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Table 4 Statistics describing the distribution of different properties of RAD sequences after each step of filtering (FASTX-Toolkit), alignment to the eel draft genome (BOWTIE) and assemblage into loci (STACKS) in silver eels (SE) and glass eels (GE)

From: Signatures of natural selection between life cycle stages separated by metamorphosis in European eel

FASTX        
Group Raw reads Filtered reads % Eliminated Mean Q Q1 Med Q3 % A % C % G % T
SE 12234656 10692256 13.2 38.7 38 39.7 40 28.7 22.0 20.4 28.7
GE 9593701 7899505 17.8 38.7 38 39.4 40.2 29.5 20.7 20.4 29.4
BOWTIE        
Group Reads Aligned % Aligned Non-aligned % Non-aligned Discarded % Discarded
SE 10692256 7433827 69.3 2782716 26.3 475668 4.5
GE 7899505 5527660 70.0 2018833 26.0 353043 4.5
STACKS        
Group Reads Stacks Loci Loci used % Loci used Loci discarded % Loci discarded
SE 7433827 547017 348342 253864 73.9 94482 27.1
GE 5527660 526821 335343 217326 64.5 118016 35.5