Table 2. HCV poly-U/UC sequence variability.
| GenBank Acc. Gen.a | 5′ armb | U-core | 3′ armc |
| AJ238799.1b | 5′GGCCAUCCUGUUUUUUUCCC(U11)C | U34 | CUCCUUUUUUUUUCCUCUUUUUUUCCUUUUCUUUCCUUU |
| AB001040.1b | 5′GGCCAUUC | U16 | CUUUCUUCUUU |
| AB016785.1b | 5′GGCCGUCCUG | U18 | |
| AB049088.1b | 5′GGCCAUUCCC | U81 | CUCUUCUUUUCUUUAUUCCUUCUUU |
| AB049089.1b | 5′GGCCGUUCC | U64 | CUUUUCCCCUUUUUUAUUUUUCUUUCUU |
| AB049090.1b | 5′GGCCAUCCUGUUUUUUUGUUUUUUC | U43 | CUUUUUUUCCCUUUUUUUUAUUUUAUUUUCUUUUGGU |
| AB049091.1b | 5′GGCCAUCCCCC | U96 | CCUCUUUUUUUCCUUUUCUUCUUU |
| AB049095.1b | 5′GGCCGUUCUG | U85 | CCUUUUUUUUAUUCCUCUUCU |
| AB049101.1b | 5′GGCCAUCCCCUUUG | U94 | AUUUCUCCUUCUUUU |
| AB080299.1b | 5′GGCCAUUCCU | U24 | CUUUUUUUUUCC(U24)CCUUUUCUUUCUUCUUU |
| AB249644.1b | 5′GGCCAUUUUC | U14 | CUUCUUUCUUUUUCUUUUUCUUUUUUUCCUUCUUU |
| AF054247.1b | 5′AGCCAUUUCCUG | U28 | CUUUUUUUUUUUCUUUCCUUUCCUUCUUUUUUUCCUUUCUUUUUCCCUUCUUUAAU |
| AF139594.1b | 5′GGCCAUUUCCUG(U15)GG | U39 | CCUUUCCUUCUUUUUUUUUUUUUCCCUCUUUAU |
| AF333324.1b | 5′GGCCAUUUCCUG | U34 | CUUUUCCUUCUUUUUCCCUUUUUCUUUCUUCCUUCUUUAAU |
| AF176573.1b | 5′GGCCAUCCUGUG | U75 | AUUUCCUUUUCUU |
| AF356827.1b | 5′GGCCAACCUG(U26)CC | U34 | CCUUUUUUUCUUUUUUUUUUUUUUUUUCCUUCCUUUU |
| AJ132997.1b | 5′GGCCAUCCUG | U16 | CUUUCUUU |
| AY460204.1b | 5′GGCCAUUUUUCC | U23 | CUUUUUUUUUUCCUUUUUUUCUUUUUUUUUCUUUUCUUU |
| D85018.1b | 5′GGCCAUUC | U35 | CGUUUCUUUUUCUUCUUUUUGUUUUCUCUUCUCCUUUU |
| D85021.1b | 5′GGCCAUUCCCC(U14)CCGC | U33 | CUUUUUUUUUCC(U27)CUUUUU |
| D85022.1b | 5′GGCCAUCCCCC(U13)CCGC | U21 | CUUUUUUUUUUUCUUUUUUUUUUCC(U24)CUUUUCUUUUU |
| D85516.1b | 5′GGCCAUUC | U16 | CUUUCUUCUUU |
| D89815.1b | 5′GGCCAUCCCCUUC | U22 | CCUUUUCUUCUUU |
| EU857431.1b | 5′GGCCAUCCUGUUUUUUUCCC(U11)C | U29 | CUCCUUUUUUUUUCCUCUUUUUUUCCUUUUCUUUCCUUU |
| FN435993.1b | 5′GGCCGUCCUG(U19)CC | U67 | CUUCUUUCUUUCUU |
| GU133617.1b | 5′GGCCAUUUCCUG | U53 | C(U17)CC(U20)CUUUCCUUCUUUUUUCCUUUCUUUUCCUUCCUUCUUUAAU |
| AB520610.1a | 5′GGCCAUUCCUG | U16 | CUUUUGUUUUUUUUG(U17)CCUUUC(U15)CCUUUCUUCUUUAAU |
| AF009069.1a | 5′GGCCAUUUCCUG | U20 | CUUUCCUUCUUUUUUCCUUUCUUUUCCUUCCUUCUUUAAU |
| AF009070.1a | 5′GGCCAUUUCCUG | U34 | CUUUUCCUUCUUUUUCCCUUUUUCUUUCUUCCUUCUUUAAU |
| AF009071.1a | 5′GGCCAUUUCCUG | U51 | C(U17)CC(U20)CUUUCCUUCUUUUUUCCUUUCUUUUCCUUCCUUCUUUAAU |
| AF009072.1a | 5′GGCCAUUUCCUG(U14)CCC | U37 | CUUUCCUUCUUUUUUUUCCUUUCUUUUCCUUCCUUCUUUAAU |
| AF009074.1a | 5′GGCAUCCUG | U64 | CUUUUCUUU |
| AF009075.1a | 5′ACACUCCAUUUCUUUUUUUG | U67 | CUUUUUCUUUCCUUUCUUUUCUGACUUCUAAUUUUCCUUCUUA |
| AF009076.1a | 5′GUCCUUCUG | U78 | CCUUACCCUUUCCUUCUUUUCUUCCUUUUUUUUCCUUACUUU |
| AF009077.1a | 5′GGGUCCCCUUG | U12 | CUUUCCUUCUUUCCUUUCCUAAUCUUUCUUUCUU |
| AF011751.1a | 5′AGCCAUUUCCUG | U28 | CUUUUUUUUUUUCUUUCCUUUCCUUCUUUUUUUCCUUUCUUUUUCCCUUCUUUAAU |
| AF271632.1a | 5′GGCCAUUUCCUG(U15)G | U55 | CCUUUCCUUUUUUUUUUUUUUUCCCUUUUUAU |
| AJ278830.1a | 5′GGCCAUCCUG(U22)C | U17 | CUUUUUUUUUCUUCUUUUUCUUUCC(U24)CUUCUUUC |
| EF621489.1a | 5′GGCCAUUUCCUG | U46 | CUUUUUCCCUCUUUUUCUUCUCUUUUUCCUUCUUUAAU |
| AB047639.2a | 5′GCUAACUGUUCC | U43 | CUUUUUUUUUUUUUUCCCUCUUUCUUCCCUUCUCAUCUUAUUCUACUUUCUUUCUU |
| AB047640.2a | 5′GCUAACUGUUCC | U38 | C(U15)CCCUCUUUCUUCCCUUCUCAUCUUAUUCUACUUUCUUUCUU |
| AB047641.2a | 5′GCUAACUGUUCC(U11)C | U27 | CCUUCUUUCUUUCUUUCUUACCUUACUUUACUUUCUUUUCU |
| AB047642.2a | 5′GCUAACAGUUUCUC(U13)- CC(U6)AUUUUUA | U25 | AUUUUCUUUUCCUUUCUUUCUCACCUUACAUUACUUUCUUUCUU |
| AB047643.2a | 5′GCUAAUUUCCUUAUUG | U19 | CUUUCCAUUUCCUUCCUUCUUACUUCACUUUACCUUCUUUCU |
| AB047644.2a | 5′GCUAACUG | U77 | CCUUUCCUUUCUUUCUUACCUUACUUUACAUUCUUUUCU |
| AB047645.2a | 5′GCUAACUGUUCC | U70 | CUUUCCUUCCUUUCUCACCUUCUUUUACUUCUUUCCU |
| AF169002.2a | 5′GCUAACUG | U45 | CUUUUCUUUCCUUUCCUUCUUACUCUACUUUACUUUUUCU |
| AF169003.2a | 5′GCUAACUGUUC | U78 | CUUUUCCUUCUUCUUUCUUACCUUAUUUUCCUUCUUUCUU |
| AF169004.2a | 5′GCUAACUG | U30 | CUUUUUUUUUCUUUUCUUUCCUUCUUACCUUACUUUACUUUCUUUUCU |
| AF169005.2a | 5′GCUAACUG | U81 | CCUUUUUCCUUUUCCUUCUCUUUUUACCUUACUUUACUUUUCUU |
| AF177036.2a | 5′GCUAACUGUCCC | U84 | CUUUUUUUCUCUUUUCCUUCUUUCUUACCUUAUUUUACUUUCUUUCCU |
| AY746460.2a | 5′GCUAACUGUCCCUUUUUUUUUG | U30 | C(U18)GUUUCUUUUCCUUCUCAUUUCCUUCUUAUCUUAAUUACUUCCUUUCCU |
| D67095.2a | 5′GCUAACUG | U39 | CCUUCUUCCUUUCCUUCUUACCUUACUUUAUUUUCUUUCCU |
| D67096.2a | 5′GCUAACUG | U54 | CUUUCUUUUCUUUUCUCACCUUACUUUACUUCCUUUCUU |
| AB030907.2b | 5′GCUAGUUUUC | U24 | G(U14)CCUCUUUUUCCGUAUUUUUUUUUUUUCCUCUUUUCUU |
a
DNA sequences were obtained from GenBank, converted to RNA sequences, and aligned to examine sequence variability. Duplicate sequences were removed from the alignment, and sequences are listed as [GenBank Accession #.Genotype].
b
Within the 5′arm of the pU/UC tract, genotype 1 nucleotide composition ranged from 12.1–44.4% purine nucleotides; genotype 2 nucleotide composition ranged from 16.7–50% purine nucleotides.
c
Within the 3′arm of the pU/UC tract, genotype 1 nucleotide composition ranged from 0 (16 sequences)–11.6% purine nucleotides; genotype 2 nucleotide composition ranged from 5.0–11.4% purine nucleotides.