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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 2019-04-03, 21:04 based on data in: /beegfs/mk5636/logs/html/CBKDUACXX/8

        General Statistics

        Showing 20/20 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        CBKDUACXX_l08_n01_S1W1
        72.2%
        52%
        27.3
        CBKDUACXX_l08_n01_S1W2
        70.5%
        52%
        29.5
        CBKDUACXX_l08_n01_S1W3
        67.4%
        51%
        25.5
        CBKDUACXX_l08_n01_S1W4
        69.6%
        52%
        28.1
        CBKDUACXX_l08_n01_S1W5
        68.5%
        52%
        27.4
        CBKDUACXX_l08_n01_S1W6
        71.2%
        53%
        30.2
        CBKDUACXX_l08_n01_S1W7
        68.1%
        50%
        23.1
        CBKDUACXX_l08_n01_S1W8
        69.9%
        53%
        28.4
        CBKDUACXX_l08_n01_S1W9
        73.6%
        52%
        33.9
        CBKDUACXX_l08_n01_undetermined
        92.2%
        45%
        13.1
        CBKDUACXX_l08_n02_S1W1
        71.8%
        55%
        27.3
        CBKDUACXX_l08_n02_S1W2
        71.8%
        54%
        29.5
        CBKDUACXX_l08_n02_S1W3
        69.2%
        53%
        25.5
        CBKDUACXX_l08_n02_S1W4
        71.0%
        54%
        28.1
        CBKDUACXX_l08_n02_S1W5
        70.3%
        54%
        27.4
        CBKDUACXX_l08_n02_S1W6
        72.7%
        54%
        30.2
        CBKDUACXX_l08_n02_S1W7
        68.9%
        52%
        23.1
        CBKDUACXX_l08_n02_S1W8
        71.4%
        54%
        28.4
        CBKDUACXX_l08_n02_S1W9
        75.1%
        54%
        33.9
        CBKDUACXX_l08_n02_undetermined
        91.3%
        45%
        13.1

        Lane 8 Demultiplexing Report

        Lane 8 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 10/10 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        13,111,639
        4.9
        S1W1
        27,338,506
        10.3
        S1W2
        29,504,452
        11.1
        S1W3
        25,494,301
        9.6
        S1W4
        28,115,490
        10.5
        S1W5
        27,407,853
        10.3
        S1W6
        30,226,067
        11.3
        S1W7
        23,105,928
        8.7
        S1W8
        28,429,907
        10.7
        S1W9
        33,897,302
        12.7

        Barcodes of Undetermined Reads

        Barcodes of Undetermined Reads
        We have determined the barcodes of your undetermined reads (reads containing a barcode that you did not encode in your metadata). Here are the top 20 barcodes belonging to the undetermined reads. The full list is available here.

        Showing 20/20 rows and 2/2 columns.
        Sample NameCountFrequency (%)
        TAAGTT
        149403.0
        1.1
        TAACTT
        105298.0
        0.8
        TAAGGT
        103511.0
        0.8
        CCCCCC
        97687.0
        0.8
        TAACGT
        89671.0
        0.7
        CCACCC
        83051.0
        0.6
        CAAGTT
        82535.0
        0.6
        TCAGTT
        76765.0
        0.6
        CAACCC
        73583.0
        0.6
        CAACTT
        73087.0
        0.6
        CCCCGC
        70017.0
        0.5
        CAACGT
        66596.0
        0.5
        TACCTT
        64162.0
        0.5
        TACGTT
        62416.0
        0.5
        CAAGGT
        60639.0
        0.5
        TCACTT
        59116.0
        0.5
        CACCGC
        58674.0
        0.5
        TACCGT
        57244.0
        0.4
        CCAGTT
        56599.0
        0.4
        CACCCC
        55224.0
        0.4

        Lane Statistics

        Lane Statistics

        Showing 1/1 rows and 4/4 columns.
        Sample NameTotal # of Single-End ReadsTotal # PF Reads% Undetermined % PhiX Aligned
        8.0
        282,533,600
        266,631,445
        4.9
        5.2

        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 (51bp).

        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.

        20 samples had less than 1% of reads made up of overrepresented sequences

        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.