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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 2020-06-12, 15:06 based on data in: /beegfs/mk5636/logs/html/HHGL7BGXF/merged

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

        General Statistics

        Showing 38/38 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HHGL7BGXF_n01_DJA247_DOP2_mRNA
        45.5%
        48%
        35.5
        HHGL7BGXF_n01_DJA248_DOM1_mRNA
        41.2%
        49%
        33.1
        HHGL7BGXF_n01_DJA258_DOP1_mRNA
        38.8%
        48%
        27.7
        HHGL7BGXF_n01_DJA260_DODI1_mRNA
        36.9%
        49%
        23.5
        HHGL7BGXF_n01_DJA263_DOP3_mRNA
        38.3%
        49%
        24.8
        HHGL7BGXF_n01_DJA267_DODI3_mRNA
        35.9%
        49%
        26.6
        HHGL7BGXF_n01_DJA268_DODI2_mRNA
        37.7%
        48%
        24.3
        HHGL7BGXF_n01_DJA269_DOM3_mRNA
        39.2%
        48%
        31.3
        HHGL7BGXF_n01_DJA270_DOM2_mRNA
        41.4%
        49%
        33.6
        HHGL7BGXF_n01_FDK216_LP2_mRNA
        32.8%
        49%
        14.9
        HHGL7BGXF_n01_FDK218_LDI1_mRNA
        37.8%
        49%
        23.0
        HHGL7BGXF_n01_FDK237_LDI3_mRNA
        43.2%
        48%
        31.9
        HHGL7BGXF_n01_FDK239_LP4_mRNA
        35.6%
        49%
        18.4
        HHGL7BGXF_n01_FDK254_LP3_mRNA
        34.5%
        48%
        19.7
        HHGL7BGXF_n01_FDK255_LP5_mRNA
        35.8%
        49%
        18.7
        HHGL7BGXF_n01_FDK256_LDI2_mRNA
        39.5%
        48%
        29.7
        HHGL7BGXF_n01_FDK261_LP6_mRNA
        36.7%
        48%
        22.1
        HHGL7BGXF_n01_FDK263_LDI4_mRNA
        44.3%
        48%
        38.5
        HHGL7BGXF_n01_undetermined
        41.3%
        56%
        19.0
        HHGL7BGXF_n02_DJA247_DOP2_mRNA
        43.0%
        48%
        35.5
        HHGL7BGXF_n02_DJA248_DOM1_mRNA
        39.1%
        49%
        33.1
        HHGL7BGXF_n02_DJA258_DOP1_mRNA
        36.7%
        48%
        27.7
        HHGL7BGXF_n02_DJA260_DODI1_mRNA
        35.0%
        49%
        23.5
        HHGL7BGXF_n02_DJA263_DOP3_mRNA
        36.1%
        49%
        24.8
        HHGL7BGXF_n02_DJA267_DODI3_mRNA
        33.9%
        49%
        26.6
        HHGL7BGXF_n02_DJA268_DODI2_mRNA
        35.6%
        48%
        24.3
        HHGL7BGXF_n02_DJA269_DOM3_mRNA
        37.4%
        48%
        31.3
        HHGL7BGXF_n02_DJA270_DOM2_mRNA
        39.3%
        49%
        33.6
        HHGL7BGXF_n02_FDK216_LP2_mRNA
        31.2%
        49%
        14.9
        HHGL7BGXF_n02_FDK218_LDI1_mRNA
        35.5%
        49%
        23.0
        HHGL7BGXF_n02_FDK237_LDI3_mRNA
        41.3%
        48%
        31.9
        HHGL7BGXF_n02_FDK239_LP4_mRNA
        33.9%
        49%
        18.4
        HHGL7BGXF_n02_FDK254_LP3_mRNA
        32.9%
        48%
        19.7
        HHGL7BGXF_n02_FDK255_LP5_mRNA
        34.1%
        49%
        18.7
        HHGL7BGXF_n02_FDK256_LDI2_mRNA
        37.8%
        48%
        29.7
        HHGL7BGXF_n02_FDK261_LP6_mRNA
        34.9%
        48%
        22.1
        HHGL7BGXF_n02_FDK263_LDI4_mRNA
        42.1%
        48%
        38.5
        HHGL7BGXF_n02_undetermined
        35.7%
        56%
        19.0

        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 19/19 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        18,951,110
        3.8
        FDK216_LP2_mRNA
        14,851,455
        3.0
        FDK254_LP3_mRNA
        19,716,794
        4.0
        FDK239_LP4_mRNA
        18,426,524
        3.7
        FDK255_LP5_mRNA
        18,681,155
        3.8
        FDK261_LP6_mRNA
        22,058,911
        4.4
        FDK218_LDI1_mRNA
        22,955,455
        4.6
        FDK256_LDI2_mRNA
        29,698,824
        6.0
        FDK237_LDI3_mRNA
        31,850,461
        6.4
        FDK263_LDI4_mRNA
        38,458,555
        7.8
        DJA248_DOM1_mRNA
        33,146,360
        6.7
        DJA270_DOM2_mRNA
        33,617,462
        6.8
        DJA269_DOM3_mRNA
        31,282,667
        6.3
        DJA258_DOP1_mRNA
        27,669,589
        5.6
        DJA247_DOP2_mRNA
        35,542,856
        7.2
        DJA263_DOP3_mRNA
        24,841,746
        5.0
        DJA260_DODI1_mRNA
        23,489,810
        4.7
        DJA268_DODI2_mRNA
        24,269,752
        4.9
        DJA267_DODI3_mRNA
        26,551,903
        5.4

        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 (%)
        GGGGGGGGGGGGGGGG
        2742263.0
        14.5
        GGGGGGGGAGATCTCG
        1958854.0
        10.3
        GGGGGGGGTAAGATTA
        651365.0
        3.4
        GGGGGGGGACGTCCTG
        532533.0
        2.8
        GGGGGGGGGTCAGTAC
        419723.0
        2.2
        GGGGGGGGCTTCGCCT
        410721.0
        2.2
        TCCGCGAAGGGGGGGG
        147267.0
        0.8
        CGGCTATGGGGGGGGG
        141915.0
        0.8
        CTGAAGCTGGGGGGGG
        136489.0
        0.7
        TAATGCGCGGGGGGGG
        130894.0
        0.7
        GGGGGGGGAGCTCTCG
        67868.0
        0.4
        GGGGGGGGATATCTCG
        66404.0
        0.3
        TCGCGAAAACGTCCTG
        60645.0
        0.3
        TCGCGAAATAAGATTA
        57883.0
        0.3
        TCGCGAAAGTCAGTAC
        46009.0
        0.2
        GAATTCGTGGGGGGGG
        45448.0
        0.2
        GGCTATGATAAGATTA
        39045.0
        0.2
        TCGCGAAACTTCGCCT
        38507.0
        0.2
        TGAAGCTAACGTCCTG
        34169.0
        0.2
        GGGGGGGGGTGGGGGG
        33722.0
        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
        576,660,800
        496,061,389
        3.8
        0.4

        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
        38
        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 Scores1020304050607080901000510152025303540Created with MultiQC

        Per Sequence Quality Scores
        38
        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 Scores0510152025303502.5M5M7.5M10M12.5M15MCreated with MultiQC

        Per Base Sequence Content
        0
        0
        38

        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
        0
        36
        2

        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 Content01020304050607080901000123456789Created with MultiQC

        Per Base N Content
        38
        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 Content01020304050607080901000123456Created with MultiQC

        Sequence Length Distribution
        38
        0
        0

        All samples have sequences of a single length (101bp).

        Sequence Duplication Levels
        0
        38
        0

        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
        18
        18
        2

        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 sequencesHHGL7BGXF_n01_DJA247_DOP2_mRNAHHGL7BGXF_n01_DJA258_DOP1_mRNAHHGL7BGXF_n01_DJA263_DOP3_mRNAHHGL7BGXF_n01_DJA268_DODI2_mRNAHHGL7BGXF_n01_DJA270_DOM2_mRNAHHGL7BGXF_n01_FDK218_LDI1_mRNAHHGL7BGXF_n01_FDK239_LP4_mRNAHHGL7BGXF_n01_FDK255_LP5_mRNAHHGL7BGXF_n01_FDK261_LP6_mRNAHHGL7BGXF_n01_undeterminedHHGL7BGXF_n02_DJA248_DOM1_mRNAHHGL7BGXF_n02_DJA260_DODI1_mRNAHHGL7BGXF_n02_DJA267_DODI3_mRNAHHGL7BGXF_n02_DJA269_DOM3_mRNAHHGL7BGXF_n02_FDK216_LP2_mRNAHHGL7BGXF_n02_FDK237_LDI3_mRNAHHGL7BGXF_n02_FDK254_LP3_mRNAHHGL7BGXF_n02_FDK256_LDI2_mRNAHHGL7BGXF_n02_FDK263_LDI4_mRNA0%2%4%6%8%10%12%14%16%18%20%22%Created with MultiQC

        Adapter Content
        38
        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 Content10203040506070800123456Created 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.