Table 1 Assembly and gene prediction statistics for the draft genomes of all recognized encapsulated Trichinella taxa*.
From: Phylogenomic and biogeographic reconstruction of the Trichinella complex
Description | T1 ISS3 | T2 ISS10 | T3 ISS120 | T5 ISS417 | T6 ISS34 | T7 ISS37 | T8 ISS272 | T9 ISS409 | T12 ISS2496 |
|---|---|---|---|---|---|---|---|---|---|
Country of origin | Poland | Norway | Italy | USA | USA | Tanzania | Namibia | Japan | Argentina |
Host of origin | Domestic pig | Polar bear | Red fox | Coyote | Grizzly bear | Warthog | Lion | Raccoon dog | Cougar |
Genome size (bp) | 50,035,721 | 48,088,508 | 51,516,808 | 49,039,267 | 50,855,377 | 47,453,436 | 49,332,017 | 49,096,069 | 49,773,209 |
Number of scaffolds; contigs | 7,667; 9,209 | 4,635; 5,353 | 8,025; 9,709 | 5,255; 6,430 | 5,957; 7,471 | 2,973; 4,254 | 4,125; 5,876 | 5,824; 7,488 | 6,623; 8,003 |
N50 (bp) | 212,546 | 141,195 | 147,150 | 106,482 | 158,103 | 293,867 | 239,129 | 212,690 | 154,103 |
N90 (bp) | 36,812 | 30,368 | 9,232 | 15,500 | 17,717 | 70,070 | 46,127 | 43,251 | 23,618 |
Genome GC content (%) | 33.62 | 33.56 | 33.72 | 33.58 | 33.44 | 33.49 | 33.57 | 33.48 | 33.62 |
Coding GC content (%) | 43.08 | 43.14 | 43.31 | 43.14 | 43 | 43.1 | 43.15 | 43.06 | 43.24 |
Exonic proportion; including introns (%) | 33.08; 71.63 | 33.71; 71.36 | 34.09; 71.23 | 33.62; 69.28 | 33.54; 69.81 | 33.87; 70.85 | 33.31; 69.28 | 35.26; 74.88 | 35.88; 72.27 |
Number of putative coding genes | 14,745 | 13,662 | 16,067 | 14,863 | 15,242 | 13,232 | 14,920 | 13,127 | 15,319 |
Mean gene size (bp) | 2,526 | 2,604 | 2,381 | 2,370 | 2,420 | 2,633 | 2,377 | 2,947 | 2,449 |
Mean CDS length (bp) | 1,045 | 1,093 | 962 | 1,017 | 1,003 | 1,108 | 1,026 | 1,061 | 965 |
Mean exon count per gene | 6.31 | 6.39 | 5.7 | 6.01 | 5.93 | 6.48 | 6.01 | 6.51 | 5.91 |
Mean exon length (bp) | 186.2 | 193.9 | 202.09 | 193.32 | 198.14 | 196.76 | 192.52 | 216.2 | 209.06 |
Mean intron length (bp) | 254.67 | 253.47 | 261.63 | 241.76 | 253.31 | 248.69 | 244.35 | 279.96 | 247.89 |
Total length of coding sequences | 27,499,002 | 25,039,143 | 29,213,671 | 25,397,919 | 26,529,424 | 25,001,000 | 25,015,560 | 29,155,076 | 25,830,832 |
Repetitive sequences (%) | 18.97 | 17.79 | 21.8 | 18.78 | 20.29 | 17.26 | 18.68 | 6.74 | 19.64 |
CEG completeness: complete; partial (%) | 95.97; 97.18 | 95.97; 97.18 | 96.77; 97.18 | 95.97; 97.18 | 96.37; 97.18 | 96.37; 97.18 | 96.77; 97.18 | 95.56; 97.18 | 96.37; 97.18 |
