family · mtDNA statistics

Columbidae

6 species in 6 genera. Every region of their mitochondrial genomes, side by side.

Group

species

45.9%

mean GC, whole genome

SD 0.5, range 44.9–46.6%

17,146

median genome length, bp

Range 16,966–17,229 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	6	45.86%	0.53	0.012	44.94%Caloenas nicobarica	45.89%	46.59%Zenaida macroura	0.19	0.72
Protein-coding	6	46.49%	0.66	0.014	45.28%Caloenas nicobarica	46.68%	47.25%Zenaida macroura	0.15	0.77
All rRNA	6	46.41%	0.45	0.010	45.68%Columba livia	46.47%	47.04%Zenaida macroura	−0.24	0.65
All tRNA	6	43.36%	0.56	0.013	42.56%Caloenas nicobarica	43.43%	44.04%Columba livia	0.50	0.31
12S rRNA	6	48.21%	0.54	0.011	47.58%Caloenas nicobarica	48.20%	48.87%Zenaida macroura	−0.18	0.74
16S rRNA	6	45.31%	0.54	0.012	44.45%Columba livia	45.30%	45.92%Zenaida macroura	−0.21	0.69
D-loop	6	42.70%	1.16	0.027	41.75%Leptotila verreauxi	42.33%	44.68%Streptopelia decaocto	0.11	0.84
ND1	6	46.83%	1.08	0.023	44.82%Caloenas nicobarica	47.10%	47.93%Zenaida macroura	0.07	0.9
ND2	6	43.69%	1.36	0.031	41.58%Caloenas nicobarica	43.74%	45.62%Zenaida macroura	0.32	0.54
COX1	6	48.01%	1.11	0.023	46.10%Caloenas nicobarica	48.16%	49.52%Zenaida macroura	0.15	0.78
COX2	6	45.98%	0.84	0.018	45.03%Caloenas nicobarica	45.91%	47.22%Spilopelia chinensis	0.10	0.85
ATP8	6	42.30%	1.92	0.045	39.52%Leptotila verreauxi	42.86%	44.05%Columba livia	0.43	0.4
ATP6	6	45.82%	1.18	0.026	44.88%Columba livia	45.43%	47.95%Zenaida macroura	0.29	0.57
COX3	6	47.39%	0.83	0.018	46.30%Zenaida macroura	47.39%	48.34%Columba livia	−0.24	0.65
ND3	6	46.37%	0.83	0.018	45.87%Zenaida macroura	46.01%	48.00%Leptotila verreauxi	−0.81	0.05
ND4L	6	46.69%	1.22	0.026	44.78%Streptopelia decaocto	46.63%	48.15%Zenaida macroura	0.58	0.23
ND4	6	45.88%	0.66	0.014	44.78%Caloenas nicobarica	46.12%	46.52%Columba livia	0.49	0.32
ND5	6	46.13%	0.70	0.015	44.94%Caloenas nicobarica	46.23%	47.08%Zenaida macroura	0.02	0.98
ND6	6	47.89%	0.73	0.015	47.13%Columba livia	47.89%	49.04%Streptopelia decaocto	−0.67	0.15
CYTB	6	47.73%	1.01	0.021	46.15%Caloenas nicobarica	48.16%	48.64%Leptotila verreauxi	−0.10	0.85

Genera of Columbidae

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

Region

Parameter

Chart

Genera of Columbidae

Columba	1	45.88%	–	–	45.88%Columba livia	45.88%	45.88%Columba livia	–	–
Leptotila	1	45.90%	–	–	45.90%Leptotila verreauxi	45.90%	45.90%Leptotila verreauxi	–	–
Spilopelia	1	45.99%	–	–	45.99%Spilopelia chinensis	45.99%	45.99%Spilopelia chinensis	–	–
Zenaida	1	46.59%	–	–	46.59%Zenaida macroura	46.59%	46.59%Zenaida macroura	–	–
Streptopelia	1	45.88%	–	–	45.88%Streptopelia decaocto	45.88%	45.88%Streptopelia decaocto	–	–
Caloenas	1	44.94%	–	–	44.94%Caloenas nicobarica	44.94%	44.94%Caloenas nicobarica	–	–

Codon usage

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

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

Columbidae 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.