order · mtDNA statistics

Cichliformes

5 species in 1 family. Every region of their mitochondrial genomes, side by side.

Group

species

46.3%

mean GC, whole genome

SD 0.5, range 45.7–47.0%

16,590

median genome length, bp

Range 16,530–16,642 bp

family

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	5	46.28%	0.50	0.011	45.69%Oreochromis andersonii	46.29%	46.96%Coptodon zillii	−0.51	0.38
Protein-coding	5	47.05%	0.71	0.015	46.22%Oreochromis andersonii	46.83%	48.07%Coptodon zillii	−0.61	0.28
All rRNA	5	46.97%	0.39	0.008	46.36%Cichla temensis	47.10%	47.31%Tropheus moorii	0.74	0.15
All tRNA	5	44.85%	0.44	0.010	44.20%Cichla temensis	44.91%	45.36%Tropheus moorii	0.55	0.34
12S rRNA	5	49.46%	0.34	0.007	49.26%Oreochromis andersonii	49.32%	50.05%Coptodon zillii	−0.12	0.85
16S rRNA	5	45.57%	0.60	0.013	44.71%Cichla temensis	45.45%	46.16%Oreochromis andersonii	0.80	0.1
D-loop	5	37.22%	2.30	0.062	35.24%Oreochromis andersonii	37.07%	41.01%Cichla temensis	−0.53	0.36
ND1	5	47.47%	1.10	0.023	46.46%Oreochromis andersonii	47.08%	49.13%Coptodon zillii	−0.50	0.39
ND2	5	48.34%	1.11	0.023	47.04%Tropheus moorii	48.57%	49.71%Herichthys cyanoguttatus	−0.94	0.02
COX1	5	46.72%	1.38	0.030	45.23%Cichla temensis	46.51%	48.93%Coptodon zillii	−0.03	0.97
COX2	5	44.92%	1.68	0.037	42.69%Tropheus moorii	44.86%	47.18%Coptodon zillii	−0.38	0.53
ATP8	5	44.76%	2.12	0.047	42.26%Cichla temensis	45.24%	47.02%Coptodon zillii	0.58	0.3
ATP6	5	46.74%	2.27	0.049	43.41%Oreochromis andersonii	47.22%	48.98%Coptodon zillii	−0.41	0.5
COX3	5	47.69%	0.78	0.016	46.56%Herichthys cyanoguttatus	48.09%	48.34%Coptodon zillii	0.10	0.87
ND3	5	47.97%	2.40	0.050	44.99%Tropheus moorii	48.42%	51.29%Cichla temensis	−0.72	0.17
ND4L	5	50.57%	0.99	0.020	49.16%Cichla temensis	50.84%	51.85%Coptodon zillii	0.40	0.5
ND4	5	46.85%	0.98	0.021	45.90%Oreochromis andersonii	46.44%	48.23%Herichthys cyanoguttatus	−0.50	0.39
ND5	5	45.98%	0.76	0.017	44.86%Tropheus moorii	45.98%	46.71%Herichthys cyanoguttatus	−0.50	0.39
ND6	5	48.81%	1.72	0.035	47.32%Cichla temensis	48.28%	51.72%Coptodon zillii	0.04	0.95
CYTB	5	47.20%	0.78	0.017	46.54%Cichla temensis	46.80%	48.29%Tropheus moorii	0.05	0.94

Families of Cichliformes

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

Region

Parameter

Chart

Families of Cichliformes

Cichlidae	5	46.28%	0.50	0.011	45.69%Oreochromis andersonii	46.29%	46.96%Coptodon zillii	−0.51	0.38

Codon usage

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

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

Cichliformes 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.