Table 5.
Summary of heifer phased produced assemblies. For details about pipeline used in this study, refer to Fig. 2. *BUSCO analysis was performed on polished contigs. **Reference is not haplotyped.
| ARS-UCD1.2 | HiFi hifiasm parent hap1 | HiFi hifiasm parent hap2 | HiFi hifiasm Hi-C hap1 | HiFi hifiasm Hi-C hap2 | |
|---|---|---|---|---|---|
| Pipeline used | c | c | d | d | |
| Data type | CLR | CCS + trio | CCS + trio | CCS + Hi-C | CCS + Hi-C |
| Quantity | 80X | 40X | 40X | 40X + 28X | 40X + 28X |
| Assembler | Falcon | Hifiasm | Hifiasm | Hifiasm | Hifiasm |
| Number of contigs | 3 077 | 2 871 | 2 300 | 2 658 | 2 136 |
| Total size | 2 700 000 000 | 3 156 028 877 | 3 113 483 345 | 3 077 978 241 | 3 184 033 110 |
| N50 contigs length | 12 000 000 | 71 619 842 | 69 165 538 | 80 106 842 | 71 644 334 |
| BUSCO | 95.7%* | 95.8% | 95.3% | 95.8% | 95.7% |
| Phasing ratio | ** | 97.3% | 96.7% | 62.6% | 60.5% |
| Contigs phasing ratio | ** | 97.5% | 96.9% | 84.6% | 85.6% |