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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 0.9

        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 2017-03-28, 02:03 based on data in: /mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/HGJJWBCXY/1

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

        General Statistics

        Showing 29/29 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HGJJWBCXY_l01n01_transplanta1_01.35100000083481
        47.2%
        46%
        2.2
        HGJJWBCXY_l01n01_transplanta1_02.351000000834b7
        50.0%
        46%
        4.1
        HGJJWBCXY_l01n01_transplanta1_03.351000000834d1
        56.8%
        47%
        5.6
        HGJJWBCXY_l01n01_transplanta1_04.351000000834fb
        49.3%
        46%
        4.6
        HGJJWBCXY_l01n01_transplanta1_05.35100000083516
        44.5%
        45%
        4.9
        HGJJWBCXY_l01n01_transplanta1_06.35100000083530
        48.3%
        44%
        4.8
        HGJJWBCXY_l01n01_transplanta1_07.3510000008354d
        55.8%
        47%
        5.0
        HGJJWBCXY_l01n01_transplanta1_08.35100000083566
        63.0%
        46%
        14.5
        HGJJWBCXY_l01n01_transplanta1_09.35100000083580
        55.4%
        48%
        3.9
        HGJJWBCXY_l01n01_transplanta1_10.351000000835b6
        45.3%
        45%
        4.0
        HGJJWBCXY_l01n01_transplanta1_11.351000000835d0
        74.7%
        46%
        34.1
        HGJJWBCXY_l01n01_transplanta1_12.351000000835fa
        42.6%
        45%
        2.9
        HGJJWBCXY_l01n01_transplanta1_13.35100000083615
        64.9%
        47%
        3.5
        HGJJWBCXY_l01n01_transplanta1_14.35100000083622
        60.7%
        46%
        8.0
        HGJJWBCXY_l01n01_transplanta1_15.3510000008364c
        50.7%
        47%
        3.7
        HGJJWBCXY_l01n01_transplanta1_16.35100000083659
        68.4%
        45%
        14.0
        HGJJWBCXY_l01n01_transplanta1_17.3510000008368f
        44.3%
        46%
        3.6
        HGJJWBCXY_l01n01_transplanta1_18.3510000008369c
        36.9%
        46%
        1.7
        HGJJWBCXY_l01n01_transplanta1_19.351000000836b5
        55.0%
        46%
        3.6
        HGJJWBCXY_l01n01_transplanta1_20.351000000836df
        67.9%
        46%
        13.5
        HGJJWBCXY_l01n01_transplanta1_21.351000000836f9
        64.0%
        47%
        9.8
        HGJJWBCXY_l01n01_transplanta1_22.35100000083714
        59.8%
        46%
        12.2
        HGJJWBCXY_l01n01_transplanta1_23.3510000008373e
        64.4%
        47%
        17.4
        HGJJWBCXY_l01n01_transplanta1_24.35100000083758
        57.3%
        46%
        6.2
        HGJJWBCXY_l01n01_transplanta1_25.3510000008378e
        60.4%
        47%
        6.4
        HGJJWBCXY_l01n01_transplanta1_26.351000000837a8
        59.1%
        46%
        5.9
        HGJJWBCXY_l01n01_transplanta1_27.351000000837c1
        52.9%
        46%
        4.8
        HGJJWBCXY_l01n01_transplanta1_28.351000000837de
        46.7%
        45%
        4.2
        HGJJWBCXY_l01n01_transplanta1_29.351000000837f8
        40.2%
        46%
        2.6

        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
        29
        0
        0

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

        Created with Highcharts 4.2.5Position (bp)Phred ScoreChart context menuExport PlotMean Quality Scores5101520253035404550051015202530354045Created with MultiQC

        Per Sequence Quality Scores
        29
        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 4.2.5Mean Sequence Quality (Phred Score)CountChart context menuExport PlotPer Sequence Quality Scores051015202530350M2.5M5M7.5M10M12.5M15M17.5M20MCreated with MultiQC

        Per Base Sequence Content
        0
        0
        29

        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
        20
        6
        3

        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 4.2.5%GCCountChart context menuExport PlotPer Sequence GC Content010203040506070809010001234567Created with MultiQC

        Per Base N Content
        29
        0
        0

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

        Created with Highcharts 4.2.5Position in Read (bp)Percentage N-CountChart context menuExport PlotPer Base N Content051015202530354045500123456Created with MultiQC

        Sequence Length Distribution
        29
        0
        0

        All samples have sequences of a single length (51bp).

        Sequence Duplication Levels
        0
        11
        18

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

        Created with Highcharts 4.2.5Sequence Duplication Level% of LibraryChart context menuExport PlotSequence Duplication Levels123456789>10>50>100>500>1k>5k>10k+020406080100Created with MultiQC

        Overrepresented sequences
        0
        26
        3

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

        Created with Highcharts 4.2.5Percentage of Total SequencesChart context menuExport PlotOverrepresented sequencesTop over-represented sequenceSum of remaining over-represented sequencesHGJJWBCXY_l01n01_transplanta1_01.35100000083481HGJJWBCXY_l01n01_transplanta1_03.351000000834d1HGJJWBCXY_l01n01_transplanta1_05.35100000083516HGJJWBCXY_l01n01_transplanta1_07.3510000008354dHGJJWBCXY_l01n01_transplanta1_09.35100000083580HGJJWBCXY_l01n01_transplanta1_11.351000000835d0HGJJWBCXY_l01n01_transplanta1_13.35100000083615HGJJWBCXY_l01n01_transplanta1_15.3510000008364cHGJJWBCXY_l01n01_transplanta1_17.3510000008368fHGJJWBCXY_l01n01_transplanta1_19.351000000836b5HGJJWBCXY_l01n01_transplanta1_21.351000000836f9HGJJWBCXY_l01n01_transplanta1_23.3510000008373eHGJJWBCXY_l01n01_transplanta1_25.3510000008378eHGJJWBCXY_l01n01_transplanta1_27.351000000837c1HGJJWBCXY_l01n01_transplanta1_29.351000000837f80%10%20%2.5%5%7.5%12.5%15%17.5%22.…22.5%Created with MultiQC

        Adapter Content
        29
        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.

        No samples found with any adapter contamination > 0.1%

        MultiQC v0.9 - Written by Phil Ewels, available on GitHub.

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