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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 2020-03-14, 02:03 based on data in: /beegfs/mk5636/logs/html/HCCCVBGXF/merged

        General Statistics

        Showing 37/37 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HCCCVBGXF_n01_DG4446_AP1_miRNA
        22.3%
        47%
        11.2
        HCCCVBGXF_n01_DG4450_AM1_miRNA
        22.0%
        46%
        10.8
        HCCCVBGXF_n01_DG4460_ADI1_miRNA
        22.0%
        47%
        10.8
        HCCCVBGXF_n01_DG4474_ADI2_miRNA
        20.5%
        47%
        9.1
        HCCCVBGXF_n01_DG4476_AM2_miRNA
        23.7%
        47%
        12.1
        HCCCVBGXF_n01_DG4478_AP2_miRNA
        21.1%
        47%
        10.4
        HCCCVBGXF_n01_DG4565_AP3_miRNA
        21.4%
        47%
        10.4
        HCCCVBGXF_n01_DG4567_ADI3_miRNA
        22.0%
        47%
        11.7
        HCCCVBGXF_n01_DG4579_AM3_miRNA
        19.7%
        46%
        8.5
        HCCCVBGXF_n01_DG4593_AP4_miRNA
        21.8%
        47%
        10.3
        HCCCVBGXF_n01_DG4595_ADI4_miRNA
        21.0%
        47%
        9.9
        HCCCVBGXF_n01_DG4597_AP5_miRNA
        23.4%
        47%
        11.0
        HCCCVBGXF_n01_DG4599_ADI5_miRNA
        21.3%
        47%
        10.8
        HCCCVBGXF_n01_DG4601_AM4_miRNA
        23.4%
        46%
        10.8
        HCCCVBGXF_n01_DJA247_DOP2_miRNA
        21.9%
        47%
        10.8
        HCCCVBGXF_n01_DJA248_DOM1_miRNA
        21.3%
        46%
        11.2
        HCCCVBGXF_n01_DJA258_DOP1_miRNA
        22.4%
        47%
        11.5
        HCCCVBGXF_n01_DJA260_DODI1_miRNA
        21.1%
        47%
        9.1
        HCCCVBGXF_n01_DJA263_DOP3_miRNA
        20.1%
        47%
        9.5
        HCCCVBGXF_n01_DJA267_DODI3_miRNA
        25.2%
        47%
        10.9
        HCCCVBGXF_n01_DJA268_DODI2_miRNA
        20.5%
        47%
        10.1
        HCCCVBGXF_n01_DJA269_DOM3_miRNA
        20.9%
        47%
        10.3
        HCCCVBGXF_n01_DJA270_DOM2_miRNA
        21.4%
        47%
        10.7
        HCCCVBGXF_n01_FDK216_LP2_miRNA
        18.4%
        47%
        10.4
        HCCCVBGXF_n01_FDK218_LDI1_miRNA
        20.8%
        47%
        10.2
        HCCCVBGXF_n01_FDK236_LP1_miRNA
        20.2%
        47%
        10.7
        HCCCVBGXF_n01_FDK237_LDI3_miRNA
        21.0%
        47%
        10.6
        HCCCVBGXF_n01_FDK239_LP4_miRNA
        21.2%
        47%
        10.5
        HCCCVBGXF_n01_FDK241_LM2_miRNA
        21.2%
        47%
        10.6
        HCCCVBGXF_n01_FDK254_LP3_miRNA
        20.4%
        47%
        10.6
        HCCCVBGXF_n01_FDK255_LP5_miRNA
        21.0%
        47%
        10.5
        HCCCVBGXF_n01_FDK256_LDI2_miRNA
        20.9%
        47%
        10.8
        HCCCVBGXF_n01_FDK261_LP6_miRNA
        21.1%
        47%
        10.3
        HCCCVBGXF_n01_FDK262_LM1_miRNA
        22.8%
        46%
        11.6
        HCCCVBGXF_n01_FDK263_LDI4_miRNA
        22.4%
        47%
        11.5
        HCCCVBGXF_n01_FDK287_LM3_miRNA
        22.9%
        47%
        11.1
        HCCCVBGXF_n01_undetermined
        50.9%
        47%
        29.0

        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 37/37 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        29,048,803
        7.1
        DG4450_AM1_miRNA
        10,791,103
        2.6
        DG4476_AM2_miRNA
        12,126,806
        3.0
        DG4579_AM3_miRNA
        8,542,205
        2.1
        DG4601_AM4_miRNA
        10,844,222
        2.6
        DG4446_AP1_miRNA
        11,188,496
        2.7
        DG4478_AP2_miRNA
        10,386,790
        2.5
        DG4565_AP3_miRNA
        10,351,519
        2.5
        DG4593_AP4_miRNA
        10,318,362
        2.5
        DG4597_AP5_miRNA
        10,967,877
        2.7
        DG4460_ADI1_miRNA
        10,790,181
        2.6
        DG4474_ADI2_miRNA
        9,097,761
        2.2
        DG4567_ADI3_miRNA
        11,693,467
        2.9
        DG4595_ADI4_miRNA
        9,895,619
        2.4
        DG4599_ADI5_miRNA
        10,803,603
        2.6
        FDK262_LM1_miRNA
        11,577,676
        2.8
        FDK241_LM2_miRNA
        10,591,425
        2.6
        FDK287_LM3_miRNA
        11,080,251
        2.7
        FDK236_LP1_miRNA
        10,726,976
        2.6
        FDK216_LP2_miRNA
        10,357,274
        2.5
        FDK254_LP3_miRNA
        10,552,737
        2.6
        FDK239_LP4_miRNA
        10,453,099
        2.5
        FDK255_LP5_miRNA
        10,471,415
        2.6
        FDK261_LP6_miRNA
        10,341,196
        2.5
        FDK218_LDI1_miRNA
        10,239,385
        2.5
        FDK256_LDI2_miRNA
        10,822,080
        2.6
        FDK237_LDI3_miRNA
        10,551,957
        2.6
        FDK263_LDI4_miRNA
        11,532,650
        2.8
        DJA248_DOM1_miRNA
        11,195,245
        2.7
        DJA270_DOM2_miRNA
        10,716,964
        2.6
        DJA269_DOM3_miRNA
        10,267,570
        2.5
        DJA258_DOP1_miRNA
        11,461,443
        2.8
        DJA247_DOP2_miRNA
        10,797,630
        2.6
        DJA263_DOP3_miRNA
        9,464,301
        2.3
        DJA260_DODI1_miRNA
        9,064,592
        2.2
        DJA268_DODI2_miRNA
        10,132,392
        2.5
        DJA267_DODI3_miRNA
        10,941,394
        2.7

        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 (%)
        GGGGGG
        16297262.0
        56.1
        NNNNNN
        1053628.0
        3.6
        CAAAGA
        213719.0
        0.7
        TTAGCA
        212765.0
        0.7
        CGAGTA
        202590.0
        0.7
        GCGGGG
        143246.0
        0.5
        TAGTTA
        131880.0
        0.5
        GGGGGC
        121497.0
        0.4
        AGATCA
        107683.0
        0.4
        CAGCGA
        101478.0
        0.3
        GCCATA
        92801.0
        0.3
        GATGTA
        91545.0
        0.3
        TTGTAA
        86566.0
        0.3
        GGTACA
        85129.0
        0.3
        ATCCTA
        84623.0
        0.3
        ACGATA
        82304.0
        0.3
        CAGACA
        81240.0
        0.3
        GGGGGT
        79896.0
        0.3
        GTGGGG
        77658.0
        0.3
        CAATAA
        76931.0
        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
        483,463,824
        410,186,466
        7.1
        2.5

        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 (76bp).

        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.

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        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.

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

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