Table 1 Macadamia integrifolia genome and transcriptome sequencing, assembly and annotation statistics
Library Type | Reads post QC millions | Nucleotides post QC gigabases |
|---|---|---|
Genome sequencing: | ||
 Illumina GAIIx 480 bp Insert (2x150 bp PE) | 101.7 | 30.51 |
 Illumina GAIIx 700 bp Insert (2x150 bp PE) | 48.6 | 14.58 |
 Illumina HiSeq 8000 bp Insert (2x100 bp MP) | 32.4 | 6.48 |
  Total | 182.7 | 51.57 |
Transcriptome sequencing: | ||
 Illumina HiSeq Flower (2x100 bp PE) | 82.1 | 16 |
 Illumina HiSeq Shoot (2x100 bp PE) | 70 | 13.7 |
 Illumina HiSeq Leaf (2x100 bp PE) | 76 | 14.9 |
  Total | 228.1 | 44.6 |
Genome assembly | Contigs | Scaffolds |
 Number | 210,726 | 193,493 |
 Minimum size (bp) | 388 | 500 |
 Maximum size (bp) | 379,349 | 643,490 |
 N50 (bp) | 3522 | 4745 |
 Total assembly length (Mb) | 477 | 518 |
Transcriptome assembly | Statistics | |
 Number of transcripts | 298,030 | |
 Maximum transcripts length (bp) | 17,814 | |
 Minimum transcript length (bp) | 224 | |
 Mean transcript length (bp) | 823 | |
 Standard deviation (bp) | 886 | |
 Total length (bp) | 245,373,045 | |
 N50 (bp) | 1339 | |
Genome annotation | Statistics | |
 Number of gene models | 35,337 | |
 Average gene length (bp) | 2518 | |
 Average coding sequence length (bp) | 1090 | |
 Gene models similar to Arabidopsis thaliana TAIR10a | 74% | |
 Gene models similar to Nelumbo nucifera a | 79% | |
 Eukaryotic 458 CORE genes availablea | 96% | |