Multiple sequence alignment - TraesCS7A01G067600

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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 TraesCS7A01G067600 chr7A 100.000 3672 0 0 1 3672 33904308 33900637 0 6782
1 TraesCS7A01G067600 chr7D 97.995 3093 49 5 592 3672 33450974 33447883 0 5356
2 TraesCS7A01G067600 chr7D 88.083 579 44 12 1 564 33451539 33450971 0 664


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 TraesCS7A01G067600 chr7A 33900637 33904308 3671 True 6782 6782 100.000 1 3672 1 chr7A.!!$R1 3671
1 TraesCS7A01G067600 chr7D 33447883 33451539 3656 True 3010 5356 93.039 1 3672 2 chr7D.!!$R1 3671

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
904 927 0.179065 TCCGCTGATGCCTTGATGAG 60.179 55.000 0.00 0.0 35.36 2.90 F
974 997 1.016627 GCAGTGCACTGACTTTGTGA 58.983 50.000 43.32 0.0 46.59 3.58 F
975 998 1.401552 GCAGTGCACTGACTTTGTGAA 59.598 47.619 43.32 0.0 46.59 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1898 1923 1.891919 CCCACGACAACCACACCTG 60.892 63.158 0.0 0.0 0.00 4.00 R
2496 2525 2.002586 CATCGTTGGGTACTCTGCTTG 58.997 52.381 0.0 0.0 0.00 4.01 R
2706 2735 2.883888 GCAAGGGCTCCAAGAATTACCA 60.884 50.000 0.0 0.0 36.96 3.25 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
29 30 2.052690 GCCTCCTACCAGCGACTCA 61.053 63.158 0.00 0.00 0.00 3.41
30 31 1.605058 GCCTCCTACCAGCGACTCAA 61.605 60.000 0.00 0.00 0.00 3.02
36 37 2.502142 TACCAGCGACTCAAGGTAGA 57.498 50.000 0.00 0.00 35.62 2.59
84 91 5.174037 TGAGGGTTTCGATTGTCCTATTT 57.826 39.130 0.00 0.00 0.00 1.40
101 108 4.125590 TTTTTCCCCCACCCCTCA 57.874 55.556 0.00 0.00 0.00 3.86
102 109 1.544703 TTTTTCCCCCACCCCTCAC 59.455 57.895 0.00 0.00 0.00 3.51
103 110 2.360439 TTTTTCCCCCACCCCTCACG 62.360 60.000 0.00 0.00 0.00 4.35
128 135 1.971695 GCGCTAGGGTTTGCAGGTT 60.972 57.895 8.77 0.00 0.00 3.50
132 139 1.280998 GCTAGGGTTTGCAGGTTAGGA 59.719 52.381 0.00 0.00 0.00 2.94
196 203 2.046892 CCTCACCTGAACTGCCCG 60.047 66.667 0.00 0.00 0.00 6.13
197 204 2.743928 CTCACCTGAACTGCCCGC 60.744 66.667 0.00 0.00 0.00 6.13
200 207 3.872603 ACCTGAACTGCCCGCACA 61.873 61.111 0.00 0.00 0.00 4.57
314 326 2.035449 CCAGATCGAGGTACCGCAAATA 59.965 50.000 16.39 0.00 0.00 1.40
377 389 5.546526 TGATTTGGTGCTAATTGTTTTCCC 58.453 37.500 0.00 0.00 0.00 3.97
392 404 4.155826 TGTTTTCCCTTCGATTGTGCATAG 59.844 41.667 0.00 0.00 0.00 2.23
394 406 3.627395 TCCCTTCGATTGTGCATAGTT 57.373 42.857 0.00 0.00 0.00 2.24
500 521 4.584688 GGCACAGCCTGATTTTGC 57.415 55.556 0.00 0.00 46.69 3.68
503 524 0.730494 GCACAGCCTGATTTTGCGTC 60.730 55.000 0.00 0.00 0.00 5.19
514 535 5.283717 CCTGATTTTGCGTCTATTTTGTTCG 59.716 40.000 0.00 0.00 0.00 3.95
537 558 3.021695 ACTCGTTCCCTATGACGATTGA 58.978 45.455 0.00 0.00 45.88 2.57
560 581 7.952671 TGATGAGTAGTTGAGTTCTGTAGTTT 58.047 34.615 0.00 0.00 0.00 2.66
561 582 8.421784 TGATGAGTAGTTGAGTTCTGTAGTTTT 58.578 33.333 0.00 0.00 0.00 2.43
562 583 8.594881 ATGAGTAGTTGAGTTCTGTAGTTTTG 57.405 34.615 0.00 0.00 0.00 2.44
563 584 7.553334 TGAGTAGTTGAGTTCTGTAGTTTTGT 58.447 34.615 0.00 0.00 0.00 2.83
564 585 8.689061 TGAGTAGTTGAGTTCTGTAGTTTTGTA 58.311 33.333 0.00 0.00 0.00 2.41
565 586 9.694137 GAGTAGTTGAGTTCTGTAGTTTTGTAT 57.306 33.333 0.00 0.00 0.00 2.29
566 587 9.477484 AGTAGTTGAGTTCTGTAGTTTTGTATG 57.523 33.333 0.00 0.00 0.00 2.39
567 588 7.730364 AGTTGAGTTCTGTAGTTTTGTATGG 57.270 36.000 0.00 0.00 0.00 2.74
568 589 7.506114 AGTTGAGTTCTGTAGTTTTGTATGGA 58.494 34.615 0.00 0.00 0.00 3.41
569 590 8.157476 AGTTGAGTTCTGTAGTTTTGTATGGAT 58.843 33.333 0.00 0.00 0.00 3.41
570 591 8.443937 GTTGAGTTCTGTAGTTTTGTATGGATC 58.556 37.037 0.00 0.00 0.00 3.36
571 592 6.811665 TGAGTTCTGTAGTTTTGTATGGATCG 59.188 38.462 0.00 0.00 0.00 3.69
572 593 6.698380 AGTTCTGTAGTTTTGTATGGATCGT 58.302 36.000 0.00 0.00 0.00 3.73
573 594 7.833786 AGTTCTGTAGTTTTGTATGGATCGTA 58.166 34.615 0.00 0.00 0.00 3.43
574 595 8.308931 AGTTCTGTAGTTTTGTATGGATCGTAA 58.691 33.333 0.00 0.00 0.00 3.18
575 596 8.378421 GTTCTGTAGTTTTGTATGGATCGTAAC 58.622 37.037 0.00 0.00 0.00 2.50
576 597 6.748658 TCTGTAGTTTTGTATGGATCGTAACG 59.251 38.462 0.00 0.00 0.00 3.18
577 598 5.806502 TGTAGTTTTGTATGGATCGTAACGG 59.193 40.000 0.00 0.00 0.00 4.44
578 599 4.824289 AGTTTTGTATGGATCGTAACGGT 58.176 39.130 0.00 0.00 0.00 4.83
579 600 4.628333 AGTTTTGTATGGATCGTAACGGTG 59.372 41.667 0.00 0.00 0.00 4.94
580 601 2.212869 TGTATGGATCGTAACGGTGC 57.787 50.000 0.00 0.00 0.00 5.01
581 602 1.202440 TGTATGGATCGTAACGGTGCC 60.202 52.381 0.00 0.00 0.00 5.01
582 603 1.068127 GTATGGATCGTAACGGTGCCT 59.932 52.381 0.00 0.00 0.00 4.75
583 604 1.405872 ATGGATCGTAACGGTGCCTA 58.594 50.000 0.00 0.00 0.00 3.93
584 605 0.457035 TGGATCGTAACGGTGCCTAC 59.543 55.000 0.00 0.00 0.00 3.18
585 606 0.457035 GGATCGTAACGGTGCCTACA 59.543 55.000 0.00 0.00 0.00 2.74
586 607 1.068127 GGATCGTAACGGTGCCTACAT 59.932 52.381 0.00 0.00 0.00 2.29
587 608 2.482490 GGATCGTAACGGTGCCTACATT 60.482 50.000 0.00 0.00 0.00 2.71
588 609 1.999048 TCGTAACGGTGCCTACATTG 58.001 50.000 0.00 0.00 0.00 2.82
589 610 1.273048 TCGTAACGGTGCCTACATTGT 59.727 47.619 0.00 0.00 0.00 2.71
590 611 1.657094 CGTAACGGTGCCTACATTGTC 59.343 52.381 0.00 0.00 0.00 3.18
595 616 1.206132 CGGTGCCTACATTGTCCTGTA 59.794 52.381 0.00 0.00 0.00 2.74
613 634 5.874810 TCCTGTACACAGCTTATTTGTGATC 59.125 40.000 11.87 5.37 46.85 2.92
656 677 1.299541 CTGCACGTTGTCCACTTCTT 58.700 50.000 0.00 0.00 0.00 2.52
686 707 6.293244 GGTTTAGTTGTTGGAGACATGTGTAC 60.293 42.308 1.15 0.00 42.32 2.90
688 709 4.776349 AGTTGTTGGAGACATGTGTACAA 58.224 39.130 16.34 16.34 42.32 2.41
836 859 5.435686 TGCAGTTCAATAGGTGATAACCT 57.564 39.130 7.05 7.05 43.62 3.50
887 910 6.560711 ACATGAATGCCGTTTATAAGTTTCC 58.439 36.000 0.00 0.00 0.00 3.13
904 927 0.179065 TCCGCTGATGCCTTGATGAG 60.179 55.000 0.00 0.00 35.36 2.90
922 945 6.630071 TGATGAGCTTTAAACTTTAATGCCC 58.370 36.000 20.52 13.92 0.00 5.36
965 988 4.291047 CAGTAGGGCAGTGCACTG 57.709 61.111 37.09 37.09 44.56 3.66
973 996 3.539253 GCAGTGCACTGACTTTGTG 57.461 52.632 43.32 20.74 46.59 3.33
974 997 1.016627 GCAGTGCACTGACTTTGTGA 58.983 50.000 43.32 0.00 46.59 3.58
975 998 1.401552 GCAGTGCACTGACTTTGTGAA 59.598 47.619 43.32 0.00 46.59 3.18
977 1000 2.032550 CAGTGCACTGACTTTGTGAAGG 59.967 50.000 38.12 9.27 46.59 3.46
978 1001 2.017049 GTGCACTGACTTTGTGAAGGT 58.983 47.619 10.32 0.00 37.60 3.50
1139 1164 1.895020 ATGGAGCGCCTACGGAAACA 61.895 55.000 8.34 0.00 40.57 2.83
1148 1173 3.187637 CGCCTACGGAAACATCTCAAAAA 59.812 43.478 0.00 0.00 34.97 1.94
1202 1227 2.240667 AGTTTCATCTCACCCCAGATGG 59.759 50.000 9.94 0.00 46.88 3.51
1332 1357 5.639931 GGTGTATGAGTTCAAGGAGAAGAAC 59.360 44.000 0.00 0.00 43.33 3.01
1434 1459 2.039418 GGCCCTCCACTTGAAAACTTT 58.961 47.619 0.00 0.00 0.00 2.66
1507 1532 3.390967 TGATCCAACCAAGTCTTCTGTCA 59.609 43.478 0.00 0.00 0.00 3.58
1740 1765 7.070571 TGGGATGTAAATGAACAGAAAAAGGTT 59.929 33.333 0.00 0.00 31.70 3.50
1898 1923 3.373439 CCAGATGTGCTTCAAGCTTCTAC 59.627 47.826 11.57 0.33 42.97 2.59
1911 1936 2.143925 GCTTCTACAGGTGTGGTTGTC 58.856 52.381 0.00 0.00 0.00 3.18
1957 1982 9.082313 CCTTAAATTATGCAACAGATATTCCCT 57.918 33.333 0.00 0.00 0.00 4.20
2013 2038 3.074390 TGTCCTCAAATGTCCAGGTCATT 59.926 43.478 6.13 6.13 37.14 2.57
2192 2217 5.302360 TGATGAGGGTGTGTACTGTAAAAC 58.698 41.667 0.00 0.00 0.00 2.43
2489 2518 3.050619 ACTTGTAGACGAAAGAGTTGCG 58.949 45.455 0.00 0.00 0.00 4.85
2496 2525 2.338500 ACGAAAGAGTTGCGGAATCTC 58.662 47.619 9.94 9.94 0.00 2.75
2552 2581 4.424626 TGCTATGCAGTAAGAAAGAGTCG 58.575 43.478 0.00 0.00 33.32 4.18
2588 2617 7.875327 ACAAGGTAAGACTGTAAAACAATGT 57.125 32.000 0.00 0.00 0.00 2.71
2706 2735 0.323178 CAGCTGAGTTCCAGGCCATT 60.323 55.000 8.42 0.00 43.13 3.16
2922 2951 9.788960 GAACATTGGGAAGTTATGATACTTTTC 57.211 33.333 0.00 0.00 38.43 2.29
3081 3113 9.995003 TTGAATTTTCTAAAACATATGTGCCTT 57.005 25.926 9.63 6.26 0.00 4.35
3117 3149 4.036852 TCTGTTGCGTCCTACTATCTCATG 59.963 45.833 0.00 0.00 0.00 3.07
3145 3177 2.359900 CCCTGACACCATTTCTAGTGC 58.640 52.381 0.00 0.00 37.51 4.40
3329 3361 5.009210 TGGTGTTTTATTGTCTGTTGCCTAC 59.991 40.000 0.00 0.00 0.00 3.18
3355 3387 5.593679 ACACTAGCGGAGTTAACACATAT 57.406 39.130 8.61 0.00 35.64 1.78
3412 3444 5.913137 TCATGAAACTTCAAGTTGTTGGT 57.087 34.783 2.78 0.00 38.66 3.67
3527 3559 7.605309 TGATCATCGGAAATCTAAGAATGATGG 59.395 37.037 0.00 0.00 0.00 3.51
3558 3590 7.636326 TGAAGTTCATTTTTAACGGACTTCTC 58.364 34.615 0.08 0.00 34.10 2.87
3652 3684 6.557110 TGATTATGTGCATGTGATCAGTTTG 58.443 36.000 0.00 0.00 0.00 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 1.853963 ATCTACCTTGAGTCGCTGGT 58.146 50.000 6.72 6.72 36.66 4.00
21 22 1.405821 CGGAATCTACCTTGAGTCGCT 59.594 52.381 0.00 0.00 32.54 4.93
29 30 2.802787 CGAGATGCGGAATCTACCTT 57.197 50.000 0.00 0.00 46.12 3.50
84 91 1.544703 GTGAGGGGTGGGGGAAAAA 59.455 57.895 0.00 0.00 0.00 1.94
108 115 4.166011 CTGCAAACCCTAGCGCGC 62.166 66.667 26.66 26.66 0.00 6.86
109 116 3.499737 CCTGCAAACCCTAGCGCG 61.500 66.667 0.00 0.00 0.00 6.86
110 117 0.675522 TAACCTGCAAACCCTAGCGC 60.676 55.000 0.00 0.00 0.00 5.92
183 190 3.832237 CTGTGCGGGCAGTTCAGGT 62.832 63.158 0.00 0.00 0.00 4.00
184 191 3.052082 CTGTGCGGGCAGTTCAGG 61.052 66.667 0.00 0.00 0.00 3.86
196 203 2.699809 CGCTTGATCTCGCTGTGC 59.300 61.111 0.00 0.00 0.00 4.57
197 204 2.699809 GCGCTTGATCTCGCTGTG 59.300 61.111 16.31 1.80 46.92 3.66
282 294 0.780637 TCGATCTGGGAGAGGCCTAT 59.219 55.000 4.42 0.00 36.66 2.57
283 295 0.111446 CTCGATCTGGGAGAGGCCTA 59.889 60.000 4.42 0.00 36.66 3.93
314 326 3.549794 GGCAAGTGGATTAGCAAGAGAT 58.450 45.455 0.00 0.00 0.00 2.75
377 389 5.082059 GTCACAAACTATGCACAATCGAAG 58.918 41.667 0.00 0.00 0.00 3.79
416 428 3.996363 GTGCTATGTGTCAACTCATCACA 59.004 43.478 1.27 0.00 44.29 3.58
452 467 1.035139 AAACAGGAACAGGCTTGCAG 58.965 50.000 0.00 0.00 0.00 4.41
484 505 0.730494 GACGCAAAATCAGGCTGTGC 60.730 55.000 15.27 15.45 0.00 4.57
485 506 0.877071 AGACGCAAAATCAGGCTGTG 59.123 50.000 15.27 6.43 0.00 3.66
486 507 2.472695 TAGACGCAAAATCAGGCTGT 57.527 45.000 15.27 0.00 0.00 4.40
489 510 4.485163 ACAAAATAGACGCAAAATCAGGC 58.515 39.130 0.00 0.00 0.00 4.85
500 521 5.219914 GGAACGAGTACGAACAAAATAGACG 60.220 44.000 0.00 0.00 42.66 4.18
503 524 5.166398 AGGGAACGAGTACGAACAAAATAG 58.834 41.667 0.00 0.00 42.66 1.73
514 535 4.036027 TCAATCGTCATAGGGAACGAGTAC 59.964 45.833 3.90 0.00 38.03 2.73
537 558 8.204836 ACAAAACTACAGAACTCAACTACTCAT 58.795 33.333 0.00 0.00 0.00 2.90
560 581 2.542597 GCACCGTTACGATCCATACAA 58.457 47.619 6.24 0.00 0.00 2.41
561 582 1.202440 GGCACCGTTACGATCCATACA 60.202 52.381 6.24 0.00 0.00 2.29
562 583 1.068127 AGGCACCGTTACGATCCATAC 59.932 52.381 6.24 0.00 0.00 2.39
563 584 1.405872 AGGCACCGTTACGATCCATA 58.594 50.000 6.24 0.00 0.00 2.74
564 585 1.068127 GTAGGCACCGTTACGATCCAT 59.932 52.381 6.24 0.00 0.00 3.41
565 586 0.457035 GTAGGCACCGTTACGATCCA 59.543 55.000 6.24 0.00 0.00 3.41
566 587 0.457035 TGTAGGCACCGTTACGATCC 59.543 55.000 6.24 4.06 0.00 3.36
567 588 2.503920 ATGTAGGCACCGTTACGATC 57.496 50.000 6.24 0.00 0.00 3.69
568 589 2.093869 ACAATGTAGGCACCGTTACGAT 60.094 45.455 6.24 0.00 0.00 3.73
569 590 1.273048 ACAATGTAGGCACCGTTACGA 59.727 47.619 6.24 0.00 0.00 3.43
570 591 1.657094 GACAATGTAGGCACCGTTACG 59.343 52.381 0.00 0.00 0.00 3.18
571 592 2.004733 GGACAATGTAGGCACCGTTAC 58.995 52.381 0.00 0.00 0.00 2.50
572 593 1.903860 AGGACAATGTAGGCACCGTTA 59.096 47.619 0.00 0.00 0.00 3.18
573 594 0.690762 AGGACAATGTAGGCACCGTT 59.309 50.000 0.00 0.00 0.00 4.44
574 595 0.036388 CAGGACAATGTAGGCACCGT 60.036 55.000 0.00 0.00 0.00 4.83
575 596 0.036388 ACAGGACAATGTAGGCACCG 60.036 55.000 0.00 0.00 0.00 4.94
576 597 2.027561 TGTACAGGACAATGTAGGCACC 60.028 50.000 0.00 0.00 36.36 5.01
577 598 3.000727 GTGTACAGGACAATGTAGGCAC 58.999 50.000 0.00 0.00 40.66 5.01
578 599 2.635427 TGTGTACAGGACAATGTAGGCA 59.365 45.455 0.00 0.00 40.66 4.75
579 600 3.262420 CTGTGTACAGGACAATGTAGGC 58.738 50.000 0.00 0.00 40.66 3.93
580 601 3.055819 AGCTGTGTACAGGACAATGTAGG 60.056 47.826 13.41 0.00 43.94 3.18
581 602 4.193826 AGCTGTGTACAGGACAATGTAG 57.806 45.455 13.41 0.00 43.94 2.74
582 603 4.617253 AAGCTGTGTACAGGACAATGTA 57.383 40.909 13.41 0.00 43.94 2.29
583 604 3.492102 AAGCTGTGTACAGGACAATGT 57.508 42.857 13.41 0.00 43.94 2.71
584 605 6.072508 ACAAATAAGCTGTGTACAGGACAATG 60.073 38.462 13.41 0.00 43.94 2.82
585 606 6.003950 ACAAATAAGCTGTGTACAGGACAAT 58.996 36.000 13.41 0.00 43.94 2.71
586 607 5.238432 CACAAATAAGCTGTGTACAGGACAA 59.762 40.000 13.41 0.00 43.94 3.18
587 608 4.754618 CACAAATAAGCTGTGTACAGGACA 59.245 41.667 13.41 0.00 43.94 4.02
588 609 4.994852 TCACAAATAAGCTGTGTACAGGAC 59.005 41.667 13.41 0.00 43.79 3.85
589 610 5.222079 TCACAAATAAGCTGTGTACAGGA 57.778 39.130 13.41 0.00 43.79 3.86
590 611 5.877012 AGATCACAAATAAGCTGTGTACAGG 59.123 40.000 13.41 0.00 43.79 4.00
595 616 6.936900 AGTAACAGATCACAAATAAGCTGTGT 59.063 34.615 0.00 0.00 43.79 3.72
637 658 1.003545 CAAGAAGTGGACAACGTGCAG 60.004 52.381 0.00 0.00 33.95 4.41
644 665 6.126409 ACTAAACCATTCAAGAAGTGGACAA 58.874 36.000 14.16 3.34 36.82 3.18
656 677 5.441500 TGTCTCCAACAACTAAACCATTCA 58.558 37.500 0.00 0.00 34.03 2.57
686 707 4.759782 AGAGGATCACCGAAACTACATTG 58.240 43.478 0.00 0.00 41.83 2.82
688 709 4.440250 CGAAGAGGATCACCGAAACTACAT 60.440 45.833 0.00 0.00 41.83 2.29
836 859 9.708092 TTGCATGTCAAATGAAAAAGATTATCA 57.292 25.926 0.00 0.00 0.00 2.15
887 910 0.814410 AGCTCATCAAGGCATCAGCG 60.814 55.000 0.00 0.00 43.41 5.18
904 927 6.017523 TGCAAAAGGGCATTAAAGTTTAAAGC 60.018 34.615 21.63 21.63 39.25 3.51
922 945 7.690637 GCAATAAACACATGAATCATGCAAAAG 59.309 33.333 21.92 10.09 44.80 2.27
965 988 3.208747 TCCAGGAACCTTCACAAAGTC 57.791 47.619 0.00 0.00 0.00 3.01
970 993 4.993705 AGTATTTCCAGGAACCTTCACA 57.006 40.909 0.00 0.00 0.00 3.58
971 994 5.070685 ACAAGTATTTCCAGGAACCTTCAC 58.929 41.667 0.00 0.00 0.00 3.18
972 995 5.319043 ACAAGTATTTCCAGGAACCTTCA 57.681 39.130 0.00 0.00 0.00 3.02
973 996 6.264518 TGAAACAAGTATTTCCAGGAACCTTC 59.735 38.462 0.00 0.00 37.72 3.46
974 997 6.133356 TGAAACAAGTATTTCCAGGAACCTT 58.867 36.000 0.00 1.83 37.72 3.50
975 998 5.701224 TGAAACAAGTATTTCCAGGAACCT 58.299 37.500 0.00 0.00 37.72 3.50
977 1000 7.384932 CCATTTGAAACAAGTATTTCCAGGAAC 59.615 37.037 0.00 0.00 37.72 3.62
978 1001 7.441017 CCATTTGAAACAAGTATTTCCAGGAA 58.559 34.615 0.00 0.00 37.72 3.36
1035 1060 1.452108 CATCAAAGGAGGCCCGTCC 60.452 63.158 0.00 0.00 37.58 4.79
1139 1164 7.173390 CGAGGGTCTTAAACTTCTTTTTGAGAT 59.827 37.037 0.00 0.00 34.63 2.75
1148 1173 4.262506 CCTTCACGAGGGTCTTAAACTTCT 60.263 45.833 0.00 0.00 42.26 2.85
1202 1227 2.857104 GCAACCGTGAAAACAGCTAACC 60.857 50.000 0.00 0.00 0.00 2.85
1332 1357 3.891366 ACTTCTTTGTTTCATGTCCCTGG 59.109 43.478 0.00 0.00 0.00 4.45
1401 1426 0.102663 GAGGGCCTTCACGTAGTAGC 59.897 60.000 7.89 0.00 41.61 3.58
1434 1459 0.833287 GAGCAGGATAGCCCACTTCA 59.167 55.000 0.00 0.00 37.41 3.02
1507 1532 1.580845 GCCATTGCACGCAGAGACTT 61.581 55.000 0.00 0.00 37.47 3.01
1898 1923 1.891919 CCCACGACAACCACACCTG 60.892 63.158 0.00 0.00 0.00 4.00
1911 1936 2.526046 AAGGTTCACCCCTCCCACG 61.526 63.158 0.00 0.00 36.42 4.94
1957 1982 2.212652 CAGTAGCACTTGAGCAACACA 58.787 47.619 0.00 0.00 36.85 3.72
2013 2038 4.223032 GTGTAGATGGGAAACTCTCCTTCA 59.777 45.833 0.00 0.00 44.68 3.02
2192 2217 5.475719 TGTCCTTAACACATCCTTTAGTCG 58.524 41.667 0.00 0.00 31.20 4.18
2334 2363 7.203218 AGATTTTAGTCAACCTTTTTCACTGC 58.797 34.615 0.00 0.00 0.00 4.40
2489 2518 2.501723 TGGGTACTCTGCTTGAGATTCC 59.498 50.000 12.88 10.80 45.39 3.01
2496 2525 2.002586 CATCGTTGGGTACTCTGCTTG 58.997 52.381 0.00 0.00 0.00 4.01
2552 2581 6.147328 CAGTCTTACCTTGTAAGTTTAGTGGC 59.853 42.308 12.34 0.00 0.00 5.01
2583 2612 7.529158 TGACACTACAAGATGCAAATACATTG 58.471 34.615 0.00 0.00 42.21 2.82
2706 2735 2.883888 GCAAGGGCTCCAAGAATTACCA 60.884 50.000 0.00 0.00 36.96 3.25
2922 2951 7.013846 TCACAACTAAAAGGGAAACACCATAAG 59.986 37.037 0.00 0.00 41.20 1.73
3081 3113 4.878439 ACGCAACAGACAGTATTAACAGA 58.122 39.130 0.00 0.00 0.00 3.41
3145 3177 2.827800 ATAGCACCAGATGACGATGG 57.172 50.000 0.00 0.00 42.60 3.51
3252 3284 5.692115 AGGGATTGAAAACACAACCTTTT 57.308 34.783 0.00 0.00 32.50 2.27
3253 3285 5.425217 AGAAGGGATTGAAAACACAACCTTT 59.575 36.000 0.00 0.00 36.81 3.11
3314 3346 3.744426 GTGTAACGTAGGCAACAGACAAT 59.256 43.478 0.00 0.00 41.41 2.71
3329 3361 3.605486 GTGTTAACTCCGCTAGTGTAACG 59.395 47.826 7.22 0.00 45.86 3.18
3412 3444 8.836413 AGAAGAAATCAAATTCGAAGTTACACA 58.164 29.630 10.90 0.00 34.46 3.72
3503 3535 6.883217 CCCATCATTCTTAGATTTCCGATGAT 59.117 38.462 0.00 0.50 32.61 2.45
3527 3559 8.484799 GTCCGTTAAAAATGAACTTCAAATTCC 58.515 33.333 0.00 0.00 0.00 3.01
3558 3590 5.949354 TCAAGGGTGTTTACATGATAAAGGG 59.051 40.000 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.