family · mtDNA statistics

Alopiidae

3 species in 1 genus. Every region of their mitochondrial genomes, side by side.

Group

species

38.6%

mean GC, whole genome

SD 0.7, range 37.9–39.3%

16,700

median genome length, bp

Range 16,692–16,719 bp

genus

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	3	38.60%	0.71	0.018	37.87%Alopias vulpinus	38.63%	39.29%Alopias superciliosus	–	–
Protein-coding	3	39.08%	0.86	0.022	38.20%Alopias vulpinus	39.12%	39.93%Alopias superciliosus	–	–
All rRNA	3	38.38%	0.22	0.006	38.13%Alopias vulpinus	38.45%	38.56%Alopias pelagicus	–	–
All tRNA	3	38.46%	0.65	0.017	37.73%Alopias vulpinus	38.68%	38.97%Alopias superciliosus	–	–
12S rRNA	3	41.76%	0.63	0.015	41.36%Alopias superciliosus	41.43%	42.48%Alopias pelagicus	–	–
16S rRNA	3	36.46%	0.28	0.008	36.26%Alopias vulpinus	36.33%	36.78%Alopias superciliosus	–	–
D-loop	3	34.51%	1.02	0.030	33.90%Alopias pelagicus	33.93%	35.69%Alopias superciliosus	–	–
ND1	3	39.18%	0.21	0.005	38.97%Alopias vulpinus	39.18%	39.38%Alopias pelagicus	–	–
ND2	3	39.50%	1.60	0.040	38.35%Alopias pelagicus	38.83%	41.32%Alopias superciliosus	–	–
COX1	3	39.38%	1.31	0.033	38.22%Alopias pelagicus	39.12%	40.80%Alopias superciliosus	–	–
COX2	3	37.72%	0.55	0.015	37.34%Alopias vulpinus	37.48%	38.35%Alopias superciliosus	–	–
ATP8	3	29.96%	2.25	0.075	27.38%Alopias vulpinus	30.95%	31.55%Alopias superciliosus	–	–
ATP6	3	37.59%	1.52	0.040	35.87%Alopias vulpinus	38.16%	38.74%Alopias pelagicus	–	–
COX3	3	40.84%	1.23	0.030	39.44%Alopias vulpinus	41.35%	41.73%Alopias superciliosus	–	–
ND3	3	41.07%	0.92	0.022	40.40%Alopias pelagicus	40.69%	42.12%Alopias vulpinus	–	–
ND4L	3	41.53%	2.06	0.050	39.73%Alopias vulpinus	41.08%	43.77%Alopias superciliosus	–	–
ND4	3	38.16%	1.08	0.028	36.93%Alopias vulpinus	38.60%	38.96%Alopias superciliosus	–	–
ND5	3	38.38%	0.97	0.025	37.27%Alopias vulpinus	38.80%	39.07%Alopias pelagicus	–	–
ND6	3	39.08%	0.38	0.010	38.70%Alopias vulpinus	39.08%	39.46%Alopias superciliosus	–	–
CYTB	3	40.82%	1.27	0.031	39.39%Alopias vulpinus	41.22%	41.83%Alopias superciliosus	–	–

Genera of Alopiidae

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

Region

Parameter

Chart

Genera of Alopiidae

Alopias	3	38.60%	0.71	0.018	37.87%Alopias vulpinus	38.63%	39.29%Alopias superciliosus	–	–

Codon usage

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

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

Alopiidae 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.