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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 2024-11-27, 22:11 based on data in:

        General Statistics

        Showing 48/48 rows and 9/10 columns.
        Sample Name% AssignedM Assigned% AlignedM Aligned% Trimmed% Dups% GCLengthM Seqs
        SRR12535751
        69.8%
        0.7
        28.5%
        0.1
        70.5%
        85.8%
        52%
        38
        0.4
        SRR12535752
        80.1%
        0.3
        22.6%
        0.1
        73.6%
        77.8%
        53%
        34
        0.3
        SRR12535753
        70.4%
        0.5
        27.8%
        0.1
        73.5%
        82.8%
        52%
        37
        0.3
        SRR12535754
        70.2%
        0.6
        28.2%
        0.1
        71.1%
        84.3%
        52%
        38
        0.4
        SRR12535774
        76.8%
        0.0
        28.5%
        0.0
        98.9%
        22.3%
        50%
        42
        0.0
        SRR12535775
        76.6%
        0.0
        28.6%
        0.0
        98.8%
        29.4%
        51%
        42
        0.0
        SRR12535776
        81.4%
        0.0
        28.9%
        0.0
        98.9%
        23.8%
        49%
        44
        0.0
        SRR12535777
        75.5%
        0.3
        17.4%
        0.0
        72.8%
        94.6%
        52%
        31
        0.2
        SRR12535778
        76.4%
        0.3
        20.0%
        0.0
        77.4%
        93.2%
        51%
        34
        0.1
        SRR12535780
        74.9%
        0.2
        20.5%
        0.0
        75.4%
        95.1%
        49%
        32
        0.2
        SRR12535823
        89.5%
        0.0
        42.4%
        0.0
        97.9%
        22.7%
        45%
        61
        0.0
        SRR12535824
        92.8%
        0.0
        44.3%
        0.0
        99.5%
        11.7%
        45%
        65
        0.0
        SRR12535825
        75.3%
        0.0
        23.9%
        0.0
        96.7%
        42.2%
        51%
        37
        0.0
        SRR12535868
        82.6%
        0.0
        35.8%
        0.0
        97.8%
        17.0%
        48%
        50
        0.0
        SRR12535869
        81.9%
        0.0
        34.5%
        0.0
        98.0%
        16.9%
        48%
        49
        0.0
        SRR12535870
        62.2%
        0.2
        18.2%
        0.0
        80.9%
        65.9%
        57%
        34
        0.2
        SRR12535872
        66.8%
        0.1
        17.9%
        0.0
        85.4%
        65.7%
        56%
        32
        0.1
        SRR12535873
        63.9%
        0.1
        17.2%
        0.0
        86.4%
        67.8%
        57%
        32
        0.1
        SRR12535874
        71.2%
        0.0
        34.5%
        0.0
        96.8%
        49.8%
        50%
        42
        0.0
        SRR12535875
        86.7%
        0.0
        45.3%
        0.0
        97.4%
        33.4%
        46%
        57
        0.0
        SRR12535876
        92.7%
        0.0
        45.9%
        0.0
        99.6%
        10.8%
        46%
        58
        0.0
        SRR12535878
        71.4%
        0.5
        21.9%
        0.1
        68.5%
        91.1%
        52%
        34
        0.5
        SRR12535879
        80.2%
        0.6
        25.6%
        0.2
        67.5%
        84.3%
        52%
        36
        0.6
        SRR12535880
        80.2%
        0.0
        35.4%
        0.0
        97.8%
        18.1%
        48%
        49
        0.0
        SRR14284451
        82.7%
        0.1
        26.4%
        0.0
        97.0%
        43.9%
        46%
        36
        0.1
        SRR14284463
        75.7%
        0.3
        25.1%
        0.1
        89.1%
        89.1%
        49%
        36
        0.2
        SRR14284501
        74.2%
        0.4
        25.6%
        0.1
        87.8%
        89.0%
        50%
        37
        0.2
        SRR14284504
        76.9%
        0.3
        25.9%
        0.0
        90.4%
        86.0%
        49%
        38
        0.2
        SRR14284505
        78.9%
        0.0
        21.7%
        0.0
        98.1%
        38.7%
        47%
        31
        0.1
        SRR14284506
        78.2%
        0.4
        23.2%
        0.1
        80.7%
        81.2%
        47%
        32
        0.4
        SRR14284507
        77.7%
        0.6
        22.4%
        0.1
        75.8%
        87.2%
        47%
        31
        0.6
        SRR14284508
        79.2%
        0.4
        23.6%
        0.1
        78.6%
        80.0%
        47%
        33
        0.4
        SRR14284510
        82.6%
        0.1
        27.4%
        0.0
        96.5%
        44.3%
        46%
        37
        0.1
        SRR14284513
        77.3%
        0.3
        20.7%
        0.0
        89.6%
        53.6%
        51%
        35
        0.2
        SRR14284514
        78.3%
        0.4
        23.1%
        0.1
        86.7%
        60.2%
        50%
        38
        0.3
        SRR14284515
        76.8%
        0.3
        20.2%
        0.0
        89.2%
        54.9%
        51%
        34
        0.2
        SRR14284516
        75.2%
        0.4
        21.4%
        0.1
        83.8%
        67.7%
        49%
        33
        0.3
        SRR14284517
        76.0%
        0.5
        23.2%
        0.1
        82.3%
        69.4%
        48%
        35
        0.3
        SRR14284518
        76.2%
        0.5
        24.8%
        0.1
        83.8%
        68.2%
        48%
        38
        0.3
        SRR14284519
        91.4%
        0.0
        44.5%
        0.0
        98.2%
        47.7%
        45%
        63
        0.0
        SRR14284520
        85.8%
        0.1
        38.9%
        0.0
        96.7%
        54.9%
        45%
        56
        0.1
        SRR14284521
        87.0%
        0.1
        40.3%
        0.0
        95.7%
        60.6%
        45%
        58
        0.1
        SRR14284522
        79.4%
        0.1
        26.2%
        0.0
        95.5%
        49.5%
        47%
        40
        0.1
        SRR14284523
        80.7%
        0.2
        30.3%
        0.0
        93.9%
        60.2%
        46%
        45
        0.1
        SRR14284524
        79.9%
        0.1
        27.0%
        0.0
        95.4%
        50.8%
        47%
        41
        0.1
        SRR14284525
        77.9%
        0.6
        21.5%
        0.1
        85.1%
        74.9%
        49%
        35
        0.3
        SRR14284526
        76.6%
        0.5
        19.6%
        0.0
        85.9%
        72.2%
        50%
        33
        0.2
        SRR14284527
        76.6%
        0.5
        18.7%
        0.0
        86.5%
        74.9%
        50%
        32
        0.3

        featureCounts

        Subread featureCounts is a highly efficient general-purpose read summarization program that counts mapped reads for genomic features such as genes, exons, promoter, gene bodies, genomic bins and chromosomal locations.

        loading..

        STAR

        STAR is an ultrafast universal RNA-seq aligner.

        loading..

        Cutadapt

        Cutadapt is a tool to find and remove adapter sequences, primers, poly-Atails and other types of unwanted sequence from your high-throughput sequencing reads.

        This plot shows the number of reads with certain lengths of adapter trimmed. Obs/Exp shows the raw counts divided by the number expected due to sequencing errors. A defined peak may be related to adapter length. See the cutadapt documentation for more information on how these numbers are generated.

        loading..

        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

        The distribution of fragment sizes (read lengths) found. See the FastQC help.

        loading..

        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.

        loading..

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

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