FastQCFastQC Report
Wed 19 Dec 2012
108A_Male_Mix_AGTCAA_L004_R1.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename 108A_Male_Mix_AGTCAA_L004_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 55791565
Filtered Sequences 6920427
Sequence length 76
%GC 42

[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

[WARN] Overrepresented sequences

Sequence Count Percentage Possible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAACAATCTCGTAT 232363 0.416484104720848 TruSeq Adapter, Index 8 (97% over 36bp)
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAACAATCTCGTA 77797 0.13944222571996323 TruSeq Adapter, Index 8 (97% over 36bp)
CCCTGATTCAACATCGAGGTGCCAATCCCACTAGCCAATACGTTCTCTAC 59772 0.1071344745392964 No Hit

[WARN] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
AAAAA 17917535 2.2337997 5.1835556 67
GAAGA 9072465 2.0973876 7.5192933 6
TCTTC 8822260 2.058096 6.831974 55
CTCCA 6317985 1.9402963 9.412252 24
CAACA 8494010 1.91744 7.2565804 37
TCCAG 6122750 1.9028658 9.622512 25
CTTCT 8114245 1.8929273 7.1362886 56
TTCTG 7976485 1.8830829 7.0180855 57
CACAG 5995090 1.842886 9.369688 31
CTGGA 5721770 1.7995512 7.040548 1
CTGGG 4178780 1.7896866 6.514421 1
GGAAG 5681305 1.7885257 9.252745 5
GGAAA 7571315 1.7503493 5.303296 1
GTCTG 5370500 1.7076838 9.580551 17
CTCCT 5404585 1.6780726 5.265458 1
CCAGT 5323950 1.6546099 9.161822 26
CTGCT 5244670 1.6479298 8.439863 59
CTGGT 5041385 1.6030334 5.3529687 1
AACAA 9493340 1.5925994 5.564634 38
CTGAA 6804295 1.5715321 7.3173757 19
TCTGA 6530030 1.5248047 7.341946 18
TCTGC 4768065 1.4981756 8.380483 58
CAGTC 4813500 1.495969 9.077935 27
TCACA 6404355 1.4616498 6.9301333 30
CACAC 4514640 1.371367 9.167788 12
AAGAG 5793275 1.3392987 7.0309186 7
ACAGT 5786995 1.3365746 6.855527 32
GTCAA 5722380 1.3216511 6.680728 35
TCAAC 5587080 1.2751251 6.5468264 36
CTTGA 5445505 1.271561 5.7286816 62
GAACT 5488705 1.2676811 6.9495435 21
TGAAC 5451110 1.258998 7.0101566 20
ATGCC 4018975 1.2490418 8.2218485 49
TGCTT 5222080 1.2328252 6.3814964 60
AGTCA 5198565 1.2006698 6.775889 28
GTCTT 5056570 1.1937517 6.114088 54
GTCAC 3825775 1.1889977 8.777942 29
GCTTG 3701775 1.1770712 7.8123 61
AGCAC 3725410 1.1451881 9.79725 10
GCACA 3707780 1.1397686 9.323644 11
ACTCC 3663045 1.1249461 8.812726 23
AACTC 4926135 1.1242794 6.6996913 22
ATCTC 4783505 1.1037562 5.613989 42
CGTCT 3486520 1.0955008 8.758207 16
GAGCA 3495155 1.0872798 9.549605 9
AGAGC 3376390 1.0503342 9.402374 8
CAATC 4520910 1.0317959 5.6808934 40
CCGTC 2425435 1.014315 9.73965 52
CTCGT 3084995 0.96933746 7.5455 44
CGGAA 3110620 0.96765786 8.629897 4
GTATG 3855090 0.9109734 6.1372623 47
TGCCG 2084585 0.88221604 10.511792 50
TCGGA 2796640 0.87956995 8.760072 3
GCCGT 2055115 0.869744 9.676852 51
TCTCG 2739435 0.86075896 6.997692 43
ACGTC 2668560 0.8293514 8.605696 15
CACGT 2667165 0.82891786 8.712216 14
ACACG 2613595 0.80341697 8.542267 13
GATCG 2403065 0.7557868 8.536252 1
ATCGG 2264730 0.71227926 8.412678 2
TATGC 2991460 0.6985255 5.8557677 48
TCGTA 2928145 0.68374103 5.924092 45
CGTAT 2448815 0.5718143 5.9597244 46
Produced by FastQC (version 0.10.1)