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Table 2
Genome assembly statistics and summary
Genome	Step	Software	Size^a	# contigs^b	# scaffolds	Average length^c	N50^d	N90^e
*Tcm*	454 assembly	CELERA	37.3	30,737	-	1,216	1,670	539
	Illumina assembly	Velvet (kmer 43)	16.7	9,247	-	1,813	2,378	851
	Assembly of non-assembled Illumina reads	Velvet (kmer 53)	1.17	2,094	-	562	536	418
	Assembly merging	Zorro	33.5	24,799 ^f	-	1,353	2,218	549
	Scaffolding	SSPACE	38.8	23,813 ^f	1,835	2,296	25,044	576
	Gap closure	IMAGE	38.6	23,000	1,774	2,302	25,781	583
*Tcc* X10	454 assembly	CELERA	41.8	33,686	-	1,243	1,516	549
	Illumina assembly	Velvet (kmer 43)	17.0	8,523	-	1,997	2,742	904
	Assembly of non-assembled Illumina reads	Velvet (kmer 53)	1.14	2,116	-	543	523	416
	Assembly merging	Zorro	38.0	28,389 ^f	-	1,339	1,869	560
	Scaffolding	SSPACE	43.7	27,605 ^f	2,476	2,162	14,067	589
	Gap closure	IMAGE	43.4	26,889	2,423	2,158	14,516	592

^a The length when sequences are combined (Mb).

^b The number of contigs/scaffolds.

^c The average contig length (bp). For the SSPACE row, this refers to the average scaffold length.

^d The length N for which half of all bases are in a sequence of this length or longer.

^e The length N for which 90% of all bases are in a sequence of this length or longer.

^f Contigs >500 bp.

Franzén et al. BMC Genomics 2012 13:531 doi:10.1186/1471-2164-13-531

Table 2