family · mtDNA statistics

Sparidae

19 species in 11 genera. Every region of their mitochondrial genomes, side by side.

Group

species

45.7%

mean GC, whole genome

SD 0.8, range 44.1–47.0%

16,646

median genome length, bp

Range 16,486–17,031 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	19	45.68%	0.75	0.016	44.09%Acanthopagrus schlegelii	45.59%	46.97%Rhabdosargus sarba	−0.21	0.39
Protein-coding	19	46.13%	0.85	0.018	44.48%Dentex angolensis	46.11%	47.53%Rhabdosargus sarba	−0.14	0.58
All rRNA	19	46.78%	0.76	0.016	44.94%Acanthopagrus latus	46.87%	47.85%Polysteganus undulosus	−0.30	0.22
All tRNA	19	45.68%	0.53	0.012	44.27%Acanthopagrus schlegelii	45.75%	46.49%Pagellus acarne	−0.09	0.71
12S rRNA	19	48.31%	0.68	0.014	46.97%Acanthopagrus schlegelii	48.17%	49.74%Pagellus acarne	−0.49	0.04
16S rRNA	19	45.92%	0.89	0.019	43.77%Acanthopagrus latus	46.17%	47.21%Polysteganus undulosus	−0.19	0.44
D-loop	14	37.61%	1.80	0.048	35.56%Acanthopagrus schlegelii	37.16%	42.03%Dentex dentex	0.06	0.84
ND1	19	47.16%	1.39	0.029	44.92%Dentex angolensis	47.28%	50.05%Rhabdosargus sarba	0.07	0.78
ND2	19	48.63%	1.56	0.032	44.84%Dentex angolensis	48.66%	52.67%Rhabdosargus sarba	0.03	0.91
COX1	19	45.42%	0.91	0.020	43.17%Acanthopagrus schlegelii	45.40%	46.68%Polysteganus undulosus	−0.30	0.21
COX2	19	44.20%	0.76	0.017	42.69%Acanthopagrus schlegelii	44.28%	45.73%Evynnis tumifrons	−0.12	0.64
ATP8	19	46.21%	2.21	0.048	43.45%Pagrus major	46.67%	51.19%Pagrus pagrus	0.07	0.78
ATP6	19	45.48%	1.43	0.031	43.57%Pagellus erythrinus	45.10%	49.27%Polysteganus undulosus	0.03	0.9
COX3	19	46.70%	1.14	0.024	44.97%Dentex dentex	47.01%	48.66%Argyrops bleekeri	−0.32	0.19
ND3	19	48.62%	2.03	0.042	44.99%Acanthopagrus latus	48.71%	52.15%Dentex dentex	0.11	0.65
ND4L	19	49.39%	1.21	0.024	47.14%Parargyrops edita	49.16%	51.52%Dentex dentex	0.08	0.76
ND4	19	46.67%	1.33	0.029	44.46%Acanthopagrus schlegelii	46.42%	49.38%Pagellus bogaraveo	−0.21	0.39
ND5	19	44.58%	0.83	0.019	42.85%Dentex angolensis	44.70%	45.77%Rhabdosargus sarba	−0.18	0.45
ND6	19	44.24%	1.70	0.038	40.61%Dentex angolensis	44.44%	47.13%Polysteganus undulosus	0.10	0.68
CYTB	19	45.70%	0.99	0.022	44.26%Pagellus erythrinus	45.40%	48.12%Polysteganus undulosus	−0.19	0.45

Genera of Sparidae

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

Region

Parameter

Chart

Genera of Sparidae

Pagellus	3	45.89%	0.78	0.017	45.00%Pagellus erythrinus	46.31%	46.38%Pagellus bogaraveo	–	–
Pagrus	3	45.57%	0.15	0.003	45.48%Pagrus major	45.48%	45.74%Pagrus pagrus	–	–
Dentex	3	45.14%	0.45	0.010	44.68%Dentex angolensis	45.14%	45.59%Dentex dentex	–	–
Acanthopagrus	2	44.44%	0.49	0.011	44.09%Acanthopagrus schlegelii	44.44%	44.79%Acanthopagrus latus	–	–
Diplodus	2	45.88%	0.03	0.001	45.86%Diplodus cervinus	45.88%	45.90%Diplodus sargus	–	–
Sparus	1	45.97%	–	–	45.97%Sparus aurata	45.97%	45.97%Sparus aurata	–	–
Evynnis	1	46.53%	–	–	46.53%Evynnis tumifrons	46.53%	46.53%Evynnis tumifrons	–	–
Rhabdosargus	1	46.97%	–	–	46.97%Rhabdosargus sarba	46.97%	46.97%Rhabdosargus sarba	–	–
Parargyrops	1	45.51%	–	–	45.51%Parargyrops edita	45.51%	45.51%Parargyrops edita	–	–
Argyrops	1	45.55%	–	–	45.55%Argyrops bleekeri	45.55%	45.55%Argyrops bleekeri	–	–
Polysteganus	1	46.94%	–	–	46.94%Polysteganus undulosus	46.94%	46.94%Polysteganus undulosus	–	–

Codon usage

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

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

Sparidae 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.