FastQCFastQC Report
Wed 19 Dec 2012
106A_Female_Mix_GATCAG_L004_R1.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename 106A_Female_Mix_GATCAG_L004_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 39823239
Filtered Sequences 5779631
Sequence length 76
%GC 41

[OK] Per base 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 base GC content

Per base GC content graph

[WARN] 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

[FAIL] Overrepresented sequences

Sequence Count Percentage Possible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGC 1045440 2.6252008280893477 TruSeq Adapter, Index 9 (100% over 50bp)
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATG 161413 0.40532363527738163 TruSeq Adapter, Index 9 (100% over 49bp)
CCCTGATTCAACATCGAGGTGCCAATCCCACTAGCCAATACGTTCTCTAC 60006 0.15068086249840199 No Hit
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATATCGTATGC 44374 0.11142740046835467 TruSeq Adapter, Index 9 (98% over 50bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
AAAAA 19227970 2.9988344 15.739294 65
GTCTG 4948415 2.319422 48.340694 17
TCCAG 5097085 2.287544 46.31313 25
CTCCA 5171975 2.278062 45.164032 24
GAAGA 7136660 2.2710805 33.646236 6
CGTCT 4823610 2.2189493 46.72108 16
GGAAG 4869475 2.2134972 47.2064 5
TCTTC 6663130 2.1994896 31.329552 53
TTCTG 6342640 2.1333008 32.993977 55
CCAGT 4717940 2.1173859 45.26582 26
CTTCT 6361945 2.100069 32.98566 54
CTGCT 4387055 2.018126 44.14932 57
TCTGC 4216715 1.9397665 44.1523 56
GAAAA 8483995 1.8900737 17.54887 63
CTGAA 5857950 1.8753072 33.408455 19
CACAC 4294180 1.8452777 44.78945 12
TCTGA 5588895 1.8339198 33.990883 18
CAGTC 4036150 1.8114021 45.088146 27
TCAGA 5606925 1.7949466 32.273132 36
ATGCC 3957765 1.7762233 44.058323 47
TGAAA 7752240 1.7702441 18.321081 62
CTGGG 2678835 1.7498114 5.823316 1
CCGTC 2767715 1.7413648 57.38876 50
GCTTG 3712105 1.7399385 44.008644 59
GCCGT 2671505 1.7126272 58.29429 49
GTCAC 3783560 1.6980411 44.931904 29
TGCCG 2639290 1.6919749 62.258488 48
AGCAC 3836965 1.6799941 46.304657 10
GCACA 3770400 1.650849 45.72683 11
ATCAG 5112140 1.6365507 32.084095 35
CAGAT 5080075 1.6262859 30.30009 37
AAGAG 5093335 1.6208386 33.27117 7
CTGGA 3524500 1.6116974 6.287837 1
GAACT 5034135 1.6115791 32.853916 21
TGAAC 5009640 1.6037374 33.00751 20
GAGCA 3583145 1.5985372 46.724495 9
AGAGC 3582745 1.5983589 46.542435 8
TGCTT 4705655 1.582713 32.55434 58
ACTCC 3588535 1.5806158 44.782784 23
CTTGA 4796765 1.5739931 27.798811 60
TTGAA 6660265 1.5589247 18.80205 61
GATCA 4860175 1.5558892 32.099556 34
TCACG 3457000 1.5514827 44.45888 30
CTCGT 3345555 1.539017 41.782005 42
CACGT 3424730 1.5370002 45.933144 14
CGGAA 3420190 1.5258385 45.759895 4
GTCTT 4530285 1.5237286 31.146538 52
CTGGT 3232870 1.5153114 5.320327 1
AACTC 4777400 1.5009973 32.164707 22
CTCCT 3260035 1.4718347 5.3328357 1
TCGGA 3210840 1.4682658 46.9303 3
ACGTC 3192735 1.4328821 45.657845 15
AGATC 4440440 1.4215194 28.66637 38
AGTCA 4423190 1.4159971 32.18505 28
ATCTC 4316225 1.3900168 28.969957 40
TCTCG 2976890 1.3694242 40.798626 41
CACGA 3111905 1.3625305 43.65592 31
ACACG 3104955 1.3594875 44.8931 13
GATCT 4138670 1.3580484 29.417528 39
GATCG 2943740 1.3461252 46.843502 1
CCCTG 2130240 1.3402842 5.526587 1
CGATC 2972200 1.3339071 44.57431 33
GTATG 3967505 1.3265094 32.201473 45
ATCGG 2845045 1.3009936 46.656548 2
CCCCG 1417805 1.220051 5.1111193 70
TATGC 3326165 1.0914357 31.229883 46
TCGTA 3323875 1.0906843 31.374315 43
ACGAT 3298565 1.0559705 31.8563 32
CGTAT 3004715 0.9859565 31.487907 44
CCCGG 1035905 0.9082803 5.011484 71
Produced by FastQC (version 0.10.1)