Table 2

Validation of singleton sequences and the contig joining procedure by PCR amplification and Sanger sequencing.

Singleton ID

PCR

Aligned region (bp)

% identity


E60BDOM01CLWZX

+

127

95%

E60BDOM01ALGIK

+

E60BDOM01BPLRZ

+

154

94%

E60BDOM02F1SCS

+

148

99%

E60BDOM01CV0LE

+

E60BDOM01ETTGL

+

157

99%

E60BDOM01BOMBA

+

E60BDOM01AM229

E60BDOM01CMRH7

E60BDOM01E1RA8

+

127

98%


Scaffold ID

PCR

5' match, bp

(%identity)

3' match, bp

(%identity)


EZ002257

+

193 (98%)

EZ000984

+

248 (99%)

123 (99%)

EZ001217

+

722 (96%)

374 (98%)

EZ001302

+

174 (97%)

180 (99%)

EZ001324

+

361 (97%)

183 (99%)

EZ002268

+

249 (99%)

186 (99%)

EZ001475

+

323 (99%)

EZ002219

+

715 (98%)

218 (98%)

EZ000750

+

768 (96%)

212 (99%)

EZ001662

+

133 (99%)

55 (98%)


Singleton sequences are identified by sequence identifiers for SRA003728, with the size (in bp) and quality (% identity) of the alignment between the 454 sequence and the Sanger sequence. Scaffolds are identified by accession numbers, with sequence identity shown for the 5'-most contig and the 3'-most contig contained in that scaffold.

Meyer et al. BMC Genomics 2009 10:219   doi:10.1186/1471-2164-10-219

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