Table 5 Number and ratio of individual haplotype sequences with corresponding gN, gO, and UL146 genotypes
From: Long range PCR-based deep sequencing for haplotype determination in mixed HCMV infections
Sample | Haplotypes determined by long amplicon PacBio sequencing | Genotypes2 assigned by short amplicon Illumina sequencing | |||||
|---|---|---|---|---|---|---|---|
Target site | Seq ID | Reference sequence Acc.No. (% identity)1 | Frequency of occurrence (%) | gN | gO | UL146 | |
BAL2 | F3 | BAL2_F3_hap1 | JX512202.1 (99.9) | 58.7 | 3b | 2a | |
BAL2_F3_hap2 | KP745677.1 (99.1) | 35.1 | 3b | 2a | |||
BAL2_F3_hap3 | KJ361966.1 (99.3) | 6.2 | 1 | 1a | |||
F4 | BAL2_F4_hap1 | KP745638.1 (99.9) | 59.2 | 13 | |||
BAL2_F4_hap2 | KP745654.1 (98.6) | 32.3 | 13 | ||||
BAL2_F4_hap3 | KT726941.2 (98.3) | 8.5 | 12 | ||||
BAL4 | F3 | BAL4_F3_hap1 | KR534203.1 (99.9) | 100 | 1 | 1a | |
3b | 2a | ||||||
F4 | BAL4_F4_hap1 | KU550090.1 (99.9) | 100 | 14 | |||
13 | |||||||
BAL5 | F3 | BAL5_F3_hap1 | KY490065.1 (99.9) | 78.1 | 3b | 2a | |
BAL5_F3_hap2 | JX512208.1 (99.9) | 14.1 | 2 | 2b | |||
BAL5_F3_hap3 | KY490066.1 (99.9) | 7.8 | 3a | 1b | |||
F4 | BAL5_F4_hap1 | KR534198.1 (99.8) | 75.1 | 6 | |||
BAL5_F4_hap2 | KP745691.1 (99.8) | 16.8 | 7 | ||||
BAL5_F4_hap3 | JX512208.1 (99.9) | 8.1 | 11 | ||||
BAL6 | F3 | BAL6_F3_hap1 | KR534203.1 (99.9) | 100 | 1 | 1a | |
3b | 2a | ||||||
F4 | BAL6_F4_hap1 | KY490086.1 (99.9) | 85.6 | 2 | |||
BAL6_F4_hap2 | KY490085.1 (97.1) | 14.4 | 1 | ||||