FastQCFastQC Report
Wed 2 Jan 2019
HC-A-1_S4_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHC-A-1_S4_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences2121075
Sequences flagged as poor quality0
Sequence length151
%GC52

[OK]Per base sequence quality

Per base quality graph

[OK]Per tile 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 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

SequenceCountPercentagePossible Source
CTTTAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGCACCAGA113940.5371804391641031No Hit
CTTGAACTCTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGT93600.4412856688235918No Hit
GTTAATATTCCCGAACCTGGCAACGGAGTTGGCTCCTCGCGGGGTCGTGT70590.3328029419044588No Hit
GCCAGTTCTAAGTTGGCTGTTAGTCGCCGGACGAAGCCGACGGCCTCGGG70310.33148285657037113No Hit
GCGCCATCCATTTTCAGGGCTAGTTGATTCGGCAGGTGAGTTGTTACACA67120.31644331294272954No Hit
GTTTTACCCTACTGATGACTGCAGTCGTTGCAACGGTAATCCTGCTCAGT57000.26873165729641807No Hit
CGAACATCTAAGGGCATCACAGACCTGTTATTGCTCAATCTCGTGTGGCT56470.26623292434260926No Hit
CCCGAACCTGGCAACGGAGTTGGCTCCTCGCGGGGTCGTGTGCGGTAACG55620.26222552243555747No Hit
CAAAGATTAAGCCATGCATGTCTAAGTACATACTCTTGCACAGTGAAACC55110.2598210812913263No Hit
GCGGCCCCGAACATCTAAGGGCATCACAGACCTGTTATTGCTCAATCTCG55070.25963249767217095No Hit
GCGAGATTCTGACTTAGAGGCGTTCAGTCATAATCCCTCAGATGGTAGCT51590.24322572280565277No Hit
GAACACTGTAAGGATTGACAGATTGAGAGCTCTTTCTTGATTCGGTGGGT47860.2256403003194135No Hit
GCGCAAGTCATTGGGTGTTACGAAACCTAAAGGCGTAATGAAAGTGAAGG47680.2247916740332143No Hit
GCAAGTCATTGGGTGTTACGAAACCTAAAGGCGTAATGAAAGTGAAGGCA45290.21352380278868024No Hit
CTTGTCTCAAAGATTAAGCCATGCATGTCTAAGTACATACTCTTGCACAG43630.20569758259373194No Hit
CTCGCTTCGACCGACACCCGAAATGAGCAACGGGTGCGTGTGGTCGTCTG41450.19541977534976365No Hit
CCGGAATCGAACCCTGATTCCCCGTTACCCGTTACAACCATGGTAGGCAT40720.19197812430017797No Hit
GCGCCTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCATGCTCCCTCTC40370.1903280176325684No Hit
TCTTGCTCCGCCCCTTCGACGCAGTGCGAACGGGACGGGCCGGTGGTGCG40310.1900451422038353No Hit
CTTGCTCCGCCCCTTCGACGCAGTGCGAACGGGACGGGCCGGTGGTGCGC38910.18344471553339697No Hit
GAACTCTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGTTTG38720.18254894334240893No Hit
GTCAGAACTACGACGGTATCTGATCGTCTTCGAACCTCTGACTTTCGTTC37000.17443984771872753No Hit
CTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGTTTGCTATC36300.17113963438350838No Hit
GTCAAACTCCCCGCCTGACACTGTCTTCAGAGCGGATCGCCCCCGGCCGC35660.16812229647702226No Hit
CTCGTGTTCCGAAAACCAACAAAATAGAACCGAGGTCCTATTCCATTATT34920.16463349952264772No Hit
GTTAGTTTTACCCTACTGATGACTGCAGTCGTTGCAACGGTAATCCTGCT34080.16067324352038473No Hit
GCGATTTGTCTGGTTAATTCCGATAACGAACGAGACTCTAACCTACTAAA34030.1604375139964405No Hit
CTCCACTTCAGTCTTCAAAGTTCTCGTTTGAATATTTGCTACTACCACCA33900.1598246172341855No Hit
CTTCAGTCTTCAAAGTTCTCGTTTGAATATTTGCTACTACCACCAAGATC33670.15874026142404207No Hit
CTTGATTCGGTGGGTGGTGGTGCATGGCCGTTCTTAGTTGGTGGAGCGAT32520.15331848237332485No Hit
GGGGAATCAGGGTTCGATTCCGGAGAGGGAGCATGAGAAACGGCTACCAC31720.14954680999021722No Hit
GAACAAGCCAACGCTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCG31680.14935822637106186No Hit
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTCCGGAGAATCGGGGGT30460.14360642598682272TruSeq Adapter, Index 6 (97% over 36bp)
CTGGCTTCGGCCTCGGCTGCTCTGGACTGTCCTAGGAGTCGGGTTGTTTG30270.14271065379583464No Hit
GCTCAATCTCGTGTGGCTAAACGCCACTTGTCCCTCTAAGAAGTTACACC29650.13978760769892626No Hit
GCCGTTCTTAGTTGGTGGAGCGATTTGTCTGGTTAATTCCGATAACGAAC29400.13860896007920512No Hit
CTGACTTAGAGGCGTTCAGTCATAATCCCTCAGATGGTAGCTTCGCACCA29060.13700599931638438No Hit
AAAGATTAAGCCATGCATGTCTAAGTACATACTCTTGCACAGTGAAACCG28810.13582735169666324No Hit
GATTAAGCCATGCATGTCTAAGTACATACTCTTGCACAGTGAAACCGCGA28280.13332861874285445No Hit
CGAGATTCTGACTTAGAGGCGTTCAGTCATAATCCCTCAGATGGTAGCTT28210.13299859740933254No Hit
GCAGAATTCACCAAGCGTTGGCTTGTTCACCCACTAATAGGGAACGTGAG28180.132857159694966No Hit
GGGAATTCCTCGTTCATGGGGAGAATTACACACCCCAATCCCTAGCACGA28100.13247999245665523No Hit
GCTCTTTCTTGATTCGGTGGGTGGTGGTGCATGGCCGTTCTTAGTTGGTG27980.13191424159918907No Hit
ATTTTTCGTCACTACCTCCCCGTGCCAGGAGTGGGTAATTTGCGCGCCTG26640.12559669035748383No Hit
GTCATTGGGTGTTACGAAACCTAAAGGCGTAATGAAAGTGAAGGCAGCCT25710.12121212121212122No Hit
GCCAACGCTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCG25320.11937343092535625No Hit
GACAGATTGAGAGCTCTTTCTTGATTCGGTGGGTGGTGGTGCATGGCCGT25270.11913770140141201No Hit
GCAGATCGCACGGGCTTGTCCCGGCGACGTGTCTTTCAAATGTCTGCCCT25240.1189962636870455No Hit
GAAAATCAAAATCAAGTGAGCTTTTGCCCTTTTACTCTACGCGAGGTTTC25050.11810049149605742No Hit
GTTCTTTTCAACTTTCCCTCACGGTACTTGTTTGCTATCGGACTCGGGGA24340.11475313225604941No Hit
GAACATCTAAGGGCATCACAGACCTGTTATTGCTCAATCTCGTGTGGCTA23880.11258442063576252No Hit
CTCGGCTCGGGGGTCGATGAAGAGCGCAGCCAGCTGCGTGAATTAATGTG22770.1073512252042007No Hit
GAACAATGTAGGTAAGGGAAGTCGGCAAATTAGATCCGTAACTTCGGGAA22740.10720978748983416No Hit
ATCGGACTCGGGGAAGTATTTAGCCTTAGATGGAGTTTACCACCCACTTT22580.10645545301321264No Hit
ATTGGGTGTTACGAAACCTAAAGGCGTAATGAAAGTGAAGGCAGCCTCGG22180.10456961682165883No Hit
CTAGGATTCCCCTAGTAACGGCGAGTGAAGCGGGAAGAGCCCTGCACCGA22130.1043338872977146No Hit
GTCACTACCTCCCCGTGCCAGGAGTGGGTAATTTGCGCGCCTGCTGCCTT21960.10353240691630422No Hit
ATTGAGAGCTCTTTCTTGATTCGGTGGGTGGTGGTGCATGGCCGTTCTTA21880.10315523967799346No Hit
GTCGATGGTACGTGCTATGCCTACCATGGTTGTAACGGGTAACGGGGAAT21490.10131654939122851No Hit
GCCGTTTCTCATGCTCCCTCTCCGGAATCGAACCCTGATTCCCCGTTACC21330.10056221491460697No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GTTAATA10850.098.9069441
TAATATT12250.087.601223
TATTCCC13000.081.43186
ATTCCCG13350.079.2875447
ATATTCC13400.079.0015
ATATACG22700.073.785446
TATACGC22700.073.776747
ATACGCT23100.072.499228
AATATAC23150.072.3511665
TACGCTA23300.071.876919
TTTAATA23200.071.570172
TTGTCTC10350.071.4569242
TAATATA23350.071.420934
CTTTAAT23450.070.499621
CTTGTCT11250.066.386461
GCGCCAT18000.059.6189041
TTGAACT24050.057.2826422
GCCATCC19750.054.3349343
TTAATAT33850.052.908183
CATCCAT20750.051.366955
Produced by FastQC (version 0.11.5)