Table 3.

Statistics of each assembly step

	AFSFASSS		AFSF + ASSS		AF + SF + AS + SS
	Trinity	Trans-ABySS	Trinity	Trans-ABySS	Trinity	Trans-ABySS
After merginga
No. of contigs	227,879	571,835	297,319	636,921	379,837	720,131
Total Bases	217,485,766	359,411,943	267,708,300	398,478,666	298,801,419	444,024,673
N50	1,370	686	1,243	683	1,000	670
No. of contigs in N50	46,815	178,083	64,054	199,771	89,338	228,145
After deduplication
No. of contigs	165,174	152,963	179,876	138,487	191,858	128,990
Total Bases	139,479,895	117,699,005	151,369,559	104,950,724	151,376,565	94,829,611
N50	1,146	935	1,134	914	1,016	878
No. of contigs in N50	34,500	39,253	38,937	35,969	44,201	33,877
After scaffolding
No. of contigs	162,090	152,694	176,983	138,452	188,653	129,464
Total Bases	139,459,722	120,117,056	151,354,485	107,614,336	151,363,021	97,866,545
N50	1,177	960	1,161	942	1,041	907
No. of contigs in N50	33,941	39,124	38,409	35,915	43,481	33,927
Proportion of Ns	0.12%	0.13%	0.12%	0.13%	0.12%	0.13%
GC content	47.93%	48.69%	48.18%	48.76%	48.51%	48.81%

^a Trinity_AFSFASSS and Trans-ABySS_AFSFASSS had not been merged.

Detail statistics can be found in Additional file 2. Contigs less than 300 bp were excluded.