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==Final Blueprint capture experiment results== * The capture setup for Index 6 provided the best results. * Mapping was performed without adapter end-trimming. * capture specificity = # on target bp / total usable bp * capture sensitivity = # target bp at 1x / target size * capture enrichment = # on target bp / target size {| {{table}} border=1 | align="center" style="background:#f0f0f0;"|'''index''' | align="center" style="background:#f0f0f0;"|'''total PE reads''' | align="center" style="background:#f0f0f0;"|'''total bps''' | align="center" style="background:#f0f0f0;"|'''total bps mapped''' | align="center" style="background:#f0f0f0;"|'''% bps mapped''' | align="center" style="background:#f0f0f0;"|'''total bps after clonal removal''' | align="center" style="background:#f0f0f0;"|'''% bps clonal''' | align="center" style="background:#f0f0f0;"|'''genome bp''' | align="center" style="background:#f0f0f0;"|'''average genome depth of coverage''' | align="center" style="background:#f0f0f0;"|'''total CpG depth of coverage''' | align="center" style="background:#f0f0f0;"|'''number of CpGs (1x)''' | align="center" style="background:#f0f0f0;"|'''average CpGs depth of coverage''' | align="center" style="background:#f0f0f0;"|'''capture specificity''' | align="center" style="background:#f0f0f0;"|'''capture sensitivity''' | align="center" style="background:#f0f0f0;"|'''capture enrichment''' | align="center" style="background:#f0f0f0;"|'''f/r correlation''' | align="center" style="background:#f0f0f0;"|'''f/r correlation (w/o clonal removal)''' | align="center" style="background:#f0f0f0;"|'''#mandatory CpG (max 16)''' | align="center" style="background:#f0f0f0;"|'''#recommended CpG (max 32)''' | align="center" style="background:#f0f0f0;"|'''#optional CpG (max 1024)''' |- | 1||546,091||273,045,500||109,362,218||40.05%||13,695,568||87.48%||439,410||31||736,350||16,720||44||82.77%||55.12%||35.07||0.8204||0.7376||8||22||675 |- | 2||1,201,482||600,741,000||223,904,642||37.27%||31,069,492||86.12%||700,376||44||1,638,154||23,633||69||83.07%||64.59%||79.85||0.7707||0.7222||10||23||786 |- | 3||2,107,061||1,053,530,500||337,353,528||32.02%||59,858,799||82.26%||1,448,705||41||3,082,267||42,205||73||80.03%||73.22%||148.22||0.8222||0.7619||10||27||869 |- | 4||1,576,107||788,053,500||276,382,437||35.07%||86,119,440||68.84%||2,394,363||36||4,322,851||67,792||64||82.13%||78.36%||218.84||0.8762||0.8343||12||29||920 |- | 5||2,416,376||1,208,188,000||497,412,146||41.17%||88,991,063||82.11%||1,618,255||55||4,617,178||47,342||98||84.13%||75.74%||231.64||0.8639||0.8170||11||27||898 |- | 6||2,025,366||1,012,683,000||386,996,516||38.21%||127,581,738||67.03%||3,036,498||42||6,328,115||81,327||78||84.30%||81.11%||332.75||0.9089||0.8677||12||30||946 |- | 7||1,632,245||816,122,500||396,514,234||48.59%||116,341,160||70.66%||1,499,425||78||6,022,204||44,654||135||90.63%||78.05%||326.23||0.9029||0.8467||12||28||919 |- | 8||2,699,273||1,349,636,500||614,958,148||45.56%||79,887,075||87.01%||1,314,474||61||4,271,697||38,539||111||87.39%||72.11%||216.01||0.8372||0.7962||11||27||852 |}
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