order · mtDNA statistics

Osmeriformes

14 species in 5 families. Every region of their mitochondrial genomes, side by side.

Group

species

47.9%

mean GC, whole genome

SD 2.5, range 40.1–50.6%

16,643

median genome length, bp

Range 16,542–19,017 bp

families

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	14	47.94%	2.50	0.052	40.09%Galaxiella nigrostriata	48.22%	50.64%Plecoglossus altivelis	0.21	0.47
Protein-coding	14	48.37%	2.95	0.061	39.40%Galaxiella nigrostriata	48.60%	51.85%Plecoglossus altivelis	0.20	0.48
All rRNA	14	48.34%	1.72	0.035	42.82%Galaxiella nigrostriata	48.83%	50.00%Plecoglossus altivelis	0.32	0.26
All tRNA	14	46.64%	1.28	0.028	42.40%Galaxiella nigrostriata	46.89%	47.59%Plecoglossus altivelis	0.34	0.24
12S rRNA	14	50.10%	1.57	0.031	44.96%Galaxiella nigrostriata	50.26%	51.64%Hypomesus olidus	0.41	0.14
16S rRNA	14	47.36%	1.85	0.039	41.62%Galaxiella nigrostriata	47.74%	49.50%Plecoglossus altivelis	0.27	0.35
D-loop	14	42.82%	3.23	0.075	38.03%Galaxiella nigrostriata	42.82%	47.59%Hypomesus transpacificus	−0.14	0.64
ND1	14	49.67%	3.47	0.070	38.67%Galaxiella nigrostriata	50.67%	52.92%Plecoglossus altivelis	0.36	0.21
ND2	14	50.67%	4.04	0.080	39.22%Galaxiella nigrostriata	50.86%	54.90%Hypomesus transpacificus	0.07	0.81
COX1	14	47.53%	2.44	0.051	41.13%Galaxiella nigrostriata	47.37%	51.77%Neosalanx taihuensis	0.28	0.34
COX2	14	46.11%	2.11	0.046	40.38%Galaxiella nigrostriata	46.31%	50.65%Plecoglossus altivelis	0.20	0.49
ATP8	14	46.05%	2.39	0.052	39.29%Galaxiella nigrostriata	46.73%	49.40%Osmerus mordax	0.46	0.1
ATP6	14	46.97%	3.16	0.067	37.48%Galaxiella nigrostriata	47.00%	51.75%Plecoglossus altivelis	0.26	0.37
COX3	14	49.22%	2.32	0.047	42.11%Galaxiella nigrostriata	49.62%	51.78%Plecoglossus altivelis	0.29	0.31
ND3	14	49.51%	4.03	0.081	37.54%Galaxiella nigrostriata	51.15%	53.30%Neosalanx taihuensis	0.14	0.64
ND4L	14	51.49%	3.00	0.058	43.77%Galaxiella nigrostriata	51.18%	55.89%Plecoglossus altivelis	0.05	0.86
ND4	14	47.91%	3.31	0.069	38.82%Galaxiella nigrostriata	47.74%	52.93%Neosalanx taihuensis	0.10	0.74
ND5	14	47.29%	3.17	0.067	37.80%Galaxiella nigrostriata	47.47%	51.37%Neosalanx taihuensis	0.12	0.68
ND6	14	51.40%	4.36	0.085	40.61%Galaxiella nigrostriata	50.57%	58.24%Plecoglossus altivelis	0.14	0.63
CYTB	14	47.55%	2.98	0.063	38.43%Galaxiella nigrostriata	47.96%	51.18%Neosalanx taihuensis	0.31	0.29

Families of Osmeriformes

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

Region

Parameter

Chart

Families of Osmeriformes

Osmeridae	9	48.52%	1.04	0.021	47.57%Osmerus eperlanus	48.34%	50.64%Plecoglossus altivelis	−0.47	0.21
Retropinnidae	2	47.97%	1.57	0.033	46.86%Retropinna semoni	47.97%	49.08%Prototroctes maraena	–	–
Alepocephalidae	1	48.10%	–	–	48.10%Alepocephalus bairdii	48.10%	48.10%Alepocephalus bairdii	–	–
Galaxiidae	1	40.09%	–	–	40.09%Galaxiella nigrostriata	40.09%	40.09%Galaxiella nigrostriata	–	–
Salangidae	1	50.30%	–	–	50.30%Neosalanx taihuensis	50.30%	50.30%Neosalanx taihuensis	–	–

Codon usage

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

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

Osmeriformes 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.