FastQCFastQC Report
Mon 6 Feb 2012
6.fastq

Summary

[OK] Basic Statistics

Measure Value
Filename 6.fastq
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 13108422
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 2711813 20.687562545667205 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TAGCTTATCAGACTGATGTTGAAGATCGGAAGAGCACACGTCTGAACTCC 729894 5.5681301685282945 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATCATCTCGTATG 729111 5.562156909504439 TruSeq Adapter, Index 7 (100% over 49bp)
TTCACAGTGGCTAAGTTCCGAGATCGGAAGAGCACACGTCTGAACTCCAG 202297 1.5432597455284853 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAGCTTATCAGACTGATGTTGACAAGATCGGAAGAGCACACGTCTGAACT 183692 1.4013280927330536 Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TAGCACCATTTGAAATCAGTGTTAGATCGGAAGAGCACACGTCTGAACTC 101571 0.7748529914584684 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTCCAGT 99118 0.7561398313237093 Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGAACACGTCTGAACTC 84364 0.6435862379163564 Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
TGAGGTAGTAGATTGTATAGTAGATCGGAAGAGCACACGTCTGAACTCCA 76831 0.5861193666178889 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TAGCTTATCAGACTGATGTTGAGATCGGAAGAGCACACGTCTGAACTCCA 72159 0.5504781582405571 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGAGGTAGTAGTTTGTGCTGTTAGATCGGAAGAGCACACGTCTGAACTCC 71289 0.543841203769607 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGAGGTAGTAGATTGTATAGTTAGATCGGAAGAGCACACGTCTGAACTCC 70642 0.5389054456745441 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATTCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCCAGT 61048 0.465715858094895 Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TCAGTGCACTACAGAACTTTGTAGATCGGAAGAGCACACGTCTGAACTCC 49765 0.3796414244216428 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTGACTAGATCGGAAGAGCACACGTCTGAACT 47033 0.35879986164619965 Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AAGCTGCCAGTTGAAGAACTGTAGATCGGAAGAGCACACGTCTGAACTCC 46850 0.3574038126023102 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GTTCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCCAGT 45612 0.3479595026769813 Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TTCACAGTGGCTAAGTTCCGCAGATCGGAAGAGCACACGTCTGAACTCCA 35573 0.2713751510288577 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CGCGACCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATCA 35003 0.2670268015478904 TruSeq Adapter, Index 7 (100% over 40bp)
TAGCTTATCAGACTGATGTTGAAAGATCGGAAGAGCACACGTCTGAACTC 34823 0.26565363855390073 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TTCACAGTGGCTAAGTTCCGTAGATCGGAAGAGCACACGTCTGAACTCCA 33470 0.2553320300490784 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TTATCAGACTGATGTTGAAGATCGGAAGAGCACACGTCTGAACTCCAGTC 32110 0.24495702076115644 Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CTTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTCCAG 31970 0.2438890050991645 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGAGGTAGTAGGTTGTATAGTAGATCGGAAGAGCACACGTCTGAACTCCA 27902 0.21285552143499803 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATCATCTCGTATGC 27674 0.21111618164261114 TruSeq Adapter, Index 7 (100% over 50bp)
TAGCCTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTC 25331 0.19324217667084567 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTAGATCGGAAGAGCACACGTCTGAACTCC 24931 0.19019070335086863 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATCATCTCGTAT 24808 0.18925237530497568 TruSeq Adapter, Index 7 (100% over 48bp)
GGTGCTGTAGGCTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCA 24342 0.18569740888720246 TruSeq Adapter, Index 7 (100% over 35bp)
TTCACAGTGGCTAAGTTCCGAAGATCGGAAGAGCACACGTCTGAACTCCA 22882 0.17455953126928628 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTAGATCGGAAGAGCACACGTCTGAACTCC 22548 0.17201155104710544 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ACTGGACTTGGAGTCAGAAGGCAGATCGGAAGAGCACACGTCTGAACTCC 22344 0.17045529965391715 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCNTATCAGACTGATGTTGACAGATCGGAAGAGAACACGTCTGAACTC 21830 0.16653415643774666 Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
CATTGCACTTGTCTCGGTCTGAAGATCGGAAGAGCACACGTCTGAACTCC 21193 0.16167468517568326 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTAGATCGGAAGAGCACACGTCTGAACTCCAG 20979 0.1600421469494955 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCTACAGTCCGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGA 20820 0.15882918630480466 TruSeq Adapter, Index 7 (100% over 37bp)
CAGAGTTCTACAGTCCGAAGATCGGAAGAGCACACGTCTGAACTCCAGTC 20612 0.1572424201784166 Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CAAGGGTTTGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGAT 20354 0.1552742198870314 TruSeq Adapter, Index 7 (100% over 38bp)
TGGCTCAGTTCAGCAGGAACAGATCGGAAGAGCACACGTCTGAACTCCAG 19823 0.1512233890547619 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAAATC 17364 0.13246445682020308 Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
TGGCTCAGTTCAGCAGGAACAGTAGATCGGAAGAGCACACGTCTGAACTC 16800 0.12816187943903545 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGAGAACTGAATTCCATAGGTTAGATCGGAAGAGCACACGTCTGAACTCC 16470 0.1256444139500544 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCCTATCAGACTGATGTTGACAGATCGGAAGAGAACACGTCTGAACTC 16155 0.12324137871057249 Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
AAGTTCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCCA 15717 0.11990001542519764 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TTATAAAGCAATGAGACTGATTAGATCGGAAGAGCACACGTCTGAACTCC 15671 0.11954909599340027 Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCGTATCAGACTGATGTTGACAGATCGGAAGAGAACACGTCTGAACTC 15263 0.11643659320702371 Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
TATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTCCAGTC 15135 0.11546012174463104 Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
AGTTCTACAGTCCGACGATCAGATCGGAAGAGCACACGTCTGAACTCCAG 15043 0.11475828288103633 Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AGATTGGAAGAGCACACGTCTGAACTCCAGACACCAGATCATCTCGTATG 14701 0.11214927319245596 Illumina Multiplexing PCR Primer 2.01 (96% over 30bp)
TAGCGTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTC 13624 0.1039331812784178 Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TCGAGGAGCTCACAGTCTAGTAGATCGGAAGAGCACACGTCTGAACTCCA 13489 0.10290330903292555 Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CGTCT 12485475 32.83133 458.37408 40
GTCTG 12627295 32.491573 449.08075 41
TCTGA 12805850 27.008165 367.48367 42
CACGT 12482435 22.695282 315.51093 38
ACGTC 12477880 22.686998 316.0415 39
GATCG 12741270 22.668667 313.64407 25
ATCGG 12710785 22.61443 313.74225 26
TCGGA 12655500 22.51607 304.64236 27
AGATC 14697305 21.432716 256.06586 24
CTGAA 12651060 18.448729 254.31609 43
GAACT 12430015 18.126385 251.9771 45
TGAAC 12362575 18.028038 252.38722 44
AACTC 11759700 17.525028 257.14594 46
ACACG 12470610 15.677502 218.70561 37
CACAC 12178660 15.646299 206.13753 36
AGCAC 12385100 15.570003 202.70026 34
CGGAA 12585980 15.482934 210.58319 28
TGTTG 5184145 15.473479 654.0485 17
GGAAG 12794110 15.4011545 206.44762 29
GCACA 12202385 15.3403 202.42502 35
GAGCA 12334340 15.173373 199.05867 33
AGAGC 12327740 15.165253 199.29799 32
ACTCC 7967205 14.803528 150.31749 46
GAAGA 14258610 14.068463 168.8668 30
ATGTT 5194250 12.707495 537.691 16
AAGAG 12619205 12.45092 168.67578 31
TTATC 4820780 12.0525055 525.92914 5
CTTAT 4617450 11.544157 524.4332 4
CTCCA 6187325 11.4964075 86.96756 25
CTGAT 5390155 11.368101 465.6496 13
TGATG 5294900 10.927517 455.1635 14
GATGT 5289195 10.915742 455.58124 15
CAGAT 7435575 10.843116 227.9509 23
GTTGA 5253385 10.841839 450.498 18
TCCAG 5571810 10.130538 85.44295 26
GCTTA 4677305 9.864666 441.16284 3
GACTG 5494435 9.775439 393.29843 11
TAGCT 4596290 9.693801 439.78204 1
AGCTT 4542875 9.581146 440.38474 2
CAGTC 4937925 8.978024 78.38863 28
CCAGT 4875970 8.865377 78.70649 27
TATCA 5107990 8.830047 381.2425 6
TCAGA 5963650 8.696644 327.7717 8
TTGAC 4066515 8.576479 358.3669 19
ATCAG 5699775 8.311842 322.55347 7
ACTGA 5491370 8.00793 321.4099 12
AGACT 5310450 7.744098 321.87494 10
GTCAC 3750315 6.8187375 78.19795 30
CAGAC 5275870 6.6325912 277.21487 9
TCACC 3473575 6.4541035 77.63341 31
AGTCA 4064185 5.9267006 62.792686 29
TGACA 3951115 5.7618136 239.70264 20
TAGAT 2900335 4.9061193 43.577705 22
GACAG 3805055 4.680876 189.012 21
CACCA 3388865 4.3537793 56.177505 32
ACAGA 4009070 4.0423703 154.82771 22
ACCAG 3007325 3.7806766 54.769142 33
CCAGA 2900705 3.6466382 53.750546 34
TCTCG 1356675 3.5674605 121.197174 42
GATCA 2307375 3.364788 62.93259 37
TCATC 1513925 3.2629764 94.691795 39
CTCGT 1231520 3.238358 121.08604 43
CATCT 1458325 3.1431417 95.35476 40
AAGAT 2615945 3.0596478 53.992294 22
ATCTC 1391045 2.9981325 99.27258 41
ATCAT 1629000 2.8160088 74.72803 38
CGTAT 1253395 2.6434715 97.47859 45
TCGTA 1180750 2.4902596 97.64989 44
GTATG 1148605 2.3704698 95.74038 46
TTGAA 1344170 2.2737575 73.9867 19
GAGAT 1592640 2.2726588 22.446543 20
GTAGA 1552465 2.21533 21.03044 20
TGAAG 1279705 1.8261081 60.901276 20
TCCGA 971905 1.7670957 26.029041 17
ACAGT 1125825 1.6417629 30.247179 4
AGTTC 768095 1.61995 41.8709 14
TTAGA 956775 1.6184517 25.047709 21
TTGTA 630135 1.5415963 38.898563 13
TGTAG 745680 1.5389204 13.785031 20
TTTGT 429760 1.5205833 28.579714 12
TGGCT 590410 1.5191971 51.63683 8
GTAGT 711585 1.4685559 43.705254 5
GTCCG 636805 1.412591 16.679916 9
GGTAG 783130 1.3634028 36.906963 4
AGTAG 901810 1.2868611 32.37405 7
TAGTA 745285 1.2607018 38.12683 6
TTCCG 463090 1.2177237 49.825783 16
GTTAG 589695 1.2170016 27.500847 20
CAGTG 683890 1.2167448 33.006596 5
GTTCC 459015 1.2070082 51.88685 15
AGTCC 632680 1.1503245 13.356009 8
GTGGC 522695 1.1345806 44.804585 7
GTTCT 369390 1.1267275 11.362278 1
GTTTG 375205 1.1199006 24.234095 11
TACAG 716145 1.0443367 10.642561 5
TTCTA 410620 1.0265974 17.427698 2
GGCTA 576155 1.0250678 35.789463 9
TCTAC 475245 1.0243 15.727545 3
TGCTG 392885 1.0109411 15.791063 16
TGAGA 666005 0.950373 7.5594325 20
CTACA 636405 0.9484099 10.756685 4
TGAGG 543345 0.9459453 34.23963 1
GTGCT 366710 0.9435896 15.948892 15
CGATC 515885 0.9379704 11.9570265 15
GCTGT 361765 0.9308655 15.851307 17
AGTGG 513345 0.8937163 35.24821 6
TAGTT 365050 0.8930781 18.62464 9
GAGGT 508045 0.8844892 34.58894 2
TTCAC 401680 0.8657446 37.734997 1
TGTAT 346145 0.8468278 34.41777 14
AAGTT 495560 0.8382743 33.222088 13
TAAGT 474850 0.80324197 33.342068 12
TGTTA 326405 0.7985348 15.427292 20
ATTGT 322115 0.78803957 26.325256 12
TCACA 528540 0.78766286 28.35523 2
TCAGT 371095 0.78265756 13.500725 16
GATTG 376320 0.7766422 22.540298 11
CGAGA 605695 0.7451097 15.699993 19
GACGA 605270 0.7445868 8.458595 13
CTGTA 352425 0.7432816 7.243549 19
CTAAG 506465 0.7385654 29.007317 11
AGGTA 516365 0.73684037 28.282707 3
AGAGA 740870 0.7309901 11.4264145 32
CCGAC 463670 0.72676635 10.640048 11
GCTAA 486665 0.7096916 29.229107 10
AGAAC 697940 0.70373726 11.46924 34
CTAGA 471900 0.6881601 5.103951 23
CACAG 540990 0.6801088 22.918558 3
ACGAT 459190 0.66962546 9.699389 14
CGACG 419655 0.64365804 10.320414 12
TATAG 375875 0.63581884 23.057064 16
ATAGT 365665 0.6185479 22.582924 17
GTGTT 205320 0.6128329 18.685455 19
TTGTG 203560 0.6075797 19.572088 13
CCGAG 393645 0.6037645 19.143837 18
AGATT 353250 0.59754705 17.25685 10
GTATA 351385 0.59439236 23.245152 15
TTTGA 239385 0.58564436 15.645392 9
AGTTT 235500 0.5761399 18.547182 10
GAACA 570815 0.57555634 11.509313 35
CTCAG 313710 0.5703804 7.451498 7
CTGTT 180630 0.55096453 15.931673 18
GTAGG 302630 0.52686864 9.626019 8
TGTGC 201410 0.51825255 16.090176 14
ACAAG 510285 0.51452357 11.525236 22
TGAAA 439795 0.51439077 8.032332 11
CAAGA 501550 0.50571597 11.529445 23
TTGAG 242595 0.500663 9.697926 19
GAGAA 497025 0.49039692 11.3296 33
TGACT 225605 0.47581202 6.2915344 20
GATAG 331460 0.4729854 6.9199157 15
TTCAG 221140 0.4663951 7.3698015 9
GGCTT 180470 0.4643713 5.020212 10
TGGAG 263615 0.4589448 6.3047533 9
AGGTT 221730 0.45760223 10.11574 10
TAGGT 221690 0.4575197 9.897429 9
ACTGT 215615 0.4547426 5.902492 18
CAGTT 215525 0.4545528 7.1597176 6
GTTGT 152000 0.45368502 12.911726 12
TTGGA 215675 0.44510603 6.782158 8
AGTGT 215215 0.4441567 13.171563 18
CTGGA 246275 0.4381609 5.8499417 2
TAGGC 244025 0.43415782 5.6025004 17
ATTTG 177175 0.43345052 15.503381 8
AACAC 419375 0.43213344 11.677248 36
GGTTG 170390 0.42902392 12.108487 11
TGTCT 140520 0.42861947 5.002323 10
GTCAG 237415 0.42239755 5.676907 13
GCACT 228655 0.4157353 5.3531775 6
GCTCA 227550 0.41372627 6.2616434 3
CATTT 164740 0.41186902 16.115538 7
GCACC 259550 0.40682426 9.908099 3
ATAGG 281920 0.40229303 9.728198 16
GAGTT 193790 0.3999402 5.3859854 2
GGACT 221515 0.39410907 6.507945 4
AAATC 328035 0.3920902 8.128264 13
TAGCA 267430 0.38998657 14.435007 1
TTGTC 125655 0.38327768 6.3548384 9
GAAAT 323125 0.37793177 7.881597 12
GACCT 199960 0.3635627 6.487666 4
ACTTG 168945 0.35631332 6.8433285 6
GACAA 345325 0.34819335 11.743659 21
ACTGG 193730 0.3446753 5.156273 1
CCATT 158805 0.3422739 13.779891 6
TGCAC 186485 0.33906278 5.2355175 5
AGTTA 200335 0.33888066 11.439123 19
GGCTC 147215 0.32655928 7.040706 2
ACCTC 171325 0.31833178 6.671111 5
CTTTG 104115 0.3175756 9.585491 17
AGCGT 176590 0.3141806 5.954501 2
CAAGT 214155 0.31229696 5.7240434 3
CAGGA 251465 0.30934548 5.789548 12
ACTTT 123475 0.30870175 7.8463945 16
CTTGG 118230 0.30422023 8.412176 7
TCGGG 139000 0.3017184 6.12261 27
ATTCT 109370 0.27343762 8.393533 1
CTTGT 89540 0.27311835 6.329685 8
GGATA 189525 0.27044758 6.646533 14
AGCCT 145400 0.26436296 8.119953 2
TGGAC 148235 0.26373273 5.7821603 3
GTTCA 123035 0.25948685 7.1930394 8
TGCCA 142005 0.25819027 5.1231713 5
CTATC 119785 0.2581737 9.710992 5
AGTGC 144575 0.25722104 5.2217565 3
TCCGT 94940 0.24965061 6.4585767 17
TAGCC 136540 0.24825394 8.984208 1
TTCCA 115060 0.24798988 5.0898247 12
CCTAT 114240 0.24622254 9.577114 4
AGGAT 170630 0.24348488 6.559665 13
GTGCA 136300 0.24249855 5.330506 4
ACCAT 161695 0.24096785 9.270751 5
AGTTG 116470 0.2403686 6.059543 9
GACTT 113700 0.23979887 6.4268193 5
AGCTG 132595 0.23590676 5.66686 2
TCAAG 158525 0.2311731 5.7115145 2
AACTT 132360 0.2288072 5.465798 15
GGAGT 131285 0.22856276 5.5379195 10
TCAGC 123300 0.22418126 6.2517357 10
GCCTA 121545 0.22099036 8.201038 3
CCTCA 118260 0.21973391 7.3218737 6
GCGTA 121335 0.21587352 5.9478846 3
AATCA 179165 0.21415044 7.580211 14
TCCAT 99185 0.21377437 5.104634 13
ATTCC 98490 0.21227643 5.0729933 11
GTAAT 124550 0.21068503 7.578265 6
CTGCC 92130 0.20884977 6.4316683 4
TTCAA 115255 0.19923824 7.4442744 1
GCAGG 129305 0.19406858 5.0675077 13
GCTGC 86715 0.19235532 6.555313 3
TAGCG 105170 0.18711351 6.226466 1
CGACC 118710 0.18606861 5.288834 3
GAGTC 103745 0.18457823 5.5314593 11
TTGCC 67615 0.1777978 5.066435 7
GTATC 83175 0.17542017 7.06911 5
TCCGC 75415 0.17095849 5.2824655 17
TATGC 77105 0.16261823 5.2826324 46
GCGAC 105520 0.16184439 5.0442104 2