FastQCFastQC Report
Thu 14 Aug 2014
brugia_2_CGATGT_L002_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filenamebrugia_2_CGATGT_L002_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences48539493
Sequences flagged as poor quality0
Sequence length101
%GC46

[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

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTATCTCGTATGC26695695.499787564736203TruSeq Adapter, Index 2 (100% over 50bp)
CTCAACTTCATGCGGCTAAACACCGCTTGTCCCTCTAAGAAGTTGTCTGG1411740.2908435817407487No Hit
CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA1394830.28735982058980303No Hit
CTGGTTTATTCCGATAACGAGCGAGACTCTAGCCTACTAAATAGTTACTG1308070.2694857154770859No Hit
GTCAAAACGTAACGCAGGTGTCCTAAGGCTAGCTCAGAGAGGACGGAAAC1307920.26945481280572914No Hit
GAACAATCCAACGCTTGGCGAATTCTGCTTCGCAATGATAGGAAGAGCCG1226160.2526107967382354No Hit
GTTTTACCCTACTGTGATATGTTGTTGCGATAGTAATCCTGCTCAGTACG1203990.24804338191171468No Hit
GTCAGAACTAGGGCGGTATCTGATCGCCTTCGAACCTCTGACTTTCGTTC1190330.24522917864016422No Hit
CTCCAGTGTAGCGCGCGTGCAGCCCTGGACATCTAAGGGCATCACAGACC1146450.23618911717928326No Hit
GTTTATTCCGATAACGAGCGAGACTCTAGCCTACTAAATAGTTACTGGAT1128680.23252818071255915No Hit
GTCAACTTAGAACTGGCACGGACTCGGGGAATCCGACTGTCTAATTAAAA1113790.22946057553588375No Hit
GTTAGTTTTACCCTACTGTGATATGTTGTTGCGATAGTAATCCTGCTCAG1017390.20960045874397576No Hit
GACAGATTGAGAGCTCTTTCATGATTCGGTGGTTGGTGGTGCATGGCCGT1001250.20627533130599449No Hit
GTCCAATCAAAGGATAAGTCTCAACAGATCGCAGTATGGAGGCTGCTCTA976630.20120317284731426No Hit
CGGACACCGTGAGGATTGACAGATTGAGAGCTCTTTCATGATTCGGTGGT965060.1988195467966672No Hit
CTGGAATCGGTTCAGCCGGAGATAGGGATGTTGTTTCCGTAAAGCGCCAC957300.1972208485984804No Hit
CTCGGTTCTATTTTGTTGGTTTTCTGATCTGAGATAATGGTTAAGAGGGA954140.1965698323218992No Hit
CTCACTTCACATTACAGCCCGACCGGCCCAGTCCTTAGAGCCAATCCTTA927400.19106091610804424No Hit
GCCAGATCGTACCCATATCCGCAGCAGGTCTCCAAGGTGAACAGCCTCTA911830.18785321882121842No Hit
GTCGATCCTAAGATATTGGCTAGTGCCGTTTTTTAAAATAAAATAGAGGA897080.18481445613780925No Hit
CTTGTTACGACTTTTGCCCGGTTCAAGCCACTGCGATTAAAGCAGTTTCC892260.18382145029821387No Hit
CGCGCGTGCAGCCCTGGACATCTAAGGGCATCACAGACCTGTTATTGCTC888320.1830097401305778No Hit
CTTAGATGTCCAGGGCTGCACGCGCGCTACACTGGAGGAATCAGCGTGCT867950.17881315736033748No Hit
GCCGTTCTTAGTTGGTGGAGTGATTTGTCTGGTTTATTCCGATAACGAGC844350.17395113706688284No Hit
CGACTTTTGCCCGGTTCAAGCCACTGCGATTAAAGCAGTTTCCACCAAAG839510.17295401087110654No Hit
CTCAAAGTGTATATCGTCATTGCTGCGGTTAAAAAGCTCGTAGTTGGATC747000.1538953033563824No Hit
CCCGAAGTTACGGATCTAATTTGCCGACTTCCCTTACCTACATTATTCTA745420.15356979521809178No Hit
CAAATATTCAAGTGAGATCCTTGAAGACTGAAGTGGAGAAGGGTTCCACG735420.1515096171276449No Hit
GTTTGACTGGGGCGGTACATCTGTCAAAACGTAACGCAGGTGTCCTAAGG732260.1508586008510637No Hit
CGAAATTCAAATAGCTTCCCTCGGATTTTCATGGATCGAACAAAGCGCAC710270.14632826923017098No Hit
GTTGAAGCTTCCATTGGTGCAGATCTTGGTGGTAGTAGCAAATATTCAAG704880.1452178332394201No Hit
CTTTTGCCCGGTTCAAGCCACTGCGATTAAAGCAGTTTCCACCAAAGAAT703940.1450241764989181No Hit
ATTTTTTCAAGGTAAACTTGCTAGCCACCATATGCAACCAATTAAGGTAA690800.1423171024880709No Hit
CTCCACTCCTGGTGGTGCCCTTCCGTCAATTTCTTTAAGTTTCAGCTTTG673060.13866234655561813No Hit
CTTGGCTGTGGTTTCGCTAGATAGTAGATAGGGACAGTGGGAATCTCGTT661490.13627872050497108No Hit
CTCGCTCGTTATCGGAATAAACCAGACAAATCACTCCACCAACTAAGAAC645820.1330504214372408No Hit
CTCAGATGGTAGCTTCGCACCATTGGCCGATCGGCCAAGCACATGAACCA636880.1312086222243813No Hit
GCAGGCTCCACTCCTGGTGGTGCCCTTCCGTCAATTTCTTTAAGTTTCAG635410.1309057760450856No Hit
CAGGGACGTAATCAACGTGAGCTGATGACTCACACTTACTAGGAATTCCT634110.1306379528933275No Hit
CGGAAACCTCTCGTAGAGTAAAAGGGCAAAAGCTCGCTTGATCTTGATTT631270.1300528623156406No Hit
CGGAGATAGGGATGTTGTTTCCGTAAAGCGCCACGGTTCCTGTGGTGTCT600140.12363952792007944No Hit
TGGAAATCAAGATCAAGCGAGCTTTTGCCCTTTTACTCTACGAGAGGTTT598810.12336552423404998No Hit
CTTACCTACATTATTCTATCGACTAGAGGCTGTTCACCTTGGAGACCTGC586870.12090567159405641No Hit
GTCGCAATGGTTAGCGTTGAAGACTTTGGGCGTAGGCCCGGTTGAAGCTT581840.11986940201456162No Hit
CGAGACTCTAGCCTACTAAATAGTTACTGGATAATTTTATCGTCCAGACA580890.11967368509596917No Hit
GCGAGACGTACGACTGCGAAAGCATTTGCCAAGAATGTCTTCATTAATCA577790.11903502988793065No Hit
GCGGATATGGGTACGATCTGGCACGAAATTCAAATAGCTTCCCTCGGATT570920.11761968753979363No Hit
GATAAATCGAAAGGGAAACGGGTTAATATTCCCGTACCTGGACACGGAGA570580.11754964148471844No Hit
CCCACTTATGCTACACCTCTCATGACTCTTCACAGAGTCGGACTAGAGTC563500.11609103539668203No Hit
TTTCACTGTTGGTATTTGTATAATAAATACAAAAAAAACCTCCCACTTAT551610.1136414836471407No Hit
CTTAGAGCCAATCCTTATCCCGAAGTTACGGATCTAATTTGCCGACTTCC549480.11320266571387551No Hit
GTCAAACTCCCCGCCTGACACTGTCTTCGGTGCGAGTCGTTAAATCACCG549380.11318206393297105No Hit
GGCATTCGTATCGCTGCGTGAGAGGTGAAATTCTTGGACCGTAGCGAGAC548930.11308935591890093No Hit
TTGTAATCCAAGTGACTGGGAGGCATGTGGTGGCGGATGGAGTGAGAGGA547910.11287921775367535No Hit
CGAGTATTCAGGCATTAGCCCGCATTGAGCACTCTAATTTTTTCAAGGTA539020.11104771943126807No Hit
CTGCAAGTGATCTTGCGCCCCGACATTGTACCAGAGTAATCCGGTTTTGG537080.11064804488172136No Hit
GTGATCTTGCGCCCCGACATTGTACCAGAGTAATCCGGTTTTGGCAACCA525940.10835300648896354No Hit
GGACGATAAAATTATCCAGTAACTATTTAGTAGGCTAGAGTCTCGCTCGT524740.10810578511810989No Hit
CGCGTGCAGCCCTGGACATCTAAGGGCATCACAGACCTGTTATTGCTCAA524230.1080007160354971No Hit
CTTGGACCGTAGCGAGACGTACGACTGCGAAAGCATTTGCCAAGAATGTC523320.10781323982926645No Hit
GCGGGAGTAACTATGACTCTCTTAAGGTAGCCAAATGCCTCGTCATCTAA518380.10679551185258569No Hit
CAGCTTTGCAACCATACTTCCCCCGGAACCGAAAAACTTTCGTTTCCGGG517290.10657095244072698No Hit
CAAACGTTGAGTTAAAGTGCCAAACTTTCCGCTCATGAGACCCCATGAAA513250.10573864049218643No Hit
TTTTGCCCGGTTCAAGCCACTGCGATTAAAGCAGTTTCCACCAAAGAATC512830.10565211301238767No Hit
CTTTTCTCGAAACGGCTCAGTCCCGGGCAGCGACGGGCGGTGTGTACAAA506850.10442012651430044No Hit
GGAAATCAAGATCAAGCGAGCTTTTGCCCTTTTACTCTACGAGAGGTTTC504200.103874179320332No Hit
CTCGCACCGAAGACAGTGTCAGGCGGGGAGTTTGACTGGGGCGGTACATC503450.1037196659635485No Hit
GGGCATTCGTATCGCTGCGTGAGAGGTGAAATTCTTGGACCGTAGCGAGA502280.10347862512696619No Hit
GGTAATTCCAGCTCTCAAAGTGTATATCGTCATTGCTGCGGTTAAAAAGC501470.10331175070164No Hit
CCCGGACACCGTGAGGATTGACAGATTGAGAGCTCTTTCATGATTCGGTG492060.10137312311852947No Hit
GGGAGTTTGACTGGGGCGGTACATCTGTCAAAACGTAACGCAGGTGTCCT491580.10127423457018804No Hit
AAACAGTCAACTTAGAACTGGCACGGACTCGGGGAATCCGACTGTCTAAT489080.10075919004757632No Hit
CTCTTAACCATTATCTCAGATCAGAAAACCAACAAAATAGAACCGAGATC488610.1006623616773253No Hit
GTGGGATTCTGACTTAGAGGCGTTCAGTCATAATCCCTCAGATGGTAGCT485700.10006284985300527No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GTCCAAT131850.071.9614941
TCCAATC138050.068.6135562
AAGAGCA4168500.067.1696557
GAGCACA4355300.064.256039
CGGAAGA4374000.064.187414
TCGGAAG4449350.063.2256133
AGAGCAC4428900.063.1571128
GATCGGA4667950.060.5497931
GAAGAGC4746600.059.0429276
GGAAGAG4848900.057.8235365
TCAAAGG187450.053.4808467
CCAATCA181950.052.4243243
ATCGGAA5421850.051.9735222
ATCAAAG191150.051.17866
CTTGTTA178450.050.5337941
CCGGCAT29750.050.46641
CAAAGGA192500.049.5861938
CGCGGAT28250.047.595971
CAATCAA209400.046.5155224
GCCGTCT3025750.045.9704748-49
Produced by FastQC (version 0.11.2)