FastQC Report![[OK]](Icons/tick.png)
Basic Statistics
| Measure | Value |
|---|---|
| Filename | BS_CgF_ACAGTG_L004_R1_001.fastq.gz |
| File type | Conventional base calls |
| Encoding | Sanger / Illumina 1.9 |
| Total Sequences | 1786493 |
| Filtered Sequences | 365476 |
| Sequence length | 36 |
| %GC | 37 |
Per base sequence quality
Per sequence quality scores
![[FAIL]](Icons/error.png)
Per base sequence content
Per base GC content
Per sequence GC content
Per base N content
Sequence Length Distribution
Sequence Duplication Levels
Overrepresented sequences
| Sequence | Count | Percentage | Possible Source |
|---|---|---|---|
| GATCGGAAGAGCACACGTCTGAACTCCAGTCACACA | 703490 | 39.3782679249233 | TruSeq Adapter, Index 5 (100% over 36bp) |
| ATCGGAAGAGCACACGTCTGAACTCCAGTCACACAG | 24835 | 1.3901537817388592 | TruSeq Adapter, Index 5 (100% over 36bp) |
| GATCGGAAGAGCACACGTCTGAACTTCAGTCACACA | 23052 | 1.2903493044753043 | TruSeq Adapter, Index 5 (97% over 36bp) |
| GATCGGAAGAGCACACGTTTGAACTCCAGTCACACA | 21504 | 1.2036990909004401 | TruSeq Adapter, Index 5 (97% over 36bp) |
| GATCGGAAGAGCACACGTCTGAATTCCAGTCACACA | 19809 | 1.1088204655713736 | TruSeq Adapter, Index 5 (97% over 36bp) |
| GATCGGAAGAGCACACGTCTGAACTCTAGTCACACA | 19547 | 1.0941548609482377 | TruSeq Adapter, Index 5 (97% over 36bp) |
| GATCGGAAGAGCACATGTCTGAACTCCAGTCACACA | 19271 | 1.0787055980627969 | TruSeq Adapter, Index 5 (97% over 36bp) |
| GATCGGAAGAGCACACGTCTGAACTCCAGTTACACA | 18645 | 1.0436648786197316 | TruSeq Adapter, Index 5 (97% over 36bp) |
| GATCGGAAGAGCATACGTCTGAACTCCAGTCACACA | 15459 | 0.8653266483551852 | TruSeq Adapter, Index 5 (97% over 36bp) |
| GAAGAGCACACGTCTGAACTCCAGTCACACAGTGAT | 12864 | 0.7200699918779419 | TruSeq Adapter, Index 5 (100% over 36bp) |
| GATTGGAAGAGCACACGTCTGAACTCCAGTCACACA | 7040 | 0.3940681547590727 | TruSeq Adapter, Index 5 (97% over 36bp) |
| GATCGGAAGAGTACACGTCTGAACTCCAGTCACACA | 6257 | 0.3502392676601588 | TruSeq Adapter, Index 5 (97% over 36bp) |
| AGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG | 4856 | 0.27181746583949673 | No Hit |
| GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA | 2544 | 0.14240190137884673 | No Hit |
| CTCCAGTCACGATCAGATCTCGTATGCCGTCTTCTG | 2359 | 0.13204641719838814 | Illumina PCR Primer Index 9 (100% over 36bp) |
| GATCGGAAGAGCACACGTCTGAACTCCAGTCATACA | 2324 | 0.1300872715426257 | TruSeq Adapter, Index 5 (97% over 36bp) |
| GATCGGAAGAGCACGCGTCTGAACTCCAGTCACACA | 2229 | 0.12476959047698481 | TruSeq Adapter, Index 5 (97% over 36bp) |
| AACTCCAGTCACGATCAGATCTCGTATGCCGTCTTC | 2092 | 0.11710093462442897 | Illumina PCR Primer Index 9 (100% over 36bp) |
| GTCACGATCAGATCTCGTATGCCGTCTTCTGCTTGA | 2065 | 0.11558959368998367 | Illumina PCR Primer Index 9 (100% over 35bp) |
| GATCGGAAGAGCACACGTCTGAACTCCGGTCACACA | 1854 | 0.10377874416524444 | TruSeq Adapter, Index 5 (97% over 36bp) |
| NATCGGAAGAGCACACGTCTGAACTCCAGTCACACA | 1848 | 0.10344289062425657 | TruSeq Adapter, Index 5 (97% over 36bp) |
| ACTCCAGTCACGATCAGATCTCGTATGCCGTCTTCT | 1827 | 0.10226740323079911 | Illumina PCR Primer Index 9 (100% over 36bp) |
Kmer Content
| Sequence | Count | Obs/Exp Overall | Obs/Exp Max | Max Obs/Exp Position |
|---|---|---|---|---|
| CACAC | 1881770 | 52.632 | 788.6612 | 31 |
| CGTCT | 957400 | 35.47883 | 1033.2944 | 16 |
| CTCCA | 912115 | 31.536528 | 924.60876 | 24 |
| ACTCC | 911770 | 31.5246 | 928.2129 | 23 |
| GTCTG | 954270 | 30.660393 | 917.2786 | 17 |
| GTCAC | 971045 | 29.109467 | 843.98804 | 29 |
| CAGTC | 943490 | 28.283434 | 823.7566 | 27 |
| CACGT | 935915 | 28.056358 | 842.49445 | 14 |
| CCAGT | 935780 | 28.052313 | 820.1977 | 26 |
| TCCAG | 935590 | 28.046612 | 821.4961 | 25 |
| ACGTC | 928300 | 27.828077 | 834.6313 | 15 |
| TCGGA | 957095 | 24.875998 | 762.9887 | 3 |
| ATCGG | 956295 | 24.855202 | 762.4156 | 2 |
| GATCG | 919110 | 23.888721 | 761.4736 | 1 |
| AGCAC | 953450 | 23.121277 | 695.8242 | 10 |
| GCACA | 953080 | 23.112299 | 693.3761 | 11 |
| ACACG | 934830 | 22.66974 | 681.2194 | 13 |
| AGAGC | 973680 | 20.47202 | 616.5415 | 8 |
| GAGCA | 971565 | 20.42755 | 615.445 | 9 |
| CGGAA | 957015 | 20.12163 | 616.8122 | 4 |
| GGAAG | 984875 | 17.953789 | 540.88837 | 5 |
| TCTGA | 954535 | 17.704891 | 528.5755 | 18 |
| TCACA | 962775 | 16.661518 | 487.36795 | 30 |
| AACTC | 930560 | 16.104017 | 476.84702 | 22 |
| AGTCA | 967630 | 14.5187645 | 422.6889 | 28 |
| TGAAC | 954675 | 14.324382 | 426.60907 | 20 |
| CTGAA | 954450 | 14.321008 | 426.74716 | 19 |
| GAACT | 954145 | 14.316429 | 426.10968 | 21 |
| ACACA | 971565 | 13.601307 | 404.99133 | 32 |
| GAAGA | 1021490 | 10.749889 | 312.15918 | 6 |
| AAGAG | 1016205 | 10.694272 | 311.62973 | 7 |
| TTTTT | 912010 | 9.2334585 | 9.702301 | 21 |
| GAGAG | 280710 | 5.117206 | 6.4568205 | 20 |
| ATTTT | 498230 | 4.080503 | 4.602185 | 2 |
| TTTTA | 474315 | 3.884639 | 4.317824 | 2 |
| TTTTG | 256115 | 3.6334894 | 3.9854472 | 4 |
| TATTT | 428765 | 3.511585 | 4.562988 | 1 |
| GTTTT | 236665 | 3.3575532 | 3.986215 | 1 |
| TTTGT | 230775 | 3.2739923 | 3.6745098 | 3 |
| TTTAT | 398865 | 3.2667036 | 3.7629802 | 3 |
| TGTTT | 224810 | 3.189367 | 3.5179162 | 9 |
| TTGTT | 223315 | 3.168157 | 3.4974794 | 4 |
| AGAGA | 297775 | 3.1337051 | 3.9043734 | 15 |
| TTATT | 375750 | 3.0773914 | 3.5116072 | 1 |
| TTTGA | 190955 | 2.191487 | 11.03623 | 18 |
| GTTTG | 100920 | 2.0062737 | 17.320934 | 17 |
| CCGTC | 31550 | 1.8895952 | 9.1985655 | 27 |
| CACAG | 69650 | 1.6890206 | 33.711567 | 32 |
| TTGAA | 169135 | 1.5702194 | 8.652911 | 19 |
| TGCCG | 28960 | 1.5038292 | 7.3110805 | 25 |
| GCCGT | 28475 | 1.4786443 | 7.310835 | 26 |
| TGAAT | 128500 | 1.1929712 | 8.202911 | 20 |
| GAATT | 122950 | 1.141446 | 7.9373665 | 21 |
| CTCGT | 30065 | 1.114133 | 5.2111025 | 19 |
| TCTCG | 29720 | 1.1013483 | 5.2111177 | 18 |
| TTGGA | 62475 | 1.004704 | 5.6497326 | 3 |
| AGTTA | 105885 | 0.98301756 | 7.643366 | 28 |
| GTGAT | 58595 | 0.94230705 | 9.434917 | 32 |
| ATTGG | 56350 | 0.9062038 | 5.642821 | 2 |
| GATTG | 51145 | 0.82249856 | 5.5172844 | 1 |
| CGTTT | 31955 | 0.7326915 | 18.275394 | 16 |
| AGTGA | 51950 | 0.67582846 | 7.698933 | 31 |
| ACTTC | 29290 | 0.6265997 | 18.088905 | 23 |
| CTTCA | 28755 | 0.6151545 | 18.023926 | 24 |
| ATGTC | 31710 | 0.5881629 | 13.430636 | 15 |
| TCAGT | 31055 | 0.5760138 | 15.914518 | 26 |
| CATGT | 30985 | 0.57471544 | 13.347511 | 14 |
| TACAC | 33200 | 0.57455003 | 12.924563 | 31 |
| TTCCA | 26685 | 0.570871 | 15.313148 | 24 |
| ACGTT | 30360 | 0.5631228 | 15.199231 | 15 |
| TGTCT | 24545 | 0.5627888 | 16.60266 | 16 |
| TTCAG | 29605 | 0.5491189 | 15.944728 | 25 |
| CAGTG | 20995 | 0.5456841 | 14.491758 | 30 |
| CACAT | 30890 | 0.5345738 | 12.367144 | 12 |
| ACTCT | 24470 | 0.52348566 | 15.237807 | 23 |
| ATTCC | 24325 | 0.5203837 | 15.381559 | 23 |
| CTCTA | 24020 | 0.5138588 | 15.186508 | 24 |
| CAGTT | 26885 | 0.4986679 | 13.537427 | 27 |
| GTTAC | 25820 | 0.4789141 | 13.849359 | 29 |
| TAGTC | 25445 | 0.47195852 | 13.665027 | 27 |
| TCTAG | 25430 | 0.47168028 | 13.523195 | 25 |
| ACATG | 30505 | 0.457711 | 10.792571 | 13 |
| CTAGT | 24670 | 0.45758367 | 13.4990015 | 26 |
| TACGT | 21905 | 0.40629795 | 10.486906 | 14 |
| CATAC | 22345 | 0.3866964 | 9.662264 | 12 |
| ACAGT | 25680 | 0.3853145 | 8.365917 | 29 |
| ATACG | 22030 | 0.33054823 | 8.476105 | 13 |
| AACTT | 29540 | 0.31630555 | 9.297028 | 22 |
| AGCAT | 19175 | 0.2877105 | 8.559858 | 10 |
| GCATA | 19060 | 0.28598496 | 8.526252 | 11 |
| AATTC | 26300 | 0.28161258 | 7.9299684 | 22 |
| TTACA | 25495 | 0.27299288 | 7.9917297 | 30 |
| CTCCG | 3415 | 0.20453146 | 5.586447 | 24 |