FastQCFastQC Report
Wed 23 Jul 2014
LW220_ATGTCA_L003_R1_001.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename LW220_ATGTCA_L003_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 6968942
Filtered Sequences 0
Sequence length 51
%GC 39

[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

[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

[WARN] Sequence Duplication Levels

Duplication level graph

[FAIL] Overrepresented sequences

Sequence Count Percentage Possible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAGAATCTCGTATG 206779 2.9671505373412494 TruSeq Adapter, Index 1 (97% over 35bp)

[WARN] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
TTTTT 3007545 3.6153114 4.023951 4
AAAAA 2983205 3.5065615 3.7603533 3
GGAAG 589460 2.6547909 53.49294 5
CTCCA 607415 2.564248 48.498676 24
GAGCA 580330 2.554082 51.823895 9
TCCAG 587415 2.5376735 49.75191 25
CGGAA 568865 2.5036237 52.129726 4
CTGAA 820200 2.3172207 33.622032 19
GAAGA 801960 2.3081791 34.77771 6
CAGAA 791065 2.2249117 32.15161 38
TCTCG 505115 2.1919367 49.129234 43
TCGGA 489995 2.1662 52.0443 3
AGAGC 481925 2.1209931 51.34035 8
GCACA 488460 2.1007419 50.001225 11
AGCAC 487220 2.095409 50.000217 10
CACAC 497450 2.0906286 48.536633 12
CCAGT 476640 2.0591178 49.116722 26
ATCGG 458900 2.0287333 51.790028 2
GTCTG 444765 1.9750792 51.23913 17
GTCAG 444355 1.9644318 49.30167 36
GTCAC 451845 1.9520015 49.08911 29
TCTGA 685125 1.9443057 33.45726 18
TCAGA 683465 1.9309183 32.13499 37
CGTCT 439505 1.9072235 49.797787 16
CTCGT 439035 1.9051839 48.59719 44
CACGT 435395 1.8809365 49.660988 14
ACTCC 444935 1.8783267 48.00668 23
GATCG 416660 1.841996 51.360497 1
CAGTC 417550 1.8038447 48.842014 27
ACACG 418840 1.8013238 49.47519 13
ACGTC 412685 1.7828276 49.53236 15
TGAAC 625945 1.7684134 33.004368 20
AAGAG 609470 1.7541598 34.133102 7
TCACA 623950 1.7225875 31.71716 30
TGTCA 578730 1.6423689 32.036816 35
AACTC 583745 1.6115903 31.999853 22
GAATC 569955 1.610231 31.823765 40
GAACT 562200 1.5883217 32.818596 21
ATCTC 567150 1.5728106 31.431057 42
CACAT 565750 1.5619103 31.33347 31
AGTCA 522965 1.4774754 32.275043 28
CATGT 507070 1.4390061 32.053387 33
ACATG 507450 1.4336426 31.968376 32
ATGTC 502045 1.4247457 31.867987 34
AGAAT 766330 1.4158604 21.210466 39
AATCT 708615 1.2851263 20.710442 41
TCGTA 447750 1.2706628 31.726702 45
GTATG 418105 1.2142168 32.19638 47
CGTAT 416335 1.1815107 31.571814 46
Produced by FastQC (version 0.10.1)