Table 4. Putative genes where IS6110 insertions may alter promoter activity.

Position of OP6110 in SMI-049	Downstream gene	Function	Distance	Orientation of downstream gene	Comment
890769-890838	Rv0797	IS1547 Transposase	94 bp	Forward
1537121-1537190	Rv1362c	Hyp. Prot., unknown function	398 bp	Reversed
1545719-1545788c	Rv1368	lprF, probable lipoprotein	272 bp	Reversed
1992219-1992288	Rv1755c	plcD 5′, Phospholipase C - truncated	86 bp	Reversed	IS6110 inserted into plcD
2000585-2000654	Rv1758	cut1 3′, Serine esterase, hydrolysis of cutin - truncated	66 bp	Forward	IS6110 inserted in cut1, Non-functional [79]
2051273-2051342	Rv1799	lppt 3′, probable lipoprotein - truncated	82 bp	Forward	IS6110 inserted into lppT
2175810-2175879c	Rv1917c	PPE34 3′, unknown function - truncated	81 bp	Forward	IS6110 inserted into PPE34
2260061-2260130	Rv2000	Hyp. Prot. 3′, unknown function - truncated	85 bp	Forward	IS6110 inserted into Rv2000
2280108-2280177	Rv2117	Transcriptional regulator protein	155 bp	Reversed
2387585-2387654	Rv2108	PPE36, unknown function	119 bp	Forward
2652563-2652632	Rv2356c	PPE40, unknown function	994 bp	Reversed
3132243-3132312	Rv2813	Hyp. Prot., unknown function	1495 bp	Reversed
3137724-3137793	Rv2818c	Hyp. Prot. 3′, unknown function - truncated	82 bp	Forward	IS6110 inserted into Rv2818c
3392133-3392202c	Rv3019c	esxR 5′, secreted ESAT-6 like protein - truncated	82 bp	Reversed	IS6110 inserted into esxR
	Rv3018A	PE27A, unknown function	564 bp	Forward
3565496-3565565	Rv3182	Hyp. Prot., unknown function	210 bp	Reversed
3723555-3723624c	Rv3324A	Pseudogen	84 bp	Forward	IS6110 inserted into Rv3324A
	Rv3324c	moaC, molybdenum cofactor biosynthesis protein C	194 bp	Forward
3728662-3728732c	MT3429	Hyp. Prot., unknown function	79 bp	Reversed	Identical to MT3429 of CDC1551, not present in H37Rv
4184858-4184927	Rv3727	Oxidoreductase	269 bp	Forward