Table 1. Early influenza samples.

Influenza samples collected from April 2009–June 2009 and analyzed by RT-PCR/ESI-MS. Yellow shaded genomic prints are identical matches to the original reference strain. All other colors indicate at least one base pair change from the reference strain.

# of Unique Samples	CDC Influenza A RT- PCR	T5000 Inferred Subtype	PB1	NP	M1	PA	NS1	NS2
170	SWHI	pH1N1	A39 G32 C24 T33 [0 0 0 0]	A35 G21 C20 T25 [0 0 0 0]	A24 G28 C24 T29 [0 0 0 0]	A36 G25 C27 T24 [0 0 0 0]	A36 G35 C20 T28 [0 0 0 0]	A34 G29 C16 T26 [0 0 0 0]
1	SWHI	pH1N1	A39 G32 C23 T34 [0 0 −1 +1]	A35 G21 C20 T25 [0 0 0 0]	A24 G28 C24 T29 [0 0 0 0]	A36 G25 C27 T24 [0 0 0 0]	A36 G35 C20 T28 [0 0 0 0]	A34 G29 C16 T26 [0 0 0 0]
3	SWHI	pH1N1	A39 G32 C24 T33 [0 0 0 0]	A35 G21 C20 T25 [0 0 0 0]	A24 G28 C23 T30 [0 0 −1 +1]	A36 G25 C27 T24 [0 0 0 0]	A36 G35 C20 T28 [0 0 0 0]	A34 G29 C16 T26 [0 0 0 0]
3	SWHI	pH1N1	A39 G32 C24 T33 [0 0 0 0]	A35 G21 C20 T25 [0 0 0 0]	A25 G27 C24 T29 [+1 −1 0 0]	A36 G25 C27 T24 [0 0 0 0]	A36 G35 C20 T28 [0 0 0 0]	A34 G29 C16 T26 [0 0 0 0]
8	SWHI	pH1N1	A39 G32 C24 T33 [0 0 0 0]	A35 G21 C20 T25 [0 0 0 0]	A24 G28 C24 T29 [0 0 0 0]	A35 G26 C27 T24 [−1 +1 0 0]	A36 G35 C20 T28 [0 0 0 0]	A34 G29 C16 T26 [0 0 0 0]
2	SWHI	pH1N1	A39 G32 C24 T33 [0 0 0 0]	A35 G21 C20 T25 [0 0 0 0]	A24 G28 C24 T29 [0 0 0 0]	A37 G24 C27 T24 [+1 −1 0 0]	A36 G35 C20 T28 [0 0 0 0]	A34 G29 C16 T26 [0 0 0 0]
2	SWHI	pH1N1	A39 G32 C24 T33 [0 0 0 0]	A35 G21 C20 T25 [0 0 0 0]	A24 G28 C24 T29 [0 0 0 0]	A36 G25 C27 T24 [0 0 0 0]	A37 G34 C20 T28 [+1 −1 0 0]	A34 G29 C16 T26 [0 0 0 0]
1	SWHI	pH1N1	A39 G32 C24 T33 [0 0 0 0]	A35 G21 C20 T25 [0 0 0 0]	A24 G28 C24 T29 [0 0 0 0]	A36 G25 C27 T24 [0 0 0 0]	A36 G35 C19 T29 [0 0 −1 +1]	A34 G29 C15 T27 [0 0 −1 +1]