Skip to main content

Table 1 Genome statistics

From: The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence

  G. pallida G. rostochiensis
Assembly version nGp.v1.0 nGr.v1.0
Assembly size (Mb) 124.6 95.9
Scaffolds (n) 6873 4377
Scaffold N50 (bp) 121,687 88,495
Longest scaffold (bp) 600,076 688,384
Contig N50 (bp) 11,611 11,371
Longest contig (bp) 93,564 111,501
Span of N’s in assembly (bp) 21,024,229 4,445,051
GC (%) 36.7 38.1
CEGMA (Complete/Partial %) 74.19/80.65 93.55/95.56
Average CEG gene number (Complete/Partial) 1.23/1.29 1.15/1.24
Gene density (per Mb) 132.2 149.9
Genes (n) 16,466 14,378
Proteins (n) 16,417 14,309
Proteins w/Start and Stop codon (n) 14,580 (88.81 %) 13,083 (91.43 %)
Non-canonical splice sites (%) 3.56 % (n = 4059) 3.46 % (n = 3835)
PfamA domains (cutoff 1e-5) (n) 8853 8397
Best BLAST hit to nematode proteins (1e-10) (n) 8886 8603