family · mtDNA statistics

Osmeridae

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

Group

species

48.5%

mean GC, whole genome

SD 1.0, range 47.6–50.6%

16,715

median genome length, bp

Range 16,542–16,811 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	9	48.52%	1.04	0.021	47.57%Osmerus eperlanus	48.34%	50.64%Plecoglossus altivelis	−0.47	0.21
Protein-coding	9	48.96%	1.31	0.027	47.61%Thaleichthys pacificus	48.45%	51.85%Plecoglossus altivelis	−0.38	0.31
All rRNA	9	48.68%	0.78	0.016	47.67%Thaleichthys pacificus	48.70%	50.00%Plecoglossus altivelis	−0.47	0.2
All tRNA	9	47.02%	0.40	0.008	46.33%Spirinchus thaleichthys	47.17%	47.59%Plecoglossus altivelis	−0.15	0.7
12S rRNA	9	50.43%	0.58	0.012	49.84%Thaleichthys pacificus	50.26%	51.64%Hypomesus olidus	−0.11	0.77
16S rRNA	9	47.71%	1.01	0.021	46.44%Thaleichthys pacificus	47.60%	49.50%Plecoglossus altivelis	−0.54	0.14
D-loop	9	44.06%	3.07	0.070	39.03%Mallotus villosus	43.11%	47.59%Hypomesus transpacificus	−0.48	0.19
ND1	9	50.54%	1.42	0.028	49.03%Thaleichthys pacificus	50.36%	52.92%Plecoglossus altivelis	−0.35	0.35
ND2	9	51.58%	2.27	0.044	48.38%Thaleichthys pacificus	51.19%	54.90%Hypomesus transpacificus	−0.62	0.07
COX1	9	47.78%	1.02	0.021	46.55%Mallotus villosus	47.39%	49.52%Plecoglossus altivelis	−0.13	0.74
COX2	9	46.47%	1.64	0.035	45.15%Osmerus eperlanus	46.17%	50.65%Plecoglossus altivelis	−0.14	0.71
ATP8	9	47.16%	1.10	0.023	45.83%Hypomesus olidus	47.02%	49.40%Osmerus mordax	0.56	0.12
ATP6	9	47.35%	1.74	0.037	46.05%Thaleichthys pacificus	46.78%	51.75%Plecoglossus altivelis	−0.35	0.35
COX3	9	49.86%	0.85	0.017	48.79%Spirinchus thaleichthys	49.68%	51.78%Plecoglossus altivelis	−0.05	0.89
ND3	9	50.84%	1.38	0.027	48.14%Mallotus villosus	51.29%	52.44%Plecoglossus altivelis	−0.37	0.33
ND4L	9	51.81%	2.06	0.040	49.16%Osmerus eperlanus	51.18%	55.89%Plecoglossus altivelis	−0.31	0.41
ND4	9	48.50%	1.82	0.037	46.92%Osmerus eperlanus	47.79%	52.64%Plecoglossus altivelis	−0.31	0.41
ND5	9	47.99%	1.34	0.028	46.38%Mallotus villosus	47.53%	50.35%Plecoglossus altivelis	−0.55	0.13
ND6	9	51.83%	3.13	0.060	47.70%Thaleichthys pacificus	50.57%	58.24%Plecoglossus altivelis	−0.12	0.77
CYTB	9	47.96%	1.24	0.026	46.45%Osmerus eperlanus	47.85%	50.57%Plecoglossus altivelis	−0.20	0.61

Genera of Osmeridae

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

Region

Parameter

Chart

Genera of Osmeridae

Hypomesus	3	48.95%	0.57	0.012	48.34%Hypomesus olidus	49.02%	49.48%Hypomesus pretiosus	–	–
Osmerus	2	48.08%	0.71	0.015	47.57%Osmerus eperlanus	48.08%	48.58%Osmerus mordax	–	–
Mallotus	1	47.65%	–	–	47.65%Mallotus villosus	47.65%	47.65%Mallotus villosus	–	–
Plecoglossus	1	50.64%	–	–	50.64%Plecoglossus altivelis	50.64%	50.64%Plecoglossus altivelis	–	–
Thaleichthys	1	47.60%	–	–	47.60%Thaleichthys pacificus	47.60%	47.60%Thaleichthys pacificus	–	–
Spirinchus	1	47.83%	–	–	47.83%Spirinchus thaleichthys	47.83%	47.83%Spirinchus thaleichthys	–	–

Codon usage

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

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

Osmeridae 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.