README.fly ========== There are three files: 1. pgenes.all.gff is a GFF as follows: $1 = chromosome label (dmel_1_ = 2L arm; dmel_2_ = 2R arm; dmel_3_ = 3L arm; dmel_4_ = 3R arm; dmel_5_ = chr 4 ; dmel_6_ = chr X ) $2 = (fasty) $3 = (match) $4 = start coord $5 = end coord $6 = (.) $7 = sense (+ or -) $8 = (.) $9 = (Match) $10 = Name $11 = start of match in flybase sequence $12 = end of match in flybase sequence 2. pgenes.all.fasta contains the sequences in fasta format >Name ....sequence... 3. pgenes.mapped.R3.gff is a GFF (see 1 above for legend) An initial remapping of the pseudogenes onto Release 3 of the genome.