Table 3.

Genetic analysis of specimens

	Specimen type	Gene
		upE (Ct)	Orf1a (Ct)
Patient 1
April 26	BAL*	22·9	24
April 30	NP	40	40
April 30	NP†	37·2	40
May 7	SP‡	28·8	27·2
May 7	WB	35·9	35·2
May 9	P	40	38·8
Patient 2
May 9	NPa	37	40
May 9	NPb	37·4	Negative
May 11	SP*	22·5	23·9
May 11	NP	Inconclusive	Inconclusive

Ct=cycle threshold. BAL=bronchoalveolar lavage. NP=nasopharyngeal swab. SP=sputum. NPS=nasopharyngeal swab. WB=whole blood. P=plasma.

^*Specimens on which sequencing was done (appendix).

^†Retest.

^‡Specimen from which an isolate was obtained.