Multiple sequence alignment - TraesCS7A01G262700 
Loading Multiple Alignment...
 BLAST Results  
BLAST Results - Input Sequence 
    
     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 
      TraesCS7A01G262700 
      chr7A 
      100.000 
      2638 
      0 
      0 
      1 
      2638 
      259556488 
      259559125 
      0.000000e+00 
      4872 
     
    
      1 
      TraesCS7A01G262700 
      chr7D 
      91.758 
      1650 
      60 
      20 
      556 
      2173 
      244145859 
      244147464 
      0.000000e+00 
      2224 
     
    
      2 
      TraesCS7A01G262700 
      chr7D 
      91.887 
      567 
      41 
      5 
      6 
      570 
      244141065 
      244141628 
      0.000000e+00 
      787 
     
    
      3 
      TraesCS7A01G262700 
      chr7D 
      93.631 
      471 
      28 
      2 
      2170 
      2638 
      244147769 
      244148239 
      0.000000e+00 
      702 
     
    
      4 
      TraesCS7A01G262700 
      chr7D 
      85.861 
      389 
      51 
      4 
      1 
      386 
      244125487 
      244125874 
      6.800000e-111 
      411 
     
    
      5 
      TraesCS7A01G262700 
      chr7B 
      91.339 
      1143 
      40 
      14 
      703 
      1838 
      219461885 
      219462975 
      0.000000e+00 
      1507 
     
    
      6 
      TraesCS7A01G262700 
      chr7B 
      87.940 
      398 
      23 
      7 
      2167 
      2563 
      219464418 
      219464791 
      1.860000e-121 
      446 
     
    
      7 
      TraesCS7A01G262700 
      chr7B 
      93.793 
      145 
      8 
      1 
      2030 
      2173 
      219463077 
      219463221 
      1.590000e-52 
      217 
     
    
      8 
      TraesCS7A01G262700 
      chr7B 
      82.308 
      130 
      8 
      6 
      1854 
      1982 
      219462963 
      219463078 
      6.010000e-17 
      99 
     
   
    
 
BLAST Results - HSPs grouped 
    
     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 
      TraesCS7A01G262700 
      chr7A 
      259556488 
      259559125 
      2637 
      False 
      4872.00 
      4872 
      100.0000 
      1 
      2638 
      1 
      chr7A.!!$F1 
      2637 
     
    
      1 
      TraesCS7A01G262700 
      chr7D 
      244145859 
      244148239 
      2380 
      False 
      1463.00 
      2224 
      92.6945 
      556 
      2638 
      2 
      chr7D.!!$F3 
      2082 
     
    
      2 
      TraesCS7A01G262700 
      chr7D 
      244141065 
      244141628 
      563 
      False 
      787.00 
      787 
      91.8870 
      6 
      570 
      1 
      chr7D.!!$F2 
      564 
     
    
      3 
      TraesCS7A01G262700 
      chr7B 
      219461885 
      219464791 
      2906 
      False 
      567.25 
      1507 
      88.8450 
      703 
      2563 
      4 
      chr7B.!!$F1 
      1860 
     
   
 
            
                
                     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. 
                 
                
                    
                 
             
        
	Forward
		Primers 
	Reverse
		Primers 
	
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
      Orientation 
     
   
  
    
      230 
      232 
      0.172803 
      GCCGAGTACCGACTTGTGAT 
      59.827 
      55.0 
      5.46 
      0.0 
      41.76 
      3.06 
      F 
     
   
 
	
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
      Orientation 
     
   
  
    
      1847 
      1884 
      0.303493 
      CACCAACCAACGAACGTGAG 
      59.697 
      55.0 
      0.0 
      0.0 
      0.0 
      3.51 
      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. 
             
            
                
             
         
    
    
        Forward
            Primers 
        Reverse
            Primers 
    
    
		
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
     
   
  
    
      29 
      30 
      1.336887 
      ACCCTCGAACATGAACTCGTG 
      60.337 
      52.381 
      0.00 
      5.79 
      38.76 
      4.35 
     
    
      33 
      34 
      3.181490 
      CCTCGAACATGAACTCGTGGATA 
      60.181 
      47.826 
      21.85 
      4.41 
      46.55 
      2.59 
     
    
      52 
      53 
      0.471022 
      ACCACCCAACACCCCAAATC 
      60.471 
      55.000 
      0.00 
      0.00 
      0.00 
      2.17 
     
    
      58 
      59 
      1.229177 
      AACACCCCAAATCCTGCCC 
      60.229 
      57.895 
      0.00 
      0.00 
      0.00 
      5.36 
     
    
      86 
      87 
      6.288294 
      CCCTCGTCAACATCTCCAAAATATA 
      58.712 
      40.000 
      0.00 
      0.00 
      0.00 
      0.86 
     
    
      88 
      89 
      6.986817 
      CCTCGTCAACATCTCCAAAATATACT 
      59.013 
      38.462 
      0.00 
      0.00 
      0.00 
      2.12 
     
    
      97 
      98 
      8.489489 
      ACATCTCCAAAATATACTGTCATGTCT 
      58.511 
      33.333 
      0.00 
      0.00 
      0.00 
      3.41 
     
    
      98 
      99 
      9.987272 
      CATCTCCAAAATATACTGTCATGTCTA 
      57.013 
      33.333 
      0.00 
      0.00 
      0.00 
      2.59 
     
    
      124 
      126 
      4.639755 
      TCTCTCGCATGCAAATGGAAAATA 
      59.360 
      37.500 
      19.57 
      0.00 
      0.00 
      1.40 
     
    
      148 
      150 
      4.715523 
      CCAACACACCGCGGGGAT 
      62.716 
      66.667 
      38.56 
      19.90 
      36.97 
      3.85 
     
    
      151 
      153 
      2.585341 
      AACACACCGCGGGGATGTA 
      61.585 
      57.895 
      38.56 
      0.00 
      35.87 
      2.29 
     
    
      155 
      157 
      3.849951 
      ACCGCGGGGATGTAGCTG 
      61.850 
      66.667 
      31.76 
      0.00 
      36.97 
      4.24 
     
    
      158 
      160 
      2.203070 
      GCGGGGATGTAGCTGTGG 
      60.203 
      66.667 
      0.00 
      0.00 
      0.00 
      4.17 
     
    
      175 
      177 
      4.670221 
      GCTGTGGATTTTGAGAAGCTTACG 
      60.670 
      45.833 
      0.00 
      0.00 
      0.00 
      3.18 
     
    
      225 
      227 
      1.153628 
      GCATGCCGAGTACCGACTT 
      60.154 
      57.895 
      6.36 
      0.00 
      41.76 
      3.01 
     
    
      230 
      232 
      0.172803 
      GCCGAGTACCGACTTGTGAT 
      59.827 
      55.000 
      5.46 
      0.00 
      41.76 
      3.06 
     
    
      240 
      242 
      4.505217 
      CTTGTGATCGCGTGCGCC 
      62.505 
      66.667 
      9.79 
      4.52 
      39.59 
      6.53 
     
    
      245 
      247 
      1.811679 
      TGATCGCGTGCGCCAAATA 
      60.812 
      52.632 
      9.79 
      0.00 
      39.59 
      1.40 
     
    
      324 
      327 
      4.824515 
      CTCCCTCCGCTCCTCCGT 
      62.825 
      72.222 
      0.00 
      0.00 
      0.00 
      4.69 
     
    
      342 
      345 
      1.834378 
      TCGCTCTAGCCCATGGGAG 
      60.834 
      63.158 
      36.00 
      23.38 
      37.91 
      4.30 
     
    
      366 
      369 
      1.605058 
      GCTCACTAGCCCCGTCTTCA 
      61.605 
      60.000 
      0.00 
      0.00 
      43.40 
      3.02 
     
    
      373 
      376 
      1.449778 
      GCCCCGTCTTCAGCCTTAC 
      60.450 
      63.158 
      0.00 
      0.00 
      0.00 
      2.34 
     
    
      417 
      420 
      1.291272 
      GTTAACCGTCACGCCTCCT 
      59.709 
      57.895 
      0.00 
      0.00 
      0.00 
      3.69 
     
    
      418 
      421 
      1.012486 
      GTTAACCGTCACGCCTCCTG 
      61.012 
      60.000 
      0.00 
      0.00 
      0.00 
      3.86 
     
    
      451 
      454 
      4.248842 
      CACCCCTGTGTGCGTGGA 
      62.249 
      66.667 
      0.00 
      0.00 
      37.72 
      4.02 
     
    
      452 
      455 
      4.250305 
      ACCCCTGTGTGCGTGGAC 
      62.250 
      66.667 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      468 
      471 
      2.989824 
      ACGGGGTGGAGTGAGACG 
      60.990 
      66.667 
      0.00 
      0.00 
      0.00 
      4.18 
     
    
      471 
      474 
      2.262915 
      GGGTGGAGTGAGACGCTG 
      59.737 
      66.667 
      0.00 
      0.00 
      0.00 
      5.18 
     
    
      490 
      493 
      4.451435 
      CGCTGCTCTGACATGATTTCATAT 
      59.549 
      41.667 
      0.00 
      0.00 
      34.26 
      1.78 
     
    
      499 
      502 
      7.336679 
      TCTGACATGATTTCATATCAAACGGTT 
      59.663 
      33.333 
      0.00 
      0.00 
      39.05 
      4.44 
     
    
      502 
      505 
      8.275015 
      ACATGATTTCATATCAAACGGTTGTA 
      57.725 
      30.769 
      13.90 
      5.56 
      33.90 
      2.41 
     
    
      518 
      521 
      4.494526 
      CGGTTGTAATTATTGGTGTACGCC 
      60.495 
      45.833 
      18.93 
      18.93 
      0.00 
      5.68 
     
    
      524 
      527 
      0.176219 
      TATTGGTGTACGCCGGGAAG 
      59.824 
      55.000 
      20.23 
      0.00 
      0.00 
      3.46 
     
    
      526 
      529 
      2.433664 
      GGTGTACGCCGGGAAGTG 
      60.434 
      66.667 
      10.25 
      0.00 
      0.00 
      3.16 
     
    
      561 
      564 
      5.016173 
      ACCTGCACTAATTAGCATTTTGGA 
      58.984 
      37.500 
      12.54 
      3.54 
      40.42 
      3.53 
     
    
      566 
      569 
      6.210385 
      TGCACTAATTAGCATTTTGGAAAGGA 
      59.790 
      34.615 
      12.54 
      0.00 
      35.51 
      3.36 
     
    
      596 
      599 
      3.938963 
      ACTTTTGTTCGCTCAGAGAAACA 
      59.061 
      39.130 
      12.50 
      12.50 
      0.00 
      2.83 
     
    
      605 
      608 
      4.929808 
      TCGCTCAGAGAAACAAATAACTCC 
      59.070 
      41.667 
      0.00 
      0.00 
      0.00 
      3.85 
     
    
      892 
      919 
      1.146263 
      GCGAATCGGAGGGTTCCAT 
      59.854 
      57.895 
      4.35 
      0.00 
      44.26 
      3.41 
     
    
      1052 
      1079 
      3.197549 
      GGAAGAGATCAAGGAGAAGCAGT 
      59.802 
      47.826 
      0.00 
      0.00 
      0.00 
      4.40 
     
    
      1192 
      1219 
      1.836383 
      AAGAATATGTCCGCGTCGAC 
      58.164 
      50.000 
      5.18 
      5.18 
      0.00 
      4.20 
     
    
      1556 
      1583 
      0.616111 
      AGAGCAAGGTCAGGGACGAT 
      60.616 
      55.000 
      1.84 
      0.00 
      32.65 
      3.73 
     
    
      1765 
      1792 
      7.776933 
      TCTGTAAAGTCTGCATTATGTCATC 
      57.223 
      36.000 
      0.00 
      0.00 
      0.00 
      2.92 
     
    
      1769 
      1796 
      8.210265 
      TGTAAAGTCTGCATTATGTCATCCATA 
      58.790 
      33.333 
      0.00 
      0.00 
      34.86 
      2.74 
     
    
      1774 
      1801 
      7.443575 
      AGTCTGCATTATGTCATCCATACTTTC 
      59.556 
      37.037 
      0.00 
      0.00 
      35.75 
      2.62 
     
    
      1838 
      1872 
      4.537751 
      TGTCCCTGTTTCATTGTTTGGTA 
      58.462 
      39.130 
      0.00 
      0.00 
      0.00 
      3.25 
     
    
      1847 
      1884 
      7.767261 
      TGTTTCATTGTTTGGTACATATAGCC 
      58.233 
      34.615 
      0.00 
      0.00 
      39.30 
      3.93 
     
    
      1872 
      1909 
      3.249080 
      ACGTTCGTTGGTTGGTGAATTAG 
      59.751 
      43.478 
      0.00 
      0.00 
      0.00 
      1.73 
     
    
      1873 
      1910 
      3.249080 
      CGTTCGTTGGTTGGTGAATTAGT 
      59.751 
      43.478 
      0.00 
      0.00 
      0.00 
      2.24 
     
    
      1874 
      1911 
      4.448395 
      CGTTCGTTGGTTGGTGAATTAGTA 
      59.552 
      41.667 
      0.00 
      0.00 
      0.00 
      1.82 
     
    
      1875 
      1912 
      5.389098 
      CGTTCGTTGGTTGGTGAATTAGTAG 
      60.389 
      44.000 
      0.00 
      0.00 
      0.00 
      2.57 
     
    
      1882 
      1921 
      6.686630 
      TGGTTGGTGAATTAGTAGCATTTTG 
      58.313 
      36.000 
      0.00 
      0.00 
      0.00 
      2.44 
     
    
      1913 
      1952 
      4.142534 
      CCTTCAGTACATGCAACATTCAGG 
      60.143 
      45.833 
      0.00 
      0.00 
      0.00 
      3.86 
     
    
      1944 
      1983 
      3.762288 
      AGCACGTGATGTTTCTAGACCTA 
      59.238 
      43.478 
      22.23 
      0.00 
      0.00 
      3.08 
     
    
      2018 
      2060 
      4.154918 
      CCTGTCAAAAGTTATCAGTCCAGC 
      59.845 
      45.833 
      0.00 
      0.00 
      0.00 
      4.85 
     
    
      2019 
      2061 
      4.072131 
      TGTCAAAAGTTATCAGTCCAGCC 
      58.928 
      43.478 
      0.00 
      0.00 
      0.00 
      4.85 
     
    
      2020 
      2062 
      3.125316 
      GTCAAAAGTTATCAGTCCAGCCG 
      59.875 
      47.826 
      0.00 
      0.00 
      0.00 
      5.52 
     
    
      2021 
      2063 
      3.074412 
      CAAAAGTTATCAGTCCAGCCGT 
      58.926 
      45.455 
      0.00 
      0.00 
      0.00 
      5.68 
     
    
      2022 
      2064 
      2.674796 
      AAGTTATCAGTCCAGCCGTC 
      57.325 
      50.000 
      0.00 
      0.00 
      0.00 
      4.79 
     
    
      2023 
      2065 
      0.824759 
      AGTTATCAGTCCAGCCGTCC 
      59.175 
      55.000 
      0.00 
      0.00 
      0.00 
      4.79 
     
    
      2024 
      2066 
      0.535335 
      GTTATCAGTCCAGCCGTCCA 
      59.465 
      55.000 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      2026 
      2068 
      1.043116 
      TATCAGTCCAGCCGTCCAGG 
      61.043 
      60.000 
      0.00 
      0.00 
      44.97 
      4.45 
     
    
      2027 
      2069 
      2.805313 
      ATCAGTCCAGCCGTCCAGGA 
      62.805 
      60.000 
      0.00 
      0.00 
      45.00 
      3.86 
     
    
      2028 
      2070 
      2.681778 
      AGTCCAGCCGTCCAGGAG 
      60.682 
      66.667 
      0.00 
      0.00 
      45.00 
      3.69 
     
    
      2029 
      2071 
      2.680352 
      GTCCAGCCGTCCAGGAGA 
      60.680 
      66.667 
      0.00 
      0.00 
      45.00 
      3.71 
     
    
      2030 
      2072 
      2.060980 
      GTCCAGCCGTCCAGGAGAT 
      61.061 
      63.158 
      0.00 
      0.00 
      45.00 
      2.75 
     
    
      2031 
      2073 
      0.755698 
      GTCCAGCCGTCCAGGAGATA 
      60.756 
      60.000 
      0.00 
      0.00 
      45.00 
      1.98 
     
    
      2032 
      2074 
      0.188587 
      TCCAGCCGTCCAGGAGATAT 
      59.811 
      55.000 
      0.00 
      0.00 
      45.00 
      1.63 
     
    
      2033 
      2075 
      0.319728 
      CCAGCCGTCCAGGAGATATG 
      59.680 
      60.000 
      0.00 
      0.00 
      45.00 
      1.78 
     
    
      2034 
      2076 
      1.332195 
      CAGCCGTCCAGGAGATATGA 
      58.668 
      55.000 
      0.00 
      0.00 
      45.00 
      2.15 
     
    
      2035 
      2077 
      1.271934 
      CAGCCGTCCAGGAGATATGAG 
      59.728 
      57.143 
      0.00 
      0.00 
      45.00 
      2.90 
     
    
      2077 
      2119 
      2.096218 
      GGTTGCACTGAAGAAAGCTACG 
      60.096 
      50.000 
      0.00 
      0.00 
      34.38 
      3.51 
     
    
      2135 
      2178 
      5.344743 
      TGACAAGTTCTCTGTGAGTCTTT 
      57.655 
      39.130 
      0.00 
      0.00 
      0.00 
      2.52 
     
    
      2143 
      2186 
      6.314896 
      AGTTCTCTGTGAGTCTTTTGTTTCTG 
      59.685 
      38.462 
      0.00 
      0.00 
      0.00 
      3.02 
     
    
      2147 
      2190 
      5.582269 
      TCTGTGAGTCTTTTGTTTCTGACAG 
      59.418 
      40.000 
      0.00 
      0.00 
      41.15 
      3.51 
     
    
      2280 
      3834 
      4.084433 
      ACAAAATTCGTGTCAAATGCATGC 
      60.084 
      37.500 
      11.82 
      11.82 
      0.00 
      4.06 
     
    
      2317 
      3872 
      3.849911 
      TCAAACGATCGCTTCTTCATCT 
      58.150 
      40.909 
      16.60 
      0.00 
      0.00 
      2.90 
     
    
      2355 
      3910 
      7.719633 
      GGTTGCTATCATATCCTTCAAAGGTTA 
      59.280 
      37.037 
      8.60 
      5.50 
      46.54 
      2.85 
     
    
      2404 
      3960 
      1.226746 
      CGACAAGTCTGTTCAACCCC 
      58.773 
      55.000 
      0.00 
      0.00 
      35.30 
      4.95 
     
    
      2417 
      3973 
      3.808218 
      AACCCCGCCAACTGCATGT 
      62.808 
      57.895 
      0.00 
      0.00 
      41.33 
      3.21 
     
    
      2424 
      3980 
      2.224079 
      CCGCCAACTGCATGTATACATC 
      59.776 
      50.000 
      15.60 
      10.96 
      41.33 
      3.06 
     
    
      2490 
      4046 
      1.732259 
      GTAGCACAAACCATGACTCCG 
      59.268 
      52.381 
      0.00 
      0.00 
      0.00 
      4.63 
     
    
      2577 
      4133 
      1.470098 
      GGTGATGACAGACATTGCACC 
      59.530 
      52.381 
      7.62 
      7.62 
      42.46 
      5.01 
     
    
      2614 
      4170 
      3.812053 
      CACTTATCAATGGGCTAGCACTC 
      59.188 
      47.826 
      19.73 
      6.77 
      0.00 
      3.51 
     
   
	 
    
		
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
     
   
  
    
      0 
      1 
      1.297689 
      GTTCGAGGGTGGGGGTAAC 
      59.702 
      63.158 
      0.00 
      0.00 
      0.00 
      2.50 
     
    
      3 
      4 
      2.204090 
      ATGTTCGAGGGTGGGGGT 
      60.204 
      61.111 
      0.00 
      0.00 
      0.00 
      4.95 
     
    
      4 
      5 
      1.847798 
      TTCATGTTCGAGGGTGGGGG 
      61.848 
      60.000 
      0.00 
      0.00 
      0.00 
      5.40 
     
    
      16 
      17 
      3.596214 
      GTGGTATCCACGAGTTCATGTT 
      58.404 
      45.455 
      3.12 
      0.00 
      44.95 
      2.71 
     
    
      29 
      30 
      1.305287 
      GGGGTGTTGGGTGGTATCC 
      59.695 
      63.158 
      0.00 
      0.00 
      0.00 
      2.59 
     
    
      33 
      34 
      0.471022 
      GATTTGGGGTGTTGGGTGGT 
      60.471 
      55.000 
      0.00 
      0.00 
      0.00 
      4.16 
     
    
      58 
      59 
      0.460987 
      GAGATGTTGACGAGGGCTGG 
      60.461 
      60.000 
      0.00 
      0.00 
      0.00 
      4.85 
     
    
      86 
      87 
      3.275143 
      CGAGAGAGGTAGACATGACAGT 
      58.725 
      50.000 
      0.00 
      0.00 
      0.00 
      3.55 
     
    
      88 
      89 
      2.017782 
      GCGAGAGAGGTAGACATGACA 
      58.982 
      52.381 
      0.00 
      0.00 
      0.00 
      3.58 
     
    
      97 
      98 
      2.554142 
      CATTTGCATGCGAGAGAGGTA 
      58.446 
      47.619 
      14.09 
      0.00 
      0.00 
      3.08 
     
    
      98 
      99 
      1.376543 
      CATTTGCATGCGAGAGAGGT 
      58.623 
      50.000 
      14.09 
      0.00 
      0.00 
      3.85 
     
    
      124 
      126 
      1.672356 
      GCGGTGTGTTGGATCTGCT 
      60.672 
      57.895 
      0.00 
      0.00 
      0.00 
      4.24 
     
    
      148 
      150 
      3.753272 
      GCTTCTCAAAATCCACAGCTACA 
      59.247 
      43.478 
      0.00 
      0.00 
      0.00 
      2.74 
     
    
      151 
      153 
      3.151912 
      AGCTTCTCAAAATCCACAGCT 
      57.848 
      42.857 
      0.00 
      0.00 
      0.00 
      4.24 
     
    
      155 
      157 
      4.213482 
      ACACGTAAGCTTCTCAAAATCCAC 
      59.787 
      41.667 
      0.00 
      0.00 
      45.62 
      4.02 
     
    
      158 
      160 
      5.748592 
      ACAACACGTAAGCTTCTCAAAATC 
      58.251 
      37.500 
      0.00 
      0.00 
      45.62 
      2.17 
     
    
      189 
      191 
      1.818060 
      TGCAAAACCATGGAATCGAGG 
      59.182 
      47.619 
      21.47 
      1.97 
      0.00 
      4.63 
     
    
      197 
      199 
      0.458889 
      CTCGGCATGCAAAACCATGG 
      60.459 
      55.000 
      21.36 
      11.19 
      42.18 
      3.66 
     
    
      230 
      232 
      2.706432 
      CATATTTGGCGCACGCGA 
      59.294 
      55.556 
      15.93 
      2.71 
      43.06 
      5.87 
     
    
      240 
      242 
      3.308438 
      GCATGGGGCTAAGCATATTTG 
      57.692 
      47.619 
      0.00 
      0.00 
      40.25 
      2.32 
     
    
      297 
      300 
      1.262640 
      GCGGAGGGAGAAGTTGGGTA 
      61.263 
      60.000 
      0.00 
      0.00 
      0.00 
      3.69 
     
    
      298 
      301 
      2.593956 
      GCGGAGGGAGAAGTTGGGT 
      61.594 
      63.158 
      0.00 
      0.00 
      0.00 
      4.51 
     
    
      324 
      327 
      1.834378 
      CTCCCATGGGCTAGAGCGA 
      60.834 
      63.158 
      27.41 
      5.01 
      43.26 
      4.93 
     
    
      366 
      369 
      3.295973 
      CTCTAAGCTGAGGAGTAAGGCT 
      58.704 
      50.000 
      0.00 
      0.00 
      34.52 
      4.58 
     
    
      373 
      376 
      1.299014 
      CGCGCTCTAAGCTGAGGAG 
      60.299 
      63.158 
      5.56 
      2.51 
      39.60 
      3.69 
     
    
      435 
      438 
      4.250305 
      GTCCACGCACACAGGGGT 
      62.250 
      66.667 
      0.00 
      0.00 
      32.92 
      4.95 
     
    
      446 
      449 
      4.373116 
      CACTCCACCCCGTCCACG 
      62.373 
      72.222 
      0.00 
      0.00 
      39.44 
      4.94 
     
    
      448 
      451 
      2.603473 
      CTCACTCCACCCCGTCCA 
      60.603 
      66.667 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      449 
      452 
      2.283676 
      TCTCACTCCACCCCGTCC 
      60.284 
      66.667 
      0.00 
      0.00 
      0.00 
      4.79 
     
    
      450 
      453 
      2.971452 
      GTCTCACTCCACCCCGTC 
      59.029 
      66.667 
      0.00 
      0.00 
      0.00 
      4.79 
     
    
      451 
      454 
      2.989824 
      CGTCTCACTCCACCCCGT 
      60.990 
      66.667 
      0.00 
      0.00 
      0.00 
      5.28 
     
    
      452 
      455 
      4.436998 
      GCGTCTCACTCCACCCCG 
      62.437 
      72.222 
      0.00 
      0.00 
      0.00 
      5.73 
     
    
      453 
      456 
      2.997897 
      AGCGTCTCACTCCACCCC 
      60.998 
      66.667 
      0.00 
      0.00 
      0.00 
      4.95 
     
    
      468 
      471 
      5.469084 
      TGATATGAAATCATGTCAGAGCAGC 
      59.531 
      40.000 
      16.02 
      0.00 
      45.38 
      5.25 
     
    
      490 
      493 
      6.636562 
      ACACCAATAATTACAACCGTTTGA 
      57.363 
      33.333 
      0.00 
      0.00 
      36.48 
      2.69 
     
    
      499 
      502 
      3.196463 
      CCGGCGTACACCAATAATTACA 
      58.804 
      45.455 
      6.01 
      0.00 
      0.00 
      2.41 
     
    
      502 
      505 
      1.209990 
      TCCCGGCGTACACCAATAATT 
      59.790 
      47.619 
      6.01 
      0.00 
      0.00 
      1.40 
     
    
      508 
      511 
      2.918802 
      ACTTCCCGGCGTACACCA 
      60.919 
      61.111 
      6.01 
      0.00 
      0.00 
      4.17 
     
    
      518 
      521 
      0.451783 
      GCACTAATTGGCACTTCCCG 
      59.548 
      55.000 
      0.00 
      0.00 
      0.00 
      5.14 
     
    
      575 
      578 
      4.536364 
      TGTTTCTCTGAGCGAACAAAAG 
      57.464 
      40.909 
      17.97 
      0.00 
      0.00 
      2.27 
     
    
      587 
      590 
      7.171678 
      AGTTTCTCGGAGTTATTTGTTTCTCTG 
      59.828 
      37.037 
      4.69 
      0.00 
      35.41 
      3.35 
     
    
      892 
      919 
      4.314440 
      GGTGCCTGCTGTCGGTCA 
      62.314 
      66.667 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      926 
      953 
      2.049156 
      CTTCTGCTGCGTCCACGA 
      60.049 
      61.111 
      2.58 
      0.00 
      43.02 
      4.35 
     
    
      1021 
      1048 
      0.743688 
      TGATCTCTTCCTGCTCTCGC 
      59.256 
      55.000 
      0.00 
      0.00 
      0.00 
      5.03 
     
    
      1052 
      1079 
      1.215382 
      CCCACTCGAGCGATTGTGA 
      59.785 
      57.895 
      13.61 
      0.00 
      32.72 
      3.58 
     
    
      1192 
      1219 
      2.583593 
      GAGCCGGCTACTGCTTCG 
      60.584 
      66.667 
      32.97 
      0.00 
      37.29 
      3.79 
     
    
      1576 
      1603 
      3.479269 
      CGAGTTTGCCGAGCGTCC 
      61.479 
      66.667 
      0.00 
      0.00 
      0.00 
      4.79 
     
    
      1730 
      1757 
      6.584942 
      TGCAGACTTTACAGATACTACGTTTG 
      59.415 
      38.462 
      0.00 
      0.00 
      0.00 
      2.93 
     
    
      1774 
      1801 
      4.567959 
      TGACGATGATTTATGCAGACACTG 
      59.432 
      41.667 
      0.00 
      0.00 
      34.12 
      3.66 
     
    
      1838 
      1872 
      3.444916 
      CAACGAACGTGAGGCTATATGT 
      58.555 
      45.455 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      1847 
      1884 
      0.303493 
      CACCAACCAACGAACGTGAG 
      59.697 
      55.000 
      0.00 
      0.00 
      0.00 
      3.51 
     
    
      1882 
      1921 
      1.470098 
      CATGTACTGAAGGCCAAGCAC 
      59.530 
      52.381 
      5.01 
      0.62 
      0.00 
      4.40 
     
    
      1913 
      1952 
      2.341257 
      ACATCACGTGCTGATTCTGAC 
      58.659 
      47.619 
      24.98 
      0.00 
      37.53 
      3.51 
     
    
      1944 
      1983 
      4.000325 
      TGTGCAGTAATGCTTCAATACGT 
      59.000 
      39.130 
      17.03 
      0.00 
      35.49 
      3.57 
     
    
      2018 
      2060 
      4.039730 
      ACAAATCTCATATCTCCTGGACGG 
      59.960 
      45.833 
      0.00 
      0.00 
      0.00 
      4.79 
     
    
      2019 
      2061 
      5.207110 
      ACAAATCTCATATCTCCTGGACG 
      57.793 
      43.478 
      0.00 
      0.00 
      0.00 
      4.79 
     
    
      2020 
      2062 
      6.166984 
      TGACAAATCTCATATCTCCTGGAC 
      57.833 
      41.667 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      2021 
      2063 
      6.813293 
      TTGACAAATCTCATATCTCCTGGA 
      57.187 
      37.500 
      0.00 
      0.00 
      0.00 
      3.86 
     
    
      2022 
      2064 
      7.555554 
      ACTTTTGACAAATCTCATATCTCCTGG 
      59.444 
      37.037 
      0.50 
      0.00 
      0.00 
      4.45 
     
    
      2023 
      2065 
      8.503458 
      ACTTTTGACAAATCTCATATCTCCTG 
      57.497 
      34.615 
      0.50 
      0.00 
      0.00 
      3.86 
     
    
      2027 
      2069 
      9.178758 
      GGGTAACTTTTGACAAATCTCATATCT 
      57.821 
      33.333 
      0.50 
      0.00 
      0.00 
      1.98 
     
    
      2028 
      2070 
      8.956426 
      TGGGTAACTTTTGACAAATCTCATATC 
      58.044 
      33.333 
      0.50 
      0.00 
      0.00 
      1.63 
     
    
      2029 
      2071 
      8.877864 
      TGGGTAACTTTTGACAAATCTCATAT 
      57.122 
      30.769 
      0.50 
      0.00 
      0.00 
      1.78 
     
    
      2030 
      2072 
      8.739039 
      CATGGGTAACTTTTGACAAATCTCATA 
      58.261 
      33.333 
      0.50 
      0.00 
      0.00 
      2.15 
     
    
      2031 
      2073 
      7.309990 
      CCATGGGTAACTTTTGACAAATCTCAT 
      60.310 
      37.037 
      2.85 
      0.48 
      0.00 
      2.90 
     
    
      2032 
      2074 
      6.015519 
      CCATGGGTAACTTTTGACAAATCTCA 
      60.016 
      38.462 
      2.85 
      0.00 
      0.00 
      3.27 
     
    
      2033 
      2075 
      6.015434 
      ACCATGGGTAACTTTTGACAAATCTC 
      60.015 
      38.462 
      18.09 
      0.00 
      32.11 
      2.75 
     
    
      2034 
      2076 
      5.838521 
      ACCATGGGTAACTTTTGACAAATCT 
      59.161 
      36.000 
      18.09 
      0.00 
      32.11 
      2.40 
     
    
      2035 
      2077 
      6.096673 
      ACCATGGGTAACTTTTGACAAATC 
      57.903 
      37.500 
      18.09 
      0.00 
      32.11 
      2.17 
     
    
      2077 
      2119 
      4.580580 
      AGCCAACATATTTCCGATCCTTTC 
      59.419 
      41.667 
      0.00 
      0.00 
      0.00 
      2.62 
     
    
      2147 
      2190 
      7.095017 
      GCTAATAGAAGCCCAAATACAGACATC 
      60.095 
      40.741 
      0.00 
      0.00 
      36.45 
      3.06 
     
    
      2317 
      3872 
      4.021229 
      TGATAGCAACCGTCCTCTTCTAA 
      58.979 
      43.478 
      0.00 
      0.00 
      0.00 
      2.10 
     
    
      2355 
      3910 
      4.380841 
      TTGAGCGATATCACCGTTAGTT 
      57.619 
      40.909 
      3.12 
      0.00 
      0.00 
      2.24 
     
    
      2361 
      3916 
      2.331809 
      TCGATTGAGCGATATCACCG 
      57.668 
      50.000 
      3.12 
      0.00 
      35.01 
      4.94 
     
    
      2417 
      3973 
      5.130350 
      TGAGATGGACGACTGTGATGTATA 
      58.870 
      41.667 
      0.00 
      0.00 
      0.00 
      1.47 
     
    
      2424 
      3980 
      1.541588 
      TCACTGAGATGGACGACTGTG 
      59.458 
      52.381 
      0.00 
      0.00 
      34.38 
      3.66 
     
    
      2490 
      4046 
      1.972075 
      GAGGGTAATAGGGACTGCCTC 
      59.028 
      57.143 
      0.00 
      0.00 
      41.52 
      4.70 
     
    
      2614 
      4170 
      0.249238 
      GTCCGGCTGTAGATGCTCTG 
      60.249 
      60.000 
      0.00 
      0.00 
      0.00 
      3.35 
     
   
	 
	
 Based at the University of Bristol  with support from BBSRC .
AutoCloner maintained by Alex Coulton.