Table 9.

O. niloticus Illumina libraries used for ALE calculations and Pilon polishing

Insert size	NCBI SRA accession IDs	Combined coverage	Platform
Fragment	SRR071589, SRR071593, SRR071594, SRR071601, SRR071604, SRR071605, SRR071610, SRR071619	51.6×	Illumina Genome Analyzer II
3kbp	SRR071588, SRR071591, SRR071597, SRR071599, SRR071603, SRR071612, SRR071614	196.3×	Illumina HiSeq 2000
6–7kbp	SRR071602, SRR071607, SRR071615, SRR071616, SRR071617, SRR071620, SRR071622,	24.6×	Illumina Genome Analyzer II
40kbp	SRR071595, SRR071598, SRR071611	4.8×	Illumina Genome Analyzer II