- Each line corresponds to the assembly of two to five CARs (column 1). “AGORA alternative” indicates that all CARs (+) or some CARs (CAR number shown) are merged as a single CAR in alternative AGORA reconstructions with different parameters. “Ensembl v.84” indicates that all CARS (+) or some CARs (CAR number shown) are merged in an AGORA reconstruction of the Amniota genome based on a more recent version of Ensembl (v. 84). “Chicken or human synteny” indicates that all assembled CARs are homologous to the same chicken (+) or human (x) chromosome. “Spotted gar synteny” indicates that assembled CARs are homologous to the same spotted GAR chromosome. Gar-chicken 1:1 indicates that assembled CARs are homologous to the same gar and chicken chromosomes. Double conserved synteny with medaka indicates that the assembled CARs are syntenic with the same pairs of chromosomes in the medaka genome. Greyed columns indicate that at least one of these conditions must be fulfilled for assembling CARs. Non-greyed columns are supporting evidence but dispensable conditions. A full description of the table can be found in Additional file 1
