Multiple sequence alignment - TraesCS3D01G078900

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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 TraesCS3D01G078900 chr3D 100.000 3494 0 0 1 3494 39326919 39323426 0.000000e+00 6453
1 TraesCS3D01G078900 chr3A 89.952 3553 171 85 72 3491 50728991 50725492 0.000000e+00 4412
2 TraesCS3D01G078900 chr3B 91.833 1849 84 39 1671 3494 62314175 62312369 0.000000e+00 2516
3 TraesCS3D01G078900 chr3B 94.291 1489 62 11 72 1548 62316295 62314818 0.000000e+00 2257
4 TraesCS3D01G078900 chr3B 95.041 726 31 4 2774 3494 62300770 62300045 0.000000e+00 1136
5 TraesCS3D01G078900 chr2D 85.551 263 30 6 1243 1504 54487722 54487467 5.750000e-68 268
6 TraesCS3D01G078900 chr2D 86.695 233 28 2 1244 1476 175331641 175331870 4.480000e-64 255
7 TraesCS3D01G078900 chr2B 85.171 263 31 6 1243 1504 85177655 85177400 2.670000e-66 263
8 TraesCS3D01G078900 chr2B 84.791 263 32 6 1243 1504 85074277 85074532 1.240000e-64 257
9 TraesCS3D01G078900 chr2A 84.733 262 34 4 1243 1504 54882637 54882892 1.240000e-64 257
10 TraesCS3D01G078900 chr5A 77.986 427 66 21 1073 1494 645726285 645726688 3.480000e-60 243
11 TraesCS3D01G078900 chr4B 83.459 266 35 8 1244 1509 380653800 380654056 4.510000e-59 239
12 TraesCS3D01G078900 chr4B 76.256 438 70 24 1072 1497 103056376 103055961 5.910000e-48 202
13 TraesCS3D01G078900 chr4A 76.430 437 71 24 1072 1497 521919878 521919463 1.270000e-49 207
14 TraesCS3D01G078900 chr4D 76.027 438 71 26 1072 1497 69680130 69679715 2.750000e-46 196
15 TraesCS3D01G078900 chr1D 98.765 81 0 1 1 81 206082831 206082752 3.640000e-30 143


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 TraesCS3D01G078900 chr3D 39323426 39326919 3493 True 6453.0 6453 100.000 1 3494 1 chr3D.!!$R1 3493
1 TraesCS3D01G078900 chr3A 50725492 50728991 3499 True 4412.0 4412 89.952 72 3491 1 chr3A.!!$R1 3419
2 TraesCS3D01G078900 chr3B 62312369 62316295 3926 True 2386.5 2516 93.062 72 3494 2 chr3B.!!$R2 3422
3 TraesCS3D01G078900 chr3B 62300045 62300770 725 True 1136.0 1136 95.041 2774 3494 1 chr3B.!!$R1 720

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
609 649 0.179119 CCCGGTCCTACAACATCGAC 60.179 60.000 0.00 0.0 0.00 4.20 F
892 937 0.883370 CCTCCCGCCTTTATAACCGC 60.883 60.000 0.00 0.0 0.00 5.68 F
1552 1606 1.066605 CCTCCATGAGGGTACGTAACG 59.933 57.143 4.19 0.0 45.43 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2098 2726 0.324614 TGCTGGTACTGATGGTGGTG 59.675 55.000 0.0 0.0 0.0 4.17 R
2099 2727 0.615331 CTGCTGGTACTGATGGTGGT 59.385 55.000 0.0 0.0 0.0 4.16 R
2931 3584 1.275573 GCACGTCTCTTTCCCCTAACT 59.724 52.381 0.0 0.0 0.0 2.24 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
39 40 9.747898 TTAAGGGATCAAATGTATACTTTGTGT 57.252 29.630 18.80 12.94 35.56 3.72
41 42 9.747898 AAGGGATCAAATGTATACTTTGTGTAA 57.252 29.630 18.80 7.78 35.56 2.41
42 43 9.747898 AGGGATCAAATGTATACTTTGTGTAAA 57.252 29.630 18.80 7.54 35.56 2.01
43 44 9.783256 GGGATCAAATGTATACTTTGTGTAAAC 57.217 33.333 18.80 10.20 35.56 2.01
51 52 9.787435 ATGTATACTTTGTGTAAACTTGAAGGA 57.213 29.630 4.17 0.00 34.45 3.36
52 53 9.048446 TGTATACTTTGTGTAAACTTGAAGGAC 57.952 33.333 4.17 0.00 34.45 3.85
53 54 5.830000 ACTTTGTGTAAACTTGAAGGACC 57.170 39.130 0.00 0.00 0.00 4.46
54 55 5.258051 ACTTTGTGTAAACTTGAAGGACCA 58.742 37.500 0.00 0.00 0.00 4.02
55 56 5.712917 ACTTTGTGTAAACTTGAAGGACCAA 59.287 36.000 0.00 0.00 0.00 3.67
56 57 6.209788 ACTTTGTGTAAACTTGAAGGACCAAA 59.790 34.615 0.00 4.57 0.00 3.28
57 58 6.591750 TTGTGTAAACTTGAAGGACCAAAA 57.408 33.333 0.00 0.00 0.00 2.44
58 59 6.591750 TGTGTAAACTTGAAGGACCAAAAA 57.408 33.333 0.00 0.00 0.00 1.94
59 60 6.391537 TGTGTAAACTTGAAGGACCAAAAAC 58.608 36.000 0.00 0.00 0.00 2.43
60 61 6.015350 TGTGTAAACTTGAAGGACCAAAAACA 60.015 34.615 0.00 0.00 0.00 2.83
61 62 7.039270 GTGTAAACTTGAAGGACCAAAAACAT 58.961 34.615 0.00 0.00 0.00 2.71
62 63 8.192110 GTGTAAACTTGAAGGACCAAAAACATA 58.808 33.333 0.00 0.00 0.00 2.29
63 64 8.192110 TGTAAACTTGAAGGACCAAAAACATAC 58.808 33.333 0.00 0.00 0.00 2.39
64 65 5.784578 ACTTGAAGGACCAAAAACATACC 57.215 39.130 0.00 0.00 0.00 2.73
65 66 5.454966 ACTTGAAGGACCAAAAACATACCT 58.545 37.500 0.00 0.00 0.00 3.08
66 67 5.897250 ACTTGAAGGACCAAAAACATACCTT 59.103 36.000 0.00 0.00 39.89 3.50
67 68 6.382859 ACTTGAAGGACCAAAAACATACCTTT 59.617 34.615 0.00 0.00 37.77 3.11
68 69 6.399639 TGAAGGACCAAAAACATACCTTTC 57.600 37.500 0.00 0.00 37.77 2.62
69 70 6.133356 TGAAGGACCAAAAACATACCTTTCT 58.867 36.000 0.00 0.00 37.77 2.52
70 71 6.264518 TGAAGGACCAAAAACATACCTTTCTC 59.735 38.462 0.00 0.00 37.77 2.87
235 237 6.077838 GTGGACTCAGTTACTAAAAATTGCG 58.922 40.000 0.00 0.00 0.00 4.85
281 284 4.213270 TCTTGAAGTGTGCAATTAGAACCG 59.787 41.667 0.00 0.00 0.00 4.44
304 307 2.894763 TGCACTTTTGAGCTTGCATT 57.105 40.000 4.41 0.00 40.01 3.56
305 308 3.182341 TGCACTTTTGAGCTTGCATTT 57.818 38.095 4.41 0.00 40.01 2.32
361 371 9.962783 ATCTTGATCTAAATGCTTAGCAATTTC 57.037 29.630 12.08 4.66 43.62 2.17
367 377 5.743636 AAATGCTTAGCAATTTCCTGGAA 57.256 34.783 12.08 4.68 43.62 3.53
378 388 6.980397 AGCAATTTCCTGGAAATATTTAAGCG 59.020 34.615 29.52 14.26 40.77 4.68
522 562 6.352516 AGGAATATGGAGTCAATGAGAACAC 58.647 40.000 0.00 0.00 0.00 3.32
551 591 2.715046 ACACCTGGTATTCATGTGCTG 58.285 47.619 0.00 0.00 43.04 4.41
609 649 0.179119 CCCGGTCCTACAACATCGAC 60.179 60.000 0.00 0.00 0.00 4.20
670 712 3.125146 TCTTCGTCCATTCATTTTGCTCG 59.875 43.478 0.00 0.00 0.00 5.03
688 730 5.510671 TGCTCGTGTCTTTTTCAGATTTTC 58.489 37.500 0.00 0.00 32.60 2.29
850 894 1.309499 CCGGCGGCCAAGAATTACAA 61.309 55.000 20.71 0.00 0.00 2.41
892 937 0.883370 CCTCCCGCCTTTATAACCGC 60.883 60.000 0.00 0.00 0.00 5.68
901 946 1.263217 CTTTATAACCGCACCCATCGC 59.737 52.381 0.00 0.00 0.00 4.58
911 956 2.765807 CCCATCGCCTCCACCTCT 60.766 66.667 0.00 0.00 0.00 3.69
1209 1263 3.406200 CTGGACCCCTGGGAGCTG 61.406 72.222 16.20 0.00 38.96 4.24
1404 1458 2.437343 CGTGAAGAAGGCGCTCGTC 61.437 63.158 7.64 6.49 0.00 4.20
1551 1605 2.884894 CCTCCATGAGGGTACGTAAC 57.115 55.000 0.70 0.70 45.43 2.50
1552 1606 1.066605 CCTCCATGAGGGTACGTAACG 59.933 57.143 4.19 0.00 45.43 3.18
1553 1607 1.747355 CTCCATGAGGGTACGTAACGT 59.253 52.381 5.33 5.33 38.61 3.99
1578 1632 2.035576 TCATGCATGTCTCTCTCCATCG 59.964 50.000 25.43 0.00 0.00 3.84
1696 2280 4.402793 TCGAGCTAGCTAGGAATCTTTTGT 59.597 41.667 19.38 0.00 0.00 2.83
1719 2311 4.486090 TCTCTTCTTATGAGTTGCGTGTC 58.514 43.478 0.00 0.00 33.59 3.67
1781 2389 1.598701 GGTCAATGAACCAGGCAGCC 61.599 60.000 1.84 1.84 39.27 4.85
1786 2394 1.495579 ATGAACCAGGCAGCCACTCT 61.496 55.000 15.80 0.00 0.00 3.24
1823 2431 6.262496 GCTATAGTTTCTTTTACCCATGGGAC 59.738 42.308 38.07 21.31 38.96 4.46
1857 2466 6.320672 CCCAAGAAAGAGACTTGCATTATCAT 59.679 38.462 0.00 0.00 42.03 2.45
1871 2484 5.761726 TGCATTATCATCCTTCAAGCTACAG 59.238 40.000 0.00 0.00 0.00 2.74
1902 2515 1.938585 ACCTAGCTACCTGTCAAGCA 58.061 50.000 0.00 0.00 41.32 3.91
1907 2520 2.114616 AGCTACCTGTCAAGCATAGCT 58.885 47.619 0.00 0.00 39.93 3.32
1932 2545 4.536065 CGACTGTTTGTTGCAACATACAT 58.464 39.130 38.33 30.53 45.29 2.29
1933 2546 5.684850 CGACTGTTTGTTGCAACATACATA 58.315 37.500 38.33 25.20 45.29 2.29
1937 2550 5.208503 TGTTTGTTGCAACATACATACACG 58.791 37.500 36.44 0.00 42.92 4.49
1938 2551 5.209240 GTTTGTTGCAACATACATACACGT 58.791 37.500 34.14 0.00 39.60 4.49
1939 2552 4.397064 TGTTGCAACATACATACACGTG 57.603 40.909 27.96 15.48 33.17 4.49
1940 2553 3.810386 TGTTGCAACATACATACACGTGT 59.190 39.130 27.96 26.52 33.17 4.49
1943 2561 8.624766 TGTTGCAACATACATACACGTGTGTG 62.625 42.308 34.90 34.90 39.93 3.82
2127 2755 2.359107 TACCAGCAGCAGCAGCAC 60.359 61.111 12.92 0.00 45.49 4.40
2128 2756 3.907260 TACCAGCAGCAGCAGCACC 62.907 63.158 12.92 0.00 45.49 5.01
2130 2758 4.039357 CAGCAGCAGCAGCACCAC 62.039 66.667 12.92 0.00 45.49 4.16
2277 2908 0.897863 AGACGACTGGAAGCTCTGCT 60.898 55.000 0.00 0.00 42.56 4.24
2522 3159 4.038402 GCTACCGTGTTAATTAGGGCTAGA 59.962 45.833 0.00 0.00 0.00 2.43
2548 3185 3.771798 AGCAAGCTAGCGACTTAACTAC 58.228 45.455 9.55 0.00 40.15 2.73
2549 3186 3.192844 AGCAAGCTAGCGACTTAACTACA 59.807 43.478 9.55 0.00 40.15 2.74
2557 3194 2.864882 GCGACTTAACTACAGCCACACA 60.865 50.000 0.00 0.00 0.00 3.72
2558 3195 2.729882 CGACTTAACTACAGCCACACAC 59.270 50.000 0.00 0.00 0.00 3.82
2578 3215 7.761704 CACACACTAGCTAGTTGATTATTCACT 59.238 37.037 27.92 10.94 33.46 3.41
2579 3216 8.967918 ACACACTAGCTAGTTGATTATTCACTA 58.032 33.333 27.92 0.00 33.46 2.74
2580 3217 9.973450 CACACTAGCTAGTTGATTATTCACTAT 57.027 33.333 23.94 0.00 33.46 2.12
2699 3347 8.008513 AGTGTAACATATTATATAGGCCGGAG 57.991 38.462 5.05 0.00 41.43 4.63
2723 3371 9.640963 GAGTAGCTAGAAGAAGAACACAATTAA 57.359 33.333 0.00 0.00 0.00 1.40
2765 3417 9.612066 TGATTGTAGATGCATGTCTAATTTGTA 57.388 29.630 2.46 0.00 32.81 2.41
2926 3579 9.219603 GGAATACTAGCAACTTATTATGCATGA 57.780 33.333 10.16 0.00 44.95 3.07
3035 3690 3.075283 TGCCAGAAAGGTTGGATTCCTTA 59.925 43.478 3.95 0.00 43.50 2.69
3046 3701 5.339200 GGTTGGATTCCTTAGGAAGTCATCA 60.339 44.000 19.16 9.47 45.48 3.07
3051 3706 3.516586 TCCTTAGGAAGTCATCACACCA 58.483 45.455 0.00 0.00 0.00 4.17
3059 3716 5.006386 GGAAGTCATCACACCAAGAAAGAT 58.994 41.667 0.00 0.00 0.00 2.40
3087 3744 3.298686 TCGAGAGAGACACCCATGTAT 57.701 47.619 0.00 0.00 35.01 2.29
3315 4002 8.561738 ACACTATCACGGTTGAATTTCTATTT 57.438 30.769 0.00 0.00 34.61 1.40
3316 4003 9.010029 ACACTATCACGGTTGAATTTCTATTTT 57.990 29.630 0.00 0.00 34.61 1.82
3366 4057 6.901887 CGTAGGTTGAATCGATTTCAGAATTG 59.098 38.462 12.81 0.00 44.90 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 9.747898 ACACAAAGTATACATTTGATCCCTTAA 57.252 29.630 23.15 0.00 39.50 1.85
15 16 9.747898 TTACACAAAGTATACATTTGATCCCTT 57.252 29.630 23.15 7.26 39.50 3.95
16 17 9.747898 TTTACACAAAGTATACATTTGATCCCT 57.252 29.630 23.15 7.74 39.50 4.20
17 18 9.783256 GTTTACACAAAGTATACATTTGATCCC 57.217 33.333 23.15 10.12 39.50 3.85
25 26 9.787435 TCCTTCAAGTTTACACAAAGTATACAT 57.213 29.630 5.50 0.00 37.19 2.29
26 27 9.048446 GTCCTTCAAGTTTACACAAAGTATACA 57.952 33.333 5.50 0.00 37.19 2.29
27 28 8.501580 GGTCCTTCAAGTTTACACAAAGTATAC 58.498 37.037 0.00 0.00 35.61 1.47
28 29 8.212312 TGGTCCTTCAAGTTTACACAAAGTATA 58.788 33.333 0.00 0.00 31.53 1.47
29 30 7.057894 TGGTCCTTCAAGTTTACACAAAGTAT 58.942 34.615 0.00 0.00 31.53 2.12
30 31 6.416415 TGGTCCTTCAAGTTTACACAAAGTA 58.584 36.000 0.00 0.00 0.00 2.24
31 32 5.258051 TGGTCCTTCAAGTTTACACAAAGT 58.742 37.500 0.00 0.00 0.00 2.66
32 33 5.828299 TGGTCCTTCAAGTTTACACAAAG 57.172 39.130 0.00 0.00 0.00 2.77
33 34 6.591750 TTTGGTCCTTCAAGTTTACACAAA 57.408 33.333 0.00 0.00 0.00 2.83
34 35 6.591750 TTTTGGTCCTTCAAGTTTACACAA 57.408 33.333 0.00 0.00 0.00 3.33
35 36 6.015350 TGTTTTTGGTCCTTCAAGTTTACACA 60.015 34.615 0.00 0.00 0.00 3.72
36 37 6.391537 TGTTTTTGGTCCTTCAAGTTTACAC 58.608 36.000 0.00 0.00 0.00 2.90
37 38 6.591750 TGTTTTTGGTCCTTCAAGTTTACA 57.408 33.333 0.00 0.00 0.00 2.41
38 39 7.650504 GGTATGTTTTTGGTCCTTCAAGTTTAC 59.349 37.037 0.00 0.00 0.00 2.01
39 40 7.562088 AGGTATGTTTTTGGTCCTTCAAGTTTA 59.438 33.333 0.00 0.00 0.00 2.01
40 41 6.382859 AGGTATGTTTTTGGTCCTTCAAGTTT 59.617 34.615 0.00 0.00 0.00 2.66
41 42 5.897250 AGGTATGTTTTTGGTCCTTCAAGTT 59.103 36.000 0.00 0.00 0.00 2.66
42 43 5.454966 AGGTATGTTTTTGGTCCTTCAAGT 58.545 37.500 0.00 0.00 0.00 3.16
43 44 6.405278 AAGGTATGTTTTTGGTCCTTCAAG 57.595 37.500 0.00 0.00 30.76 3.02
44 45 6.609616 AGAAAGGTATGTTTTTGGTCCTTCAA 59.390 34.615 0.00 0.00 34.73 2.69
45 46 6.133356 AGAAAGGTATGTTTTTGGTCCTTCA 58.867 36.000 0.00 0.00 34.73 3.02
46 47 6.490381 AGAGAAAGGTATGTTTTTGGTCCTTC 59.510 38.462 0.00 0.00 34.73 3.46
47 48 6.373759 AGAGAAAGGTATGTTTTTGGTCCTT 58.626 36.000 0.00 0.00 36.95 3.36
48 49 5.953571 AGAGAAAGGTATGTTTTTGGTCCT 58.046 37.500 0.00 0.00 0.00 3.85
49 50 6.650427 AAGAGAAAGGTATGTTTTTGGTCC 57.350 37.500 0.00 0.00 0.00 4.46
50 51 7.712797 TGAAAGAGAAAGGTATGTTTTTGGTC 58.287 34.615 0.00 0.00 0.00 4.02
51 52 7.654022 TGAAAGAGAAAGGTATGTTTTTGGT 57.346 32.000 0.00 0.00 0.00 3.67
131 132 6.806120 ACACGTCTTTAAAATGCAAGTTTC 57.194 33.333 0.00 0.00 34.98 2.78
235 237 6.651225 AGAGTGAACTTAAGAATTGGTAGTGC 59.349 38.462 10.09 0.00 0.00 4.40
273 276 5.334569 GCTCAAAAGTGCAATACGGTTCTAA 60.335 40.000 0.00 0.00 0.00 2.10
281 284 3.641648 TGCAAGCTCAAAAGTGCAATAC 58.358 40.909 6.04 0.00 43.65 1.89
361 371 7.496529 TGAGAATCGCTTAAATATTTCCAGG 57.503 36.000 3.39 0.00 38.61 4.45
522 562 7.601856 ACATGAATACCAGGTGTTTTTATGTG 58.398 34.615 18.42 9.16 40.77 3.21
551 591 7.402071 TCCCACAGGAATACCATATATAGGAAC 59.598 40.741 0.00 0.00 40.08 3.62
670 712 6.039829 AGAGTGGGAAAATCTGAAAAAGACAC 59.960 38.462 0.00 0.00 37.88 3.67
850 894 4.790962 CGGTGCATGGCAGGCTCT 62.791 66.667 25.44 0.00 40.08 4.09
892 937 3.391665 GAGGTGGAGGCGATGGGTG 62.392 68.421 0.00 0.00 0.00 4.61
911 956 4.714632 ACGGAGGAGAACTGAAATTTTCA 58.285 39.130 11.19 11.19 38.17 2.69
1374 1428 3.934391 CTTCACGCCGACCACCTCC 62.934 68.421 0.00 0.00 0.00 4.30
1404 1458 1.987855 TGGACGCCCCTGGTAGAAG 60.988 63.158 0.00 0.00 35.38 2.85
1518 1572 1.201429 TGGAGGAGGAGGCCTTGAAC 61.201 60.000 6.77 0.00 38.73 3.18
1549 1603 1.726791 GAGACATGCATGAACGACGTT 59.273 47.619 32.75 14.11 0.00 3.99
1550 1604 1.067565 AGAGACATGCATGAACGACGT 60.068 47.619 32.75 8.66 0.00 4.34
1551 1605 1.585668 GAGAGACATGCATGAACGACG 59.414 52.381 32.75 4.95 0.00 5.12
1552 1606 2.857152 GAGAGAGACATGCATGAACGAC 59.143 50.000 32.75 20.91 0.00 4.34
1553 1607 2.159184 GGAGAGAGACATGCATGAACGA 60.159 50.000 32.75 0.00 0.00 3.85
1696 2280 4.883083 ACACGCAACTCATAAGAAGAGAA 58.117 39.130 0.00 0.00 36.91 2.87
1719 2311 3.681897 GCTTAACTCACTGACATCCACAG 59.318 47.826 0.00 0.00 40.68 3.66
1757 2357 4.841441 TGGTTCATTGACCAGGGC 57.159 55.556 0.00 0.00 44.53 5.19
1781 2389 6.174760 ACTATAGCTAATAGGACGGAGAGTG 58.825 44.000 0.00 0.00 41.78 3.51
1786 2394 8.474710 AAAGAAACTATAGCTAATAGGACGGA 57.525 34.615 0.00 0.00 41.78 4.69
1857 2466 2.821437 AGTAGGCTGTAGCTTGAAGGA 58.179 47.619 0.00 0.00 41.70 3.36
1890 2503 2.034685 CGCTAGCTATGCTTGACAGGTA 59.965 50.000 13.93 0.00 40.44 3.08
1891 2504 1.202463 CGCTAGCTATGCTTGACAGGT 60.202 52.381 13.93 0.00 40.44 4.00
1902 2515 2.673368 GCAACAAACAGTCGCTAGCTAT 59.327 45.455 13.93 0.00 0.00 2.97
1907 2520 2.010497 TGTTGCAACAAACAGTCGCTA 58.990 42.857 29.36 1.52 35.16 4.26
1932 2545 2.546368 GGAAAATCAGCACACACGTGTA 59.454 45.455 22.90 4.73 45.50 2.90
1933 2546 1.333619 GGAAAATCAGCACACACGTGT 59.666 47.619 17.22 17.22 45.50 4.49
1937 2550 4.202050 ACAAGAAGGAAAATCAGCACACAC 60.202 41.667 0.00 0.00 0.00 3.82
1938 2551 3.953612 ACAAGAAGGAAAATCAGCACACA 59.046 39.130 0.00 0.00 0.00 3.72
1939 2552 4.202050 ACACAAGAAGGAAAATCAGCACAC 60.202 41.667 0.00 0.00 0.00 3.82
1940 2553 3.953612 ACACAAGAAGGAAAATCAGCACA 59.046 39.130 0.00 0.00 0.00 4.57
1943 2561 3.311966 GCACACAAGAAGGAAAATCAGC 58.688 45.455 0.00 0.00 0.00 4.26
2098 2726 0.324614 TGCTGGTACTGATGGTGGTG 59.675 55.000 0.00 0.00 0.00 4.17
2099 2727 0.615331 CTGCTGGTACTGATGGTGGT 59.385 55.000 0.00 0.00 0.00 4.16
2100 2728 0.745845 GCTGCTGGTACTGATGGTGG 60.746 60.000 0.00 0.00 0.00 4.61
2127 2755 1.673665 GTCCTCTTGCTGCTGGTGG 60.674 63.158 0.00 4.39 0.00 4.61
2128 2756 1.071987 TGTCCTCTTGCTGCTGGTG 59.928 57.895 0.00 0.00 0.00 4.17
2129 2757 1.072159 GTGTCCTCTTGCTGCTGGT 59.928 57.895 0.00 0.00 0.00 4.00
2130 2758 1.673665 GGTGTCCTCTTGCTGCTGG 60.674 63.158 0.00 0.00 0.00 4.85
2190 2821 2.287769 GAGTAGTCCACGAGGTAGTCC 58.712 57.143 0.00 0.00 35.89 3.85
2267 2898 1.303155 AACTGGCCAGCAGAGCTTC 60.303 57.895 33.06 0.00 36.40 3.86
2277 2908 3.068881 CCGAGGAAGAACTGGCCA 58.931 61.111 4.71 4.71 0.00 5.36
2412 3046 1.884464 CGTCATGGACCCATCGCTG 60.884 63.158 0.00 0.00 33.90 5.18
2522 3159 2.464157 AGTCGCTAGCTTGCTTTCTT 57.536 45.000 17.91 0.00 0.00 2.52
2548 3185 2.029020 TCAACTAGCTAGTGTGTGGCTG 60.029 50.000 26.70 18.21 44.13 4.85
2549 3186 2.248248 TCAACTAGCTAGTGTGTGGCT 58.752 47.619 26.70 6.67 46.52 4.75
2578 3215 6.258507 CCATTGATCGATCGGCATCAATAATA 59.741 38.462 29.60 14.13 44.44 0.98
2579 3216 5.065602 CCATTGATCGATCGGCATCAATAAT 59.934 40.000 29.60 16.35 44.44 1.28
2580 3217 4.392754 CCATTGATCGATCGGCATCAATAA 59.607 41.667 29.60 14.67 44.44 1.40
2725 3373 8.087750 GCATCTACAATCAGTTCTAGCTATCTT 58.912 37.037 0.00 0.00 0.00 2.40
2926 3579 6.171213 CACGTCTCTTTCCCCTAACTTAAAT 58.829 40.000 0.00 0.00 0.00 1.40
2931 3584 1.275573 GCACGTCTCTTTCCCCTAACT 59.724 52.381 0.00 0.00 0.00 2.24
3035 3690 4.103153 TCTTTCTTGGTGTGATGACTTCCT 59.897 41.667 0.25 0.00 0.00 3.36
3046 3701 4.692625 CGATCAACTCATCTTTCTTGGTGT 59.307 41.667 0.00 0.00 0.00 4.16
3051 3706 6.376864 TCTCTCTCGATCAACTCATCTTTCTT 59.623 38.462 0.00 0.00 0.00 2.52
3059 3716 2.750166 GGTGTCTCTCTCGATCAACTCA 59.250 50.000 0.00 0.00 0.00 3.41
3087 3744 2.993449 TGCGTGTTCGTCTACATACA 57.007 45.000 0.00 0.00 39.49 2.29
3226 3886 4.857509 TTTTAGAATTTTGTGGTCCCGG 57.142 40.909 0.00 0.00 0.00 5.73
3321 4008 7.773690 ACCTACGTATGGAGAAGCAAAATAAAT 59.226 33.333 15.28 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.