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Appendix S2 Haplotype definition of 8 variable fragments.

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Appendix S2

Haplotype definition of 8 variable fragments.

I-1 I-2 II III IV V VI-1 VI-2

H1 a a a a a a a b

H2 a a a a b a a b

H3 a a a a b a b b

H4 a a a a b a c b

H5 a a a a b b b b

H6 a a a a b b d b

H7 a a a a c a d b

H8 a a a a c a e b

H9 a a a a c b b b

H10 a a a a c b c b

H11 a a a a c b d b

H12 a a a a c b e b

H13 a a a a d a f b

H14 a a a a d b d b

H15 a a a b a a a b

H16 a a a b a a a c

H17 a a a b a a b b

H18 a a a b a a c b

H19 a a a b a b a b

H20 a a a b b a a b

H21 a a a b b a c b

H22 a a a b b a d b

H23 a a a b b b c b

H24 a a a b c a a b

H25 a a a b c a d b

H26 a a a b c b c b

H27 a a a b c b d b

H28 a a b a b a b b

H29 a a b b a a a b

H30 a a f b b b c b

H31 a a f b b a c b

H32 a b a a b a b b

H33 a b b a b a b b

H34 a b b a b a c b

H35 a b b a b b b b

H36 a b c a b a b b

H37 a b c a a a a b

H38 a b e a b a c b

H39 a c h a b a b a

H40 a c h a c a c a

H41 b b b a b a b b

H42 b b b a b a c b

H43 b b b a b b b b

H44 b b c a b a b a

H45 b b c a b a b b

H46 b b c a b a c b

H47 b b c a b b b b

H48 b b c a c a c b

H49 b b d a a a b b

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H50 b b d a b a b b

H51 b b d a b a c b

H52 b b d a b b b b

H53 b b e a b a b b

H54 c b e a b a c b

H55 c b c a b a b b

H56 d b g c b a c a

H57 d b g a b a c a

Fragment number corresponds to the primer combinations in Table 1.

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