TABLE 2.

Multiple sequence alignment of repeat unit^a

Locus	Sequence	Variant	Species occurring
1	ATCGCCCGACTCCTCCTCCGGCCTCACCGGCCGGTATCGTCGCCGCGCACCACCCCA	A1	MM
	..................................C.............---------	B1	MU
	..................................C......................	C1	MM
	..........................T..............................	D1	MM
	..........................T.....................---------	E1	MM
4	GGTCGCCTCGCTCCCATCACTCGCCAAGCTCGCTCTGCTCGCTCGGCTCCCAAACCCAACA	A4	MM
	..........................C..................................	B4	MM
	....................................................GG.....--	C4	MU
	....................................................GG.......	D4	MM
	....................................................---------	E4	MM
6	GTGGTGGTCGCGAAACCGGCGAAGCCGGGCGAAGCGGGCCACCACCGACAAGCCCC	A6	MM
	........................................----------------	B6	MM
	..........T.............................----------------	C6	MU
	----------------.......................................	D6	MM
8	AGTGGTGACCGCCAGCGCGGCGGGGAGCCGGGCGCAGCGGGTCGCCACCATCAAATCC	A8	MM/MU
	................A.........................................	B8	MU
	......................A...................................	C8	MU
9	GTGGCGATCGCAAGCGCGGCCCAGCCGGGGGCAGCGGGTCGCCACCAAGGTGGCGGC	A9	MM/MU
	.........................................---------------	B9	MM
	..........T....T.............---------.T....-------------	C9	MU
	..........T....T.............---------.T....-------------	D9	MU
	..........G.....T........................................	E9	MU
	.G........T....T.............---------......-------------	F9	MU
14	GCCCTCGGTCGCGACCCGCCGCGCCCGGCTCCGCCGCGCTCGCGATCGCTCCAC	A14	MM
	...................................A..................	B24	MM
	...........................---------------------------	C14	MM
	.A.........................---------------------------	D14	MU
15	AGCCGGCTCCGCTCAGCCGGCTCCGGCTCAATTCGCCGACTTCGCTCGCCGGCC	A15	MM
	......................--------------------------------	B15	MM
	..A...................--------------------------------	C15	MU
18	CCGGTTCCCCCGGTATCACCAGTACCGCTCCCCGTACCACCCGTATCACCGGTACCGCCGCTC	A18	MM
	...T.G...............................................C.........	B18	MU
	..TT.G............CGGCACC......................TGGC..C.........	C18	MU
	.GT.AC...........CGGCAC........................TGGC.ATGGTGGTG..	D18	MU
	.GTT.G.........................................TGGC.ATGGT-G....	E18	MU
	.G..GA.......GG..C.GG..A........GTG.......C....CTG...CTG.TG.TGA	F18	MU
	.G..GA...........C.GG..C.G.....GGTG.......C....CTG...C.G.TG....	G18	MU
	...TAG....C.TGG.G.TA..GG...A.....A....GAA.CGG.G.....G..G.---..T	H18	MU
	...T.G....A.TGG.G.T...G....A.....A....GAA.CGG.G.....G..G.---..T	I18	MU
19	GGGGATCGCAAGCCCGGCGACGCCGGGCGCCGCGGGTCACCACCAACAATTCCCGC	A19	MM
	................................................G.......	B19	MM
	.......................................................T	C19	MM
	.............................................T...C......	D19	MM
	......................................G......GA..-------	E19	MM
	...............................A......G......T...C......	F19	MU
	---------------------------------.....G......T...C......	G19	MU
	---------------------------------.....G......-----------	H19	MU
	.........GC....................A.................G......	I19	MU
	.................................................C......	J19	MU
	......................................G......-----------	K19	MU

^a−, base deletion; ., identical nucleotide position; MM, M. marinum; MU, M. ulcerans.