FastQCFastQC Report
Wed 20 Mar 2013
8016-8-29.h.sapiens.aligned.bam

Summary

[OK] Basic Statistics

Measure Value
Filename 8016-8-29.h.sapiens.aligned.bam
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 4060684
Filtered Sequences 0
Sequence length 1-100
%GC 44

[WARN] Per base sequence quality

Per base quality graph

[OK] Per sequence quality scores

Per Sequence quality graph

[FAIL] Per base sequence content

Per base sequence content

[FAIL] Per base GC content

Per base GC content graph

[FAIL] Per sequence GC content

Per sequence GC content graph

[OK] Per base N content

N content graph

[WARN] Sequence Length Distribution

Sequence length distribution

[FAIL] Sequence Duplication Levels

Duplication level graph

[WARN] Overrepresented sequences

Sequence Count Percentage Possible Source
TGAGACCGCACCAGCGACACA 16216 0.399341588756968 No Hit
TGTGTCGCTGGTGCGGTCTCA 16087 0.39616478406101047 No Hit
GATGGCTCCAGCAGCATCCTCAGCACCAACAACGCTACCTTCCAAAACAC 8975 0.2210218771024783 No Hit
AGACTCCTCACCTTTGACATAGAGGTGGATGGCGGCGCTGCCTCCCAGGG 8925 0.21979055745288234 No Hit
AGATTGTTGAGGGATTGCGAGCTGCAGCCAGAAGGAATGGAGATGTTATA 8743 0.21530855392835296 No Hit
GAGGAAAGGCAGATAGTAATCCTTAAAGGCTGAGGATTGGAACCCAGATC 8646 0.21291979380813675 No Hit
TAAAGAAACCCACAGAAACACACACACATACAATTAGCAAATGAATTCAA 7924 0.1951395380679708 No Hit
AAAAATAATAAACCGTTCATTTCTCAGGATGTGGTCATAGAATAAAGTTA 7910 0.19479476856608394 No Hit
CATGCCAGCTACGATTACGAAACCAATCAGCAAAGGAGTGAACAGGGTGT 7069 0.17408397205987955 No Hit
GGCTGTGAGTTGGGAGGTGGGGTCAGTTTGGGACTGAGTGGCTGTGGTAG 6988 0.17208923422753408 No Hit
GATACAACATTCAAGACAGAGGAACTGGATGCCAAGCCAGACACAGACCC 6987 0.17206460783454217 No Hit
CATGTATTTTGAACCGGCACCCCTGTTACCACAGAGTGTGGGAGGAACTG 6896 0.16982360607227748 No Hit
CATGCATCTAAATCTTCTCTGGAGATTATCTCCCTACTGTGTAGGTTAAG 6747 0.16615427351648146 No Hit
GATGGCACACACACACAACACAGGGAGCTGGAGCCTCAGTTTCACGCTGA 6620 0.16302672160650766 No Hit
CACTCAGTATGAGGAGCCGGCTGTCATCACATAGGGACAGGGCTCTCCCT 6187 0.1523634934410065 No Hit
CATGGGCTCGGCCACGCGCTACCACACCTACCTGCCGCCGCCCTACCCCG 6106 0.150368755608661 No Hit
CATGCCCTCCAGCGGCCCCGGGGACACCAGCAGCTCTGCTGCGGAGCGGG 6104 0.15031950282267717 No Hit
CCACCGAGCAAACGCATCTTGCTTTTCACATCTCTCCTCCTACAGCCTTA 6098 0.15017174446472564 No Hit
CATGGGGTTGTGCCAATTAATTACCAAACATTGAGCCTGCAGGCTTTGAG 6022 0.14830013859733976 No Hit
CATGAATCCAGAAGCACTTAACACTGGTGGTGGTGATTTGTCACATATGG 6006 0.14790611630946904 No Hit
GAGAACTGGTAGGAGCCGGCCGAGGCGCCGTAGTACAGGTGGTAGGAGGG 5983 0.1473397092706549 No Hit
AGCAACAAGAACAATACAAACCTCATTTCCTTTAGTCCTTCTGCCTCTAT 5937 0.1462068951930266 No Hit
CATGGTAAAGGGTTTGTGCTAACTGACCTCTTCTTTCCTTGCAGGGCTAA 5921 0.14581287290515588 No Hit
GTGCTAATGGACCAGGGTCACAGTTTCAAAACTTGAACAATCCAGTTAGC 5919 0.14576362011917204 No Hit
TAACTGTGGAAAAACTAAGTTGTCACCAGCGGTACCTCATAGCATAACTT 5906 0.1454434770102771 No Hit
AAGACAGGGGAAAGGAAGAAAAGGGAGTGAAGAGGGAATGGGAGAGGGAA 5900 0.14529571865232557 No Hit
GTCCAATAGCAACTCTCAGGCCCTCTAGGGCTCCCATAACTGCCTGAATTACATG 5845 0.14394126703777 No Hit
CATGTAATTCAGGCAGTTATGGGAGCCCTAGAGGGCCTGAGAGTTGCTATTGGAC 5837 0.14374425589383463 No Hit
ATTGTTTCAAAAAAAATCAAACTGTAGTTGTTTTGGCGATAGGTCTCACG 5704 0.1404689456259093 No Hit
* 5526 0.13608544767334763 No Hit
CATGTAGACTTACCTTTCCTCATAGAGCTATCCTGGTTAATAACAGGCCA 5483 0.1350265127746951 No Hit
ACACTTACACCAAGGAATCTCCCAGGCATTATCAAAGCTACAGGAGACAA 5481 0.13497725998871127 No Hit
CATGTGTGCTTACCCAGGCTGCAATAAGAGATATTTTAAGCTGTCCCACT 5387 0.1326623790474708 No Hit
GAGGGAGAGGCCGGAGCTGCCCAGGACAGGCTCTGGGTCCTGCCCTTGCA 5381 0.1325146206895193 No Hit
CATGGCTCCACTCTCCACCGTCTCCACGCACACCTTCTCCAGCATCTGGG 5377 0.13241611511755164 No Hit
ACAGATTTTGGGGTTGTGTTGTCACCCAAGAGATTGTTGTTTGCCATACT 5360 0.131997466436689 No Hit
GACGCGACCGGACCGAGCGCCAAACGCGGCAGCCCAATCGCCATCGCTTT 5352 0.13180045529275364 No Hit
TTTGCCCAAGACTGGACAGCGGGCACACTTACCAGTGTGCTTCCTGCTGT 5351 0.13177582889976172 No Hit
TAATCTACCTGAAGTCAATGAATGCAATTTTTCACACACACACACACACA 5306 0.13066764121512534 No Hit
CGAGCCCGGCGGGCCCTGTGATTGGACGGGCGCCCGCCTCGCGTCCCGCC 5116 0.12598862654666063 No Hit
TGAGTAGGGGGAGCAAATCGTGCCTTGTCATTTTATTTGGAGGTTTCCTG 4991 0.12291032742267068 No Hit
GTTTTTATACACTAAGGACACTCCCAGTGATGAAAATGAATTCCCCTCCA 4945 0.12177751334504236 No Hit
GCCTCAGCCTTCCTTCGCAGAAAGTTGAGCAGGTCGCCATAGCAACAGTA 4942 0.1217036341660666 No Hit
GCCCTCCTCCTGCCACGGGCCTGCTCCCCTCCTTCTCTCATGGGGGTCTG 4900 0.12066932566040599 No Hit
CATGGAGGGGAGCACTCAGCACCTCCCTCACCCCACACCCTTGGCTGCTC 4876 0.12007829222859992 No Hit
CATGGAATATATATTCTCCTGGCTGGTGCTTATGATTGCAAAACTTGGAT 4821 0.11872384061404433 No Hit
CACACTGTCATTAGTTGCAGCATCTCCTGTAGCAATTGGGCTAAATCTGT 4817 0.11862533504207666 No Hit
ATCCTTCACAAAGTCTTTGAGATATATTTTTATCAAATATTTAGCATGGATCCCGGTACACTTTCAATACTTA 4767 0.11739401539248068 No Hit
TGAGATTTTTTTGTGTATGTTTTTGACTCTTTTGAGTGGTAATCATATGT 4767 0.11739401539248068 No Hit
TAAGTATTGAAAGTGTACCGGGATCCATGCTAAATATTTGATAAAAATATATCTCAAAGACTTTGTGAAGGAT 4728 0.11643358606579582 No Hit
ACCTATGTTACACCATCTTCAGTGCCAGTCTTGGGCAAAATTGTGCAAGA 4602 0.11333066054881394 No Hit
TAAATATAGCCCCAAAATGGTTGCTATAATAATCCCCATTTCATACTGGG 4559 0.11227172565016141 No Hit
CATGGTCACTCTCCCCAAAATATTATATTTTTTCTATAAAAAGAAAAAAA 4542 0.11185307696929878 No Hit
CATGTAGGTTATATATGCTAGAATTGCATTTAATCACTGTGAAAAGACTG 4512 0.11111428517954118 No Hit
CATGTTGTCAGATTACCCTTTAGAATGCCTGTTGCTTTTAAAATATTTTT 4503 0.1108926476426139 No Hit
TAAAACTGCATCAAGTCATGGGGCATGTGGAAGGTAGGGAGGCAAGATGA 4501 0.11084339485663006 No Hit
ATAATCCATACCACCAGTATAGCAGCAATTCTAACAGCCCCCCTACTGTC 4493 0.1106463837126947 No Hit
CAGCATAATAAAAAATAGGATTCCCAGCTTTGGAAGCCCCAGCTTGGTAG 4439 0.10931655849113105 No Hit
AGGACAACAGCTGATCCATACATTTGCTGACAGGTGTACCTGCGTTTCCC 4432 0.10914417374018762 No Hit
CACCAAAAACCCCAAGACAGAAATCTTAGGTATTCAGTTTCTTTTTCACA 4404 0.10845463473641385 No Hit
CTTGGGGGAGTGTGCCTCCAGCAGAGAAGTAATTCTGGCCTGGCAACCTA 4398 0.10830687637846234 No Hit
TAATCCAGAGCAAGGCCTTGACTCCCTTCAGTTCTATGAAGAGAATGAGG 4264 0.10500693971754513 No Hit
AACTTTATAAACCAACTTCTGCTAGCTTCCAACTTCTCTTCTGCAGCTTC 4258 0.1048591813595936 No Hit
GACAACTTGGCCACCGACAGCTGAAGGGCTTTTCACCTGTTGACACAATTGCCAGTCA 4238 0.10436665349975521 No Hit
TGACTGGCAATTGTGTCAACAGGTGAAAAGCCCTTCAGCTGTCGGTGGCCAAGTTGTC 4203 0.10350472974503802 No Hit
CATGACTATAAATATAAAGCAAATATGATTATGCTCACAAGCTCTGGAAT 4174 0.10279056434827237 No Hit

[WARN] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
AAAAA 2313915 3.467943 6.695188 2
TTTTT 2136040 3.4473698 4.3876166 60-64
GGGGG 575160 3.1024263 8.955521 4
GGAGG 668835 2.792506 5.7866073 4
CCAGC 676630 2.681883 7.9692473 5
CCAGG 656865 2.6490707 5.351455 5
CCTCC 657760 2.6005068 9.523263 6
CCCCA 657045 2.5594983 5.5195146 1
CCTGG 624425 2.5558097 5.5871115 9
CAGCC 638000 2.5287695 6.1533637 6
TGGGG 566270 2.3995483 10.876297 3
GCTGG 541655 2.2557962 11.829228 7
GAGGG 510700 2.1322641 6.594489 9
GGGGA 501795 2.095084 5.522655 7
CTCCT 632780 1.9997019 5.7263966 4
CTCCA 631200 1.96539 5.624481 6
AAGAA 1014680 1.9646776 5.131627 2
TCCAG 612690 1.9411155 6.111025 7
GCCAG 476690 1.9224429 7.219817 4
CCCAC 490025 1.908877 5.9664736 9
TGTGT 725000 1.8959649 6.377189 1
CACCA 614590 1.8855429 6.614251 9
TGGCT 573920 1.8776801 7.205373 3
TGGTG 560235 1.8649591 8.641477 9
TGTTT 903040 1.8552071 5.8794794 3
TGCAG 571650 1.8427637 6.1718216 3
GGCTC 443645 1.8158661 7.5934916 4
TCCTC 573445 1.8121923 6.7323318 5
GCCCA 452880 1.7950301 5.9753556 4
AGGGG 418140 1.7458096 7.379042 6
GGCCC 322525 1.6515418 5.5566974 1
GCTCC 383150 1.5413035 7.39672 2
CTGGT 469780 1.5369678 7.8199654 8
TGCCC 381315 1.5339218 11.534989 3
TAAAA 1006210 1.5305376 8.27845 1
TGGGC 362740 1.5106801 5.0953317 3
GATGG 456975 1.4988589 5.9148645 1
ATGGA 585795 1.4872237 10.771618 2
CATGG 450025 1.4506947 43.147984 1
GCAGT 417125 1.344639 5.8607364 4
TGCTC 405865 1.3050375 5.68828 1
ATGTG 500970 1.2908422 8.052552 2
TGGGT 382290 1.2726003 5.9423513 3
TGAGA 492355 1.249997 8.437915 1
ATGAA 634745 1.2473614 9.337358 2
ATGGC 376890 1.2149379 11.201388 2
ATGGG 368010 1.2070575 14.980872 2
ATGCC 374340 1.1859787 11.526043 2
GAGAC 357270 1.1347631 9.06006 2
GCACC 282825 1.1210021 7.825525 8
CATGT 429480 1.0876158 33.803715 1
CATGA 426070 1.063121 30.626953 1
GTGTC 322305 1.0544773 8.3477125 2
ATGTT 518630 1.0498137 8.580744 2
TAAAG 522535 1.0268533 6.605022 1
AGACC 323835 1.0108893 8.49763 3
ATGCT 391045 0.9902831 7.9082866 2
ATGGT 381125 0.9820393 7.9175267 2
ATGAT 492275 0.9818194 6.9470153 2
ATGAC 388380 0.9690778 7.085047 2
ATGAG 380995 0.967275 5.1014786 2
GCGCC 182900 0.9365693 5.6562753 8
ATGTA 467645 0.9326959 9.472025 2
CATGC 281995 0.89341235 32.283375 1
CGCTG 215150 0.880622 9.758558 6
TAACT 385035 0.75473624 5.6247044 1
TAAGT 375920 0.7497548 6.442027 1
ATGCA 299600 0.7475558 9.119264 2
TAAAC 361650 0.69847786 5.2825136 1
TAAGG 260670 0.66179234 5.1335654 1
CGCAC 162305 0.64331025 7.297577 7
CCGCA 143940 0.570519 7.5753527 6
TGCCG 134440 0.5502711 7.150528 5
GACCG 133790 0.5395616 8.393482 4
ACCGC 116105 0.46019244 8.379483 5
TCGCT 142635 0.4586353 7.250019 5
GTCGC 95985 0.39287248 9.229218 4
TGTCG 110450 0.3613566 7.472632 3
Produced by FastQC (version 0.10.0)