family · mtDNA statistics

Alcedinidae

3 species in 3 genera. Every region of their mitochondrial genomes, side by side.

Group

species

44.9%

mean GC, whole genome

SD 0.8, range 44.1–45.7%

17,383

median genome length, bp

Range 17,355–17,892 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	3	44.86%	0.82	0.018	44.10%Ceryle rudis	44.74%	45.73%Halcyon smyrnensis	–	–
Protein-coding	3	46.14%	1.10	0.024	45.44%Ceryle rudis	45.56%	47.41%Halcyon smyrnensis	–	–
All rRNA	3	46.32%	0.87	0.019	45.58%Ceryle rudis	46.10%	47.28%Halcyon smyrnensis	–	–
All tRNA	3	42.76%	0.71	0.017	42.24%Alcedo atthis	42.49%	43.57%Halcyon smyrnensis	–	–
12S rRNA	3	48.70%	0.92	0.019	47.99%Ceryle rudis	48.36%	49.74%Halcyon smyrnensis	–	–
16S rRNA	3	44.86%	0.85	0.019	44.10%Ceryle rudis	44.71%	45.78%Halcyon smyrnensis	–	–
D-loop	3	37.37%	2.71	0.073	34.79%Ceryle rudis	37.13%	40.20%Alcedo atthis	–	–
ND1	3	46.11%	1.59	0.034	44.58%Ceryle rudis	46.01%	47.75%Halcyon smyrnensis	–	–
ND2	3	43.83%	0.71	0.016	43.02%Ceryle rudis	44.18%	44.31%Halcyon smyrnensis	–	–
COX1	3	47.09%	1.10	0.023	45.84%Ceryle rudis	47.52%	47.90%Alcedo atthis	–	–
COX2	3	45.81%	0.72	0.016	45.32%Ceryle rudis	45.47%	46.64%Halcyon smyrnensis	–	–
ATP8	3	39.88%	1.57	0.039	38.69%Ceryle rudis	39.29%	41.67%Halcyon smyrnensis	–	–
ATP6	3	45.27%	1.83	0.040	44.01%Alcedo atthis	44.44%	47.37%Halcyon smyrnensis	–	–
COX3	3	45.79%	2.30	0.050	43.24%Alcedo atthis	46.43%	47.70%Halcyon smyrnensis	–	–
ND3	3	45.77%	0.92	0.020	44.73%Alcedo atthis	46.15%	46.44%Ceryle rudis	–	–
ND4L	3	45.90%	0.85	0.018	45.12%Ceryle rudis	45.79%	46.80%Halcyon smyrnensis	–	–
ND4	3	46.75%	1.79	0.038	44.85%Alcedo atthis	46.99%	48.40%Halcyon smyrnensis	–	–
ND5	3	45.62%	0.96	0.021	44.96%Alcedo atthis	45.18%	46.72%Halcyon smyrnensis	–	–
ND6	3	49.81%	2.66	0.053	46.74%Ceryle rudis	51.15%	51.53%Alcedo atthis	–	–
CYTB	3	47.07%	1.92	0.041	45.67%Alcedo atthis	46.28%	49.26%Halcyon smyrnensis	–	–

Genera of Alcedinidae

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

Region

Parameter

Chart

Genera of Alcedinidae

Ceryle	1	44.10%	–	–	44.10%Ceryle rudis	44.10%	44.10%Ceryle rudis	–	–
Alcedo	1	44.74%	–	–	44.74%Alcedo atthis	44.74%	44.74%Alcedo atthis	–	–
Halcyon	1	45.73%	–	–	45.73%Halcyon smyrnensis	45.73%	45.73%Halcyon smyrnensis	–	–

Codon usage

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

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

Alcedinidae 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.