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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 2019-11-08, 16:11 based on data in: /beegfs/mk5636/logs/html/HW7CJAFXY/merged

        General Statistics

        Showing 136/136 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HW7CJAFXY_n01_AGL104_col_B_L
        43.4%
        38%
        10.0
        HW7CJAFXY_n01_AGL104_col_B_l-c
        47.7%
        35%
        3.3
        HW7CJAFXY_n01_AGL18_col_B_L
        0.9%
        37%
        0.0
        HW7CJAFXY_n01_AGL18_col_B_l-c
        55.7%
        37%
        8.0
        HW7CJAFXY_n01_AL_SPL9_r1_col_B_L
        28.8%
        39%
        0.9
        HW7CJAFXY_n01_AL_SPL9_r2_col_B_L
        1.8%
        27%
        0.0
        HW7CJAFXY_n01_Al_SPL9_col_B_l1-c
        28.8%
        39%
        0.9
        HW7CJAFXY_n01_Al_SPL9_col_B_l2-c
        3.8%
        43%
        0.0
        HW7CJAFXY_n01_C24SPL11_col_B_L
        40.3%
        36%
        2.0
        HW7CJAFXY_n01_C24SPL11_col_B_l-c
        42.5%
        37%
        1.2
        HW7CJAFXY_n01_C24SPL14_col_B_L
        0.0%
        36%
        0.0
        HW7CJAFXY_n01_C24SPL14_col_B_l-c
        48.4%
        36%
        0.4
        HW7CJAFXY_n01_C24SPL15m1_col_B_L
        47.4%
        36%
        2.6
        HW7CJAFXY_n01_C24SPL15m1_col_B_l-c
        41.9%
        36%
        4.5
        HW7CJAFXY_n01_C24SPL15m2_col_B_L
        36.4%
        31%
        1.8
        HW7CJAFXY_n01_C24SPL15m2_col_B_l-c
        79.4%
        37%
        10.1
        HW7CJAFXY_n01_C24SPL16_col_B_L
        43.0%
        36%
        1.8
        HW7CJAFXY_n01_C24SPL16_col_B_l-c
        44.8%
        36%
        0.3
        HW7CJAFXY_n01_COLSPL10_col_B_L
        1.2%
        33%
        0.0
        HW7CJAFXY_n01_COLSPL11_col_B_L
        44.8%
        36%
        0.3
        HW7CJAFXY_n01_COLSPL13_col_B_L
        45.6%
        37%
        2.1
        HW7CJAFXY_n01_COLSPL16_col_B_L
        42.2%
        36%
        1.0
        HW7CJAFXY_n01_COLSPL8_col_B_L
        32.5%
        36%
        2.7
        HW7CJAFXY_n01_ColSPL10_col_B_l-c
        61.5%
        36%
        2.7
        HW7CJAFXY_n01_ColSPL11_col_B_l-c
        43.0%
        36%
        1.8
        HW7CJAFXY_n01_ColSPL13_col_B_l-c
        57.5%
        36%
        1.6
        HW7CJAFXY_n01_ColSPL16_col_B_l-c
        42.2%
        36%
        1.0
        HW7CJAFXY_n01_ColSPL8_col_B_l-c
        58.4%
        37%
        1.0
        HW7CJAFXY_n01_DAZ1_col_B_L
        32.2%
        40%
        13.7
        HW7CJAFXY_n01_DAZ1_col_B_l-c
        32.2%
        40%
        13.7
        HW7CJAFXY_n01_DAZ2_col_B_L
        47.7%
        35%
        3.3
        HW7CJAFXY_n01_DAZ2_col_B_l-c
        43.4%
        38%
        10.0
        HW7CJAFXY_n01_DAZ3_col_B_L
        47.5%
        35%
        7.6
        HW7CJAFXY_n01_DAZ3_col_B_l-c
        47.2%
        42%
        18.0
        HW7CJAFXY_n01_DUO1_col_B_L
        58.4%
        37%
        1.0
        HW7CJAFXY_n01_DUO1_col_B_l-c
        32.5%
        36%
        2.7
        HW7CJAFXY_n01_DUO3_col_B_L
        42.5%
        37%
        1.2
        HW7CJAFXY_n01_DUO3_col_B_l-c
        40.3%
        36%
        2.0
        HW7CJAFXY_n01_HALO-CCA1_eGST-LHY1_col_B_L
        39.5%
        36%
        3.8
        HW7CJAFXY_n01_HALO-CCA1_eGST-LHY1_col_B_l-c
        19.1%
        39%
        0.1
        HW7CJAFXY_n01_HALO-bZIP53_eGST-bZIP63_col_B_L
        0.0%
        35%
        0.0
        HW7CJAFXY_n01_HALO-bZIP53_eGST-bZIP63_col_B_l-c
        18.3%
        41%
        0.2
        HW7CJAFXY_n01_HB26_col_B_L
        0.0%
        59%
        0.0
        HW7CJAFXY_n01_HB26_col_B_l-c
        32.7%
        36%
        2.4
        HW7CJAFXY_n01_HDL_col_B_L
        60.2%
        34%
        11.8
        HW7CJAFXY_n01_HDL_col_B_l-c
        60.2%
        34%
        11.7
        HW7CJAFXY_n01_LBD10_col_B_L
        0.0%
        68%
        0.0
        HW7CJAFXY_n01_LBD10_col_B_l-c
        49.6%
        36%
        2.1
        HW7CJAFXY_n01_MYC2_col_B_l-c
        47.4%
        35%
        7.6
        HW7CJAFXY_n01_MYC2_r2_col_B_L
        47.2%
        42%
        18.0
        HW7CJAFXY_n01_NAC_col_B_L
        19.1%
        39%
        0.1
        HW7CJAFXY_n01_NAC_col_B_l-c
        39.5%
        36%
        3.8
        HW7CJAFXY_n01_SG137_col_B_l-c
        38.1%
        34%
        3.8
        HW7CJAFXY_n01_SG137_r2_col_B_L
        38.1%
        34%
        3.8
        HW7CJAFXY_n01_SG138_col_B_l-c
        45.6%
        37%
        2.1
        HW7CJAFXY_n01_SG138_r2_col_B_L
        57.5%
        36%
        1.6
        HW7CJAFXY_n01_SG141_col_B_l-c
        47.4%
        36%
        2.6
        HW7CJAFXY_n01_SG141_r2_col_B_L
        41.9%
        36%
        4.5
        HW7CJAFXY_n01_SG162_col_B_l1-c
        36.4%
        31%
        1.8
        HW7CJAFXY_n01_SG162_col_B_l2-c
        50.8%
        32%
        5.7
        HW7CJAFXY_n01_SG162_r1_col_B_L
        79.4%
        37%
        10.1
        HW7CJAFXY_n01_SG162_r2_col_B_L
        0.0%
        45%
        0.0
        HW7CJAFXY_n01_SG163_col_B_l1-c
        32.0%
        36%
        0.9
        HW7CJAFXY_n01_SG163_col_B_l2-c
        0.0%
        34%
        0.0
        HW7CJAFXY_n01_SG163_r2_col_B_L
        54.1%
        33%
        5.9
        HW7CJAFXY_n01_SG91_col_B_l-c
        54.1%
        33%
        5.9
        HW7CJAFXY_n01_SG91_r2_col_B_L
        55.7%
        37%
        8.1
        HW7CJAFXY_n01_undetermined
        77.6%
        42%
        18.0
        HW7CJAFXY_n02_AGL104_col_B_L
        42.2%
        38%
        10.0
        HW7CJAFXY_n02_AGL104_col_B_l-c
        46.2%
        35%
        3.3
        HW7CJAFXY_n02_AGL18_col_B_L
        0.9%
        37%
        0.0
        HW7CJAFXY_n02_AGL18_col_B_l-c
        53.9%
        37%
        8.0
        HW7CJAFXY_n02_AL_SPL9_r1_col_B_L
        28.1%
        39%
        0.9
        HW7CJAFXY_n02_AL_SPL9_r2_col_B_L
        1.8%
        26%
        0.0
        HW7CJAFXY_n02_Al_SPL9_col_B_l1-c
        28.1%
        39%
        0.9
        HW7CJAFXY_n02_Al_SPL9_col_B_l2-c
        4.0%
        44%
        0.0
        HW7CJAFXY_n02_C24SPL11_col_B_L
        39.2%
        36%
        2.0
        HW7CJAFXY_n02_C24SPL11_col_B_l-c
        41.6%
        37%
        1.2
        HW7CJAFXY_n02_C24SPL14_col_B_L
        0.0%
        30%
        0.0
        HW7CJAFXY_n02_C24SPL14_col_B_l-c
        46.8%
        36%
        0.4
        HW7CJAFXY_n02_C24SPL15m1_col_B_L
        46.3%
        36%
        2.6
        HW7CJAFXY_n02_C24SPL15m1_col_B_l-c
        40.9%
        36%
        4.5
        HW7CJAFXY_n02_C24SPL15m2_col_B_L
        35.7%
        31%
        1.8
        HW7CJAFXY_n02_C24SPL15m2_col_B_l-c
        77.9%
        36%
        10.1
        HW7CJAFXY_n02_C24SPL16_col_B_L
        41.8%
        36%
        1.8
        HW7CJAFXY_n02_C24SPL16_col_B_l-c
        43.9%
        36%
        0.3
        HW7CJAFXY_n02_COLSPL10_col_B_L
        2.4%
        33%
        0.0
        HW7CJAFXY_n02_COLSPL11_col_B_L
        43.9%
        36%
        0.3
        HW7CJAFXY_n02_COLSPL13_col_B_L
        44.7%
        37%
        2.1
        HW7CJAFXY_n02_COLSPL16_col_B_L
        41.3%
        36%
        1.0
        HW7CJAFXY_n02_COLSPL8_col_B_L
        31.8%
        36%
        2.7
        HW7CJAFXY_n02_ColSPL10_col_B_l-c
        60.1%
        36%
        2.7
        HW7CJAFXY_n02_ColSPL11_col_B_l-c
        41.8%
        36%
        1.8
        HW7CJAFXY_n02_ColSPL13_col_B_l-c
        56.1%
        36%
        1.6
        HW7CJAFXY_n02_ColSPL16_col_B_l-c
        41.3%
        36%
        1.0
        HW7CJAFXY_n02_ColSPL8_col_B_l-c
        57.1%
        37%
        1.0
        HW7CJAFXY_n02_DAZ1_col_B_L
        31.5%
        40%
        13.7
        HW7CJAFXY_n02_DAZ1_col_B_l-c
        31.5%
        40%
        13.7
        HW7CJAFXY_n02_DAZ2_col_B_L
        46.2%
        35%
        3.3
        HW7CJAFXY_n02_DAZ2_col_B_l-c
        42.3%
        38%
        10.0
        HW7CJAFXY_n02_DAZ3_col_B_L
        46.2%
        35%
        7.6
        HW7CJAFXY_n02_DAZ3_col_B_l-c
        46.1%
        42%
        18.0
        HW7CJAFXY_n02_DUO1_col_B_L
        57.1%
        37%
        1.0
        HW7CJAFXY_n02_DUO1_col_B_l-c
        31.8%
        36%
        2.7
        HW7CJAFXY_n02_DUO3_col_B_L
        41.5%
        37%
        1.2
        HW7CJAFXY_n02_DUO3_col_B_l-c
        39.2%
        36%
        2.0
        HW7CJAFXY_n02_HALO-CCA1_eGST-LHY1_col_B_L
        38.5%
        36%
        3.8
        HW7CJAFXY_n02_HALO-CCA1_eGST-LHY1_col_B_l-c
        18.6%
        39%
        0.1
        HW7CJAFXY_n02_HALO-bZIP53_eGST-bZIP63_col_B_L
        0.0%
        33%
        0.0
        HW7CJAFXY_n02_HALO-bZIP53_eGST-bZIP63_col_B_l-c
        17.6%
        41%
        0.2
        HW7CJAFXY_n02_HB26_col_B_L
        0.0%
        60%
        0.0
        HW7CJAFXY_n02_HB26_col_B_l-c
        31.8%
        36%
        2.4
        HW7CJAFXY_n02_HDL_col_B_L
        57.1%
        35%
        11.8
        HW7CJAFXY_n02_HDL_col_B_l-c
        57.2%
        35%
        11.7
        HW7CJAFXY_n02_LBD10_col_B_L
        0.0%
        60%
        0.0
        HW7CJAFXY_n02_LBD10_col_B_l-c
        48.7%
        36%
        2.1
        HW7CJAFXY_n02_MYC2_col_B_l-c
        46.2%
        35%
        7.6
        HW7CJAFXY_n02_MYC2_r2_col_B_L
        46.1%
        42%
        18.0
        HW7CJAFXY_n02_NAC_col_B_L
        18.6%
        39%
        0.1
        HW7CJAFXY_n02_NAC_col_B_l-c
        38.6%
        36%
        3.8
        HW7CJAFXY_n02_SG137_col_B_l-c
        37.2%
        34%
        3.8
        HW7CJAFXY_n02_SG137_r2_col_B_L
        37.2%
        34%
        3.8
        HW7CJAFXY_n02_SG138_col_B_l-c
        44.7%
        37%
        2.1
        HW7CJAFXY_n02_SG138_r2_col_B_L
        56.1%
        36%
        1.6
        HW7CJAFXY_n02_SG141_col_B_l-c
        46.3%
        36%
        2.6
        HW7CJAFXY_n02_SG141_r2_col_B_L
        40.9%
        36%
        4.5
        HW7CJAFXY_n02_SG162_col_B_l1-c
        35.7%
        31%
        1.8
        HW7CJAFXY_n02_SG162_col_B_l2-c
        50.0%
        32%
        5.7
        HW7CJAFXY_n02_SG162_r1_col_B_L
        77.9%
        36%
        10.1
        HW7CJAFXY_n02_SG162_r2_col_B_L
        0.0%
        60%
        0.0
        HW7CJAFXY_n02_SG163_col_B_l1-c
        31.1%
        36%
        0.9
        HW7CJAFXY_n02_SG163_col_B_l2-c
        0.0%
        34%
        0.0
        HW7CJAFXY_n02_SG163_r2_col_B_L
        52.6%
        33%
        5.9
        HW7CJAFXY_n02_SG91_col_B_l-c
        52.7%
        33%
        5.9
        HW7CJAFXY_n02_SG91_r2_col_B_L
        53.8%
        37%
        8.1
        HW7CJAFXY_n02_undetermined
        76.6%
        43%
        18.0

        Demultiplexing Report

        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 35/35 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        18,038,705
        11.9
        DAZ1_col_B_l-c
        13,667,858
        9.0
        DAZ2_col_B_l-c
        9,950,432
        6.6
        DAZ3_col_B_l-c
        17,961,000
        11.8
        DUO1_col_B_l-c
        2,690,583
        1.8
        DUO3_col_B_l-c
        2,019,586
        1.3
        NAC_col_B_l-c
        3,761,744
        2.5
        LBD10_col_B_l-c
        2,147,257
        1.4
        HB26_col_B_l-c
        2,361,103
        1.6
        AGL104_col_B_l-c
        3,333,789
        2.2
        HDL_col_B_l-c
        11,736,446
        7.7
        AGL18_col_B_l-c
        8,040,561
        5.3
        MYC2_col_B_l-c
        7,575,866
        5.0
        SG91_col_B_l-c
        5,885,408
        3.9
        SG137_col_B_l-c
        3,763,534
        2.5
        SG138_col_B_l-c
        2,122,198
        1.4
        SG141_col_B_l-c
        2,587,161
        1.7
        SG162_col_B_l1-c
        1,808,500
        1.2
        SG162_col_B_l2-c
        5,677,383
        3.7
        SG163_col_B_l1-c
        921,988
        0.6
        SG163_col_B_l2-c
        8.0
        0.0
        ColSPL8_col_B_l-c
        995,159
        0.7
        ColSPL10_col_B_l-c
        2,734,771
        1.8
        ColSPL13_col_B_l-c
        1,605,357
        1.1
        ColSPL16_col_B_l-c
        1,004,342
        0.7
        ColSPL11_col_B_l-c
        1,779,061
        1.2
        C24SPL11_col_B_l-c
        1,217,454
        0.8
        C24SPL14_col_B_l-c
        364,782
        0.2
        C24SPL15m1_col_B_l-c
        4,505,802
        3.0
        C24SPL16_col_B_l-c
        268,953
        0.2
        Al_SPL9_col_B_l1-c
        858,284
        0.6
        Al_SPL9_col_B_l2-c
        1,366
        0.0
        HALO-CCA1_eGST-LHY1_col_B_l-c
        58,409
        0.0
        HALO-bZIP53_eGST-bZIP63_col_B_l-c
        190,339
        0.1
        C24SPL15m2_col_B_l-c
        10,100,546
        6.7

        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 (%)
        GGGGGGGGAGATCTCG
        13295776.0
        73.7
        GGGGGGGGAGGCTATA
        277292.0
        1.5
        CGCTCATTGGGGGGGG
        175800.0
        1.0
        TCCGGAGAGGGGGGGG
        168274.0
        0.9
        GGGGGGGGAGGATAGG
        151123.0
        0.8
        GGGGGGGGGCCTCTAT
        124606.0
        0.7
        ATTACTCGGGGGGGGG
        117212.0
        0.7
        CGCTCATTAGCTATAG
        103406.0
        0.6
        ATTACTCGAGCTATAG
        74840.0
        0.4
        TCCGGAGAAGCTATAG
        59975.0
        0.3
        GGGGGGGGTAAGATTA
        58081.0
        0.3
        GGGGGGGGTCAGAGCC
        44408.0
        0.2
        CTGAAGCTGGGGGGGG
        40581.0
        0.2
        ATTACTCGAGATAGGG
        40084.0
        0.2
        GGGGGGGGCTTCGCCT
        36849.0
        0.2
        TCCGGAGAAGATAGGG
        35930.0
        0.2
        CTGAAGCTAGATAGGG
        35446.0
        0.2
        ATTCAGAAGGGGGGGG
        31422.0
        0.2
        GAGATTCCGGGGGGGG
        28505.0
        0.2
        GAATTCGTGGGGGGGG
        28197.0
        0.2

        Run Statistics

        Run Statistics

        Showing 1/1 rows and 4/4 columns.
        Sample NameTotal # of Single-End ReadsTotal # PF Reads% Undetermined % PhiX Aligned
        4.0
        161,207,496
        151,735,735
        11.9
        8.8

        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 (76bp).

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

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