family · mtDNA statistics

Atherinopsidae

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

Group

species

46.9%

mean GC, whole genome

SD 1.7, range 45.3–49.3%

16,523

median genome length, bp

Range 16,456–16,719 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	4	46.92%	1.71	0.037	45.34%Leuresthes tenuis	46.49%	49.35%Menidia menidia	–	–
Protein-coding	4	47.65%	1.77	0.037	45.91%Leuresthes tenuis	47.30%	50.09%Menidia menidia	–	–
All rRNA	4	47.32%	2.12	0.045	46.08%Atherinopsis californiensis	46.37%	50.47%Menidia menidia	–	–
All tRNA	4	45.99%	0.95	0.021	45.17%Atherinopsis californiensis	45.74%	47.34%Menidia menidia	–	–
12S rRNA	4	48.61%	1.76	0.036	47.51%Atherinopsis californiensis	47.85%	51.21%Menidia menidia	–	–
16S rRNA	4	46.61%	2.32	0.050	45.26%Leuresthes tenuis	45.56%	50.06%Menidia menidia	–	–
D-loop	4	37.17%	1.37	0.037	35.89%Leuresthes tenuis	36.87%	39.04%Menidia menidia	–	–
ND1	4	48.54%	0.98	0.020	47.69%Atherinops affinis	48.31%	49.85%Menidia menidia	–	–
ND2	4	49.83%	2.24	0.045	47.27%Leuresthes tenuis	49.86%	52.34%Menidia menidia	–	–
COX1	4	46.36%	2.12	0.046	45.13%Atherinops affinis	45.39%	49.52%Menidia menidia	–	–
COX2	4	44.75%	1.36	0.030	43.70%Leuresthes tenuis	44.28%	46.74%Menidia menidia	–	–
ATP8	4	44.94%	2.77	0.062	42.26%Leuresthes tenuis	44.35%	48.81%Menidia menidia	–	–
ATP6	4	46.14%	1.99	0.043	43.57%Leuresthes tenuis	46.53%	47.95%Menidia menidia	–	–
COX3	4	48.82%	1.69	0.035	46.50%Leuresthes tenuis	49.17%	50.45%Menidia menidia	–	–
ND3	4	47.99%	1.25	0.026	47.28%Leuresthes tenuis	47.42%	49.86%Menidia menidia	–	–
ND4L	4	53.03%	1.52	0.029	51.18%Atherinopsis californiensis	53.03%	54.88%Menidia menidia	–	–
ND4	4	48.33%	3.26	0.067	45.04%Leuresthes tenuis	47.79%	52.72%Menidia menidia	–	–
ND5	4	46.72%	1.81	0.039	44.54%Leuresthes tenuis	46.71%	48.94%Menidia menidia	–	–
ND6	4	48.90%	2.57	0.053	46.55%Leuresthes tenuis	48.28%	52.49%Menidia menidia	–	–
CYTB	4	47.06%	0.78	0.017	46.45%Leuresthes tenuis	46.80%	48.20%Menidia menidia	–	–

Genera of Atherinopsidae

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

Region

Parameter

Chart

Genera of Atherinopsidae

Menidia	1	49.35%	–	–	49.35%Menidia menidia	49.35%	49.35%Menidia menidia	–	–
Atherinops	1	46.34%	–	–	46.34%Atherinops affinis	46.34%	46.34%Atherinops affinis	–	–
Leuresthes	1	45.34%	–	–	45.34%Leuresthes tenuis	45.34%	45.34%Leuresthes tenuis	–	–
Atherinopsis	1	46.63%	–	–	46.63%Atherinopsis californiensis	46.63%	46.63%Atherinopsis californiensis	–	–

Codon usage

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

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

Atherinopsidae 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.