FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_male_transmission_liver_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_male_transmission_liver_pcr2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences559287
Sequences flagged as poor quality0
Sequence length150
%GC51

[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

[OK]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

SequenceCountPercentagePossible Source
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC82511.4752711935017264No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC18590.3323874862101211No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA17800.3182623590392768No Hit
GTTCAGACCATGCGGCCCTGAAGTCGTTCAAAGAATTCGCCGCTGGAAAA14880.26605302823058646No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG13220.2363723812640022No Hit
TGCTAGTGCTGCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAAC12730.2276112264365165No Hit
CTCCTAGAGTCTATGACCCGGTCAGCCTTGAAGTTGGCGCCCATCTCTGA12580.2249292402648372No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA12410.221889655936934No Hit
TACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCC12330.22045926331203838No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT12090.21616808543735147No Hit
CTCTAGGAGATGCCTAAAACCAGTCATACTTGATGGTGAGAGAGTCATCT12000.2145588937343439No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC11300.20204295826650717No Hit
GCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGT10760.1923878080484617No Hit
TCTCTGAGATGTCAGTTGTTATGACAAAGTCCCACTCTTGATTTTTTGTT10660.19059981726734218No Hit
GTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCTTC10360.18523584492398357No Hit
CATGTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGC10190.18219626059608038No Hit
GGATGAGAGTGGTGATTTCTCCTTGGTAGAGGAAGATGGTCCACCCATGA10080.18022947073684886No Hit
GTGTGGAAGACTCCCTCTTGCATGACTCCCACTCCAACCTGTGTTGAACC9670.1728987085342588No Hit
TATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTGGA9650.1725411103780349No Hit
CACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCCAC9490.16968032512824366No Hit
GTACACTCCATCTGTGGTCTCTCCTTTCTTCACTTCTTTGGGAGCAGGCA9200.16449515186299699No Hit
TCTCAGAGATGGGCGCCAACTTCAAGGCTGACCGGGTCATAGACTCTAGG9160.16377995555054917No Hit
AGATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTG9050.1618131656913177No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG8960.16020397398831013No Hit
CTCTCATCCAGTGCCACGTCAAGCCGAGGACTGTTTCCAGTGACTTCCGC8780.15698559058229497No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG8780.15698559058229497No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA8670.15501880072306348No Hit
TTATAAGGCAGCGGCAGCCCAACTGCCGGAGACCCTAGAGACCATTATGC8600.1537672071762798No Hit
GCCATAGAGTCCTATCACTCTTCCACATTTGTCTAGGATCGGAGATCCTG8530.15251561362949612No Hit
GTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGCCTGC8490.1518004173170483No Hit
GATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTG8380.1498336274578168No Hit
CTTCCACACCATGTGGCACGTTACAAAAGGAGCCGCACTGAGGAGCGGTG8350.14929723022348096No Hit
GTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGCTTG8340.14911843114536902No Hit
GTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGGAGTGG8330.14893963206725705No Hit
TATCAGGCCAACGGCTGTGAGAACTTCACTAGGGGGCCAGCTCCGCTTCC8310.14858203391103314No Hit
CCCCGTGAGAGCATGCTGCTAGCCCTGGCTTCGTGTCTTCTGCAAACTGC8160.14590004773935386No Hit
ACCCTGCAGGGACCTCAGGATCTCCGATCCTAGACAAATGTGGAAGAGTG8130.14536365050501798No Hit
GATGTAGAGATTGTAATTAGGGACTCTGATGGGTTGTAGTAAGCGTGAAG8000.1430392624895626No Hit
CTCTACATCATGGATGAAGCCCACTTCACAGACCCCTCAAGTATAGCTGC7980.1426816643333387No Hit
TTACAAAAGGAGCCGCACTGAGGAGCGGTGAGGGAAGACTTGATCCATAC7430.13284771503718126No Hit
TCTTCTGTCTGTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCC7390.13213251872473344No Hit
GTATGTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGC7230.1292717334749422No Hit
GCTCATACCCGAGCCAGAGAAGCAAAGATCTCCCCAAGATAACCAGATGG7060.126232149147039No Hit
ATACTGGGGGGATGTCAAGCAGGACTTGGTGTCATACTGTGGGCCTTGGA7060.126232149147039No Hit
GTCTTCCATTATGGTGTTGTTGGTTGTGCCATCAAAGCACCATCTTCTGT7010.12533815375647925No Hit
CCATACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACGTCC6990.12498055560025534No Hit
GTATGGATCAAGTCTTCCCTCACCGCTCCTCAGTGCGGCTCCTTTTGTAA6970.12462295744403143No Hit
TCCCAGAGGGCGCCACTCCTTTTCCCAGTCTTCACATACACATACCACGC6880.12301376574102382No Hit
TCCTGAAATAGTCCGTGAAGCCATAAAAAAGAGACTCCGGACAGTGATCT6870.12283496666291188No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC6840.12229856942857602No Hit
GTTGTAGTAAGCGTGAAGTGAAAGTGGCATGGCACATCAAATCAACGATT6810.12176217219424015No Hit
GCCTTATAAGGCCTGCTTCCAGTCTCTGCTCGCATGAGCACGGCGAGGTT6670.11925898510067282No Hit
GTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGGG6660.11908018602256086No Hit
CACATACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCA6540.11693459708521743No Hit
GGAGTGTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGG6530.11675579800710548No Hit
ATACTTGAGGGGTCTGTGAAGTGGGCTTCATCCATGATGTAGAGATTGTA6480.11586180261654572No Hit
GGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCT6460.11550420446032181No Hit
GGTATGAGCACCACCAGTAATAAAAACACAACAATGAGGACACATGCAAT6460.11550420446032181No Hit
GCACTAGCATGCGTGACAGGCATGGGCCCAGCCAAGATGACTCTCTCACC6410.11461020906976203No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT6370.11389501275731423No Hit
CTCTTGGAGTGCTTGTGATTCTACTCATGGTGCAGGAGGGGTTGAAGAAG6360.11371621367920227No Hit
AACTTACACAGACAGAAGATGGTGCTTTGATGGCACAACCAACAACACCA6350.11353741460109032No Hit
CTCTAACACCACTAGCTCGAGGCACACTGCTCGTGGCATGGAGAGCGGGC6260.11192822289808274No Hit
TACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACGTCCTCT6250.11174942381997079No Hit
ATGGAAGACAGCGTACCAGCAGAGGTGTGGACAAAGTATGGAGAGAAGAG6170.11031903119507516No Hit
ATGTTAGTGCTATAACCCAGGGAAAGAGGGAGGAGGAGACTCCGGTTGAA6140.10978263396073931No Hit
ATCATGGACACAGAAGTGGAAGTCCCAGAGAGAGCCTGGAGCTCAGGCTT6100.10906743764829148No Hit
GTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCCAGACGGGAAG5990.10710064778905999No Hit
TACTCAAGGTGGTCCTGATGGCCATCTGTGGCATGAACCCAATAGCTATA5980.10692184871094804No Hit
CCTCTGAGCAGCACTAGCATGCGTGACAGGCATGGGCCCAGCCAAGATGA5970.10674304963283608No Hit
GCCTTGAAGTTGGCGCCCATCTCTGAGATGTCAGTTGTTATGACAAAGTC5930.10602785332038828No Hit
ATTTCAGGAAGAACTCTCCTGGTTTTTCCGGCTCCTGGATGCAGATCCAA5910.10567025516416437No Hit
CTCATGGGTGGACCATCTTCCTCTACCAAGGAGAAATCACCACTCTCATC5900.10549145608605241No Hit
CTCCATACTTTGTCCACACCTCTGCTGGTACGCTGTCTTCCATTATGGTG5850.10459746069549265No Hit
GCATAAAATGGCATCCCTTTGCCCATGCCAAACAGCACTCCAGCTTGTGT5720.10227307268003726No Hit
GTGCAGGAGGGGTTGAAGAAGAGAATGACCACAAAGATCATCATGAGCAC5680.10155787636758945No Hit
CAGTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCT5630.10066388097702969No Hit
CATTAATGGATTTGCTTTGGCCTGGTTGGCAATTCGAGCAATGGCCGTGC5600.10012748374269383No Hit

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TTCCTAC151.2637638E-4144.00931
CTTGTAC100.0072387876143.996439
GAGATAA450.0128.008271
AGATAAG1350.096.0061951
TCGAAGC259.647085E-486.397869
ACTGGAG21250.077.249853
CTCGAAG300.00198935571.998218
CTGGAGA23100.071.374854
TGGAGAT23550.070.316735
GATGGGG755.124093E-967.1983269
CCTCGAA350.003665144861.7127537
GGAGATG41200.047.53286
GAACAGA9450.047.236926
AACAGAC9450.047.236927
TGAACAG9850.046.7805635
CTGAACA10200.045.1753464
TCTGAAC10250.044.9549833
GATGGCT33200.041.637529
CACTGGA42100.039.8469922
CCCAGGA3350.038.6856089
Produced by FastQC (version 0.11.2)