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        Download the raw data used to create the plots in this report below:

        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 1.8

        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 2021-06-08, 22:22 based on data in: /gscratch/scrubbed/sr320/060821-bigC


        General Statistics

        Showing 46/46 rows and 6/8 columns.
        Sample Name% mCpG% mCHG% mCHHM C's% Dups% Aligned
        0501_R1
        13.4%
        1.0%
        1.0%
        1.9
        5.2%
        59.6%
        0502_R1
        13.1%
        1.1%
        1.0%
        1.9
        4.8%
        59.3%
        0503_R1
        14.2%
        1.0%
        1.1%
        1.8
        5.0%
        59.4%
        3501_R1
        12.5%
        1.0%
        1.0%
        1.9
        5.1%
        60.9%
        3502_R1
        12.6%
        1.0%
        0.9%
        1.9
        5.4%
        61.0%
        3503_R1
        13.3%
        1.0%
        1.0%
        1.8
        4.2%
        57.3%
        5201_R1
        12.3%
        0.9%
        0.9%
        1.7
        5.0%
        60.9%
        5202_R1
        11.8%
        0.9%
        0.9%
        2.0
        4.8%
        60.9%
        5203_R1
        13.6%
        1.1%
        1.1%
        1.8
        4.7%
        58.4%
        5901_R1
        13.3%
        1.0%
        1.0%
        1.9
        5.5%
        59.8%
        5902_R1
        12.2%
        0.9%
        0.9%
        2.0
        5.2%
        60.7%
        5903_R1
        12.2%
        1.3%
        1.3%
        2.0
        4.0%
        59.4%
        zr3534_10_R1
        9.8%
        0.4%
        0.5%
        1.3
        10.4%
        61.9%
        zr3534_1_R1
        10.0%
        0.5%
        0.5%
        1.3
        10.9%
        61.6%
        zr3534_2_R1
        9.8%
        0.5%
        0.5%
        1.3
        10.0%
        61.1%
        zr3534_3_R1
        11.6%
        0.5%
        0.5%
        1.4
        9.6%
        60.8%
        zr3534_4_R1
        10.8%
        0.5%
        0.5%
        1.3
        10.5%
        61.8%
        zr3534_5_R1
        11.1%
        0.5%
        0.5%
        1.3
        10.3%
        61.4%
        zr3534_6_R1
        10.2%
        0.5%
        0.5%
        1.3
        10.5%
        60.9%
        zr3534_7_R1
        10.0%
        0.5%
        0.5%
        1.4
        9.5%
        61.3%
        zr3534_8_R1
        10.1%
        0.4%
        0.5%
        1.3
        11.5%
        61.7%
        zr3534_9_R1
        9.8%
        0.5%
        0.5%
        1.4
        9.9%
        61.9%
        zr3644_10_R1
        10.3%
        0.5%
        0.5%
        1.4
        6.5%
        61.2%
        zr3644_11_R1
        10.0%
        0.5%
        0.5%
        1.4
        6.7%
        61.0%
        zr3644_12_R1
        9.6%
        0.4%
        0.5%
        1.4
        6.3%
        61.4%
        zr3644_13_R1
        10.1%
        0.5%
        0.5%
        1.4
        7.2%
        61.8%
        zr3644_14_R1
        11.5%
        0.5%
        0.5%
        1.4
        6.5%
        62.1%
        zr3644_15_R1
        10.9%
        0.5%
        0.5%
        1.4
        6.5%
        61.4%
        zr3644_16_R1
        10.2%
        0.5%
        0.5%
        1.3
        7.0%
        61.7%
        zr3644_17_R1
        10.1%
        0.5%
        0.5%
        1.4
        7.1%
        61.8%
        zr3644_18_R1
        10.2%
        0.5%
        0.5%
        1.4
        6.2%
        62.4%
        zr3644_19_R1
        9.9%
        0.5%
        0.5%
        1.4
        5.9%
        61.4%
        zr3644_1_R1
        9.3%
        0.5%
        0.5%
        1.4
        6.6%
        62.5%
        zr3644_20_R1
        9.8%
        0.5%
        0.5%
        1.4
        6.8%
        61.6%
        zr3644_21_R1
        10.2%
        0.5%
        0.5%
        1.4
        6.8%
        61.4%
        zr3644_22_R1
        10.0%
        0.5%
        0.5%
        1.4
        6.5%
        61.8%
        zr3644_23_R1
        10.0%
        0.5%
        0.5%
        1.4
        6.7%
        61.3%
        zr3644_24_R1
        9.9%
        0.5%
        0.5%
        1.4
        6.7%
        62.3%
        zr3644_2_R1
        10.0%
        0.5%
        0.5%
        1.4
        6.8%
        61.0%
        zr3644_3_R1
        10.0%
        0.5%
        0.5%
        1.4
        6.0%
        61.2%
        zr3644_4_R1
        10.1%
        0.5%
        0.5%
        1.4
        6.8%
        61.3%
        zr3644_5_R1
        9.9%
        0.5%
        0.5%
        1.4
        6.3%
        61.4%
        zr3644_6_R1
        10.1%
        0.5%
        0.5%
        1.4
        6.3%
        61.9%
        zr3644_7_R1
        10.3%
        0.5%
        0.5%
        1.4
        5.8%
        60.6%
        zr3644_8_R1
        10.2%
        0.5%
        0.5%
        1.4
        6.1%
        61.1%
        zr3644_9_R1
        10.6%
        0.5%
        0.5%
        1.3
        7.2%
        61.1%

        Bismark

        Bismark is a tool to map bisulfite converted sequence reads and determine cytosine methylation states.

        Alignment Rates

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        Deduplication

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        Strand Alignment

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        Cytosine Methylation

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        M-Bias

        This plot shows the average percentage methylation and coverage across reads. See the bismark user guide for more information on how these numbers are generated.

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