Multiple sequence alignment - TraesCS3B01G146600 
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 
      TraesCS3B01G146600 
      chr3B 
      100.000 
      6298 
      0 
      0 
      1 
      6298 
      136479236 
      136485533 
      0.000000 
      11631.0 
     
    
      1 
      TraesCS3B01G146600 
      chr3B 
      97.222 
      684 
      16 
      2 
      5615 
      6298 
      119088872 
      119088192 
      0.000000 
      1155.0 
     
    
      2 
      TraesCS3B01G146600 
      chr3B 
      91.566 
      581 
      25 
      13 
      5059 
      5617 
      130308065 
      130307487 
      0.000000 
      780.0 
     
    
      3 
      TraesCS3B01G146600 
      chr3D 
      96.618 
      5648 
      123 
      15 
      1 
      5617 
      86351801 
      86357411 
      0.000000 
      9310.0 
     
    
      4 
      TraesCS3B01G146600 
      chr3D 
      89.520 
      687 
      55 
      8 
      5615 
      6298 
      73763799 
      73763127 
      0.000000 
      854.0 
     
    
      5 
      TraesCS3B01G146600 
      chr3A 
      95.646 
      5673 
      153 
      23 
      1 
      5616 
      102680373 
      102686008 
      0.000000 
      9022.0 
     
    
      6 
      TraesCS3B01G146600 
      chr3A 
      90.087 
      686 
      56 
      5 
      5615 
      6298 
      86628995 
      86628320 
      0.000000 
      880.0 
     
    
      7 
      TraesCS3B01G146600 
      chr7D 
      86.441 
      59 
      6 
      2 
      351 
      407 
      79210410 
      79210468 
      0.000005 
      63.9 
     
    
      8 
      TraesCS3B01G146600 
      chr7D 
      86.441 
      59 
      6 
      2 
      351 
      407 
      79267523 
      79267581 
      0.000005 
      63.9 
     
    
      9 
      TraesCS3B01G146600 
      chr7D 
      86.441 
      59 
      6 
      2 
      351 
      407 
      79301695 
      79301753 
      0.000005 
      63.9 
     
    
      10 
      TraesCS3B01G146600 
      chr7D 
      100.000 
      28 
      0 
      0 
      397 
      424 
      40156486 
      40156513 
      0.011000 
      52.8 
     
    
      11 
      TraesCS3B01G146600 
      chr7B 
      86.667 
      60 
      3 
      3 
      367 
      425 
      237486572 
      237486517 
      0.000019 
      62.1 
     
    
      12 
      TraesCS3B01G146600 
      chr7B 
      96.875 
      32 
      1 
      0 
      393 
      424 
      86648758 
      86648789 
      0.003000 
      54.7 
     
    
      13 
      TraesCS3B01G146600 
      chr4A 
      80.723 
      83 
      11 
      4 
      327 
      404 
      55957283 
      55957365 
      0.000068 
      60.2 
     
    
      14 
      TraesCS3B01G146600 
      chr2B 
      82.609 
      69 
      10 
      2 
      353 
      420 
      492284773 
      492284706 
      0.000068 
      60.2 
     
    
      15 
      TraesCS3B01G146600 
      chr1D 
      86.792 
      53 
      7 
      0 
      342 
      394 
      338872371 
      338872423 
      0.000068 
      60.2 
     
    
      16 
      TraesCS3B01G146600 
      chr1D 
      100.000 
      29 
      0 
      0 
      394 
      422 
      433281513 
      433281485 
      0.003000 
      54.7 
     
    
      17 
      TraesCS3B01G146600 
      chr2A 
      100.000 
      28 
      0 
      0 
      397 
      424 
      653371953 
      653371926 
      0.011000 
      52.8 
     
    
      18 
      TraesCS3B01G146600 
      chr1B 
      100.000 
      28 
      0 
      0 
      395 
      422 
      585312951 
      585312924 
      0.011000 
      52.8 
     
    
      19 
      TraesCS3B01G146600 
      chr1B 
      100.000 
      28 
      0 
      0 
      397 
      424 
      618005941 
      618005914 
      0.011000 
      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 
      TraesCS3B01G146600 
      chr3B 
      136479236 
      136485533 
      6297 
      False 
      11631 
      11631 
      100.000 
      1 
      6298 
      1 
      chr3B.!!$F1 
      6297 
     
    
      1 
      TraesCS3B01G146600 
      chr3B 
      119088192 
      119088872 
      680 
      True 
      1155 
      1155 
      97.222 
      5615 
      6298 
      1 
      chr3B.!!$R1 
      683 
     
    
      2 
      TraesCS3B01G146600 
      chr3B 
      130307487 
      130308065 
      578 
      True 
      780 
      780 
      91.566 
      5059 
      5617 
      1 
      chr3B.!!$R2 
      558 
     
    
      3 
      TraesCS3B01G146600 
      chr3D 
      86351801 
      86357411 
      5610 
      False 
      9310 
      9310 
      96.618 
      1 
      5617 
      1 
      chr3D.!!$F1 
      5616 
     
    
      4 
      TraesCS3B01G146600 
      chr3D 
      73763127 
      73763799 
      672 
      True 
      854 
      854 
      89.520 
      5615 
      6298 
      1 
      chr3D.!!$R1 
      683 
     
    
      5 
      TraesCS3B01G146600 
      chr3A 
      102680373 
      102686008 
      5635 
      False 
      9022 
      9022 
      95.646 
      1 
      5616 
      1 
      chr3A.!!$F1 
      5615 
     
    
      6 
      TraesCS3B01G146600 
      chr3A 
      86628320 
      86628995 
      675 
      True 
      880 
      880 
      90.087 
      5615 
      6298 
      1 
      chr3A.!!$R1 
      683 
     
   
 
 
        
            
                
                     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 
     
   
  
    
      771 
      807 
      3.054802 
      GTGAAGACCATCATGGAAGGACT 
      60.055 
      47.826 
      11.90 
      0.00 
      40.96 
      3.85 
      F 
     
    
      1314 
      1351 
      0.250727 
      CACGGGACACCAAGGTTGAT 
      60.251 
      55.000 
      0.00 
      0.00 
      36.13 
      2.57 
      F 
     
    
      1923 
      1960 
      2.293399 
      GGACAAGGAAAACAATGAGCGT 
      59.707 
      45.455 
      0.00 
      0.00 
      0.00 
      5.07 
      F 
     
    
      2449 
      2486 
      0.250234 
      CTCACCGAGAATGGAAGGCA 
      59.750 
      55.000 
      0.00 
      0.00 
      0.00 
      4.75 
      F 
     
    
      4425 
      4479 
      0.673333 
      CTGCAACGAGCCATGGTACA 
      60.673 
      55.000 
      14.67 
      0.82 
      44.39 
      2.90 
      F 
     
    
      4447 
      4501 
      0.818296 
      CTGGACTTACCTCCTGACCG 
      59.182 
      60.000 
      0.00 
      0.00 
      39.86 
      4.79 
      F 
     
   
 
	
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
      Orientation 
     
   
  
    
      1920 
      1957 
      0.391661 
      TGGCAGAATCCTTCTCACGC 
      60.392 
      55.000 
      0.0 
      0.0 
      38.11 
      5.34 
      R 
     
    
      2447 
      2484 
      1.135859 
      CAGACGTCAGAAGGCAAATGC 
      60.136 
      52.381 
      19.5 
      0.0 
      41.14 
      3.56 
      R 
     
    
      3725 
      3765 
      0.807496 
      GCAGTTCTTGGATGGCAGAC 
      59.193 
      55.000 
      0.0 
      0.0 
      0.00 
      3.51 
      R 
     
    
      4429 
      4483 
      0.113776 
      ACGGTCAGGAGGTAAGTCCA 
      59.886 
      55.000 
      0.0 
      0.0 
      39.34 
      4.02 
      R 
     
    
      5246 
      5304 
      0.676736 
      GCGGATACTCCTTCCCAGAG 
      59.323 
      60.000 
      0.0 
      0.0 
      33.30 
      3.35 
      R 
     
    
      5432 
      5509 
      1.018148 
      CACAACACGGCCTACAACAA 
      58.982 
      50.000 
      0.0 
      0.0 
      0.00 
      2.83 
      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 
     
   
  
    
      771 
      807 
      3.054802 
      GTGAAGACCATCATGGAAGGACT 
      60.055 
      47.826 
      11.90 
      0.00 
      40.96 
      3.85 
     
    
      837 
      873 
      4.740922 
      TGCAACCCGAAGCATCAT 
      57.259 
      50.000 
      0.00 
      0.00 
      35.51 
      2.45 
     
    
      1314 
      1351 
      0.250727 
      CACGGGACACCAAGGTTGAT 
      60.251 
      55.000 
      0.00 
      0.00 
      36.13 
      2.57 
     
    
      1409 
      1446 
      5.052481 
      TGAGACTGATGTGAAGACAAACAG 
      58.948 
      41.667 
      0.00 
      0.00 
      41.86 
      3.16 
     
    
      1755 
      1792 
      6.714356 
      AGGACAGGAGAAAGAAAGATGAAAAG 
      59.286 
      38.462 
      0.00 
      0.00 
      0.00 
      2.27 
     
    
      1920 
      1957 
      5.278660 
      CCAGAAGGACAAGGAAAACAATGAG 
      60.279 
      44.000 
      0.00 
      0.00 
      36.89 
      2.90 
     
    
      1923 
      1960 
      2.293399 
      GGACAAGGAAAACAATGAGCGT 
      59.707 
      45.455 
      0.00 
      0.00 
      0.00 
      5.07 
     
    
      2387 
      2424 
      9.730705 
      AATAGCATAATAGTGTGTATGAGCATT 
      57.269 
      29.630 
      0.00 
      0.00 
      30.61 
      3.56 
     
    
      2399 
      2436 
      4.746611 
      TGTATGAGCATTGCTATCACGAAG 
      59.253 
      41.667 
      11.96 
      0.00 
      39.88 
      3.79 
     
    
      2435 
      2472 
      3.569701 
      TGGAAATTTGCACTTCTCTCACC 
      59.430 
      43.478 
      8.47 
      0.00 
      0.00 
      4.02 
     
    
      2447 
      2484 
      2.103373 
      TCTCTCACCGAGAATGGAAGG 
      58.897 
      52.381 
      0.00 
      0.00 
      45.55 
      3.46 
     
    
      2449 
      2486 
      0.250234 
      CTCACCGAGAATGGAAGGCA 
      59.750 
      55.000 
      0.00 
      0.00 
      0.00 
      4.75 
     
    
      2475 
      2512 
      4.038282 
      TGCCTTCTGACGTCTGTTTACTAA 
      59.962 
      41.667 
      17.92 
      4.64 
      0.00 
      2.24 
     
    
      2599 
      2636 
      8.174733 
      AGCTGAATAAAATGGAGTAATGGATG 
      57.825 
      34.615 
      0.00 
      0.00 
      0.00 
      3.51 
     
    
      2602 
      2639 
      8.463930 
      TGAATAAAATGGAGTAATGGATGGTC 
      57.536 
      34.615 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      2603 
      2640 
      8.058235 
      TGAATAAAATGGAGTAATGGATGGTCA 
      58.942 
      33.333 
      0.00 
      0.00 
      0.00 
      4.02 
     
    
      2706 
      2744 
      8.143193 
      TCACATTGAGATTTTACTGCACATTTT 
      58.857 
      29.630 
      0.00 
      0.00 
      0.00 
      1.82 
     
    
      2769 
      2807 
      3.007831 
      TCAAAATCCCTTCACATTTGGGC 
      59.992 
      43.478 
      0.00 
      0.00 
      40.69 
      5.36 
     
    
      2961 
      3000 
      3.620488 
      TGGTCCATTATCACCAGCTTTC 
      58.380 
      45.455 
      0.00 
      0.00 
      37.78 
      2.62 
     
    
      2968 
      3007 
      6.039717 
      TCCATTATCACCAGCTTTCTATTTGC 
      59.960 
      38.462 
      0.00 
      0.00 
      0.00 
      3.68 
     
    
      3095 
      3134 
      4.493618 
      AGCTACCCCAGATGCTAGAAATA 
      58.506 
      43.478 
      0.00 
      0.00 
      33.64 
      1.40 
     
    
      3201 
      3240 
      5.189180 
      ACTGATTCCTTAGGTGATTTCTGC 
      58.811 
      41.667 
      0.00 
      0.00 
      0.00 
      4.26 
     
    
      3259 
      3299 
      5.170748 
      CCTGTGTTGCTGGATTATTTTTCC 
      58.829 
      41.667 
      0.00 
      0.00 
      38.33 
      3.13 
     
    
      3314 
      3354 
      7.972832 
      AATGATGAACATTTGAAAGTGCATT 
      57.027 
      28.000 
      0.00 
      0.00 
      45.60 
      3.56 
     
    
      3512 
      3552 
      7.432148 
      TCTTCCATTAGCTACTTTATCCACA 
      57.568 
      36.000 
      0.00 
      0.00 
      0.00 
      4.17 
     
    
      3704 
      3744 
      4.494091 
      AATGCATACTGGTTACTGCTCT 
      57.506 
      40.909 
      0.00 
      0.00 
      35.66 
      4.09 
     
    
      3725 
      3765 
      1.069204 
      CCTACATCATCACCTCCACCG 
      59.931 
      57.143 
      0.00 
      0.00 
      0.00 
      4.94 
     
    
      3784 
      3824 
      1.488812 
      ACCACCACAAGACAGTAAGCA 
      59.511 
      47.619 
      0.00 
      0.00 
      0.00 
      3.91 
     
    
      4078 
      4126 
      4.771590 
      TGATCACTGTTTGAAGATTGGC 
      57.228 
      40.909 
      0.00 
      0.00 
      37.92 
      4.52 
     
    
      4128 
      4176 
      3.575506 
      TGGTGGTGCCATTGATCTC 
      57.424 
      52.632 
      0.00 
      0.00 
      43.61 
      2.75 
     
    
      4425 
      4479 
      0.673333 
      CTGCAACGAGCCATGGTACA 
      60.673 
      55.000 
      14.67 
      0.82 
      44.39 
      2.90 
     
    
      4429 
      4483 
      3.258380 
      GCAACGAGCCATGGTACATTCT 
      61.258 
      50.000 
      14.67 
      0.00 
      39.95 
      2.40 
     
    
      4430 
      4484 
      5.319038 
      GCAACGAGCCATGGTACATTCTG 
      62.319 
      52.174 
      14.67 
      4.02 
      39.95 
      3.02 
     
    
      4447 
      4501 
      0.818296 
      CTGGACTTACCTCCTGACCG 
      59.182 
      60.000 
      0.00 
      0.00 
      39.86 
      4.79 
     
    
      4498 
      4553 
      2.368439 
      TGCCATTTCTGTGTCATAGCC 
      58.632 
      47.619 
      0.00 
      0.00 
      0.00 
      3.93 
     
    
      4504 
      4559 
      2.654749 
      TCTGTGTCATAGCCGTTCTG 
      57.345 
      50.000 
      0.00 
      0.00 
      0.00 
      3.02 
     
    
      4573 
      4628 
      1.408702 
      TGCCTTGTTCTGTTTTGAGCC 
      59.591 
      47.619 
      0.00 
      0.00 
      0.00 
      4.70 
     
    
      4574 
      4629 
      1.600413 
      GCCTTGTTCTGTTTTGAGCCG 
      60.600 
      52.381 
      0.00 
      0.00 
      0.00 
      5.52 
     
    
      4760 
      4815 
      4.759693 
      TGGCTTATTGTCCTAACACTGTTG 
      59.240 
      41.667 
      4.57 
      0.00 
      34.35 
      3.33 
     
    
      4811 
      4868 
      4.752101 
      ACTTGCATGTTACTCACTGTCTTC 
      59.248 
      41.667 
      0.00 
      0.00 
      0.00 
      2.87 
     
    
      4815 
      4872 
      4.697352 
      GCATGTTACTCACTGTCTTCCAAT 
      59.303 
      41.667 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      4970 
      5027 
      3.503839 
      AAAACGGGGACAGGGGCA 
      61.504 
      61.111 
      0.00 
      0.00 
      0.00 
      5.36 
     
    
      4971 
      5028 
      3.076217 
      AAAACGGGGACAGGGGCAA 
      62.076 
      57.895 
      0.00 
      0.00 
      0.00 
      4.52 
     
    
      5163 
      5221 
      2.253603 
      GCGGCATCATTCAACTTTGTC 
      58.746 
      47.619 
      0.00 
      0.00 
      0.00 
      3.18 
     
    
      5164 
      5222 
      2.351641 
      GCGGCATCATTCAACTTTGTCA 
      60.352 
      45.455 
      0.00 
      0.00 
      0.00 
      3.58 
     
    
      5166 
      5224 
      4.100529 
      CGGCATCATTCAACTTTGTCATC 
      58.899 
      43.478 
      0.00 
      0.00 
      0.00 
      2.92 
     
    
      5168 
      5226 
      5.338365 
      GGCATCATTCAACTTTGTCATCTC 
      58.662 
      41.667 
      0.00 
      0.00 
      0.00 
      2.75 
     
    
      5348 
      5425 
      5.973565 
      GCATATGAAGGAACCATTTTCTTCG 
      59.026 
      40.000 
      6.97 
      0.00 
      38.63 
      3.79 
     
    
      5429 
      5506 
      4.020307 
      AGGAAAAGAGAAGAGAAGCTCAGG 
      60.020 
      45.833 
      0.00 
      0.00 
      33.62 
      3.86 
     
    
      5430 
      5507 
      4.020662 
      GGAAAAGAGAAGAGAAGCTCAGGA 
      60.021 
      45.833 
      0.00 
      0.00 
      33.62 
      3.86 
     
    
      5431 
      5508 
      4.806640 
      AAAGAGAAGAGAAGCTCAGGAG 
      57.193 
      45.455 
      0.00 
      0.00 
      33.62 
      3.69 
     
    
      5432 
      5509 
      3.456380 
      AGAGAAGAGAAGCTCAGGAGT 
      57.544 
      47.619 
      0.00 
      0.00 
      33.62 
      3.85 
     
    
      5521 
      5609 
      8.156820 
      TGAGAGATGTAATTCTTGGTTCTTGAA 
      58.843 
      33.333 
      0.00 
      0.00 
      0.00 
      2.69 
     
    
      5569 
      5657 
      6.765512 
      TCGCTGATTATTGAATGTTGGATGTA 
      59.234 
      34.615 
      0.00 
      0.00 
      0.00 
      2.29 
     
    
      5603 
      5691 
      8.345565 
      ACTATTTATCATCGAATGTTTCTTGGC 
      58.654 
      33.333 
      0.00 
      0.00 
      0.00 
      4.52 
     
    
      5752 
      5841 
      0.456824 
      ACACAGCTCAGATACGCACG 
      60.457 
      55.000 
      0.00 
      0.00 
      0.00 
      5.34 
     
    
      5791 
      5880 
      3.625313 
      CCACACACACAATGTACACAAGA 
      59.375 
      43.478 
      0.00 
      0.00 
      40.64 
      3.02 
     
    
      5792 
      5881 
      4.260743 
      CCACACACACAATGTACACAAGAG 
      60.261 
      45.833 
      0.00 
      0.00 
      40.64 
      2.85 
     
    
      5812 
      5901 
      1.221021 
      GTGCACACCCTAGCCCTAC 
      59.779 
      63.158 
      13.17 
      0.00 
      0.00 
      3.18 
     
    
      5825 
      5914 
      1.038130 
      GCCCTACGAGCTCCTCTGAA 
      61.038 
      60.000 
      8.47 
      0.00 
      0.00 
      3.02 
     
    
      5958 
      6053 
      5.222048 
      TGGAAGCACCCTTTCAAAGTATAGT 
      60.222 
      40.000 
      0.00 
      0.00 
      33.60 
      2.12 
     
    
      6231 
      6328 
      9.732130 
      TTGTCCCATTTCCATTTTAAAATAAGG 
      57.268 
      29.630 
      12.98 
      11.24 
      0.00 
      2.69 
     
   
	 
    
		
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
     
   
  
    
      99 
      100 
      3.388024 
      TGATATACCAACTGACCTGCTCC 
      59.612 
      47.826 
      0.00 
      0.00 
      0.00 
      4.70 
     
    
      134 
      144 
      6.435591 
      CAGGCCAGAAGATAGTAGATATCACA 
      59.564 
      42.308 
      5.01 
      0.00 
      42.51 
      3.58 
     
    
      188 
      198 
      2.344093 
      TTCCTACTTCCCCAAGCTCT 
      57.656 
      50.000 
      0.00 
      0.00 
      32.09 
      4.09 
     
    
      629 
      665 
      4.933400 
      ACGTGTACCAATAACAATCCAGAC 
      59.067 
      41.667 
      0.00 
      0.00 
      0.00 
      3.51 
     
    
      848 
      884 
      5.600908 
      TGTTTTTAAAGCTAGGCAGTACG 
      57.399 
      39.130 
      0.00 
      0.00 
      0.00 
      3.67 
     
    
      1314 
      1351 
      2.282180 
      GCTTTTGCCTCCCGGTCA 
      60.282 
      61.111 
      0.00 
      0.00 
      40.15 
      4.02 
     
    
      1409 
      1446 
      2.090400 
      TTCAGTGTCATCTGCTCTGC 
      57.910 
      50.000 
      0.00 
      0.00 
      35.63 
      4.26 
     
    
      1755 
      1792 
      6.019479 
      CGTCTCTTGCACCAAAATCTCTATAC 
      60.019 
      42.308 
      0.00 
      0.00 
      0.00 
      1.47 
     
    
      1920 
      1957 
      0.391661 
      TGGCAGAATCCTTCTCACGC 
      60.392 
      55.000 
      0.00 
      0.00 
      38.11 
      5.34 
     
    
      1923 
      1960 
      3.307975 
      CCTTCTTGGCAGAATCCTTCTCA 
      60.308 
      47.826 
      0.00 
      0.00 
      38.42 
      3.27 
     
    
      1954 
      1991 
      4.202357 
      TGTGTTCTCCTTGTCAACTGCTAT 
      60.202 
      41.667 
      0.00 
      0.00 
      0.00 
      2.97 
     
    
      2387 
      2424 
      2.279741 
      GGAATGTGCTTCGTGATAGCA 
      58.720 
      47.619 
      0.00 
      0.00 
      45.78 
      3.49 
     
    
      2399 
      2436 
      5.391203 
      GCAAATTTCCAGAAATGGAATGTGC 
      60.391 
      40.000 
      10.35 
      14.53 
      46.18 
      4.57 
     
    
      2435 
      2472 
      2.199291 
      GCAAATGCCTTCCATTCTCG 
      57.801 
      50.000 
      0.00 
      0.00 
      43.22 
      4.04 
     
    
      2447 
      2484 
      1.135859 
      CAGACGTCAGAAGGCAAATGC 
      60.136 
      52.381 
      19.50 
      0.00 
      41.14 
      3.56 
     
    
      2449 
      2486 
      2.550830 
      ACAGACGTCAGAAGGCAAAT 
      57.449 
      45.000 
      19.50 
      0.00 
      0.00 
      2.32 
     
    
      2492 
      2529 
      7.325694 
      AGATTTTTCAATGGGCTTATCACTTG 
      58.674 
      34.615 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      2613 
      2650 
      2.550855 
      GCTGTTGATGACTCCAGTTCCA 
      60.551 
      50.000 
      0.00 
      0.00 
      0.00 
      3.53 
     
    
      2706 
      2744 
      6.833933 
      TCAGAGCACTAAATCCTACAGTATGA 
      59.166 
      38.462 
      0.00 
      0.00 
      39.69 
      2.15 
     
    
      2715 
      2753 
      3.776969 
      TGGATGTCAGAGCACTAAATCCT 
      59.223 
      43.478 
      15.26 
      0.00 
      33.48 
      3.24 
     
    
      2769 
      2807 
      6.584942 
      GCATGTGCACATATAAAATGGATCAG 
      59.415 
      38.462 
      30.92 
      14.67 
      41.59 
      2.90 
     
    
      2968 
      3007 
      6.867550 
      TGCACCGATGAGGATATTAAGATAG 
      58.132 
      40.000 
      0.00 
      0.00 
      45.00 
      2.08 
     
    
      3095 
      3134 
      5.388654 
      AGGACCATTTTGTTGATTCTCAGT 
      58.611 
      37.500 
      0.00 
      0.00 
      0.00 
      3.41 
     
    
      3229 
      3268 
      3.367743 
      AGCAACACAGGCATGGCG 
      61.368 
      61.111 
      14.30 
      11.27 
      0.00 
      5.69 
     
    
      3259 
      3299 
      8.459635 
      GTTTCCCTTATGCTACTTAAGGAAAAG 
      58.540 
      37.037 
      16.72 
      0.29 
      45.76 
      2.27 
     
    
      3311 
      3351 
      3.557595 
      GGAAGGCGAGACAGTAATGAATG 
      59.442 
      47.826 
      0.00 
      0.00 
      0.00 
      2.67 
     
    
      3312 
      3352 
      3.197766 
      TGGAAGGCGAGACAGTAATGAAT 
      59.802 
      43.478 
      0.00 
      0.00 
      0.00 
      2.57 
     
    
      3313 
      3353 
      2.565391 
      TGGAAGGCGAGACAGTAATGAA 
      59.435 
      45.455 
      0.00 
      0.00 
      0.00 
      2.57 
     
    
      3314 
      3354 
      2.176045 
      TGGAAGGCGAGACAGTAATGA 
      58.824 
      47.619 
      0.00 
      0.00 
      0.00 
      2.57 
     
    
      3704 
      3744 
      2.398588 
      GGTGGAGGTGATGATGTAGGA 
      58.601 
      52.381 
      0.00 
      0.00 
      0.00 
      2.94 
     
    
      3725 
      3765 
      0.807496 
      GCAGTTCTTGGATGGCAGAC 
      59.193 
      55.000 
      0.00 
      0.00 
      0.00 
      3.51 
     
    
      4016 
      4064 
      8.177663 
      CGAGTTTGTAGCATCAACAGAATAAAT 
      58.822 
      33.333 
      0.00 
      0.00 
      0.00 
      1.40 
     
    
      4017 
      4065 
      7.172532 
      ACGAGTTTGTAGCATCAACAGAATAAA 
      59.827 
      33.333 
      0.00 
      0.00 
      0.00 
      1.40 
     
    
      4018 
      4066 
      6.649141 
      ACGAGTTTGTAGCATCAACAGAATAA 
      59.351 
      34.615 
      0.00 
      0.00 
      0.00 
      1.40 
     
    
      4019 
      4067 
      6.090763 
      CACGAGTTTGTAGCATCAACAGAATA 
      59.909 
      38.462 
      0.00 
      0.00 
      0.00 
      1.75 
     
    
      4020 
      4068 
      4.997395 
      ACGAGTTTGTAGCATCAACAGAAT 
      59.003 
      37.500 
      0.00 
      0.00 
      0.00 
      2.40 
     
    
      4021 
      4069 
      4.211164 
      CACGAGTTTGTAGCATCAACAGAA 
      59.789 
      41.667 
      0.00 
      0.00 
      0.00 
      3.02 
     
    
      4022 
      4070 
      3.740832 
      CACGAGTTTGTAGCATCAACAGA 
      59.259 
      43.478 
      0.00 
      0.00 
      0.00 
      3.41 
     
    
      4128 
      4176 
      1.806461 
      TATGGCTAAGGCGAGGCTCG 
      61.806 
      60.000 
      31.40 
      31.40 
      42.38 
      5.03 
     
    
      4425 
      4479 
      3.108376 
      GGTCAGGAGGTAAGTCCAGAAT 
      58.892 
      50.000 
      0.00 
      0.00 
      39.34 
      2.40 
     
    
      4429 
      4483 
      0.113776 
      ACGGTCAGGAGGTAAGTCCA 
      59.886 
      55.000 
      0.00 
      0.00 
      39.34 
      4.02 
     
    
      4430 
      4484 
      1.204231 
      GAACGGTCAGGAGGTAAGTCC 
      59.796 
      57.143 
      0.00 
      0.00 
      36.79 
      3.85 
     
    
      4447 
      4501 
      8.352942 
      AGGTACTTTGATGAACAGAAAATGAAC 
      58.647 
      33.333 
      0.00 
      0.00 
      27.25 
      3.18 
     
    
      4498 
      4553 
      1.741993 
      CGCTCAAAAACACCAGAACG 
      58.258 
      50.000 
      0.00 
      0.00 
      0.00 
      3.95 
     
    
      4504 
      4559 
      1.001378 
      ACATGAGCGCTCAAAAACACC 
      60.001 
      47.619 
      40.83 
      12.20 
      43.58 
      4.16 
     
    
      4574 
      4629 
      8.537885 
      AAGAATGGCTTACTAGGAGCAACCTC 
      62.538 
      46.154 
      18.42 
      10.08 
      40.99 
      3.85 
     
    
      4760 
      4815 
      4.032786 
      GTCAACAAGAATGCCAACAAACAC 
      59.967 
      41.667 
      0.00 
      0.00 
      0.00 
      3.32 
     
    
      4815 
      4872 
      4.532834 
      ACTTAAGGCCAACAAGACAAGAA 
      58.467 
      39.130 
      5.01 
      0.00 
      0.00 
      2.52 
     
    
      5144 
      5202 
      3.557577 
      TGACAAAGTTGAATGATGCCG 
      57.442 
      42.857 
      0.00 
      0.00 
      0.00 
      5.69 
     
    
      5145 
      5203 
      5.125097 
      AGAGATGACAAAGTTGAATGATGCC 
      59.875 
      40.000 
      0.00 
      0.00 
      0.00 
      4.40 
     
    
      5163 
      5221 
      1.369625 
      GTTGCCACGGGTAAGAGATG 
      58.630 
      55.000 
      0.00 
      0.00 
      0.00 
      2.90 
     
    
      5164 
      5222 
      0.108329 
      CGTTGCCACGGGTAAGAGAT 
      60.108 
      55.000 
      1.68 
      0.00 
      43.16 
      2.75 
     
    
      5166 
      5224 
      3.870606 
      CGTTGCCACGGGTAAGAG 
      58.129 
      61.111 
      1.68 
      0.00 
      43.16 
      2.85 
     
    
      5246 
      5304 
      0.676736 
      GCGGATACTCCTTCCCAGAG 
      59.323 
      60.000 
      0.00 
      0.00 
      33.30 
      3.35 
     
    
      5305 
      5363 
      1.294459 
      CTGCTGCTACCAGAGTGCA 
      59.706 
      57.895 
      0.00 
      0.00 
      41.77 
      4.57 
     
    
      5312 
      5370 
      1.130777 
      TCATATGCCTGCTGCTACCA 
      58.869 
      50.000 
      0.00 
      0.00 
      42.00 
      3.25 
     
    
      5326 
      5384 
      7.611855 
      AGAACGAAGAAAATGGTTCCTTCATAT 
      59.388 
      33.333 
      0.00 
      0.00 
      39.58 
      1.78 
     
    
      5334 
      5411 
      6.129088 
      GCATTCAAGAACGAAGAAAATGGTTC 
      60.129 
      38.462 
      0.00 
      0.00 
      39.16 
      3.62 
     
    
      5348 
      5425 
      2.719426 
      AAGCAGCAGCATTCAAGAAC 
      57.281 
      45.000 
      3.17 
      0.00 
      45.49 
      3.01 
     
    
      5429 
      5506 
      1.263217 
      CAACACGGCCTACAACAACTC 
      59.737 
      52.381 
      0.00 
      0.00 
      0.00 
      3.01 
     
    
      5430 
      5507 
      1.305201 
      CAACACGGCCTACAACAACT 
      58.695 
      50.000 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      5431 
      5508 
      1.018910 
      ACAACACGGCCTACAACAAC 
      58.981 
      50.000 
      0.00 
      0.00 
      0.00 
      3.32 
     
    
      5432 
      5509 
      1.018148 
      CACAACACGGCCTACAACAA 
      58.982 
      50.000 
      0.00 
      0.00 
      0.00 
      2.83 
     
    
      5521 
      5609 
      7.590279 
      CGAATAATAATCCGGTTTTGCCTAAT 
      58.410 
      34.615 
      0.00 
      0.00 
      34.25 
      1.73 
     
    
      5569 
      5657 
      9.396022 
      ACATTCGATGATAAATAGTTCCAACTT 
      57.604 
      29.630 
      0.00 
      0.00 
      40.37 
      2.66 
     
    
      5603 
      5691 
      3.077484 
      CCATATTCCCATGGGCTACAG 
      57.923 
      52.381 
      27.41 
      14.85 
      41.63 
      2.74 
     
    
      5752 
      5841 
      4.840005 
      GGTGGGCAGGCTCTACGC 
      62.840 
      72.222 
      0.00 
      0.00 
      38.13 
      4.42 
     
    
      5812 
      5901 
      3.801594 
      GCTTAATCTTTCAGAGGAGCTCG 
      59.198 
      47.826 
      7.83 
      0.00 
      35.36 
      5.03 
     
    
      5825 
      5914 
      7.765695 
      TCTCAAGATTTGTTGGCTTAATCTT 
      57.234 
      32.000 
      0.00 
      0.00 
      44.94 
      2.40 
     
    
      5958 
      6053 
      4.172807 
      ACCTATCAACTGGGGTTCAAGTA 
      58.827 
      43.478 
      0.00 
      0.00 
      32.73 
      2.24 
     
    
      6181 
      6276 
      7.544804 
      AGGCCTTCAATTTAGAAAAGTCATT 
      57.455 
      32.000 
      0.00 
      0.00 
      0.00 
      2.57 
     
    
      6231 
      6328 
      8.548721 
      AGCTAGTTCGCATGTATGTAATTTTAC 
      58.451 
      33.333 
      0.00 
      0.00 
      0.00 
      2.01 
     
   
	 
	
  
 
Based at the University of Bristol  with support from BBSRC .
 
 
AutoCloner maintained by Alex Coulton.