FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_spinal_cord_ifn--_red_needle_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_spinal_cord_ifn--_red_needle_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences467596
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

[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
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA38290.8188692803189077No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG22810.4878142670168265No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA22240.47562425683709864No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG16500.3528687157289626No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG16020.34260344399866555No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA14310.3060334134594821No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT11610.24829125997656096No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG11350.24273090445598336No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG11160.23866756772940745No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG10800.23096861393168464No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC10460.22369737978939083No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG10030.21450140719766636No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT9930.21236280892052112No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT9600.2053054346059419No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG9530.2038084158119402No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC9240.19760648080821905No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT9080.1941847235647867No Hit
GCCCAAGTGGTGCGGGGTCTGTGCCCTATAAGGGATCCACACCATAAGTC8440.18049769459105725No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC8240.1762204980367668No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC8080.1727987407933344No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC7910.16916312372218753No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC7420.1586839921641759No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT7400.15825627250874685No Hit
GTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCCTAT6890.1473494212953062No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA6870.14692170163987717No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG6850.1464939819844481No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA6750.1443553837073029No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG6700.14328608456873027No Hit
GTCCTGAAGTGGAAGAGACACGAACACTCAGAGTGCTCTCTATGGTGGGG6630.1417890657747286No Hit
TTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATAGA6510.13922274784215435No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG6510.13922274784215435No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG6470.13836730853129625No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA6440.1377257290481527No Hit
GGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATC6440.1377257290481527No Hit
ACCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGA6380.13644257008186553No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA6220.13302081283843317No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA6160.13173765387214603No Hit
TCTTTCCTCCTGGTGCCCGATTCATTTCTTCTAGAATGTATCCAAGTCTT6150.1315237940444315No Hit
CTGTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGG6130.13109607438900248No Hit
GCTTCCACAGCCGTCTTCCATTCTTTTTCCTCTTCAAATATTGCTCCCAG6090.1302406350781444No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA6020.12874361628414271No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT6020.12874361628414271No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT6000.12831589662871368No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG5910.12639115817928298No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT5900.12617729835156843No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT5830.12468027955756678No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA5700.12190010179727799No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT5640.12061694283099086No Hit
CTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAAAG5630.12040308300327633No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA5600.11976150352013278No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC5580.11933378386470372No Hit
GTAATGAACATAGTCTCTTCCTGGCTGTGGAAGGAGCTGGGGAAACGCAA5560.11890606420927466No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT5550.11869220438156015No Hit
CTATAAGGGATCCACACCATAAGTCCTCCCTTTTTCCTAGATAGGGAATG5540.11847834455384562No Hit
GTGTTACTCATAGCAGTAGCCATCTCCAGTGCTGTGCTGCTGCGGACCGC5490.11740904541527303No Hit
GAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTCCACTTCTC5450.11655360610441491No Hit
TCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACA5430.11612588644898587No Hit
TCACTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATG5390.11527044713812779No Hit
GTATTTAATCACGGCCAACGCCAGAGTTCTGTGCCCTTCCTCCATTTGGT5380.11505658731041327No Hit
CACAAAGGGAGGTCCCGGTCATGAAGAACCCATGCTGGTGCAAAGCTATG5340.11420114799955516No Hit
ATTAAATACACATACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGA5320.11377342834412611No Hit
ATGCAGCACTGGGAGCAATATTTGAAGAGGAAAAAGAATGGAAGACGGCT5290.11313184886098257No Hit
GGTGGATAGATAGTCCATGTACTTTTCTTCATCACCTATGATCCTGCGCA5240.11206254972240995No Hit
GGTTAAGAGACGTGGAGGTGGGACGGGAGAGACTCTGGGAGAGAAGTGGA5220.1116348300669809No Hit
GTGCTGCATTGCTGCGCACCTTGTTGATAAACTCTTCTTTGGTGCAGACG5220.1116348300669809No Hit
TACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAGGAGGAAAAAC5220.1116348300669809No Hit
ATCTGGTACATGTGGTTGGGAGCCAGATTCTTGGAGTTTGAAGCTCTTGG5170.11056553092840828No Hit
TGGTAGGCCCATGTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTC5140.1099239514452647No Hit
GCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGT5120.10949623178983567No Hit
GGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATCTGCGG5040.10778535316811949No Hit
TTCTAGAAGAAATGAATCGGGCACCAGGAGGAAAGATGTACGCAGATGAC5030.10757149334040496No Hit
TCTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTC4980.10650219420183235No Hit
CCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGAT4980.10650219420183235No Hit
TCCCAAGGCTTTGACAGGAGTCTAACAACCCCGTTCACGAGGGAAGACGC4980.10650219420183235No Hit
CTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCC4960.10607447454640331No Hit
GTACATCTCATGTGTGGAGTTGCGAGACAATGGCACTCTGACTAATCCTC4940.10564675489097428No Hit
GCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCCTATCCACTAGGG4900.10479131558011616No Hit
CTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTCC4890.10457745575240165No Hit
ATCCTTGAGGGCACGGCGAGCCTCCTCTCTACACACTTCAGTGATACCTG4880.10436359592468712No Hit
TTCCTAGATAGGGAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCC4810.10286657713068545No Hit
GGATTAGTCAGAGTGCCATTGTCTCGCAACTCCACACATGAGATGTACTG4750.10158341816439832No Hit
ACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAAAGCAAAA4740.10136955833668382No Hit
GACTGACACCACACCATACGGCCAACAAAGAGTCTTCAAAGAAAAAGTGG4730.10115569850896929No Hit
ACACCACACCATACGGCCAACAAAGAGTCTTCAAAGAAAAAGTGGACACC4730.10115569850896929No Hit

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TGTTCAG100.0072331624144.031342
CATCTAA950.0113.708971
CACAAAT703.274181E-1182.3036351
ATCTAAT1800.068.014811
GGACCCT2250.060.7937286
TGGACCC2450.055.830975
TGTGGAC2600.055.384823
GTGGACC2500.054.7143484
TCTAATG2300.053.2289772
CTAATGG2500.051.8401873
GACCCTT2650.051.611797
TAATGGG2500.048.9549454
TGGAAAA450.00989449548.0104522
CACTTGA450.0099070547.995046
CGTTGTA2100.044.581131
AATGGGA3050.042.487415
ACACCTC700.001093190941.138615
AGGCTCG1601.0804797E-940.4914867
ATCTATA9550.039.2127272
ATACAGT10150.039.010756
Produced by FastQC (version 0.11.2)