family · mtDNA statistics

Crocodylidae

12 species in 3 genera. Every region of their mitochondrial genomes, side by side.

Group

species

42.7%

mean GC, whole genome

SD 0.8, range 40.9–43.7%

16,842

median genome length, bp

Range 16,795–17,052 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	12	42.74%	0.81	0.019	40.85%Osteolaemus tetraspis	42.93%	43.75%Crocodylus johnstoni	−0.32	0.31
Protein-coding	12	43.51%	1.08	0.025	40.95%Osteolaemus tetraspis	43.79%	44.81%Crocodylus johnstoni	−0.31	0.32
All rRNA	12	44.62%	0.41	0.009	43.69%Osteolaemus tetraspis	44.70%	45.23%Crocodylus novaeguineae	−0.28	0.38
All tRNA	12	42.90%	0.24	0.006	42.46%Crocodylus acutus	42.91%	43.31%Crocodylus palustris	−0.23	0.47
12S rRNA	12	47.27%	0.84	0.018	45.36%Osteolaemus tetraspis	47.51%	48.32%Crocodylus johnstoni	−0.42	0.17
16S rRNA	12	42.99%	0.26	0.006	42.66%Osteolaemus tetraspis	42.95%	43.51%Crocodylus novaeguineae	0.13	0.69
D-loop	12	30.91%	1.37	0.044	27.68%Crocodylus palustris	31.21%	32.96%Osteolaemus tetraspis	0.12	0.72
ND1	12	44.64%	1.66	0.037	40.50%Osteolaemus tetraspis	44.91%	47.04%Crocodylus novaeguineae	−0.37	0.24
ND2	12	43.64%	1.31	0.030	40.44%Osteolaemus tetraspis	44.06%	44.89%Crocodylus johnstoni	−0.39	0.22
COX1	12	42.80%	0.91	0.021	41.56%Mecistops cataphractus	42.52%	44.12%Crocodylus siamensis	0.12	0.72
COX2	12	41.64%	0.67	0.016	40.79%Crocodylus rhombifer	41.67%	42.98%Crocodylus palustris	−0.15	0.64
ATP8	12	36.06%	2.50	0.069	32.10%Crocodylus rhombifer	36.42%	39.51%Crocodylus porosus	0.51	0.09
ATP6	12	42.75%	1.51	0.035	39.62%Osteolaemus tetraspis	42.90%	44.40%Crocodylus rhombifer	−0.47	0.12
COX3	12	45.50%	0.57	0.013	44.39%Osteolaemus tetraspis	45.66%	46.30%Crocodylus porosus	−0.27	0.4
ND3	12	44.28%	2.43	0.055	38.22%Mecistops cataphractus	44.83%	47.13%Crocodylus niloticus	−0.37	0.23
ND4L	12	44.44%	1.66	0.037	41.16%Mecistops cataphractus	44.90%	47.28%Crocodylus novaeguineae	−0.33	0.29
ND4	12	42.68%	1.37	0.032	39.01%Osteolaemus tetraspis	43.05%	44.06%Crocodylus moreletii	−0.65	0.02
ND5	12	43.73%	1.59	0.036	39.87%Osteolaemus tetraspis	43.63%	45.59%Crocodylus johnstoni	−0.17	0.61
ND6	12	44.31%	1.22	0.027	42.99%Mecistops cataphractus	44.13%	47.35%Crocodylus johnstoni	−0.36	0.25
CYTB	12	44.70%	1.11	0.025	42.47%Osteolaemus tetraspis	44.77%	46.28%Crocodylus johnstoni	−0.03	0.92

Genera of Crocodylidae

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

Region

Parameter

Chart

Genera of Crocodylidae

Crocodylus	10	43.05%	0.37	0.009	42.52%Crocodylus acutus	43.04%	43.75%Crocodylus johnstoni	0.38	0.28
Mecistops	1	41.54%	–	–	41.54%Mecistops cataphractus	41.54%	41.54%Mecistops cataphractus	–	–
Osteolaemus	1	40.85%	–	–	40.85%Osteolaemus tetraspis	40.85%	40.85%Osteolaemus tetraspis	–	–

Codon usage

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

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

Crocodylidae 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.