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        Note that additional data was saved in multiqc_data when this report was generated.

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        If you use plots from MultiQC in a publication or presentation, please cite:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        About MultiQC

        This report was generated using MultiQC, version 1.0.dev0

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

        For more information about MultiQC, including other videos and extensive documentation, please visit http://multiqc.info

        You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/ewels/MultiQC

        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2018-12-19, 09:12 based on data in: /beegfs/mk5636/logs/html/H7K2KAFXY/merged

        Welcome! Not sure where to start?   Watch a tutorial video   (6:06)

        General Statistics

        Showing 28/28 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        H7K2KAFXY_n01_1002.rh2
        47.8%
        40%
        13.1
        H7K2KAFXY_n01_1003.rh2
        51.8%
        39%
        13.3
        H7K2KAFXY_n01_1028.rh2
        45.9%
        39%
        11.1
        H7K2KAFXY_n01_1091.rh2
        51.4%
        40%
        12.6
        H7K2KAFXY_n01_1203.rh2
        44.5%
        39%
        10.0
        H7K2KAFXY_n01_1204.rh2
        43.3%
        39%
        10.1
        H7K2KAFXY_n01_1214.rh2
        43.5%
        39%
        10.5
        H7K2KAFXY_n01_1215b.rh2
        45.8%
        39%
        8.5
        H7K2KAFXY_n01_1394.rh2
        43.1%
        38%
        11.4
        H7K2KAFXY_n01_731.rh2
        48.5%
        39%
        13.3
        H7K2KAFXY_n01_768.rh2
        46.9%
        39%
        12.2
        H7K2KAFXY_n01_916.rh2
        51.5%
        39%
        14.1
        H7K2KAFXY_n01_976.rh2
        54.9%
        40%
        13.3
        H7K2KAFXY_n01_undetermined
        55.2%
        42%
        7.2
        H7K2KAFXY_n02_1002.rh2
        43.7%
        40%
        13.1
        H7K2KAFXY_n02_1003.rh2
        46.4%
        40%
        13.3
        H7K2KAFXY_n02_1028.rh2
        38.8%
        39%
        11.1
        H7K2KAFXY_n02_1091.rh2
        47.5%
        41%
        12.6
        H7K2KAFXY_n02_1203.rh2
        38.1%
        39%
        10.0
        H7K2KAFXY_n02_1204.rh2
        36.9%
        40%
        10.1
        H7K2KAFXY_n02_1214.rh2
        36.6%
        39%
        10.5
        H7K2KAFXY_n02_1215b.rh2
        39.0%
        39%
        8.5
        H7K2KAFXY_n02_1394.rh2
        34.4%
        40%
        11.4
        H7K2KAFXY_n02_731.rh2
        44.1%
        40%
        13.3
        H7K2KAFXY_n02_768.rh2
        43.6%
        40%
        12.2
        H7K2KAFXY_n02_916.rh2
        43.9%
        40%
        14.1
        H7K2KAFXY_n02_976.rh2
        49.5%
        40%
        13.3
        H7K2KAFXY_n02_undetermined
        52.1%
        45%
        7.2

        Demultiplexing Report

        Demultiplexing Report
        Total Read Count: Total number of PF (Passing Filter) reads in this library.
        Portion: The proportion of reads that represent the individual library in the entire Library Pool.

        Showing 14/14 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        7,248,217
        4.5
        1214.rh2
        10,514,616
        6.5
        1028.rh2
        11,139,090
        6.9
        1215b.rh2
        8,508,623
        5.3
        731.rh2
        13,318,233
        8.3
        1002.rh2
        13,068,464
        8.1
        1091.rh2
        12,582,814
        7.8
        768.rh2
        12,186,500
        7.6
        976.rh2
        13,331,678
        8.3
        1003.rh2
        13,313,693
        8.3
        916.rh2
        14,139,076
        8.8
        1394.rh2
        11,432,517
        7.1
        1203.rh2
        9,980,148
        6.2
        1204.rh2
        10,094,361
        6.3

        Run Statistics

        Run Statistics

        Showing 1/1 rows and 4/4 columns.
        Sample NameTotal # of Single-End ReadsTotal # PF Reads% Undetermined % PhiX Aligned
        4.0
        184,575,088
        160,858,030
        4.5
        1.8

        FastQC

        FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Quality Histograms
        28
        0
        0

        The mean quality value across each base position in the read. See the FastQC help.

        Created with Highcharts 5.0.6Position (bp)Phred ScoreChart context menuExport PlotMean Quality Scores102030405060700510152025303540Created with MultiQC

        Per Sequence Quality Scores
        28
        0
        0

        The number of reads with average quality scores. Shows if a subset of reads has poor quality. See the FastQC help.

        Created with Highcharts 5.0.6Mean Sequence Quality (Phred Score)CountChart context menuExport PlotPer Sequence Quality Scores0510152025303502M4M6M8M10MCreated with MultiQC

        Per Base Sequence Content
        0
        15
        13

        The proportion of each base position for which each of the four normal DNA bases has been called. See the FastQC help.

        Click a heatmap row to see a line plot for that dataset.

        rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content
        12
        1
        15

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content. See the FastQC help.

        Created with Highcharts 5.0.6%GCCountChart context menuExport PlotPer Sequence GC Content01020304050607080901000123456Created with MultiQC

        Per Base N Content
        28
        0
        0

        The percentage of base calls at each position for which an N was called. See the FastQC help.

        Created with Highcharts 5.0.6Position in Read (bp)Percentage N-CountChart context menuExport PlotPer Base N Content0102030405060700123456Created with MultiQC

        Sequence Length Distribution
        28
        0
        0

        All samples have sequences of a single length (76bp).

        Sequence Duplication Levels
        0
        22
        6

        The relative level of duplication found for every sequence. See the FastQC help.

        Created with Highcharts 5.0.6Sequence Duplication Level% of LibraryChart context menuExport PlotSequence Duplication Levels123456789>10>50>100>500>1k>5k>10k+020406080100Created with MultiQC

        Overrepresented sequences
        4
        11
        13

        The total amount of overrepresented sequences found in each library. See the FastQC help for further information.

        Created with Highcharts 5.0.6Percentage of Total SequencesChart context menuExport PlotOverrepresented sequencesTop over-represented sequenceSum of remaining over-represented sequencesH7K2KAFXY_n01_1002.rh2H7K2KAFXY_n01_1028.rh2H7K2KAFXY_n01_1203.rh2H7K2KAFXY_n01_1214.rh2H7K2KAFXY_n01_1394.rh2H7K2KAFXY_n01_768.rh2H7K2KAFXY_n01_976.rh2H7K2KAFXY_n02_1002.rh2H7K2KAFXY_n02_1028.rh2H7K2KAFXY_n02_1203.rh2H7K2KAFXY_n02_1214.rh2H7K2KAFXY_n02_1394.rh2H7K2KAFXY_n02_768.rh2H7K2KAFXY_n02_976.rh20%2%4%6%8%10%12%14%16%18%20%22%Created with MultiQC

        Adapter Content
        23
        3
        2

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. See the FastQC help. Only samples with ≥ 0.1% adapter contamination are shown.

        Created with Highcharts 5.0.6Position% of SequencesChart context menuExport PlotAdapter Content5101520253035404550556002.557.51012.515Created with MultiQC

        MultiQC v1.0.dev0 - Written by Phil Ewels, available on GitHub.

        This report uses HighCharts, jQuery, jQuery UI, Bootstrap, FileSaver.js and clipboard.js.