Multiple sequence alignment - TraesCS5A01G126800

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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 TraesCS5A01G126800 chr5A 100.000 2954 0 0 1 2954 280239982 280237029 0.000000e+00 5456
1 TraesCS5A01G126800 chr5B 94.448 1765 54 14 580 2328 229136337 229134601 0.000000e+00 2676
2 TraesCS5A01G126800 chr5B 93.305 463 29 2 2 463 229143739 229143278 0.000000e+00 682
3 TraesCS5A01G126800 chr5B 90.264 493 42 4 2342 2830 229134489 229133999 8.930000e-180 640
4 TraesCS5A01G126800 chr5D 95.077 1422 41 12 658 2068 214361287 214359884 0.000000e+00 2211
5 TraesCS5A01G126800 chr5D 88.962 915 76 10 2050 2954 214323447 214322548 0.000000e+00 1107
6 TraesCS5A01G126800 chr5D 92.793 444 28 2 11 450 214361913 214361470 8.930000e-180 640
7 TraesCS5A01G126800 chr4D 76.996 952 174 30 1039 1954 95876627 95877569 1.220000e-138 503
8 TraesCS5A01G126800 chr4A 76.981 934 164 31 1062 1954 483383434 483382511 1.230000e-133 486


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 TraesCS5A01G126800 chr5A 280237029 280239982 2953 True 5456.0 5456 100.000 1 2954 1 chr5A.!!$R1 2953
1 TraesCS5A01G126800 chr5B 229133999 229136337 2338 True 1658.0 2676 92.356 580 2830 2 chr5B.!!$R2 2250
2 TraesCS5A01G126800 chr5D 214359884 214361913 2029 True 1425.5 2211 93.935 11 2068 2 chr5D.!!$R2 2057
3 TraesCS5A01G126800 chr5D 214322548 214323447 899 True 1107.0 1107 88.962 2050 2954 1 chr5D.!!$R1 904
4 TraesCS5A01G126800 chr4D 95876627 95877569 942 False 503.0 503 76.996 1039 1954 1 chr4D.!!$F1 915
5 TraesCS5A01G126800 chr4A 483382511 483383434 923 True 486.0 486 76.981 1062 1954 1 chr4A.!!$R1 892

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
38 39 0.251653 GTTGGAGGTCCTTTTCCCCC 60.252 60.0 0.0 0.0 36.82 5.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2034 2142 1.237285 CGTTTGCCACCTCTTCCCAG 61.237 60.0 0.0 0.0 0.0 4.45 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 2.640316 ACAGAAGTTGTTGGAGGTCC 57.360 50.000 0.00 0.00 36.31 4.46
34 35 4.036852 CAGAAGTTGTTGGAGGTCCTTTTC 59.963 45.833 0.00 0.00 36.82 2.29
38 39 0.251653 GTTGGAGGTCCTTTTCCCCC 60.252 60.000 0.00 0.00 36.82 5.40
47 48 3.236047 GTCCTTTTCCCCCTGCTTTTTA 58.764 45.455 0.00 0.00 0.00 1.52
53 54 6.239743 CCTTTTCCCCCTGCTTTTTATAAACA 60.240 38.462 0.00 0.00 0.00 2.83
55 56 5.005628 TCCCCCTGCTTTTTATAAACAGT 57.994 39.130 11.90 0.00 0.00 3.55
57 58 6.737608 TCCCCCTGCTTTTTATAAACAGTAT 58.262 36.000 11.90 0.00 0.00 2.12
74 75 8.637281 AAACAGTATTTTGTTTTTCGGGTTAG 57.363 30.769 0.00 0.00 46.18 2.34
89 93 3.070590 CGGGTTAGGGTAACTATTGGAGG 59.929 52.174 0.00 0.00 38.68 4.30
110 114 1.338105 TGCTCTGTCTTTGTCATCGGG 60.338 52.381 0.00 0.00 0.00 5.14
141 145 1.148310 CTGCAGGTACAAAGACACCG 58.852 55.000 5.57 0.00 39.94 4.94
162 166 1.544246 GCGGTTAGCTCCCACAAAATT 59.456 47.619 0.00 0.00 44.04 1.82
216 220 6.199531 CCACACATGTCAAACATTCTCAAAAG 59.800 38.462 0.00 0.00 36.53 2.27
217 221 6.753279 CACACATGTCAAACATTCTCAAAAGT 59.247 34.615 0.00 0.00 36.53 2.66
220 224 8.908678 CACATGTCAAACATTCTCAAAAGTATG 58.091 33.333 0.00 0.00 36.53 2.39
226 230 4.922206 ACATTCTCAAAAGTATGGCCTCA 58.078 39.130 3.32 0.00 35.29 3.86
280 284 2.187946 CAGGGAGACACGCCCATC 59.812 66.667 12.56 0.00 46.18 3.51
300 304 5.447010 CCATCTTTGAAGAAATCAGAGCGTC 60.447 44.000 0.00 0.00 39.52 5.19
465 502 3.326747 AGCACGAGAACAAATCAGTACC 58.673 45.455 0.00 0.00 0.00 3.34
466 503 3.064207 GCACGAGAACAAATCAGTACCA 58.936 45.455 0.00 0.00 0.00 3.25
467 504 3.496884 GCACGAGAACAAATCAGTACCAA 59.503 43.478 0.00 0.00 0.00 3.67
468 505 4.377431 GCACGAGAACAAATCAGTACCAAG 60.377 45.833 0.00 0.00 0.00 3.61
469 506 4.750098 CACGAGAACAAATCAGTACCAAGT 59.250 41.667 0.00 0.00 0.00 3.16
470 507 5.924254 CACGAGAACAAATCAGTACCAAGTA 59.076 40.000 0.00 0.00 0.00 2.24
471 508 5.924825 ACGAGAACAAATCAGTACCAAGTAC 59.075 40.000 0.00 0.00 39.10 2.73
475 512 7.088905 AGAACAAATCAGTACCAAGTACGTAG 58.911 38.462 0.00 0.00 43.05 3.51
486 523 6.527057 ACCAAGTACGTAGAAGAAAGCTAT 57.473 37.500 0.00 0.00 0.00 2.97
495 532 4.495690 AGAAGAAAGCTATCCTCCAACC 57.504 45.455 0.00 0.00 0.00 3.77
496 533 4.107820 AGAAGAAAGCTATCCTCCAACCT 58.892 43.478 0.00 0.00 0.00 3.50
498 535 5.726793 AGAAGAAAGCTATCCTCCAACCTAA 59.273 40.000 0.00 0.00 0.00 2.69
499 536 6.388394 AGAAGAAAGCTATCCTCCAACCTAAT 59.612 38.462 0.00 0.00 0.00 1.73
500 537 7.569111 AGAAGAAAGCTATCCTCCAACCTAATA 59.431 37.037 0.00 0.00 0.00 0.98
501 538 7.068686 AGAAAGCTATCCTCCAACCTAATAC 57.931 40.000 0.00 0.00 0.00 1.89
502 539 5.827326 AAGCTATCCTCCAACCTAATACC 57.173 43.478 0.00 0.00 0.00 2.73
503 540 3.833070 AGCTATCCTCCAACCTAATACCG 59.167 47.826 0.00 0.00 0.00 4.02
521 572 2.824041 CCCCGGTCAAAGCATCCG 60.824 66.667 0.00 0.00 43.30 4.18
573 625 3.138304 GTCAGTGAAATGTAGGTGCACA 58.862 45.455 20.43 0.00 32.16 4.57
574 626 3.058914 GTCAGTGAAATGTAGGTGCACAC 60.059 47.826 20.43 9.90 32.16 3.82
575 627 2.877786 CAGTGAAATGTAGGTGCACACA 59.122 45.455 20.43 15.77 32.16 3.72
576 628 2.878406 AGTGAAATGTAGGTGCACACAC 59.122 45.455 20.43 15.55 46.66 3.82
621 673 2.368856 CGAAATCGTCGCCACATGA 58.631 52.632 0.00 0.00 44.14 3.07
631 683 0.957395 CGCCACATGAAGCTTCCAGT 60.957 55.000 23.42 17.90 0.00 4.00
826 881 4.476862 CATCGTACACGGGATCTTATCTG 58.523 47.826 0.00 0.00 40.29 2.90
827 882 3.812262 TCGTACACGGGATCTTATCTGA 58.188 45.455 0.00 0.00 40.29 3.27
828 883 4.201657 TCGTACACGGGATCTTATCTGAA 58.798 43.478 0.00 0.00 40.29 3.02
829 884 4.275196 TCGTACACGGGATCTTATCTGAAG 59.725 45.833 0.00 0.00 40.29 3.02
830 885 4.275196 CGTACACGGGATCTTATCTGAAGA 59.725 45.833 0.00 0.00 35.37 2.87
898 953 3.521524 AGATTTTGAGAAACGTCACGC 57.478 42.857 0.00 0.00 0.00 5.34
947 1009 2.655952 AAAAGTTGCACCGCGGTTCG 62.656 55.000 32.11 20.52 38.08 3.95
997 1059 1.065764 CGATCGATCAACCCTGCGA 59.934 57.895 24.40 0.00 37.17 5.10
1094 1156 3.138798 CATCGACGACCTCCCCGT 61.139 66.667 0.00 0.00 43.56 5.28
1624 1716 4.228567 TGGCGCGGTTCACTGTGA 62.229 61.111 8.83 6.36 34.80 3.58
1860 1958 2.687805 GCGGGAAAGGAAGGAACGC 61.688 63.158 0.00 0.00 38.70 4.84
2034 2142 0.566593 GTTATCTCGCTGACGTTCGC 59.433 55.000 0.00 0.00 41.18 4.70
2055 2163 0.955919 GGGAAGAGGTGGCAAACGAG 60.956 60.000 0.00 0.00 0.00 4.18
2070 2178 1.021390 ACGAGCAGCCCGAAATTGAG 61.021 55.000 2.12 0.00 0.00 3.02
2085 2195 1.593196 TTGAGGGACTTGCTCAAACG 58.407 50.000 0.00 0.00 41.55 3.60
2108 2218 4.142093 GCACAGCATCTACAAATGGGAATT 60.142 41.667 0.00 0.00 0.00 2.17
2127 2237 5.642063 GGAATTGACGAATCTGAACCTGTAA 59.358 40.000 0.00 0.00 0.00 2.41
2172 2282 3.432252 CGACAACTGTGAAGATAACACCC 59.568 47.826 0.00 0.00 37.45 4.61
2290 2409 2.640184 CATGAAGAGGAGCAGCAATGA 58.360 47.619 0.00 0.00 0.00 2.57
2292 2411 4.386711 CATGAAGAGGAGCAGCAATGATA 58.613 43.478 0.00 0.00 0.00 2.15
2317 2436 4.634012 AGAATAGGTGTGGTTAGCAACA 57.366 40.909 0.00 0.00 0.00 3.33
2333 2452 3.873361 AGCAACATGTAGATGACCGAATG 59.127 43.478 6.90 0.00 33.36 2.67
2340 2557 7.952671 ACATGTAGATGACCGAATGTTACTAT 58.047 34.615 6.90 0.00 33.36 2.12
2422 2640 1.600957 CGGTTGATCTGCTATTGGCTG 59.399 52.381 0.00 0.00 42.39 4.85
2430 2648 2.767960 TCTGCTATTGGCTGACTGATGA 59.232 45.455 0.00 0.00 42.53 2.92
2471 2690 0.895530 TTGTCCGACTGTGGATCCTC 59.104 55.000 14.23 10.39 40.91 3.71
2477 2696 1.859302 GACTGTGGATCCTCTCTGGT 58.141 55.000 14.23 7.52 37.07 4.00
2479 2698 3.366396 GACTGTGGATCCTCTCTGGTTA 58.634 50.000 14.23 0.00 37.07 2.85
2544 2763 6.435277 ACGACCCTTCTTTATCACTACTAACA 59.565 38.462 0.00 0.00 0.00 2.41
2557 2776 5.240183 TCACTACTAACAAGACTGTAGCGTT 59.760 40.000 0.00 0.00 36.72 4.84
2566 2785 0.107361 ACTGTAGCGTTTATGGGCCC 60.107 55.000 17.59 17.59 0.00 5.80
2567 2786 0.107410 CTGTAGCGTTTATGGGCCCA 60.107 55.000 30.92 30.92 0.00 5.36
2569 2788 0.179468 GTAGCGTTTATGGGCCCAGA 59.821 55.000 31.97 25.26 0.00 3.86
2591 2810 1.490490 CTTTAGCTGGGCCCTATGTCA 59.510 52.381 25.70 0.00 0.00 3.58
2703 2922 1.017387 GGATTCCGACTGGCAATCAC 58.983 55.000 0.00 0.00 34.14 3.06
2705 2924 2.292267 GATTCCGACTGGCAATCACAT 58.708 47.619 0.00 0.00 34.14 3.21
2711 2930 2.159430 CGACTGGCAATCACATTCGAAA 59.841 45.455 0.00 0.00 41.62 3.46
2729 2948 4.451096 TCGAAAAACCACTTGCTCATAGAC 59.549 41.667 0.00 0.00 0.00 2.59
2740 2959 1.804372 GCTCATAGACAGACCCTTGCG 60.804 57.143 0.00 0.00 0.00 4.85
2839 3060 0.178990 AAAGAGGTTGACTGGTGGCC 60.179 55.000 0.00 0.00 0.00 5.36
2843 3064 2.351276 GTTGACTGGTGGCCCGAT 59.649 61.111 0.00 0.00 0.00 4.18
2864 3085 0.577269 GAGGGCGAATCGTGAAATCG 59.423 55.000 4.07 4.62 39.47 3.34
2867 3088 1.003851 GGCGAATCGTGAAATCGGAA 58.996 50.000 4.07 0.00 37.08 4.30
2896 3117 2.024414 AGGATGCTTGGGTTTATTCGC 58.976 47.619 0.00 0.00 0.00 4.70
2906 3127 1.944709 GGTTTATTCGCGCTAATGGGT 59.055 47.619 16.68 0.00 0.00 4.51
2907 3128 2.286772 GGTTTATTCGCGCTAATGGGTG 60.287 50.000 16.68 0.00 37.88 4.61
2922 3143 5.387113 AATGGGTGCCAGTCATTATCTTA 57.613 39.130 0.00 0.00 36.75 2.10
2937 3158 8.313292 GTCATTATCTTAGAGGAGCATCATTCT 58.687 37.037 0.00 0.00 36.25 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.275936 CCTCCAACAACTTCTGTAAACCAG 59.724 45.833 0.00 0.00 42.97 4.00
4 5 4.204012 CCTCCAACAACTTCTGTAAACCA 58.796 43.478 0.00 0.00 37.23 3.67
5 6 4.204799 ACCTCCAACAACTTCTGTAAACC 58.795 43.478 0.00 0.00 37.23 3.27
6 7 4.275196 GGACCTCCAACAACTTCTGTAAAC 59.725 45.833 0.00 0.00 37.23 2.01
7 8 4.165372 AGGACCTCCAACAACTTCTGTAAA 59.835 41.667 0.00 0.00 37.23 2.01
8 9 3.714798 AGGACCTCCAACAACTTCTGTAA 59.285 43.478 0.00 0.00 37.23 2.41
9 10 3.314693 AGGACCTCCAACAACTTCTGTA 58.685 45.455 0.00 0.00 37.23 2.74
29 30 6.764379 TGTTTATAAAAAGCAGGGGGAAAAG 58.236 36.000 0.00 0.00 0.00 2.27
34 35 7.418337 AATACTGTTTATAAAAAGCAGGGGG 57.582 36.000 14.29 0.00 32.57 5.40
53 54 5.834742 ACCCTAACCCGAAAAACAAAATACT 59.165 36.000 0.00 0.00 0.00 2.12
55 56 7.505248 AGTTACCCTAACCCGAAAAACAAAATA 59.495 33.333 0.00 0.00 39.47 1.40
57 58 5.655974 AGTTACCCTAACCCGAAAAACAAAA 59.344 36.000 0.00 0.00 39.47 2.44
74 75 2.772515 AGAGCACCTCCAATAGTTACCC 59.227 50.000 0.00 0.00 0.00 3.69
89 93 1.728971 CCGATGACAAAGACAGAGCAC 59.271 52.381 0.00 0.00 0.00 4.40
123 127 0.250124 CCGGTGTCTTTGTACCTGCA 60.250 55.000 0.00 0.00 34.77 4.41
141 145 0.891904 TTTTGTGGGAGCTAACCGCC 60.892 55.000 15.61 0.00 40.39 6.13
155 159 7.820044 ACACGTGTGTTATTTCAAATTTTGT 57.180 28.000 22.71 0.00 41.83 2.83
193 197 6.866480 ACTTTTGAGAATGTTTGACATGTGT 58.134 32.000 1.15 0.00 37.97 3.72
216 220 4.275936 GGTATTTGACATGTGAGGCCATAC 59.724 45.833 1.15 3.58 0.00 2.39
217 221 4.080072 TGGTATTTGACATGTGAGGCCATA 60.080 41.667 1.15 0.00 0.00 2.74
220 224 2.684881 CTGGTATTTGACATGTGAGGCC 59.315 50.000 1.15 0.00 0.00 5.19
226 230 3.052455 TGTCGCTGGTATTTGACATGT 57.948 42.857 0.00 0.00 36.50 3.21
280 284 5.290643 CCTAGACGCTCTGATTTCTTCAAAG 59.709 44.000 0.00 0.00 32.78 2.77
300 304 3.243434 CCCACACTAATGCTCGTACCTAG 60.243 52.174 0.00 0.00 0.00 3.02
394 398 0.511653 CGTGTTCAGAGAGACGACGA 59.488 55.000 0.00 0.00 33.64 4.20
432 436 3.291809 TCTCGTGCTCACAAATTCGTA 57.708 42.857 0.69 0.00 0.00 3.43
433 437 2.148916 TCTCGTGCTCACAAATTCGT 57.851 45.000 0.69 0.00 0.00 3.85
434 438 2.220824 TGTTCTCGTGCTCACAAATTCG 59.779 45.455 0.69 0.00 0.00 3.34
438 475 3.625313 TGATTTGTTCTCGTGCTCACAAA 59.375 39.130 10.06 10.06 41.93 2.83
442 479 3.111853 ACTGATTTGTTCTCGTGCTCA 57.888 42.857 0.00 0.00 0.00 4.26
465 502 6.797454 AGGATAGCTTTCTTCTACGTACTTG 58.203 40.000 4.10 0.00 0.00 3.16
466 503 6.039605 GGAGGATAGCTTTCTTCTACGTACTT 59.960 42.308 14.32 0.00 0.00 2.24
467 504 5.532032 GGAGGATAGCTTTCTTCTACGTACT 59.468 44.000 14.32 0.00 0.00 2.73
468 505 5.298777 TGGAGGATAGCTTTCTTCTACGTAC 59.701 44.000 14.32 0.23 0.00 3.67
469 506 5.443283 TGGAGGATAGCTTTCTTCTACGTA 58.557 41.667 14.32 0.00 0.00 3.57
470 507 4.279145 TGGAGGATAGCTTTCTTCTACGT 58.721 43.478 14.32 0.00 0.00 3.57
471 508 4.920640 TGGAGGATAGCTTTCTTCTACG 57.079 45.455 14.32 0.00 0.00 3.51
475 512 4.495690 AGGTTGGAGGATAGCTTTCTTC 57.504 45.455 7.62 7.62 0.00 2.87
486 523 1.125633 GGCGGTATTAGGTTGGAGGA 58.874 55.000 0.00 0.00 0.00 3.71
502 539 3.508840 GATGCTTTGACCGGGGCG 61.509 66.667 6.32 0.00 0.00 6.13
503 540 3.140814 GGATGCTTTGACCGGGGC 61.141 66.667 6.32 0.00 0.00 5.80
573 625 0.028770 CAATGCGTTCGTGTTGGTGT 59.971 50.000 0.00 0.00 0.00 4.16
574 626 0.306228 TCAATGCGTTCGTGTTGGTG 59.694 50.000 0.00 0.00 0.00 4.17
575 627 1.002900 CTTCAATGCGTTCGTGTTGGT 60.003 47.619 0.00 0.00 0.00 3.67
576 628 1.673760 CTTCAATGCGTTCGTGTTGG 58.326 50.000 0.00 0.00 0.00 3.77
577 629 1.044725 GCTTCAATGCGTTCGTGTTG 58.955 50.000 0.00 0.68 0.00 3.33
578 630 3.454941 GCTTCAATGCGTTCGTGTT 57.545 47.368 0.00 0.00 0.00 3.32
631 683 0.179032 TCTCCCAAACGCAAAGCTGA 60.179 50.000 0.00 0.00 0.00 4.26
826 881 3.120041 GCTCCTGACGCTTCTTATCTTC 58.880 50.000 0.00 0.00 0.00 2.87
827 882 2.763448 AGCTCCTGACGCTTCTTATCTT 59.237 45.455 0.00 0.00 32.98 2.40
828 883 2.383855 AGCTCCTGACGCTTCTTATCT 58.616 47.619 0.00 0.00 32.98 1.98
829 884 2.863137 CAAGCTCCTGACGCTTCTTATC 59.137 50.000 0.00 0.00 45.27 1.75
830 885 2.898705 CAAGCTCCTGACGCTTCTTAT 58.101 47.619 0.00 0.00 45.27 1.73
1094 1156 3.770040 CGATGCCCAGGACGTCCA 61.770 66.667 35.00 15.76 38.89 4.02
1580 1672 4.065281 CGGTCACCCACCTCCGTC 62.065 72.222 0.00 0.00 44.21 4.79
1860 1958 4.521062 CGCTCCCGCCTCTCCTTG 62.521 72.222 0.00 0.00 0.00 3.61
1876 1974 1.446792 AGCAGAGGTCAACGATGCG 60.447 57.895 0.00 0.00 39.46 4.73
2034 2142 1.237285 CGTTTGCCACCTCTTCCCAG 61.237 60.000 0.00 0.00 0.00 4.45
2055 2163 1.378514 TCCCTCAATTTCGGGCTGC 60.379 57.895 4.24 0.00 40.41 5.25
2070 2178 3.744559 TGCGTTTGAGCAAGTCCC 58.255 55.556 0.00 0.00 45.06 4.46
2085 2195 2.368439 TCCCATTTGTAGATGCTGTGC 58.632 47.619 0.00 0.00 0.00 4.57
2108 2218 4.523173 AGACTTACAGGTTCAGATTCGTCA 59.477 41.667 0.00 0.00 0.00 4.35
2172 2282 2.656560 AAGTAGCACGCAGGAAGTAG 57.343 50.000 0.00 0.00 0.00 2.57
2290 2409 7.670605 TGCTAACCACACCTATTCTACTTAT 57.329 36.000 0.00 0.00 0.00 1.73
2292 2411 6.171213 GTTGCTAACCACACCTATTCTACTT 58.829 40.000 0.00 0.00 0.00 2.24
2361 2578 4.951715 TCTCCCGCATTAACTACAGACTTA 59.048 41.667 0.00 0.00 0.00 2.24
2422 2640 4.041049 CAGCGAGTATCAAGTCATCAGTC 58.959 47.826 0.00 0.00 33.17 3.51
2430 2648 1.407258 GCTCCTCAGCGAGTATCAAGT 59.593 52.381 0.00 0.00 35.39 3.16
2477 2696 9.830975 TGCTAGCAGTCAGACATAATTATTTAA 57.169 29.630 14.93 0.00 0.00 1.52
2479 2698 7.227512 GGTGCTAGCAGTCAGACATAATTATTT 59.772 37.037 20.03 0.00 0.00 1.40
2544 2763 2.629051 GCCCATAAACGCTACAGTCTT 58.371 47.619 0.00 0.00 0.00 3.01
2557 2776 1.214424 GCTAAAGGTCTGGGCCCATAA 59.786 52.381 28.82 14.68 0.00 1.90
2566 2785 1.077429 GGGCCCAGCTAAAGGTCTG 60.077 63.158 19.95 0.00 0.00 3.51
2567 2786 0.044244 TAGGGCCCAGCTAAAGGTCT 59.956 55.000 27.56 0.00 0.00 3.85
2569 2788 0.846693 CATAGGGCCCAGCTAAAGGT 59.153 55.000 27.56 1.16 0.00 3.50
2591 2810 1.909302 CCTACGGAATAGGCCCATGAT 59.091 52.381 0.00 0.00 44.36 2.45
2665 2884 1.821136 CCTTTTCCATTGAGGGCTCAC 59.179 52.381 0.00 0.00 39.66 3.51
2703 2922 3.963665 TGAGCAAGTGGTTTTTCGAATG 58.036 40.909 0.00 0.00 0.00 2.67
2705 2924 5.049680 GTCTATGAGCAAGTGGTTTTTCGAA 60.050 40.000 0.00 0.00 0.00 3.71
2711 2930 4.319177 GTCTGTCTATGAGCAAGTGGTTT 58.681 43.478 0.00 0.00 0.00 3.27
2740 2959 4.741342 CATCCATTTTTGCTCTTGAGTCC 58.259 43.478 0.00 0.00 0.00 3.85
2830 3051 2.671070 CTCAATCGGGCCACCAGT 59.329 61.111 4.39 0.00 36.13 4.00
2839 3060 3.630204 CGATTCGCCCTCAATCGG 58.370 61.111 7.97 0.00 45.82 4.18
2843 3064 2.006888 GATTTCACGATTCGCCCTCAA 58.993 47.619 5.86 0.00 0.00 3.02
2850 3071 4.715520 ATCATTCCGATTTCACGATTCG 57.284 40.909 4.14 4.14 35.09 3.34
2852 3073 7.041780 CCTCTTTATCATTCCGATTTCACGATT 60.042 37.037 0.00 0.00 35.39 3.34
2856 3077 7.579726 CATCCTCTTTATCATTCCGATTTCAC 58.420 38.462 0.00 0.00 35.39 3.18
2864 3085 4.522022 CCCAAGCATCCTCTTTATCATTCC 59.478 45.833 0.00 0.00 0.00 3.01
2867 3088 4.803329 ACCCAAGCATCCTCTTTATCAT 57.197 40.909 0.00 0.00 0.00 2.45
2896 3117 0.464373 ATGACTGGCACCCATTAGCG 60.464 55.000 0.00 0.00 30.82 4.26
2906 3127 4.039730 GCTCCTCTAAGATAATGACTGGCA 59.960 45.833 0.00 0.00 0.00 4.92
2907 3128 4.039730 TGCTCCTCTAAGATAATGACTGGC 59.960 45.833 0.00 0.00 0.00 4.85
2922 3143 8.585471 TTTCAAAAATAGAATGATGCTCCTCT 57.415 30.769 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.