urocotyledon_reln_phased08_bestguesses

fasta file of haplotypes infered for reln dataset for all individuals, where positions whose phases were resolved with < 0.8 posterior probability are nevertheless coded with the respective best guesses for each base. (as in this dataset the different runs of PHASE (Stephens et al., 2001 - to be fund on manuscript references) were inconsistent at some positions we used results of the run with the highest likelihood score, whose seed (and command line) is given bellow. The known haplotypes used (uro_reln.known) were those read directly from sequences heterozigous for indels, and that can be found on genbank - accession numbers given in the paper). [phase comand line: ./PHASE -MS -p0.8 -q0.8 -d1 -s48993 -kuro_reln.known uro_reln.inp uro_reln.out 10000 1 100]