family · mtDNA statistics

Herpestidae

9 species in 9 genera. Every region of their mitochondrial genomes, side by side.

Group

species

40.5%

mean GC, whole genome

SD 0.5, range 39.8–41.3%

16,663

median genome length, bp

Range 16,638–16,914 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	9	40.49%	0.48	0.012	39.83%Urva javanica	40.53%	41.30%Atilax paludinosus	0.28	0.47
Protein-coding	9	40.59%	0.53	0.013	39.91%Urva javanica	40.55%	41.42%Atilax paludinosus	0.22	0.58
All rRNA	9	40.72%	0.29	0.007	40.28%Ichneumia albicauda	40.72%	41.17%Atilax paludinosus	0.52	0.15
All tRNA	9	36.33%	0.29	0.008	35.70%Cynictis penicillata	36.40%	36.73%Atilax paludinosus	0.27	0.48
12S rRNA	9	42.83%	0.37	0.009	42.22%Ichneumia albicauda	42.78%	43.36%Atilax paludinosus	0.20	0.6
16S rRNA	9	39.43%	0.37	0.009	38.93%Cynictis penicillata	39.43%	39.85%Atilax paludinosus	0.54	0.14
D-loop	9	43.65%	1.14	0.026	41.20%Urva javanica	43.76%	45.43%Atilax paludinosus	0.26	0.5
ND1	9	42.55%	0.85	0.020	41.38%Urva javanica	42.47%	43.93%Helogale parvula	0.12	0.76
ND2	9	38.84%	1.11	0.029	36.56%Mungos mungo	39.16%	40.50%Atilax paludinosus	−0.14	0.72
COX1	9	42.09%	0.97	0.023	40.32%Cynictis penicillata	42.01%	43.17%Atilax paludinosus	0.23	0.55
COX2	9	39.10%	1.22	0.031	36.84%Urva javanica	39.47%	40.79%Helogale parvula	0.31	0.41
ATP8	9	33.66%	1.32	0.039	31.37%Suricata suricatta	34.31%	34.80%Cynictis penicillata	−0.55	0.12
ATP6	9	39.65%	1.33	0.034	37.15%Cynictis penicillata	39.65%	41.56%Herpestes sanguineus	0.18	0.65
COX3	9	43.25%	0.56	0.013	42.47%Mungos mungo	43.24%	44.39%Helogale parvula	0.27	0.48
ND3	9	40.88%	1.12	0.027	39.60%Atilax paludinosus	40.75%	42.77%Mungos mungo	0.03	0.95
ND4L	9	38.95%	1.08	0.028	36.70%Mungos mungo	39.06%	40.07%Herpestes sanguineus	−0.25	0.52
ND4	9	39.48%	0.49	0.012	38.68%Urva javanica	39.33%	40.20%Herpestes sanguineus	−0.16	0.69
ND5	9	39.33%	0.80	0.020	38.50%Bdeogale nigripes	38.93%	40.75%Atilax paludinosus	0.15	0.69
ND6	9	38.62%	1.20	0.031	36.93%Bdeogale nigripes	38.26%	40.53%Atilax paludinosus	0.20	0.61
CYTB	9	43.66%	0.86	0.020	42.02%Urva javanica	43.86%	45.09%Atilax paludinosus	0.41	0.27

Genera of Herpestidae

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

Region

Parameter

Chart

Genera of Herpestidae

Urva	1	39.83%	–	–	39.83%Urva javanica	39.83%	39.83%Urva javanica	–	–
Suricata	1	40.56%	–	–	40.56%Suricata suricatta	40.56%	40.56%Suricata suricatta	–	–
Cynictis	1	40.00%	–	–	40.00%Cynictis penicillata	40.00%	40.00%Cynictis penicillata	–	–
Ichneumia	1	40.37%	–	–	40.37%Ichneumia albicauda	40.37%	40.37%Ichneumia albicauda	–	–
Atilax	1	41.30%	–	–	41.30%Atilax paludinosus	41.30%	41.30%Atilax paludinosus	–	–
Herpestes	1	40.93%	–	–	40.93%Herpestes sanguineus	40.93%	40.93%Herpestes sanguineus	–	–
Helogale	1	40.84%	–	–	40.84%Helogale parvula	40.84%	40.84%Helogale parvula	–	–
Mungos	1	40.11%	–	–	40.11%Mungos mungo	40.11%	40.11%Mungos mungo	–	–
Bdeogale	1	40.53%	–	–	40.53%Bdeogale nigripes	40.53%	40.53%Bdeogale nigripes	–	–

Codon usage

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

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

Herpestidae 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.