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Table 1 Primer sets used in study

From: Genetic characterization of Chikungunya virus from New Delhi reveal emergence of a new molecular signature in Indian isolates

Primer Name

Sequence 5′-3′

Genome position

Amplicon size bps

Reference

Where used in study

E1-primary-F

ACAAAACCGTCATCCCGTCTC

10145–11158

1013

[7]

Primary PCR

E1-primary-R

TGACTATGTGGTCCTTCGGAGG

E1-F1

GCTCCGCGTCCTTTACC

10389–10943

555

[8]

Nested PCR, Phylogenetic analysis

E1-R1

ATGGCGACGCCCCCAAAGTC

E1-gene-F

GCGTACGAACACGTAACA

9991–11310

1320

This study

Molecular signatures

E1-gene-R

GTGCCTGCTGAACGACAC

E2-gene-F

AGCACCAAGGACAACTTCAAT

8542–9807

1266

This study

Phylogenetic analysis Molecular signatures

E2-gene-R

TTTAGCTGTTCTGATGCAGC

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