Multiple sequence alignment - TraesCS5A01G128400

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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 TraesCS5A01G128400 chr5A 100.000 4133 0 0 1 4133 286670961 286675093 0.000000e+00 7633.0
1 TraesCS5A01G128400 chr5D 98.426 3431 42 4 704 4133 216623404 216626823 0.000000e+00 6026.0
2 TraesCS5A01G128400 chr5D 91.667 348 21 3 1 343 216622628 216622972 3.740000e-130 475.0
3 TraesCS5A01G128400 chr5D 94.215 121 7 0 342 462 216623134 216623254 7.060000e-43 185.0
4 TraesCS5A01G128400 chr5D 89.516 124 13 0 538 661 216623278 216623401 1.540000e-34 158.0
5 TraesCS5A01G128400 chr5B 98.077 3433 59 4 704 4133 232626362 232629790 0.000000e+00 5967.0
6 TraesCS5A01G128400 chr5B 90.020 501 39 5 1 492 232625774 232626272 4.510000e-179 638.0
7 TraesCS5A01G128400 chrUn 92.000 50 1 3 663 710 45562708 45562756 2.670000e-07 67.6
8 TraesCS5A01G128400 chr6B 95.238 42 2 0 663 704 10135489 10135530 2.670000e-07 67.6
9 TraesCS5A01G128400 chr6B 100.000 30 0 0 665 694 702843490 702843519 5.770000e-04 56.5
10 TraesCS5A01G128400 chr1B 95.122 41 2 0 665 705 195591308 195591348 9.590000e-07 65.8


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 TraesCS5A01G128400 chr5A 286670961 286675093 4132 False 7633.0 7633 100.0000 1 4133 1 chr5A.!!$F1 4132
1 TraesCS5A01G128400 chr5D 216622628 216626823 4195 False 1711.0 6026 93.4560 1 4133 4 chr5D.!!$F1 4132
2 TraesCS5A01G128400 chr5B 232625774 232629790 4016 False 3302.5 5967 94.0485 1 4133 2 chr5B.!!$F1 4132

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
156 157 0.038343 CCGCCCATTGAACAAACCAG 60.038 55.000 0.00 0.00 0.00 4.00 F
742 918 0.326264 AGGTTCAGACATCAGCCCAC 59.674 55.000 0.00 0.00 0.00 4.61 F
881 1060 2.159085 AGCCTCCTAAACTCGTATGCAC 60.159 50.000 0.00 0.00 0.00 4.57 F
1515 1694 2.425592 CCCACCAGCTGTTCGACA 59.574 61.111 13.81 0.00 0.00 4.35 F
1824 2003 2.943265 AGTGGGCTGGCCAGGAAT 60.943 61.111 33.46 7.28 37.98 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1099 1278 0.959867 TTGTCGTCGTGATACGGGGA 60.960 55.000 1.24 0.0 42.81 4.81 R
1770 1949 1.089112 TGACATCATTCGGCAAGCAG 58.911 50.000 0.00 0.0 0.00 4.24 R
1824 2003 2.431683 GCCTTGTCCAGCTCACCA 59.568 61.111 0.00 0.0 0.00 4.17 R
2974 3153 0.035343 GCCTCCACCCAGTTACCTTC 60.035 60.000 0.00 0.0 0.00 3.46 R
3159 3338 0.249868 GTTTTCCACCAAGCAAGGCC 60.250 55.000 0.00 0.0 0.00 5.19 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
71 72 7.202526 TGTGAATTTTGCTAAAGGTCTTCAAG 58.797 34.615 8.33 0.00 0.00 3.02
137 138 4.035208 CCACGCACAAATCCCTATAAAGAC 59.965 45.833 0.00 0.00 0.00 3.01
143 144 2.112279 ATCCCTATAAAGACCGCCCA 57.888 50.000 0.00 0.00 0.00 5.36
153 154 0.958822 AGACCGCCCATTGAACAAAC 59.041 50.000 0.00 0.00 0.00 2.93
156 157 0.038343 CCGCCCATTGAACAAACCAG 60.038 55.000 0.00 0.00 0.00 4.00
218 219 7.765695 TTCAAAGTCTAAGCATCCTTTCAAT 57.234 32.000 0.00 0.00 32.47 2.57
318 331 3.425193 GCGAAAGAAAAACATGCGAACAT 59.575 39.130 0.00 0.00 36.79 2.71
320 333 5.116377 GCGAAAGAAAAACATGCGAACATAA 59.884 36.000 0.00 0.00 33.67 1.90
360 536 8.865978 TGAACTATAGTTTGTATGTAAACAGCG 58.134 33.333 18.96 0.00 41.76 5.18
381 557 2.105006 ATGAAGCTGCTCATCGTTGT 57.895 45.000 1.00 0.00 29.80 3.32
462 638 6.579666 AAAGCTAATGAAACTGCTCATCAA 57.420 33.333 0.00 0.00 34.90 2.57
464 640 7.870509 AAGCTAATGAAACTGCTCATCAATA 57.129 32.000 0.00 0.00 34.90 1.90
465 641 8.461249 AAGCTAATGAAACTGCTCATCAATAT 57.539 30.769 0.00 0.00 34.90 1.28
466 642 7.872881 AGCTAATGAAACTGCTCATCAATATG 58.127 34.615 0.00 0.00 34.90 1.78
467 643 7.501559 AGCTAATGAAACTGCTCATCAATATGT 59.498 33.333 0.00 0.00 34.90 2.29
472 648 7.532571 TGAAACTGCTCATCAATATGTCAAAG 58.467 34.615 0.00 0.00 34.50 2.77
484 660 6.883756 TCAATATGTCAAAGAAGGCACATACA 59.116 34.615 0.00 0.00 35.16 2.29
491 667 7.013750 TGTCAAAGAAGGCACATACAATACAAA 59.986 33.333 0.00 0.00 0.00 2.83
492 668 7.538678 GTCAAAGAAGGCACATACAATACAAAG 59.461 37.037 0.00 0.00 0.00 2.77
493 669 7.446931 TCAAAGAAGGCACATACAATACAAAGA 59.553 33.333 0.00 0.00 0.00 2.52
494 670 6.992063 AGAAGGCACATACAATACAAAGAG 57.008 37.500 0.00 0.00 0.00 2.85
495 671 6.711277 AGAAGGCACATACAATACAAAGAGA 58.289 36.000 0.00 0.00 0.00 3.10
496 672 7.341805 AGAAGGCACATACAATACAAAGAGAT 58.658 34.615 0.00 0.00 0.00 2.75
497 673 7.497249 AGAAGGCACATACAATACAAAGAGATC 59.503 37.037 0.00 0.00 0.00 2.75
498 674 6.893583 AGGCACATACAATACAAAGAGATCT 58.106 36.000 0.00 0.00 0.00 2.75
499 675 8.023021 AGGCACATACAATACAAAGAGATCTA 57.977 34.615 0.00 0.00 0.00 1.98
500 676 7.928706 AGGCACATACAATACAAAGAGATCTAC 59.071 37.037 0.00 0.00 0.00 2.59
501 677 7.928706 GGCACATACAATACAAAGAGATCTACT 59.071 37.037 0.00 0.00 0.00 2.57
502 678 9.967346 GCACATACAATACAAAGAGATCTACTA 57.033 33.333 0.00 0.00 0.00 1.82
508 684 9.201989 ACAATACAAAGAGATCTACTATGGACA 57.798 33.333 0.00 0.00 0.00 4.02
512 688 8.140112 ACAAAGAGATCTACTATGGACAAACT 57.860 34.615 0.00 0.00 0.00 2.66
513 689 9.256228 ACAAAGAGATCTACTATGGACAAACTA 57.744 33.333 0.00 0.00 0.00 2.24
517 693 9.523168 AGAGATCTACTATGGACAAACTATACC 57.477 37.037 0.00 0.00 0.00 2.73
518 694 8.653036 AGATCTACTATGGACAAACTATACCC 57.347 38.462 0.00 0.00 0.00 3.69
519 695 8.457757 AGATCTACTATGGACAAACTATACCCT 58.542 37.037 0.00 0.00 0.00 4.34
520 696 8.653036 ATCTACTATGGACAAACTATACCCTC 57.347 38.462 0.00 0.00 0.00 4.30
521 697 7.823635 TCTACTATGGACAAACTATACCCTCT 58.176 38.462 0.00 0.00 0.00 3.69
522 698 6.980416 ACTATGGACAAACTATACCCTCTC 57.020 41.667 0.00 0.00 0.00 3.20
523 699 6.684538 ACTATGGACAAACTATACCCTCTCT 58.315 40.000 0.00 0.00 0.00 3.10
524 700 6.778559 ACTATGGACAAACTATACCCTCTCTC 59.221 42.308 0.00 0.00 0.00 3.20
525 701 4.287552 TGGACAAACTATACCCTCTCTCC 58.712 47.826 0.00 0.00 0.00 3.71
526 702 4.016479 TGGACAAACTATACCCTCTCTCCT 60.016 45.833 0.00 0.00 0.00 3.69
527 703 4.585581 GGACAAACTATACCCTCTCTCCTC 59.414 50.000 0.00 0.00 0.00 3.71
528 704 5.451354 GACAAACTATACCCTCTCTCCTCT 58.549 45.833 0.00 0.00 0.00 3.69
529 705 5.451354 ACAAACTATACCCTCTCTCCTCTC 58.549 45.833 0.00 0.00 0.00 3.20
530 706 4.734843 AACTATACCCTCTCTCCTCTCC 57.265 50.000 0.00 0.00 0.00 3.71
531 707 2.640826 ACTATACCCTCTCTCCTCTCCG 59.359 54.545 0.00 0.00 0.00 4.63
532 708 1.822425 ATACCCTCTCTCCTCTCCGA 58.178 55.000 0.00 0.00 0.00 4.55
533 709 0.838608 TACCCTCTCTCCTCTCCGAC 59.161 60.000 0.00 0.00 0.00 4.79
534 710 1.152839 CCCTCTCTCCTCTCCGACC 60.153 68.421 0.00 0.00 0.00 4.79
535 711 1.525077 CCTCTCTCCTCTCCGACCG 60.525 68.421 0.00 0.00 0.00 4.79
536 712 2.124653 TCTCTCCTCTCCGACCGC 60.125 66.667 0.00 0.00 0.00 5.68
547 723 0.886938 TCCGACCGCTTGCAAATTCA 60.887 50.000 0.00 0.00 0.00 2.57
548 724 0.729140 CCGACCGCTTGCAAATTCAC 60.729 55.000 0.00 0.00 0.00 3.18
559 735 3.153919 TGCAAATTCACTGTAACCCCTC 58.846 45.455 0.00 0.00 0.00 4.30
573 749 2.711542 ACCCCTCGCTTTGAAGTAATG 58.288 47.619 0.00 0.00 0.00 1.90
575 751 2.420022 CCCCTCGCTTTGAAGTAATGTG 59.580 50.000 0.00 0.00 0.00 3.21
580 756 4.065088 TCGCTTTGAAGTAATGTGAGCTT 58.935 39.130 0.00 0.00 31.64 3.74
589 765 6.265196 TGAAGTAATGTGAGCTTTTGATTGGT 59.735 34.615 0.00 0.00 0.00 3.67
644 820 2.863704 GCCACAGTGCACATTTTTCTCC 60.864 50.000 21.04 0.00 0.00 3.71
651 827 4.586001 AGTGCACATTTTTCTCCAGAACAT 59.414 37.500 21.04 0.00 33.13 2.71
653 829 6.435277 AGTGCACATTTTTCTCCAGAACATAT 59.565 34.615 21.04 0.00 33.13 1.78
657 833 6.750501 CACATTTTTCTCCAGAACATATGCAG 59.249 38.462 1.58 0.00 33.13 4.41
661 837 7.523293 TTTTCTCCAGAACATATGCAGAAAA 57.477 32.000 1.58 9.94 36.51 2.29
662 838 7.707624 TTTCTCCAGAACATATGCAGAAAAT 57.292 32.000 1.58 0.00 33.13 1.82
663 839 8.806429 TTTCTCCAGAACATATGCAGAAAATA 57.194 30.769 1.58 0.00 33.13 1.40
664 840 8.985315 TTCTCCAGAACATATGCAGAAAATAT 57.015 30.769 1.58 0.00 0.00 1.28
666 842 9.716531 TCTCCAGAACATATGCAGAAAATATAG 57.283 33.333 1.58 0.00 0.00 1.31
667 843 9.499479 CTCCAGAACATATGCAGAAAATATAGT 57.501 33.333 1.58 0.00 0.00 2.12
668 844 9.276590 TCCAGAACATATGCAGAAAATATAGTG 57.723 33.333 1.58 0.00 0.00 2.74
669 845 9.060347 CCAGAACATATGCAGAAAATATAGTGT 57.940 33.333 1.58 0.00 0.00 3.55
671 847 9.836864 AGAACATATGCAGAAAATATAGTGTCA 57.163 29.630 1.58 0.00 0.00 3.58
742 918 0.326264 AGGTTCAGACATCAGCCCAC 59.674 55.000 0.00 0.00 0.00 4.61
751 927 4.081862 CAGACATCAGCCCACATGAAATTT 60.082 41.667 0.00 0.00 0.00 1.82
881 1060 2.159085 AGCCTCCTAAACTCGTATGCAC 60.159 50.000 0.00 0.00 0.00 4.57
897 1076 2.925170 ACAAGAGAGGGCCACGCT 60.925 61.111 6.18 3.11 0.00 5.07
1099 1278 2.660258 ATCGCCGGCGCTTATTCCTT 62.660 55.000 42.78 15.43 39.59 3.36
1515 1694 2.425592 CCCACCAGCTGTTCGACA 59.574 61.111 13.81 0.00 0.00 4.35
1770 1949 3.376918 GAGGCCCAAGTTGCTGGC 61.377 66.667 13.18 13.18 44.59 4.85
1824 2003 2.943265 AGTGGGCTGGCCAGGAAT 60.943 61.111 33.46 7.28 37.98 3.01
2607 2786 3.474600 GATGAAGATGGTCAGTGATGGG 58.525 50.000 0.00 0.00 0.00 4.00
3151 3330 2.047830 AGGACGGTCTTCAAGAAAGGT 58.952 47.619 8.23 0.00 35.54 3.50
3184 3363 2.023673 TGCTTGGTGGAAAACTCTGTG 58.976 47.619 0.00 0.00 0.00 3.66
3287 3466 4.437121 GCTTTCAATCAGCAGATGACAGAC 60.437 45.833 0.00 0.00 41.91 3.51
3388 3567 4.505313 GTGAACTTCCTCACAATTTCCC 57.495 45.455 0.00 0.00 44.32 3.97
3642 3821 5.357878 GGTCAATTTTGCCATAGTCATCTGA 59.642 40.000 0.00 0.00 0.00 3.27
3673 3852 8.171196 CACATTGACTTGTCAGATATGTAACAC 58.829 37.037 15.05 0.00 0.00 3.32
3782 3961 1.073284 ACCGGTATCAGCCAAAACACT 59.927 47.619 4.49 0.00 0.00 3.55
3798 3977 9.294030 GCCAAAACACTTCTATTTATGAGATTG 57.706 33.333 0.00 0.00 0.00 2.67
3836 4015 2.163613 CCCTTTAATTGAGCGAACCACC 59.836 50.000 0.00 0.00 0.00 4.61
3957 4136 1.271379 ACCTACGGCAACTGCATTCTT 60.271 47.619 3.76 0.00 44.36 2.52
3999 4178 1.877443 CGATCACCTTTTGACCGGTTT 59.123 47.619 9.42 0.00 37.63 3.27
4030 4209 0.032615 CTGCCCTGGAGAGGTCTACT 60.033 60.000 0.00 0.00 37.73 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 9.265901 CTATCACCATCGGATTCATTAATATCC 57.734 37.037 7.06 7.06 37.54 2.59
137 138 0.038343 CTGGTTTGTTCAATGGGCGG 60.038 55.000 0.00 0.00 0.00 6.13
187 188 9.520515 AAGGATGCTTAGACTTTGAAAGAATTA 57.479 29.630 12.53 0.00 0.00 1.40
191 192 6.998074 TGAAAGGATGCTTAGACTTTGAAAGA 59.002 34.615 12.53 0.00 33.66 2.52
225 238 7.270151 GCTTCCTCGCGTAATATACTTACTAAC 59.730 40.741 5.77 0.00 0.00 2.34
318 331 9.991906 ACTATAGTTCACAACTAGCAAACTTTA 57.008 29.630 0.00 0.00 46.32 1.85
320 333 8.904099 AACTATAGTTCACAACTAGCAAACTT 57.096 30.769 12.50 0.00 46.32 2.66
360 536 2.417933 ACAACGATGAGCAGCTTCATTC 59.582 45.455 0.00 0.00 37.90 2.67
381 557 6.439058 ACCCTATATTTTTAGCTTGTTTGGCA 59.561 34.615 0.00 0.00 0.00 4.92
451 627 6.318144 CCTTCTTTGACATATTGATGAGCAGT 59.682 38.462 0.00 0.00 36.48 4.40
462 638 7.886629 ATTGTATGTGCCTTCTTTGACATAT 57.113 32.000 0.00 0.00 34.63 1.78
464 640 6.658816 TGTATTGTATGTGCCTTCTTTGACAT 59.341 34.615 0.00 0.00 33.64 3.06
465 641 6.000840 TGTATTGTATGTGCCTTCTTTGACA 58.999 36.000 0.00 0.00 0.00 3.58
466 642 6.494893 TGTATTGTATGTGCCTTCTTTGAC 57.505 37.500 0.00 0.00 0.00 3.18
467 643 7.446931 TCTTTGTATTGTATGTGCCTTCTTTGA 59.553 33.333 0.00 0.00 0.00 2.69
472 648 6.985188 TCTCTTTGTATTGTATGTGCCTTC 57.015 37.500 0.00 0.00 0.00 3.46
491 667 9.523168 GGTATAGTTTGTCCATAGTAGATCTCT 57.477 37.037 0.00 0.00 0.00 3.10
492 668 8.741841 GGGTATAGTTTGTCCATAGTAGATCTC 58.258 40.741 0.00 0.00 0.00 2.75
493 669 8.457757 AGGGTATAGTTTGTCCATAGTAGATCT 58.542 37.037 0.00 0.00 0.00 2.75
494 670 8.653036 AGGGTATAGTTTGTCCATAGTAGATC 57.347 38.462 0.00 0.00 0.00 2.75
495 671 8.457757 AGAGGGTATAGTTTGTCCATAGTAGAT 58.542 37.037 0.00 0.00 0.00 1.98
496 672 7.823635 AGAGGGTATAGTTTGTCCATAGTAGA 58.176 38.462 0.00 0.00 0.00 2.59
497 673 7.945664 AGAGAGGGTATAGTTTGTCCATAGTAG 59.054 40.741 0.00 0.00 0.00 2.57
498 674 7.823635 AGAGAGGGTATAGTTTGTCCATAGTA 58.176 38.462 0.00 0.00 0.00 1.82
499 675 6.684538 AGAGAGGGTATAGTTTGTCCATAGT 58.315 40.000 0.00 0.00 0.00 2.12
500 676 6.209788 GGAGAGAGGGTATAGTTTGTCCATAG 59.790 46.154 0.00 0.00 0.00 2.23
501 677 6.075984 GGAGAGAGGGTATAGTTTGTCCATA 58.924 44.000 0.00 0.00 0.00 2.74
502 678 4.902448 GGAGAGAGGGTATAGTTTGTCCAT 59.098 45.833 0.00 0.00 0.00 3.41
503 679 4.016479 AGGAGAGAGGGTATAGTTTGTCCA 60.016 45.833 0.00 0.00 0.00 4.02
504 680 4.548669 AGGAGAGAGGGTATAGTTTGTCC 58.451 47.826 0.00 0.00 0.00 4.02
505 681 5.451354 AGAGGAGAGAGGGTATAGTTTGTC 58.549 45.833 0.00 0.00 0.00 3.18
506 682 5.451354 GAGAGGAGAGAGGGTATAGTTTGT 58.549 45.833 0.00 0.00 0.00 2.83
507 683 4.830600 GGAGAGGAGAGAGGGTATAGTTTG 59.169 50.000 0.00 0.00 0.00 2.93
508 684 4.446600 CGGAGAGGAGAGAGGGTATAGTTT 60.447 50.000 0.00 0.00 0.00 2.66
509 685 3.073356 CGGAGAGGAGAGAGGGTATAGTT 59.927 52.174 0.00 0.00 0.00 2.24
510 686 2.640826 CGGAGAGGAGAGAGGGTATAGT 59.359 54.545 0.00 0.00 0.00 2.12
511 687 2.907696 TCGGAGAGGAGAGAGGGTATAG 59.092 54.545 0.00 0.00 0.00 1.31
512 688 2.638855 GTCGGAGAGGAGAGAGGGTATA 59.361 54.545 0.00 0.00 36.95 1.47
513 689 1.422402 GTCGGAGAGGAGAGAGGGTAT 59.578 57.143 0.00 0.00 36.95 2.73
514 690 0.838608 GTCGGAGAGGAGAGAGGGTA 59.161 60.000 0.00 0.00 36.95 3.69
515 691 1.610873 GTCGGAGAGGAGAGAGGGT 59.389 63.158 0.00 0.00 36.95 4.34
516 692 1.152839 GGTCGGAGAGGAGAGAGGG 60.153 68.421 0.00 0.00 36.95 4.30
517 693 1.525077 CGGTCGGAGAGGAGAGAGG 60.525 68.421 0.00 0.00 36.95 3.69
518 694 2.184167 GCGGTCGGAGAGGAGAGAG 61.184 68.421 0.00 0.00 36.95 3.20
519 695 2.124653 GCGGTCGGAGAGGAGAGA 60.125 66.667 0.00 0.00 36.95 3.10
520 696 1.751162 AAGCGGTCGGAGAGGAGAG 60.751 63.158 0.00 0.00 36.95 3.20
521 697 2.046864 CAAGCGGTCGGAGAGGAGA 61.047 63.158 0.00 0.00 36.95 3.71
522 698 2.492090 CAAGCGGTCGGAGAGGAG 59.508 66.667 0.00 0.00 36.95 3.69
523 699 3.760035 GCAAGCGGTCGGAGAGGA 61.760 66.667 0.00 0.00 36.95 3.71
524 700 3.589654 TTGCAAGCGGTCGGAGAGG 62.590 63.158 0.00 0.00 36.95 3.69
525 701 1.021390 ATTTGCAAGCGGTCGGAGAG 61.021 55.000 0.00 0.00 36.95 3.20
526 702 0.605319 AATTTGCAAGCGGTCGGAGA 60.605 50.000 0.00 0.00 0.00 3.71
527 703 0.179189 GAATTTGCAAGCGGTCGGAG 60.179 55.000 0.00 0.00 0.00 4.63
528 704 0.886938 TGAATTTGCAAGCGGTCGGA 60.887 50.000 0.00 0.00 0.00 4.55
529 705 0.729140 GTGAATTTGCAAGCGGTCGG 60.729 55.000 0.00 0.00 0.00 4.79
530 706 0.238289 AGTGAATTTGCAAGCGGTCG 59.762 50.000 0.00 0.00 0.00 4.79
531 707 1.001378 ACAGTGAATTTGCAAGCGGTC 60.001 47.619 0.00 0.00 0.00 4.79
532 708 1.032014 ACAGTGAATTTGCAAGCGGT 58.968 45.000 0.00 0.00 0.00 5.68
533 709 2.979813 GTTACAGTGAATTTGCAAGCGG 59.020 45.455 0.00 0.00 0.00 5.52
534 710 2.979813 GGTTACAGTGAATTTGCAAGCG 59.020 45.455 0.00 0.00 0.00 4.68
535 711 3.317150 GGGTTACAGTGAATTTGCAAGC 58.683 45.455 0.00 0.00 0.00 4.01
536 712 3.573967 AGGGGTTACAGTGAATTTGCAAG 59.426 43.478 0.00 0.00 0.00 4.01
547 723 1.053424 TCAAAGCGAGGGGTTACAGT 58.947 50.000 0.00 0.00 32.60 3.55
548 724 2.076863 CTTCAAAGCGAGGGGTTACAG 58.923 52.381 0.00 0.00 32.60 2.74
559 735 4.410492 AAGCTCACATTACTTCAAAGCG 57.590 40.909 0.00 0.00 33.62 4.68
694 870 6.448053 TTTCACACGAAAATACTCTCTTCG 57.552 37.500 0.00 2.17 45.65 3.79
695 871 7.684489 CGAATTTCACACGAAAATACTCTCTTC 59.316 37.037 0.00 0.00 44.12 2.87
696 872 7.510630 CGAATTTCACACGAAAATACTCTCTT 58.489 34.615 0.00 0.00 44.12 2.85
697 873 6.401153 GCGAATTTCACACGAAAATACTCTCT 60.401 38.462 0.00 0.00 44.12 3.10
698 874 5.728507 GCGAATTTCACACGAAAATACTCTC 59.271 40.000 0.00 0.00 44.12 3.20
699 875 5.178623 TGCGAATTTCACACGAAAATACTCT 59.821 36.000 0.00 0.00 44.12 3.24
700 876 5.379003 TGCGAATTTCACACGAAAATACTC 58.621 37.500 0.00 0.00 44.12 2.59
701 877 5.351233 TGCGAATTTCACACGAAAATACT 57.649 34.783 0.00 0.00 44.12 2.12
702 878 4.553429 CCTGCGAATTTCACACGAAAATAC 59.447 41.667 0.00 0.00 44.12 1.89
709 885 1.262950 TGAACCTGCGAATTTCACACG 59.737 47.619 0.00 0.00 0.00 4.49
881 1060 2.435586 CAGCGTGGCCCTCTCTTG 60.436 66.667 0.00 0.00 0.00 3.02
1099 1278 0.959867 TTGTCGTCGTGATACGGGGA 60.960 55.000 1.24 0.00 42.81 4.81
1770 1949 1.089112 TGACATCATTCGGCAAGCAG 58.911 50.000 0.00 0.00 0.00 4.24
1824 2003 2.431683 GCCTTGTCCAGCTCACCA 59.568 61.111 0.00 0.00 0.00 4.17
2607 2786 5.734855 ATGTGACACAGTCAAGTTGTAAC 57.265 39.130 14.66 0.00 44.49 2.50
2811 2990 4.846940 ACTTCATTAGGTTCCACTCCTTCT 59.153 41.667 0.00 0.00 36.60 2.85
2974 3153 0.035343 GCCTCCACCCAGTTACCTTC 60.035 60.000 0.00 0.00 0.00 3.46
3075 3254 2.068519 GTGTCGTGCATGTGATCTTCA 58.931 47.619 5.68 0.00 0.00 3.02
3151 3330 1.172180 CCAAGCAAGGCCAAGACGAA 61.172 55.000 5.01 0.00 0.00 3.85
3159 3338 0.249868 GTTTTCCACCAAGCAAGGCC 60.250 55.000 0.00 0.00 0.00 5.19
3287 3466 1.165270 GAGTGTCACCCCAAATTCCG 58.835 55.000 0.00 0.00 0.00 4.30
3388 3567 1.422781 ACCATGAGCATATGACCAGGG 59.577 52.381 19.94 19.94 36.63 4.45
3642 3821 3.872696 TCTGACAAGTCAATGTGTGTGT 58.127 40.909 4.29 0.00 39.39 3.72
3782 3961 8.886719 CACTGCAGTTCAATCTCATAAATAGAA 58.113 33.333 18.94 0.00 0.00 2.10
3798 3977 2.050985 GCCGTTGCACTGCAGTTC 60.051 61.111 18.94 14.04 40.61 3.01
3957 4136 3.395639 GTGGTTTCACGGTGTAATGAGA 58.604 45.455 8.17 0.00 33.87 3.27
3999 4178 0.612732 CAGGGCAGCAATTCCTCCAA 60.613 55.000 0.00 0.00 0.00 3.53
4030 4209 1.254975 TAGCGTTGGAGTGCAGGCTA 61.255 55.000 13.13 13.13 32.29 3.93


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

AutoCloner maintained by Alex Coulton.