Multiple sequence alignment - TraesCS6A01G216200 
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 
      TraesCS6A01G216200 
      chr6A 
      100.000 
      4063 
      0 
      0 
      1 
      4063 
      398175349 
      398179411 
      0.000000e+00 
      7504.0 
     
    
      1 
      TraesCS6A01G216200 
      chr6A 
      90.244 
      82 
      8 
      0 
      2481 
      2562 
      398177691 
      398177772 
      1.540000e-19 
      108.0 
     
    
      2 
      TraesCS6A01G216200 
      chr6A 
      90.244 
      82 
      8 
      0 
      2343 
      2424 
      398177829 
      398177910 
      1.540000e-19 
      108.0 
     
    
      3 
      TraesCS6A01G216200 
      chr6D 
      95.637 
      2361 
      75 
      11 
      1493 
      3836 
      277145147 
      277142798 
      0.000000e+00 
      3764.0 
     
    
      4 
      TraesCS6A01G216200 
      chr6D 
      95.401 
      935 
      32 
      9 
      1 
      927 
      277146614 
      277145683 
      0.000000e+00 
      1478.0 
     
    
      5 
      TraesCS6A01G216200 
      chr6D 
      97.166 
      494 
      14 
      0 
      927 
      1420 
      277145639 
      277145146 
      0.000000e+00 
      835.0 
     
    
      6 
      TraesCS6A01G216200 
      chr6D 
      87.448 
      239 
      14 
      10 
      3826 
      4063 
      277141155 
      277140932 
      1.120000e-65 
      261.0 
     
    
      7 
      TraesCS6A01G216200 
      chr6D 
      87.805 
      82 
      10 
      0 
      2343 
      2424 
      277144156 
      277144075 
      3.340000e-16 
      97.1 
     
    
      8 
      TraesCS6A01G216200 
      chr6B 
      93.950 
      1653 
      66 
      21 
      2245 
      3884 
      439069367 
      439067736 
      0.000000e+00 
      2468.0 
     
    
      9 
      TraesCS6A01G216200 
      chr6B 
      95.695 
      1324 
      51 
      3 
      927 
      2246 
      439070793 
      439069472 
      0.000000e+00 
      2124.0 
     
    
      10 
      TraesCS6A01G216200 
      chr6B 
      91.667 
      936 
      39 
      13 
      3 
      927 
      439071744 
      439070837 
      0.000000e+00 
      1260.0 
     
    
      11 
      TraesCS6A01G216200 
      chr6B 
      91.463 
      82 
      7 
      0 
      2343 
      2424 
      439069132 
      439069051 
      3.320000e-21 
      113.0 
     
    
      12 
      TraesCS6A01G216200 
      chr6B 
      93.151 
      73 
      5 
      0 
      3991 
      4063 
      439067693 
      439067621 
      1.540000e-19 
      108.0 
     
    
      13 
      TraesCS6A01G216200 
      chr6B 
      90.244 
      82 
      8 
      0 
      2481 
      2562 
      439069270 
      439069189 
      1.540000e-19 
      108.0 
     
    
      14 
      TraesCS6A01G216200 
      chr5A 
      96.875 
      32 
      1 
      0 
      797 
      828 
      473617995 
      473617964 
      2.000000e-03 
      54.7 
     
    
      15 
      TraesCS6A01G216200 
      chr2B 
      96.970 
      33 
      0 
      1 
      813 
      844 
      95886969 
      95886937 
      2.000000e-03 
      54.7 
     
    
      16 
      TraesCS6A01G216200 
      chr1D 
      100.000 
      28 
      0 
      0 
      811 
      838 
      96177546 
      96177519 
      7.000000e-03 
      52.8 
     
    
      17 
      TraesCS6A01G216200 
      chr1D 
      100.000 
      28 
      0 
      0 
      813 
      840 
      432715198 
      432715171 
      7.000000e-03 
      52.8 
     
   
    
 
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 
      TraesCS6A01G216200 
      chr6A 
      398175349 
      398179411 
      4062 
      False 
      2573.333333 
      7504 
      93.4960 
      1 
      4063 
      3 
      chr6A.!!$F1 
      4062 
     
    
      1 
      TraesCS6A01G216200 
      chr6D 
      277140932 
      277146614 
      5682 
      True 
      1287.020000 
      3764 
      92.6914 
      1 
      4063 
      5 
      chr6D.!!$R1 
      4062 
     
    
      2 
      TraesCS6A01G216200 
      chr6B 
      439067621 
      439071744 
      4123 
      True 
      1030.166667 
      2468 
      92.6950 
      3 
      4063 
      6 
      chr6B.!!$R1 
      4060 
     
   
 
 
        
            
                
                     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 
     
   
  
    
      72 
      73 
      2.169832 
      TCTCTGCTGTCTTTTTCCCG 
      57.830 
      50.0 
      0.0 
      0.0 
      0.00 
      5.14 
      F 
     
    
      1117 
      1176 
      0.638292 
      TCCCCAGTATTCCCTACGGT 
      59.362 
      55.0 
      0.0 
      0.0 
      35.35 
      4.83 
      F 
     
   
 
	
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
      Orientation 
     
   
  
    
      1191 
      1250 
      1.340248 
      GCGCATACAGGAGTAAGCCTA 
      59.660 
      52.381 
      0.3 
      0.0 
      40.77 
      3.93 
      R 
     
    
      3107 
      3281 
      1.272092 
      CCCATCTCACCCACACAACAT 
      60.272 
      52.381 
      0.0 
      0.0 
      0.00 
      2.71 
      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 
     
   
  
    
      69 
      70 
      7.912773 
      GGCTTAATTATCTCTGCTGTCTTTTTC 
      59.087 
      37.037 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      72 
      73 
      2.169832 
      TCTCTGCTGTCTTTTTCCCG 
      57.830 
      50.000 
      0.00 
      0.00 
      0.00 
      5.14 
     
    
      219 
      221 
      7.928706 
      GTCTCTCTTTTATAGGCACATACACAT 
      59.071 
      37.037 
      0.00 
      0.00 
      0.00 
      3.21 
     
    
      314 
      317 
      5.309543 
      TCCTTCTTGGGTCTGTTTCATTCTA 
      59.690 
      40.000 
      0.00 
      0.00 
      36.20 
      2.10 
     
    
      317 
      320 
      7.281100 
      CCTTCTTGGGTCTGTTTCATTCTATAC 
      59.719 
      40.741 
      0.00 
      0.00 
      0.00 
      1.47 
     
    
      422 
      430 
      4.930696 
      AGTTAAATTCCTTCGTTCCCCAT 
      58.069 
      39.130 
      0.00 
      0.00 
      0.00 
      4.00 
     
    
      448 
      456 
      4.277423 
      CGGGACTCACACCTATTTTTGTTT 
      59.723 
      41.667 
      0.00 
      0.00 
      0.00 
      2.83 
     
    
      503 
      511 
      8.762481 
      GGAAGTCCCCAACATATTTAAGTTAT 
      57.238 
      34.615 
      0.00 
      0.00 
      0.00 
      1.89 
     
    
      1117 
      1176 
      0.638292 
      TCCCCAGTATTCCCTACGGT 
      59.362 
      55.000 
      0.00 
      0.00 
      35.35 
      4.83 
     
    
      1188 
      1247 
      1.815003 
      GTTCTTGTTGCTGCTAGCCAT 
      59.185 
      47.619 
      13.29 
      0.00 
      41.51 
      4.40 
     
    
      1191 
      1250 
      0.329261 
      TTGTTGCTGCTAGCCATCCT 
      59.671 
      50.000 
      13.29 
      0.00 
      41.51 
      3.24 
     
    
      1266 
      1325 
      6.318648 
      ACAATGATGTAAGCATATTCCGTGTT 
      59.681 
      34.615 
      0.00 
      0.00 
      45.83 
      3.32 
     
    
      1290 
      1349 
      7.989416 
      TTCTATGCTTGATTATGCATGATGA 
      57.011 
      32.000 
      17.82 
      0.00 
      44.51 
      2.92 
     
    
      1303 
      1362 
      6.661304 
      ATGCATGATGAGAGTATGTGTCTA 
      57.339 
      37.500 
      0.00 
      0.00 
      0.00 
      2.59 
     
    
      1429 
      1488 
      2.877097 
      TGGCATGCTCCTGAAACTAA 
      57.123 
      45.000 
      18.92 
      0.00 
      0.00 
      2.24 
     
    
      1442 
      1501 
      9.601217 
      GCTCCTGAAACTAAGATATTTAACTCA 
      57.399 
      33.333 
      0.00 
      0.00 
      0.00 
      3.41 
     
    
      1474 
      1533 
      4.234574 
      GGTTGGTCGAAAGGCTATTTTTG 
      58.765 
      43.478 
      0.00 
      0.00 
      34.89 
      2.44 
     
    
      1489 
      1548 
      7.123247 
      AGGCTATTTTTGCTTGTGTCTGATATT 
      59.877 
      33.333 
      0.00 
      0.00 
      0.00 
      1.28 
     
    
      1572 
      1631 
      6.177610 
      GGACCATCCAAGTTATTGTAACAGA 
      58.822 
      40.000 
      3.05 
      0.00 
      36.28 
      3.41 
     
    
      1652 
      1711 
      5.012664 
      TCTGGCTTGGTCATAGAAGTAAACA 
      59.987 
      40.000 
      0.00 
      0.00 
      0.00 
      2.83 
     
    
      1865 
      1927 
      1.299541 
      CCACGACCCATACAAGATGC 
      58.700 
      55.000 
      0.00 
      0.00 
      0.00 
      3.91 
     
    
      2058 
      2120 
      5.932303 
      TGTGGTAACTATCACTGCTTTCTTC 
      59.068 
      40.000 
      2.03 
      0.00 
      38.14 
      2.87 
     
    
      2615 
      2786 
      5.276868 
      GCGTACCATGTGCTTATGAAGTAAG 
      60.277 
      44.000 
      2.84 
      0.00 
      42.26 
      2.34 
     
    
      2623 
      2794 
      7.801716 
      TGTGCTTATGAAGTAAGTTTCTTGT 
      57.198 
      32.000 
      0.00 
      0.00 
      41.55 
      3.16 
     
    
      2624 
      2795 
      7.639039 
      TGTGCTTATGAAGTAAGTTTCTTGTG 
      58.361 
      34.615 
      0.00 
      0.00 
      41.55 
      3.33 
     
    
      2673 
      2844 
      5.359576 
      TGCAATATGGGAATAACAAGTGACC 
      59.640 
      40.000 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      2902 
      3073 
      1.374378 
      CCATGCAACAATGGCGCAA 
      60.374 
      52.632 
      10.83 
      0.00 
      40.74 
      4.85 
     
    
      3086 
      3257 
      1.572941 
      GCGTTCCACCGTCCTTTTC 
      59.427 
      57.895 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      3107 
      3281 
      8.690203 
      TTTTCTGACACTTGAAAGAATATGGA 
      57.310 
      30.769 
      0.00 
      0.00 
      34.29 
      3.41 
     
    
      3141 
      3315 
      0.676782 
      GATGGGTACTGGCTGCGTTT 
      60.677 
      55.000 
      0.00 
      0.00 
      0.00 
      3.60 
     
    
      3151 
      3325 
      2.260869 
      GCTGCGTTTCTTGGCTGGA 
      61.261 
      57.895 
      0.00 
      0.00 
      0.00 
      3.86 
     
    
      3183 
      3357 
      3.356529 
      ACATGGATGGAGTTTCCTGAC 
      57.643 
      47.619 
      0.00 
      0.00 
      37.46 
      3.51 
     
    
      3209 
      3385 
      3.798337 
      GCAGATGGTGTTGTTCTTTGTTG 
      59.202 
      43.478 
      0.00 
      0.00 
      0.00 
      3.33 
     
    
      3411 
      3587 
      6.211184 
      TGAGAACCAATGTGGCTAAATTGAAT 
      59.789 
      34.615 
      14.21 
      2.73 
      42.67 
      2.57 
     
    
      3415 
      3591 
      9.382275 
      GAACCAATGTGGCTAAATTGAATATTT 
      57.618 
      29.630 
      14.21 
      0.22 
      42.67 
      1.40 
     
    
      3548 
      3725 
      4.709397 
      TGAACCAATGTTTCAAGACCAGTT 
      59.291 
      37.500 
      0.00 
      0.00 
      33.97 
      3.16 
     
    
      3552 
      3729 
      5.212194 
      CCAATGTTTCAAGACCAGTTAACG 
      58.788 
      41.667 
      0.00 
      0.00 
      0.00 
      3.18 
     
    
      3555 
      3732 
      4.761975 
      TGTTTCAAGACCAGTTAACGAGT 
      58.238 
      39.130 
      0.00 
      1.43 
      0.00 
      4.18 
     
    
      3561 
      3738 
      3.228453 
      AGACCAGTTAACGAGTTCCTGA 
      58.772 
      45.455 
      13.67 
      0.00 
      0.00 
      3.86 
     
    
      3669 
      3854 
      3.517296 
      ATGTGTGTGGGTGTCCATTTA 
      57.483 
      42.857 
      0.00 
      0.00 
      46.09 
      1.40 
     
    
      3695 
      3884 
      0.882927 
      ATGTTTGTGGGTGTCGTCGG 
      60.883 
      55.000 
      0.00 
      0.00 
      0.00 
      4.79 
     
    
      3721 
      3910 
      3.187058 
      GCTGGGTGGCGTGTAATG 
      58.813 
      61.111 
      0.00 
      0.00 
      0.00 
      1.90 
     
    
      3722 
      3911 
      1.674322 
      GCTGGGTGGCGTGTAATGT 
      60.674 
      57.895 
      0.00 
      0.00 
      0.00 
      2.71 
     
    
      3723 
      3912 
      1.644786 
      GCTGGGTGGCGTGTAATGTC 
      61.645 
      60.000 
      0.00 
      0.00 
      0.00 
      3.06 
     
    
      3724 
      3913 
      0.321210 
      CTGGGTGGCGTGTAATGTCA 
      60.321 
      55.000 
      0.00 
      0.00 
      33.22 
      3.58 
     
    
      3725 
      3914 
      0.326595 
      TGGGTGGCGTGTAATGTCAT 
      59.673 
      50.000 
      0.00 
      0.00 
      41.00 
      3.06 
     
    
      3726 
      3915 
      1.555533 
      TGGGTGGCGTGTAATGTCATA 
      59.444 
      47.619 
      0.00 
      0.00 
      41.00 
      2.15 
     
    
      3727 
      3916 
      2.210116 
      GGGTGGCGTGTAATGTCATAG 
      58.790 
      52.381 
      0.00 
      0.00 
      41.00 
      2.23 
     
    
      3728 
      3917 
      2.419574 
      GGGTGGCGTGTAATGTCATAGT 
      60.420 
      50.000 
      0.00 
      0.00 
      41.00 
      2.12 
     
    
      3729 
      3918 
      2.864343 
      GGTGGCGTGTAATGTCATAGTC 
      59.136 
      50.000 
      0.00 
      0.00 
      41.00 
      2.59 
     
    
      3730 
      3919 
      2.864343 
      GTGGCGTGTAATGTCATAGTCC 
      59.136 
      50.000 
      0.00 
      0.00 
      41.00 
      3.85 
     
    
      3731 
      3920 
      2.498078 
      TGGCGTGTAATGTCATAGTCCA 
      59.502 
      45.455 
      0.00 
      0.00 
      28.59 
      4.02 
     
    
      3737 
      3926 
      5.460091 
      CGTGTAATGTCATAGTCCAGTGATG 
      59.540 
      44.000 
      0.00 
      0.00 
      0.00 
      3.07 
     
    
      3744 
      3944 
      5.045651 
      TGTCATAGTCCAGTGATGGTCATTT 
      60.046 
      40.000 
      0.00 
      0.00 
      0.00 
      2.32 
     
    
      3772 
      3972 
      1.373497 
      CAAGGCTGCGTCGACTTCT 
      60.373 
      57.895 
      14.70 
      0.87 
      0.00 
      2.85 
     
    
      3803 
      4003 
      0.990374 
      AGCAGATCAAAGCTCCCAGT 
      59.010 
      50.000 
      0.00 
      0.00 
      36.00 
      4.00 
     
    
      3821 
      4021 
      4.192317 
      CCAGTGGGTGCTTTATCTAGTTC 
      58.808 
      47.826 
      0.00 
      0.00 
      0.00 
      3.01 
     
    
      3836 
      4036 
      0.111253 
      AGTTCTGCAAACTCCAGGGG 
      59.889 
      55.000 
      8.03 
      0.00 
      0.00 
      4.79 
     
    
      3848 
      5701 
      0.764890 
      TCCAGGGGATGAAATAGCCG 
      59.235 
      55.000 
      0.00 
      0.00 
      34.98 
      5.52 
     
    
      3853 
      5706 
      1.954382 
      GGGGATGAAATAGCCGGTTTC 
      59.046 
      52.381 
      1.90 
      6.17 
      34.98 
      2.78 
     
    
      3901 
      5755 
      1.228124 
      TGAAACCTCAGGGCGGTTG 
      60.228 
      57.895 
      0.00 
      0.00 
      43.66 
      3.77 
     
    
      3902 
      5756 
      1.228154 
      GAAACCTCAGGGCGGTTGT 
      60.228 
      57.895 
      0.00 
      0.00 
      43.66 
      3.32 
     
    
      3905 
      5759 
      2.113139 
      CCTCAGGGCGGTTGTGTT 
      59.887 
      61.111 
      0.00 
      0.00 
      0.00 
      3.32 
     
    
      3922 
      5776 
      4.832248 
      TGTGTTGACTTCTTTCTGTGTCT 
      58.168 
      39.130 
      0.00 
      0.00 
      0.00 
      3.41 
     
    
      3940 
      5794 
      0.037326 
      CTTGTGGCGGCACTTCTCTA 
      60.037 
      55.000 
      37.33 
      17.72 
      0.00 
      2.43 
     
    
      3988 
      5842 
      5.473504 
      GCTGATGTGTTTCCTAGGAGAAAAA 
      59.526 
      40.000 
      12.26 
      0.00 
      37.49 
      1.94 
     
    
      4042 
      5896 
      7.665559 
      AAAATAGCTCCACTGTTTTCTGTGATA 
      59.334 
      33.333 
      0.00 
      0.00 
      43.78 
      2.15 
     
   
	 
    
		
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
     
   
  
    
      53 
      54 
      1.270839 
      CCGGGAAAAAGACAGCAGAGA 
      60.271 
      52.381 
      0.00 
      0.00 
      0.00 
      3.10 
     
    
      69 
      70 
      0.810031 
      CTATGCCAACGAAGACCGGG 
      60.810 
      60.000 
      6.32 
      0.00 
      43.93 
      5.73 
     
    
      72 
      73 
      0.739813 
      ACGCTATGCCAACGAAGACC 
      60.740 
      55.000 
      0.00 
      0.00 
      0.00 
      3.85 
     
    
      191 
      193 
      6.611642 
      TGTATGTGCCTATAAAAGAGAGACCT 
      59.388 
      38.462 
      0.00 
      0.00 
      0.00 
      3.85 
     
    
      219 
      221 
      3.761218 
      TGAAACAAGACCAAGAAACAGCA 
      59.239 
      39.130 
      0.00 
      0.00 
      0.00 
      4.41 
     
    
      270 
      273 
      0.534203 
      AACGGGCGTGTTCATCAGTT 
      60.534 
      50.000 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      314 
      317 
      7.837187 
      GCCTATATAAAGAGAGAGACCCAGTAT 
      59.163 
      40.741 
      0.00 
      0.00 
      0.00 
      2.12 
     
    
      317 
      320 
      6.013379 
      TGCCTATATAAAGAGAGAGACCCAG 
      58.987 
      44.000 
      0.00 
      0.00 
      0.00 
      4.45 
     
    
      397 
      405 
      6.305411 
      TGGGGAACGAAGGAATTTAACTTAA 
      58.695 
      36.000 
      0.00 
      0.00 
      0.00 
      1.85 
     
    
      422 
      430 
      0.907704 
      AATAGGTGTGAGTCCCGGCA 
      60.908 
      55.000 
      0.00 
      0.00 
      0.00 
      5.69 
     
    
      503 
      511 
      8.573035 
      ACCTCGCTTCTTTACATAAATTTTTCA 
      58.427 
      29.630 
      0.00 
      0.00 
      0.00 
      2.69 
     
    
      509 
      517 
      4.881850 
      CCCACCTCGCTTCTTTACATAAAT 
      59.118 
      41.667 
      0.00 
      0.00 
      0.00 
      1.40 
     
    
      596 
      605 
      2.823959 
      ACCTCCCCGTCAACAACTATA 
      58.176 
      47.619 
      0.00 
      0.00 
      0.00 
      1.31 
     
    
      597 
      606 
      1.652947 
      ACCTCCCCGTCAACAACTAT 
      58.347 
      50.000 
      0.00 
      0.00 
      0.00 
      2.12 
     
    
      598 
      607 
      1.426751 
      AACCTCCCCGTCAACAACTA 
      58.573 
      50.000 
      0.00 
      0.00 
      0.00 
      2.24 
     
    
      721 
      731 
      4.481463 
      CCGCAATACCAAGAAAACGATTT 
      58.519 
      39.130 
      0.00 
      0.00 
      0.00 
      2.17 
     
    
      859 
      873 
      8.946085 
      GTTCTTGTATTCACCATAGTTCAATCA 
      58.054 
      33.333 
      0.00 
      0.00 
      0.00 
      2.57 
     
    
      933 
      991 
      3.944055 
      AGATTTACAGACAGCGTGAGT 
      57.056 
      42.857 
      0.00 
      0.00 
      0.00 
      3.41 
     
    
      946 
      1004 
      5.705905 
      ACCAAAGACAAGCCTGTAGATTTAC 
      59.294 
      40.000 
      0.00 
      0.00 
      35.30 
      2.01 
     
    
      1188 
      1247 
      3.231818 
      GCATACAGGAGTAAGCCTAGGA 
      58.768 
      50.000 
      14.75 
      0.00 
      38.61 
      2.94 
     
    
      1191 
      1250 
      1.340248 
      GCGCATACAGGAGTAAGCCTA 
      59.660 
      52.381 
      0.30 
      0.00 
      40.77 
      3.93 
     
    
      1303 
      1362 
      8.310122 
      AGCATTCATGACTATTTTATGGGTTT 
      57.690 
      30.769 
      0.00 
      0.00 
      0.00 
      3.27 
     
    
      1442 
      1501 
      4.700213 
      CCTTTCGACCAACCAAGATTACAT 
      59.300 
      41.667 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      1451 
      1510 
      2.871096 
      AATAGCCTTTCGACCAACCA 
      57.129 
      45.000 
      0.00 
      0.00 
      0.00 
      3.67 
     
    
      1474 
      1533 
      6.734104 
      AACAGAGAAATATCAGACACAAGC 
      57.266 
      37.500 
      0.00 
      0.00 
      0.00 
      4.01 
     
    
      1652 
      1711 
      3.580458 
      CTCTAGTGCCCCATACAGCTAAT 
      59.420 
      47.826 
      0.00 
      0.00 
      0.00 
      1.73 
     
    
      1698 
      1760 
      3.440173 
      ACCTTTCCAGCACAAATCATACG 
      59.560 
      43.478 
      0.00 
      0.00 
      0.00 
      3.06 
     
    
      2091 
      2153 
      2.722094 
      TCAGGAGCGGTAAATGCAAAT 
      58.278 
      42.857 
      0.00 
      0.00 
      33.85 
      2.32 
     
    
      2095 
      2157 
      2.423538 
      ACAAATCAGGAGCGGTAAATGC 
      59.576 
      45.455 
      0.00 
      0.00 
      0.00 
      3.56 
     
    
      2099 
      2161 
      4.693566 
      CAGTTTACAAATCAGGAGCGGTAA 
      59.306 
      41.667 
      0.00 
      0.00 
      0.00 
      2.85 
     
    
      2235 
      2297 
      3.370840 
      AGGAAAATGCTAGATGGCACA 
      57.629 
      42.857 
      0.00 
      0.00 
      45.36 
      4.57 
     
    
      2302 
      2470 
      6.238211 
      GCGCTTGATGACTAAAACATACTCAT 
      60.238 
      38.462 
      0.00 
      0.00 
      0.00 
      2.90 
     
    
      2589 
      2758 
      2.549926 
      TCATAAGCACATGGTACGCAG 
      58.450 
      47.619 
      0.00 
      0.00 
      0.00 
      5.18 
     
    
      2615 
      2786 
      6.908825 
      TGCAACCTATTCATACACAAGAAAC 
      58.091 
      36.000 
      0.00 
      0.00 
      0.00 
      2.78 
     
    
      2623 
      2794 
      4.411869 
      TGGAGGATGCAACCTATTCATACA 
      59.588 
      41.667 
      16.55 
      0.00 
      40.73 
      2.29 
     
    
      2624 
      2795 
      4.757149 
      GTGGAGGATGCAACCTATTCATAC 
      59.243 
      45.833 
      16.55 
      1.15 
      39.09 
      2.39 
     
    
      2775 
      2946 
      2.401583 
      TGGATGTACTGCACACCATC 
      57.598 
      50.000 
      0.00 
      6.29 
      40.86 
      3.51 
     
    
      3086 
      3257 
      7.621428 
      ACATCCATATTCTTTCAAGTGTCAG 
      57.379 
      36.000 
      0.00 
      0.00 
      0.00 
      3.51 
     
    
      3107 
      3281 
      1.272092 
      CCCATCTCACCCACACAACAT 
      60.272 
      52.381 
      0.00 
      0.00 
      0.00 
      2.71 
     
    
      3141 
      3315 
      0.185901 
      AACCTTTGCTCCAGCCAAGA 
      59.814 
      50.000 
      12.78 
      0.00 
      43.91 
      3.02 
     
    
      3151 
      3325 
      4.415596 
      TCCATCCATGTAAAACCTTTGCT 
      58.584 
      39.130 
      0.00 
      0.00 
      0.00 
      3.91 
     
    
      3183 
      3357 
      1.586154 
      GAACAACACCATCTGCCCCG 
      61.586 
      60.000 
      0.00 
      0.00 
      0.00 
      5.73 
     
    
      3209 
      3385 
      4.563184 
      CAGAGACAGAAATACACGCTAACC 
      59.437 
      45.833 
      0.00 
      0.00 
      0.00 
      2.85 
     
    
      3411 
      3587 
      7.054124 
      CCAAGGACCAAGTGCTTAGATAAATA 
      58.946 
      38.462 
      0.98 
      0.00 
      42.02 
      1.40 
     
    
      3415 
      3591 
      4.101114 
      TCCAAGGACCAAGTGCTTAGATA 
      58.899 
      43.478 
      0.98 
      0.00 
      42.02 
      1.98 
     
    
      3548 
      3725 
      7.924412 
      GGAATACATTACATCAGGAACTCGTTA 
      59.076 
      37.037 
      0.00 
      0.00 
      34.60 
      3.18 
     
    
      3677 
      3862 
      1.521906 
      CCGACGACACCCACAAACA 
      60.522 
      57.895 
      0.00 
      0.00 
      0.00 
      2.83 
     
    
      3678 
      3863 
      1.493134 
      GACCGACGACACCCACAAAC 
      61.493 
      60.000 
      0.00 
      0.00 
      0.00 
      2.93 
     
    
      3695 
      3884 
      2.743928 
      CCACCCAGCGAGCAAGAC 
      60.744 
      66.667 
      0.00 
      0.00 
      0.00 
      3.01 
     
    
      3717 
      3906 
      5.660864 
      TGACCATCACTGGACTATGACATTA 
      59.339 
      40.000 
      0.00 
      0.00 
      46.37 
      1.90 
     
    
      3721 
      3910 
      4.679373 
      ATGACCATCACTGGACTATGAC 
      57.321 
      45.455 
      0.00 
      0.00 
      46.37 
      3.06 
     
    
      3722 
      3911 
      5.396772 
      GGAAATGACCATCACTGGACTATGA 
      60.397 
      44.000 
      0.00 
      0.00 
      46.37 
      2.15 
     
    
      3723 
      3912 
      4.818546 
      GGAAATGACCATCACTGGACTATG 
      59.181 
      45.833 
      0.00 
      0.00 
      46.37 
      2.23 
     
    
      3724 
      3913 
      4.474651 
      TGGAAATGACCATCACTGGACTAT 
      59.525 
      41.667 
      0.00 
      0.00 
      46.37 
      2.12 
     
    
      3725 
      3914 
      3.843619 
      TGGAAATGACCATCACTGGACTA 
      59.156 
      43.478 
      0.00 
      0.00 
      46.37 
      2.59 
     
    
      3726 
      3915 
      2.644299 
      TGGAAATGACCATCACTGGACT 
      59.356 
      45.455 
      0.00 
      0.00 
      46.37 
      3.85 
     
    
      3727 
      3916 
      3.071874 
      TGGAAATGACCATCACTGGAC 
      57.928 
      47.619 
      0.00 
      0.00 
      46.37 
      4.02 
     
    
      3728 
      3917 
      3.623703 
      CATGGAAATGACCATCACTGGA 
      58.376 
      45.455 
      0.00 
      0.00 
      46.24 
      3.86 
     
    
      3729 
      3918 
      2.100252 
      GCATGGAAATGACCATCACTGG 
      59.900 
      50.000 
      0.00 
      0.00 
      46.24 
      4.00 
     
    
      3730 
      3919 
      2.756207 
      TGCATGGAAATGACCATCACTG 
      59.244 
      45.455 
      0.00 
      0.00 
      46.24 
      3.66 
     
    
      3731 
      3920 
      2.756760 
      GTGCATGGAAATGACCATCACT 
      59.243 
      45.455 
      3.24 
      0.00 
      46.24 
      3.41 
     
    
      3737 
      3926 
      0.243365 
      TTGCGTGCATGGAAATGACC 
      59.757 
      50.000 
      10.76 
      0.00 
      0.00 
      4.02 
     
    
      3744 
      3944 
      3.057548 
      CAGCCTTGCGTGCATGGA 
      61.058 
      61.111 
      25.73 
      0.81 
      41.96 
      3.41 
     
    
      3767 
      3967 
      0.806241 
      GCTCCGACGAAGAGAGAAGT 
      59.194 
      55.000 
      0.00 
      0.00 
      32.86 
      3.01 
     
    
      3772 
      3972 
      1.018148 
      GATCTGCTCCGACGAAGAGA 
      58.982 
      55.000 
      0.00 
      0.00 
      32.86 
      3.10 
     
    
      3799 
      3999 
      3.914426 
      ACTAGATAAAGCACCCACTGG 
      57.086 
      47.619 
      0.00 
      0.00 
      37.80 
      4.00 
     
    
      3803 
      4003 
      3.263170 
      TGCAGAACTAGATAAAGCACCCA 
      59.737 
      43.478 
      0.00 
      0.00 
      0.00 
      4.51 
     
    
      3821 
      4021 
      0.329261 
      TCATCCCCTGGAGTTTGCAG 
      59.671 
      55.000 
      0.00 
      0.00 
      34.05 
      4.41 
     
    
      3836 
      4036 
      4.105486 
      GCTTTGAAACCGGCTATTTCATC 
      58.895 
      43.478 
      16.74 
      8.02 
      43.65 
      2.92 
     
    
      3848 
      5701 
      1.536073 
      GCCCCCTGAGCTTTGAAACC 
      61.536 
      60.000 
      0.00 
      0.00 
      0.00 
      3.27 
     
    
      3853 
      5706 
      0.901580 
      ACATTGCCCCCTGAGCTTTG 
      60.902 
      55.000 
      0.00 
      0.00 
      0.00 
      2.77 
     
    
      3896 
      5750 
      3.374058 
      ACAGAAAGAAGTCAACACAACCG 
      59.626 
      43.478 
      0.00 
      0.00 
      0.00 
      4.44 
     
    
      3901 
      5755 
      5.122396 
      ACAAGACACAGAAAGAAGTCAACAC 
      59.878 
      40.000 
      0.00 
      0.00 
      33.56 
      3.32 
     
    
      3902 
      5756 
      5.122239 
      CACAAGACACAGAAAGAAGTCAACA 
      59.878 
      40.000 
      0.00 
      0.00 
      33.56 
      3.33 
     
    
      3905 
      5759 
      4.191544 
      CCACAAGACACAGAAAGAAGTCA 
      58.808 
      43.478 
      0.00 
      0.00 
      33.56 
      3.41 
     
    
      3922 
      5776 
      0.320421 
      GTAGAGAAGTGCCGCCACAA 
      60.320 
      55.000 
      0.00 
      0.00 
      44.53 
      3.33 
     
    
      3940 
      5794 
      5.587844 
      CAGCTCTGGTTATTCATTAAGCTGT 
      59.412 
      40.000 
      11.76 
      0.00 
      40.49 
      4.40 
     
    
      3988 
      5842 
      8.659925 
      TTTGTTTGTCAGATGCATGTATTTTT 
      57.340 
      26.923 
      2.46 
      0.00 
      0.00 
      1.94 
     
    
      3989 
      5843 
      8.659925 
      TTTTGTTTGTCAGATGCATGTATTTT 
      57.340 
      26.923 
      2.46 
      0.00 
      0.00 
      1.82 
     
    
      4004 
      5858 
      8.915654 
      CAGTGGAGCTATTTTATTTTGTTTGTC 
      58.084 
      33.333 
      0.00 
      0.00 
      0.00 
      3.18 
     
   
	 
	
  
 
Based at the University of Bristol  with support from BBSRC .
 
 
AutoCloner maintained by Alex Coulton.