FastQCFastQC Report
Tue 12 Aug 2014
lane1_Undetermined_L001_R1_001.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename lane1_Undetermined_L001_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 4707422
Filtered Sequences 0
Sequence length 51
%GC 46

[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

[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
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAATCTCGTATGCC 66317 1.4087753339301214 TruSeq Adapter, Index 4 (100% over 51bp)
TATTCGTTGGAATTCCTCGGGGAATTCGGTATTCCCAGGCGGTCTCCCATC 6461 0.1372513447912679 No Hit
ACTTCCAGGGATTTATAAGCCGATGACGTCATAACATCCCTGACCCTTTAA 5834 0.12393195256342007 No Hit
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCCCAATCTCGTATGCC 5651 0.12004447444907212 TruSeq Adapter, Index 4 (98% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCATCACTGACCAATCTCGTATGCCG 5035 0.10695875576908125 Illumina Multiplexing PCR Primer 2.01 (96% over 28bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTACCAATCTCGTATGCCG 4871 0.10347489560103174 TruSeq Adapter, Index 10 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCAATATCTCGTATGCCG 4718 0.1002247089808392 TruSeq Adapter, Index 6 (97% over 37bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
GGAAG 592655 3.0697176 66.31335 5
CACAC 629670 2.8766398 53.89318 12
CTGAA 624180 2.6841857 47.87755 19
TCCAG 511900 2.5776725 51.34249 25
AGAGC 518355 2.5748334 61.138947 8
AAGAG 597750 2.5357208 53.063503 7
CTCCA 517700 2.500035 51.010277 24
GTCTG 445170 2.470806 61.35477 17
TCTGA 534150 2.4280713 50.521523 18
GAAGA 567315 2.4066126 53.7219 6
GAGCA 477755 2.3731604 59.975883 9
AGCAC 497825 2.371504 57.089436 10
CAGTC 468150 2.3573692 48.967026 27
GCACA 469765 2.2378337 55.954624 11
ATGCC 444245 2.236996 33.93915 47
CCAGT 443330 2.232388 50.179913 26
CACTG 425195 2.1410694 26.445932 31
ACCAA 532275 2.0766757 17.290148 36
ATCTC 474810 2.0698712 29.520054 40
GTATG 433915 2.056731 31.817629 45
AGTCA 477755 2.0545087 40.20707 28
ACTCC 416645 2.0120282 51.272095 23
CACGT 393050 1.9792032 56.77769 14
CGGAA 397820 1.976098 63.059574 4
TGAAC 458265 1.970695 46.809116 20
CTGAC 386230 1.9448613 21.693855 33
GTCAC 385910 1.9432497 44.10557 29
TATGC 416355 1.8926136 30.428024 46
GAACT 439435 1.8897196 46.552788 21
ACTGA 437905 1.8831398 19.691042 32
AACTC 452545 1.8663357 44.498676 22
GACCA 391735 1.8661199 19.98162 35
TCTCG 350390 1.8650469 35.36317 41
CGTCT 350340 1.8647808 58.721725 16
CTCGT 343335 1.8274947 35.255688 42
ACGTC 357590 1.8006444 55.869785 15
ATCGG 335540 1.7618202 66.58716 2
TCGGA 329670 1.7309986 66.58047 3
TGACC 337450 1.6992296 21.02003 34
AATCT 439300 1.6354783 19.702158 39
TCACT 371530 1.6196359 26.409721 30
CGTAT 350740 1.5943491 30.126942 44
ACACG 328835 1.5664812 53.786217 13
CCAAT 375545 1.5487812 19.391151 37
GATCG 293575 1.5414746 66.38361 1
CAATC 373510 1.5403883 20.013666 38
TGCCG 248840 1.5299505 16.200943 47
TCGTA 304995 1.3864075 29.887953 43
GCCGT 178015 1.094495 6.889492 47
TCACG 202860 1.0215015 8.090554 30
CACGC 149085 0.83161247 6.604468 31
Produced by FastQC (version 0.10.1)