Table 1 R570 genome assembly and annotation statistics

From: The complex polyploid genome architecture of sugarcane

 

Overall

S. officinarum

S. spontaneum

Primary genome size (contig N50)

5.04 Gb (12.6 Mb)

3.66 Gb

1.37 Gb

Alternate genome size (contig N50)

3.73 Gb (2.1 Mb)

3.01 Gb

0.32 Gb

Genome size accounting for collapsed haplotypes

9.32 Gb

-

-

Collapsed haplotypes in assemblya

2.31 Gb

2.18 Gb

0.116 Gb

No. of genes (no. of syntenic orthogroups) in primary annotationb

194,593 (47,986)

132,618

61,197

Mean ploidy of primary assembly (coverage of syntenic blocks)b

6.78x

4.60x

2.16x

Mean pairwise peptide identity among allelesc

-

86%

83%

Genes impacted by structural variantsd

5,362

5,090

260

  1. aHiFi unique mapping ≥ ×2 expected depth. bGENESPACE default parameters. cCalculated among peptides from the primary annotation within syntenic orthogroups. dCalculated from pairwise alignments, relative to ChrA among homologous chromosomes.
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