Multiple sequence alignment - TraesCS4D01G118100

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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 TraesCS4D01G118100 chr4D 100.000 5101 0 0 1 5101 98575488 98580588 0.000000e+00 9420.0
1 TraesCS4D01G118100 chr4D 100.000 2274 0 0 5384 7657 98580871 98583144 0.000000e+00 4200.0
2 TraesCS4D01G118100 chr4D 85.180 2888 352 45 577 3418 98883448 98886305 0.000000e+00 2892.0
3 TraesCS4D01G118100 chr4B 96.652 4630 110 26 507 5101 140595028 140590409 0.000000e+00 7649.0
4 TraesCS4D01G118100 chr4B 85.096 2798 339 45 661 3418 140701541 140704300 0.000000e+00 2785.0
5 TraesCS4D01G118100 chr4B 94.035 1777 69 10 5480 7254 140590240 140588499 0.000000e+00 2660.0
6 TraesCS4D01G118100 chr4B 87.054 224 21 5 222 439 140601346 140601125 5.930000e-61 246.0
7 TraesCS4D01G118100 chr4B 83.190 232 13 9 1 224 140601881 140601668 1.010000e-43 189.0
8 TraesCS4D01G118100 chr4B 100.000 55 0 0 5411 5465 140590276 140590222 1.360000e-17 102.0
9 TraesCS4D01G118100 chr4A 98.648 3551 37 7 833 4374 477313281 477309733 0.000000e+00 6281.0
10 TraesCS4D01G118100 chr4A 95.926 2283 71 7 5384 7657 477308907 477306638 0.000000e+00 3681.0
11 TraesCS4D01G118100 chr4A 85.462 2889 342 45 577 3418 477067255 477064398 0.000000e+00 2937.0
12 TraesCS4D01G118100 chr4A 91.582 784 38 12 1 762 477314345 477313568 0.000000e+00 1057.0
13 TraesCS4D01G118100 chr4A 93.533 634 26 14 4431 5058 477309734 477309110 0.000000e+00 929.0
14 TraesCS4D01G118100 chr4A 97.778 45 1 0 5057 5101 477308945 477308901 2.290000e-10 78.7


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 TraesCS4D01G118100 chr4D 98575488 98583144 7656 False 6810.000000 9420 100.000000 1 7657 2 chr4D.!!$F2 7656
1 TraesCS4D01G118100 chr4D 98883448 98886305 2857 False 2892.000000 2892 85.180000 577 3418 1 chr4D.!!$F1 2841
2 TraesCS4D01G118100 chr4B 140588499 140595028 6529 True 3470.333333 7649 96.895667 507 7254 3 chr4B.!!$R1 6747
3 TraesCS4D01G118100 chr4B 140701541 140704300 2759 False 2785.000000 2785 85.096000 661 3418 1 chr4B.!!$F1 2757
4 TraesCS4D01G118100 chr4B 140601125 140601881 756 True 217.500000 246 85.122000 1 439 2 chr4B.!!$R2 438
5 TraesCS4D01G118100 chr4A 477064398 477067255 2857 True 2937.000000 2937 85.462000 577 3418 1 chr4A.!!$R1 2841
6 TraesCS4D01G118100 chr4A 477306638 477314345 7707 True 2405.340000 6281 95.493400 1 7657 5 chr4A.!!$R2 7656

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
466 813 0.447801 GTGCCTTCATGCAAGTACCG 59.552 55.000 0.00 0.0 44.11 4.02 F
467 814 0.676466 TGCCTTCATGCAAGTACCGG 60.676 55.000 0.00 0.0 38.56 5.28 F
563 915 0.952984 AAAAGAGGAGCACGAGCAGC 60.953 55.000 7.77 0.0 45.49 5.25 F
1716 2318 1.271054 GCTGAAGAGAAGAGGTTGGCA 60.271 52.381 0.00 0.0 0.00 4.92 F
2778 3381 3.357079 CACACGCCCTTCTGTGCC 61.357 66.667 0.00 0.0 39.71 5.01 F
2924 3527 3.483421 ACAGGTTTACCTTAAGTGGTGC 58.517 45.455 0.00 0.0 46.09 5.01 F
4422 5055 2.224499 TGATGCTTGGTTACTGTGCTCA 60.224 45.455 0.00 0.0 0.00 4.26 F
4970 5618 2.166254 AGTGCCACAACCTTTGAACTTG 59.834 45.455 0.00 0.0 0.00 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2259 2861 2.074576 GACTGGGCGTCTCTTTTAACC 58.925 52.381 0.0 0.0 39.61 2.85 R
2339 2941 7.764443 TGCTACTTACAGGTTGATGAGAATTAC 59.236 37.037 0.0 0.0 0.00 1.89 R
2677 3280 5.009631 TGTAAAGTGCATTGACTGGCTTAT 58.990 37.500 0.0 0.0 0.00 1.73 R
3524 4152 1.051812 AGTGAACCAGACCACCTGAG 58.948 55.000 0.0 0.0 45.78 3.35 R
3969 4602 1.906574 AGAAACCCAGCTAACCGATCA 59.093 47.619 0.0 0.0 0.00 2.92 R
4970 5618 1.027357 ATCCGCAAGCCATCATTCAC 58.973 50.000 0.0 0.0 0.00 3.18 R
5556 6489 0.110486 AGTCGCCTCCACAACCATTT 59.890 50.000 0.0 0.0 0.00 2.32 R
6928 7862 3.054802 ACAAACCTGATGATCTCTCACCC 60.055 47.826 0.0 0.0 33.22 4.61 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
119 128 4.130286 AGCTTGACAACTCAGCTATACC 57.870 45.455 0.00 0.00 32.41 2.73
233 568 7.390823 TGTACATGATCTGTTAAAAGCACCTA 58.609 34.615 0.00 0.00 39.39 3.08
244 583 3.942130 AAAGCACCTAACCTGCAAATC 57.058 42.857 0.00 0.00 37.08 2.17
251 590 4.770010 CACCTAACCTGCAAATCCCTAAAA 59.230 41.667 0.00 0.00 0.00 1.52
256 595 9.362151 CCTAACCTGCAAATCCCTAAAATATTA 57.638 33.333 0.00 0.00 0.00 0.98
353 695 3.997021 CGTTGGAGATGCTCTAAAACACT 59.003 43.478 0.00 0.00 33.06 3.55
366 708 6.872020 GCTCTAAAACACTCTAACCACACATA 59.128 38.462 0.00 0.00 0.00 2.29
440 787 9.442047 ACTTCAATCAGAGTAGAAAAATGTAGG 57.558 33.333 0.00 0.00 0.00 3.18
454 801 6.699575 AAAATGTAGGTATCATGTGCCTTC 57.300 37.500 9.46 6.29 40.41 3.46
466 813 0.447801 GTGCCTTCATGCAAGTACCG 59.552 55.000 0.00 0.00 44.11 4.02
467 814 0.676466 TGCCTTCATGCAAGTACCGG 60.676 55.000 0.00 0.00 38.56 5.28
488 835 3.255642 GGACTGGAACAAAATAGCAAGCA 59.744 43.478 0.00 0.00 38.70 3.91
491 838 6.183360 GGACTGGAACAAAATAGCAAGCATAT 60.183 38.462 0.00 0.00 38.70 1.78
493 840 7.934457 ACTGGAACAAAATAGCAAGCATATAG 58.066 34.615 0.00 0.00 38.70 1.31
495 842 8.158169 TGGAACAAAATAGCAAGCATATAGAG 57.842 34.615 0.00 0.00 31.92 2.43
496 843 7.775093 TGGAACAAAATAGCAAGCATATAGAGT 59.225 33.333 0.00 0.00 31.92 3.24
563 915 0.952984 AAAAGAGGAGCACGAGCAGC 60.953 55.000 7.77 0.00 45.49 5.25
765 1125 3.468326 GAGCAAGGCGGATCCCCTC 62.468 68.421 18.86 9.95 34.51 4.30
1182 1781 2.957312 GCTCCTCACCCTCTTCTGGTAT 60.957 54.545 0.00 0.00 33.84 2.73
1716 2318 1.271054 GCTGAAGAGAAGAGGTTGGCA 60.271 52.381 0.00 0.00 0.00 4.92
2259 2861 3.845178 TGCAACTGACCAGAGTAATACG 58.155 45.455 3.76 0.00 0.00 3.06
2339 2941 6.481644 GCTGGAGAAACTAGAAATATGTGGAG 59.518 42.308 0.00 0.00 0.00 3.86
2778 3381 3.357079 CACACGCCCTTCTGTGCC 61.357 66.667 0.00 0.00 39.71 5.01
2924 3527 3.483421 ACAGGTTTACCTTAAGTGGTGC 58.517 45.455 0.00 0.00 46.09 5.01
3524 4152 6.437928 TGTTAGCTTGATTGTGAATTGTGAC 58.562 36.000 0.00 0.00 0.00 3.67
3833 4464 7.636150 AATATGTGGAAGATCTTTTGGTCTG 57.364 36.000 9.87 0.00 0.00 3.51
3834 4465 4.705110 TGTGGAAGATCTTTTGGTCTGA 57.295 40.909 9.87 0.00 0.00 3.27
3835 4466 5.047566 TGTGGAAGATCTTTTGGTCTGAA 57.952 39.130 9.87 0.00 0.00 3.02
3836 4467 4.821805 TGTGGAAGATCTTTTGGTCTGAAC 59.178 41.667 9.87 0.00 0.00 3.18
3837 4468 5.066593 GTGGAAGATCTTTTGGTCTGAACT 58.933 41.667 9.87 0.00 0.00 3.01
3838 4469 6.183361 TGTGGAAGATCTTTTGGTCTGAACTA 60.183 38.462 9.87 0.00 0.00 2.24
3839 4470 6.710744 GTGGAAGATCTTTTGGTCTGAACTAA 59.289 38.462 9.87 0.00 0.00 2.24
4417 5050 5.130975 TGGATAGATGATGCTTGGTTACTGT 59.869 40.000 0.00 0.00 0.00 3.55
4418 5051 5.468072 GGATAGATGATGCTTGGTTACTGTG 59.532 44.000 0.00 0.00 0.00 3.66
4419 5052 3.012518 AGATGATGCTTGGTTACTGTGC 58.987 45.455 0.00 0.00 0.00 4.57
4420 5053 2.566833 TGATGCTTGGTTACTGTGCT 57.433 45.000 0.00 0.00 0.00 4.40
4422 5055 2.224499 TGATGCTTGGTTACTGTGCTCA 60.224 45.455 0.00 0.00 0.00 4.26
4484 5125 3.493129 GTGCATTTCTGTGTCTTGTACGA 59.507 43.478 0.00 0.00 0.00 3.43
4485 5126 3.493129 TGCATTTCTGTGTCTTGTACGAC 59.507 43.478 0.00 0.00 34.52 4.34
4486 5127 3.493129 GCATTTCTGTGTCTTGTACGACA 59.507 43.478 0.02 0.02 41.33 4.35
4519 5162 5.925397 TGTTGGCTTGTTGCAAGTAAATATG 59.075 36.000 0.00 0.00 45.15 1.78
4562 5205 7.177216 TGTTTGATAATTCCTCTGTTGCAAGAT 59.823 33.333 0.00 0.00 0.00 2.40
4592 5235 5.671329 GCGTATTTTGACTACCAGCTTTGAG 60.671 44.000 0.00 0.00 0.00 3.02
4970 5618 2.166254 AGTGCCACAACCTTTGAACTTG 59.834 45.455 0.00 0.00 0.00 3.16
4985 5633 3.248266 GAACTTGTGAATGATGGCTTGC 58.752 45.455 0.00 0.00 0.00 4.01
5088 5902 5.660460 ACATTCTGGGTGTCTTTTGTTTTC 58.340 37.500 0.00 0.00 0.00 2.29
5097 5911 8.919145 TGGGTGTCTTTTGTTTTCTTATACATT 58.081 29.630 0.00 0.00 0.00 2.71
5098 5912 9.191995 GGGTGTCTTTTGTTTTCTTATACATTG 57.808 33.333 0.00 0.00 0.00 2.82
5099 5913 8.699749 GGTGTCTTTTGTTTTCTTATACATTGC 58.300 33.333 0.00 0.00 0.00 3.56
5100 5914 9.243637 GTGTCTTTTGTTTTCTTATACATTGCA 57.756 29.630 0.00 0.00 0.00 4.08
5464 6390 3.817647 GTGAGTGAGGCATCTTTGAACTT 59.182 43.478 0.00 0.00 0.00 2.66
5698 6631 0.530744 TGGTTCCATTCTCGAGTCCG 59.469 55.000 13.13 1.57 37.07 4.79
6128 7061 5.527214 TGTGTATTCGATTTTGAGCCCATAG 59.473 40.000 0.00 0.00 0.00 2.23
6227 7160 4.021368 GCATCGACCAGGTTACATATAGGT 60.021 45.833 0.00 0.00 0.00 3.08
6273 7206 5.958380 TCACTTCACAGTACCTGGAGATTAT 59.042 40.000 0.00 0.00 35.51 1.28
6362 7295 9.739276 ATAATGTTCACTTTGATCCTTGTAAGA 57.261 29.630 0.00 0.00 0.00 2.10
6453 7387 4.883083 TGTGTCATCGGATTATTAGGAGC 58.117 43.478 0.00 0.00 0.00 4.70
6560 7494 4.262894 GGAGTAAGTCAAATCCACTCACCA 60.263 45.833 0.00 0.00 37.87 4.17
6928 7862 3.862267 CGTTCTTATCCTTGCAGTCTGAG 59.138 47.826 3.32 0.00 0.00 3.35
7101 8035 7.539366 GCAAATTTTGTTTAATCTGCATGCATT 59.461 29.630 22.97 16.22 0.00 3.56
7104 8038 6.954616 TTTGTTTAATCTGCATGCATTCTG 57.045 33.333 22.97 9.79 0.00 3.02
7207 8141 4.319177 AGATGACAACAGTAAAGCCTGTC 58.681 43.478 0.00 0.00 44.74 3.51
7226 8160 4.454678 TGTCATCTTTTCACAGTGAAGCT 58.545 39.130 15.61 0.00 37.70 3.74
7272 8206 6.655078 CATATGTGCTAAAGGCCCTTTTAT 57.345 37.500 15.13 2.07 40.92 1.40
7333 8267 2.921834 ACTGAAGTACCTGCCTCCTA 57.078 50.000 0.00 0.00 0.00 2.94
7380 8315 0.321298 TGTGCTTTCCGTTCCTAGGC 60.321 55.000 2.96 0.00 0.00 3.93
7418 8353 1.301401 TTGGGGACTCTTTGCGTCG 60.301 57.895 0.00 0.00 32.24 5.12
7429 8364 2.032799 TCTTTGCGTCGTTTGATTTGCT 59.967 40.909 0.00 0.00 0.00 3.91
7437 8372 1.418373 GTTTGATTTGCTTGGACGGC 58.582 50.000 0.00 0.00 0.00 5.68
7438 8373 1.035923 TTTGATTTGCTTGGACGGCA 58.964 45.000 0.00 0.00 37.97 5.69
7471 8406 2.509336 CGCCTCACGGTCCATGAC 60.509 66.667 0.00 0.00 38.44 3.06
7474 8409 2.184322 CTCACGGTCCATGACGGG 59.816 66.667 0.00 0.00 37.23 5.28
7475 8410 3.371097 CTCACGGTCCATGACGGGG 62.371 68.421 0.00 2.72 37.58 5.73
7476 8411 3.702048 CACGGTCCATGACGGGGT 61.702 66.667 0.00 0.00 37.23 4.95
7479 8414 3.006728 GGTCCATGACGGGGTGGA 61.007 66.667 0.00 1.38 42.03 4.02
7480 8415 2.375345 GGTCCATGACGGGGTGGAT 61.375 63.158 7.95 0.00 45.57 3.41
7481 8416 1.052124 GGTCCATGACGGGGTGGATA 61.052 60.000 7.95 0.00 45.57 2.59
7482 8417 0.834612 GTCCATGACGGGGTGGATAA 59.165 55.000 7.95 0.00 45.57 1.75
7487 8422 3.094498 ACGGGGTGGATAAGGGGC 61.094 66.667 0.00 0.00 0.00 5.80
7554 8489 4.332543 TCGGTGAGGGGAAGCCCT 62.333 66.667 2.01 0.00 44.66 5.19
7573 8508 3.416490 CGTCACGCTGGTTTGGTT 58.584 55.556 0.00 0.00 0.00 3.67
7580 8515 1.008538 GCTGGTTTGGTTGCGACAG 60.009 57.895 6.39 0.00 0.00 3.51
7606 8541 3.071837 TGTGTCGCGCCCATAGGA 61.072 61.111 0.00 0.00 33.47 2.94
7615 8550 1.251527 CGCCCATAGGATCGGCTAGT 61.252 60.000 6.95 0.00 40.70 2.57
7622 8557 0.324368 AGGATCGGCTAGTGTGTGGA 60.324 55.000 0.00 0.00 0.00 4.02
7632 8567 1.190833 AGTGTGTGGAGCTCCCTCTG 61.191 60.000 29.95 0.00 38.21 3.35
7647 8582 2.030562 CTGTCGGGTTGGTTCGCT 59.969 61.111 0.00 0.00 0.00 4.93
7653 8588 2.700773 GGGTTGGTTCGCTCATGCC 61.701 63.158 0.00 0.00 35.36 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 81 9.973450 TGTCAAGCTTAAAATTTTGTATTAGCA 57.027 25.926 13.76 1.86 0.00 3.49
86 87 9.515020 CTGAGTTGTCAAGCTTAAAATTTTGTA 57.485 29.630 13.76 0.97 30.14 2.41
88 89 7.223387 AGCTGAGTTGTCAAGCTTAAAATTTTG 59.777 33.333 13.76 0.00 35.11 2.44
140 149 3.758554 GAGAAGGCTTGTATTTTGGCTCA 59.241 43.478 3.46 0.00 35.53 4.26
251 590 7.648177 ATGGTTATTGGAGGTGTCCTAATAT 57.352 36.000 0.00 0.00 44.30 1.28
256 595 4.675063 AAATGGTTATTGGAGGTGTCCT 57.325 40.909 0.00 0.00 44.30 3.85
321 663 3.117888 AGCATCTCCAACGTATTCCCATT 60.118 43.478 0.00 0.00 0.00 3.16
353 695 9.599866 CATGTTTCTTCTATATGTGTGGTTAGA 57.400 33.333 0.00 0.00 0.00 2.10
384 726 3.818295 TTACCACCCTTGCAAGGTATT 57.182 42.857 37.09 21.94 44.98 1.89
389 731 5.186797 TGGAAATATTTACCACCCTTGCAAG 59.813 40.000 19.93 19.93 0.00 4.01
454 801 0.249120 TCCAGTCCGGTACTTGCATG 59.751 55.000 0.00 0.00 35.76 4.06
466 813 3.255642 TGCTTGCTATTTTGTTCCAGTCC 59.744 43.478 0.00 0.00 0.00 3.85
467 814 4.503741 TGCTTGCTATTTTGTTCCAGTC 57.496 40.909 0.00 0.00 0.00 3.51
533 885 3.138283 TGCTCCTCTTTTTCTTTCTCCCA 59.862 43.478 0.00 0.00 0.00 4.37
570 922 2.164663 CGGATAAAGCGTCGCTGCA 61.165 57.895 22.50 12.09 39.62 4.41
1716 2318 2.172293 CAGCATTTCCCTCTCTAGCCTT 59.828 50.000 0.00 0.00 0.00 4.35
2259 2861 2.074576 GACTGGGCGTCTCTTTTAACC 58.925 52.381 0.00 0.00 39.61 2.85
2339 2941 7.764443 TGCTACTTACAGGTTGATGAGAATTAC 59.236 37.037 0.00 0.00 0.00 1.89
2677 3280 5.009631 TGTAAAGTGCATTGACTGGCTTAT 58.990 37.500 0.00 0.00 0.00 1.73
2778 3381 3.120199 CCAATACTGTTGTTTCTGCCTCG 60.120 47.826 0.00 0.00 0.00 4.63
2924 3527 1.178534 AACATGTGGTTCCTTGGCGG 61.179 55.000 0.00 0.00 33.35 6.13
3524 4152 1.051812 AGTGAACCAGACCACCTGAG 58.948 55.000 0.00 0.00 45.78 3.35
3838 4469 9.297037 ACTGTAAAATTTACTGGTGCTTATCTT 57.703 29.630 21.19 0.55 0.00 2.40
3839 4470 8.863872 ACTGTAAAATTTACTGGTGCTTATCT 57.136 30.769 21.19 1.12 0.00 1.98
3958 4591 4.037690 GCTAACCGATCAAATTGCATGAC 58.962 43.478 0.00 0.00 0.00 3.06
3969 4602 1.906574 AGAAACCCAGCTAACCGATCA 59.093 47.619 0.00 0.00 0.00 2.92
4417 5050 3.999001 GACACTGAATCATTCACTGAGCA 59.001 43.478 12.49 0.00 37.28 4.26
4418 5051 4.252073 AGACACTGAATCATTCACTGAGC 58.748 43.478 12.49 5.67 37.28 4.26
4419 5052 6.798315 AAAGACACTGAATCATTCACTGAG 57.202 37.500 12.49 0.00 37.28 3.35
4420 5053 6.016860 CCAAAAGACACTGAATCATTCACTGA 60.017 38.462 12.49 0.00 38.53 3.41
4422 5055 5.278660 GCCAAAAGACACTGAATCATTCACT 60.279 40.000 0.00 0.00 35.46 3.41
4484 5125 4.001618 ACAAGCCAACAAACAAAACTGT 57.998 36.364 0.00 0.00 0.00 3.55
4485 5126 4.710680 CAACAAGCCAACAAACAAAACTG 58.289 39.130 0.00 0.00 0.00 3.16
4486 5127 3.188254 GCAACAAGCCAACAAACAAAACT 59.812 39.130 0.00 0.00 37.23 2.66
4562 5205 3.008157 TGGTAGTCAAAATACGCCTTCCA 59.992 43.478 0.00 0.00 0.00 3.53
4804 5450 4.403113 TGTAATCCTTACATGAGGTACGCA 59.597 41.667 0.00 0.00 40.97 5.24
4970 5618 1.027357 ATCCGCAAGCCATCATTCAC 58.973 50.000 0.00 0.00 0.00 3.18
5383 6197 6.408858 AACTACGACTAGTGAATTGCAATG 57.591 37.500 13.82 1.37 33.14 2.82
5384 6198 7.321153 ACTAACTACGACTAGTGAATTGCAAT 58.679 34.615 5.99 5.99 33.14 3.56
5475 6408 0.400213 TTCAAAGATGCCTCACCCGT 59.600 50.000 0.00 0.00 0.00 5.28
5555 6488 0.958822 GTCGCCTCCACAACCATTTT 59.041 50.000 0.00 0.00 0.00 1.82
5556 6489 0.110486 AGTCGCCTCCACAACCATTT 59.890 50.000 0.00 0.00 0.00 2.32
5557 6490 0.110486 AAGTCGCCTCCACAACCATT 59.890 50.000 0.00 0.00 0.00 3.16
5698 6631 5.501897 CGAATTGGAGTTATCGTTGGCTAAC 60.502 44.000 2.28 2.28 0.00 2.34
6015 6948 5.880054 ATAGCGCTATTTCAAAACTGTGT 57.120 34.783 24.15 0.00 0.00 3.72
6128 7061 6.047870 ACTCTCATCACAGTGAATATTGCTC 58.952 40.000 7.50 0.00 0.00 4.26
6208 7141 4.931661 ACACCTATATGTAACCTGGTCG 57.068 45.455 0.00 0.00 0.00 4.79
6227 7160 9.295825 AGTGATGGTGAATGATTAACTTAAACA 57.704 29.630 0.00 0.00 0.00 2.83
6362 7295 8.738645 AAGATAATTTTCTCGGCATTAGAGTT 57.261 30.769 0.00 0.00 37.07 3.01
6421 7355 3.395639 TCCGATGACACAGGTAAACAAC 58.604 45.455 0.00 0.00 0.00 3.32
6928 7862 3.054802 ACAAACCTGATGATCTCTCACCC 60.055 47.826 0.00 0.00 33.22 4.61
7130 8064 6.254589 TGGTTTTCACTGCAAATTTTAGAACG 59.745 34.615 6.29 0.00 0.00 3.95
7207 8141 8.173775 CAGTATTAGCTTCACTGTGAAAAGATG 58.826 37.037 22.25 12.35 35.73 2.90
7226 8160 5.652452 TGCACTTGCTCTAGACTCAGTATTA 59.348 40.000 2.33 0.00 42.66 0.98
7315 8249 2.035632 CCTAGGAGGCAGGTACTTCAG 58.964 57.143 1.05 0.00 34.60 3.02
7318 8252 0.031010 CCCCTAGGAGGCAGGTACTT 60.031 60.000 11.48 0.00 30.73 2.24
7399 8334 1.566018 CGACGCAAAGAGTCCCCAAC 61.566 60.000 0.00 0.00 35.33 3.77
7401 8336 2.035237 AACGACGCAAAGAGTCCCCA 62.035 55.000 0.00 0.00 35.33 4.96
7402 8337 0.883370 AAACGACGCAAAGAGTCCCC 60.883 55.000 0.00 0.00 35.33 4.81
7403 8338 0.234884 CAAACGACGCAAAGAGTCCC 59.765 55.000 0.00 0.00 35.33 4.46
7404 8339 1.214367 TCAAACGACGCAAAGAGTCC 58.786 50.000 0.00 0.00 35.33 3.85
7405 8340 3.521524 AATCAAACGACGCAAAGAGTC 57.478 42.857 0.00 0.00 35.41 3.36
7406 8341 3.617669 CAAATCAAACGACGCAAAGAGT 58.382 40.909 0.00 0.00 0.00 3.24
7418 8353 1.269517 TGCCGTCCAAGCAAATCAAAC 60.270 47.619 0.00 0.00 37.28 2.93
7468 8403 1.691337 CCCCTTATCCACCCCGTCA 60.691 63.158 0.00 0.00 0.00 4.35
7470 8405 3.094498 GCCCCTTATCCACCCCGT 61.094 66.667 0.00 0.00 0.00 5.28
7471 8406 4.250305 CGCCCCTTATCCACCCCG 62.250 72.222 0.00 0.00 0.00 5.73
7474 8409 0.036294 GATAGCGCCCCTTATCCACC 60.036 60.000 2.29 0.00 0.00 4.61
7475 8410 0.685097 TGATAGCGCCCCTTATCCAC 59.315 55.000 2.29 0.00 0.00 4.02
7476 8411 1.278985 CATGATAGCGCCCCTTATCCA 59.721 52.381 2.29 0.00 0.00 3.41
7479 8414 1.003580 CCACATGATAGCGCCCCTTAT 59.996 52.381 2.29 0.00 0.00 1.73
7480 8415 0.396435 CCACATGATAGCGCCCCTTA 59.604 55.000 2.29 0.00 0.00 2.69
7481 8416 1.149174 CCACATGATAGCGCCCCTT 59.851 57.895 2.29 0.00 0.00 3.95
7482 8417 2.831770 CCACATGATAGCGCCCCT 59.168 61.111 2.29 0.00 0.00 4.79
7587 8522 3.254654 CTATGGGCGCGACACACG 61.255 66.667 17.00 1.90 45.66 4.49
7600 8535 2.288457 CCACACACTAGCCGATCCTATG 60.288 54.545 0.00 0.00 0.00 2.23
7606 8541 0.972983 AGCTCCACACACTAGCCGAT 60.973 55.000 0.00 0.00 36.92 4.18
7615 8550 1.152247 ACAGAGGGAGCTCCACACA 60.152 57.895 33.29 0.00 38.24 3.72
7632 8567 1.375523 ATGAGCGAACCAACCCGAC 60.376 57.895 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.