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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 2019-11-20, 20:11 based on data in: /beegfs/mk5636/logs/html/H3CG5BCX3/2

        General Statistics

        Showing 18/18 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        H3CG5BCX3_l02_n01_FFHUW
        66.6%
        45%
        29.9
        H3CG5BCX3_l02_n01_FFLW
        62.8%
        45%
        27.3
        H3CG5BCX3_l02_n01_FFS-2
        51.6%
        46%
        24.9
        H3CG5BCX3_l02_n01_FHUW
        45.3%
        46%
        27.7
        H3CG5BCX3_l02_n01_FLW
        37.6%
        46%
        19.7
        H3CG5BCX3_l02_n01_RHW-2
        36.7%
        46%
        17.7
        H3CG5BCX3_l02_n01_RLS-2
        38.1%
        48%
        25.0
        H3CG5BCX3_l02_n01_RLW
        37.5%
        46%
        24.6
        H3CG5BCX3_l02_n01_undetermined
        72.9%
        45%
        10.6
        H3CG5BCX3_l02_n02_FFHUW
        52.4%
        44%
        29.9
        H3CG5BCX3_l02_n02_FFLW
        49.7%
        44%
        27.3
        H3CG5BCX3_l02_n02_FFS-2
        39.7%
        45%
        24.9
        H3CG5BCX3_l02_n02_FHUW
        32.7%
        46%
        27.7
        H3CG5BCX3_l02_n02_FLW
        27.5%
        45%
        19.7
        H3CG5BCX3_l02_n02_RHW-2
        26.9%
        46%
        17.7
        H3CG5BCX3_l02_n02_RLS-2
        28.1%
        47%
        25.0
        H3CG5BCX3_l02_n02_RLW
        27.7%
        45%
        24.6
        H3CG5BCX3_l02_n02_undetermined
        44.3%
        45%
        10.6

        Lane 2 Demultiplexing Report

        Lane 2 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 9/9 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        10,624,470
        5.1
        RHW-2
        17,660,393
        8.5
        FFHUW
        29,892,905
        14.4
        FHUW
        27,700,734
        13.4
        RLW
        24,553,915
        11.8
        FFLW
        27,263,280
        13.2
        FLW
        19,667,829
        9.5
        RLS-2
        25,030,142
        12.1
        FFS-2
        24,879,086
        12.0

        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 (%)
        NNNNNNNN
        84987.0
        0.8
        AGGCANGA
        75577.0
        0.7
        CTCTCNGC
        46962.0
        0.4
        CGTACNAA
        31356.0
        0.3
        AAGAGNAA
        29716.0
        0.3
        CGAGGNTA
        29426.0
        0.3
        GTACTAGA
        26700.0
        0.2
        GTCGTNAA
        26164.0
        0.2
        ACCACNAT
        25309.0
        0.2
        GAGGCTGA
        25306.0
        0.2
        AGAGGCAA
        23390.0
        0.2
        AGTACNAG
        23108.0
        0.2
        AAGCANAA
        22961.0
        0.2
        ACCACNGA
        22616.0
        0.2
        ACAACNGT
        22369.0
        0.2
        GTAGANGG
        21995.0
        0.2
        CGGCANAA
        21902.0
        0.2
        GTAGANAA
        21051.0
        0.2
        AGACANAA
        20627.0
        0.2
        GTAGTNAT
        20560.0
        0.2

        Lane Statistics

        Lane Statistics

        Showing 1/1 rows and 4/4 columns.
        Sample NameTotal # of Single-End ReadsTotal # PF Reads% Undetermined % PhiX Aligned
        2.0
        226,817,248
        207,272,754
        5.1
        3.8

        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

        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 (101bp).

        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.

        18 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.