FastQCFastQC Report
Wed 23 Jul 2014
LW231_CGATGT_L004_R1_001.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename LW231_CGATGT_L004_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 14552538
Filtered Sequences 0
Sequence length 51
%GC 38

[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
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTATCTCGTATGCC 277259 1.905227802875347 TruSeq Adapter, Index 2 (100% over 51bp)

[WARN] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
TTTTT 6757355 3.513844 3.721446 13
AAAAA 6760340 3.4912324 3.6729507 11
CTCCA 1104750 2.36695 33.1168 24
GAGCA 1059720 2.353274 34.764187 9
GGAAG 1029140 2.3282712 35.677624 5
CGGAA 1042025 2.3139796 35.18489 4
TCCAG 1033375 2.255593 33.637653 25
CACCG 640890 2.243671 52.255756 31
GAAGA 1601325 2.2140577 22.532602 6
CTGAA 1596625 2.1698704 21.947351 19
TCGGA 900650 2.0027952 34.82468 3
TCACC 924780 1.9813606 32.645023 30
TCTCG 903095 1.9739463 33.182537 41
GCACA 841725 1.8347375 33.74178 11
AGAGC 825375 1.8328744 34.314262 8
CACAC 848870 1.8162147 33.07981 12
CGATG 810720 1.8028159 33.39662 34
AGCAC 812840 1.771776 33.691116 10
TCTGA 1296585 1.7645378 21.602837 18
ATCGG 781025 1.7367824 34.11936 2
CCAGT 780325 1.7032497 32.97595 26
CCGAT 773970 1.6893783 32.76027 33
GTCAC 765720 1.6713709 32.984776 29
CTCGT 751810 1.6432741 32.681053 42
CACGT 737950 1.6107559 33.44758 14
CGTCT 736065 1.6088593 33.431316 16
GTCTG 721555 1.6067528 34.08084 17
TGAAC 1167575 1.586776 21.354053 20
ACTCC 740425 1.5863761 32.540127 23
ACCGA 727190 1.5850815 32.67882 32
AAGAG 1118975 1.5471407 21.789253 7
GATCG 687240 1.5282307 33.613342 1
ACACG 699630 1.5250081 33.38356 13
ATGCC 695745 1.5186331 32.400402 47
ACGTC 685880 1.4971004 33.327835 15
CAGTC 682890 1.490574 32.704662 27
AACTC 1066560 1.4227823 20.733335 22
GAACT 1026940 1.3956482 21.11217 21
ATCTC 1014560 1.355283 20.448244 40
GATGT 940420 1.3038555 21.012121 35
AGTCA 929090 1.2626666 20.731802 28
TCGTA 744950 1.0138112 20.282614 43
TATGC 721945 0.9825035 20.190134 46
GTATG 700470 0.9711743 20.587772 45
GTATC 713295 0.97073156 20.304108 38
CGTAT 672930 0.9157985 20.149813 44
TGTAT 1019065 0.8646872 12.955917 37
ATGTA 1000660 0.84789985 12.881766 36
TATCT 919665 0.76596534 12.608032 39
Produced by FastQC (version 0.10.1)