Multiple sequence alignment - TraesCS7D01G066500

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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 TraesCS7D01G066500 chr7D 100.000 4119 0 0 979 5097 37288724 37284606 0.000000e+00 7607.0
1 TraesCS7D01G066500 chr7D 100.000 421 0 0 1 421 37289702 37289282 0.000000e+00 778.0
2 TraesCS7D01G066500 chr7D 80.116 865 125 38 4210 5052 37110877 37110038 7.300000e-168 601.0
3 TraesCS7D01G066500 chr7D 100.000 289 0 0 512 800 37289191 37288903 7.510000e-148 534.0
4 TraesCS7D01G066500 chr7D 80.212 566 79 24 4077 4626 36964617 36965165 1.330000e-105 394.0
5 TraesCS7D01G066500 chr7D 77.628 371 61 10 4747 5097 36853109 36853477 6.690000e-49 206.0
6 TraesCS7D01G066500 chr7D 90.000 140 12 2 3516 3654 35006873 35007011 4.050000e-41 180.0
7 TraesCS7D01G066500 chr7A 95.121 3566 145 19 1550 5097 36862395 36858841 0.000000e+00 5594.0
8 TraesCS7D01G066500 chr7A 93.120 1032 56 12 4072 5097 36799611 36798589 0.000000e+00 1498.0
9 TraesCS7D01G066500 chr7A 93.605 516 17 4 1057 1566 36862918 36862413 0.000000e+00 756.0
10 TraesCS7D01G066500 chr7A 83.650 263 37 4 43 305 36864218 36863962 5.100000e-60 243.0
11 TraesCS7D01G066500 chr7A 90.411 73 4 1 3585 3654 35425816 35425744 5.430000e-15 93.5
12 TraesCS7D01G066500 chrUn 94.797 3171 130 22 1555 4702 49998150 49994992 0.000000e+00 4909.0
13 TraesCS7D01G066500 chrUn 93.091 550 17 8 1027 1566 49998711 49998173 0.000000e+00 785.0
14 TraesCS7D01G066500 chrUn 87.565 386 47 1 1 386 49999829 49999445 3.620000e-121 446.0
15 TraesCS7D01G066500 chrUn 90.580 276 15 4 512 776 49999414 49999139 6.280000e-94 355.0
16 TraesCS7D01G066500 chrUn 87.153 288 31 5 4813 5097 49994992 49994708 6.370000e-84 322.0
17 TraesCS7D01G066500 chrUn 81.641 256 47 0 1245 1500 17256122 17256377 4.000000e-51 213.0
18 TraesCS7D01G066500 chr4D 98.270 289 5 0 512 800 41359135 41358847 1.640000e-139 507.0
19 TraesCS7D01G066500 chr4D 96.939 196 6 0 1137 1332 41358428 41358233 3.800000e-86 329.0
20 TraesCS7D01G066500 chr4A 82.042 568 77 19 4076 4635 689561003 689560453 1.290000e-125 460.0
21 TraesCS7D01G066500 chr4A 81.132 371 66 3 4682 5050 689560451 689560083 1.390000e-75 294.0
22 TraesCS7D01G066500 chr4A 77.568 370 57 20 4749 5095 689511145 689510779 3.110000e-47 200.0
23 TraesCS7D01G066500 chr2A 82.812 256 44 0 1245 1500 33340261 33340006 3.970000e-56 230.0
24 TraesCS7D01G066500 chr2B 82.031 256 46 0 1245 1500 51081313 51081568 8.590000e-53 219.0


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 TraesCS7D01G066500 chr7D 37284606 37289702 5096 True 2973.000000 7607 100.0000 1 5097 3 chr7D.!!$R2 5096
1 TraesCS7D01G066500 chr7D 37110038 37110877 839 True 601.000000 601 80.1160 4210 5052 1 chr7D.!!$R1 842
2 TraesCS7D01G066500 chr7D 36964617 36965165 548 False 394.000000 394 80.2120 4077 4626 1 chr7D.!!$F3 549
3 TraesCS7D01G066500 chr7A 36858841 36864218 5377 True 2197.666667 5594 90.7920 43 5097 3 chr7A.!!$R3 5054
4 TraesCS7D01G066500 chr7A 36798589 36799611 1022 True 1498.000000 1498 93.1200 4072 5097 1 chr7A.!!$R2 1025
5 TraesCS7D01G066500 chrUn 49994708 49999829 5121 True 1363.400000 4909 90.6372 1 5097 5 chrUn.!!$R1 5096
6 TraesCS7D01G066500 chr4D 41358233 41359135 902 True 418.000000 507 97.6045 512 1332 2 chr4D.!!$R1 820
7 TraesCS7D01G066500 chr4A 689560083 689561003 920 True 377.000000 460 81.5870 4076 5050 2 chr4A.!!$R2 974

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
171 172 0.041238 AGACGATGGGGAAGGAGTGA 59.959 55.000 0.00 0.0 0.00 3.41 F
212 213 0.175989 GAGCGGTTAAGAGTGAGGGG 59.824 60.000 0.00 0.0 0.00 4.79 F
239 240 0.253067 TGTTCCGGGGTGGGGTATAA 60.253 55.000 0.00 0.0 38.76 0.98 F
345 346 0.916809 AACTTTAGGGGGTCCGATGG 59.083 55.000 0.00 0.0 38.33 3.51 F
1504 2277 0.940519 CGACGCCGTCAAGGTAACAA 60.941 55.000 18.40 0.0 43.70 2.83 F
1505 2278 1.219646 GACGCCGTCAAGGTAACAAA 58.780 50.000 13.23 0.0 43.70 2.83 F
3010 3830 1.544246 GCCGCCACCTTGAAAAGTATT 59.456 47.619 0.00 0.0 44.25 1.89 F
3979 4799 0.725117 GATGGCAAAAGTACGTCGGG 59.275 55.000 0.00 0.0 0.00 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1548 2321 0.807496 GCACAGATGACAGGAAAGGC 59.193 55.000 0.00 0.0 0.00 4.35 R
1969 2774 1.376037 GAAGTTCTCAGGGTGGCCG 60.376 63.158 0.00 0.0 0.00 6.13 R
2114 2924 1.961277 GGCATTCGCGATACCCTGG 60.961 63.158 10.88 0.0 39.92 4.45 R
2249 3059 1.959226 AGGTTAACGCACTGCACCG 60.959 57.895 1.11 0.0 32.32 4.94 R
2747 3565 0.190815 ATCCAAGGTTTGCCCTGGTT 59.809 50.000 1.68 0.0 45.47 3.67 R
3148 3968 0.462225 CATCTGCTGGGCTCTCTGTG 60.462 60.000 0.00 0.0 0.00 3.66 R
4024 4844 0.325296 TGTAGATCTTCGGGGCAGGT 60.325 55.000 0.00 0.0 0.00 4.00 R
4855 5734 1.148273 GGAGCCAACCACACACAGA 59.852 57.895 0.00 0.0 0.00 3.41 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
33 34 0.389426 CCAGGGAACTACGAACCGTG 60.389 60.000 1.93 0.00 41.39 4.94
34 35 0.599558 CAGGGAACTACGAACCGTGA 59.400 55.000 1.93 0.00 41.39 4.35
87 88 1.153549 GGCGAGCTCCAAGTCGATT 60.154 57.895 8.47 0.00 38.50 3.34
106 107 3.643159 TTGATCCAGACCGATCATACG 57.357 47.619 2.34 0.00 46.10 3.06
115 116 0.241213 CCGATCATACGCAGATCCGT 59.759 55.000 2.60 2.60 44.62 4.69
118 119 0.952280 ATCATACGCAGATCCGTCGT 59.048 50.000 0.03 5.19 42.20 4.34
133 134 0.669318 GTCGTTGAAGCCGACCATGA 60.669 55.000 0.00 0.00 46.73 3.07
158 159 2.305314 CTGAGGGGAGGGGAGACGAT 62.305 65.000 0.00 0.00 0.00 3.73
159 160 1.834822 GAGGGGAGGGGAGACGATG 60.835 68.421 0.00 0.00 0.00 3.84
160 161 2.844839 GGGGAGGGGAGACGATGG 60.845 72.222 0.00 0.00 0.00 3.51
163 164 2.282446 GAGGGGAGACGATGGGGA 59.718 66.667 0.00 0.00 0.00 4.81
171 172 0.041238 AGACGATGGGGAAGGAGTGA 59.959 55.000 0.00 0.00 0.00 3.41
212 213 0.175989 GAGCGGTTAAGAGTGAGGGG 59.824 60.000 0.00 0.00 0.00 4.79
222 223 1.132495 AGAGTGAGGGGTAGGGTTTGT 60.132 52.381 0.00 0.00 0.00 2.83
227 228 1.001764 GGGGTAGGGTTTGTTCCGG 60.002 63.158 0.00 0.00 0.00 5.14
239 240 0.253067 TGTTCCGGGGTGGGGTATAA 60.253 55.000 0.00 0.00 38.76 0.98
243 244 1.147600 CGGGGTGGGGTATAAGTGC 59.852 63.158 0.00 0.00 0.00 4.40
326 327 3.881688 GGACAACCTAGACGTATGAGCTA 59.118 47.826 0.00 0.00 0.00 3.32
344 345 2.484947 GCTAACTTTAGGGGGTCCGATG 60.485 54.545 0.00 0.00 38.33 3.84
345 346 0.916809 AACTTTAGGGGGTCCGATGG 59.083 55.000 0.00 0.00 38.33 3.51
353 354 2.584608 GGTCCGATGGTGTCCCAG 59.415 66.667 0.00 0.00 46.15 4.45
355 356 3.399181 TCCGATGGTGTCCCAGCC 61.399 66.667 0.00 0.00 44.57 4.85
383 384 1.039233 TCCGGCTAGACGTTTAGGGG 61.039 60.000 18.49 0.00 0.00 4.79
389 390 1.761198 CTAGACGTTTAGGGGAAGGGG 59.239 57.143 5.23 0.00 0.00 4.79
1365 2138 3.944123 CCCATGGGCCACATCTTG 58.056 61.111 20.41 1.85 37.84 3.02
1368 2141 1.133388 CCCATGGGCCACATCTTGTAT 60.133 52.381 20.41 0.00 37.84 2.29
1502 2275 3.455685 CGACGCCGTCAAGGTAAC 58.544 61.111 18.40 0.00 43.70 2.50
1503 2276 1.372004 CGACGCCGTCAAGGTAACA 60.372 57.895 18.40 0.00 43.70 2.41
1504 2277 0.940519 CGACGCCGTCAAGGTAACAA 60.941 55.000 18.40 0.00 43.70 2.83
1505 2278 1.219646 GACGCCGTCAAGGTAACAAA 58.780 50.000 13.23 0.00 43.70 2.83
1506 2279 1.598601 GACGCCGTCAAGGTAACAAAA 59.401 47.619 13.23 0.00 43.70 2.44
1507 2280 2.223745 ACGCCGTCAAGGTAACAAAAT 58.776 42.857 0.00 0.00 43.70 1.82
1508 2281 3.401182 ACGCCGTCAAGGTAACAAAATA 58.599 40.909 0.00 0.00 43.70 1.40
1509 2282 3.434299 ACGCCGTCAAGGTAACAAAATAG 59.566 43.478 0.00 0.00 43.70 1.73
1514 2287 4.457949 CGTCAAGGTAACAAAATAGCCCTT 59.542 41.667 0.00 0.00 41.41 3.95
1517 2290 6.208797 GTCAAGGTAACAAAATAGCCCTTTCT 59.791 38.462 0.00 0.00 41.41 2.52
1568 2373 1.612726 GCCTTTCCTGTCATCTGTGCT 60.613 52.381 0.00 0.00 0.00 4.40
1688 2493 3.662759 ATTTTTCTTGGGCCGATCCTA 57.337 42.857 0.00 0.00 34.39 2.94
1712 2517 2.643933 AGTAGAAAACGCCGTACCTC 57.356 50.000 0.00 0.00 0.00 3.85
1762 2567 7.352739 AGTTAAATTCAACGCTACTGTCAAAG 58.647 34.615 0.00 0.00 33.50 2.77
1812 2617 6.947733 ACCTTGGATTCATCACTCATGTTTAA 59.052 34.615 0.00 0.00 33.66 1.52
1817 2622 9.460019 TGGATTCATCACTCATGTTTAATACAA 57.540 29.630 0.00 0.00 40.89 2.41
1856 2661 6.403878 TGGAGTAATCTGCTTAGGTGTTTAC 58.596 40.000 0.00 0.00 33.13 2.01
2018 2823 2.421529 GGAGTTGAAGTCACCACTGGTT 60.422 50.000 0.00 0.00 31.02 3.67
2083 2893 3.201290 CGGAGCATGAGACTAATTTGCT 58.799 45.455 0.00 0.00 45.75 3.91
2114 2924 1.673168 CTTATGCAGGTCCTCTTGGC 58.327 55.000 0.00 0.00 0.00 4.52
2237 3047 1.760613 TCTGACCTTGTTGTCTTCCGT 59.239 47.619 0.00 0.00 36.21 4.69
2249 3059 4.806342 TGTCTTCCGTTTTAGTTTGAGC 57.194 40.909 0.00 0.00 0.00 4.26
2284 3094 3.848272 ACCTGGTATGCAAATTTCGTG 57.152 42.857 0.00 0.00 0.00 4.35
2345 3155 3.699411 ATCTTGACTGAAGCTTGCTCT 57.301 42.857 2.10 0.00 0.00 4.09
2549 3359 6.071728 CCATTCAGGAAGCAAAATCAGTTACT 60.072 38.462 0.00 0.00 41.22 2.24
2583 3393 8.792633 CCACAATGATCAAGGTTACTTTCTTTA 58.207 33.333 0.00 0.00 33.81 1.85
2627 3445 6.418226 TGTTTTGTTGTTGTTGTACAGTTCAC 59.582 34.615 0.00 0.00 0.00 3.18
2848 3668 4.446371 GTTATCTGAATGAGGGTGGTGAG 58.554 47.826 0.00 0.00 0.00 3.51
3010 3830 1.544246 GCCGCCACCTTGAAAAGTATT 59.456 47.619 0.00 0.00 44.25 1.89
3016 3836 5.354234 CGCCACCTTGAAAAGTATTATCACT 59.646 40.000 0.00 0.00 44.25 3.41
3059 3879 2.100916 GCCGATGCTCTTCCTGTAAGTA 59.899 50.000 0.00 0.00 36.51 2.24
3148 3968 4.782019 TTGATTTGTCCAGCAATACACC 57.218 40.909 0.00 0.00 36.89 4.16
3406 4226 2.098117 GCTCATTCCATACTGTGCAACC 59.902 50.000 0.00 0.00 34.36 3.77
3514 4334 3.515901 ACTCTATTGGTCTGGGTGAAGAC 59.484 47.826 0.00 0.00 44.91 3.01
3799 4619 2.501723 TGGTTCTGAGGTAGAGATTGCC 59.498 50.000 0.00 0.00 36.61 4.52
3946 4766 1.030457 CAAGGATCAGCATTGAGGCC 58.970 55.000 0.00 0.00 40.58 5.19
3949 4769 1.895707 GATCAGCATTGAGGCCGGG 60.896 63.158 2.18 0.00 36.61 5.73
3979 4799 0.725117 GATGGCAAAAGTACGTCGGG 59.275 55.000 0.00 0.00 0.00 5.14
4150 4971 2.762887 TGATGCCAAAGAACAAACACCA 59.237 40.909 0.00 0.00 0.00 4.17
4155 4976 3.616317 GCCAAAGAACAAACACCACACTT 60.616 43.478 0.00 0.00 0.00 3.16
4181 5003 0.603975 GTCTCGTGCCCAGAAGCTTT 60.604 55.000 0.00 0.00 0.00 3.51
4459 5313 0.608035 TGCGCCCTTTTAGTCCTTGG 60.608 55.000 4.18 0.00 0.00 3.61
4526 5384 7.864686 TGCATAGTATCATCAGTGCAATAAAC 58.135 34.615 0.00 0.00 39.36 2.01
4550 5408 3.152341 AGAGTGTTTTCCATCAGCTTGG 58.848 45.455 0.00 0.00 38.18 3.61
4557 5415 1.608055 TCCATCAGCTTGGTGTGTTG 58.392 50.000 4.36 0.00 38.01 3.33
4571 5429 3.547413 GGTGTGTTGCTTTTAACTCGTCC 60.547 47.826 0.00 0.00 0.00 4.79
4576 5434 6.205853 TGTGTTGCTTTTAACTCGTCCATAAT 59.794 34.615 0.00 0.00 0.00 1.28
4637 5500 4.154195 CCTTGTTCTCCAACCATTCTTACG 59.846 45.833 0.00 0.00 0.00 3.18
4671 5549 9.797642 ATATCAAATATGAAATGTGGCTGTAGA 57.202 29.630 0.00 0.00 39.49 2.59
4685 5563 3.406764 GCTGTAGATAATCCCAGCTTGG 58.593 50.000 10.54 0.00 45.25 3.61
4774 5653 1.234615 CGGTTGGTTCGTGCATCCTT 61.235 55.000 0.00 0.00 0.00 3.36
4791 5670 4.574674 TCCTTTTGCCTGATCTGTACAT 57.425 40.909 0.00 0.00 0.00 2.29
4831 5710 2.279741 CATCACCCAACGTATGTGGAG 58.720 52.381 6.32 0.00 0.00 3.86
4841 5720 1.134401 CGTATGTGGAGGGCATGAAGT 60.134 52.381 0.00 0.00 0.00 3.01
4987 5866 6.054295 GGAAGCAAGATAGGCTATCCATATG 58.946 44.000 26.79 20.92 41.66 1.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 0.106116 GGATCCCTCCTAGTCACGGT 60.106 60.000 0.00 0.00 38.65 4.83
72 73 2.159043 TGGATCAATCGACTTGGAGCTC 60.159 50.000 4.71 4.71 35.43 4.09
106 107 1.696832 GGCTTCAACGACGGATCTGC 61.697 60.000 0.00 0.00 0.00 4.26
115 116 0.249120 ATCATGGTCGGCTTCAACGA 59.751 50.000 0.00 0.00 38.13 3.85
118 119 0.617935 TCCATCATGGTCGGCTTCAA 59.382 50.000 2.79 0.00 39.03 2.69
133 134 2.040043 CCCTCCCCTCAGCTCCAT 60.040 66.667 0.00 0.00 0.00 3.41
158 159 1.352083 CAGTTCTCACTCCTTCCCCA 58.648 55.000 0.00 0.00 0.00 4.96
159 160 0.615850 CCAGTTCTCACTCCTTCCCC 59.384 60.000 0.00 0.00 0.00 4.81
160 161 1.645710 TCCAGTTCTCACTCCTTCCC 58.354 55.000 0.00 0.00 0.00 3.97
163 164 3.251484 TCCAATCCAGTTCTCACTCCTT 58.749 45.455 0.00 0.00 0.00 3.36
171 172 1.280421 GCTCCACTCCAATCCAGTTCT 59.720 52.381 0.00 0.00 0.00 3.01
200 201 3.178865 CAAACCCTACCCCTCACTCTTA 58.821 50.000 0.00 0.00 0.00 2.10
212 213 0.607217 CACCCCGGAACAAACCCTAC 60.607 60.000 0.73 0.00 0.00 3.18
222 223 0.044549 ACTTATACCCCACCCCGGAA 59.955 55.000 0.73 0.00 36.56 4.30
227 228 0.179065 GACGCACTTATACCCCACCC 60.179 60.000 0.00 0.00 0.00 4.61
239 240 1.166129 ATGACTCAGTACGACGCACT 58.834 50.000 0.00 0.00 0.00 4.40
243 244 3.681855 CCAAGTATGACTCAGTACGACG 58.318 50.000 0.00 0.00 0.00 5.12
326 327 0.916809 CCATCGGACCCCCTAAAGTT 59.083 55.000 0.00 0.00 0.00 2.66
360 361 1.471684 CTAAACGTCTAGCCGGACAGT 59.528 52.381 5.05 0.00 36.12 3.55
742 824 6.272558 AGGGGTTATGTATAGATTTCCAGGTC 59.727 42.308 0.00 0.00 0.00 3.85
994 1076 4.409218 GTGCGCTGCCATGGTGTG 62.409 66.667 14.67 14.04 0.00 3.82
995 1077 4.648626 AGTGCGCTGCCATGGTGT 62.649 61.111 14.67 0.00 0.00 4.16
996 1078 3.807538 GAGTGCGCTGCCATGGTG 61.808 66.667 14.67 8.06 0.00 4.17
1368 2141 1.138883 GTAGCGCATGACCTCGTCA 59.861 57.895 11.47 0.00 46.90 4.35
1502 2275 2.683362 GGACGGAGAAAGGGCTATTTTG 59.317 50.000 0.00 0.00 0.00 2.44
1503 2276 2.356844 GGGACGGAGAAAGGGCTATTTT 60.357 50.000 0.00 0.00 0.00 1.82
1504 2277 1.212195 GGGACGGAGAAAGGGCTATTT 59.788 52.381 0.00 0.00 0.00 1.40
1505 2278 0.837940 GGGACGGAGAAAGGGCTATT 59.162 55.000 0.00 0.00 0.00 1.73
1506 2279 1.054978 GGGGACGGAGAAAGGGCTAT 61.055 60.000 0.00 0.00 0.00 2.97
1507 2280 1.688187 GGGGACGGAGAAAGGGCTA 60.688 63.158 0.00 0.00 0.00 3.93
1508 2281 3.009714 GGGGACGGAGAAAGGGCT 61.010 66.667 0.00 0.00 0.00 5.19
1509 2282 3.009714 AGGGGACGGAGAAAGGGC 61.010 66.667 0.00 0.00 0.00 5.19
1514 2287 2.646175 CGAAGCAGGGGACGGAGAA 61.646 63.158 0.00 0.00 0.00 2.87
1545 2318 1.078143 AGATGACAGGAAAGGCGGC 60.078 57.895 0.00 0.00 0.00 6.53
1547 2320 1.081892 CACAGATGACAGGAAAGGCG 58.918 55.000 0.00 0.00 0.00 5.52
1548 2321 0.807496 GCACAGATGACAGGAAAGGC 59.193 55.000 0.00 0.00 0.00 4.35
1549 2322 2.082231 CAGCACAGATGACAGGAAAGG 58.918 52.381 0.00 0.00 0.00 3.11
1568 2373 2.432444 CCCAACTAACAGAAATCGGCA 58.568 47.619 0.00 0.00 0.00 5.69
1688 2493 4.340381 AGGTACGGCGTTTTCTACTATGAT 59.660 41.667 21.24 0.00 0.00 2.45
1712 2517 3.257873 ACAGATCTCTGACAAGTGGACAG 59.742 47.826 13.94 0.00 46.59 3.51
1762 2567 6.479660 TGCAAAATCTGAGTTTCCAACAAATC 59.520 34.615 0.00 0.00 0.00 2.17
1783 2588 3.084039 GAGTGATGAATCCAAGGTGCAA 58.916 45.455 0.00 0.00 0.00 4.08
1817 2622 9.892130 CAGATTACTCCAGGTTTAAGAAACTAT 57.108 33.333 2.39 0.00 41.14 2.12
1856 2661 6.238842 CCATAAGAGGTAAATCAGCCATGTTG 60.239 42.308 0.00 0.00 0.00 3.33
1969 2774 1.376037 GAAGTTCTCAGGGTGGCCG 60.376 63.158 0.00 0.00 0.00 6.13
1978 2783 2.163509 CCAGGAGTCTCGAAGTTCTCA 58.836 52.381 0.56 0.00 0.00 3.27
2018 2823 2.301009 TGAGCTCAGCTGAGATGAACAA 59.699 45.455 41.20 18.28 41.40 2.83
2083 2893 2.231964 CCTGCATAAGCCAAGCAAAAGA 59.768 45.455 0.00 0.00 41.13 2.52
2114 2924 1.961277 GGCATTCGCGATACCCTGG 60.961 63.158 10.88 0.00 39.92 4.45
2237 3047 2.032799 CACTGCACCGCTCAAACTAAAA 59.967 45.455 0.00 0.00 0.00 1.52
2249 3059 1.959226 AGGTTAACGCACTGCACCG 60.959 57.895 1.11 0.00 32.32 4.94
2284 3094 5.221461 CCATCTCCCACAATACAGTACCTAC 60.221 48.000 0.00 0.00 0.00 3.18
2345 3155 2.607134 CCCCAATGCCCAGCCAAA 60.607 61.111 0.00 0.00 0.00 3.28
2420 3230 5.065731 CACATCCTCTGTAAAAGCAATCTCC 59.934 44.000 0.00 0.00 35.91 3.71
2477 3287 2.755103 GTTGCCATTCTTAACCCAGAGG 59.245 50.000 0.00 0.00 40.04 3.69
2549 3359 2.583024 TGATCATTGTGGGCTTGTCA 57.417 45.000 0.00 0.00 0.00 3.58
2747 3565 0.190815 ATCCAAGGTTTGCCCTGGTT 59.809 50.000 1.68 0.00 45.47 3.67
2848 3668 3.368571 GCTGGACACCAAGCAGGC 61.369 66.667 0.00 0.00 43.14 4.85
3010 3830 0.824109 CGGGCAACTCTCCAGTGATA 59.176 55.000 0.00 0.00 31.06 2.15
3016 3836 4.020617 CCAGCGGGCAACTCTCCA 62.021 66.667 0.00 0.00 0.00 3.86
3059 3879 8.807948 AGTATCACAAGTAAATATGGCAAACT 57.192 30.769 0.00 0.00 0.00 2.66
3120 3940 4.255833 TGCTGGACAAATCAAACAATCC 57.744 40.909 0.00 0.00 0.00 3.01
3148 3968 0.462225 CATCTGCTGGGCTCTCTGTG 60.462 60.000 0.00 0.00 0.00 3.66
3406 4226 7.919690 TCATGTAGTCAGTGAAAACAAAGAAG 58.080 34.615 11.62 2.89 0.00 2.85
3514 4334 2.125269 GGTTGATGGGTCGGACCG 60.125 66.667 20.35 7.84 39.83 4.79
3799 4619 2.048222 TCTTCGGCAGCCTTCACG 60.048 61.111 10.54 0.00 0.00 4.35
3949 4769 0.539986 TTTGCCATCCGAGGGTAGAC 59.460 55.000 0.20 0.00 0.00 2.59
3979 4799 1.026718 CGATGGTCTTGCCCTTGGAC 61.027 60.000 0.00 0.00 36.04 4.02
4024 4844 0.325296 TGTAGATCTTCGGGGCAGGT 60.325 55.000 0.00 0.00 0.00 4.00
4150 4971 1.806623 GCACGAGACCTTCACAAGTGT 60.807 52.381 0.00 0.00 0.00 3.55
4155 4976 2.099652 CTGGGCACGAGACCTTCACA 62.100 60.000 6.22 0.00 46.30 3.58
4181 5003 1.289830 TCCTCTCCCTCCGTTATTCCA 59.710 52.381 0.00 0.00 0.00 3.53
4367 5199 0.439985 CAAGCACGACCATCAGTTCG 59.560 55.000 0.00 0.00 0.00 3.95
4459 5313 3.636153 AGGGGAAGATGAGCAAACTAC 57.364 47.619 0.00 0.00 0.00 2.73
4526 5384 5.163683 CCAAGCTGATGGAAAACACTCTATG 60.164 44.000 0.00 0.00 43.54 2.23
4550 5408 3.064271 TGGACGAGTTAAAAGCAACACAC 59.936 43.478 0.00 0.00 0.00 3.82
4685 5563 6.183360 ACCACTTTGTAAGATGCTTCATATGC 60.183 38.462 0.00 0.00 0.00 3.14
4774 5653 3.054875 AGCTGATGTACAGATCAGGCAAA 60.055 43.478 22.09 0.00 46.54 3.68
4831 5710 3.614092 TGAAGAGATCAACTTCATGCCC 58.386 45.455 22.48 5.89 45.44 5.36
4841 5720 5.476614 CACACACAGAGATGAAGAGATCAA 58.523 41.667 0.00 0.00 42.54 2.57
4855 5734 1.148273 GGAGCCAACCACACACAGA 59.852 57.895 0.00 0.00 0.00 3.41
4858 5737 2.597510 GGGGAGCCAACCACACAC 60.598 66.667 0.00 0.00 32.85 3.82
4987 5866 2.941720 GAGCACATGGAAGAGGATGAAC 59.058 50.000 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.