These are alignments from Onyshchenko, Ruck, Nakov and Alverson 2018: Single loss of photosynthesis in diatoms 16s.afa - Chloroplast 16s alignment of data from NCBI and newly generated data from the Alverson lab. Aligned with ssu-align agains the bacterial covariance model and masked to remove poorly aligned regions with default settings. cob.afa - Mitochondrial cob alignment of newly generated data from the Alverson lab. lsu.afa - Nuclear 28s alignment of newly generated data from the Alverson lab. Aligned with ssu-align against a heterokont covariance model of secondary structure and masked to remove poorly aligned regions with default settings. lsu-w-ncbi.afa - Nuclear 28s alignment of data from NCBI and newly generated data from the alverson lab. Aligned with ssu-align against a heterokont covariance model of secondary structure and masked to remove poorly aligned regions with default settings. mito.afa - Concatenation of cob and nad alignmnets. (new data only) mito-lsu.afa - Concatenation of cob, nad, and 28s alignmnets. (new data only) mito-ncbi-lsu.afa - Concatenation of cob, nad, and 28s alignments. (both new data and data from NCBI for 28s) nad.afa - Mitochondrial nad1 alignment of newly generated data from the Alverson lab. Nitz-meta-data.csv - Meta data for newly generated sequences.