Table 2.
Sequencing and assembly statistics and accession numbers.
| BioProjects and Vouchers | CCGP NCBI BioProject | PRJNA720569 |
| Genus NCBI BioProject | PRJNA765857 | |
| Species NCBI BioProject | PRJNA777217 | |
| NCBI Bio-sample | SAMN27480378 | |
| Specimen identification number | IW3139 | |
| Genome Sequence | PacBio HiFi long read runs | 1 PacBio SMRT Sequel II run: 5.7 M spots, 85.9 Gbp, 57.2 Gb |
| OmniC Illumina sequencing | 1 Illumina NovaSeq 6000 run: 290 M spots, 87.5 Gbp, 28 Gb | |
| PacBio HiFi NCBI SRA Accession | SRX15651255 | |
| OmniC Illumina NCBI SRA Accession | SRX15651256, SRX15651257 | |
| Genome Assembly Primary (Alternate) |
Assembly identifier | rSceOcc1 |
| HiFi read coverage | 37.14× | |
| Number of contigs (primary/alternate) | 659/1,822 | |
| Contig N50 (bp) | 18,989,278/17,628,953 | |
| Contig NG50b (bp) | 18,989,278/20,278,101 | |
| Longest contigs (primary/alternate) | 124,125,603/115,579,027 | |
| Number of scaffolds (primary/alternate) | 608/1,771 | |
| Scaffold N50 (bp) | 98,418,489/38,771,511 | |
| Scaffold NG50b | 98,418,489/88,220,525 | |
| Size of final assembly (bp) | 2,856,356,971/3,186,658,811 | |
| Gaps per Gbp (# gaps) | 18 (51)/16 (51) | |
| NCBI Genome Assembly Accession | GCA_000XXXXXX.1 | |
| Assembly quality identifiera | 7.7.P7.Q61.C57 | |
| Base pair QV (merqury) | P: Q 61.6835, A: Q 61.4466 | |
| Assembly Qualityc | Indel QV (frameshift analysis) | P: Q 48.7129, A: Q 49.1278 |
| K-mer completeness | P: 92.8931%, A: 93.6217% | |
| BUSCO completeness Primary (C:S:D:F:M) Alternate (C:S:D:F:M) |
98.10%:32.90%:65.20%:0.80%:1.10% 98.30%:31.90%:66.40%:0.70%:1.00% |
|
| Organelles | 1 complete mitochondrial sequence CM041364.1 |
aAssembly quality code x·y·P·Q·C derived notation, from Rhie et al. (2021). x = log10[contig NG50]; y = log10[scaffold NG50]; P = log10[phased block NG50]; Q = Phred base accuracy QV (quality value); C = % genome represented by the first “n” scaffolds, following a known karyotype for SPECIES of 2n = 22. Quality code for all the assembly denoted by primary assembly (rSceOcc1.0.p).
bRead coverage and NGx statistics have been calculated based on the estimated genome size of 2.85 Gb.
c(P)rimary and (A)lternate assembly values.