FastQCFastQC Report
Tue 9 Jul 2019
SL_C_3_R1.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename SL_C_3_R1.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 39486251
Filtered Sequences 0
Sequence length 100-150
%GC 41

[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

[WARN] 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

[OK] Overrepresented sequences

No overrepresented sequences

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
GGGGG 13259880 7.639951 18.715681 145-146
CACCA 15734065 3.6334555 7.253373 105-109
ACCAA 18124560 3.4491942 5.8536744 105-109
CTTCA 22553680 3.073152 4.4657493 90-94
CAAGA 14491895 3.064632 4.781007 115-119
CAGCA 11350965 2.9128268 5.693718 100-104
CCAAG 11010275 2.8254004 12.728354 1
TCAAG 15693880 2.8082883 7.1952953 9
GCTTC 14764570 2.7128081 11.804298 6
AGAGC 9280440 2.646387 6.408548 140-144
TTCAA 23512645 2.6402156 6.5710325 8
CTGCT 14338485 2.6345208 19.852123 4
TCACC 13306645 2.6001937 10.5570345 3
GAAGA 10867245 2.553733 5.9709015 3
AGCCA 9786615 2.5113914 5.3131294 80-84
AGCAA 11849390 2.5058157 8.13537 2
TTCTT 30797475 2.4761071 13.753138 8
GCAGC 7124945 2.4654436 6.3346477 95-99
GTCAA 13690595 2.4498172 9.424323 8
AAGAG 10295045 2.4192698 5.976347 4
CTTGA 15857695 2.4010966 5.018479 85-89
TAGCA 13199380 2.3619184 6.894152 1
TCTTC 20367570 2.3483567 11.980161 9
TACCA 14442465 2.3256788 12.565481 4
GGAAG 7250580 2.2975261 6.5486097 135-139
GCTTG 11185910 2.2838762 21.543182 6
GGCAA 7923405 2.2594182 6.5032563 40-44
CTTCT 19563735 2.2556756 7.8021703 5
ACCTT 16393540 2.2337747 7.341951 5
ACGAC 8631940 2.2150846 21.035719 1
CGGCA 6324020 2.1882997 5.645889 55-59
TTGAA 16827620 2.0997303 5.528457 8
TCAAC 12932150 2.082472 5.3716135 9
TGTTG 14524870 2.067964 27.819403 9
AGCAT 11517430 2.0609474 11.309058 1
ACTGC 9490390 2.0607445 5.277926 15-19
CAAGG 7155535 2.0404546 14.164334 2
TGCTT 15838695 2.0293043 27.56012 5
GAAGG 6342565 2.0097992 14.518134 3
TGGCA 8297600 2.002145 23.281591 9
GAGCA 6892955 1.965578 5.907403 140-144
AGCAG 6883295 1.9628233 5.7732296 20-24
GTTGT 13778595 1.9617138 9.638037 7
TCTTG 15194065 1.9467123 13.83262 9
GCACC 6201810 1.9312081 6.3817353 100-104
ACCAT 11920915 1.9196321 15.12016 5
CCATC 9599065 1.8757117 6.012134 6
TCAAA 14070010 1.867128 8.052453 9
GATAA 12647905 1.8650962 11.797115 2
GCCGA 5378135 1.860995 221.98816 1
CAACG 7251340 1.8608019 20.127958 1
CCGAT 8482400 1.8418695 139.22324 2
CGATA 10279735 1.8394724 52.827393 3
GTGTT 12829455 1.8265811 29.453941 8
AAGGT 9146405 1.8187153 11.79672 1
AGAAG 7668215 1.8019814 12.409939 2
GTCAC 8241665 1.7895962 8.438015 8
ATCTT 18683115 1.7751923 8.45334 8
TCAGC 8144195 1.7684315 5.744322 9
TTGTT 19615200 1.7524676 22.613392 8
TTGTG 12157850 1.7309619 9.110993 6
CAACT 10688550 1.7211838 11.851716 5
AACTG 9602740 1.7183298 12.532419 2
AGCAC 6690900 1.7169847 6.982171 145-146
TTCAC 12597520 1.7165312 7.356061 2
AGTCA 9563870 1.7113745 6.609985 7
TCACG 7852215 1.7050309 10.049104 9
TTCTG 13134165 1.6827912 13.82362 2
GATGA 8460440 1.6823148 11.787792 3
AGGTT 9984045 1.6798829 18.294971 1
CTTGT 13060310 1.6733288 11.169285 7
GAAGT 8361135 1.6625684 5.4463677 3
GCAAG 5827160 1.6616585 10.9692335 3
CATCT 12191145 1.6611587 6.963842 5
TCTTT 20521340 1.6499093 18.347763 9
CACCT 8432640 1.6477855 10.5592985 4
ACTTC 11902135 1.6217784 9.261507 4
TTTCT 20122050 1.6178064 10.510868 7
GGTTT 11340500 1.6145923 7.0495205 5
ACGTC 7429990 1.613349 17.401054 1
ACGAA 7628080 1.6131263 21.858686 2
AGGAC 5610780 1.599956 33.78551 3
CGTTC 8690455 1.5967642 11.751476 1
TGTCA 10465610 1.5846529 27.970823 9
GAGCT 6547580 1.5798792 5.0578866 90-94
CTTGG 7731150 1.5785027 13.949517 3
CGAAC 6150935 1.5784216 46.045704 3
TGCAG 6517595 1.572644 8.848693 9
TCTGC 8498315 1.5614609 19.842274 3
CCATG 7155050 1.5536484 23.046944 3
ACCTG 7132795 1.548816 18.17751 6
TGTTT 17312345 1.5467253 24.866522 9
CGAAG 5413325 1.5436503 13.035219 2
TGTGT 10812350 1.5393976 22.12244 5
TTCCA 11256285 1.5337752 8.71911 3
ACGTT 10030355 1.5187486 8.304188 3
AACGA 7147550 1.5115076 9.064142 2
CTTCG 8198920 1.5064507 5.260103 1
CGTCA 6920090 1.5026293 23.38863 2
CTGTG 7322405 1.4950476 17.628218 2
CGCCT 5643410 1.4869983 53.145638 1
ATAGC 8275215 1.4807804 6.1622868 2
TGAAC 8260855 1.4782109 5.125521 9
CGGAA 5152275 1.4692099 5.96022 135-139
AGCTA 8161605 1.4604508 13.997834 1
TGACG 6034025 1.4559625 6.934872 9
GGTCA 5999320 1.4475881 7.662972 7
TACTG 9553245 1.4465069 7.260682 4
GAACC 5624790 1.443405 46.03753 4
GTTCA 9531370 1.4431946 8.172064 1
GACTT 9336245 1.4136498 22.687616 3
ATAAC 10651305 1.4134567 10.620713 3
TCGCC 5360590 1.4124774 15.679177 2
GTTGC 6902835 1.409382 22.064655 3
ACGGT 5829335 1.4065723 5.583955 55-59
ATTTC 14746740 1.4011742 20.233686 6
CCGGC 3332100 1.3991371 5.8034515 55-59
TGAAA 9474330 1.3971118 7.65986 9
TGTGA 8267695 1.3910954 14.530658 3
AACCT 8631835 1.3899896 28.79215 5
AATTG 11004360 1.373111 14.867669 3
TGGAA 6817655 1.3556554 6.573972 9
GACAA 6341905 1.3411361 11.308356 3
GTGGC 4114005 1.3385652 15.533519 8
ACTGT 8739505 1.3232943 15.391628 1
TCAGG 5439595 1.3125311 11.174178 1
TTGGA 7751800 1.3042927 11.488502 4
TTGCT 10155230 1.3011206 13.846444 4
ATTTG 12248450 1.293243 33.98232 6
GTGAT 7683595 1.2928166 24.924162 1
TTGTC 10003305 1.2816554 18.288086 8
GGATA 6422035 1.2769883 15.890278 1
AACGT 7125500 1.2750485 14.278375 5
TGAGA 6410205 1.274636 25.218105 1
TGCTG 6198085 1.26549 11.393899 9
CTGAC 5810990 1.2617992 6.1276755 1
AGATC 6979300 1.2488872 5.0215197 145-146
ACTGA 6978650 1.248771 5.0444036 4
CGATT 8243905 1.2482529 52.46311 3
ACACG 4855170 1.245909 5.154803 145-146
TACGA 6915745 1.2375146 18.486082 1
GCTAC 5698960 1.2374729 16.934052 2
TGACT 8145965 1.2334234 13.032475 5
CATGT 8144400 1.2331862 17.754292 5
TTGGT 8658035 1.2326791 22.201931 5
GCCTA 5665270 1.2301574 94.81653 2
CGCCA 3894905 1.2128512 7.4965625 3
CACTG 5559420 1.2071731 5.7292266 2
ATCTG 7968065 1.2064865 6.4362497 6
CTAGG 4972625 1.199855 15.521818 1
TGGAG 4460660 1.1960384 7.7250533 1
TTTGG 8370825 1.191788 7.0123024 7
GGTTG 5214350 1.1830533 24.511292 2
ATCCA 7340385 1.1820266 17.070335 1
CTGTT 9224405 1.1818604 15.562499 8
AGGAT 5937135 1.1805686 6.6924777 5
TTTGT 13168025 1.176462 18.296825 7
GAGAA 5000190 1.1750127 12.3890085 1
TCCGG 4010915 1.1743977 26.286398 4
ACTGG 4841480 1.1682107 16.896595 3
ACGAT 6526035 1.1677792 7.6667056 3
AGTGA 5868725 1.1669656 8.197774 3
GACTG 4827340 1.1647987 8.431786 6
TGAGT 6920880 1.1644847 33.239285 5
TTTGC 9085165 1.1640204 8.966231 7
GTTGG 5121165 1.1619111 8.545246 4
TTACG 7641040 1.1569698 16.49522 4
GTCTT 8972530 1.1495893 20.262531 8
AGTGG 4286995 1.1494734 8.315121 7
TGTGG 5053085 1.1464648 7.5831237 9
TACGT 7482610 1.1329812 25.364965 5
GTGAC 4688760 1.1313607 20.839735 4
CGGTA 4684100 1.1302361 54.940975 2
CGTTG 5531275 1.1293446 13.097447 4
TTATC 11883060 1.1290792 10.847555 6
TCTGG 5493040 1.121538 9.828001 9
CCATT 8219345 1.1199634 11.908963 5
GGTGT 4934590 1.1195801 24.590153 7
GATTA 8935600 1.1149737 43.231464 4
GTCTG 5438305 1.1103625 17.23833 6
TGCAA 6172975 1.1046021 5.46152 9
AGTGT 6560160 1.1037911 16.201479 7
GGCGT 3392215 1.1037178 78.70122 1
CTGGC 3767150 1.1030234 8.289519 8
CAGTA 6157420 1.1018187 5.1798143 1
TCGGC 3742205 1.0957195 5.9287786 9
GCCAT 5044660 1.0953982 5.224641 4
TTCGT 8538025 1.0939192 12.723902 5
TCGAT 7194380 1.0893389 5.6073227 5
CATCG 5005795 1.0869589 5.8312755 1
GAATT 8678765 1.0829259 14.864414 2
TTGCA 7134545 1.0802789 6.7977543 8
GTTCC 5861600 1.0769969 11.747218 2
GTTCG 5259220 1.073798 20.358446 4
GATCG 4445420 1.0726447 6.291399 145-146
GGATG 3988155 1.0693452 17.599707 6
GTTCT 8343910 1.0690485 13.820837 1
TGGAT 6341190 1.0669479 19.956413 5
TTGGC 5215985 1.0649705 12.777201 8
TATCA 9472965 1.0637115 6.9399524 9
GTATT 10048280 1.0609399 49.568336 4
TAGGT 6280170 1.0566808 10.753792 1
TCTGT 8211335 1.0520625 16.684298 7
GCGGT 3229665 1.0508294 74.06766 1
GAGTG 3893855 1.0440607 27.792017 6
GGACA 3656680 1.0427297 31.708168 2
ACTTG 6884180 1.0423697 12.396963 4
ATCGG 4318695 1.0420668 6.6232796 145-146
CAGGA 3651590 1.0412784 33.77911 2
CACAC 4483010 1.035258 8.323347 3
TATCT 10885810 1.0343246 7.699166 7
TGTTC 8061470 1.0328614 16.845362 9
ACGTG 4257655 1.0273383 28.628336 6
GTCAG 4235705 1.022042 5.312675 8
TGCCA 4700645 1.0206987 17.256866 9
GTCGA 4224390 1.0193117 8.978167 4
TTCCG 5531765 1.0163938 16.49334 3
TAGAG 5110670 1.0162302 6.7352433 2
TGTTA 9593205 1.012891 10.278051 9
TGGTG 4456470 1.0111024 27.080568 6
GAGAT 5078465 1.0098264 8.245148 5
GGTTC 4938260 1.0082661 12.893115 3
AGAGG 3172960 1.0054312 10.725338 3
CAGGT 4161815 1.004213 5.4108734 4
CATGG 4150960 1.0015937 25.607601 4
GAGTC 4146545 1.0005285 20.042616 6
TGATG 5933985 0.998433 36.07918 2
CTGAT 6586800 0.997342 10.033423 1
GAGGA 3146000 0.99688816 10.710881 4
TTCGC 5425470 0.99686337 10.930275 1
GCGTA 4126165 0.9956109 58.369186 2
GTGAA 4996375 0.99350333 7.292494 8
AGGAG 3126115 0.9905871 10.289128 3
GGAGT 3693710 0.99039555 7.7268 2
TCCAG 4547605 0.98746765 5.3207154 9
CTAGC 4537000 0.98516476 5.904865 2
CTGTA 6505270 0.9849971 7.2716475 3
CGTCT 5358380 0.9845365 10.861221 7
GTCAT 6451135 0.97680014 13.208128 3
TGGTT 6793120 0.96716386 9.947233 5
ACAAC 5052405 0.96149796 10.1764555 4
CATTG 6250365 0.9464005 6.251934 6
GACAT 5231575 0.9361465 17.655737 1
TGCCG 3183865 0.9322371 8.182655 9
AGAGT 4687820 0.93214875 14.395494 3
TATTT 14046465 0.93066347 44.27604 5
CTACC 4749475 0.9280743 15.245418 3
ATTTA 11821865 0.92566395 7.7854214 6
GCGCT 3144835 0.92080927 10.034525 5
GTGTC 4500865 0.91896135 22.513535 8
ATTGG 5456830 0.91814846 20.0495 4
TCCAT 6709975 0.9142976 14.45765 2
GTGTG 4015165 0.9109773 16.968256 6
AGTAC 5043960 0.9025744 5.1852574 2
GTGGA 3349525 0.8981093 7.2710953 8
CGACT 4127485 0.8962426 32.541462 2
TCGTT 6960495 0.891801 9.599546 2
CCACA 3859565 0.8912864 5.462442 2
CAGAG 3123855 0.89079076 8.567694 4
AGACT 4977570 0.89069444 9.759545 3
AATTC 7905910 0.8877482 10.083779 1
ATTGT 8317035 0.8781477 15.569038 7
ATGGT 5197725 0.8745522 17.715244 5
CCTGT 4756665 0.8739788 8.827512 2
GGTAT 5166745 0.8693397 38.315594 3
TGGTC 4248810 0.86749816 16.628296 6
GCACA 3374070 0.8658367 5.3065004 145-146
TCTTA 9098230 0.86447614 5.9052763 9
CGCGT 2923865 0.85610896 7.3044276 3
GGATC 3534510 0.85284907 12.553148 6
GGAAT 4278140 0.85068595 23.68041 1
ATGTT 8056625 0.8506525 12.785805 8
GGCCT 2899010 0.8488314 68.76509 1
ATGAG 4257980 0.84667724 31.405025 4
TGTAG 4950520 0.8329584 8.0796 4
TCGTC 4525250 0.8314592 6.47727 6
GCTAG 3443785 0.830958 5.158563 3
ACATC 5158670 0.8307038 5.9397345 6
CCTAA 5157635 0.830537 37.856197 3
TCGGA 3436570 0.8292171 5.4538574 9
AGTAG 4164045 0.8279988 5.7169294 4
AGACA 3905040 0.8258071 10.057844 1
CGGTC 2820175 0.8257487 10.268818 6
GATGT 4890325 0.82283014 26.12906 3
TCGAA 4586320 0.8206836 13.618557 2
CTCTT 7096165 0.8181795 9.690866 8
CTGCC 3089770 0.81413245 6.5318937 8
GGTAC 3365940 0.8121745 14.5096035 3
TGTCC 4385610 0.80580187 15.333919 9
GATAT 6439770 0.8035469 36.813885 4
AAGCG 2808470 0.80085635 7.317159 3
CTGTC 4339920 0.7974071 12.213836 8
GTGTA 4721170 0.7943687 6.31301 8
ATTCC 5803460 0.79077625 12.23596 2
GATCC 3638860 0.7901426 7.2624826 1
TGGTA 4685440 0.7883569 7.25814 6
AGTCT 5204400 0.78802556 10.714658 7
CCGGT 2663075 0.7797496 26.124832 5
AGGTA 3906745 0.77683604 11.970374 2
TGTGC 3796760 0.7752011 11.142404 9
ATGTC 5103030 0.77267647 13.493538 4
TCATG 5101165 0.7723941 9.039697 4
CCTAG 3554975 0.7719277 7.2604375 4
TAATT 9856270 0.77175593 18.315638 5
ATTGC 5094360 0.77136374 8.8266535 7
CATGA 4262615 0.7627592 17.658976 3
TGGCT 3734100 0.76240754 6.061331 9
ATTAC 6749850 0.7579351 12.232328 3
TTGCC 4120835 0.75715274 10.336062 8
CACAG 2937315 0.7537587 7.71309 2
ATTCA 6707675 0.75319934 6.4037704 7
TGGCG 2308150 0.75099796 9.388015 9
GACAC 2920615 0.74947333 12.184999 2
CGTGT 3649880 0.74521196 18.130764 7
TAGCG 3080660 0.7433387 8.331665 3
TGTCG 3617700 0.7386416 13.119034 9
ATCGA 4106075 0.7347477 13.630865 1
GAGTA 3690625 0.7338617 8.421394 6
ATGGA 3685605 0.73286337 10.125832 4
ATCGC 3361930 0.7300099 5.420091 1
CTGGT 3541870 0.72315913 14.2983 4
GGATT 4265500 0.71769905 6.1290274 5
AGTGC 2956715 0.7134319 8.930291 7
TGGGA 2659935 0.7132093 5.159161 9
GTACG 2945340 0.7106872 14.316878 4
ATTCT 7478840 0.7106084 10.061524 7
GTGCA 2924440 0.7056442 8.347217 8
ATGTG 4159615 0.6998833 11.150146 4
GTGCT 3416715 0.69760567 8.78683 8
GCATG 2866810 0.6917384 12.28651 2
ACAGG 2420370 0.6901867 20.56961 1
TGTAA 5467255 0.6821975 6.1098194 9
ACATG 3782500 0.6768467 17.665844 2
TGTCT 5274820 0.67582685 18.153091 5
AGCGC 1941580 0.67184466 11.948698 4
CGATC 3092370 0.6714776 9.298907 4
ACCTC 3420795 0.6684427 10.867065 6
TTGTA 6295475 0.66470283 5.0195594 8
TCGAC 3049255 0.6621157 14.768374 1
TAACG 3675465 0.6576936 14.319451 4
GTAGT 3903360 0.65676665 12.833639 5
CTTGC 3571145 0.656154 5.8289037 7
GGTGC 2000460 0.65088546 11.089142 7
GTGAG 2399965 0.6435034 11.051295 4
ATCGT 4248545 0.64329445 5.7537003 1
ATATT 8203655 0.64235455 22.926073 5
GTACT 4226080 0.639893 7.9111056 5
TTGCG 3075335 0.6279046 6.1469364 8
GTCGC 2133015 0.6245477 5.066665 8
GGAGA 1959245 0.62083536 10.270311 4
GTGGG 1710325 0.61838126 5.4704676 8
TGCAC 2822985 0.61298335 6.9448557 9
CGTAT 3979695 0.60258645 36.621933 3
ACAGA 2847385 0.6021426 6.3562317 3
GAGAC 2069345 0.59008926 15.549298 2
ATGGC 2445180 0.5900024 6.0897 8
TGCGC 2014420 0.58982307 5.655048 9
GTGCG 1799215 0.58540684 7.514889 8
GATCT 3858605 0.58425164 7.4229593 7
AGCTC 2643910 0.57409894 8.497451 1
GGTGA 2137725 0.5731889 5.9532967 7
GTCGT 2804920 0.57269275 5.0432234 4
TATTC 6001920 0.5702776 9.316845 6
GCTCT 3098950 0.569394 7.188702 2
TATTG 5365675 0.56653064 13.944376 6
TCTCC 3424910 0.56629735 9.134932 9
ATTAT 7217385 0.56512856 27.056534 5
ACTCT 4015530 0.5471539 13.812928 5
GGTCG 1666095 0.5420938 5.2565336 7
GTGCC 1822040 0.53349423 12.024213 8
GGTCT 2600530 0.5309616 13.78895 7
CCTAT 3812675 0.519513 27.491467 3
ACGCC 1667515 0.5192546 7.5033274 2
TTCTC 4446570 0.5126843 9.305546 8
ACGTA 2822235 0.5050153 6.9553137 6
GGACT 2075010 0.50068337 11.190951 4
GTCGG 1537090 0.50011975 6.17896 8
GGTGG 1378455 0.49839094 9.602772 7
CTCTG 2677295 0.49192014 8.931826 6
CTAAT 4319440 0.48502642 26.399435 4
AGCGG 1234500 0.47468725 9.847537 4
GAGAG 1492790 0.47302756 22.941498 2
TGCGG 1437310 0.46765453 7.4486804 9
ACACT 2901295 0.4671973 7.6453805 3
TAGTG 2745725 0.46198675 11.529562 6
CGTGG 1393525 0.45340827 7.524548 7
AACGC 1733690 0.4448907 6.179095 1
TCTCA 3251235 0.4430115 14.639796 9
CACAT 2739330 0.44111595 5.779396 5
ATCTC 3194415 0.43526924 5.6563454 8
GTCTC 2338010 0.42958057 13.905731 8
CTAGA 2333910 0.41763362 6.062381 1
TAGTC 2731775 0.41363233 7.0541077 6
CACTC 2023005 0.39530662 9.274178 4
CGGTG 1213345 0.39478353 17.89295 6
CGTGC 1295080 0.3792 8.992397 7
GACTC 1717025 0.372835 11.840076 4
TCCGC 1388125 0.36576104 5.537789 9
TCTCT 3121280 0.3598799 9.673833 7
CTATT 3699780 0.35153776 19.166794 4
ACACA 1844500 0.3510176 6.8609247 2
TCTAG 2275595 0.34455976 5.9242005 4
TCTCG 1822195 0.3348059 8.284789 9
TCGTG 1463950 0.29890108 8.661451 6
CTCTC 1707245 0.28228724 6.186102 8
TCGCG 925690 0.2710425 7.3048525 2
TTATG 2389285 0.25227082 17.117699 6
TATGC 1628495 0.24657896 5.4704833 7
ACTCG 1078795 0.23424967 5.037996 3
CTCTA 1635570 0.22286189 5.332703 3
CTAGT 1406885 0.21302383 10.899192 5
TATGT 2005365 0.21173492 12.10785 7
TGGGG 508090 0.18370387 5.187964 9