family · mtDNA statistics

Cyprinidae

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

Group

species

43.3%

mean GC, whole genome

SD 1.2, range 39.9–46.2%

16,604

median genome length, bp

Range 16,554–16,787 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	28	43.29%	1.22	0.028	39.93%Danio rerio	43.26%	46.22%Ptychobarbus dipogon	0.38	0.05
Protein-coding	28	43.31%	1.35	0.031	39.34%Danio rerio	43.42%	46.41%Ptychobarbus dipogon	0.34	0.08
All rRNA	28	45.56%	0.86	0.019	42.73%Danio rerio	45.46%	46.89%Ptychobarbus dipogon	0.40	0.03
All tRNA	28	44.36%	0.79	0.018	42.77%Rhodeus sericeus	44.22%	46.08%Ptychobarbus dipogon	0.33	0.09
12S rRNA	28	49.04%	1.00	0.020	45.59%Danio rerio	49.03%	50.63%Ptychobarbus dipogon	0.31	0.1
16S rRNA	28	43.59%	0.90	0.021	41.12%Danio rerio	43.53%	45.07%Oxygymnocypris stewartii	0.40	0.03
D-loop	25	34.49%	1.86	0.054	30.02%Tor tor	34.20%	36.99%Schizopygopsis younghusbandi	0.22	0.28
ND1	28	45.08%	2.23	0.049	40.00%Ctenopharyngodon idella	45.28%	49.03%Oxygymnocypris stewartii	0.32	0.09
ND2	28	45.27%	2.45	0.054	40.40%Danio rerio	45.00%	51.77%Ptychobarbus dipogon	0.50	0.007
COX1	28	43.54%	1.06	0.024	39.85%Danio rerio	43.52%	45.52%Luciobarbus sclateri	0.11	0.58
COX2	28	42.18%	1.37	0.032	39.36%Garra rufa	42.26%	44.86%Rhodeus sericeus	0.04	0.85
ATP8	28	38.25%	1.90	0.050	33.33%Danio rerio	38.48%	41.21%Gobio gobio	0.13	0.51
ATP6	28	40.60%	1.50	0.037	37.87%Carassius carassius	40.45%	43.34%Capoeta damascina	−0.15	0.45
COX3	28	44.97%	1.08	0.024	42.37%Danio rerio	45.00%	47.07%Ptychobarbus dipogon	0.25	0.21
ND3	28	42.90%	2.00	0.047	38.18%Danio rerio	43.43%	46.13%Ptychobarbus dipogon	0.24	0.22
ND4L	28	46.55%	2.19	0.047	40.40%Danio rerio	46.46%	52.19%Ptychobarbus dipogon	0.45	0.02
ND4	28	42.66%	1.76	0.041	38.38%Danio rerio	42.83%	46.49%Ptychobarbus dipogon	0.20	0.3
ND5	28	41.58%	1.71	0.041	37.18%Danio rerio	41.56%	45.01%Ptychobarbus dipogon	0.37	0.06
ND6	28	45.57%	1.95	0.043	40.27%Danio rerio	45.79%	50.57%Ptychobarbus dipogon	0.28	0.14
CYTB	28	42.98%	1.35	0.031	39.09%Danio rerio	42.73%	45.75%Ptychobarbus dipogon	0.34	0.07

Genera of Cyprinidae

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

Region

Parameter

Chart

Genera of Cyprinidae

Labeo	5	42.96%	0.30	0.007	42.50%Labeo boggut	42.99%	43.26%Labeo coubie	0.59	0.29
Carassius	3	42.35%	0.18	0.004	42.24%Carassius carassius	42.25%	42.56%Carassius auratus	–	–
Gymnocypris	3	44.30%	0.35	0.008	43.93%Gymnocypris przewalskii	44.37%	44.61%Gymnocypris eckloni	–	–
Cirrhinus	2	43.09%	0.59	0.014	42.68%Cirrhinus molitorella	43.09%	43.51%Cirrhinus cirrhosus	–	–
Ctenopharyngodon	1	41.89%	–	–	41.89%Ctenopharyngodon idella	41.89%	41.89%Ctenopharyngodon idella	–	–
Cyprinus	1	43.26%	–	–	43.26%Cyprinus carpio	43.26%	43.26%Cyprinus carpio	–	–
Danio	1	39.93%	–	–	39.93%Danio rerio	39.93%	39.93%Danio rerio	–	–
Gobio	1	43.85%	–	–	43.85%Gobio gobio	43.85%	43.85%Gobio gobio	–	–
Rhodeus	1	44.53%	–	–	44.53%Rhodeus sericeus	44.53%	44.53%Rhodeus sericeus	–	–
Barbus	1	43.58%	–	–	43.58%Barbus barbus	43.58%	43.58%Barbus barbus	–	–
Luciobarbus	1	44.32%	–	–	44.32%Luciobarbus sclateri	44.32%	44.32%Luciobarbus sclateri	–	–
Garra	1	41.36%	–	–	41.36%Garra rufa	41.36%	41.36%Garra rufa	–	–
Onychostoma	1	43.40%	–	–	43.40%Onychostoma barbatulum	43.40%	43.40%Onychostoma barbatulum	–	–
Schizopygopsis	1	44.30%	–	–	44.30%Schizopygopsis younghusbandi	44.30%	44.30%Schizopygopsis younghusbandi	–	–
Ptychobarbus	1	46.22%	–	–	46.22%Ptychobarbus dipogon	46.22%	46.22%Ptychobarbus dipogon	–	–

Codon usage

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

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

Cyprinidae 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.