order · mtDNA statistics

Cyprinodontiformes

17 species in 7 families. Every region of their mitochondrial genomes, side by side.

Group

species

42.6%

mean GC, whole genome

SD 3.2, range 37.8–47.8%

16,611

median genome length, bp

Range 16,500–19,801 bp

families

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	17	42.59%	3.20	0.075	37.77%Aphyosemion australe	42.99%	47.82%Xiphophorus hellerii	0.18	0.5
Protein-coding	17	42.67%	3.74	0.088	37.27%Aphyosemion australe	43.32%	48.94%Xiphophorus hellerii	0.15	0.56
All rRNA	17	43.63%	3.00	0.069	38.09%Nothobranchius kuhntae	44.61%	47.79%Xiphophorus hellerii	0.29	0.26
All tRNA	17	43.26%	2.46	0.057	38.15%Nothobranchius kuhntae	43.83%	46.42%Xiphophorus hellerii	0.29	0.26
12S rRNA	17	45.99%	2.85	0.062	40.53%Nothobranchius kuhntae	46.78%	49.52%Cyprinodon tularosa	0.32	0.2
16S rRNA	17	42.29%	3.15	0.074	36.71%Nothobranchius kuhntae	42.99%	46.89%Xiphophorus hellerii	0.26	0.31
D-loop	14	36.96%	1.69	0.046	34.29%Poecilia reticulata	36.86%	39.91%Kryptolebias marmoratus	0.25	0.39
ND1	17	43.46%	4.61	0.106	37.13%Nothobranchius kuhntae	44.00%	51.28%Cyprinodon macularius	0.13	0.61
ND2	17	43.22%	4.28	0.099	35.87%Aphyosemion australe	42.49%	50.33%Xiphophorus hellerii	0.23	0.37
COX1	17	42.85%	3.29	0.077	37.65%Aphyosemion australe	43.22%	48.04%Xiphophorus hellerii	0.07	0.79
COX2	17	41.08%	3.36	0.082	36.61%Fundulus heteroclitus	41.10%	46.02%Cyprinodon macularius	0.04	0.89
ATP8	17	40.13%	5.21	0.130	33.33%Fundulus heteroclitus	40.48%	50.00%Xiphophorus hellerii	−0.00	1
ATP6	17	41.81%	4.34	0.104	35.96%Fundulus heteroclitus	41.67%	50.29%Xiphophorus hellerii	0.17	0.51
COX3	17	44.33%	3.70	0.083	38.85%Nothobranchius kuhntae	43.95%	49.04%Xiphophorus hellerii	0.05	0.84
ND3	17	42.90%	3.39	0.079	38.68%Aphyosemion australe	42.45%	49.57%Cyprinodon tularosa	0.32	0.21
ND4L	17	45.36%	3.94	0.087	38.38%Nothobranchius furzeri	46.13%	51.52%Xiphophorus hellerii	0.13	0.62
ND4	17	42.22%	4.19	0.099	36.13%Nothobranchius kuhntae	43.08%	48.99%Xiphophorus hellerii	0.16	0.53
ND5	17	41.12%	3.63	0.088	34.90%Aphyosemion australe	41.42%	47.94%Xiphophorus hellerii	0.22	0.41
ND6	17	44.24%	5.06	0.114	35.07%Nothobranchius kuhntae	44.64%	52.30%Cyprinodon macularius	0.31	0.23
CYTB	17	43.10%	3.33	0.077	37.38%Aphyosemion australe	42.00%	48.33%Xiphophorus hellerii	−0.02	0.95

Families of Cyprinodontiformes

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

Region

Parameter

Chart

Families of Cyprinodontiformes

Poeciliidae	6	44.30%	2.14	0.048	41.63%Poecilia reticulata	44.15%	47.82%Xiphophorus hellerii	0.13	0.8
Fundulidae	4	40.35%	0.62	0.015	39.74%Fundulus heteroclitus	40.24%	41.20%Fundulus zebrinus	–	–
Nothobranchiidae	2	38.01%	0.34	0.009	37.77%Aphyosemion australe	38.01%	38.25%Nothobranchius kuhntae	–	–
Cyprinodontidae	2	46.90%	0.00	0.000	46.89%Cyprinodon tularosa	46.90%	46.90%Cyprinodon macularius	–	–
Aplocheilidae	1	38.60%	–	–	38.60%Nothobranchius furzeri	38.60%	38.60%Nothobranchius furzeri	–	–
Rivulidae	1	43.31%	–	–	43.31%Kryptolebias marmoratus	43.31%	43.31%Kryptolebias marmoratus	–	–
Aphaniidae	1	45.06%	–	–	45.06%Apricaphanius iberus	45.06%	45.06%Apricaphanius iberus	–	–

Codon usage

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

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

Cyprinodontiformes 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.