Multiple sequence alignment - TraesCS3A01G362000

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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 TraesCS3A01G362000 chr3A 100.000 3590 0 0 1 3590 610040133 610043722 0.000000e+00 6630.0
1 TraesCS3A01G362000 chr3B 90.823 3171 133 59 524 3590 621534161 621537277 0.000000e+00 4098.0
2 TraesCS3A01G362000 chr3B 90.506 316 26 4 2041 2354 550022613 550022926 7.170000e-112 414.0
3 TraesCS3A01G362000 chr3B 92.424 66 5 0 2392 2457 550022922 550022987 1.060000e-15 95.3
4 TraesCS3A01G362000 chr3B 90.164 61 3 3 1444 1501 720956596 720956536 3.840000e-10 76.8
5 TraesCS3A01G362000 chr3D 90.757 3170 123 50 508 3590 467473067 467476153 0.000000e+00 4074.0
6 TraesCS3A01G362000 chr5D 94.083 507 24 4 1 502 530155764 530155259 0.000000e+00 765.0
7 TraesCS3A01G362000 chr4D 93.307 508 30 2 1 505 477757686 477757180 0.000000e+00 747.0
8 TraesCS3A01G362000 chr4D 88.072 503 56 3 1 502 488659259 488658760 8.580000e-166 593.0
9 TraesCS3A01G362000 chr5A 92.277 505 39 0 1 505 89705202 89705706 0.000000e+00 717.0
10 TraesCS3A01G362000 chr4A 92.495 493 36 1 1 493 146696849 146697340 0.000000e+00 704.0
11 TraesCS3A01G362000 chr4A 88.846 260 26 3 2096 2354 690086012 690086269 2.080000e-82 316.0
12 TraesCS3A01G362000 chr4A 93.939 66 4 0 2392 2457 690086265 690086330 2.280000e-17 100.0
13 TraesCS3A01G362000 chr4B 92.000 500 37 3 1 498 584950272 584950770 0.000000e+00 699.0
14 TraesCS3A01G362000 chr7B 89.328 506 50 4 1 506 498564980 498564479 1.820000e-177 632.0
15 TraesCS3A01G362000 chr1D 87.751 498 60 1 1 498 466012902 466012406 6.680000e-162 580.0
16 TraesCS3A01G362000 chr2B 87.475 503 58 5 1 502 457332883 457332385 3.110000e-160 575.0
17 TraesCS3A01G362000 chr2B 90.282 319 27 4 2041 2357 742766888 742766572 7.170000e-112 414.0
18 TraesCS3A01G362000 chr2B 94.545 55 3 0 2403 2457 742766560 742766506 6.390000e-13 86.1
19 TraesCS3A01G362000 chr2A 86.890 328 29 5 2041 2357 393709077 393708753 4.410000e-94 355.0
20 TraesCS3A01G362000 chr2A 94.286 70 4 0 1856 1925 4383005 4383074 1.360000e-19 108.0
21 TraesCS3A01G362000 chr2A 95.000 60 3 0 2398 2457 393708754 393708695 1.060000e-15 95.3
22 TraesCS3A01G362000 chr7D 94.286 70 4 0 1856 1925 602679703 602679634 1.360000e-19 108.0
23 TraesCS3A01G362000 chr5B 93.939 66 2 2 1862 1925 10522759 10522694 8.200000e-17 99.0
24 TraesCS3A01G362000 chr6D 90.909 66 6 0 2392 2457 124650283 124650348 4.940000e-14 89.8


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 TraesCS3A01G362000 chr3A 610040133 610043722 3589 False 6630 6630 100.000 1 3590 1 chr3A.!!$F1 3589
1 TraesCS3A01G362000 chr3B 621534161 621537277 3116 False 4098 4098 90.823 524 3590 1 chr3B.!!$F1 3066
2 TraesCS3A01G362000 chr3D 467473067 467476153 3086 False 4074 4074 90.757 508 3590 1 chr3D.!!$F1 3082
3 TraesCS3A01G362000 chr5D 530155259 530155764 505 True 765 765 94.083 1 502 1 chr5D.!!$R1 501
4 TraesCS3A01G362000 chr4D 477757180 477757686 506 True 747 747 93.307 1 505 1 chr4D.!!$R1 504
5 TraesCS3A01G362000 chr5A 89705202 89705706 504 False 717 717 92.277 1 505 1 chr5A.!!$F1 504
6 TraesCS3A01G362000 chr7B 498564479 498564980 501 True 632 632 89.328 1 506 1 chr7B.!!$R1 505

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
830 843 0.17899 GACCACTGGACCTTGGCTTT 60.179 55.0 11.56 0.0 36.2 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2592 2628 0.304705 CCGTGCCGCTGATTCATTAC 59.695 55.0 0.0 0.0 0.0 1.89 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
22 23 1.377202 GGGGCATCGTCTTGAAGCA 60.377 57.895 0.00 0.00 43.02 3.91
41 42 1.895798 CAGACTGCAACTAGGAGACCA 59.104 52.381 0.00 0.00 38.04 4.02
106 110 3.194116 GTCTGTTTGGCAATGATGATGGT 59.806 43.478 0.00 0.00 0.00 3.55
120 124 3.998913 TGATGGTGCCAAGATGAGTTA 57.001 42.857 0.00 0.00 0.00 2.24
129 133 1.134367 CAAGATGAGTTAGGGTCGCGA 59.866 52.381 3.71 3.71 0.00 5.87
173 177 2.183300 GGCGTGTCCGATGTGCTA 59.817 61.111 0.00 0.00 35.63 3.49
195 199 0.248866 CCGTGGTTGCTTGGTTGTTC 60.249 55.000 0.00 0.00 0.00 3.18
234 238 2.795329 GGATTGTGTCCAAGTGGTGAT 58.205 47.619 0.00 0.00 46.96 3.06
240 244 3.009363 TGTGTCCAAGTGGTGATGATGAT 59.991 43.478 0.00 0.00 36.34 2.45
311 315 5.679638 GCATATTTCCCTCGCAAAGATTGTT 60.680 40.000 0.00 0.00 0.00 2.83
324 328 5.514914 GCAAAGATTGTTGTCAAAGTCGAAA 59.485 36.000 0.00 0.00 37.11 3.46
426 434 1.689984 TCGGTTTTAGCCCGGTTTTT 58.310 45.000 0.00 0.00 45.51 1.94
428 436 1.337387 CGGTTTTAGCCCGGTTTTTCA 59.663 47.619 0.00 0.00 41.78 2.69
498 506 6.507929 GCAAGTCTTTTGCCTCGTTTAAAAAG 60.508 38.462 0.54 0.00 39.74 2.27
506 514 7.631915 TTGCCTCGTTTAAAAAGAAATAAGC 57.368 32.000 0.00 0.00 0.00 3.09
527 535 0.460284 ATTCACCGCGTGGAGTCATC 60.460 55.000 24.59 0.00 39.21 2.92
539 547 1.405121 GGAGTCATCCACGGGTACAAC 60.405 57.143 0.00 0.00 45.87 3.32
672 682 3.030291 TGCTTGAACAACTCCCACAAAT 58.970 40.909 0.00 0.00 0.00 2.32
692 702 8.542132 CACAAATTTTCAAAGAATCAATCGTGT 58.458 29.630 0.00 0.00 0.00 4.49
693 703 8.542132 ACAAATTTTCAAAGAATCAATCGTGTG 58.458 29.630 0.00 0.00 0.00 3.82
734 744 3.592059 TCTGACAAACTTATACACCGGC 58.408 45.455 0.00 0.00 0.00 6.13
781 791 4.147449 TCTCATGCCGGCCTCACG 62.147 66.667 26.77 8.81 0.00 4.35
830 843 0.178990 GACCACTGGACCTTGGCTTT 60.179 55.000 11.56 0.00 36.20 3.51
856 869 7.524717 TTCTCCCTCCAAATTTTCAAACTAG 57.475 36.000 0.00 0.00 0.00 2.57
861 874 7.782644 TCCCTCCAAATTTTCAAACTAGAGAAA 59.217 33.333 0.00 1.24 32.34 2.52
866 879 8.958043 CCAAATTTTCAAACTAGAGAAAGAACG 58.042 33.333 0.00 0.00 35.41 3.95
872 885 9.760077 TTTCAAACTAGAGAAAGAACGATTACT 57.240 29.630 0.00 0.00 30.80 2.24
873 886 8.744008 TCAAACTAGAGAAAGAACGATTACTG 57.256 34.615 0.00 0.00 0.00 2.74
939 966 1.788229 ACACCAACCCCTCCAAAAAG 58.212 50.000 0.00 0.00 0.00 2.27
991 1018 5.500645 AACGAACCAAAGAAGGAAGAAAG 57.499 39.130 0.00 0.00 0.00 2.62
993 1020 4.134563 CGAACCAAAGAAGGAAGAAAGGA 58.865 43.478 0.00 0.00 0.00 3.36
1027 1054 4.379174 GACAAGGTGTGTCGCCAT 57.621 55.556 2.23 0.00 46.99 4.40
1028 1055 1.868997 GACAAGGTGTGTCGCCATG 59.131 57.895 2.23 2.94 46.99 3.66
2359 2395 1.218316 GGAGTTGAGGTAGGCCACG 59.782 63.158 5.01 0.00 37.19 4.94
2556 2592 1.804326 CAACCATCGGTCGGTCGAC 60.804 63.158 14.33 14.33 42.21 4.20
2564 2600 2.768492 GGTCGGTCGACGGTATGCT 61.768 63.158 20.84 0.00 45.41 3.79
2566 2602 2.025727 CGGTCGACGGTATGCTCC 59.974 66.667 14.48 0.00 39.42 4.70
2571 2607 1.883084 CGACGGTATGCTCCTTGCC 60.883 63.158 0.00 0.00 42.00 4.52
2592 2628 0.824182 CGCTCCCTCCCACCTAGTAG 60.824 65.000 0.00 0.00 0.00 2.57
2593 2629 0.262285 GCTCCCTCCCACCTAGTAGT 59.738 60.000 0.00 0.00 0.00 2.73
2594 2630 1.498145 GCTCCCTCCCACCTAGTAGTA 59.502 57.143 0.00 0.00 0.00 1.82
2603 2639 6.015010 CCTCCCACCTAGTAGTAATGAATCAG 60.015 46.154 0.00 0.00 0.00 2.90
2605 2641 5.223382 CCACCTAGTAGTAATGAATCAGCG 58.777 45.833 0.00 0.00 0.00 5.18
2653 2702 1.880340 CGTGGAGCTGGATCGCTTC 60.880 63.158 0.00 0.00 41.08 3.86
2660 2709 1.712081 CTGGATCGCTTCGCTGTTG 59.288 57.895 0.00 0.00 0.00 3.33
2668 2717 2.726691 CTTCGCTGTTGTACGGGCG 61.727 63.158 12.84 12.84 41.62 6.13
2803 2853 1.615262 GGCTAGGCTGGGATGGTTT 59.385 57.895 9.46 0.00 0.00 3.27
2831 2881 1.071239 CGTCACAGCTCACGAACTTTG 60.071 52.381 3.75 0.00 38.32 2.77
2840 2890 6.534079 ACAGCTCACGAACTTTGTTATATACC 59.466 38.462 0.00 0.00 0.00 2.73
2843 2893 4.500117 TCACGAACTTTGTTATATACCGCG 59.500 41.667 0.00 0.00 0.00 6.46
3176 3294 2.697654 TGGGTAAACCATTAACGGACG 58.302 47.619 0.00 0.00 46.80 4.79
3177 3295 2.009051 GGGTAAACCATTAACGGACGG 58.991 52.381 0.00 0.00 39.85 4.79
3181 3299 2.088950 AACCATTAACGGACGGACTG 57.911 50.000 0.00 0.00 0.00 3.51
3193 3311 1.109920 ACGGACTGGATCGGGATCTG 61.110 60.000 8.45 5.05 37.92 2.90
3204 3323 1.303561 GGGATCTGCTGGTTGTGCA 60.304 57.895 0.00 0.00 38.81 4.57
3210 3329 1.227943 TGCTGGTTGTGCAGGTCTC 60.228 57.895 0.00 0.00 35.31 3.36
3221 3340 3.441290 AGGTCTCGTTCCTCGCCG 61.441 66.667 0.00 0.00 39.67 6.46
3241 3360 5.528320 CGCCGAGGAAATTATTAAGGGTAAA 59.472 40.000 0.00 0.00 0.00 2.01
3243 3362 7.255346 CGCCGAGGAAATTATTAAGGGTAAAAT 60.255 37.037 0.00 0.00 0.00 1.82
3324 3443 6.264744 TCCAAGTAGGATCGTTTCTAGTATGG 59.735 42.308 0.00 9.44 43.07 2.74
3327 3446 4.592485 AGGATCGTTTCTAGTATGGCAG 57.408 45.455 0.00 0.00 0.00 4.85
3328 3447 3.961408 AGGATCGTTTCTAGTATGGCAGT 59.039 43.478 0.00 0.00 0.00 4.40
3329 3448 5.138276 AGGATCGTTTCTAGTATGGCAGTA 58.862 41.667 0.00 0.00 0.00 2.74
3330 3449 5.775701 AGGATCGTTTCTAGTATGGCAGTAT 59.224 40.000 0.00 0.00 0.00 2.12
3331 3450 5.864474 GGATCGTTTCTAGTATGGCAGTATG 59.136 44.000 0.00 0.00 40.87 2.39
3353 3476 0.912486 ATCTTGGAGTTCCCTTCCGG 59.088 55.000 0.00 0.00 37.54 5.14
3367 3490 4.347000 TCCCTTCCGGTATAAGAAATCTGG 59.653 45.833 0.00 0.00 0.00 3.86
3370 3493 5.758784 CCTTCCGGTATAAGAAATCTGGTTC 59.241 44.000 0.00 0.00 0.00 3.62
3486 3620 3.290710 GACAAGCCCATATCCAACATGT 58.709 45.455 0.00 0.00 0.00 3.21
3515 3652 0.530650 ATGACTAACATGGCTCGCGG 60.531 55.000 6.13 0.00 37.87 6.46
3516 3653 2.511600 ACTAACATGGCTCGCGGC 60.512 61.111 6.13 8.86 40.90 6.53
3517 3654 2.202932 CTAACATGGCTCGCGGCT 60.203 61.111 17.07 2.36 41.46 5.52
3518 3655 2.202878 TAACATGGCTCGCGGCTC 60.203 61.111 17.07 9.41 41.46 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 2.310779 TGGTCTCCTAGTTGCAGTCT 57.689 50.000 0.00 0.00 0.00 3.24
41 42 0.398381 ACCAGCCACCAACAACCATT 60.398 50.000 0.00 0.00 0.00 3.16
106 110 1.207089 CGACCCTAACTCATCTTGGCA 59.793 52.381 0.00 0.00 0.00 4.92
129 133 1.749638 CGACTACCAGAGCCCGAGT 60.750 63.158 0.00 0.00 0.00 4.18
173 177 0.673437 CAACCAAGCAACCACGGAAT 59.327 50.000 0.00 0.00 0.00 3.01
195 199 0.803768 CACCGCAGATTCGACTCCAG 60.804 60.000 0.00 0.00 0.00 3.86
234 238 1.363807 CGCCGAGTGCCTATCATCA 59.636 57.895 0.00 0.00 36.24 3.07
370 374 2.439553 AATGGACACCACCGGCCAAT 62.440 55.000 0.00 0.00 35.80 3.16
426 434 6.418057 AAGAATTGCCAGGTTAATTTGTGA 57.582 33.333 5.58 0.00 0.00 3.58
428 436 7.451566 AGAGTAAGAATTGCCAGGTTAATTTGT 59.548 33.333 5.58 1.47 0.00 2.83
498 506 1.400494 ACGCGGTGAATGGCTTATTTC 59.600 47.619 12.47 0.00 0.00 2.17
505 513 3.499737 CTCCACGCGGTGAATGGC 61.500 66.667 12.47 0.00 35.23 4.40
506 514 2.047274 ACTCCACGCGGTGAATGG 60.047 61.111 12.47 8.97 35.23 3.16
527 535 1.223187 GACTTGTGTTGTACCCGTGG 58.777 55.000 0.00 0.00 0.00 4.94
529 537 1.758280 TCTGACTTGTGTTGTACCCGT 59.242 47.619 0.00 0.00 0.00 5.28
536 544 4.631131 TGATACCTGTCTGACTTGTGTTG 58.369 43.478 9.51 0.00 0.00 3.33
539 547 5.121298 CACATTGATACCTGTCTGACTTGTG 59.879 44.000 9.51 5.53 0.00 3.33
606 615 1.622312 ACGGTTCTCCTGTCCTTTACC 59.378 52.381 0.00 0.00 0.00 2.85
644 653 1.654137 GTTGTTCAAGCACGCACGG 60.654 57.895 0.00 0.00 0.00 4.94
672 682 9.393249 GAATACACACGATTGATTCTTTGAAAA 57.607 29.630 0.00 0.00 0.00 2.29
692 702 8.865978 GTCAGATTTGTACGTACAATGAATACA 58.134 33.333 34.66 21.67 44.72 2.29
693 703 8.865978 TGTCAGATTTGTACGTACAATGAATAC 58.134 33.333 34.66 27.86 44.72 1.89
715 725 2.702261 GGCCGGTGTATAAGTTTGTCA 58.298 47.619 1.90 0.00 0.00 3.58
781 791 0.889994 TCACTGTCAATGGCAATGGC 59.110 50.000 0.00 0.00 40.13 4.40
782 792 2.559668 ACTTCACTGTCAATGGCAATGG 59.440 45.455 2.15 0.00 0.00 3.16
783 793 3.571571 CACTTCACTGTCAATGGCAATG 58.428 45.455 0.00 0.00 0.00 2.82
784 794 2.559668 CCACTTCACTGTCAATGGCAAT 59.440 45.455 0.00 0.00 0.00 3.56
785 795 1.955778 CCACTTCACTGTCAATGGCAA 59.044 47.619 0.00 0.00 0.00 4.52
786 796 1.608055 CCACTTCACTGTCAATGGCA 58.392 50.000 0.00 0.00 0.00 4.92
830 843 7.194112 AGTTTGAAAATTTGGAGGGAGAAAA 57.806 32.000 0.00 0.00 0.00 2.29
856 869 3.929610 AGCAGCAGTAATCGTTCTTTCTC 59.070 43.478 0.00 0.00 0.00 2.87
861 874 1.066573 AGCAGCAGCAGTAATCGTTCT 60.067 47.619 3.17 0.00 45.49 3.01
864 877 1.204704 TGTAGCAGCAGCAGTAATCGT 59.795 47.619 3.17 0.00 45.49 3.73
865 878 1.857217 CTGTAGCAGCAGCAGTAATCG 59.143 52.381 3.17 0.00 45.49 3.34
866 879 2.863137 GACTGTAGCAGCAGCAGTAATC 59.137 50.000 18.18 6.40 42.71 1.75
868 881 1.066858 GGACTGTAGCAGCAGCAGTAA 60.067 52.381 18.18 0.00 42.71 2.24
869 882 0.532573 GGACTGTAGCAGCAGCAGTA 59.467 55.000 18.18 0.00 42.71 2.74
870 883 1.294780 GGACTGTAGCAGCAGCAGT 59.705 57.895 18.20 18.20 44.97 4.40
871 884 1.018226 GTGGACTGTAGCAGCAGCAG 61.018 60.000 3.17 12.89 45.49 4.24
872 885 1.004560 GTGGACTGTAGCAGCAGCA 60.005 57.895 3.17 0.00 45.49 4.41
873 886 0.532573 TAGTGGACTGTAGCAGCAGC 59.467 55.000 7.35 0.00 39.96 5.25
939 966 7.704789 AAGCAATTGATTTGAAGAGTTGAAC 57.295 32.000 10.34 0.00 37.53 3.18
991 1018 3.070878 TGTCCAAAGCCCATTCTTTTTCC 59.929 43.478 0.00 0.00 34.31 3.13
993 1020 4.444733 CCTTGTCCAAAGCCCATTCTTTTT 60.445 41.667 0.00 0.00 34.31 1.94
1471 1507 2.590645 CTGCTGCAGATGGAGGCT 59.409 61.111 24.88 0.00 32.44 4.58
1879 1915 2.036098 TACGAGAAGGCCGTGGGA 59.964 61.111 0.00 0.00 40.76 4.37
2564 2600 3.077556 GAGGGAGCGAGGCAAGGA 61.078 66.667 0.00 0.00 0.00 3.36
2566 2602 4.168291 GGGAGGGAGCGAGGCAAG 62.168 72.222 0.00 0.00 0.00 4.01
2571 2607 1.830408 CTAGGTGGGAGGGAGCGAG 60.830 68.421 0.00 0.00 0.00 5.03
2592 2628 0.304705 CCGTGCCGCTGATTCATTAC 59.695 55.000 0.00 0.00 0.00 1.89
2593 2629 1.436195 GCCGTGCCGCTGATTCATTA 61.436 55.000 0.00 0.00 0.00 1.90
2594 2630 2.764314 GCCGTGCCGCTGATTCATT 61.764 57.895 0.00 0.00 0.00 2.57
2611 2647 0.458025 CGAGAAAGGTACCGACAGGC 60.458 60.000 6.18 0.00 42.76 4.85
2660 2709 1.702491 GCTTGATTGTCCGCCCGTAC 61.702 60.000 0.00 0.00 0.00 3.67
2668 2717 0.734889 CGTCCATGGCTTGATTGTCC 59.265 55.000 6.96 0.00 0.00 4.02
2731 2780 2.510238 CTGCTGCTGCTACGGGAC 60.510 66.667 17.00 0.00 40.48 4.46
2740 2789 4.406173 GCACTGCTGCTGCTGCTG 62.406 66.667 27.75 27.75 40.63 4.41
2743 2792 3.738246 CTGGCACTGCTGCTGCTG 61.738 66.667 18.66 18.66 43.66 4.41
2778 2828 3.547513 CCAGCCTAGCCCGTACCC 61.548 72.222 0.00 0.00 0.00 3.69
2818 2868 5.555818 GCGGTATATAACAAAGTTCGTGAGC 60.556 44.000 0.00 0.00 0.00 4.26
2831 2881 2.096442 GCGGCCCGCGGTATATAAC 61.096 63.158 26.12 2.47 44.55 1.89
2861 2911 1.369839 GCCTGGCTTAACTTCCGAGC 61.370 60.000 12.43 0.00 35.71 5.03
2892 2969 0.179009 CATCGCCATCCCCACATCTT 60.179 55.000 0.00 0.00 0.00 2.40
3005 3087 3.583086 GCGCCTACCATTTCGCCC 61.583 66.667 0.00 0.00 41.53 6.13
3130 3248 3.522731 CTCGGACCGAGCCAGAGG 61.523 72.222 29.77 6.81 46.75 3.69
3174 3292 1.109920 CAGATCCCGATCCAGTCCGT 61.110 60.000 1.00 0.00 38.58 4.69
3175 3293 1.662608 CAGATCCCGATCCAGTCCG 59.337 63.158 1.00 0.00 38.58 4.79
3176 3294 1.118356 AGCAGATCCCGATCCAGTCC 61.118 60.000 1.00 0.00 38.58 3.85
3177 3295 0.033228 CAGCAGATCCCGATCCAGTC 59.967 60.000 1.00 0.00 38.58 3.51
3181 3299 0.533755 CAACCAGCAGATCCCGATCC 60.534 60.000 1.00 0.00 38.58 3.36
3193 3311 2.320587 CGAGACCTGCACAACCAGC 61.321 63.158 0.00 0.00 0.00 4.85
3204 3323 3.441290 CGGCGAGGAACGAGACCT 61.441 66.667 0.00 0.00 45.77 3.85
3241 3360 1.416401 CGGGCGCCCCAGATATATATT 59.584 52.381 39.24 0.00 45.83 1.28
3243 3362 1.046472 CCGGGCGCCCCAGATATATA 61.046 60.000 39.24 0.00 45.83 0.86
3256 3375 0.751643 AAAGGATCAATTCCCGGGCG 60.752 55.000 18.49 3.88 46.81 6.13
3272 3391 3.062234 GTCTCGGTAATTTCGCAGGAAAG 59.938 47.826 0.00 0.00 44.81 2.62
3320 3439 4.655649 ACTCCAAGATGTCATACTGCCATA 59.344 41.667 0.00 0.00 0.00 2.74
3324 3443 3.873952 GGAACTCCAAGATGTCATACTGC 59.126 47.826 0.00 0.00 35.64 4.40
3327 3446 4.762289 AGGGAACTCCAAGATGTCATAC 57.238 45.455 0.00 0.00 32.90 2.39
3328 3447 4.164221 GGAAGGGAACTCCAAGATGTCATA 59.836 45.833 0.00 0.00 42.68 2.15
3329 3448 3.054065 GGAAGGGAACTCCAAGATGTCAT 60.054 47.826 0.00 0.00 42.68 3.06
3330 3449 2.305927 GGAAGGGAACTCCAAGATGTCA 59.694 50.000 0.00 0.00 42.68 3.58
3331 3450 2.678190 CGGAAGGGAACTCCAAGATGTC 60.678 54.545 0.00 0.00 42.68 3.06
3333 3452 2.029838 CGGAAGGGAACTCCAAGATG 57.970 55.000 0.00 0.00 42.68 2.90
3353 3476 5.116882 ACGGCTGAACCAGATTTCTTATAC 58.883 41.667 0.00 0.00 39.03 1.47
3401 3528 4.024893 ACGAGAACATGATCAACACAACAC 60.025 41.667 0.00 0.00 0.00 3.32
3402 3529 4.126437 ACGAGAACATGATCAACACAACA 58.874 39.130 0.00 0.00 0.00 3.33
3403 3530 4.664139 CGACGAGAACATGATCAACACAAC 60.664 45.833 0.00 0.00 0.00 3.32
3404 3531 3.428534 CGACGAGAACATGATCAACACAA 59.571 43.478 0.00 0.00 0.00 3.33
3405 3532 2.986479 CGACGAGAACATGATCAACACA 59.014 45.455 0.00 0.00 0.00 3.72
3521 3658 3.446570 GCTCACCCAGCCATGTGC 61.447 66.667 0.00 0.00 43.17 4.57
3540 3677 1.419922 CTGCACATACGCAACCGAC 59.580 57.895 0.00 0.00 42.45 4.79


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

AutoCloner maintained by Alex Coulton.