De Novo Next Generation Sequencing of Plant Genomes

Rice

Table 1 Assembly Statistics (Commonly Reported Assembly Statistics for Each of the Six BAC Pools)

	Individual pool statistics
	Pool 1	Pool 2	Pool 3	Pool 4	Pool 5	Pool 6
# Scaffolds	15	25	22	9	21	31
N50 scaffold size	518,306	353,691	309,466	407,073	242,868	360,621
Largest scaffold	692,300	727,204	628,772	1,195,083	728,801	769,231
# Contigs in scaffolds	251	328	290	290	361	346
# Contigs	349	483	484	369	506	527
N50 contig size	19,948	12,338	15,511	14,645	11,029	10,877
Largest contig	64,379	61,596	76,790	62,004	45,971	54,004
# Titanium reads used in assembly	171,538	134,113	164,319	185,005	133,321	142,414
# Paired ends used in assembly	17,191	13,694	14,713	20,551	23,047	19,544
Total base pair used	62,526,876	46,881,469	60,814,619	66,641,838	47,621,595	53,998,008
Total size	3,422,263	3,100,984	3,354,957	2,990,942	2,978,383	2,786,664

Contig or scaffold N50 is a weighted median statistic such that 50% of the entire assembly is contained in contigs or scaffolds equal to or larger than this value