCATCTCCC 58.630 52.381 0.00 0.00 0.00 4.30
3537 3625 1.879380 GGAGCATGCAACAAGTACACA 59.121 47.619 21.98 0.00 0.00 3.72
3538 3626 2.154462 AGGAGCATGCAACAAGTACAC 58.846 47.619 21.98 0.00 0.00 2.90
3619 3707 9.886132 AAATACGATAGGTCAATTCTTACTTGT 57.114 29.630 0.00 0.00 43.77 3.16
3645 3755 6.485830 AGCATCTAAGTAACATAGCCAGAA 57.514 37.500 0.00 0.00 0.00 3.02
3732 3992 7.778382 GGCTCTAGGATTTGGAAATTTTACCTA 59.222 37.037 0.00 0.00 0.00 3.08
3737 3997 6.256053 TCAGGCTCTAGGATTTGGAAATTTT 58.744 36.000 0.00 0.00 0.00 1.82
3738 3998 5.831103 TCAGGCTCTAGGATTTGGAAATTT 58.169 37.500 0.00 0.00 0.00 1.82
3739 3999 5.456921 TCAGGCTCTAGGATTTGGAAATT 57.543 39.130 0.00 0.00 0.00 1.82
3827 4087 2.424956 GCATCAGCCACCTTAAAAGAGG 59.575 50.000 0.00 0.00 37.55 3.69
3968 4241 2.561478 TCAGGTTGCCCACTTTCTAC 57.439 50.000 0.00 0.00 0.00 2.59
4007 4280 8.918202 AAATAACACTGTATCCACTTTCTGAA 57.082 30.769 0.00 0.00 0.00 3.02
4039 4312 1.532868 GACTCACCACAGCATGAACAC 59.467 52.381 0.00 0.00 39.69 3.32
4041 4314 1.882912 TGACTCACCACAGCATGAAC 58.117 50.000 0.00 0.00 39.69 3.18
4162 4448 3.878103 AGAGAGCAATGCATTTAGAGCAG 59.122 43.478 18.41 4.62 46.36 4.24
4178 4464 4.367450 CATTTAGACAGTAGCCAGAGAGC 58.633 47.826 0.00 0.00 0.00 4.09
4211 4497 9.063615 CATCCATCTATCAGTCATGATGAAAAA 57.936 33.333 0.00 0.00 45.89 1.94
4248 4534 2.033801 TCAGCAAGAGCAAACTTTGAGC 59.966 45.455 5.65 1.48 45.49 4.26
4255 4541 6.348621 TGAAATTTTTCAGCAAGAGCAAAC 57.651 33.333 1.66 0.00 41.88 2.93
4297 4584 3.441244 TCGATGCTCGATTGCTTGT 57.559 47.368 4.47 0.00 44.82 3.16
4333 4620 2.309528 TGTTTTCCATCCTCGGATCG 57.690 50.000 0.00 0.00 34.19 3.69
4474 4761 4.829064 TGAAAAATTCAGGAACGAGGTG 57.171 40.909 0.00 0.00 34.08 4.00
4507 4794 8.177456 ACATGGGTATATATCTTAGTCCTGTGA 58.823 37.037 0.00 0.00 0.00 3.58
4526 4813 5.025453 AGATGGCAAAGAAAATACATGGGT 58.975 37.500 0.00 0.00 0.00 4.51
4624 4914 2.391389 GGTTCGCGGCTCCAAGAAG 61.391 63.158 6.13 0.00 0.00 2.85
4655 4945 2.288457 CGAACTCTCTCAGCTGGAACAA 60.288 50.000 15.13 0.00 38.70 2.83
4913 5217 2.810439 TTTTCATTTGGCCAGGAACG 57.190 45.000 5.11 0.00 0.00 3.95
4918 5222 8.152309 TGTATTTTTCTTTTTCATTTGGCCAG 57.848 30.769 5.11 0.00 0.00 4.85
5051 5362 2.089980 TCAACCACCGAGCTCTACTAC 58.910 52.381 12.85 0.00 0.00 2.73
5093 5410 4.380444 GGGTTAACATGCACGAATGATTGT 60.380 41.667 8.10 0.00 0.00 2.71
5267 5588 0.103755 TCAGCGATCCATCAGAGCAC 59.896 55.000 0.00 0.00 0.00 4.40
5269 5590 0.672889 TCTCAGCGATCCATCAGAGC 59.327 55.000 0.00 0.00 0.00 4.09
5270 5591 3.663995 AATCTCAGCGATCCATCAGAG 57.336 47.619 0.00 0.00 0.00 3.35
5271 5592 3.133542 ACAAATCTCAGCGATCCATCAGA 59.866 43.478 0.00 0.00 0.00 3.27
5272 5593 3.247886 CACAAATCTCAGCGATCCATCAG 59.752 47.826 0.00 0.00 0.00 2.90
5480 8913 2.668550 GTCCGTCCAGTGCCAACC 60.669 66.667 0.00 0.00 0.00 3.77
5543 8981 8.964476 AACAGAAGAACAAATGTAGAAGAAGA 57.036 30.769 0.00 0.00 0.00 2.87
5552 8990 4.562394 CACGCAAAACAGAAGAACAAATGT 59.438 37.500 0.00 0.00 0.00 2.71
5591 9029 1.668151 GCTTCAGACCGGTGTCACC 60.668 63.158 14.63 12.40 44.33 4.02
5624 9062 4.528504 GAAAAACGAAGCTTCAGAAGACC 58.471 43.478 25.47 5.70 0.00 3.85
5648 9086 3.190874 CGTAGCCTTAGCCTTCTCAAAG 58.809 50.000 0.00 0.00 41.25 2.77
5668 9111 8.610855 TCAACTAGTGATTTCGTTCTAATACG 57.389 34.615 0.00 0.00 42.68 3.06
5675 9118 5.471257 ACTCCTCAACTAGTGATTTCGTTC 58.529 41.667 0.00 0.00 35.07 3.95
5700 9143 4.336889 TCACCTAATGCTAAGAATCGGG 57.663 45.455 0.00 0.00 0.00 5.14
5704 9147 5.877012 CCGCATATCACCTAATGCTAAGAAT 59.123 40.000 5.83 0.00 45.03 2.40


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

AutoCloner maintained by Alex Coulton.