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Current bacterial SSU rRNA primers


Reference organism: Escherichia coli
Number of nucleotides: 1542

        10        20        30        40        50
....|....|....|....|....|....|....|....|....|....|
AAATTGAAGAGTTTGATCATGGCTCAGATTGAACGCTGGCGGCAGGCCTA
       |-----BSF8/20------>                     <-
                                                  
                                                  
                                                  

        60        70        80        90       100
....|....|....|....|....|....|....|....|....|....|
ACACATGCAAGTCGAACGGTAACAGGAAGAAGCTTGCTTCTTTGCTGACG
--BSR65/17----|                                   
                                                  
                                                  
                                                  

       110       120       130       140       150
....|....|....|....|....|....|....|....|....|....|
AGTGGCGGACGGGTGAGTAATGTCTGGGAAACTGCCTGATGGAGGGGGAT
                                                  
                                                  
                                                  
                                                  

       160       170       180       190       200
....|....|....|....|....|....|....|....|....|....|
AACTACTGGAAACGGTAGCTAATACCGCATAACGTCGCAAGACCAAAGAG
                                                  
                                                  
                                                  
                                                  

       210       220       230       240       250
....|....|....|....|....|....|....|....|....|....|
GGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCCAGATGGGATTAGCTA
                                                  
                                                  
                                                  
                                                  

       260       270       280       290       300
....|....|....|....|....|....|....|....|....|....|
GTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGA
                                                  
                                                  
                                                  
                                                  

       310       320       330       340       350
....|....|....|....|....|....|....|....|....|....|
GGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAG
                                          |--BSF34
                                                |-
                                          <--BSR35
                                                  

       360       370       380       390       400
....|....|....|....|....|....|....|....|....|....|
GCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGC
3/15-->                                           
--BSF349/17--->                                   
7/15--|                                           
                                                  

       410       420       430       440       450
....|....|....|....|....|....|....|....|....|....|
CGCGTGTATGAAGAAGGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGG
                                                  
                                                  
                                                  
                                                  

       460       470       480       490       500
....|....|....|....|....|....|....|....|....|....|
AAGGGAGTAAAGTTAATACCTTTGCTCATTGACGTTACCCGCAGAAGAAG
                                                  
                                                  
                                                  
                                                  

       510       520       530       540       550
....|....|....|....|....|....|....|....|....|....|
CACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCG
                |---BSF517/17--->                 
                <---BSR534/18----|                
                                                  
                                                  

       560       570       580       590       600
....|....|....|....|....|....|....|....|....|....|
TTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCA
                                                  
                                                  
                                                  
                                                  

       610       620       630       640       650
....|....|....|....|....|....|....|....|....|....|
GATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAG
                                                  
                                                  
                                                  
                                                  

       660       670       680       690       700
....|....|....|....|....|....|....|....|....|....|
CTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCG
                                                  
                                                  
                                                  
                                                  

       710       720       730       740       750
....|....|....|....|....|....|....|....|....|....|
TAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGAC
                                                  
                                                  
                                                  
                                                  

       760       770       780       790       800
....|....|....|....|....|....|....|....|....|....|
TGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGATACCCTGG
                                 |--BSF784/15-->  
                                 <--BSR798/15--|  
                                                  
                                                  

       810       820       830       840       850
....|....|....|....|....|....|....|....|....|....|
TAGTCCACGCCGTAAACGATGTCGACTTGGAGGTTGTGCCCTTGAGGCGT
                                                  
                                                  
                                                  
                                                  

       860       870       880       890       900
....|....|....|....|....|....|....|....|....|....|
GGCTTCCGGAGCTAACGCGTTAAGTCGACCGCCTGGGGAGTACGGCCGCA
                                                  
                                                  
                                                  
                                                  

       910       920       930       940       950
....|....|....|....|....|....|....|....|....|....|
AGGTTAAAACTCAAATGAATTGACGGGGGCCCGCACAAGCGGTGGAGCAT
                |--BSF917/16--->                  
      <----BSR926/20-----|                        
                                                  
                                                  

       960       970       980       990      1000
....|....|....|....|....|....|....|....|....|....|
GTGGTTTAATTCGATGCAACGCGAAGAACCTTACCTGGTCTTGACATCCA
                                                  
                                                  
                                                  
                                                  

      1010      1020      1030      1040      1050
....|....|....|....|....|....|....|....|....|....|
CGGAAGTTTTCAGAGATGAGAATGTGCCTTCGGGAACCGTGAGACAGGTG
                                                  
                                                  
                                                  
                                                  

      1060      1070      1080      1090      1100
....|....|....|....|....|....|....|....|....|....|
CTGCATGGCTGTCGTCAGCTCGTGTTGTGAAATGTTGGGTTAAGTCCCGC
                                                |-
                                                <-
                                                  
                                                  

      1110      1120      1130      1140      1150
....|....|....|....|....|....|....|....|....|....|
AACGAGCGCAACCCTTATCCTTTGTTGCCAGCGGTCCGGCCGGGAACTCA
-BSF1099/16-->                                    
-BSR1114/16--|                                    
                                                  
                                                  

      1160      1170      1180      1190      1200
....|....|....|....|....|....|....|....|....|....|
AAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGACGTCAAGTC
                                                  
                                                  
                                                  
                                                  

      1210      1220      1230      1240      1250
....|....|....|....|....|....|....|....|....|....|
ATCATGGCCCTTACGACCAGGGCTACACACGTGCTACAATGGCGCATACA
                                                  
                                                  
                                                  
                                                  

      1260      1270      1280      1290      1300
....|....|....|....|....|....|....|....|....|....|
AAGAGAAGCGACCTCGCGAGAGCAAGCGGACCTCATAAAGTGCGTCGTAG
                                                  
                                                  
                                                  
                                                  

      1310      1320      1330      1340      1350
....|....|....|....|....|....|....|....|....|....|
TCCGGATTGGAGTCTGCAACTCGACTCCATGAAGTCGGAATCGCTAGTAA
                                                  
                                                  
                                                  
                                                  

      1360      1370      1380      1390      1400
....|....|....|....|....|....|....|....|....|....|
TCGTGGATCAGAATGCCACGGTGAATACGTTCCCGGGCCTTGTACACACC
                                        |--BSF1391
                                         <--BSR140
                                                  
                                                  

      1410      1420      1430      1440      1450
....|....|....|....|....|....|....|....|....|....|
GCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCT
/17--->                                           
7/16--|                                           
                                                  
                                                  

      1460      1470      1480      1490      1500
....|....|....|....|....|....|....|....|....|....|
TCGGGAGGGCGCTTACCACTTTGTGATTCATGACTGGGGTGAAGTCGTAA
                                                  
                                                  
                                                  
                                                  

      1510      1520      1530      1540 
....|....|....|....|....|....|....|....|.
CAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACCTCCTT
                     <----BSR1541/20----|
                                         
                                         
                                         

Document last updated: Tue Jul 15 12:00:44 MEST 2003