FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_female_transmission_blood_pcr1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_female_transmission_blood_pcr1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences525745
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
GTATTACCTGACCATGAACAATAAGCATTGGTTGGTGCACAAAGAGTGGT15910.302618189426433No Hit
ATGCTGGATGAGGGAGTGGAACCAGATGATGTCGATTGCTGGTGCAACAC15260.29025478131033106No Hit
CTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTA14500.2757991041284273No Hit
GGTAATACAGATCTGAAAAGTCAAGGCCTGTCCTTGGTTCACAGTCAAGT13330.25354496951944383No Hit
GTATATGACTTTTTGGCTCGTCGAGCTTCCCAAAAGCCAGGCAATGGCAA13030.24783878115816602No Hit
TCCGTACACAACCCAAGTTGATGTCGTGTTGCACCAGCAATCGACATCAT11270.21436247610533624No Hit
GAGTTATGAGTGCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCG11050.21017793797373252No Hit
TCCTTGTAGAGTGAGAAGGGAGCGTCACGGCTCTTCTAGATCGCCGTGCC10550.2006676240382695No Hit
GTGCGTGGCACGGCCATTGCTCGAATTGCCAACCAGGCCAAAGCAAATCC10350.19686349846408432No Hit
AGTCTGAAGCGAGAGCTAACAACAGTATCAACAGGTTTAATTTGGATTTG10270.19534184823441023No Hit
GAATGGTTTTGGCGATACTAGCCTTTTTGAGATTTACAGCAATCAAGCCA10110.19229854777506206No Hit
ATCTAAGCTTGTCCATTTTTAGGCGGCATTTCAAATGGCCAGAGAACAGC10090.19191813521764353No Hit
GTCATAGGAGTTGGGGACAAGAAAATCACCCACCACTGGCATAGGAGTGG9830.18697277197120277No Hit
TTCATATCCTGTATCATTGACAATCATCCCGCTATGCTGGGAGCCATGCA9560.18183720244605275No Hit
GTCATGGACCCATCAGAATGGTTTTGGCGATACTAGCCTTTTTGAGATTT9400.17879390198670458No Hit
GAATATGACACGCCCTTCAATCTAAGCTTGTCCATTTTTAGGCGGCATTT9340.177652664314449No Hit
TCTCACAGTGGCCTCAAATGCCTTTCCGATGGTGCTACCACTCCTATGCC9240.17575060152735641No Hit
TCTTAGAACACGTAAACTTGGCACATGTCACCAAGCTCCCTTTGCCAAAA9050.17213668223188047No Hit
GTTAGTAACATGGCCGAGGTAAGATCCTATTGCTACGAGGCATCGATATC8960.17042482572349715No Hit
GTACAGATCATGGACCTCGGGCACATGTGTGACGCCACCATGAGTTATGA8890.1690933817725323No Hit
CCTGATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGA8750.16643049387060266No Hit
TCCTAGAGGAGAATGGAGTTCAACTGACAGTTGTTGTGGGATCTGTAAAA8360.15901244900094152No Hit
TCCCTTAACAGCTGTTCCTATGACGGCTGGGTCACATTCTAATGAGTAAT8330.15844183016481375No Hit
CTTCTAGATCGCCGTGCCTCACCTTTTTTGTGATGACAGGTTCCGTACAC8300.15787121132868595No Hit
ACTCTATGTCAACTGTTGGCTTGTCCTGTGCCATCACGGTAACGCAGCCT8300.15787121132868595No Hit
ATCTAGAAGAGCCGTGACGCTCCCTTCTCACTCTACAAGGAAGTTGCAAA8180.15558873598417483No Hit
CATATTGAGTGTCTGATTGCTTGTCAAGGTAGGCTTCACCTTGTGTTGGG8160.1552083234267563No Hit
CTCAATATGTCTGCAAAAGAACATTAGTGGACAGAGGTTGGGGAAACGGT8130.15463770459062853No Hit
GTACAAGTACCATCCTGACTCCCCCCGCAGATTGGCAGCAGCAGTCAAGC7990.1519748166886989No Hit
GCATACTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTT7870.14969234134418777No Hit
GTCTTTAGCTGGTCCACTCAGCCACCACAACACCAGAGAGGGTTACAGAA7790.1481706911145137No Hit
GTATCAGGTGCATTGGAGTCAGCAATAGAGACTTCGTGGAGGGCATGTCA7660.1456980094912933No Hit
GTAGTATGCACTCCCGCGTCTAGTGATCTCTGCTGCCATGGCTGTAGTCA7560.1437959467042007No Hit
GCTAAAGACTTGGGTATGATAAGATCACTTTCTTCTACTCCATCTGTCCA7500.14265470903194513No Hit
TAATAAAGAAGTTCAAGAAAGATCTTGCTGCCATGTTGAGAATAATCAAT7480.1422742964745266No Hit
ATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGACTTT7440.14151347135968959No Hit
GGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACCACATTGGGAG7430.1413232650809803No Hit
CTACAAGGAAGTTGCAAACGCGGTCGCAGACCTGGTTAGAATCAAGAGAA7430.1413232650809803No Hit
ATCATGACCAAGTATATGACTTTTTGGCTCGTCGAGCTTCCCAAAAGCCA7420.14113305880227106No Hit
TACTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGC7350.13980161485130624No Hit
TTCCAAGACAACATCAACCCAGGTCCCACCTGACATGCCCTCCACGAAGT7280.13847017090034142No Hit
CTCCAAGAGAGAAGTGGTCCATATGATCGGTTGACCCCGCTGTCACCATT7270.13827996462163217No Hit
AGCTTAGATTGAAGGGCGTGTCATATTCCTTGTGCACTGCGGCATTCACA7230.13751913950679512No Hit
GTCATATTCCTTGTGCACTGCGGCATTCACATTCACCAAGGTCCCAGCTG7010.1333346013751914No Hit
ACCTGATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATG6970.13257377626035435No Hit
CTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGACTTTTTG6950.13219336370293583No Hit
GTCAGTGCGTGGCACGGCCATTGCTCGAATTGCCAACCAGGCCAAAGCAA6890.13105212603068025No Hit
TACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACCACATT6870.13067171347326173No Hit
TTCTTACATTGTCATAGGAGTTGGGGACAAGAAAATCACCCACCACTGGC6870.13067171347326173No Hit
ACACAAGGTGAAGCCTACCTTGACAAGCAATCAGACACTCAATATGTCTG6850.13029130091584323No Hit
ATCCAGCATAGGGCACTCATAACTCATGGTGGCGTCACACATGTGCCCGA6850.13029130091584323No Hit
ATATCGGACATGGCTTCGGACAGTCGTTGCCCAACACAAGGTGAAGCCTA6660.1266773816203673No Hit
AGTTATGAGTGCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCGA6650.12648717534165804No Hit
GGCCTGGGAAGAGGGGATCTGTGGGATCTCATCCGTTTCAAGAATGGAAA6640.12629696906294877No Hit
GTCATATACTTGGTCATGATACTGCTGATTGCCCCGGCATACAGTATCAG6620.12591655650553024No Hit
GTGTACGGAACCTGTCATCACAAAAAAGGTGAGGCACGGCGATCTAGAAG6600.12553614394811172No Hit
TCCATGCTCTGTGCTCAAGCGGACATTCCTTCAGTGTGTCACCGTCGACA6590.12534593766940247No Hit
TTCCTTCAGTGTGTCACCGTCGACAACAAAACTGTTGTTGGTCTTTGCCG6550.12458511255456542No Hit
GTTGAGAATAATCAATGCTAGGAAAGAGAGGAAGAGACGTGGCGCAGACA6460.12287325604618207No Hit
GGATATGAAACTGACGAAAATAGAGCGAAAGTCGAGGTTACGCCTAATTC6320.12021036814425246No Hit
GTTCGAGTCTGAAGCGAGAGCTAACAACAGTATCAACAGGTTTAATTTGG6320.12021036814425246No Hit
GATCTGTACGTGGCACTTGTTCACTCCCAATGTGGTAGCAAACGAAATGG6270.11925933675070614No Hit
GTATCAACAGGTTTAATTTGGATTTGGAAACGAGAGTTTCTGGTCATGAA6260.1190691304719969No Hit
GCATACTGCACCTCCACTGTGACTGTTCCATGCAGTGTTTCAGCTGGGAC6240.11868871791457837No Hit
CACTAGCAGCGTGCCTATGAGGATCTGTGAGAACCAGGACATTCCTCCAA6140.11678665512748576No Hit
GCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCGATTGCTGGTGC6140.11678665512748576No Hit
GTTACTAACCGTCGTCGTGACCAACTCTATGTCAACTGTTGGCTTGTCCT6070.11545521117652094No Hit
ATCCTAGAGGAGAATGGAGTTCAACTGACAGTTGTTGTGGGATCTGTAAA6040.11488459234039315No Hit
CTCATAACTCATGGTGGCGTCACACATGTGCCCGAGGTCCATGATCTGTA6010.11431397350426538No Hit
TCCCAGGCCTGCTTGACTGCTGCTGCCAATCTGCGGGGGGAGTCAGGATG5980.11374335466813759No Hit
CTCACGGGGTGTCCAATTGGCTCTGAAAATGAAGGAGACCAGCAAGGCTG5930.1127923232745913No Hit
TATCAACAGATGGGGTTCCGTGGGGAAAAAAGAGGCTATGGAAATAATAA5900.11222170443846351No Hit
CATTGGGAGTGAACAAGTGCCACGTACAGATCATGGACCTCGGGCACATG5830.11089026048749868No Hit
GGGTAAGGGCATTCACCAGATTTTTGGAGCAGCCTTCAAATCACTGTTTG5770.10974902281524314No Hit
TTAGTGGACAGAGGTTGGGGAAACGGTTGTGGACTTTTTGGCAAAGGGAG5770.10974902281524314No Hit
TTATAGATGAATACCCCCGTGCCACATCTCGTTTCCTTTTTTGAGAAGTC5700.10841757886427832No Hit
CTCCTGCACCATGAGTAGAATCACAAGCACTCCAAGAGAGAAGTGGTCCA5540.10537427840493015No Hit
CTGTATTACCTGACCATGAACAATAAGCATTGGTTGGTGCACAAAGAGTG5520.10499386584751162No Hit
GTTCTAAGAAGATGACCGGGAAGAGCATTCAACCGGAAAATCTGGAGTAT5470.10404283445396532No Hit
GTCTCACACATTGTGGACAGATGGAGTAGAAGAAAGTGATCTTATCATAC5470.10404283445396532No Hit
CTCTTGGAGTGCTTGTGATTCTACTCATGGTGCAGGAGGGGTTGAAGAAG5440.10347221561783754No Hit
CTTCCACACCAGTGTCTGGCTTAAGGTCAGAGAAGATTACTCATTAGAAT5440.10347221561783754No Hit
TCCTTGAATTCTACCAATGCCTCTTTGTTGTTCCAGTGTGGAGTTCCGGT5380.10233097794558198No Hit
ATTCTAACCAGGTCTGCGACCGCGTTTGCAACTTCCTTGTAGAGTGAGAA5360.10195056538816345No Hit
CCCTACAGCACCATTCCTCAATGACCCTTCCACTTGCAGTAGTTGATCTC5350.10176035910945419No Hit
GGTGTGGAAGACTCCAAACCCGTGATCCTCCACAAGAAAACTATTCCATG5340.10157015283074494No Hit
CTCCTATGCCAGTGGTGGGTGATTTTCTTGTCCCCAACTCCTATGACAAT5280.10042891515848937No Hit

[OK]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GCGACAG100.0072341403144.026541
AGGCGAA100.0072382563143.999158
GAACGAA100.0072382563143.999156
CAGTGCG1550.0102.192943
AGTGCGT1550.097.5478064
GTCAGTG1700.093.193651
GTTCGAG1400.087.444681
TCGAGTC1500.086.399483
TTCGAGT1500.086.399482
CGAGTCT1600.080.999524
GAGTCTG1700.076.234845
TCCCTGA300.001987638472.013271
CGACAGT502.398816E-672.013271
CCTATAC300.001989139271.999573
AGTCTGA3100.067.367251
GTCTGAA3300.065.4541552
GCGTCAG350.003661987861.7256551
TCCTATA350.003664748761.7139172
GAAGCGA3400.061.4114046
CAGTTCG607.0862297E-659.9996454
Produced by FastQC (version 0.11.2)