family · mtDNA statistics

Fringillidae

30 species in 24 genera. Every region of their mitochondrial genomes, side by side.

Group

species

45.6%

mean GC, whole genome

SD 0.6, range 44.7–47.7%

16,817

median genome length, bp

Range 15,311–16,840 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	30	45.59%	0.61	0.013	44.68%Pinicola enucleator	45.58%	47.65%Emberiza schoeniclus	0.08	0.69
Protein-coding	30	46.53%	0.72	0.015	45.38%Pinicola enucleator	46.53%	48.96%Emberiza schoeniclus	0.12	0.53
All rRNA	30	45.46%	0.49	0.011	44.16%Hemignathus munroi	45.38%	46.57%Emberiza schoeniclus	0.03	0.87
All tRNA	30	41.31%	0.42	0.010	40.52%Chloris chloris	41.21%	42.44%Emberiza schoeniclus	−0.07	0.72
12S rRNA	30	47.99%	1.54	0.032	40.58%Hemignathus munroi	48.26%	49.69%Emberiza schoeniclus	−0.08	0.68
16S rRNA	30	43.87%	0.49	0.011	42.89%Acanthis flammea	43.84%	44.80%Calcarius ornatus	0.13	0.48
D-loop	27	42.47%	0.78	0.018	41.11%Pinicola enucleator	42.36%	44.36%Calcarius ornatus	−0.36	0.06
ND1	30	45.75%	1.52	0.033	43.15%Serinus canaria	45.57%	49.28%Fringilla montifringilla	0.18	0.34
ND2	30	44.78%	1.20	0.027	42.02%Spinus psaltria	44.66%	47.40%Calcarius ornatus	0.06	0.77
COX1	30	47.34%	0.72	0.015	46.16%Pinicola enucleator	47.34%	48.74%Magumma parva	−0.03	0.87
COX2	30	46.46%	1.49	0.032	44.30%Akialoa stejnegeri	46.13%	51.46%Emberiza schoeniclus	0.23	0.22
ATP8	30	43.89%	1.72	0.039	40.48%Melamprosops phaeosoma	43.45%	48.21%Emberiza schoeniclus	0.03	0.89
ATP6	30	45.28%	1.06	0.023	43.27%Pinicola enucleator	45.10%	48.54%Carpodacus erythrinus	0.23	0.21
COX3	30	48.37%	1.05	0.022	46.30%Serinus canaria	48.25%	50.89%Emberiza schoeniclus	−0.01	0.97
ND3	30	45.38%	1.57	0.035	41.60%Melamprosops phaeosoma	45.30%	49.00%Loxia leucoptera	0.13	0.51
ND4L	30	48.62%	1.46	0.030	45.79%Carpodacus erythrinus	48.48%	51.85%Emberiza schoeniclus	0.18	0.33
ND4	30	46.41%	0.75	0.016	44.92%Spinus spinus	46.39%	48.33%Emberiza schoeniclus	−0.01	0.98
ND5	30	45.79%	0.71	0.016	43.45%Pinicola enucleator	45.90%	47.14%Emberiza schoeniclus	0.11	0.57
ND6	30	49.06%	1.23	0.025	47.21%Serinus canaria	48.65%	51.83%Pyrrhula pyrrhula	−0.20	0.3
CYTB	30	47.29%	0.94	0.020	45.84%Pinicola enucleator	47.33%	51.27%Emberiza schoeniclus	0.10	0.61

Genera of Fringillidae

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

Region

Parameter

Chart

Genera of Fringillidae

Spinus	3	44.98%	0.25	0.006	44.70%Spinus psaltria	45.05%	45.18%Spinus pinus	–	–
Fringilla	2	46.25%	0.19	0.004	46.11%Fringilla coelebs	46.25%	46.39%Fringilla montifringilla	–	–
Loxia	2	45.60%	0.05	0.001	45.56%Loxia leucoptera	45.60%	45.63%Loxia curvirostra	–	–
Loxops	2	45.82%	0.10	0.002	45.75%Loxops mana	45.82%	45.89%Loxops coccineus	–	–
Haemorhous	2	45.00%	0.33	0.007	44.76%Haemorhous cassinii	45.00%	45.23%Haemorhous mexicanus	–	–
Carpodacus	1	46.00%	–	–	46.00%Carpodacus erythrinus	46.00%	46.00%Carpodacus erythrinus	–	–
Coccothraustes	1	45.19%	–	–	45.19%Coccothraustes coccothraustes	45.19%	45.19%Coccothraustes coccothraustes	–	–
Hemignathus	1	45.38%	–	–	45.38%Hemignathus munroi	45.38%	45.38%Hemignathus munroi	–	–
Magumma	1	45.88%	–	–	45.88%Magumma parva	45.88%	45.88%Magumma parva	–	–
Himatione	1	45.71%	–	–	45.71%Himatione sanguinea	45.71%	45.71%Himatione sanguinea	–	–
Melamprosops	1	45.34%	–	–	45.34%Melamprosops phaeosoma	45.34%	45.34%Melamprosops phaeosoma	–	–
Pinicola	1	44.68%	–	–	44.68%Pinicola enucleator	44.68%	44.68%Pinicola enucleator	–	–
Pyrrhula	1	45.88%	–	–	45.88%Pyrrhula pyrrhula	45.88%	45.88%Pyrrhula pyrrhula	–	–
Drepanis	1	45.63%	–	–	45.63%Drepanis coccinea	45.63%	45.63%Drepanis coccinea	–	–
Serinus	1	44.91%	–	–	44.91%Serinus canaria	44.91%	44.91%Serinus canaria	–	–

Codon usage

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

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

Fringillidae 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.