family · mtDNA statistics

Suidae

6 species in 4 genera. Every region of their mitochondrial genomes, side by side.

Group

species

39.1%

mean GC, whole genome

SD 0.4, range 38.5–39.5%

16,648

median genome length, bp

Range 16,479–16,719 bp

genera

Regions

GC content of each region across Suidae, % of A + C + G + T

Parameter

Chart

GC % of every region
Region
Whole genome	6	39.14%	0.36	0.009	38.49%Porcula salvania	39.22%	39.46%Sus scrofa	0.75	0.09
Protein-coding	6	39.40%	0.44	0.011	38.54%Porcula salvania	39.53%	39.71%Sus scrofa	0.57	0.23
All rRNA	6	38.30%	0.40	0.010	37.70%Porcula salvania	38.38%	38.88%Sus scrofa	0.43	0.4
All tRNA	6	37.19%	0.16	0.004	36.95%Sus verrucosus	37.17%	37.42%Potamochoerus porcus	0.21	0.69
12S rRNA	6	40.57%	0.53	0.013	40.04%Sus verrucosus	40.54%	41.37%Potamochoerus porcus	0.01	0.98
16S rRNA	6	36.91%	0.68	0.018	35.77%Porcula salvania	36.99%	37.68%Sus scrofa	0.40	0.44
D-loop	5	41.06%	1.58	0.039	38.49%Sus verrucosus	41.31%	42.50%Potamochoerus porcus	0.42	0.48
ND1	6	41.90%	0.86	0.021	40.21%Potamochoerus porcus	42.30%	42.48%Sus barbatus	−0.02	0.98
ND2	6	36.09%	0.88	0.024	34.45%Porcula salvania	36.18%	37.04%Sus scrofa	0.57	0.24
COX1	6	41.20%	0.23	0.006	40.78%Porcula salvania	41.23%	41.42%Sus scrofa	0.49	0.32
COX2	6	38.77%	0.79	0.020	37.98%Sus verrucosus	38.59%	39.97%Phacochoerus africanus	0.82	0.05
ATP8	6	31.13%	1.34	0.043	28.92%Phacochoerus africanus	31.37%	32.35%Sus barbatus	−0.55	0.26
ATP6	6	38.74%	1.39	0.036	36.56%Porcula salvania	38.69%	40.68%Potamochoerus porcus	0.20	0.7
COX3	6	43.08%	0.78	0.018	42.09%Porcula salvania	42.98%	44.01%Sus scrofa	0.99	3.2 × 10⁻⁴
ND3	6	39.47%	0.62	0.016	38.62%Porcula salvania	39.60%	40.35%Potamochoerus porcus	0.12	0.82
ND4L	6	36.92%	1.44	0.039	34.68%Phacochoerus africanus	36.87%	38.72%Porcula salvania	−0.50	0.31
ND4	6	39.30%	0.49	0.012	38.53%Porcula salvania	39.37%	39.91%Sus scrofa	0.45	0.38
ND5	6	38.35%	0.73	0.019	37.12%Porcula salvania	38.52%	39.15%Phacochoerus africanus	0.59	0.21
ND6	6	34.91%	1.06	0.030	33.90%Porcula salvania	34.67%	36.93%Potamochoerus porcus	0.31	0.55
CYTB	6	41.74%	0.72	0.017	40.61%Porcula salvania	41.97%	42.46%Sus barbatus	−0.01	0.98

Genera of Suidae

GC content of the whole genome, % of A + C + G + T

Region

Parameter

Chart

Genera of Suidae

Sus	3	39.22%	0.22	0.006	39.02%Sus verrucosus	39.19%	39.46%Sus scrofa	–	–
Phacochoerus	1	39.25%	–	–	39.25%Phacochoerus africanus	39.25%	39.25%Phacochoerus africanus	–	–
Potamochoerus	1	39.45%	–	–	39.45%Potamochoerus porcus	39.45%	39.45%Potamochoerus porcus	–	–
Porcula	1	38.49%	–	–	38.49%Porcula salvania	38.49%	38.49%Porcula salvania	–	–

Codon usage

Share of each codon in all 13 protein-coding genes, across Suidae

Gene

Loading codon usage…

Every species, region by region

Each region's page lists the value of every species, with the same statistics by class, order or family and a CSV download.

Whole genome Protein-coding All rRNA All tRNA 12S rRNA 16S rRNA D-loop ND1 ND2 COX1 COX2 ATP8 ATP6 COX3 ND3 ND4L ND4 ND5 ND6 CYTB

Suidae taxon page All data downloads

The charts

Each chart draws the rows of the table under it, in the table's order: sort a column to reorder the chart.Chart sets its axis.
Distribution: the range (line), mean ± SD (bar), median (tick) and mean (dot). Lengths of the regions are on a log scale.
Variation: the coefficient of variation, or the SD for the skews, which vary around zero.
Lifespan r: r with its 95% confidence interval (Fisher z). Lifespan map: r of every parameter in every region at once, bold where the Benjamini–Hochberg q-value over the map is below 0.05.

What the numbers are

Species: species with the region annotated. SD is the sample standard deviation, CV = SD / mean.
Base percentages are over A + C + G + T, so GC % + AT % = 100. Skews are on the L strand as deposited in RefSeq: GC skew = (G − C) / (G + C), AT skew = (A − T) / (A + T).
Min and Max name the species with the extreme value.

Lifespan columns

r is the Pearson correlation of the parameter with log₁₀ maximum lifespan within the group (5 or more species), and p its two-tailed p-value, as on the original MitoAge. They are not corrected for multiple testing or for shared ancestry: the plot shows Benjamini–Hochberg q-values and phylogenetic contrasts.

The original site labelled the base columns with their complements, so its skews have the opposite sign. Seemethods.