Table 1. Clinical Profile of the sequenced cases.

The clinical presentation, key diagnostics tests, provisional diagnosis, treatment followed and results from sequencing (SNAP alignment against viral databases) are shown.

Sample	Age/sex	Presentation	Investigations	Diagnosis	Management	Animal viruses (sequencing+ BLAST)
F1	34F	Fever, vomiting, loose stools, hypotension	•   dengue IgM +    •   Serial platelet count: 57,000-12,000- 37,000-60,000 cells/mm 3    •   BP 106/72 mmHg	Dengue	Platelet transfusion, antiemetics, IV fluid; patient recovered and was discharged after 5 days	None matched
F2	28F	Fever, severe myalgia for 4 days, hypotension	•   Dengue IgM +    •   Dengue NS1 +    •   LFT: AST 370 U/l; ALT 170 U/l; GGT 272 U/l    •   Chest X ray: Bilateral pleural effusion    •   Serial platelet count: -7000-16000- 43000 cells/mm 3    •   BP 80/60mmHg	Dengue	Platelet transfusion IV fluids; patient improved and was discharged	Dengue virus 3 (19,120 reads) Japanese encephalitis virus (14 reads)
F3	36F	Fever and severe myalgia for 15 days	Weil–Felix border line positive (OX K 1:80) for Rickettsial fever	Rickettsial fever	Doxycycline (200 mg for 7 days); patient recovered	None matched
F4	10M	Prolonged fever (>20 days)	No known cause	Provisional diagnosis Rickettsial or partially treated enteric/malaria		dengue virus 3 (1 read)
F5	42F	Fever for 13 days, chills and rigors, known diabetic	Weil–Felix suggestive of Rickettsial Fever (OX K 1:320)	Rickettsial fever	Doxycycline (200 mg for 5 days); patient improved	Japanese encephalitis virus sequences (12 reads)

M, Male; F, Female; IgM, dengue immunoglobin M; NS1, dengue non-structural protein 1 test; LFT, liver function test; AST, aspartate aminotransferase; ALT, alanine aminotransferase; GGT, gamma glutamyltransferase.