family · mtDNA statistics

Rallidae

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

Group

species

44.6%

mean GC, whole genome

SD 0.6, range 43.7–45.2%

17,027

median genome length, bp

Range 15,523–17,149 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	5	44.60%	0.56	0.012	43.69%Coturnicops noveboracensis	44.65%	45.19%Porphyrio porphyrio	0.68	0.21
Protein-coding	5	45.13%	0.82	0.018	43.70%Coturnicops noveboracensis	45.47%	45.75%Porphyrio porphyrio	0.75	0.14
All rRNA	5	45.49%	0.52	0.012	45.00%Gallinula chloropus	45.34%	46.35%Porphyrio porphyrio	−0.01	0.99
All tRNA	5	42.04%	0.57	0.014	41.40%Coturnicops noveboracensis	41.94%	42.77%Porphyrio porphyrio	0.15	0.81
12S rRNA	5	48.19%	1.04	0.022	47.02%Coturnicops noveboracensis	48.36%	49.64%Porphyrio porphyrio	0.28	0.65
16S rRNA	5	43.83%	0.35	0.008	43.50%Rallus aquaticus	43.73%	44.32%Porphyrio porphyrio	−0.52	0.37
D-loop	4	41.36%	1.16	0.028	39.84%Rallus aquaticus	41.48%	42.65%Gallinula chloropus	–	–
ND1	5	44.04%	1.44	0.033	41.98%Coturnicops noveboracensis	43.75%	45.52%Rallus aquaticus	0.36	0.55
ND2	5	43.64%	1.08	0.025	41.98%Coturnicops noveboracensis	43.61%	44.81%Porphyrio porphyrio	0.63	0.26
COX1	5	47.18%	0.96	0.020	45.71%Coturnicops noveboracensis	47.20%	48.23%Rallus aquaticus	0.70	0.19
COX2	5	44.65%	0.69	0.015	44.01%Gallinula chloropus	44.30%	45.47%Coturnicops noveboracensis	−0.85	0.07
ATP8	5	40.95%	2.90	0.071	37.50%Gallinula chloropus	42.86%	43.45%Porphyrio porphyrio	0.22	0.72
ATP6	5	44.65%	1.82	0.041	41.67%Coturnicops noveboracensis	44.88%	46.64%Fulica atra	0.90	0.04
COX3	5	46.78%	0.84	0.018	45.41%Gallinula chloropus	46.94%	47.58%Porphyrio porphyrio	−0.30	0.62
ND3	5	46.08%	1.53	0.033	44.44%Fulica atra	46.15%	47.86%Rallus aquaticus	0.03	0.96
ND4L	5	44.58%	2.44	0.055	41.75%Porphyrio porphyrio	46.13%	46.46%Fulica atra	0.78	0.12
ND4	5	44.31%	1.38	0.031	41.94%Coturnicops noveboracensis	44.74%	45.54%Porphyrio porphyrio	0.71	0.18
ND5	5	44.19%	0.90	0.020	42.84%Coturnicops noveboracensis	44.34%	45.31%Fulica atra	0.90	0.04
ND6	5	46.32%	1.27	0.027	45.02%Coturnicops noveboracensis	46.17%	47.89%Fulica atra	0.65	0.23
CYTB	5	46.19%	0.59	0.013	45.49%Rallus aquaticus	46.28%	46.98%Porphyrio porphyrio	0.38	0.52

Genera of Rallidae

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

Region

Parameter

Chart

Genera of Rallidae

Fulica	1	44.81%	–	–	44.81%Fulica atra	44.81%	44.81%Fulica atra	–	–
Gallinula	1	44.65%	–	–	44.65%Gallinula chloropus	44.65%	44.65%Gallinula chloropus	–	–
Rallus	1	44.65%	–	–	44.65%Rallus aquaticus	44.65%	44.65%Rallus aquaticus	–	–
Porphyrio	1	45.19%	–	–	45.19%Porphyrio porphyrio	45.19%	45.19%Porphyrio porphyrio	–	–
Coturnicops	1	43.69%	–	–	43.69%Coturnicops noveboracensis	43.69%	43.69%Coturnicops noveboracensis	–	–

Codon usage

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

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

Rallidae 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.