Brown trout (Salmo trutta) RAD data set of 12204 sequences each containing one or two SNPs, and subset of 245 clean RADS for KASPAR genotyping
FIle "12204RADsFinal" : Brown trout (Salmo trutta) RAD data set of 12204 sequences each containing one or two SNPs with minimum allele frequency of 5% or higher, no SNPs in the first or last 30 bp of the RAD, no unsequenced nucleotides, and which can be positioned on the S. trutta linkage map. This file contains for each RAD, identification (Locus_ID ), chromosome on Atlantic Salmon CHROMsalar), linkage group on the Brown trout linkage map (LG_Trutta),Position on the brown trout linkage group (Pos_cM_Trutta), positions on the Atlantic salmon chromosome (POSsalar_snp1, POSsalar_snp2), position of the SNP on the Rad tag (POStag_snp1, POStag_snp2), recombination rate ( recombination_rate_cM.Mb), sequence of the tag (TAG), sequencing direction (Orientation), and position of the rad (POS_RAD).
File "SNPsLowDensityFinal245": Subset of 245 clean RADS for KASPAR genotyping.
This file contains for each SNP, identification (SNP_ID), linkage group on the Brown trout linkage map (LG_Trutta), position of the SNP on the Rad tag (POStag_snp), recombination rate (recombination_rate_cM.Mb), sequence of the tag (TAG_sequence).
It also gives success at genotyping information:
- listSuccessTests162 : SNPs which have been genotyped (when TRUE) in the five river basins tested for genotyping success.
- listTaurion182: SNPs which have been genotyped (when TRUE) in the five river basins tested for genotyping success, and added SNPs which have been genotyped in the Taurion basin (after removing the 30 which did not work in the five basins, then the 10 which did not work in the Taurion).
