..plots loading..

Highlight Samples

Regex mode off

    Rename Samples

    Click here for bulk input.

    Paste two columns of a tab-delimited table here (eg. from Excel).

    First column should be the old name, second column the new name.

    Regex mode off

      Show / Hide Samples

      Regex mode off

        Export Plots

        px
        px
        X

        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.

        Choose Plots

        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

        Save Settings

        You can save the toolbox settings for this report to the browser.

        Load Settings

        Choose a saved report profile from the dropdown box below:

        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 2019-06-05, 02:06 based on data in: /beegfs/mk5636/logs/html/HHTNVBGXB/merged

        General Statistics

        Showing 18/18 rows and 4/5 columns.
        Sample Name% Dups% GCLengthM Seqs
        HHTNVBGXB_n01_CA290_1
        6.8%
        47%
        28
        59.0
        HHTNVBGXB_n01_CA290_2
        6.6%
        47%
        28
        57.3
        HHTNVBGXB_n01_CA290_3
        6.9%
        47%
        28
        60.6
        HHTNVBGXB_n01_CA290_4
        7.2%
        47%
        28
        62.5
        HHTNVBGXB_n01_CA291_1
        11.9%
        47%
        28
        57.7
        HHTNVBGXB_n01_CA291_2
        11.0%
        47%
        28
        52.1
        HHTNVBGXB_n01_CA291_3
        13.5%
        47%
        28
        67.4
        HHTNVBGXB_n01_CA291_4
        12.0%
        47%
        28
        59.2
        HHTNVBGXB_n01_undetermined
        33.3%
        47%
        28
        19.7
        HHTNVBGXB_n02_CA290_1
        31.4%
        44%
        55
        59.0
        HHTNVBGXB_n02_CA290_2
        30.3%
        44%
        55
        57.3
        HHTNVBGXB_n02_CA290_3
        30.8%
        44%
        55
        60.6
        HHTNVBGXB_n02_CA290_4
        31.4%
        44%
        55
        62.5
        HHTNVBGXB_n02_CA291_1
        36.3%
        44%
        55
        57.7
        HHTNVBGXB_n02_CA291_2
        34.9%
        44%
        55
        52.1
        HHTNVBGXB_n02_CA291_3
        37.4%
        44%
        55
        67.4
        HHTNVBGXB_n02_CA291_4
        35.1%
        44%
        55
        59.2
        HHTNVBGXB_n02_undetermined
        40.7%
        46%
        55
        19.7

        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 9/9 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        19,651,676
        4.0
        CA290_1
        58,978,851
        11.9
        CA290_2
        57,323,031
        11.6
        CA290_3
        60,632,574
        12.2
        CA290_4
        62,485,955
        12.6
        CA291_1
        57,736,789
        11.7
        CA291_2
        52,067,547
        10.5
        CA291_3
        67,356,337
        13.6
        CA291_4
        59,172,880
        11.9

        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 (%)
        GGGGGGGG
        9793094.0
        49.8
        CAGGAGCA
        312575.0
        1.6
        GTCGATCA
        195109.0
        1.0
        CCAGAGCA
        194216.0
        1.0
        GTCATGCA
        185696.0
        0.9
        TCGATGCA
        184362.0
        0.9
        TGCCGTAA
        183608.0
        0.9
        GCTCGTAA
        181732.0
        0.9
        ACTAGAGA
        180766.0
        0.9
        AGCCACTA
        179498.0
        0.9
        ACAGGAGA
        158319.0
        0.8
        TCTCGTAA
        150507.0
        0.8
        CAGCACTA
        150391.0
        0.8
        GCGATGCA
        140056.0
        0.7
        TGCTCTAA
        138292.0
        0.7
        ATAATCTA
        136578.0
        0.7
        TGATCTAA
        134762.0
        0.7
        ATGAATTA
        120798.0
        0.6
        ATCTCAGA
        118864.0
        0.6
        CGCCACTA
        118507.0
        0.6

        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
        541,355,216
        495,405,640
        4.0
        1.3

        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.

        loading..

        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.

        loading..

        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.

        loading..

        Per Base N Content

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

        loading..

        Sequence Length Distribution

        All samples have sequences of a single length (28bp , 55bp). See the General Statistics Table.

        Sequence Duplication Levels

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

        loading..

        Overrepresented sequences

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

        loading..

        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.