Val of reads showing similarity to sequences of non-coding RNA (100 bp tiling fragments with 50 bp overlaps were used as queries) (ILLUMINACLIP:non_coding_rnas:4:40: 12 MINLEN:81, for positive matches the whole pair was discarded) and adapter and quality trimming on the second step (ILLUMINACLIP:adapters:2:40:9 LEADING:15TRAILING:15 MINLEN:36). After each step of contamination removal a quality co
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