Multiple sequence alignment - TraesCS7D01G164800

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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 TraesCS7D01G164800 chr7D 100.000 2548 0 0 1 2548 113990801 113993348 0 4706
1 TraesCS7D01G164800 chr5D 96.285 2046 39 6 510 2548 324809259 324811274 0 3323
2 TraesCS7D01G164800 chr5D 95.752 2048 52 21 510 2548 482332203 482330182 0 3267
3 TraesCS7D01G164800 chr5D 95.054 2042 57 22 515 2548 336310999 336308994 0 3171
4 TraesCS7D01G164800 chr5D 96.918 1655 41 7 901 2548 336262953 336264604 0 2765
5 TraesCS7D01G164800 chr5D 96.336 1665 54 6 888 2548 336348084 336346423 0 2730
6 TraesCS7D01G164800 chr5D 94.695 509 27 0 1 509 325808532 325808024 0 791
7 TraesCS7D01G164800 chr5D 94.152 513 26 1 1 509 408532015 408531503 0 778
8 TraesCS7D01G164800 chr5D 96.585 410 10 2 501 910 336262615 336263020 0 676
9 TraesCS7D01G164800 chr2D 97.868 1642 29 5 912 2548 498471319 498469679 0 2833
10 TraesCS7D01G164800 chr2D 96.146 493 19 0 1 493 118569189 118569681 0 806
11 TraesCS7D01G164800 chr2D 95.069 507 23 1 3 509 191244075 191244579 0 797
12 TraesCS7D01G164800 chr2D 95.116 430 17 1 510 939 647705358 647705783 0 675
13 TraesCS7D01G164800 chr2D 96.098 410 12 1 510 915 238958886 238959295 0 665
14 TraesCS7D01G164800 chr6D 97.093 1651 42 5 901 2548 52521415 52519768 0 2778
15 TraesCS7D01G164800 chr6D 96.979 1655 40 7 901 2548 109963541 109965192 0 2771
16 TraesCS7D01G164800 chr6D 96.998 433 11 1 510 942 277567594 277567164 0 726
17 TraesCS7D01G164800 chr1D 96.610 1652 51 5 901 2548 26486467 26488117 0 2736
18 TraesCS7D01G164800 chr1D 96.327 490 17 1 4 493 66161313 66160825 0 804
19 TraesCS7D01G164800 chr1D 94.902 510 21 3 1 509 295459819 295460324 0 793
20 TraesCS7D01G164800 chr1D 94.314 510 25 2 1 510 135003049 135002544 0 778
21 TraesCS7D01G164800 chr1D 97.257 401 7 1 510 910 26486138 26486534 0 676
22 TraesCS7D01G164800 chr4D 96.334 491 18 0 1 491 434257365 434256875 0 808
23 TraesCS7D01G164800 chr5A 94.499 509 24 2 1 509 268295566 268295062 0 782
24 TraesCS7D01G164800 chr4B 93.764 433 25 1 510 942 3786342 3786772 0 649
25 TraesCS7D01G164800 chr7A 93.779 434 22 3 510 940 14473099 14472668 0 647


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 TraesCS7D01G164800 chr7D 113990801 113993348 2547 False 4706.0 4706 100.0000 1 2548 1 chr7D.!!$F1 2547
1 TraesCS7D01G164800 chr5D 324809259 324811274 2015 False 3323.0 3323 96.2850 510 2548 1 chr5D.!!$F1 2038
2 TraesCS7D01G164800 chr5D 482330182 482332203 2021 True 3267.0 3267 95.7520 510 2548 1 chr5D.!!$R5 2038
3 TraesCS7D01G164800 chr5D 336308994 336310999 2005 True 3171.0 3171 95.0540 515 2548 1 chr5D.!!$R2 2033
4 TraesCS7D01G164800 chr5D 336346423 336348084 1661 True 2730.0 2730 96.3360 888 2548 1 chr5D.!!$R3 1660
5 TraesCS7D01G164800 chr5D 336262615 336264604 1989 False 1720.5 2765 96.7515 501 2548 2 chr5D.!!$F2 2047
6 TraesCS7D01G164800 chr5D 325808024 325808532 508 True 791.0 791 94.6950 1 509 1 chr5D.!!$R1 508
7 TraesCS7D01G164800 chr5D 408531503 408532015 512 True 778.0 778 94.1520 1 509 1 chr5D.!!$R4 508
8 TraesCS7D01G164800 chr2D 498469679 498471319 1640 True 2833.0 2833 97.8680 912 2548 1 chr2D.!!$R1 1636
9 TraesCS7D01G164800 chr2D 191244075 191244579 504 False 797.0 797 95.0690 3 509 1 chr2D.!!$F2 506
10 TraesCS7D01G164800 chr6D 52519768 52521415 1647 True 2778.0 2778 97.0930 901 2548 1 chr6D.!!$R1 1647
11 TraesCS7D01G164800 chr6D 109963541 109965192 1651 False 2771.0 2771 96.9790 901 2548 1 chr6D.!!$F1 1647
12 TraesCS7D01G164800 chr1D 26486138 26488117 1979 False 1706.0 2736 96.9335 510 2548 2 chr1D.!!$F2 2038
13 TraesCS7D01G164800 chr1D 295459819 295460324 505 False 793.0 793 94.9020 1 509 1 chr1D.!!$F1 508
14 TraesCS7D01G164800 chr1D 135002544 135003049 505 True 778.0 778 94.3140 1 510 1 chr1D.!!$R2 509
15 TraesCS7D01G164800 chr5A 268295062 268295566 504 True 782.0 782 94.4990 1 509 1 chr5A.!!$R1 508

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
877 916 0.03779 GAAGCTAGCTATGGAGGGCG 60.038 60.0 19.7 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2150 2313 0.606604 GAGTCCCTAGTCGCACCAAA 59.393 55.0 0.0 0.0 0.0 3.28 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
32 33 2.264005 ACGGTGCTGTATGAAAACCA 57.736 45.000 0.00 0.00 0.00 3.67
66 68 1.999048 AACGTTTGCGATGACGGATA 58.001 45.000 0.00 0.00 43.16 2.59
250 252 4.081198 AGGCAACACAAAAGAAATGGTCAA 60.081 37.500 0.00 0.00 41.41 3.18
320 322 5.233476 TGAACTGTTTACGTTGAGACATGAC 59.767 40.000 0.00 0.00 0.00 3.06
421 423 2.902705 AAGAACACAGACGGTTGCTA 57.097 45.000 0.00 0.00 0.00 3.49
432 434 5.184479 ACAGACGGTTGCTACTAATAAGACA 59.816 40.000 0.00 0.00 0.00 3.41
434 436 6.199154 CAGACGGTTGCTACTAATAAGACATG 59.801 42.308 0.00 0.00 0.00 3.21
445 447 3.811722 ATAAGACATGTGTGTTGTGCG 57.188 42.857 1.15 0.00 39.09 5.34
470 472 4.022416 TGGGATTGCATACAGAACAACAAC 60.022 41.667 0.00 0.00 0.00 3.32
471 473 4.158384 GGATTGCATACAGAACAACAACG 58.842 43.478 0.00 0.00 0.00 4.10
473 475 5.106869 GGATTGCATACAGAACAACAACGTA 60.107 40.000 0.00 0.00 0.00 3.57
474 476 5.933187 TTGCATACAGAACAACAACGTAT 57.067 34.783 0.00 0.00 0.00 3.06
475 477 7.201574 GGATTGCATACAGAACAACAACGTATA 60.202 37.037 0.00 0.00 0.00 1.47
476 478 6.397831 TGCATACAGAACAACAACGTATAC 57.602 37.500 0.00 0.00 0.00 1.47
477 479 5.927115 TGCATACAGAACAACAACGTATACA 59.073 36.000 3.32 0.00 0.00 2.29
478 480 6.128769 TGCATACAGAACAACAACGTATACAC 60.129 38.462 3.32 0.00 0.00 2.90
479 481 6.128769 GCATACAGAACAACAACGTATACACA 60.129 38.462 3.32 0.00 0.00 3.72
480 482 5.646467 ACAGAACAACAACGTATACACAC 57.354 39.130 3.32 0.00 0.00 3.82
481 483 5.110598 ACAGAACAACAACGTATACACACA 58.889 37.500 3.32 0.00 0.00 3.72
482 484 5.005971 ACAGAACAACAACGTATACACACAC 59.994 40.000 3.32 0.00 0.00 3.82
483 485 5.005875 CAGAACAACAACGTATACACACACA 59.994 40.000 3.32 0.00 0.00 3.72
484 486 4.782252 ACAACAACGTATACACACACAC 57.218 40.909 3.32 0.00 0.00 3.82
485 487 4.182339 ACAACAACGTATACACACACACA 58.818 39.130 3.32 0.00 0.00 3.72
486 488 4.033129 ACAACAACGTATACACACACACAC 59.967 41.667 3.32 0.00 0.00 3.82
487 489 3.783191 ACAACGTATACACACACACACA 58.217 40.909 3.32 0.00 0.00 3.72
488 490 3.552699 ACAACGTATACACACACACACAC 59.447 43.478 3.32 0.00 0.00 3.82
489 491 3.439895 ACGTATACACACACACACACA 57.560 42.857 3.32 0.00 0.00 3.72
490 492 3.117794 ACGTATACACACACACACACAC 58.882 45.455 3.32 0.00 0.00 3.82
491 493 3.117046 CGTATACACACACACACACACA 58.883 45.455 3.32 0.00 0.00 3.72
492 494 3.060807 CGTATACACACACACACACACAC 60.061 47.826 3.32 0.00 0.00 3.82
493 495 2.457366 TACACACACACACACACACA 57.543 45.000 0.00 0.00 0.00 3.72
494 496 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
495 497 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
496 498 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
497 499 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
498 500 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
499 501 1.155889 CACACACACACACACACACT 58.844 50.000 0.00 0.00 0.00 3.55
500 502 1.535028 CACACACACACACACACACTT 59.465 47.619 0.00 0.00 0.00 3.16
501 503 2.739379 CACACACACACACACACACTTA 59.261 45.455 0.00 0.00 0.00 2.24
502 504 3.373748 CACACACACACACACACACTTAT 59.626 43.478 0.00 0.00 0.00 1.73
503 505 4.568760 CACACACACACACACACACTTATA 59.431 41.667 0.00 0.00 0.00 0.98
504 506 5.064071 CACACACACACACACACACTTATAA 59.936 40.000 0.00 0.00 0.00 0.98
505 507 5.293324 ACACACACACACACACACTTATAAG 59.707 40.000 11.05 11.05 0.00 1.73
506 508 4.814234 ACACACACACACACACTTATAAGG 59.186 41.667 16.73 8.17 0.00 2.69
507 509 5.053811 CACACACACACACACTTATAAGGA 58.946 41.667 16.73 0.00 0.00 3.36
508 510 5.050363 CACACACACACACACTTATAAGGAC 60.050 44.000 16.73 0.00 0.00 3.85
631 634 1.006102 CCGTGAACTCAGCCGTCTT 60.006 57.895 0.00 0.00 0.00 3.01
838 877 2.041115 TGACCACGGCGAGAGAGAG 61.041 63.158 16.62 0.00 0.00 3.20
839 878 1.745864 GACCACGGCGAGAGAGAGA 60.746 63.158 16.62 0.00 0.00 3.10
840 879 1.711060 GACCACGGCGAGAGAGAGAG 61.711 65.000 16.62 0.00 0.00 3.20
841 880 1.450491 CCACGGCGAGAGAGAGAGA 60.450 63.158 16.62 0.00 0.00 3.10
842 881 1.436195 CCACGGCGAGAGAGAGAGAG 61.436 65.000 16.62 0.00 0.00 3.20
843 882 0.461163 CACGGCGAGAGAGAGAGAGA 60.461 60.000 16.62 0.00 0.00 3.10
844 883 0.179084 ACGGCGAGAGAGAGAGAGAG 60.179 60.000 16.62 0.00 0.00 3.20
845 884 0.104120 CGGCGAGAGAGAGAGAGAGA 59.896 60.000 0.00 0.00 0.00 3.10
846 885 1.869754 CGGCGAGAGAGAGAGAGAGAG 60.870 61.905 0.00 0.00 0.00 3.20
847 886 1.221414 GCGAGAGAGAGAGAGAGAGC 58.779 60.000 0.00 0.00 0.00 4.09
848 887 1.473257 GCGAGAGAGAGAGAGAGAGCA 60.473 57.143 0.00 0.00 0.00 4.26
849 888 2.205074 CGAGAGAGAGAGAGAGAGCAC 58.795 57.143 0.00 0.00 0.00 4.40
850 889 2.205074 GAGAGAGAGAGAGAGAGCACG 58.795 57.143 0.00 0.00 0.00 5.34
851 890 1.134401 AGAGAGAGAGAGAGAGCACGG 60.134 57.143 0.00 0.00 0.00 4.94
852 891 0.748005 AGAGAGAGAGAGAGCACGGC 60.748 60.000 0.00 0.00 0.00 5.68
853 892 1.001517 AGAGAGAGAGAGCACGGCA 60.002 57.895 0.00 0.00 0.00 5.69
854 893 1.031571 AGAGAGAGAGAGCACGGCAG 61.032 60.000 0.00 0.00 0.00 4.85
855 894 1.304052 AGAGAGAGAGCACGGCAGT 60.304 57.895 0.00 0.00 0.00 4.40
864 903 2.662596 CACGGCAGTGGGAAGCTA 59.337 61.111 9.34 0.00 44.34 3.32
865 904 1.448540 CACGGCAGTGGGAAGCTAG 60.449 63.158 9.34 0.00 44.34 3.42
866 905 2.512515 CGGCAGTGGGAAGCTAGC 60.513 66.667 6.62 6.62 0.00 3.42
867 906 2.993853 GGCAGTGGGAAGCTAGCT 59.006 61.111 12.68 12.68 0.00 3.32
868 907 1.676678 CGGCAGTGGGAAGCTAGCTA 61.677 60.000 19.70 0.00 0.00 3.32
869 908 0.761802 GGCAGTGGGAAGCTAGCTAT 59.238 55.000 19.70 8.44 0.00 2.97
870 909 1.542108 GGCAGTGGGAAGCTAGCTATG 60.542 57.143 19.70 11.01 0.00 2.23
874 913 1.346068 GTGGGAAGCTAGCTATGGAGG 59.654 57.143 19.70 0.00 0.00 4.30
877 916 0.037790 GAAGCTAGCTATGGAGGGCG 60.038 60.000 19.70 0.00 0.00 6.13
963 1002 1.524482 GAAGCTAGCTGTGGAGGGG 59.476 63.158 20.16 0.00 0.00 4.79
1168 1236 1.808133 GCAGCGAGAATGGGGTAAGAG 60.808 57.143 0.00 0.00 0.00 2.85
1333 1438 4.345962 GTTGCGCATGCTGCCACA 62.346 61.111 24.60 10.14 41.12 4.17
1407 1541 3.013219 CACACTGACAGAGAGCTAGCTA 58.987 50.000 19.38 0.00 0.00 3.32
1564 1714 5.306160 AGGCATGAATTATGGAGGAATTTGG 59.694 40.000 0.00 0.00 37.26 3.28
2046 2198 0.035630 AATGTGCCTCAGCTCTGGTC 60.036 55.000 3.75 0.00 40.80 4.02
2150 2313 4.436113 AGGGTGGAAAATGCACAAAAAT 57.564 36.364 4.42 0.00 40.73 1.82
2175 2338 1.720301 CGACTAGGGACTCGAACCG 59.280 63.158 0.00 0.00 41.75 4.44
2316 2484 5.576447 AAAAGTGAGACCGTGAATGTTTT 57.424 34.783 0.00 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 5.398122 CGCAAACGTTTTACACATTTCTGAT 59.602 36.000 11.66 0.00 33.53 2.90
66 68 2.341846 ACCTGAACCGTGTTTGATGT 57.658 45.000 0.00 0.00 0.00 3.06
136 138 2.303022 TCTTTTGTTCCTCCTCATCGCT 59.697 45.455 0.00 0.00 0.00 4.93
250 252 2.631062 TCGTACACACCTTTGATCTGGT 59.369 45.455 0.00 0.00 36.96 4.00
306 308 3.452755 TCTGTTGTCATGTCTCAACGT 57.547 42.857 18.17 0.00 44.43 3.99
320 322 5.632959 TGTTAAGTTGAACCGTTTCTGTTG 58.367 37.500 0.00 0.00 32.36 3.33
421 423 5.107104 CGCACAACACACATGTCTTATTAGT 60.107 40.000 0.00 0.00 38.45 2.24
432 434 0.250684 TCCCATCGCACAACACACAT 60.251 50.000 0.00 0.00 0.00 3.21
434 436 0.881118 AATCCCATCGCACAACACAC 59.119 50.000 0.00 0.00 0.00 3.82
445 447 4.398988 TGTTGTTCTGTATGCAATCCCATC 59.601 41.667 0.00 0.00 0.00 3.51
470 472 3.060807 GTGTGTGTGTGTGTGTGTATACG 60.061 47.826 0.00 0.00 0.00 3.06
471 473 3.866327 TGTGTGTGTGTGTGTGTGTATAC 59.134 43.478 0.00 0.00 0.00 1.47
473 475 2.675844 GTGTGTGTGTGTGTGTGTGTAT 59.324 45.455 0.00 0.00 0.00 2.29
474 476 2.070028 GTGTGTGTGTGTGTGTGTGTA 58.930 47.619 0.00 0.00 0.00 2.90
475 477 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
476 478 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
477 479 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
478 480 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
479 481 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
480 482 1.155889 AGTGTGTGTGTGTGTGTGTG 58.844 50.000 0.00 0.00 0.00 3.82
481 483 1.890876 AAGTGTGTGTGTGTGTGTGT 58.109 45.000 0.00 0.00 0.00 3.72
482 484 5.277297 CCTTATAAGTGTGTGTGTGTGTGTG 60.277 44.000 11.50 0.00 0.00 3.82
483 485 4.814234 CCTTATAAGTGTGTGTGTGTGTGT 59.186 41.667 11.50 0.00 0.00 3.72
484 486 5.050363 GTCCTTATAAGTGTGTGTGTGTGTG 60.050 44.000 11.50 0.00 0.00 3.82
485 487 5.054477 GTCCTTATAAGTGTGTGTGTGTGT 58.946 41.667 11.50 0.00 0.00 3.72
486 488 4.149922 CGTCCTTATAAGTGTGTGTGTGTG 59.850 45.833 11.50 0.00 0.00 3.82
487 489 4.304110 CGTCCTTATAAGTGTGTGTGTGT 58.696 43.478 11.50 0.00 0.00 3.72
488 490 3.678072 CCGTCCTTATAAGTGTGTGTGTG 59.322 47.826 11.50 0.00 0.00 3.82
489 491 3.306502 CCCGTCCTTATAAGTGTGTGTGT 60.307 47.826 11.50 0.00 0.00 3.72
490 492 3.259064 CCCGTCCTTATAAGTGTGTGTG 58.741 50.000 11.50 0.00 0.00 3.82
491 493 2.901839 ACCCGTCCTTATAAGTGTGTGT 59.098 45.455 11.50 0.88 0.00 3.72
492 494 3.604875 ACCCGTCCTTATAAGTGTGTG 57.395 47.619 11.50 0.30 0.00 3.82
493 495 5.743636 TTAACCCGTCCTTATAAGTGTGT 57.256 39.130 11.50 0.00 0.00 3.72
494 496 8.897872 ATAATTAACCCGTCCTTATAAGTGTG 57.102 34.615 11.50 0.67 0.00 3.82
495 497 8.707449 TGATAATTAACCCGTCCTTATAAGTGT 58.293 33.333 11.50 0.00 0.00 3.55
496 498 9.720769 ATGATAATTAACCCGTCCTTATAAGTG 57.279 33.333 11.50 3.57 0.00 3.16
501 503 8.357402 GCAAAATGATAATTAACCCGTCCTTAT 58.643 33.333 0.00 0.00 0.00 1.73
502 504 7.201839 GGCAAAATGATAATTAACCCGTCCTTA 60.202 37.037 0.00 0.00 0.00 2.69
503 505 6.406512 GGCAAAATGATAATTAACCCGTCCTT 60.407 38.462 0.00 0.00 0.00 3.36
504 506 5.068591 GGCAAAATGATAATTAACCCGTCCT 59.931 40.000 0.00 0.00 0.00 3.85
505 507 5.286438 GGCAAAATGATAATTAACCCGTCC 58.714 41.667 0.00 0.00 0.00 4.79
506 508 5.068591 AGGGCAAAATGATAATTAACCCGTC 59.931 40.000 0.00 0.00 39.89 4.79
507 509 4.959839 AGGGCAAAATGATAATTAACCCGT 59.040 37.500 0.00 0.00 39.89 5.28
508 510 5.068460 TGAGGGCAAAATGATAATTAACCCG 59.932 40.000 0.00 0.00 39.89 5.28
838 877 1.153862 CACTGCCGTGCTCTCTCTC 60.154 63.158 0.00 0.00 33.82 3.20
839 878 2.644212 CCACTGCCGTGCTCTCTCT 61.644 63.158 2.22 0.00 39.86 3.10
840 879 2.125753 CCACTGCCGTGCTCTCTC 60.126 66.667 2.22 0.00 39.86 3.20
841 880 3.699894 CCCACTGCCGTGCTCTCT 61.700 66.667 2.22 0.00 39.86 3.10
842 881 3.240134 TTCCCACTGCCGTGCTCTC 62.240 63.158 2.22 0.00 39.86 3.20
843 882 3.241530 TTCCCACTGCCGTGCTCT 61.242 61.111 2.22 0.00 39.86 4.09
844 883 2.743928 CTTCCCACTGCCGTGCTC 60.744 66.667 2.22 0.00 39.86 4.26
846 885 3.605749 TAGCTTCCCACTGCCGTGC 62.606 63.158 2.22 0.00 39.86 5.34
847 886 1.448540 CTAGCTTCCCACTGCCGTG 60.449 63.158 0.56 0.56 40.89 4.94
848 887 2.982130 CTAGCTTCCCACTGCCGT 59.018 61.111 0.00 0.00 0.00 5.68
849 888 1.676678 TAGCTAGCTTCCCACTGCCG 61.677 60.000 24.88 0.00 0.00 5.69
850 889 0.761802 ATAGCTAGCTTCCCACTGCC 59.238 55.000 24.88 0.00 0.00 4.85
851 890 1.542108 CCATAGCTAGCTTCCCACTGC 60.542 57.143 24.88 0.00 0.00 4.40
852 891 2.036992 CTCCATAGCTAGCTTCCCACTG 59.963 54.545 24.88 10.67 0.00 3.66
853 892 2.324541 CTCCATAGCTAGCTTCCCACT 58.675 52.381 24.88 0.00 0.00 4.00
854 893 1.346068 CCTCCATAGCTAGCTTCCCAC 59.654 57.143 24.88 0.00 0.00 4.61
855 894 1.722034 CCTCCATAGCTAGCTTCCCA 58.278 55.000 24.88 4.69 0.00 4.37
856 895 0.980423 CCCTCCATAGCTAGCTTCCC 59.020 60.000 24.88 0.00 0.00 3.97
857 896 0.323302 GCCCTCCATAGCTAGCTTCC 59.677 60.000 24.88 0.00 0.00 3.46
858 897 0.037790 CGCCCTCCATAGCTAGCTTC 60.038 60.000 24.88 1.72 0.00 3.86
859 898 2.053618 CGCCCTCCATAGCTAGCTT 58.946 57.895 24.88 8.10 0.00 3.74
860 899 2.578714 GCGCCCTCCATAGCTAGCT 61.579 63.158 23.12 23.12 0.00 3.32
861 900 2.047750 GCGCCCTCCATAGCTAGC 60.048 66.667 6.62 6.62 0.00 3.42
862 901 2.259818 CGCGCCCTCCATAGCTAG 59.740 66.667 0.00 0.00 0.00 3.42
863 902 3.303135 CCGCGCCCTCCATAGCTA 61.303 66.667 0.00 0.00 0.00 3.32
1119 1187 1.519408 ACGGACGATTTTGGTTCCTG 58.481 50.000 0.00 0.00 0.00 3.86
1168 1236 3.146182 TGGTGCAATTGCCCCAAC 58.854 55.556 29.36 19.14 45.42 3.77
1387 1521 2.214376 AGCTAGCTCTCTGTCAGTGT 57.786 50.000 12.68 0.00 0.00 3.55
1407 1541 9.171877 CTTCTTCTTAAACATCCTAAGCTCAAT 57.828 33.333 0.00 0.00 0.00 2.57
1424 1569 6.681729 TCAAGCTTCCTAACCTTCTTCTTA 57.318 37.500 0.00 0.00 0.00 2.10
1675 1826 7.880105 AGTTTCTGAATTCCTCATTTCTTCAC 58.120 34.615 2.27 0.00 32.14 3.18
1676 1827 8.469309 AAGTTTCTGAATTCCTCATTTCTTCA 57.531 30.769 2.27 0.00 32.14 3.02
2046 2198 0.953960 GGCACCAGGTGTAAACCTCG 60.954 60.000 21.26 0.00 38.22 4.63
2121 2284 4.821260 GTGCATTTTCCACCCTTCATTTTT 59.179 37.500 0.00 0.00 0.00 1.94
2150 2313 0.606604 GAGTCCCTAGTCGCACCAAA 59.393 55.000 0.00 0.00 0.00 3.28


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

AutoCloner maintained by Alex Coulton.