FastQCFastQC Report
Wed 23 Jul 2014
LW214_GATCAG_L003_R1_001.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename LW214_GATCAG_L003_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 9608336
Filtered Sequences 0
Sequence length 51
%GC 40

[OK] Per base sequence quality

Per base quality graph

[OK] Per sequence quality scores

Per Sequence quality graph

[WARN] Per base sequence content

Per base sequence content

[OK] Per base GC content

Per base GC content graph

[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

[OK] Sequence Duplication Levels

Duplication level graph

[FAIL] Overrepresented sequences

Sequence Count Percentage Possible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGCC 350543 3.648321624056444 TruSeq Adapter, Index 9 (100% over 51bp)

[WARN] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
TTTTT 3778640 3.4609442 3.961253 1
AAAAA 3717520 3.3750203 3.5858076 12
GAGCA 900310 2.8191345 59.341103 9
GGAAG 867685 2.817027 61.56899 5
CTCCA 934990 2.72827 54.179848 24
CGGAA 850190 2.662194 59.380062 4
TCCAG 872320 2.6391344 56.079666 25
GAAGA 1242260 2.6373806 41.01144 6
TCTCG 801005 2.4276612 55.748413 41
TCGGA 769215 2.4128962 59.23172 3
CTGAA 1171610 2.4032855 39.01232 19
AGAGC 751760 2.3539805 58.894142 8
CACAC 796170 2.3190978 54.603786 12
AGCAC 761680 2.3003345 56.68969 10
GCACA 757865 2.288813 56.618793 11
ATCGG 702755 2.2044227 58.89003 2
CTCGT 705245 2.137435 55.282764 42
CCAGT 703790 2.1292603 55.39671 26
CGTCT 699990 2.1215081 56.32978 16
CACGA 701695 2.1191752 54.87398 31
GTCTG 673220 2.1155105 58.349964 17
CACGT 690175 2.0880692 56.247997 14
TCAGA 997945 2.0470521 37.675556 36
GTCAC 676475 2.046621 55.446053 29
TCTGA 995495 2.045637 38.758034 18
GATCG 650170 2.039472 58.546276 1
ACACG 664105 2.00565 56.17495 13
ATGCC 660215 1.9974277 55.19769 47
AAGAG 940080 1.9958372 40.361004 7
ACTCC 683850 1.9954518 53.77838 23
ACGTC 655315 1.9826031 56.115982 15
TCACG 655195 1.9822401 55.208588 30
CAGTC 646935 1.9572501 55.248676 27
CGATC 641510 1.9408371 54.517937 33
TGAAC 911065 1.868838 38.46034 20
ATCAG 847685 1.7388285 37.312572 35
GATCA 840075 1.7232183 37.337425 34
AACTC 869830 1.7208831 36.907185 22
GAACT 836820 1.7165414 38.26045 21
ATCTC 862265 1.7089329 36.428658 40
CAGAT 826980 1.6963571 37.28585 37
ACGAT 809580 1.660665 37.489468 32
AGATC 787980 1.6163577 37.37183 38
GATCT 775565 1.593704 37.489544 39
AGTCA 762625 1.5643477 37.659935 28
TCGTA 723535 1.4867878 37.580887 43
GTATG 649870 1.3845901 38.843235 45
TATGC 667525 1.3716933 37.44075 46
CGTAT 663070 1.3625387 37.47037 44
Produced by FastQC (version 0.10.1)