Multiple sequence alignment - TraesCS6D01G042400

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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 TraesCS6D01G042400 chr6D 100.000 3260 0 0 1 3260 17311623 17308364 0.000000e+00 6021.0
1 TraesCS6D01G042400 chr6D 75.080 1561 314 50 973 2491 17299386 17297859 0.000000e+00 658.0
2 TraesCS6D01G042400 chr6D 73.390 1413 295 58 951 2331 17278908 17277545 4.960000e-123 451.0
3 TraesCS6D01G042400 chr6D 76.241 846 184 15 1520 2354 468168597 468167758 1.800000e-117 433.0
4 TraesCS6D01G042400 chr6D 76.485 404 78 14 2027 2425 17231156 17230765 1.530000e-48 204.0
5 TraesCS6D01G042400 chr6A 96.005 1552 56 5 1201 2749 17912047 17910499 0.000000e+00 2518.0
6 TraesCS6D01G042400 chr6A 96.609 1268 36 6 1 1263 17913304 17912039 0.000000e+00 2097.0
7 TraesCS6D01G042400 chr6A 75.305 1474 299 45 984 2416 17899449 17898000 0.000000e+00 645.0
8 TraesCS6D01G042400 chr6A 87.565 386 24 5 2875 3260 17907996 17907635 3.010000e-115 425.0
9 TraesCS6D01G042400 chr6A 75.682 403 83 12 2027 2425 17827975 17827584 1.540000e-43 187.0
10 TraesCS6D01G042400 chr6B 75.258 1552 319 42 972 2486 30278269 30276746 0.000000e+00 678.0
11 TraesCS6D01G042400 chr6B 76.538 1040 196 35 1349 2363 30227486 30226470 2.880000e-145 525.0
12 TraesCS6D01G042400 chr6B 84.815 270 38 2 943 1211 30295499 30295232 5.360000e-68 268.0
13 TraesCS6D01G042400 chr6B 77.215 237 35 16 2920 3145 704550898 704551126 1.590000e-23 121.0
14 TraesCS6D01G042400 chr1B 77.559 762 142 22 1520 2262 58557428 58558179 1.800000e-117 433.0
15 TraesCS6D01G042400 chr1B 75.057 870 175 35 1484 2331 58932611 58933460 1.850000e-97 366.0
16 TraesCS6D01G042400 chr1B 74.699 747 153 31 1535 2262 58872652 58873381 1.900000e-77 300.0
17 TraesCS6D01G042400 chr1A 77.428 762 143 22 1520 2262 38714200 38714951 8.360000e-116 427.0
18 TraesCS6D01G042400 chrUn 77.579 727 147 14 1520 2235 346081546 346080825 3.010000e-115 425.0
19 TraesCS6D01G042400 chr1D 76.131 796 153 30 1520 2292 38728779 38729560 1.840000e-102 383.0
20 TraesCS6D01G042400 chr1D 80.822 146 23 4 2880 3024 441728287 441728428 3.440000e-20 110.0
21 TraesCS6D01G042400 chr1D 75.000 212 33 12 2930 3139 437408710 437408903 2.700000e-11 80.5
22 TraesCS6D01G042400 chr2D 76.414 619 126 17 1570 2175 2048175 2048786 1.890000e-82 316.0
23 TraesCS6D01G042400 chr2D 77.255 255 40 14 2882 3128 557141575 557141819 2.040000e-27 134.0
24 TraesCS6D01G042400 chr3B 77.052 536 93 19 1670 2181 818443320 818443849 6.890000e-72 281.0
25 TraesCS6D01G042400 chr3B 83.673 98 12 4 2880 2976 572671589 572671683 4.480000e-14 89.8
26 TraesCS6D01G042400 chr7D 77.365 296 52 14 2882 3169 497975171 497974883 9.360000e-36 161.0
27 TraesCS6D01G042400 chr5D 76.133 331 64 11 1673 1991 549879247 549879574 3.370000e-35 159.0
28 TraesCS6D01G042400 chr3D 75.667 300 51 19 2887 3178 133819462 133819177 2.640000e-26 130.0
29 TraesCS6D01G042400 chr4B 74.903 259 53 11 2905 3158 665268012 665268263 1.240000e-19 108.0
30 TraesCS6D01G042400 chr4A 81.295 139 19 5 2887 3025 550138661 550138530 4.450000e-19 106.0
31 TraesCS6D01G042400 chr7A 89.231 65 6 1 2878 2942 79553634 79553697 2.700000e-11 80.5


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 TraesCS6D01G042400 chr6D 17308364 17311623 3259 True 6021 6021 100.000 1 3260 1 chr6D.!!$R4 3259
1 TraesCS6D01G042400 chr6D 17297859 17299386 1527 True 658 658 75.080 973 2491 1 chr6D.!!$R3 1518
2 TraesCS6D01G042400 chr6D 17277545 17278908 1363 True 451 451 73.390 951 2331 1 chr6D.!!$R2 1380
3 TraesCS6D01G042400 chr6D 468167758 468168597 839 True 433 433 76.241 1520 2354 1 chr6D.!!$R5 834
4 TraesCS6D01G042400 chr6A 17907635 17913304 5669 True 1680 2518 93.393 1 3260 3 chr6A.!!$R3 3259
5 TraesCS6D01G042400 chr6A 17898000 17899449 1449 True 645 645 75.305 984 2416 1 chr6A.!!$R2 1432
6 TraesCS6D01G042400 chr6B 30276746 30278269 1523 True 678 678 75.258 972 2486 1 chr6B.!!$R2 1514
7 TraesCS6D01G042400 chr6B 30226470 30227486 1016 True 525 525 76.538 1349 2363 1 chr6B.!!$R1 1014
8 TraesCS6D01G042400 chr1B 58557428 58558179 751 False 433 433 77.559 1520 2262 1 chr1B.!!$F1 742
9 TraesCS6D01G042400 chr1B 58932611 58933460 849 False 366 366 75.057 1484 2331 1 chr1B.!!$F3 847
10 TraesCS6D01G042400 chr1B 58872652 58873381 729 False 300 300 74.699 1535 2262 1 chr1B.!!$F2 727
11 TraesCS6D01G042400 chr1A 38714200 38714951 751 False 427 427 77.428 1520 2262 1 chr1A.!!$F1 742
12 TraesCS6D01G042400 chrUn 346080825 346081546 721 True 425 425 77.579 1520 2235 1 chrUn.!!$R1 715
13 TraesCS6D01G042400 chr1D 38728779 38729560 781 False 383 383 76.131 1520 2292 1 chr1D.!!$F1 772
14 TraesCS6D01G042400 chr2D 2048175 2048786 611 False 316 316 76.414 1570 2175 1 chr2D.!!$F1 605
15 TraesCS6D01G042400 chr3B 818443320 818443849 529 False 281 281 77.052 1670 2181 1 chr3B.!!$F2 511

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
754 758 0.667792 GCTCAGACTCACGACAACCC 60.668 60.0 0.00 0.0 0.00 4.11 F
1369 1444 0.179108 GTCACTACGGGGAGTGCATC 60.179 60.0 6.16 0.0 45.44 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1986 2094 0.325296 TGTAGCCTCTCCCGGTCAAT 60.325 55.0 0.00 0.0 0.00 2.57 R
2808 4653 0.031994 GGTTTGCTGGCAACGTGATT 59.968 50.0 7.56 0.0 42.51 2.57 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
226 228 6.102663 CGAATTCTTCATAGGACAAGTCACT 58.897 40.000 3.52 0.22 0.00 3.41
378 380 2.014335 AAGTACGCCAACGGGATAAC 57.986 50.000 0.00 0.00 46.04 1.89
391 393 5.952347 ACGGGATAACTTAACTTGGAGAT 57.048 39.130 0.00 0.00 0.00 2.75
504 506 2.711542 ACCAAAGGCGGAGTCATTAAG 58.288 47.619 0.00 0.00 0.00 1.85
517 519 6.322491 GGAGTCATTAAGGTTGCATTTGTAC 58.678 40.000 0.00 0.00 0.00 2.90
675 677 8.020861 ACATTTTAAATTGTGCTAGCATGTTG 57.979 30.769 22.51 9.31 0.00 3.33
695 699 2.186076 GTTGAGCTTATCACCGAGACG 58.814 52.381 0.00 0.00 37.77 4.18
746 750 3.037485 GCCGTTAGCTCAGACTCAC 57.963 57.895 0.00 0.00 38.99 3.51
754 758 0.667792 GCTCAGACTCACGACAACCC 60.668 60.000 0.00 0.00 0.00 4.11
755 759 0.673985 CTCAGACTCACGACAACCCA 59.326 55.000 0.00 0.00 0.00 4.51
768 772 3.378112 CGACAACCCATGATAAATGCACT 59.622 43.478 0.00 0.00 0.00 4.40
785 789 6.648879 ATGCACTTAAGTAGGCTTCAAAAA 57.351 33.333 16.32 0.00 36.22 1.94
874 878 7.231467 TCTTCTAGGCTTTCCAGTGTATTTTT 58.769 34.615 0.00 0.00 33.74 1.94
924 930 9.921637 CCATCTGTAAATAGAGTTCCTATCTTC 57.078 37.037 0.00 0.00 37.09 2.87
1019 1025 0.620556 ATGAATCGGTTGGAGGCAGT 59.379 50.000 0.00 0.00 0.00 4.40
1216 1222 6.713450 GGTTAGATCCCTAAAAGAACAACACA 59.287 38.462 0.00 0.00 36.69 3.72
1346 1421 1.225745 GGCACGCGAAAGAACATCG 60.226 57.895 15.93 0.00 42.99 3.84
1368 1443 1.614241 GGTCACTACGGGGAGTGCAT 61.614 60.000 6.16 0.00 45.44 3.96
1369 1444 0.179108 GTCACTACGGGGAGTGCATC 60.179 60.000 6.16 0.00 45.44 3.91
1512 1599 4.562552 GGGCCTATGCTTGAGAAGATAGAC 60.563 50.000 0.84 0.00 37.74 2.59
2112 2220 6.747125 TGTGTACAGTTTTGGAGTCGTTATA 58.253 36.000 0.00 0.00 0.00 0.98
2192 2300 6.975261 AGGAATTTCCTTGAGAATCACAAGCT 60.975 38.462 12.37 2.68 46.91 3.74
2257 2365 3.308046 GGTGGAGAATCTGGAGCTTCTTT 60.308 47.826 0.00 0.00 31.44 2.52
2267 2375 4.040829 TCTGGAGCTTCTTTGACAATCTGA 59.959 41.667 0.00 0.00 0.00 3.27
2294 2402 4.460263 ACTTGTTGTGGAATGTCTTAGCA 58.540 39.130 0.00 0.00 0.00 3.49
2469 2579 5.130145 AGCTTCTGATAGGTGCAATTAGAGT 59.870 40.000 0.00 0.00 0.00 3.24
2512 2622 9.720569 CGTGTAATTTATGTATTTTGTTGTTGC 57.279 29.630 0.00 0.00 0.00 4.17
2533 2643 5.060506 TGCGAACAAGTCTTTGAAATCCTA 58.939 37.500 0.00 0.00 37.73 2.94
2536 2646 7.148474 TGCGAACAAGTCTTTGAAATCCTATAC 60.148 37.037 0.00 0.00 37.73 1.47
2574 2685 1.512098 GCTAAAAGCAACGCCTCGC 60.512 57.895 0.00 0.00 41.89 5.03
2637 2748 2.029739 TGTCAGATTGTTCGCTCCGTTA 60.030 45.455 0.00 0.00 0.00 3.18
2648 2759 1.327764 CGCTCCGTTAAATTCTCTGGC 59.672 52.381 0.00 0.00 0.00 4.85
2661 2772 3.904800 TCTCTGGCAATTTATCCGTGA 57.095 42.857 0.00 0.00 0.00 4.35
2667 2778 3.562141 TGGCAATTTATCCGTGATTACCG 59.438 43.478 0.00 0.00 0.00 4.02
2688 2799 3.445450 CGGGTCTAGATATGTGGATCCAG 59.555 52.174 16.81 0.11 0.00 3.86
2695 2806 9.030452 GTCTAGATATGTGGATCCAGTTATTCT 57.970 37.037 16.81 15.55 0.00 2.40
2727 2838 5.454471 CCTTATGATGTTAAGAGGAGCAGCT 60.454 44.000 0.00 0.00 32.02 4.24
2749 2860 8.759641 CAGCTGTACAAGAGCTTAATTAGTATG 58.240 37.037 5.25 0.00 44.65 2.39
2750 2861 7.928706 AGCTGTACAAGAGCTTAATTAGTATGG 59.071 37.037 2.41 0.00 44.65 2.74
2751 2862 7.171678 GCTGTACAAGAGCTTAATTAGTATGGG 59.828 40.741 0.00 0.00 33.37 4.00
2752 2863 6.990349 TGTACAAGAGCTTAATTAGTATGGGC 59.010 38.462 0.00 0.00 0.00 5.36
2753 2864 6.001449 ACAAGAGCTTAATTAGTATGGGCA 57.999 37.500 0.00 0.00 0.00 5.36
2754 2865 6.423182 ACAAGAGCTTAATTAGTATGGGCAA 58.577 36.000 0.00 0.00 0.00 4.52
2755 2866 7.062957 ACAAGAGCTTAATTAGTATGGGCAAT 58.937 34.615 0.00 0.00 0.00 3.56
2757 2868 9.066892 CAAGAGCTTAATTAGTATGGGCAATTA 57.933 33.333 0.00 0.00 0.00 1.40
2759 2870 9.813826 AGAGCTTAATTAGTATGGGCAATTATT 57.186 29.630 0.00 0.00 0.00 1.40
2766 2877 7.896383 TTAGTATGGGCAATTATTTTCTGCT 57.104 32.000 0.00 0.00 36.32 4.24
2767 2878 6.152932 AGTATGGGCAATTATTTTCTGCTG 57.847 37.500 0.00 0.00 36.32 4.41
2769 2880 5.881923 ATGGGCAATTATTTTCTGCTGAT 57.118 34.783 0.00 0.00 36.32 2.90
2771 2882 4.141892 TGGGCAATTATTTTCTGCTGATGG 60.142 41.667 0.00 0.00 36.32 3.51
2772 2883 4.099881 GGGCAATTATTTTCTGCTGATGGA 59.900 41.667 0.00 0.00 36.32 3.41
2808 4653 5.357878 GGTGATTTATGCTGATGGAGTTCAA 59.642 40.000 0.00 0.00 0.00 2.69
2829 4675 1.106351 TCACGTTGCCAGCAAACCAT 61.106 50.000 6.64 0.00 37.70 3.55
2843 4689 7.521910 GCCAGCAAACCATTTGTATGAATTTTT 60.522 33.333 3.44 0.00 42.56 1.94
2848 4694 4.391523 ACCATTTGTATGAATTTTTGCCGC 59.608 37.500 0.00 0.00 33.37 6.53
2860 4706 2.787601 TTTGCCGCGAGTATACCTAG 57.212 50.000 8.23 0.00 0.00 3.02
2868 4714 3.018149 GCGAGTATACCTAGCAGGCTAT 58.982 50.000 0.81 0.00 41.07 2.97
2872 4718 5.183331 CGAGTATACCTAGCAGGCTATCAAA 59.817 44.000 0.81 0.00 39.63 2.69
2873 4719 6.127591 CGAGTATACCTAGCAGGCTATCAAAT 60.128 42.308 0.81 0.00 39.63 2.32
2887 5375 8.632679 CAGGCTATCAAATGAGGCTTTTAATAA 58.367 33.333 9.76 0.00 45.62 1.40
3080 5568 5.049060 CGTGTATGGAAAAAGTGAACATCCA 60.049 40.000 0.00 0.00 43.79 3.41
3085 5573 9.271828 GTATGGAAAAAGTGAACATCCAAAAAT 57.728 29.630 0.00 0.00 42.97 1.82
3131 5619 9.967346 TTAATCGTGTATTTGGAAAATGTCAAA 57.033 25.926 0.00 0.00 37.29 2.69
3132 5620 7.867445 ATCGTGTATTTGGAAAATGTCAAAC 57.133 32.000 0.00 0.00 35.97 2.93
3133 5621 6.796426 TCGTGTATTTGGAAAATGTCAAACA 58.204 32.000 0.00 0.00 35.97 2.83
3134 5622 7.429633 TCGTGTATTTGGAAAATGTCAAACAT 58.570 30.769 0.00 0.00 41.31 2.71
3135 5623 7.380870 TCGTGTATTTGGAAAATGTCAAACATG 59.619 33.333 0.00 0.00 37.97 3.21
3136 5624 7.168972 CGTGTATTTGGAAAATGTCAAACATGT 59.831 33.333 0.00 0.00 37.97 3.21
3137 5625 9.469807 GTGTATTTGGAAAATGTCAAACATGTA 57.530 29.630 0.00 0.00 37.97 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
226 228 7.066163 CCAAGACTGTATATGTCTGATGCAAAA 59.934 37.037 10.72 0.00 43.16 2.44
280 282 4.034410 GTTCTTCCTGATACCCCTTCTCT 58.966 47.826 0.00 0.00 0.00 3.10
378 380 9.238368 TGGTTTTGGTAATATCTCCAAGTTAAG 57.762 33.333 10.18 0.00 43.28 1.85
391 393 5.278709 CCGCATATGCATGGTTTTGGTAATA 60.279 40.000 26.52 0.00 42.21 0.98
402 404 0.887836 AGCACTCCGCATATGCATGG 60.888 55.000 26.52 19.84 46.13 3.66
453 455 6.964741 TGCATGTTTAATTAAGCCATGTTG 57.035 33.333 25.28 13.34 0.00 3.33
504 506 6.687604 AGAATAAAGTGGTACAAATGCAACC 58.312 36.000 0.00 0.00 44.16 3.77
517 519 8.842358 TTGGTAAACTACTGAGAATAAAGTGG 57.158 34.615 0.00 0.00 0.00 4.00
675 677 2.186076 CGTCTCGGTGATAAGCTCAAC 58.814 52.381 0.00 0.00 38.29 3.18
746 750 3.378112 AGTGCATTTATCATGGGTTGTCG 59.622 43.478 0.00 0.00 0.00 4.35
754 758 7.502120 AGCCTACTTAAGTGCATTTATCATG 57.498 36.000 18.56 0.00 0.00 3.07
755 759 7.775093 TGAAGCCTACTTAAGTGCATTTATCAT 59.225 33.333 18.56 0.00 35.82 2.45
803 807 8.866970 ATGCATTCACATGGACATATATGTTA 57.133 30.769 19.19 12.05 41.95 2.41
825 829 8.356657 AGAGAAGATCATATATAGCCGTTATGC 58.643 37.037 0.00 0.00 0.00 3.14
945 951 6.045955 GGTGAGTTCAGATCAAGATAGGAAC 58.954 44.000 13.93 13.93 35.71 3.62
1019 1025 4.245660 CAACTGCGTCTCCTTTTGATCTA 58.754 43.478 0.00 0.00 0.00 1.98
1216 1222 6.983906 AAGATCCACAATTTTCCTTTGACT 57.016 33.333 0.00 0.00 0.00 3.41
1269 1329 1.227883 TTCCGTTTTAGTGCGCCCA 60.228 52.632 4.18 0.00 0.00 5.36
1346 1421 1.608627 ACTCCCCGTAGTGACCACC 60.609 63.158 0.00 0.00 0.00 4.61
1368 1443 3.189702 GGCTGGTATTTTGCTTTGTACGA 59.810 43.478 0.00 0.00 0.00 3.43
1369 1444 3.057876 TGGCTGGTATTTTGCTTTGTACG 60.058 43.478 0.00 0.00 0.00 3.67
1986 2094 0.325296 TGTAGCCTCTCCCGGTCAAT 60.325 55.000 0.00 0.00 0.00 2.57
2112 2220 5.505181 TCTTCCTGCTAAGAAGTTCCAAT 57.495 39.130 0.00 0.00 41.27 3.16
2192 2300 2.832129 AGCTCGGTTGATTTCCTACTCA 59.168 45.455 0.00 0.00 0.00 3.41
2294 2402 7.576861 TTTTCGGTCTTAGATCCAAGTTTTT 57.423 32.000 0.69 0.00 0.00 1.94
2434 2542 5.011533 ACCTATCAGAAGCTTATTCGATGCT 59.988 40.000 0.00 0.00 40.17 3.79
2437 2545 5.221521 TGCACCTATCAGAAGCTTATTCGAT 60.222 40.000 0.00 0.00 0.00 3.59
2469 2579 2.094752 ACACGTCGATCATCACACATCA 60.095 45.455 0.00 0.00 0.00 3.07
2512 2622 8.251750 TGTATAGGATTTCAAAGACTTGTTCG 57.748 34.615 0.00 0.00 33.94 3.95
2519 2629 8.718102 TTACAGCTGTATAGGATTTCAAAGAC 57.282 34.615 26.54 0.00 0.00 3.01
2533 2643 6.204108 AGCGTGTTTTACTTTTACAGCTGTAT 59.796 34.615 26.54 14.48 30.60 2.29
2536 2646 4.844267 AGCGTGTTTTACTTTTACAGCTG 58.156 39.130 13.48 13.48 30.60 4.24
2585 2696 3.314331 CAGTGGGTCGACAGGGCT 61.314 66.667 18.91 6.62 0.00 5.19
2612 2723 1.658095 GAGCGAACAATCTGACAGAGC 59.342 52.381 11.52 7.59 0.00 4.09
2637 2748 5.652014 TCACGGATAAATTGCCAGAGAATTT 59.348 36.000 0.00 0.00 36.98 1.82
2661 2772 5.006896 TCCACATATCTAGACCCGGTAAT 57.993 43.478 0.00 0.00 0.00 1.89
2667 2778 4.421131 ACTGGATCCACATATCTAGACCC 58.579 47.826 11.44 0.00 36.79 4.46
2688 2799 9.628500 AACATCATAAGGAAGGGTAAGAATAAC 57.372 33.333 0.00 0.00 0.00 1.89
2695 2806 7.626084 TCCTCTTAACATCATAAGGAAGGGTAA 59.374 37.037 0.00 0.00 32.04 2.85
2697 2808 5.970640 TCCTCTTAACATCATAAGGAAGGGT 59.029 40.000 0.00 0.00 32.04 4.34
2698 2809 6.500589 TCCTCTTAACATCATAAGGAAGGG 57.499 41.667 0.00 0.00 32.04 3.95
2716 2827 1.824230 CTCTTGTACAGCTGCTCCTCT 59.176 52.381 15.27 0.00 0.00 3.69
2727 2838 6.990349 GCCCATACTAATTAAGCTCTTGTACA 59.010 38.462 0.00 0.00 0.00 2.90
2749 2860 4.099881 TCCATCAGCAGAAAATAATTGCCC 59.900 41.667 0.00 0.00 38.58 5.36
2750 2861 5.266733 TCCATCAGCAGAAAATAATTGCC 57.733 39.130 0.00 0.00 38.58 4.52
2775 2886 8.890718 CCATCAGCATAAATCACCTATGAATAG 58.109 37.037 0.00 0.00 38.69 1.73
2777 2888 7.464273 TCCATCAGCATAAATCACCTATGAAT 58.536 34.615 0.00 0.00 38.69 2.57
2778 2889 6.840527 TCCATCAGCATAAATCACCTATGAA 58.159 36.000 0.00 0.00 38.69 2.57
2779 2890 6.043590 ACTCCATCAGCATAAATCACCTATGA 59.956 38.462 0.00 0.00 39.83 2.15
2781 2892 6.445451 ACTCCATCAGCATAAATCACCTAT 57.555 37.500 0.00 0.00 0.00 2.57
2783 2894 4.785346 ACTCCATCAGCATAAATCACCT 57.215 40.909 0.00 0.00 0.00 4.00
2786 2897 7.339976 TGATTTGAACTCCATCAGCATAAATCA 59.660 33.333 0.00 0.00 36.45 2.57
2787 2898 7.646922 GTGATTTGAACTCCATCAGCATAAATC 59.353 37.037 0.00 0.00 33.04 2.17
2788 2899 7.486647 GTGATTTGAACTCCATCAGCATAAAT 58.513 34.615 0.00 0.00 0.00 1.40
2789 2900 6.403527 CGTGATTTGAACTCCATCAGCATAAA 60.404 38.462 0.00 0.00 0.00 1.40
2791 2902 4.571984 CGTGATTTGAACTCCATCAGCATA 59.428 41.667 0.00 0.00 0.00 3.14
2792 2903 3.376234 CGTGATTTGAACTCCATCAGCAT 59.624 43.478 0.00 0.00 0.00 3.79
2793 2904 2.743664 CGTGATTTGAACTCCATCAGCA 59.256 45.455 0.00 0.00 0.00 4.41
2794 2905 2.744202 ACGTGATTTGAACTCCATCAGC 59.256 45.455 0.00 0.00 0.00 4.26
2808 4653 0.031994 GGTTTGCTGGCAACGTGATT 59.968 50.000 7.56 0.00 42.51 2.57
2829 4675 3.902150 TCGCGGCAAAAATTCATACAAA 58.098 36.364 6.13 0.00 0.00 2.83
2843 4689 0.820482 TGCTAGGTATACTCGCGGCA 60.820 55.000 6.13 0.00 40.55 5.69
2848 4694 4.262617 TGATAGCCTGCTAGGTATACTCG 58.737 47.826 5.00 0.00 37.80 4.18
2860 4706 1.978454 AGCCTCATTTGATAGCCTGC 58.022 50.000 0.56 0.00 0.00 4.85
2944 5432 6.668323 TCTTTTGATGTCGACTTTTTCCATC 58.332 36.000 17.92 9.80 34.03 3.51
3032 5520 1.686355 ACATTTTTGTGTCGCCAGGA 58.314 45.000 0.00 0.00 0.00 3.86
3034 5522 3.617540 TGTACATTTTTGTGTCGCCAG 57.382 42.857 0.00 0.00 33.62 4.85
3036 5524 2.717011 CGTTGTACATTTTTGTGTCGCC 59.283 45.455 0.00 0.00 33.62 5.54
3037 5525 3.176867 CACGTTGTACATTTTTGTGTCGC 59.823 43.478 0.00 0.00 33.62 5.19
3038 5526 4.336101 ACACGTTGTACATTTTTGTGTCG 58.664 39.130 0.00 0.00 34.24 4.35
3039 5527 6.358558 CCATACACGTTGTACATTTTTGTGTC 59.641 38.462 16.95 0.00 39.53 3.67
3040 5528 6.038382 TCCATACACGTTGTACATTTTTGTGT 59.962 34.615 17.35 17.35 41.47 3.72
3041 5529 6.431278 TCCATACACGTTGTACATTTTTGTG 58.569 36.000 0.00 4.32 35.42 3.33
3043 5531 7.916128 TTTCCATACACGTTGTACATTTTTG 57.084 32.000 0.00 0.00 35.42 2.44
3044 5532 8.928270 TTTTTCCATACACGTTGTACATTTTT 57.072 26.923 0.00 0.00 35.42 1.94
3109 5597 6.796426 TGTTTGACATTTTCCAAATACACGA 58.204 32.000 0.00 0.00 35.14 4.35
3111 5599 8.364129 ACATGTTTGACATTTTCCAAATACAC 57.636 30.769 0.00 0.00 36.53 2.90
3190 5678 8.075574 TGTCTACTTTTCTTCGTAAACATCGTA 58.924 33.333 0.00 0.00 0.00 3.43


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

AutoCloner maintained by Alex Coulton.