Table 1.
Summary statistics of genome assembly of Undaria pinnatifida.
| Sequencing platform | Clean data size (Gb) | Application |
|---|---|---|
| Illumina Novaseq6000 (short reads) | 24.3 | Genome survey and correction |
| PacBio Sequel (long reads) | 62.3 | Genome assembly |
| Illumina Novaseq6000 (Hi-C reads) | 57.1 | Assisted assembly at the chromosomal level |
| Genome assembly and scaffolding at chromosomal level | ||
| Contig number | 515 | |
| Contig length (bp) | 511,028,173 | |
| GC% | 50.14 | |
| Contig N50 (bp) | 1,707,374 | |
| Scaffold number | 114 | |
| Scaffold N50 (bp) | 16,510,065 | |
| Scaffold length (bp) | 511,280,173 | |
| Chromosome length (bp) | 502,827,406 | |
| Hi-C mapping percent | 98.4% | |
| The predicted repeated sequences | ||
| Type | Number | Length (bp) |
| DNA | 30,267 | 10,285,717 (2.0%) |
| LINE | 62,383 | 17,880,936 (3.5%) |
| LTR | 73,036 | 44,549,843 (8.7%) |
| RC | 2,784 | 1,247,182 (0.2%) |
| SINE | 326 | 17,815 (0.003%) |
| Unknown | 785,477 | 184,368,999 (36.1%) |
| Low complexity | 2,121 | 370,709 (0.07%) |
| Satellite | 1,041 | 578,618 (0.1%) |
| Simple repeat | 73,931 | 16,728,946 (3.3%) |
| Total | 1,031,366 | 276,028,765 (54.0%) |
LINE, long interspersed element; LTR, long terminal repeat; RC, rolling circle; SINE, short interspersed element.