class · mtDNA statistics

Cephalopoda

11 species in 4 orders. Every region of their mitochondrial genomes, side by side.

Group

species

28.4%

mean GC, whole genome

SD 3.9, range 22.8–35.6%

17,211

median genome length, bp

Range 15,957–20,545 bp

orders

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	11	28.41%	3.85	0.136	22.81%Amphioctopus fangsiao	27.85%	35.60%Ommastrephes bartramii	0.01	0.98
Protein-coding	11	29.90%	4.07	0.136	24.15%Amphioctopus fangsiao	29.36%	37.64%Ommastrephes bartramii	−0.00	1
All rRNA	11	25.21%	3.11	0.123	20.77%Amphioctopus fangsiao	24.56%	30.80%Ommastrephes bartramii	−0.00	0.99
All tRNA	11	25.57%	2.39	0.094	21.67%Amphioctopus fangsiao	25.90%	28.90%Ommastrephes bartramii	0.04	0.91
12S rRNA	11	25.16%	3.29	0.131	20.66%Amphioctopus fangsiao	24.70%	31.38%Ommastrephes bartramii	0.02	0.96
16S rRNA	11	25.23%	3.04	0.120	20.85%Amphioctopus fangsiao	24.63%	30.39%Ommastrephes bartramii	−0.02	0.96
D-loop	2	31.83%	4.24	0.133	28.83%Ommastrephes bartramii	31.83%	34.83%Uroteuthis duvaucelii	–	–
ND1	11	31.95%	3.91	0.123	26.33%Eledone cirrhosa	30.67%	39.64%Ommastrephes bartramii	−0.16	0.63
ND2	11	24.91%	5.29	0.213	17.92%Amphioctopus fangsiao	24.59%	35.16%Ommastrephes bartramii	−0.13	0.71
COX1	11	34.56%	3.13	0.091	30.07%Amphioctopus fangsiao	34.25%	40.64%Ommastrephes bartramii	−0.00	0.99
COX2	11	31.73%	3.10	0.098	27.07%Amphioctopus fangsiao	32.47%	37.06%Ommastrephes bartramii	−0.01	0.98
ATP8	11	21.24%	3.16	0.149	16.03%Eledone cirrhosa	20.51%	25.64%Thysanoteuthis rhombus	0.26	0.44
ATP6	11	28.98%	3.30	0.114	24.24%Amphioctopus fangsiao	28.57%	35.79%Ommastrephes bartramii	0.11	0.74
COX3	11	35.59%	4.53	0.127	27.69%Amphioctopus fangsiao	34.36%	44.23%Ommastrephes bartramii	0.04	0.9
ND3	11	29.76%	4.57	0.153	22.79%Amphioctopus fangsiao	30.23%	37.85%Ommastrephes bartramii	−0.13	0.7
ND4L	11	26.48%	2.86	0.108	22.56%Eledone cirrhosa	26.26%	32.66%Ommastrephes bartramii	−0.27	0.43
ND4	11	28.09%	4.08	0.145	21.63%Eledone cirrhosa	28.27%	34.36%Thysanoteuthis rhombus	−0.13	0.71
ND5	11	27.19%	4.30	0.158	20.70%Eledone cirrhosa	26.75%	34.86%Ommastrephes bartramii	−0.01	0.98
ND6	11	24.67%	4.42	0.179	18.97%Eledone cirrhosa	23.87%	34.12%Ommastrephes bartramii	−0.00	0.99
CYTB	11	30.82%	4.10	0.133	24.91%Amphioctopus fangsiao	30.35%	38.58%Ommastrephes bartramii	−0.14	0.67

Orders of Cephalopoda

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

Region

Parameter

Chart

Orders of Cephalopoda

Myopsida	4	28.26%	0.60	0.021	27.66%Uroteuthis duvaucelii	28.29%	28.82%Sepioteuthis lessoniana	–	–
Oegopsida	3	33.21%	2.70	0.081	30.28%Architeuthis dux	33.76%	35.60%Ommastrephes bartramii	–	–
Sepiida	2	26.91%	0.56	0.021	26.51%Acanthosepion esculentum	26.91%	27.31%Sepia officinalis	–	–
Octopoda	2	23.00%	0.27	0.012	22.81%Amphioctopus fangsiao	23.00%	23.19%Eledone cirrhosa	–	–

Codon usage

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

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

Cephalopoda 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.