family · mtDNA statistics

Laridae

8 species in 7 genera. Every region of their mitochondrial genomes, side by side.

Group

species

44.2%

mean GC, whole genome

SD 1.0, range 42.8–45.2%

16,710

median genome length, bp

Range 16,357–16,835 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	8	44.17%	0.96	0.022	42.78%Sternula albifrons	44.14%	45.22%Chroicocephalus ridibundus	0.09	0.83
Protein-coding	8	44.41%	1.17	0.026	42.80%Onychoprion fuscatus	44.28%	45.82%Chroicocephalus ridibundus	0.03	0.94
All rRNA	8	45.51%	0.97	0.021	44.35%Sternula albifrons	45.45%	46.82%Rissa tridactyla	0.34	0.42
All tRNA	8	41.45%	0.61	0.015	40.32%Sternula albifrons	41.56%	42.28%Chroicocephalus ridibundus	0.08	0.85
12S rRNA	8	47.80%	1.08	0.023	46.43%Sternula albifrons	47.83%	49.33%Chroicocephalus ridibundus	0.31	0.45
16S rRNA	8	44.12%	0.94	0.021	43.09%Sternula albifrons	44.02%	45.37%Rissa tridactyla	0.34	0.41
D-loop	8	42.84%	1.75	0.041	40.46%Chroicocephalus ridibundus	42.52%	46.53%Rissa tridactyla	0.03	0.95
ND1	8	44.29%	1.69	0.038	41.31%Sternula albifrons	44.17%	46.32%Chroicocephalus ridibundus	0.38	0.36
ND2	8	42.18%	1.44	0.034	39.94%Onychoprion fuscatus	42.49%	43.79%Chroicocephalus ridibundus	−0.13	0.76
COX1	8	45.51%	0.87	0.019	44.17%Sternula albifrons	45.52%	46.68%Larus dominicanus	0.23	0.59
COX2	8	45.18%	1.55	0.034	42.54%Onychoprion fuscatus	45.32%	46.93%Rissa tridactyla	0.09	0.83
ATP8	8	40.10%	1.91	0.048	36.90%Onychoprion fuscatus	40.48%	42.26%Chroicocephalus ridibundus	0.24	0.57
ATP6	8	45.32%	1.83	0.040	43.42%Sterna paradisaea	44.81%	47.66%Chroicocephalus ridibundus	−0.15	0.72
COX3	8	45.89%	0.91	0.020	44.26%Onychoprion fuscatus	45.98%	47.32%Rissa tridactyla	−0.01	0.97
ND3	8	42.01%	1.79	0.043	39.89%Sterna paradisaea	41.88%	45.51%Chroicocephalus ridibundus	−0.17	0.69
ND4L	8	44.49%	1.55	0.035	42.42%Sternula albifrons	43.94%	46.46%Chroicocephalus ridibundus	0.36	0.39
ND4	8	44.15%	1.71	0.039	41.58%Sternula albifrons	44.63%	45.86%Chroicocephalus ridibundus	0.15	0.72
ND5	8	43.68%	1.15	0.026	41.93%Onychoprion fuscatus	43.80%	45.12%Larus dominicanus	−0.02	0.97
ND6	8	46.58%	1.14	0.025	44.83%Onychoprion fuscatus	46.65%	48.28%Gelochelidon nilotica	−0.40	0.33
CYTB	8	44.59%	1.01	0.023	43.04%Onychoprion fuscatus	44.66%	45.84%Chroicocephalus ridibundus	−0.34	0.42

Genera of Laridae

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

Region

Parameter

Chart

Genera of Laridae

Sterna	2	44.14%	0.06	0.001	44.10%Sterna paradisaea	44.14%	44.19%Sterna hirundo	–	–
Chroicocephalus	1	45.22%	–	–	45.22%Chroicocephalus ridibundus	45.22%	45.22%Chroicocephalus ridibundus	–	–
Larus	1	45.02%	–	–	45.02%Larus dominicanus	45.02%	45.02%Larus dominicanus	–	–
Rissa	1	45.19%	–	–	45.19%Rissa tridactyla	45.19%	45.19%Rissa tridactyla	–	–
Gelochelidon	1	43.96%	–	–	43.96%Gelochelidon nilotica	43.96%	43.96%Gelochelidon nilotica	–	–
Onychoprion	1	42.88%	–	–	42.88%Onychoprion fuscatus	42.88%	42.88%Onychoprion fuscatus	–	–
Sternula	1	42.78%	–	–	42.78%Sternula albifrons	42.78%	42.78%Sternula albifrons	–	–

Codon usage

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

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

Laridae 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.