Multiple sequence alignment - TraesCS3B01G467600

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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 TraesCS3B01G467600 chr3B 100.000 3399 0 0 1 3399 710589191 710585793 0.000000e+00 6277
1 TraesCS3B01G467600 chr3D 89.957 3465 155 75 1 3399 537147108 537143771 0.000000e+00 4292
2 TraesCS3B01G467600 chr3A 89.279 3414 183 85 41 3399 672552460 672549175 0.000000e+00 4108
3 TraesCS3B01G467600 chr1B 84.543 634 57 24 2625 3239 542807353 542806742 1.050000e-164 590
4 TraesCS3B01G467600 chrUn 76.316 456 62 30 2861 3291 356637294 356637728 5.750000e-48 202
5 TraesCS3B01G467600 chrUn 76.316 456 61 31 2861 3291 304218019 304217586 2.070000e-47 200
6 TraesCS3B01G467600 chr4B 76.316 456 62 30 2861 3291 237886677 237886243 5.750000e-48 202
7 TraesCS3B01G467600 chr4B 76.942 399 51 27 2861 3235 237846712 237846331 4.480000e-44 189


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 TraesCS3B01G467600 chr3B 710585793 710589191 3398 True 6277 6277 100.000 1 3399 1 chr3B.!!$R1 3398
1 TraesCS3B01G467600 chr3D 537143771 537147108 3337 True 4292 4292 89.957 1 3399 1 chr3D.!!$R1 3398
2 TraesCS3B01G467600 chr3A 672549175 672552460 3285 True 4108 4108 89.279 41 3399 1 chr3A.!!$R1 3358
3 TraesCS3B01G467600 chr1B 542806742 542807353 611 True 590 590 84.543 2625 3239 1 chr1B.!!$R1 614

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
717 739 0.672401 CGTTCCAAAGCCCGCTTAGA 60.672 55.0 1.66 0.37 34.84 2.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2481 2567 0.400213 CTGCACACAAAGGAGGGGTA 59.6 55.0 0.0 0.0 0.0 3.69 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
28 29 5.973565 GCAATCCAAATTCACCGAAGAATAG 59.026 40.000 3.28 0.93 37.24 1.73
35 36 7.362056 CCAAATTCACCGAAGAATAGACACAAT 60.362 37.037 3.28 0.00 37.24 2.71
43 55 3.599343 AGAATAGACACAATCAAGCGCA 58.401 40.909 11.47 0.00 0.00 6.09
163 175 6.038161 ACAAAACAAACGTCAGATCAGATCAA 59.962 34.615 13.14 0.00 0.00 2.57
236 249 3.522731 CGGAGCAGGAGGAGGTCG 61.523 72.222 0.00 0.00 34.46 4.79
353 366 0.816421 TCATCGCTGCCATGTCCATG 60.816 55.000 7.12 0.14 38.51 3.66
361 374 3.576356 CATGTCCATGGCGTCGGC 61.576 66.667 12.58 12.58 35.24 5.54
443 465 3.684697 GCTTACCTAGGGTTTTAGGCCTG 60.685 52.174 17.99 0.00 43.36 4.85
444 466 2.354261 ACCTAGGGTTTTAGGCCTGA 57.646 50.000 17.99 3.42 43.36 3.86
445 467 2.197465 ACCTAGGGTTTTAGGCCTGAG 58.803 52.381 17.99 0.00 43.36 3.35
446 468 2.225805 ACCTAGGGTTTTAGGCCTGAGA 60.226 50.000 17.99 0.00 43.36 3.27
447 469 2.170817 CCTAGGGTTTTAGGCCTGAGAC 59.829 54.545 17.99 13.18 34.23 3.36
448 470 2.046280 AGGGTTTTAGGCCTGAGACT 57.954 50.000 17.99 2.90 0.00 3.24
468 490 1.303282 GCTTCGATTTGGGGGAGGT 59.697 57.895 0.00 0.00 0.00 3.85
470 492 1.001393 TTCGATTTGGGGGAGGTGC 60.001 57.895 0.00 0.00 0.00 5.01
512 534 6.239402 GGGGAACTAGTAGTTGTTGTTGTAGA 60.239 42.308 20.21 0.00 38.80 2.59
514 536 7.255730 GGGAACTAGTAGTTGTTGTTGTAGAGA 60.256 40.741 20.21 0.00 38.80 3.10
515 537 8.139989 GGAACTAGTAGTTGTTGTTGTAGAGAA 58.860 37.037 20.21 0.00 38.80 2.87
516 538 9.525409 GAACTAGTAGTTGTTGTTGTAGAGAAA 57.475 33.333 20.21 0.00 38.80 2.52
517 539 9.880157 AACTAGTAGTTGTTGTTGTAGAGAAAA 57.120 29.630 14.82 0.00 37.00 2.29
548 570 2.987752 GGGGATCGAACCGCTTTAG 58.012 57.895 19.77 0.00 39.35 1.85
601 623 3.790437 CCCACCTGCCAGCGAGAT 61.790 66.667 0.00 0.00 0.00 2.75
655 677 2.827652 CGGGAGGAGATAGAAAAGCAC 58.172 52.381 0.00 0.00 0.00 4.40
659 681 4.141620 GGGAGGAGATAGAAAAGCACATCA 60.142 45.833 0.00 0.00 0.00 3.07
690 712 2.280797 AGCTCGGCAGTTCGCAAA 60.281 55.556 0.00 0.00 45.17 3.68
693 715 1.289109 GCTCGGCAGTTCGCAAACTA 61.289 55.000 0.00 0.00 43.99 2.24
703 725 2.396157 CGCAAACTAGGCCCGTTCC 61.396 63.158 0.00 0.00 0.00 3.62
704 726 1.302993 GCAAACTAGGCCCGTTCCA 60.303 57.895 0.00 0.00 0.00 3.53
717 739 0.672401 CGTTCCAAAGCCCGCTTAGA 60.672 55.000 1.66 0.37 34.84 2.10
744 766 2.261671 CCGTTGTCGTCCAGAGGG 59.738 66.667 0.00 0.00 35.01 4.30
745 767 2.261671 CGTTGTCGTCCAGAGGGG 59.738 66.667 0.00 0.00 38.37 4.79
746 768 2.273179 CGTTGTCGTCCAGAGGGGA 61.273 63.158 0.00 0.00 45.89 4.81
784 807 2.288948 TGCTGGAATTTTGGTGCATGTC 60.289 45.455 0.00 0.00 0.00 3.06
786 809 3.581755 CTGGAATTTTGGTGCATGTCTG 58.418 45.455 0.00 0.00 0.00 3.51
913 939 1.369209 CAAGCAACGCAAGGTCACG 60.369 57.895 0.00 0.00 46.39 4.35
931 969 1.376037 GGGTGGTCGCCAAGAAGAG 60.376 63.158 2.81 0.00 34.18 2.85
940 978 1.203523 CGCCAAGAAGAGCAGAGTAGT 59.796 52.381 0.00 0.00 0.00 2.73
941 979 2.615869 GCCAAGAAGAGCAGAGTAGTG 58.384 52.381 0.00 0.00 0.00 2.74
1056 1096 2.444706 CGGGAGGAGGAGGATGCA 60.445 66.667 0.00 0.00 0.00 3.96
1058 1098 2.817056 GGGAGGAGGAGGATGCAGC 61.817 68.421 0.00 0.00 0.00 5.25
1059 1099 2.420890 GAGGAGGAGGATGCAGCG 59.579 66.667 0.00 0.00 0.00 5.18
1060 1100 2.364842 AGGAGGAGGATGCAGCGT 60.365 61.111 0.00 0.00 0.00 5.07
1487 1527 4.415332 CACGGTGACCCTCGACGG 62.415 72.222 0.74 0.00 0.00 4.79
1866 1915 1.826024 CCTCCCCCTCATGAAGACG 59.174 63.158 0.00 0.00 0.00 4.18
1896 1945 1.153939 CAAGGTCTGCGAGGACGAG 60.154 63.158 0.00 0.00 42.66 4.18
2400 2464 1.805869 CAGAACAGCAGGGTCTGAAG 58.194 55.000 16.06 0.00 37.51 3.02
2405 2491 1.707427 ACAGCAGGGTCTGAAGGAAAT 59.293 47.619 0.00 0.00 37.51 2.17
2421 2507 5.172687 AGGAAATCCTTCTGTTCTCTTCC 57.827 43.478 0.00 0.00 46.09 3.46
2422 2508 4.018870 AGGAAATCCTTCTGTTCTCTTCCC 60.019 45.833 0.00 0.00 46.09 3.97
2423 2509 3.618690 AATCCTTCTGTTCTCTTCCCG 57.381 47.619 0.00 0.00 0.00 5.14
2424 2510 1.267121 TCCTTCTGTTCTCTTCCCGG 58.733 55.000 0.00 0.00 0.00 5.73
2425 2511 0.391793 CCTTCTGTTCTCTTCCCGGC 60.392 60.000 0.00 0.00 0.00 6.13
2426 2512 0.610687 CTTCTGTTCTCTTCCCGGCT 59.389 55.000 0.00 0.00 0.00 5.52
2427 2513 1.002544 CTTCTGTTCTCTTCCCGGCTT 59.997 52.381 0.00 0.00 0.00 4.35
2428 2514 0.608640 TCTGTTCTCTTCCCGGCTTC 59.391 55.000 0.00 0.00 0.00 3.86
2429 2515 0.391793 CTGTTCTCTTCCCGGCTTCC 60.392 60.000 0.00 0.00 0.00 3.46
2471 2557 8.627208 TCAGGATATAATCTTTCTGCCATTTC 57.373 34.615 0.00 0.00 0.00 2.17
2475 2561 7.887495 GGATATAATCTTTCTGCCATTTCCTCT 59.113 37.037 0.00 0.00 0.00 3.69
2476 2562 8.860780 ATATAATCTTTCTGCCATTTCCTCTC 57.139 34.615 0.00 0.00 0.00 3.20
2477 2563 2.977914 TCTTTCTGCCATTTCCTCTCG 58.022 47.619 0.00 0.00 0.00 4.04
2478 2564 2.012673 CTTTCTGCCATTTCCTCTCGG 58.987 52.381 0.00 0.00 0.00 4.63
2479 2565 0.984230 TTCTGCCATTTCCTCTCGGT 59.016 50.000 0.00 0.00 0.00 4.69
2480 2566 0.984230 TCTGCCATTTCCTCTCGGTT 59.016 50.000 0.00 0.00 0.00 4.44
2481 2567 1.351017 TCTGCCATTTCCTCTCGGTTT 59.649 47.619 0.00 0.00 0.00 3.27
2482 2568 2.569853 TCTGCCATTTCCTCTCGGTTTA 59.430 45.455 0.00 0.00 0.00 2.01
2483 2569 2.678336 CTGCCATTTCCTCTCGGTTTAC 59.322 50.000 0.00 0.00 0.00 2.01
2484 2570 2.014857 GCCATTTCCTCTCGGTTTACC 58.985 52.381 0.00 0.00 0.00 2.85
2485 2571 2.640184 CCATTTCCTCTCGGTTTACCC 58.360 52.381 0.00 0.00 0.00 3.69
2486 2572 2.640184 CATTTCCTCTCGGTTTACCCC 58.360 52.381 0.00 0.00 0.00 4.95
2487 2573 2.034436 TTTCCTCTCGGTTTACCCCT 57.966 50.000 0.00 0.00 0.00 4.79
2488 2574 1.565067 TTCCTCTCGGTTTACCCCTC 58.435 55.000 0.00 0.00 0.00 4.30
2489 2575 0.325016 TCCTCTCGGTTTACCCCTCC 60.325 60.000 0.00 0.00 0.00 4.30
2490 2576 0.325390 CCTCTCGGTTTACCCCTCCT 60.325 60.000 0.00 0.00 0.00 3.69
2491 2577 1.569653 CTCTCGGTTTACCCCTCCTT 58.430 55.000 0.00 0.00 0.00 3.36
2492 2578 1.907255 CTCTCGGTTTACCCCTCCTTT 59.093 52.381 0.00 0.00 0.00 3.11
2493 2579 1.626825 TCTCGGTTTACCCCTCCTTTG 59.373 52.381 0.00 0.00 0.00 2.77
2494 2580 1.350019 CTCGGTTTACCCCTCCTTTGT 59.650 52.381 0.00 0.00 0.00 2.83
2495 2581 1.072648 TCGGTTTACCCCTCCTTTGTG 59.927 52.381 0.00 0.00 0.00 3.33
2496 2582 1.202842 CGGTTTACCCCTCCTTTGTGT 60.203 52.381 0.00 0.00 0.00 3.72
2497 2583 2.235891 GGTTTACCCCTCCTTTGTGTG 58.764 52.381 0.00 0.00 0.00 3.82
2498 2584 1.611977 GTTTACCCCTCCTTTGTGTGC 59.388 52.381 0.00 0.00 0.00 4.57
2499 2585 0.847373 TTACCCCTCCTTTGTGTGCA 59.153 50.000 0.00 0.00 0.00 4.57
2500 2586 0.400213 TACCCCTCCTTTGTGTGCAG 59.600 55.000 0.00 0.00 0.00 4.41
2521 2607 3.695060 AGTAGGTAGTGATTCTCGGTGTG 59.305 47.826 0.00 0.00 0.00 3.82
2522 2608 2.526432 AGGTAGTGATTCTCGGTGTGT 58.474 47.619 0.00 0.00 0.00 3.72
2523 2609 2.897969 AGGTAGTGATTCTCGGTGTGTT 59.102 45.455 0.00 0.00 0.00 3.32
2524 2610 3.323979 AGGTAGTGATTCTCGGTGTGTTT 59.676 43.478 0.00 0.00 0.00 2.83
2660 2755 2.601481 GAACAATGTGGCTCTGTTCG 57.399 50.000 6.10 0.00 39.51 3.95
2764 2876 1.767289 AGTCTGAAACTACACACGCG 58.233 50.000 3.53 3.53 36.07 6.01
2769 2881 0.708918 GAAACTACACACGCGCTCTC 59.291 55.000 5.73 0.00 0.00 3.20
2780 2892 3.119602 ACACGCGCTCTCTTCTTAATACA 60.120 43.478 5.73 0.00 0.00 2.29
2781 2893 4.045104 CACGCGCTCTCTTCTTAATACAT 58.955 43.478 5.73 0.00 0.00 2.29
2782 2894 5.212934 CACGCGCTCTCTTCTTAATACATA 58.787 41.667 5.73 0.00 0.00 2.29
2783 2895 5.115773 CACGCGCTCTCTTCTTAATACATAC 59.884 44.000 5.73 0.00 0.00 2.39
2784 2896 5.212934 CGCGCTCTCTTCTTAATACATACA 58.787 41.667 5.56 0.00 0.00 2.29
2785 2897 5.340932 CGCGCTCTCTTCTTAATACATACAG 59.659 44.000 5.56 0.00 0.00 2.74
2786 2898 6.439599 GCGCTCTCTTCTTAATACATACAGA 58.560 40.000 0.00 0.00 0.00 3.41
2787 2899 6.361214 GCGCTCTCTTCTTAATACATACAGAC 59.639 42.308 0.00 0.00 0.00 3.51
2788 2900 7.418408 CGCTCTCTTCTTAATACATACAGACA 58.582 38.462 0.00 0.00 0.00 3.41
2789 2901 8.079203 CGCTCTCTTCTTAATACATACAGACAT 58.921 37.037 0.00 0.00 0.00 3.06
2809 2921 8.385858 CAGACATACAGTGATGTAAATTCACAG 58.614 37.037 0.00 1.27 44.73 3.66
2813 2943 3.009723 AGTGATGTAAATTCACAGCGGG 58.990 45.455 6.59 0.00 44.73 6.13
2904 3037 4.236935 GCACCCAATACTTTGACAACATG 58.763 43.478 0.00 0.00 34.60 3.21
2961 3094 4.693283 CTGCCCGACAAGACAATAATAGA 58.307 43.478 0.00 0.00 0.00 1.98
2998 3131 3.933861 AGACCCCAGACATATCAAACC 57.066 47.619 0.00 0.00 0.00 3.27
3057 3191 2.536761 ATTTGCAGTGCAGCACAATT 57.463 40.000 27.35 3.92 45.61 2.32
3116 3250 5.128499 ACCCACTCTATGAACTGAGAAGATG 59.872 44.000 0.00 0.00 34.65 2.90
3171 3305 4.873827 TGCCTTTATGATAACGAGGTTGAC 59.126 41.667 5.17 0.00 0.00 3.18
3294 3435 1.075374 TCCTGCCAGCAACCAACTAAT 59.925 47.619 0.00 0.00 0.00 1.73
3307 3448 4.442706 ACCAACTAATCAGCAGATAACGG 58.557 43.478 0.00 0.00 33.08 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 5.411361 TGTGTCTATTCTTCGGTGAATTTGG 59.589 40.000 8.59 2.61 37.73 3.28
28 29 1.510623 CGCTGCGCTTGATTGTGTC 60.511 57.895 9.88 0.00 0.00 3.67
35 36 1.736645 GAAGGTACGCTGCGCTTGA 60.737 57.895 23.51 1.85 0.00 3.02
43 55 2.572284 GTGCCTCGAAGGTACGCT 59.428 61.111 6.43 0.00 41.04 5.07
149 161 6.596888 TCTGATTTGGTTTGATCTGATCTGAC 59.403 38.462 17.82 14.78 0.00 3.51
163 175 0.321298 CGACCCCGTCTGATTTGGTT 60.321 55.000 0.00 0.00 0.00 3.67
263 276 1.246056 CCACCTACGACGAGAACCCA 61.246 60.000 0.00 0.00 0.00 4.51
443 465 1.281899 CCCAAATCGAAGCGAGTCTC 58.718 55.000 0.00 0.00 39.91 3.36
444 466 0.108138 CCCCAAATCGAAGCGAGTCT 60.108 55.000 0.00 0.00 39.91 3.24
445 467 1.090052 CCCCCAAATCGAAGCGAGTC 61.090 60.000 0.00 0.00 39.91 3.36
446 468 1.078426 CCCCCAAATCGAAGCGAGT 60.078 57.895 0.00 0.00 39.91 4.18
447 469 0.811616 CTCCCCCAAATCGAAGCGAG 60.812 60.000 0.00 0.00 39.91 5.03
448 470 1.220749 CTCCCCCAAATCGAAGCGA 59.779 57.895 0.00 0.00 41.13 4.93
512 534 2.204090 TCCGCCCCCTCCTTTTCT 60.204 61.111 0.00 0.00 0.00 2.52
514 536 3.339093 CCTCCGCCCCCTCCTTTT 61.339 66.667 0.00 0.00 0.00 2.27
538 560 0.893447 AGCGTCCTACTAAAGCGGTT 59.107 50.000 0.00 0.00 0.00 4.44
547 569 3.775654 GCCTGGCAGCGTCCTACT 61.776 66.667 15.17 0.00 0.00 2.57
690 712 1.002502 GCTTTGGAACGGGCCTAGT 60.003 57.895 0.84 0.00 0.00 2.57
693 715 4.678743 GGGCTTTGGAACGGGCCT 62.679 66.667 0.84 0.00 43.62 5.19
703 725 3.171277 CGAAATTTCTAAGCGGGCTTTG 58.829 45.455 15.92 9.77 37.47 2.77
704 726 2.163613 CCGAAATTTCTAAGCGGGCTTT 59.836 45.455 15.92 0.00 38.40 3.51
711 733 1.092348 ACGGGCCGAAATTTCTAAGC 58.908 50.000 35.78 14.47 0.00 3.09
713 735 2.485038 GACAACGGGCCGAAATTTCTAA 59.515 45.455 35.78 0.00 0.00 2.10
717 739 1.167781 ACGACAACGGGCCGAAATTT 61.168 50.000 35.78 14.07 44.46 1.82
786 809 4.527583 CCCGGCAGCTGAGCTCTC 62.528 72.222 20.43 6.86 36.40 3.20
905 931 4.309950 GCGACCACCCGTGACCTT 62.310 66.667 0.00 0.00 0.00 3.50
913 939 1.376037 CTCTTCTTGGCGACCACCC 60.376 63.158 0.00 0.00 30.78 4.61
931 969 1.294659 GCACACTGCCACTACTCTGC 61.295 60.000 0.00 0.00 37.42 4.26
940 978 2.908428 CTGCCTTGCACACTGCCA 60.908 61.111 0.00 0.00 44.23 4.92
941 979 4.353437 GCTGCCTTGCACACTGCC 62.353 66.667 0.00 0.00 44.23 4.85
1043 1083 2.364842 ACGCTGCATCCTCCTCCT 60.365 61.111 0.00 0.00 0.00 3.69
1201 1241 3.839432 CGGGAAGGAGGAGACGGC 61.839 72.222 0.00 0.00 0.00 5.68
1203 1243 3.068691 TGCGGGAAGGAGGAGACG 61.069 66.667 0.00 0.00 0.00 4.18
1231 1271 3.503363 GATGTCCACCAGCTGCGC 61.503 66.667 8.66 0.00 0.00 6.09
1344 1384 1.008309 GTAGCGGTCGATCCAGCTC 60.008 63.158 18.44 11.47 42.01 4.09
1514 1554 4.521062 CCGCCTTCAGCTCCCTCG 62.521 72.222 0.00 0.00 40.39 4.63
1515 1555 4.847444 GCCGCCTTCAGCTCCCTC 62.847 72.222 0.00 0.00 40.39 4.30
1866 1915 3.959991 GACCTTGACCAGCCGGCTC 62.960 68.421 30.29 17.45 34.57 4.70
1875 1924 1.079750 GTCCTCGCAGACCTTGACC 60.080 63.158 0.00 0.00 0.00 4.02
2029 2078 0.604578 TTGTACCTGTAGTGTCCGGC 59.395 55.000 0.00 0.00 0.00 6.13
2400 2464 4.265893 GGGAAGAGAACAGAAGGATTTCC 58.734 47.826 0.00 0.00 33.64 3.13
2405 2491 1.267121 CCGGGAAGAGAACAGAAGGA 58.733 55.000 0.00 0.00 0.00 3.36
2432 2518 2.094100 TCCTGATCTTGCCTAGGAGG 57.906 55.000 14.75 8.62 38.80 4.30
2433 2519 7.564660 AGATTATATCCTGATCTTGCCTAGGAG 59.435 40.741 14.75 1.28 42.19 3.69
2440 2526 7.148272 GGCAGAAAGATTATATCCTGATCTTGC 60.148 40.741 0.00 0.00 38.78 4.01
2475 2561 1.072648 CACAAAGGAGGGGTAAACCGA 59.927 52.381 0.00 0.00 41.60 4.69
2476 2562 1.202842 ACACAAAGGAGGGGTAAACCG 60.203 52.381 0.00 0.00 41.60 4.44
2477 2563 2.235891 CACACAAAGGAGGGGTAAACC 58.764 52.381 0.00 0.00 39.11 3.27
2478 2564 1.611977 GCACACAAAGGAGGGGTAAAC 59.388 52.381 0.00 0.00 0.00 2.01
2479 2565 1.215673 TGCACACAAAGGAGGGGTAAA 59.784 47.619 0.00 0.00 0.00 2.01
2480 2566 0.847373 TGCACACAAAGGAGGGGTAA 59.153 50.000 0.00 0.00 0.00 2.85
2481 2567 0.400213 CTGCACACAAAGGAGGGGTA 59.600 55.000 0.00 0.00 0.00 3.69
2482 2568 1.151450 CTGCACACAAAGGAGGGGT 59.849 57.895 0.00 0.00 0.00 4.95
2483 2569 0.400213 TACTGCACACAAAGGAGGGG 59.600 55.000 0.00 0.00 0.00 4.79
2484 2570 1.611673 CCTACTGCACACAAAGGAGGG 60.612 57.143 0.00 0.00 40.43 4.30
2485 2571 1.813513 CCTACTGCACACAAAGGAGG 58.186 55.000 0.00 0.00 38.18 4.30
2486 2572 2.550830 ACCTACTGCACACAAAGGAG 57.449 50.000 0.00 0.00 34.49 3.69
2487 2573 2.969950 ACTACCTACTGCACACAAAGGA 59.030 45.455 0.00 0.00 34.49 3.36
2488 2574 3.067106 CACTACCTACTGCACACAAAGG 58.933 50.000 0.00 0.00 35.85 3.11
2489 2575 3.990092 TCACTACCTACTGCACACAAAG 58.010 45.455 0.00 0.00 0.00 2.77
2490 2576 4.617253 ATCACTACCTACTGCACACAAA 57.383 40.909 0.00 0.00 0.00 2.83
2491 2577 4.283467 AGAATCACTACCTACTGCACACAA 59.717 41.667 0.00 0.00 0.00 3.33
2492 2578 3.832490 AGAATCACTACCTACTGCACACA 59.168 43.478 0.00 0.00 0.00 3.72
2493 2579 4.425520 GAGAATCACTACCTACTGCACAC 58.574 47.826 0.00 0.00 33.17 3.82
2494 2580 3.128764 CGAGAATCACTACCTACTGCACA 59.871 47.826 0.00 0.00 33.17 4.57
2495 2581 3.489398 CCGAGAATCACTACCTACTGCAC 60.489 52.174 0.00 0.00 33.17 4.57
2496 2582 2.688446 CCGAGAATCACTACCTACTGCA 59.312 50.000 0.00 0.00 33.17 4.41
2497 2583 2.688958 ACCGAGAATCACTACCTACTGC 59.311 50.000 0.00 0.00 33.17 4.40
2498 2584 3.695060 ACACCGAGAATCACTACCTACTG 59.305 47.826 0.00 0.00 33.17 2.74
2499 2585 3.695060 CACACCGAGAATCACTACCTACT 59.305 47.826 0.00 0.00 33.17 2.57
2500 2586 3.442977 ACACACCGAGAATCACTACCTAC 59.557 47.826 0.00 0.00 33.17 3.18
2523 2609 5.983118 GCGAAAAATGGAAGAGGAAGAAAAA 59.017 36.000 0.00 0.00 0.00 1.94
2524 2610 5.301805 AGCGAAAAATGGAAGAGGAAGAAAA 59.698 36.000 0.00 0.00 0.00 2.29
2546 2632 0.533032 AACGAAGCACTAGGGAGAGC 59.467 55.000 0.00 0.00 39.38 4.09
2660 2755 3.122445 GTCTAAATTCCGGTCGTTGACAC 59.878 47.826 0.00 0.00 33.68 3.67
2735 2846 5.347364 GTGTAGTTTCAGACTTGAGCAGATC 59.653 44.000 0.00 0.00 39.86 2.75
2781 2893 9.366216 GTGAATTTACATCACTGTATGTCTGTA 57.634 33.333 0.00 0.00 43.03 2.74
2782 2894 7.877612 TGTGAATTTACATCACTGTATGTCTGT 59.122 33.333 0.00 0.00 45.81 3.41
2783 2895 8.255394 TGTGAATTTACATCACTGTATGTCTG 57.745 34.615 0.00 0.00 45.81 3.51
2784 2896 7.065085 GCTGTGAATTTACATCACTGTATGTCT 59.935 37.037 3.22 0.00 45.81 3.41
2785 2897 7.182761 GCTGTGAATTTACATCACTGTATGTC 58.817 38.462 3.22 0.00 45.81 3.06
2786 2898 6.183360 CGCTGTGAATTTACATCACTGTATGT 60.183 38.462 3.22 0.00 45.81 2.29
2787 2899 6.187480 CGCTGTGAATTTACATCACTGTATG 58.813 40.000 3.22 0.00 45.81 2.39
2788 2900 5.294306 CCGCTGTGAATTTACATCACTGTAT 59.706 40.000 3.22 0.00 45.81 2.29
2789 2901 4.629634 CCGCTGTGAATTTACATCACTGTA 59.370 41.667 3.22 0.00 45.81 2.74
2792 2904 3.009723 CCCGCTGTGAATTTACATCACT 58.990 45.455 3.22 0.00 45.81 3.41
2809 2921 1.153549 CTTGTCTACTCTGCCCCGC 60.154 63.158 0.00 0.00 0.00 6.13
2813 2943 4.737855 TTACATCCTTGTCTACTCTGCC 57.262 45.455 0.00 0.00 37.28 4.85
2904 3037 3.633525 TGGGAGATAACATGCAGAAATGC 59.366 43.478 0.00 0.00 0.00 3.56
2961 3094 3.056821 GGGTCTTTTATCTGCGCCTTTTT 60.057 43.478 4.18 0.00 0.00 1.94
2998 3131 5.127194 TCCTTATCCTATACGCTATTGCCTG 59.873 44.000 0.00 0.00 35.36 4.85
3057 3191 4.156556 GCAGTTTGCTTCCATCTATTGTCA 59.843 41.667 0.00 0.00 40.96 3.58
3088 3222 5.551233 TCTCAGTTCATAGAGTGGGTTTTG 58.449 41.667 0.00 0.00 33.63 2.44
3116 3250 1.072159 ACTGTGCCCTGTGCTCTTC 59.928 57.895 0.00 0.00 42.00 2.87
3145 3279 5.099042 ACCTCGTTATCATAAAGGCAGTT 57.901 39.130 0.00 0.00 0.00 3.16
3171 3305 4.661993 TGAATCCAGTTTCGTGAATTCG 57.338 40.909 0.04 0.00 0.00 3.34
3259 3395 6.496911 TGCTGGCAGGAAGTATAGTAATATGA 59.503 38.462 17.64 0.00 0.00 2.15
3263 3399 5.368989 GTTGCTGGCAGGAAGTATAGTAAT 58.631 41.667 22.36 0.00 0.00 1.89
3264 3400 4.383770 GGTTGCTGGCAGGAAGTATAGTAA 60.384 45.833 22.36 0.00 0.00 2.24
3265 3401 3.134081 GGTTGCTGGCAGGAAGTATAGTA 59.866 47.826 22.36 0.00 0.00 1.82
3266 3402 2.092914 GGTTGCTGGCAGGAAGTATAGT 60.093 50.000 22.36 0.00 0.00 2.12
3267 3403 2.092968 TGGTTGCTGGCAGGAAGTATAG 60.093 50.000 22.36 0.00 0.00 1.31
3294 3435 3.342719 TGCAATTTCCGTTATCTGCTGA 58.657 40.909 0.00 0.00 0.00 4.26
3307 3448 3.809279 CACTTTCCCCTTGTTGCAATTTC 59.191 43.478 0.59 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.