Table 3.

Evaluation of JR-Assembler by GAGE

Dataset	Contig statistics	JR-Assembler	ABySS	ALLPATHS-LG	Bambus2	CABOG	MSR-CA	SGA	SOAPdenovo	Velvet
S. aureus	Contig No.	58	302	60	109	NA†	94	252	107	162
	N50	101.4	29.2	96.7	50.2	NA†	59.2	4	288.2	48.4
	N50 corr.*	66.1	24.8	66.2	16.7	NA†	48.2	4	62.7	41.5
R. sphaeroides	Contig No.	319	1,915	204	177	322	395	3,067	204	583
	N50	48	5.9	42.5	93.2	20.2	22.1	4.5	131.7	15.7
	N50 corr.*	38.3	4.2	34.4	12.8	17.9	19.1	2.9	14.3	14.5
Human chromosome 14	Contig No.	4,893	51,924	4,529	13,592	3,361	30,103	56,939	22,689	45,564
	N50	36.2	2	36.5	5.9	45.3	4.9	2.7	14.7	2.3
	N50 corr.*	18.2	2	21	4.3	23.7	4.3	2.7	7.4	2.1

The assembly result of JR-Assembler is compared with the statistics of the assemblers reported in ref. 15.

^*N50 corr., the N50 values of correction were computed after correcting contigs by breaking them at each misjoint or each indel longer than five bases.

^†NA, could not run, incompatible read lengths in one library. All N50 and N50 corr. values are all in kb.