FastQCFastQC Report
Mon 6 Feb 2012
2.fastq

Summary

[OK] Basic Statistics

Measure Value
Filename 2.fastq
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 10359205
Filtered Sequences 0
Sequence length 50
%GC 48

[OK] 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

[OK] Sequence Length Distribution

Sequence length distribution

[FAIL] Sequence Duplication Levels

Duplication level graph

[FAIL] Overrepresented sequences

Sequence Count Percentage Possible Source
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTC 2120507 20.46978508485931 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATG 1292168 12.473621286575561 TruSeq Adapter, Index 3 (100% over 49bp)
TAGCTTATCAGACTGATGTTGAAGATCGGAAGAGCACACGTCTGAACTCC 561727 5.422491397747221 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TTCACAGTGGCTAAGTTCCGAGATCGGAAGAGCACACGTCTGAACTCCAG 178446 1.7225839241524807 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAGCTTATCAGACTGATGTTGACAAGATCGGAAGAGCACACGTCTGAACT 118912 1.1478873137465664 Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTCCAGT 73176 0.7063862526130141 Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGAACACGTCTGAACTC 65251 0.6298842430476084 Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
TAGCTTATCAGACTGATGTTGAGATCGGAAGAGCACACGTCTGAACTCCA 63853 0.6163889989627582 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGAGGTAGTAGTTTGTGCTGTTAGATCGGAAGAGCACACGTCTGAACTCC 45713 0.44127903637393023 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGAGGTAGTAGATTGTATAGTAGATCGGAAGAGCACACGTCTGAACTCCA 43786 0.42267722281777415 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATTCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCCAGT 42967 0.4147712107251474 Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAGCACCATTTGAAATCAGTGTTAGATCGGAAGAGCACACGTCTGAACTC 41330 0.3989688397903121 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATGC 40025 0.3863713479943683 TruSeq Adapter, Index 3 (100% over 50bp)
AAGCTGCCAGTTGAAGAACTGTAGATCGGAAGAGCACACGTCTGAACTCC 37276 0.35983456259433033 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CGCGACCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCA 37067 0.3578170332568957 TruSeq Adapter, Index 3 (100% over 40bp)
GTTCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCCAGT 33986 0.3280753687179663 Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TGAGGTAGTAGATTGTATAGTTAGATCGGAAGAGCACACGTCTGAACTCC 32263 0.31144281824715314 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTGACTAGATCGGAAGAGCACACGTCTGAACT 32165 0.31049679970615507 Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTAT 30118 0.29073659609979724 TruSeq Adapter, Index 3 (100% over 48bp)
TTCACAGTGGCTAAGTTCCGCAGATCGGAAGAGCACACGTCTGAACTCCA 30026 0.2898484970613092 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TTATCAGACTGATGTTGAAGATCGGAAGAGCACACGTCTGAACTCCAGTC 24616 0.23762441229804795 Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TCAGTGCACTACAGAACTTTGTAGATCGGAAGAGCACACGTCTGAACTCC 24546 0.23694868476876363 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTGAAAGATCGGAAGAGCACACGTCTGAACTC 24251 0.23410097589535106 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CTTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTCCAG 22484 0.21704368240613056 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TTCACAGTGGCTAAGTTCCGTAGATCGGAAGAGCACACGTCTGAACTCCA 22298 0.21524817782831793 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AGATTGGAAGAGCACACGTCTGAACTCCAGACACTAAGGCATCTCGTATG 21541 0.20794066726162866 Illumina Multiplexing PCR Primer 2.01 (96% over 30bp)
TAGCTTATCAGACTGATGTTAGATCGGAAGAGCACACGTCTGAACTCCAG 21298 0.20559492740997018 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAGCCTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTC 20176 0.19476398044058402 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGGCTCAGTTCAGCAGGAACAGATCGGAAGAGCACACGTCTGAACTCCAG 18661 0.18013930605678719 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGAGGTAGTAGGTTGTATAGTAGATCGGAAGAGCACACGTCTGAACTCCA 18537 0.17894230300491207 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AGTTCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCCAG 18135 0.17506169633673627 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TTCACAGTGGCTAAGTTCCGAAGATCGGAAGAGCACACGTCTGAACTCCA 17625 0.1701385386233789 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TAGCNTATCAGACTGATGTTGACAGATCGGAAGAGAACACGTCTGAACTC 16217 0.15654676203434528 Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
AAGTTCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCCA 15032 0.14510766028860322 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AGATAGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATG 15028 0.14506904728692982 TruSeq Adapter, Index 3 (97% over 49bp)
TTCAAGTAATCCAGGATAGGCTAGATCGGAAGAGCACACGTCTGAACTCC 14336 0.1383889979974332 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCCTATCAGACTGATGTTGACAGATCGGAAGAGAACACGTCTGAACTC 13022 0.12570462694772427 Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
TGAGAACTGAATTCCATAGGTTAGATCGGAAGAGCACACGTCTGAACTCC 12780 0.12336854034648412 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGAGGTAGTAGGTTGTATAGTTAGATCGGAAGAGCACACGTCTGAACTCC 12763 0.12320443508937222 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AGATTGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATG 12236 0.11811717211890295 TruSeq Adapter, Index 3 (97% over 49bp)
TATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTCCAGTC 12081 0.11662091830405903 Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TAGCGTATCAGACTGATGTTGACAGATCGGAAGAGAACACGTCTGAACTC 11989 0.11573281926557107 Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGAATCTCGTATG 11820 0.11410141994487029 TruSeq Adapter, Index 3 (97% over 49bp)
ATCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCCAGTC 11619 0.11216111661078239 Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTA 11435 0.1103849185338064 TruSeq Adapter, Index 3 (100% over 36bp)
AGAGTTCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCC 11085 0.10700628088738469 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCTACAGTCCGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAG 11071 0.10687113538152783 TruSeq Adapter, Index 3 (100% over 37bp)
TAGCGTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTC 10851 0.10474742028949131 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGATTGGAAGAGCACACGTCTGAACTCCAGACACTCAGGCATCTCGTATG 10709 0.10337665873008595 Illumina Multiplexing PCR Primer 2.01 (96% over 30bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CGTCT 9888385 30.768406 408.67276 40
GTCTG 9965190 29.962255 395.29248 41
TCTGA 10065705 25.502495 332.59415 42
CACGT 9885055 22.716303 300.68085 38
ACGTC 9870340 22.68249 301.00488 39
GATCG 9915175 22.017515 295.16507 25
ATCGG 9903435 21.991444 295.30728 26
TCGGA 9865560 21.907343 286.44888 27
CTGAA 9983405 18.68083 245.90816 43
GAACT 9896085 18.517435 244.80063 45
AGATC 9853145 18.43709 247.72589 24
TGAAC 9837610 18.408018 245.22974 44
AACTC 9450140 18.299803 252.86035 46
CACAC 9651910 16.952803 212.88347 36
ACACG 9867875 16.747932 222.66443 37
AGCAC 9748635 16.545555 206.73187 34
GCACA 9661135 16.397049 206.38455 35
CGGAA 9841145 16.139591 211.4599 28
AGAGC 9751205 15.992088 200.8459 32
GGAAG 10088430 15.987472 204.94969 29
GAGCA 9746630 15.984585 200.42352 33
ACTCC 6576960 15.641359 193.41422 24
GAAGA 11119630 14.84896 172.43846 30
AAGAG 9962695 13.304009 172.11967 31
TGTTG 4005950 13.279273 562.01575 17
CTCCA 5359980 12.747131 193.31006 25
TCCAG 4927510 11.323642 186.76613 26
ATGTT 4010965 11.203847 475.6598 16
TTATC 3718860 10.750256 471.04437 5
CTGAT 4123270 10.446727 433.22125 13
CTTAT 3589420 10.376079 469.83218 4
CAGTC 4390490 10.089545 171.88518 28
TGATG 4088920 10.010514 418.3564 14
GATGT 4088805 10.010233 418.83713 15
GTTGA 4056685 9.931596 413.40427 18
CCAGT 4312620 9.910596 171.91103 27
GACTG 4181985 9.286464 380.20074 11
TCACT 3456975 9.064115 195.7324 31
GCTTA 3561950 9.024565 410.5894 3
TAGCT 3554740 9.006298 408.89404 1
AGCTT 3520145 8.918647 409.7961 2
CACTT 3291205 8.629468 192.73134 32
TCAGA 4609815 8.625831 326.1985 8
TATCA 3943560 8.419309 364.8381 6
GTCAC 3585120 8.238768 172.33755 30
ATCAG 4395955 8.225658 320.79507 7
TTGAC 3124160 7.915379 332.77136 19
ACTGA 4214310 7.8857665 319.3302 12
AGACT 4073040 7.6214237 319.6985 10
CAGAT 3974400 7.4368496 228.29631 23
CTTAG 2910895 7.3750505 181.03685 34
AGTCA 3769815 7.054033 140.09802 29
CAGAC 4117885 6.988948 289.92236 9
TCTCG 2131810 6.633277 249.99875 42
TTAGG 2686430 6.576931 174.28023 35
ACTTA 3050125 6.5118685 152.60155 33
CTCGT 2032985 6.3257756 249.85434 43
CATCT 2186345 5.7325497 202.55577 40
TGACA 3058595 5.723206 238.18384 20
ATCTC 2173530 5.6989484 210.52922 41
TAGGC 2539040 5.63816 153.91083 36
GGCAT 2335380 5.185916 170.44891 38
CGTAT 2026370 5.134016 203.97662 45
GCATC 2220680 5.103223 176.24547 39
TCGTA 1976205 5.006918 204.26222 44
GACAG 2950390 4.8386736 196.94183 21
GTATG 1915680 4.689977 197.81358 46
ACAGA 3074020 4.248182 165.80788 22
AGGCA 2534695 4.156929 123.78171 37
TAGAT 1673850 3.453137 30.70059 22
AAGAT 1795690 2.7359467 51.876503 22
TTGAA 977945 2.0174916 68.95915 19
GAGAT 1084820 1.9614824 23.336575 20
TCCGA 754430 1.7337143 28.381174 17
TGAAG 944050 1.7069536 58.25088 20
GTAGA 906205 1.6385255 15.724149 20
ACAGT 863140 1.6150972 33.0179 4
AGTTC 620230 1.5714163 42.58704 14
TGGCT 483145 1.452668 51.384434 8
GTCCG 464840 1.2676884 14.341694 9
GTTCC 381250 1.1862861 51.4299 15
TTCCG 380750 1.1847304 49.40045 16
AGTCC 479600 1.1021426 11.8265505 8
GTGGC 418145 1.1019078 45.757324 7
CAGTG 487195 1.0818592 34.95006 5
GTAGT 433165 1.0604767 30.459114 5
TTAGA 508645 1.04933 17.22166 21
GGCTA 460750 1.0231357 37.984585 9
CGATC 434235 0.9978916 10.904688 15
GGTAG 463405 0.9943469 26.639734 4
TTGTA 353800 0.9882713 24.65117 13
AGTAG 537505 0.9718724 24.161306 7
TTTGT 253155 0.9574715 19.463531 12
TGTAG 389995 0.9547877 10.009187 20
CTAAG 509570 0.9535013 31.6821 11
TACAG 502930 0.9410766 9.606693 5
TAGTA 448540 0.92533386 27.337904 6
TCTAC 350375 0.9186757 13.474817 3
AGTGG 419125 0.8993335 36.900528 6
GTTCT 259955 0.89177984 8.913053 1
CTACA 459115 0.88905704 9.827418 4
TTCAC 337300 0.8843934 38.85528 1
AAGTT 418700 0.86377424 34.57658 13
TTCTA 295995 0.85564446 14.19034 2
TCACA 432310 0.8371503 31.075018 2
TAAGT 398540 0.8221844 34.69828 12
GTTAG 333730 0.81703943 18.406982 20
CCGAC 387325 0.8073358 10.1691885 11
GATCA 428445 0.8017011 8.935044 16
GACGA 485190 0.79571706 8.039522 13
TGAGA 426995 0.7720573 8.074339 20
GTTTG 231310 0.7667666 17.1823 11
GCTAA 402215 0.75262 31.74786 10
TGAGG 342975 0.7359354 24.192673 1
ACGAT 392705 0.7348249 8.927746 14
CGACG 363740 0.73262054 9.709807 12
CGAGA 441735 0.72445035 18.11582 19
CACAG 417760 0.7090297 25.698849 3
AGAGA 495825 0.66211605 11.463393 32
CTCAG 285865 0.65693074 7.599006 7
AGAAC 473860 0.654857 11.619395 34
GAGGT 301450 0.6468335 25.187866 2
CCGAG 320795 0.6461236 21.985596 18
GATTG 261305 0.6397282 14.004965 11
TAGTT 218640 0.61072814 13.400963 9
TGCTG 197415 0.59356606 11.875299 16
AGGTA 315805 0.5710127 21.110067 3
GAACA 408315 0.5642762 11.650516 35
TGTAT 195550 0.54623073 21.613892 14
GTGCT 178735 0.537401 12.044538 15
TCAGT 209220 0.5300803 7.041066 5
TGTTA 189395 0.52903795 8.889775 19
GCTGT 175670 0.52818555 11.877356 17
AGATT 245285 0.5060207 11.130703 10
CCAGA 288875 0.49028376 7.890617 27
ATTGT 171160 0.47810206 15.644104 12
GAGAA 345525 0.46140808 11.349857 33
TTGAG 186595 0.4568228 10.073305 19
ATAGT 218840 0.45146492 15.394136 17
TTGTG 135820 0.45022804 14.152647 13
ACAAG 325580 0.44993952 10.275128 22
CAAGA 321820 0.44474334 10.236737 23
TATAG 214340 0.4421814 15.49179 16
AACAC 305140 0.43640155 11.987248 36
TTGGA 174070 0.42615902 10.098285 4
GTATA 201345 0.41537285 15.631611 15
AGTTT 148585 0.41504318 13.309501 10
CTGTT 119545 0.4101011 11.671156 18
TTCAG 155980 0.3951913 7.138652 9
CAGTT 155590 0.3942032 7.1050906 6
CTGTA 155250 0.39334178 6.170409 19
TGGAA 215365 0.3894053 7.8418703 5
TGTGC 129215 0.3885097 12.213086 14
TTTGA 135530 0.3785766 7.553364 9
GCTCA 163170 0.37497205 6.461981 3
AGGTT 152390 0.37308195 7.874274 10
ATAGG 205615 0.37177622 7.59416 16
TAGGT 150445 0.3683202 7.71192 9
TGACT 145005 0.36738503 5.2344575 20
GACAC 214580 0.36418897 7.8165045 30
GACCT 154605 0.35528928 6.505814 4
GTGTT 102200 0.33878148 8.525532 19
GGTTG 116430 0.33826977 9.209114 11
ATTGG 135190 0.33097282 9.949244 3
GTTGT 99470 0.32973185 8.876721 12
ACCTC 136540 0.32472008 6.7902946 5
CACTA 162170 0.3140354 8.92979 32
GACAA 219455 0.30327865 10.562135 21
ACTGT 119365 0.30242345 5.5598288 18
TATGC 118710 0.30076393 9.922812 46
GGCTC 106390 0.2901415 7.0709686 2
TAGCA 153490 0.28720865 9.985298 1
GTAGG 132000 0.28323776 7.0318565 8
CTTTG 79555 0.2729147 5.5223026 17
GCACC 130735 0.27250254 5.6003804 3
ACACT 138725 0.26863518 8.8177595 31
TCGGG 101500 0.26747575 5.8315454 27
AGCCT 115145 0.2646084 8.060808 2
AGTGT 106260 0.26014626 6.496747 18
TGCCA 110055 0.2529114 5.248497 5
AGCGT 111475 0.24753998 5.790026 2
TAGCC 107440 0.24690199 8.794917 1
CTATC 93365 0.24480103 9.255795 5
GTTCA 93870 0.23782925 7.041539 8
CCTAT 88695 0.23255637 9.138751 4
AGTTA 112025 0.23110653 6.8901796 19
AGACA 166035 0.22945423 6.376355 29
ATTTG 81240 0.22692807 7.4687533 8
CATTT 78440 0.22674961 7.8447533 7
ATTCT 78115 0.22581013 6.875677 1
AAGGC 137135 0.22490297 6.584621 36
CCTCA 93795 0.22306372 7.61402 6
TCAGC 94275 0.21664822 6.4805937 10
GCCTA 94065 0.21616563 8.091746 3
AGTTG 88010 0.21546651 5.81586 9
CTGCC 74055 0.20900379 6.4803915 4
AGCTG 92750 0.20595948 5.673525 2
GTATC 81265 0.2058932 6.6075797 5
TAAGG 112250 0.20296127 7.5474396 35
GCGTA 87085 0.19337985 5.787962 3
TCCGT 61320 0.19080149 5.140407 17
CGACC 90895 0.1894605 5.5800576 3
CCATT 72175 0.18924129 7.051726 6
ACTAA 118255 0.18646032 6.6914845 33
CGCGA 91350 0.183991 5.224634 1
GCAGG 94240 0.18341404 5.3122683 13
GCTGC 65690 0.1791465 6.4397764 3
TAGCG 77210 0.17145157 5.978271 1
TCCGC 60480 0.17069137 5.559843 17
GCGAC 80630 0.16239952 5.264802 2
GTAAT 71595 0.14769982 5.1336184 6
TTCAA 68820 0.14692734 5.32637 1
ACCAT 65810 0.12743832 5.1176734 5