FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_infko_m-red_spinal_cord_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_infko_m-red_spinal_cord_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences627812
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

[WARN]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
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA33370.5315285467624066No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG28980.46160315508464317No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG17820.28384293387192344No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG16310.25979114766841027No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC13610.21678464253630067No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG12920.20579409122476156No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA12700.2022898574732563No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT12330.1963963734366339No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT12130.19321070638981097No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA11980.19082145610469375No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT11820.18827292246723543No Hit
TCACTGAAGTGTGTAGAGAGGAGGCTCGCCGTGCCCTCAAGGATGGAGTG11670.1858836721821182No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT11470.1826980051352953No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC11370.18110517161188383No Hit
TACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAGGAGGAAAAAC11300.17999018814549578No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA11100.17680452109867284No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA10780.17170745382375616No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT10590.16868107012927436No Hit
ATCTGGTACATGTGGTTGGGAGCCAGATTCTTGGAGTTTGAAGCTCTTGG10430.16613253649181603No Hit
TTCTAGAAGAAATGAATCGGGCACCAGGAGGAAAGATGTACGCAGATGAC10280.1637432862066988No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG10260.16342471950201654No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC9870.1572126687607118No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG9440.1503634846100425No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG9410.14988563455301906No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG9270.147655667620243No Hit
GTATTTAATCACGGCCAACGCCAGAGTTCTGTGCCCTTCCTCCATTTGGT9230.1470185342108784No Hit
ATTAAATACACATACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGA9130.14542570068746694No Hit
TTCCTAGATAGGGAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCC9100.14494785063044352No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT8970.14287716705000858No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG8800.1401693500602091No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG8680.13825794983211537No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC8660.13793938312743304No Hit
CTCTAACACTTCCTCAGCTTCCATGTTCCGGATAAGCTGCACCACCAAGT8590.13682439966104504No Hit
ATCCTAACCCTTCGACTCCACCTCCTGAGTTTTCTCTTCCCATCCAATGG8570.13650583295636273No Hit
GGTTAAGAGACGTGGAGGTGGGACGGGAGAGACTCTGGGAGAGAAGTGGA8550.13618726625168043No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG8520.13570941619465698No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC8470.13491299943295126No Hit
TTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTT8330.1326830325001752No Hit
TTTCAAGACAAGACCAGAGAGGGAGTGGACAAGTTGTCACTTATGCTCTC8310.1323644657954929No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG8310.1323644657954929No Hit
GTGTAGAGAGGAGGCTCGCCGTGCCCTCAAGGATGGAGTGGCCACAGGAG8290.13204589909081063No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA8250.13140876568144605No Hit
CTATAAGGGATCCACACCATAAGTCCTCCCTTTTTCCTAGATAGGGAATG7950.12663026511121164No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT7920.1261524150541882No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA7840.12487814823545904No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA7820.12455958153077672No Hit
GAAGAGACCTTCGACTGATGGCTAATGCCATTTGCTCGGCTGTGCCAGTT7750.1234445980643887No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT7740.12328531471204757No Hit
GAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTCCACTTCTC7650.12185176454097724No Hit
CCATATGGTCGTTCTCCTCAATCCACACTCTATTCCACACCATGAGCATG7630.12153319783629495No Hit
ATCCCATCCATTGCTCTGCAACCATCTGGTCACTTTCTCTGGCTTCCTCA7500.11946251425586003No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT7500.11946251425586003No Hit
TCCATGGATTGACCAGGTGGTTCTCCCAGTTGGTACCCAGTCAACTGGCA7300.1162768472090371No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA7250.11548043044733138No Hit
TTTTATAAGAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTC7230.11516186374264908No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA7220.11500258039030793No Hit
GTAATGAACATAGTCTCTTCCTGGCTGTGGAAGGAGCTGGGGAAACGCAA7210.11484329703796677No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC7200.11468401368562563No Hit
CTTCTAGAATGTATCCAAGTCTTTGCAATCCTAACCCTTCGACTCCACCT7200.11468401368562563No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA7170.1142061636286022No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG7160.11404688027626105No Hit
GTGTTAGAGATGCAAGACTTATGGTTGTTGAGGAAGCCAGAGAAAGTGAC7110.11325046351455532No Hit
TTGCTCGGCTGTGCCAGTTGACTGGGTACCAACTGGGAGAACCACCTGGT6980.1111797799341204No Hit
GTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCC6960.11086121322943811No Hit
TCCTTGAGGTACAGCTTGTTGAAGTGGTGGGAGCAGAACGGGACTTCTTC6760.10767554618261517No Hit
GGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATC6650.10592342930686256No Hit
TTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATAGA6610.10528629589749798No Hit
GTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGGG6550.1043305957834511No Hit
GGATAGACTCAAACGAATGGCGGTCAGTGGAGATGACTGCGTTGTGAAGC6520.10385274572642766No Hit
CTTCAAATATTGCTCCCAGTGCTGCATTGCTGCGCACCTTGTTGATAAAC6500.10353417902174537No Hit
TTCCACTCCTGTGTGTCTTTCCTAACTTTTCCCATGTCATTCAAGAACCT6490.10337489566940422No Hit
CTCTCAATGCGCCTGCCGATGATTTTCATGTTAGGAGCCTCAGCACAGCT6470.10305632896472192No Hit
GGAATAGAGTGTGGATTGAGGAGAACGACCATATGGAGGACAAGACTCCT6460.10289704561238078No Hit
CTTTTTATGATGTTGCTCTTTGCCCCAGAGACCCAGTACATCTCATGTGT6430.10241919555535733No Hit
CACAAAGGGAGGTCCCGGTCATGAAGAACCCATGCTGGTGCAAAGCTATG6400.1019413454983339No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT6380.10162277879365159No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CATCTAA750.0124.806281
TCCGGGT203.9737293E-4107.996832
ATCTAAT2350.094.98351
GGATTTC259.644759E-486.404351
TCTAATG2950.075.65882
TGTGGAC4050.074.6644743
TGGACCC3900.073.843995
GGACCCT4000.071.997896
CTAATGG3150.070.8550643
GACCCTT4100.070.241847
GTGGACC4300.068.649154
TAATGGG3300.067.634384
TAAAAGA350.00366426361.717391
AATGGGA3700.060.322565
GGACAGG400.0062165154.002721
GATTTCC400.006218469253.9984172
ATTTCCC400.006218469253.9984173
AGGGTAG450.00990572847.9985925
TTCCAGA450.00990572847.9985922
ATAACTC450.00990572847.9985922
Produced by FastQC (version 0.11.2)