FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_infko_m-black_spinal_cord_pcr1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_infko_m-black_spinal_cord_pcr1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences476161
Sequences flagged as poor quality0
Sequence length150
%GC50

[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

[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

SequenceCountPercentagePossible Source
GAATGGTTTTGGCGATACTAGCCTTTTTGAGATTTACAGCAATCAAGCCA18160.38138360764531326No Hit
ATGCTGGATGAGGGAGTGGAACCAGATGATGTCGATTGCTGGTGCAACAC14800.3108192397109381No Hit
GTATTACCTGACCATGAACAATAAGCATTGGTTGGTGCACAAAGAGTGGT12790.26860662675019586No Hit
GGTAATACAGATCTGAAAAGTCAAGGCCTGTCCTTGGTTCACAGTCAAGT12240.257055911760938No Hit
CTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTA12080.25369570376406303No Hit
AGTCTGAAGCGAGAGCTAACAACAGTATCAACAGGTTTAATTTGGATTTG10750.22576397479003948No Hit
TCCGTACACAACCCAAGTTGATGTCGTGTTGCACCAGCAATCGACATCAT10450.21946358479589886No Hit
GAGTTATGAGTGCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCG9970.20938296080527385No Hit
GTATATGACTTTTTGGCTCGTCGAGCTTCCCAAAAGCCAGGCAATGGCAA9940.2087529218058598No Hit
ATCTAAGCTTGTCCATTTTTAGGCGGCATTTCAAGTGGCCAGAGAACAGC9440.19825227181562538No Hit
TCCTTGTAGAGTGAGAAGGGAGCGTCACGGCTCTTCTAGATCGCCGTGCC9400.19741221981640664No Hit
GTCATAGGAGTTGGGGACAAGAAAATCACCCACCACTGGCATAGGAGTGG9100.191111829822266No Hit
GTGCGTGGCACGGCCATTGCTCGAATTGCCAACCAGGCCAAAGCAAATCC9070.19048179082285194No Hit
TCTCACAGTGGCCTCAAATGCCTTTCCGATGGTGCTACCACTCCTATGCC9060.19027177782304724No Hit
GTCATGGACCCATCAGAATGGTTTTGGCGATACTAGCCTTTTTGAGATTT8320.17473081583750033No Hit
TCCTAGAGGAGAATGGAGTTCAACTGACAGTTGTTGTGGGATCTGTAAAA8300.17431078983789097No Hit
GTTAGTAACATGGCCGAGGTAAGATCCTATTGCTACGAGGCATCGATATC8200.17221065983984407No Hit
TTCATATCCTGTATCATTGACAATCATCCCGCTATGCTGGGAGCCATGCA8160.17137060784062536No Hit
ACTCTATGTCAACTGTTGGCTTGTCCTGTGCCATCACGGTAACGCAGCCT8140.17095058184101597No Hit
GTAGTATGCACTCCCGCGTCTAGTGATCTCTGCTGCCATGGCTGTAGTCA7900.16591026984570345No Hit
GAATATGACACGCCCTTCAATCTAAGCTTGTCCATTTTTAGGCGGCATTT7870.16528023084628937No Hit
TCTTAGAACACGTAAACTTGGCACATGTCACCAAGCTCCCTTTGCCAAAA7630.16023991885097688No Hit
TCCCTTAACAGCTGTTCCTATGACGGCTGGGTCACATTCTAATGAGTAAT7510.15771976285332062No Hit
GTACAGATCATGGACCTCGGGCACATGTGTGACGCCACCATGAGTTATGA7500.15750974985351593No Hit
ATCTAGAAGAGCCGTGACGCTCCCTTCTCACTCTACAAGGAAGTTGCAAA7410.15561963285527375No Hit
ATCCAGCATAGGGCACTCATAACTCATGGTGGCGTCACACATGTGCCCGA7170.15057932085996123No Hit
GTACAAGTACCATCCTGACTCCCCCCGCAGATTGGCAGCAGCAGTCAAGC7130.14973926886074246No Hit
CATATTGAGTGTCTGATTGCTTGTCAAGGTAGGCCTCACCTTGTGTTGGG7050.148059164862305No Hit
CCTGATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGA7040.1478491518625003No Hit
CTACAAGGAAGTTGCAAACGCGGTCGCAGACCTGGTTAGAATCAAGAGAA7040.1478491518625003No Hit
GGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACCACATTGGGAG6990.14679908686347684No Hit
GCATACTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTT6930.14553900886464874No Hit
CTTCTAGATCGCCGTGCCTCACCTTTTTTGTGATGACAGGTTCCGTACAC6920.14532899586484405No Hit
CTCAATATGTCTGCAAAAGAACATTAGTGGACAGAGGTTGGGGAAACGGT6920.14532899586484405No Hit
GTTCGAGTCTGAAGCGAGAGCTAACAACAGTATCAACAGGTTTAATTTGG6920.14532899586484405No Hit
CTCCAAGAGAGAAGTGGTCCATATGATCGGTTGACCCCGCTGTCACCATT6840.14364889186640653No Hit
TTCCAAGACAACATCAACCCAGGTCCCACCTGACATGCCCTCCACGAAGT6690.1404986968693362No Hit
TCCATGCTCTGTGCTCAAGCGGACATTCCTTCAGTGTGTCACCGTCGACA6690.1404986968693362No Hit
GTCTTTAGCTGGTCCACTCAGCCACCACAACACCAGAGAGGGTTACAGAA6680.14028868386953153No Hit
GGCCTGGGAAGAGGGGATCTGTGGGATCTCATCCGTTTCAAGAATGGAAA6620.1390286058707034No Hit
TACTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGC6580.13818855387148465No Hit
GTATCAACAGGTTTAATTTGGATTTGGAAACGAGAGTTTCTGGTCATGAA6580.13818855387148465No Hit
ATCATGACCAAGTATATGACTTTTTGGCTCGTCGAGCTTCCCAAAAGCCA6540.13734850187226588No Hit
AGCTTAGATTGAAGGGCGTGTCATATTCCTTGTGCACTGCGGCATTCACA6430.13503835887441432No Hit
GATCTGTACGTGGCACTTGTTCACTCCCAATGTGGTAGCAAACGAAATGG6400.13440831987500027No Hit
TTCTTACATTGTCATAGGAGTTGGGGACAAGAAAATCACCCACCACTGGC6340.13314824187617214No Hit
TACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACCACATT6290.1320981768771487No Hit
GTATCAGGTGCATTGGAGTCAGCAATAGAGACTTCGTGGAGGGCATGTCA6170.12957802087949244No Hit
ACACAAGGTGAGGCCTACCTTGACAAGCAATCAGACACTCAATATGTCTG6150.12915799487988308No Hit
AGTTATGAGTGCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCGA6130.12873796888027367No Hit
GTCATATACTTGGTCATGATACTGCTGATTGCCCCGGCATACAGTATCAG6060.12726787788164087No Hit
GTCAGTGCGTGGCACGGCCATTGCTCGAATTGCCAACCAGGCCAAAGCAA6050.1270578648818362No Hit
GTCATATTCCTTGTGCACTGCGGCATTCACATTCACCAAGGTCCCAGCTG6040.12684785188203151No Hit
CTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGACTTTTTG6040.12684785188203151No Hit
ACCTGATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATG6010.12621781288261744No Hit
ATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGACTTT6000.12600779988281274No Hit
TAATAAAGAAGTTCAAGAAAGATCTTGCTGCCATGTTGAGAATAATCAAT6000.12600779988281274No Hit
GTTGAGAATAATCAATGCTAGGAAAGAGAGGAAGAGACGTGGCGCAGACA5980.12558777388320336No Hit
ATCCTAGAGGAGAATGGAGTTCAACTGACAGTTGTTGTGGGATCTGTAAA5940.12474772188398463No Hit
GTGTACGGAACCTGTCATCACAAAAAAGGTGAGGCACGGCGATCTAGAAG5880.12348764388515648No Hit
GTTACTAACCGTCGTCGTGACCAACTCTATGTCAACTGTTGGCTTGTCCT5860.12306761788554713No Hit
GGATATGAAACTGACGAAAATAGAGCGAAAGTCGAGGTTACGCCTAATTC5820.12222756588632837No Hit
GCTAAAGACTTGGGTATGATAAGATCACTTTCTTCTACTCCATCTGTCCA5680.11928738388906274No Hit
CTCATAACTCATGGTGGCGTCACACATGTGCCCGAGGTCCATGATCTGTA5590.11739726689082054No Hit
CACTAGCAGCGTGCCTATGAGGATCTGTGAGAACCAGGACATTCCTCCAA5530.11613718889199243No Hit
GCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCGATTGCTGGTGC5530.11613718889199243No Hit
TCCCAGGCCTGCTTGACTGCTGCTGCCAATCTGCGGGGGGAGTCAGGATG5490.11529713689277367No Hit
TATCAACAGATGGGGTTCCGTGGGGAAAAAAGAGGCTATGGAAATAATAA5440.11424707189375022No Hit
ATATCGGACATGGCTTCGGACAGTCGTTGCCCAACACAAGGTGAGGCCTA5430.11403705889394553No Hit
GGGTAAGGGCATTCACCAGATTTTTGGAGCAGCCTTCAAATCACTGTTTG5420.11382704589414086No Hit
TTAGTGGACAGAGGTTGGGGAAACGGTTGTGGACTTTTTGGCAAAGGGAG5360.11256696789531272No Hit
TTCCTTCAGTGTGTCACCGTCGACAACAAAACTGTTGTTGGTCTTTGCCG5330.11193692889589865No Hit
CTCCTGCACCATGAGTAGAATCACAAGCACTCCAAGAGAGAAGTGGTCCA5320.11172691589609396No Hit
GTTAAGGGAAGGGAGGCCGCGCACAGTGATCTGGGCTATTGGATTGAAAG5190.10899674689863303No Hit
GTTCTAAGAAGATGACCGGGAAGAGCATTCAACCGGAAAATCTGGAGTAT5150.10815669489941428No Hit
GACTACAGCCATGGCAGCAGAGATCACTAGACGCGGGAGTGCATACTACA5080.10668660390078147No Hit
GTCCACAATGTGTGAGACTTTGGCCATTCACATGTTTTCATCTCAATCAG5080.10668660390078147No Hit
GGCTTGTCCTGTGCCATCACGGTAACGCAGCCTCCATGTTCCAAGACAAC5070.10647659090097678No Hit
TATCATACCCAAGTCTTTAGCTGGTCCACTCAGCCACCACAACACCAGAG5040.10584655190156271No Hit
GGTGTGGAAGACTCCAAACCCGTGATCCTCCACAAGAAAACTATTCCATG5020.10542652590195332No Hit
GAGTAGAAGAAAGTGATCTTATCATACCCAAGTCTTTAGCTGGTCCACTC4970.1043764609029299No Hit
GTACATGTAGTATGCACTCCCGCGTCTAGTGATCTCTGCTGCCATGGCTG4960.10416644790312521No Hit
GCATACTGCACCTCCACTGTGACTGTTCCATGCAGTGTTTCAGCTGGGAC4940.10374642190351584No Hit
ATTCTAACCAGGTCTGCGACCGCGTTTGCAACTTCCTTGTAGAGTGAGAA4910.10311638290410176No Hit
TTATAGATGAATACCCCCGTGCCACATCTCGTTTCCTTTTTTGAGAAGTC4890.10269635690449239No Hit
CCTCTAGGATAGCATTGAGCTCCCCTTCTACTGATTTCCACATGATGTTT4820.10122626590585958No Hit
GTCTCACACATTGTGGACAGATGGAGTAGAAGAAAGTGATCTTATCATAC4800.10080623990625019No Hit
CTCACGGGGTGTCCAATTGGCTCTGAAAATGAAGGAGACCAGCAAGGCTG4780.10038621390664082No Hit

[WARN]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CAGCGTC100.0072389403143.993182
GTACTAC100.0072389403143.993181
CGACAGT406.371374E-789.9957351
TCGAGTC1500.076.7963643
TTCGAGT1500.076.7963642
CGAGTCT1600.071.996594
GTTCGAG1600.071.996591
ACAGCCC300.001989351171.996591
GTCAGTG1300.071.996581
AGTGCGT1350.069.330054
GTGCGTG2550.067.761491
ACAGTTC554.2296833E-665.451453
CAGTGCG1450.064.548673
GAGTCTG1800.063.9969645
TGCGTGG2600.063.6892852
AGTTCGA651.1388131E-555.381995
GCGTGGC2950.053.692373
AGTCTGA2350.049.018951
GTCTGAA2650.046.1864932
TCTGAAG2850.045.4715273
Produced by FastQC (version 0.11.2)