FastQCFastQC Report
Fri 5 Dec 2014
lane1_Undetermined_L001_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filenamelane1_Undetermined_L001_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4039067
Sequences flagged as poor quality0
Sequence length51
%GC45

[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
GATCGGAAGAGCACACGTCTGAACTCCAGTCACACAGTGATCTCGTATGCC218470.5408922407080645TruSeq Adapter, Index 5 (100% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCAATATCTCGTATGCCG188460.46659290375722906TruSeq Adapter, Index 6 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAATATCTCGTATGCC119200.2951176595981201TruSeq Adapter, Index 6 (100% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCATATCTCGTATGCCG114850.28434784567822224TruSeq Adapter, Index 6 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCGAGTATCTCGTATGCCG93300.23099393993711914TruSeq Adapter, Index 2 (97% over 36bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGGCTACATCTCGTATGCC92430.22883997715313956TruSeq Adapter, Index 11 (100% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTAGCTTATCTCGTATGCC82100.20326476386749712TruSeq Adapter, Index 10 (100% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGATCTCGTATGCC68950.17070774017861054TruSeq Adapter, Index 1 (100% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAATCTCGTATGCC66180.16384972073996296TruSeq Adapter, Index 4 (100% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTGAATCTCGTATGCC65700.1626613274798363TruSeq Adapter, Index 8 (100% over 51bp)
ACTTCCAGGGATTTATAAGCCGATGACGTCATAACATCCCTGACCCTTTAA65430.16199285627101506No Hit
TATTCGTTGGAATTCCTCGGGGAATTCGGTATTCCCAGGCGGTCTCCCATC62690.1552091114111254No Hit
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTAGTTATCTCGTATGCCG57330.14193872000637772TruSeq Adapter, Index 10 (97% over 38bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCCACTTGAATCTCGTATGCCG56390.139611449871963Illumina Multiplexing PCR Primer 2.01 (96% over 31bp)
AATTAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATG54700.1354273152686004Illumina Paired End PCR Primer 2 (100% over 47bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTAATCTCGTATGCC54110.13396658188636137TruSeq Adapter, Index 12 (100% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTACACTTGAATCTCGTATGCCG50890.12599444376634505Illumina Multiplexing PCR Primer 2.01 (96% over 30bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGAATCTCGTATGCCG50860.12592016918758714TruSeq Adapter, Index 12 (97% over 39bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGCC48670.12049812493825926TruSeq Adapter, Index 9 (100% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCCAATATCTCGTATGCCG45440.11250122862532363TruSeq Adapter, Index 2 (97% over 36bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGGCCACATCTCGTATGCC43830.10851515956531545TruSeq Adapter, Index 11 (98% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATAGATCTCGTATGCCG43700.10819330305736449TruSeq Adapter, Index 9 (97% over 36bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCGATCTCGTATGCCG40920.10131052542579758TruSeq Adapter, Index 9 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGGCTCATCTCGTATGCCG40480.10022116493734815TruSeq Adapter, Index 11 (97% over 37bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGAGCAC710500.044.248038
GCACACG689650.044.23753411
AGCACAC701450.044.1095310
CACACGT691650.043.97728312
TCGGAAG742050.043.914293
GATCGGA749050.043.9089241
ATCGGAA748050.043.888442
GAGCACA711900.043.8461659
CGGAAGA741400.043.7905924
AAGAGCA727900.043.653347
ACACGTC691150.043.6134413
GAAGAGC742450.043.1696476
ACGTCTG693250.043.15968315
CACGTCT698250.043.06403414
GGAAGAG752500.043.0016445
CGTCTGA694350.042.9437916
GTCTGAA704150.042.0662617
TCTGAAC701050.041.94449218
CTGAACT697150.041.9022419
AGTCACC108850.041.73206728
Produced by FastQC (version 0.11.2)