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AlnContext:
Tsv: "context.tsv"
Ref: "../SIRV_150601a.fasta"
LeftShift: -10
RightShift: 10
RegexStart: "T{4,}"
RegexEnd: "A{4,}"
Stranded: True
Invert: True
Dump:
Tsv: "dump.tsv"
Fields: ["Read", "Ref", "Pos", "EndPos", "MapQual", "Acc", "Match", "Mismatch", "Ins", "Del", "AlnLen", " ReadLen", "RefLen", "RefAln", "RefCov", "ReadAln", "ReadCov", "Strand", "MeanQual", "LeftClip", "RightClip", "Flags", "IsSec", " IsSup", "ReadSeq", "ReadAlnSeq", "LeftSoftClipSeq", "RightSoftClip", "LeftHardClip", "RightHardClip"]
AccStats:
Tsv: "-"
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