Multiple sequence alignment - TraesCS3D01G138700

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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 TraesCS3D01G138700 chr3D 100.000 3181 0 0 1 3181 97117445 97114265 0.000000e+00 5875.0
1 TraesCS3D01G138700 chr3B 93.594 1842 93 12 628 2460 147935072 147933247 0.000000e+00 2724.0
2 TraesCS3D01G138700 chr3B 90.119 587 45 7 1 577 147938572 147937989 0.000000e+00 750.0
3 TraesCS3D01G138700 chr3B 87.868 577 62 5 2611 3181 147932960 147932386 0.000000e+00 671.0
4 TraesCS3D01G138700 chr3B 94.030 67 4 0 568 634 147936090 147936024 5.610000e-18 102.0
5 TraesCS3D01G138700 chr3A 89.988 1648 124 20 738 2357 114714204 114712570 0.000000e+00 2091.0
6 TraesCS3D01G138700 chr3A 87.356 783 60 19 2409 3180 114710446 114709692 0.000000e+00 861.0
7 TraesCS3D01G138700 chr3A 88.587 184 11 6 2409 2589 114720021 114719845 6.910000e-52 215.0
8 TraesCS3D01G138700 chr1B 77.404 208 26 10 23 224 404309970 404309778 1.560000e-18 104.0
9 TraesCS3D01G138700 chr2A 81.967 122 14 8 42 158 714627335 714627217 2.610000e-16 97.1
10 TraesCS3D01G138700 chr2D 84.466 103 8 8 42 140 576856303 576856205 9.390000e-16 95.3
11 TraesCS3D01G138700 chr5A 100.000 31 0 0 331 361 323261878 323261908 1.230000e-04 58.4
12 TraesCS3D01G138700 chr2B 100.000 29 0 0 333 361 159564054 159564026 2.000000e-03 54.7


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 TraesCS3D01G138700 chr3D 97114265 97117445 3180 True 5875.00 5875 100.00000 1 3181 1 chr3D.!!$R1 3180
1 TraesCS3D01G138700 chr3B 147932386 147938572 6186 True 1061.75 2724 91.40275 1 3181 4 chr3B.!!$R1 3180
2 TraesCS3D01G138700 chr3A 114709692 114714204 4512 True 1476.00 2091 88.67200 738 3180 2 chr3A.!!$R2 2442

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
225 230 0.109597 CCGTGCAAATCTGTGCTTCC 60.11 55.0 0.0 0.0 45.17 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2187 5088 0.587242 GCTGTAATCACGCATGCACG 60.587 55.0 19.57 7.82 39.5 5.34 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
21 23 3.230134 GCACATATTTTCCCCCTATGCA 58.770 45.455 0.00 0.00 0.00 3.96
33 35 1.269778 CCCTATGCATCTCGCGAAAGA 60.270 52.381 11.33 5.19 46.97 2.52
46 48 5.005779 TCTCGCGAAAGAAAATCTATGCTTC 59.994 40.000 11.33 0.00 0.00 3.86
168 173 2.228103 AGCAAATCTGTACGTCTCGTGA 59.772 45.455 0.00 0.00 41.39 4.35
207 212 2.693074 TCCCTTTTCAAGAAGCACAACC 59.307 45.455 0.00 0.00 0.00 3.77
225 230 0.109597 CCGTGCAAATCTGTGCTTCC 60.110 55.000 0.00 0.00 45.17 3.46
253 258 7.596749 AGAAGTACGTGAAAGGACATATTTG 57.403 36.000 0.00 0.00 0.00 2.32
256 261 7.739498 AGTACGTGAAAGGACATATTTGTTT 57.261 32.000 0.00 0.00 35.79 2.83
271 276 7.323656 ACATATTTGTTTCTTTTTCGAGAAGCG 59.676 33.333 5.91 0.00 39.03 4.68
290 295 0.445436 GCATCTCGTGGAAGCAAGTG 59.555 55.000 0.00 0.00 38.39 3.16
353 358 0.242017 AGCAAAATTGTGCCTCTCGC 59.758 50.000 17.19 0.00 46.14 5.03
355 360 0.454957 CAAAATTGTGCCTCTCGCGG 60.455 55.000 6.13 0.00 42.08 6.46
358 363 0.605319 AATTGTGCCTCTCGCGGAAA 60.605 50.000 6.13 0.00 42.08 3.13
361 366 2.357034 TGCCTCTCGCGGAAACAC 60.357 61.111 6.13 0.00 42.08 3.32
367 372 2.223829 CCTCTCGCGGAAACACATCTAT 60.224 50.000 6.13 0.00 0.00 1.98
430 435 4.215399 TGCTTCAAATCGTAGGGAAAACTG 59.785 41.667 0.00 0.00 0.00 3.16
478 483 8.648557 AAAACTCATCTAAAACTCAAAAAGGC 57.351 30.769 0.00 0.00 0.00 4.35
480 485 5.531287 ACTCATCTAAAACTCAAAAAGGCGT 59.469 36.000 0.00 0.00 0.00 5.68
509 519 2.888834 ATGTAAAATTGGATGGCCGC 57.111 45.000 0.00 0.00 36.79 6.53
514 524 3.636929 AATTGGATGGCCGCCGTCA 62.637 57.895 28.86 13.19 41.05 4.35
519 529 2.045438 ATGGCCGCCGTCAATTGA 60.045 55.556 3.38 3.38 0.00 2.57
540 551 0.942962 GATCCAGCATGCCGAGAAAG 59.057 55.000 15.66 0.00 31.97 2.62
554 565 2.783135 GAGAAAGTGACCATGCAGGAA 58.217 47.619 0.00 0.00 41.22 3.36
608 2527 8.826710 TGCTTGAGATTACCGTATCTATTTTTG 58.173 33.333 0.00 0.00 35.06 2.44
619 2538 6.938030 CCGTATCTATTTTTGGGCCTTGTATA 59.062 38.462 4.53 0.00 0.00 1.47
898 3775 2.127869 CCTCGAGCCTCCCGATTCA 61.128 63.158 6.99 0.00 35.35 2.57
899 3776 1.467678 CCTCGAGCCTCCCGATTCAT 61.468 60.000 6.99 0.00 35.35 2.57
900 3777 0.319383 CTCGAGCCTCCCGATTCATG 60.319 60.000 0.00 0.00 35.35 3.07
901 3778 1.043116 TCGAGCCTCCCGATTCATGT 61.043 55.000 0.00 0.00 0.00 3.21
902 3779 0.877649 CGAGCCTCCCGATTCATGTG 60.878 60.000 0.00 0.00 0.00 3.21
903 3780 0.465705 GAGCCTCCCGATTCATGTGA 59.534 55.000 0.00 0.00 0.00 3.58
904 3781 0.179000 AGCCTCCCGATTCATGTGAC 59.821 55.000 0.00 0.00 0.00 3.67
905 3782 0.179000 GCCTCCCGATTCATGTGACT 59.821 55.000 0.00 0.00 0.00 3.41
986 3879 2.983592 CAGCCGAAACCCACCACC 60.984 66.667 0.00 0.00 0.00 4.61
991 3884 1.450211 CGAAACCCACCACCAGTCT 59.550 57.895 0.00 0.00 0.00 3.24
992 3885 0.884704 CGAAACCCACCACCAGTCTG 60.885 60.000 0.00 0.00 0.00 3.51
1183 4076 2.115291 GCCATTTCTGTCCCGGAGC 61.115 63.158 0.73 0.00 0.00 4.70
1389 4282 1.666011 GTTCGTGCTCTCCCAGACA 59.334 57.895 0.00 0.00 0.00 3.41
1394 4287 0.321122 GTGCTCTCCCAGACAACCAG 60.321 60.000 0.00 0.00 0.00 4.00
1443 4336 0.179100 CGGAGTGGTTCATGAGCGAT 60.179 55.000 3.27 0.00 0.00 4.58
1511 4404 4.802051 CCTGTGGGGCGTCATGGG 62.802 72.222 0.00 0.00 0.00 4.00
1518 4411 4.856801 GGCGTCATGGGGCGTGAT 62.857 66.667 0.00 0.00 31.77 3.06
1554 4447 4.652131 TTCAACGCGGGCATGGGT 62.652 61.111 12.47 0.00 36.47 4.51
1785 4678 2.484241 CGACATGATGAGCTCCATTCCA 60.484 50.000 12.15 2.27 35.17 3.53
1787 4680 3.949754 GACATGATGAGCTCCATTCCAAA 59.050 43.478 12.15 0.00 35.17 3.28
1788 4681 3.698040 ACATGATGAGCTCCATTCCAAAC 59.302 43.478 12.15 0.00 35.17 2.93
1846 4739 6.092259 AGTTGCCACGAATACATAACTTCTTC 59.908 38.462 0.00 0.00 0.00 2.87
1936 4837 1.996191 GGACTGCGTGAAGATCTTGAC 59.004 52.381 14.00 14.22 0.00 3.18
2142 5043 1.278127 GCCACTACAAGACAAGGCCTA 59.722 52.381 5.16 0.00 36.17 3.93
2187 5088 0.595095 GCTGTATGCTTAGCCATGCC 59.405 55.000 0.29 0.00 38.95 4.40
2237 5138 3.299162 CTGTAACGTGTGTGTAAGCGTA 58.701 45.455 0.00 0.00 36.51 4.42
2264 5165 2.805671 TGTGATGTTCATCGTGGTTGTC 59.194 45.455 8.04 0.00 0.00 3.18
2265 5166 2.065512 TGATGTTCATCGTGGTTGTCG 58.934 47.619 8.04 0.00 0.00 4.35
2276 5184 2.350498 CGTGGTTGTCGAAGTGTCTTTT 59.650 45.455 0.00 0.00 0.00 2.27
2286 5194 3.510719 GAAGTGTCTTTTTGCAGCAACA 58.489 40.909 7.54 0.00 0.00 3.33
2300 5208 3.550030 GCAGCAACAATTTGTTCCTACGT 60.550 43.478 11.78 0.00 38.77 3.57
2339 5247 1.939974 TGTATGATCTGTTGCTCGGC 58.060 50.000 0.00 0.00 0.00 5.54
2371 7349 9.285770 GGACTTAATAAAATTAGCGTTTTGAGG 57.714 33.333 7.48 0.00 33.62 3.86
2407 7387 8.123639 CTCTATATTAGAGGTTTTGGGATCGA 57.876 38.462 4.01 0.00 46.70 3.59
2488 7468 6.605995 GGAAATATACTTTGGCCACTAAACCT 59.394 38.462 3.88 0.00 0.00 3.50
2491 7471 0.603065 CTTTGGCCACTAAACCTGCC 59.397 55.000 3.88 0.00 44.27 4.85
2493 7473 4.002797 GGCCACTAAACCTGCCAG 57.997 61.111 0.00 0.00 43.46 4.85
2494 7474 1.074951 GGCCACTAAACCTGCCAGT 59.925 57.895 0.00 0.00 43.46 4.00
2495 7475 0.539669 GGCCACTAAACCTGCCAGTT 60.540 55.000 0.00 0.00 43.46 3.16
2517 7499 2.017049 AGTTTGTGGCTGTCACTGAAC 58.983 47.619 14.15 16.53 46.20 3.18
2543 7525 4.225942 AGTTTTCATGCTCTGGTATCCTGA 59.774 41.667 0.00 0.00 0.00 3.86
2546 7528 2.435805 TCATGCTCTGGTATCCTGAACC 59.564 50.000 0.00 0.00 37.53 3.62
2587 7569 2.114411 GGTTCGCCAGGTTTGGGA 59.886 61.111 0.00 0.00 45.16 4.37
2591 7718 1.137282 GTTCGCCAGGTTTGGGAAAAA 59.863 47.619 0.00 0.00 45.16 1.94
2596 7723 2.801699 GCCAGGTTTGGGAAAAACTTCG 60.802 50.000 1.42 0.00 45.16 3.79
2616 7744 2.348666 CGATAGGAACACCGCAAAGAAG 59.651 50.000 0.00 0.00 0.00 2.85
2619 7747 0.383949 GGAACACCGCAAAGAAGCAA 59.616 50.000 0.00 0.00 0.00 3.91
2626 7754 2.032924 ACCGCAAAGAAGCAACTTACAC 59.967 45.455 0.00 0.00 0.00 2.90
2633 7761 1.946768 GAAGCAACTTACACCAGCACA 59.053 47.619 0.00 0.00 0.00 4.57
2634 7762 2.051334 AGCAACTTACACCAGCACAA 57.949 45.000 0.00 0.00 0.00 3.33
2635 7763 2.374184 AGCAACTTACACCAGCACAAA 58.626 42.857 0.00 0.00 0.00 2.83
2670 7800 6.401367 GGCATACGTAAACAAACACTAACGAT 60.401 38.462 0.00 0.00 34.62 3.73
2706 7836 7.383687 ACTCATGCATTGAAAATTCAGTTCAT 58.616 30.769 0.00 0.00 38.61 2.57
2719 7849 7.976135 AATTCAGTTCATAGCATCACTATCC 57.024 36.000 0.00 0.00 39.71 2.59
2726 7856 4.700692 TCATAGCATCACTATCCGTCCTAC 59.299 45.833 0.00 0.00 39.71 3.18
2770 7902 8.110743 ACCAATAGGATATGCATCAAGGATAT 57.889 34.615 0.19 0.00 43.08 1.63
2793 7925 1.364626 GCAACGAGCATCAGGTCCTG 61.365 60.000 13.21 13.21 44.79 3.86
2802 7934 0.972983 ATCAGGTCCTGTCCGGAGTG 60.973 60.000 18.65 0.00 44.20 3.51
2849 7981 0.977395 AAGGTCAGTGTCAGCCCTAC 59.023 55.000 0.00 0.00 0.00 3.18
2854 7986 0.250513 CAGTGTCAGCCCTACTTCCC 59.749 60.000 0.00 0.00 0.00 3.97
2898 8032 4.286297 AGCATAGCCTGTTACAGAACAA 57.714 40.909 14.66 0.00 44.90 2.83
2920 8054 3.434319 GGACACAGCACGGCCATG 61.434 66.667 2.24 0.00 0.00 3.66
2937 8071 2.164219 CCATGCCACATAGTTGTTGTCC 59.836 50.000 0.00 0.00 32.34 4.02
2938 8072 1.518325 TGCCACATAGTTGTTGTCCG 58.482 50.000 0.00 0.00 32.34 4.79
2945 8080 4.693566 CACATAGTTGTTGTCCGTATTGGT 59.306 41.667 0.00 0.00 34.39 3.67
2966 8101 6.578020 GGTAACAAAAAGCAGTTTTACCAC 57.422 37.500 9.51 4.12 37.32 4.16
2967 8102 6.334989 GGTAACAAAAAGCAGTTTTACCACT 58.665 36.000 9.51 0.00 37.32 4.00
2968 8103 6.814644 GGTAACAAAAAGCAGTTTTACCACTT 59.185 34.615 9.51 0.00 37.32 3.16
2981 8116 6.647895 AGTTTTACCACTTACCACATAGTTCG 59.352 38.462 0.00 0.00 0.00 3.95
3008 8153 6.936968 ATACTACTCAGAAAGGTGGTTCTT 57.063 37.500 0.00 0.00 35.63 2.52
3029 8174 7.353414 TCTTGATATATCTAGCTACCCATGC 57.647 40.000 16.57 0.00 31.18 4.06
3084 8229 3.461061 TCTAGCAATTGCAGGATTCTCG 58.539 45.455 30.89 6.03 45.16 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 13 2.047844 CGCGAGATGCATAGGGGG 60.048 66.667 0.00 0.00 46.97 5.40
12 14 0.249868 TTTCGCGAGATGCATAGGGG 60.250 55.000 9.59 0.21 46.97 4.79
14 16 2.140065 TCTTTCGCGAGATGCATAGG 57.860 50.000 9.59 0.00 46.97 2.57
21 23 5.053145 AGCATAGATTTTCTTTCGCGAGAT 58.947 37.500 9.59 0.00 41.60 2.75
60 62 1.599071 TGCTTTCACGAGAAGCACAAG 59.401 47.619 16.57 4.38 34.92 3.16
61 63 1.662517 TGCTTTCACGAGAAGCACAA 58.337 45.000 16.57 0.68 34.92 3.33
90 95 5.762045 GCACAACTATGCTTCTCAAAAAGA 58.238 37.500 0.00 0.00 42.62 2.52
144 149 2.276540 CGAGACGTACAGATTTGCTTCG 59.723 50.000 0.00 0.00 0.00 3.79
145 150 3.059570 CACGAGACGTACAGATTTGCTTC 59.940 47.826 0.00 0.00 38.32 3.86
149 154 4.433022 GCTTTCACGAGACGTACAGATTTG 60.433 45.833 0.00 0.00 38.32 2.32
185 190 3.132111 GGTTGTGCTTCTTGAAAAGGGAA 59.868 43.478 0.00 0.00 46.24 3.97
186 191 2.693074 GGTTGTGCTTCTTGAAAAGGGA 59.307 45.455 0.00 0.00 46.24 4.20
207 212 0.592637 TGGAAGCACAGATTTGCACG 59.407 50.000 0.00 0.00 45.62 5.34
225 230 4.116961 TGTCCTTTCACGTACTTCTTGTG 58.883 43.478 0.00 0.00 34.96 3.33
253 258 2.981875 TGCGCTTCTCGAAAAAGAAAC 58.018 42.857 9.73 0.00 41.67 2.78
256 261 2.668457 GAGATGCGCTTCTCGAAAAAGA 59.332 45.455 30.23 0.00 41.67 2.52
271 276 0.445436 CACTTGCTTCCACGAGATGC 59.555 55.000 9.86 9.86 44.08 3.91
315 320 2.715268 CTTTTGTGCTTCTCGCGAAAA 58.285 42.857 11.33 1.21 43.27 2.29
347 352 2.561733 TAGATGTGTTTCCGCGAGAG 57.438 50.000 8.23 0.00 0.00 3.20
376 381 8.856153 TTTATGAACCATAGTTGTGCTTCTTA 57.144 30.769 0.00 0.00 35.94 2.10
377 382 7.759489 TTTATGAACCATAGTTGTGCTTCTT 57.241 32.000 0.00 0.00 35.94 2.52
414 419 1.353022 TGCCCAGTTTTCCCTACGATT 59.647 47.619 0.00 0.00 0.00 3.34
430 435 0.467804 TGGCTTTTTGGTCTTTGCCC 59.532 50.000 0.00 0.00 39.60 5.36
499 509 3.636929 AATTGACGGCGGCCATCCA 62.637 57.895 20.71 5.41 0.00 3.41
503 513 3.053291 GTCAATTGACGGCGGCCA 61.053 61.111 22.09 0.00 35.12 5.36
514 524 1.027357 GGCATGCTGGATCGTCAATT 58.973 50.000 18.92 0.00 0.00 2.32
519 529 1.960040 TTCTCGGCATGCTGGATCGT 61.960 55.000 25.97 0.00 0.00 3.73
524 534 0.674581 TCACTTTCTCGGCATGCTGG 60.675 55.000 25.97 16.39 0.00 4.85
525 535 0.445436 GTCACTTTCTCGGCATGCTG 59.555 55.000 21.02 21.02 0.00 4.41
540 551 1.678970 GGGGTTCCTGCATGGTCAC 60.679 63.158 0.00 0.00 37.07 3.67
608 2527 4.584327 AAAATGCGATTATACAAGGCCC 57.416 40.909 0.00 0.00 0.00 5.80
812 3689 1.968017 ACCATGCAGCGTTCCACTG 60.968 57.895 0.00 0.00 38.22 3.66
873 3750 3.462678 GAGGCTCGAGGTCCCCAC 61.463 72.222 15.58 1.40 0.00 4.61
892 3769 5.005107 CACACTCACATAGTCACATGAATCG 59.995 44.000 0.00 0.00 35.76 3.34
898 3775 3.244181 TGCACACACTCACATAGTCACAT 60.244 43.478 0.00 0.00 35.76 3.21
899 3776 2.102252 TGCACACACTCACATAGTCACA 59.898 45.455 0.00 0.00 35.76 3.58
900 3777 2.733552 CTGCACACACTCACATAGTCAC 59.266 50.000 0.00 0.00 35.76 3.67
901 3778 2.289010 CCTGCACACACTCACATAGTCA 60.289 50.000 0.00 0.00 35.76 3.41
902 3779 2.341257 CCTGCACACACTCACATAGTC 58.659 52.381 0.00 0.00 35.76 2.59
903 3780 1.002430 CCCTGCACACACTCACATAGT 59.998 52.381 0.00 0.00 39.81 2.12
904 3781 1.676916 CCCCTGCACACACTCACATAG 60.677 57.143 0.00 0.00 0.00 2.23
905 3782 0.324614 CCCCTGCACACACTCACATA 59.675 55.000 0.00 0.00 0.00 2.29
962 3854 4.043200 GGTTTCGGCTGCACCTGC 62.043 66.667 0.50 0.00 42.50 4.85
968 3861 3.670377 GTGGTGGGTTTCGGCTGC 61.670 66.667 0.00 0.00 0.00 5.25
972 3865 1.599797 GACTGGTGGTGGGTTTCGG 60.600 63.158 0.00 0.00 0.00 4.30
978 3871 1.227943 CACACAGACTGGTGGTGGG 60.228 63.158 7.51 0.00 43.08 4.61
986 3879 3.991999 CCATGGGCACACAGACTG 58.008 61.111 2.85 0.00 0.00 3.51
1168 4061 2.125106 GCGCTCCGGGACAGAAAT 60.125 61.111 0.00 0.00 0.00 2.17
1389 4282 1.812708 GCTTTCACGTGGTACCTGGTT 60.813 52.381 17.00 0.00 0.00 3.67
1394 4287 2.674084 GCCGCTTTCACGTGGTACC 61.674 63.158 17.00 4.43 36.91 3.34
1511 4404 1.017387 GTTCATCTTGGGATCACGCC 58.983 55.000 0.00 0.00 0.00 5.68
1518 4411 2.044793 AGACCTGGTTCATCTTGGGA 57.955 50.000 0.00 0.00 0.00 4.37
1554 4447 4.373116 GCGAGCTGGGTGTCGGAA 62.373 66.667 0.00 0.00 36.67 4.30
1873 4774 7.325338 GCATGATGTACTGCAATATGAACATTC 59.675 37.037 0.00 0.00 38.28 2.67
1936 4837 2.301902 GATCGCCTTCTTGCACTGCG 62.302 60.000 7.84 7.84 46.09 5.18
2127 5028 4.340617 CCCAAAATAGGCCTTGTCTTGTA 58.659 43.478 12.58 0.00 0.00 2.41
2142 5043 3.199727 GTGATGGCCATAAACCCCAAAAT 59.800 43.478 20.84 0.00 31.43 1.82
2187 5088 0.587242 GCTGTAATCACGCATGCACG 60.587 55.000 19.57 7.82 39.50 5.34
2237 5138 1.902508 ACGATGAACATCACAGGACCT 59.097 47.619 13.92 0.00 37.69 3.85
2264 5165 2.473530 TGCTGCAAAAAGACACTTCG 57.526 45.000 0.00 0.00 0.00 3.79
2265 5166 3.510719 TGTTGCTGCAAAAAGACACTTC 58.489 40.909 17.80 0.99 0.00 3.01
2286 5194 6.489022 AGCCTTTAAAGACGTAGGAACAAATT 59.511 34.615 16.98 0.00 0.00 1.82
2300 5208 8.278639 TCATACAAATATGGGAGCCTTTAAAGA 58.721 33.333 16.98 0.00 39.04 2.52
2392 7370 3.611766 GCAAAACTCGATCCCAAAACCTC 60.612 47.826 0.00 0.00 0.00 3.85
2491 7471 2.016318 TGACAGCCACAAACTGAACTG 58.984 47.619 0.00 0.00 38.55 3.16
2492 7472 2.017049 GTGACAGCCACAAACTGAACT 58.983 47.619 0.00 0.00 45.03 3.01
2493 7473 2.475200 GTGACAGCCACAAACTGAAC 57.525 50.000 0.00 0.00 45.03 3.18
2517 7499 6.204301 CAGGATACCAGAGCATGAAAACTATG 59.796 42.308 0.00 0.00 37.17 2.23
2543 7525 3.222603 CTGTAAAGCTCCTGGTTTGGTT 58.777 45.455 0.00 0.00 42.86 3.67
2546 7528 2.229792 TGCTGTAAAGCTCCTGGTTTG 58.770 47.619 6.43 0.00 42.86 2.93
2577 7559 4.584327 ATCGAAGTTTTTCCCAAACCTG 57.416 40.909 0.00 0.00 0.00 4.00
2578 7560 4.765339 CCTATCGAAGTTTTTCCCAAACCT 59.235 41.667 0.00 0.00 0.00 3.50
2580 7562 5.952526 TCCTATCGAAGTTTTTCCCAAAC 57.047 39.130 0.00 0.00 0.00 2.93
2581 7563 5.828859 TGTTCCTATCGAAGTTTTTCCCAAA 59.171 36.000 0.00 0.00 0.00 3.28
2584 7566 4.155462 GGTGTTCCTATCGAAGTTTTTCCC 59.845 45.833 0.00 0.00 0.00 3.97
2587 7569 3.187842 GCGGTGTTCCTATCGAAGTTTTT 59.812 43.478 0.00 0.00 0.00 1.94
2591 7718 0.892755 TGCGGTGTTCCTATCGAAGT 59.107 50.000 0.00 0.00 0.00 3.01
2596 7723 2.096013 GCTTCTTTGCGGTGTTCCTATC 59.904 50.000 0.00 0.00 0.00 2.08
2616 7744 2.861462 TTTGTGCTGGTGTAAGTTGC 57.139 45.000 0.00 0.00 0.00 4.17
2634 7762 5.244178 TGTTTACGTATGCCCCTGAATTTTT 59.756 36.000 0.00 0.00 0.00 1.94
2635 7763 4.767928 TGTTTACGTATGCCCCTGAATTTT 59.232 37.500 0.00 0.00 0.00 1.82
2645 7773 5.074791 CGTTAGTGTTTGTTTACGTATGCC 58.925 41.667 0.00 0.00 0.00 4.40
2706 7836 4.094830 TGTAGGACGGATAGTGATGCTA 57.905 45.455 0.00 0.00 0.00 3.49
2719 7849 4.183865 TCTGAATTTCAGCATGTAGGACG 58.816 43.478 19.53 0.00 43.95 4.79
2726 7856 5.319140 TGGTTGATCTGAATTTCAGCATG 57.681 39.130 19.53 0.00 43.95 4.06
2758 7890 4.671377 TCGTTGCAAAATATCCTTGATGC 58.329 39.130 0.00 0.00 0.00 3.91
2793 7925 0.818296 ATGCTAGTCACACTCCGGAC 59.182 55.000 0.00 0.00 0.00 4.79
2802 7934 4.627611 ATTTCATGTGCATGCTAGTCAC 57.372 40.909 20.33 8.76 38.65 3.67
2849 7981 3.380004 TGTTTGTTGTGCTACAAGGGAAG 59.620 43.478 2.52 0.00 39.00 3.46
2854 7986 5.679734 ATCTCTGTTTGTTGTGCTACAAG 57.320 39.130 2.52 0.00 39.00 3.16
2898 8032 2.260869 GCCGTGCTGTGTCCATGTT 61.261 57.895 0.00 0.00 0.00 2.71
2920 8054 1.519408 ACGGACAACAACTATGTGGC 58.481 50.000 0.00 0.00 40.46 5.01
2923 8057 4.901868 ACCAATACGGACAACAACTATGT 58.098 39.130 0.00 0.00 39.02 2.29
2937 8071 7.458038 AAAACTGCTTTTTGTTACCAATACG 57.542 32.000 0.00 0.00 35.98 3.06
2938 8072 8.757789 GGTAAAACTGCTTTTTGTTACCAATAC 58.242 33.333 5.70 0.00 37.96 1.89
2945 8080 7.975058 GGTAAGTGGTAAAACTGCTTTTTGTTA 59.025 33.333 6.82 0.00 37.96 2.41
2959 8094 6.343716 TCGAACTATGTGGTAAGTGGTAAA 57.656 37.500 0.00 0.00 0.00 2.01
2962 8097 4.877378 TTCGAACTATGTGGTAAGTGGT 57.123 40.909 0.00 0.00 0.00 4.16
2963 8098 8.358148 AGTATATTCGAACTATGTGGTAAGTGG 58.642 37.037 0.00 0.00 0.00 4.00
2968 8103 9.783081 TGAGTAGTATATTCGAACTATGTGGTA 57.217 33.333 0.00 0.00 31.25 3.25
2981 8116 8.697292 AGAACCACCTTTCTGAGTAGTATATTC 58.303 37.037 0.00 0.00 34.40 1.75
3008 8153 5.528337 TGGCATGGGTAGCTAGATATATCA 58.472 41.667 15.08 0.77 0.00 2.15
3029 8174 5.138125 ACTTAGCATGTCCAACAAAATGG 57.862 39.130 0.00 0.00 42.12 3.16
3084 8229 6.597832 ACCCATTACTATGCTCATCTAGTC 57.402 41.667 0.00 0.00 30.98 2.59


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

AutoCloner maintained by Alex Coulton.