order · mtDNA statistics

Crocodilia

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

Group

species

43.3%

mean GC, whole genome

SD 1.9, range 40.9–47.6%

16,829

median genome length, bp

Range 14,935–17,900 bp

families

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	18	43.27%	1.87	0.043	40.85%Osteolaemus tetraspis	42.93%	47.60%Paleosuchus palpebrosus	−0.28	0.25
Protein-coding	18	44.04%	1.84	0.042	40.95%Osteolaemus tetraspis	43.79%	47.92%Paleosuchus trigonatus	−0.29	0.25
All rRNA	18	44.99%	0.87	0.019	43.69%Osteolaemus tetraspis	44.77%	46.96%Paleosuchus palpebrosus	−0.32	0.2
All tRNA	18	43.29%	0.78	0.018	42.46%Crocodylus acutus	43.04%	45.37%Paleosuchus palpebrosus	−0.35	0.16
12S rRNA	18	47.40%	1.08	0.023	45.36%Osteolaemus tetraspis	47.51%	49.24%Alligator sinensis	−0.25	0.31
16S rRNA	18	43.57%	1.17	0.027	42.08%Alligator mississippiensis	43.13%	46.25%Paleosuchus palpebrosus	−0.35	0.15
D-loop	16	31.53%	5.51	0.175	25.07%Gavialis gangeticus	31.13%	50.59%Paleosuchus trigonatus	−0.03	0.91
ND1	18	44.81%	2.34	0.052	40.50%Osteolaemus tetraspis	44.86%	49.59%Paleosuchus palpebrosus	−0.22	0.39
ND2	18	43.48%	1.79	0.041	39.74%Alligator mississippiensis	43.99%	46.55%Paleosuchus palpebrosus	−0.45	0.06
COX1	18	43.64%	1.87	0.043	41.56%Mecistops cataphractus	42.76%	47.46%Paleosuchus trigonatus	−0.11	0.66
COX2	18	42.59%	1.99	0.047	40.79%Crocodylus rhombifer	41.74%	46.80%Alligator sinensis	−0.15	0.55
ATP8	18	38.80%	4.92	0.127	32.10%Crocodylus rhombifer	38.58%	48.52%Paleosuchus palpebrosus	−0.07	0.79
ATP6	18	42.86%	2.25	0.052	38.51%Tomistoma schlegelii	43.04%	47.37%Paleosuchus trigonatus	−0.12	0.65
COX3	18	46.34%	1.68	0.036	44.39%Osteolaemus tetraspis	45.92%	50.26%Paleosuchus trigonatus	−0.35	0.16
ND3	18	43.73%	2.54	0.058	38.22%Mecistops cataphractus	44.54%	47.13%Crocodylus niloticus	−0.02	0.93
ND4L	18	44.96%	2.82	0.063	38.78%Tomistoma schlegelii	44.90%	50.68%Paleosuchus trigonatus	−0.15	0.55
ND4	18	43.59%	2.37	0.054	39.01%Osteolaemus tetraspis	43.09%	48.80%Paleosuchus palpebrosus	−0.37	0.14
ND5	18	43.94%	1.73	0.039	39.87%Osteolaemus tetraspis	43.61%	47.15%Paleosuchus trigonatus	−0.23	0.36
ND6	18	44.99%	2.09	0.047	42.99%Mecistops cataphractus	44.35%	50.19%Paleosuchus palpebrosus	−0.54	0.02
CYTB	18	45.30%	2.13	0.047	42.47%Osteolaemus tetraspis	44.75%	50.48%Paleosuchus trigonatus	−0.35	0.16

Families of Crocodilia

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

Region

Parameter

Chart

Families of Crocodilia

Crocodylidae	11	42.65%	0.78	0.018	40.85%Osteolaemus tetraspis	42.86%	43.37%Crocodylus niloticus	−0.42	0.2
Alligatoridae	5	45.31%	2.39	0.053	42.55%Caiman crocodilus	45.98%	47.60%Paleosuchus palpebrosus	−0.53	0.36
Gavialidae	2	41.58%	0.16	0.004	41.47%Gavialis gangeticus	41.58%	41.69%Tomistoma schlegelii	–	–

Codon usage

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

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

Crocodilia 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.