FastQCFastQC Report
Tue 9 Jul 2019
S_3_R1.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename S_3_R1.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 47613239
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

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
GGGGG 9681450 4.9367595 12.411211 145-146
CACCA 16781750 3.3115327 5.2158666 105-109
ACCAA 20649515 3.1653178 4.630917 105-109
CCAAG 12634670 2.7248583 12.930494 1
GAAGA 14303860 2.6190102 6.056157 3
TCAAG 17991100 2.6186328 7.6008973 9
AGAGC 10941455 2.5789526 7.0204124 140-144
CTGCT 14864075 2.4196932 21.309916 4
TCACC 13521720 2.318168 10.775955 3
GCTTG 13002655 2.3133569 23.625593 6
GGAAG 8746015 2.2530286 6.7559495 135-139
TTCAA 24956590 2.2431114 6.217024 8
TACCA 16705565 2.2247941 12.401229 4
AAGAG 12112960 2.2178605 6.061062 4
GCTTC 13565510 2.2083023 11.00555 6
TTCTT 32512335 2.205749 11.248447 8
TCTTC 21297845 2.140951 10.463725 9
GAGCA 8968870 2.1140049 7.0521755 140-144
AGCAA 12605015 2.1117332 7.6956882 2
CTTCT 20698125 2.0806644 7.9544034 5
ACCTT 17666940 2.0441425 7.236123 5
CTGCA 10841140 2.0313098 5.102852 15-19
AGCAG 8547205 2.0146163 5.596767 20-24
AGCAC 9264985 1.9981346 8.814059 145-146
TAGCA 13659955 1.9882278 6.7014217 1
TCAAC 14779875 1.9683368 5.022572 9
AGAAG 10728080 1.9642916 11.800636 2
GTCAA 13487160 1.9630772 9.654352 8
TGCTT 17832080 1.959121 28.002043 5
CGATA 13035260 1.8973025 52.175907 3
TGGCA 9134695 1.8706108 20.87054 9
AAGGT 11709435 1.862692 10.657625 1
CAAGG 7868935 1.8547447 14.151785 2
TCTTG 16841390 1.850279 12.680296 9
AGCAT 12691090 1.847208 10.963146 1
CCATG 9849580 1.8455205 24.6614 3
ACGAC 8446820 1.821685 21.217022 1
CCATC 10621440 1.820943 5.7512474 6
CCGAT 9613270 1.8012431 144.71188 2
TGAAG 11241905 1.7883191 5.6946797 9
CGTTC 10981500 1.7876564 12.625978 1
CAACT 13341880 1.7768291 11.747842 1
GCAAG 7500515 1.7679065 10.822517 3
GAAGG 6827635 1.7588418 13.577881 3
GCCGA 5786095 1.7556508 234.49345 1
ACCAT 13150390 1.7513273 14.964151 5
TTCTG 15743765 1.7296885 14.367498 2
GATAA 15121485 1.7097281 10.611646 2
TCTGC 10425665 1.6971732 21.302607 3
CATCT 14628755 1.6926112 7.1100407 5
CACCT 9859555 1.6903254 10.779431 4
GTCAC 9003700 1.6870278 8.001007 8
GTTGT 14039865 1.6858171 10.081642 7
TGTTG 14019655 1.6833904 28.04789 9
AGTCA 11542150 1.679978 6.670965 7
TCAAA 16123470 1.6680262 7.652999 9
AACTG 11362625 1.6538477 12.835229 2
CGTCA 8792935 1.6475366 26.385303 2
AGGTT 11654210 1.6106796 17.522074 1
CGAAG 6810055 1.6051619 12.382708 2
CTGTG 8994210 1.6001977 18.448116 2
GTGTT 13318380 1.5991858 28.748617 8
TTGTT 21550780 1.5979352 22.200775 8
GGTTT 13229930 1.5885653 7.164833 5
ACCTG 8455815 1.5843701 19.655073 6
TCGCC 6544255 1.5785041 17.6586 2
ACGTC 8405745 1.5749886 20.024357 1
TCACG 8389355 1.5719175 6.629565 9
TTTCT 23133665 1.5694677 8.926891 7
TCTTT 22899925 1.55361 15.068421 9
TGTTT 20677195 1.533161 23.68977 9
ATAGC 10525990 1.5320743 5.6180487 2
TTCAC 13194550 1.5266675 7.266786 2
CTTGG 8556120 1.5222554 14.91707 3
GAACC 7041245 1.5185515 45.533512 4
GTTGC 8500970 1.5124433 22.359821 3
ACGTT 11909960 1.5060812 8.762483 3
TTCCA 13015850 1.505991 8.978657 3
TTGTG 12480135 1.4985347 10.324117 8
TGTGT 12395735 1.4884005 22.98194 5
TTGCT 13542225 1.4878162 13.809312 4
GGTTG 7608345 1.4794118 24.430874 2
TGAGA 9259960 1.4730389 26.372068 1
GATGA 9227290 1.4678419 11.738349 3
ATCTT 18692395 1.45966 6.990929 8
CTTGT 13260880 1.4569063 11.757301 7
CGATT 11477305 1.4513695 52.403767 3
CTTCG 8812940 1.4346409 5.696842 1
CGGAA 6076345 1.4322232 6.370816 135-139
TGAAA 12636715 1.4287847 5.886373 9
ACTTC 12334755 1.4271854 9.207701 4
GCCAT 7572560 1.4188744 5.4272966 4
AACCT 10644600 1.417614 27.993017 5
AGGAC 6000020 1.4142329 33.834213 3
TGCTG 7889420 1.4036398 11.162136 9
TTGGT 11661795 1.4002737 22.430744 5
GGTCA 6768420 1.3860431 8.010512 7
TGCAG 6765385 1.3854215 7.534415 9
ATTTC 17682970 1.3808355 17.48705 6
TGTCA 10866695 1.3741544 29.455431 9
GTTCA 10866270 1.3741007 7.9400897 1
ATCCA 10310230 1.3730837 17.509813 1
ATTTG 16018860 1.3671199 34.778023 6
ACTGT 10633990 1.3447276 15.450488 1
CAGGA 5684630 1.339894 33.82483 2
GCTAC 7131550 1.3362421 17.440065 2
TTTGG 11116730 1.3348258 7.7247205 7
GACTT 10550565 1.3341781 22.488894 3
TTGGA 9618685 1.3293581 11.578945 4
GTGGC 4601220 1.3256686 14.83909 8
TACTG 10461735 1.322945 7.9590425 4
GTTCG 7397885 1.3161888 21.746517 4
CAACG 6097715 1.3150645 20.69641 1
TTGGG 6758545 1.3141714 7.0205555 8
GACAA 7814865 1.3092337 10.377044 3
ACGAA 7813020 1.3089246 20.655712 2
CGCCT 5413640 1.3057947 57.786724 1
TGATG 9425355 1.3026389 36.18152 2
CAGAG 5518435 1.300721 8.866221 4
CCTTG 7990050 1.3006843 5.3550296 6
ACACG 6028180 1.3000684 5.757688 145-146
TGTGA 9382790 1.296756 14.3336115 3
GAGAA 7070895 1.2946676 11.770806 1
GTCAG 6308650 1.291891 5.7716146 8
TGGAA 8103645 1.2890967 7.761566 9
TTTGC 11692185 1.2845618 10.119018 7
TGTGG 6595990 1.2825632 10.840709 9
TTTGT 17290750 1.2820648 18.891438 7
GGATA 8048100 1.280261 14.911762 1
TATCA 14240250 1.279921 6.6298137 9
ACTTG 10089050 1.2758169 12.426259 4
GTTGG 6547395 1.2731142 9.277956 4
TGCAA 8682230 1.2637122 5.3049464 9
AGCTA 8616615 1.2541617 13.598652 1
TGACG 6121455 1.253557 5.1327133 9
AACGA 7408110 1.2410895 8.433196 2
CCATT 10692475 1.2371663 12.215246 5
CGAAC 5728855 1.2355145 45.54116 3
TTGTC 11239085 1.2347819 20.599422 8
TCGAT 9736550 1.2312413 5.690459 5
TACGA 8439855 1.2284341 17.934464 1
GAGTG 5486895 1.2280167 29.643902 6
ATCTG 9666575 1.2223926 6.7692194 6
TTCGT 11108240 1.2204067 13.359709 5
TGAGT 8824115 1.219544 33.284454 5
AGTGA 7616415 1.21159 7.579352 3
ATAAC 11690075 1.2093769 9.714016 3
TTACG 9555945 1.2084028 16.928818 4
CTAGG 5900905 1.2083925 16.230976 1
GTGTG 6211175 1.2077377 18.407099 6
GCCTA 6418295 1.2025993 98.40698 2
GTTCC 7386150 1.2023766 12.624564 2
TCCAT 10386095 1.2017168 15.2217865 2
AGTGT 8692385 1.2013382 16.463457 7
GTGAC 5839545 1.1958272 21.242256 4
AATTG 12147590 1.1932842 13.80421 3
GTGAT 8623995 1.1918863 24.754774 1
CTAGC 6284825 1.1775907 6.07225 2
GGTGT 6052065 1.1767995 25.59618 7
CATGA 8027730 1.1684487 17.769533 3
AGGAT 7317875 1.1640995 6.4400015 5
CATGT 9175410 1.160282 18.697208 5
ATCGG 5638780 1.1547143 8.209217 145-146
CACTG 6161650 1.1545113 6.5957828 2
GATCG 5628710 1.1526523 7.545762 145-146
GTATT 13494525 1.151682 47.64683 4
TCTGG 6450430 1.1476232 8.012392 9
TAGGT 8285355 1.1450843 10.65472 1
GTCTT 10409875 1.1436807 18.407724 8
GTCCA 6103805 1.1436731 6.068995 8
GTCTG 6413970 1.1411363 18.758955 6
GCACA 5270215 1.1366018 6.405451 145-146
TGCCA 6025590 1.1290178 21.63159 9
TGGAT 8158275 1.127521 19.735573 5
TGGTT 9383415 1.1267004 10.540246 5
AGATC 7732800 1.1255211 5.9103684 145-146
ACTGG 5494265 1.1251204 18.05768 3
GTCAT 8887895 1.1239241 14.574807 3
GTGAA 7046960 1.1210034 6.5783315 8
CCTGC 4586880 1.1063763 5.0975075 7
CTGTT 10067895 1.106109 15.521258 8
TCTGT 10024135 1.1013014 17.468584 7
GAGAT 6900395 1.0976883 7.811898 5
CACAC 5528465 1.0909286 8.458555 3
TGGAG 4865635 1.0889732 7.5036674 1
AGACA 6483600 1.0862054 9.119761 1
TGGTG 5563005 1.0817037 29.18431 6
GCTAG 5273605 1.0799335 5.0563526 3
TCAGG 5247110 1.0745078 11.234674 1
TTGCA 8489745 1.0735759 6.9924436 8
TGTTC 9763355 1.0726508 18.195255 9
TGGTC 6028380 1.0725344 16.256397 6
CGTTG 6027070 1.0723013 14.329268 4
TTCGC 6582155 1.0714959 11.915953 1
ACGAT 7343605 1.0688732 7.32394 3
TACGT 8443500 1.0677279 25.252634 5
TCCGG 4043990 1.0660653 27.856977 4
AACGT 7312340 1.0643225 13.60982 5
TGACT 8399885 1.0622125 13.057932 5
CAGTA 7269650 1.0581089 5.8336697 1
TTATC 13528785 1.0564418 9.312683 6
CGCGT 4000725 1.05466 8.20348 3
CGGTA 5127270 1.0499668 55.35699 2
GAATT 10637045 1.0449002 13.800726 2
GTTCT 9510300 1.0448489 14.360338 1
GACAT 7167230 1.0432016 17.765106 1
ACGTG 5044785 1.0330756 30.370735 6
CATGG 5004680 1.0248628 26.955153 4
GTGTC 5742695 1.0217069 25.377916 8
CGTCT 6268470 1.0204318 10.390759 7
AATTC 11267090 1.0126919 9.5032625 1
ATTGG 7326265 1.0125325 19.41906 4
TCATG 8006315 1.0124434 10.286134 4
ATGGT 7305365 1.0096439 18.007002 5
AGAGT 6283815 0.9996052 16.459305 3
GGTTC 5613320 0.9986894 13.542317 3
ATTGT 11699350 0.99847394 15.949159 7
GATGT 7144290 0.9873824 26.007824 3
GGCGT 3416220 0.9842554 83.0281 1
AGACT 6743145 0.9814755 9.095172 3
CTGAC 5227265 0.97943527 6.634041 1
ACTGA 6702360 0.97553897 5.143177 4
CGCCA 3489160 0.96869093 8.047507 3
GGAAT 6086210 0.96817106 22.341843 1
GGACA 4052245 0.95513326 30.35442 2
GTCGA 4663600 0.9550161 9.261923 4
ACAAC 6228235 0.9547122 9.49257 4
GGCCT 3621430 0.95467126 75.2682 1
TATTT 18085735 0.9531468 41.792526 5
TGTCC 5838470 0.9504329 17.041851 9
GAGTC 4630250 0.9481867 19.897137 6
GCGGT 3275945 0.9438404 77.87716 1
GATTA 9587610 0.94181186 40.707005 4
GTCCG 3571635 0.9415445 5.130635 8
ATTCA 10432670 0.93769383 6.1893654 7
TTGGC 5267255 0.9371194 12.025477 8
ATGAG 5849255 0.9304771 31.148539 4
ACATC 6979940 0.9295662 5.7013173 6
CTACC 5414130 0.9282001 15.962157 3
AGGTA 5823095 0.9263156 10.83097 2
GTGGA 4137485 0.92600656 8.5401325 8
AGTAC 6332025 0.9216361 5.840625 2
TTGTA 10732150 0.91592884 5.0990796 8
TCCAG 4887790 0.9158276 6.7416244 9
GCGTA 4436050 0.90841824 59.016624 2
CATCG 4801860 0.8997268 6.111728 1
AGGAG 3486755 0.89821 9.78314 3
CTGTC 5509355 0.8968569 13.767989 8
CTCTT 8893940 0.8940571 8.189062 8
AGTGG 3978635 0.8904545 9.137767 7
TCGTT 8102485 0.89017934 10.406025 2
TGTCT 8082470 0.88798034 18.190239 5
CTGGC 3349085 0.8828763 7.8952217 8
CATTG 6957650 0.8798338 6.714375 6
TTCCG 5404655 0.879813 17.206036 3
CAGGT 4290110 0.8785325 5.6205254 4
GATAT 8929030 0.8771181 35.19404 4
CTGAT 6912695 0.874149 10.454421 1
GTGCA 4237820 0.8678245 8.542955 8
GTGTA 6262605 0.8655284 6.5415335 8
TGCGA 4226575 0.8655217 5.7169023 9
CCTAA 6436560 0.8572006 38.0534 3
GCATG 4185635 0.85713804 12.3010435 2
AAGCG 3631675 0.85600287 6.9829683 3
CCTAG 4545080 0.8516138 7.4579363 4
GGATG 3802835 0.85110897 18.316212 6
AGAGG 3291335 0.8478686 10.513737 3
GACTG 4139690 0.8477294 8.853584 6
TCGTC 5181150 0.8434291 6.902263 6
GGAGT 3767765 0.84326 7.501886 2
AGTGC 4109990 0.8416474 9.911204 7
GGTAC 4102365 0.84008604 13.935589 3
GTGCT 4718600 0.8395059 10.75481 8
TAGAG 5246400 0.8345772 6.499434 2
TGTTA 9734665 0.8307991 8.83382 9
GTACG 4052215 0.8298162 13.722077 4
CTGCC 3435545 0.8286691 8.063662 8
GGTGA 3677125 0.82297397 6.106322 7
TCGGA 4014680 0.8221297 5.057873 135-139
GATGC 4012280 0.8216383 5.309452 7
TGTGC 4603240 0.81898177 11.369406 9
ATGTT 9541355 0.81430113 12.126798 8
TATCT 10393725 0.8116298 6.6018777 7
AGTCT 6389705 0.808014 9.970526 7
ATTTA 13046420 0.7913959 7.541074 6
GGATT 5691745 0.78663224 6.0751166 5
GGATC 3840940 0.7865512 11.928586 6
ATGTC 6216755 0.7861435 13.356692 4
GAGGA 3043145 0.7839333 10.498629 4
AGTAG 4925215 0.78348434 5.3195405 4
CTGGT 4380045 0.7792722 15.6865015 4
TGTAG 5629950 0.7780917 8.034043 4
ATCGA 5324995 0.77506137 12.80467 1
TCGAA 5321990 0.77462393 12.794553 2
ATTCC 6638145 0.7680626 12.233427 2
ATGCC 4097795 0.76780593 5.747061 8
ACAGA 4575015 0.7664577 6.3036394 3
TGTAA 7779680 0.7642149 6.6242924 9
GGTAT 5521170 0.76305777 37.36152 3
GACAC 3535045 0.7623861 11.707511 2
TGGGA 3403245 0.761677 9.083969 9
CCTGT 4668890 0.76003927 9.465979 2
CGTGT 4267295 0.7592124 19.240993 7
GAGTA 4767860 0.7584529 8.531998 6
GTGAG 3349400 0.74962604 10.657622 4
GTAGT 5419675 0.7490306 12.552006 5
TGGTA 5383155 0.7439833 7.5371075 6
ATTCT 9494960 0.7414466 8.546623 7
TATTG 8645370 0.73783386 14.603728 6
CACAG 3412340 0.73592293 8.115541 2
ATGGA 4618325 0.73466545 9.552022 4
ACATG 5028090 0.7318463 17.779858 2
ATATT 11910650 0.7225001 21.525465 5
TAATT 11888530 0.7211583 17.211956 5
CGACT 3820545 0.71585745 33.327984 2
TGGCT 3996480 0.71103054 5.5765595 9
TTGCC 4357540 0.70935524 12.414292 8
CTGTA 5600345 0.70819503 7.3510838 3
TCGAC 3735865 0.6999909 14.929033 1
TGCAC 3725125 0.69797856 8.087562 9
ATCGT 5442240 0.6882017 6.092865 1
TAGCG 3350745 0.68616855 7.9165087 3
ATGTG 4941750 0.6829786 11.42294 4
CTTGC 4176120 0.67982227 6.7517486 7
CCACA 3442900 0.6793854 5.4704437 2
GTGGG 2155850 0.67884207 8.710863 8
AGCTC 3606785 0.6758051 8.50134 1
ACAGG 2867010 0.6757676 20.892754 1
CCTAT 5823525 0.6738074 27.731085 3
CGTAT 5312450 0.67178905 36.434044 3
ATTGC 5300100 0.67022735 10.008798 7
TGCCG 2541780 0.67005694 6.843519 9
ATGGC 3262195 0.6680352 5.5022054 8
TGTCG 3742120 0.66577625 13.6643095 9
ACCTC 3876560 0.66459864 9.954206 6
TGCGT 3682240 0.65512276 5.030111 9
GAGAC 2733465 0.6442905 14.72487 2
TCTCA 5524160 0.6391696 11.157748 9
TATTC 8166640 0.63772017 8.322952 6
GGAGA 2470520 0.63642156 9.765422 4
GCTTA 5031160 0.63621837 5.1465917 6
ATTAC 7060045 0.6345605 12.034403 3
ATTAT 10339250 0.62717897 25.041723 5
TCTCC 4202465 0.625948 9.271051 9
ATCTC 5388285 0.62344825 5.5606947 8
CGGTC 2359995 0.62213516 9.754503 6
GGTGC 2117330 0.6100291 12.9205265 7
CCGGT 2308365 0.6085246 27.62163 5
CTCTG 3726400 0.6066132 9.667294 6
GTACT 4794525 0.6062946 8.028628 5
TAACG 4161460 0.605707 13.663465 4
GTCGC 2261935 0.59628487 5.250502 8
ACTCT 5137430 0.59442323 13.393467 5
CGTGG 2060720 0.593719 8.52579 7
GCGCT 2248325 0.59269714 10.084521 5
GCTCT 3577790 0.5824213 7.3803306 2
GAGAG 2258705 0.5818566 26.646004 2
GTCTC 3568720 0.58094484 15.033404 8
TGGCG 1958245 0.5641947 8.7083235 9
GATCC 2983440 0.55900866 7.464042 1
TAGTC 4419960 0.5589287 6.404444 6
ACGCC 2004885 0.5566136 8.05595 2
TTGCG 3114980 0.55419916 6.7596292 8
GACTC 2938655 0.5506173 11.702095 4
ACACT 4101205 0.54618543 7.2290034 3
GTCGT 3046890 0.542085 5.350868 4
CACTC 3154900 0.54087704 9.302269 4
AGCGC 1762590 0.5348153 11.733482 4
TTCTC 5202710 0.52299875 8.876585 8
GTGCC 1951445 0.5144344 14.647694 8
GGACT 2501445 0.51224816 11.246834 4
ACGTA 3476175 0.5059627 6.964888 6
CTAAT 5626785 0.5057384 25.681112 4
CTAGA 3473770 0.5056127 5.946433 1
ATCGC 2647980 0.4961533 5.8345637 1
CGATC 2643515 0.49531674 9.426307 4
GGTCT 2735900 0.48675552 12.742611 7
TAGTG 3519170 0.48636976 11.669807 6
AGCGG 1446785 0.47978288 9.808221 4
TCTAG 3765790 0.47620523 5.732668 4
GTGCG 1650070 0.47540563 8.058511 8
CGTGC 1797990 0.47398102 10.579452 7
TCTCT 4651525 0.4675913 8.429905 7
CGGTG 1609495 0.4637155 19.413853 6
GGTGG 1454215 0.45790866 10.84395 7
TGCCT 2806130 0.4568043 6.053154 9
GATCT 3455395 0.43695405 6.872499 7
ACACA 2815050 0.43151265 6.57481 2
CACAT 3152155 0.419794 5.679718 5
TCGTG 2328385 0.41425276 9.231915 6
TATGC 3124315 0.39508712 6.2135415 7
AACGC 1769965 0.38171977 6.2526455 1
TCCGC 1573500 0.37953535 6.0463495 9
CTCTA 3191290 0.36924627 5.2477913 3
ACTCG 1949400 0.36526 5.3880887 3
TTATG 4183660 0.35705194 17.844738 6
TGCGG 1222060 0.35209066 7.031536 9
CTCTC 2335295 0.3478371 6.1367354 8
CTATT 4439435 0.34666857 18.71057 4
TCTCG 2013795 0.32782167 8.1675625 9
CTAGT 2421750 0.30624387 10.653564 5
TCGCG 1100625 0.2901437 8.203289 2
TATGT 3040145 0.25945935 12.29957 7
TGGGG 581970 0.18325287 8.888698 9