order · mtDNA statistics

Charadriiformes

51 species in 8 families. Every region of their mitochondrial genomes, side by side.

Group

species

43.9%

mean GC, whole genome

SD 0.9, range 41.3–45.7%

16,804

median genome length, bp

Range 15,933–19,034 bp

families

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	51	43.95%	0.94	0.021	41.30%Gallinago gallinago	44.10%	45.73%Pluvialis squatarola	0.30	0.03
Protein-coding	51	44.37%	1.10	0.025	41.21%Gallinago gallinago	44.31%	46.76%Pluvialis squatarola	0.23	0.1
All rRNA	51	44.83%	1.26	0.028	42.81%Tringa glareola	44.72%	47.00%Stercorarius maccormicki	0.45	9.3 × 10⁻⁴
All tRNA	51	41.59%	0.49	0.012	40.32%Sternula albifrons	41.61%	42.70%Vanellus vanellus	0.07	0.61
12S rRNA	51	47.06%	1.29	0.027	44.94%Tringa glareola	46.96%	50.05%Stercorarius maccormicki	0.41	0.003
16S rRNA	51	43.46%	1.34	0.031	41.17%Gallinago delicata	43.29%	45.46%Pluvialis squatarola	0.44	0.001
D-loop	46	41.49%	1.85	0.045	37.64%Numenius madagascariensis	41.87%	46.53%Rissa tridactyla	0.10	0.51
ND1	51	44.18%	1.47	0.033	40.39%Gallinago gallinago	44.27%	47.34%Haematopus ostralegus	0.24	0.09
ND2	51	41.86%	1.48	0.035	35.60%Gallinago gallinago	41.88%	44.56%Thinornis dubius	0.09	0.53
COX1	51	45.92%	1.26	0.027	42.75%Gallinago delicata	45.97%	48.55%Himantopus himantopus	0.11	0.42
COX2	51	44.77%	1.28	0.029	41.81%Gallinago gallinago	44.88%	47.37%Pluvialis squatarola	−0.02	0.91
ATP8	51	40.98%	2.17	0.053	36.90%Onychoprion fuscatus	40.48%	46.43%Anarhynchus montanus	0.18	0.21
ATP6	51	45.65%	1.33	0.029	42.11%Gallinago gallinago	45.61%	48.54%Pluvialis squatarola	−0.03	0.82
COX3	51	45.21%	1.06	0.023	43.24%Tringa brevipes	45.15%	47.32%Rissa tridactyla	0.33	0.02
ND3	51	43.46%	1.65	0.038	39.89%Sterna paradisaea	43.30%	46.44%Thinornis dubius	−0.07	0.6
ND4L	51	44.37%	2.25	0.051	39.73%Tringa brevipes	44.11%	49.49%Anarhynchus montanus	0.10	0.49
ND4	51	43.72%	1.47	0.034	40.13%Gallinago gallinago	43.69%	46.30%Pluvialis squatarola	0.33	0.02
ND5	51	43.55%	1.24	0.028	40.11%Gallinago gallinago	43.69%	46.06%Aethia cristatella	0.25	0.07
ND6	51	45.16%	1.93	0.043	41.57%Gallinago delicata	45.02%	48.94%Pluvialis squatarola	0.40	0.004
CYTB	50	45.35%	1.22	0.027	43.04%Onychoprion fuscatus	45.43%	48.12%Charadrius vociferus	0.16	0.26

Families of Charadriiformes

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

Region

Parameter

Chart

Families of Charadriiformes

Scolopacidae	24	43.32%	0.80	0.019	41.30%Gallinago gallinago	43.30%	44.88%Arenaria melanocephala	0.17	0.42
Charadriidae	9	44.81%	0.43	0.009	44.42%Charadrius vociferus	44.76%	45.73%Pluvialis squatarola	0.37	0.32
Laridae	8	44.17%	0.96	0.022	42.78%Sternula albifrons	44.14%	45.22%Chroicocephalus ridibundus	0.09	0.83
Stercorariidae	4	44.44%	0.21	0.005	44.20%Stercorarius parasiticus	44.45%	44.66%Stercorarius maccormicki	–	–
Recurvirostridae	2	44.56%	0.18	0.004	44.43%Himantopus himantopus	44.56%	44.69%Recurvirostra avosetta	–	–
Alcidae	2	44.65%	0.70	0.016	44.15%Synthliboramphus antiquus	44.65%	45.14%Aethia cristatella	–	–
Haematopodidae	1	45.09%	–	–	45.09%Haematopus ostralegus	45.09%	45.09%Haematopus ostralegus	–	–
Jacanidae	1	43.55%	–	–	43.55%Jacana spinosa	43.55%	43.55%Jacana spinosa	–	–

Codon usage

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

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

Charadriiformes taxon page Plot GC content against GC skew 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.