Multiple sequence alignment - TraesCS7D01G222700

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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 TraesCS7D01G222700 chr7D 100.000 6844 0 0 1 6844 184095964 184102807 0.000000e+00 12639.0
1 TraesCS7D01G222700 chr7D 80.163 368 51 10 1 346 136941288 136941655 8.810000e-64 255.0
2 TraesCS7D01G222700 chr7D 79.070 172 35 1 1 172 38078372 38078542 4.340000e-22 117.0
3 TraesCS7D01G222700 chr7A 94.637 3953 158 24 1 3933 186644637 186640719 0.000000e+00 6076.0
4 TraesCS7D01G222700 chr7A 96.819 2924 70 13 3934 6843 186640643 186637729 0.000000e+00 4863.0
5 TraesCS7D01G222700 chr7B 92.707 4004 203 43 1 3942 153322868 153326844 0.000000e+00 5694.0
6 TraesCS7D01G222700 chr7B 91.534 2894 139 35 4016 6844 153326970 153329822 0.000000e+00 3890.0
7 TraesCS7D01G222700 chr7B 83.803 142 23 0 197 338 728195769 728195628 1.200000e-27 135.0
8 TraesCS7D01G222700 chr5D 82.297 418 60 9 6423 6834 455150287 455149878 3.930000e-92 350.0
9 TraesCS7D01G222700 chr5D 82.297 418 60 9 6423 6834 455257939 455257530 3.930000e-92 350.0
10 TraesCS7D01G222700 chr5D 87.374 198 23 1 6537 6732 395706304 395706107 6.910000e-55 226.0
11 TraesCS7D01G222700 chr5D 78.036 387 49 23 2 353 472371801 472371416 1.930000e-50 211.0
12 TraesCS7D01G222700 chr1A 81.221 426 65 7 6418 6838 583966392 583965977 5.120000e-86 329.0
13 TraesCS7D01G222700 chr1A 80.057 351 54 10 1 335 463459009 463459359 5.300000e-61 246.0
14 TraesCS7D01G222700 chr6D 81.096 365 52 16 3091 3441 373424008 373423647 6.760000e-70 276.0
15 TraesCS7D01G222700 chr6D 84.865 185 25 3 5 186 386403342 386403526 4.220000e-42 183.0
16 TraesCS7D01G222700 chr6D 85.714 147 21 0 3091 3237 374107847 374107701 9.190000e-34 156.0
17 TraesCS7D01G222700 chr6D 78.075 187 26 7 1 186 406109877 406110049 3.380000e-18 104.0
18 TraesCS7D01G222700 chr6D 93.023 43 1 2 2063 2105 389968943 389968903 2.060000e-05 62.1
19 TraesCS7D01G222700 chr6B 80.769 364 52 15 3091 3441 561151645 561151287 1.130000e-67 268.0
20 TraesCS7D01G222700 chr6B 77.151 372 59 21 3091 3439 561274700 561274332 7.000000e-45 193.0
21 TraesCS7D01G222700 chr6B 77.285 361 56 15 1 337 437786486 437786128 9.060000e-44 189.0
22 TraesCS7D01G222700 chr6A 80.381 367 52 17 3091 3441 515672952 515672590 1.890000e-65 261.0
23 TraesCS7D01G222700 chr6A 84.354 147 23 0 3091 3237 516160389 516160243 1.990000e-30 145.0
24 TraesCS7D01G222700 chr3B 79.948 384 47 16 4 357 228806051 228805668 8.810000e-64 255.0
25 TraesCS7D01G222700 chr3B 94.872 39 1 1 2067 2104 705991083 705991045 7.410000e-05 60.2
26 TraesCS7D01G222700 chr3A 82.584 178 21 2 197 365 614470438 614470614 1.540000e-31 148.0
27 TraesCS7D01G222700 chr5A 84.459 148 17 4 197 338 457906682 457906535 2.570000e-29 141.0
28 TraesCS7D01G222700 chr2D 89.744 78 7 1 110 186 460992049 460992126 1.570000e-16 99.0
29 TraesCS7D01G222700 chr1D 93.333 60 2 2 6414 6473 12144614 12144671 3.400000e-13 87.9
30 TraesCS7D01G222700 chr4B 94.595 37 2 0 2071 2107 200347882 200347918 2.670000e-04 58.4
31 TraesCS7D01G222700 chr4B 96.875 32 1 0 2074 2105 667623429 667623398 3.000000e-03 54.7
32 TraesCS7D01G222700 chr4A 97.059 34 1 0 2080 2113 663581785 663581818 2.670000e-04 58.4
33 TraesCS7D01G222700 chr2A 94.737 38 1 1 2065 2102 362046949 362046985 2.670000e-04 58.4
34 TraesCS7D01G222700 chr5B 97.059 34 0 1 2072 2105 181638267 181638299 1.000000e-03 56.5
35 TraesCS7D01G222700 chr4D 92.308 39 2 1 2067 2105 41219390 41219353 3.000000e-03 54.7


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 TraesCS7D01G222700 chr7D 184095964 184102807 6843 False 12639.0 12639 100.0000 1 6844 1 chr7D.!!$F3 6843
1 TraesCS7D01G222700 chr7A 186637729 186644637 6908 True 5469.5 6076 95.7280 1 6843 2 chr7A.!!$R1 6842
2 TraesCS7D01G222700 chr7B 153322868 153329822 6954 False 4792.0 5694 92.1205 1 6844 2 chr7B.!!$F1 6843

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
350 371 0.320697 AGGAGTGCTTGGTCGTTACC 59.679 55.000 0.0 0.0 46.98 2.85 F
387 408 0.722469 GCGCCGATTTGTCATATGCG 60.722 55.000 0.0 0.0 43.05 4.73 F
1238 1260 1.358759 GGTTGTTGACTTGTGCCGG 59.641 57.895 0.0 0.0 0.00 6.13 F
2064 2092 0.115745 AAGTACTCCCTCCGTCCCAA 59.884 55.000 0.0 0.0 0.00 4.12 F
3712 3777 0.033504 ACCTTAGTGTGTCTGCACCG 59.966 55.000 0.0 0.0 44.65 4.94 F
3872 3938 0.681887 CCATGGCTTGCATCCTGTGA 60.682 55.000 0.0 0.0 0.00 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1562 1588 2.185004 TAGCTCTGGTGGCTCAAAAC 57.815 50.000 0.00 0.0 40.74 2.43 R
1846 1873 3.953201 GGCATACCTTCATTGCTGC 57.047 52.632 0.00 0.0 36.62 5.25 R
2850 2910 3.315191 CCGATGTAACCAAGCCAAATAGG 59.685 47.826 0.00 0.0 41.84 2.57 R
3872 3938 1.014352 GCCTGCGGACAATTCGTATT 58.986 50.000 0.00 0.0 0.00 1.89 R
5001 5250 3.198635 CCAGAAGAGCCAGTAATGGAAGA 59.801 47.826 14.70 0.0 0.00 2.87 R
6071 6348 7.607991 ACATCTCAGGTAAAAGTTTACATCCAG 59.392 37.037 14.23 6.9 43.64 3.86 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 1.377202 GCCCAAGCCGTGAAGATGA 60.377 57.895 0.00 0.00 0.00 2.92
52 53 2.202987 GATGACGGAGCAGCAGGG 60.203 66.667 0.00 0.00 0.00 4.45
68 69 1.302907 AGGGCATCCTGAAGTCCATT 58.697 50.000 0.00 0.00 42.98 3.16
104 105 1.963515 GTGGAGGCCAATCAACAGTTT 59.036 47.619 5.01 0.00 34.18 2.66
119 120 1.891150 CAGTTTCTTTGGCAGGAGCAT 59.109 47.619 0.00 0.00 44.61 3.79
142 143 2.428071 GTCCGACGCGTTCTTCGT 60.428 61.111 15.53 0.00 43.49 3.85
149 150 0.850856 ACGCGTTCTTCGTCAAACTC 59.149 50.000 5.58 0.00 42.13 3.01
165 166 3.539431 AACTCGACGCGAAGATATAGG 57.461 47.619 15.93 1.72 34.74 2.57
218 239 0.960364 GAGCCGGGCACAAAGATTGA 60.960 55.000 23.09 0.00 0.00 2.57
245 266 0.538584 TCCGACGAGGAGTAGCTACA 59.461 55.000 25.28 0.00 45.98 2.74
317 338 2.170397 AGTATGACATGTCCGGATGCAA 59.830 45.455 22.85 1.92 0.00 4.08
322 343 2.942376 GACATGTCCGGATGCAATTGTA 59.058 45.455 15.31 2.30 0.00 2.41
339 360 7.093814 TGCAATTGTATTAATTTGAGGAGTGCT 60.094 33.333 7.40 0.00 0.00 4.40
345 366 1.813513 ATTTGAGGAGTGCTTGGTCG 58.186 50.000 0.00 0.00 0.00 4.79
350 371 0.320697 AGGAGTGCTTGGTCGTTACC 59.679 55.000 0.00 0.00 46.98 2.85
354 375 3.122971 GCTTGGTCGTTACCCGCC 61.123 66.667 0.00 0.00 46.16 6.13
387 408 0.722469 GCGCCGATTTGTCATATGCG 60.722 55.000 0.00 0.00 43.05 4.73
391 412 2.412870 CCGATTTGTCATATGCGGCTA 58.587 47.619 0.00 0.00 31.80 3.93
405 426 8.864087 TCATATGCGGCTATAGATGATCTTATT 58.136 33.333 3.21 0.00 0.00 1.40
433 454 5.934781 ACTCCCATTTAATTTGGTGCAAAA 58.065 33.333 0.00 0.00 36.90 2.44
434 455 6.360618 ACTCCCATTTAATTTGGTGCAAAAA 58.639 32.000 0.00 0.00 36.90 1.94
802 824 4.022242 TCTCTTCTTGGTAACGAAGACCTG 60.022 45.833 0.00 0.00 40.33 4.00
820 842 6.711277 AGACCTGACTTGCTTTGTATATTCA 58.289 36.000 0.00 0.00 0.00 2.57
855 877 2.653584 CGTTTTCTTTTGATGCGAGCAG 59.346 45.455 3.58 0.00 0.00 4.24
928 950 4.258702 TGTGGAACTGCTCTAGAAAGTC 57.741 45.455 7.93 3.46 38.04 3.01
962 984 3.057876 TGGTCCGTTTATGTTTCATGTGC 60.058 43.478 0.00 0.00 0.00 4.57
1029 1051 2.592102 ACCAGGAGCACAATGTTGAT 57.408 45.000 0.00 0.00 0.00 2.57
1238 1260 1.358759 GGTTGTTGACTTGTGCCGG 59.641 57.895 0.00 0.00 0.00 6.13
1239 1261 1.381165 GGTTGTTGACTTGTGCCGGT 61.381 55.000 1.90 0.00 0.00 5.28
1241 1263 1.999071 TTGTTGACTTGTGCCGGTGC 61.999 55.000 1.90 0.00 38.26 5.01
1261 1286 3.549794 GCATTAAGCAGTGAAGGGAGAT 58.450 45.455 0.00 0.00 44.79 2.75
1291 1316 5.687285 CAGTTGAAATTGTTGACTTACTGCC 59.313 40.000 0.00 0.00 0.00 4.85
1321 1346 5.385198 AGTTTGGAATTAGTGTGACACCAT 58.615 37.500 12.81 1.92 34.49 3.55
1536 1562 5.816682 AGGTAGGAAAAACAATCCAGTAGG 58.183 41.667 0.00 0.00 39.55 3.18
1846 1873 6.199908 CGAGAATGTACCTAATTCTGCAGAAG 59.800 42.308 31.14 20.75 42.94 2.85
2035 2063 4.232188 TCAGGTGAGTTCCTATACGTCT 57.768 45.455 0.00 0.00 35.87 4.18
2064 2092 0.115745 AAGTACTCCCTCCGTCCCAA 59.884 55.000 0.00 0.00 0.00 4.12
2065 2093 0.324460 AGTACTCCCTCCGTCCCAAG 60.324 60.000 0.00 0.00 0.00 3.61
2073 2116 1.271379 CCTCCGTCCCAAGTGACAAAT 60.271 52.381 0.00 0.00 34.88 2.32
2101 2144 5.019657 TCTTATATTATGGGACGGAGGGT 57.980 43.478 0.00 0.00 0.00 4.34
2245 2288 4.507134 CATTTGTTCAATTGCAACGTGTG 58.493 39.130 0.00 0.00 0.00 3.82
2333 2376 1.802069 TGTATTACACAGCAAGCGCA 58.198 45.000 11.47 0.00 42.27 6.09
2647 2707 0.251354 CTGCTACCTGTCACTGGCAT 59.749 55.000 0.00 0.00 0.00 4.40
2679 2739 5.879223 CCTGATAGCCATCTTTATGACCATC 59.121 44.000 0.00 0.00 34.84 3.51
3005 3066 5.799827 TTGGTTAAAAGAAATGTGGAGGG 57.200 39.130 0.00 0.00 0.00 4.30
3015 3076 1.181098 ATGTGGAGGGTGCTTGTTGC 61.181 55.000 0.00 0.00 43.25 4.17
3125 3186 7.224297 TGAGAAATTTAGTATGGGCTACATCC 58.776 38.462 0.00 0.00 41.03 3.51
3513 3574 2.772739 CTCGCAATTGACTGGGAGG 58.227 57.895 10.34 0.00 47.00 4.30
3551 3612 0.110056 CTGCATCTTGCCACGACAAC 60.110 55.000 0.00 0.00 44.23 3.32
3712 3777 0.033504 ACCTTAGTGTGTCTGCACCG 59.966 55.000 0.00 0.00 44.65 4.94
3774 3839 3.840666 TCTCCCTCTTGTGCATAGTTCTT 59.159 43.478 0.00 0.00 0.00 2.52
3866 3932 0.959553 CTGATCCCATGGCTTGCATC 59.040 55.000 6.09 2.82 0.00 3.91
3872 3938 0.681887 CCATGGCTTGCATCCTGTGA 60.682 55.000 0.00 0.00 0.00 3.58
3910 3976 6.428159 CGCAGGCATTTATCTTTATAGTTCCT 59.572 38.462 0.00 0.00 0.00 3.36
4003 4226 3.968265 TGATGAGGTTCCATTTTCCCTC 58.032 45.455 0.00 0.00 43.13 4.30
4037 4260 5.617252 AGACGAGGTTCCATTTTTCTTACA 58.383 37.500 0.00 0.00 0.00 2.41
4113 4336 7.040478 TGTGAATGTGCTGTTAGCTATTTTCTT 60.040 33.333 0.00 0.00 42.97 2.52
4149 4372 5.882557 AGTGCACCTCCTATTCAGTTAAATG 59.117 40.000 14.63 0.00 0.00 2.32
4242 4465 8.843262 TGATGAAATATATTTGTGAGCTCTTGG 58.157 33.333 15.39 0.00 0.00 3.61
4826 5070 7.452880 TGTCTTCATGAAATGGTTTCCTAAG 57.547 36.000 9.88 0.00 46.73 2.18
4957 5201 9.130661 TCAGAACACTCAATTAAAGGAAATGAA 57.869 29.630 0.00 0.00 0.00 2.57
4991 5240 3.264450 AGTGCTTATAAGTCTTGGTGCCT 59.736 43.478 13.91 0.00 0.00 4.75
4992 5241 4.469945 AGTGCTTATAAGTCTTGGTGCCTA 59.530 41.667 13.91 0.00 0.00 3.93
5001 5250 2.558359 GTCTTGGTGCCTAAATGTGCTT 59.442 45.455 0.00 0.00 0.00 3.91
5029 5278 0.835543 ACTGGCTCTTCTGGCTGACT 60.836 55.000 0.00 0.00 35.87 3.41
5042 5291 2.620251 GCTGACTGCCACCATATACA 57.380 50.000 0.00 0.00 35.15 2.29
5043 5292 2.917933 GCTGACTGCCACCATATACAA 58.082 47.619 0.00 0.00 35.15 2.41
5044 5293 2.874701 GCTGACTGCCACCATATACAAG 59.125 50.000 0.00 0.00 35.15 3.16
5381 5658 4.157817 GCATTTTGCGAGTGCCTG 57.842 55.556 2.75 0.00 41.78 4.85
5430 5707 5.964958 AATGTTTTGTATCTGGACACAGG 57.035 39.130 0.00 0.00 44.99 4.00
6071 6348 2.620585 GGGCTAGTTTGCTCCATGAATC 59.379 50.000 0.00 0.00 0.00 2.52
6103 6380 6.435292 AACTTTTACCTGAGATGTGTACCT 57.565 37.500 0.00 0.00 0.00 3.08
6293 6571 5.887598 TCAACTTATCCACCTCATCAAATGG 59.112 40.000 0.00 0.00 0.00 3.16
6525 6818 9.924650 TGTTAAAAAGAGAACTACCTGATCTAC 57.075 33.333 0.00 0.00 0.00 2.59
6638 6931 1.202348 GTAATGCCAAGCGCTTCCTTT 59.798 47.619 22.21 18.87 38.78 3.11
6649 6942 2.858646 GCGCTTCCTTTTTGAGGTCAAC 60.859 50.000 0.00 0.00 46.39 3.18
6702 6995 4.799564 AGAAAAGAAGGCACAAACACAA 57.200 36.364 0.00 0.00 0.00 3.33
6703 6996 5.343307 AGAAAAGAAGGCACAAACACAAT 57.657 34.783 0.00 0.00 0.00 2.71
6704 6997 5.351458 AGAAAAGAAGGCACAAACACAATC 58.649 37.500 0.00 0.00 0.00 2.67
6705 6998 4.734398 AAAGAAGGCACAAACACAATCA 57.266 36.364 0.00 0.00 0.00 2.57
6706 6999 3.996150 AGAAGGCACAAACACAATCAG 57.004 42.857 0.00 0.00 0.00 2.90
6707 7000 3.290710 AGAAGGCACAAACACAATCAGT 58.709 40.909 0.00 0.00 0.00 3.41
6708 7001 3.701040 AGAAGGCACAAACACAATCAGTT 59.299 39.130 0.00 0.00 0.00 3.16
6710 7003 4.045636 AGGCACAAACACAATCAGTTTC 57.954 40.909 0.00 0.00 37.10 2.78
6711 7004 3.123050 GGCACAAACACAATCAGTTTCC 58.877 45.455 0.00 0.00 37.10 3.13
6774 7071 1.542492 CAAGCCATGCCTGAAGTTCT 58.458 50.000 4.17 0.00 0.00 3.01
6788 7085 3.498774 AAGTTCTGCTTCATCCACACT 57.501 42.857 0.00 0.00 30.06 3.55
6835 7134 5.279255 AGATGAGACAATGAGATCACCAG 57.721 43.478 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 1.220206 CCTGCTGCTCCGTCATCTT 59.780 57.895 0.00 0.00 0.00 2.40
39 40 4.479993 GATGCCCTGCTGCTCCGT 62.480 66.667 0.00 0.00 0.00 4.69
68 69 0.752658 CCACATACGCCTCATCCTGA 59.247 55.000 0.00 0.00 0.00 3.86
80 81 2.684881 CTGTTGATTGGCCTCCACATAC 59.315 50.000 3.32 0.00 30.78 2.39
104 105 2.042259 CGCATGCTCCTGCCAAAGA 61.042 57.895 17.13 0.00 39.00 2.52
142 143 2.905959 TATCTTCGCGTCGAGTTTGA 57.094 45.000 5.77 0.00 37.14 2.69
149 150 2.074576 TCCTCCTATATCTTCGCGTCG 58.925 52.381 5.77 0.00 0.00 5.12
218 239 1.078637 TCCTCGTCGGAGATGTCGT 60.079 57.895 0.00 0.00 45.22 4.34
303 324 4.572985 AATACAATTGCATCCGGACATG 57.427 40.909 6.12 2.68 0.00 3.21
309 330 7.424803 TCCTCAAATTAATACAATTGCATCCG 58.575 34.615 5.05 0.00 0.00 4.18
317 338 7.397192 ACCAAGCACTCCTCAAATTAATACAAT 59.603 33.333 0.00 0.00 0.00 2.71
322 343 4.396166 CGACCAAGCACTCCTCAAATTAAT 59.604 41.667 0.00 0.00 0.00 1.40
345 366 3.792047 GGCGTTTCGGCGGGTAAC 61.792 66.667 7.21 8.61 43.33 2.50
371 392 1.229428 AGCCGCATATGACAAATCGG 58.771 50.000 6.97 9.74 39.81 4.18
391 412 9.702253 ATGGGAGTACGTAATAAGATCATCTAT 57.298 33.333 0.00 0.00 0.00 1.98
405 426 5.354792 GCACCAAATTAAATGGGAGTACGTA 59.645 40.000 13.48 0.00 42.48 3.57
406 427 4.157105 GCACCAAATTAAATGGGAGTACGT 59.843 41.667 13.48 0.00 42.48 3.57
407 428 4.156922 TGCACCAAATTAAATGGGAGTACG 59.843 41.667 13.48 0.00 42.48 3.67
433 454 5.588648 CCCATATCTGTATTTGGTCGTGTTT 59.411 40.000 0.00 0.00 33.60 2.83
434 455 5.123227 CCCATATCTGTATTTGGTCGTGTT 58.877 41.667 0.00 0.00 33.60 3.32
450 471 5.856126 TTTCGAATTCGTATGCCCATATC 57.144 39.130 25.93 0.00 40.80 1.63
650 672 2.041612 GGCGTAGGGGAAGGGGTA 60.042 66.667 0.00 0.00 0.00 3.69
855 877 0.392060 ACCCCGTGTTAAGATTCGGC 60.392 55.000 0.00 0.00 41.38 5.54
928 950 1.219124 CGGACCACCATCACCAGAG 59.781 63.158 0.00 0.00 35.59 3.35
962 984 0.370273 GCGACAGCGGTAATCAACAG 59.630 55.000 0.00 0.00 38.16 3.16
1008 1030 3.057969 TCAACATTGTGCTCCTGGTAG 57.942 47.619 0.00 0.00 0.00 3.18
1011 1033 2.163010 GTCATCAACATTGTGCTCCTGG 59.837 50.000 0.00 0.00 0.00 4.45
1029 1051 3.704061 TGTCGTAATCATCCTCCATGTCA 59.296 43.478 0.00 0.00 33.66 3.58
1241 1263 5.033589 AGATCTCCCTTCACTGCTTAATG 57.966 43.478 0.00 0.00 0.00 1.90
1259 1284 6.150140 AGTCAACAATTTCAACTGCCTAGATC 59.850 38.462 0.00 0.00 0.00 2.75
1261 1286 5.376625 AGTCAACAATTTCAACTGCCTAGA 58.623 37.500 0.00 0.00 0.00 2.43
1291 1316 8.349245 TGTCACACTAATTCCAAACTTAACATG 58.651 33.333 0.00 0.00 0.00 3.21
1321 1346 6.070194 AGGCTTGTAGCTATCCTTTGAAAGTA 60.070 38.462 4.02 0.00 41.99 2.24
1562 1588 2.185004 TAGCTCTGGTGGCTCAAAAC 57.815 50.000 0.00 0.00 40.74 2.43
1846 1873 3.953201 GGCATACCTTCATTGCTGC 57.047 52.632 0.00 0.00 36.62 5.25
2035 2063 5.539955 ACGGAGGGAGTACTTACTAAACAAA 59.460 40.000 0.00 0.00 36.50 2.83
2073 2116 7.177921 CCTCCGTCCCATAATATAAGAGTGTTA 59.822 40.741 0.00 0.00 0.00 2.41
2439 2482 8.871629 ATAGTGAACTGAAGAGAAGTAGAGAA 57.128 34.615 0.00 0.00 0.00 2.87
2771 2831 9.406828 CATCTTGGCATAGAAAATACAATCATG 57.593 33.333 0.00 0.00 0.00 3.07
2850 2910 3.315191 CCGATGTAACCAAGCCAAATAGG 59.685 47.826 0.00 0.00 41.84 2.57
2932 2993 5.937540 TGAAACAGACAAGTCTTTGAACAGA 59.062 36.000 0.00 0.00 37.98 3.41
3015 3076 3.902881 AGGAGCATCAACTAAGACTGG 57.097 47.619 0.00 0.00 36.25 4.00
3125 3186 5.292834 CGATATTAGGTAGGCATCATGCTTG 59.707 44.000 10.11 0.00 44.28 4.01
3513 3574 2.749621 CAGCTATCCACAAGTTTGGGTC 59.250 50.000 0.00 0.00 37.24 4.46
3551 3612 1.479389 GGAATGGGCAGGGTAAGATGG 60.479 57.143 0.00 0.00 0.00 3.51
3712 3777 1.973812 GCAAGTGAACAGGGGGAGC 60.974 63.158 0.00 0.00 0.00 4.70
3774 3839 2.595463 GGTGCCTGCAGCTTCACA 60.595 61.111 23.77 9.77 44.23 3.58
3866 3932 2.030457 GCGGACAATTCGTATTCACAGG 59.970 50.000 0.00 0.00 0.00 4.00
3872 3938 1.014352 GCCTGCGGACAATTCGTATT 58.986 50.000 0.00 0.00 0.00 1.89
4012 4235 4.625607 AGAAAAATGGAACCTCGTCTCT 57.374 40.909 0.00 0.00 0.00 3.10
4015 4238 5.699458 TCTGTAAGAAAAATGGAACCTCGTC 59.301 40.000 0.00 0.00 42.31 4.20
4016 4239 5.617252 TCTGTAAGAAAAATGGAACCTCGT 58.383 37.500 0.00 0.00 42.31 4.18
4037 4260 4.262164 GCAATGGAACCTTGTCATGTTTCT 60.262 41.667 0.00 0.00 0.00 2.52
4149 4372 7.062605 CACTGAATTTGTAAATGAACAGCATCC 59.937 37.037 13.80 0.00 35.78 3.51
4218 4441 7.286087 TGCCAAGAGCTCACAAATATATTTCAT 59.714 33.333 17.77 0.00 44.23 2.57
4242 4465 7.119846 AGGTTAACATCAGAAAACTATCAGTGC 59.880 37.037 8.10 0.00 0.00 4.40
4434 4675 4.563786 GGCTACAGTCCAGCTAGTTTCTTT 60.564 45.833 0.00 0.00 39.09 2.52
4565 4809 6.538021 CACTGAAGAAATTATGGACCAGAGAG 59.462 42.308 0.00 0.00 0.00 3.20
4854 5098 3.377172 AGGTTTGACCGTTCAGTTCAAAG 59.623 43.478 0.00 0.00 44.90 2.77
4991 5240 5.125417 GCCAGTAATGGAAGAAGCACATTTA 59.875 40.000 14.70 0.00 36.36 1.40
4992 5241 4.082026 GCCAGTAATGGAAGAAGCACATTT 60.082 41.667 14.70 0.00 36.36 2.32
5001 5250 3.198635 CCAGAAGAGCCAGTAATGGAAGA 59.801 47.826 14.70 0.00 0.00 2.87
6071 6348 7.607991 ACATCTCAGGTAAAAGTTTACATCCAG 59.392 37.037 14.23 6.90 43.64 3.86
6103 6380 4.937620 GTCAATGCAGTAGGAGATGTTCAA 59.062 41.667 0.00 0.00 0.00 2.69
6293 6571 2.540931 CAGTTGTTTTGCTGACATTGCC 59.459 45.455 0.00 0.00 34.87 4.52
6638 6931 2.649531 ACCCATTCGTTGACCTCAAA 57.350 45.000 0.00 0.00 37.63 2.69
6649 6942 5.880054 AAGTTTTGACAGATACCCATTCG 57.120 39.130 0.00 0.00 0.00 3.34
6719 7016 9.823647 ATATCGGTATTTCTCTTAATATGCCTG 57.176 33.333 0.00 0.00 0.00 4.85
6774 7071 7.217200 GGTTATATTCTAGTGTGGATGAAGCA 58.783 38.462 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.