Table 2. Borrelia burgdorferi genes containing a perfect direct repeat sequence (TAAATTAAAT) in their putative promoter regions.
| ID | Gene | Function | matching sequence |
| BB0007 | hypothetical protein | ttatTAAATTAAATtgtt | |
| BB0008 | conserved hypothetical protein | ttatTAAATTAAATtgtt | |
| BB0020 | pfpB | Pyrophosphate—fructose 6-phosphate 1-phosphotransferase, beta subunit | atcaTAAATTAAATatta |
| BB0036 | parE | DNA topoisomerase IV | tttaTAAATTAAATttta |
| BB0055 | tpiA | triosephosphate isomerase | cagaTAAATTAAATttat |
| BB0086 | conserved hypothetical protein | gtttTAAATTAAATttcc | |
| BB0097 | hypothetical protein | cactTAAATTAAATctca | |
| BB0141 | mtrC | membrane fusion protein | tttcTAAATTAAATgata |
| BB0141 | aagaTAAATTAAATtatg | ||
| BB0259 | hypothetical protein | atttTAAATTAAATtcaa | |
| BB0300 | ftsA | cell division protein | atcaTAAATTAAATgctt |
| BB0306 | conserved hypothetical protein | ggttTAAATTAAATgaat | |
| BB0322 | hypothetical protein | ttctTAAATTAAATtata | |
| BB0323 | hypothetical protein | ttctTAAATTAAATtata | |
| BB0337 | eno | enolase | gtcaTAAATTAAATaatc |
| BB0524 | inositol monophosphatase | ttgaTAAATTAAATattt | |
| BB0564 | hypothetical protein | aggtTAAATTAAATttaa | |
| BB0564 | ttggTAAATTAAATttta | ||
| BB0565 | cheW-2 | purine-binding chemotaxis protein | ttggTAAATTAAATttta |
| BB0565 | aggtTAAATTAAATttaa | ||
| BB0578 | mcp-1 | methyl-accepting chemotaxis protein | gtttTAAATTAAATtaaa |
| BB0578 | aaatTAAATTAAATtaaa | ||
| BB0578 | atttTAAATTAAATttac | ||
| BB0580 | conserved hypothetical integral membrane protein | ataaTAAATTAAATgacc | |
| BB0592 | hypothetical protein | aaaaTAAATTAAATtgag | |
| BB0601 | glyA | serine hydroxymethyltransferase | caatTAAATTAAATattt |
| BB0608 | pepD | aminoacyl-histidine dipeptidase | attaTAAATTAAATccaa |
| BB0608 | tgatTAAATTAAATccat | ||
| BB0668 | flaA | flagellar filament outer layer protein | ttgaTAAATTAAATttta |
| BB0672 | cheY-3 | chemotaxis response regulator | cttcTAAATTAAATtttg |
| BB0739 | hypothetical protein | aaatTAAATTAAATattt | |
| BB0771 | rpoS | RNA polymerase sigma factor | ttttTAAATTAAATtggc |
| BB0771 | attgTAAATTAAATcggc | ||
| BB0791 | tdk | thymidine kinase | atacTAAATTAAATaac |
| BB0798 | putative competence protein F | atatTAAATTAAATgagt | |
| BB0846 | hypothetical protein | aaaaTAAATTAAATataa | |
| BB0849 | hypothetical protein | aaaaTAAATTAAATataa | |
| BB0851 | putative exported protein | atctTAAATTAAATtgat | |
| BBA05 | antigen, S1 | ttcaTAAATTAAATtacc | |
| BBA33 | hypothetical protein | gaaaTAAATTAAATtttc | |
| BBB03 | hypothetical protein | atatTAAATTAAATtata | |
| BBB29 | malX | PTS system, maltose and glucose-specific IIABC component | atttTAAATTAAATttag |
| BBC06 | eppA | exported protein A | tttcTAAATTAAATattt |
| BBF01 | erpD protein, putative | ctccTAAATTAAATaaaa | |
| BBF22 | protein p23, putative | tttaTAAATTAAATaaaa | |
| BBF24 | plasmid partition protein, putative | gaaaTAAATTAAATtcac | |
| BBG02 | conserved hypothetical protein | aaagTAAATTAAATaaca | |
| BBG08 | plasmid partition protein, putative | taaaTAAATTAAATtctt | |
| BBI16 | hypothetical protein | taatTAAATTAAATattt | |
| BBI16 | taatTAAATTAAATaaat | ||
| BBI36 | antigen, P35, putative | acttTAAATTAAATacta | |
| BBI37 | hypothetical protein | acttTAAATTAAATacta | |
| BBI38 | hypothetical protein | acttTAAATTAAATacta | |
| BBI39 | hypothetical protein | acttTAAATTAAATatta | |
| BBJ32 | hypothetical protein | ttttTAAATTAAATgaat | |
| BBJ39 | hypothetical protein | aaccTAAATTAAATatta | |
| BBJ40 | hypothetical protein | aaccTAAATTAAATatta | |
| BBJ41 | antigen, P35, putative | acctTAAATTAAATatta | |
| BBK18 | conserved hypothetical protein | tccaTAAATTAAATcaat | |
| BBL04 | hypothetical protein | gagaTAAATTAAATttta | |
| BBM09 | conserved hypothetical protein | aaagTAAATTAAATccga | |
| BBN41 | hypothetical protein | gaacTAAATTAAATgaag | |
| BBO04 | hypothetical protein | gagaTAAATTAAATttta | |
| BBO09 | conserved hypothetical protein | aaagTAAATTAAATccga | |
| BBO33 | conserved hypothetical protein | tattTAAATTAAATagat | |
| BBP04 | hypothetical protein | gagaTAAATTAAATttta | |
| BBQ72 | hypothetical protein | taatTAAATTAAATccat | |
| BBS04 | hypothetical protein | gagaTAAATTAAATttta |
1, Candidate genes were identified by searching B. burgdorferi B31 genome using “Regulatory Sequence Analysis Tools”. Gene promoter was defined as the region encompassing sequences from -400 to +50 (relative to a putative translation start ATG).
2, Four flanking nucleotides are also shown.