Alignment and maximum-likelihood phylogeny of SiWAKL6-related WAK/WAKL proteins

This dataset contains the protein alignment, maximum-likelihood tree and run log underlying Figure S2. Thirty WAK/WAKL-related proteins from 13 seed-plant species were retained after domain and topology quality control (NCBI CDD, SignalP 6.0, DeepTMHMM, Phobius). Sequences were aligned with MAFFT v7.526 (L-INS-I) and trimmed with trimAl (-gt 0.5), yielding 741 aligned positions with 5.91% gaps. The tree was inferred in IQ-TREE 3.1.3 under the JTT+I+R4 model selected by ModelFinder (BIC), with 1,000 SH-aLRT and 1,000 ultrafast bootstrap replicates (BNNI). Four gymnosperm proteins from three species were used as the outgroup. Files include the unaligned and aligned sequences, the trimmed alignment, the Newick tree, the IQ-TREE report and log, and the command lines used.