Upcoming Ensembl Platform Transition

This is the final release of its kind on this website.

In summer 2026, this site will bring you to the new Ensembl platform currently at beta.ensembl.org.
Please bookmark this archive to retain access to the current site, tools and functionality until they are available on the new platform -> jun2026.archive.ensembl.org

 
Ensembl Home
More ▼
Search »
In this section
Related content

10 fowl Cactus

This alignment has been generated in Ensembl release 112.

API access

This alignment set can be accessed using the Compara API via the Bio::EnsEMBL::DBSQL::MethodLinkSpeciesSetAdaptor using the method_link_type "CACTUS_HAL" and the species_set_name "collection-fowl".

HAL configuration

HAL alignments require further configuration. See the instructions in our README.

SpeciesAssemblyGenome length (bp)Genome coverage (bp)Genome coverage (%)
Muscovy Duck (domestic type) (Cairina moschata domestica)CaiMos1.01,109,207,2011,059,427,35595.51
Mallard (Anas platyrhynchos)ASM874695v11,211,992,7561,076,064,13388.78
Pink-footed goose (Anser brachyrhynchus)ASM259213v11,116,992,3941,055,058,53994.46
Helmeted guineafowl (Numida meleagris)NumMel1.01,043,264,150973,047,43293.27
Chicken (Red Jungle fowl) (Gallus gallus)GRCg6a1,065,365,4251,019,139,63395.66
Chicken (Gallus gallus)bGalGal1.mat.broiler.GRCg7b1,053,332,2511,027,947,84297.59
Chicken (paternal White leghorn layer) (Gallus gallus)bGalGal1.pat.whiteleghornlayer.GRCg7w1,048,336,6601,025,178,53097.79
Indian peafowl (Pavo cristatus)AIIM_Pcri_1.01,027,510,962993,516,11296.69
Ring-necked pheasant (Phasianus colchicus)ASM414374v11,017,507,340959,048,88494.25
Japanese quail (Coturnix japonica)Coturnix_japonica_2.0927,656,957859,635,94792.67

Cactus coverage calculation

Cactus coverage values are obtained from the output of halAlignmentDepth (Hickey et al. 2013), then aggregated per genome.