Multiple sequence alignment - TraesCS1A01G054100

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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 TraesCS1A01G054100 chr1A 100.000 2438 0 0 1 2438 35559964 35557527 0.000000e+00 4503
1 TraesCS1A01G054100 chr1A 95.825 1006 28 6 917 1909 461965738 461964734 0.000000e+00 1613
2 TraesCS1A01G054100 chrUn 92.471 1036 37 14 917 1911 96554053 96555088 0.000000e+00 1443
3 TraesCS1A01G054100 chr2D 91.876 1034 43 14 917 1909 469106881 469105848 0.000000e+00 1406
4 TraesCS1A01G054100 chr2D 87.807 1017 74 16 917 1909 330863911 330862921 0.000000e+00 1146
5 TraesCS1A01G054100 chr2D 92.359 301 22 1 1617 1916 617438833 617438533 6.230000e-116 427
6 TraesCS1A01G054100 chr7B 91.150 1017 62 14 916 1909 551483673 551482662 0.000000e+00 1354
7 TraesCS1A01G054100 chr7A 94.578 830 39 3 1 825 255318357 255319185 0.000000e+00 1279
8 TraesCS1A01G054100 chr7A 94.472 814 42 3 1 814 68703240 68704050 0.000000e+00 1251
9 TraesCS1A01G054100 chr5A 94.189 826 44 4 1 825 559410447 559411269 0.000000e+00 1256
10 TraesCS1A01G054100 chr5A 85.333 525 65 10 27 547 234896247 234896763 1.280000e-147 532
11 TraesCS1A01G054100 chr5A 80.074 537 92 10 1907 2438 654558228 654557702 3.800000e-103 385
12 TraesCS1A01G054100 chr6A 94.068 826 45 4 1 825 391359226 391360048 0.000000e+00 1251
13 TraesCS1A01G054100 chr6A 95.028 543 24 3 374 916 521896328 521896867 0.000000e+00 850
14 TraesCS1A01G054100 chr6A 93.923 543 31 2 374 916 521893229 521893769 0.000000e+00 819
15 TraesCS1A01G054100 chr3B 89.265 1034 51 22 917 1908 597427834 597428849 0.000000e+00 1240
16 TraesCS1A01G054100 chr1B 92.634 801 44 10 1118 1907 470720338 470721134 0.000000e+00 1138
17 TraesCS1A01G054100 chr1B 90.373 644 48 3 917 1546 127025314 127024671 0.000000e+00 833
18 TraesCS1A01G054100 chr1B 88.440 545 57 4 1 544 134770217 134770756 0.000000e+00 652
19 TraesCS1A01G054100 chr1B 90.184 326 25 4 1588 1907 127024686 127024362 3.750000e-113 418
20 TraesCS1A01G054100 chr3A 89.219 807 73 11 27 825 384294319 384293519 0.000000e+00 996
21 TraesCS1A01G054100 chr3A 94.495 545 26 4 374 916 627906390 627906932 0.000000e+00 837
22 TraesCS1A01G054100 chr7D 92.439 701 25 9 1235 1907 69948231 69948931 0.000000e+00 976
23 TraesCS1A01G054100 chr7D 90.995 633 53 4 917 1546 422343548 422344179 0.000000e+00 850
24 TraesCS1A01G054100 chr6B 83.300 1006 135 23 917 1909 707395075 707394090 0.000000e+00 896
25 TraesCS1A01G054100 chr6B 93.939 297 18 0 1613 1909 658405685 658405389 1.330000e-122 449
26 TraesCS1A01G054100 chr6B 81.725 487 75 10 1907 2393 693819252 693819724 6.320000e-106 394
27 TraesCS1A01G054100 chr2B 83.300 1006 135 22 917 1908 579978178 579979164 0.000000e+00 896
28 TraesCS1A01G054100 chr2B 85.338 532 70 6 1907 2438 523237353 523237876 5.930000e-151 544
29 TraesCS1A01G054100 chr2A 95.421 546 20 5 374 916 4076799 4077342 0.000000e+00 865
30 TraesCS1A01G054100 chr4A 94.343 548 28 3 1 547 456109602 456109057 0.000000e+00 837
31 TraesCS1A01G054100 chr1D 90.994 533 44 3 1907 2438 36359264 36358735 0.000000e+00 715
32 TraesCS1A01G054100 chr3D 88.364 550 56 7 1 549 505382849 505383391 0.000000e+00 654
33 TraesCS1A01G054100 chr3D 79.737 533 96 10 1911 2438 506187061 506187586 2.290000e-100 375
34 TraesCS1A01G054100 chr3D 79.777 539 86 16 1911 2438 173479975 173480501 1.060000e-98 370
35 TraesCS1A01G054100 chr5D 80.970 536 83 15 1911 2438 357442279 357441755 8.120000e-110 407
36 TraesCS1A01G054100 chr5D 80.524 534 88 11 1911 2438 465969202 465968679 1.760000e-106 396
37 TraesCS1A01G054100 chr4D 79.963 534 90 11 1911 2438 16451415 16451937 6.360000e-101 377


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 TraesCS1A01G054100 chr1A 35557527 35559964 2437 True 4503.0 4503 100.0000 1 2438 1 chr1A.!!$R1 2437
1 TraesCS1A01G054100 chr1A 461964734 461965738 1004 True 1613.0 1613 95.8250 917 1909 1 chr1A.!!$R2 992
2 TraesCS1A01G054100 chrUn 96554053 96555088 1035 False 1443.0 1443 92.4710 917 1911 1 chrUn.!!$F1 994
3 TraesCS1A01G054100 chr2D 469105848 469106881 1033 True 1406.0 1406 91.8760 917 1909 1 chr2D.!!$R2 992
4 TraesCS1A01G054100 chr2D 330862921 330863911 990 True 1146.0 1146 87.8070 917 1909 1 chr2D.!!$R1 992
5 TraesCS1A01G054100 chr7B 551482662 551483673 1011 True 1354.0 1354 91.1500 916 1909 1 chr7B.!!$R1 993
6 TraesCS1A01G054100 chr7A 255318357 255319185 828 False 1279.0 1279 94.5780 1 825 1 chr7A.!!$F2 824
7 TraesCS1A01G054100 chr7A 68703240 68704050 810 False 1251.0 1251 94.4720 1 814 1 chr7A.!!$F1 813
8 TraesCS1A01G054100 chr5A 559410447 559411269 822 False 1256.0 1256 94.1890 1 825 1 chr5A.!!$F2 824
9 TraesCS1A01G054100 chr5A 234896247 234896763 516 False 532.0 532 85.3330 27 547 1 chr5A.!!$F1 520
10 TraesCS1A01G054100 chr5A 654557702 654558228 526 True 385.0 385 80.0740 1907 2438 1 chr5A.!!$R1 531
11 TraesCS1A01G054100 chr6A 391359226 391360048 822 False 1251.0 1251 94.0680 1 825 1 chr6A.!!$F1 824
12 TraesCS1A01G054100 chr6A 521893229 521896867 3638 False 834.5 850 94.4755 374 916 2 chr6A.!!$F2 542
13 TraesCS1A01G054100 chr3B 597427834 597428849 1015 False 1240.0 1240 89.2650 917 1908 1 chr3B.!!$F1 991
14 TraesCS1A01G054100 chr1B 470720338 470721134 796 False 1138.0 1138 92.6340 1118 1907 1 chr1B.!!$F2 789
15 TraesCS1A01G054100 chr1B 134770217 134770756 539 False 652.0 652 88.4400 1 544 1 chr1B.!!$F1 543
16 TraesCS1A01G054100 chr1B 127024362 127025314 952 True 625.5 833 90.2785 917 1907 2 chr1B.!!$R1 990
17 TraesCS1A01G054100 chr3A 384293519 384294319 800 True 996.0 996 89.2190 27 825 1 chr3A.!!$R1 798
18 TraesCS1A01G054100 chr3A 627906390 627906932 542 False 837.0 837 94.4950 374 916 1 chr3A.!!$F1 542
19 TraesCS1A01G054100 chr7D 69948231 69948931 700 False 976.0 976 92.4390 1235 1907 1 chr7D.!!$F1 672
20 TraesCS1A01G054100 chr7D 422343548 422344179 631 False 850.0 850 90.9950 917 1546 1 chr7D.!!$F2 629
21 TraesCS1A01G054100 chr6B 707394090 707395075 985 True 896.0 896 83.3000 917 1909 1 chr6B.!!$R2 992
22 TraesCS1A01G054100 chr2B 579978178 579979164 986 False 896.0 896 83.3000 917 1908 1 chr2B.!!$F2 991
23 TraesCS1A01G054100 chr2B 523237353 523237876 523 False 544.0 544 85.3380 1907 2438 1 chr2B.!!$F1 531
24 TraesCS1A01G054100 chr2A 4076799 4077342 543 False 865.0 865 95.4210 374 916 1 chr2A.!!$F1 542
25 TraesCS1A01G054100 chr4A 456109057 456109602 545 True 837.0 837 94.3430 1 547 1 chr4A.!!$R1 546
26 TraesCS1A01G054100 chr1D 36358735 36359264 529 True 715.0 715 90.9940 1907 2438 1 chr1D.!!$R1 531
27 TraesCS1A01G054100 chr3D 505382849 505383391 542 False 654.0 654 88.3640 1 549 1 chr3D.!!$F2 548
28 TraesCS1A01G054100 chr3D 506187061 506187586 525 False 375.0 375 79.7370 1911 2438 1 chr3D.!!$F3 527
29 TraesCS1A01G054100 chr3D 173479975 173480501 526 False 370.0 370 79.7770 1911 2438 1 chr3D.!!$F1 527
30 TraesCS1A01G054100 chr5D 357441755 357442279 524 True 407.0 407 80.9700 1911 2438 1 chr5D.!!$R1 527
31 TraesCS1A01G054100 chr5D 465968679 465969202 523 True 396.0 396 80.5240 1911 2438 1 chr5D.!!$R2 527
32 TraesCS1A01G054100 chr4D 16451415 16451937 522 False 377.0 377 79.9630 1911 2438 1 chr4D.!!$F1 527

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
904 4017 0.031515 ATGAGGATACCCGTGTCCCA 60.032 55.0 6.98 5.83 41.22 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2344 5666 0.03601 CAAGAATGAGGAGGGCGTGT 60.036 55.0 0.0 0.0 0.0 4.49 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
71 72 4.969484 ACTAGTACTTGAAAACACCAGGG 58.031 43.478 11.43 0.00 0.00 4.45
189 191 1.819632 GATGGCTTCGGCGGACAAT 60.820 57.895 7.21 0.00 42.91 2.71
257 260 2.665649 AACATATGACTTGACGGCGA 57.334 45.000 16.62 0.00 0.00 5.54
386 397 0.178947 GAGATCCTCGATCCCTGGGT 60.179 60.000 13.56 0.00 39.66 4.51
406 417 4.395231 GGGTGAAATCCCTTTAAGAACTCG 59.605 45.833 0.00 0.00 43.85 4.18
476 3585 2.426024 GTCACGGCAGATGTCCTTAGTA 59.574 50.000 0.00 0.00 0.00 1.82
605 3715 3.439857 AAAGCCTACATCCTGCTTCAA 57.560 42.857 0.00 0.00 44.11 2.69
763 3876 0.763035 GGGGCGGGTTACATGACTAT 59.237 55.000 0.00 0.00 0.00 2.12
790 3903 7.064229 CCTAGTTGGATTAGGACTAGTCTCTT 58.936 42.308 21.88 10.80 40.64 2.85
796 3909 9.716556 TTGGATTAGGACTAGTCTCTTTTCTAT 57.283 33.333 21.88 5.42 0.00 1.98
803 3916 9.756571 AGGACTAGTCTCTTTTCTATTACAAGA 57.243 33.333 21.88 0.00 0.00 3.02
810 3923 9.453325 GTCTCTTTTCTATTACAAGACGGATAG 57.547 37.037 0.00 0.00 0.00 2.08
811 3924 8.136165 TCTCTTTTCTATTACAAGACGGATAGC 58.864 37.037 0.00 0.00 0.00 2.97
813 3926 8.255206 TCTTTTCTATTACAAGACGGATAGCAA 58.745 33.333 0.00 0.00 0.00 3.91
830 3943 7.807977 GATAGCAATCCAGGTCTTATTCAAA 57.192 36.000 0.00 0.00 0.00 2.69
831 3944 5.904362 AGCAATCCAGGTCTTATTCAAAC 57.096 39.130 0.00 0.00 0.00 2.93
832 3945 5.574188 AGCAATCCAGGTCTTATTCAAACT 58.426 37.500 0.00 0.00 0.00 2.66
833 3946 5.416952 AGCAATCCAGGTCTTATTCAAACTG 59.583 40.000 0.00 0.00 0.00 3.16
834 3947 5.183904 GCAATCCAGGTCTTATTCAAACTGT 59.816 40.000 0.00 0.00 0.00 3.55
835 3948 6.294731 GCAATCCAGGTCTTATTCAAACTGTT 60.295 38.462 0.00 0.00 0.00 3.16
836 3949 7.661040 CAATCCAGGTCTTATTCAAACTGTTT 58.339 34.615 0.00 0.00 0.00 2.83
837 3950 8.792633 CAATCCAGGTCTTATTCAAACTGTTTA 58.207 33.333 5.31 0.00 0.00 2.01
838 3951 8.934023 ATCCAGGTCTTATTCAAACTGTTTAA 57.066 30.769 5.31 2.17 0.00 1.52
839 3952 8.391075 TCCAGGTCTTATTCAAACTGTTTAAG 57.609 34.615 5.31 6.35 0.00 1.85
840 3953 7.996644 TCCAGGTCTTATTCAAACTGTTTAAGT 59.003 33.333 5.31 0.00 42.60 2.24
841 3954 8.290325 CCAGGTCTTATTCAAACTGTTTAAGTC 58.710 37.037 5.31 4.28 38.56 3.01
842 3955 8.009974 CAGGTCTTATTCAAACTGTTTAAGTCG 58.990 37.037 5.31 0.00 38.56 4.18
843 3956 7.172703 AGGTCTTATTCAAACTGTTTAAGTCGG 59.827 37.037 5.31 0.00 38.56 4.79
844 3957 6.795593 GTCTTATTCAAACTGTTTAAGTCGGC 59.204 38.462 5.31 0.00 38.56 5.54
845 3958 3.974871 TTCAAACTGTTTAAGTCGGCC 57.025 42.857 5.31 0.00 38.56 6.13
846 3959 3.202829 TCAAACTGTTTAAGTCGGCCT 57.797 42.857 5.31 0.00 38.56 5.19
847 3960 2.875933 TCAAACTGTTTAAGTCGGCCTG 59.124 45.455 5.31 0.00 38.56 4.85
848 3961 1.235724 AACTGTTTAAGTCGGCCTGC 58.764 50.000 0.00 0.00 38.56 4.85
849 3962 0.396811 ACTGTTTAAGTCGGCCTGCT 59.603 50.000 0.00 0.00 31.64 4.24
850 3963 0.798776 CTGTTTAAGTCGGCCTGCTG 59.201 55.000 0.00 0.00 0.00 4.41
851 3964 0.605319 TGTTTAAGTCGGCCTGCTGG 60.605 55.000 5.03 5.03 0.00 4.85
852 3965 1.002624 TTTAAGTCGGCCTGCTGGG 60.003 57.895 12.06 1.66 38.36 4.45
867 3980 4.489771 GGGCCACCTCCCGTGATG 62.490 72.222 4.39 0.00 46.20 3.07
868 3981 4.489771 GGCCACCTCCCGTGATGG 62.490 72.222 0.00 0.00 46.20 3.51
887 4000 4.609018 CCGCGGCCTACCTCCATG 62.609 72.222 14.67 0.00 0.00 3.66
888 4001 3.536917 CGCGGCCTACCTCCATGA 61.537 66.667 0.00 0.00 0.00 3.07
889 4002 2.423446 GCGGCCTACCTCCATGAG 59.577 66.667 0.00 0.00 0.00 2.90
900 4013 1.414158 CTCCATGAGGATACCCGTGT 58.586 55.000 0.00 0.00 44.70 4.49
901 4014 1.341531 CTCCATGAGGATACCCGTGTC 59.658 57.143 0.00 0.00 44.70 3.67
902 4015 0.393077 CCATGAGGATACCCGTGTCC 59.607 60.000 2.56 2.56 40.69 4.02
903 4016 0.393077 CATGAGGATACCCGTGTCCC 59.607 60.000 6.98 0.76 41.22 4.46
904 4017 0.031515 ATGAGGATACCCGTGTCCCA 60.032 55.000 6.98 5.83 41.22 4.37
905 4018 0.031515 TGAGGATACCCGTGTCCCAT 60.032 55.000 6.98 0.00 41.22 4.00
906 4019 1.218450 TGAGGATACCCGTGTCCCATA 59.782 52.381 6.98 0.00 41.22 2.74
907 4020 2.158219 TGAGGATACCCGTGTCCCATAT 60.158 50.000 6.98 0.00 41.22 1.78
908 4021 2.496470 GAGGATACCCGTGTCCCATATC 59.504 54.545 6.98 0.00 41.22 1.63
909 4022 1.553704 GGATACCCGTGTCCCATATCC 59.446 57.143 0.00 0.00 35.14 2.59
910 4023 2.253610 GATACCCGTGTCCCATATCCA 58.746 52.381 0.00 0.00 0.00 3.41
911 4024 1.416243 TACCCGTGTCCCATATCCAC 58.584 55.000 0.00 0.00 0.00 4.02
933 4046 6.183360 CCACGACAATTATGCTAATGACTTGT 60.183 38.462 0.00 0.00 0.00 3.16
1023 4138 6.013971 ATGGCGACCATTTTTGGAACAACT 62.014 41.667 5.65 0.00 43.04 3.16
1052 4167 1.064463 GGGGATGAATGCAAGGTCTGA 60.064 52.381 0.00 0.00 0.00 3.27
1088 4204 8.760735 CCTCTCTATTGATATTGATGATGAGGT 58.239 37.037 0.00 0.00 32.63 3.85
1096 4224 7.976712 TGATATTGATGATGAGGTGAATGGTA 58.023 34.615 0.00 0.00 0.00 3.25
1121 4249 1.466950 CAACACGTCACCACAAGTTGT 59.533 47.619 1.64 1.64 34.52 3.32
1184 4312 2.907042 AGGTGGTGAAAGTTCTAGAGGG 59.093 50.000 0.00 0.00 0.00 4.30
1681 4984 7.362662 TGCTGAAAATTGAGTTCTATGTCAAC 58.637 34.615 0.00 0.00 35.55 3.18
1923 5228 2.853705 CCCTTAAGGTGAAACGGACAA 58.146 47.619 20.22 0.00 38.12 3.18
1964 5269 2.890766 GCGTTTGTCCTCCCCTGGA 61.891 63.158 0.00 0.00 0.00 3.86
1997 5308 4.344865 ACAAAGCACCCGCCCGAT 62.345 61.111 0.00 0.00 39.83 4.18
2147 5469 0.606673 GAAGAAGAAGGCGGCCAAGT 60.607 55.000 23.09 5.60 0.00 3.16
2159 5481 0.250338 GGCCAAGTGTCCGAAGAAGT 60.250 55.000 0.00 0.00 0.00 3.01
2228 5550 1.353091 GACCAAGAGGAGGAACCAGT 58.647 55.000 0.00 0.00 42.04 4.00
2344 5666 0.537143 AGGCCATCGTCAACAAAGCA 60.537 50.000 5.01 0.00 0.00 3.91
2359 5681 2.045926 GCACACGCCCTCCTCATT 60.046 61.111 0.00 0.00 0.00 2.57
2368 5690 1.202867 GCCCTCCTCATTCTTGGGATC 60.203 57.143 0.00 0.00 40.23 3.36
2393 5715 1.002792 GTCCAACGAGTTTCTTGGCAC 60.003 52.381 0.00 0.00 37.45 5.01
2395 5717 1.308998 CAACGAGTTTCTTGGCACCT 58.691 50.000 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 5.568482 TGTTTACATCGCATTAAGCATCAC 58.432 37.500 0.00 0.00 46.13 3.06
168 169 2.435938 TCCGCCGAAGCCATCAAC 60.436 61.111 0.00 0.00 34.57 3.18
189 191 2.125952 CACGACGGCTGCAGATGA 60.126 61.111 20.43 0.00 0.00 2.92
257 260 3.315191 GGCAGATATATTGTTTGGTGCGT 59.685 43.478 0.00 0.00 0.00 5.24
386 397 5.699458 GTGTCGAGTTCTTAAAGGGATTTCA 59.301 40.000 0.00 0.00 0.00 2.69
406 417 2.809601 CTAGCGCACGGTGGTGTC 60.810 66.667 11.47 0.00 46.13 3.67
476 3585 1.025812 CCTCGCGACTAAGTCCTGAT 58.974 55.000 3.71 0.00 0.00 2.90
605 3715 7.336396 ACCGTGATCATCATCATCAATATCAT 58.664 34.615 0.00 0.00 41.26 2.45
790 3903 7.656137 GGATTGCTATCCGTCTTGTAATAGAAA 59.344 37.037 11.51 0.00 40.98 2.52
810 3923 5.183904 ACAGTTTGAATAAGACCTGGATTGC 59.816 40.000 0.00 0.00 0.00 3.56
811 3924 6.824305 ACAGTTTGAATAAGACCTGGATTG 57.176 37.500 0.00 0.00 0.00 2.67
813 3926 8.934023 TTAAACAGTTTGAATAAGACCTGGAT 57.066 30.769 8.93 0.00 0.00 3.41
825 3938 3.314080 CAGGCCGACTTAAACAGTTTGAA 59.686 43.478 8.93 0.00 35.01 2.69
826 3939 2.875933 CAGGCCGACTTAAACAGTTTGA 59.124 45.455 8.93 0.00 35.01 2.69
827 3940 2.604614 GCAGGCCGACTTAAACAGTTTG 60.605 50.000 8.93 0.00 35.01 2.93
828 3941 1.607148 GCAGGCCGACTTAAACAGTTT 59.393 47.619 3.49 3.49 35.01 2.66
829 3942 1.202770 AGCAGGCCGACTTAAACAGTT 60.203 47.619 0.00 0.00 35.01 3.16
830 3943 0.396811 AGCAGGCCGACTTAAACAGT 59.603 50.000 0.00 0.00 39.07 3.55
831 3944 0.798776 CAGCAGGCCGACTTAAACAG 59.201 55.000 0.00 0.00 0.00 3.16
832 3945 0.605319 CCAGCAGGCCGACTTAAACA 60.605 55.000 0.00 0.00 0.00 2.83
833 3946 1.305930 CCCAGCAGGCCGACTTAAAC 61.306 60.000 0.00 0.00 0.00 2.01
834 3947 1.002624 CCCAGCAGGCCGACTTAAA 60.003 57.895 0.00 0.00 0.00 1.52
835 3948 2.668632 CCCAGCAGGCCGACTTAA 59.331 61.111 0.00 0.00 0.00 1.85
850 3963 4.489771 CATCACGGGAGGTGGCCC 62.490 72.222 0.00 0.00 46.96 5.80
851 3964 4.489771 CCATCACGGGAGGTGGCC 62.490 72.222 0.00 0.00 46.96 5.36
870 3983 4.609018 CATGGAGGTAGGCCGCGG 62.609 72.222 24.05 24.05 40.50 6.46
871 3984 3.506059 CTCATGGAGGTAGGCCGCG 62.506 68.421 0.00 0.00 40.50 6.46
872 3985 2.423446 CTCATGGAGGTAGGCCGC 59.577 66.667 0.00 0.00 40.50 6.53
873 3986 3.142393 CCTCATGGAGGTAGGCCG 58.858 66.667 0.00 0.00 44.25 6.13
881 3994 1.341531 GACACGGGTATCCTCATGGAG 59.658 57.143 0.00 0.00 46.91 3.86
883 3996 0.393077 GGACACGGGTATCCTCATGG 59.607 60.000 0.00 0.00 31.75 3.66
884 3997 0.393077 GGGACACGGGTATCCTCATG 59.607 60.000 0.00 0.00 35.15 3.07
885 3998 0.031515 TGGGACACGGGTATCCTCAT 60.032 55.000 10.51 0.00 35.15 2.90
886 3999 1.388928 TGGGACACGGGTATCCTCA 59.611 57.895 10.51 0.00 35.15 3.86
887 4000 4.368003 TGGGACACGGGTATCCTC 57.632 61.111 10.51 0.00 35.15 3.71
899 4012 4.154195 GCATAATTGTCGTGGATATGGGAC 59.846 45.833 0.00 0.00 0.00 4.46
900 4013 4.041567 AGCATAATTGTCGTGGATATGGGA 59.958 41.667 0.00 0.00 0.00 4.37
901 4014 4.326826 AGCATAATTGTCGTGGATATGGG 58.673 43.478 0.00 0.00 0.00 4.00
902 4015 7.334171 TCATTAGCATAATTGTCGTGGATATGG 59.666 37.037 0.00 0.00 0.00 2.74
903 4016 8.171196 GTCATTAGCATAATTGTCGTGGATATG 58.829 37.037 0.00 0.00 0.00 1.78
904 4017 8.097038 AGTCATTAGCATAATTGTCGTGGATAT 58.903 33.333 0.00 0.00 0.00 1.63
905 4018 7.441836 AGTCATTAGCATAATTGTCGTGGATA 58.558 34.615 0.00 0.00 0.00 2.59
906 4019 6.291377 AGTCATTAGCATAATTGTCGTGGAT 58.709 36.000 0.00 0.00 0.00 3.41
907 4020 5.670485 AGTCATTAGCATAATTGTCGTGGA 58.330 37.500 0.00 0.00 0.00 4.02
908 4021 5.991328 AGTCATTAGCATAATTGTCGTGG 57.009 39.130 0.00 0.00 0.00 4.94
909 4022 6.684131 CACAAGTCATTAGCATAATTGTCGTG 59.316 38.462 0.00 0.00 0.00 4.35
910 4023 6.593770 TCACAAGTCATTAGCATAATTGTCGT 59.406 34.615 0.00 0.00 0.00 4.34
911 4024 7.003939 TCACAAGTCATTAGCATAATTGTCG 57.996 36.000 0.00 0.00 0.00 4.35
912 4025 9.793252 AATTCACAAGTCATTAGCATAATTGTC 57.207 29.630 0.00 0.00 0.00 3.18
1023 4138 1.063266 GCATTCATCCCCTTAACCCCA 60.063 52.381 0.00 0.00 0.00 4.96
1028 4143 3.269381 AGACCTTGCATTCATCCCCTTAA 59.731 43.478 0.00 0.00 0.00 1.85
1088 4204 4.688879 GTGACGTGTTGATCTTACCATTCA 59.311 41.667 0.00 0.00 0.00 2.57
1096 4224 2.613026 TGTGGTGACGTGTTGATCTT 57.387 45.000 0.00 0.00 0.00 2.40
1184 4312 1.555075 TGAGAATGGCACCTAGTGGAC 59.445 52.381 0.00 0.00 37.04 4.02
1764 5069 5.782893 CCAGTGTTTGGTTTGGAAGAATA 57.217 39.130 0.00 0.00 42.41 1.75
1873 5178 3.214328 GTTGAGGAACCAACTGTCATGT 58.786 45.455 0.00 0.00 42.20 3.21
1974 5279 2.906897 CGGGTGCTTTGTGCCACT 60.907 61.111 0.00 0.00 42.00 4.00
2076 5398 2.044451 AAATTCGGCGGGGCATCA 60.044 55.556 7.21 0.00 0.00 3.07
2120 5442 1.461127 CGCCTTCTTCTTCACCTTTCG 59.539 52.381 0.00 0.00 0.00 3.46
2159 5481 4.394078 CGTGAGTTCCGACCGCGA 62.394 66.667 8.23 0.00 40.82 5.87
2210 5532 1.059913 CACTGGTTCCTCCTCTTGGT 58.940 55.000 0.00 0.00 37.07 3.67
2257 5579 4.169696 TAGGCGGCGAACATGGGG 62.170 66.667 12.98 0.00 0.00 4.96
2273 5595 1.450134 CCTCCAATGCAGCACGCTA 60.450 57.895 0.00 0.00 43.06 4.26
2308 5630 2.670592 TCCTTCTCGTCGGCGTCA 60.671 61.111 10.18 0.00 39.49 4.35
2344 5666 0.036010 CAAGAATGAGGAGGGCGTGT 60.036 55.000 0.00 0.00 0.00 4.49
2359 5681 1.275291 GTTGGACGACAGATCCCAAGA 59.725 52.381 0.00 0.00 39.12 3.02
2368 5690 2.135664 AGAAACTCGTTGGACGACAG 57.864 50.000 0.00 0.00 46.73 3.51


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

AutoCloner maintained by Alex Coulton.