title: RAD-Seq in O. tshawytscha from John Day, OR & Yakima River, WA
design: Restriction-site associated DNA (RAD) tag sequencing was carried out on genomic DNA samples sheared with the sbfI restriction enzyme.  Samples were sheared in isolation, and unique 6nt barcode sequences were ligated to the sheared sticky ends.  Multiple samples were then pooled into RAD libraries where each sample within a library had a barcode that differed from any other 6nt barcode by at least two bases. Barcoded sequences could then be demultiplexed from raw Illumina sequence data.  Individual name Location RAD_Library Barcode_Sequence  31508-MF-608 Middle Fork John Day RL-0045 AATGAG  31508-MF-638 Middle Fork John Day RL-0045 AGTAGG  31508-MF-662 Middle Fork John Day RL-0045 CCATTT  31508-MF-667 Middle Fork John Day RL-0045 CTACAG  31508-MF-679 Middle Fork John Day RL-0045 GCAGAT  31508-MF-699 Middle Fork John Day RL-0045 GTAAGT  31508-MF-741 Middle Fork John Day RL-0045 TCAAAG  31508-MF-757 Middle Fork John Day RL-0045 TTATGA  31508-MF-780 Middle Fork John Day RL-0045 ACAAGA  31508-MF-794 Middle Fork John Day RL-0045 AGTTAA  31508-NF-103 North Fork John Day RL-0045 CCCGGT  31508-NF-107 North Fork John Day RL-0045 CTCGCC  31508-NF-116 North Fork John Day RL-0045 GCATGG  31508-NF-118 North Fork John Day RL-0045 GTATCC  31508-NF-128 North Fork John Day RL-0045 TCCTGC  31508-NF-156 North Fork John Day RL-0045 TTCCGT  31508-NF-160 North Fork John Day RL-0045 ACAGCG  31508-NF-164 North Fork John Day RL-0045 ATAGTA  31508-NF-170 North Fork John Day RL-0045 CCCTAA  31508-NF-176 North Fork John Day RL-0045 CTGCGA  31508-NF-184 North Fork John Day RL-0045 GCCGTA  31508-NF-191 North Fork John Day RL-0045 GTCATC  31508-NF-197 North Fork John Day RL-0045 TCGATT  31508-NF-203 North Fork John Day RL-0045 TTCTAG  31508-NF-213 North Fork John Day RL-0045 ACATAC  31508-NF-214 North Fork John Day RL-0045 ATCAAA  31508-NF-229 North Fork John Day RL-0045 CCGAGG  31508-NF-287 North Fork John Day RL-0045 CTGGTT  31508-NF-344 North Fork John Day RL-0045 GCGACC  31508-NF-402 North Fork John Day RL-0045 GTGCCT  31508-NF-404 North Fork John Day RL-0045 TCGCCA  31508-NF-405 North Fork John Day RL-0045 TTGAGC  31508-NF-429 North Fork John Day RL-0045 ACCATG  31508-NF-449 North Fork John Day RL-0045 ATGCAC  31508-NF-450 North Fork John Day RL-0045 CCGCAT  31508-NF-457 North Fork John Day RL-0045 CTTATG  31508-NF-482 North Fork John Day RL-0045 GCGCTG  31508-NF-487 North Fork John Day RL-0045 GTGTAA  31508-NF-494 North Fork John Day RL-0045 TCGGAC  31508-NF-503 North Fork John Day RL-0045 TTTAAT  31508-NF-504 North Fork John Day RL-0045 ACCCCC  31508-NF-512 North Fork John Day RL-0045 ATGTTG  31508-NF-536 North Fork John Day RL-0045 CCTAAC  31508-NF-542 North Fork John Day RL-0045 CTTTGC  31508-NF-549 North Fork John Day RL-0045 GCTCAA  31508-NF-550 North Fork John Day RL-0045 GTTGGA  31508-NF-556 North Fork John Day RL-0045 TCTCGG  31508-NF-557 North Fork John Day RL-0045 TTTGTC  98FB-05 Yakima RL-0045 CGTCTA  98FB-08 Yakima RL-0045 TAGTAT  98FB-09 Yakima RL-0045 CGTGAT  98FB-11 Yakima RL-0045 AAACGG  98FB-12 Yakima RL-0045 AGGGTC  98FB-13 Yakima RL-0045 ATTCCG  98FB-18 Yakima RL-0045 TGGGGA  98FB-19 Yakima RL-0045 CAAAAA  98FB-20 Yakima RL-0045 AGGTGT  98FB-21 Yakima RL-0045 GGGCGC  98FB-22 Yakima RL-0045 GGTTTG  98FB-25 Yakima RL-0045 AACTGA  98FB-30 Yakima RL-0045 GATCGT  98FB-33 Yakima RL-0045 CGGTCC  98FB-41 Yakima RL-0045 GGGGCG  98FB-43 Yakima RL-0045 TACACA  98FB-44 Yakima RL-0045 GACTCT  98FB-45 Yakima RL-0045 AAGACG  98FB-46 Yakima RL-0045 AGCCAT  98FB-55 Yakima RL-0045 CGCAGA  98FB-56 Yakima RL-0045 TCTTCT  98FB-60 Yakima RL-0045 TGCCCG  98FB-61 Yakima RL-0045 GGTACA  98FB-62 Yakima RL-0045 CGCGTG  98FB-64 Yakima RL-0045 CGAGGC  98FB-66 Yakima RL-0045 TAATTC  98FB-67 Yakima RL-0045 GGCAAG  98FB-69 Yakima RL-0045 CAATCG  98FB-70 Yakima RL-0045 GAGAGA  98FB-71 Yakima RL-0045 GAACCA  98FB-74 Yakima RL-0045 CACCTC  98FB-75 Yakima RL-0045 CAGGCA  98FB-76 Yakima RL-0045 TAAGCT  98FB-77 Yakima RL-0045 TGCTTA  98FB-78 Yakima RL-0045 CATACT  98FB-81 Yakima RL-0045 AACGTT  98FB-84 Yakima RL-0045 TGAACC  98FB-85 Yakima RL-0045 AAGCTA  98FB-86 Yakima RL-0045 ACTGGC  98FB-87 Yakima RL-0045 GACGAC  98FB-88 Yakima RL-0045 AATATC  98FB-90 Yakima RL-0045 GAAATG  98FB-92 Yakima RL-0045 TACGGG  98FB-93 Yakima RL-0045 TGACAA  98FB-94 Yakima RL-0045 AGCGCA  98FB-96 Yakima RL-0045 GGACTT  98FB-97 Yakima RL-0045 TATCAC