SRR3549989_1.fastq FastQC Report

Basic Statistics

Measure	Value
Filename	SRR3549989_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	558485
Sequences flagged as poor quality	0
Sequence length	51
%GC	48

Per base sequence quality

Per base quality graph

Per sequence quality scores

Per Sequence quality graph

Per base sequence content

Per sequence GC content

Per sequence GC content graph

Per base N content

N content graph

Sequence Length Distribution

Sequence length distribution

Sequence Duplication Levels

Duplication level graph

Overrepresented sequences

Sequence	Count	Percentage	Possible Source
GAATGATACGGCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGC	8048	1.4410413887570839	No Hit
GAATGATACCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCG	7356	1.3171347484713107	No Hit
GAATCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTC	5459	0.9774658227168143	RNA PCR Primer, Index 40 (95% over 22bp)
GCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTCTGC	3723	0.6666248869710019	Illumina PCR Primer Index 8 (95% over 23bp)
CTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTCTGCT	3282	0.587661262164606	RNA PCR Primer, Index 40 (96% over 26bp)
CCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTCTGC	2195	0.39302756564634683	RNA PCR Primer, Index 40 (96% over 25bp)
GAATGACTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCT	1485	0.26589792026643505	No Hit
GAATGATACGGCGACTGTCTCTTATACACATCTGACGCACAGACTCTCGTA	1464	0.26213774765660675	No Hit
GAATGATCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTC	1233	0.22077584894849459	No Hit
GAATGATACGGCGACCACCTGTCTCTTATACACATCTGACGCACAGACTCT	1150	0.20591421434774435	No Hit
GAACTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTCT	1139	0.2039446001235485	TruSeq Adapter, Index 19 (95% over 22bp)
CGTTTTTTTTCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCC	1082	0.19373841732544295	No Hit
CGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT	1018	0.18227884365739455	No Hit
ACTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTCTGC	905	0.16204553389974663	TruSeq Adapter, Index 19 (95% over 24bp)
TCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTCTGC	788	0.1410960007878457	Illumina PCR Primer Index 8 (95% over 23bp)
CGCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTCTG	645	0.11549101587330007	RNA PCR Primer, Index 40 (95% over 24bp)
AAGGAAGGAAGGAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG	588	0.1052848330751945	No Hit
GCCTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTCTG	579	0.10367333052812519	Illumina PCR Primer Index 8 (95% over 22bp)
AAAACTGTCTCTTATACACATCTGACGCACAGACTCTCGTATGCCGTCTTC	568	0.10170371630392938	RNA PCR Primer, Index 40 (95% over 22bp)

Adapter Content

Adapter graph

Kmer Content

Kmer graph

Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CGGGTAT	30	2.1634896E-6	45.000004	6
TATCGGG	30	2.1634896E-6	45.000004	3
GTTGACG	25	3.8882215E-5	45.0	1
AACGTAG	20	7.030168E-4	45.0	1
GATAAGC	20	7.030168E-4	45.0	9
CAACGAG	20	7.030168E-4	45.0	14
TAACGCC	20	7.030168E-4	45.0	12
ATCGTAC	25	3.8882215E-5	45.0	10
AAAGTCG	20	7.030168E-4	45.0	1
TAGCACG	25	3.8882215E-5	45.0	1
TAACCGG	20	7.030168E-4	45.0	2
TCTACGG	25	3.8882215E-5	45.0	2
TGCGAAT	45	3.8380676E-10	45.0	27
TCGCTCA	20	7.030168E-4	45.0	45
ACTACGG	35	1.2104283E-7	45.0	2
TATAGCG	25	3.8882215E-5	45.0	1
CCGCGAT	20	7.030168E-4	45.0	32
ACCCGAA	20	7.030168E-4	45.0	41
GTCCACT	25	3.8882215E-5	45.0	15
TACAGTC	25	3.8882215E-5	45.0	17

Summary

Basic Statistics

Per base sequence quality

Per sequence quality scores

Per base sequence content

Per sequence GC content

Per base N content

Sequence Length Distribution

Sequence Duplication Levels

Overrepresented sequences

Adapter Content

Kmer Content