Multiple sequence alignment - TraesCS7B01G323800

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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 TraesCS7B01G323800 chr7B 100.000 5071 0 0 1 5071 575423588 575428658 0.000000e+00 9365.0
1 TraesCS7B01G323800 chr7B 97.920 4231 69 10 387 4600 577184732 577188960 0.000000e+00 7308.0
2 TraesCS7B01G323800 chr7B 83.585 530 51 19 4575 5071 577188902 577189428 9.940000e-127 464.0
3 TraesCS7B01G323800 chr7B 84.527 349 22 12 66 383 577184156 577184503 2.950000e-82 316.0
4 TraesCS7B01G323800 chr7B 87.342 79 7 2 3969 4047 577225440 577225515 2.520000e-13 87.9
5 TraesCS7B01G323800 chr7A 95.974 3800 112 13 69 3834 615380370 615384162 0.000000e+00 6131.0
6 TraesCS7B01G323800 chr7A 83.417 1399 185 26 2460 3840 618190683 618189314 0.000000e+00 1254.0
7 TraesCS7B01G323800 chr7A 82.739 1402 180 27 836 2225 618192095 618190744 0.000000e+00 1192.0
8 TraesCS7B01G323800 chr7A 85.859 594 42 16 4464 5039 615385066 615385635 1.220000e-165 593.0
9 TraesCS7B01G323800 chr7A 96.371 248 9 0 3903 4150 615384591 615384838 4.730000e-110 409.0
10 TraesCS7B01G323800 chr7A 92.818 181 13 0 4296 4476 615384866 615385046 3.890000e-66 263.0
11 TraesCS7B01G323800 chr7A 89.524 105 11 0 4356 4460 647857158 647857262 3.190000e-27 134.0
12 TraesCS7B01G323800 chr7A 88.119 101 11 1 4148 4248 178026717 178026816 8.920000e-23 119.0
13 TraesCS7B01G323800 chr7D 96.910 3495 93 9 400 3894 535410435 535413914 0.000000e+00 5842.0
14 TraesCS7B01G323800 chr7D 92.208 308 16 5 4296 4596 535414258 535414564 3.630000e-116 429.0
15 TraesCS7B01G323800 chr7D 97.166 247 7 0 3904 4150 535413984 535414230 7.850000e-113 418.0
16 TraesCS7B01G323800 chr7D 89.590 317 22 4 4718 5031 535414627 535414935 4.760000e-105 392.0
17 TraesCS7B01G323800 chr7D 86.119 353 14 11 66 383 535409787 535410139 1.040000e-91 348.0
18 TraesCS7B01G323800 chr7D 87.500 112 12 2 4146 4256 626459303 626459193 1.480000e-25 128.0
19 TraesCS7B01G323800 chr6D 90.909 99 9 0 4148 4246 68866146 68866244 3.190000e-27 134.0
20 TraesCS7B01G323800 chr6D 86.408 103 11 3 4145 4246 88882933 88883033 5.370000e-20 110.0
21 TraesCS7B01G323800 chr6B 90.909 99 9 0 4148 4246 143769945 143770043 3.190000e-27 134.0
22 TraesCS7B01G323800 chr5A 89.899 99 8 2 4148 4245 702581700 702581603 5.330000e-25 126.0
23 TraesCS7B01G323800 chr2B 90.323 93 9 0 4154 4246 9735941 9735849 6.890000e-24 122.0
24 TraesCS7B01G323800 chr5D 89.362 94 9 1 4154 4246 122629218 122629311 3.210000e-22 117.0


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 TraesCS7B01G323800 chr7B 575423588 575428658 5070 False 9365.0 9365 100.000000 1 5071 1 chr7B.!!$F1 5070
1 TraesCS7B01G323800 chr7B 577184156 577189428 5272 False 2696.0 7308 88.677333 66 5071 3 chr7B.!!$F3 5005
2 TraesCS7B01G323800 chr7A 615380370 615385635 5265 False 1849.0 6131 92.755500 69 5039 4 chr7A.!!$F3 4970
3 TraesCS7B01G323800 chr7A 618189314 618192095 2781 True 1223.0 1254 83.078000 836 3840 2 chr7A.!!$R1 3004
4 TraesCS7B01G323800 chr7D 535409787 535414935 5148 False 1485.8 5842 92.398600 66 5031 5 chr7D.!!$F1 4965

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
53 54 0.248702 TGTCGCGGCAAAACTTTTCC 60.249 50.000 12.88 0.0 0.00 3.13 F
57 58 0.387565 GCGGCAAAACTTTTCCCAGA 59.612 50.000 0.00 0.0 0.00 3.86 F
202 219 1.112113 GCGGTAATCTCCTCACCTCA 58.888 55.000 0.00 0.0 0.00 3.86 F
1293 1652 1.670406 CCTCACTTCGCAAGCTGCT 60.670 57.895 0.00 0.0 42.25 4.24 F
3075 3445 4.536065 TGCAAAGCTTACAATCTGTTTCG 58.464 39.130 0.00 0.0 0.00 3.46 F
3129 3499 5.755375 TGAGTTGACACTGATGAGAAGTTTC 59.245 40.000 0.00 0.0 31.22 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1809 2168 3.176924 AGGTAGCTCTGAAGTTCCTCA 57.823 47.619 0.00 0.00 0.00 3.86 R
2023 2382 5.163612 GGAATGCCTTTTGACAGAATAGGTC 60.164 44.000 0.00 0.00 35.83 3.85 R
2109 2468 1.202818 AGTGGAAGTCCTTGGCACTTC 60.203 52.381 16.46 16.46 46.23 3.01 R
3282 3652 1.518367 ACAACCTCCCTCTCAACCAA 58.482 50.000 0.00 0.00 0.00 3.67 R
3889 4566 1.173913 GGCATGGTGTTTGGGAGTAC 58.826 55.000 0.00 0.00 0.00 2.73 R
4357 5097 1.600663 CGCGTCTCGGAGCAATAATCT 60.601 52.381 0.00 0.00 33.78 2.40 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
18 19 1.280142 CTGTATCGCCTCGTCCTCG 59.720 63.158 0.00 0.00 38.55 4.63
19 20 2.051166 GTATCGCCTCGTCCTCGC 60.051 66.667 0.00 0.00 36.96 5.03
20 21 2.515290 TATCGCCTCGTCCTCGCA 60.515 61.111 0.00 0.00 36.96 5.10
21 22 1.897137 TATCGCCTCGTCCTCGCAT 60.897 57.895 0.00 0.00 36.96 4.73
22 23 1.452953 TATCGCCTCGTCCTCGCATT 61.453 55.000 0.00 0.00 36.96 3.56
23 24 2.298158 ATCGCCTCGTCCTCGCATTT 62.298 55.000 0.00 0.00 36.96 2.32
24 25 2.100631 CGCCTCGTCCTCGCATTTT 61.101 57.895 0.00 0.00 36.96 1.82
25 26 1.716172 GCCTCGTCCTCGCATTTTC 59.284 57.895 0.00 0.00 36.96 2.29
26 27 1.019278 GCCTCGTCCTCGCATTTTCA 61.019 55.000 0.00 0.00 36.96 2.69
27 28 1.002366 CCTCGTCCTCGCATTTTCAG 58.998 55.000 0.00 0.00 36.96 3.02
28 29 0.371645 CTCGTCCTCGCATTTTCAGC 59.628 55.000 0.00 0.00 36.96 4.26
49 50 2.331451 GCTGTCGCGGCAAAACTT 59.669 55.556 16.92 0.00 35.55 2.66
50 51 1.299089 GCTGTCGCGGCAAAACTTT 60.299 52.632 16.92 0.00 35.55 2.66
51 52 0.869880 GCTGTCGCGGCAAAACTTTT 60.870 50.000 16.92 0.00 35.55 2.27
52 53 1.120437 CTGTCGCGGCAAAACTTTTC 58.880 50.000 16.92 0.00 0.00 2.29
53 54 0.248702 TGTCGCGGCAAAACTTTTCC 60.249 50.000 12.88 0.00 0.00 3.13
54 55 0.937699 GTCGCGGCAAAACTTTTCCC 60.938 55.000 5.47 0.00 0.00 3.97
55 56 1.066587 CGCGGCAAAACTTTTCCCA 59.933 52.632 0.00 0.00 0.00 4.37
56 57 0.939106 CGCGGCAAAACTTTTCCCAG 60.939 55.000 0.00 0.00 0.00 4.45
57 58 0.387565 GCGGCAAAACTTTTCCCAGA 59.612 50.000 0.00 0.00 0.00 3.86
58 59 1.868109 GCGGCAAAACTTTTCCCAGAC 60.868 52.381 0.00 0.00 0.00 3.51
59 60 1.599419 CGGCAAAACTTTTCCCAGACG 60.599 52.381 0.00 0.00 0.00 4.18
60 61 1.679153 GGCAAAACTTTTCCCAGACGA 59.321 47.619 0.00 0.00 0.00 4.20
61 62 2.296190 GGCAAAACTTTTCCCAGACGAT 59.704 45.455 0.00 0.00 0.00 3.73
62 63 3.504520 GGCAAAACTTTTCCCAGACGATA 59.495 43.478 0.00 0.00 0.00 2.92
63 64 4.379499 GGCAAAACTTTTCCCAGACGATAG 60.379 45.833 0.00 0.00 46.19 2.08
64 65 4.379499 GCAAAACTTTTCCCAGACGATAGG 60.379 45.833 0.00 0.00 43.77 2.57
72 73 2.442272 AGACGATAGGGCGGCAGT 60.442 61.111 12.47 1.89 43.13 4.40
164 181 1.668151 GGCGAGCACGAGAACCTTT 60.668 57.895 8.01 0.00 42.66 3.11
202 219 1.112113 GCGGTAATCTCCTCACCTCA 58.888 55.000 0.00 0.00 0.00 3.86
230 247 3.814268 CCGGCCACCAAATCAGCG 61.814 66.667 2.24 0.00 0.00 5.18
250 284 3.770666 CGCTCTTCCTTTCGAATGTCTA 58.229 45.455 0.00 0.00 0.00 2.59
325 360 2.971428 ATCTAACGCGCCGGGACATG 62.971 60.000 8.58 0.00 0.00 3.21
345 381 4.579454 TGTGAAACTAAGTCTACGCACT 57.421 40.909 0.00 0.00 38.04 4.40
383 419 6.071108 AGCTGACATGACTATTTCAGTGTACT 60.071 38.462 0.00 0.00 41.21 2.73
384 420 7.122799 AGCTGACATGACTATTTCAGTGTACTA 59.877 37.037 0.00 0.00 41.21 1.82
385 421 7.221067 GCTGACATGACTATTTCAGTGTACTAC 59.779 40.741 0.00 0.00 41.21 2.73
569 910 4.704540 TCAGTAAAAGCCACACCATAATGG 59.295 41.667 0.00 0.00 45.02 3.16
656 997 6.016860 ACATGACACGTAGAAGTACAGTACAA 60.017 38.462 13.37 0.00 0.00 2.41
740 1090 4.309933 TGTGCTCATCTGTTGTTACTCTG 58.690 43.478 0.00 0.00 0.00 3.35
994 1353 4.019174 CTGTGCTAACATTTTGAGGGGAT 58.981 43.478 0.00 0.00 35.22 3.85
1293 1652 1.670406 CCTCACTTCGCAAGCTGCT 60.670 57.895 0.00 0.00 42.25 4.24
1846 2205 8.005388 AGAGCTACCTACAGGACAAGAAATATA 58.995 37.037 1.29 0.00 38.94 0.86
2109 2468 5.413499 CCTTGGGCAGATAAAATTGTGAAG 58.587 41.667 0.00 0.00 0.00 3.02
2892 3262 9.040939 GGTAAACTTACGAACCTACAAGTTTTA 57.959 33.333 14.34 2.06 44.60 1.52
2978 3348 4.564372 GCATCTGTATGTATACATGCTCCG 59.436 45.833 27.35 18.13 42.04 4.63
3037 3407 7.465960 TGCTACAAATATCCCTGGCAATATTA 58.534 34.615 10.94 0.08 29.96 0.98
3075 3445 4.536065 TGCAAAGCTTACAATCTGTTTCG 58.464 39.130 0.00 0.00 0.00 3.46
3129 3499 5.755375 TGAGTTGACACTGATGAGAAGTTTC 59.245 40.000 0.00 0.00 31.22 2.78
3889 4566 6.377327 TTCTCAAACCAGCTTGTAAGAAAG 57.623 37.500 7.48 0.00 0.00 2.62
4160 4900 5.888982 ATTTGTATGATAGTCCCTCCGTT 57.111 39.130 0.00 0.00 0.00 4.44
4290 5030 4.743644 GCATTGTAAGTATACGTGGACTCC 59.256 45.833 0.00 0.00 34.60 3.85
4357 5097 4.081642 GCAGGAGATATATCGGGCTGTTTA 60.082 45.833 7.08 0.00 0.00 2.01
4476 5249 2.537625 CGTAGCAGCTCATAGTTCTTGC 59.462 50.000 0.00 0.00 0.00 4.01
4580 5360 6.576662 TTTCTTTTTGTGGTGAGTGTTGTA 57.423 33.333 0.00 0.00 0.00 2.41
4581 5361 5.811399 TCTTTTTGTGGTGAGTGTTGTAG 57.189 39.130 0.00 0.00 0.00 2.74
4582 5362 4.095782 TCTTTTTGTGGTGAGTGTTGTAGC 59.904 41.667 0.00 0.00 0.00 3.58
4583 5363 2.700722 TTGTGGTGAGTGTTGTAGCA 57.299 45.000 0.00 0.00 0.00 3.49
4584 5364 2.700722 TGTGGTGAGTGTTGTAGCAA 57.299 45.000 0.00 0.00 0.00 3.91
4585 5365 2.992593 TGTGGTGAGTGTTGTAGCAAA 58.007 42.857 0.00 0.00 0.00 3.68
4586 5366 3.348119 TGTGGTGAGTGTTGTAGCAAAA 58.652 40.909 0.00 0.00 0.00 2.44
4587 5367 3.951037 TGTGGTGAGTGTTGTAGCAAAAT 59.049 39.130 0.00 0.00 0.00 1.82
4588 5368 4.400884 TGTGGTGAGTGTTGTAGCAAAATT 59.599 37.500 0.00 0.00 0.00 1.82
4589 5369 5.105554 TGTGGTGAGTGTTGTAGCAAAATTT 60.106 36.000 0.00 0.00 0.00 1.82
4590 5370 5.810074 GTGGTGAGTGTTGTAGCAAAATTTT 59.190 36.000 0.00 0.00 0.00 1.82
4591 5371 6.975772 GTGGTGAGTGTTGTAGCAAAATTTTA 59.024 34.615 2.44 0.00 0.00 1.52
4592 5372 7.489757 GTGGTGAGTGTTGTAGCAAAATTTTAA 59.510 33.333 2.44 0.00 0.00 1.52
4593 5373 8.200792 TGGTGAGTGTTGTAGCAAAATTTTAAT 58.799 29.630 2.44 0.00 0.00 1.40
4594 5374 8.699749 GGTGAGTGTTGTAGCAAAATTTTAATC 58.300 33.333 2.44 0.00 0.00 1.75
4595 5375 9.463443 GTGAGTGTTGTAGCAAAATTTTAATCT 57.537 29.630 2.44 4.25 0.00 2.40
4596 5376 9.677567 TGAGTGTTGTAGCAAAATTTTAATCTC 57.322 29.630 2.44 7.15 0.00 2.75
4597 5377 9.899226 GAGTGTTGTAGCAAAATTTTAATCTCT 57.101 29.630 2.44 0.00 0.00 3.10
4839 5655 9.429600 GTTACACATTGTAGAAAACTGTTACAC 57.570 33.333 0.00 0.00 33.92 2.90
4840 5656 7.023197 ACACATTGTAGAAAACTGTTACACC 57.977 36.000 0.00 0.00 0.00 4.16
4887 5729 4.047822 TCAGTTTTGGCTTTGCGTTAATG 58.952 39.130 0.00 0.00 0.00 1.90
4919 5761 5.050837 GCTTGGTTGCACATTTCTAAAACTG 60.051 40.000 0.00 0.00 0.00 3.16
4987 5830 4.570772 TGCATAAAGAATCAGCGGTCTTAC 59.429 41.667 0.00 0.00 32.90 2.34
5011 5855 0.817654 GTTAAGCCATTGGAGCCCAC 59.182 55.000 6.95 0.00 30.78 4.61
5043 5887 2.816087 ACACAAGCTGCAATACTCAAGG 59.184 45.455 1.02 0.00 0.00 3.61
5054 5898 9.003658 GCTGCAATACTCAAGGTACATTATTAT 57.996 33.333 0.00 0.00 32.72 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.280142 CGAGGACGAGGCGATACAG 59.720 63.158 0.00 0.00 42.66 2.74
1 2 2.831366 GCGAGGACGAGGCGATACA 61.831 63.158 0.00 0.00 42.66 2.29
2 3 2.051166 GCGAGGACGAGGCGATAC 60.051 66.667 0.00 0.00 42.66 2.24
3 4 1.452953 AATGCGAGGACGAGGCGATA 61.453 55.000 0.00 0.00 42.66 2.92
4 5 2.298158 AAATGCGAGGACGAGGCGAT 62.298 55.000 0.00 0.00 42.66 4.58
5 6 2.501223 AAAATGCGAGGACGAGGCGA 62.501 55.000 0.00 0.00 42.66 5.54
6 7 2.025359 GAAAATGCGAGGACGAGGCG 62.025 60.000 0.00 0.00 42.66 5.52
7 8 1.019278 TGAAAATGCGAGGACGAGGC 61.019 55.000 0.00 0.00 42.66 4.70
8 9 1.002366 CTGAAAATGCGAGGACGAGG 58.998 55.000 0.00 0.00 42.66 4.63
9 10 0.371645 GCTGAAAATGCGAGGACGAG 59.628 55.000 0.00 0.00 42.66 4.18
10 11 2.456000 GCTGAAAATGCGAGGACGA 58.544 52.632 0.00 0.00 42.66 4.20
32 33 0.869880 AAAAGTTTTGCCGCGACAGC 60.870 50.000 8.23 2.45 40.74 4.40
33 34 1.120437 GAAAAGTTTTGCCGCGACAG 58.880 50.000 8.23 0.00 0.00 3.51
34 35 0.248702 GGAAAAGTTTTGCCGCGACA 60.249 50.000 8.23 0.00 0.00 4.35
35 36 0.937699 GGGAAAAGTTTTGCCGCGAC 60.938 55.000 21.30 0.00 36.67 5.19
36 37 1.360911 GGGAAAAGTTTTGCCGCGA 59.639 52.632 21.30 0.00 36.67 5.87
37 38 0.939106 CTGGGAAAAGTTTTGCCGCG 60.939 55.000 27.50 19.39 36.67 6.46
38 39 0.387565 TCTGGGAAAAGTTTTGCCGC 59.612 50.000 27.50 13.70 36.67 6.53
39 40 1.599419 CGTCTGGGAAAAGTTTTGCCG 60.599 52.381 27.50 22.36 36.67 5.69
40 41 1.679153 TCGTCTGGGAAAAGTTTTGCC 59.321 47.619 27.00 27.00 34.92 4.52
41 42 3.643159 ATCGTCTGGGAAAAGTTTTGC 57.357 42.857 11.11 11.11 0.00 3.68
42 43 4.156008 CCCTATCGTCTGGGAAAAGTTTTG 59.844 45.833 5.36 0.00 46.15 2.44
43 44 4.332828 CCCTATCGTCTGGGAAAAGTTTT 58.667 43.478 0.00 0.00 46.15 2.43
44 45 3.872630 GCCCTATCGTCTGGGAAAAGTTT 60.873 47.826 12.19 0.00 46.15 2.66
45 46 2.355818 GCCCTATCGTCTGGGAAAAGTT 60.356 50.000 12.19 0.00 46.15 2.66
46 47 1.209747 GCCCTATCGTCTGGGAAAAGT 59.790 52.381 12.19 0.00 46.15 2.66
47 48 1.806623 CGCCCTATCGTCTGGGAAAAG 60.807 57.143 12.19 0.00 46.15 2.27
48 49 0.177141 CGCCCTATCGTCTGGGAAAA 59.823 55.000 12.19 0.00 46.15 2.29
49 50 1.682451 CCGCCCTATCGTCTGGGAAA 61.682 60.000 12.19 0.00 46.15 3.13
50 51 2.131709 CCGCCCTATCGTCTGGGAA 61.132 63.158 12.19 0.00 46.15 3.97
51 52 2.520982 CCGCCCTATCGTCTGGGA 60.521 66.667 12.19 0.00 46.15 4.37
52 53 4.301027 GCCGCCCTATCGTCTGGG 62.301 72.222 0.00 0.00 46.00 4.45
53 54 3.506059 CTGCCGCCCTATCGTCTGG 62.506 68.421 0.00 0.00 0.00 3.86
54 55 2.028190 CTGCCGCCCTATCGTCTG 59.972 66.667 0.00 0.00 0.00 3.51
55 56 2.442272 ACTGCCGCCCTATCGTCT 60.442 61.111 0.00 0.00 0.00 4.18
56 57 2.279517 CACTGCCGCCCTATCGTC 60.280 66.667 0.00 0.00 0.00 4.20
57 58 4.530857 GCACTGCCGCCCTATCGT 62.531 66.667 0.00 0.00 0.00 3.73
156 173 4.501743 GGAGAAACGACAGAGAAAGGTTCT 60.502 45.833 0.00 0.00 44.21 3.01
159 176 2.037381 GGGAGAAACGACAGAGAAAGGT 59.963 50.000 0.00 0.00 0.00 3.50
164 181 1.248785 CCGGGGAGAAACGACAGAGA 61.249 60.000 0.00 0.00 0.00 3.10
168 185 4.367023 CGCCGGGGAGAAACGACA 62.367 66.667 14.46 0.00 0.00 4.35
202 219 4.804420 TGGCCGGGGAGCAGAGAT 62.804 66.667 2.18 0.00 0.00 2.75
230 247 4.116238 CCTAGACATTCGAAAGGAAGAGC 58.884 47.826 0.00 0.00 38.24 4.09
250 284 3.654414 GAACGATTTCATATCCTCGCCT 58.346 45.455 0.00 0.00 34.60 5.52
325 360 4.296690 ACAGTGCGTAGACTTAGTTTCAC 58.703 43.478 0.00 0.00 0.00 3.18
383 419 5.358725 TGTAGGAAAGCATCACATCTACGTA 59.641 40.000 0.00 0.00 0.00 3.57
384 420 3.895232 AGGAAAGCATCACATCTACGT 57.105 42.857 0.00 0.00 0.00 3.57
385 421 4.682787 TGTAGGAAAGCATCACATCTACG 58.317 43.478 0.00 0.00 0.00 3.51
569 910 3.084579 CCGCATGCTCGAGTGTTC 58.915 61.111 17.13 0.00 0.00 3.18
656 997 7.626390 AGCTACTAAGATATCGAGACATAGGT 58.374 38.462 12.94 8.02 0.00 3.08
994 1353 1.073025 GGGTGTCTGCCATGTGTGA 59.927 57.895 0.00 0.00 0.00 3.58
1293 1652 3.450817 TCTTGAAGAATCCGTCTATGCCA 59.549 43.478 0.00 0.00 34.56 4.92
1809 2168 3.176924 AGGTAGCTCTGAAGTTCCTCA 57.823 47.619 0.00 0.00 0.00 3.86
1846 2205 6.008331 CCCATACATCATCCAAGACAATCAT 58.992 40.000 0.00 0.00 0.00 2.45
2023 2382 5.163612 GGAATGCCTTTTGACAGAATAGGTC 60.164 44.000 0.00 0.00 35.83 3.85
2097 2456 5.596361 TCCTTGGCACTTCTTCACAATTTTA 59.404 36.000 0.00 0.00 0.00 1.52
2109 2468 1.202818 AGTGGAAGTCCTTGGCACTTC 60.203 52.381 16.46 16.46 46.23 3.01
2978 3348 8.734386 AGTCAAATATCCTTTCTTGAACATCAC 58.266 33.333 0.00 0.00 30.03 3.06
3037 3407 3.334583 TTGCAGATTCTTTAGACGGCT 57.665 42.857 0.00 0.00 0.00 5.52
3075 3445 3.558829 GCGTAAGTAGGTCTTTATTGGCC 59.441 47.826 0.00 0.00 37.56 5.36
3282 3652 1.518367 ACAACCTCCCTCTCAACCAA 58.482 50.000 0.00 0.00 0.00 3.67
3861 4241 7.781056 TCTTACAAGCTGGTTTGAGAAATTTT 58.219 30.769 0.00 0.00 0.00 1.82
3865 4245 6.377146 ACTTTCTTACAAGCTGGTTTGAGAAA 59.623 34.615 18.44 18.44 33.51 2.52
3866 4246 5.885912 ACTTTCTTACAAGCTGGTTTGAGAA 59.114 36.000 0.00 4.74 0.00 2.87
3889 4566 1.173913 GGCATGGTGTTTGGGAGTAC 58.826 55.000 0.00 0.00 0.00 2.73
4160 4900 7.224297 ACTAAAGCTGAGACACTTATTTTGGA 58.776 34.615 2.97 0.00 0.00 3.53
4210 4950 8.050778 TGTCTCAAAATAAGTGTCACAACTTT 57.949 30.769 5.62 0.00 40.77 2.66
4290 5030 3.549625 GGAAGCGTATCTACCAACCGTAG 60.550 52.174 0.00 0.00 45.18 3.51
4357 5097 1.600663 CGCGTCTCGGAGCAATAATCT 60.601 52.381 0.00 0.00 33.78 2.40
4526 5299 9.897744 TTTGCTACAACAGAAATCTTCAATTAG 57.102 29.630 0.00 0.00 0.00 1.73
4570 5350 9.677567 GAGATTAAAATTTTGCTACAACACTCA 57.322 29.630 13.76 0.00 0.00 3.41
4605 5385 3.735237 TTAAAATTTTGCTCACCCGCA 57.265 38.095 13.76 0.00 38.31 5.69
4606 5386 4.494484 AGATTAAAATTTTGCTCACCCGC 58.506 39.130 13.76 0.00 0.00 6.13
4607 5387 5.954335 AGAGATTAAAATTTTGCTCACCCG 58.046 37.500 21.69 0.00 0.00 5.28
4608 5388 9.140286 GTAAAGAGATTAAAATTTTGCTCACCC 57.860 33.333 21.69 10.47 0.00 4.61
4609 5389 9.691362 TGTAAAGAGATTAAAATTTTGCTCACC 57.309 29.630 21.69 12.05 0.00 4.02
4649 5440 3.354948 TGTAGAGCCATTTGCATCAGT 57.645 42.857 0.00 0.00 44.83 3.41
4800 5613 9.214957 CTACAATGTGTAACTTGGTCAAGATAA 57.785 33.333 16.55 0.18 41.42 1.75
4872 5714 3.142951 ACTGTACATTAACGCAAAGCCA 58.857 40.909 0.00 0.00 0.00 4.75
4955 5797 7.358066 CGCTGATTCTTTATGCATCATAAACT 58.642 34.615 0.19 0.00 40.13 2.66
4963 5806 3.813443 AGACCGCTGATTCTTTATGCAT 58.187 40.909 3.79 3.79 0.00 3.96
4987 5830 2.094545 GGCTCCAATGGCTTAACAGTTG 60.095 50.000 0.00 0.00 0.00 3.16
5011 5855 2.153913 GCTTGTGTAGCGACAGTGG 58.846 57.895 0.00 0.00 40.71 4.00
5043 5887 6.725246 GTGCCCACACTTGATAATAATGTAC 58.275 40.000 0.00 0.00 43.85 2.90


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

AutoCloner maintained by Alex Coulton.