Table 1

Summary of de novo assemblies and BLASTn results for Illumina and 454 genomes
Illumina (159,514) bp) 454 (159,382 bp)
CLC Velvet CLC Newbler
Total number of contigs 171 603 278 126 39
Mean contig length 261 769 1 565 5 518
Longest contig 49 987 13 879 20 405 33 064
N50 252 3 049 4 065 18 420
Number of chloroplast contigs (E value = 0)* 12 33 24 11
Longest chloroplast contig 33 886 12 240 20 405 33 060
Sum (bp) of chloroplast contigs 146 401 129 686 132 317 132 215
Chloroplast reads (% of total reads) ** 5.25% 99.00%

Genbank accession numbers for the 80 contigs GenBank:JX445406 – Jx445485.

*determined by a BLASTn search against a database of 134 whole chloroplast genomes downloaded from GenBank.

**determined by mapping the total reads onto the whole chloroplast genome for Toona ciliata in CLC with default settings.

McPherson et al.

McPherson et al. BMC Ecology 2013 13:8   doi:10.1186/1472-6785-13-8

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