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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 2019-04-10, 17:04 based on data in: /beegfs/mk5636/logs/html/CBY82ACXX/3

        General Statistics

        Showing 20/20 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        CBY82ACXX_l03_n01_A1S1
        68.2%
        52%
        23.9
        CBY82ACXX_l03_n01_A1S2
        68.9%
        53%
        24.8
        CBY82ACXX_l03_n01_A1S3
        66.9%
        53%
        25.4
        CBY82ACXX_l03_n01_A1S4
        68.2%
        52%
        27.0
        CBY82ACXX_l03_n01_A1S5
        67.3%
        53%
        24.5
        CBY82ACXX_l03_n01_A1S6
        65.7%
        52%
        22.5
        CBY82ACXX_l03_n01_A1S7
        57.4%
        50%
        14.1
        CBY82ACXX_l03_n01_A1S8
        60.2%
        51%
        23.7
        CBY82ACXX_l03_n01_A1S9
        65.2%
        52%
        19.4
        CBY82ACXX_l03_n01_undetermined
        91.6%
        45%
        18.6
        CBY82ACXX_l03_n02_A1S1
        70.2%
        54%
        23.9
        CBY82ACXX_l03_n02_A1S2
        70.6%
        54%
        24.8
        CBY82ACXX_l03_n02_A1S3
        69.3%
        54%
        25.4
        CBY82ACXX_l03_n02_A1S4
        70.5%
        54%
        27.0
        CBY82ACXX_l03_n02_A1S5
        69.6%
        54%
        24.5
        CBY82ACXX_l03_n02_A1S6
        67.2%
        54%
        22.5
        CBY82ACXX_l03_n02_A1S7
        59.5%
        52%
        14.1
        CBY82ACXX_l03_n02_A1S8
        62.4%
        52%
        23.7
        CBY82ACXX_l03_n02_A1S9
        67.4%
        54%
        19.4
        CBY82ACXX_l03_n02_undetermined
        90.5%
        45%
        18.6

        Lane 3 Demultiplexing Report

        Lane 3 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
        18,636,126
        8.3
        A1S1
        23,931,659
        10.7
        A1S2
        24,767,146
        11.1
        A1S3
        25,357,257
        11.3
        A1S4
        26,959,356
        12.0
        A1S5
        24,528,422
        11.0
        A1S6
        22,546,348
        10.1
        A1S7
        14,090,550
        6.3
        A1S8
        23,657,364
        10.6
        A1S9
        19,380,970
        8.7

        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 (%)
        CCCCCC
        104044.0
        0.6
        CGCCCC
        76893.0
        0.4
        CACCCC
        73453.0
        0.4
        CGGCCC
        72039.0
        0.4
        TAGGCA
        67197.0
        0.4
        CTCCCC
        64946.0
        0.3
        CAGCCC
        63723.0
        0.3
        CCCCCA
        61282.0
        0.3
        CGCCCA
        61105.0
        0.3
        CCGCCC
        57987.0
        0.3
        CCCCCT
        57347.0
        0.3
        GCCCAA
        53473.0
        0.3
        GATGTA
        51708.0
        0.3
        TGCCCC
        51378.0
        0.3
        CCGCTC
        50209.0
        0.3
        CGGCCA
        49658.0
        0.3
        GCCCCT
        48387.0
        0.3
        GACCAA
        47317.0
        0.2
        CCGGTC
        46229.0
        0.2
        CCCCAC
        45049.0
        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
        3.0
        233,598,048
        223,855,198
        8.3
        8.7

        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.