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Fig. 3 | BMC Genomics

Fig. 3

From: Long range PCR-based deep sequencing for haplotype determination in mixed HCMV infections

Fig. 3

Intra- and interpatient diversity of individual HCMV haplotype sequences determined by PacBio sequencing. Phylogenetic trees of 8 distinct F3 and 9 distinct F4 haplotype sequences, respectivley, were inferred by using the Maximum Likelihood method and Hasegawa-Kishino-Yano model (F3) or Kimura 2-parameter model (F4). F3 haplotype sequences cover a 7.7 kb region (from UL72 to UL76) and F4 haplotype sequences cover a 6.7 kb region (from UL146 to UL139) of the HCMV genome. Branches are labeled by the identified haplotypes of the respective sample and amplicon (e.g. BAL2_F3_hap1). Each font colour corresponds haplotypes that were identified in a single patient sample. Corresponding gN, gO and UL146 genotypes as determined by short amplicon sequencing are shown in bold italics in brackets next to the branch label. BAL, bronchoalveolar lavage; hap, haplotype

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