Table 1 Comparison of Euplotes octocarinatus macronuclear genome assemblies.
From: High frequency of +1 programmed ribosomal frameshifting in Euplotes octocarinatus
Assembler | ABySS | SOAP | SPAdes | Mira | SPAdes | Final Assembly |
|---|---|---|---|---|---|---|
Assembler version | 1.5.1 | 2.04 | 2.5.0 | 4.0.2 | 2.5.0 | – |
Data | HiSeq Data | HiSeq Data | HiSeq Data | MiSeq Data | MiSeq Data | – |
Assembly size (Mb) | 83.0 | 97.8 | 84.6 | 126.2 | 107.2 | 88.9 |
Contigs (n) | 241,146 | 180,079 | 74,880 | 56,612 | 68,352 | 41,980 |
N50 (bp) | 1,144 | 1,650 | 2,034 | 2,683 | 2,443 | 2,947 |
Mean contig length (bp) | 344 | 543 | 1129 | 2228 | 1,619 | 2117 |
Max contig length (bp) | 18,818 | 17,403 | 18,769 | 53,269 | 195,456 | 53,269 |
Number of 2-telomere contigs (n) | 13,935 | 6676 | 18,556 | 34,536 | 27,802 | 29,413 |
Number of 1-telomere contigs (n) | 32,125 | 23,449 | 17,959 | 12,751 | 7,548 | 4,367 |
Number of 0-telomere contigs (n) | 195,085 | 149,942 | 38,364 | 8,749 | 32,594 | 7,554 |
Number of multi-telomere contigs | 1 | 12 | 1 | 576 | 408 | 645 |
Number of shorter nanochromosomes (length≤500 bp) | 269 | 137 | 287 | 5 | 68 | 287 |
2-telomere contig percentage (%) | 5.8 | 3.7 | 24.8 | 61.0 | 40.7 | 70.1 |
Total PE read coverage (%) | 82.1 | 95.9 | 98.3 | 84.7 | 90.2 | 95.9 |
Telomeric PE read coverage (%) | 72.6 | 52.1 | 99.6 | 88.5 | 89.7 | 91.9 |
