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Table 3 Avian sequences reconstructed by the PathogenID v2.0 and BLASTN alignment

From: Use of consensus sequences for the design of high density resequencing microarrays: the influenza virus paradigm

Viral strain tested

Gene

Sequence size (bp)

Subtype

BLASTN analysis of the sequence reconstructed by the DNA microarray

221

PB2

511

-

A/teal/Italy/3931-38/2005 (H5N2) *

 

HA

209

H3

A/mallard/Finland/12072/06 (H3N8) *

 

NA

188

N2

A/duck/Denmark/65047/04 (H5N2) *

223

PB2

516

-

A/gull/Moscow/3100/2006 (H6N2) *

 

HA

99

H1

A/duck/Bavaria/1/77 (H1N1)

 

NA

224

N1

A/mink/Sweden/V907/2006(H5N1) *

    

A/chicken/Nigeria/1047-62/2006(H5N1)

    

A/Aquatic Bird/Hong Kong/m603/98 (H11N1)

224

PB2

518

-

A/gull/Moscow/3100/2006 (H6N2) *

 

HA

133

H1

A/goose/Italy/296426/2003 (H1N1) *

    

A/duck/Italy/281904/2006(H1N1) *

    

A/duck/Italy/69238/2007(H1N1) *

 

NA

252

N1

A/Aquatic Bird/Hong Kong/m603/98 (H11N1)

  1. Sequences corresponding to highest scores are detailed. Asterisks indicate sequences that were the same as those given by the resequencing data.