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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 2020-08-14, 01:08 based on data in: /beegfs/mk5636/logs/html/HFWF7AFX2/merged

        General Statistics

        Showing 13/13 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HFWF7AFX2_n01_SS421-0h-GFP
        65.0%
        39%
        12.4
        HFWF7AFX2_n01_SS421-0h-input
        39.2%
        39%
        16.3
        HFWF7AFX2_n01_SS421-15h-GFP
        47.9%
        38%
        12.4
        HFWF7AFX2_n01_SS421-15h-input
        34.9%
        38%
        13.0
        HFWF7AFX2_n01_SS840-0h-GFP
        40.8%
        39%
        12.9
        HFWF7AFX2_n01_SS840-0h-input
        34.9%
        39%
        13.9
        HFWF7AFX2_n01_SS840-15h-GFP
        37.5%
        39%
        11.5
        HFWF7AFX2_n01_SS840-15h-input
        37.3%
        38%
        16.5
        HFWF7AFX2_n01_SS841-0h-GFP
        33.5%
        39%
        11.0
        HFWF7AFX2_n01_SS841-0h-input
        39.0%
        38%
        17.0
        HFWF7AFX2_n01_SS841-15h-GFP
        42.8%
        39%
        14.0
        HFWF7AFX2_n01_SS841-15h-input
        34.8%
        39%
        14.1
        HFWF7AFX2_n01_undetermined
        26.7%
        40%
        5.6

        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 13/13 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        5,642,682
        3.3
        SS421-0h-input
        16,309,545
        9.6
        SS421-15h-input
        12,992,093
        7.6
        SS840-0h-input
        13,925,729
        8.2
        SS840-15h-input
        16,465,249
        9.7
        SS841-0h-input
        17,035,603
        10.0
        SS841-15h-input
        14,063,127
        8.2
        SS421-0h-GFP
        12,372,394
        7.3
        SS421-15h-GFP
        12,373,799
        7.3
        SS840-0h-GFP
        12,922,529
        7.6
        SS840-15h-GFP
        11,472,827
        6.7
        SS841-0h-GFP
        10,998,905
        6.4
        SS841-15h-GFP
        14,042,555
        8.2

        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 (%)
        GGGGGG
        3438056.0
        60.9
        NNNNNN
        97633.0
        1.7
        GGTGGG
        66080.0
        1.2
        GTGGGG
        59469.0
        1.1
        GGGGGC
        56734.0
        1.0
        GGGGCG
        47824.0
        0.8
        GGGCGG
        44647.0
        0.8
        GGCGGG
        43817.0
        0.8
        GGGGGT
        30853.0
        0.6
        GGCGGC
        28054.0
        0.5
        GCGGGG
        26909.0
        0.5
        AATCAT
        20133.0
        0.4
        GTTCGG
        19694.0
        0.3
        CGGGGG
        18384.0
        0.3
        GGGTCG
        18354.0
        0.3
        GGTTGG
        16733.0
        0.3
        TGGGGG
        16408.0
        0.3
        CCGTAC
        16319.0
        0.3
        GGTGCG
        14662.0
        0.3
        GGTCGG
        13762.0
        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
        187,386,616
        170,617,037
        3.3
        0.2

        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.

        13 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.

        No samples found with any adapter contamination > 0.1%

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

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