family · mtDNA statistics

Icteridae

6 species in 4 genera. Every region of their mitochondrial genomes, side by side.

Group

species

46.1%

mean GC, whole genome

SD 0.2, range 45.9–46.3%

16,767

median genome length, bp

Range 16,757–16,775 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	6	46.12%	0.18	0.004	45.91%Agelaius phoeniceus	46.14%	46.30%Molothrus aeneus	−0.06	0.92
Protein-coding	6	47.18%	0.22	0.005	46.89%Agelaius phoeniceus	47.20%	47.42%Molothrus aeneus	−0.17	0.75
All rRNA	6	45.93%	0.20	0.004	45.68%Quiscalus mexicanus	45.94%	46.19%Molothrus aeneus	−0.07	0.9
All tRNA	6	41.79%	0.20	0.005	41.44%Euphagus cyanocephalus	41.79%	42.07%Quiscalus quiscula	0.50	0.32
12S rRNA	6	48.71%	0.24	0.005	48.42%Molothrus ater	48.75%	49.03%Quiscalus mexicanus	−0.23	0.66
16S rRNA	6	44.23%	0.41	0.009	43.64%Quiscalus mexicanus	44.27%	44.67%Molothrus aeneus	0.04	0.95
D-loop	5	42.57%	0.31	0.007	42.27%Quiscalus mexicanus	42.46%	43.10%Euphagus cyanocephalus	−0.07	0.91
ND1	6	47.27%	0.76	0.016	46.63%Agelaius phoeniceus	47.03%	48.67%Quiscalus quiscula	0.50	0.31
ND2	6	45.30%	0.56	0.012	44.62%Euphagus cyanocephalus	45.19%	46.06%Molothrus ater	0.29	0.58
COX1	6	47.63%	0.68	0.014	46.55%Agelaius phoeniceus	47.78%	48.29%Euphagus cyanocephalus	−0.30	0.56
COX2	6	47.78%	0.48	0.010	47.22%Euphagus cyanocephalus	47.73%	48.39%Agelaius phoeniceus	0.03	0.96
ATP8	6	45.34%	0.70	0.015	44.05%Quiscalus mexicanus	45.54%	45.83%Euphagus cyanocephalus	−0.10	0.86
ATP6	6	46.69%	1.05	0.023	45.61%Euphagus cyanocephalus	46.35%	48.25%Quiscalus quiscula	0.24	0.65
COX3	6	48.36%	0.43	0.009	47.64%Molothrus ater	48.50%	48.85%Euphagus cyanocephalus	−0.48	0.34
ND3	6	46.68%	1.01	0.022	45.30%Quiscalus mexicanus	47.01%	47.58%Quiscalus quiscula	0.27	0.6
ND4L	6	48.26%	0.66	0.014	47.47%Molothrus aeneus	48.15%	49.16%Euphagus cyanocephalus	0.09	0.87
ND4	6	46.90%	0.38	0.008	46.44%Euphagus cyanocephalus	46.95%	47.39%Molothrus aeneus	−0.00	1
ND5	6	46.26%	0.53	0.011	45.82%Quiscalus quiscula	46.01%	47.08%Molothrus ater	−0.31	0.55
ND6	6	49.90%	0.44	0.009	49.52%Quiscalus quiscula	49.81%	50.67%Molothrus ater	0.19	0.71
CYTB	6	47.71%	0.86	0.018	46.81%Agelaius phoeniceus	47.51%	48.99%Molothrus aeneus	−0.53	0.28

Genera of Icteridae

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

Region

Parameter

Chart

Genera of Icteridae

Quiscalus	2	46.14%	0.18	0.004	46.02%Quiscalus mexicanus	46.14%	46.27%Quiscalus quiscula	–	–
Molothrus	2	46.28%	0.02	0.000	46.27%Molothrus ater	46.28%	46.30%Molothrus aeneus	–	–
Agelaius	1	45.91%	–	–	45.91%Agelaius phoeniceus	45.91%	45.91%Agelaius phoeniceus	–	–
Euphagus	1	45.94%	–	–	45.94%Euphagus cyanocephalus	45.94%	45.94%Euphagus cyanocephalus	–	–

Codon usage

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

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

Icteridae 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.