SSR: all the detected SSR in samples are stored in files with the same name. It is composed by the columns: sample ID, sequence ID, sequence motif, start and end coordinates for SSR, motif length, length of repeat and RPKM value. This value is a normalized measure of counting reads mapped to motif per kilobase per million reads. Detected SSRs ranked by RPKM values provides SSRs markers that are more reliable for experimental validation. SSR sample files in ZIP format
SNP: the SNPs are stored in a single file with the columns attributes: sequence, position, reference allele and sample names. SNP file in TSV format
Miscellaneous:
Script 1: Script used to extract the ORFs from the transcripts nucleotide file (FASTA). get_longest_orf.py
