FastQCFastQC Report
Tue 9 Jul 2019
SL_C_1_R2.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename SL_C_1_R2.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 38627814
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

[WARN] Overrepresented sequences

Sequence Count Percentage Possible Source
GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 47999 0.12426020276477463 No Hit
TGACTGAACTCATGTCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTC 46926 0.12148241161148803 Illumina Single End PCR Primer 1 (96% over 33bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
GGGGG 18161890 5.2524753 24.359642 70-74
TGGTG 16711000 3.315911 25.455154 6
TTGGT 19113195 3.1414661 24.026052 5
TGCTG 12541740 3.0497777 17.785263 9
TCTTG 14889525 2.9990933 19.21084 9
TGAAG 22072410 2.8884468 9.361696 9
TGGCT 11168980 2.7159636 12.129081 9
CCTTC 7435270 2.7153585 6.063732 65-69
CGTCG 7285215 2.6209824 11.191347 25-29
GCTCT 8628940 2.5714488 12.17039 2
TCAAG 16001550 2.5661774 5.0654507 9
GTCGT 10528660 2.5602565 8.921632 4
CTTGG 10517180 2.557465 13.335891 3
TTGCT 12687910 2.5556374 21.121246 4
TCGTG 10466545 2.5451522 9.915661 6
TTGAA 22827875 2.4744508 11.6158495 8
TGATG 16855115 2.4719439 29.369091 2
CTGGT 9818945 2.387675 19.753582 4
TGCTA 12855845 2.3105612 12.959512 9
TTGAC 12604375 2.265365 5.6869593 8
TTCAA 16936620 2.249832 7.5709133 8
AAGGT 17033080 2.2289884 8.326136 4
ATGCT 12368780 2.223022 7.5211096 15-19
CTCTT 8994890 2.2203171 9.520256 8
GCCGA 6801130 2.1832852 197.93878 1
TCTTC 8596530 2.121985 10.423602 9
GTTGC 8703165 2.1163507 25.510044 3
GGTGA 11924435 2.1112807 7.719089 7
ACTTG 11740415 2.110087 10.667634 4
CTGAA 13140185 2.1072986 8.077923 8
CTGCT 7056005 2.1027098 24.196697 4
TGAAA 21725280 2.1012924 14.631052 9
ACAAC 11760735 2.0624187 10.566111 4
TGGTA 14047730 2.0602174 8.414725 6
TGGTC 8410375 2.045153 11.564108 6
CTTCT 8235195 2.0327926 14.69934 5
TGCCA 7487500 1.9909713 13.055467 9
CAACT 10074465 1.979961 15.941887 1
GGTGG 8157305 1.9541072 8.570184 7
GTCTT 9597050 1.933067 12.070627 8
GTGGT 9593855 1.9036784 6.687883 8
CCTTG 6373600 1.899351 8.072488 6
CAGCC 4790465 1.884591 6.201494 60-64
TTGCC 6220590 1.8537534 12.181522 8
GTCAA 11556635 1.853344 6.821641 8
CTGGC 5103240 1.835979 7.7926564 8
CTCAA 9298710 1.8274997 5.544482 8
ACTGG 8396060 1.8217707 17.628332 3
TTTGG 11070645 1.8195839 9.920476 7
TGCAG 8384710 1.8193078 9.570971 9
TGGTT 11009540 1.8095405 10.873026 5
TTGGC 7398260 1.7990364 11.465577 8
TCGTC 5980705 1.782267 10.251499 5
CCAAG 7460255 1.7700664 9.132524 1
CCGAT 6653405 1.7691803 164.33855 2
ATGGT 11903930 1.7458111 15.404747 5
GCCTA 6500845 1.7286139 124.301636 2
AGCTC 6492760 1.7264639 10.861089 1
TCAAA 14486825 1.7171345 6.7296753 9
CTTGC 5747015 1.7126267 8.1532 7
TTTGA 14080040 1.7104465 7.9970403 7
GAAGG 10775730 1.7024038 9.980203 3
CGTTG 6992050 1.7002584 18.666437 1
TGTTG 10276295 1.6890236 21.858818 9
CTCGT 5646225 1.6825911 9.269466 4
ACCTT 7624760 1.6793959 11.104797 5
GTTGG 8395210 1.665835 15.238081 2
TTATC 11154515 1.6606048 9.649922 6
AACGT 10348975 1.659671 12.921359 5
TGACT 9223195 1.6576707 14.461308 5
TCAGC 6229345 1.6564204 11.430744 9
TTCCA 7513695 1.6549332 15.763244 3
AACTG 10267020 1.6465276 13.0085745 2
GGCTC 4566145 1.6427499 5.691044 10-14
TGCTC 5502765 1.6398395 8.156411 9
TCTCA 7438680 1.6384107 12.407073 9
TTCTT 9781955 1.6320502 14.242216 8
GCTGT 6702865 1.6299372 9.05807 4
AATTG 14940105 1.6194481 13.926669 6
TGCCG 4499565 1.6187966 11.56053 9
GTGAA 12305970 1.6103878 11.175221 8
ATCGG 7397765 1.6051614 6.3993974 145-146
GGTGC 5408825 1.5878688 11.905414 7
GGTAA 12019200 1.5728605 5.227162 7
ATTGC 8743470 1.5714504 12.689263 7
CTGCA 5899225 1.5686394 6.618855 8
CTTCG 5222045 1.5561843 5.75389 1
ACTTC 7035900 1.5496963 13.614568 4
TTGGA 10541760 1.5460372 11.48718 3
AGCTA 9581960 1.5366644 11.154339 1
GTGAC 7073125 1.5347213 18.113592 4
TTTCA 10306890 1.5344164 7.014178 7
GACTG 7061680 1.5322379 8.365383 6
TCAAC 7770770 1.5272099 6.608508 9
CGAAG 7877235 1.5251048 12.219934 2
CGTCA 5715660 1.5198284 13.909568 2
TTCTC 6098605 1.5053921 10.115216 8
TGCTT 7461475 1.502913 35.372444 5
GGTGT 7557390 1.4995891 17.202322 7
CGTGA 6886220 1.4941665 7.4397573 7
GGTTT 9069985 1.490753 5.8236966 5
GGTAC 6842380 1.4846544 12.89873 3
GATGA 11295680 1.478179 9.15449 3
GTGCT 6054035 1.4721612 15.025217 8
GTGCC 4064590 1.4623067 11.11985 8
GCTTC 4899475 1.4600574 11.896783 6
TTGTC 7201735 1.4505953 16.972242 8
AACCT 7380230 1.450456 36.123356 5
CATCG 5448475 1.4487823 10.636627 3
ATTGA 13348185 1.4468901 8.507916 7
GAGCG 5499915 1.4407061 7.068297 25-29
TATCG 7997550 1.4373872 6.15786 9
GTTCA 7983830 1.4349215 10.5279255 1
GGTTG 7223235 1.4332838 20.85268 2
TTCGT 7093095 1.4287127 14.971108 5
GCGTC 3925025 1.4120959 9.484199 25-29
TATTG 11621455 1.411777 18.26572 6
CATGG 6463490 1.4024432 23.738733 4
AGCAA 9790760 1.4010342 5.401719 2
TTCAG 7726495 1.3886709 7.335692 8
TCGTA 7677810 1.3799208 7.6592665 1
ATTGG 9381400 1.3758608 17.81026 4
TAAAA 19130415 1.3675776 7.2356076 9
CTGTT 6765445 1.3627166 14.718452 8
TCGGA 6277160 1.3620132 5.652888 20-24
CGTGT 5581125 1.3571634 16.917715 7
GGTAT 9234090 1.3542567 32.645317 3
TCGTT 6661945 1.3418692 12.061221 2
GAACC 5646450 1.3397119 44.581932 4
CGGAA 6885415 1.3330793 5.2622156 20-24
TCCAT 6050085 1.332565 24.07661 2
CCATG 5005385 1.330962 29.07803 3
GCTTG 5467600 1.3295575 19.598974 6
ATCTT 8908470 1.3262297 5.51577 8
CGTTC 4447450 1.3253527 21.345657 1
CGGTA 6106275 1.3249348 48.220554 2
GACTT 7364360 1.3235852 21.787962 3
GTTCT 6568135 1.3229738 16.307322 1
GTGGC 4504515 1.3223906 10.741003 8
CACCT 4050625 1.3199583 19.10174 4
GTAAA 13640475 1.3193214 6.1162314 8
GCGGT 4489285 1.3179196 65.05807 1
GTGAT 8978020 1.3167019 22.595482 1
CGAAC 5548985 1.3165866 44.57613 3
ATCGT 7319680 1.3155549 7.19818 4
CGTGG 4474740 1.3136494 8.752374 7
GGTCA 6053205 1.3134198 6.3467174 7
CACAG 5532150 1.3125923 6.428409 2
CTCAG 4929335 1.3107398 5.2801065 8
GTGTT 7947330 1.3062322 20.902136 8
TTGCA 7267380 1.306155 9.882841 8
CGTGC 3629385 1.305734 12.470318 7
GCTAC 4890665 1.3004571 18.232798 2
AGGTT 8852505 1.2982941 15.612731 1
TGAAC 8065115 1.293407 5.4371276 9
CAAGG 6653815 1.2882396 7.46396 2
TGTAG 8756250 1.2841774 6.245324 4
TGTCC 4304745 1.2828263 14.818473 9
TGGAA 9773545 1.2789888 13.404192 9
GTATT 10479175 1.2730128 54.954956 4
CTGAT 7072725 1.27117 8.27943 1
CTTGT 6237270 1.2563299 11.604385 5
TCACA 6375955 1.2530831 6.035408 9
CGGTG 4257320 1.2498215 17.606615 6
TGCAA 7791360 1.2495047 10.848448 9
ATTTG 10236930 1.2435846 39.381706 6
AGGTA 9467390 1.2389246 7.7951465 2
ACACA 7054245 1.2370663 5.4707737 2
AGAGC 6368245 1.2329506 5.5186205 25-29
TTCAC 5582945 1.2296747 12.922604 2
CTACC 3763310 1.2263323 22.325397 3
ACGTT 6817470 1.2252934 5.144527 3
GATCG 5635700 1.2228298 6.0656 145-146
ACATG 7622140 1.2223668 16.308733 2
ACTGT 6667840 1.1984007 17.196198 1
TTGTT 8762160 1.1929138 21.691957 8
CTGTG 4898945 1.1912775 20.259855 2
TAGGG 6723915 1.1905026 5.4985485 35-39
GGTTC 4885385 1.1879803 11.653903 3
ATCCT 5363020 1.1812351 7.251925 2
CCTAA 6002460 1.1796792 54.53046 3
CCTAG 4419720 1.17523 8.758215 4
CGCCT 2662110 1.1737016 83.93587 1
ACGTG 5383090 1.1680187 27.654322 6
CCACA 4005855 1.1647726 5.5985227 2
TTATG 9504360 1.1545919 19.634169 6
CATTG 6398690 1.1500268 7.491024 6
GATAT 10596755 1.1486461 33.8144 4
ACTGC 4317735 1.1481117 5.477061 7
GCTTA 6378435 1.1463863 7.3571258 6
TTAAA 14225450 1.1396875 5.7530856 8
ACCTG 4282780 1.138817 24.815548 6
GGCCT 3162865 1.1378956 99.35909 1
ATCGA 7067085 1.1333524 15.084713 1
ATCCA 5755435 1.1311307 21.472956 1
TGTTC 5612855 1.1305584 16.6332 9
AATTC 8503365 1.1295727 12.454998 1
CGATG 5198065 1.1278721 6.4262667 50-54
GTCAG 5180060 1.1239654 6.6745358 8
CCATC 3445810 1.12287 5.030494 6
GATAA 11591885 1.1211796 7.976443 2
CCTGA 4190645 1.1143177 5.207706 7
CAGGA 5752660 1.1137676 19.841347 2
TCTTT 6667375 1.1124045 8.348682 9
GTAGT 7517720 1.1025367 9.531982 5
ACACT 5604065 1.1013815 9.599668 3
TAACG 6812085 1.0924579 13.238424 4
TGGCA 5026080 1.090555 9.149156 9
ACGAA 7616235 1.089865 13.3764105 2
GATGT 7408575 1.0865296 19.139088 3
TCAGG 5003000 1.0855471 10.113127 1
CTCTA 4918990 1.0834349 8.994096 3
ATTAT 12043655 1.0813602 27.270287 5
TGGAT 7344855 1.0771846 14.873828 5
GACAA 7523725 1.076627 8.624411 3
TCCAC 3301325 1.0757873 6.2696238 1
GACTC 4025135 1.0703076 12.551717 4
GTTCG 4368775 1.0623561 18.768988 4
GTGTC 4351605 1.0581808 16.013481 8
CGCTG 2934435 1.0557139 5.743563 6
TGTCT 5239225 1.0553007 26.77519 5
CACTC 3237115 1.0548636 15.919756 4
ATCGC 3947930 1.0497783 5.0069323 1
ATTCA 7896690 1.048983 7.6633883 7
AGTCA 6531880 1.0475214 5.2630415 7
CAACG 4407520 1.0457556 14.144273 1
CTGCC 2371835 1.0457219 8.017422 8
TTCTG 5172595 1.0418798 16.335972 2
CGTAT 5764455 1.0360367 41.320972 3
ATTCT 6937945 1.0328718 9.0607195 7
TGTCA 5725355 1.0290093 16.918201 9
TCGAC 3849905 1.0237129 16.41456 1
TACCA 5184695 1.0189617 13.462408 4
TTTCT 6100900 1.0178921 10.60426 7
TACTG 5656275 1.0165937 5.3562837 4
TCGAA 6263240 1.0044392 15.122962 2
ACGTA 6248520 1.0020787 8.035641 6
CTCTG 3361140 1.0016294 14.140235 6
TATCT 6673630 0.9935225 5.4722395 7
TTACG 5449465 0.9794239 18.80942 4
TATTT 9707060 0.9767695 61.5021 5
ACTCT 4432305 0.9762399 20.055695 5
TTTGC 4832865 0.9734503 14.794566 7
AGCGT 4464930 0.968797 5.817003 25-29
TCTGA 5367520 0.96469605 7.8595314 7
ACGTC 3623760 0.9635796 12.315028 6
TGTTA 7903830 0.9601591 8.161289 9
CATGA 5961955 0.9561221 16.313229 3
ATGTC 5285455 0.94994676 15.210074 4
GATTA 8685145 0.94143516 33.42254 4
CGATT 5224290 0.93895364 55.422424 3
CCTCT 2570075 0.93859065 5.6238074 7
ACCAT 4748100 0.93315655 15.0560465 5
TTTGT 6801595 0.92599493 21.073517 7
CTATT 6219975 0.9259857 28.321423 4
CTAGC 3480925 0.9255989 5.976608 4
GTTGT 5621860 0.92401534 7.8472304 7
ACCTA 4684505 0.92065805 7.787464 6
GGTCT 3740030 0.909464 7.7897663 7
TTCCG 3048720 0.90852726 27.968325 3
TGGCG 3088100 0.90657365 6.963894 9
ACCTC 2760520 0.8995578 12.140798 6
GTCCG 2493280 0.89700073 9.403255 45-49
CATGC 3364635 0.8946767 5.133777 7
GTGGA 5040250 0.89240134 8.503781 8
GTAGG 5036185 0.8916816 7.3385086 3
TCACC 2728530 0.8891334 19.106422 3
AGTCT 4945865 0.88891274 6.3329473 5
TGTGA 6060965 0.88889134 14.576919 9
TGTCG 3648090 0.8871069 14.448541 3
CTGAC 3320085 0.8828305 5.2539353 1
ACTCG 3317930 0.8822576 8.265354 3
GTACT 4900715 0.88079804 6.1492095 5
CCATT 3970415 0.874506 17.94167 5
CATCT 3968215 0.87402153 8.858488 5
CGACT 3270250 0.8695791 32.231003 2
GTTCC 2906255 0.8660723 21.33902 2
CTGTA 4786200 0.8602163 7.6503572 3
AGACT 5351395 0.8582063 7.5645347 3
CCTGC 1941730 0.85609215 8.486201 7
GGACA 4401115 0.85209614 22.936703 2
TATTC 5686320 0.84653884 9.776661 6
CTAGG 3869840 0.83967495 10.728859 1
TCTGC 2816035 0.83918643 24.189419 3
AGGAC 4328715 0.8380788 22.891218 1
ATTAA 10432745 0.8358308 5.2499247 7
ACAGG 4311065 0.8346617 10.819001 1
CTAAT 6256475 0.8310996 36.86712 4
TCGCA 3124460 0.83081275 5.611356 9
ATTCC 3770165 0.8303998 20.644646 2
CGGTC 2304065 0.82892734 7.995292 6
TCCTA 3697415 0.81437624 7.2495513 3
GATCT 4522485 0.8128193 7.0255466 5
GGATA 6190170 0.81006 10.770492 1
TGAGT 5509340 0.8079909 30.56674 5
CCTAT 3666920 0.80765957 41.975716 3
ATATT 8974905 0.80582726 26.947378 5
TGTTT 5915460 0.8053532 20.52286 9
AGTGT 5488785 0.80497634 10.954683 7
GTGTA 5486285 0.8046097 6.7637043 8
CACAC 2766905 0.80452615 9.06154 3
GTGTG 4033650 0.80038446 13.345403 8
GTGCA 3685850 0.7997529 9.279784 8
AGTGG 4516860 0.79973257 6.831874 7
AGCGC 2490630 0.79953706 10.504958 4
TATGC 4441320 0.79823154 6.9528513 7
TGTGG 4013100 0.7963068 16.677013 9
GAATT 7327690 0.79429245 13.159381 2
GCATC 2980515 0.7925368 10.636817 2
AGGTC 3635295 0.78878355 6.071898 5
GGCGT 2683535 0.78780544 67.26372 1
CCGGT 2181080 0.78468126 32.7519 5
ATGTT 6434770 0.7816974 8.980001 8
ATGGA 5872455 0.7684831 6.5489945 4
GAGTG 4322475 0.7653157 20.986483 6
CCTGG 2125650 0.7647394 6.0090036 7
ATTGT 6201950 0.75341433 15.204954 7
GGATG 4250825 0.75262976 11.533032 6
GACAT 4687710 0.7517706 16.273708 1
TAGAA 7730190 0.74767226 5.6973 9
CGATA 4639430 0.744028 50.037888 3
GATCC 2788755 0.74154675 8.750001 1
GACAC 3121865 0.74071306 11.5944195 2
TCTCT 2986890 0.7372901 9.23918 7
CTACT 3320740 0.7314115 6.8655143 1
AACGA 5069935 0.7254956 5.738402 2
ATTTC 4836015 0.7199515 19.063478 6
TCTGG 2941910 0.7153849 9.027324 7
ATAAC 6013915 0.71283394 9.788169 3
GCAAG 3674645 0.71144485 7.3133225 3
GTCAT 3921940 0.7048843 6.4084826 3
TACTC 3177875 0.69994473 6.8365574 2
CTGGA 3171260 0.6880975 6.1057234 8
GGACT 3148355 0.68312764 10.131832 4
GGATT 4656125 0.6828598 6.857793 5
CCTGT 2286255 0.6813105 12.687632 2
ATTAC 5124685 0.6807545 13.901671 3
GGAAT 5186550 0.67872393 15.860957 1
CTGTC 2275610 0.6781382 11.419361 8
TAGCA 4191940 0.6722638 6.0551305 1
CTAGT 3720795 0.6687328 12.694688 5
TAATT 7442745 0.6682596 23.942768 5
ATGAG 5019420 0.65685296 22.459404 4
AGTGA 5007120 0.6552434 6.395564 7
TAGTG 4427850 0.64938134 10.16468 6
CGTCT 2170880 0.6469284 7.8157935 7
TGTGC 2640130 0.64200103 8.68282 7
GCGCT 1780485 0.6405604 11.15862 5
TATTA 7056915 0.6336172 5.6532855 6
CGCCA 1608655 0.63285226 8.025518 3
TTGTG 3841050 0.63131934 13.708713 8
GCCAT 2363195 0.62838775 5.430066 4
ACGCC 1597170 0.62833405 8.035693 2
GTCTC 2092315 0.6235158 10.142741 6
AGTGC 2821215 0.61214507 9.036921 7
CACAT 3108050 0.6108332 6.0347023 5
CTGAG 2795515 0.6065687 8.5159645 1
ACGAT 3765540 0.6038817 6.4387884 3
TCTGT 2972305 0.5986907 18.526527 7
TTGTA 4898470 0.59506726 6.952901 8
GGATC 2739665 0.5944504 6.320529 6
GTCTG 2433270 0.5916988 20.285536 6
TACGA 3645365 0.58460927 14.972726 1
TACGT 3249530 0.5840331 28.484898 5
ATCTG 3219055 0.5785558 7.14537 6
AGACA 4030050 0.57669055 6.991477 1
GCATG 2645385 0.57399356 9.980783 2
CGTAG 2641715 0.57319725 9.224445 2
ACGAC 2393170 0.56781834 14.145976 1
TAGGT 3861510 0.5663228 7.145009 1
TCTCG 1871025 0.5575708 5.645775 9
CATGT 3032555 0.5450365 12.282796 5
CAGAG 2786225 0.53943866 5.2539253 4
TCCGA 2016810 0.5362819 6.933339 45-49
GTCGA 2404930 0.52181983 6.574459 4
ATTTA 5802320 0.52097124 10.738869 6
TGTGT 3146380 0.5171426 18.17638 5
TGAGC 2365395 0.5132416 5.248532 9
GCGTA 2342895 0.50835955 49.83985 2
CGATC 1896440 0.5042748 10.6788435 4
TGTAA 4639495 0.5029028 8.672697 9
TCCGG 1350735 0.4859503 33.764816 4
GAGAC 2400875 0.46483135 9.134316 2
GAGTA 3541875 0.463498 7.558796 6
CTCTC 1260115 0.46019363 6.705541 6
TGAGA 3514760 0.45994967 8.427576 1
TATGT 3775505 0.45864922 10.605818 7
TTCGC 1486115 0.44286647 11.338649 1
AGCGG 1662745 0.43555707 6.503085 4
TCGCC 978450 0.4313903 16.82195 2
GTGAG 2422350 0.42888913 7.9601316 4
TTGCG 1742750 0.4237849 5.2433734 8
AGCAT 2588725 0.41515526 13.738333 1
GTCTA 2264510 0.40699688 6.3472786 6
ATGTG 2746105 0.40273932 6.7284083 4
TAGCG 1772435 0.3845816 7.102275 3
TTATA 4266835 0.3831051 5.3296027 6
TCTAG 2122905 0.38154644 7.339049 4
TCGCG 1026600 0.36933717 6.7448487 2
CGCGT 1023940 0.36838013 6.7526016 3
GAGTC 1636260 0.35503444 10.148356 6
TGTAC 1820450 0.3271867 5.129936 9
ATAGC 1934515 0.31023923 5.211771 2
GTACG 1387605 0.30108148 12.711205 4
TGCGA 1307985 0.28380555 5.9113393 9
GTGCG 583940 0.17142728 5.0218744 8