Multiple sequence alignment - TraesCS5D01G083400

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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 TraesCS5D01G083400 chr5D 100.000 5159 0 0 1 5159 87168030 87173188 0.000000e+00 9527
1 TraesCS5D01G083400 chr5D 96.552 116 4 0 2313 2428 87170286 87170401 5.270000e-45 193
2 TraesCS5D01G083400 chr5D 96.552 116 4 0 2257 2372 87170342 87170457 5.270000e-45 193
3 TraesCS5D01G083400 chr5A 96.522 4255 109 12 935 5159 80150992 80155237 0.000000e+00 7001
4 TraesCS5D01G083400 chr5A 92.350 915 59 7 1 909 23170134 23169225 0.000000e+00 1291
5 TraesCS5D01G083400 chr5A 97.414 116 3 0 2313 2428 80152312 80152427 1.130000e-46 198
6 TraesCS5D01G083400 chr5A 96.552 116 4 0 2257 2372 80152368 80152483 5.270000e-45 193
7 TraesCS5D01G083400 chr5B 94.341 2085 95 10 1500 3579 93208301 93210367 0.000000e+00 3175
8 TraesCS5D01G083400 chr5B 93.561 1584 68 12 3598 5159 93210357 93211928 0.000000e+00 2329
9 TraesCS5D01G083400 chr5B 92.323 495 26 3 975 1461 93207809 93208299 0.000000e+00 693
10 TraesCS5D01G083400 chr5B 96.552 116 4 0 2313 2428 93209046 93209161 5.270000e-45 193
11 TraesCS5D01G083400 chr5B 94.828 116 6 0 2257 2372 93209102 93209217 1.140000e-41 182
12 TraesCS5D01G083400 chr5B 96.667 60 2 0 2369 2428 93209046 93209105 3.290000e-17 100
13 TraesCS5D01G083400 chr3B 92.459 915 63 3 1 909 501982035 501981121 0.000000e+00 1303
14 TraesCS5D01G083400 chr3B 92.467 916 62 3 1 909 581680467 581679552 0.000000e+00 1303
15 TraesCS5D01G083400 chr3B 92.350 915 64 3 1 909 60268231 60269145 0.000000e+00 1297
16 TraesCS5D01G083400 chr1B 92.459 915 63 3 1 909 95486137 95485223 0.000000e+00 1303
17 TraesCS5D01G083400 chr3A 92.350 915 64 3 1 909 605250251 605251165 0.000000e+00 1297
18 TraesCS5D01G083400 chr2A 92.240 915 65 3 1 909 249757085 249756171 0.000000e+00 1291
19 TraesCS5D01G083400 chr1A 92.240 915 64 4 1 909 589037819 589038732 0.000000e+00 1290
20 TraesCS5D01G083400 chr2B 92.022 915 67 3 1 909 445270274 445271188 0.000000e+00 1280


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 TraesCS5D01G083400 chr5D 87168030 87173188 5158 False 3304.333333 9527 97.701333 1 5159 3 chr5D.!!$F1 5158
1 TraesCS5D01G083400 chr5A 80150992 80155237 4245 False 2464.000000 7001 96.829333 935 5159 3 chr5A.!!$F1 4224
2 TraesCS5D01G083400 chr5A 23169225 23170134 909 True 1291.000000 1291 92.350000 1 909 1 chr5A.!!$R1 908
3 TraesCS5D01G083400 chr5B 93207809 93211928 4119 False 1112.000000 3175 94.712000 975 5159 6 chr5B.!!$F1 4184
4 TraesCS5D01G083400 chr3B 501981121 501982035 914 True 1303.000000 1303 92.459000 1 909 1 chr3B.!!$R1 908
5 TraesCS5D01G083400 chr3B 581679552 581680467 915 True 1303.000000 1303 92.467000 1 909 1 chr3B.!!$R2 908
6 TraesCS5D01G083400 chr3B 60268231 60269145 914 False 1297.000000 1297 92.350000 1 909 1 chr3B.!!$F1 908
7 TraesCS5D01G083400 chr1B 95485223 95486137 914 True 1303.000000 1303 92.459000 1 909 1 chr1B.!!$R1 908
8 TraesCS5D01G083400 chr3A 605250251 605251165 914 False 1297.000000 1297 92.350000 1 909 1 chr3A.!!$F1 908
9 TraesCS5D01G083400 chr2A 249756171 249757085 914 True 1291.000000 1291 92.240000 1 909 1 chr2A.!!$R1 908
10 TraesCS5D01G083400 chr1A 589037819 589038732 913 False 1290.000000 1290 92.240000 1 909 1 chr1A.!!$F1 908
11 TraesCS5D01G083400 chr2B 445270274 445271188 914 False 1280.000000 1280 92.022000 1 909 1 chr2B.!!$F1 908

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
654 661 0.459489 CCAAAGAGAGGGAGAGAGCG 59.541 60.0 0.00 0.0 0.00 5.03 F
679 686 0.616964 AAGACCTAGGGACCGGGAAC 60.617 60.0 14.81 0.0 0.00 3.62 F
1923 1943 0.378962 AACGTGTTAAGCAGCGCAAA 59.621 45.0 11.47 0.0 0.00 3.68 F
2920 2940 0.396139 CTCTCTGCTCTCCTCAGGCT 60.396 60.0 0.00 0.0 32.63 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1901 1921 1.129809 CGCTGCTTAACACGTTCGG 59.870 57.895 0.00 0.0 0.00 4.30 R
2319 2339 2.483877 TGCTACAGCCAAAAGAACATCG 59.516 45.455 0.00 0.0 41.18 3.84 R
3698 3722 0.035915 GAGGCCAGAAACCCTGTCTC 60.036 60.000 5.01 0.0 41.33 3.36 R
4361 4412 1.270826 CAGAGAACAGAGCCTTCGTCA 59.729 52.381 0.00 0.0 0.00 4.35 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 8.041323 CACTTCTTAAATCCTACATACACCACT 58.959 37.037 0.00 0.00 0.00 4.00
71 72 4.959210 AGTGCACTGAGAATACTCCTACAT 59.041 41.667 20.97 0.00 41.99 2.29
98 99 8.582437 AGAAAAATGAGCTCATTCATCTTTTGA 58.418 29.630 35.67 3.15 45.06 2.69
113 114 7.543172 TTCATCTTTTGAATTGCTTCTGCATAC 59.457 33.333 0.00 0.00 43.08 2.39
125 126 2.247358 TCTGCATACACCACAGTCTCA 58.753 47.619 0.00 0.00 33.12 3.27
134 135 1.202580 ACCACAGTCTCAACAGTGCTC 60.203 52.381 0.00 0.00 40.51 4.26
138 139 1.047002 AGTCTCAACAGTGCTCTGCT 58.953 50.000 15.50 0.26 44.77 4.24
193 194 2.346766 TCACTTGCAATGACACCAGT 57.653 45.000 0.00 0.00 0.00 4.00
213 214 6.147821 ACCAGTCGAATCAAAACTACTCAATG 59.852 38.462 0.00 0.00 0.00 2.82
216 217 6.017933 GTCGAATCAAAACTACTCAATGCAG 58.982 40.000 0.00 0.00 0.00 4.41
218 219 5.122239 CGAATCAAAACTACTCAATGCAGGA 59.878 40.000 0.00 0.00 0.00 3.86
224 225 2.094494 ACTACTCAATGCAGGACTGACG 60.094 50.000 3.00 0.00 0.00 4.35
231 232 1.080025 GCAGGACTGACGTACCCAC 60.080 63.158 3.00 0.00 0.00 4.61
300 301 3.405823 AATGTTGGCAAGGATTTGGTG 57.594 42.857 0.00 0.00 34.79 4.17
309 310 3.119352 GCAAGGATTTGGTGGAATCTGAC 60.119 47.826 0.00 0.00 36.50 3.51
320 321 5.006386 GGTGGAATCTGACAGAAATTGAGT 58.994 41.667 9.70 0.00 0.00 3.41
372 379 7.901889 CAGAAACATCAAATCGATCACTTGTAG 59.098 37.037 0.00 0.47 29.21 2.74
378 385 9.468532 CATCAAATCGATCACTTGTAGAAGATA 57.531 33.333 6.63 0.00 30.00 1.98
427 434 1.304282 TCCTGCCAGGATTTGCCTC 59.696 57.895 10.05 0.00 46.97 4.70
502 509 3.576356 CGGCAGCATACCCGCTTG 61.576 66.667 0.00 0.00 41.38 4.01
503 510 3.211963 GGCAGCATACCCGCTTGG 61.212 66.667 0.00 0.00 41.38 3.61
608 615 3.118454 GCAAACGAGCTAGCGGCA 61.118 61.111 9.55 0.00 44.79 5.69
654 661 0.459489 CCAAAGAGAGGGAGAGAGCG 59.541 60.000 0.00 0.00 0.00 5.03
677 684 1.219824 AGAAGACCTAGGGACCGGGA 61.220 60.000 14.81 0.00 0.00 5.14
679 686 0.616964 AAGACCTAGGGACCGGGAAC 60.617 60.000 14.81 0.00 0.00 3.62
719 727 2.567169 AGGGGCCAAACTGCTTAAATTC 59.433 45.455 4.39 0.00 0.00 2.17
740 748 3.122727 AACCTCCAACCGCGGGAAA 62.123 57.895 31.76 10.91 33.11 3.13
742 750 2.112815 CCTCCAACCGCGGGAAATC 61.113 63.158 31.76 0.00 33.11 2.17
772 780 4.813526 CCTCGAGTCGACGTGGCG 62.814 72.222 12.09 12.66 39.39 5.69
846 854 4.131596 CCTCGGGTGAACAACTTAGAAAA 58.868 43.478 0.00 0.00 0.00 2.29
870 878 4.853468 TTAGGACCCAGATGTGCATTTA 57.147 40.909 0.00 0.00 0.00 1.40
871 879 3.737559 AGGACCCAGATGTGCATTTAA 57.262 42.857 0.00 0.00 0.00 1.52
909 917 5.458779 CCAATCGACACTTTTGGAAAAGAAC 59.541 40.000 16.87 7.77 46.39 3.01
910 918 6.265577 CAATCGACACTTTTGGAAAAGAACT 58.734 36.000 16.87 0.99 46.39 3.01
911 919 5.479716 TCGACACTTTTGGAAAAGAACTC 57.520 39.130 16.87 7.94 46.39 3.01
912 920 5.183228 TCGACACTTTTGGAAAAGAACTCT 58.817 37.500 16.87 0.00 46.39 3.24
913 921 5.646360 TCGACACTTTTGGAAAAGAACTCTT 59.354 36.000 16.87 0.00 46.39 2.85
914 922 5.739161 CGACACTTTTGGAAAAGAACTCTTG 59.261 40.000 16.87 7.38 46.39 3.02
915 923 5.410924 ACACTTTTGGAAAAGAACTCTTGC 58.589 37.500 16.87 0.00 46.39 4.01
916 924 5.047377 ACACTTTTGGAAAAGAACTCTTGCA 60.047 36.000 16.87 0.00 46.39 4.08
917 925 6.044682 CACTTTTGGAAAAGAACTCTTGCAT 58.955 36.000 16.87 0.00 46.39 3.96
918 926 6.536224 CACTTTTGGAAAAGAACTCTTGCATT 59.464 34.615 16.87 0.00 46.39 3.56
919 927 7.064966 CACTTTTGGAAAAGAACTCTTGCATTT 59.935 33.333 16.87 0.00 46.39 2.32
920 928 7.607607 ACTTTTGGAAAAGAACTCTTGCATTTT 59.392 29.630 16.87 0.00 46.39 1.82
921 929 9.097257 CTTTTGGAAAAGAACTCTTGCATTTTA 57.903 29.630 6.05 0.00 46.39 1.52
922 930 8.419076 TTTGGAAAAGAACTCTTGCATTTTAC 57.581 30.769 0.00 0.00 36.12 2.01
923 931 7.346751 TGGAAAAGAACTCTTGCATTTTACT 57.653 32.000 3.93 0.00 36.12 2.24
924 932 7.425606 TGGAAAAGAACTCTTGCATTTTACTC 58.574 34.615 3.93 0.00 36.12 2.59
925 933 7.068103 TGGAAAAGAACTCTTGCATTTTACTCA 59.932 33.333 3.93 0.00 36.12 3.41
926 934 7.920682 GGAAAAGAACTCTTGCATTTTACTCAA 59.079 33.333 0.00 0.00 36.12 3.02
927 935 9.301153 GAAAAGAACTCTTGCATTTTACTCAAA 57.699 29.630 0.00 0.00 36.12 2.69
928 936 9.651913 AAAAGAACTCTTGCATTTTACTCAAAA 57.348 25.926 0.00 0.00 35.84 2.44
929 937 9.651913 AAAGAACTCTTGCATTTTACTCAAAAA 57.348 25.926 0.00 0.00 37.58 1.94
930 938 8.634475 AGAACTCTTGCATTTTACTCAAAAAC 57.366 30.769 0.00 0.00 39.82 2.43
931 939 8.470002 AGAACTCTTGCATTTTACTCAAAAACT 58.530 29.630 0.00 0.00 39.82 2.66
932 940 9.730420 GAACTCTTGCATTTTACTCAAAAACTA 57.270 29.630 0.00 0.00 39.82 2.24
940 948 7.973944 GCATTTTACTCAAAAACTATACCCCTG 59.026 37.037 0.00 0.00 39.82 4.45
944 952 9.643735 TTTACTCAAAAACTATACCCCTGAAAA 57.356 29.630 0.00 0.00 0.00 2.29
1901 1921 3.062763 CCACGATCAGTTCTGATATGGC 58.937 50.000 21.84 9.46 31.81 4.40
1923 1943 0.378962 AACGTGTTAAGCAGCGCAAA 59.621 45.000 11.47 0.00 0.00 3.68
2116 2136 0.609957 TGCATGTTCTCTTGGCCCAG 60.610 55.000 0.00 0.00 0.00 4.45
2160 2180 9.436957 GTTCTTGACATATGTTTCTTTCCTCTA 57.563 33.333 10.30 0.00 0.00 2.43
2191 2211 4.393062 AGTCTGAATTAACAGGATTGTGCG 59.607 41.667 0.00 0.00 37.67 5.34
2319 2339 7.275779 TCTCGATGCAAAGTTCTGTACTAATTC 59.724 37.037 0.00 0.00 35.54 2.17
2589 2609 2.735772 CCGCCCTGCAGGTATGTCT 61.736 63.158 30.63 0.00 38.26 3.41
2633 2653 5.881443 TCAATTATGTGCTGTGATCATGTGA 59.119 36.000 0.00 0.00 0.00 3.58
2672 2692 6.895040 GCAAGTCATCGACTAAAATTACTTCG 59.105 38.462 0.00 0.00 42.59 3.79
2778 2798 2.291217 GCTTCCCCTGGAAAGATCAACT 60.291 50.000 11.53 0.00 41.54 3.16
2788 2808 4.020218 TGGAAAGATCAACTACACCTCCTG 60.020 45.833 0.00 0.00 0.00 3.86
2887 2907 9.562583 GATCTTACAGTTCACTCACTAAAGTAG 57.437 37.037 0.00 0.00 0.00 2.57
2920 2940 0.396139 CTCTCTGCTCTCCTCAGGCT 60.396 60.000 0.00 0.00 32.63 4.58
3122 3142 7.182930 AGGATATCTCTTACAGGTCTTGGTTTT 59.817 37.037 2.05 0.00 0.00 2.43
3395 3415 4.685169 TGCTTTGCACTATAGCTGTTTC 57.315 40.909 0.00 0.00 35.93 2.78
3429 3449 8.442384 GTTTTGGGTTACAGATTGCAATTATTG 58.558 33.333 14.33 14.33 0.00 1.90
3578 3598 1.558294 ACTTGGAGCTGATCATGCTGA 59.442 47.619 19.95 7.53 41.30 4.26
3580 3600 1.201424 TGGAGCTGATCATGCTGACT 58.799 50.000 19.95 2.22 41.30 3.41
3697 3721 2.494530 GCTAGAGGAGGACAGCCGG 61.495 68.421 0.00 0.00 39.96 6.13
3698 3722 1.830408 CTAGAGGAGGACAGCCGGG 60.830 68.421 2.18 0.00 39.96 5.73
4033 4058 6.584184 CACACACACTGTTGTATAGAGAAGAG 59.416 42.308 0.00 0.00 33.30 2.85
4142 4178 4.713824 ATTCAACTCCATGCATGAACAG 57.286 40.909 28.31 20.49 34.88 3.16
4272 4320 3.139397 TGTCCATGGGAAAACTGGTACTT 59.861 43.478 13.02 0.00 31.38 2.24
4325 4376 0.461961 CCCTCTCAACTCCGGCTAAG 59.538 60.000 0.00 0.00 0.00 2.18
4361 4412 2.933287 TGGAGGGGATGCAACGGT 60.933 61.111 0.00 0.00 0.00 4.83
4460 4514 2.225491 GGTGCATGCAAGTTCGTTTCTA 59.775 45.455 24.58 0.00 0.00 2.10
4617 4675 4.855715 TGGAACACAACAACAAAACTGA 57.144 36.364 0.00 0.00 0.00 3.41
4677 4735 2.029518 CTCCACAGCAGCACGTCA 59.970 61.111 0.00 0.00 0.00 4.35
4788 4846 2.063266 TCTTGCACGTAAGCTTTACCG 58.937 47.619 3.20 7.81 45.62 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 6.422701 GTGCACTTGTTGTACTGATTGTAGTA 59.577 38.462 10.32 0.00 37.81 1.82
71 72 9.850628 CAAAAGATGAATGAGCTCATTTTTCTA 57.149 29.630 35.91 22.17 45.72 2.10
125 126 0.950116 GAGCAAAGCAGAGCACTGTT 59.050 50.000 12.89 3.63 45.04 3.16
152 153 2.439507 AGAAACAGAGGTGCAAGAGGAA 59.560 45.455 0.00 0.00 0.00 3.36
153 154 2.050144 AGAAACAGAGGTGCAAGAGGA 58.950 47.619 0.00 0.00 0.00 3.71
155 156 3.249559 GTGAAGAAACAGAGGTGCAAGAG 59.750 47.826 0.00 0.00 0.00 2.85
193 194 5.122239 CCTGCATTGAGTAGTTTTGATTCGA 59.878 40.000 0.00 0.00 0.00 3.71
200 201 4.757149 GTCAGTCCTGCATTGAGTAGTTTT 59.243 41.667 0.00 0.00 0.00 2.43
206 207 0.681733 ACGTCAGTCCTGCATTGAGT 59.318 50.000 0.00 0.00 0.00 3.41
213 214 1.080025 GTGGGTACGTCAGTCCTGC 60.080 63.158 0.00 0.00 0.00 4.85
216 217 0.611340 AGAGGTGGGTACGTCAGTCC 60.611 60.000 0.00 0.00 42.61 3.85
218 219 0.111832 TGAGAGGTGGGTACGTCAGT 59.888 55.000 0.00 0.00 42.61 3.41
224 225 2.943036 TTTTGGTGAGAGGTGGGTAC 57.057 50.000 0.00 0.00 0.00 3.34
333 336 7.593875 TTGATGTTTCTGTGTTTCTTTTTGG 57.406 32.000 0.00 0.00 0.00 3.28
372 379 5.183904 GCCCCAATCACCATGTAATATCTTC 59.816 44.000 0.00 0.00 0.00 2.87
378 385 2.024080 AGTGCCCCAATCACCATGTAAT 60.024 45.455 0.00 0.00 35.14 1.89
427 434 3.870723 TTCGTCTTGTGTCAAAATCGG 57.129 42.857 2.23 0.00 0.00 4.18
500 507 1.143838 CATCTCATCGCCGACCCAA 59.856 57.895 0.00 0.00 0.00 4.12
501 508 2.796193 CCATCTCATCGCCGACCCA 61.796 63.158 0.00 0.00 0.00 4.51
502 509 2.029666 CCATCTCATCGCCGACCC 59.970 66.667 0.00 0.00 0.00 4.46
503 510 2.029666 CCCATCTCATCGCCGACC 59.970 66.667 0.00 0.00 0.00 4.79
505 512 4.284860 CGCCCATCTCATCGCCGA 62.285 66.667 0.00 0.00 0.00 5.54
608 615 4.760047 GTCACCGCCATGTCCGCT 62.760 66.667 0.00 0.00 0.00 5.52
638 645 0.751643 GCTCGCTCTCTCCCTCTCTT 60.752 60.000 0.00 0.00 0.00 2.85
654 661 1.116308 GGTCCCTAGGTCTTCTGCTC 58.884 60.000 8.29 0.00 0.00 4.26
677 684 4.003648 CTGGAGTTTATGCTTTCCTCGTT 58.996 43.478 0.00 0.00 0.00 3.85
679 686 2.939103 CCTGGAGTTTATGCTTTCCTCG 59.061 50.000 0.00 0.00 0.00 4.63
680 687 3.282885 CCCTGGAGTTTATGCTTTCCTC 58.717 50.000 0.00 0.00 0.00 3.71
681 688 2.024941 CCCCTGGAGTTTATGCTTTCCT 60.025 50.000 0.00 0.00 0.00 3.36
682 689 2.379005 CCCCTGGAGTTTATGCTTTCC 58.621 52.381 0.00 0.00 0.00 3.13
683 690 1.751351 GCCCCTGGAGTTTATGCTTTC 59.249 52.381 0.00 0.00 0.00 2.62
684 691 1.619704 GGCCCCTGGAGTTTATGCTTT 60.620 52.381 0.00 0.00 0.00 3.51
686 693 1.214305 TGGCCCCTGGAGTTTATGCT 61.214 55.000 0.00 0.00 0.00 3.79
687 694 0.324275 TTGGCCCCTGGAGTTTATGC 60.324 55.000 0.00 0.00 0.00 3.14
688 695 1.824852 GTTTGGCCCCTGGAGTTTATG 59.175 52.381 0.00 0.00 0.00 1.90
689 696 1.716503 AGTTTGGCCCCTGGAGTTTAT 59.283 47.619 0.00 0.00 0.00 1.40
690 697 1.154430 AGTTTGGCCCCTGGAGTTTA 58.846 50.000 0.00 0.00 0.00 2.01
748 756 4.671590 TCGACTCGAGGGCCCACA 62.672 66.667 27.56 5.76 0.00 4.17
805 813 3.170717 AGGTCCTAATTTCGTCTGACCA 58.829 45.455 8.98 0.00 43.68 4.02
808 816 2.426024 CCGAGGTCCTAATTTCGTCTGA 59.574 50.000 0.00 0.00 0.00 3.27
846 854 3.737559 TGCACATCTGGGTCCTAATTT 57.262 42.857 0.00 0.00 0.00 1.82
848 856 3.959495 AATGCACATCTGGGTCCTAAT 57.041 42.857 0.00 0.00 0.00 1.73
875 883 4.569719 AGTGTCGATTGGGTCCTAATTT 57.430 40.909 1.46 0.00 0.00 1.82
911 919 9.353999 GGGTATAGTTTTTGAGTAAAATGCAAG 57.646 33.333 0.00 0.00 37.98 4.01
912 920 8.308207 GGGGTATAGTTTTTGAGTAAAATGCAA 58.692 33.333 0.00 0.00 37.98 4.08
913 921 7.672239 AGGGGTATAGTTTTTGAGTAAAATGCA 59.328 33.333 0.00 0.00 37.98 3.96
914 922 7.973944 CAGGGGTATAGTTTTTGAGTAAAATGC 59.026 37.037 0.00 0.00 37.98 3.56
915 923 9.238368 TCAGGGGTATAGTTTTTGAGTAAAATG 57.762 33.333 0.00 0.00 37.98 2.32
916 924 9.816787 TTCAGGGGTATAGTTTTTGAGTAAAAT 57.183 29.630 0.00 0.00 37.98 1.82
917 925 9.643735 TTTCAGGGGTATAGTTTTTGAGTAAAA 57.356 29.630 0.00 0.00 34.13 1.52
918 926 9.643735 TTTTCAGGGGTATAGTTTTTGAGTAAA 57.356 29.630 0.00 0.00 0.00 2.01
919 927 9.643735 TTTTTCAGGGGTATAGTTTTTGAGTAA 57.356 29.630 0.00 0.00 0.00 2.24
1080 1088 4.400961 GCAGGAGGCGCAAGAGGT 62.401 66.667 10.83 0.00 43.02 3.85
1901 1921 1.129809 CGCTGCTTAACACGTTCGG 59.870 57.895 0.00 0.00 0.00 4.30
2116 2136 7.436673 GTCAAGAACACTGACCATATCATAGAC 59.563 40.741 0.00 0.00 36.48 2.59
2319 2339 2.483877 TGCTACAGCCAAAAGAACATCG 59.516 45.455 0.00 0.00 41.18 3.84
2515 2535 4.399303 CGCTCTGGGACTTTCCAAATATTT 59.601 41.667 0.00 0.00 38.64 1.40
2589 2609 5.955961 TGATTGTGACTGATGGGAATCTA 57.044 39.130 0.00 0.00 0.00 1.98
2633 2653 5.627499 ATGACTTGCATTCATAACGTGTT 57.373 34.783 9.11 0.00 31.73 3.32
2672 2692 5.385509 TTTAGCCTAACAACAAGAATGCC 57.614 39.130 0.00 0.00 0.00 4.40
2752 2772 2.845659 TCTTTCCAGGGGAAGCATCTA 58.154 47.619 1.15 0.00 43.06 1.98
2778 2798 7.632898 GCAACTGATATAAGAACAGGAGGTGTA 60.633 40.741 0.00 0.00 39.03 2.90
2788 2808 6.455646 CGGAACTGTGCAACTGATATAAGAAC 60.456 42.308 0.00 0.00 39.30 3.01
2887 2907 2.626840 CAGAGAGCAAAAGGGTAGAGC 58.373 52.381 0.00 0.00 0.00 4.09
2920 2940 1.003580 GCCTCCAACTGAAGACCATGA 59.996 52.381 0.00 0.00 0.00 3.07
3122 3142 4.347000 AGGTGGTTTCTAGCTGTAGTTTCA 59.653 41.667 0.00 0.00 0.00 2.69
3395 3415 3.556775 TCTGTAACCCAAAACTTCGAACG 59.443 43.478 0.00 0.00 0.00 3.95
3697 3721 1.002011 GGCCAGAAACCCTGTCTCC 60.002 63.158 0.00 0.00 41.33 3.71
3698 3722 0.035915 GAGGCCAGAAACCCTGTCTC 60.036 60.000 5.01 0.00 41.33 3.36
4098 4123 5.762179 TCCTCAAGTTCAGATATTGTGGT 57.238 39.130 12.55 0.00 38.27 4.16
4101 4137 8.734386 GTTGAATTCCTCAAGTTCAGATATTGT 58.266 33.333 2.27 0.00 44.83 2.71
4171 4207 6.430000 GGCTTACAAGAATCTTTCCACACTTA 59.570 38.462 0.00 0.00 0.00 2.24
4272 4320 2.824936 CCCTTTTGTCATACATGGCACA 59.175 45.455 0.00 0.00 42.90 4.57
4361 4412 1.270826 CAGAGAACAGAGCCTTCGTCA 59.729 52.381 0.00 0.00 0.00 4.35
4555 4613 2.428890 GGTTGTGTTGGTGTGGAATTCA 59.571 45.455 7.93 0.00 0.00 2.57
4617 4675 1.701292 TGCTACATGGCATAGGCTGAT 59.299 47.619 0.00 0.00 40.87 2.90
4788 4846 1.690219 ATCATGGCACGGAGGAGGAC 61.690 60.000 0.00 0.00 0.00 3.85
4865 4926 2.359230 GCCGCAAGAAGCAGAGGT 60.359 61.111 0.00 0.00 46.13 3.85


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

AutoCloner maintained by Alex Coulton.