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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 2018-12-05, 04:12 based on data in: /beegfs/mk5636/logs/html/HGCG7BGX9/merged

        General Statistics

        Showing 31/31 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HGCG7BGX9_n01_AH01
        20.9%
        49%
        11.7
        HGCG7BGX9_n01_AH02
        32.0%
        48%
        12.0
        HGCG7BGX9_n01_AH03
        24.4%
        49%
        14.0
        HGCG7BGX9_n01_AH04
        28.3%
        49%
        16.6
        HGCG7BGX9_n01_AH05
        22.1%
        49%
        11.3
        HGCG7BGX9_n01_AH06
        21.7%
        50%
        19.0
        HGCG7BGX9_n01_AH07
        22.5%
        49%
        11.6
        HGCG7BGX9_n01_AH08
        18.9%
        49%
        14.5
        HGCG7BGX9_n01_AH09
        36.5%
        48%
        12.5
        HGCG7BGX9_n01_AH10
        30.8%
        49%
        12.5
        HGCG7BGX9_n01_AH11
        19.5%
        50%
        12.9
        HGCG7BGX9_n01_AH12
        19.2%
        49%
        13.2
        HGCG7BGX9_n01_AH13
        20.5%
        49%
        12.2
        HGCG7BGX9_n01_AH14
        24.0%
        49%
        12.0
        HGCG7BGX9_n01_AH15
        27.6%
        48%
        10.6
        HGCG7BGX9_n01_AH16
        20.0%
        50%
        10.4
        HGCG7BGX9_n01_AH17
        18.8%
        49%
        13.5
        HGCG7BGX9_n01_AH18
        17.4%
        50%
        11.6
        HGCG7BGX9_n01_AH19
        20.5%
        49%
        16.0
        HGCG7BGX9_n01_AH20
        25.4%
        50%
        18.6
        HGCG7BGX9_n01_AH21
        29.9%
        49%
        13.1
        HGCG7BGX9_n01_AH22
        26.9%
        49%
        11.9
        HGCG7BGX9_n01_AH23
        26.5%
        49%
        14.0
        HGCG7BGX9_n01_AH24
        19.7%
        50%
        16.2
        HGCG7BGX9_n01_AH25
        32.6%
        48%
        10.4
        HGCG7BGX9_n01_AH26
        28.9%
        48%
        11.0
        HGCG7BGX9_n01_AH27
        35.1%
        48%
        10.1
        HGCG7BGX9_n01_AH28
        33.4%
        48%
        10.6
        HGCG7BGX9_n01_AH29
        37.0%
        48%
        11.6
        HGCG7BGX9_n01_AH30
        29.2%
        49%
        11.1
        HGCG7BGX9_n01_undetermined
        47.9%
        46%
        20.6

        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 31/31 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        20,589,537
        5.1
        AH01
        11,660,050
        2.9
        AH02
        11,954,482
        2.9
        AH03
        13,975,363
        3.4
        AH04
        16,609,468
        4.1
        AH05
        11,256,802
        2.8
        AH06
        19,031,790
        4.7
        AH07
        11,585,765
        2.8
        AH08
        14,512,528
        3.6
        AH09
        12,514,648
        3.1
        AH10
        12,471,594
        3.1
        AH11
        12,875,692
        3.2
        AH12
        13,204,182
        3.2
        AH13
        12,178,658
        3.0
        AH14
        12,026,183
        3.0
        AH15
        10,588,868
        2.6
        AH16
        10,396,112
        2.6
        AH17
        13,544,786
        3.3
        AH18
        11,637,184
        2.9
        AH19
        16,034,429
        3.9
        AH20
        18,629,971
        4.6
        AH21
        13,089,224
        3.2
        AH22
        11,896,746
        2.9
        AH23
        14,028,250
        3.4
        AH24
        16,236,178
        4.0
        AH25
        10,436,826
        2.6
        AH26
        10,982,223
        2.7
        AH27
        10,055,909
        2.5
        AH28
        10,586,438
        2.6
        AH29
        11,609,785
        2.9
        AH30
        11,081,435
        2.7

        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
        447,958,600
        407,281,106
        5.1
        2.0

        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

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

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        Per Sequence Quality Scores

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

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        Per Base Sequence Content

        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

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

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        Per Base N Content

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

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        Sequence Length Distribution

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

        Sequence Duplication Levels

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

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        Overrepresented sequences

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

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        Adapter Content

        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.

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

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