Table 5.: Detection of Clone 1 to 18f Nucleotide Changes by Hybridizationa

Probeb Clone 1 > 18fc
Nucleotide Change
18fc
Nucleotide Position
Number Sequence Nucleotide Range
1 GTTATTTATATGGCAAAAGAGGGGGAGGA 4394 - 4422 T > C 4402
38 ACAGATGAGGATTGGTCAGATTTTTGTCA 4579 - 4607 T > C 4590
109 TTGAAATTAGAAAACAAAACATGACTGAA 4934 - 4962 A > T 4938
120d TTCAGATGATGATAATGATAGTGCAGTAG 4989 - 5014 GAT > del 4998/4999
152 GGATGGTTTGTGTATAAGCATTTCTCCCG 5146 - 5174 T > G 5152
154 TGTATAAGCATTTCTCCCGCAAAGAGGAA 5156 - 5184 G > A 5174
235 GAGATATTACTCAGCATTTTATTAAGAAA 5561 - 5589 C > G 5572
409 ATGAATTGAGACCATTAGAGAAAGTGTTG 6431 - 5559 A > G 6441
441 TCCTGATAGACAGTGGGATGAATTATTTA 6591 - 6619 G > A 6599
443e CAGTGGGATGAATTATTTAAAACAATGAT 6601 - 6629 T > C 6613
501 TGTGTTTTCCAAGATATTTGGAAAGTCTC 6891 - 6919 C > T 6900

a Detection of (putative) nucleotide differences by array hybridization between clone 1 and 18f was initially based on the hybridization profile in Fig. (6).
b Probe numbers are from Fig. (6) and represent the oligonucleotide probes whose sequence contains nucleotide change(s) between clone 1 and 18f when the clone 1 target sequence is identical to the probe sequence. Nucleotide changes were indentified (grey boxed) based on comparison of the clone 1 and 18f GenBank sequences (accession numbers in Fig. (1)) used to develop the HAV1Cb group 1 consensus probe set (Fig. 1). The probe nucleotide range numbering is defined by the 29-mer probe and corrected to 18f nucleotide numbering from Lemon et al. [21].
c The nucleotide change and position between clone 1 and 18f as reported by Lemon et al. [21].
d Probe 120 defines a 26 nucleotide base region of 18f due to the three-base GAT deletion.
e This probe identified as a potential peak overlapping with the peak at probe 441.