FastQCFastQC Report
Wed 18 Dec 2019
H2CVLAFX2_n01_HALO-CCA1_eGST-LHY1_col_B_l-2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH2CVLAFX2_n01_HALO-CCA1_eGST-LHY1_col_B_l-2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences274581
Sequences flagged as poor quality0
Sequence length76
%GC38

[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

[OK]Per base sequence content

Per base sequence content

[OK]Per sequence GC content

Per sequence GC content graph

[OK]Per base N content

N content graph

[OK]Sequence Length Distribution

Sequence length distribution

[WARN]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACATTACTCGATCTCGTAT5240.19083621954905838TruSeq Adapter, Index 27 (97% over 39bp)

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CCGGAGT150.002223141569.9996455
CAGTCCG252.3878836E-455.99970627
TGCGTGA252.3878836E-455.99970660
GTGGCGA200.006946574452.49972535
CCCCCGT200.006946574452.49972516
CTGCGTG305.871694E-446.66642859
CTAGTCC305.871694E-446.66642810
CGGACTG404.5857705E-543.749776
CCGAGGC350.001254132739.9997910
TATGCCG2300.036.5215548
GCCGTCT2200.034.99981751
TGCCGTC2300.034.99981750
ATGCCGT2450.034.28553849
CGTATGC2600.032.3075246
GTATGCC2700.031.11094947
TCTGCGT450.00430291731.11094758
GCGTGAA450.00430291731.11094761
TACCGTA450.00430291731.1109477
CCGTCTT2700.028.5183752
TTCTGCG500.00720114727.99985357
Produced by FastQC (version 0.11.5)