Multiple sequence alignment - TraesCS6A01G297000

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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 TraesCS6A01G297000 chr6A 100.000 2825 0 0 1 2825 530278152 530280976 0.000000e+00 5217.0
1 TraesCS6A01G297000 chr6D 93.827 1377 76 7 794 2167 385955576 385956946 0.000000e+00 2063.0
2 TraesCS6A01G297000 chr6D 93.574 638 29 6 2199 2825 385956940 385957576 0.000000e+00 941.0
3 TraesCS6A01G297000 chr6B 92.506 1161 44 22 854 2008 576361842 576362965 0.000000e+00 1622.0
4 TraesCS6A01G297000 chr6B 88.329 814 59 9 17 796 708393013 708392202 0.000000e+00 944.0
5 TraesCS6A01G297000 chr6B 88.964 743 64 15 2087 2825 576362999 576363727 0.000000e+00 902.0
6 TraesCS6A01G297000 chr7A 90.542 793 46 7 17 793 716457979 716458758 0.000000e+00 1022.0
7 TraesCS6A01G297000 chr7A 93.400 697 29 2 17 697 638567230 638566535 0.000000e+00 1016.0
8 TraesCS6A01G297000 chr7A 80.873 664 102 22 1043 1689 164402227 164401572 1.510000e-137 499.0
9 TraesCS6A01G297000 chr5B 89.816 815 46 6 17 796 407242777 407241965 0.000000e+00 1011.0
10 TraesCS6A01G297000 chr5B 85.621 765 71 10 41 771 479505001 479505760 0.000000e+00 767.0
11 TraesCS6A01G297000 chr7D 89.286 812 50 7 17 793 586687484 586688293 0.000000e+00 983.0
12 TraesCS6A01G297000 chr7D 81.153 642 103 14 1060 1689 163258663 163258028 1.510000e-137 499.0
13 TraesCS6A01G297000 chr2A 94.419 645 18 7 3 631 661725690 661725048 0.000000e+00 976.0
14 TraesCS6A01G297000 chr2A 88.185 584 33 7 17 566 733098043 733098624 0.000000e+00 664.0
15 TraesCS6A01G297000 chr2A 83.871 186 17 6 639 811 661725073 661724888 6.260000e-37 165.0
16 TraesCS6A01G297000 chr3A 88.917 803 50 22 17 784 357059066 357059864 0.000000e+00 953.0
17 TraesCS6A01G297000 chr5D 89.971 688 35 6 20 674 536867410 536866724 0.000000e+00 857.0
18 TraesCS6A01G297000 chr5D 93.590 390 8 2 1 374 462758066 462758454 1.470000e-157 566.0
19 TraesCS6A01G297000 chr5D 94.118 323 19 0 403 725 462758454 462758776 2.530000e-135 492.0
20 TraesCS6A01G297000 chr7B 86.939 758 59 13 73 793 678405803 678405049 0.000000e+00 815.0
21 TraesCS6A01G297000 chr7B 81.562 640 104 12 1060 1689 125506401 125505766 1.500000e-142 516.0
22 TraesCS6A01G297000 chr4A 95.477 199 8 1 1 198 114719547 114719745 1.630000e-82 316.0
23 TraesCS6A01G297000 chr3B 100.000 45 0 0 2766 2810 124108265 124108221 1.800000e-12 84.2


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 TraesCS6A01G297000 chr6A 530278152 530280976 2824 False 5217.0 5217 100.0000 1 2825 1 chr6A.!!$F1 2824
1 TraesCS6A01G297000 chr6D 385955576 385957576 2000 False 1502.0 2063 93.7005 794 2825 2 chr6D.!!$F1 2031
2 TraesCS6A01G297000 chr6B 576361842 576363727 1885 False 1262.0 1622 90.7350 854 2825 2 chr6B.!!$F1 1971
3 TraesCS6A01G297000 chr6B 708392202 708393013 811 True 944.0 944 88.3290 17 796 1 chr6B.!!$R1 779
4 TraesCS6A01G297000 chr7A 716457979 716458758 779 False 1022.0 1022 90.5420 17 793 1 chr7A.!!$F1 776
5 TraesCS6A01G297000 chr7A 638566535 638567230 695 True 1016.0 1016 93.4000 17 697 1 chr7A.!!$R2 680
6 TraesCS6A01G297000 chr7A 164401572 164402227 655 True 499.0 499 80.8730 1043 1689 1 chr7A.!!$R1 646
7 TraesCS6A01G297000 chr5B 407241965 407242777 812 True 1011.0 1011 89.8160 17 796 1 chr5B.!!$R1 779
8 TraesCS6A01G297000 chr5B 479505001 479505760 759 False 767.0 767 85.6210 41 771 1 chr5B.!!$F1 730
9 TraesCS6A01G297000 chr7D 586687484 586688293 809 False 983.0 983 89.2860 17 793 1 chr7D.!!$F1 776
10 TraesCS6A01G297000 chr7D 163258028 163258663 635 True 499.0 499 81.1530 1060 1689 1 chr7D.!!$R1 629
11 TraesCS6A01G297000 chr2A 733098043 733098624 581 False 664.0 664 88.1850 17 566 1 chr2A.!!$F1 549
12 TraesCS6A01G297000 chr2A 661724888 661725690 802 True 570.5 976 89.1450 3 811 2 chr2A.!!$R1 808
13 TraesCS6A01G297000 chr3A 357059066 357059864 798 False 953.0 953 88.9170 17 784 1 chr3A.!!$F1 767
14 TraesCS6A01G297000 chr5D 536866724 536867410 686 True 857.0 857 89.9710 20 674 1 chr5D.!!$R1 654
15 TraesCS6A01G297000 chr5D 462758066 462758776 710 False 529.0 566 93.8540 1 725 2 chr5D.!!$F1 724
16 TraesCS6A01G297000 chr7B 678405049 678405803 754 True 815.0 815 86.9390 73 793 1 chr7B.!!$R2 720
17 TraesCS6A01G297000 chr7B 125505766 125506401 635 True 516.0 516 81.5620 1060 1689 1 chr7B.!!$R1 629

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
181 185 0.316841 CGCTTGGGCAAGGCTTTTTA 59.683 50.000 0.0 0.0 38.8 1.52 F
726 785 1.069090 TGGTTGCTCGTGAGTGGAC 59.931 57.895 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1724 1806 0.248054 CGGCACAAATCCGTATGCAC 60.248 55.000 0.00 0.00 41.85 4.57 R
2402 2535 1.153369 GATCAGCTTAGTGGCGCCA 60.153 57.895 29.03 29.03 37.29 5.69 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
181 185 0.316841 CGCTTGGGCAAGGCTTTTTA 59.683 50.000 0.00 0.00 38.80 1.52
218 240 6.209192 TGAAGGTTGTAGCATTTCATGTCAAT 59.791 34.615 0.00 0.00 0.00 2.57
349 372 2.539338 GGTGCGACGGTTTCTGCAA 61.539 57.895 0.00 0.00 36.14 4.08
495 554 2.304180 GGGGTGAGATCTACATCCATGG 59.696 54.545 19.72 4.97 40.00 3.66
501 560 1.758440 ATCTACATCCATGGCCGCGT 61.758 55.000 6.96 3.65 0.00 6.01
612 671 2.954684 AATGGGCGCAGGAGACGAA 61.955 57.895 10.83 0.00 0.00 3.85
693 752 3.165875 CAGGAGGACTAGTCAACTTGGA 58.834 50.000 23.91 0.00 0.00 3.53
726 785 1.069090 TGGTTGCTCGTGAGTGGAC 59.931 57.895 0.00 0.00 0.00 4.02
780 851 4.657824 CCGCCGACACACCGTCTT 62.658 66.667 0.00 0.00 42.98 3.01
812 883 2.028567 CCAAACATAACATGGGCCGTTT 60.029 45.455 0.00 0.00 33.60 3.60
814 885 4.322049 CCAAACATAACATGGGCCGTTTAA 60.322 41.667 0.00 0.00 33.60 1.52
831 902 4.377738 CGTTTAAGCCTTGTTAACGCTTTC 59.622 41.667 19.76 12.11 42.60 2.62
862 933 4.079958 ACCTTTCCGAAATAAGCCCACTAT 60.080 41.667 0.00 0.00 0.00 2.12
863 934 4.275936 CCTTTCCGAAATAAGCCCACTATG 59.724 45.833 0.00 0.00 0.00 2.23
891 962 1.141591 AAATACGTCCCGTAAGCGCG 61.142 55.000 0.00 0.00 45.39 6.86
892 963 4.834892 TACGTCCCGTAAGCGCGC 62.835 66.667 26.66 26.66 39.44 6.86
904 975 3.803082 GCGCGCAATGCTTCCTCA 61.803 61.111 29.10 0.00 43.27 3.86
946 1018 3.619038 GCTCCTAAAATTCCAGTCACGAG 59.381 47.826 0.00 0.00 0.00 4.18
1004 1076 1.580845 GCACGAAGCAGAAGCATGGT 61.581 55.000 0.00 0.00 45.49 3.55
1248 1327 4.162690 GGCCTCTACCAGTGCCGG 62.163 72.222 0.00 0.00 33.59 6.13
1727 1809 3.793144 CGCAAGCTCGGGAAGTGC 61.793 66.667 0.00 0.00 39.48 4.40
1865 1947 6.058183 GGGTTGAGATCAATGTTAGCTATGT 58.942 40.000 0.00 0.00 38.24 2.29
1867 1949 7.715249 GGGTTGAGATCAATGTTAGCTATGTTA 59.285 37.037 0.00 0.00 38.24 2.41
1868 1950 8.552034 GGTTGAGATCAATGTTAGCTATGTTAC 58.448 37.037 0.00 0.00 38.24 2.50
1869 1951 9.098355 GTTGAGATCAATGTTAGCTATGTTACA 57.902 33.333 0.00 0.00 38.24 2.41
1888 1970 3.988819 ACATTATTGCCAACACCAACAC 58.011 40.909 0.00 0.00 0.00 3.32
1906 1988 2.595536 ACACGTATGTCGCGTATTGAAC 59.404 45.455 5.77 0.00 44.19 3.18
1908 1990 2.850060 ACGTATGTCGCGTATTGAACTG 59.150 45.455 5.77 0.00 44.19 3.16
1911 1993 1.705256 TGTCGCGTATTGAACTGGAC 58.295 50.000 5.77 0.00 0.00 4.02
1929 2011 2.479560 GGACACAGTGTTGTTTTGCTCC 60.480 50.000 7.86 0.00 34.62 4.70
1930 2012 2.163412 GACACAGTGTTGTTTTGCTCCA 59.837 45.455 7.86 0.00 34.62 3.86
1944 2026 2.649190 TGCTCCAGTGTGTAGCAAAAA 58.351 42.857 9.01 0.00 42.96 1.94
1954 2036 7.485913 CCAGTGTGTAGCAAAAATATCATGTTC 59.514 37.037 0.00 0.00 0.00 3.18
1955 2037 8.239314 CAGTGTGTAGCAAAAATATCATGTTCT 58.761 33.333 0.00 0.00 0.00 3.01
2075 2159 8.311650 AGTTACAACTTTGAACTAGCATGTAG 57.688 34.615 0.00 0.00 35.21 2.74
2093 2177 5.006153 TGTAGCCGTGTATATATCCATGC 57.994 43.478 0.00 0.00 0.00 4.06
2100 2184 6.048509 CCGTGTATATATCCATGCATGCTTA 58.951 40.000 21.69 14.22 0.00 3.09
2102 2186 7.872483 CCGTGTATATATCCATGCATGCTTATA 59.128 37.037 21.69 20.77 0.00 0.98
2127 2215 4.634443 GCGTCTCAATGGTTTATGGTAACT 59.366 41.667 0.00 0.00 37.61 2.24
2134 2222 9.840427 CTCAATGGTTTATGGTAACTAAAACAG 57.160 33.333 9.69 0.00 38.70 3.16
2139 2227 2.554370 TGGTAACTAAAACAGCCGCT 57.446 45.000 0.00 0.00 37.61 5.52
2146 2234 4.379339 ACTAAAACAGCCGCTTGAAAAA 57.621 36.364 0.00 0.00 0.00 1.94
2161 2284 7.278629 CGCTTGAAAAACATTCAGAATTTCTG 58.721 34.615 18.49 18.49 45.59 3.02
2176 2299 6.593978 AGAATTTCTGATAATCATAACGCGC 58.406 36.000 5.73 0.00 0.00 6.86
2177 2300 5.922739 ATTTCTGATAATCATAACGCGCA 57.077 34.783 5.73 0.00 0.00 6.09
2178 2301 5.922739 TTTCTGATAATCATAACGCGCAT 57.077 34.783 5.73 0.00 0.00 4.73
2179 2302 4.908966 TCTGATAATCATAACGCGCATG 57.091 40.909 5.73 10.77 0.00 4.06
2180 2303 4.555262 TCTGATAATCATAACGCGCATGA 58.445 39.130 21.79 21.79 36.86 3.07
2181 2304 5.170748 TCTGATAATCATAACGCGCATGAT 58.829 37.500 23.75 23.75 43.38 2.45
2182 2305 5.062558 TCTGATAATCATAACGCGCATGATG 59.937 40.000 27.65 18.48 41.24 3.07
2183 2306 4.690280 TGATAATCATAACGCGCATGATGT 59.310 37.500 27.65 21.43 41.24 3.06
2184 2307 5.866633 TGATAATCATAACGCGCATGATGTA 59.133 36.000 27.65 21.99 41.24 2.29
2185 2308 6.534793 TGATAATCATAACGCGCATGATGTAT 59.465 34.615 27.65 24.25 41.24 2.29
2186 2309 7.704472 TGATAATCATAACGCGCATGATGTATA 59.296 33.333 27.65 19.76 41.24 1.47
2187 2310 6.908870 AATCATAACGCGCATGATGTATAT 57.091 33.333 27.65 14.95 41.24 0.86
2188 2311 5.701029 TCATAACGCGCATGATGTATATG 57.299 39.130 17.30 7.89 0.00 1.78
2189 2312 5.167845 TCATAACGCGCATGATGTATATGT 58.832 37.500 17.30 0.00 0.00 2.29
2190 2313 6.326375 TCATAACGCGCATGATGTATATGTA 58.674 36.000 17.30 0.00 0.00 2.29
2191 2314 6.472163 TCATAACGCGCATGATGTATATGTAG 59.528 38.462 17.30 0.00 0.00 2.74
2192 2315 4.174411 ACGCGCATGATGTATATGTAGT 57.826 40.909 5.73 0.00 0.00 2.73
2193 2316 5.305139 ACGCGCATGATGTATATGTAGTA 57.695 39.130 5.73 0.00 0.00 1.82
2194 2317 5.705902 ACGCGCATGATGTATATGTAGTAA 58.294 37.500 5.73 0.00 0.00 2.24
2195 2318 5.800438 ACGCGCATGATGTATATGTAGTAAG 59.200 40.000 5.73 0.00 0.00 2.34
2196 2319 5.275927 CGCGCATGATGTATATGTAGTAAGC 60.276 44.000 8.75 0.00 0.00 3.09
2197 2320 5.576774 GCGCATGATGTATATGTAGTAAGCA 59.423 40.000 0.30 0.00 0.00 3.91
2198 2321 6.256539 GCGCATGATGTATATGTAGTAAGCAT 59.743 38.462 0.30 0.00 0.00 3.79
2199 2322 7.201556 GCGCATGATGTATATGTAGTAAGCATT 60.202 37.037 0.30 0.00 0.00 3.56
2200 2323 8.323854 CGCATGATGTATATGTAGTAAGCATTC 58.676 37.037 0.00 0.00 0.00 2.67
2201 2324 9.376075 GCATGATGTATATGTAGTAAGCATTCT 57.624 33.333 0.00 0.00 0.00 2.40
2220 2343 7.335422 AGCATTCTAATTCTACAGTCCAAAGTG 59.665 37.037 0.00 0.00 0.00 3.16
2230 2353 4.067896 ACAGTCCAAAGTGCAGTCAATAG 58.932 43.478 0.00 0.00 0.00 1.73
2255 2378 3.811722 TTTGTGCGCACATAGAAAGAG 57.188 42.857 40.78 0.00 41.52 2.85
2268 2391 5.012561 ACATAGAAAGAGTGCAAGGACTTCT 59.987 40.000 0.00 0.00 0.00 2.85
2294 2418 1.497223 GACTCATCATGCTGCGCTCC 61.497 60.000 9.73 0.00 0.00 4.70
2387 2520 5.221422 CCTTTACCTTTGCTTTTGATGTGGA 60.221 40.000 0.00 0.00 0.00 4.02
2388 2521 3.733443 ACCTTTGCTTTTGATGTGGAC 57.267 42.857 0.00 0.00 0.00 4.02
2417 2550 1.378531 TAATTGGCGCCACTAAGCTG 58.621 50.000 32.95 0.00 0.00 4.24
2489 2622 1.208259 CTTTTGCGCCACCAAAACTC 58.792 50.000 4.18 0.00 39.14 3.01
2533 2666 2.224018 TGGTACCCAACTGTACAACGTC 60.224 50.000 10.07 0.00 42.31 4.34
2602 2735 4.426736 TCTAACCCTTCTTTCACCGTTT 57.573 40.909 0.00 0.00 0.00 3.60
2620 2753 3.062639 CGTTTACTAGGCAAGCAGACATG 59.937 47.826 0.00 0.00 0.00 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
181 185 2.940410 ACAACCTTCAACGAAACGACAT 59.060 40.909 0.00 0.00 0.00 3.06
218 240 0.394938 TCGCCAGAAAGCTACAACCA 59.605 50.000 0.00 0.00 0.00 3.67
308 330 2.292016 CCTCATGTTGCAACCGTTTACA 59.708 45.455 26.14 7.39 0.00 2.41
349 372 1.531602 GGGCAACACCAGAGGCTTT 60.532 57.895 0.00 0.00 42.05 3.51
495 554 4.910585 ATCGAATCCCCACGCGGC 62.911 66.667 12.47 0.00 0.00 6.53
501 560 1.421268 CCATGGAAGATCGAATCCCCA 59.579 52.381 5.56 7.42 37.07 4.96
756 826 1.441732 GGTGTGTCGGCGGAAGTTTT 61.442 55.000 7.21 0.00 0.00 2.43
759 829 4.657824 CGGTGTGTCGGCGGAAGT 62.658 66.667 7.21 0.00 0.00 3.01
780 851 7.875041 CCCATGTTATGTTTGGTAAATGTTTGA 59.125 33.333 0.00 0.00 0.00 2.69
820 891 2.919859 GGTAGAGTCCGAAAGCGTTAAC 59.080 50.000 0.00 0.00 35.23 2.01
862 933 1.066430 GGGACGTATTTGTGGAGAGCA 60.066 52.381 0.00 0.00 0.00 4.26
863 934 1.653151 GGGACGTATTTGTGGAGAGC 58.347 55.000 0.00 0.00 0.00 4.09
891 962 1.198637 GACAGTGTGAGGAAGCATTGC 59.801 52.381 0.00 0.00 36.28 3.56
892 963 2.225019 GTGACAGTGTGAGGAAGCATTG 59.775 50.000 0.00 0.00 0.00 2.82
904 975 0.753262 GAGGGAGTGTGTGACAGTGT 59.247 55.000 0.00 0.00 30.64 3.55
946 1018 1.221414 GTGTCCAGTGAGCTTGTGAC 58.779 55.000 0.00 0.00 0.00 3.67
1639 1721 4.729856 GTACACTTCGCCGGCGGT 62.730 66.667 44.95 35.28 40.25 5.68
1724 1806 0.248054 CGGCACAAATCCGTATGCAC 60.248 55.000 0.00 0.00 41.85 4.57
1865 1947 5.533482 GTGTTGGTGTTGGCAATAATGTAA 58.467 37.500 1.92 0.00 0.00 2.41
1867 1949 3.551863 CGTGTTGGTGTTGGCAATAATGT 60.552 43.478 1.92 0.00 0.00 2.71
1868 1950 2.985809 CGTGTTGGTGTTGGCAATAATG 59.014 45.455 1.92 0.00 0.00 1.90
1869 1951 2.625790 ACGTGTTGGTGTTGGCAATAAT 59.374 40.909 1.92 0.00 0.00 1.28
1888 1970 2.215587 CCAGTTCAATACGCGACATACG 59.784 50.000 15.93 0.89 45.66 3.06
1906 1988 2.164219 AGCAAAACAACACTGTGTCCAG 59.836 45.455 14.68 9.82 44.68 3.86
1908 1990 2.479560 GGAGCAAAACAACACTGTGTCC 60.480 50.000 14.68 3.89 35.37 4.02
1911 1993 2.164219 ACTGGAGCAAAACAACACTGTG 59.836 45.455 6.19 6.19 35.37 3.66
1929 2011 8.239314 AGAACATGATATTTTTGCTACACACTG 58.761 33.333 0.00 0.00 0.00 3.66
1930 2012 8.340618 AGAACATGATATTTTTGCTACACACT 57.659 30.769 0.00 0.00 0.00 3.55
1955 2037 9.865321 CAGCTAAGTTACAAGTTACAGGTATAA 57.135 33.333 0.00 0.00 0.00 0.98
1957 2039 7.328737 CCAGCTAAGTTACAAGTTACAGGTAT 58.671 38.462 0.00 0.00 0.00 2.73
1958 2040 6.295462 CCCAGCTAAGTTACAAGTTACAGGTA 60.295 42.308 0.00 0.00 0.00 3.08
1959 2041 5.512576 CCCAGCTAAGTTACAAGTTACAGGT 60.513 44.000 0.00 0.00 0.00 4.00
1960 2042 4.935808 CCCAGCTAAGTTACAAGTTACAGG 59.064 45.833 0.00 0.00 0.00 4.00
1961 2043 5.548406 ACCCAGCTAAGTTACAAGTTACAG 58.452 41.667 0.00 0.00 0.00 2.74
1962 2044 5.556006 ACCCAGCTAAGTTACAAGTTACA 57.444 39.130 0.00 0.00 0.00 2.41
1967 2051 4.394729 TGGAAACCCAGCTAAGTTACAAG 58.605 43.478 1.27 0.00 0.00 3.16
1980 2064 3.970842 AGTTACACACTTTGGAAACCCA 58.029 40.909 0.00 0.00 27.32 4.51
2051 2135 7.015877 GCTACATGCTAGTTCAAAGTTGTAAC 58.984 38.462 0.00 0.00 38.95 2.50
2054 2138 4.455877 GGCTACATGCTAGTTCAAAGTTGT 59.544 41.667 0.00 0.00 42.39 3.32
2061 2145 1.548719 ACACGGCTACATGCTAGTTCA 59.451 47.619 0.00 0.00 42.39 3.18
2075 2159 3.002656 GCATGCATGGATATATACACGGC 59.997 47.826 27.34 13.94 0.00 5.68
2093 2177 4.453478 ACCATTGAGACGCATATAAGCATG 59.547 41.667 0.34 0.00 0.00 4.06
2100 2184 5.376625 ACCATAAACCATTGAGACGCATAT 58.623 37.500 0.00 0.00 0.00 1.78
2102 2186 3.620488 ACCATAAACCATTGAGACGCAT 58.380 40.909 0.00 0.00 0.00 4.73
2106 2194 9.836076 GTTTTAGTTACCATAAACCATTGAGAC 57.164 33.333 0.00 0.00 0.00 3.36
2127 2215 4.111375 TGTTTTTCAAGCGGCTGTTTTA 57.889 36.364 1.81 0.00 0.00 1.52
2134 2222 3.011949 TCTGAATGTTTTTCAAGCGGC 57.988 42.857 0.00 0.00 0.00 6.53
2161 2284 5.208624 ACATCATGCGCGTTATGATTATC 57.791 39.130 26.25 2.76 41.91 1.75
2167 2290 5.454736 ACATATACATCATGCGCGTTATG 57.545 39.130 19.65 19.65 0.00 1.90
2168 2291 6.330278 ACTACATATACATCATGCGCGTTAT 58.670 36.000 8.43 0.00 0.00 1.89
2169 2292 5.705902 ACTACATATACATCATGCGCGTTA 58.294 37.500 8.43 0.00 0.00 3.18
2170 2293 4.556233 ACTACATATACATCATGCGCGTT 58.444 39.130 8.43 0.00 0.00 4.84
2171 2294 4.174411 ACTACATATACATCATGCGCGT 57.826 40.909 8.43 0.00 0.00 6.01
2172 2295 5.275927 GCTTACTACATATACATCATGCGCG 60.276 44.000 0.00 0.00 0.00 6.86
2173 2296 5.576774 TGCTTACTACATATACATCATGCGC 59.423 40.000 0.00 0.00 0.00 6.09
2174 2297 7.761651 ATGCTTACTACATATACATCATGCG 57.238 36.000 0.00 0.00 0.00 4.73
2175 2298 9.376075 AGAATGCTTACTACATATACATCATGC 57.624 33.333 0.00 0.00 0.00 4.06
2188 2311 9.465985 GGACTGTAGAATTAGAATGCTTACTAC 57.534 37.037 0.00 0.00 0.00 2.73
2189 2312 9.197306 TGGACTGTAGAATTAGAATGCTTACTA 57.803 33.333 0.00 0.00 0.00 1.82
2190 2313 8.079211 TGGACTGTAGAATTAGAATGCTTACT 57.921 34.615 0.00 0.00 0.00 2.24
2191 2314 8.718102 TTGGACTGTAGAATTAGAATGCTTAC 57.282 34.615 0.00 0.00 0.00 2.34
2192 2315 9.383519 CTTTGGACTGTAGAATTAGAATGCTTA 57.616 33.333 0.00 0.00 0.00 3.09
2193 2316 7.885399 ACTTTGGACTGTAGAATTAGAATGCTT 59.115 33.333 0.00 0.00 0.00 3.91
2194 2317 7.335422 CACTTTGGACTGTAGAATTAGAATGCT 59.665 37.037 0.00 0.00 0.00 3.79
2195 2318 7.467623 CACTTTGGACTGTAGAATTAGAATGC 58.532 38.462 0.00 0.00 0.00 3.56
2196 2319 7.119699 TGCACTTTGGACTGTAGAATTAGAATG 59.880 37.037 0.00 0.00 0.00 2.67
2197 2320 7.168219 TGCACTTTGGACTGTAGAATTAGAAT 58.832 34.615 0.00 0.00 0.00 2.40
2198 2321 6.530120 TGCACTTTGGACTGTAGAATTAGAA 58.470 36.000 0.00 0.00 0.00 2.10
2199 2322 6.109156 TGCACTTTGGACTGTAGAATTAGA 57.891 37.500 0.00 0.00 0.00 2.10
2200 2323 5.934625 ACTGCACTTTGGACTGTAGAATTAG 59.065 40.000 0.00 0.00 0.00 1.73
2201 2324 5.865085 ACTGCACTTTGGACTGTAGAATTA 58.135 37.500 0.00 0.00 0.00 1.40
2202 2325 4.718961 ACTGCACTTTGGACTGTAGAATT 58.281 39.130 0.00 0.00 0.00 2.17
2203 2326 4.202357 TGACTGCACTTTGGACTGTAGAAT 60.202 41.667 0.00 0.00 0.00 2.40
2204 2327 3.133901 TGACTGCACTTTGGACTGTAGAA 59.866 43.478 0.00 0.00 0.00 2.10
2220 2343 4.262976 GCGCACAAAATTACTATTGACTGC 59.737 41.667 0.30 0.00 0.00 4.40
2230 2353 6.083630 TCTTTCTATGTGCGCACAAAATTAC 58.916 36.000 43.14 15.41 45.41 1.89
2268 2391 2.349590 CAGCATGATGAGTCGGTTCAA 58.650 47.619 4.56 0.00 39.69 2.69
2315 2443 1.447217 CACTCTGGTGTGCCTGTGA 59.553 57.895 0.00 0.00 38.54 3.58
2362 2495 5.221422 CCACATCAAAAGCAAAGGTAAAGGA 60.221 40.000 0.00 0.00 0.00 3.36
2363 2496 4.990426 CCACATCAAAAGCAAAGGTAAAGG 59.010 41.667 0.00 0.00 0.00 3.11
2387 2520 4.337274 GTGGCGCCAATTAATAAAGGTAGT 59.663 41.667 34.66 0.00 0.00 2.73
2388 2521 4.578928 AGTGGCGCCAATTAATAAAGGTAG 59.421 41.667 34.66 0.00 0.00 3.18
2402 2535 1.153369 GATCAGCTTAGTGGCGCCA 60.153 57.895 29.03 29.03 37.29 5.69
2417 2550 5.639506 TGCTACTGTGCTAAAACTTGAGATC 59.360 40.000 0.00 0.00 0.00 2.75
2489 2622 4.530161 AGAGATATCCCCTCCATTCTTTCG 59.470 45.833 0.00 0.00 0.00 3.46
2533 2666 2.989055 AAGAACCACGCGACCCACTG 62.989 60.000 15.93 0.00 0.00 3.66
2602 2735 2.187958 ACCATGTCTGCTTGCCTAGTA 58.812 47.619 0.00 0.00 0.00 1.82
2753 2887 1.268743 GGCCAATCATAGCGCAAACTC 60.269 52.381 11.47 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.