Multiple sequence alignment - TraesCS5D01G069100

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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 TraesCS5D01G069100 chr5D 100.000 3883 0 0 1 3883 65978735 65982617 0.000000e+00 7171.0
1 TraesCS5D01G069100 chr5A 92.573 2693 94 39 50 2654 55248077 55250751 0.000000e+00 3768.0
2 TraesCS5D01G069100 chr5A 90.760 671 42 11 2600 3258 55250750 55251412 0.000000e+00 878.0
3 TraesCS5D01G069100 chr5A 90.128 547 37 9 3340 3883 55251418 55251950 0.000000e+00 695.0
4 TraesCS5D01G069100 chr5A 79.085 153 16 5 100 247 67970117 67969976 1.490000e-14 91.6
5 TraesCS5D01G069100 chr5B 94.006 1902 90 10 1993 3883 65099091 65097203 0.000000e+00 2859.0
6 TraesCS5D01G069100 chr5B 89.252 642 39 13 1327 1946 65104087 65103454 0.000000e+00 776.0
7 TraesCS5D01G069100 chr5B 82.837 705 46 27 554 1214 65104832 65104159 2.620000e-156 562.0
8 TraesCS5D01G069100 chr5B 84.932 365 23 12 29 390 65105503 65105168 1.340000e-89 340.0
9 TraesCS5D01G069100 chr5B 92.593 108 2 2 387 494 65105071 65104970 2.420000e-32 150.0
10 TraesCS5D01G069100 chr5B 92.593 54 0 1 1279 1332 65104154 65104105 1.500000e-09 75.0
11 TraesCS5D01G069100 chr6B 97.368 38 1 0 1 38 77717509 77717472 9.010000e-07 65.8
12 TraesCS5D01G069100 chr7B 100.000 32 0 0 4 35 606728221 606728190 4.190000e-05 60.2
13 TraesCS5D01G069100 chr7B 94.444 36 2 0 1 36 742583996 742583961 5.420000e-04 56.5
14 TraesCS5D01G069100 chr7A 94.444 36 2 0 1 36 119549813 119549778 5.420000e-04 56.5
15 TraesCS5D01G069100 chr4B 96.875 32 1 0 1 32 548199171 548199140 2.000000e-03 54.7
16 TraesCS5D01G069100 chr3B 100.000 29 0 0 1 29 177760228 177760256 2.000000e-03 54.7
17 TraesCS5D01G069100 chr4A 100.000 28 0 0 1 28 478065957 478065930 7.000000e-03 52.8
18 TraesCS5D01G069100 chr2B 100.000 28 0 0 1 28 392867079 392867106 7.000000e-03 52.8


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 TraesCS5D01G069100 chr5D 65978735 65982617 3882 False 7171.000000 7171 100.000000 1 3883 1 chr5D.!!$F1 3882
1 TraesCS5D01G069100 chr5A 55248077 55251950 3873 False 1780.333333 3768 91.153667 50 3883 3 chr5A.!!$F1 3833
2 TraesCS5D01G069100 chr5B 65097203 65099091 1888 True 2859.000000 2859 94.006000 1993 3883 1 chr5B.!!$R1 1890
3 TraesCS5D01G069100 chr5B 65103454 65105503 2049 True 380.600000 776 88.441400 29 1946 5 chr5B.!!$R2 1917

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
20 21 0.170339 GCGCGGCCACTTTTTAGATT 59.830 50.0 8.83 0.00 0.00 2.40 F
461 576 0.737715 AACTACACTGCGCTAGCTGC 60.738 55.0 20.03 20.03 44.79 5.25 F
1566 1878 0.609662 TAGGGAAGTTCGGGAAACGG 59.390 55.0 0.00 0.00 43.02 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1224 1496 0.104934 GGAGGAAGGGAGGATAGCCA 60.105 60.0 0.00 0.0 36.29 4.75 R
2033 2371 0.249238 CTTGATCTTCTCCGCCGAGG 60.249 60.0 2.12 0.0 42.97 4.63 R
3292 3702 0.035056 CTGCTCGTCTTTGGGGGATT 60.035 55.0 0.00 0.0 0.00 3.01 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
17 18 2.950673 TGCGCGGCCACTTTTTAG 59.049 55.556 8.83 0.00 0.00 1.85
18 19 1.598407 TGCGCGGCCACTTTTTAGA 60.598 52.632 8.83 0.00 0.00 2.10
19 20 0.958382 TGCGCGGCCACTTTTTAGAT 60.958 50.000 8.83 0.00 0.00 1.98
20 21 0.170339 GCGCGGCCACTTTTTAGATT 59.830 50.000 8.83 0.00 0.00 2.40
21 22 1.402325 GCGCGGCCACTTTTTAGATTT 60.402 47.619 8.83 0.00 0.00 2.17
22 23 2.924880 GCGCGGCCACTTTTTAGATTTT 60.925 45.455 8.83 0.00 0.00 1.82
23 24 3.671164 GCGCGGCCACTTTTTAGATTTTA 60.671 43.478 8.83 0.00 0.00 1.52
24 25 4.095610 CGCGGCCACTTTTTAGATTTTAG 58.904 43.478 2.24 0.00 0.00 1.85
25 26 4.421058 GCGGCCACTTTTTAGATTTTAGG 58.579 43.478 2.24 0.00 0.00 2.69
26 27 4.157105 GCGGCCACTTTTTAGATTTTAGGA 59.843 41.667 2.24 0.00 0.00 2.94
27 28 5.336134 GCGGCCACTTTTTAGATTTTAGGAA 60.336 40.000 2.24 0.00 0.00 3.36
32 33 8.978539 GCCACTTTTTAGATTTTAGGAACAAAG 58.021 33.333 0.00 0.00 0.00 2.77
63 64 2.691526 CTGCCATGTATGTTCTGCCATT 59.308 45.455 0.00 0.00 0.00 3.16
79 80 2.746269 CCATTGCCACTGTTTCACTTG 58.254 47.619 0.00 0.00 0.00 3.16
247 254 1.432251 CTACCCTGTACTGACGGCG 59.568 63.158 4.80 4.80 0.00 6.46
273 280 5.064198 TGAAACACTTGTAAACAACGGAGAG 59.936 40.000 0.00 0.00 0.00 3.20
356 371 6.203338 TGGTAAAGTCGCTTGTTTACTTTAGG 59.797 38.462 7.05 0.00 42.98 2.69
362 377 6.428771 AGTCGCTTGTTTACTTTAGGCAAATA 59.571 34.615 0.00 0.00 0.00 1.40
405 520 3.871594 CGGATCCTTATCTTGTTGACACC 59.128 47.826 10.75 0.00 32.29 4.16
406 521 3.871594 GGATCCTTATCTTGTTGACACCG 59.128 47.826 3.84 0.00 32.29 4.94
407 522 4.382685 GGATCCTTATCTTGTTGACACCGA 60.383 45.833 3.84 0.00 32.29 4.69
408 523 3.921677 TCCTTATCTTGTTGACACCGAC 58.078 45.455 0.00 0.00 0.00 4.79
409 524 3.322541 TCCTTATCTTGTTGACACCGACA 59.677 43.478 0.00 0.00 34.97 4.35
410 525 3.432252 CCTTATCTTGTTGACACCGACAC 59.568 47.826 0.00 0.00 36.46 3.67
411 526 2.910688 ATCTTGTTGACACCGACACT 57.089 45.000 0.00 0.00 36.46 3.55
461 576 0.737715 AACTACACTGCGCTAGCTGC 60.738 55.000 20.03 20.03 44.79 5.25
505 653 3.102097 GCGCCTGCCTGTTCATAC 58.898 61.111 0.00 0.00 33.98 2.39
531 679 3.058160 CCAAAGCACGCAGAGGGG 61.058 66.667 0.00 0.00 0.00 4.79
698 920 7.011857 GTCAATTTGCAACAACCAGGAAAATAA 59.988 33.333 0.00 0.00 0.00 1.40
737 961 1.279271 CCCAACCAACCACAAACCAAA 59.721 47.619 0.00 0.00 0.00 3.28
738 962 2.626840 CCAACCAACCACAAACCAAAG 58.373 47.619 0.00 0.00 0.00 2.77
739 963 2.626840 CAACCAACCACAAACCAAAGG 58.373 47.619 0.00 0.00 0.00 3.11
740 964 2.234908 CAACCAACCACAAACCAAAGGA 59.765 45.455 0.00 0.00 0.00 3.36
741 965 2.541466 ACCAACCACAAACCAAAGGAA 58.459 42.857 0.00 0.00 0.00 3.36
765 989 2.503895 AGGGAAGAAAGTCAGCATGG 57.496 50.000 0.00 0.00 36.16 3.66
814 1043 3.075641 GAGACCCCCTGACCGACC 61.076 72.222 0.00 0.00 0.00 4.79
856 1106 0.949105 CAACCCTTCCGTTGTCCTCG 60.949 60.000 0.00 0.00 38.64 4.63
980 1238 2.335712 CCTTTCTGCCTTCGCCACC 61.336 63.158 0.00 0.00 0.00 4.61
1202 1473 2.330372 CCTTCTCCGACGACGACCA 61.330 63.158 9.28 0.00 42.66 4.02
1224 1496 6.735704 ACCACAAGCCCAAGGTATATATATCT 59.264 38.462 0.00 0.00 31.32 1.98
1260 1532 3.385433 TCCTCCGTCTAGTCTACTCTCTG 59.615 52.174 0.00 0.00 0.00 3.35
1300 1572 5.469084 GTGTGGAACTATTTCGAAAACCTCT 59.531 40.000 15.66 0.00 38.04 3.69
1301 1573 5.699458 TGTGGAACTATTTCGAAAACCTCTC 59.301 40.000 15.66 8.03 38.04 3.20
1302 1574 4.927425 TGGAACTATTTCGAAAACCTCTCG 59.073 41.667 15.66 0.00 37.66 4.04
1303 1575 5.166398 GGAACTATTTCGAAAACCTCTCGA 58.834 41.667 15.66 0.00 43.25 4.04
1489 1795 1.515954 CCGCGGTTGGTGTAGATCT 59.484 57.895 19.50 0.00 0.00 2.75
1501 1807 3.432933 GGTGTAGATCTATCGTCTCCGTC 59.567 52.174 5.57 0.00 35.01 4.79
1566 1878 0.609662 TAGGGAAGTTCGGGAAACGG 59.390 55.000 0.00 0.00 43.02 4.44
1639 1965 3.917760 GTGGAGATAGGGCGCGCT 61.918 66.667 32.29 30.50 0.00 5.92
1939 2276 5.321983 TGCAATGTTTCGTTTTGTTATGC 57.678 34.783 0.00 0.00 0.00 3.14
1940 2277 5.046529 TGCAATGTTTCGTTTTGTTATGCT 58.953 33.333 0.00 0.00 0.00 3.79
1980 2318 1.188791 CGCGTTGTCTCATGATGATCG 59.811 52.381 0.00 0.00 0.00 3.69
1981 2319 2.463876 GCGTTGTCTCATGATGATCGA 58.536 47.619 0.00 0.00 0.00 3.59
1982 2320 3.055591 GCGTTGTCTCATGATGATCGAT 58.944 45.455 0.00 0.00 0.00 3.59
1983 2321 3.120947 GCGTTGTCTCATGATGATCGATC 59.879 47.826 18.72 18.72 0.00 3.69
1985 2323 4.981054 CGTTGTCTCATGATGATCGATCTT 59.019 41.667 25.02 19.27 31.55 2.40
1986 2324 5.116831 CGTTGTCTCATGATGATCGATCTTC 59.883 44.000 26.38 26.38 31.55 2.87
1990 2328 8.120140 TGTCTCATGATGATCGATCTTCTTAT 57.880 34.615 30.30 19.42 33.53 1.73
2025 2363 3.120199 CGAATTCGTTGCCTCACAATCTT 60.120 43.478 19.67 0.00 41.27 2.40
2033 2371 1.680249 GCCTCACAATCTTCAGGGGTC 60.680 57.143 0.00 0.00 0.00 4.46
2063 2401 1.674962 GAAGATCAAGACCATGGCTGC 59.325 52.381 13.04 1.10 0.00 5.25
2148 2486 3.126001 TGCTTCACCAAAGAAGTCGAT 57.874 42.857 5.70 0.00 45.28 3.59
2204 2542 1.202463 AGCATCCTTCGACGAAGATGG 60.202 52.381 33.52 22.74 41.71 3.51
2309 2650 1.414245 CCTCTCCTCCATGGGTGAGAT 60.414 57.143 25.13 0.00 44.90 2.75
2555 2902 1.596934 GGACGATGAGGTGAAGGCA 59.403 57.895 0.00 0.00 0.00 4.75
2562 2909 1.123861 TGAGGTGAAGGCAGTGCTCT 61.124 55.000 16.11 7.70 0.00 4.09
2731 3131 1.268386 CGCCATGATTCACATCAGTGC 60.268 52.381 0.00 0.00 42.93 4.40
2747 3147 4.742201 GCGCTCTTCGTGCTGGGA 62.742 66.667 0.00 0.00 45.56 4.37
2774 3174 6.043411 GCACAAGAAATACTTCTCCTACGAT 58.957 40.000 0.00 0.00 41.23 3.73
2786 3186 0.941463 CCTACGATGATGCAGCCGAC 60.941 60.000 7.61 0.00 0.00 4.79
2843 3243 2.409651 CTGCGGGACTACGAGCTC 59.590 66.667 2.73 2.73 35.47 4.09
2890 3290 1.405821 GACCACAGACTAGTCCCATCG 59.594 57.143 19.38 6.19 0.00 3.84
3205 3615 6.933521 GCTCTGCTATCATCTTCCTTAAATGA 59.066 38.462 0.00 0.00 34.17 2.57
3221 3631 9.989296 TCCTTAAATGAATTCCCTTAGATTTCA 57.011 29.630 2.27 3.36 44.64 2.69
3287 3697 2.094575 TCACCTCAACGAACAAAACACG 59.905 45.455 0.00 0.00 0.00 4.49
3292 3702 2.479275 TCAACGAACAAAACACGACACA 59.521 40.909 0.00 0.00 0.00 3.72
3375 3785 6.094881 GCAGCTTGTATGGATTGGTAGTTTTA 59.905 38.462 0.00 0.00 0.00 1.52
3565 3976 6.490721 TCCAAAAATCATTAACGTGTAGGGTT 59.509 34.615 0.00 0.00 0.00 4.11
3673 4084 2.488153 GGATTGGGTTGTAGAGTGTTGC 59.512 50.000 0.00 0.00 0.00 4.17
3751 4162 3.803231 GTGGATGTGTACACGTGTTGTTA 59.197 43.478 28.55 11.92 39.91 2.41
3753 4164 4.687018 TGGATGTGTACACGTGTTGTTATC 59.313 41.667 28.55 22.42 39.91 1.75
3824 4235 8.617290 TTCTTCTTAATAAAAAGACGGAGCTT 57.383 30.769 0.00 0.00 35.25 3.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 0.170339 AATCTAAAAAGTGGCCGCGC 59.830 50.000 11.42 0.00 0.00 6.86
3 4 4.157105 TCCTAAAATCTAAAAAGTGGCCGC 59.843 41.667 8.71 8.71 0.00 6.53
4 5 5.890424 TCCTAAAATCTAAAAAGTGGCCG 57.110 39.130 0.00 0.00 0.00 6.13
5 6 6.988522 TGTTCCTAAAATCTAAAAAGTGGCC 58.011 36.000 0.00 0.00 0.00 5.36
6 7 8.880878 TTTGTTCCTAAAATCTAAAAAGTGGC 57.119 30.769 0.00 0.00 0.00 5.01
13 14 9.744468 GCTGTTTCTTTGTTCCTAAAATCTAAA 57.256 29.630 0.00 0.00 0.00 1.85
14 15 8.357402 GGCTGTTTCTTTGTTCCTAAAATCTAA 58.643 33.333 0.00 0.00 0.00 2.10
15 16 7.724061 AGGCTGTTTCTTTGTTCCTAAAATCTA 59.276 33.333 0.00 0.00 0.00 1.98
16 17 6.551227 AGGCTGTTTCTTTGTTCCTAAAATCT 59.449 34.615 0.00 0.00 0.00 2.40
17 18 6.749139 AGGCTGTTTCTTTGTTCCTAAAATC 58.251 36.000 0.00 0.00 0.00 2.17
18 19 6.551227 AGAGGCTGTTTCTTTGTTCCTAAAAT 59.449 34.615 0.00 0.00 0.00 1.82
19 20 5.891551 AGAGGCTGTTTCTTTGTTCCTAAAA 59.108 36.000 0.00 0.00 0.00 1.52
20 21 5.299279 CAGAGGCTGTTTCTTTGTTCCTAAA 59.701 40.000 0.00 0.00 0.00 1.85
21 22 4.821805 CAGAGGCTGTTTCTTTGTTCCTAA 59.178 41.667 0.00 0.00 0.00 2.69
22 23 4.389374 CAGAGGCTGTTTCTTTGTTCCTA 58.611 43.478 0.00 0.00 0.00 2.94
23 24 3.217626 CAGAGGCTGTTTCTTTGTTCCT 58.782 45.455 0.00 0.00 0.00 3.36
24 25 2.287849 GCAGAGGCTGTTTCTTTGTTCC 60.288 50.000 0.00 0.00 36.96 3.62
25 26 2.287849 GGCAGAGGCTGTTTCTTTGTTC 60.288 50.000 0.00 0.00 40.87 3.18
26 27 1.683385 GGCAGAGGCTGTTTCTTTGTT 59.317 47.619 0.00 0.00 40.87 2.83
27 28 1.322442 GGCAGAGGCTGTTTCTTTGT 58.678 50.000 0.00 0.00 40.87 2.83
32 33 2.113860 TACATGGCAGAGGCTGTTTC 57.886 50.000 0.00 0.00 40.87 2.78
37 38 1.842562 AGAACATACATGGCAGAGGCT 59.157 47.619 0.00 0.00 40.87 4.58
63 64 2.880268 CTGATCAAGTGAAACAGTGGCA 59.120 45.455 0.00 0.00 41.43 4.92
79 80 0.036388 TCCGTTTGTGCCCTCTGATC 60.036 55.000 0.00 0.00 0.00 2.92
247 254 5.812652 TCCGTTGTTTACAAGTGTTTCATC 58.187 37.500 0.00 0.00 36.39 2.92
356 371 3.528532 AGCTACTGTACCGGTTATTTGC 58.471 45.455 15.04 11.19 0.00 3.68
362 377 2.289257 GGAACAAGCTACTGTACCGGTT 60.289 50.000 15.04 0.00 0.00 4.44
406 521 1.828331 GACCAAACGGCGACAGTGTC 61.828 60.000 16.62 13.56 0.00 3.67
407 522 1.885850 GACCAAACGGCGACAGTGT 60.886 57.895 16.62 0.00 0.00 3.55
408 523 1.227999 ATGACCAAACGGCGACAGTG 61.228 55.000 16.62 5.37 0.00 3.66
409 524 0.534203 AATGACCAAACGGCGACAGT 60.534 50.000 16.62 4.96 0.00 3.55
410 525 0.110238 CAATGACCAAACGGCGACAG 60.110 55.000 16.62 1.55 0.00 3.51
411 526 1.511318 CCAATGACCAAACGGCGACA 61.511 55.000 16.62 4.05 0.00 4.35
501 649 4.494199 GCGTGCTTTGGCTAAAGTAGTATG 60.494 45.833 21.80 12.85 44.11 2.39
502 650 3.621715 GCGTGCTTTGGCTAAAGTAGTAT 59.378 43.478 21.80 0.00 44.11 2.12
503 651 2.997986 GCGTGCTTTGGCTAAAGTAGTA 59.002 45.455 21.80 5.80 44.11 1.82
504 652 1.804748 GCGTGCTTTGGCTAAAGTAGT 59.195 47.619 21.80 0.00 44.11 2.73
505 653 1.804151 TGCGTGCTTTGGCTAAAGTAG 59.196 47.619 21.80 14.57 44.11 2.57
531 679 6.577103 TCAGTATTGATTCTCATGTCCACTC 58.423 40.000 0.00 0.00 0.00 3.51
548 696 4.917906 AAGCCTCAGTTCCTTCAGTATT 57.082 40.909 0.00 0.00 0.00 1.89
549 697 4.917906 AAAGCCTCAGTTCCTTCAGTAT 57.082 40.909 0.00 0.00 0.00 2.12
550 698 4.706842 AAAAGCCTCAGTTCCTTCAGTA 57.293 40.909 0.00 0.00 0.00 2.74
551 699 3.584733 AAAAGCCTCAGTTCCTTCAGT 57.415 42.857 0.00 0.00 0.00 3.41
698 920 7.070571 TGGTTGGGTCATTGTTTCTCTTTTTAT 59.929 33.333 0.00 0.00 0.00 1.40
714 938 1.187087 GTTTGTGGTTGGTTGGGTCA 58.813 50.000 0.00 0.00 0.00 4.02
737 961 2.645297 GACTTTCTTCCCTTCCCTTCCT 59.355 50.000 0.00 0.00 0.00 3.36
738 962 2.375509 TGACTTTCTTCCCTTCCCTTCC 59.624 50.000 0.00 0.00 0.00 3.46
739 963 3.680490 CTGACTTTCTTCCCTTCCCTTC 58.320 50.000 0.00 0.00 0.00 3.46
740 964 2.224892 GCTGACTTTCTTCCCTTCCCTT 60.225 50.000 0.00 0.00 0.00 3.95
741 965 1.352687 GCTGACTTTCTTCCCTTCCCT 59.647 52.381 0.00 0.00 0.00 4.20
814 1043 4.023536 GCCAGAAAGATAGTCTCGGAGTAG 60.024 50.000 4.69 0.00 0.00 2.57
1202 1473 6.353082 GCCAGATATATATACCTTGGGCTTGT 60.353 42.308 7.85 0.00 34.94 3.16
1224 1496 0.104934 GGAGGAAGGGAGGATAGCCA 60.105 60.000 0.00 0.00 36.29 4.75
1260 1532 2.049985 ACGGATCTCGCGCATAGC 60.050 61.111 8.75 0.00 43.89 2.97
1302 1574 4.814294 AACGCCACGCCTCCGATC 62.814 66.667 0.00 0.00 38.29 3.69
1424 1719 1.204941 CGTACCCTCCCAACTTGAGAG 59.795 57.143 0.00 0.00 31.26 3.20
1425 1720 1.263356 CGTACCCTCCCAACTTGAGA 58.737 55.000 0.00 0.00 31.26 3.27
1532 1844 0.386113 CCCTAACAGCTCTAGGACGC 59.614 60.000 16.91 0.00 38.63 5.19
1536 1848 3.181485 CGAACTTCCCTAACAGCTCTAGG 60.181 52.174 10.42 10.42 36.44 3.02
1618 1930 3.043419 CGCCCTATCTCCACGAGG 58.957 66.667 0.00 0.00 0.00 4.63
1639 1965 4.293648 CGAGGCACACACCGACCA 62.294 66.667 0.00 0.00 33.69 4.02
1939 2276 5.051641 CGCGGTTTAAGCTAACAGATCTAAG 60.052 44.000 0.00 0.00 0.00 2.18
1940 2277 4.802039 CGCGGTTTAAGCTAACAGATCTAA 59.198 41.667 0.00 0.00 0.00 2.10
1997 2335 2.223595 TGAGGCAACGAATTCGCAAAAA 60.224 40.909 27.03 5.07 44.43 1.94
2014 2352 1.065126 GGACCCCTGAAGATTGTGAGG 60.065 57.143 0.00 0.00 0.00 3.86
2033 2371 0.249238 CTTGATCTTCTCCGCCGAGG 60.249 60.000 2.12 0.00 42.97 4.63
2188 2526 1.956629 GCCCCATCTTCGTCGAAGGA 61.957 60.000 29.52 18.67 39.82 3.36
2204 2542 0.672342 GATCAGCATGTTGATGGCCC 59.328 55.000 27.25 10.87 37.90 5.80
2290 2631 1.969923 GATCTCACCCATGGAGGAGAG 59.030 57.143 28.01 21.06 38.90 3.20
2555 2902 2.486203 CGTGAGAGTCTTGTAGAGCACT 59.514 50.000 0.00 0.00 0.00 4.40
2562 2909 2.085320 GAGGAGCGTGAGAGTCTTGTA 58.915 52.381 0.00 0.00 0.00 2.41
2622 2969 0.602638 CGCACCTTGTAGAACAGGCA 60.603 55.000 0.00 0.00 0.00 4.75
2744 3144 4.327680 AGAAGTATTTCTTGTGCTGTCCC 58.672 43.478 0.00 0.00 40.79 4.46
2747 3147 5.234466 AGGAGAAGTATTTCTTGTGCTGT 57.766 39.130 1.61 0.00 43.93 4.40
2759 3159 4.321601 GCTGCATCATCGTAGGAGAAGTAT 60.322 45.833 0.00 0.00 0.00 2.12
2774 3174 0.528466 GAGAATCGTCGGCTGCATCA 60.528 55.000 0.50 0.00 0.00 3.07
2786 3186 1.411977 AGTGAGGCCATGAGAGAATCG 59.588 52.381 5.01 0.00 42.67 3.34
2890 3290 1.472188 AGGCGGTAACAGGTAGAGTC 58.528 55.000 0.00 0.00 0.00 3.36
3205 3615 7.797121 ACCAATGTTGAAATCTAAGGGAATT 57.203 32.000 0.00 0.00 0.00 2.17
3221 3631 6.844097 AACCGGATTACATAAACCAATGTT 57.156 33.333 9.46 0.00 40.52 2.71
3223 3633 9.243637 CAAATAACCGGATTACATAAACCAATG 57.756 33.333 9.46 0.00 0.00 2.82
3287 3697 1.165270 CGTCTTTGGGGGATTGTGTC 58.835 55.000 0.00 0.00 0.00 3.67
3292 3702 0.035056 CTGCTCGTCTTTGGGGGATT 60.035 55.000 0.00 0.00 0.00 3.01
3375 3785 1.745115 CACCCGCATGACCAACGAT 60.745 57.895 0.00 0.00 0.00 3.73
3565 3976 3.747735 TGGAACGCCCAAAACCATA 57.252 47.368 0.00 0.00 43.29 2.74
3673 4084 1.139853 GAACATCCAGGTGGCTAGAGG 59.860 57.143 0.00 0.00 34.44 3.69
3751 4162 4.755411 AGTGGTCGAAAACATGATACGAT 58.245 39.130 0.00 0.00 35.57 3.73
3753 4164 4.921470 AAGTGGTCGAAAACATGATACG 57.079 40.909 0.00 0.00 0.00 3.06
3798 4209 8.794335 AGCTCCGTCTTTTTATTAAGAAGAAT 57.206 30.769 10.12 0.00 36.22 2.40
3824 4235 4.874199 ACCTTTTCCTAGGAACCAACAAA 58.126 39.130 24.21 13.09 38.73 2.83


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

AutoCloner maintained by Alex Coulton.