Multiple sequence alignment - TraesCS6B01G007900

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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 TraesCS6B01G007900 chr6B 100.000 2852 0 0 1 2852 5031858 5029007 0.000000e+00 5267
1 TraesCS6B01G007900 chr6B 98.714 1477 17 2 787 2262 4973138 4971663 0.000000e+00 2621
2 TraesCS6B01G007900 chr6B 98.198 1443 16 2 787 2220 5002499 5001058 0.000000e+00 2514
3 TraesCS6B01G007900 chr6B 98.316 950 16 0 1 950 4974464 4973515 0.000000e+00 1666
4 TraesCS6B01G007900 chr6B 98.316 950 16 0 1 950 5003825 5002876 0.000000e+00 1666
5 TraesCS6B01G007900 chr6B 97.792 951 20 1 1 950 4952082 4951132 0.000000e+00 1639
6 TraesCS6B01G007900 chr6B 100.000 448 0 0 2405 2852 5000555 5000108 0.000000e+00 828
7 TraesCS6B01G007900 chr6B 95.902 488 18 2 787 1274 4950755 4950270 0.000000e+00 789
8 TraesCS6B01G007900 chr6B 100.000 384 0 0 2881 3264 5028978 5028595 0.000000e+00 710
9 TraesCS6B01G007900 chr6B 99.740 384 1 0 2881 3264 4999633 4999250 0.000000e+00 704
10 TraesCS6B01G007900 chr1D 88.806 268 29 1 2994 3261 368598254 368598520 8.730000e-86 327
11 TraesCS6B01G007900 chr1A 88.433 268 30 1 2994 3261 467753943 467754209 4.060000e-84 322
12 TraesCS6B01G007900 chr3B 89.691 194 20 0 3071 3264 787600672 787600865 6.990000e-62 248
13 TraesCS6B01G007900 chr3B 88.144 194 20 1 3071 3264 787618198 787618388 9.110000e-56 228
14 TraesCS6B01G007900 chr7A 90.173 173 17 0 3072 3244 200197444 200197272 3.280000e-55 226
15 TraesCS6B01G007900 chr4A 89.017 173 19 0 3072 3244 424365431 424365259 7.090000e-52 215
16 TraesCS6B01G007900 chr3D 89.362 141 15 0 3120 3260 609282510 609282650 9.310000e-41 178
17 TraesCS6B01G007900 chr2B 94.048 84 5 0 3181 3264 443655444 443655361 9.510000e-26 128


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 TraesCS6B01G007900 chr6B 5028595 5031858 3263 True 2988.5 5267 100.0000 1 3264 2 chr6B.!!$R4 3263
1 TraesCS6B01G007900 chr6B 4971663 4974464 2801 True 2143.5 2621 98.5150 1 2262 2 chr6B.!!$R2 2261
2 TraesCS6B01G007900 chr6B 4999250 5003825 4575 True 1428.0 2514 99.0635 1 3264 4 chr6B.!!$R3 3263
3 TraesCS6B01G007900 chr6B 4950270 4952082 1812 True 1214.0 1639 96.8470 1 1274 2 chr6B.!!$R1 1273

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
873 875 0.813821 GGAAGGATTGCTGCAGGTTC 59.186 55.0 17.12 0.0 31.69 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2336 2887 0.179059 TGCGGGTACGAGGTACGATA 60.179 55.0 0.0 0.0 45.77 2.92 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
47 48 1.216710 CTTCCGACTGCTCCAGGTC 59.783 63.158 0.00 0.00 35.51 3.85
256 258 2.034558 GCTCTTGTTTGCACTTGCCTTA 59.965 45.455 0.00 0.00 41.18 2.69
353 355 5.949233 TCATGTTTCATTACATCTCGACG 57.051 39.130 0.00 0.00 36.64 5.12
368 370 3.049912 CTCGACGTTCAATGAAGTGTGA 58.950 45.455 5.65 3.98 0.00 3.58
494 496 2.746362 GCATTAGGACTGCATGCCTATC 59.254 50.000 16.68 9.74 37.88 2.08
802 804 5.723887 AGACCACTACTTGAGATTTCCTGAT 59.276 40.000 0.00 0.00 0.00 2.90
873 875 0.813821 GGAAGGATTGCTGCAGGTTC 59.186 55.000 17.12 0.00 31.69 3.62
903 905 2.702592 TAAATAGGTGCCCTTCCGTG 57.297 50.000 0.00 0.00 34.61 4.94
934 936 1.336440 CCATCGCAACTTGGAAACACA 59.664 47.619 0.00 0.00 42.67 3.72
953 1495 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2263 2814 4.113815 CCCGCTCCCAAGCCATGA 62.114 66.667 0.00 0.00 46.34 3.07
2264 2815 2.045045 CCGCTCCCAAGCCATGAA 60.045 61.111 0.00 0.00 46.34 2.57
2265 2816 1.454479 CCGCTCCCAAGCCATGAAT 60.454 57.895 0.00 0.00 46.34 2.57
2266 2817 1.450531 CCGCTCCCAAGCCATGAATC 61.451 60.000 0.00 0.00 46.34 2.52
2267 2818 0.749091 CGCTCCCAAGCCATGAATCA 60.749 55.000 0.00 0.00 46.34 2.57
2268 2819 1.477553 GCTCCCAAGCCATGAATCAA 58.522 50.000 0.00 0.00 43.10 2.57
2269 2820 2.037144 GCTCCCAAGCCATGAATCAAT 58.963 47.619 0.00 0.00 43.10 2.57
2270 2821 2.035576 GCTCCCAAGCCATGAATCAATC 59.964 50.000 0.00 0.00 43.10 2.67
2271 2822 3.293337 CTCCCAAGCCATGAATCAATCA 58.707 45.455 0.00 0.00 43.67 2.57
2272 2823 3.293337 TCCCAAGCCATGAATCAATCAG 58.707 45.455 0.00 0.00 42.53 2.90
2273 2824 3.028850 CCCAAGCCATGAATCAATCAGT 58.971 45.455 0.00 0.00 42.53 3.41
2274 2825 4.079844 TCCCAAGCCATGAATCAATCAGTA 60.080 41.667 0.00 0.00 42.53 2.74
2275 2826 4.646040 CCCAAGCCATGAATCAATCAGTAA 59.354 41.667 0.00 0.00 42.53 2.24
2276 2827 5.450965 CCCAAGCCATGAATCAATCAGTAAC 60.451 44.000 0.00 0.00 42.53 2.50
2277 2828 5.359009 CCAAGCCATGAATCAATCAGTAACT 59.641 40.000 0.00 0.00 42.53 2.24
2278 2829 6.127535 CCAAGCCATGAATCAATCAGTAACTT 60.128 38.462 0.00 0.00 42.53 2.66
2279 2830 7.318141 CAAGCCATGAATCAATCAGTAACTTT 58.682 34.615 0.00 0.00 42.53 2.66
2280 2831 7.472334 AGCCATGAATCAATCAGTAACTTTT 57.528 32.000 0.00 0.00 42.53 2.27
2281 2832 8.579850 AGCCATGAATCAATCAGTAACTTTTA 57.420 30.769 0.00 0.00 42.53 1.52
2282 2833 9.193806 AGCCATGAATCAATCAGTAACTTTTAT 57.806 29.630 0.00 0.00 42.53 1.40
2290 2841 9.988815 ATCAATCAGTAACTTTTATATCGAGCT 57.011 29.630 0.00 0.00 0.00 4.09
2293 2844 8.973835 ATCAGTAACTTTTATATCGAGCTAGC 57.026 34.615 6.62 6.62 0.00 3.42
2294 2845 8.167605 TCAGTAACTTTTATATCGAGCTAGCT 57.832 34.615 19.45 19.45 0.00 3.32
2295 2846 9.281371 TCAGTAACTTTTATATCGAGCTAGCTA 57.719 33.333 19.38 2.78 0.00 3.32
2296 2847 9.332301 CAGTAACTTTTATATCGAGCTAGCTAC 57.668 37.037 19.38 10.50 0.00 3.58
2297 2848 8.513774 AGTAACTTTTATATCGAGCTAGCTACC 58.486 37.037 19.38 5.15 0.00 3.18
2298 2849 6.896021 ACTTTTATATCGAGCTAGCTACCA 57.104 37.500 19.38 4.57 0.00 3.25
2299 2850 6.915349 ACTTTTATATCGAGCTAGCTACCAG 58.085 40.000 19.38 9.80 0.00 4.00
2300 2851 4.966965 TTATATCGAGCTAGCTACCAGC 57.033 45.455 19.38 3.48 42.84 4.85
2313 2864 4.310357 GCTACCAGCTTTCTACTCTACC 57.690 50.000 0.00 0.00 38.45 3.18
2314 2865 3.243134 GCTACCAGCTTTCTACTCTACCG 60.243 52.174 0.00 0.00 38.45 4.02
2315 2866 3.083122 ACCAGCTTTCTACTCTACCGA 57.917 47.619 0.00 0.00 0.00 4.69
2316 2867 3.633418 ACCAGCTTTCTACTCTACCGAT 58.367 45.455 0.00 0.00 0.00 4.18
2317 2868 3.633065 ACCAGCTTTCTACTCTACCGATC 59.367 47.826 0.00 0.00 0.00 3.69
2318 2869 3.004944 CCAGCTTTCTACTCTACCGATCC 59.995 52.174 0.00 0.00 0.00 3.36
2319 2870 3.632604 CAGCTTTCTACTCTACCGATCCA 59.367 47.826 0.00 0.00 0.00 3.41
2320 2871 4.279671 CAGCTTTCTACTCTACCGATCCAT 59.720 45.833 0.00 0.00 0.00 3.41
2321 2872 4.521256 AGCTTTCTACTCTACCGATCCATC 59.479 45.833 0.00 0.00 0.00 3.51
2322 2873 4.321378 GCTTTCTACTCTACCGATCCATCC 60.321 50.000 0.00 0.00 0.00 3.51
2323 2874 3.436577 TCTACTCTACCGATCCATCCC 57.563 52.381 0.00 0.00 0.00 3.85
2324 2875 2.714793 TCTACTCTACCGATCCATCCCA 59.285 50.000 0.00 0.00 0.00 4.37
2325 2876 2.704190 ACTCTACCGATCCATCCCAT 57.296 50.000 0.00 0.00 0.00 4.00
2326 2877 2.530701 ACTCTACCGATCCATCCCATC 58.469 52.381 0.00 0.00 0.00 3.51
2327 2878 1.827969 CTCTACCGATCCATCCCATCC 59.172 57.143 0.00 0.00 0.00 3.51
2328 2879 1.149077 TCTACCGATCCATCCCATCCA 59.851 52.381 0.00 0.00 0.00 3.41
2329 2880 1.276421 CTACCGATCCATCCCATCCAC 59.724 57.143 0.00 0.00 0.00 4.02
2330 2881 0.694105 ACCGATCCATCCCATCCACA 60.694 55.000 0.00 0.00 0.00 4.17
2331 2882 0.250467 CCGATCCATCCCATCCACAC 60.250 60.000 0.00 0.00 0.00 3.82
2332 2883 0.250467 CGATCCATCCCATCCACACC 60.250 60.000 0.00 0.00 0.00 4.16
2333 2884 1.143813 GATCCATCCCATCCACACCT 58.856 55.000 0.00 0.00 0.00 4.00
2334 2885 0.848735 ATCCATCCCATCCACACCTG 59.151 55.000 0.00 0.00 0.00 4.00
2335 2886 1.454479 CCATCCCATCCACACCTGC 60.454 63.158 0.00 0.00 0.00 4.85
2336 2887 1.611419 CATCCCATCCACACCTGCT 59.389 57.895 0.00 0.00 0.00 4.24
2337 2888 0.839277 CATCCCATCCACACCTGCTA 59.161 55.000 0.00 0.00 0.00 3.49
2338 2889 1.422781 CATCCCATCCACACCTGCTAT 59.577 52.381 0.00 0.00 0.00 2.97
2339 2890 1.131638 TCCCATCCACACCTGCTATC 58.868 55.000 0.00 0.00 0.00 2.08
2340 2891 0.250038 CCCATCCACACCTGCTATCG 60.250 60.000 0.00 0.00 0.00 2.92
2341 2892 0.465705 CCATCCACACCTGCTATCGT 59.534 55.000 0.00 0.00 0.00 3.73
2342 2893 1.686587 CCATCCACACCTGCTATCGTA 59.313 52.381 0.00 0.00 0.00 3.43
2343 2894 2.545952 CCATCCACACCTGCTATCGTAC 60.546 54.545 0.00 0.00 0.00 3.67
2344 2895 1.108776 TCCACACCTGCTATCGTACC 58.891 55.000 0.00 0.00 0.00 3.34
2345 2896 1.112113 CCACACCTGCTATCGTACCT 58.888 55.000 0.00 0.00 0.00 3.08
2346 2897 1.067212 CCACACCTGCTATCGTACCTC 59.933 57.143 0.00 0.00 0.00 3.85
2347 2898 1.022735 ACACCTGCTATCGTACCTCG 58.977 55.000 0.00 0.00 41.41 4.63
2348 2899 1.022735 CACCTGCTATCGTACCTCGT 58.977 55.000 0.00 0.00 40.80 4.18
2349 2900 2.216046 CACCTGCTATCGTACCTCGTA 58.784 52.381 0.00 0.00 40.80 3.43
2350 2901 2.032204 CACCTGCTATCGTACCTCGTAC 60.032 54.545 0.00 0.00 40.80 3.67
2351 2902 1.534595 CCTGCTATCGTACCTCGTACC 59.465 57.143 0.00 0.00 40.80 3.34
2352 2903 1.534595 CTGCTATCGTACCTCGTACCC 59.465 57.143 0.00 0.00 40.80 3.69
2353 2904 0.514691 GCTATCGTACCTCGTACCCG 59.485 60.000 0.00 0.00 40.80 5.28
2354 2905 0.514691 CTATCGTACCTCGTACCCGC 59.485 60.000 0.00 0.00 40.80 6.13
2355 2906 0.179059 TATCGTACCTCGTACCCGCA 60.179 55.000 0.00 0.00 40.80 5.69
2356 2907 1.442526 ATCGTACCTCGTACCCGCAG 61.443 60.000 0.00 0.00 40.80 5.18
2357 2908 2.108514 CGTACCTCGTACCCGCAGA 61.109 63.158 0.00 0.00 35.81 4.26
2358 2909 1.431036 GTACCTCGTACCCGCAGAC 59.569 63.158 0.00 0.00 33.38 3.51
2359 2910 1.750399 TACCTCGTACCCGCAGACC 60.750 63.158 0.00 0.00 0.00 3.85
2360 2911 2.202236 TACCTCGTACCCGCAGACCT 62.202 60.000 0.00 0.00 0.00 3.85
2361 2912 2.772691 CCTCGTACCCGCAGACCTC 61.773 68.421 0.00 0.00 0.00 3.85
2362 2913 1.749638 CTCGTACCCGCAGACCTCT 60.750 63.158 0.00 0.00 0.00 3.69
2363 2914 0.463295 CTCGTACCCGCAGACCTCTA 60.463 60.000 0.00 0.00 0.00 2.43
2364 2915 0.745845 TCGTACCCGCAGACCTCTAC 60.746 60.000 0.00 0.00 0.00 2.59
2365 2916 0.747283 CGTACCCGCAGACCTCTACT 60.747 60.000 0.00 0.00 0.00 2.57
2366 2917 1.023502 GTACCCGCAGACCTCTACTC 58.976 60.000 0.00 0.00 0.00 2.59
2367 2918 0.463295 TACCCGCAGACCTCTACTCG 60.463 60.000 0.00 0.00 0.00 4.18
2368 2919 2.482333 CCCGCAGACCTCTACTCGG 61.482 68.421 0.00 0.00 36.90 4.63
2369 2920 1.749638 CCGCAGACCTCTACTCGGT 60.750 63.158 0.00 0.00 37.50 4.69
2370 2921 1.313812 CCGCAGACCTCTACTCGGTT 61.314 60.000 0.00 0.00 34.19 4.44
2371 2922 0.526662 CGCAGACCTCTACTCGGTTT 59.473 55.000 0.00 0.00 34.19 3.27
2372 2923 1.741706 CGCAGACCTCTACTCGGTTTA 59.258 52.381 0.00 0.00 34.19 2.01
2373 2924 2.477525 CGCAGACCTCTACTCGGTTTAC 60.478 54.545 0.00 0.00 34.19 2.01
2374 2925 2.754002 GCAGACCTCTACTCGGTTTACT 59.246 50.000 0.00 0.00 34.19 2.24
2375 2926 3.944015 GCAGACCTCTACTCGGTTTACTA 59.056 47.826 0.00 0.00 34.19 1.82
2376 2927 4.201901 GCAGACCTCTACTCGGTTTACTAC 60.202 50.000 0.00 0.00 34.19 2.73
2377 2928 4.033817 CAGACCTCTACTCGGTTTACTACG 59.966 50.000 0.00 0.00 34.19 3.51
2378 2929 3.935828 GACCTCTACTCGGTTTACTACGT 59.064 47.826 0.00 0.00 34.19 3.57
2379 2930 4.327680 ACCTCTACTCGGTTTACTACGTT 58.672 43.478 0.00 0.00 0.00 3.99
2380 2931 5.488341 ACCTCTACTCGGTTTACTACGTTA 58.512 41.667 0.00 0.00 0.00 3.18
2381 2932 5.938125 ACCTCTACTCGGTTTACTACGTTAA 59.062 40.000 0.00 0.00 0.00 2.01
2382 2933 6.430000 ACCTCTACTCGGTTTACTACGTTAAA 59.570 38.462 0.00 0.00 0.00 1.52
2383 2934 6.743172 CCTCTACTCGGTTTACTACGTTAAAC 59.257 42.308 12.46 12.46 35.93 2.01
2390 2941 5.724328 GGTTTACTACGTTAAACCCTAGCT 58.276 41.667 23.02 0.00 45.70 3.32
2391 2942 6.863275 GGTTTACTACGTTAAACCCTAGCTA 58.137 40.000 23.02 0.00 45.70 3.32
2392 2943 7.320399 GGTTTACTACGTTAAACCCTAGCTAA 58.680 38.462 23.02 1.57 45.70 3.09
2393 2944 7.981789 GGTTTACTACGTTAAACCCTAGCTAAT 59.018 37.037 23.02 0.00 45.70 1.73
2397 2948 7.492524 ACTACGTTAAACCCTAGCTAATAACC 58.507 38.462 0.00 0.00 0.00 2.85
2398 2949 6.298441 ACGTTAAACCCTAGCTAATAACCA 57.702 37.500 0.00 0.00 0.00 3.67
2399 2950 6.343703 ACGTTAAACCCTAGCTAATAACCAG 58.656 40.000 0.00 0.00 0.00 4.00
2400 2951 5.235831 CGTTAAACCCTAGCTAATAACCAGC 59.764 44.000 0.00 0.00 39.41 4.85
3166 4481 3.118454 GTCACGTGGACGCCATGG 61.118 66.667 17.00 7.63 44.23 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 3.055385 CAGTCGGAAGGATCAGGGTTTTA 60.055 47.826 0.00 0.00 0.00 1.52
47 48 6.013812 TCCCAATTCAAAGGATAAGGGTTTTG 60.014 38.462 0.00 0.00 36.45 2.44
256 258 2.869801 CGACACCACAACATACACAACT 59.130 45.455 0.00 0.00 0.00 3.16
873 875 2.066262 CACCTATTTATAGCACCCGCG 58.934 52.381 0.00 0.00 45.49 6.46
903 905 2.744202 AGTTGCGATGGACACAAAGATC 59.256 45.455 0.00 0.00 0.00 2.75
934 936 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
953 1495 0.944311 AAGTACCAAGCGTGCGTCTG 60.944 55.000 0.00 0.00 31.32 3.51
2264 2815 9.988815 AGCTCGATATAAAAGTTACTGATTGAT 57.011 29.630 0.00 0.00 0.00 2.57
2267 2818 9.413048 GCTAGCTCGATATAAAAGTTACTGATT 57.587 33.333 7.70 0.00 0.00 2.57
2268 2819 8.798402 AGCTAGCTCGATATAAAAGTTACTGAT 58.202 33.333 12.68 0.00 0.00 2.90
2269 2820 8.167605 AGCTAGCTCGATATAAAAGTTACTGA 57.832 34.615 12.68 0.00 0.00 3.41
2270 2821 9.332301 GTAGCTAGCTCGATATAAAAGTTACTG 57.668 37.037 23.26 0.00 0.00 2.74
2271 2822 8.513774 GGTAGCTAGCTCGATATAAAAGTTACT 58.486 37.037 23.26 0.00 0.00 2.24
2272 2823 8.295288 TGGTAGCTAGCTCGATATAAAAGTTAC 58.705 37.037 23.26 8.25 0.00 2.50
2273 2824 8.400184 TGGTAGCTAGCTCGATATAAAAGTTA 57.600 34.615 23.26 0.00 0.00 2.24
2274 2825 7.286215 TGGTAGCTAGCTCGATATAAAAGTT 57.714 36.000 23.26 0.00 0.00 2.66
2275 2826 6.570764 GCTGGTAGCTAGCTCGATATAAAAGT 60.571 42.308 23.26 0.00 38.45 2.66
2276 2827 5.802956 GCTGGTAGCTAGCTCGATATAAAAG 59.197 44.000 23.26 9.37 38.45 2.27
2277 2828 5.710984 GCTGGTAGCTAGCTCGATATAAAA 58.289 41.667 23.26 0.00 38.45 1.52
2278 2829 5.312120 GCTGGTAGCTAGCTCGATATAAA 57.688 43.478 23.26 0.00 38.45 1.40
2279 2830 4.966965 GCTGGTAGCTAGCTCGATATAA 57.033 45.455 23.26 0.00 38.45 0.98
2292 2843 3.243134 CGGTAGAGTAGAAAGCTGGTAGC 60.243 52.174 0.00 0.00 42.84 3.58
2293 2844 4.197750 TCGGTAGAGTAGAAAGCTGGTAG 58.802 47.826 0.00 0.00 0.00 3.18
2294 2845 4.226427 TCGGTAGAGTAGAAAGCTGGTA 57.774 45.455 0.00 0.00 0.00 3.25
2295 2846 3.083122 TCGGTAGAGTAGAAAGCTGGT 57.917 47.619 0.00 0.00 0.00 4.00
2296 2847 3.004944 GGATCGGTAGAGTAGAAAGCTGG 59.995 52.174 0.00 0.00 0.00 4.85
2297 2848 3.632604 TGGATCGGTAGAGTAGAAAGCTG 59.367 47.826 0.00 0.00 0.00 4.24
2298 2849 3.899726 TGGATCGGTAGAGTAGAAAGCT 58.100 45.455 0.00 0.00 0.00 3.74
2299 2850 4.321378 GGATGGATCGGTAGAGTAGAAAGC 60.321 50.000 0.00 0.00 0.00 3.51
2300 2851 4.218852 GGGATGGATCGGTAGAGTAGAAAG 59.781 50.000 0.00 0.00 0.00 2.62
2301 2852 4.150359 GGGATGGATCGGTAGAGTAGAAA 58.850 47.826 0.00 0.00 0.00 2.52
2302 2853 3.139584 TGGGATGGATCGGTAGAGTAGAA 59.860 47.826 0.00 0.00 0.00 2.10
2303 2854 2.714793 TGGGATGGATCGGTAGAGTAGA 59.285 50.000 0.00 0.00 0.00 2.59
2304 2855 3.156288 TGGGATGGATCGGTAGAGTAG 57.844 52.381 0.00 0.00 0.00 2.57
2305 2856 3.563697 GGATGGGATGGATCGGTAGAGTA 60.564 52.174 0.00 0.00 0.00 2.59
2306 2857 2.530701 GATGGGATGGATCGGTAGAGT 58.469 52.381 0.00 0.00 0.00 3.24
2307 2858 1.827969 GGATGGGATGGATCGGTAGAG 59.172 57.143 0.00 0.00 0.00 2.43
2308 2859 1.149077 TGGATGGGATGGATCGGTAGA 59.851 52.381 0.00 0.00 0.00 2.59
2309 2860 1.276421 GTGGATGGGATGGATCGGTAG 59.724 57.143 0.00 0.00 0.00 3.18
2310 2861 1.348064 GTGGATGGGATGGATCGGTA 58.652 55.000 0.00 0.00 0.00 4.02
2311 2862 0.694105 TGTGGATGGGATGGATCGGT 60.694 55.000 0.00 0.00 0.00 4.69
2312 2863 0.250467 GTGTGGATGGGATGGATCGG 60.250 60.000 0.00 0.00 0.00 4.18
2313 2864 0.250467 GGTGTGGATGGGATGGATCG 60.250 60.000 0.00 0.00 0.00 3.69
2314 2865 1.143813 AGGTGTGGATGGGATGGATC 58.856 55.000 0.00 0.00 0.00 3.36
2315 2866 0.848735 CAGGTGTGGATGGGATGGAT 59.151 55.000 0.00 0.00 0.00 3.41
2316 2867 1.925285 GCAGGTGTGGATGGGATGGA 61.925 60.000 0.00 0.00 0.00 3.41
2317 2868 1.454479 GCAGGTGTGGATGGGATGG 60.454 63.158 0.00 0.00 0.00 3.51
2318 2869 0.839277 TAGCAGGTGTGGATGGGATG 59.161 55.000 0.00 0.00 0.00 3.51
2319 2870 1.701847 GATAGCAGGTGTGGATGGGAT 59.298 52.381 0.00 0.00 0.00 3.85
2320 2871 1.131638 GATAGCAGGTGTGGATGGGA 58.868 55.000 0.00 0.00 0.00 4.37
2321 2872 0.250038 CGATAGCAGGTGTGGATGGG 60.250 60.000 0.00 0.00 0.00 4.00
2322 2873 0.465705 ACGATAGCAGGTGTGGATGG 59.534 55.000 0.00 0.00 42.67 3.51
2323 2874 2.545952 GGTACGATAGCAGGTGTGGATG 60.546 54.545 0.00 0.00 42.67 3.51
2324 2875 1.687123 GGTACGATAGCAGGTGTGGAT 59.313 52.381 0.00 0.00 42.67 3.41
2325 2876 1.108776 GGTACGATAGCAGGTGTGGA 58.891 55.000 0.00 0.00 42.67 4.02
2326 2877 1.067212 GAGGTACGATAGCAGGTGTGG 59.933 57.143 0.00 0.00 42.67 4.17
2327 2878 1.268589 CGAGGTACGATAGCAGGTGTG 60.269 57.143 0.00 0.00 45.77 3.82
2328 2879 1.022735 CGAGGTACGATAGCAGGTGT 58.977 55.000 0.00 0.00 45.77 4.16
2329 2880 1.022735 ACGAGGTACGATAGCAGGTG 58.977 55.000 0.00 0.00 45.77 4.00
2330 2881 2.216898 GTACGAGGTACGATAGCAGGT 58.783 52.381 0.00 0.00 45.77 4.00
2331 2882 1.534595 GGTACGAGGTACGATAGCAGG 59.465 57.143 0.00 0.00 45.77 4.85
2332 2883 1.534595 GGGTACGAGGTACGATAGCAG 59.465 57.143 0.00 0.00 45.77 4.24
2333 2884 1.597742 GGGTACGAGGTACGATAGCA 58.402 55.000 0.00 0.00 45.77 3.49
2334 2885 0.514691 CGGGTACGAGGTACGATAGC 59.485 60.000 0.00 0.00 45.77 2.97
2335 2886 0.514691 GCGGGTACGAGGTACGATAG 59.485 60.000 0.00 0.00 45.77 2.08
2336 2887 0.179059 TGCGGGTACGAGGTACGATA 60.179 55.000 0.00 0.00 45.77 2.92
2337 2888 1.442526 CTGCGGGTACGAGGTACGAT 61.443 60.000 0.00 0.00 45.77 3.73
2338 2889 2.046411 TGCGGGTACGAGGTACGA 60.046 61.111 0.00 0.00 45.77 3.43
2339 2890 2.108514 TCTGCGGGTACGAGGTACG 61.109 63.158 0.00 0.00 44.60 3.67
2340 2891 1.431036 GTCTGCGGGTACGAGGTAC 59.569 63.158 0.00 0.00 44.60 3.34
2341 2892 1.750399 GGTCTGCGGGTACGAGGTA 60.750 63.158 0.00 0.00 44.60 3.08
2342 2893 3.066814 GGTCTGCGGGTACGAGGT 61.067 66.667 0.00 0.00 44.60 3.85
2343 2894 2.754658 AGGTCTGCGGGTACGAGG 60.755 66.667 0.00 0.00 44.60 4.63
2344 2895 0.463295 TAGAGGTCTGCGGGTACGAG 60.463 60.000 0.00 0.00 44.60 4.18
2345 2896 0.745845 GTAGAGGTCTGCGGGTACGA 60.746 60.000 0.00 0.00 44.60 3.43
2346 2897 0.747283 AGTAGAGGTCTGCGGGTACG 60.747 60.000 0.00 0.00 44.63 3.67
2347 2898 1.023502 GAGTAGAGGTCTGCGGGTAC 58.976 60.000 0.00 0.00 33.62 3.34
2348 2899 0.463295 CGAGTAGAGGTCTGCGGGTA 60.463 60.000 0.00 0.00 33.62 3.69
2349 2900 1.749638 CGAGTAGAGGTCTGCGGGT 60.750 63.158 0.00 0.00 33.62 5.28
2350 2901 2.482333 CCGAGTAGAGGTCTGCGGG 61.482 68.421 0.00 3.04 34.86 6.13
2351 2902 1.313812 AACCGAGTAGAGGTCTGCGG 61.314 60.000 13.09 13.09 41.95 5.69
2352 2903 0.526662 AAACCGAGTAGAGGTCTGCG 59.473 55.000 0.00 0.00 41.95 5.18
2353 2904 2.754002 AGTAAACCGAGTAGAGGTCTGC 59.246 50.000 0.00 0.00 41.95 4.26
2354 2905 4.033817 CGTAGTAAACCGAGTAGAGGTCTG 59.966 50.000 0.00 0.00 41.95 3.51
2355 2906 4.187694 CGTAGTAAACCGAGTAGAGGTCT 58.812 47.826 0.00 0.00 41.95 3.85
2356 2907 3.935828 ACGTAGTAAACCGAGTAGAGGTC 59.064 47.826 0.00 0.00 41.94 3.85
2357 2908 3.944087 ACGTAGTAAACCGAGTAGAGGT 58.056 45.455 0.00 0.00 41.94 3.85
2358 2909 4.954092 AACGTAGTAAACCGAGTAGAGG 57.046 45.455 0.00 0.00 45.00 3.69
2359 2910 6.743172 GGTTTAACGTAGTAAACCGAGTAGAG 59.257 42.308 20.55 0.00 45.00 2.43
2360 2911 6.349033 GGGTTTAACGTAGTAAACCGAGTAGA 60.349 42.308 25.07 0.00 45.00 2.59
2361 2912 5.800438 GGGTTTAACGTAGTAAACCGAGTAG 59.200 44.000 25.07 0.00 45.00 2.57
2362 2913 5.475564 AGGGTTTAACGTAGTAAACCGAGTA 59.524 40.000 25.07 0.00 45.00 2.59
2363 2914 4.280929 AGGGTTTAACGTAGTAAACCGAGT 59.719 41.667 25.07 15.15 45.00 4.18
2364 2915 4.809673 AGGGTTTAACGTAGTAAACCGAG 58.190 43.478 25.07 0.00 45.00 4.63
2365 2916 4.864704 AGGGTTTAACGTAGTAAACCGA 57.135 40.909 25.07 0.00 45.00 4.69
2366 2917 4.562789 GCTAGGGTTTAACGTAGTAAACCG 59.437 45.833 25.07 17.11 45.00 4.44
2367 2918 5.724328 AGCTAGGGTTTAACGTAGTAAACC 58.276 41.667 24.51 24.51 45.00 3.27
2368 2919 8.932945 ATTAGCTAGGGTTTAACGTAGTAAAC 57.067 34.615 12.46 12.46 45.00 2.01
2371 2922 8.630037 GGTTATTAGCTAGGGTTTAACGTAGTA 58.370 37.037 0.00 0.00 45.00 1.82
2373 2924 7.491682 TGGTTATTAGCTAGGGTTTAACGTAG 58.508 38.462 0.00 0.00 33.26 3.51
2374 2925 7.416964 TGGTTATTAGCTAGGGTTTAACGTA 57.583 36.000 0.00 0.00 0.00 3.57
2375 2926 6.298441 TGGTTATTAGCTAGGGTTTAACGT 57.702 37.500 0.00 0.00 0.00 3.99
2376 2927 5.235831 GCTGGTTATTAGCTAGGGTTTAACG 59.764 44.000 0.00 0.00 38.14 3.18
2377 2928 6.615264 GCTGGTTATTAGCTAGGGTTTAAC 57.385 41.667 0.00 0.00 38.14 2.01
2388 2939 2.104963 AGCCAGGTAGCTGGTTATTAGC 59.895 50.000 35.00 21.73 45.87 3.09
2389 2940 5.746990 ATAGCCAGGTAGCTGGTTATTAG 57.253 43.478 32.66 14.06 44.77 1.73
2390 2941 5.482878 GGTATAGCCAGGTAGCTGGTTATTA 59.517 44.000 38.53 26.49 44.77 0.98
2391 2942 4.286291 GGTATAGCCAGGTAGCTGGTTATT 59.714 45.833 38.53 27.24 44.77 1.40
2393 2944 3.116862 AGGTATAGCCAGGTAGCTGGTTA 60.117 47.826 35.00 33.21 44.67 2.85
2394 2945 2.047830 GGTATAGCCAGGTAGCTGGTT 58.952 52.381 35.00 32.31 44.67 3.67
2395 2946 1.220750 AGGTATAGCCAGGTAGCTGGT 59.779 52.381 35.00 25.20 44.67 4.00
2396 2947 2.016905 AGGTATAGCCAGGTAGCTGG 57.983 55.000 32.36 32.36 44.67 4.85
2397 2948 8.580720 CATAATATAGGTATAGCCAGGTAGCTG 58.419 40.741 15.13 15.13 44.67 4.24
2399 2950 8.361139 CACATAATATAGGTATAGCCAGGTAGC 58.639 40.741 0.00 0.00 40.61 3.58
2400 2951 9.422681 ACACATAATATAGGTATAGCCAGGTAG 57.577 37.037 0.00 0.00 40.61 3.18
2401 2952 9.197306 CACACATAATATAGGTATAGCCAGGTA 57.803 37.037 0.00 0.00 40.61 3.08
2402 2953 7.678598 ACACACATAATATAGGTATAGCCAGGT 59.321 37.037 0.00 0.00 40.61 4.00
2403 2954 8.079211 ACACACATAATATAGGTATAGCCAGG 57.921 38.462 0.00 0.00 40.61 4.45
3166 4481 2.579787 CGACGGCGACATCCAGAC 60.580 66.667 16.62 0.00 40.82 3.51


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

AutoCloner maintained by Alex Coulton.