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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 1.11

        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.

        This report has been generated by the nf-core/eager analysis pipeline. For information about how to interpret these results, please see the documentation.

        Report generated on 2021-12-17, 16:35 based on data in:


        General Statistics

        Showing 466/466 rows and 16/27 columns.
        Sample Name SeqsLength% GCGC content% Trimmed SeqsLength% GC% Unclassified Reads Reads MappedEndogenous DNA (%) Reads MappedEndogenous DNA Post (%)% Dups% Enterococcus faecalis
        LIB030.A0117
        63.6%
        3,310
        418
        12.63
        418
        12.63
        5.0%
        0.0%
        LIB030.A0117.SG1.1_S0_L001_R1_001
        2,236
        151 bp
        66%
        94.8%
        819
        89 bp
        59%
        LIB030.A0117.SG1.1_S0_L001_R2_001
        2,236
        151 bp
        75%
        LIB030.A0117.SG1.1_S0_L002_R1_001
        2,127
        151 bp
        66%
        94.4%
        826
        87 bp
        59%
        LIB030.A0117.SG1.1_S0_L002_R2_001
        2,127
        151 bp
        75%
        LIB030.A0117.SG1.1_S0_L003_R1_001
        2,477
        151 bp
        67%
        95.9%
        815
        84 bp
        59%
        LIB030.A0117.SG1.1_S0_L003_R2_001
        2,477
        151 bp
        76%
        LIB030.A0117.SG1.1_S0_L004_R1_001
        2,220
        151 bp
        66%
        95.7%
        850
        86 bp
        59%
        LIB030.A0117.SG1.1_S0_L004_R2_001
        2,220
        151 bp
        75%
        LIB030.A0117_L1_polyg
        52.2%
        LIB030.A0117_L2_polyg
        52.3%
        LIB030.A0117_L3_polyg
        52.6%
        LIB030.A0117_L4_polyg
        52.6%
        SYN001.A0101
        23.1%
        13,031,258
        2,848,845
        21.86
        2,848,845
        21.86
        6.2%
        0.0%
        SYN001.A0101.SG1.1_S0_L001_R1_001
        3,201,011
        151 bp
        51%
        97.7%
        3,235,522
        129 bp
        50%
        SYN001.A0101.SG1.1_S0_L001_R2_001
        3,201,011
        151 bp
        50%
        SYN001.A0101.SG1.1_S0_L002_R1_001
        3,165,656
        151 bp
        51%
        97.7%
        3,202,714
        129 bp
        50%
        SYN001.A0101.SG1.1_S0_L002_R2_001
        3,165,656
        151 bp
        50%
        SYN001.A0101.SG1.1_S0_L003_R1_001
        3,296,632
        151 bp
        52%
        97.5%
        3,337,491
        128 bp
        50%
        SYN001.A0101.SG1.1_S0_L003_R2_001
        3,296,632
        151 bp
        50%
        SYN001.A0101.SG1.1_S0_L004_R1_001
        3,218,142
        151 bp
        51%
        97.7%
        3,255,531
        129 bp
        50%
        SYN001.A0101.SG1.1_S0_L004_R2_001
        3,218,142
        151 bp
        50%
        SYN001.A0101_L1_polyg
        49.2%
        SYN001.A0101_L2_polyg
        49.3%
        SYN001.A0101_L3_polyg
        49.7%
        SYN001.A0101_L4_polyg
        49.5%
        SYN002.A0101
        23.8%
        14,403,299
        520,369
        3.61
        520,369
        3.61
        5.4%
        0.0%
        SYN002.A0101.SG1.1_S0_L001_R1_001
        3,523,270
        151 bp
        50%
        98.0%
        3,588,373
        142 bp
        50%
        SYN002.A0101.SG1.1_S0_L001_R2_001
        3,523,270
        151 bp
        50%
        SYN002.A0101.SG1.1_S0_L002_R1_001
        3,472,935
        151 bp
        50%
        97.9%
        3,538,388
        142 bp
        50%
        SYN002.A0101.SG1.1_S0_L002_R2_001
        3,472,935
        151 bp
        50%
        SYN002.A0101.SG1.1_S0_L003_R1_001
        3,593,017
        151 bp
        50%
        97.7%
        3,669,030
        141 bp
        50%
        SYN002.A0101.SG1.1_S0_L003_R2_001
        3,593,017
        151 bp
        50%
        SYN002.A0101.SG1.1_S0_L004_R1_001
        3,539,999
        151 bp
        50%
        97.9%
        3,607,508
        142 bp
        50%
        SYN002.A0101.SG1.1_S0_L004_R2_001
        3,539,999
        151 bp
        50%
        SYN002.A0101_L1_polyg
        49.5%
        SYN002.A0101_L2_polyg
        49.5%
        SYN002.A0101_L3_polyg
        49.7%
        SYN002.A0101_L4_polyg
        49.6%
        SYN003.A0101
        29.2%
        13,273,382
        725,245
        5.46
        725,245
        5.46
        6.0%
        0.0%
        SYN003.A0101.SG1.1_S0_L001_R1_001
        3,264,106
        151 bp
        50%
        98.4%
        3,302,672
        138 bp
        50%
        SYN003.A0101.SG1.1_S0_L001_R2_001
        3,264,106
        151 bp
        50%
        SYN003.A0101.SG1.1_S0_L002_R1_001
        3,217,861
        151 bp
        50%
        98.3%
        3,257,791
        139 bp
        50%
        SYN003.A0101.SG1.1_S0_L002_R2_001
        3,217,861
        151 bp
        50%
        SYN003.A0101.SG1.1_S0_L003_R1_001
        3,343,453
        151 bp
        51%
        98.1%
        3,389,414
        138 bp
        50%
        SYN003.A0101.SG1.1_S0_L003_R2_001
        3,343,453
        151 bp
        50%
        SYN003.A0101.SG1.1_S0_L004_R1_001
        3,283,362
        151 bp
        50%
        98.3%
        3,323,505
        138 bp
        50%
        SYN003.A0101.SG1.1_S0_L004_R2_001
        3,283,362
        151 bp
        50%
        SYN003.A0101_L1_polyg
        49.4%
        SYN003.A0101_L2_polyg
        49.4%
        SYN003.A0101_L3_polyg
        49.7%
        SYN003.A0101_L4_polyg
        49.5%
        SYN005.I0101
        33.4%
        13,144,417
        4,235
        0.03
        4,235
        0.03
        86.3%
        8.1%
        SYN005.I0101.SG1.1_S0_L001_R1_001
        3,402,725
        151 bp
        44%
        89.0%
        3,901,121
        160 bp
        43%
        SYN005.I0101.SG1.1_S0_L001_R2_001
        3,402,725
        151 bp
        44%
        SYN005.I0101.SG1.1_S0_L002_R1_001
        88.8%
        1,318,206
        160 bp
        44%
        SYN005.I0101.SG1.1_S0_L002_R2_001
        3,387,240
        151 bp
        44%
        SYN005.I0101.SG1.1_S0_L003_R1_001
        3,472,826
        151 bp
        44%
        88.8%
        3,984,965
        159 bp
        44%
        SYN005.I0101.SG1.1_S0_L003_R2_001
        3,472,826
        151 bp
        44%
        SYN005.I0101.SG1.1_S0_L004_R1_001
        3,438,536
        151 bp
        44%
        89.0%
        3,940,125
        160 bp
        44%
        SYN005.I0101.SG1.1_S0_L004_R2_001
        3,438,536
        151 bp
        44%
        SYN005.I0101_L1_polyg
        43.8%
        SYN005.I0101_L2_polyg
        43.9%
        SYN005.I0101_L3_polyg
        44.0%
        SYN005.I0101_L4_polyg
        43.9%
        SYN006.I0101
        27.1%
        11,629,882
        3,674
        0.03
        3,674
        0.03
        85.8%
        19.5%
        SYN006.I0101.SG1.1_S0_L001_R1_001
        3,414,682
        151 bp
        43%
        90.1%
        3,864,506
        159 bp
        42%
        SYN006.I0101.SG1.1_S0_L001_R2_001
        3,414,682
        151 bp
        43%
        SYN006.I0101.SG1.1_S0_L002_R1_001
        3,375,640
        151 bp
        43%
        90.0%
        3,824,670
        159 bp
        42%
        SYN006.I0101.SG1.1_S0_L002_R2_001
        3,375,640
        151 bp
        43%
        SYN006.I0101.SG1.1_S0_L003_R1_001
        3,479,062
        151 bp
        43%
        90.0%
        3,938,020
        158 bp
        42%
        SYN006.I0101.SG1.1_S0_L003_R2_001
        3,479,062
        151 bp
        43%
        SYN006.I0101.SG1.1_S0_L004_R1_001
        3,433,406
        151 bp
        43%
        90.4%
        2,686
        158 bp
        42%
        SYN006.I0101_L1_polyg
        42.8%
        SYN006.I0101_L2_polyg
        42.9%
        SYN006.I0101_L3_polyg
        43.0%
        SYN006.I0101_L4_polyg
        43.0%
        SYN008.I0101
        38.0%
        15,319,529
        7,088
        0.05
        7,088
        0.05
        82.3%
        10.2%
        SYN008.I0101.SG1.1_S0_L001_R1_001
        3,802,696
        151 bp
        45%
        99.4%
        3,805,473
        131 bp
        43%
        SYN008.I0101.SG1.1_S0_L001_R2_001
        3,802,696
        151 bp
        44%
        SYN008.I0101.SG1.1_S0_L002_R1_001
        3,770,200
        151 bp
        45%
        99.3%
        3,772,779
        131 bp
        43%
        SYN008.I0101.SG1.1_S0_L002_R2_001
        3,770,200
        151 bp
        44%
        SYN008.I0101.SG1.1_S0_L003_R1_001
        3,891,742
        151 bp
        45%
        99.3%
        3,897,069
        130 bp
        43%
        SYN008.I0101.SG1.1_S0_L003_R2_001
        3,891,742
        151 bp
        44%
        SYN008.I0101.SG1.1_S0_L004_R1_001
        3,842,106
        151 bp
        45%
        99.4%
        3,844,208
        131 bp
        43%
        SYN008.I0101.SG1.1_S0_L004_R2_001
        3,842,106
        151 bp
        44%
        SYN008.I0101_L1_polyg
        43.9%
        SYN008.I0101_L2_polyg
        43.9%
        SYN008.I0101_L3_polyg
        44.1%
        SYN008.I0101_L4_polyg
        44.0%
        SYN009.I0101
        48.4%
        15,828,420
        7,052
        0.04
        7,052
        0.04
        82.1%
        11.7%
        SYN009.I0101.SG1.1_S0_L001_R1_001
        3,945,861
        151 bp
        49%
        99.5%
        3,930,954
        115 bp
        47%
        SYN009.I0101.SG1.1_S0_L001_R2_001
        3,945,861
        151 bp
        48%
        SYN009.I0101.SG1.1_S0_L002_R1_001
        3,903,912
        151 bp
        49%
        99.5%
        3,889,903
        115 bp
        47%
        SYN009.I0101.SG1.1_S0_L002_R2_001
        3,903,912
        151 bp
        48%
        SYN009.I0101.SG1.1_S0_L003_R1_001
        4,052,653
        151 bp
        49%
        99.4%
        4,041,005
        115 bp
        47%
        SYN009.I0101.SG1.1_S0_L003_R2_001
        4,052,653
        151 bp
        49%
        SYN009.I0101.SG1.1_S0_L004_R1_001
        3,981,101
        151 bp
        49%
        99.5%
        3,966,558
        115 bp
        47%
        SYN009.I0101.SG1.1_S0_L004_R2_001
        3,981,101
        151 bp
        49%
        SYN009.I0101_L1_polyg
        47.7%
        SYN009.I0101_L2_polyg
        47.8%
        SYN009.I0101_L3_polyg
        48.1%
        SYN009.I0101_L4_polyg
        47.9%
        SYN012.I0101
        44.1%
        14,614,461
        6,273
        0.04
        6,273
        0.04
        83.8%
        20.6%
        SYN012.I0101.SG1.1_S0_L001_R1_001
        3,570,228
        151 bp
        48%
        98.2%
        3,637,867
        139 bp
        46%
        SYN012.I0101.SG1.1_S0_L001_R2_001
        3,570,228
        151 bp
        47%
        SYN012.I0101.SG1.1_S0_L002_R1_001
        3,523,198
        151 bp
        48%
        98.2%
        3,590,788
        139 bp
        46%
        SYN012.I0101.SG1.1_S0_L002_R2_001
        3,523,198
        151 bp
        47%
        SYN012.I0101.SG1.1_S0_L003_R1_001
        3,647,244
        151 bp
        48%
        98.0%
        3,722,204
        139 bp
        46%
        SYN012.I0101.SG1.1_S0_L003_R2_001
        3,647,244
        151 bp
        47%
        SYN012.I0101.SG1.1_S0_L004_R1_001
        3,595,317
        151 bp
        48%
        98.2%
        3,663,602
        139 bp
        46%
        SYN012.I0101.SG1.1_S0_L004_R2_001
        3,595,317
        151 bp
        47%
        SYN012.I0101_L1_polyg
        46.8%
        SYN012.I0101_L2_polyg
        46.8%
        SYN012.I0101_L3_polyg
        47.1%
        SYN012.I0101_L4_polyg
        46.9%
        SYN013.I0101
        32.7%
        12,471,967
        5,434
        0.04
        5,434
        0.04
        77.8%
        16.2%
        SYN013.I0101.SG1.1_S0_L001_R1_001
        3,353,735
        151 bp
        45%
        99.5%
        3,342,234
        114 bp
        41%
        SYN013.I0101.SG1.1_S0_L001_R2_001
        3,353,735
        151 bp
        44%
        SYN013.I0101.SG1.1_S0_L002_R1_001
        3,289,052
        151 bp
        45%
        99.5%
        3,276,953
        114 bp
        41%
        SYN013.I0101.SG1.1_S0_L002_R2_001
        3,289,052
        151 bp
        44%
        SYN013.I0101.SG1.1_S0_L003_R1_001
        3,430,939
        151 bp
        45%
        99.5%
        3,420,830
        114 bp
        41%
        SYN013.I0101.SG1.1_S0_L003_R2_001
        3,430,939
        151 bp
        44%
        SYN013.I0101.SG1.1_S0_L004_R1_001
        99.5%
        2,431,950
        114 bp
        41%
        SYN013.I0101.SG1.1_S0_L004_R2_001
        3,377,921
        151 bp
        44%
        SYN013.I0101_L1_polyg
        43.4%
        SYN013.I0101_L2_polyg
        43.4%
        SYN013.I0101_L3_polyg
        43.7%
        SYN013.I0101_L4_polyg
        43.6%
        SYN014.A0101
        14.0%
        14,216,100
        7,809
        0.05
        7,809
        0.05
        72.5%
        62.7%
        SYN014.A0101.SG1.1_S0_L001_R1_001
        3,543,227
        151 bp
        43%
        99.4%
        3,542,519
        125 bp
        40%
        SYN014.A0101.SG1.1_S0_L001_R2_001
        3,543,227
        151 bp
        43%
        SYN014.A0101.SG1.1_S0_L002_R1_001
        3,490,571
        151 bp
        43%
        99.4%
        3,488,380
        125 bp
        40%
        SYN014.A0101.SG1.1_S0_L002_R2_001
        3,490,571
        151 bp
        43%
        SYN014.A0101.SG1.1_S0_L003_R1_001
        3,628,491
        151 bp
        43%
        99.4%
        3,628,404
        124 bp
        40%
        SYN014.A0101.SG1.1_S0_L003_R2_001
        3,628,491
        151 bp
        43%
        SYN014.A0101.SG1.1_S0_L004_R1_001
        3,559,805
        151 bp
        43%
        99.4%
        3,556,797
        124 bp
        40%
        SYN014.A0101.SG1.1_S0_L004_R2_001
        3,559,805
        151 bp
        43%
        SYN014.A0101_L1_polyg
        42.2%
        SYN014.A0101_L2_polyg
        42.2%
        SYN014.A0101_L3_polyg
        42.4%
        SYN014.A0101_L4_polyg
        42.3%
        SYN014.C0101
        20.7%
        12,555,540
        5,451
        0.04
        5,451
        0.04
        82.8%
        58.8%
        SYN014.C0101.SG1.1_S0_L001_R1_001
        3,117,954
        151 bp
        45%
        99.4%
        3,122,244
        124 bp
        43%
        SYN014.C0101.SG1.1_S0_L001_R2_001
        3,117,954
        151 bp
        44%
        SYN014.C0101.SG1.1_S0_L002_R1_001
        3,080,716
        151 bp
        45%
        99.4%
        3,084,787
        125 bp
        43%
        SYN014.C0101.SG1.1_S0_L002_R2_001
        3,080,716
        151 bp
        44%
        SYN014.C0101.SG1.1_S0_L003_R1_001
        3,202,841
        151 bp
        45%
        99.4%
        3,208,712
        124 bp
        43%
        SYN014.C0101.SG1.1_S0_L003_R2_001
        3,202,841
        151 bp
        44%
        SYN014.C0101.SG1.1_S0_L004_R1_001
        3,135,618
        151 bp
        45%
        99.4%
        3,139,797
        124 bp
        43%
        SYN014.C0101.SG1.1_S0_L004_R2_001
        3,135,618
        151 bp
        44%
        SYN014.C0101_L1_polyg
        43.7%
        SYN014.C0101_L2_polyg
        43.7%
        SYN014.C0101_L3_polyg
        43.9%
        SYN014.C0101_L4_polyg
        43.8%
        SYN015.B0101
        24.4%
        14,246,779
        9,688
        0.07
        9,688
        0.07
        59.5%
        27.7%
        SYN015.B0101.SG1.1_S0_L001_R1_001
        3,543,527
        151 bp
        46%
        99.3%
        3,544,394
        129 bp
        42%
        SYN015.B0101.SG1.1_S0_L001_R2_001
        3,543,527
        151 bp
        45%
        SYN015.B0101.SG1.1_S0_L002_R1_001
        3,500,733
        151 bp
        46%
        99.2%
        3,502,046
        129 bp
        42%
        SYN015.B0101.SG1.1_S0_L002_R2_001
        3,500,733
        151 bp
        45%
        SYN015.B0101.SG1.1_S0_L003_R1_001
        3,627,276
        151 bp
        46%
        99.2%
        3,630,864
        128 bp
        42%
        SYN015.B0101.SG1.1_S0_L003_R2_001
        3,627,276
        151 bp
        45%
        SYN015.B0101.SG1.1_S0_L004_R1_001
        3,569,013
        151 bp
        46%
        99.2%
        3,569,475
        129 bp
        42%
        SYN015.B0101.SG1.1_S0_L004_R2_001
        3,569,013
        151 bp
        45%
        SYN015.B0101_L1_polyg
        44.5%
        SYN015.B0101_L2_polyg
        44.6%
        SYN015.B0101_L3_polyg
        44.8%
        SYN015.B0101_L4_polyg
        44.7%
        SYN015.D0101
        54.5%
        10,790,895
        6,042
        0.06
        6,042
        0.06
        69.0%
        9.2%
        SYN015.D0101.SG1.1_S0_L001_R1_001
        2,702,420
        151 bp
        49%
        99.0%
        2,697,759
        126 bp
        47%
        SYN015.D0101.SG1.1_S0_L001_R2_001
        2,702,420
        151 bp
        49%
        SYN015.D0101.SG1.1_S0_L002_R1_001
        2,644,226
        151 bp
        49%
        98.9%
        2,640,060
        126 bp
        47%
        SYN015.D0101.SG1.1_S0_L002_R2_001
        2,644,226
        151 bp
        49%
        SYN015.D0101.SG1.1_S0_L003_R1_001
        2,767,982
        151 bp
        50%
        98.8%
        2,766,182
        126 bp
        47%
        SYN015.D0101.SG1.1_S0_L003_R2_001
        2,767,982
        151 bp
        49%
        SYN015.D0101.SG1.1_S0_L004_R1_001
        2,691,401
        151 bp
        49%
        99.0%
        2,686,894
        126 bp
        47%
        SYN015.D0101.SG1.1_S0_L004_R2_001
        2,691,401
        151 bp
        49%
        SYN015.D0101_L1_polyg
        47.6%
        SYN015.D0101_L2_polyg
        47.7%
        SYN015.D0101_L3_polyg
        48.0%
        SYN015.D0101_L4_polyg
        47.9%
        SYN015.E0101
        65.1%
        9,018,395
        7,706
        0.09
        7,706
        0.09
        61.8%
        6.6%
        SYN015.E0101.SG1.1_S0_L001_R1_001
        2,434,156
        151 bp
        53%
        99.3%
        2,244,620
        93 bp
        47%
        SYN015.E0101.SG1.1_S0_L001_R2_001
        2,434,156
        151 bp
        52%
        SYN015.E0101.SG1.1_S0_L002_R1_001
        2,391,382
        151 bp
        53%
        99.2%
        2,207,763
        93 bp
        47%
        SYN015.E0101.SG1.1_S0_L002_R2_001
        2,391,382
        151 bp
        52%
        SYN015.E0101.SG1.1_S0_L003_R1_001
        2,509,659
        151 bp
        54%
        99.2%
        2,314,252
        93 bp
        47%
        SYN015.E0101.SG1.1_S0_L003_R2_001
        2,509,659
        151 bp
        52%
        SYN015.E0101.SG1.1_S0_L004_R1_001
        2,440,290
        151 bp
        53%
        99.2%
        2,251,760
        93 bp
        47%
        SYN015.E0101.SG1.1_S0_L004_R2_001
        2,440,290
        151 bp
        52%
        SYN015.E0101_L1_polyg
        47.9%
        SYN015.E0101_L2_polyg
        48.0%
        SYN015.E0101_L3_polyg
        48.6%
        SYN015.E0101_L4_polyg
        48.3%
        SYN015.F0101
        36.8%
        14,526,224
        9,625
        0.07
        9,625
        0.07
        56.1%
        23.6%
        SYN015.F0101.SG1.1_S0_L001_R1_001
        3,661,829
        151 bp
        47%
        99.0%
        3,611,359
        124 bp
        45%
        SYN015.F0101.SG1.1_S0_L001_R2_001
        3,661,829
        151 bp
        46%
        SYN015.F0101.SG1.1_S0_L002_R1_001
        3,621,190
        151 bp
        47%
        98.9%
        3,573,360
        124 bp
        45%
        SYN015.F0101.SG1.1_S0_L002_R2_001
        3,621,190
        151 bp
        46%
        SYN015.F0101.SG1.1_S0_L003_R1_001
        3,750,710
        151 bp
        47%
        98.9%
        3,701,440
        124 bp
        45%
        SYN015.F0101.SG1.1_S0_L003_R2_001
        3,750,710
        151 bp
        46%
        SYN015.F0101.SG1.1_S0_L004_R1_001
        3,689,783
        151 bp
        47%
        98.9%
        3,640,065
        124 bp
        45%
        SYN015.F0101.SG1.1_S0_L004_R2_001
        3,689,783
        151 bp
        46%
        SYN015.F0101_L1_polyg
        44.8%
        SYN015.F0101_L2_polyg
        44.8%
        SYN015.F0101_L3_polyg
        45.0%
        SYN015.F0101_L4_polyg
        44.9%
        SYN015.G0101
        17.2%
        12,814,375
        7,009
        0.05
        7,009
        0.05
        64.8%
        34.3%
        SYN015.G0101.SG1.1_S0_L001_R1_001
        3,209,970
        151 bp
        43%
        99.3%
        3,198,393
        125 bp
        40%
        SYN015.G0101.SG1.1_S0_L001_R2_001
        3,209,970
        151 bp
        43%
        SYN015.G0101.SG1.1_S0_L002_R1_001
        3,149,076
        151 bp
        43%
        99.3%
        3,137,769
        125 bp
        40%
        SYN015.G0101.SG1.1_S0_L002_R2_001
        3,149,076
        151 bp
        43%
        SYN015.G0101.SG1.1_S0_L003_R1_001
        3,280,448
        151 bp
        43%
        99.2%
        3,269,709
        125 bp
        40%
        SYN015.G0101.SG1.1_S0_L003_R2_001
        3,280,448
        151 bp
        43%
        SYN015.G0101.SG1.1_S0_L004_R1_001
        3,220,926
        151 bp
        43%
        99.3%
        3,208,504
        125 bp
        40%
        SYN015.G0101.SG1.1_S0_L004_R2_001
        3,220,926
        151 bp
        43%
        SYN015.G0101_L1_polyg
        41.9%
        SYN015.G0101_L2_polyg
        41.9%
        SYN015.G0101_L3_polyg
        42.0%
        SYN015.G0101_L4_polyg
        41.9%
        SYN015.H0101
        19.1%
        15,108,690
        9,098
        0.06
        9,098
        0.06
        63.6%
        27.4%
        SYN015.H0101.SG1.1_S0_L001_R1_001
        3,793,125
        151 bp
        45%
        99.5%
        3,777,380
        113 bp
        40%
        SYN015.H0101.SG1.1_S0_L001_R2_001
        3,793,125
        151 bp
        43%
        SYN015.H0101.SG1.1_S0_L002_R1_001
        3,708,409
        151 bp
        45%
        99.5%
        3,687,781
        114 bp
        40%
        SYN015.H0101.SG1.1_S0_L002_R2_001
        3,708,409
        151 bp
        44%
        SYN015.H0101.SG1.1_S0_L003_R1_001
        3,891,367
        151 bp
        45%
        99.5%
        3,876,620
        113 bp
        40%
        SYN015.H0101.SG1.1_S0_L003_R2_001
        3,891,367
        151 bp
        44%
        SYN015.H0101.SG1.1_S0_L004_R1_001
        3,788,027
        151 bp
        45%
        99.5%
        3,766,909
        113 bp
        40%
        SYN015.H0101.SG1.1_S0_L004_R2_001
        3,788,027
        151 bp
        44%
        SYN015.H0101_L1_polyg
        43.0%
        SYN015.H0101_L2_polyg
        43.1%
        SYN015.H0101_L3_polyg
        43.4%
        SYN015.H0101_L4_polyg
        43.2%
        SYN015.I0101
        46.3%
        14,620,185
        7,201
        0.05
        7,201
        0.05
        74.8%
        9.4%
        SYN015.I0101.SG1.1_S0_L001_R1_001
        3,580,273
        151 bp
        48%
        98.4%
        3,633,680
        141 bp
        46%
        SYN015.I0101.SG1.1_S0_L001_R2_001
        3,580,273
        151 bp
        48%
        SYN015.I0101.SG1.1_S0_L002_R1_001
        3,535,158
        151 bp
        48%
        98.4%
        3,589,018
        141 bp
        47%
        SYN015.I0101.SG1.1_S0_L002_R2_001
        3,535,158
        151 bp
        48%
        SYN015.I0101.SG1.1_S0_L003_R1_001
        3,674,014
        151 bp
        48%
        98.3%
        3,734,051
        140 bp
        47%
        SYN015.I0101.SG1.1_S0_L003_R2_001
        3,674,014
        151 bp
        48%
        SYN015.I0101.SG1.1_S0_L004_R1_001
        3,608,926
        151 bp
        48%
        98.4%
        3,663,436
        141 bp
        47%
        SYN015.I0101.SG1.1_S0_L004_R2_001
        3,608,926
        151 bp
        48%
        SYN015.I0101_L1_polyg
        47.3%
        SYN015.I0101_L2_polyg
        47.4%
        SYN015.I0101_L3_polyg
        47.7%
        SYN015.I0101_L4_polyg
        47.5%
        SYN016.I0101
        39.4%
        13,611,033
        6,745
        0.05
        6,745
        0.05
        73.2%
        17.3%
        SYN016.I0101.SG1.1_S0_L001_R1_001
        3,393,714
        151 bp
        46%
        99.4%
        3,387,909
        118 bp
        44%
        SYN016.I0101.SG1.1_S0_L001_R2_001
        3,393,714
        151 bp
        47%
        SYN016.I0101.SG1.1_S0_L002_R1_001
        3,338,917
        151 bp
        46%
        99.4%
        3,333,834
        118 bp
        44%
        SYN016.I0101.SG1.1_S0_L002_R2_001
        3,338,917
        151 bp
        47%
        SYN016.I0101.SG1.1_S0_L003_R1_001
        3,489,146
        151 bp
        47%
        99.3%
        3,486,174
        117 bp
        44%
        SYN016.I0101.SG1.1_S0_L003_R2_001
        3,489,146
        151 bp
        47%
        SYN016.I0101.SG1.1_S0_L004_R1_001
        3,407,948
        151 bp
        47%
        99.4%
        3,403,116
        118 bp
        44%
        SYN016.I0101.SG1.1_S0_L004_R2_001
        3,407,948
        151 bp
        47%
        SYN016.I0101_L1_polyg
        45.5%
        SYN016.I0101_L2_polyg
        45.6%
        SYN016.I0101_L3_polyg
        45.8%
        SYN016.I0101_L4_polyg
        45.6%
        SYN017.A0101
        20.4%
        14,050,397
        6,704
        0.05
        6,704
        0.05
        78.8%
        0.0%
        SYN017.A0101.SG1.1_S0_L001_R1_001
        3,485,347
        151 bp
        45%
        99.4%
        3,494,330
        131 bp
        43%
        SYN017.A0101.SG1.1_S0_L001_R2_001
        3,485,347
        151 bp
        45%
        SYN017.A0101.SG1.1_S0_L002_R1_001
        3,442,859
        151 bp
        45%
        99.3%
        3,452,416
        131 bp
        43%
        SYN017.A0101.SG1.1_S0_L002_R2_001
        3,442,859
        151 bp
        45%
        SYN017.A0101.SG1.1_S0_L003_R1_001
        3,571,784
        151 bp
        45%
        99.3%
        3,583,423
        131 bp
        43%
        SYN017.A0101.SG1.1_S0_L003_R2_001
        3,571,784
        151 bp
        45%
        SYN017.A0101.SG1.1_S0_L004_R1_001
        3,511,162
        151 bp
        45%
        99.4%
        3,520,228
        131 bp
        43%
        SYN017.A0101.SG1.1_S0_L004_R2_001
        3,511,162
        151 bp
        45%
        SYN017.A0101_L1_polyg
        44.4%
        SYN017.A0101_L2_polyg
        44.4%
        SYN017.A0101_L3_polyg
        44.6%
        SYN017.A0101_L4_polyg
        44.5%
        SYN017.B0101
        20.5%
        12,487,099
        5,479
        0.04
        5,479
        0.04
        82.9%
        0.0%
        SYN017.B0101.SG1.1_S0_L001_R1_001
        3,632,902
        151 bp
        44%
        99.1%
        3,658,418
        136 bp
        42%
        SYN017.B0101.SG1.1_S0_L001_R2_001
        3,632,902
        151 bp
        44%
        SYN017.B0101.SG1.1_S0_L002_R1_001
        3,586,265
        151 bp
        44%
        99.1%
        3,612,265
        137 bp
        42%
        SYN017.B0101.SG1.1_S0_L002_R2_001
        3,586,265
        151 bp
        44%
        SYN017.B0101.SG1.1_S0_L003_R1_001
        3,706,808
        151 bp
        44%
        99.0%
        3,734,565
        136 bp
        42%
        SYN017.B0101.SG1.1_S0_L003_R2_001
        3,706,808
        151 bp
        44%
        SYN017.B0101.SG1.1_S0_L004_R1_001
        3,651,689
        151 bp
        44%
        99.1%
        1,481,851
        137 bp
        42%
        SYN017.B0101_L1_polyg
        43.8%
        SYN017.B0101_L2_polyg
        43.8%
        SYN017.B0101_L3_polyg
        43.9%
        SYN017.B0101_L4_polyg
        43.8%
        SYN017.D0101
        49.3%
        8,083,229
        3,429
        0.04
        3,429
        0.04
        83.6%
        29.0%
        SYN017.D0101.SG1.1_S0_L001_R1_001
        1,997,426
        151 bp
        47%
        99.0%
        2,013,921
        134 bp
        46%
        SYN017.D0101.SG1.1_S0_L001_R2_001
        1,997,426
        151 bp
        47%
        SYN017.D0101.SG1.1_S0_L002_R1_001
        1,964,036
        151 bp
        47%
        99.0%
        1,979,402
        135 bp
        46%
        SYN017.D0101.SG1.1_S0_L002_R2_001
        1,964,036
        151 bp
        47%
        SYN017.D0101.SG1.1_S0_L003_R1_001
        2,045,215
        151 bp
        48%
        98.8%
        2,064,503
        134 bp
        46%
        SYN017.D0101.SG1.1_S0_L003_R2_001
        2,045,215
        151 bp
        47%
        SYN017.D0101.SG1.1_S0_L004_R1_001
        2,009,355
        151 bp
        48%
        98.9%
        2,025,403
        135 bp
        46%
        SYN017.D0101.SG1.1_S0_L004_R2_001
        2,009,355
        151 bp
        47%
        SYN017.D0101_L1_polyg
        46.9%
        SYN017.D0101_L2_polyg
        46.9%
        SYN017.D0101_L3_polyg
        47.1%
        SYN017.D0101_L4_polyg
        47.0%
        SYN017.E0101
        48.8%
        12,505,834
        7,029
        0.06
        7,029
        0.06
        67.6%
        25.7%
        SYN017.E0101.SG1.1_S0_L001_R1_001
        3,081,377
        151 bp
        48%
        98.7%
        3,114,406
        136 bp
        47%
        SYN017.E0101.SG1.1_S0_L001_R2_001
        3,081,377
        151 bp
        48%
        SYN017.E0101.SG1.1_S0_L002_R1_001
        3,038,493
        151 bp
        48%
        98.7%
        3,070,816
        136 bp
        47%
        SYN017.E0101.SG1.1_S0_L002_R2_001
        3,038,493
        151 bp
        48%
        SYN017.E0101.SG1.1_S0_L003_R1_001
        3,149,306
        151 bp
        48%
        98.6%
        3,187,332
        135 bp
        47%
        SYN017.E0101.SG1.1_S0_L003_R2_001
        3,149,306
        151 bp
        48%
        SYN017.E0101.SG1.1_S0_L004_R1_001
        3,100,144
        151 bp
        48%
        98.7%
        3,133,280
        136 bp
        47%
        SYN017.E0101.SG1.1_S0_L004_R2_001
        3,100,144
        151 bp
        48%
        SYN017.E0101_L1_polyg
        47.5%
        SYN017.E0101_L2_polyg
        47.5%
        SYN017.E0101_L3_polyg
        47.6%
        SYN017.E0101_L4_polyg
        47.6%
        SYN017.F0101
        25.1%
        13,812,745
        6,528
        0.05
        6,528
        0.05
        76.4%
        36.3%
        SYN017.F0101.SG1.1_S0_L001_R1_001
        3,417,574
        151 bp
        44%
        99.0%
        3,441,586
        133 bp
        42%
        SYN017.F0101.SG1.1_S0_L001_R2_001
        3,417,574
        151 bp
        44%
        SYN017.F0101.SG1.1_S0_L002_R1_001
        3,368,341
        151 bp
        44%
        99.0%
        3,392,898
        133 bp
        42%
        SYN017.F0101.SG1.1_S0_L002_R2_001
        3,368,341
        151 bp
        44%
        SYN017.F0101.SG1.1_S0_L003_R1_001
        3,490,379
        151 bp
        44%
        98.9%
        3,517,122
        132 bp
        42%
        SYN017.F0101.SG1.1_S0_L003_R2_001
        3,490,379
        151 bp
        44%
        SYN017.F0101.SG1.1_S0_L004_R1_001
        3,437,249
        151 bp
        44%
        99.0%
        3,461,139
        133 bp
        42%
        SYN017.F0101.SG1.1_S0_L004_R2_001
        3,437,249
        151 bp
        44%
        SYN017.F0101_L1_polyg
        43.3%
        SYN017.F0101_L2_polyg
        43.3%
        SYN017.F0101_L3_polyg
        43.4%
        SYN017.F0101_L4_polyg
        43.3%
        SYN017.G0101
        16.5%
        9,578,283
        4,505
        0.05
        4,505
        0.05
        82.8%
        25.6%
        SYN017.G0101.SG1.1_S0_L001_R1_001
        2,796,211
        151 bp
        43%
        99.5%
        2,796,595
        125 bp
        40%
        SYN017.G0101.SG1.1_S0_L001_R2_001
        2,796,211
        151 bp
        43%
        SYN017.G0101.SG1.1_S0_L002_R1_001
        2,753,884
        151 bp
        43%
        99.5%
        2,752,306
        125 bp
        40%
        SYN017.G0101.SG1.1_S0_L002_R2_001
        2,753,884
        151 bp
        43%
        SYN017.G0101.SG1.1_S0_L003_R1_001
        2,852,130
        151 bp
        44%
        99.4%
        1,219,078
        124 bp
        40%
        SYN017.G0101.SG1.1_S0_L003_R2_001
        1,218,565
        151 bp
        43%
        SYN017.G0101.SG1.1_S0_L004_R1_001
        2,811,959
        151 bp
        43%
        99.5%
        2,810,304
        125 bp
        40%
        SYN017.G0101.SG1.1_S0_L004_R2_001
        2,811,959
        151 bp
        43%
        SYN017.G0101_L1_polyg
        42.5%
        SYN017.G0101_L2_polyg
        42.5%
        SYN017.G0101_L3_polyg
        42.8%
        SYN017.G0101_L4_polyg
        42.6%
        SYN018.C0101
        29.8%
        16,248,693
        21,821
        0.13
        21,821
        0.13
        39.7%
        8.2%
        SYN018.C0101.SG1.1_S0_L001_R1_001
        4,099,481
        151 bp
        46%
        99.0%
        4,037,814
        123 bp
        43%
        SYN018.C0101.SG1.1_S0_L001_R2_001
        4,099,481
        151 bp
        46%
        SYN018.C0101.SG1.1_S0_L002_R1_001
        4,051,626
        151 bp
        46%
        99.0%
        3,994,093
        124 bp
        43%
        SYN018.C0101.SG1.1_S0_L002_R2_001
        4,051,626
        151 bp
        46%
        SYN018.C0101.SG1.1_S0_L003_R1_001
        4,206,372
        151 bp
        47%
        98.9%
        4,143,536
        123 bp
        43%
        SYN018.C0101.SG1.1_S0_L003_R2_001
        4,206,372
        151 bp
        46%
        SYN018.C0101.SG1.1_S0_L004_R1_001
        4,133,561
        151 bp
        46%
        99.0%
        4,073,250
        123 bp
        43%
        SYN018.C0101.SG1.1_S0_L004_R2_001
        4,133,561
        151 bp
        46%
        SYN018.C0101_L1_polyg
        44.3%
        SYN018.C0101_L2_polyg
        44.3%
        SYN018.C0101_L3_polyg
        44.5%
        SYN018.C0101_L4_polyg
        44.4%
        SYN018.H0101
        26.1%
        14,987,668
        8,242
        0.05
        8,242
        0.05
        70.4%
        15.6%
        SYN018.H0101.SG1.1_S0_L001_R1_001
        3,731,093
        151 bp
        44%
        99.5%
        3,723,656
        122 bp
        40%
        SYN018.H0101.SG1.1_S0_L001_R2_001
        3,731,093
        151 bp
        43%
        SYN018.H0101.SG1.1_S0_L002_R1_001
        3,693,993
        151 bp
        44%
        99.5%
        3,685,986
        122 bp
        40%
        SYN018.H0101.SG1.1_S0_L002_R2_001
        3,693,993
        151 bp
        43%
        SYN018.H0101.SG1.1_S0_L003_R1_001
        3,826,284
        151 bp
        44%
        99.4%
        3,819,117
        122 bp
        40%
        SYN018.H0101.SG1.1_S0_L003_R2_001
        3,826,284
        151 bp
        43%
        SYN018.H0101.SG1.1_S0_L004_R1_001
        3,768,126
        151 bp
        44%
        99.5%
        3,758,909
        122 bp
        40%
        SYN018.H0101.SG1.1_S0_L004_R2_001
        3,768,126
        151 bp
        43%
        SYN018.H0101_L1_polyg
        42.7%
        SYN018.H0101_L2_polyg
        42.8%
        SYN018.H0101_L3_polyg
        43.0%
        SYN018.H0101_L4_polyg
        42.9%
        SYN018.I0101
        20.6%
        14,014,214
        4,958
        0.04
        4,958
        0.04
        85.2%
        16.4%
        SYN018.I0101.SG1.1_S0_L001_R1_001
        3,227,126
        151 bp
        42%
        93.9%
        3,494,059
        156 bp
        40%
        SYN018.I0101.SG1.1_S0_L001_R2_001
        3,227,126
        151 bp
        42%
        SYN018.I0101.SG1.1_S0_L002_R1_001
        3,185,014
        151 bp
        42%
        93.8%
        3,450,358
        157 bp
        40%
        SYN018.I0101.SG1.1_S0_L002_R2_001
        3,185,014
        151 bp
        42%
        SYN018.I0101.SG1.1_S0_L003_R1_001
        3,284,013
        151 bp
        42%
        93.8%
        3,556,258
        156 bp
        40%
        SYN018.I0101.SG1.1_S0_L003_R2_001
        3,284,013
        151 bp
        42%
        SYN018.I0101.SG1.1_S0_L004_R1_001
        3,246,729
        151 bp
        42%
        94.0%
        3,513,539
        156 bp
        40%
        SYN018.I0101.SG1.1_S0_L004_R2_001
        3,246,729
        151 bp
        42%
        SYN018.I0101_L1_polyg
        41.7%
        SYN018.I0101_L2_polyg
        41.7%
        SYN018.I0101_L3_polyg
        41.8%
        SYN018.I0101_L4_polyg
        41.7%
        SYN019.I0101
        42.7%
        13,908,460
        6,426
        0.05
        6,426
        0.05
        75.8%
        14.4%
        SYN019.I0101.SG1.1_S0_L001_R1_001
        3,460,838
        151 bp
        49%
        99.2%
        3,459,274
        125 bp
        47%
        SYN019.I0101.SG1.1_S0_L001_R2_001
        3,460,838
        151 bp
        48%
        SYN019.I0101.SG1.1_S0_L002_R1_001
        3,409,491
        151 bp
        49%
        99.2%
        3,409,509
        125 bp
        47%
        SYN019.I0101.SG1.1_S0_L002_R2_001
        3,409,491
        151 bp
        48%
        SYN019.I0101.SG1.1_S0_L003_R1_001
        3,554,111
        151 bp
        49%
        99.1%
        3,556,789
        125 bp
        47%
        SYN019.I0101.SG1.1_S0_L003_R2_001
        3,554,111
        151 bp
        48%
        SYN019.I0101.SG1.1_S0_L004_R1_001
        3,482,559
        151 bp
        49%
        99.2%
        3,482,888
        125 bp
        47%
        SYN019.I0101.SG1.1_S0_L004_R2_001
        3,482,559
        151 bp
        48%
        SYN019.I0101_L1_polyg
        47.5%
        SYN019.I0101_L2_polyg
        47.5%
        SYN019.I0101_L3_polyg
        47.9%
        SYN019.I0101_L4_polyg
        47.7%
        SYN021.I0101
        21.6%
        12,163,034
        4,715
        0.04
        4,715
        0.04
        74.1%
        37.4%
        SYN021.I0101.SG1.1_S0_L001_R1_001
        3,030,259
        151 bp
        45%
        99.0%
        3,044,181
        130 bp
        43%
        SYN021.I0101.SG1.1_S0_L001_R2_001
        3,030,259
        151 bp
        45%
        SYN021.I0101.SG1.1_S0_L002_R1_001
        2,943,956
        151 bp
        45%
        99.0%
        2,958,137
        130 bp
        43%
        SYN021.I0101.SG1.1_S0_L002_R2_001
        2,943,956
        151 bp
        45%
        SYN021.I0101.SG1.1_S0_L003_R1_001
        3,128,191
        151 bp
        45%
        98.9%
        3,145,416
        130 bp
        43%
        SYN021.I0101.SG1.1_S0_L003_R2_001
        3,128,191
        151 bp
        45%
        SYN021.I0101.SG1.1_S0_L004_R1_001
        3,001,132
        151 bp
        45%
        99.0%
        3,015,300
        130 bp
        43%
        SYN021.I0101.SG1.1_S0_L004_R2_001
        3,001,132
        151 bp
        45%
        SYN021.I0101_L1_polyg
        44.1%
        SYN021.I0101_L2_polyg
        44.1%
        SYN021.I0101_L3_polyg
        44.2%
        SYN021.I0101_L4_polyg
        44.1%
        SYN022.I0101
        35.8%
        14,148,991
        6,479
        0.05
        6,479
        0.05
        80.7%
        8.3%
        SYN022.I0101.SG1.1_S0_L001_R1_001
        3,520,014
        151 bp
        47%
        99.3%
        3,514,111
        126 bp
        46%
        SYN022.I0101.SG1.1_S0_L001_R2_001
        3,520,014
        151 bp
        47%
        SYN022.I0101.SG1.1_S0_L002_R1_001
        3,479,886
        151 bp
        47%
        99.3%
        3,475,424
        126 bp
        46%
        SYN022.I0101.SG1.1_S0_L002_R2_001
        3,479,886
        151 bp
        47%
        SYN022.I0101.SG1.1_S0_L003_R1_001
        3,613,532
        151 bp
        47%
        99.2%
        3,610,610
        126 bp
        46%
        SYN022.I0101.SG1.1_S0_L003_R2_001
        3,613,532
        151 bp
        47%
        SYN022.I0101.SG1.1_S0_L004_R1_001
        3,554,142
        151 bp
        47%
        99.3%
        3,548,846
        126 bp
        46%
        SYN022.I0101.SG1.1_S0_L004_R2_001
        3,554,142
        151 bp
        47%
        SYN022.I0101_L1_polyg
        46.1%
        SYN022.I0101_L2_polyg
        46.1%
        SYN022.I0101_L3_polyg
        46.4%
        SYN022.I0101_L4_polyg
        46.2%
        SYN023.I0101
        47.3%
        15,230,369
        4,952
        0.03
        4,952
        0.03
        89.5%
        3.1%
        SYN023.I0101.SG1.1_S0_L001_R1_001
        3,203,812
        151 bp
        45%
        85.7%
        3,804,420
        160 bp
        44%
        SYN023.I0101.SG1.1_S0_L001_R2_001
        3,203,812
        151 bp
        45%
        SYN023.I0101.SG1.1_S0_L002_R1_001
        3,152,254
        151 bp
        45%
        85.6%
        3,749,154
        160 bp
        44%
        SYN023.I0101.SG1.1_S0_L002_R2_001
        3,152,254
        151 bp
        45%
        SYN023.I0101.SG1.1_S0_L003_R1_001
        3,261,683
        151 bp
        45%
        85.6%
        3,874,002
        160 bp
        45%
        SYN023.I0101.SG1.1_S0_L003_R2_001
        3,261,683
        151 bp
        45%
        SYN023.I0101.SG1.1_S0_L004_R1_001
        3,204,914
        151 bp
        45%
        85.8%
        3,802,793
        160 bp
        44%
        SYN023.I0101.SG1.1_S0_L004_R2_001
        3,204,914
        151 bp
        45%
        SYN023.I0101_L1_polyg
        44.9%
        SYN023.I0101_L2_polyg
        44.9%
        SYN023.I0101_L3_polyg
        45.0%
        SYN023.I0101_L4_polyg
        44.9%
        SYN025.I0101
        43.3%
        18,307,538
        9,983
        0.05
        9,983
        0.05
        84.3%
        6.6%
        SYN025.I0101.SG1.1_S0_L001_R1_001
        4,564,727
        151 bp
        47%
        99.3%
        4,557,728
        124 bp
        46%
        SYN025.I0101.SG1.1_S0_L001_R2_001
        4,564,727
        151 bp
        48%
        SYN025.I0101.SG1.1_S0_L002_R1_001
        4,515,044
        151 bp
        47%
        99.2%
        4,489,658
        124 bp
        46%
        SYN025.I0101.SG1.1_S0_L002_R2_001
        4,515,044
        151 bp
        48%
        SYN025.I0101.SG1.1_S0_L003_R1_001
        4,683,210
        151 bp
        47%
        99.2%
        4,680,938
        124 bp
        46%
        SYN025.I0101.SG1.1_S0_L003_R2_001
        4,683,210
        151 bp
        48%
        SYN025.I0101.SG1.1_S0_L004_R1_001
        4,602,922
        151 bp
        47%
        99.2%
        4,579,214
        124 bp
        46%
        SYN025.I0101.SG1.1_S0_L004_R2_001
        4,602,922
        151 bp
        48%
        SYN025.I0101_L1_polyg
        46.4%
        SYN025.I0101_L2_polyg
        46.4%
        SYN025.I0101_L3_polyg
        46.6%
        SYN025.I0101_L4_polyg
        46.5%
        SYN026.I0101
        24.2%
        14,245,468
        4,980
        0.03
        4,980
        0.03
        73.3%
        30.1%
        SYN026.I0101.SG1.1_S0_L001_R1_001
        3,539,831
        151 bp
        45%
        99.0%
        3,560,272
        129 bp
        43%
        SYN026.I0101.SG1.1_S0_L001_R2_001
        3,539,831
        151 bp
        45%
        SYN026.I0101.SG1.1_S0_L002_R1_001
        3,457,127
        151 bp
        45%
        99.0%
        3,478,791
        130 bp
        43%
        SYN026.I0101.SG1.1_S0_L002_R2_001
        3,457,127
        151 bp
        45%
        SYN026.I0101.SG1.1_S0_L003_R1_001
        3,653,260
        151 bp
        46%
        98.9%
        3,678,298
        129 bp
        43%
        SYN026.I0101.SG1.1_S0_L003_R2_001
        3,653,260
        151 bp
        45%
        SYN026.I0101.SG1.1_S0_L004_R1_001
        3,507,212
        151 bp
        45%
        99.0%
        3,528,107
        129 bp
        43%
        SYN026.I0101.SG1.1_S0_L004_R2_001
        3,507,212
        151 bp
        45%
        SYN026.I0101_L1_polyg
        44.4%
        SYN026.I0101_L2_polyg
        44.5%
        SYN026.I0101_L3_polyg
        44.8%
        SYN026.I0101_L4_polyg
        44.6%
        SYN028.I0101
        38.2%
        18,021,868
        6,174
        0.03
        6,174
        0.03
        90.4%
        3.9%
        SYN028.I0101.SG1.1_S0_L001_R1_001
        3,746,604
        151 bp
        45%
        85.1%
        4,479,971
        160 bp
        45%
        SYN028.I0101.SG1.1_S0_L001_R2_001
        3,746,604
        151 bp
        45%
        SYN028.I0101.SG1.1_S0_L002_R1_001
        3,722,803
        151 bp
        45%
        84.8%
        4,458,865
        160 bp
        45%
        SYN028.I0101.SG1.1_S0_L002_R2_001
        3,722,803
        151 bp
        45%
        SYN028.I0101.SG1.1_S0_L003_R1_001
        3,821,020
        151 bp
        46%
        84.9%
        4,571,131
        160 bp
        45%
        SYN028.I0101.SG1.1_S0_L003_R2_001
        3,821,020
        151 bp
        45%
        SYN028.I0101.SG1.1_S0_L004_R1_001
        3,775,264
        151 bp
        45%
        85.0%
        4,511,901
        160 bp
        45%
        SYN028.I0101.SG1.1_S0_L004_R2_001
        3,775,264
        151 bp
        46%
        SYN028.I0101_L1_polyg
        45.3%
        SYN028.I0101_L2_polyg
        45.3%
        SYN028.I0101_L3_polyg
        45.5%
        SYN028.I0101_L4_polyg
        45.4%

        FastQC (pre-Trimming)

        FastQC (pre-Trimming) is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Quality Histograms

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

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample 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.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Length Distribution

        All samples have sequences of a single length (151bp).

        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (eg PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Overrepresented sequences

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as over represented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all of the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

        loading..

        fastp

        fastp An ultra-fast all-in-one FASTQ preprocessor (QC, adapters, trimming, filtering, splitting...)

        Filtered Reads

        Filtering statistics of sampled reads.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Duplication Rates

        Duplication rates of sampled reads.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Insert Sizes

        Insert size estimation of sampled reads.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Quality

        Average sequencing quality over each base of all reads.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        GC Content

        Average GC content over each base of all reads.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        N content

        Average N content over each base of all reads.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Adapter Removal

        Adapter Removal rapid adapter trimming, identification, and read merging

        Retained and Discarded Paired-End Collapsed

        The number of retained and discarded reads.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Length Distribution Paired End Collapsed

        The length distribution of reads after processing adapter alignment.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        FastQC (post-Trimming)

        FastQC (post-Trimming) is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Quality Histograms

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

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample 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.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Length Distribution

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

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (eg PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Overrepresented sequences

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as over represented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all of the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

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        Kraken

        Kraken is a taxonomic classification tool that uses exact k-mer matches to find the lowest common ancestor (LCA) of a given sequence.

        Top taxa

        The number of reads falling into the top 5 taxa across different ranks.

        To make this plot, the percentage of each sample assigned to a given taxa is summed across all samples. The counts for these top five taxa are then plotted for each of the 9 different taxa ranks. The unclassified count is always shown across all taxa ranks.

        The total number of reads is approximated by dividing the number of unclassified reads by the percentage of the library that they account for. Note that this is only an approximation, and that kraken percentages don't always add to exactly 100%.

        The category "Other" shows the difference between the above total read count and the sum of the read counts in the top 5 taxa shown + unclassified. This should cover all taxa not in the top 5, +/- any rounding errors.

        Note that any taxon that does not exactly fit a taxon rank (eg. - or G2) is ignored.

           
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        Duplication rate of top species

        The duplication rate of minimizer falling into the top 5 species

        To make this plot, the minimizer duplication rate is computed for the top 5 most abundant species in all samples.

        The minimizer duplication rate is defined as: duplication rate = (total number of minimizers / number of distinct minimizers)

        A low coverage and high duplication rate (>> 1) is often sign of read stacking, which probably indicates of false positive hit.

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        Samtools Flagstat (pre-samtools filter)

        Samtools is a suite of programs for interacting with high-throughput sequencing data.

        Samtools Flagstat

        This module parses the output from samtools flagstat. All numbers in millions.

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        Samtools Flagstat (post-samtools filter)

        Samtools is a suite of programs for interacting with high-throughput sequencing data.

        Samtools Flagstat

        This module parses the output from samtools flagstat. All numbers in millions.

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        Picard

        Picard is a set of Java command line tools for manipulating high-throughput sequencing data.

        Mark Duplicates

        Number of reads, categorised by duplication state. Pair counts are doubled - see help text for details.

        The table in the Picard metrics file contains some columns referring read pairs and some referring to single reads.

        To make the numbers in this plot sum correctly, values referring to pairs are doubled according to the scheme below:

        • READS_IN_DUPLICATE_PAIRS = 2 * READ_PAIR_DUPLICATES
        • READS_IN_UNIQUE_PAIRS = 2 * (READ_PAIRS_EXAMINED - READ_PAIR_DUPLICATES)
        • READS_IN_UNIQUE_UNPAIRED = UNPAIRED_READS_EXAMINED - UNPAIRED_READ_DUPLICATES
        • READS_IN_DUPLICATE_PAIRS_OPTICAL = 2 * READ_PAIR_OPTICAL_DUPLICATES
        • READS_IN_DUPLICATE_PAIRS_NONOPTICAL = READS_IN_DUPLICATE_PAIRS - READS_IN_DUPLICATE_PAIRS_OPTICAL
        • READS_IN_DUPLICATE_UNPAIRED = UNPAIRED_READ_DUPLICATES
        • READS_UNMAPPED = UNMAPPED_READS
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        Preseq

        Preseq estimates the complexity of a library, showing how many additional unique reads are sequenced for increasing total read count. A shallow curve indicates complexity saturation. The dashed line shows a perfectly complex library where total reads = unique reads.

        Complexity curve

        Note that the x axis is trimmed at the point where all the datasets show 80% of their maximum y-value, to avoid ridiculous scales.

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        nf-core/eager Software Versions

        are collected at run time from the software output.

        nf-core/eager
        v2.4.1
        Nextflow
        v21.03.0.edge
        FastQC
        v0.11.9
        MultiQC
        v1.11
        AdapterRemoval
        v2.3.2
        fastP
        v0.20.1
        BWA
        v0.7.17-r1188
        Bowtie2
        v2.4.4
        circulargenerator
        v1.0
        Samtools
        v1.12
        endorS.py
        v0.4
        DeDup
        v0.12.8
        Picard MarkDuplicates
        vVersion:2.26.0
        Qualimap
        v2.2.2-dev
        Preseq
        v3.1.1
        GATK HaplotypeCaller
        N/A
        GATK UnifiedGenotyper
        v3.5-0-g36282e4
        freebayes
        v1.3.5
        sequenceTools
        v1.4.0.5
        VCF2genome
        v0.91
        MTNucRatioCalculator
        v0.7
        bedtools
        v2.30.0
        DamageProfiler
        v0.4.9
        bamUtil
        v1.0.15
        pmdtools
        v0.50
        angsd
        v0.935
        sexdeterrmine
        v1.1.2
        multivcfanalyzer
        v0.85.2
        malt
        v0.4.1
        kraken
        v2.1.2
        maltextract
        v1.7
        eigenstrat_snp_coverage
        v1.0.2
        mapDamage2
        v2.2.1
        bbduk
        vJanuary 26, 2021
        bcftools
        v1.12

        nf-core/eager Workflow Summary

        - this information is collected when the pipeline is started.

        Pipeline Release
        2.4.1
        Run Name
        byoc_kraken
        Input
        /home/bartholdybp/byoc_analysis/eager/byoc_input.tsv
        Fasta Ref
        /home/bartholdybp/data/databases/refseq/human/GRCh38_latest_genomic.fna
        Max Resources
        240 GB memory, 24 cpus, 7d time per job
        Container
        singularity - nfcore/eager:2.4.1
        Output dir
        /home/bartholdybp/data/analysis/158103//results
        Launch dir
        /scratchdata/bartholdybp/158103
        Working dir
        /home/bartholdybp/data/analysis/158103/work
        Script dir
        /home/bartholdybp/.nextflow/assets/nf-core/eager
        User
        bartholdybp
        Config Profile
        alice,byoc
        Config Profile Description
        BYOC profile for use on Leiden University ALICE cluster.
        Config Profile Contact
        Bjorn Peare Bartholdy (@osteobjorn)
        Config Profile URL
        https://wiki.alice.universiteitleiden.nl/
        Config Files
        /home/bartholdybp/.nextflow/assets/nf-core/eager/nextflow.config, /scratchdata/bartholdybp/158103/byoc.config