Multiple sequence alignment - TraesCS6B01G330600 
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 
      TraesCS6B01G330600 
      chr6B 
      100.000 
      2915 
      0 
      0 
      1 
      2915 
      580243012 
      580240098 
      0.000000e+00 
      5384.0 
     
    
      1 
      TraesCS6B01G330600 
      chr6D 
      94.210 
      2176 
      77 
      20 
      446 
      2586 
      388323659 
      388321498 
      0.000000e+00 
      3275.0 
     
    
      2 
      TraesCS6B01G330600 
      chr6D 
      91.906 
      556 
      33 
      4 
      2040 
      2586 
      388269314 
      388268762 
      0.000000e+00 
      767.0 
     
    
      3 
      TraesCS6B01G330600 
      chr6D 
      92.449 
      437 
      25 
      5 
      1 
      432 
      388324221 
      388323788 
      4.130000e-173 
      617.0 
     
    
      4 
      TraesCS6B01G330600 
      chr6D 
      87.463 
      335 
      39 
      1 
      2584 
      2915 
      388266096 
      388265762 
      1.640000e-102 
      383.0 
     
    
      5 
      TraesCS6B01G330600 
      chr6A 
      92.524 
      2207 
      83 
      26 
      446 
      2576 
      534950553 
      534948353 
      0.000000e+00 
      3086.0 
     
    
      6 
      TraesCS6B01G330600 
      chr6A 
      92.448 
      384 
      24 
      3 
      2535 
      2915 
      534948350 
      534947969 
      7.100000e-151 
      544.0 
     
    
      7 
      TraesCS6B01G330600 
      chr6A 
      90.331 
      393 
      35 
      3 
      1 
      392 
      534951425 
      534951035 
      2.000000e-141 
      512.0 
     
    
      8 
      TraesCS6B01G330600 
      chr5A 
      85.294 
      102 
      13 
      2 
      1012 
      1113 
      616653400 
      616653499 
      1.430000e-18 
      104.0 
     
    
      9 
      TraesCS6B01G330600 
      chr5A 
      74.254 
      268 
      44 
      17 
      1645 
      1910 
      394754445 
      394754689 
      4.000000e-14 
      89.8 
     
    
      10 
      TraesCS6B01G330600 
      chr5D 
      75.093 
      269 
      42 
      17 
      1644 
      1910 
      302972807 
      302972562 
      5.140000e-18 
      102.0 
     
    
      11 
      TraesCS6B01G330600 
      chr4D 
      84.314 
      102 
      14 
      2 
      1012 
      1113 
      124286628 
      124286727 
      6.650000e-17 
      99.0 
     
    
      12 
      TraesCS6B01G330600 
      chr5B 
      92.188 
      64 
      5 
      0 
      1646 
      1709 
      347988450 
      347988387 
      1.110000e-14 
      91.6 
     
    
      13 
      TraesCS6B01G330600 
      chr3A 
      82.828 
      99 
      15 
      2 
      1015 
      1113 
      696400801 
      696400705 
      1.440000e-13 
      87.9 
     
   
    
 
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 
      TraesCS6B01G330600 
      chr6B 
      580240098 
      580243012 
      2914 
      True 
      5384.000000 
      5384 
      100.000000 
      1 
      2915 
      1 
      chr6B.!!$R1 
      2914 
     
    
      1 
      TraesCS6B01G330600 
      chr6D 
      388321498 
      388324221 
      2723 
      True 
      1946.000000 
      3275 
      93.329500 
      1 
      2586 
      2 
      chr6D.!!$R2 
      2585 
     
    
      2 
      TraesCS6B01G330600 
      chr6D 
      388265762 
      388269314 
      3552 
      True 
      575.000000 
      767 
      89.684500 
      2040 
      2915 
      2 
      chr6D.!!$R1 
      875 
     
    
      3 
      TraesCS6B01G330600 
      chr6A 
      534947969 
      534951425 
      3456 
      True 
      1380.666667 
      3086 
      91.767667 
      1 
      2915 
      3 
      chr6A.!!$R1 
      2914 
     
   
 
            
                
                     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 
     
   
  
    
      19 
      20 
      0.103390 
      TCATGTTGTGACACGGTCGT 
      59.897 
      50.0 
      0.22 
      0.0 
      38.91 
      4.34 
      F 
     
    
      1602 
      2113 
      0.251121 
      TTCCCCGCAAGAATCAGCAA 
      60.251 
      50.0 
      0.00 
      0.0 
      43.02 
      3.91 
      F 
     
   
 
	
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
      Orientation 
     
   
  
    
      1796 
      2307 
      0.107654 
      GTACCTCATCACCACCAGGC 
      60.108 
      60.0 
      0.0 
      0.0 
      39.06 
      4.85 
      R 
     
    
      2718 
      5982 
      0.954452 
      GTTGTTGCCCAAGAGGTGAG 
      59.046 
      55.0 
      0.0 
      0.0 
      38.26 
      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 
     
   
  
    
      19 
      20 
      0.103390 
      TCATGTTGTGACACGGTCGT 
      59.897 
      50.000 
      0.22 
      0.00 
      38.91 
      4.34 
     
    
      64 
      65 
      3.215975 
      TCAAACTTTACAAAGGGGTCGG 
      58.784 
      45.455 
      6.66 
      0.00 
      40.31 
      4.79 
     
    
      107 
      108 
      1.142185 
      CGCTGTGCATCCAGTAGACG 
      61.142 
      60.000 
      6.23 
      0.00 
      34.84 
      4.18 
     
    
      121 
      122 
      2.095364 
      AGTAGACGTGGCGTAAGTTCAG 
      60.095 
      50.000 
      0.00 
      0.00 
      41.37 
      3.02 
     
    
      159 
      160 
      1.876664 
      TCGACTTCCTCGAGTGCAG 
      59.123 
      57.895 
      12.31 
      6.45 
      46.75 
      4.41 
     
    
      227 
      228 
      2.097466 
      GTGCCTTCCGGTGTATTTCATG 
      59.903 
      50.000 
      0.00 
      0.00 
      0.00 
      3.07 
     
    
      288 
      289 
      1.345415 
      CACCCAATTTGAAAGCCAGCT 
      59.655 
      47.619 
      0.00 
      0.00 
      0.00 
      4.24 
     
    
      363 
      364 
      2.537529 
      CGTTGTTGCACACTTCTCACAG 
      60.538 
      50.000 
      0.00 
      0.00 
      0.00 
      3.66 
     
    
      370 
      371 
      1.069823 
      CACACTTCTCACAGACCTGCT 
      59.930 
      52.381 
      0.00 
      0.00 
      0.00 
      4.24 
     
    
      372 
      373 
      1.617850 
      CACTTCTCACAGACCTGCTCT 
      59.382 
      52.381 
      0.00 
      0.00 
      0.00 
      4.09 
     
    
      394 
      395 
      5.830457 
      TCTCACAGCAGTATAATACAGAGCT 
      59.170 
      40.000 
      0.00 
      0.00 
      35.13 
      4.09 
     
    
      395 
      396 
      5.836347 
      TCACAGCAGTATAATACAGAGCTG 
      58.164 
      41.667 
      16.46 
      16.46 
      46.78 
      4.24 
     
    
      396 
      397 
      5.594317 
      TCACAGCAGTATAATACAGAGCTGA 
      59.406 
      40.000 
      21.81 
      5.76 
      45.57 
      4.26 
     
    
      397 
      398 
      6.266330 
      TCACAGCAGTATAATACAGAGCTGAT 
      59.734 
      38.462 
      21.81 
      9.47 
      45.57 
      2.90 
     
    
      398 
      399 
      6.365518 
      CACAGCAGTATAATACAGAGCTGATG 
      59.634 
      42.308 
      21.81 
      15.33 
      45.57 
      3.07 
     
    
      400 
      401 
      5.541868 
      AGCAGTATAATACAGAGCTGATGGT 
      59.458 
      40.000 
      4.21 
      0.00 
      34.09 
      3.55 
     
    
      401 
      402 
      5.636965 
      GCAGTATAATACAGAGCTGATGGTG 
      59.363 
      44.000 
      4.21 
      0.00 
      0.00 
      4.17 
     
    
      402 
      403 
      5.636965 
      CAGTATAATACAGAGCTGATGGTGC 
      59.363 
      44.000 
      4.21 
      0.00 
      0.00 
      5.01 
     
    
      413 
      416 
      4.275810 
      AGCTGATGGTGCTCACATTAAAT 
      58.724 
      39.130 
      2.21 
      0.00 
      35.67 
      1.40 
     
    
      415 
      418 
      5.887598 
      AGCTGATGGTGCTCACATTAAATAA 
      59.112 
      36.000 
      2.21 
      0.00 
      35.67 
      1.40 
     
    
      416 
      419 
      6.548622 
      AGCTGATGGTGCTCACATTAAATAAT 
      59.451 
      34.615 
      2.21 
      0.00 
      35.67 
      1.28 
     
    
      438 
      441 
      9.757227 
      ATAATAGAAGAATTGTAGAGTCTGCAC 
      57.243 
      33.333 
      10.78 
      0.00 
      30.03 
      4.57 
     
    
      440 
      443 
      6.107901 
      AGAAGAATTGTAGAGTCTGCACTT 
      57.892 
      37.500 
      10.78 
      11.77 
      30.03 
      3.16 
     
    
      441 
      444 
      6.529220 
      AGAAGAATTGTAGAGTCTGCACTTT 
      58.471 
      36.000 
      10.78 
      7.76 
      30.03 
      2.66 
     
    
      442 
      445 
      7.671302 
      AGAAGAATTGTAGAGTCTGCACTTTA 
      58.329 
      34.615 
      10.78 
      0.00 
      30.03 
      1.85 
     
    
      443 
      446 
      7.816995 
      AGAAGAATTGTAGAGTCTGCACTTTAG 
      59.183 
      37.037 
      10.78 
      0.00 
      30.03 
      1.85 
     
    
      444 
      447 
      6.402222 
      AGAATTGTAGAGTCTGCACTTTAGG 
      58.598 
      40.000 
      10.78 
      0.00 
      30.12 
      2.69 
     
    
      460 
      917 
      6.072452 
      GCACTTTAGGCACATAAATAGATCCC 
      60.072 
      42.308 
      0.00 
      0.00 
      0.00 
      3.85 
     
    
      473 
      930 
      1.600916 
      GATCCCCCGCTATGCAACC 
      60.601 
      63.158 
      0.00 
      0.00 
      0.00 
      3.77 
     
    
      663 
      1134 
      8.870116 
      GTTAAATCCCAATATTTTAGCCCAGAT 
      58.130 
      33.333 
      0.00 
      0.00 
      31.63 
      2.90 
     
    
      709 
      1191 
      4.724798 
      ACACTAATCTTACCCCAGGCATAA 
      59.275 
      41.667 
      0.00 
      0.00 
      0.00 
      1.90 
     
    
      877 
      1369 
      5.353111 
      GCTTTTAAAACTGCCACCTAAACA 
      58.647 
      37.500 
      0.00 
      0.00 
      0.00 
      2.83 
     
    
      887 
      1379 
      1.272490 
      CCACCTAAACAGACAGCTCGA 
      59.728 
      52.381 
      0.00 
      0.00 
      0.00 
      4.04 
     
    
      963 
      1458 
      1.457455 
      GAGCAGAGGAGGAGGAGGG 
      60.457 
      68.421 
      0.00 
      0.00 
      0.00 
      4.30 
     
    
      1304 
      1815 
      4.766632 
      GGCCAAGCCCAAGGGAGG 
      62.767 
      72.222 
      9.92 
      8.26 
      44.06 
      4.30 
     
    
      1583 
      2094 
      0.324830 
      CTCGAGGAAGGGAAGAGGGT 
      60.325 
      60.000 
      3.91 
      0.00 
      0.00 
      4.34 
     
    
      1600 
      2111 
      1.657751 
      GGTTCCCCGCAAGAATCAGC 
      61.658 
      60.000 
      0.00 
      0.00 
      43.02 
      4.26 
     
    
      1602 
      2113 
      0.251121 
      TTCCCCGCAAGAATCAGCAA 
      60.251 
      50.000 
      0.00 
      0.00 
      43.02 
      3.91 
     
    
      1629 
      2140 
      3.842923 
      CCGCACGAGGAGCAGGAT 
      61.843 
      66.667 
      0.00 
      0.00 
      0.00 
      3.24 
     
    
      1732 
      2243 
      3.138798 
      GAGTAGCCGACGCAGGGA 
      61.139 
      66.667 
      0.00 
      0.00 
      37.52 
      4.20 
     
    
      1796 
      2307 
      0.744281 
      GAAGAGCCGGAGAAGGAGAG 
      59.256 
      60.000 
      5.05 
      0.00 
      0.00 
      3.20 
     
    
      1836 
      2347 
      1.601419 
      CGCCCGACTTCTTCCAGGTA 
      61.601 
      60.000 
      0.00 
      0.00 
      0.00 
      3.08 
     
    
      1916 
      2427 
      2.648059 
      CCGGAGCTGGAAGAAATGAAT 
      58.352 
      47.619 
      0.00 
      0.00 
      34.07 
      2.57 
     
    
      1922 
      2433 
      2.478539 
      GCTGGAAGAAATGAATGGCGAC 
      60.479 
      50.000 
      0.00 
      0.00 
      34.07 
      5.19 
     
    
      1949 
      2472 
      3.368427 
      CCTCTCCTTCTGCGAACAATGTA 
      60.368 
      47.826 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      1960 
      2483 
      4.737279 
      TGCGAACAATGTATGTGTGTTTTG 
      59.263 
      37.500 
      0.00 
      0.00 
      42.99 
      2.44 
     
    
      1986 
      2513 
      3.532155 
      GCGACCCGATCCTCTGCT 
      61.532 
      66.667 
      0.00 
      0.00 
      0.00 
      4.24 
     
    
      1994 
      2521 
      1.000731 
      CCGATCCTCTGCTGATTCTCC 
      59.999 
      57.143 
      0.00 
      0.00 
      0.00 
      3.71 
     
    
      1997 
      2524 
      3.181467 
      CGATCCTCTGCTGATTCTCCTTT 
      60.181 
      47.826 
      0.00 
      0.00 
      0.00 
      3.11 
     
    
      2013 
      2540 
      4.835615 
      TCTCCTTTTGAGAGCAGAGTTACT 
      59.164 
      41.667 
      0.00 
      0.00 
      45.29 
      2.24 
     
    
      2081 
      2611 
      1.140312 
      TTGGTTCAGAGAAGGCCAGT 
      58.860 
      50.000 
      5.01 
      0.00 
      0.00 
      4.00 
     
    
      2086 
      2616 
      1.131638 
      TCAGAGAAGGCCAGTGTGTT 
      58.868 
      50.000 
      5.01 
      0.00 
      0.00 
      3.32 
     
    
      2146 
      2676 
      4.838986 
      TGCTGTACTATTAGGGATCCCTTC 
      59.161 
      45.833 
      38.13 
      18.47 
      45.70 
      3.46 
     
    
      2147 
      2677 
      5.088026 
      GCTGTACTATTAGGGATCCCTTCT 
      58.912 
      45.833 
      38.13 
      25.93 
      45.70 
      2.85 
     
    
      2160 
      2691 
      7.990055 
      AGGGATCCCTTCTATATTTTTACCTG 
      58.010 
      38.462 
      28.96 
      0.00 
      45.70 
      4.00 
     
    
      2161 
      2692 
      6.659668 
      GGGATCCCTTCTATATTTTTACCTGC 
      59.340 
      42.308 
      24.69 
      0.00 
      0.00 
      4.85 
     
    
      2266 
      2804 
      5.405269 
      AGCGTGCAATTTAACTTTGGATTTC 
      59.595 
      36.000 
      0.00 
      0.00 
      0.00 
      2.17 
     
    
      2321 
      2867 
      3.807622 
      TGTTTACACTGTAAGCTGACTGC 
      59.192 
      43.478 
      14.63 
      0.00 
      37.60 
      4.40 
     
    
      2423 
      2972 
      8.197439 
      AGAAAATGAAACGATCTTGTCCTTTTT 
      58.803 
      29.630 
      6.77 
      4.28 
      0.00 
      1.94 
     
    
      2478 
      3027 
      6.258230 
      TCTTCGGTTCTGAAAGTACGATTA 
      57.742 
      37.500 
      0.00 
      0.23 
      34.76 
      1.75 
     
    
      2557 
      3150 
      4.084328 
      GCAATCGCTGTCAGTATGTTATCC 
      60.084 
      45.833 
      0.93 
      0.00 
      33.80 
      2.59 
     
    
      2590 
      5851 
      8.758829 
      TCTGAGCAAATAGGTTGATTAGAAGTA 
      58.241 
      33.333 
      0.00 
      0.00 
      43.06 
      2.24 
     
    
      2615 
      5876 
      6.405278 
      TTCTTTTTCAGGGAAGGTTGATTC 
      57.595 
      37.500 
      0.00 
      0.00 
      0.00 
      2.52 
     
    
      2695 
      5959 
      6.490040 
      ACTTTCAATTGTGCCACTACTGTTAT 
      59.510 
      34.615 
      5.13 
      0.00 
      0.00 
      1.89 
     
    
      2716 
      5980 
      1.338769 
      CCTTTACCCACTTGTCCCTCG 
      60.339 
      57.143 
      0.00 
      0.00 
      0.00 
      4.63 
     
    
      2718 
      5982 
      1.833787 
      TTACCCACTTGTCCCTCGCC 
      61.834 
      60.000 
      0.00 
      0.00 
      0.00 
      5.54 
     
    
      2760 
      6024 
      1.295423 
      GAAACCCTAGCTCGCACCA 
      59.705 
      57.895 
      0.00 
      0.00 
      0.00 
      4.17 
     
    
      2791 
      6055 
      4.617595 
      ACTGCCCCACCTCCCCTT 
      62.618 
      66.667 
      0.00 
      0.00 
      0.00 
      3.95 
     
    
      2800 
      6064 
      2.352805 
      CCTCCCCTTGCTGTCACC 
      59.647 
      66.667 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      2801 
      6065 
      2.352805 
      CTCCCCTTGCTGTCACCC 
      59.647 
      66.667 
      0.00 
      0.00 
      0.00 
      4.61 
     
    
      2808 
      6072 
      3.800685 
      TTGCTGTCACCCGTGGACG 
      62.801 
      63.158 
      0.00 
      0.00 
      38.10 
      4.79 
     
    
      2888 
      6152 
      4.385310 
      CCCCTCTGATTTAACCCAAGGTAG 
      60.385 
      50.000 
      0.00 
      0.00 
      33.12 
      3.18 
     
    
      2893 
      6157 
      4.595986 
      TGATTTAACCCAAGGTAGCCTTC 
      58.404 
      43.478 
      0.00 
      0.00 
      42.67 
      3.46 
     
   
	 
    
		
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
     
   
  
    
      5 
      6 
      0.594602 
      CCTCTACGACCGTGTCACAA 
      59.405 
      55.000 
      5.20 
      0.00 
      32.09 
      3.33 
     
    
      19 
      20 
      1.009060 
      TGTATGGTTGGGCCTCCTCTA 
      59.991 
      52.381 
      16.59 
      7.94 
      38.35 
      2.43 
     
    
      107 
      108 
      2.150397 
      AGTCACTGAACTTACGCCAC 
      57.850 
      50.000 
      0.00 
      0.00 
      0.00 
      5.01 
     
    
      121 
      122 
      3.945179 
      GATGAAATGCATCGGAAGTCAC 
      58.055 
      45.455 
      0.00 
      0.00 
      43.57 
      3.67 
     
    
      227 
      228 
      5.517904 
      GCATGATCTTGCCTAGATTTGTTC 
      58.482 
      41.667 
      20.10 
      0.00 
      43.75 
      3.18 
     
    
      288 
      289 
      5.430886 
      ACAGATGTGCAGATACAATGCTAA 
      58.569 
      37.500 
      0.00 
      0.00 
      44.17 
      3.09 
     
    
      370 
      371 
      5.830457 
      AGCTCTGTATTATACTGCTGTGAGA 
      59.170 
      40.000 
      6.48 
      3.07 
      32.58 
      3.27 
     
    
      372 
      373 
      5.594317 
      TCAGCTCTGTATTATACTGCTGTGA 
      59.406 
      40.000 
      26.47 
      16.52 
      42.55 
      3.58 
     
    
      392 
      393 
      4.644103 
      ATTTAATGTGAGCACCATCAGC 
      57.356 
      40.909 
      0.00 
      0.00 
      0.00 
      4.26 
     
    
      394 
      395 
      9.625747 
      TTCTATTATTTAATGTGAGCACCATCA 
      57.374 
      29.630 
      0.00 
      0.00 
      0.00 
      3.07 
     
    
      396 
      397 
      9.851686 
      TCTTCTATTATTTAATGTGAGCACCAT 
      57.148 
      29.630 
      0.00 
      0.00 
      0.00 
      3.55 
     
    
      397 
      398 
      9.679661 
      TTCTTCTATTATTTAATGTGAGCACCA 
      57.320 
      29.630 
      0.00 
      0.00 
      0.00 
      4.17 
     
    
      413 
      416 
      8.972127 
      AGTGCAGACTCTACAATTCTTCTATTA 
      58.028 
      33.333 
      0.00 
      0.00 
      0.00 
      0.98 
     
    
      415 
      418 
      7.416964 
      AGTGCAGACTCTACAATTCTTCTAT 
      57.583 
      36.000 
      0.00 
      0.00 
      0.00 
      1.98 
     
    
      416 
      419 
      6.842437 
      AGTGCAGACTCTACAATTCTTCTA 
      57.158 
      37.500 
      0.00 
      0.00 
      0.00 
      2.10 
     
    
      429 
      432 
      2.169832 
      TGTGCCTAAAGTGCAGACTC 
      57.830 
      50.000 
      0.00 
      0.00 
      39.87 
      3.36 
     
    
      432 
      435 
      6.649155 
      TCTATTTATGTGCCTAAAGTGCAGA 
      58.351 
      36.000 
      0.00 
      0.00 
      39.87 
      4.26 
     
    
      433 
      436 
      6.925610 
      TCTATTTATGTGCCTAAAGTGCAG 
      57.074 
      37.500 
      0.00 
      0.00 
      39.87 
      4.41 
     
    
      434 
      437 
      6.486657 
      GGATCTATTTATGTGCCTAAAGTGCA 
      59.513 
      38.462 
      0.00 
      0.00 
      36.12 
      4.57 
     
    
      435 
      438 
      6.072452 
      GGGATCTATTTATGTGCCTAAAGTGC 
      60.072 
      42.308 
      0.00 
      0.00 
      0.00 
      4.40 
     
    
      436 
      439 
      6.431234 
      GGGGATCTATTTATGTGCCTAAAGTG 
      59.569 
      42.308 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      437 
      440 
      6.467339 
      GGGGGATCTATTTATGTGCCTAAAGT 
      60.467 
      42.308 
      0.00 
      0.00 
      0.00 
      2.66 
     
    
      438 
      441 
      5.946377 
      GGGGGATCTATTTATGTGCCTAAAG 
      59.054 
      44.000 
      0.00 
      0.00 
      0.00 
      1.85 
     
    
      440 
      443 
      4.019681 
      CGGGGGATCTATTTATGTGCCTAA 
      60.020 
      45.833 
      0.00 
      0.00 
      0.00 
      2.69 
     
    
      441 
      444 
      3.517901 
      CGGGGGATCTATTTATGTGCCTA 
      59.482 
      47.826 
      0.00 
      0.00 
      0.00 
      3.93 
     
    
      442 
      445 
      2.305927 
      CGGGGGATCTATTTATGTGCCT 
      59.694 
      50.000 
      0.00 
      0.00 
      0.00 
      4.75 
     
    
      443 
      446 
      2.711542 
      CGGGGGATCTATTTATGTGCC 
      58.288 
      52.381 
      0.00 
      0.00 
      0.00 
      5.01 
     
    
      444 
      447 
      2.084546 
      GCGGGGGATCTATTTATGTGC 
      58.915 
      52.381 
      0.00 
      0.00 
      0.00 
      4.57 
     
    
      633 
      1104 
      7.070696 
      GGGCTAAAATATTGGGATTTAACTGGT 
      59.929 
      37.037 
      0.00 
      0.00 
      0.00 
      4.00 
     
    
      636 
      1107 
      8.065007 
      TCTGGGCTAAAATATTGGGATTTAACT 
      58.935 
      33.333 
      0.00 
      0.00 
      0.00 
      2.24 
     
    
      637 
      1108 
      8.245195 
      TCTGGGCTAAAATATTGGGATTTAAC 
      57.755 
      34.615 
      0.00 
      0.00 
      0.00 
      2.01 
     
    
      663 
      1134 
      3.343972 
      GCTTGCTTGGCGAAGTGA 
      58.656 
      55.556 
      10.35 
      0.00 
      0.00 
      3.41 
     
    
      709 
      1191 
      2.186826 
      GTGTCGTGCTGTTTGGCCT 
      61.187 
      57.895 
      3.32 
      0.00 
      0.00 
      5.19 
     
    
      877 
      1369 
      2.098934 
      GTGATGAGTGATCGAGCTGTCT 
      59.901 
      50.000 
      0.90 
      0.00 
      33.17 
      3.41 
     
    
      887 
      1379 
      2.680221 
      GCTTGAGGCTGTGATGAGTGAT 
      60.680 
      50.000 
      0.00 
      0.00 
      38.06 
      3.06 
     
    
      963 
      1458 
      1.729517 
      GTGAAGCTTCTTCTTCCTCGC 
      59.270 
      52.381 
      26.09 
      0.95 
      41.23 
      5.03 
     
    
      1174 
      1673 
      4.043200 
      GTTCCTGTTGGCGGCTGC 
      62.043 
      66.667 
      9.72 
      9.72 
      41.71 
      5.25 
     
    
      1176 
      1675 
      4.660938 
      GGGTTCCTGTTGGCGGCT 
      62.661 
      66.667 
      11.43 
      0.00 
      0.00 
      5.52 
     
    
      1311 
      1822 
      4.323477 
      TTCTTCCCACCACCGGCG 
      62.323 
      66.667 
      0.00 
      0.00 
      0.00 
      6.46 
     
    
      1312 
      1823 
      2.359975 
      CTTCTTCCCACCACCGGC 
      60.360 
      66.667 
      0.00 
      0.00 
      0.00 
      6.13 
     
    
      1313 
      1824 
      0.321653 
      CTTCTTCTTCCCACCACCGG 
      60.322 
      60.000 
      0.00 
      0.00 
      0.00 
      5.28 
     
    
      1314 
      1825 
      0.321653 
      CCTTCTTCTTCCCACCACCG 
      60.322 
      60.000 
      0.00 
      0.00 
      0.00 
      4.94 
     
    
      1315 
      1826 
      0.609406 
      GCCTTCTTCTTCCCACCACC 
      60.609 
      60.000 
      0.00 
      0.00 
      0.00 
      4.61 
     
    
      1316 
      1827 
      0.609406 
      GGCCTTCTTCTTCCCACCAC 
      60.609 
      60.000 
      0.00 
      0.00 
      0.00 
      4.16 
     
    
      1320 
      1831 
      1.374947 
      CGTGGCCTTCTTCTTCCCA 
      59.625 
      57.895 
      3.32 
      0.00 
      0.00 
      4.37 
     
    
      1356 
      1867 
      1.372087 
      GCAGGGCGTCCTTCTTGATG 
      61.372 
      60.000 
      5.38 
      0.00 
      42.67 
      3.07 
     
    
      1548 
      2059 
      1.202758 
      TCGAGCACCATGAACCACTTT 
      60.203 
      47.619 
      0.00 
      0.00 
      0.00 
      2.66 
     
    
      1583 
      2094 
      0.251121 
      TTGCTGATTCTTGCGGGGAA 
      60.251 
      50.000 
      0.00 
      0.00 
      0.00 
      3.97 
     
    
      1596 
      2107 
      1.080772 
      CGGTAGCTCGTGTTGCTGA 
      60.081 
      57.895 
      0.00 
      0.00 
      41.32 
      4.26 
     
    
      1600 
      2111 
      3.156334 
      GTGCGGTAGCTCGTGTTG 
      58.844 
      61.111 
      0.00 
      0.00 
      45.42 
      3.33 
     
    
      1629 
      2140 
      2.812178 
      GGCGCCGCGTCTTCTTTA 
      60.812 
      61.111 
      12.58 
      0.00 
      0.00 
      1.85 
     
    
      1732 
      2243 
      2.364448 
      GGCCTCCTCCTCGTCCTT 
      60.364 
      66.667 
      0.00 
      0.00 
      0.00 
      3.36 
     
    
      1796 
      2307 
      0.107654 
      GTACCTCATCACCACCAGGC 
      60.108 
      60.000 
      0.00 
      0.00 
      39.06 
      4.85 
     
    
      1836 
      2347 
      3.409201 
      CTTGGCGATGTCCATGGAT 
      57.591 
      52.632 
      19.62 
      1.68 
      35.77 
      3.41 
     
    
      1916 
      2427 
      2.764128 
      GGAGAGGATGGGTCGCCA 
      60.764 
      66.667 
      0.00 
      0.00 
      34.25 
      5.69 
     
    
      1922 
      2433 
      1.045350 
      TCGCAGAAGGAGAGGATGGG 
      61.045 
      60.000 
      0.00 
      0.00 
      0.00 
      4.00 
     
    
      1949 
      2472 
      4.867047 
      TCGCAAAATGTTCAAAACACACAT 
      59.133 
      33.333 
      0.00 
      0.00 
      45.50 
      3.21 
     
    
      1960 
      2483 
      1.202143 
      GGATCGGGTCGCAAAATGTTC 
      60.202 
      52.381 
      0.00 
      0.00 
      0.00 
      3.18 
     
    
      1994 
      2521 
      5.700846 
      TCGTAGTAACTCTGCTCTCAAAAG 
      58.299 
      41.667 
      0.00 
      0.00 
      0.00 
      2.27 
     
    
      1997 
      2524 
      5.899120 
      AATCGTAGTAACTCTGCTCTCAA 
      57.101 
      39.130 
      0.00 
      0.00 
      0.00 
      3.02 
     
    
      2081 
      2611 
      2.682856 
      GTTTTGCTGAGAGACCAACACA 
      59.317 
      45.455 
      0.00 
      0.00 
      0.00 
      3.72 
     
    
      2086 
      2616 
      4.889409 
      AGAATTTGTTTTGCTGAGAGACCA 
      59.111 
      37.500 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      2266 
      2804 
      9.606631 
      AGGTAAAGCACTAGAGAAATTTATCTG 
      57.393 
      33.333 
      22.53 
      15.18 
      30.36 
      2.90 
     
    
      2321 
      2867 
      6.980397 
      ACAAACAGAAAGCAACAAATCCTTAG 
      59.020 
      34.615 
      0.00 
      0.00 
      0.00 
      2.18 
     
    
      2441 
      2990 
      2.069273 
      CCGAAGAAGTTGTCGCTGAAT 
      58.931 
      47.619 
      0.91 
      0.00 
      35.93 
      2.57 
     
    
      2557 
      3150 
      4.000331 
      ACCTATTTGCTCAGATCCATCG 
      58.000 
      45.455 
      0.00 
      0.00 
      0.00 
      3.84 
     
    
      2590 
      5851 
      7.379059 
      AATCAACCTTCCCTGAAAAAGAAAT 
      57.621 
      32.000 
      0.00 
      0.00 
      0.00 
      2.17 
     
    
      2615 
      5876 
      3.251571 
      GGCACCAGTCTAACTAACTTCG 
      58.748 
      50.000 
      0.00 
      0.00 
      0.00 
      3.79 
     
    
      2695 
      5959 
      1.982958 
      GAGGGACAAGTGGGTAAAGGA 
      59.017 
      52.381 
      0.00 
      0.00 
      0.00 
      3.36 
     
    
      2716 
      5980 
      1.973812 
      GTTGCCCAAGAGGTGAGGC 
      60.974 
      63.158 
      0.00 
      0.00 
      41.49 
      4.70 
     
    
      2718 
      5982 
      0.954452 
      GTTGTTGCCCAAGAGGTGAG 
      59.046 
      55.000 
      0.00 
      0.00 
      38.26 
      3.51 
     
    
      2760 
      6024 
      3.492353 
      CAGTGGATGGGGGCCGAT 
      61.492 
      66.667 
      0.00 
      0.00 
      0.00 
      4.18 
     
    
      2791 
      6055 
      4.293648 
      CGTCCACGGGTGACAGCA 
      62.294 
      66.667 
      7.01 
      0.00 
      35.37 
      4.41 
     
    
      2794 
      6058 
      4.293648 
      CAGCGTCCACGGGTGACA 
      62.294 
      66.667 
      0.00 
      0.00 
      40.23 
      3.58 
     
    
      2800 
      6064 
      2.572191 
      TAGATTTACAGCGTCCACGG 
      57.428 
      50.000 
      0.55 
      0.00 
      40.23 
      4.94 
     
    
      2801 
      6065 
      3.508762 
      ACTTAGATTTACAGCGTCCACG 
      58.491 
      45.455 
      0.00 
      0.00 
      43.27 
      4.94 
     
    
      2808 
      6072 
      4.260948 
      GCTGCATGGACTTAGATTTACAGC 
      60.261 
      45.833 
      0.00 
      0.00 
      39.85 
      4.40 
     
   
	 
	
 Based at the University of Bristol  with support from BBSRC .
AutoCloner maintained by Alex Coulton.