FastQCFastQC Report
Tue 9 Jul 2019
S_2_R1.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename S_2_R1.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 39536103
Filtered Sequences 0
Sequence length 100-150
%GC 40

[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

[OK] 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

[WARN] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CACCA 16319260 3.894802 6.74786 105-109
ACCAA 18345760 3.393181 5.079629 105-109
CAAGA 15537375 3.119271 4.8214192 115-119
CCAAG 12001870 3.1091232 13.865983 1
TCAAG 16321900 2.8535705 8.258573 9
GCTTC 13942055 2.739054 12.449117 6
CTGCT 13672510 2.686099 21.648088 4
TCACC 12609230 2.6206913 11.323704 3
GCAGC 6883115 2.4974205 5.2547674 95-99
GAAGA 11380590 2.479958 6.3831086 3
TTCTT 30073120 2.4791675 14.388507 8
TTCAA 22768725 2.475035 6.542047 8
GTCAA 13509580 2.3618903 9.414945 8
AGCAA 11758430 2.360613 7.1199455 2
TCTTC 19047605 2.326692 12.774391 9
AAGAG 10657890 2.3224735 6.392742 4
CAAGG 8258570 2.3221912 15.069381 2
TACCA 14237635 2.293251 12.815755 4
AGAGC 8011200 2.2526343 5.5019236 140-144
CTTCT 18030725 2.2024786 8.673079 5
GCTTG 10294350 2.1952138 23.025295 6
ACCTT 15342300 2.1520214 7.620222 5
AAGGT 11086980 2.1039493 10.593419 1
GAAGG 6885720 2.1015832 13.719407 3
ACGAC 8084925 2.0944262 21.693245 1
GGGGG 3485970 2.087162 5.108503 145-146
TGCTT 15704205 2.0821817 28.812725 5
GAGCA 7382325 2.0758038 5.0234346 140-144
TCAAC 12822380 2.0652964 5.263611 9
TCAGC 9103950 2.053815 5.413158 9
GGCAA 7129180 2.0046232 5.0786147 40-44
TAGCA 11463815 2.0042276 6.2086277 1
TGAAG 10551050 2.002247 5.095355 9
GCAAG 7071540 1.9884155 9.971053 3
ACCAT 12298105 1.9808519 15.487778 5
CCATC 9419880 1.9578196 6.3724737 6
AGAAG 8982225 1.9573274 12.434553 2
AGCAT 11191915 1.9566911 10.753402 1
CGATA 11096030 1.9399275 50.59008 3
AGCAG 6848900 1.9258124 5.5897617 20-24
TCTTG 14490620 1.9212755 16.446806 9
TGTTG 13271220 1.9099305 27.803295 9
TTGAA 15980765 1.8855768 5.090325 8
TCACG 8314080 1.8756231 8.05883 9
TCAAA 14950955 1.866247 6.881069 9
CCGAT 8252160 1.8616544 146.15408 2
GTTGT 12796125 1.8415573 10.202616 7
TTCTG 13833325 1.8341264 14.5916815 2
CATCT 12990870 1.8221929 7.4441447 5
TCTGC 9191520 1.8057647 21.639973 3
GATAA 13296690 1.8015565 10.326329 2
CAACT 10893350 1.7545884 11.9883175 1
AGCAC 6746685 1.7477506 5.6795444 145-146
TTGTT 19525150 1.7471324 22.215176 8
GCCGA 4811050 1.7456074 235.19319 1
TCTTT 20938080 1.7260932 18.52866 9
ACCTG 7624800 1.7201244 18.681087 6
TGGCA 6992625 1.7122841 19.928745 9
CACCT 8236780 1.7119251 11.324457 4
AGTCA 9774795 1.7089349 6.379434 7
GAAGT 8998845 1.7076889 5.266313 3
ATCTT 17824670 1.6873552 8.6408205 8
TTTCT 20405470 1.6821859 11.407475 7
TTCAC 11846585 1.6616874 7.6341505 2
GGTCA 6768565 1.6574184 7.311221 7
TTGTG 11503335 1.655505 10.535247 8
CCATG 7334780 1.654697 23.606016 3
AACTG 9463140 1.654448 13.00659 2
GTGTT 11458410 1.6490397 28.339214 8
ACGTT 10707205 1.630183 8.704594 3
CTTGG 7591955 1.618943 14.232315 3
CTTGT 11912095 1.5793953 12.046214 7
ACGAA 7863235 1.5786169 20.700703 2
TGTTT 17627955 1.5773692 24.222057 9
GTCAC 6925590 1.5623854 7.707622 8
AGGTT 9449100 1.561546 18.029987 1
GATGA 8122455 1.5413785 11.033538 3
CCTTG 7842675 1.5407709 5.3683095 6
ACTTC 10959865 1.5373096 10.00235 4
GAACC 5916155 1.5325991 45.72421 4
CGTTC 7791550 1.5307267 12.854213 1
ATAGC 8741565 1.5282946 5.41389 2
TTGGA 9221255 1.5238929 11.02331 4
CGAAG 5392700 1.5163498 12.607543 2
TGGAA 7952480 1.5091227 8.5773945 9
CTTCG 7643825 1.5017047 5.761585 1
ACGTC 6649920 1.5001954 19.74469 1
AGGAC 5323735 1.4969578 32.733067 3
ATTTC 15780110 1.4938089 20.235416 6
CAACG 5710525 1.4793301 20.803669 1
TGTCA 9701745 1.4771008 29.421768 9
TGTGT 10162480 1.4625356 22.138367 5
TGCAG 5930140 1.4521133 7.7490516 9
CGTCA 6377495 1.4387373 26.372356 2
TGAGA 7570355 1.4366078 26.987349 1
TGCTG 6730800 1.4353063 11.2358465 9
TTCCA 10224425 1.4341514 9.183772 3
GTTCA 9409600 1.4326215 8.284726 1
CGATT 9271150 1.4115422 54.63875 3
GACAA 7010835 1.4074897 10.321906 3
AACGA 6973085 1.399911 8.653703 2
ATTTG 13612520 1.3987099 34.119286 6
ATCCA 8680815 1.398216 16.837389 1
TTGGT 9664600 1.3908831 21.429926 5
GAGAA 6359750 1.3858608 12.411339 1
GGTTT 9566425 1.3767542 7.677594 5
CTGTG 6437780 1.3728213 17.541758 2
ATAAC 10950360 1.3668745 9.5185995 3
GGATA 7170650 1.3607566 14.443783 1
TCTGG 6276560 1.3384421 11.34017 9
GTTGC 6268795 1.3367863 23.077997 3
GTTGG 5746245 1.3300444 8.566525 2
TGTGA 7985430 1.319662 13.599895 3
CGAAC 5060175 1.3108548 45.73228 3
TGACG 5336225 1.3066814 6.0035944 9
AACCT 8103560 1.3052378 28.325014 5
CAGGA 4635235 1.3033615 32.72267 2
TACGA 7394990 1.2928718 18.018932 1
ATCTG 8482605 1.2914854 6.6073437 6
TTGCT 9695845 1.2855481 14.349234 4
TTGTC 9661975 1.2810572 20.310408 8
TTTGT 14297405 1.2793479 19.254368 7
TGAGT 7713125 1.274661 31.539928 5
TGAAA 9403215 1.2740331 6.579872 9
TATCA 11716780 1.2736523 6.989624 9
GGTTG 5501750 1.2734528 25.04314 2
TGGAG 4742845 1.2606037 7.55367 1
TTTGG 8728080 1.2561035 7.372606 7
CCATT 8898480 1.2481649 12.539915 5
TTACG 8129415 1.2377119 16.809895 4
TGGAT 7467705 1.2341032 18.980036 5
AATTG 10448765 1.2328541 13.396981 3
AGGAT 6470640 1.2279176 6.512541 5
GTTCT 9244445 1.2256981 14.585149 1
TGATG 7400220 1.2229507 35.1316 2
GGTGT 5283215 1.2228699 24.572748 7
TTTGC 9221375 1.2226392 9.102239 7
GCCAT 5415355 1.2216824 5.548048 4
GACTT 7985415 1.2157876 23.586178 3
GTATT 11771640 1.2095562 49.277897 4
GTGAT 7316190 1.209064 24.37599 1
CGCCT 4138130 1.2046173 60.242813 1
TCGAT 7891515 1.2014914 5.7734523 5
CTGTT 9058520 1.2010466 15.595013 8
CGTTG 5602530 1.1947088 14.168176 4
TTCGT 8898535 1.1798347 13.084716 5
GCTAC 5221110 1.1778615 17.939428 2
GTCTG 5521360 1.1773999 18.182842 6
GTCTT 8851105 1.1735462 21.732042 8
ACTGT 7679745 1.169249 14.829062 1
TACTG 7625615 1.1610079 7.4308615 4
GTCAT 7577990 1.1537567 14.612338 3
GTGTG 4976335 1.1518385 17.25216 6
TGGTT 7990670 1.1499791 10.675849 5
TCAGG 4695775 1.1498543 11.373071 1
CAGTA 6562045 1.1472474 5.0955906 1
AGTGT 6940820 1.1470308 15.807813 7
GAGTG 4305025 1.1442351 26.651861 6
CATGT 7505090 1.1426576 18.7467 5
TACGT 7502055 1.1421956 25.190178 5
TCCAT 8109505 1.1374975 14.673378 2
TCTGT 8553840 1.1341325 18.049767 7
TTATC 11965765 1.1327276 10.915568 6
GCGGT 3294765 1.1299978 79.99551 1
TGGTG 4877740 1.1290175 26.83412 6
ACGAT 6457490 1.128968 7.5332723 3
AGCTA 6450145 1.1276839 13.951355 1
AGAGG 3694705 1.1276569 10.525195 3
CGGTA 4593855 1.1248971 57.123043 2
GTGAC 4589715 1.1238834 20.152534 4
TGCCA 4965030 1.120091 15.8338175 9
CGCCA 3348570 1.11934 8.223656 3
TGTTC 8417710 1.1160833 16.350613 9
ACTGG 4551805 1.1146004 18.217535 3
AACGT 6366470 1.1130549 13.294606 5
AGTGA 5860255 1.1120863 7.374764 3
ACGTG 4540640 1.1118664 28.554333 6
TTGCA 7291930 1.110204 6.5409155 8
TCGCC 3794605 1.1046164 17.52876 2
TGTGG 4747655 1.0989076 9.801054 9
ACTTG 7186330 1.0941262 12.732582 4
GTCGA 4454255 1.0907133 9.325907 4
CATGG 4427035 1.0840479 25.621397 4
GGACA 3846310 1.0815271 30.393301 2
CATCG 4793425 1.0813775 6.47038 1
GACAT 6154645 1.0760213 16.707085 1
GGATG 4036110 1.0727601 17.199373 6
GAGAT 5618890 1.0662831 8.088997 5
GGCGT 3106620 1.0654702 84.50734 1
TGACT 6967265 1.0607734 12.489158 5
GTCAG 4314230 1.0564253 5.350488 8
GACTG 4303450 1.0537857 8.202318 6
AGGAG 3443950 1.0511243 10.141846 3
GAATT 8883035 1.0481129 13.393645 2
GTGAA 5513780 1.0463367 6.673323 8
GTGGA 3928410 1.0441345 8.38721 8
ACATC 6474575 1.0428576 5.7626653 6
AGACA 5170245 1.0379742 9.485987 1
TTGGC 4859725 1.0363098 11.965335 8
ATTGG 6250240 1.0329065 18.76444 4
TCTGA 6779260 1.0321494 5.015593 9
GGTTC 4827950 1.029534 13.179346 3
GATTA 8687445 1.0250351 42.345337 4
CTGAC 4540750 1.024375 6.520412 1
GCCTA 4524080 1.0206144 97.75189 2
GATGT 6172240 1.0200163 25.541632 3
ACTGA 5829970 1.0192581 5.047566 4
TGGTC 4758370 1.0146964 16.44505 6
ATTGT 9808995 1.007891 15.239565 7
AATTC 9217915 1.0020175 9.165263 1
GAGGA 3282705 1.0019108 10.513028 4
CTGGC 3156545 0.9973809 7.8675303 8
GGAAT 5244910 0.9953138 21.536047 1
CATTG 6535185 0.99498874 6.4744864 6
GTGTC 4659475 0.9936076 24.580256 8
CATGA 5659995 0.9895413 16.712786 3
CACAC 4119080 0.9830716 8.512118 3
GTTCC 4989925 0.9803199 12.853785 2
GGCCT 3076275 0.97201777 71.4996 1
ACAAC 5234770 0.9682086 9.508519 4
GAGTC 3936960 0.9640432 20.424067 6
TATTT 15029060 0.96016455 43.66418 5
ATGGT 5801425 0.95873594 17.147488 5
AGAGT 5009165 0.9505771 16.641632 3
ATGAG 4990735 0.94707966 29.165115 4
GTGGC 2752080 0.9438744 14.163395 8
AGTGG 3548435 0.9431407 8.056836 7
TATCT 9899070 0.9370859 8.138049 7
CTGCC 3214710 0.93580794 6.3015947 8
CGTCT 4761950 0.935532 12.033344 7
GTTCG 4371460 0.93218994 21.121511 4
GATAT 7838430 0.9248595 34.12377 4
CAGAG 3287950 0.9245243 8.572616 4
CAGGT 3764250 0.92175174 5.4883847 4
TGTCC 4683050 0.9200313 16.922096 9
GCGTA 3747995 0.91777146 60.342777 2
CTGAT 5965755 0.90829235 9.905499 1
TGTTA 8802275 0.90444887 9.738007 9
CTGTA 5922185 0.9016588 7.0459714 3
GGAGT 3358470 0.89264977 7.5488534 2
TCATG 5853390 0.89118475 10.144951 4
GGTAT 5376885 0.888577 38.55463 3
TAGAG 4680995 0.888301 6.550089 2
TAGGT 5370840 0.887578 10.339039 1
CTGTC 4514645 0.88694644 13.766919 8
AGTAC 5044225 0.88188577 5.1002784 2
AGGTA 4637065 0.8799644 10.752548 2
ATTCA 8053875 0.87548256 6.0747743 7
CCTGT 4452550 0.87474734 9.094601 2
GATCG 3564885 0.8729334 5.217621 145-146
CTACC 4178845 0.8685275 16.532972 3
GTGCA 3544320 0.8678976 7.719058 8
TGTGC 4059255 0.86561394 12.524818 9
TCGTC 4400785 0.86457753 6.9229 6
GTACG 3524425 0.8630259 13.67633 4
ATGTC 5641440 0.85891503 13.641838 4
CTGGT 4018825 0.8569924 15.862076 4
ATGTT 8330610 0.85598445 12.245452 8
ATCGG 3492195 0.8551337 5.546298 145-146
GGATT 5154225 0.85178053 6.098189 5
CTCTT 6971965 0.8516354 10.363146 8
CTAGG 3461295 0.8475672 15.747452 1
AAGCG 3010600 0.8465375 6.8481064 3
TCCGG 2668680 0.84322894 26.640589 4
TCTTA 8871525 0.83981436 5.7915363 9
GACAC 3236125 0.83832866 12.205676 2
AGACT 4775965 0.8349857 9.54647 3
CGGTC 2642435 0.8349363 10.19836 6
TCGAA 4766125 0.83326524 12.839075 2
TCGTT 6284480 0.83324355 9.847361 2
GTGTA 5015605 0.8288725 6.4326005 8
TGGCT 3884915 0.828437 6.0512133 9
TGTCT 6233480 0.8264817 18.736559 5
CACTG 3648225 0.8230249 6.2583127 2
AGTGC 3356145 0.8218191 8.241717 7
CCACA 3434565 0.8197033 5.6936574 2
TGGTA 4952000 0.8183612 7.4287624 6
ATTTA 11151860 0.8181233 7.905816 6
CGACT 3621195 0.81692713 34.95391 2
GTGCT 3806730 0.8117644 9.42093 8
GGATC 3303700 0.8089769 12.304808 6
AGTCT 5309350 0.8083541 11.330296 7
TTGTA 7862895 0.80792594 5.197644 8
TGGGA 3025295 0.80409503 6.659259 9
ATTCT 8441120 0.7990705 10.1924925 7
GGAGA 2617100 0.7987622 10.127024 4
GTATC 5218345 0.7944984 5.1655536 8
GGTAC 3242875 0.79408264 13.864272 3
TTCCG 4036130 0.79293746 16.562704 3
TGTCG 3715780 0.7923698 15.280962 9
ATGGC 3231315 0.791252 5.4995666 8
TGTAG 4787020 0.7910967 7.6466312 4
ATCGA 4489820 0.7849587 12.847442 1
AGTAG 4092900 0.77669966 5.3782687 4
CGTGT 3618350 0.77159333 18.969208 7
TTCGC 3922905 0.77069336 11.826599 1
GTGAG 2870315 0.76290274 10.327637 4
GCATG 3093540 0.7575151 11.936905 2
ATTCC 5334320 0.74823016 11.827576 2
GGTGA 2807450 0.74619377 5.627109 7
ACATG 4266450 0.7459068 16.719248 2
TGCAC 3295825 0.74352497 7.0619416 9
ACAGG 2633840 0.74059796 19.663725 1
CTAGC 3280415 0.7400485 6.459751 2
TTGCC 3745790 0.73589736 9.770517 8
TAATT 9998620 0.73351926 16.519598 5
AGCTC 3218455 0.7260706 8.374722 1
TGTAA 6146650 0.7252457 5.9574547 9
ATGGA 3807690 0.7225761 9.246788 4
CTTGC 3671230 0.72124934 6.124389 7
TCGAC 3158540 0.712554 16.09575 1
TGCCG 2246990 0.7099867 6.234712 9
TCTCC 3905965 0.7069652 11.09826 9
GCGCT 2229955 0.7046041 9.718363 5
ATTAC 6410190 0.69680864 12.0023 3
GTAGT 4206930 0.6952318 12.24309 5
ATATT 9434900 0.6921636 21.046108 5
GAGTA 3642710 0.69126815 8.576567 6
TAGCG 2808530 0.6877247 7.5967774 3
CCTCT 3773240 0.68294245 5.180446 7
ACAGA 3396905 0.68196 6.121497 3
ACCTC 3281190 0.6819596 11.215698 6
GAGAC 2411890 0.67818886 15.350005 2
ATTGC 4422505 0.67333096 8.184308 7
CCTAA 4151890 0.66874355 36.474506 3
ATCGT 4374685 0.6660503 5.5814505 1
GGTGC 1939940 0.66533667 10.66996 7
GATCC 2931315 0.661293 7.4044843 1
CGTAT 4268920 0.64994746 37.51238 3
TATTG 6222935 0.6394173 13.39067 6
CACAG 2447720 0.6340898 7.8986077 2
TTCTC 5183725 0.6331994 10.5258665 8
TGGCG 1844840 0.63272053 9.007264 9
CTCTG 3209690 0.6305752 9.588829 6
TCTCA 4484625 0.6290458 12.783195 9
CGCGT 1989065 0.6284895 7.8073006 3
ATGTG 3767325 0.6225832 10.746869 4
GAGAG 2025610 0.6182343 26.761261 2
TATTC 6429290 0.60862255 8.921021 6
ATTAT 8205250 0.6019539 26.25767 5
TAACG 3427725 0.59927183 13.330719 4
CGTGG 1746220 0.598897 7.75744 7
GGTCT 2792920 0.5955749 14.274508 7
GCTCT 2994070 0.5882145 7.2879825 2
GTCGT 2720170 0.5800614 5.6438093 4
GTACT 3795420 0.57785666 7.871476 5
TTGCG 2707865 0.5774374 5.9692984 8
ATCTC 4109950 0.57649124 6.3022876 8
ATCGC 2546500 0.57448024 5.5760083 1
GTCTC 2911935 0.57207835 16.385008 8
ACTCT 4074405 0.57150537 14.173408 5
ACGCC 1692855 0.56587744 8.230925 2
GTGCG 1623705 0.5568783 6.938894 8
TAGTC 3635935 0.55357486 6.757304 6
GTGCC 1737720 0.5490715 11.050498 8
GCTTA 3579725 0.5450168 5.3464108 6
CCGGT 1719905 0.54344237 26.463799 5
AGCGC 1457710 0.52890515 11.257215 4
CCTAG 2298130 0.51844895 7.4007215 4
GTGGG 1383720 0.5151165 5.7512517 8
CGATC 2267150 0.51146 9.719221 4
GGACT 2053890 0.50293595 11.38283 4
CTAAT 4430740 0.4816359 24.615967 4
CCTAT 3422170 0.4800182 29.034248 3
TCTCT 3919725 0.47879997 10.800048 7
TGCGG 1394455 0.47825295 7.9371595 9
GACTC 2116995 0.4775856 12.3125725 4
GGTGG 1281805 0.4771767 9.372628 7
AGCGG 1207955 0.47573107 9.576693 4
CTAGA 2718965 0.47535875 6.0326247 1
TGCCT 2419135 0.4752629 5.06417 9
TAGTG 2858000 0.47230935 11.067386 6
GATCT 3100395 0.4720384 7.88538 7
CGGTG 1341345 0.46003795 17.832815 6
CGTGC 1439700 0.45490536 9.016457 7
ACGTA 2592310 0.45321557 6.992086 6
CACAT 2798190 0.45070356 5.722041 5
ACACT 2721480 0.4383479 7.59067 3
CACTC 2051195 0.42631856 9.794907 4
AACGC 1576920 0.40850624 6.3744245 1
TCTAG 2663115 0.40546206 5.6488714 4
ACACA 2038160 0.37697247 6.5998764 2
GTCGG 1087395 0.37294132 5.106667 8
CTCTC 2045205 0.37017453 7.267265 8
CTATT 3898335 0.3690321 19.59124 4
TCTCG 1851665 0.36377782 10.203378 9
TCGTG 1662580 0.3545361 8.911058 6
CTCTA 2434375 0.34146297 5.2066827 3
TTATG 3133030 0.32192424 17.478544 6
ACTCG 1311780 0.29593232 5.209756 3
TCGCG 920855 0.29096466 7.8063836 2
TATGC 1790515 0.27260774 5.4805923 7
CTAGT 1783130 0.2714834 10.548819 5
TATGT 2408795 0.24750783 12.442947 7