family · mtDNA statistics

Xenocyprididae

9 species in 8 genera. Every region of their mitochondrial genomes, side by side.

Group

species

43.5%

mean GC, whole genome

SD 0.7, range 42.4–44.2%

16,620

median genome length, bp

Range 16,609–16,622 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	9	43.54%	0.69	0.016	42.39%Paralaubuca typus	43.83%	44.24%Hemiculter leucisculus	−0.23	0.55
Protein-coding	9	43.83%	0.77	0.018	42.53%Paralaubuca typus	44.23%	44.56%Parabramis pekinensis	−0.16	0.68
All rRNA	9	45.33%	0.46	0.010	44.48%Paralaubuca typus	45.32%	45.93%Hemiculter leucisculus	−0.09	0.82
All tRNA	9	44.22%	0.41	0.009	43.56%Paralaubuca typus	44.22%	44.94%Megalobrama pellegrini	−0.20	0.6
12S rRNA	9	49.73%	0.51	0.010	48.91%Paralaubuca typus	49.64%	50.57%Megalobrama pellegrini	−0.07	0.86
16S rRNA	9	42.82%	0.50	0.012	41.97%Paralaubuca typus	42.92%	43.58%Hemiculter leucisculus	−0.09	0.83
D-loop	9	33.90%	1.53	0.045	31.62%Hypophthalmichthys molitrix	33.69%	36.16%Hemiculter leucisculus	−0.64	0.06
ND1	9	45.22%	1.13	0.025	43.49%Hypophthalmichthys nobilis	45.13%	47.38%Hemiculter leucisculus	−0.43	0.25
ND2	9	44.97%	1.25	0.028	43.08%Hypophthalmichthys molitrix	44.98%	46.51%Paralaubuca typus	−0.44	0.24
COX1	9	43.80%	1.02	0.023	41.78%Paralaubuca typus	44.17%	44.87%Chanodichthys mongolicus	−0.00	0.99
COX2	9	44.12%	0.92	0.021	41.82%Paralaubuca typus	44.43%	44.86%Hypophthalmichthys nobilis	0.37	0.33
ATP8	9	38.38%	1.48	0.039	35.76%Hypophthalmichthys molitrix	38.79%	40.00%Mylopharyngodon piceus	−0.10	0.8
ATP6	9	42.56%	0.79	0.019	41.00%Paralaubuca typus	42.84%	43.78%Chanodichthys mongolicus	−0.18	0.64
COX3	9	45.46%	0.86	0.019	44.33%Hypophthalmichthys molitrix	45.35%	46.75%Squaliobarbus curriculus	0.05	0.91
ND3	9	46.61%	1.60	0.034	43.84%Hemiculter leucisculus	46.99%	48.71%Chanodichthys mongolicus	0.40	0.29
ND4L	9	46.58%	1.45	0.031	44.11%Paralaubuca typus	46.80%	48.15%Mylopharyngodon piceus	−0.24	0.54
ND4	9	42.87%	1.03	0.024	40.67%Paralaubuca typus	43.20%	44.07%Chanodichthys mongolicus	0.10	0.8
ND5	9	42.40%	1.21	0.029	40.14%Paralaubuca typus	42.54%	43.79%Megalobrama pellegrini	−0.23	0.56
ND6	9	44.30%	1.33	0.030	41.38%Hypophthalmichthys molitrix	44.64%	45.40%Parabramis pekinensis	−0.23	0.56
CYTB	9	43.19%	0.80	0.019	41.89%Hypophthalmichthys molitrix	43.56%	44.35%Parabramis pekinensis	−0.13	0.74

Genera of Xenocyprididae

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

Region

Parameter

Chart

Genera of Xenocyprididae

Hypophthalmichthys	2	42.84%	0.28	0.007	42.64%Hypophthalmichthys molitrix	42.84%	43.04%Hypophthalmichthys nobilis	–	–
Hemiculter	1	44.24%	–	–	44.24%Hemiculter leucisculus	44.24%	44.24%Hemiculter leucisculus	–	–
Mylopharyngodon	1	43.45%	–	–	43.45%Mylopharyngodon piceus	43.45%	43.45%Mylopharyngodon piceus	–	–
Parabramis	1	44.16%	–	–	44.16%Parabramis pekinensis	44.16%	44.16%Parabramis pekinensis	–	–
Squaliobarbus	1	43.83%	–	–	43.83%Squaliobarbus curriculus	43.83%	43.83%Squaliobarbus curriculus	–	–
Megalobrama	1	44.11%	–	–	44.11%Megalobrama pellegrini	44.11%	44.11%Megalobrama pellegrini	–	–
Chanodichthys	1	43.97%	–	–	43.97%Chanodichthys mongolicus	43.97%	43.97%Chanodichthys mongolicus	–	–
Paralaubuca	1	42.39%	–	–	42.39%Paralaubuca typus	42.39%	42.39%Paralaubuca typus	–	–

Codon usage

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

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

Xenocyprididae 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.