FastQCFastQC Report
Fri 13 Dec 2013
Y38_control_GTGAAA_L005_R1_001.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename Y38_control_GTGAAA_L005_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 3448820
Filtered Sequences 165714
Sequence length 36
%GC 19

[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

[OK] Per base GC content

Per base GC content graph

[FAIL] Per sequence GC content

Per sequence GC content graph

[OK] Per base N content

N content graph

[OK] Sequence Length Distribution

Sequence length distribution

[OK] Sequence Duplication Levels

Duplication level graph

[FAIL] Overrepresented sequences

Sequence Count Percentage Possible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTG 77030 2.233517550930463 TruSeq Adapter, Index 1 (97% over 35bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CACAC 109395 4204.779 125131.945 12
ACTCC 107580 2771.5085 81655.3 23
CTCCA 107200 2761.7192 81369.75 24
CCCCC 55 1296.6907 11315.061 16
CACGT 223055 420.2416 6267.3125 14
GCACA 112270 315.58163 9395.4375 11
AGCAC 111900 314.54163 9350.155 10
ACACG 111680 313.9232 9331.364 13
CCCAC 260 247.50446 4264.085 12
TCACG 111865 210.75667 6171.673 30
ACGTC 111600 210.2574 6197.7705 15
GTCAC 111425 209.9277 6162.143 29
CAGTC 110750 208.65599 6132.3345 27
TCCAG 110445 208.08136 6129.345 25
CCAGT 110405 208.00598 6115.912 26
CTCCC 255 162.70052 4593.782 24
CGTCT 111195 140.41432 4151.4507 16
CACCC 140 133.27162 2284.3308 12
AACTC 110645 115.09395 3390.2222 22
ACCCC 85 80.91492 913.76025 23
CCTCC 115 73.37474 1122.9244 24
CCCCA 75 71.395515 1218.453 24
CGCCC 35 60.345394 1379.1788 10
CCACC 45 42.837307 304.57745 12
CACGC 605 42.11797 857.5528 12
CGCAC 525 36.54865 857.5528 12
CCACG 525 36.54865 345.24854 13
CGCGC 210 26.478765 60.52603 29
CGGAA 124350 25.56208 704.4974 4
CTCCG 520 24.263557 701.7593 24
AGAGC 115950 23.835331 697.0917 8
GAGCA 114725 23.583513 697.3577 9
CCGTC 435 20.2974 134.36479 15
CCCAG 280 19.492615 467.83887 26
CCCTC 30 19.141237 408.28293 22
ATCGG 133145 18.344856 478.15436 2
TCGGA 129720 17.872957 476.71786 3
GATCG 127265 17.534704 477.4836 1
GCTCC 375 17.497757 492.68167 23
GCCCC 10 17.24154 275.8318 11
GCACC 240 16.707954 423.2177 11
GCCCA 235 16.359873 334.11926 11
CGCTC 350 16.33124 470.64258 2
ACGTG 118015 16.26023 460.8833 32
GCCAC 225 15.663708 233.88347 11
AGCCC 200 13.923295 278.43674 10
CGGCG 1410 13.001693 22.132683 28
TCGCG 3750 12.79631 61.151318 30
CGTCG 3405 11.61905 56.7739 16
CGCGG 1235 11.388009 23.61169 31
CGCGT 3275 11.175445 55.703175 31
CACCG 155 10.790554 111.37001 14
GTCTG 114475 10.571563 311.2827 17
CCAGC 145 10.094389 267.3365 26
GCGCG 1075 9.912638 22.131271 30
CGCGA 1890 9.622241 15.476657 24
CCCCT 15 9.570619 102.11159 31
ACGCG 1870 9.520418 69.229546 13
CGACG 1735 8.833116 13.850868 32
TGAAC 115955 8.820892 254.464 20
AGTCA 114905 8.741018 254.07971 28
CTGAA 114510 8.71097 255.04341 19
GAACT 114425 8.704503 254.85384 21
ACGCC 125 8.70206 167.06082 23
CCCGC 5 8.62077 275.87378 30
CCCCG 5 8.62077 275.82538 12
CGTCC 175 8.16562 223.94133 16
CCCGT 170 7.932317 104.50461 14
ACCCG 110 7.6578126 155.91869 13
CTCAC 295 7.59988 140.12698 12
CGCCA 105 7.3097305 155.93703 24
ACCAC 180 6.918599 92.23485 13
CACGG 1345 6.8475733 146.6605 31
GGCAC 1310 6.669384 161.27019 10
CCACA 170 6.534232 30.750387 26
CTTCC 360 6.2162185 168.50337 6
GCACG 1185 6.0329924 66.7877 11
GGGGG 121320 5.9829855 8.21058 1
TCCCA 230 5.92533 169.00287 25
TCTGA 114765 5.851559 171.2292 18
ACACC 150 5.765499 79.93686 13
CGGAC 1050 5.3456893 29.32011 4
CAGCC 75 5.2212358 144.81776 27
TCCCG 110 5.1326756 82.12553 30
GCGCC 40 5.0435743 100.85916 9
TCCAC 195 5.0236497 65.95234 25
CACCA 125 4.8045826 92.23484 12
CACTC 175 4.5084033 49.468918 27
GCGTC 1225 4.1801276 45.309937 15
AGCGC 800 4.0729065 62.71619 10
CGGTC 1155 3.9412632 49.14308 27
ACGGC 715 3.6401603 52.12623 15
GTCGC 1045 3.565905 49.14038 29
AACCC 90 3.4592996 49.19128 22
CACAT 3300 3.4326904 90.19409 12
CCCGG 25 3.1522343 40.349987 26
CGGGC 330 3.0429494 7.3769407 25
TCGGC 880 3.0028675 7.0966344 3
GCGCA 585 2.9783127 65.15872 11
ACCTC 115 2.962665 45.33658 23
CCACT 115 2.9626648 78.3201 26
GGAAG 196595 2.9554608 53.641834 5
CCAAC 75 2.8827498 24.60031 26
CGAGC 565 2.8764899 21.990911 8
CGATC 1450 2.731839 19.591825 10
TACAC 2575 2.6785386 69.725685 12
GCGGC 280 2.5818963 7.3760214 23
CATAC 2445 2.5433114 69.8921 12
CCGGC 20 2.5217872 20.176456 27
ACCCA 65 2.4983828 18.44753 23
TTCCA 3570 2.4890177 73.06514 24
ATTCC 3555 2.4785593 73.05878 23
GACCC 35 2.4365766 33.41701 30
ACTCT 3455 2.4088392 68.93179 23
CTCTA 3400 2.3704932 68.26849 24
ACTTC 3365 2.3460906 64.13557 23
GTCCC 50 2.3330343 67.19487 29
TGCCC 50 2.3330343 37.322475 20
CTTCA 3260 2.2728846 63.806503 24
CCCGA 30 2.0884945 55.7052 32
GAAGA 249120 2.0677354 29.716759 6
TCGGG 7890 1.9689419 5.9084454 3
GGCGC 210 1.9364227 7.37723 29
GCCCG 15 1.8913406 20.175346 29
GGCCC 15 1.8913404 20.17625 28
CCGGT 550 1.8767922 46.40955 26
AAGAG 225590 1.8724327 29.491714 7
GCCCT 40 1.8664275 29.858023 21
TCCGG 545 1.8597304 48.04649 25
CGTGA 13300 1.832488 25.51153 32
GAGCC 350 1.7818965 35.837196 9
CGGAG 4745 1.7666603 9.232029 4
CCCAA 45 1.7296498 12.297979 12
CAACC 45 1.7296497 12.298085 19
CACCT 65 1.6745497 8.245955 31
CTGCC 35 1.6331241 37.323555 19
AACGC 580 1.630332 9.443213 22
ACGGG 4245 1.5805001 11.618903 32
CGGGA 4190 1.5600221 6.6113234 4
TCACC 60 1.5457385 12.366316 30
CTCGC 30 1.3998206 14.929422 19
CGCCT 30 1.3998206 29.858847 16
GAGCG 3575 1.3310454 5.777706 9
CGAAC 470 1.321131 8.544044 19
AGATC 17155 1.3050098 6.4522715 32
CTCCT 75 1.2950457 22.10156 24
CCATC 50 1.2881153 20.610554 26
CGGCT 370 1.2625692 32.208267 16
CCGCG 10 1.2608937 20.179237 31
CGGCC 10 1.2608936 20.171423 12
GCCGC 10 1.2608936 20.174963 30
CCAGG 240 1.2218719 31.769764 26
TACGT 23345 1.1902988 5.442698 31
TTACG 23090 1.177297 5.506811 30
AGCTC 620 1.1680967 22.002014 22
ACGTT 22250 1.1344678 6.4276214 15
CAGGC 220 1.1200494 26.884058 27
ACGCT 580 1.0927355 19.321453 1
ATACG 14030 1.0672859 6.0848684 13
CCGAC 15 1.0442472 11.1392145 29
ACCGC 15 1.0442472 11.141362 31
GACAC 370 1.0400393 6.7453775 9
CCTAC 40 1.0304922 8.2427635 12
GACTC 540 1.0173745 23.8104 22
TCTCG 700 0.8839429 5.6574216 30
TCCGA 460 0.8666523 18.988588 8
AGGGC 2160 0.804212 12.508382 8
CCGAT 425 0.8007114 18.98867 9
CTCGT 620 0.78292084 5.0523386 31
TCTCC 45 0.7770273 8.287363 23
AGCCA 250 0.7027292 8.993992 10
CCGCA 10 0.69616485 11.141364 31
CAGCA 230 0.6465109 6.2971277 27
CGCTG 185 0.63128465 13.6475725 16
CGCCG 5 0.63044685 20.171747 8
TTCCG 480 0.60613227 12.727168 7
CTCTC 35 0.60435456 5.525389 24
CACAG 215 0.60434717 6.2955575 12
GGAGC 1515 0.56406534 6.9689555 8
GCTCT 445 0.5619351 12.524877 3
GCCAG 110 0.5600246 10.589691 25
GGGCA 1470 0.547311 12.687128 9
GCTCA 285 0.53694767 10.8507 11
CGGCA 105 0.5345689 7.3300266 4
TACCC 20 0.5152461 16.488419 30
ACCCT 20 0.5152461 12.368933 31
CACGA 180 0.50596505 5.8481383 31
TCGCC 10 0.4666069 7.466097 29
CCGCT 10 0.4666069 14.929294 13
GAACC 155 0.43569216 8.9934845 21
TAGTC 7870 0.40127015 5.3277245 27
CCTGA 210 0.39564562 7.8365035 19
AGTAC 5140 0.3910085 5.2088437 10
CCCTA 15 0.38643458 12.368575 32
ACATG 5075 0.38606384 6.9124107 13
AGTCC 195 0.36738527 7.5368376 28
CCGTG 105 0.3582967 5.460937 32
CGACC 5 0.3480824 11.13747 10
CCTCT 20 0.34534553 5.5249095 23
CCAAG 115 0.32325548 7.1961956 26
GTACA 4175 0.31759933 5.354809 11
GTCCA 165 0.31086442 5.1248183 29
GCATA 3970 0.3020046 5.415659 11
CTGAC 160 0.30144432 6.329484 19
TCCTG 235 0.29675224 5.252444 18
AGCAT 3865 0.29401708 5.3670564 10
GCCTC 5 0.23330344 7.464765 8
CCTGC 5 0.23330344 7.4645057 21
CCTCG 5 0.23330344 7.467321 32
CTAGT 4480 0.2284232 5.1968064 26
TCTAG 4415 0.22510901 5.1966934 25
GTCCT 160 0.20204408 5.050427 17
Produced by FastQC (version 0.10.1)