I entered the data to Arlequin and under Genetic structure, the AMOVA option is not active, is this related to input data? The other options are active and will run the analysis. I enclosed the file.
Dear Mahnaz, AMOVA requires hierarchical grouping of the populations. Go to structure editor, and group your populations with a numerical tag (1,2,3..), then click "update project"... now the AMOVA options are unlocked!
AMOVA is active now, but in the results I got following warning for all locus. Do you what is the reason for these warnings?
"Locus by locus AMOVA: ******************** Distance method for locus-by-locus analysis: Pairwise difference #[WARNING # 1] : A population does not contain any data for a given locus #[WARNING # 2] : A population does not contain any data for a given locus #[WARNING # 3] : A population does not contain any data for a given locus #[WARNING # 4] : A population does not contain any data for a given locus #[WARNING # 5] : A population does not contain any data for a given locus #[WARNING # 6] : A population does not contain any data for a given locus"