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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 2019-04-24, 20:04 based on data in: /beegfs/mk5636/logs/html/CCRMBACXX/8

        General Statistics

        Showing 20/20 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        CCRMBACXX_l08_n01_S2S1
        67.9%
        52%
        29.2
        CCRMBACXX_l08_n01_S2S2
        68.7%
        53%
        34.6
        CCRMBACXX_l08_n01_S2S3
        57.2%
        51%
        27.6
        CCRMBACXX_l08_n01_S2S4
        60.2%
        50%
        30.1
        CCRMBACXX_l08_n01_S2S5
        62.0%
        52%
        17.4
        CCRMBACXX_l08_n01_S2S6
        62.1%
        50%
        24.0
        CCRMBACXX_l08_n01_S2S7
        61.2%
        51%
        20.3
        CCRMBACXX_l08_n01_S2S8
        66.4%
        52%
        25.5
        CCRMBACXX_l08_n01_S2S9
        64.1%
        52%
        25.1
        CCRMBACXX_l08_n01_undetermined
        86.4%
        46%
        19.1
        CCRMBACXX_l08_n02_S2S1
        68.6%
        54%
        29.2
        CCRMBACXX_l08_n02_S2S2
        70.7%
        55%
        34.6
        CCRMBACXX_l08_n02_S2S3
        60.6%
        53%
        27.6
        CCRMBACXX_l08_n02_S2S4
        63.7%
        52%
        30.1
        CCRMBACXX_l08_n02_S2S5
        64.3%
        54%
        17.4
        CCRMBACXX_l08_n02_S2S6
        64.0%
        53%
        24.0
        CCRMBACXX_l08_n02_S2S7
        62.9%
        53%
        20.3
        CCRMBACXX_l08_n02_S2S8
        67.6%
        54%
        25.5
        CCRMBACXX_l08_n02_S2S9
        66.4%
        54%
        25.1
        CCRMBACXX_l08_n02_undetermined
        86.4%
        46%
        19.1

        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
        19,071,788
        7.5
        S2S1
        29,226,336
        11.6
        S2S2
        34,616,156
        13.7
        S2S3
        27,621,332
        10.9
        S2S4
        30,089,003
        11.9
        S2S5
        17,449,136
        6.9
        S2S6
        23,956,761
        9.5
        S2S7
        20,298,362
        8.0
        S2S8
        25,483,476
        10.1
        S2S9
        25,142,216
        9.9

        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 (%)
        GGCCAA
        496447.0
        2.6
        GGATCA
        429298.0
        2.2
        TTTAGG
        190669.0
        1.0
        NNNNNN
        153337.0
        0.8
        GGATAA
        111749.0
        0.6
        TAGGCA
        75151.0
        0.4
        GATGTA
        73892.0
        0.4
        GCCCAA
        72906.0
        0.4
        CCCCCC
        67540.0
        0.3
        CCGCCC
        54317.0
        0.3
        TTAAGG
        54209.0
        0.3
        ATACGA
        52834.0
        0.3
        GCTCCG
        50742.0
        0.3
        GACCAA
        50625.0
        0.3
        ATCAGA
        50352.0
        0.3
        CAGCCC
        49375.0
        0.3
        GAGGAC
        48813.0
        0.3
        CCGCTC
        48337.0
        0.2
        ACTGAA
        47421.0
        0.2
        CGGCCC
        47187.0
        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
        8.0
        267,818,112
        252,954,566
        7.5
        6.9

        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.