Table 2.
Statistics of the Scomber colias genome assembly.
| Assembly | Alternative | Primary | |
|---|---|---|---|
| Contigs (Sco_k21_a_c) | Contigs (Sco_k21_p_c) | Scaffolds (Sco_k21_p_s) | |
| Number of contigs (≥10,000 bp) | 5,908 | 2,093 | 2,028 |
| Number of contigs (≥50,000 bp) | 2,417 | 1,123 | 1,078 |
| Number of contigs (≥100,000 bp) | 1,593 | 704 | 662 |
| Number of contigs (≥200,000 bp) | 1,025 | 456 | 417 |
| Number of contigs (≥500,000 bp) | 421 | 235 | 209 |
| Number of contigs (≥1,000,000 bp) | 123 | 155 | 138 |
| Total length (≥10,000 bp) | 807,928,680 | 813,976,802 | 814,072,661 |
| Total length (≥50,000 bp) | 721,244,010 | 781,696,683 | 782,480,923 |
| Total length (≥100,000 bp) | 662,374,873 | 751,893,146 | 752,912,084 |
| Total length (≥200,000 bp) | 580,469,606 | 716,806,065 | 718,068,371 |
| Total length (≥500,000 bp) | 385,329,197 | 648,055,626 | 653,890,381 |
| Total length (≥1,000,000 bp) | 180,689,595 | 591,655,104 | 603,146,189 |
| Largest contig (Mbp) | 3,248 | 22,804,600 | 22,804,600 |
| Total length (Mbp) | 807,936 | 813,977 | 814,072 |
| GC (%) | 39.94 | 40.09 | 40.09 |
| N50 (Mbp) | 0,466 | 3,342 | 4,190 |
| K-mer completeness (%) | 84.602 | 86.1077 | |
| Consensus quality | 56.5369 | 54.9969 | |
| Read back mapping PE (%) | - | 95.0 | |
| Read back mapping PH (%) | - | 99.8 | |
| Read back mapping RNA-Seq (%) | - | 90.2 | |
| BUSCO statistics (databases) | - | ||
| Eukariota** | T: 93.3, C: 90.2 [S: 88.6, D: 1.6], F: 3.1, M: 6.7, n: 255 | T: 97.3, C: 96.1 [S: 93.7, D: 2.4], F: 1.2, M: 2.7, n: 255 | |
| Actinopterygii** | T: 96.0, C: 94.8 [S: 91.9, D: 2.9], F: 1.2, M: 4.0, n: 3640 | T: 97.9, C: 97.2 [S: 96.2, D: 1.0], F: 0.7, M: 2.1, n: 3640 | |
* Statistics are based on contigs and scaffolds of size ≥1000 bp. ** (T, total BUSCOs found (completed + fragmented), %; C, complete BUSCOs [S, complete and single copy, %; D, complete and duplicated, %]; F, fragmented, %; M, missing, %; n, number of sequences in database).