2016-12-06: for D. rotoundata reference
This fasta is our original De novo assembly of D. rotundata.
2016-12-06: for population genomics
-fastq: these are all raw reads, not filtered by quarity.
These are the SNP matrix summarizing SNPs at all SNP positions for all accessions.
go to "download folder" provided by Google Drive
These SNP files are tab separated text file. The first 2 lines are header. Both headers are started by "chr" and "position". The "chr" columns indicates the chromosome or contig name in reference sequence. The "position" columns indicates the position of SNP.
The first header describes the sample names using 3 columns, the second header describes the data within 3 columns. The "cons" indicates the consensus base of SNP, the "depth" indicates the depth of aligned reads on the SNP position and the index indicates depth index value if that SNP is valid.
If the value of the index column is shown with "_", the consensus base is the same as the reference base.
If the value of the three columns are shown with "- NA NA" or "- - -", there is no aligned reads about this sample.