order · mtDNA statistics

Ostreida

4 species in 1 family. Every region of their mitochondrial genomes, side by side.

Group

species

36.1%

mean GC, whole genome

SD 0.9, range 35.1–37.1%

18,319

median genome length, bp

Range 16,320–22,446 bp

family

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	4	36.10%	0.94	0.026	35.14%Ostrea edulis	36.07%	37.13%Magallana ariakensis	–	–
Protein-coding	4	36.68%	0.90	0.024	35.38%Ostrea edulis	36.97%	37.39%Magallana ariakensis	–	–
All rRNA	4	38.16%	0.68	0.018	37.34%Ostrea edulis	38.14%	39.01%Magallana ariakensis	–	–
All tRNA	4	37.66%	1.76	0.047	36.22%Magallana gigas	37.11%	40.20%Ostrea edulis	–	–
12S rRNA	4	40.46%	0.71	0.017	39.94%Ostrea edulis	40.20%	41.50%Magallana ariakensis	–	–
16S rRNA	4	34.29%	5.33	0.155	28.87%Ostrea edulis	34.66%	38.96%Magallana bilineata	–	–
ND1	4	35.66%	1.57	0.044	34.19%Magallana bilineata	35.42%	37.61%Magallana ariakensis	–	–
ND2	4	35.29%	2.11	0.060	32.44%Ostrea edulis	35.74%	37.25%Magallana bilineata	–	–
COX1	4	37.63%	0.74	0.020	36.53%Ostrea edulis	37.96%	38.10%Magallana ariakensis	–	–
COX2	4	37.81%	0.58	0.015	36.94%Ostrea edulis	38.06%	38.18%Magallana gigas	–	–
ATP6	4	34.33%	2.21	0.065	31.14%Magallana bilineata	35.15%	35.87%Ostrea edulis	–	–
COX3	4	36.83%	0.82	0.022	35.73%Magallana gigas	37.04%	37.51%Magallana bilineata	–	–
ND3	4	35.33%	2.42	0.069	31.92%Ostrea edulis	36.04%	37.32%Magallana gigas	–	–
ND4L	4	36.62%	1.38	0.038	34.63%Magallana ariakensis	37.01%	37.81%Magallana gigas	–	–
ND4	4	36.18%	0.67	0.018	35.26%Ostrea edulis	36.37%	36.74%Magallana bilineata	–	–
ND5	4	37.97%	2.06	0.054	35.14%Ostrea edulis	38.42%	39.92%Magallana ariakensis	–	–
ND6	4	35.86%	1.55	0.043	33.97%Ostrea edulis	35.84%	37.76%Magallana bilineata	–	–
CYTB	4	37.43%	1.08	0.029	35.92%Ostrea edulis	37.74%	38.34%Magallana gigas	–	–

Families of Ostreida

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

Region

Parameter

Chart

Families of Ostreida

Ostreidae	4	36.10%	0.94	0.026	35.14%Ostrea edulis	36.07%	37.13%Magallana ariakensis	–	–

Codon usage

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

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

Ostreida 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.