Multiple sequence alignment - TraesCS7B01G317200

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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 TraesCS7B01G317200 chr7B 100.000 3050 0 0 1 3050 567567298 567570347 0.000000e+00 5633.0
1 TraesCS7B01G317200 chr7A 95.726 1240 53 0 908 2147 608922507 608923746 0.000000e+00 1997.0
2 TraesCS7B01G317200 chr7A 89.547 574 41 8 344 912 608921558 608922117 0.000000e+00 710.0
3 TraesCS7B01G317200 chr7A 94.242 330 17 1 2723 3050 608923893 608924222 1.260000e-138 503.0
4 TraesCS7B01G317200 chr7A 97.887 142 3 0 2193 2334 608923745 608923886 2.350000e-61 246.0
5 TraesCS7B01G317200 chr7A 93.617 47 3 0 1 47 608921511 608921557 1.520000e-08 71.3
6 TraesCS7B01G317200 chr7D 94.679 996 41 4 1730 2719 529602978 529603967 0.000000e+00 1535.0
7 TraesCS7B01G317200 chr7D 95.783 830 35 0 908 1737 529586467 529587296 0.000000e+00 1339.0
8 TraesCS7B01G317200 chr7D 93.706 429 21 6 1 426 529582617 529583042 3.320000e-179 638.0
9 TraesCS7B01G317200 chr7D 95.122 328 16 0 2723 3050 529604024 529604351 4.510000e-143 518.0
10 TraesCS7B01G317200 chr5D 92.378 328 25 0 2723 3050 169974981 169975308 4.600000e-128 468.0
11 TraesCS7B01G317200 chr5B 90.854 328 30 0 2723 3050 593661953 593662280 1.000000e-119 440.0
12 TraesCS7B01G317200 chr2D 90.244 328 32 0 2723 3050 386815293 386815620 2.170000e-116 429.0
13 TraesCS7B01G317200 chr2D 85.662 272 38 1 2780 3050 110069329 110069058 4.980000e-73 285.0
14 TraesCS7B01G317200 chr2B 89.024 328 36 0 2723 3050 458106142 458106469 1.020000e-109 407.0
15 TraesCS7B01G317200 chr2A 86.066 244 31 3 2473 2715 106124648 106124889 3.020000e-65 259.0
16 TraesCS7B01G317200 chr3B 83.784 259 41 1 2793 3050 663414911 663415169 8.450000e-61 244.0


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 TraesCS7B01G317200 chr7B 567567298 567570347 3049 False 5633.00 5633 100.0000 1 3050 1 chr7B.!!$F1 3049
1 TraesCS7B01G317200 chr7A 608921511 608924222 2711 False 705.46 1997 94.2038 1 3050 5 chr7A.!!$F1 3049
2 TraesCS7B01G317200 chr7D 529602978 529604351 1373 False 1026.50 1535 94.9005 1730 3050 2 chr7D.!!$F2 1320
3 TraesCS7B01G317200 chr7D 529582617 529587296 4679 False 988.50 1339 94.7445 1 1737 2 chr7D.!!$F1 1736


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
493 3873 0.107017 CCTGGTCATCCGAGGCAAAT 60.107 55.0 0.0 0.0 36.3 2.32 F
1133 4911 0.106708 ATCCGTGGCATAATCAGCGT 59.893 50.0 0.0 0.0 0.0 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1371 5149 0.035439 AGGCAACATAGACGGTTGGG 60.035 55.0 7.31 0.0 44.41 4.12 R
2780 6664 0.234106 CGCTGTCTTCACTTGCACAG 59.766 55.0 0.00 0.0 39.47 3.66 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
28 29 2.280628 CAGTCTCTATTTTCCACGGCC 58.719 52.381 0.00 0.00 0.00 6.13
29 30 1.906574 AGTCTCTATTTTCCACGGCCA 59.093 47.619 2.24 0.00 0.00 5.36
47 48 2.802247 GCCAAAACATGTTTTCCAGCTC 59.198 45.455 29.21 13.33 40.45 4.09
56 57 3.153919 TGTTTTCCAGCTCCCACATTAC 58.846 45.455 0.00 0.00 0.00 1.89
57 58 2.492088 GTTTTCCAGCTCCCACATTACC 59.508 50.000 0.00 0.00 0.00 2.85
100 102 8.807667 ATGAAATAAAAAGACTGCAGTGAAAG 57.192 30.769 27.27 0.00 0.00 2.62
112 114 2.643551 CAGTGAAAGGTGTGTCTTGGT 58.356 47.619 0.00 0.00 0.00 3.67
186 189 3.328931 AGACATCTGAGTGGGAACAACAT 59.671 43.478 0.00 0.00 46.06 2.71
428 3807 6.538021 TGTTTGAATTGTGTTTTCCTGATTGG 59.462 34.615 0.00 0.00 37.10 3.16
478 3858 8.809468 TCTAGTTGTCTATATATGTAGCCTGG 57.191 38.462 1.74 0.00 0.00 4.45
490 3870 3.785859 GCCTGGTCATCCGAGGCA 61.786 66.667 10.05 0.00 46.90 4.75
493 3873 0.107017 CCTGGTCATCCGAGGCAAAT 60.107 55.000 0.00 0.00 36.30 2.32
504 3884 7.591426 GTCATCCGAGGCAAATAAATTGATAAC 59.409 37.037 0.00 0.00 41.85 1.89
531 3911 7.386848 AGACATTTTCTCATGCTCAATTTTTGG 59.613 33.333 0.00 0.00 0.00 3.28
533 3913 4.603989 TTCTCATGCTCAATTTTTGGCA 57.396 36.364 6.07 6.07 39.77 4.92
538 3918 4.467082 TCATGCTCAATTTTTGGCATAGGT 59.533 37.500 12.58 0.00 41.98 3.08
539 3919 4.888326 TGCTCAATTTTTGGCATAGGTT 57.112 36.364 0.00 0.00 33.81 3.50
540 3920 4.819769 TGCTCAATTTTTGGCATAGGTTC 58.180 39.130 0.00 0.00 33.81 3.62
554 3934 5.241728 GGCATAGGTTCTTCTTTTTGTGACT 59.758 40.000 0.00 0.00 0.00 3.41
558 3938 6.319141 AGGTTCTTCTTTTTGTGACTATGC 57.681 37.500 0.00 0.00 0.00 3.14
637 4017 5.944013 GAAGTTTTGCTTCCTGAATACTCC 58.056 41.667 0.00 0.00 45.95 3.85
638 4018 4.003648 AGTTTTGCTTCCTGAATACTCCG 58.996 43.478 0.00 0.00 0.00 4.63
639 4019 3.695830 TTTGCTTCCTGAATACTCCGT 57.304 42.857 0.00 0.00 0.00 4.69
640 4020 4.811969 TTTGCTTCCTGAATACTCCGTA 57.188 40.909 0.00 0.00 0.00 4.02
647 4027 5.899120 TCCTGAATACTCCGTATATGCTC 57.101 43.478 0.00 0.00 0.00 4.26
788 4171 1.079543 AGTGCTCTGCTTGCTACCG 60.080 57.895 0.00 0.00 0.00 4.02
791 4174 1.374758 GCTCTGCTTGCTACCGTGT 60.375 57.895 0.00 0.00 0.00 4.49
849 4232 3.326836 TTGTTGTCGCATGACCTATCA 57.673 42.857 0.00 0.00 44.86 2.15
859 4242 7.598869 TGTCGCATGACCTATCATTCTATTTAC 59.401 37.037 0.00 0.00 43.40 2.01
864 4247 5.305902 TGACCTATCATTCTATTTACGGCCA 59.694 40.000 2.24 0.00 0.00 5.36
878 4261 0.321653 CGGCCAGTCTTTGCCTAGTT 60.322 55.000 2.24 0.00 45.71 2.24
920 4698 6.691818 CCTAGTCTGTATTTGTCGTGTCATAC 59.308 42.308 0.00 0.00 0.00 2.39
945 4723 6.978659 CGTACTGTGAGCTAGAATTTCCATTA 59.021 38.462 0.00 0.00 0.00 1.90
974 4752 2.355108 CGATTGTTCCTCACCCACAGAT 60.355 50.000 0.00 0.00 0.00 2.90
1133 4911 0.106708 ATCCGTGGCATAATCAGCGT 59.893 50.000 0.00 0.00 0.00 5.07
1164 4942 2.970324 GCCACCTGCGTGTTCGAA 60.970 61.111 0.00 0.00 38.41 3.71
1341 5119 1.757306 CAGTGAGGTGCCTCTGGTT 59.243 57.895 17.96 0.35 43.12 3.67
1633 5411 0.770499 TCACTTCCTTGTGGCATCCA 59.230 50.000 0.00 0.00 38.40 3.41
1639 5417 1.171308 CCTTGTGGCATCCAGTGAAG 58.829 55.000 0.00 0.00 32.34 3.02
1683 5461 1.860078 CTTTCGTGGACGGTTCTGC 59.140 57.895 0.00 0.00 40.29 4.26
1686 5464 3.103911 CGTGGACGGTTCTGCGAC 61.104 66.667 0.00 0.00 35.37 5.19
1692 5470 1.214367 GACGGTTCTGCGACTTCAAA 58.786 50.000 0.00 0.00 0.00 2.69
1743 5521 2.092323 TGGTCACCTCTAGATGACACG 58.908 52.381 22.08 0.00 45.83 4.49
1779 5557 2.037772 CAGCTGGTTTCTGTACAGAGGT 59.962 50.000 23.97 15.33 38.88 3.85
1854 5632 3.625897 CAGTGGGGTGGCTCGACA 61.626 66.667 0.00 0.00 0.00 4.35
1998 5776 0.400213 TCCCGGCTTCAATTGTGACT 59.600 50.000 5.13 0.00 31.90 3.41
2016 5794 1.372087 CTGAGGAACGGCATTGGCTC 61.372 60.000 8.71 0.00 40.87 4.70
2145 5923 8.210265 AGGAAGATTTTATTGTTTTGCTTTGGA 58.790 29.630 0.00 0.00 0.00 3.53
2146 5924 8.835439 GGAAGATTTTATTGTTTTGCTTTGGAA 58.165 29.630 0.00 0.00 0.00 3.53
2150 5928 8.854979 ATTTTATTGTTTTGCTTTGGAAAAGC 57.145 26.923 15.99 15.99 43.29 3.51
2157 5935 2.888834 GCTTTGGAAAAGCAGGTTCA 57.111 45.000 17.52 0.00 42.56 3.18
2158 5936 3.177997 GCTTTGGAAAAGCAGGTTCAA 57.822 42.857 17.52 0.00 42.56 2.69
2159 5937 2.866156 GCTTTGGAAAAGCAGGTTCAAC 59.134 45.455 17.52 0.00 42.56 3.18
2160 5938 3.678529 GCTTTGGAAAAGCAGGTTCAACA 60.679 43.478 17.52 0.00 42.56 3.33
2161 5939 4.502962 CTTTGGAAAAGCAGGTTCAACAA 58.497 39.130 0.00 0.00 0.00 2.83
2162 5940 3.518634 TGGAAAAGCAGGTTCAACAAC 57.481 42.857 0.00 0.00 0.00 3.32
2163 5941 2.828520 TGGAAAAGCAGGTTCAACAACA 59.171 40.909 0.00 0.00 33.70 3.33
2164 5942 3.450457 TGGAAAAGCAGGTTCAACAACAT 59.550 39.130 0.00 0.00 33.70 2.71
2165 5943 4.081198 TGGAAAAGCAGGTTCAACAACATT 60.081 37.500 0.00 0.00 33.70 2.71
2166 5944 4.270808 GGAAAAGCAGGTTCAACAACATTG 59.729 41.667 0.00 0.00 33.70 2.82
2167 5945 4.734398 AAAGCAGGTTCAACAACATTGA 57.266 36.364 0.00 0.00 33.70 2.57
2168 5946 4.942761 AAGCAGGTTCAACAACATTGAT 57.057 36.364 0.00 0.00 33.70 2.57
2169 5947 4.942761 AGCAGGTTCAACAACATTGATT 57.057 36.364 0.00 0.00 33.70 2.57
2170 5948 4.624015 AGCAGGTTCAACAACATTGATTG 58.376 39.130 0.00 0.45 33.70 2.67
2171 5949 4.341806 AGCAGGTTCAACAACATTGATTGA 59.658 37.500 0.00 2.69 33.70 2.57
2172 5950 5.011329 AGCAGGTTCAACAACATTGATTGAT 59.989 36.000 0.00 0.00 33.70 2.57
2173 5951 5.119588 GCAGGTTCAACAACATTGATTGATG 59.880 40.000 0.00 2.87 34.58 3.07
2174 5952 6.218019 CAGGTTCAACAACATTGATTGATGT 58.782 36.000 0.00 0.00 42.56 3.06
2175 5953 7.369607 CAGGTTCAACAACATTGATTGATGTA 58.630 34.615 0.00 0.00 40.14 2.29
2176 5954 7.326789 CAGGTTCAACAACATTGATTGATGTAC 59.673 37.037 0.00 1.70 40.14 2.90
2177 5955 7.014134 AGGTTCAACAACATTGATTGATGTACA 59.986 33.333 0.00 0.00 40.14 2.90
2178 5956 7.326789 GGTTCAACAACATTGATTGATGTACAG 59.673 37.037 0.33 0.00 40.14 2.74
2179 5957 7.509141 TCAACAACATTGATTGATGTACAGT 57.491 32.000 0.33 0.00 40.14 3.55
2180 5958 7.939782 TCAACAACATTGATTGATGTACAGTT 58.060 30.769 0.33 0.00 40.14 3.16
2181 5959 9.061435 TCAACAACATTGATTGATGTACAGTTA 57.939 29.630 0.33 0.00 40.14 2.24
2182 5960 9.117145 CAACAACATTGATTGATGTACAGTTAC 57.883 33.333 0.33 0.00 40.14 2.50
2183 5961 8.621532 ACAACATTGATTGATGTACAGTTACT 57.378 30.769 0.33 0.00 39.34 2.24
2184 5962 8.721478 ACAACATTGATTGATGTACAGTTACTC 58.279 33.333 0.33 0.00 39.34 2.59
2185 5963 8.939929 CAACATTGATTGATGTACAGTTACTCT 58.060 33.333 0.33 0.00 39.25 3.24
2186 5964 9.507329 AACATTGATTGATGTACAGTTACTCTT 57.493 29.630 0.33 0.00 39.25 2.85
2191 5969 9.803315 TGATTGATGTACAGTTACTCTTATCAC 57.197 33.333 0.33 0.00 0.00 3.06
2306 6132 2.158534 TGTTGCTAGACCAACCACCATT 60.159 45.455 9.80 0.00 43.36 3.16
2391 6217 4.381411 GCTGAAGTGAAGAACCTTGTAGT 58.619 43.478 0.00 0.00 0.00 2.73
2392 6218 4.449405 GCTGAAGTGAAGAACCTTGTAGTC 59.551 45.833 0.00 0.00 0.00 2.59
2393 6219 5.601662 CTGAAGTGAAGAACCTTGTAGTCA 58.398 41.667 0.00 0.00 0.00 3.41
2394 6220 6.174720 TGAAGTGAAGAACCTTGTAGTCAT 57.825 37.500 0.00 0.00 0.00 3.06
2395 6221 7.297936 TGAAGTGAAGAACCTTGTAGTCATA 57.702 36.000 0.00 0.00 0.00 2.15
2396 6222 7.378966 TGAAGTGAAGAACCTTGTAGTCATAG 58.621 38.462 0.00 0.00 0.00 2.23
2480 6306 2.619147 TCCAAATTGGATGCAAATGCG 58.381 42.857 11.23 1.85 42.67 4.73
2491 6317 2.411904 TGCAAATGCGGGAAATGAAAC 58.588 42.857 0.35 0.00 45.83 2.78
2538 6364 9.277783 GTCATTCTATTGGCTATCTTTGTATGT 57.722 33.333 0.00 0.00 0.00 2.29
2546 6372 9.950680 ATTGGCTATCTTTGTATGTAATTTTCG 57.049 29.630 0.00 0.00 0.00 3.46
2577 6403 4.346418 AGCGAGAAGGGAGAATACATGAAT 59.654 41.667 0.00 0.00 0.00 2.57
2585 6411 7.083062 AGGGAGAATACATGAATATCAGCAA 57.917 36.000 0.00 0.00 0.00 3.91
2668 6499 5.503927 TCTGAAGGAATCAAATTCTGGAGG 58.496 41.667 0.18 0.00 37.67 4.30
2669 6500 4.019174 TGAAGGAATCAAATTCTGGAGGC 58.981 43.478 0.18 0.00 39.24 4.70
2719 6550 4.227197 AGTATGGTAATAGCAGCTGGAGT 58.773 43.478 17.12 0.00 0.00 3.85
2720 6551 3.760580 ATGGTAATAGCAGCTGGAGTC 57.239 47.619 17.12 0.00 0.00 3.36
2721 6552 2.752030 TGGTAATAGCAGCTGGAGTCT 58.248 47.619 17.12 6.32 0.00 3.24
2758 6642 3.065787 ATCCAGATGGGCTGCCACC 62.066 63.158 22.05 8.51 43.50 4.61
2778 6662 4.035091 CACCGAGTGATTGTGAAAACTGAA 59.965 41.667 0.00 0.00 35.23 3.02
2780 6664 5.049405 ACCGAGTGATTGTGAAAACTGAATC 60.049 40.000 0.00 0.00 0.00 2.52
2788 6672 4.923893 TGTGAAAACTGAATCTGTGCAAG 58.076 39.130 0.00 0.00 0.00 4.01
2960 6844 4.341235 TGCGTATGATGCTAAACTAGGAGT 59.659 41.667 0.00 0.00 0.00 3.85
2963 6847 5.175856 CGTATGATGCTAAACTAGGAGTTGC 59.824 44.000 0.00 0.00 38.66 4.17
3011 6895 4.819105 ATCCAGACCTTGTAAATGACGA 57.181 40.909 0.00 0.00 0.00 4.20
3022 6906 3.818210 TGTAAATGACGATGTTGTTGGCT 59.182 39.130 0.00 0.00 0.00 4.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 3.181467 TGGGAGCTGGAAAACATGTTTTG 60.181 43.478 34.88 23.25 42.26 2.44
29 30 3.037549 TGGGAGCTGGAAAACATGTTTT 58.962 40.909 31.40 31.40 44.59 2.43
77 79 7.168135 CACCTTTCACTGCAGTCTTTTTATTTC 59.832 37.037 18.64 0.00 0.00 2.17
81 83 4.947388 ACACCTTTCACTGCAGTCTTTTTA 59.053 37.500 18.64 0.00 0.00 1.52
82 84 3.763897 ACACCTTTCACTGCAGTCTTTTT 59.236 39.130 18.64 0.00 0.00 1.94
100 102 4.759693 TGATCATGTTTACCAAGACACACC 59.240 41.667 0.00 0.00 0.00 4.16
171 174 2.172505 AGTGACATGTTGTTCCCACTCA 59.827 45.455 9.22 0.00 30.23 3.41
186 189 1.423541 ACTTGGTGCCCAATAGTGACA 59.576 47.619 7.06 0.00 43.07 3.58
203 206 3.844211 TGCATGGTAGGGAAACTAGACTT 59.156 43.478 0.00 0.00 30.77 3.01
212 215 2.685106 TGGTTTTGCATGGTAGGGAA 57.315 45.000 0.00 0.00 0.00 3.97
308 311 4.644685 CCTTGGTGGAAAGTTTCTCAGAAA 59.355 41.667 15.05 0.00 38.35 2.52
378 381 0.539438 AGTGATGAGGCGGGCAAAAA 60.539 50.000 3.78 0.00 0.00 1.94
428 3807 2.450476 GACCATGGGGGCATGATTATC 58.550 52.381 18.09 0.00 44.16 1.75
438 3817 4.166144 ACAACTAGAATAAGACCATGGGGG 59.834 45.833 18.09 0.00 44.81 5.40
478 3858 5.499139 TCAATTTATTTGCCTCGGATGAC 57.501 39.130 0.00 0.00 35.16 3.06
504 3884 7.884816 AAAATTGAGCATGAGAAAATGTCTG 57.115 32.000 0.00 0.00 36.41 3.51
514 3894 5.047847 CCTATGCCAAAAATTGAGCATGAG 58.952 41.667 19.86 14.91 42.96 2.90
518 3898 4.527816 AGAACCTATGCCAAAAATTGAGCA 59.472 37.500 8.11 8.11 39.77 4.26
531 3911 6.319141 AGTCACAAAAAGAAGAACCTATGC 57.681 37.500 0.00 0.00 0.00 3.14
533 3913 7.885399 AGCATAGTCACAAAAAGAAGAACCTAT 59.115 33.333 0.00 0.00 0.00 2.57
538 3918 6.942532 ACAGCATAGTCACAAAAAGAAGAA 57.057 33.333 0.00 0.00 0.00 2.52
539 3919 6.942532 AACAGCATAGTCACAAAAAGAAGA 57.057 33.333 0.00 0.00 0.00 2.87
540 3920 7.992180 AAAACAGCATAGTCACAAAAAGAAG 57.008 32.000 0.00 0.00 0.00 2.85
676 4056 8.094798 AGTTAGCAAATCAGTTTTCATCGTAA 57.905 30.769 0.00 0.00 0.00 3.18
829 4212 3.326836 TGATAGGTCATGCGACAACAA 57.673 42.857 0.00 0.00 44.54 2.83
831 4214 4.122776 AGAATGATAGGTCATGCGACAAC 58.877 43.478 0.00 0.00 44.01 3.32
832 4215 4.406648 AGAATGATAGGTCATGCGACAA 57.593 40.909 0.00 0.00 44.01 3.18
834 4217 7.201359 CGTAAATAGAATGATAGGTCATGCGAC 60.201 40.741 0.00 0.00 44.01 5.19
835 4218 6.806739 CGTAAATAGAATGATAGGTCATGCGA 59.193 38.462 0.00 0.00 44.01 5.10
837 4220 6.183360 GCCGTAAATAGAATGATAGGTCATGC 60.183 42.308 0.00 0.00 44.20 4.06
838 4221 6.313905 GGCCGTAAATAGAATGATAGGTCATG 59.686 42.308 0.00 0.00 44.20 3.07
839 4222 6.013725 TGGCCGTAAATAGAATGATAGGTCAT 60.014 38.462 0.00 0.00 46.91 3.06
840 4223 5.305902 TGGCCGTAAATAGAATGATAGGTCA 59.694 40.000 0.00 0.00 39.04 4.02
842 4225 5.307196 ACTGGCCGTAAATAGAATGATAGGT 59.693 40.000 0.00 0.00 0.00 3.08
843 4226 5.794894 ACTGGCCGTAAATAGAATGATAGG 58.205 41.667 0.00 0.00 0.00 2.57
849 4232 4.335594 GCAAAGACTGGCCGTAAATAGAAT 59.664 41.667 0.00 0.00 0.00 2.40
887 4271 4.949856 ACAAATACAGACTAGGCAATTGGG 59.050 41.667 7.72 0.00 0.00 4.12
920 4698 4.744570 TGGAAATTCTAGCTCACAGTACG 58.255 43.478 0.00 0.00 0.00 3.67
945 4723 4.504858 GGTGAGGAACAATCGATTAGTGT 58.495 43.478 10.97 2.51 38.23 3.55
974 4752 8.112822 TGATGAAACCCAATTTCTTACCAGATA 58.887 33.333 1.48 0.00 46.05 1.98
1164 4942 4.684134 AGCAGCCACCCGCCATTT 62.684 61.111 0.00 0.00 38.78 2.32
1341 5119 0.105778 TGGTCTCAATGCACACGACA 59.894 50.000 0.00 0.00 0.00 4.35
1371 5149 0.035439 AGGCAACATAGACGGTTGGG 60.035 55.000 7.31 0.00 44.41 4.12
1381 5159 2.682846 CCCAGGGCAGGCAACATA 59.317 61.111 0.00 0.00 41.41 2.29
1633 5411 4.314121 GAGATGAGCACAACTTCTTCACT 58.686 43.478 0.00 0.00 29.49 3.41
1639 5417 1.127582 GCACGAGATGAGCACAACTTC 59.872 52.381 0.00 0.00 33.95 3.01
1683 5461 4.214119 TCCAGCTTGAAGAATTTGAAGTCG 59.786 41.667 0.00 0.00 0.00 4.18
1686 5464 4.863131 GCATCCAGCTTGAAGAATTTGAAG 59.137 41.667 0.00 0.00 41.15 3.02
1743 5521 0.964358 AGCTGCAACCATCAAGCTCC 60.964 55.000 1.02 0.00 0.00 4.70
1998 5776 1.377202 GAGCCAATGCCGTTCCTCA 60.377 57.895 0.00 0.00 38.69 3.86
2016 5794 1.337823 CCACCAAAGACACTAGACCGG 60.338 57.143 0.00 0.00 0.00 5.28
2088 5866 7.531716 CAAGTTTGTGTTGGTACTCAAGTTTA 58.468 34.615 0.00 0.00 38.54 2.01
2145 5923 5.083533 TCAATGTTGTTGAACCTGCTTTT 57.916 34.783 0.00 0.00 0.00 2.27
2146 5924 4.734398 TCAATGTTGTTGAACCTGCTTT 57.266 36.364 0.00 0.00 0.00 3.51
2147 5925 4.942761 ATCAATGTTGTTGAACCTGCTT 57.057 36.364 0.00 0.00 31.55 3.91
2148 5926 4.341806 TCAATCAATGTTGTTGAACCTGCT 59.658 37.500 0.00 0.00 30.79 4.24
2149 5927 4.619973 TCAATCAATGTTGTTGAACCTGC 58.380 39.130 0.00 0.00 30.79 4.85
2150 5928 6.218019 ACATCAATCAATGTTGTTGAACCTG 58.782 36.000 11.74 9.52 38.51 4.00
2151 5929 6.409524 ACATCAATCAATGTTGTTGAACCT 57.590 33.333 11.74 0.00 38.51 3.50
2152 5930 7.144661 TGTACATCAATCAATGTTGTTGAACC 58.855 34.615 0.00 0.00 41.20 3.62
2153 5931 7.862372 ACTGTACATCAATCAATGTTGTTGAAC 59.138 33.333 0.00 0.00 41.20 3.18
2154 5932 7.939782 ACTGTACATCAATCAATGTTGTTGAA 58.060 30.769 0.00 0.00 41.20 2.69
2155 5933 7.509141 ACTGTACATCAATCAATGTTGTTGA 57.491 32.000 0.00 10.75 41.20 3.18
2156 5934 9.117145 GTAACTGTACATCAATCAATGTTGTTG 57.883 33.333 0.00 0.00 41.20 3.33
2157 5935 9.066892 AGTAACTGTACATCAATCAATGTTGTT 57.933 29.630 0.00 0.00 41.20 2.83
2158 5936 8.621532 AGTAACTGTACATCAATCAATGTTGT 57.378 30.769 0.00 0.00 42.94 3.32
2159 5937 8.939929 AGAGTAACTGTACATCAATCAATGTTG 58.060 33.333 0.00 0.00 40.32 3.33
2160 5938 9.507329 AAGAGTAACTGTACATCAATCAATGTT 57.493 29.630 0.00 0.00 40.32 2.71
2165 5943 9.803315 GTGATAAGAGTAACTGTACATCAATCA 57.197 33.333 0.00 2.24 32.12 2.57
2166 5944 9.803315 TGTGATAAGAGTAACTGTACATCAATC 57.197 33.333 0.00 0.00 32.12 2.67
2168 5946 9.639601 CTTGTGATAAGAGTAACTGTACATCAA 57.360 33.333 0.00 0.00 32.12 2.57
2169 5947 8.803235 ACTTGTGATAAGAGTAACTGTACATCA 58.197 33.333 0.00 0.00 32.12 3.07
2170 5948 9.640963 AACTTGTGATAAGAGTAACTGTACATC 57.359 33.333 0.00 0.00 32.12 3.06
2171 5949 9.640963 GAACTTGTGATAAGAGTAACTGTACAT 57.359 33.333 0.00 0.00 32.12 2.29
2172 5950 8.635328 TGAACTTGTGATAAGAGTAACTGTACA 58.365 33.333 0.00 0.00 32.12 2.90
2173 5951 8.913656 GTGAACTTGTGATAAGAGTAACTGTAC 58.086 37.037 0.00 0.00 0.00 2.90
2174 5952 8.635328 TGTGAACTTGTGATAAGAGTAACTGTA 58.365 33.333 0.00 0.00 0.00 2.74
2175 5953 7.497595 TGTGAACTTGTGATAAGAGTAACTGT 58.502 34.615 0.00 0.00 0.00 3.55
2176 5954 7.946655 TGTGAACTTGTGATAAGAGTAACTG 57.053 36.000 0.00 0.00 0.00 3.16
2177 5955 8.958119 TTTGTGAACTTGTGATAAGAGTAACT 57.042 30.769 0.00 0.00 0.00 2.24
2178 5956 8.827677 ACTTTGTGAACTTGTGATAAGAGTAAC 58.172 33.333 0.00 0.00 0.00 2.50
2179 5957 8.958119 ACTTTGTGAACTTGTGATAAGAGTAA 57.042 30.769 0.00 0.00 0.00 2.24
2180 5958 8.421784 AGACTTTGTGAACTTGTGATAAGAGTA 58.578 33.333 0.00 0.00 0.00 2.59
2181 5959 7.275920 AGACTTTGTGAACTTGTGATAAGAGT 58.724 34.615 0.00 0.00 0.00 3.24
2182 5960 7.721286 AGACTTTGTGAACTTGTGATAAGAG 57.279 36.000 0.00 0.00 0.00 2.85
2183 5961 7.467267 GCAAGACTTTGTGAACTTGTGATAAGA 60.467 37.037 0.00 0.00 40.88 2.10
2184 5962 6.634436 GCAAGACTTTGTGAACTTGTGATAAG 59.366 38.462 0.00 0.00 40.88 1.73
2185 5963 6.094742 TGCAAGACTTTGTGAACTTGTGATAA 59.905 34.615 0.00 0.00 40.88 1.75
2186 5964 5.588246 TGCAAGACTTTGTGAACTTGTGATA 59.412 36.000 0.00 0.00 40.88 2.15
2187 5965 4.398988 TGCAAGACTTTGTGAACTTGTGAT 59.601 37.500 0.00 0.00 40.88 3.06
2188 5966 3.755905 TGCAAGACTTTGTGAACTTGTGA 59.244 39.130 0.00 0.00 40.88 3.58
2189 5967 4.095410 TGCAAGACTTTGTGAACTTGTG 57.905 40.909 0.00 0.00 40.88 3.33
2190 5968 4.737054 CTTGCAAGACTTTGTGAACTTGT 58.263 39.130 22.31 0.00 40.88 3.16
2191 5969 3.549070 GCTTGCAAGACTTTGTGAACTTG 59.451 43.478 30.39 0.00 41.46 3.16
2306 6132 9.379770 TCCACTTGAGATGATATACAGGATTTA 57.620 33.333 0.00 0.00 0.00 1.40
2365 6191 0.235926 GGTTCTTCACTTCAGCGTGC 59.764 55.000 0.00 0.00 34.92 5.34
2440 6266 3.309954 GGAAGTGCCGTAGTGATGATTTC 59.690 47.826 0.00 0.00 0.00 2.17
2480 6306 4.343814 TCAGAAGGTTTGGTTTCATTTCCC 59.656 41.667 0.00 0.00 0.00 3.97
2491 6317 7.452880 TGACAGATTTTATCAGAAGGTTTGG 57.547 36.000 0.00 0.00 0.00 3.28
2509 6335 7.568349 ACAAAGATAGCCAATAGAATGACAGA 58.432 34.615 0.00 0.00 0.00 3.41
2524 6350 9.651718 CCTTCGAAAATTACATACAAAGATAGC 57.348 33.333 0.00 0.00 0.00 2.97
2538 6364 6.091713 CCTTCTCGCTTTACCTTCGAAAATTA 59.908 38.462 0.00 0.00 0.00 1.40
2539 6365 5.106673 CCTTCTCGCTTTACCTTCGAAAATT 60.107 40.000 0.00 0.00 0.00 1.82
2546 6372 2.496470 TCTCCCTTCTCGCTTTACCTTC 59.504 50.000 0.00 0.00 0.00 3.46
2577 6403 4.949856 GGACCATCTTTCCTTTTGCTGATA 59.050 41.667 0.00 0.00 0.00 2.15
2585 6411 2.491675 GTCCGGACCATCTTTCCTTT 57.508 50.000 24.75 0.00 0.00 3.11
2613 6439 6.639686 CCATCAGTGTTGACTTTCAAGATTTG 59.360 38.462 2.63 0.00 37.00 2.32
2614 6440 6.322201 ACCATCAGTGTTGACTTTCAAGATTT 59.678 34.615 2.63 0.00 37.00 2.17
2645 6471 5.503927 CCTCCAGAATTTGATTCCTTCAGA 58.496 41.667 0.00 0.00 40.13 3.27
2665 6496 1.340991 TGATAACAAAGCCCCAGCCTC 60.341 52.381 0.00 0.00 41.25 4.70
2668 6499 1.106285 CCTGATAACAAAGCCCCAGC 58.894 55.000 0.00 0.00 40.32 4.85
2669 6500 2.755103 GTTCCTGATAACAAAGCCCCAG 59.245 50.000 0.00 0.00 0.00 4.45
2700 6531 3.312890 AGACTCCAGCTGCTATTACCAT 58.687 45.455 8.66 0.00 0.00 3.55
2751 6635 0.320683 TCACAATCACTCGGTGGCAG 60.321 55.000 0.00 0.00 33.87 4.85
2758 6642 6.075918 CAGATTCAGTTTTCACAATCACTCG 58.924 40.000 0.00 0.00 0.00 4.18
2778 6662 2.149578 GCTGTCTTCACTTGCACAGAT 58.850 47.619 2.11 0.00 38.90 2.90
2780 6664 0.234106 CGCTGTCTTCACTTGCACAG 59.766 55.000 0.00 0.00 39.47 3.66
2788 6672 0.880278 TTGCTCACCGCTGTCTTCAC 60.880 55.000 0.00 0.00 40.11 3.18
2905 6789 6.892658 ATGTGCAACTAAATTACAAGTCCA 57.107 33.333 0.00 0.00 38.04 4.02
3011 6895 3.149196 CTGGACAAGTAGCCAACAACAT 58.851 45.455 0.00 0.00 32.95 2.71
3022 6906 2.616524 AGTACAAGGGCTGGACAAGTA 58.383 47.619 0.00 0.00 42.01 2.24



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

AutoCloner maintained by Alex Coulton.