family · mtDNA statistics

Cardinalidae

5 species in 2 genera. Every region of their mitochondrial genomes, side by side.

Group

species

46.2%

mean GC, whole genome

SD 0.7, range 45.1–47.0%

16,805

median genome length, bp

Range 16,779–16,814 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	5	46.23%	0.71	0.015	45.07%Cardinalis cardinalis	46.28%	47.00%Piranga rubra	−0.48	0.41
Protein-coding	5	47.04%	0.82	0.017	45.73%Cardinalis cardinalis	47.06%	47.96%Piranga rubra	−0.46	0.44
All rRNA	5	46.33%	0.40	0.009	45.82%Cardinalis cardinalis	46.35%	46.74%Piranga rubra	−0.01	0.99
All tRNA	5	41.67%	0.34	0.008	41.30%Cardinalis cardinalis	41.58%	42.16%Piranga olivacea	−0.41	0.5
12S rRNA	5	49.51%	0.51	0.010	48.62%Cardinalis cardinalis	49.64%	49.90%Piranga rubra	−0.51	0.38
16S rRNA	5	44.40%	0.44	0.010	43.89%Piranga flava	44.25%	44.90%Piranga ludoviciana	0.35	0.56
D-loop	5	44.11%	1.25	0.028	42.12%Cardinalis cardinalis	44.54%	45.27%Piranga rubra	−0.75	0.15
ND1	5	47.55%	0.92	0.019	45.91%Cardinalis cardinalis	47.96%	48.06%Piranga rubra	−0.63	0.26
ND2	5	46.79%	0.97	0.021	45.87%Piranga ludoviciana	46.63%	48.17%Piranga rubra	−0.32	0.6
COX1	5	46.98%	1.01	0.021	45.20%Cardinalis cardinalis	47.32%	47.65%Piranga rubra	−0.68	0.21
COX2	5	47.08%	0.85	0.018	46.05%Cardinalis cardinalis	46.93%	48.39%Piranga rubra	−0.25	0.69
ATP8	5	45.24%	2.23	0.049	43.45%Cardinalis cardinalis	44.64%	48.81%Piranga olivacea	−0.13	0.84
ATP6	5	46.32%	0.72	0.016	45.61%Piranga ludoviciana	46.05%	47.51%Piranga rubra	−0.33	0.59
COX3	5	48.93%	0.87	0.018	47.95%Cardinalis cardinalis	49.11%	50.13%Piranga rubra	0.01	0.99
ND3	5	46.67%	1.23	0.026	44.73%Cardinalis cardinalis	46.72%	48.15%Piranga rubra	−0.48	0.41
ND4L	5	48.01%	0.66	0.014	47.14%Piranga flava	47.81%	48.82%Piranga olivacea	0.44	0.45
ND4	5	46.57%	0.97	0.021	45.57%Cardinalis cardinalis	46.88%	47.90%Piranga rubra	0.09	0.89
ND5	5	45.83%	1.01	0.022	44.05%Cardinalis cardinalis	46.31%	46.42%Piranga olivacea	−0.66	0.22
ND6	5	49.79%	1.31	0.026	47.97%Cardinalis cardinalis	49.71%	51.64%Piranga rubra	−0.35	0.56
CYTB	5	47.11%	0.77	0.016	45.80%Cardinalis cardinalis	47.51%	47.59%Piranga flava	−0.67	0.22

Genera of Cardinalidae

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

Region

Parameter

Chart

Genera of Cardinalidae

Piranga	4	46.52%	0.34	0.007	46.27%Piranga flava	46.40%	47.00%Piranga rubra	–	–
Cardinalis	1	45.07%	–	–	45.07%Cardinalis cardinalis	45.07%	45.07%Cardinalis cardinalis	–	–

Codon usage

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

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

Cardinalidae 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.