order · mtDNA statistics
Cypriniformes
136 species in 12 families. Every region of their mitochondrial genomes, side by side.
136
species
43.9%
mean GC, whole genome
SD 1.3, range 39.9–46.5%
16,612
median genome length, bp
Range 16,541–17,859 bp
12
families
Regions
GC content of each region across Cypriniformes, % of A + C + G + T| Region | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Whole genome | 136 | 43.91% | 1.27 | 39.93%Danio rerio | 43.96% | 46.51%Notropis buccata | 0.05 | 0.58 | |
| Protein-coding | 136 | 43.95% | 1.51 | 39.34%Danio rerio | 44.01% | 47.22%Alburnus mossulensis | 0.06 | 0.46 | |
| All rRNA | 136 | 46.13% | 0.90 | 42.73%Danio rerio | 46.24% | 48.05%Notropis stramineus | −0.04 | 0.62 | |
| All tRNA | 136 | 44.92% | 0.81 | 42.77%Rhodeus sericeus | 44.94% | 47.25%Notropis buccata | −0.14 | 0.1 | |
| 12S rRNA | 136 | 49.44% | 0.80 | 45.59%Danio rerio | 49.53% | 51.15%Cyprinella spiloptera | −0.06 | 0.51 | |
| 16S rRNA | 136 | 44.26% | 1.13 | 41.12%Danio rerio | 44.44% | 46.70%Notropis stramineus | −0.03 | 0.74 | |
| D-loop | 125 | 35.30% | 3.60 | 0.00%Iberochondrostoma almacai | 36.04% | 38.20%Ictiobus bubalus | 0.04 | 0.67 | |
| ND1 | 136 | 45.63% | 2.33 | 40.00%Ctenopharyngodon idella | 45.44% | 51.18%Alburnus mossulensis | 0.03 | 0.74 | |
| ND2 | 136 | 46.44% | 2.58 | 40.29%Rasbora trilineata | 46.51% | 52.82%Notropis buccata | 0.07 | 0.43 | |
| COX1 | 136 | 43.63% | 1.24 | 39.85%Danio rerio | 43.65% | 46.62%Barbatula barbatula | 0.15 | 0.09 | |
| COX2 | 136 | 42.40% | 1.39 | 38.93%Macrhybopsis storeriana | 42.40% | 45.30%Abbottina rivularis | 0.27 | 0.002 | |
| ATP8 | 136 | 39.47% | 2.32 | 33.33%Danio rerio | 39.39% | 45.68%Semotilus corporalis | 0.18 | 0.03 | |
| ATP6 | 136 | 41.68% | 1.79 | 36.84%Minytrema melanops | 42.02% | 46.12%Pseudaspius leptocephalus | −0.07 | 0.44 | |
| COX3 | 136 | 45.42% | 1.28 | 42.37%Danio rerio | 45.54% | 48.72%Alburnus mossulensis | −0.00 | 0.99 | |
| ND3 | 136 | 43.72% | 2.31 | 36.10%Macrhybopsis aestivalis | 43.71% | 48.71%Oreoleuciscus potanini | 0.09 | 0.29 | |
| ND4L | 136 | 45.81% | 2.05 | 40.40%Danio rerio | 45.79% | 52.19%Ptychobarbus dipogon | 0.26 | 0.002 | |
| ND4 | 136 | 43.38% | 1.85 | 38.38%Danio rerio | 43.29% | 47.03%Carpiodes cyprinus | 0.03 | 0.69 | |
| ND5 | 136 | 42.49% | 1.88 | 37.18%Danio rerio | 42.42% | 46.20%Cyprinella spiloptera | 0.00 | 0.96 | |
| ND6 | 136 | 46.20% | 2.44 | 39.27%Rasbora trilineata | 46.36% | 52.30%Rhinichthys atratulus | 0.02 | 0.85 | |
| CYTB | 136 | 43.84% | 1.66 | 39.09%Danio rerio | 43.78% | 48.29%Notropis buccata | −0.02 | 0.83 |
Families of Cypriniformes
GC content of the whole genome, % of A + C + G + T| Leuciscidae | 61 | 44.41% | 1.21 | 41.27%Macrhybopsis aestivalis | 44.47% | 46.51%Notropis buccata | 0.17 | 0.2 | |
| Cyprinidae | 28 | 43.29% | 1.22 | 39.93%Danio rerio | 43.26% | 46.22%Ptychobarbus dipogon | 0.38 | 0.05 | |
| Catostomidae | 20 | 43.96% | 1.07 | 42.67%Minytrema melanops | 43.91% | 45.85%Carpiodes carpio | 0.56 | 0.01 | |
| Gobionidae | 10 | 43.56% | 0.98 | 41.11%Pseudorasbora parva | 43.69% | 44.55%Squalidus chankaensis | −0.05 | 0.9 | |
| Xenocyprididae | 9 | 43.54% | 0.69 | 42.39%Paralaubuca typus | 43.83% | 44.24%Hemiculter leucisculus | −0.23 | 0.55 | |
| Cobitidae | 2 | 42.69% | 0.82 | 42.11%Cobitis elongatoides | 42.69% | 43.27%Misgurnus anguillicaudatus | – | – | |
| Balitoridae | 1 | 45.36% | – | 45.36%Barbatula barbatula | 45.36% | 45.36%Barbatula barbatula | – | – | |
| Danionidae | 1 | 41.08% | – | 41.08%Rasbora trilineata | 41.08% | 41.08%Rasbora trilineata | – | – | |
| Tincidae | 1 | 41.34% | – | 41.34%Tinca tinca | 41.34% | 41.34%Tinca tinca | – | – | |
| Acheilognathidae | 1 | 44.38% | – | 44.38%Rhodeus amarus | 44.38% | 44.38%Rhodeus amarus | – | – | |
| Botiidae | 1 | 41.87% | – | 41.87%Yasuhikotakia modesta | 41.87% | 41.87%Yasuhikotakia modesta | – | – | |
| Nemacheilidae | 1 | 44.58% | – | 44.58%Triplophysa yarkandensis | 44.58% | 44.58%Triplophysa yarkandensis | – | – |
Codon usage
Share of each codon in all 13 protein-coding genes, across CypriniformesLoading 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.
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.