FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_spinal_cord_fn--_red-b-red_transmission_pcr1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_spinal_cord_fn--_red-b-red_transmission_pcr1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences485757
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
GAATGGTTTTGGCGATACTAGCCTTTTTGAGATTTACAGCAATCAAGCCA21560.44384332083737343No Hit
CTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTA13580.27956365013782614No Hit
ATGCTGGATGAGGGAGTGGAACCAGATGATGTCGATTGCTGGTGCAACAC12770.2628886459690751No Hit
GTATATGACTTTTTGGCTCGTCGAGCTTCCCAAAAGCCAGGCAATGGCAA12410.2554775330051857No Hit
GTATTACCTGACCATGAACAATAAGCATTGGTTGGTGCACAAAGAGTGGT11770.24230222106938243No Hit
GTGCGTGGCACGGCCATTGCTCGAATTGCCAACCAGGCCAAAGCAAATCC9620.19804140753504323No Hit
GGTAATACAGATCTGAAAAGTCAAGGCCTGTCCTTGGTTCACAGTCAAGT9420.19392412255510472No Hit
GAGTTATGAGTGCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCG9170.18877751633018156No Hit
AGTCTGAAGCGAGAGCTAACAACAGTATCAACAGGTTTAATTTGGATTTG8820.18157226761528913No Hit
ATCTAAGCTTGTCCATTTTTAGGCGGCATTTCAAGTGGCCAGAGAACAGC8560.17621979714136904No Hit
TCCTTGTAGAGTGAGAAGGGAGCGTCACGGCTCTTCTAGATCGCCGTGCC8550.1760139328923721No Hit
CTGAAAAGTCAAGGCCTGTCCTTGGTTCACAGTCAAGTCCTAAGCTTCCA8290.170661462418452No Hit
CTCAATATGTCTGCAAAAGAACATTAGTGGACAGAGGTTGGGGAAACGGT8090.1665441774385135No Hit
GAATATGACACGCCCTTCAATCTAAGCTTGTCCATTTTTAGGCGGCATTT8000.16469139919754117No Hit
GTTCGAGTCTGAAGCGAGAGCTAACAACAGTATCAACAGGTTTAATTTGG7710.1587213359766303No Hit
GTTAGTAACATGGCCGAGGTAAGATCCTATTGCTACGAGGCATCGATATC7560.1556333722416764No Hit
GTCATGGACCCATCAGAATGGTTTTGGCGATACTAGCCTTTTTGAGATTT7390.15213368000872865No Hit
TTCATATCCTGTATCATTGACAATCATCCCGCTATGCTGGGAGCCATGCA7340.151104358763744No Hit
ACTCTATGTCAACTGTTGGCTTGTCCTGTGCCATCACGGTAACGCAGCCT7330.15089849451474707No Hit
TCCGTACACAACCCAAGTTGATGTCGTGTTGCACCAGCAATCGACATCAT7320.15069263026575014No Hit
CTTCTAGATCGCCGTGCCTCACCTTTTTTGTGATGACAGGTTCCGTACAC7280.14986917326976246No Hit
CCTGATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGA7210.14842812352678397No Hit
ACACAAGGTGAGGCCTACCTTGACAAGCAATCAGACACTCAATATGTCTG6990.1438991100488516No Hit
ATCATGACCAAGTATATGACTTTTTGGCTCGTCGAGCTTCCCAAAAGCCA6880.1416346033098854No Hit
GTACAGATCATGGACCTCGGGCACATGTGTGACGCCACCATGAGTTATGA6860.14122287481189155No Hit
CTACAAGGAAGTTGCAAACGCGGTCGCAGACCTGGTTAGAATCAAGAGAA6860.14122287481189155No Hit
GTACAAGTACCATCCTGACTCCCCCCGCAGATTGGCAGCAGCAGTCAAGC6860.14122287481189155No Hit
GTAGTATGCACTCCCGCGTCTAGTGATCTCTGCTGCCATGGCTGTAGTCA6770.1393700965709192No Hit
CTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGACTTTTTG6700.13792904682794072No Hit
ATCCAGCATAGGGCACTCATAACTCATGGTGGCGTCACACATGTGCCCGA6660.13710558983195303No Hit
GTCATAGGAGTTGGGGACAAGAAAATCACCCACCACTGGCATAGGAGTGG6630.13648799708496223No Hit
TAATAAAGAAGTTCAAGAAAGATCTTGCTGCCATGTTGAGAATAATCAAT6610.1360762685869684No Hit
GTCATATACTTGGTCATGATACTGCTGATTGCCCCGGCATACAGTATCAG6590.13566454008897452No Hit
GCATACTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTT6520.13422349034599604No Hit
GGCCTGGGAAGAGGGGATCTGTGGGATCTCATCCGTTTCAAGAATGGAAA6410.13195898360702987No Hit
ATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGACTTT6410.13195898360702987No Hit
GGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACCACATTGGGAG6380.13134139086003907No Hit
CATATTGAGTGTCTGATTGCTTGTCAAGGTAGGCCTCACCTTGTGTTGGG6290.12948861261906675No Hit
TCTGAAAAGTCAAGGCCTGTCCTTGGTTCACAGTCAAGTCCTAAGCTTCC6200.1276358343780944No Hit
CTCATAACTCATGGTGGCGTCACACATGTGCCCGAGGTCCATGATCTGTA6190.1274299701290975No Hit
TCCTAGAGGAGAATGGAGTTCAACTGACAGTTGTTGTGGGATCTGTAAAA6140.12640064888411284No Hit
CTCCAAGAGAGAAGTGGTCCATATGATCGGTTGACCCCGCTGTCACCATT6100.12557719188812513No Hit
TCTTAGAACACGTAAACTTGGCACATGTCACCAAGCTCCCTTTGCCAAAA6090.1253713276391282No Hit
ATCTAGAAGAGCCGTGACGCTCCCTTCTCACTCTACAAGGAAGTTGCAAA6090.1253713276391282No Hit
AGCTTAGATTGAAGGGCGTGTCATATTCCTTGTGCACTGCGGCATTCACA6040.12434200639414358No Hit
TACTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGC6030.12413614214514665No Hit
TACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACCACATT5970.12290095665116509No Hit
GTCAGTGCGTGGCACGGCCATTGCTCGAATTGCCAACCAGGCCAAAGCAA5940.12228336390417431No Hit
GTATCAACAGGTTTAATTTGGATTTGGAAACGAGAGTTTCTGGTCATGAA5930.12207749965517738No Hit
TCCCTTAACAGCTGTTCCTATGACGGCTGGGTCACATTCTAATGAGTAAT5910.12166577115718352No Hit
GTACATGTAGTATGCACTCCCGCGTCTAGTGATCTCTGCTGCCATGGCTG5910.12166577115718352No Hit
GTCATATTCCTTGTGCACTGCGGCATTCACATTCACCAAGGTCCCAGCTG5860.12063644991219889No Hit
GTATCAGGTGCATTGGAGTCAGCAATAGAGACTTCGTGGAGGGCATGTCA5780.11898953592022349No Hit
AGTTATGAGTGCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCGA5770.11878367167122655No Hit
GGATATGAAACTGACGAAAATAGAGCGAAAGTCGAGGTTACGCCTAATTC5750.11837194317323271No Hit
GTTGAGAATAATCAATGCTAGGAAAGAGAGGAAGAGACGTGGCGCAGACA5730.11796021467523886No Hit
ATATCGGACATGGCTTCGGACAGTCGTTGCCCAACACAAGGTGAGGCCTA5680.11693089343025422No Hit
GATCTGTACGTGGCACTTGTTCACTCCCAATGTGGTAGCAAACGAAATGG5650.11631330068326345No Hit
GCTAAAGACTTGGGTATGATAAGATCACTTTCTTCTACTCCATCTGTCCA5530.11384292969530033No Hit
GCACCATTCCTCAATGACCCTTCCACTTGCAGTAGTTGATCTCAGAGATG5520.11363706544630339No Hit
TTCTTACATTGTCATAGGAGTTGGGGACAAGAAAATCACCCACCACTGGC5480.1128136084503157No Hit
TTCCTTCAGTGTGTCACCGTCGACAACAAAACTGTTGTTGGTCTTTGCCG5380.11075496596034642No Hit
ACCTGATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATG5350.11013737321335566No Hit
GTTACTAACCGTCGTCGTGACCAACTCTATGTCAACTGTTGGCTTGTCCT5300.10910805196837102No Hit
TTCCAAGACAACATCAACCCAGGTCCCACCTGACATGCCCTCCACGAAGT5260.1082845949723833No Hit
ATCCTAGAGGAGAATGGAGTTCAACTGACAGTTGTTGTGGGATCTGTAAA5220.1074611379763956No Hit
CATTGGGAGTGAACAAGTGCCACGTACAGATCATGGACCTCGGGCACATG5220.1074611379763956No Hit
ACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACC5170.10643181673141097No Hit
GCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCGATTGCTGGTGC5170.10643181673141097No Hit
ATTCTAACCAGGTCTGCGACCGCGTTTGCAACTTCCTTGTAGAGTGAGAA5160.10622595248241404No Hit
GACTTCTCAGATCTGTATTACCTGACCATGAACAATAAGCATTGGTTGGT5130.10560835973542326No Hit
TCTCACAGTGGCCTCAAATGCCTTTCCGATGGTGCTACCACTCCTATGCC5110.10519663123742941No Hit
GGTCATGGACCCATCAGAATGGTTTTGGCGATACTAGCCTTTTTGAGATT5030.103549717245454No Hit
ACTTCTCAGATCTGTATTACCTGACCATGAACAATAAGCATTGGTTGGTG5010.10313798874746014No Hit
GTCTTTAGCTGGTCCACTCAGCCACCACAACACCAGAGAGGGTTACAGAA5000.10293212449846323No Hit
GGACAAGCCAACAGTTGACATAGAGTTGGTCACGACGACGGTTAGTAACA5000.10293212449846323No Hit
GGATGAGGGAGTGGAACCAGATGATGTCGATTGCTGGTGCAACACGACAT5000.10293212449846323No Hit
CACTAGCAGCGTGCCTATGAGGATCTGTGAGAACCAGGACATTCCTCCAA4980.10252039600046937No Hit
CTCCTATGCCAGTGGTGGGTGATTTTCTTGTCCCCAACTCCTATGACAAT4940.10169693900448167No Hit
TTAGTGGACAGAGGTTGGGGAAACGGTTGTGGACTTTTTGGCAAAGGGAG4940.10169693900448167No Hit
GTTCTAAGAAGATGACCGGGAAGAGCATTCAACCGGAAAATCTGGAGTAT4930.10149107475548474No Hit

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TTCGAGT1450.084.4001542
CGAGTCT1450.084.3914644
TCGAGTC1450.084.3914643
AGTGCGT1350.079.978844
CAGTGCG1350.079.978843
GTTCGAG1550.078.971241
GTCAGTG1650.065.457441
GAGTCTG1900.064.4040155
GCGACAG350.00366384961.7170221
ACAGTTC502.081842E-457.5847663
AGTCTGA2600.055.387071
GTGCGTG2100.054.8595731
TGCGTGG2200.052.3551752
TCTGAAG2850.050.512953
GTCTGAA2900.049.647152
TGAAGCG2900.049.6420365
CTGAAGC2900.049.6420364
AGTTCGA605.120801E-447.9873055
GCGTGGC2400.047.9873053
GAAGCGA3150.045.7021946
Produced by FastQC (version 0.11.2)