Alignment Statistics



Sample Reference size (Mbp) Throughput mean depth (X) De-duplicated reads De-duplicated reads % (out of total reads) Mappable reads (reads mapped to reference) Mappable reads % (out of de-duplicated reads Mappable mean depth (X)
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  •     · Reference size (Mbp) : Reference size.
  •     · Throughput mean depth (X) : {Total yield} / {Reference size}.
  •     · De-duplicated reads : Number of de-duplicated reads
  •     · De-duplicated reads %(out of total reads) : 100 * {Number of de-duplicated reads} / {Total reads}.
  •     · Mappable reads(reads mappaed to reference) : Number of mappable reads.
  •     · Mappable reads %(out of de-duplicated reads : 100 * {Number of mappable reads} / {Number of de-duplicated reads}.
  •     · Mappable mean depth (X) : {Mappable yield} / {Reference size}.


Sample % >= 1X coverage % >= 5X coverage % >= 10X coverage % >= 15X coverage % >= 20X coverage % >= 30X coverage
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  •     · % Coverage : The percentage of bases in target regions with a depth of coverage or greater.




Sample Fragment length median Standard deviation
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  •     · Fragment length median : Median of fragment lengths.
  •     · Standard deviation : Standard deviation of fragment length.