Table 2. Comparison of P. Stipitis assembly scaffold characteristics (including scaffolds of size at least 2 kbp).

Assembler	No. Scaffolds	Total Size (Mbp)	Scaffold N50 (no. / kbp)	Total gap bases (kbp; %)	Scaffolding errors
ABySS	111	15.48	20 / 263	7.3 (0.05%)	0
Meraculous	118	14.79	18 / 269	81.7 (0.55%)	0
SOAPdenovo	88	14.74	14 / 348	156 (1.06%)	0
Velvet	157	14.82	24 / 202	136 (0.92%)	78

To assess accuracy of the assemblies, contigs were aligned to the reference genome using BLAST. Scaffolding errors include non-colinear arrangements of contigs within scaffolds with respect to the reference sequence.