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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 0.9

        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 2017-03-23, 13:03 based on data in: /mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/HJNJTAFXX/merged

        General Statistics

        Showing 148/148 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HJNJTAFXX_n01_minidip01_01
        8.6%
        37%
        0.4
        HJNJTAFXX_n01_minidip01_02
        26.2%
        39%
        4.7
        HJNJTAFXX_n01_minidip01_03
        17.0%
        40%
        1.7
        HJNJTAFXX_n01_minidip01_04
        20.9%
        40%
        2.8
        HJNJTAFXX_n01_minidip01_05
        18.0%
        41%
        3.3
        HJNJTAFXX_n01_minidip01_06
        1.5%
        38%
        0.0
        HJNJTAFXX_n01_minidip01_07
        20.2%
        40%
        3.1
        HJNJTAFXX_n01_minidip01_08
        22.9%
        40%
        3.9
        HJNJTAFXX_n01_minidip01_09
        7.3%
        37%
        0.3
        HJNJTAFXX_n01_minidip01_10
        20.1%
        39%
        2.5
        HJNJTAFXX_n01_minidip01_11
        2.4%
        43%
        0.0
        HJNJTAFXX_n01_minidip01_12
        14.7%
        43%
        1.9
        HJNJTAFXX_n01_minidip01_13
        0.8%
        41%
        0.0
        HJNJTAFXX_n01_minidip01_14
        19.3%
        39%
        2.5
        HJNJTAFXX_n01_minidip01_15
        20.2%
        40%
        2.3
        HJNJTAFXX_n01_minidip01_16
        0.7%
        41%
        0.0
        HJNJTAFXX_n01_minidip01_17
        9.0%
        37%
        0.5
        HJNJTAFXX_n01_minidip01_18
        22.9%
        41%
        3.1
        HJNJTAFXX_n01_minidip01_19
        22.6%
        42%
        3.0
        HJNJTAFXX_n01_minidip01_20
        18.5%
        41%
        2.1
        HJNJTAFXX_n01_minidip01_21
        12.6%
        40%
        0.9
        HJNJTAFXX_n01_minidip01_22
        26.5%
        41%
        4.2
        HJNJTAFXX_n01_minidip01_23
        32.4%
        41%
        5.2
        HJNJTAFXX_n01_minidip01_24
        19.3%
        42%
        3.2
        HJNJTAFXX_n01_minidip01_25
        8.2%
        37%
        0.4
        HJNJTAFXX_n01_minidip01_26
        25.0%
        44%
        3.1
        HJNJTAFXX_n01_minidip01_27
        8.5%
        39%
        0.5
        HJNJTAFXX_n01_minidip01_28
        12.6%
        52%
        1.9
        HJNJTAFXX_n01_minidip01_29
        0.9%
        38%
        0.0
        HJNJTAFXX_n01_minidip01_30
        28.5%
        40%
        3.0
        HJNJTAFXX_n01_minidip01_31
        22.9%
        45%
        1.8
        HJNJTAFXX_n01_minidip01_32
        21.0%
        40%
        3.1
        HJNJTAFXX_n01_minidip01_33
        7.9%
        37%
        0.3
        HJNJTAFXX_n01_minidip01_34
        26.4%
        44%
        2.5
        HJNJTAFXX_n01_minidip01_35
        16.0%
        51%
        1.9
        HJNJTAFXX_n01_minidip01_36
        13.1%
        59%
        2.3
        HJNJTAFXX_n01_minidip01_37
        10.7%
        37%
        0.6
        HJNJTAFXX_n01_minidip01_38
        30.1%
        43%
        3.2
        HJNJTAFXX_n01_minidip01_39
        27.8%
        43%
        2.1
        HJNJTAFXX_n01_minidip01_40
        19.6%
        40%
        2.7
        HJNJTAFXX_n01_minidip01_41
        9.4%
        37%
        0.6
        HJNJTAFXX_n01_minidip01_42
        18.1%
        43%
        1.6
        HJNJTAFXX_n01_minidip01_43
        19.4%
        43%
        1.6
        HJNJTAFXX_n01_minidip01_44
        20.7%
        40%
        1.9
        HJNJTAFXX_n01_minidip01_45
        9.7%
        37%
        0.5
        HJNJTAFXX_n01_minidip01_46
        22.0%
        41%
        2.4
        HJNJTAFXX_n01_minidip01_47
        0.7%
        40%
        0.0
        HJNJTAFXX_n01_minidip01_48
        17.6%
        40%
        2.5
        HJNJTAFXX_n01_minidip01_49
        19.5%
        41%
        2.7
        HJNJTAFXX_n01_minidip01_50
        22.0%
        39%
        2.7
        HJNJTAFXX_n01_minidip01_51
        14.0%
        40%
        0.8
        HJNJTAFXX_n01_minidip01_52
        16.3%
        39%
        1.4
        HJNJTAFXX_n01_minidip01_53
        18.6%
        40%
        3.3
        HJNJTAFXX_n01_minidip01_54
        18.8%
        41%
        2.7
        HJNJTAFXX_n01_minidip01_55
        22.1%
        40%
        2.7
        HJNJTAFXX_n01_minidip01_56
        9.5%
        37%
        0.5
        HJNJTAFXX_n01_minidip01_57
        24.6%
        40%
        4.4
        HJNJTAFXX_n01_minidip01_58
        20.5%
        39%
        1.7
        HJNJTAFXX_n01_minidip01_59
        0.0%
        40%
        0.0
        HJNJTAFXX_n01_minidip01_60
        17.7%
        39%
        1.9
        HJNJTAFXX_n01_minidip01_61
        0.0%
        39%
        0.0
        HJNJTAFXX_n01_minidip01_62
        17.3%
        38%
        1.7
        HJNJTAFXX_n01_minidip01_63
        25.7%
        39%
        3.8
        HJNJTAFXX_n01_minidip01_64
        10.9%
        37%
        0.6
        HJNJTAFXX_n01_minidip01_65
        0.0%
        40%
        0.0
        HJNJTAFXX_n01_minidip01_66
        0.0%
        40%
        0.0
        HJNJTAFXX_n01_minidip01_67
        0.0%
        41%
        0.0
        HJNJTAFXX_n01_minidip01_68
        1.2%
        39%
        0.2
        HJNJTAFXX_n01_minidip01_69
        0.0%
        39%
        0.0
        HJNJTAFXX_n01_minidip01_70
        0.0%
        37%
        0.0
        HJNJTAFXX_n01_minidip01_71
        50.9%
        42%
        2.1
        HJNJTAFXX_n01_minidip01_72
        50.7%
        43%
        2.2
        HJNJTAFXX_n01_minidip01_73
        72.5%
        45%
        1.6
        HJNJTAFXX_n01_minidip01_74
        70.6%
        46%
        2.3
        HJNJTAFXX_n02_minidip01_01
        7.7%
        37%
        0.4
        HJNJTAFXX_n02_minidip01_02
        25.5%
        39%
        4.7
        HJNJTAFXX_n02_minidip01_03
        16.6%
        40%
        1.7
        HJNJTAFXX_n02_minidip01_04
        19.7%
        40%
        2.8
        HJNJTAFXX_n02_minidip01_05
        17.7%
        42%
        3.3
        HJNJTAFXX_n02_minidip01_06
        1.9%
        38%
        0.0
        HJNJTAFXX_n02_minidip01_07
        20.0%
        40%
        3.1
        HJNJTAFXX_n02_minidip01_08
        21.9%
        40%
        3.9
        HJNJTAFXX_n02_minidip01_09
        6.9%
        37%
        0.3
        HJNJTAFXX_n02_minidip01_10
        20.3%
        39%
        2.5
        HJNJTAFXX_n02_minidip01_11
        2.9%
        43%
        0.0
        HJNJTAFXX_n02_minidip01_12
        14.6%
        43%
        1.9
        HJNJTAFXX_n02_minidip01_13
        0.8%
        41%
        0.0
        HJNJTAFXX_n02_minidip01_14
        18.7%
        39%
        2.5
        HJNJTAFXX_n02_minidip01_15
        19.6%
        41%
        2.3
        HJNJTAFXX_n02_minidip01_16
        1.3%
        41%
        0.0
        HJNJTAFXX_n02_minidip01_17
        8.7%
        38%
        0.5
        HJNJTAFXX_n02_minidip01_18
        21.5%
        41%
        3.1
        HJNJTAFXX_n02_minidip01_19
        21.9%
        42%
        3.0
        HJNJTAFXX_n02_minidip01_20
        17.9%
        41%
        2.1
        HJNJTAFXX_n02_minidip01_21
        11.9%
        40%
        0.9
        HJNJTAFXX_n02_minidip01_22
        25.6%
        41%
        4.2
        HJNJTAFXX_n02_minidip01_23
        31.4%
        41%
        5.2
        HJNJTAFXX_n02_minidip01_24
        19.1%
        42%
        3.2
        HJNJTAFXX_n02_minidip01_25
        7.9%
        37%
        0.4
        HJNJTAFXX_n02_minidip01_26
        24.7%
        44%
        3.1
        HJNJTAFXX_n02_minidip01_27
        7.7%
        39%
        0.5
        HJNJTAFXX_n02_minidip01_28
        12.8%
        52%
        1.9
        HJNJTAFXX_n02_minidip01_29
        0.5%
        39%
        0.0
        HJNJTAFXX_n02_minidip01_30
        27.0%
        41%
        3.0
        HJNJTAFXX_n02_minidip01_31
        24.2%
        45%
        1.8
        HJNJTAFXX_n02_minidip01_32
        20.2%
        40%
        3.1
        HJNJTAFXX_n02_minidip01_33
        7.3%
        37%
        0.3
        HJNJTAFXX_n02_minidip01_34
        25.5%
        44%
        2.5
        HJNJTAFXX_n02_minidip01_35
        16.0%
        51%
        1.9
        HJNJTAFXX_n02_minidip01_36
        13.5%
        59%
        2.3
        HJNJTAFXX_n02_minidip01_37
        9.8%
        37%
        0.6
        HJNJTAFXX_n02_minidip01_38
        29.5%
        43%
        3.2
        HJNJTAFXX_n02_minidip01_39
        26.7%
        43%
        2.1
        HJNJTAFXX_n02_minidip01_40
        19.2%
        40%
        2.7
        HJNJTAFXX_n02_minidip01_41
        8.7%
        37%
        0.6
        HJNJTAFXX_n02_minidip01_42
        18.1%
        43%
        1.6
        HJNJTAFXX_n02_minidip01_43
        19.1%
        43%
        1.6
        HJNJTAFXX_n02_minidip01_44
        19.8%
        40%
        1.9
        HJNJTAFXX_n02_minidip01_45
        8.9%
        37%
        0.5
        HJNJTAFXX_n02_minidip01_46
        21.0%
        41%
        2.4
        HJNJTAFXX_n02_minidip01_47
        0.7%
        42%
        0.0
        HJNJTAFXX_n02_minidip01_48
        17.5%
        40%
        2.5
        HJNJTAFXX_n02_minidip01_49
        19.5%
        41%
        2.7
        HJNJTAFXX_n02_minidip01_50
        21.7%
        39%
        2.7
        HJNJTAFXX_n02_minidip01_51
        14.1%
        40%
        0.8
        HJNJTAFXX_n02_minidip01_52
        15.5%
        39%
        1.4
        HJNJTAFXX_n02_minidip01_53
        18.6%
        40%
        3.3
        HJNJTAFXX_n02_minidip01_54
        19.3%
        41%
        2.7
        HJNJTAFXX_n02_minidip01_55
        21.7%
        40%
        2.7
        HJNJTAFXX_n02_minidip01_56
        9.0%
        37%
        0.5
        HJNJTAFXX_n02_minidip01_57
        23.9%
        40%
        4.4
        HJNJTAFXX_n02_minidip01_58
        19.4%
        39%
        1.7
        HJNJTAFXX_n02_minidip01_59
        0.0%
        40%
        0.0
        HJNJTAFXX_n02_minidip01_60
        17.2%
        39%
        1.9
        HJNJTAFXX_n02_minidip01_61
        0.6%
        38%
        0.0
        HJNJTAFXX_n02_minidip01_62
        16.3%
        38%
        1.7
        HJNJTAFXX_n02_minidip01_63
        24.4%
        39%
        3.8
        HJNJTAFXX_n02_minidip01_64
        10.2%
        38%
        0.6
        HJNJTAFXX_n02_minidip01_65
        0.0%
        38%
        0.0
        HJNJTAFXX_n02_minidip01_66
        0.0%
        34%
        0.0
        HJNJTAFXX_n02_minidip01_67
        0.0%
        37%
        0.0
        HJNJTAFXX_n02_minidip01_68
        1.2%
        39%
        0.2
        HJNJTAFXX_n02_minidip01_69
        0.0%
        40%
        0.0
        HJNJTAFXX_n02_minidip01_70
        0.0%
        38%
        0.0
        HJNJTAFXX_n02_minidip01_71
        48.4%
        43%
        2.1
        HJNJTAFXX_n02_minidip01_72
        49.2%
        43%
        2.2
        HJNJTAFXX_n02_minidip01_73
        71.4%
        45%
        1.6
        HJNJTAFXX_n02_minidip01_74
        69.5%
        46%
        2.3

        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.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

        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.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

        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.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

        Per Base N Content

        The percentage of base calls at each position for which an N was called. See the FastQC help.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

        Sequence Length Distribution

        All samples have sequences of a single length (75bp).

        Sequence Duplication Levels

        The relative level of duplication found for every sequence. See the FastQC help.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

        Overrepresented sequences

        The total amount of overrepresented sequences found in each library. See the FastQC help for further information.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

        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.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

        MultiQC v0.9 - Written by Phil Ewels, available on GitHub.

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