FastQCFastQC Report
Sun 15 Jan 2017
HGCM3BGX2_n01_attga1_rice_-chx_d1_2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHGCM3BGX2_n01_attga1_rice_-chx_d1_2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences14540854
Sequences flagged as poor quality0
Sequence length75
%GC54

[OK]Per base sequence quality

Per base quality graph

[OK]Per tile sequence quality

Per base quality graph

[OK]Per sequence quality scores

Per Sequence quality graph

[FAIL]Per base sequence content

Per base sequence content

[FAIL]Per sequence GC content

Per sequence GC content graph

[OK]Per base N content

N content graph

[OK]Sequence Length Distribution

Sequence length distribution

[FAIL]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
CGACGATGACGATAAGGATCCGATGGCCTCCTCCGAGGACGTCATCAAGGAGTTCATGCGCTTCAAGGTGCGCAT453810.3120930861419831No Hit
TTGTACTCTAGTTGTTACCTCTAATGCTGGACACCTGATAGTCCTACAGAGGTTAGATAGTAGGACAGGATACAT445370.3062887503031115No Hit
CTGTTACTACCCTACACTCATACTTGGATCACAGCCACTAGTAGCCTATGCTCCTAGTACATAGACACCCTACAG406120.27929583778229256No Hit
GCTGACTCTAGCAGATCTATCGATTCTAGCATGACTGGTGGACAGCAAATGGGTCGGGATCTGTACGACGATGAC379240.26080999094000945No Hit
GGGATCTGTACGACGATGACGATAAGGATCCGATGGCCTCCTCCGAGGACGTCATCAAGGAGTTCATGCGCTTCA311850.21446470750617536No Hit
TTGTACTCTAGTTGTTACCTCTAATGCTGGACACCTACTATCTAACCTCTGTAGGACTATCAGGACTGTTTGATC258260.17760992579940627No Hit
CTTGGCGGTCTGGGTGCCCTCGTAGGGGCGGCCCTCGCCCTCGCCCTCGATCTCGAACTCGTGGCCGTTCACGGA220450.1516073265022811No Hit
CAAGTATGAGTGTAGGGTAGTAACAGCACCTGATAGTCCTACAGAGGTTAGATAGTAGGACTGTTTGATCAATCT204890.1409064419462571No Hit
CGGGAATTGGATCCGGTACCGAGCTCGAATTCTTAGGCGCCGGTGGAGTGGCGGCCCTCGGCGCGCTCGTACTGT194650.13386421457776826No Hit
GTCGGGATCTGTACGACGATGACGATAAGGATCCGATGGCCTCCTCCGAGGACGTCATCAAGGAGTTCATGCGCT186910.12854128100041443No Hit
CCAAGTATGAGTGTAGGGTAGTAACAGCACCTGATAGTCCTACAGAGGTTAGATAGTAGGACTGTTTGATCAATC183180.12597609466404106No Hit
CTTGGATCACAGCCACTAGTAGCCTATGCTCCTAGTACATAGACACCCTACAGAGTAACCTAGATTGATCAAACA169500.11656811903895054No Hit
TGATCCAAGTATGAGTGTAGGGTAGTAACAGCACCTGATAGTCCTACAGAGGTTAGATAGTAGGACTGTTTGATC168000.11553654276426956No Hit
CGGGGATGTCGGCGGGGTGCTTCACGTAGGCCTTGGAGCCGTACTGGAACTGAGGGGACAGGATGTCCCAGGCGA162610.11182974535058257No Hit
CCGTGACCCAGGACTCCTCCCTGCAGGACGGCGAGTTCATCTACAAGGTGAAGCTGCGCGGCACCAACTTCCCCT162250.11158216704465913No Hit
GTCACCTTCAGCTTGGCGGTCTGGGTGCCCTCGTAGGGGCGGCCCTCGCCCTCGCCCTCGATCTCGAACTCGTGG148490.1021191740182523No Hit
GATCCAAGTATGAGTGTAGGGTAGTAACAGCACCTGATAGTCCTACAGAGGTTAGATAGTAGGACTGTTTGATCA145750.10023482802316837No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
ACTCTAG233350.046.4285475
TACTCTA169800.046.234274
GTACTCT173300.045.3404773
CTCTAGT177750.044.1465456
TTGTACT181400.043.405841
TCTAGTT186550.042.004977
TGTACTC193700.040.7439652
CTGACTC78500.038.7996642
GACTCTA80800.038.719114
CTAGTTG201250.038.6624458
GCTGACT80350.038.2614751
TGTTACC205750.037.6324613
GTTACCT205900.037.5381714
TAGTTGT208150.037.4802369
TTACCTC209400.036.9933515
GTTGTTA211450.036.6506411
TTGTTAC216150.035.8700212
ACCTCTA218950.035.31764217
CCTCTAA219450.035.269718
TGACTCT87950.035.1401063
Produced by FastQC (version 0.11.2)