Multiple sequence alignment - TraesCS6A01G302200 
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 
      TraesCS6A01G302200 
      chr6A 
      100.000 
      4186 
      0 
      0 
      1 
      4186 
      535973803 
      535977988 
      0.000000e+00 
      7731 
     
    
      1 
      TraesCS6A01G302200 
      chr6B 
      93.541 
      3375 
      146 
      24 
      862 
      4186 
      582822728 
      582826080 
      0.000000e+00 
      4959 
     
    
      2 
      TraesCS6A01G302200 
      chr6B 
      88.341 
      832 
      65 
      18 
      20 
      829 
      582821826 
      582822647 
      0.000000e+00 
      970 
     
    
      3 
      TraesCS6A01G302200 
      chr6D 
      90.209 
      1726 
      98 
      18 
      2488 
      4186 
      389582946 
      389584627 
      0.000000e+00 
      2185 
     
    
      4 
      TraesCS6A01G302200 
      chr6D 
      93.947 
      1206 
      56 
      7 
      884 
      2073 
      389581022 
      389582226 
      0.000000e+00 
      1807 
     
    
      5 
      TraesCS6A01G302200 
      chr6D 
      89.897 
      871 
      59 
      13 
      1 
      862 
      389579960 
      389580810 
      0.000000e+00 
      1094 
     
    
      6 
      TraesCS6A01G302200 
      chr6D 
      86.726 
      339 
      26 
      10 
      2147 
      2472 
      389582251 
      389582583 
      3.980000e-95 
      359 
     
    
      7 
      TraesCS6A01G302200 
      chr4A 
      92.773 
      761 
      33 
      5 
      272 
      1029 
      613119324 
      613120065 
      0.000000e+00 
      1081 
     
    
      8 
      TraesCS6A01G302200 
      chr5A 
      92.647 
      544 
      32 
      7 
      20 
      561 
      73402834 
      73403371 
      0.000000e+00 
      776 
     
    
      9 
      TraesCS6A01G302200 
      chr7A 
      96.124 
      129 
      5 
      0 
      901 
      1029 
      643558227 
      643558355 
      1.180000e-50 
      211 
     
   
    
 
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 
      TraesCS6A01G302200 
      chr6A 
      535973803 
      535977988 
      4185 
      False 
      7731.00 
      7731 
      100.00000 
      1 
      4186 
      1 
      chr6A.!!$F1 
      4185 
     
    
      1 
      TraesCS6A01G302200 
      chr6B 
      582821826 
      582826080 
      4254 
      False 
      2964.50 
      4959 
      90.94100 
      20 
      4186 
      2 
      chr6B.!!$F1 
      4166 
     
    
      2 
      TraesCS6A01G302200 
      chr6D 
      389579960 
      389584627 
      4667 
      False 
      1361.25 
      2185 
      90.19475 
      1 
      4186 
      4 
      chr6D.!!$F1 
      4185 
     
    
      3 
      TraesCS6A01G302200 
      chr4A 
      613119324 
      613120065 
      741 
      False 
      1081.00 
      1081 
      92.77300 
      272 
      1029 
      1 
      chr4A.!!$F1 
      757 
     
    
      4 
      TraesCS6A01G302200 
      chr5A 
      73402834 
      73403371 
      537 
      False 
      776.00 
      776 
      92.64700 
      20 
      561 
      1 
      chr5A.!!$F1 
      541 
     
   
 
 
        
            
                
                     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 
     
   
  
    
      47 
      48 
      1.338200 
      ACTCGAGGTTGCCTGTTGATC 
      60.338 
      52.381 
      18.41 
      0.0 
      31.76 
      2.92 
      F 
     
    
      619 
      636 
      2.039746 
      TCACCCAGTCTTTACCACCATG 
      59.960 
      50.000 
      0.00 
      0.0 
      0.00 
      3.66 
      F 
     
    
      1144 
      1403 
      0.249676 
      TTACCCTATTGTGCGCGGAA 
      59.750 
      50.000 
      8.83 
      0.0 
      0.00 
      4.30 
      F 
     
    
      1348 
      1607 
      1.202371 
      TGGCGTTCAGAGTATAAGCCG 
      60.202 
      52.381 
      0.00 
      0.0 
      45.44 
      5.52 
      F 
     
   
 
	
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
      Orientation 
     
   
  
    
      1015 
      1273 
      0.819582 
      GCATGGCCATTACTTGCACT 
      59.180 
      50.000 
      17.92 
      0.0 
      38.45 
      4.40 
      R 
     
    
      2069 
      2339 
      0.732571 
      ACCAACACAGTTCAGCAACG 
      59.267 
      50.000 
      0.00 
      0.0 
      37.61 
      4.10 
      R 
     
    
      2669 
      3298 
      2.159393 
      GCCAAATGCGCATTCTAACTCA 
      60.159 
      45.455 
      33.93 
      0.0 
      0.00 
      3.41 
      R 
     
    
      3311 
      3940 
      1.674441 
      GGGGCCGACTACAAAATAAGC 
      59.326 
      52.381 
      0.00 
      0.0 
      0.00 
      3.09 
      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 
     
   
  
    
      24 
      25 
      1.911766 
      GGTTCCTGGTGAGGGTCGA 
      60.912 
      63.158 
      0.00 
      0.00 
      40.25 
      4.20 
     
    
      47 
      48 
      1.338200 
      ACTCGAGGTTGCCTGTTGATC 
      60.338 
      52.381 
      18.41 
      0.00 
      31.76 
      2.92 
     
    
      84 
      85 
      4.025015 
      GCATAAGCCTGTTCAGTTGATG 
      57.975 
      45.455 
      0.00 
      0.00 
      33.58 
      3.07 
     
    
      85 
      86 
      3.441572 
      GCATAAGCCTGTTCAGTTGATGT 
      59.558 
      43.478 
      0.00 
      0.00 
      33.58 
      3.06 
     
    
      174 
      178 
      4.301628 
      GAATTTGGGAGTCTTGTTTGCTG 
      58.698 
      43.478 
      0.00 
      0.00 
      0.00 
      4.41 
     
    
      287 
      299 
      4.000325 
      TGTGAACATTGTATCCTTGTCCG 
      59.000 
      43.478 
      0.00 
      0.00 
      0.00 
      4.79 
     
    
      366 
      382 
      8.927675 
      AGAAGATAAAGACGATCTATGTAGGT 
      57.072 
      34.615 
      0.00 
      0.00 
      33.20 
      3.08 
     
    
      399 
      415 
      6.441093 
      ACACACAAATATTGCTCCATACTG 
      57.559 
      37.500 
      0.00 
      0.00 
      0.00 
      2.74 
     
    
      415 
      432 
      6.817184 
      TCCATACTGCAGGAGTAGTAATTTC 
      58.183 
      40.000 
      19.93 
      0.00 
      44.38 
      2.17 
     
    
      418 
      435 
      7.172190 
      CCATACTGCAGGAGTAGTAATTTCATG 
      59.828 
      40.741 
      19.93 
      0.00 
      44.38 
      3.07 
     
    
      434 
      451 
      3.029320 
      TCATGCACAAGAAAACATGCC 
      57.971 
      42.857 
      0.00 
      0.00 
      39.75 
      4.40 
     
    
      619 
      636 
      2.039746 
      TCACCCAGTCTTTACCACCATG 
      59.960 
      50.000 
      0.00 
      0.00 
      0.00 
      3.66 
     
    
      672 
      689 
      2.541233 
      ACTAGATCACCTCCTGCTGT 
      57.459 
      50.000 
      0.00 
      0.00 
      0.00 
      4.40 
     
    
      916 
      1164 
      8.546083 
      ACTGTTCCTCAGATCATCTAAATACT 
      57.454 
      34.615 
      0.00 
      0.00 
      46.27 
      2.12 
     
    
      1096 
      1354 
      3.931907 
      TCCAATATCACCTGGGTTGAG 
      57.068 
      47.619 
      0.00 
      0.00 
      33.19 
      3.02 
     
    
      1112 
      1370 
      5.772672 
      TGGGTTGAGTATTTTGCTTACATGT 
      59.227 
      36.000 
      2.69 
      2.69 
      0.00 
      3.21 
     
    
      1113 
      1371 
      6.092748 
      GGGTTGAGTATTTTGCTTACATGTG 
      58.907 
      40.000 
      9.11 
      0.00 
      0.00 
      3.21 
     
    
      1144 
      1403 
      0.249676 
      TTACCCTATTGTGCGCGGAA 
      59.750 
      50.000 
      8.83 
      0.00 
      0.00 
      4.30 
     
    
      1237 
      1496 
      6.711277 
      ACAACTATCTGGAAAATCTGCACTA 
      58.289 
      36.000 
      0.00 
      0.00 
      0.00 
      2.74 
     
    
      1240 
      1499 
      8.768955 
      CAACTATCTGGAAAATCTGCACTATAC 
      58.231 
      37.037 
      0.00 
      0.00 
      0.00 
      1.47 
     
    
      1348 
      1607 
      1.202371 
      TGGCGTTCAGAGTATAAGCCG 
      60.202 
      52.381 
      0.00 
      0.00 
      45.44 
      5.52 
     
    
      1450 
      1709 
      6.480763 
      TGTATCCATGTGGTACAAGTGATTT 
      58.519 
      36.000 
      5.21 
      0.00 
      44.16 
      2.17 
     
    
      1533 
      1795 
      3.735237 
      ATTGTAGTAGGTCTGATGGCG 
      57.265 
      47.619 
      0.00 
      0.00 
      0.00 
      5.69 
     
    
      1605 
      1867 
      1.380302 
      GGGTGAAGCCATGACTGGT 
      59.620 
      57.895 
      0.00 
      0.00 
      45.10 
      4.00 
     
    
      1662 
      1924 
      1.860950 
      CGGAGTATTCTTGTCATGCGG 
      59.139 
      52.381 
      0.00 
      0.00 
      0.00 
      5.69 
     
    
      1722 
      1984 
      9.961266 
      CTTTTTGTATCAAAATGTGCATATGTG 
      57.039 
      29.630 
      4.29 
      0.00 
      0.00 
      3.21 
     
    
      1750 
      2012 
      8.638565 
      GCACATTAGATTGTGTTATTTTGTCAC 
      58.361 
      33.333 
      6.46 
      0.00 
      46.93 
      3.67 
     
    
      2093 
      2363 
      1.266989 
      GCTGAACTGTGTTGGTTAGCC 
      59.733 
      52.381 
      0.00 
      0.00 
      0.00 
      3.93 
     
    
      2111 
      2382 
      2.030274 
      AGCCAAACGGAAAATACACAGC 
      60.030 
      45.455 
      0.00 
      0.00 
      0.00 
      4.40 
     
    
      2124 
      2395 
      9.615295 
      GGAAAATACACAGCGTTAATAGAAAAA 
      57.385 
      29.630 
      0.00 
      0.00 
      0.00 
      1.94 
     
    
      2129 
      2400 
      7.073342 
      ACACAGCGTTAATAGAAAAAGATCC 
      57.927 
      36.000 
      0.00 
      0.00 
      0.00 
      3.36 
     
    
      2235 
      2510 
      7.364320 
      GGAAAAATAGGCAAAAGCTGGGTTATA 
      60.364 
      37.037 
      0.00 
      0.00 
      0.00 
      0.98 
     
    
      2367 
      2648 
      7.287005 
      AGACTTCCAATATAAGATGTCACGGTA 
      59.713 
      37.037 
      16.69 
      0.00 
      38.80 
      4.02 
     
    
      2369 
      2650 
      7.287005 
      ACTTCCAATATAAGATGTCACGGTAGA 
      59.713 
      37.037 
      0.00 
      0.00 
      0.00 
      2.59 
     
    
      2371 
      2652 
      7.602753 
      TCCAATATAAGATGTCACGGTAGATG 
      58.397 
      38.462 
      0.00 
      0.00 
      0.00 
      2.90 
     
    
      2458 
      2740 
      3.945285 
      GGTCTTGTGGAGTTTCTGTCAAA 
      59.055 
      43.478 
      0.00 
      0.00 
      0.00 
      2.69 
     
    
      2459 
      2741 
      4.398044 
      GGTCTTGTGGAGTTTCTGTCAAAA 
      59.602 
      41.667 
      0.00 
      0.00 
      0.00 
      2.44 
     
    
      2460 
      2742 
      5.449177 
      GGTCTTGTGGAGTTTCTGTCAAAAG 
      60.449 
      44.000 
      0.00 
      0.00 
      0.00 
      2.27 
     
    
      2514 
      3143 
      9.807649 
      AAATTAAATGAAGCATCCAGTGTTATC 
      57.192 
      29.630 
      0.00 
      0.00 
      0.00 
      1.75 
     
    
      2669 
      3298 
      3.140144 
      TGGAAGACCTTTTCAACCTGGAT 
      59.860 
      43.478 
      0.00 
      0.00 
      37.04 
      3.41 
     
    
      2943 
      3572 
      2.158986 
      ACTGCATCGGAGAAGGAAGATG 
      60.159 
      50.000 
      0.00 
      0.42 
      43.58 
      2.90 
     
    
      2987 
      3616 
      2.755655 
      GGAAGAGACCGAGACTTCATCA 
      59.244 
      50.000 
      0.00 
      0.00 
      40.89 
      3.07 
     
    
      3006 
      3635 
      4.088634 
      TCAGGGAAGAGGGGAGAAAATA 
      57.911 
      45.455 
      0.00 
      0.00 
      0.00 
      1.40 
     
    
      3056 
      3685 
      5.183228 
      ACTGAGACCGTTTCTGAAAAGAAA 
      58.817 
      37.500 
      16.02 
      0.00 
      33.22 
      2.52 
     
    
      3058 
      3687 
      5.424757 
      TGAGACCGTTTCTGAAAAGAAAGA 
      58.575 
      37.500 
      16.02 
      0.00 
      38.32 
      2.52 
     
    
      3121 
      3750 
      5.473504 
      AGACCGAATCAAGCACTGTAAAATT 
      59.526 
      36.000 
      0.00 
      0.00 
      0.00 
      1.82 
     
    
      3182 
      3811 
      2.194859 
      AGTGGCAGTTCATCTGATCCT 
      58.805 
      47.619 
      0.00 
      0.00 
      46.27 
      3.24 
     
    
      3197 
      3826 
      4.347292 
      TCTGATCCTTGAAGCTATCAGCAT 
      59.653 
      41.667 
      21.42 
      3.01 
      45.56 
      3.79 
     
    
      3249 
      3878 
      3.322514 
      ACCACAGTGAATTCCCACG 
      57.677 
      52.632 
      0.62 
      0.00 
      41.67 
      4.94 
     
    
      3311 
      3940 
      2.283173 
      GGGGGAAGTGTTGCCTGG 
      60.283 
      66.667 
      0.00 
      0.00 
      41.52 
      4.45 
     
    
      3346 
      3975 
      0.759060 
      GCCCCCTTGTGACCTTGTTT 
      60.759 
      55.000 
      0.00 
      0.00 
      0.00 
      2.83 
     
    
      3415 
      4044 
      7.630082 
      TGATAAAATACTTTGCTACCCTCAGT 
      58.370 
      34.615 
      0.00 
      0.00 
      0.00 
      3.41 
     
    
      3424 
      4053 
      5.957842 
      TTGCTACCCTCAGTTTTTGTATG 
      57.042 
      39.130 
      0.00 
      0.00 
      0.00 
      2.39 
     
    
      3438 
      4067 
      7.274250 
      CAGTTTTTGTATGCCTATTGCTCTTTC 
      59.726 
      37.037 
      0.00 
      0.00 
      42.00 
      2.62 
     
    
      3439 
      4068 
      6.832520 
      TTTTGTATGCCTATTGCTCTTTCA 
      57.167 
      33.333 
      0.00 
      0.00 
      42.00 
      2.69 
     
    
      3442 
      4071 
      6.832520 
      TGTATGCCTATTGCTCTTTCAAAA 
      57.167 
      33.333 
      0.00 
      0.00 
      42.00 
      2.44 
     
    
      3451 
      4080 
      8.186821 
      CCTATTGCTCTTTCAAAACTATTGGAG 
      58.813 
      37.037 
      0.00 
      0.00 
      0.00 
      3.86 
     
    
      3519 
      4148 
      4.157105 
      GCCTTTCCGCCATTTCTTAACTTA 
      59.843 
      41.667 
      0.00 
      0.00 
      0.00 
      2.24 
     
    
      3578 
      4208 
      5.644206 
      GGACTTCTGTCTTCTTATTCAACCC 
      59.356 
      44.000 
      0.00 
      0.00 
      42.54 
      4.11 
     
    
      3602 
      4256 
      7.982354 
      CCCTTTCTACTGTTATTTACTCCTCAG 
      59.018 
      40.741 
      0.00 
      0.00 
      0.00 
      3.35 
     
    
      3617 
      4271 
      3.395604 
      TCCTCAGGGAGTACTAGCTAGT 
      58.604 
      50.000 
      28.50 
      28.50 
      36.57 
      2.57 
     
    
      3618 
      4272 
      3.136809 
      TCCTCAGGGAGTACTAGCTAGTG 
      59.863 
      52.174 
      32.21 
      16.13 
      36.57 
      2.74 
     
    
      3619 
      4273 
      3.117813 
      CCTCAGGGAGTACTAGCTAGTGT 
      60.118 
      52.174 
      32.21 
      20.85 
      34.60 
      3.55 
     
    
      3621 
      4275 
      5.397672 
      CCTCAGGGAGTACTAGCTAGTGTTA 
      60.398 
      48.000 
      32.21 
      13.30 
      34.60 
      2.41 
     
    
      3697 
      4352 
      7.333528 
      ACATTTCAGTCAGCAAGAAAAAGTA 
      57.666 
      32.000 
      0.00 
      0.00 
      35.20 
      2.24 
     
    
      3711 
      4366 
      6.502136 
      AGAAAAAGTACTAGGCATGAAAGC 
      57.498 
      37.500 
      0.00 
      0.00 
      0.00 
      3.51 
     
    
      3813 
      4469 
      6.255887 
      GGATCACTATAACAGGTCAAAAGTCG 
      59.744 
      42.308 
      0.00 
      0.00 
      0.00 
      4.18 
     
    
      4040 
      4696 
      1.810853 
      CGCACCTGCATCGACATGA 
      60.811 
      57.895 
      0.00 
      0.00 
      42.21 
      3.07 
     
    
      4048 
      4704 
      1.481772 
      TGCATCGACATGACATGGAGA 
      59.518 
      47.619 
      19.39 
      16.72 
      30.57 
      3.71 
     
    
      4050 
      4706 
      2.479275 
      GCATCGACATGACATGGAGATG 
      59.521 
      50.000 
      30.51 
      30.51 
      44.05 
      2.90 
     
    
      4051 
      4707 
      2.896745 
      TCGACATGACATGGAGATGG 
      57.103 
      50.000 
      19.39 
      0.37 
      33.39 
      3.51 
     
    
      4079 
      4735 
      3.074412 
      CCTTACGTCAGAGTTTGGCAAT 
      58.926 
      45.455 
      0.00 
      0.00 
      0.00 
      3.56 
     
    
      4108 
      4764 
      7.364408 
      CCTGAAAATTTCATGGTTCAGATCCAT 
      60.364 
      37.037 
      9.02 
      7.15 
      46.45 
      3.41 
     
   
	 
    
		
  
    
      Position 
      MSA Position 
      Penalty 
      Sequence 
      TM 
      GC 
      Self any TH 
      Self end TH 
      Hairpin 
      End Stability 
     
   
  
    
      5 
      6 
      2.663196 
      GACCCTCACCAGGAACCG 
      59.337 
      66.667 
      0.00 
      0.00 
      43.65 
      4.44 
     
    
      11 
      12 
      1.304547 
      AGTCCTCGACCCTCACCAG 
      60.305 
      63.158 
      0.00 
      0.00 
      32.18 
      4.00 
     
    
      24 
      25 
      1.122019 
      AACAGGCAACCTCGAGTCCT 
      61.122 
      55.000 
      12.31 
      9.09 
      37.17 
      3.85 
     
    
      47 
      48 
      4.485163 
      CTTATGCCCGAAAAAGGAAACAG 
      58.515 
      43.478 
      0.00 
      0.00 
      0.00 
      3.16 
     
    
      174 
      178 
      3.745803 
      GCAGCAGAACAGCCCAGC 
      61.746 
      66.667 
      0.00 
      0.00 
      34.23 
      4.85 
     
    
      307 
      323 
      3.874383 
      TCCAATCAGACAACCAAGGAA 
      57.126 
      42.857 
      0.00 
      0.00 
      0.00 
      3.36 
     
    
      399 
      415 
      4.635765 
      TGTGCATGAAATTACTACTCCTGC 
      59.364 
      41.667 
      0.00 
      0.00 
      33.07 
      4.85 
     
    
      415 
      432 
      2.070783 
      GGGCATGTTTTCTTGTGCATG 
      58.929 
      47.619 
      0.00 
      0.00 
      40.96 
      4.06 
     
    
      418 
      435 
      0.392336 
      TGGGGCATGTTTTCTTGTGC 
      59.608 
      50.000 
      0.00 
      0.00 
      36.88 
      4.57 
     
    
      434 
      451 
      2.303022 
      TGAGAAAGTTACTGAGGCTGGG 
      59.697 
      50.000 
      0.00 
      0.00 
      0.00 
      4.45 
     
    
      514 
      531 
      0.036388 
      ATCGACGCCAACCAACTCAT 
      60.036 
      50.000 
      0.00 
      0.00 
      0.00 
      2.90 
     
    
      902 
      1150 
      8.845413 
      AAGAGAATGCCAGTATTTAGATGATC 
      57.155 
      34.615 
      0.00 
      0.00 
      0.00 
      2.92 
     
    
      1015 
      1273 
      0.819582 
      GCATGGCCATTACTTGCACT 
      59.180 
      50.000 
      17.92 
      0.00 
      38.45 
      4.40 
     
    
      1112 
      1370 
      7.715249 
      GCACAATAGGGTAAAGAATATGAGTCA 
      59.285 
      37.037 
      0.00 
      0.00 
      0.00 
      3.41 
     
    
      1113 
      1371 
      7.095607 
      CGCACAATAGGGTAAAGAATATGAGTC 
      60.096 
      40.741 
      0.00 
      0.00 
      0.00 
      3.36 
     
    
      1157 
      1416 
      7.177392 
      ACAAGGAGGAATACAAAAATGAGAAGG 
      59.823 
      37.037 
      0.00 
      0.00 
      0.00 
      3.46 
     
    
      1158 
      1417 
      8.115490 
      ACAAGGAGGAATACAAAAATGAGAAG 
      57.885 
      34.615 
      0.00 
      0.00 
      0.00 
      2.85 
     
    
      1170 
      1429 
      6.650120 
      TCACCAATCTAACAAGGAGGAATAC 
      58.350 
      40.000 
      0.00 
      0.00 
      0.00 
      1.89 
     
    
      1237 
      1496 
      4.337555 
      GCAATTGAACCATCTGAGCAGTAT 
      59.662 
      41.667 
      10.34 
      0.00 
      0.00 
      2.12 
     
    
      1240 
      1499 
      2.477357 
      CGCAATTGAACCATCTGAGCAG 
      60.477 
      50.000 
      10.34 
      0.00 
      0.00 
      4.24 
     
    
      1348 
      1607 
      0.830648 
      TCACCCAACGGATCTCATCC 
      59.169 
      55.000 
      0.00 
      0.00 
      46.22 
      3.51 
     
    
      1450 
      1709 
      6.667414 
      ACAAAGATCCAAAATGGTATAAGGCA 
      59.333 
      34.615 
      0.00 
      0.00 
      39.03 
      4.75 
     
    
      1573 
      1835 
      3.616076 
      GCTTCACCCGATATCTCATCCTG 
      60.616 
      52.174 
      0.34 
      0.00 
      0.00 
      3.86 
     
    
      1629 
      1891 
      1.162698 
      TACTCCGTCCACTCTTGTCG 
      58.837 
      55.000 
      0.00 
      0.00 
      0.00 
      4.35 
     
    
      1699 
      1961 
      7.063191 
      GCACACATATGCACATTTTGATACAAA 
      59.937 
      33.333 
      1.58 
      0.00 
      45.39 
      2.83 
     
    
      1740 
      2002 
      9.515226 
      AGCTACCAAAATTAGAGTGACAAAATA 
      57.485 
      29.630 
      0.00 
      0.00 
      0.00 
      1.40 
     
    
      1750 
      2012 
      8.950210 
      TCTGAAAATGAGCTACCAAAATTAGAG 
      58.050 
      33.333 
      0.00 
      0.00 
      0.00 
      2.43 
     
    
      1763 
      2025 
      6.944862 
      ACTTCTTGGTATTCTGAAAATGAGCT 
      59.055 
      34.615 
      0.00 
      0.00 
      0.00 
      4.09 
     
    
      1764 
      2026 
      7.150783 
      ACTTCTTGGTATTCTGAAAATGAGC 
      57.849 
      36.000 
      0.00 
      0.00 
      0.00 
      4.26 
     
    
      1941 
      2203 
      9.177608 
      CAATCTTTCAGGATAATGACCTTGTAA 
      57.822 
      33.333 
      0.00 
      0.00 
      35.35 
      2.41 
     
    
      2069 
      2339 
      0.732571 
      ACCAACACAGTTCAGCAACG 
      59.267 
      50.000 
      0.00 
      0.00 
      37.61 
      4.10 
     
    
      2093 
      2363 
      3.262135 
      ACGCTGTGTATTTTCCGTTTG 
      57.738 
      42.857 
      0.00 
      0.00 
      0.00 
      2.93 
     
    
      2235 
      2510 
      5.523916 
      GCGTGTGACATTGAGGTAGATTATT 
      59.476 
      40.000 
      0.00 
      0.00 
      0.00 
      1.40 
     
    
      2257 
      2537 
      4.143200 
      TGTTTCTGATTAAGTAACGCTGCG 
      60.143 
      41.667 
      21.91 
      21.91 
      38.62 
      5.18 
     
    
      2319 
      2599 
      4.639135 
      ACAAGCAAAGAGGAGAACAAAC 
      57.361 
      40.909 
      0.00 
      0.00 
      0.00 
      2.93 
     
    
      2390 
      2672 
      7.799914 
      ACAAATACGAGGTGTTTCGAATTTAAC 
      59.200 
      33.333 
      0.00 
      0.00 
      43.03 
      2.01 
     
    
      2514 
      3143 
      7.281040 
      TGGAAACAGGTACCGATAGTTATAG 
      57.719 
      40.000 
      6.18 
      0.00 
      35.01 
      1.31 
     
    
      2669 
      3298 
      2.159393 
      GCCAAATGCGCATTCTAACTCA 
      60.159 
      45.455 
      33.93 
      0.00 
      0.00 
      3.41 
     
    
      2943 
      3572 
      2.588314 
      CTCAGATGCAGCCTCGGC 
      60.588 
      66.667 
      0.00 
      0.00 
      42.33 
      5.54 
     
    
      2987 
      3616 
      2.772515 
      CGTATTTTCTCCCCTCTTCCCT 
      59.227 
      50.000 
      0.00 
      0.00 
      0.00 
      4.20 
     
    
      3006 
      3635 
      4.087182 
      TCCTCCTTTACAGATTCAGTCGT 
      58.913 
      43.478 
      0.00 
      0.00 
      0.00 
      4.34 
     
    
      3056 
      3685 
      3.323403 
      CAGACCCAGTCTCTGTTTCTTCT 
      59.677 
      47.826 
      0.00 
      0.00 
      41.37 
      2.85 
     
    
      3058 
      3687 
      3.309296 
      TCAGACCCAGTCTCTGTTTCTT 
      58.691 
      45.455 
      0.00 
      0.00 
      41.37 
      2.52 
     
    
      3121 
      3750 
      4.069232 
      CCCCTCGCGAGCTTGTCA 
      62.069 
      66.667 
      30.49 
      0.00 
      0.00 
      3.58 
     
    
      3182 
      3811 
      4.582869 
      ACTTGTCATGCTGATAGCTTCAA 
      58.417 
      39.130 
      0.00 
      2.58 
      42.97 
      2.69 
     
    
      3311 
      3940 
      1.674441 
      GGGGCCGACTACAAAATAAGC 
      59.326 
      52.381 
      0.00 
      0.00 
      0.00 
      3.09 
     
    
      3346 
      3975 
      4.543590 
      TTTGTTGCCAAAAGGTTCTTCA 
      57.456 
      36.364 
      0.00 
      0.00 
      37.62 
      3.02 
     
    
      3424 
      4053 
      6.753744 
      CCAATAGTTTTGAAAGAGCAATAGGC 
      59.246 
      38.462 
      0.00 
      0.00 
      45.30 
      3.93 
     
    
      3438 
      4067 
      4.445452 
      AGCATGCACTCCAATAGTTTTG 
      57.555 
      40.909 
      21.98 
      0.00 
      35.76 
      2.44 
     
    
      3439 
      4068 
      7.175641 
      GGATATAGCATGCACTCCAATAGTTTT 
      59.824 
      37.037 
      21.98 
      0.00 
      35.76 
      2.43 
     
    
      3442 
      4071 
      5.486775 
      AGGATATAGCATGCACTCCAATAGT 
      59.513 
      40.000 
      21.98 
      0.00 
      39.81 
      2.12 
     
    
      3496 
      4125 
      2.492088 
      AGTTAAGAAATGGCGGAAAGGC 
      59.508 
      45.455 
      0.00 
      0.00 
      46.95 
      4.35 
     
    
      3578 
      4208 
      7.982354 
      CCCTGAGGAGTAAATAACAGTAGAAAG 
      59.018 
      40.741 
      0.00 
      0.00 
      33.47 
      2.62 
     
    
      3602 
      4256 
      6.041511 
      GCTTTTAACACTAGCTAGTACTCCC 
      58.958 
      44.000 
      25.63 
      6.62 
      34.13 
      4.30 
     
    
      3612 
      4266 
      4.998033 
      ACTCCTTGAGCTTTTAACACTAGC 
      59.002 
      41.667 
      0.00 
      0.00 
      32.04 
      3.42 
     
    
      3613 
      4267 
      6.073003 
      CCAACTCCTTGAGCTTTTAACACTAG 
      60.073 
      42.308 
      0.00 
      0.00 
      32.04 
      2.57 
     
    
      3614 
      4268 
      5.763204 
      CCAACTCCTTGAGCTTTTAACACTA 
      59.237 
      40.000 
      0.00 
      0.00 
      32.04 
      2.74 
     
    
      3615 
      4269 
      4.580580 
      CCAACTCCTTGAGCTTTTAACACT 
      59.419 
      41.667 
      0.00 
      0.00 
      32.04 
      3.55 
     
    
      3616 
      4270 
      4.793028 
      GCCAACTCCTTGAGCTTTTAACAC 
      60.793 
      45.833 
      0.00 
      0.00 
      32.04 
      3.32 
     
    
      3617 
      4271 
      3.317993 
      GCCAACTCCTTGAGCTTTTAACA 
      59.682 
      43.478 
      0.00 
      0.00 
      32.04 
      2.41 
     
    
      3618 
      4272 
      3.317993 
      TGCCAACTCCTTGAGCTTTTAAC 
      59.682 
      43.478 
      0.00 
      0.00 
      32.04 
      2.01 
     
    
      3619 
      4273 
      3.561143 
      TGCCAACTCCTTGAGCTTTTAA 
      58.439 
      40.909 
      0.00 
      0.00 
      32.04 
      1.52 
     
    
      3621 
      4275 
      2.071778 
      TGCCAACTCCTTGAGCTTTT 
      57.928 
      45.000 
      0.00 
      0.00 
      32.04 
      2.27 
     
    
      3650 
      4304 
      4.778213 
      AATGGTGGCTTCTAGCAGATAA 
      57.222 
      40.909 
      0.00 
      0.00 
      44.75 
      1.75 
     
    
      3697 
      4352 
      4.829492 
      AGTTTTTCAGCTTTCATGCCTAGT 
      59.171 
      37.500 
      0.00 
      0.00 
      0.00 
      2.57 
     
    
      3711 
      4366 
      2.297315 
      GGAGGGGCTGAAAGTTTTTCAG 
      59.703 
      50.000 
      21.36 
      21.36 
      46.42 
      3.02 
     
    
      3813 
      4469 
      1.623359 
      CGCAGAGACACAGCTTCTAC 
      58.377 
      55.000 
      0.00 
      0.00 
      0.00 
      2.59 
     
    
      4040 
      4696 
      2.573463 
      AGGTTAACCCCATCTCCATGT 
      58.427 
      47.619 
      21.30 
      0.00 
      36.42 
      3.21 
     
    
      4048 
      4704 
      3.175594 
      TCTGACGTAAGGTTAACCCCAT 
      58.824 
      45.455 
      21.30 
      10.41 
      46.39 
      4.00 
     
    
      4050 
      4706 
      2.564504 
      ACTCTGACGTAAGGTTAACCCC 
      59.435 
      50.000 
      21.30 
      8.60 
      46.39 
      4.95 
     
    
      4051 
      4707 
      3.949842 
      ACTCTGACGTAAGGTTAACCC 
      57.050 
      47.619 
      21.30 
      5.17 
      46.39 
      4.11 
     
    
      4079 
      4735 
      5.832595 
      TCTGAACCATGAAATTTTCAGGTCA 
      59.167 
      36.000 
      22.43 
      18.81 
      43.98 
      4.02 
     
    
      4108 
      4764 
      2.872245 
      CCAGCAGAAAAAGAACTGTCGA 
      59.128 
      45.455 
      0.00 
      0.00 
      36.62 
      4.20 
     
   
	 
	
  
 
Based at the University of Bristol  with support from BBSRC .
 
 
AutoCloner maintained by Alex Coulton.