Table 2.

Forge assemblies

ID	454	Sanger-454	Sanger-454-IlluminaPA	Sanger-454-IlluminaDA
Total scaffolds*	7,860	4,805	2,307	1,443
N50 contig (scaffold)	5,773 (N/A)	7,440 (289,760)	31,821 (557,565)	164,278 (187,326)
Total DNA (bp)†	29,484,877	34,841,371	39,238,044	29,522,629
Number of scaffolds with gaps‡	0	656	163	17
Augustus predictions	10,555	10,230	8,912	8,476
EST analysis§	5,544/25	5,747/60	6,314/40	6,685/33

*Scaffolds included in this calculation contained two or more reads and were longer than 500 bp. ^†Total DNA was calculated excluding gaps and was performed on scaffolds that contained two or more reads and were longer than 500 bp. ^‡Gaps included in this calculation were longer than 50 bp. ^§EST alignments are given as: Complete alignments/Misassemblies (see Materials and methods). Forge assemblies were generated using Illumina, 454 and Sanger read data. The '454' assembly was generated using only 454 SE read data. The 'Sanger-454' assembly was generated by combining the Sanger PE and 454 SE read collections. The 'Sanger-454-IlluminaPA' assembly was generated by combining the Sanger PE and 454 SE read collections with preassembled (PA) contigs generated from Illumina PE reads with Velvet. The 'Sanger-454-IlluminaDA' assembly was generated by combining the Sanger PE and 454 SE read collections with Illumina PE reads (DA = direct assembly).