Table 3.

Trinity and ABySS de novo assembly statistics and comparisons between the CCMP 1984 gene model sequences and the assembled contigs from CCMP 1850.

	Sequences/contigs	Min length	Max length	Mean length	N50
1984 gene models	11501	150	45147	1601	2340
1850 Trinity assembly	53886	201	20608	1330.5	2148
1850 ABySS assembly	31473	150	16590	891.5	1393
	vs. Trinity*	vs. ABySS	1984 full genome coverage	Gene models recovered**
1984 gene models	82%	76.8%	–	10817
1850 Trinity assembly	–	85.5%	95.5%	8221
1850 ABySS assembly	98.2%	–	95.0%	7543

^*Comparisons between the de novo assemblies were made by performing reciprocal BLAST alignments with an e-value cutoff of 1 × 10⁻⁵ (Camacho et al., 2009).

^**Coverage of the CCMP 1984 genome and gene models (Gobler et al., 2011) was tabulated with BLAST using the same parameters described above. The Gene Models Recovered column refers to the number of unique CCMP 1984 gene models found in each assembly.