Multiple sequence alignment - TraesCS4D01G109000 
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 
      TraesCS4D01G109000 
      chr4D 
      100.000 
      3944 
      0 
      0 
      1 
      3944 
      88143961 
      88140018 
      0.000000e+00 
      7284.0 
     
    
      1 
      TraesCS4D01G109000 
      chr4D 
      81.739 
      115 
      20 
      1 
      1610 
      1723 
      475176603 
      475176489 
      1.170000e-15 
      95.3 
     
    
      2 
      TraesCS4D01G109000 
      chr4A 
      94.180 
      1890 
      67 
      14 
      2079 
      3944 
      501123892 
      501122022 
      0.000000e+00 
      2841.0 
     
    
      3 
      TraesCS4D01G109000 
      chr4A 
      94.785 
      1304 
      38 
      11 
      792 
      2079 
      501125218 
      501123929 
      0.000000e+00 
      2004.0 
     
    
      4 
      TraesCS4D01G109000 
      chr4A 
      89.221 
      770 
      51 
      12 
      1 
      766 
      501126033 
      501125292 
      0.000000e+00 
      933.0 
     
    
      5 
      TraesCS4D01G109000 
      chr4A 
      82.301 
      113 
      20 
      0 
      1610 
      1722 
      681918134 
      681918022 
      9.020000e-17 
      99.0 
     
    
      6 
      TraesCS4D01G109000 
      chr4B 
      92.458 
      2002 
      68 
      19 
      1 
      1971 
      124919236 
      124917287 
      0.000000e+00 
      2784.0 
     
    
      7 
      TraesCS4D01G109000 
      chr4B 
      96.053 
      836 
      19 
      7 
      2454 
      3280 
      124916469 
      124915639 
      0.000000e+00 
      1349.0 
     
    
      8 
      TraesCS4D01G109000 
      chr4B 
      96.201 
      658 
      24 
      1 
      3287 
      3944 
      124759404 
      124758748 
      0.000000e+00 
      1075.0 
     
    
      9 
      TraesCS4D01G109000 
      chr4B 
      93.609 
      266 
      15 
      2 
      2192 
      2457 
      124916812 
      124916549 
      2.860000e-106 
      396.0 
     
    
      10 
      TraesCS4D01G109000 
      chr4B 
      94.203 
      69 
      2 
      2 
      1963 
      2029 
      124916878 
      124916810 
      1.940000e-18 
      104.0 
     
    
      11 
      TraesCS4D01G109000 
      chr4B 
      87.654 
      81 
      10 
      0 
      1610 
      1690 
      599884662 
      599884582 
      1.170000e-15 
      95.3 
     
    
      12 
      TraesCS4D01G109000 
      chr1D 
      89.394 
      66 
      7 
      0 
      1396 
      1461 
      366689561 
      366689626 
      2.530000e-12 
      84.2 
     
    
      13 
      TraesCS4D01G109000 
      chr7D 
      85.714 
      77 
      9 
      2 
      1385 
      1461 
      225199175 
      225199101 
      3.270000e-11 
      80.5 
     
   
    
 
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 
      TraesCS4D01G109000 
      chr4D 
      88140018 
      88143961 
      3943 
      True 
      7284.00 
      7284 
      100.000000 
      1 
      3944 
      1 
      chr4D.!!$R1 
      3943 
     
    
      1 
      TraesCS4D01G109000 
      chr4A 
      501122022 
      501126033 
      4011 
      True 
      1926.00 
      2841 
      92.728667 
      1 
      3944 
      3 
      chr4A.!!$R2 
      3943 
     
    
      2 
      TraesCS4D01G109000 
      chr4B 
      124915639 
      124919236 
      3597 
      True 
      1158.25 
      2784 
      94.080750 
      1 
      3280 
      4 
      chr4B.!!$R3 
      3279 
     
    
      3 
      TraesCS4D01G109000 
      chr4B 
      124758748 
      124759404 
      656 
      True 
      1075.00 
      1075 
      96.201000 
      3287 
      3944 
      1 
      chr4B.!!$R1 
      657 
     
   
 
 
        
            
                
                     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 
     
   
  
    
      133 
      134 
      0.040058 
      AGATTGAACTGGGGCATGCA 
      59.960 
      50.0 
      21.36 
      0.00 
      0.0 
      3.96 
      F 
     
    
      526 
      543 
      0.106918 
      GGTAATGCGGGGGATCACAA 
      60.107 
      55.0 
      0.00 
      0.00 
      0.0 
      3.33 
      F 
     
    
      2073 
      2581 
      0.247736 
      AGGACTAGCGCTTGAAGGTG 
      59.752 
      55.0 
      25.45 
      5.51 
      0.0 
      4.00 
      F 
     
   
 
	
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
      Orientation 
     
   
  
    
      2068 
      2576 
      0.038526 
      CGCGGAGTCAAGTACACCTT 
      60.039 
      55.0 
      0.0 
      0.0 
      36.74 
      3.50 
      R 
     
    
      2104 
      2649 
      0.176449 
      TGAGATCACATGGGTGCGAG 
      59.824 
      55.0 
      0.0 
      0.0 
      44.87 
      5.03 
      R 
     
    
      3787 
      4438 
      2.227388 
      GTGGAAACAATGGCAGAGTCAG 
      59.773 
      50.0 
      0.0 
      0.0 
      46.06 
      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 
     
   
  
    
      127 
      128 
      2.487934 
      CGATGCTAGATTGAACTGGGG 
      58.512 
      52.381 
      0.00 
      0.00 
      0.00 
      4.96 
     
    
      133 
      134 
      0.040058 
      AGATTGAACTGGGGCATGCA 
      59.960 
      50.000 
      21.36 
      0.00 
      0.00 
      3.96 
     
    
      136 
      137 
      0.392336 
      TTGAACTGGGGCATGCAAAC 
      59.608 
      50.000 
      21.36 
      9.29 
      0.00 
      2.93 
     
    
      137 
      138 
      1.293179 
      GAACTGGGGCATGCAAACC 
      59.707 
      57.895 
      21.36 
      18.18 
      0.00 
      3.27 
     
    
      163 
      167 
      0.377554 
      CATGAAGCTAGCACTGCTGC 
      59.622 
      55.000 
      18.83 
      14.18 
      44.63 
      5.25 
     
    
      176 
      180 
      3.194861 
      CACTGCTGCGCTTAATTACCTA 
      58.805 
      45.455 
      9.73 
      0.00 
      0.00 
      3.08 
     
    
      177 
      181 
      3.621268 
      CACTGCTGCGCTTAATTACCTAA 
      59.379 
      43.478 
      9.73 
      0.00 
      0.00 
      2.69 
     
    
      178 
      182 
      4.273480 
      CACTGCTGCGCTTAATTACCTAAT 
      59.727 
      41.667 
      9.73 
      0.00 
      0.00 
      1.73 
     
    
      179 
      183 
      5.465390 
      CACTGCTGCGCTTAATTACCTAATA 
      59.535 
      40.000 
      9.73 
      0.00 
      0.00 
      0.98 
     
    
      209 
      213 
      1.808411 
      CTTACGGTGTTGCTCCATGT 
      58.192 
      50.000 
      0.00 
      0.00 
      0.00 
      3.21 
     
    
      210 
      214 
      2.933492 
      GCTTACGGTGTTGCTCCATGTA 
      60.933 
      50.000 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      351 
      365 
      6.385033 
      ACACCTAGTAGAACGTGTGAAATAC 
      58.615 
      40.000 
      9.17 
      0.00 
      38.02 
      1.89 
     
    
      352 
      366 
      5.803967 
      CACCTAGTAGAACGTGTGAAATACC 
      59.196 
      44.000 
      0.00 
      0.00 
      0.00 
      2.73 
     
    
      353 
      367 
      5.713861 
      ACCTAGTAGAACGTGTGAAATACCT 
      59.286 
      40.000 
      0.00 
      0.00 
      0.00 
      3.08 
     
    
      354 
      368 
      6.034591 
      CCTAGTAGAACGTGTGAAATACCTG 
      58.965 
      44.000 
      0.00 
      0.00 
      0.00 
      4.00 
     
    
      355 
      369 
      5.464030 
      AGTAGAACGTGTGAAATACCTGT 
      57.536 
      39.130 
      0.00 
      0.00 
      0.00 
      4.00 
     
    
      356 
      370 
      6.579666 
      AGTAGAACGTGTGAAATACCTGTA 
      57.420 
      37.500 
      0.00 
      0.00 
      0.00 
      2.74 
     
    
      373 
      387 
      1.338674 
      TGTATGTTTCAGCCTCCCGTG 
      60.339 
      52.381 
      0.00 
      0.00 
      0.00 
      4.94 
     
    
      392 
      406 
      5.039333 
      CCGTGTAGTTATCTCGGGTTTTAG 
      58.961 
      45.833 
      0.00 
      0.00 
      38.00 
      1.85 
     
    
      409 
      423 
      4.462508 
      TTTAGCTCTCTGTGGATGTGAG 
      57.537 
      45.455 
      0.00 
      0.00 
      0.00 
      3.51 
     
    
      414 
      428 
      0.738762 
      CTCTGTGGATGTGAGTGCCG 
      60.739 
      60.000 
      0.00 
      0.00 
      0.00 
      5.69 
     
    
      445 
      459 
      1.221466 
      TTGCTTCGAAGTCTGCCGTG 
      61.221 
      55.000 
      25.24 
      0.00 
      0.00 
      4.94 
     
    
      493 
      510 
      8.285891 
      AGACAGAGAAATTAGAGAAGGGAGATA 
      58.714 
      37.037 
      0.00 
      0.00 
      0.00 
      1.98 
     
    
      526 
      543 
      0.106918 
      GGTAATGCGGGGGATCACAA 
      60.107 
      55.000 
      0.00 
      0.00 
      0.00 
      3.33 
     
    
      527 
      544 
      1.021968 
      GTAATGCGGGGGATCACAAC 
      58.978 
      55.000 
      0.00 
      0.00 
      0.00 
      3.32 
     
    
      553 
      574 
      3.914312 
      TCTCATCTCGTGAACCTGTTTC 
      58.086 
      45.455 
      0.00 
      0.00 
      36.14 
      2.78 
     
    
      554 
      575 
      3.320826 
      TCTCATCTCGTGAACCTGTTTCA 
      59.679 
      43.478 
      0.00 
      0.00 
      42.26 
      2.69 
     
    
      586 
      607 
      0.966875 
      TTGGTTAGCCGCTCTCCGTA 
      60.967 
      55.000 
      0.00 
      0.00 
      37.67 
      4.02 
     
    
      645 
      670 
      6.631016 
      TCAGGAAGTACAGTGTAGCAAATAG 
      58.369 
      40.000 
      2.39 
      0.00 
      0.00 
      1.73 
     
    
      809 
      883 
      9.424319 
      CAAAATCTAGAATATACCTGTGCGTAT 
      57.576 
      33.333 
      0.00 
      0.00 
      33.52 
      3.06 
     
    
      954 
      1035 
      3.701542 
      TCACTCTCACGAATCAATAGCCT 
      59.298 
      43.478 
      0.00 
      0.00 
      0.00 
      4.58 
     
    
      955 
      1036 
      4.160439 
      TCACTCTCACGAATCAATAGCCTT 
      59.840 
      41.667 
      0.00 
      0.00 
      0.00 
      4.35 
     
    
      956 
      1037 
      5.359860 
      TCACTCTCACGAATCAATAGCCTTA 
      59.640 
      40.000 
      0.00 
      0.00 
      0.00 
      2.69 
     
    
      957 
      1038 
      5.689514 
      CACTCTCACGAATCAATAGCCTTAG 
      59.310 
      44.000 
      0.00 
      0.00 
      0.00 
      2.18 
     
    
      958 
      1039 
      4.621991 
      TCTCACGAATCAATAGCCTTAGC 
      58.378 
      43.478 
      0.00 
      0.00 
      40.32 
      3.09 
     
    
      959 
      1040 
      3.728845 
      TCACGAATCAATAGCCTTAGCC 
      58.271 
      45.455 
      0.00 
      0.00 
      41.25 
      3.93 
     
    
      1015 
      1099 
      2.883730 
      CCATGGACGGCGTGTACG 
      60.884 
      66.667 
      21.19 
      2.81 
      43.27 
      3.67 
     
    
      1449 
      1533 
      2.281761 
      CTCAGCCACCGCAACCTT 
      60.282 
      61.111 
      0.00 
      0.00 
      37.52 
      3.50 
     
    
      1734 
      1818 
      2.837031 
      ATTTCGGCCATGCGAGGGTT 
      62.837 
      55.000 
      2.24 
      0.00 
      0.00 
      4.11 
     
    
      1813 
      1897 
      1.900016 
      TGCACTGGCCTTCTTGCAG 
      60.900 
      57.895 
      14.59 
      0.20 
      40.01 
      4.41 
     
    
      1843 
      1928 
      4.639755 
      TCACTTCAGAGTTCACATTTTGCA 
      59.360 
      37.500 
      0.00 
      0.00 
      32.54 
      4.08 
     
    
      1860 
      1945 
      3.865011 
      TGCACATGTTTTCAGTGTTGT 
      57.135 
      38.095 
      0.00 
      0.00 
      34.17 
      3.32 
     
    
      1961 
      2052 
      2.519013 
      AGTGAAAAGTTGGATGAGGCC 
      58.481 
      47.619 
      0.00 
      0.00 
      0.00 
      5.19 
     
    
      2024 
      2532 
      7.434492 
      TGCCGTCTTTTTATATGGAAAACAAA 
      58.566 
      30.769 
      0.00 
      0.00 
      0.00 
      2.83 
     
    
      2025 
      2533 
      8.091449 
      TGCCGTCTTTTTATATGGAAAACAAAT 
      58.909 
      29.630 
      0.00 
      0.00 
      0.00 
      2.32 
     
    
      2026 
      2534 
      9.575783 
      GCCGTCTTTTTATATGGAAAACAAATA 
      57.424 
      29.630 
      0.00 
      0.00 
      0.00 
      1.40 
     
    
      2063 
      2571 
      3.255725 
      CCGAGACTATCTAGGACTAGCG 
      58.744 
      54.545 
      0.00 
      0.00 
      41.15 
      4.26 
     
    
      2068 
      2576 
      4.066490 
      GACTATCTAGGACTAGCGCTTGA 
      58.934 
      47.826 
      25.45 
      2.19 
      33.32 
      3.02 
     
    
      2073 
      2581 
      0.247736 
      AGGACTAGCGCTTGAAGGTG 
      59.752 
      55.000 
      25.45 
      5.51 
      0.00 
      4.00 
     
    
      2076 
      2584 
      2.260481 
      GACTAGCGCTTGAAGGTGTAC 
      58.740 
      52.381 
      25.45 
      0.55 
      0.00 
      2.90 
     
    
      2086 
      2631 
      1.000506 
      TGAAGGTGTACTTGACTCCGC 
      59.999 
      52.381 
      0.00 
      0.00 
      44.96 
      5.54 
     
    
      2112 
      2663 
      0.460635 
      TATACGGTTTGCTCGCACCC 
      60.461 
      55.000 
      0.00 
      0.00 
      0.00 
      4.61 
     
    
      2124 
      2675 
      0.612744 
      TCGCACCCATGTGATCTCAA 
      59.387 
      50.000 
      0.90 
      0.00 
      45.76 
      3.02 
     
    
      2129 
      2680 
      3.434641 
      GCACCCATGTGATCTCAATATCG 
      59.565 
      47.826 
      0.90 
      0.00 
      45.76 
      2.92 
     
    
      2141 
      2693 
      6.522165 
      TGATCTCAATATCGTACGTAAATCGC 
      59.478 
      38.462 
      16.05 
      0.00 
      44.19 
      4.58 
     
    
      2247 
      2800 
      1.546923 
      TCGTTTCTATGGACGCAGGAA 
      59.453 
      47.619 
      0.00 
      0.00 
      39.03 
      3.36 
     
    
      2423 
      2976 
      8.737168 
      TGAGTATGTTGTAGTTACGGTAGTAT 
      57.263 
      34.615 
      0.00 
      0.00 
      32.12 
      2.12 
     
    
      2505 
      3140 
      6.759827 
      GGACACATAGTTCGGTATTACAATGT 
      59.240 
      38.462 
      0.00 
      0.00 
      0.00 
      2.71 
     
    
      2851 
      3495 
      6.367374 
      AAAAGGAAACAAAGGAGGTGAAAA 
      57.633 
      33.333 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      2859 
      3503 
      7.712204 
      AACAAAGGAGGTGAAAACTTTCTTA 
      57.288 
      32.000 
      3.98 
      0.00 
      38.02 
      2.10 
     
    
      3024 
      3668 
      4.454847 
      GTGGATTGACTATGCCATGATCAG 
      59.545 
      45.833 
      0.09 
      0.00 
      32.26 
      2.90 
     
    
      3041 
      3685 
      5.338632 
      TGATCAGTTTGAGTTCCCCTACTA 
      58.661 
      41.667 
      0.00 
      0.00 
      0.00 
      1.82 
     
    
      3045 
      3689 
      7.989947 
      TCAGTTTGAGTTCCCCTACTATAAT 
      57.010 
      36.000 
      0.00 
      0.00 
      0.00 
      1.28 
     
    
      3268 
      3913 
      7.284034 
      CAGTAGGCATCTTTCTTCATTACCAAT 
      59.716 
      37.037 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      3316 
      3967 
      4.906664 
      AGGTCTAGAGCATCATCCAGATTT 
      59.093 
      41.667 
      23.18 
      0.00 
      37.82 
      2.17 
     
    
      3408 
      4059 
      9.119329 
      GAAACTATGTATCAACTATGTAGCTCG 
      57.881 
      37.037 
      0.00 
      0.00 
      0.00 
      5.03 
     
    
      3426 
      4077 
      7.865889 
      TGTAGCTCGTACACATAATATGAAAGG 
      59.134 
      37.037 
      7.33 
      0.00 
      36.67 
      3.11 
     
    
      3439 
      4090 
      3.942130 
      ATGAAAGGTTTAGCAAGGTGC 
      57.058 
      42.857 
      0.00 
      0.00 
      45.46 
      5.01 
     
    
      3502 
      4153 
      4.695455 
      AGACGAAACCCATGTATGAAACTG 
      59.305 
      41.667 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      3508 
      4159 
      6.584185 
      AACCCATGTATGAAACTGTTTACC 
      57.416 
      37.500 
      5.64 
      0.00 
      0.00 
      2.85 
     
    
      3559 
      4210 
      3.618690 
      ATTCTAGTGTTGAGAGGGCAC 
      57.381 
      47.619 
      0.00 
      0.00 
      0.00 
      5.01 
     
    
      3704 
      4355 
      4.100084 
      CCAGTGGCGGCATCAGGA 
      62.100 
      66.667 
      17.19 
      0.00 
      0.00 
      3.86 
     
   
	 
    
		
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
     
   
  
    
      12 
      13 
      1.710816 
      GAGTGATGAGAGGTAGGGGG 
      58.289 
      60.000 
      0.00 
      0.00 
      0.00 
      5.40 
     
    
      133 
      134 
      1.181098 
      AGCTTCATGGCTTGCGGTTT 
      61.181 
      50.000 
      0.00 
      0.00 
      39.86 
      3.27 
     
    
      136 
      137 
      2.020131 
      CTAGCTTCATGGCTTGCGG 
      58.980 
      57.895 
      1.62 
      0.00 
      42.97 
      5.69 
     
    
      137 
      138 
      1.354506 
      GCTAGCTTCATGGCTTGCG 
      59.645 
      57.895 
      7.70 
      0.84 
      46.58 
      4.85 
     
    
      176 
      180 
      6.091718 
      ACACCGTAAGCAAAAACCATTATT 
      57.908 
      33.333 
      0.00 
      0.00 
      0.00 
      1.40 
     
    
      177 
      181 
      5.715434 
      ACACCGTAAGCAAAAACCATTAT 
      57.285 
      34.783 
      0.00 
      0.00 
      0.00 
      1.28 
     
    
      178 
      182 
      5.282510 
      CAACACCGTAAGCAAAAACCATTA 
      58.717 
      37.500 
      0.00 
      0.00 
      0.00 
      1.90 
     
    
      179 
      183 
      4.116238 
      CAACACCGTAAGCAAAAACCATT 
      58.884 
      39.130 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      209 
      213 
      0.033503 
      TCACGTCAGAGAGCCCCATA 
      60.034 
      55.000 
      0.00 
      0.00 
      0.00 
      2.74 
     
    
      210 
      214 
      0.904865 
      TTCACGTCAGAGAGCCCCAT 
      60.905 
      55.000 
      0.00 
      0.00 
      0.00 
      4.00 
     
    
      276 
      290 
      2.238521 
      CAAACCACAGGTAAGCCACAT 
      58.761 
      47.619 
      0.00 
      0.00 
      33.12 
      3.21 
     
    
      351 
      365 
      1.743772 
      CGGGAGGCTGAAACATACAGG 
      60.744 
      57.143 
      0.00 
      0.00 
      36.09 
      4.00 
     
    
      352 
      366 
      1.066143 
      ACGGGAGGCTGAAACATACAG 
      60.066 
      52.381 
      0.00 
      0.00 
      38.27 
      2.74 
     
    
      353 
      367 
      0.981183 
      ACGGGAGGCTGAAACATACA 
      59.019 
      50.000 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      354 
      368 
      1.338769 
      ACACGGGAGGCTGAAACATAC 
      60.339 
      52.381 
      0.00 
      0.00 
      0.00 
      2.39 
     
    
      355 
      369 
      0.981183 
      ACACGGGAGGCTGAAACATA 
      59.019 
      50.000 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      356 
      370 
      0.981183 
      TACACGGGAGGCTGAAACAT 
      59.019 
      50.000 
      0.00 
      0.00 
      0.00 
      2.71 
     
    
      373 
      387 
      6.039605 
      AGAGAGCTAAAACCCGAGATAACTAC 
      59.960 
      42.308 
      0.00 
      0.00 
      0.00 
      2.73 
     
    
      392 
      406 
      2.006056 
      GCACTCACATCCACAGAGAGC 
      61.006 
      57.143 
      0.00 
      0.00 
      38.44 
      4.09 
     
    
      414 
      428 
      2.413837 
      TCGAAGCAAACAAGCCTACTC 
      58.586 
      47.619 
      0.00 
      0.00 
      34.23 
      2.59 
     
    
      445 
      459 
      1.195674 
      GCTCCAACAAGCGAAAGAGAC 
      59.804 
      52.381 
      0.00 
      0.00 
      31.56 
      3.36 
     
    
      493 
      510 
      3.502211 
      CGCATTACCAAACTCTCACCTTT 
      59.498 
      43.478 
      0.00 
      0.00 
      0.00 
      3.11 
     
    
      526 
      543 
      5.127845 
      ACAGGTTCACGAGATGAGATTATGT 
      59.872 
      40.000 
      0.00 
      0.00 
      38.99 
      2.29 
     
    
      527 
      544 
      5.595885 
      ACAGGTTCACGAGATGAGATTATG 
      58.404 
      41.667 
      0.00 
      0.00 
      38.99 
      1.90 
     
    
      553 
      574 
      3.243068 
      GCTAACCAAACAGTCCAACAGTG 
      60.243 
      47.826 
      0.00 
      0.00 
      0.00 
      3.66 
     
    
      554 
      575 
      2.949644 
      GCTAACCAAACAGTCCAACAGT 
      59.050 
      45.455 
      0.00 
      0.00 
      0.00 
      3.55 
     
    
      555 
      576 
      2.293399 
      GGCTAACCAAACAGTCCAACAG 
      59.707 
      50.000 
      0.00 
      0.00 
      35.26 
      3.16 
     
    
      556 
      577 
      2.303175 
      GGCTAACCAAACAGTCCAACA 
      58.697 
      47.619 
      0.00 
      0.00 
      35.26 
      3.33 
     
    
      557 
      578 
      1.265905 
      CGGCTAACCAAACAGTCCAAC 
      59.734 
      52.381 
      0.00 
      0.00 
      34.57 
      3.77 
     
    
      558 
      579 
      1.600023 
      CGGCTAACCAAACAGTCCAA 
      58.400 
      50.000 
      0.00 
      0.00 
      34.57 
      3.53 
     
    
      559 
      580 
      0.887387 
      GCGGCTAACCAAACAGTCCA 
      60.887 
      55.000 
      0.00 
      0.00 
      34.57 
      4.02 
     
    
      560 
      581 
      0.605589 
      AGCGGCTAACCAAACAGTCC 
      60.606 
      55.000 
      0.00 
      0.00 
      34.57 
      3.85 
     
    
      561 
      582 
      0.796927 
      GAGCGGCTAACCAAACAGTC 
      59.203 
      55.000 
      0.60 
      0.00 
      34.57 
      3.51 
     
    
      624 
      645 
      5.731591 
      ACCTATTTGCTACACTGTACTTCC 
      58.268 
      41.667 
      0.00 
      0.00 
      0.00 
      3.46 
     
    
      645 
      670 
      1.599542 
      GCGATGGCTGAAATCTGTACC 
      59.400 
      52.381 
      0.00 
      0.00 
      35.83 
      3.34 
     
    
      655 
      680 
      1.086696 
      GCTTAGTTTGCGATGGCTGA 
      58.913 
      50.000 
      0.15 
      0.00 
      40.82 
      4.26 
     
    
      809 
      883 
      3.227614 
      TCTTCTGCAGGCCGTGTATATA 
      58.772 
      45.455 
      15.13 
      0.00 
      0.00 
      0.86 
     
    
      954 
      1035 
      1.213296 
      GGGAGGAAGATGTGGGCTAA 
      58.787 
      55.000 
      0.00 
      0.00 
      0.00 
      3.09 
     
    
      955 
      1036 
      0.694444 
      GGGGAGGAAGATGTGGGCTA 
      60.694 
      60.000 
      0.00 
      0.00 
      0.00 
      3.93 
     
    
      956 
      1037 
      2.003548 
      GGGGAGGAAGATGTGGGCT 
      61.004 
      63.158 
      0.00 
      0.00 
      0.00 
      5.19 
     
    
      957 
      1038 
      2.308722 
      TGGGGAGGAAGATGTGGGC 
      61.309 
      63.158 
      0.00 
      0.00 
      0.00 
      5.36 
     
    
      958 
      1039 
      0.916358 
      AGTGGGGAGGAAGATGTGGG 
      60.916 
      60.000 
      0.00 
      0.00 
      0.00 
      4.61 
     
    
      959 
      1040 
      0.995024 
      AAGTGGGGAGGAAGATGTGG 
      59.005 
      55.000 
      0.00 
      0.00 
      0.00 
      4.17 
     
    
      1057 
      1141 
      2.772691 
      CGACGAGGAGGCAGGGTAC 
      61.773 
      68.421 
      0.00 
      0.00 
      0.00 
      3.34 
     
    
      1813 
      1897 
      5.292765 
      TGTGAACTCTGAAGTGAAGTGATC 
      58.707 
      41.667 
      0.00 
      0.00 
      35.36 
      2.92 
     
    
      1843 
      1928 
      7.575414 
      TTGGTATACAACACTGAAAACATGT 
      57.425 
      32.000 
      5.01 
      0.00 
      33.18 
      3.21 
     
    
      1881 
      1972 
      4.527816 
      TGCTCTAAAAGGTTTACGGGTCTA 
      59.472 
      41.667 
      0.00 
      0.00 
      0.00 
      2.59 
     
    
      1961 
      2052 
      8.488764 
      GTCTACTGCAAACTCAGTTTAAACTAG 
      58.511 
      37.037 
      20.15 
      17.99 
      44.26 
      2.57 
     
    
      2041 
      2549 
      3.306225 
      CGCTAGTCCTAGATAGTCTCGGT 
      60.306 
      52.174 
      5.52 
      0.00 
      35.21 
      4.69 
     
    
      2042 
      2550 
      3.255725 
      CGCTAGTCCTAGATAGTCTCGG 
      58.744 
      54.545 
      5.52 
      0.00 
      35.21 
      4.63 
     
    
      2063 
      2571 
      3.067833 
      GGAGTCAAGTACACCTTCAAGC 
      58.932 
      50.000 
      0.00 
      0.00 
      36.04 
      4.01 
     
    
      2068 
      2576 
      0.038526 
      CGCGGAGTCAAGTACACCTT 
      60.039 
      55.000 
      0.00 
      0.00 
      36.74 
      3.50 
     
    
      2073 
      2581 
      2.360794 
      GCTTCGCGGAGTCAAGTAC 
      58.639 
      57.895 
      17.40 
      0.00 
      0.00 
      2.73 
     
    
      2086 
      2631 
      1.254570 
      GAGCAAACCGTATACGCTTCG 
      59.745 
      52.381 
      19.86 
      8.62 
      38.18 
      3.79 
     
    
      2101 
      2646 
      1.002257 
      ATCACATGGGTGCGAGCAA 
      60.002 
      52.632 
      0.00 
      0.00 
      44.87 
      3.91 
     
    
      2102 
      2647 
      1.450134 
      GATCACATGGGTGCGAGCA 
      60.450 
      57.895 
      0.00 
      0.00 
      44.87 
      4.26 
     
    
      2103 
      2648 
      1.153289 
      AGATCACATGGGTGCGAGC 
      60.153 
      57.895 
      0.00 
      0.00 
      44.87 
      5.03 
     
    
      2104 
      2649 
      0.176449 
      TGAGATCACATGGGTGCGAG 
      59.824 
      55.000 
      0.00 
      0.00 
      44.87 
      5.03 
     
    
      2105 
      2650 
      0.612744 
      TTGAGATCACATGGGTGCGA 
      59.387 
      50.000 
      0.00 
      0.00 
      44.87 
      5.10 
     
    
      2112 
      2663 
      8.502161 
      TTTACGTACGATATTGAGATCACATG 
      57.498 
      34.615 
      24.41 
      0.00 
      0.00 
      3.21 
     
    
      2124 
      2675 
      8.232513 
      TCAAGAATAGCGATTTACGTACGATAT 
      58.767 
      33.333 
      24.41 
      11.50 
      44.60 
      1.63 
     
    
      2129 
      2680 
      9.939047 
      CATAATCAAGAATAGCGATTTACGTAC 
      57.061 
      33.333 
      0.00 
      0.00 
      44.60 
      3.67 
     
    
      2141 
      2693 
      9.166173 
      TCACTTGTTGGTCATAATCAAGAATAG 
      57.834 
      33.333 
      9.63 
      0.00 
      38.82 
      1.73 
     
    
      2215 
      2768 
      2.851263 
      AGAAACGATGTTGGGCTACA 
      57.149 
      45.000 
      0.00 
      0.00 
      0.00 
      2.74 
     
    
      2247 
      2800 
      0.405585 
      AGCTTGGCAGGTGTTACCAT 
      59.594 
      50.000 
      0.00 
      0.00 
      41.95 
      3.55 
     
    
      2423 
      2976 
      9.635520 
      TTTTGTTGTCTAAAATTCGTTAAACCA 
      57.364 
      25.926 
      0.00 
      0.00 
      0.00 
      3.67 
     
    
      2505 
      3140 
      5.592282 
      TGAGAAATGTGGTGTTTGCTAAAGA 
      59.408 
      36.000 
      0.00 
      0.00 
      0.00 
      2.52 
     
    
      2851 
      3495 
      5.057149 
      ACTTTGTGCGATGTCTAAGAAAGT 
      58.943 
      37.500 
      0.00 
      0.00 
      0.00 
      2.66 
     
    
      3045 
      3689 
      8.492782 
      ACTAAGTACTAGCAGAAGACCTATACA 
      58.507 
      37.037 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      3093 
      3737 
      4.569966 
      GTCATCAGCTCCTCATACACAAAG 
      59.430 
      45.833 
      0.00 
      0.00 
      0.00 
      2.77 
     
    
      3291 
      3942 
      3.894427 
      TCTGGATGATGCTCTAGACCTTC 
      59.106 
      47.826 
      0.00 
      0.00 
      28.90 
      3.46 
     
    
      3316 
      3967 
      5.522641 
      TGATAGCTAGAGCATGGATATGGA 
      58.477 
      41.667 
      4.01 
      0.00 
      45.16 
      3.41 
     
    
      3426 
      4077 
      2.989422 
      ACATTCGCACCTTGCTAAAC 
      57.011 
      45.000 
      0.00 
      0.00 
      42.25 
      2.01 
     
    
      3465 
      4116 
      6.095720 
      TGGGTTTCGTCTTTAATCAAACAAGT 
      59.904 
      34.615 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      3502 
      4153 
      6.539103 
      AGTTCAGTTTGAGAGTCTTGGTAAAC 
      59.461 
      38.462 
      0.00 
      4.87 
      0.00 
      2.01 
     
    
      3508 
      4159 
      6.811170 
      GGAGATAGTTCAGTTTGAGAGTCTTG 
      59.189 
      42.308 
      0.00 
      0.00 
      0.00 
      3.02 
     
    
      3559 
      4210 
      6.655062 
      TGTATGCGTAAGTGTTTGAAGAAAG 
      58.345 
      36.000 
      0.00 
      0.00 
      41.68 
      2.62 
     
    
      3787 
      4438 
      2.227388 
      GTGGAAACAATGGCAGAGTCAG 
      59.773 
      50.000 
      0.00 
      0.00 
      46.06 
      3.51 
     
   
	 
	
  
 
Based at the University of Bristol  with support from BBSRC .
 
 
AutoCloner maintained by Alex Coulton.