Table 2.
Sequencing and assembly statistics, and accession numbers
| Bio projects & vouchers |
CCGP NCBI BioProject | PRJNA720569 | ||||
| Genera NCBI BioProject | PRJNA721387 | |||||
| Species NCBI BioProject | PRJNA734616 | |||||
| NCBI BioSample | SAMN19489519 | |||||
| Specimen identification | UCR ACC. # 292491 | |||||
| NCBI Genome accessions | Primary | Alternate | ||||
| Assembly accession | GCA_019985065.1 | GCA_019985075.1 | ||||
| Genome sequences | JAHSPW000000000 | JAHSPX000000000 | ||||
| Genome sequence | PacBio HiFi reads | Run | 1 PACBIO_SMRT (Sequel II) run: 1.8 M spots, 27.3G bases, 8.7Gb downloads | |||
| Accession | SRR14883332 | |||||
| Hi-C Illumina reads | Run | 1 Illumina HiSeq X Ten run: 199.2M spots, 59.7G bases, 37Gb download |
||||
| Accession | SRR14883331 | |||||
| Genome assembly quality metrics | Assembly identifier (Quality codea) | ddArcGlau1 (6.7.Q62) | ||||
| HiFi Read coverageb | 45X | |||||
| Primary | Alternate | |||||
| Number of contigs | 353 | 2470 | ||||
| Contig N50 (bp) | 8 041 760 | 1 739 008 | ||||
| Longest Contigs | 22 990 225 | 10 884 557 | ||||
| Number of scaffolds | 271 | 2350 | ||||
| Scaffold N50 (bp) | 31 280 158 | 3 804 428 | ||||
| Largest scaffold | 45 401 621 | 22 987 546 | ||||
| Size of final assembly (bp) | 547 548 103 | 556 397 040 | ||||
| Gaps per Gbp | 150 | 1885 | ||||
| Indel QV (Frame shift) | 48.36 | 47.39 | ||||
| Base pair QV | 62.36 | 56.24 | ||||
| Full assembly = 58.28 | ||||||
| k-mer completeness | 74.39 | 65.01 | ||||
| Full assembly = 95.59 | ||||||
| BUSCO completeness | C | S | D | F | M | |
|
(embryophyta) n = 1614 |
98.20% | 95.70% | 2.50% | 0.90% | 0.90% | |
| 85.90% | 83.30% | 2.60% | 1.30% | 12.80% | ||
| Organelles | 1 Partial mitochondrial sequence 1 Partial chloroplast sequence |
MZ779111 XXXXXX |
a Assembly quality code x.y.Q derived notation, from (Rhie et al. 2021). x = log10[contig NG50]; y = log10[scaffold NG50]; Q = Phred base accuracy QV (Quality value). BUSCO Scores. (C)omplete and (S)ingle; (C)omplete and (D)uplicated; (F)ragmented and (M)issing BUSCO genes. n, number of BUSCO genes in the set/data base. Bp: base pairs.
b Read coverage has been calculated based on a genome size of 600Mb.