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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 2020-06-11, 04:06 based on data in: /beegfs/mk5636/logs/html/HCCY2BGXF/merged

        Welcome! Not sure where to start?   Watch a tutorial video   (6:06)

        General Statistics

        Showing 67/67 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HCCY2BGXF_n01_ColSPL16_Col-B_p2xDna
        39.1%
        37%
        5.6
        HCCY2BGXF_n01_ColSPL9E169G_Col-B_p
        35.8%
        37%
        4.6
        HCCY2BGXF_n01_bZIP11_Col-B_p1
        26.9%
        40%
        11.0
        HCCY2BGXF_n01_bZIP11_Col-B_p2
        24.7%
        41%
        11.7
        HCCY2BGXF_n01_bZIP1_Col-B_p1
        33.8%
        39%
        8.5
        HCCY2BGXF_n01_bZIP1_Col-B_p2
        29.3%
        39%
        4.3
        HCCY2BGXF_n01_bZIP2_Col-B_p1
        34.1%
        39%
        6.8
        HCCY2BGXF_n01_bZIP2_Col-B_p2
        34.0%
        39%
        7.3
        HCCY2BGXF_n01_bZIP44_Col-B_p1
        23.6%
        41%
        11.8
        HCCY2BGXF_n01_bZIP44_Col-B_p2
        23.5%
        41%
        10.2
        HCCY2BGXF_n01_bZIP53_Col-B_p1
        34.2%
        37%
        5.7
        HCCY2BGXF_n01_bZIP53_Col-B_p2
        41.8%
        38%
        10.1
        HCCY2BGXF_n01_bZIP63_Col-B_p
        42.4%
        39%
        27.1
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP11_Col..h-B_p1
        29.6%
        41%
        8.9
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP11_Col..h-B_p2
        30.0%
        41%
        8.9
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP1_Col..h-B_p1
        27.6%
        40%
        5.4
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP1_Col..h-B_p2
        29.7%
        40%
        7.1
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP2_Col..h-B_p1
        40.3%
        37%
        3.5
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP2_Col..h-B_p2
        39.1%
        37%
        3.1
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP44_Col..h-B_p1
        38.0%
        41%
        7.9
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP44_Col..h-B_p2
        34.6%
        40%
        8.6
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP53_Col..h-B_p1
        33.6%
        37%
        6.6
        HCCY2BGXF_n01_ph-bZIP10..ps-bZIP53_Col..h-B_p2
        43.6%
        37%
        4.4
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP11_Col..h-B_p1
        24.4%
        41%
        12.9
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP11_Col..h-B_p2
        25.7%
        41%
        15.1
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP1_Col..h-B_p1
        31.7%
        37%
        4.1
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP1_Col..h-B_p2
        30.1%
        37%
        3.6
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP2_Col..h-B_p1
        34.2%
        37%
        3.7
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP2_Col..h-B_p2
        31.5%
        37%
        3.1
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP44_Col..h-B_p1
        36.7%
        37%
        4.1
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP44_Col..h-B_p2
        33.2%
        37%
        3.5
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP53_Col..h-B_p1
        35.3%
        37%
        5.8
        HCCY2BGXF_n01_ph-bZIP25..ps-bZIP53_Col..h-B_p2
        39.0%
        37%
        3.9
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP11_Col..h-B_p1
        24.1%
        40%
        7.5
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP11_Col..h-B_p2
        24.7%
        40%
        7.5
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP1_Col..h-B_p1
        28.4%
        39%
        7.4
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP1_Col..h-B_p2
        28.1%
        39%
        6.9
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP2_Col..h-B_p1
        32.4%
        38%
        5.0
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP2_Col..h-B_p2
        31.1%
        37%
        4.2
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP44_Col..h-B_p1
        33.5%
        39%
        7.4
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP44_Col..h-B_p2
        30.9%
        39%
        5.8
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP53_Col..h-B_p1
        34.3%
        37%
        4.3
        HCCY2BGXF_n01_ph-bZIP63..ps-bZIP53_Col..h-B_p2
        31.6%
        37%
        5.3
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP11_Col..h-B_p1
        28.5%
        41%
        13.5
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP11_Col..h-B_p2
        29.4%
        41%
        17.5
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP1_Col..h-B_p1
        33.6%
        37%
        4.1
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP1_Col..h-B_p2
        34.2%
        37%
        4.3
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP2_Col..h-B_p1
        35.9%
        37%
        3.7
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP2_Col..h-B_p2
        37.1%
        37%
        2.8
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP44_Col..h-B_p1
        31.4%
        41%
        10.0
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP44_Col..h-B_p2
        35.4%
        42%
        15.8
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP53_Col..h-B_p1
        34.3%
        37%
        6.8
        HCCY2BGXF_n01_ph-bZIP9..ps-bZIP53_Col..h-B_p2
        32.5%
        37%
        6.2
        HCCY2BGXF_n01_ps-bZIP1..ph-bZIP11_Col..s-B..h-B_p
        77.0%
        37%
        9.2
        HCCY2BGXF_n01_ps-bZIP1..ph-vec_Col..h-B_p
        45.5%
        37%
        6.7
        HCCY2BGXF_n01_ps-bZIP10..ph-bZIP9_Col..h-B_p
        41.8%
        37%
        5.7
        HCCY2BGXF_n01_ps-bZIP11..ph-vec_Col..h-B_p
        45.8%
        37%
        5.8
        HCCY2BGXF_n01_ps-bZIP2..ph-vec_Col..h-B_p
        48.0%
        37%
        6.0
        HCCY2BGXF_n01_ps-bZIP25..ph-bZIP9_Col..h-B_p
        35.4%
        37%
        2.9
        HCCY2BGXF_n01_ps-bZIP44..ph-vec_Col..h-B_p
        44.8%
        37%
        5.2
        HCCY2BGXF_n01_ps-bZIP53..ph-bZIP10_Col..s-B..h-B_p
        71.3%
        36%
        5.3
        HCCY2BGXF_n01_ps-bZIP63..ph-bZIP9_Col..h-B_p
        24.9%
        41%
        13.3
        HCCY2BGXF_n01_ps-bZIP9..ph-bZIP10_Col..h-B_p
        25.7%
        40%
        12.9
        HCCY2BGXF_n01_ps-bZIP9..ph-bZIP25_Col..h-B_p
        40.0%
        37%
        10.9
        HCCY2BGXF_n01_ps-bZIP9..ph-bZIP63_Col..h-B_p
        26.4%
        41%
        15.5
        HCCY2BGXF_n01_ps-bZIP9..ph-bZIP9_Col..h-B_p
        38.4%
        37%
        4.8
        HCCY2BGXF_n01_undetermined
        37.2%
        44%
        25.5

        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 67/67 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        25,487,569
        4.9
        bZIP1_Col-B_p1
        8,497,165
        1.6
        bZIP1_Col-B_p2
        4,311,452
        0.8
        bZIP2_Col-B_p1
        6,757,057
        1.3
        bZIP2_Col-B_p2
        7,266,105
        1.4
        bZIP11_Col-B_p1
        11,044,101
        2.1
        bZIP11_Col-B_p2
        11,718,856
        2.2
        bZIP44_Col-B_p1
        11,829,783
        2.3
        bZIP44_Col-B_p2
        10,187,096
        1.9
        ph-bZIP9..ps-bZIP1_Col..h-B_p1
        4,104,353
        0.8
        ph-bZIP9..ps-bZIP1_Col..h-B_p2
        4,275,415
        0.8
        ph-bZIP10..ps-bZIP1_Col..h-B_p1
        5,433,600
        1.0
        ph-bZIP10..ps-bZIP1_Col..h-B_p2
        7,097,380
        1.4
        ph-bZIP63..ps-bZIP1_Col..h-B_p1
        7,422,165
        1.4
        ph-bZIP63..ps-bZIP1_Col..h-B_p2
        6,938,339
        1.3
        ph-bZIP25..ps-bZIP1_Col..h-B_p1
        4,087,024
        0.8
        ph-bZIP25..ps-bZIP1_Col..h-B_p2
        3,588,305
        0.7
        ph-bZIP9..ps-bZIP2_Col..h-B_p1
        3,668,252
        0.7
        ph-bZIP9..ps-bZIP2_Col..h-B_p2
        2,814,890
        0.5
        ph-bZIP10..ps-bZIP2_Col..h-B_p1
        3,516,821
        0.7
        ph-bZIP10..ps-bZIP2_Col..h-B_p2
        3,080,548
        0.6
        ph-bZIP63..ps-bZIP2_Col..h-B_p1
        5,026,777
        1.0
        ph-bZIP63..ps-bZIP2_Col..h-B_p2
        4,245,999
        0.8
        ph-bZIP25..ps-bZIP2_Col..h-B_p1
        3,700,921
        0.7
        ph-bZIP25..ps-bZIP2_Col..h-B_p2
        3,114,910
        0.6
        ph-bZIP9..ps-bZIP11_Col..h-B_p1
        13,478,006
        2.6
        ph-bZIP9..ps-bZIP11_Col..h-B_p2
        17,530,466
        3.3
        ph-bZIP10..ps-bZIP11_Col..h-B_p1
        8,874,879
        1.7
        ph-bZIP10..ps-bZIP11_Col..h-B_p2
        8,896,878
        1.7
        ph-bZIP63..ps-bZIP11_Col..h-B_p1
        7,488,666
        1.4
        ph-bZIP63..ps-bZIP11_Col..h-B_p2
        7,455,157
        1.4
        ph-bZIP25..ps-bZIP11_Col..h-B_p1
        12,928,503
        2.5
        ph-bZIP25..ps-bZIP11_Col..h-B_p2
        15,079,447
        2.9
        ph-bZIP9..ps-bZIP44_Col..h-B_p1
        10,001,370
        1.9
        ph-bZIP9..ps-bZIP44_Col..h-B_p2
        15,781,783
        3.0
        ph-bZIP10..ps-bZIP44_Col..h-B_p1
        7,908,200
        1.5
        ph-bZIP10..ps-bZIP44_Col..h-B_p2
        8,597,885
        1.6
        ph-bZIP63..ps-bZIP44_Col..h-B_p1
        7,386,441
        1.4
        ph-bZIP63..ps-bZIP44_Col..h-B_p2
        5,830,881
        1.1
        ph-bZIP25..ps-bZIP44_Col..h-B_p1
        4,099,678
        0.8
        ph-bZIP25..ps-bZIP44_Col..h-B_p2
        3,455,426
        0.7
        ph-bZIP9..ps-bZIP53_Col..h-B_p1
        6,849,975
        1.3
        ph-bZIP9..ps-bZIP53_Col..h-B_p2
        6,201,932
        1.2
        ph-bZIP10..ps-bZIP53_Col..h-B_p1
        6,574,631
        1.3
        ph-bZIP10..ps-bZIP53_Col..h-B_p2
        4,379,217
        0.8
        ph-bZIP63..ps-bZIP53_Col..h-B_p1
        4,304,980
        0.8
        ph-bZIP63..ps-bZIP53_Col..h-B_p2
        5,269,966
        1.0
        ph-bZIP25..ps-bZIP53_Col..h-B_p1
        5,772,483
        1.1
        ph-bZIP25..ps-bZIP53_Col..h-B_p2
        3,885,171
        0.7
        ps-bZIP9..ph-bZIP9_Col..h-B_p
        4,810,847
        0.9
        ps-bZIP10..ph-bZIP9_Col..h-B_p
        5,654,745
        1.1
        ps-bZIP63..ph-bZIP9_Col..h-B_p
        13,349,026
        2.5
        ps-bZIP25..ph-bZIP9_Col..h-B_p
        2,863,958
        0.5
        ps-bZIP9..ph-bZIP10_Col..h-B_p
        12,875,378
        2.5
        ps-bZIP9..ph-bZIP63_Col..h-B_p
        15,546,837
        3.0
        ps-bZIP9..ph-bZIP25_Col..h-B_p
        10,851,400
        2.1
        bZIP63_Col-B_p
        27,124,841
        5.2
        ps-bZIP1..ph-vec_Col..h-B_p
        6,681,898
        1.3
        ps-bZIP2..ph-vec_Col..h-B_p
        5,951,740
        1.1
        ps-bZIP11..ph-vec_Col..h-B_p
        5,835,568
        1.1
        ps-bZIP44..ph-vec_Col..h-B_p
        5,212,010
        1.0
        bZIP53_Col-B_p1
        5,742,945
        1.1
        bZIP53_Col-B_p2
        10,073,662
        1.9
        ColSPL16_Col-B_p2xDna
        5,642,244
        1.1
        ColSPL9E169G_Col-B_p
        4,589,288
        0.9
        ps-bZIP53..ph-bZIP10_Col..s-B..h-B_p
        5,271,741
        1.0
        ps-bZIP1..ph-bZIP11_Col..s-B..h-B_p
        9,183,684
        1.8

        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
        4200002.0
        16.5
        GGGGGGGGGGGGGGGG
        1340097.0
        5.3
        GAGATTCCGGGGGGGG
        286551.0
        1.1
        ATTCAGAAGGGGGGGG
        228247.0
        0.9
        GGGGGGGGAGGCTATA
        224904.0
        0.9
        CTGAAGCTGGGGGGGG
        208493.0
        0.8
        GGGGGGGGGTCAGTAC
        200591.0
        0.8
        GGGGGGGGTAAGATTA
        199137.0
        0.8
        GGGGGGGGGCCTCTAT
        193576.0
        0.8
        ATTACTCGGGGGGGGG
        192435.0
        0.8
        GGGGGGGGCTTCGCCT
        174506.0
        0.7
        GGGGGGGGAGGATAGG
        173640.0
        0.7
        GGGGGGGGACGTCCTG
        172323.0
        0.7
        TAATGCGCGGGGGGGG
        143240.0
        0.6
        GGGGGGGGTCAGAGCC
        136722.0
        0.5
        GAATTCGTGGGGGGGG
        135723.0
        0.5
        TCCGGAGAGGGGGGGG
        129241.0
        0.5
        CGCTCATTGGGGGGGG
        86256.0
        0.3
        GAGATTCCAGCTATAG
        74080.0
        0.3
        CTGAAGCTGCAGTACG
        73015.0
        0.3

        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
        618,083,456
        524,508,716
        4.9
        0.9

        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
        67
        0
        0

        The mean quality value across each base position in the read. See the FastQC help.

        Created with Highcharts 5.0.6Position (bp)Phred ScoreChart context menuExport PlotMean Quality Scores102030405060700510152025303540Created with MultiQC

        Per Sequence Quality Scores
        67
        0
        0

        The number of reads with average quality scores. Shows if a subset of reads has poor quality. See the FastQC help.

        Created with Highcharts 5.0.6Mean Sequence Quality (Phred Score)CountChart context menuExport PlotPer Sequence Quality Scores0510152025303502M4M6M8M10M12MCreated with MultiQC

        Per Base Sequence Content
        48
        19
        0

        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
        50
        16
        1

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content. See the FastQC help.

        Created with Highcharts 5.0.6%GCCountChart context menuExport PlotPer Sequence GC Content01020304050607080901000123456Created with MultiQC

        Per Base N Content
        67
        0
        0

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

        Created with Highcharts 5.0.6Position in Read (bp)Percentage N-CountChart context menuExport PlotPer Base N Content0102030405060700123456Created with MultiQC

        Sequence Length Distribution
        67
        0
        0

        All samples have sequences of a single length (76bp).

        Sequence Duplication Levels
        19
        46
        2

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

        Created with Highcharts 5.0.6Sequence Duplication Level% of LibraryChart context menuExport PlotSequence Duplication Levels123456789>10>50>100>500>1k>5k>10k+020406080100Created with MultiQC

        Overrepresented sequences
        28
        38
        1

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

        Created with Highcharts 5.0.6Percentage of Total SequencesChart context menuExport PlotOverrepresented sequencesTop over-represented sequenceSum of remaining over-represented sequencesHCCY2BGXF_n01_ColSPL16_Col-B_p2xDnaHCCY2BGXF_n01_bZIP11_Col-B_p2HCCY2BGXF_n01_bZIP2_Col-B_p1HCCY2BGXF_n01_bZIP44_Col-B_p2HCCY2BGXF_n01_bZIP63_Col-B_pHCCY2BGXF_n01_ph-bZIP10..ps-bZIP1_Col..h-B_p1HCCY2BGXF_n01_ph-bZIP10..ps-bZIP2_Col..h-B_p2HCCY2BGXF_n01_ph-bZIP10..ps-bZIP53_Col..h-B_p1HCCY2BGXF_n01_ph-bZIP25..ps-bZIP11_Col..h-B_p2HCCY2BGXF_n01_ph-bZIP25..ps-bZIP2_Col..h-B_p1HCCY2BGXF_n01_ph-bZIP25..ps-bZIP44_Col..h-B_p2HCCY2BGXF_n01_ph-bZIP63..ps-bZIP11_Col..h-B_p1HCCY2BGXF_n01_ph-bZIP63..ps-bZIP1_Col..h-B_p2HCCY2BGXF_n01_ph-bZIP63..ps-bZIP44_Col..h-B_p1HCCY2BGXF_n01_ph-bZIP63..ps-bZIP53_Col..h-B_p2HCCY2BGXF_n01_ph-bZIP9..ps-bZIP1_Col..h-B_p1HCCY2BGXF_n01_ph-bZIP9..ps-bZIP2_Col..h-B_p2HCCY2BGXF_n01_ph-bZIP9..ps-bZIP53_Col..h-B_p1HCCY2BGXF_n01_ps-bZIP1..ph-vec_Col..h-B_pHCCY2BGXF_n01_ps-bZIP2..ph-vec_Col..h-B_pHCCY2BGXF_n01_ps-bZIP53..ph-bZIP10_Col..s-B..h…HCCY2BGXF_n01_ps-bZIP53..ph-bZIP10_Col..s-B..h-B_pHCCY2BGXF_n01_ps-bZIP9..ph-bZIP25_Col..h-B_pHCCY2BGXF_n01_undetermined0%10%20%2.5%5%7.5%12.5%15%17.5%22.…22.5%Created with MultiQC

        Adapter Content
        67
        0
        0

        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.

        Created with Highcharts 5.0.6Position% of SequencesChart context menuExport PlotAdapter Content510152025303540455055600123456Created with MultiQC

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

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