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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 2019-05-05, 01:05 based on data in: /beegfs/mk5636/logs/html/CCLM1ACXX/4

        General Statistics

        Showing 20/20 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        CCLM1ACXX_l04_n01_D3W1
        66.3%
        53%
        22.1
        CCLM1ACXX_l04_n01_D3W2
        69.2%
        53%
        29.5
        CCLM1ACXX_l04_n01_D3W3
        65.7%
        53%
        23.7
        CCLM1ACXX_l04_n01_D3W4
        67.6%
        53%
        25.8
        CCLM1ACXX_l04_n01_D3W5
        67.0%
        52%
        25.0
        CCLM1ACXX_l04_n01_D3W6
        70.3%
        52%
        41.4
        CCLM1ACXX_l04_n01_D3W7
        65.1%
        52%
        25.7
        CCLM1ACXX_l04_n01_D3W8
        64.1%
        52%
        23.4
        CCLM1ACXX_l04_n01_D3W9
        66.1%
        53%
        23.0
        CCLM1ACXX_l04_n01_undetermined
        92.9%
        45%
        15.0
        CCLM1ACXX_l04_n02_D3W1
        67.3%
        55%
        22.1
        CCLM1ACXX_l04_n02_D3W2
        70.2%
        55%
        29.5
        CCLM1ACXX_l04_n02_D3W3
        67.1%
        55%
        23.7
        CCLM1ACXX_l04_n02_D3W4
        68.4%
        55%
        25.8
        CCLM1ACXX_l04_n02_D3W5
        67.3%
        55%
        25.0
        CCLM1ACXX_l04_n02_D3W6
        71.3%
        55%
        41.4
        CCLM1ACXX_l04_n02_D3W7
        66.1%
        54%
        25.7
        CCLM1ACXX_l04_n02_D3W8
        65.1%
        54%
        23.4
        CCLM1ACXX_l04_n02_D3W9
        66.7%
        55%
        23.0
        CCLM1ACXX_l04_n02_undetermined
        91.3%
        45%
        15.0

        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 (%)
        TAAGTT
        133212.0
        0.9
        TAAGGT
        131180.0
        0.9
        TAACGT
        110798.0
        0.7
        CAAGGT
        101477.0
        0.7
        TAAGGG
        99556.0
        0.7
        CAAGTT
        98514.0
        0.7
        CAAGGG
        98330.0
        0.7
        TAACTT
        90817.0
        0.6
        CAACGT
        83210.0
        0.6
        TAAGTG
        80904.0
        0.5
        CAAGTG
        74443.0
        0.5
        CAACGC
        72463.0
        0.5
        CAAGGC
        68567.0
        0.5
        CCCCGC
        65969.0
        0.4
        CAACTT
        65357.0
        0.4
        TACCGT
        63641.0
        0.4
        CACCGC
        63634.0
        0.4
        TCAGTT
        60471.0
        0.4
        TAACGC
        59813.0
        0.4
        TACGGT
        59666.0
        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
        4.0
        269,911,520
        254,549,582
        5.9
        6.3

        Lane 4 Demultiplexing Report

        Lane 4 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
        15,034,845
        5.9
        D3W1
        22,079,996
        8.7
        D3W2
        29,532,913
        11.6
        D3W3
        23,717,402
        9.3
        D3W4
        25,793,366
        10.1
        D3W5
        25,000,734
        9.8
        D3W6
        41,361,514
        16.2
        D3W7
        25,656,616
        10.1
        D3W8
        23,395,447
        9.2
        D3W9
        22,976,749
        9.0

        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 (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.

        No samples found with any adapter contamination > 0.1%

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

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