Multiple sequence alignment - TraesCS3A01G149500

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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 TraesCS3A01G149500 chr3A 100.000 4525 0 0 1 4525 134599661 134604185 0.000000e+00 8357
1 TraesCS3A01G149500 chr3B 94.132 2471 94 27 1 2441 179670442 179672891 0.000000e+00 3712
2 TraesCS3A01G149500 chr3B 93.888 949 46 5 2431 3368 179672933 179673880 0.000000e+00 1421
3 TraesCS3A01G149500 chr3B 94.413 537 26 4 3364 3898 179673962 179674496 0.000000e+00 822
4 TraesCS3A01G149500 chr3B 94.083 169 8 2 4359 4525 179674608 179674776 5.810000e-64 255
5 TraesCS3A01G149500 chr3B 97.414 116 3 0 3941 4056 179674496 179674611 9.930000e-47 198
6 TraesCS3A01G149500 chr3D 93.761 2292 104 18 167 2441 125773335 125775604 0.000000e+00 3404
7 TraesCS3A01G149500 chr3D 92.357 942 55 5 2431 3362 125775642 125776576 0.000000e+00 1325
8 TraesCS3A01G149500 chr3D 93.989 549 22 5 3941 4478 125777488 125778036 0.000000e+00 821
9 TraesCS3A01G149500 chr3D 92.989 542 24 8 3365 3898 125776953 125777488 0.000000e+00 778
10 TraesCS3A01G149500 chr3D 90.476 189 14 4 1 187 125773132 125773318 3.500000e-61 246


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 TraesCS3A01G149500 chr3A 134599661 134604185 4524 False 8357.0 8357 100.0000 1 4525 1 chr3A.!!$F1 4524
1 TraesCS3A01G149500 chr3B 179670442 179674776 4334 False 1281.6 3712 94.7860 1 4525 5 chr3B.!!$F1 4524
2 TraesCS3A01G149500 chr3D 125773132 125778036 4904 False 1314.8 3404 92.7144 1 4478 5 chr3D.!!$F1 4477

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
504 550 0.894141 CGCATGCTAGCTCCTCCTAT 59.106 55.000 17.13 0.0 0.00 2.57 F
1345 1403 1.213619 TCCCACTCATGCCATTCCCA 61.214 55.000 0.00 0.0 0.00 4.37 F
1744 1802 1.346068 GAAGTGTCTCTGGACCTTGCT 59.654 52.381 0.00 0.0 41.47 3.91 F
3393 3993 0.034756 TCAGGCTAGCACGCTTCAAA 59.965 50.000 18.24 0.0 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2401 2475 0.623723 GGGCCCACACAAATAGGAGA 59.376 55.000 19.95 0.0 0.00 3.71 R
3335 3473 0.181114 TGATCTGGCATGCCTACACC 59.819 55.000 35.53 20.7 36.94 4.16 R
3400 4000 2.673258 TGAGTGTACAAGTGTGAGGGA 58.327 47.619 0.00 0.0 0.00 4.20 R
4442 5062 0.613777 CTAACTCACACACCCCTCCC 59.386 60.000 0.00 0.0 0.00 4.30 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
65 66 2.813179 GCTAGCCGCAACGACCATG 61.813 63.158 2.29 0.00 38.92 3.66
101 103 3.821033 AGAGTTTGTTTGAGAATTCCGGG 59.179 43.478 0.00 0.00 0.00 5.73
120 122 4.343814 CCGGGCAAATAAGTTGGGATAAAT 59.656 41.667 0.00 0.00 37.73 1.40
121 123 5.163353 CCGGGCAAATAAGTTGGGATAAATT 60.163 40.000 0.00 0.00 37.73 1.82
219 260 1.066908 ACAAACACAGGTTCCATTGCG 59.933 47.619 0.00 0.00 35.82 4.85
223 264 1.280710 ACACAGGTTCCATTGCGGATA 59.719 47.619 0.00 0.00 45.80 2.59
225 266 1.134098 ACAGGTTCCATTGCGGATAGG 60.134 52.381 0.00 0.00 45.80 2.57
295 337 2.496817 GGTAGTCGAGGCTGGCAG 59.503 66.667 10.94 10.94 0.00 4.85
368 413 9.974980 ACAAACAAACAAATCGAATATAAACCT 57.025 25.926 0.00 0.00 0.00 3.50
423 468 3.787001 GTGCCTTCTCCCTCCCCG 61.787 72.222 0.00 0.00 0.00 5.73
504 550 0.894141 CGCATGCTAGCTCCTCCTAT 59.106 55.000 17.13 0.00 0.00 2.57
511 557 2.888414 GCTAGCTCCTCCTATTCTCGTT 59.112 50.000 7.70 0.00 0.00 3.85
546 592 6.180472 AGTTAAGGATCAACCCATACACAAG 58.820 40.000 0.00 0.00 40.05 3.16
618 664 1.692749 GGACAGCCAGATACCCCCA 60.693 63.158 0.00 0.00 0.00 4.96
647 699 2.290323 GCATCTAACACAGACCCTGGTT 60.290 50.000 0.00 0.00 35.62 3.67
743 801 6.461927 GCAAGCAATATTCCAATCCAAGATCA 60.462 38.462 0.00 0.00 0.00 2.92
758 816 1.474077 AGATCAAAATGCCGCTGAACC 59.526 47.619 0.00 0.00 0.00 3.62
874 932 1.797025 GAACAACAGTTCCGCTAGCT 58.203 50.000 13.93 0.00 36.49 3.32
933 991 3.717707 CTTCGCGGGATGAGAAATAGAA 58.282 45.455 6.13 0.00 35.89 2.10
935 993 2.429250 TCGCGGGATGAGAAATAGAACA 59.571 45.455 6.13 0.00 0.00 3.18
937 995 3.246226 CGCGGGATGAGAAATAGAACAAG 59.754 47.826 0.00 0.00 0.00 3.16
965 1023 8.306761 CCACAGATATGTGACTGCTTATATACA 58.693 37.037 21.78 0.00 42.02 2.29
966 1024 9.133627 CACAGATATGTGACTGCTTATATACAC 57.866 37.037 15.42 0.00 42.02 2.90
981 1039 8.430431 GCTTATATACACCTTAACCTCTTCCTT 58.570 37.037 0.00 0.00 0.00 3.36
1009 1067 5.451381 CGACCACAGTGGATAGCAAATAGTA 60.451 44.000 27.39 0.00 40.96 1.82
1155 1213 2.047655 TGTCGACAACATCCCCGC 60.048 61.111 17.62 0.00 31.20 6.13
1174 1232 2.569657 CCGGTCGTCATCGTTGGA 59.430 61.111 0.00 0.00 38.33 3.53
1264 1322 1.884926 GTGTAGCTGCATCGGCTCC 60.885 63.158 8.05 0.00 43.23 4.70
1345 1403 1.213619 TCCCACTCATGCCATTCCCA 61.214 55.000 0.00 0.00 0.00 4.37
1367 1425 3.384532 GCTTCCCCACGTACCCGA 61.385 66.667 0.00 0.00 37.88 5.14
1741 1799 2.103153 TGGAAGTGTCTCTGGACCTT 57.897 50.000 0.00 0.00 41.47 3.50
1744 1802 1.346068 GAAGTGTCTCTGGACCTTGCT 59.654 52.381 0.00 0.00 41.47 3.91
1747 1805 3.177228 AGTGTCTCTGGACCTTGCTAAT 58.823 45.455 0.00 0.00 41.47 1.73
1828 1886 7.885297 TCTTTGGAATTGATCGAACATTTCTT 58.115 30.769 21.80 5.53 33.48 2.52
1829 1887 9.008965 TCTTTGGAATTGATCGAACATTTCTTA 57.991 29.630 21.80 13.13 33.48 2.10
1830 1888 9.793252 CTTTGGAATTGATCGAACATTTCTTAT 57.207 29.630 21.80 1.04 33.48 1.73
1831 1889 9.787532 TTTGGAATTGATCGAACATTTCTTATC 57.212 29.630 21.80 11.25 33.48 1.75
1897 1955 7.200455 ACAAAGCACACCACTTTAGAAATTAC 58.800 34.615 0.00 0.00 35.62 1.89
1905 1963 8.603304 ACACCACTTTAGAAATTACTGAGGTAT 58.397 33.333 0.00 0.00 0.00 2.73
1926 1985 7.615365 AGGTATTTCTTTTCTATGCAATCACCA 59.385 33.333 0.00 0.00 0.00 4.17
2184 2246 9.426837 CACCACATAATTGACATGATTTTTCTT 57.573 29.630 0.00 0.00 0.00 2.52
2250 2313 5.445069 ACATATTAACCAATGCTAGCACCA 58.555 37.500 22.07 0.00 0.00 4.17
2356 2429 4.398358 CGAGGCATACTATTTATCTCCGGA 59.602 45.833 2.93 2.93 0.00 5.14
2401 2475 5.689383 ATGATAACAACAAAAGTCGCAGT 57.311 34.783 0.00 0.00 0.00 4.40
2617 2754 1.420138 CAGGTGGTTCCCTGTACAAGT 59.580 52.381 0.00 0.00 45.81 3.16
2625 2762 4.142038 GTTCCCTGTACAAGTTGTGGATT 58.858 43.478 18.90 0.00 0.00 3.01
2628 2765 2.228822 CCTGTACAAGTTGTGGATTGGC 59.771 50.000 18.90 1.24 0.00 4.52
2884 3021 5.083122 TCTTGGATAATGCAGGTTTTTCCA 58.917 37.500 6.61 6.61 39.02 3.53
2922 3059 2.778299 TGAGCATGGTGTGGAGTTTAC 58.222 47.619 0.00 0.00 0.00 2.01
3052 3189 4.968626 TGTTACAATCGCATGCAAGTAAG 58.031 39.130 19.57 4.44 0.00 2.34
3053 3190 4.454161 TGTTACAATCGCATGCAAGTAAGT 59.546 37.500 19.57 10.25 0.00 2.24
3174 3312 2.833943 TCTCTATGCTGTTGGCTTCTCA 59.166 45.455 0.00 0.00 42.39 3.27
3192 3330 1.777878 TCAAGGGGTGGACTTTTAGCA 59.222 47.619 0.00 0.00 0.00 3.49
3209 3347 7.557719 ACTTTTAGCAGTGTATAAGGATGCAAT 59.442 33.333 0.00 0.00 39.34 3.56
3254 3392 6.375945 TCAACAATGGCATGATATGTGTAC 57.624 37.500 0.00 0.00 0.00 2.90
3331 3469 7.815398 TCAAATTATTTCGCGTACTAGTCAA 57.185 32.000 5.77 0.00 0.00 3.18
3335 3473 7.624706 ATTATTTCGCGTACTAGTCAATCTG 57.375 36.000 5.77 0.00 0.00 2.90
3356 3496 1.139654 GTGTAGGCATGCCAGATCAGA 59.860 52.381 37.18 13.05 38.92 3.27
3393 3993 0.034756 TCAGGCTAGCACGCTTCAAA 59.965 50.000 18.24 0.00 0.00 2.69
3882 4490 7.739498 TCAGGTAACCAGTTTACTCATTTTC 57.261 36.000 0.00 0.00 40.18 2.29
3898 4507 5.708948 TCATTTTCTTAAGTGGGCAATTCG 58.291 37.500 1.63 0.00 0.00 3.34
3899 4508 4.513198 TTTTCTTAAGTGGGCAATTCGG 57.487 40.909 1.63 0.00 0.00 4.30
3900 4509 2.871096 TCTTAAGTGGGCAATTCGGT 57.129 45.000 1.63 0.00 0.00 4.69
3901 4510 3.985019 TCTTAAGTGGGCAATTCGGTA 57.015 42.857 1.63 0.00 0.00 4.02
3902 4511 4.289238 TCTTAAGTGGGCAATTCGGTAA 57.711 40.909 1.63 0.00 0.00 2.85
3903 4512 4.258543 TCTTAAGTGGGCAATTCGGTAAG 58.741 43.478 1.63 0.00 0.00 2.34
3904 4513 2.579410 AAGTGGGCAATTCGGTAAGT 57.421 45.000 0.00 0.00 0.00 2.24
3905 4514 1.821216 AGTGGGCAATTCGGTAAGTG 58.179 50.000 0.00 0.00 33.85 3.16
3923 4532 3.691049 GTGCAACTCAGTAAGTTTGCA 57.309 42.857 3.80 3.80 46.26 4.08
3924 4533 3.621794 GTGCAACTCAGTAAGTTTGCAG 58.378 45.455 8.04 0.00 46.26 4.41
3925 4534 3.065371 GTGCAACTCAGTAAGTTTGCAGT 59.935 43.478 8.04 0.00 46.26 4.40
3926 4535 4.272504 GTGCAACTCAGTAAGTTTGCAGTA 59.727 41.667 8.04 0.00 46.26 2.74
3927 4536 4.878971 TGCAACTCAGTAAGTTTGCAGTAA 59.121 37.500 3.80 0.00 46.26 2.24
3928 4537 5.205565 GCAACTCAGTAAGTTTGCAGTAAC 58.794 41.667 0.40 0.00 46.26 2.50
3929 4538 5.748592 CAACTCAGTAAGTTTGCAGTAACC 58.251 41.667 0.00 0.00 46.26 2.85
3930 4539 5.031066 ACTCAGTAAGTTTGCAGTAACCA 57.969 39.130 0.00 0.00 33.03 3.67
3931 4540 5.621193 ACTCAGTAAGTTTGCAGTAACCAT 58.379 37.500 0.00 0.00 33.03 3.55
3932 4541 6.062095 ACTCAGTAAGTTTGCAGTAACCATT 58.938 36.000 0.00 0.00 33.03 3.16
3933 4542 6.546034 ACTCAGTAAGTTTGCAGTAACCATTT 59.454 34.615 0.00 0.00 33.03 2.32
3934 4543 7.068226 ACTCAGTAAGTTTGCAGTAACCATTTT 59.932 33.333 0.00 0.00 33.03 1.82
3935 4544 7.422399 TCAGTAAGTTTGCAGTAACCATTTTC 58.578 34.615 0.00 0.00 0.00 2.29
3936 4545 7.284489 TCAGTAAGTTTGCAGTAACCATTTTCT 59.716 33.333 0.00 0.00 0.00 2.52
3937 4546 7.920682 CAGTAAGTTTGCAGTAACCATTTTCTT 59.079 33.333 0.00 0.00 0.00 2.52
3938 4547 9.127277 AGTAAGTTTGCAGTAACCATTTTCTTA 57.873 29.630 0.00 0.00 0.00 2.10
3939 4548 9.738832 GTAAGTTTGCAGTAACCATTTTCTTAA 57.261 29.630 0.00 0.00 0.00 1.85
3940 4549 8.642908 AAGTTTGCAGTAACCATTTTCTTAAC 57.357 30.769 0.00 0.00 0.00 2.01
4070 4683 7.957002 TGTTTCCATTATGCTTTAAACCTTGA 58.043 30.769 0.00 0.00 0.00 3.02
4071 4684 7.870445 TGTTTCCATTATGCTTTAAACCTTGAC 59.130 33.333 0.00 0.00 0.00 3.18
4072 4685 7.531857 TTCCATTATGCTTTAAACCTTGACA 57.468 32.000 0.00 0.00 0.00 3.58
4073 4686 7.716799 TCCATTATGCTTTAAACCTTGACAT 57.283 32.000 0.00 0.00 0.00 3.06
4074 4687 8.133024 TCCATTATGCTTTAAACCTTGACATT 57.867 30.769 0.00 0.00 0.00 2.71
4165 4783 9.817809 AGACGAGATTTAATAGTATTGCAAAGA 57.182 29.630 1.71 0.00 0.00 2.52
4176 4794 4.870426 AGTATTGCAAAGATGTACACCGAG 59.130 41.667 1.71 0.00 0.00 4.63
4246 4864 6.818644 CCTTGTGTATATAGTTGTGCAAGTCT 59.181 38.462 0.00 0.00 32.66 3.24
4249 4867 9.713713 TTGTGTATATAGTTGTGCAAGTCTTTA 57.286 29.630 0.00 0.00 0.00 1.85
4281 4899 8.479313 CATATTTTGCTAGCGTCCATATTCTA 57.521 34.615 10.77 0.00 0.00 2.10
4286 4904 4.039245 TGCTAGCGTCCATATTCTAAAGCT 59.961 41.667 10.77 0.00 37.48 3.74
4346 4964 1.475682 CATCCCTGCTCTTTGGCTTTC 59.524 52.381 0.00 0.00 0.00 2.62
4353 4971 1.541588 GCTCTTTGGCTTTCCACGAAT 59.458 47.619 0.00 0.00 43.33 3.34
4355 4973 3.181506 GCTCTTTGGCTTTCCACGAATAG 60.182 47.826 0.00 0.00 43.33 1.73
4356 4974 2.747446 TCTTTGGCTTTCCACGAATAGC 59.253 45.455 0.00 0.00 43.33 2.97
4357 4975 2.192664 TTGGCTTTCCACGAATAGCA 57.807 45.000 0.00 0.00 43.33 3.49
4420 5039 4.189231 CCTTCATTTTCCCACTACGTAGG 58.811 47.826 25.63 14.44 0.00 3.18
4442 5062 2.101249 GGAATCAGAGAGACTGGAGCTG 59.899 54.545 0.00 0.00 45.76 4.24
4478 5098 5.163405 TGAGTTAGGCTGGTGATCTATTGTC 60.163 44.000 0.00 0.00 0.00 3.18
4480 5100 5.367937 AGTTAGGCTGGTGATCTATTGTCAT 59.632 40.000 0.00 0.00 0.00 3.06
4510 5130 5.380043 AGTGTTCCATTCAACTGAAGTGAT 58.620 37.500 0.00 0.00 37.48 3.06
4514 5134 5.183530 TCCATTCAACTGAAGTGATCCAT 57.816 39.130 0.00 0.00 37.48 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.873591 GTGCGCCCTGTTATTCTATGG 59.126 52.381 4.18 0.00 0.00 2.74
65 66 5.606348 ACAAACTCTGGTCAGATAGATCC 57.394 43.478 0.75 0.00 36.76 3.36
101 103 8.817100 GTGCTTAATTTATCCCAACTTATTTGC 58.183 33.333 0.00 0.00 33.34 3.68
120 122 5.831702 TTTTTGTTCTAACCCGTGCTTAA 57.168 34.783 0.00 0.00 0.00 1.85
311 355 1.489649 TCGGTTAGTGGTTGGTTTGGA 59.510 47.619 0.00 0.00 0.00 3.53
367 412 7.251704 TCGAGGAACCGTAGTTATAGTTTAG 57.748 40.000 0.00 0.00 35.94 1.85
368 413 7.807977 ATCGAGGAACCGTAGTTATAGTTTA 57.192 36.000 0.00 0.00 35.94 2.01
369 414 6.705863 ATCGAGGAACCGTAGTTATAGTTT 57.294 37.500 0.00 0.00 35.94 2.66
370 415 6.501781 CAATCGAGGAACCGTAGTTATAGTT 58.498 40.000 0.00 0.00 35.94 2.24
375 420 2.159198 GGCAATCGAGGAACCGTAGTTA 60.159 50.000 0.00 0.00 35.94 2.24
376 421 1.405121 GGCAATCGAGGAACCGTAGTT 60.405 52.381 0.00 0.00 39.54 2.24
377 422 0.175073 GGCAATCGAGGAACCGTAGT 59.825 55.000 0.00 0.00 0.00 2.73
378 423 0.460311 AGGCAATCGAGGAACCGTAG 59.540 55.000 0.00 0.00 0.00 3.51
379 424 0.458669 GAGGCAATCGAGGAACCGTA 59.541 55.000 0.00 0.00 0.00 4.02
380 425 1.218316 GAGGCAATCGAGGAACCGT 59.782 57.895 0.00 0.00 0.00 4.83
381 426 1.521681 GGAGGCAATCGAGGAACCG 60.522 63.158 0.00 0.00 0.00 4.44
504 550 2.337361 TCGTGGAGCAGAACGAGAA 58.663 52.632 3.98 0.00 43.40 2.87
511 557 1.919240 TCCTTAACTCGTGGAGCAGA 58.081 50.000 0.00 0.00 32.04 4.26
546 592 7.256756 TCGGATAACTAACTAGTAGCACTTC 57.743 40.000 0.00 0.00 34.99 3.01
618 664 3.372206 GTCTGTGTTAGATGCATCGCTTT 59.628 43.478 20.67 6.23 37.83 3.51
647 699 1.989966 GCGCTAGCAGTCGTCACCTA 61.990 60.000 16.45 0.00 44.35 3.08
743 801 1.966762 CTGGGTTCAGCGGCATTTT 59.033 52.632 1.45 0.00 33.86 1.82
758 816 1.201429 AAGTAGGGAGTGGTGGCTGG 61.201 60.000 0.00 0.00 0.00 4.85
787 845 1.261238 CCTCCTCTCGGCTGGTTTCT 61.261 60.000 0.00 0.00 0.00 2.52
874 932 2.683933 GGAGCGGTGGAGGAGGAA 60.684 66.667 0.00 0.00 0.00 3.36
965 1023 4.081586 GTCGATCAAGGAAGAGGTTAAGGT 60.082 45.833 0.00 0.00 0.00 3.50
966 1024 4.434520 GTCGATCAAGGAAGAGGTTAAGG 58.565 47.826 0.00 0.00 0.00 2.69
981 1039 1.409064 GCTATCCACTGTGGTCGATCA 59.591 52.381 25.15 6.42 39.03 2.92
1024 1082 4.529219 ATGATGAAGCGGCGGCGA 62.529 61.111 36.87 15.10 46.35 5.54
1035 1093 2.208326 CATGACGTCGTGGATGATGA 57.792 50.000 26.79 0.00 0.00 2.92
1345 1403 1.612676 GGTACGTGGGGAAGCTTTTT 58.387 50.000 0.00 0.00 0.00 1.94
1651 1709 2.277756 CCGCTACGGTACTCGCAC 60.278 66.667 0.00 0.00 42.73 5.34
1741 1799 7.395190 AGAAGTTATTGCATTGTGATTAGCA 57.605 32.000 0.00 0.00 34.79 3.49
1744 1802 9.407380 ACCATAGAAGTTATTGCATTGTGATTA 57.593 29.630 0.00 0.00 0.00 1.75
1747 1805 7.176515 ACAACCATAGAAGTTATTGCATTGTGA 59.823 33.333 0.00 0.00 0.00 3.58
1897 1955 8.896744 TGATTGCATAGAAAAGAAATACCTCAG 58.103 33.333 0.00 0.00 0.00 3.35
1905 1963 7.230849 ACATGGTGATTGCATAGAAAAGAAA 57.769 32.000 0.00 0.00 0.00 2.52
2068 2129 5.528043 TGTGGCAAAACAATTACATCACT 57.472 34.783 0.00 0.00 0.00 3.41
2069 2130 6.783892 AATGTGGCAAAACAATTACATCAC 57.216 33.333 0.00 0.00 32.81 3.06
2347 2420 4.545208 TGTGTGAAAATGTCCGGAGATA 57.455 40.909 15.48 0.00 0.00 1.98
2401 2475 0.623723 GGGCCCACACAAATAGGAGA 59.376 55.000 19.95 0.00 0.00 3.71
2615 2752 1.707427 AGGAGAAGCCAATCCACAACT 59.293 47.619 1.94 0.00 40.02 3.16
2617 2754 2.978156 AAGGAGAAGCCAATCCACAA 57.022 45.000 1.94 0.00 40.02 3.33
2625 2762 1.845791 TGCCATCATAAGGAGAAGCCA 59.154 47.619 0.00 0.00 40.02 4.75
2628 2765 1.869767 GCGTGCCATCATAAGGAGAAG 59.130 52.381 0.00 0.00 0.00 2.85
2884 3021 1.202758 TCATGAAAACACCGCACTCCT 60.203 47.619 0.00 0.00 0.00 3.69
2948 3085 5.772672 TGTAACCTGTGGCAAGAATAACAAT 59.227 36.000 0.00 0.00 0.00 2.71
3174 3312 1.780919 ACTGCTAAAAGTCCACCCCTT 59.219 47.619 0.00 0.00 0.00 3.95
3192 3330 7.743749 AGATCTTGATTGCATCCTTATACACT 58.256 34.615 0.00 0.00 0.00 3.55
3209 3347 7.666063 TGAACAATATCCTCTGAGATCTTGA 57.334 36.000 6.17 0.00 35.20 3.02
3242 3380 6.265422 TCTCACATCTTCCGTACACATATCAT 59.735 38.462 0.00 0.00 0.00 2.45
3254 3392 4.560128 TGAAGTTTCTCTCACATCTTCCG 58.440 43.478 0.00 0.00 32.93 4.30
3331 3469 2.310251 TGGCATGCCTACACCAGAT 58.690 52.632 35.53 0.00 36.94 2.90
3335 3473 0.181114 TGATCTGGCATGCCTACACC 59.819 55.000 35.53 20.70 36.94 4.16
3356 3496 7.493499 AGCCTGATCTAGTTATATGCATCTT 57.507 36.000 0.19 0.00 0.00 2.40
3400 4000 2.673258 TGAGTGTACAAGTGTGAGGGA 58.327 47.619 0.00 0.00 0.00 4.20
3806 4414 7.172875 TCAGCTACTACTCGAACATTCTATACC 59.827 40.741 0.00 0.00 0.00 2.73
3854 4462 5.362263 TGAGTAAACTGGTTACCTGAACAC 58.638 41.667 15.16 8.56 42.80 3.32
3882 4490 4.007659 ACTTACCGAATTGCCCACTTAAG 58.992 43.478 0.00 0.00 0.00 1.85
3908 4517 5.031066 TGGTTACTGCAAACTTACTGAGT 57.969 39.130 1.52 0.00 41.47 3.41
3909 4518 6.560253 AATGGTTACTGCAAACTTACTGAG 57.440 37.500 1.52 0.00 0.00 3.35
3910 4519 6.952773 AAATGGTTACTGCAAACTTACTGA 57.047 33.333 1.52 0.00 0.00 3.41
3911 4520 7.425606 AGAAAATGGTTACTGCAAACTTACTG 58.574 34.615 1.52 0.00 0.00 2.74
3912 4521 7.582667 AGAAAATGGTTACTGCAAACTTACT 57.417 32.000 1.52 0.00 0.00 2.24
3913 4522 9.738832 TTAAGAAAATGGTTACTGCAAACTTAC 57.261 29.630 1.52 0.00 0.00 2.34
3914 4523 9.738832 GTTAAGAAAATGGTTACTGCAAACTTA 57.261 29.630 1.52 0.00 0.00 2.24
3915 4524 7.709182 GGTTAAGAAAATGGTTACTGCAAACTT 59.291 33.333 1.52 0.00 0.00 2.66
3916 4525 7.147811 TGGTTAAGAAAATGGTTACTGCAAACT 60.148 33.333 1.52 0.00 0.00 2.66
3917 4526 6.981559 TGGTTAAGAAAATGGTTACTGCAAAC 59.018 34.615 0.00 0.00 0.00 2.93
3918 4527 7.113658 TGGTTAAGAAAATGGTTACTGCAAA 57.886 32.000 0.00 0.00 0.00 3.68
3919 4528 6.716934 TGGTTAAGAAAATGGTTACTGCAA 57.283 33.333 0.00 0.00 0.00 4.08
3920 4529 6.719370 AGATGGTTAAGAAAATGGTTACTGCA 59.281 34.615 0.00 0.00 0.00 4.41
3921 4530 7.029563 CAGATGGTTAAGAAAATGGTTACTGC 58.970 38.462 0.00 0.00 0.00 4.40
3922 4531 8.110860 ACAGATGGTTAAGAAAATGGTTACTG 57.889 34.615 0.00 0.00 0.00 2.74
3923 4532 8.706322 AACAGATGGTTAAGAAAATGGTTACT 57.294 30.769 0.00 0.00 38.15 2.24
3982 4591 8.500753 ACCGAGTTGCACTTAATTCATAAATA 57.499 30.769 0.00 0.00 0.00 1.40
4064 4677 4.151883 AGTTATGGTGCAAATGTCAAGGT 58.848 39.130 0.00 0.00 0.00 3.50
4065 4678 4.789012 AGTTATGGTGCAAATGTCAAGG 57.211 40.909 0.00 0.00 0.00 3.61
4066 4679 6.676950 TGTAAGTTATGGTGCAAATGTCAAG 58.323 36.000 0.00 0.00 0.00 3.02
4068 4681 6.208402 ACATGTAAGTTATGGTGCAAATGTCA 59.792 34.615 0.00 0.00 0.00 3.58
4070 4683 6.588719 ACATGTAAGTTATGGTGCAAATGT 57.411 33.333 0.00 0.00 0.00 2.71
4071 4684 6.310956 CCAACATGTAAGTTATGGTGCAAATG 59.689 38.462 0.00 0.00 40.93 2.32
4072 4685 6.014669 ACCAACATGTAAGTTATGGTGCAAAT 60.015 34.615 15.25 0.00 40.93 2.32
4073 4686 5.303078 ACCAACATGTAAGTTATGGTGCAAA 59.697 36.000 15.25 0.00 40.93 3.68
4074 4687 4.830046 ACCAACATGTAAGTTATGGTGCAA 59.170 37.500 15.25 0.00 40.93 4.08
4129 4747 6.683974 ATTAAATCTCGTCTCCCACAATTG 57.316 37.500 3.24 3.24 0.00 2.32
4132 4750 6.540438 ACTATTAAATCTCGTCTCCCACAA 57.460 37.500 0.00 0.00 0.00 3.33
4176 4794 6.763135 TGCATATTGAGTCAGTTATCACCTTC 59.237 38.462 0.00 0.00 0.00 3.46
4188 4806 6.211587 CAAAGGGATTTGCATATTGAGTCA 57.788 37.500 0.00 0.00 0.00 3.41
4281 4899 8.170061 TGGCTACCATTTATATATTCCAGCTTT 58.830 33.333 0.00 0.00 0.00 3.51
4318 4936 4.454678 CAAAGAGCAGGGATGCATAACTA 58.545 43.478 0.00 0.00 37.25 2.24
4340 4958 3.782889 AATTGCTATTCGTGGAAAGCC 57.217 42.857 0.00 0.00 33.99 4.35
4346 4964 8.633075 ATGAAAAATGTAATTGCTATTCGTGG 57.367 30.769 0.00 0.00 36.10 4.94
4355 4973 9.034544 GTGAAGGGATATGAAAAATGTAATTGC 57.965 33.333 0.00 0.00 36.10 3.56
4356 4974 9.533253 GGTGAAGGGATATGAAAAATGTAATTG 57.467 33.333 0.00 0.00 36.10 2.32
4357 4975 8.704668 GGGTGAAGGGATATGAAAAATGTAATT 58.295 33.333 0.00 0.00 38.98 1.40
4420 5039 1.412343 GCTCCAGTCTCTCTGATTCCC 59.588 57.143 0.00 0.00 46.27 3.97
4442 5062 0.613777 CTAACTCACACACCCCTCCC 59.386 60.000 0.00 0.00 0.00 4.30
4478 5098 7.765819 TCAGTTGAATGGAACACTCTACATATG 59.234 37.037 0.00 0.00 42.15 1.78
4480 5100 7.239763 TCAGTTGAATGGAACACTCTACATA 57.760 36.000 0.00 0.00 42.15 2.29


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

AutoCloner maintained by Alex Coulton.