FastQCFastQC Report
Fri 13 Dec 2013
Y38_control_GTGAAA_L005_R2_001.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename Y38_control_GTGAAA_L005_R2_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 3448820
Filtered Sequences 165714
Sequence length 36
%GC 18

[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

[WARN] 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

[WARN] Overrepresented sequences

Sequence Count Percentage Possible Source
GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGAT 21905 0.6351447741546384 Illumina Single End PCR Primer 1 (100% over 36bp)
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 9464 0.27441269767630666 No Hit
GATCGGAAGAGCGTCGGGTAGGGAAAGAGGGTAGAT 7464 0.2164218486322858 Illumina Single End PCR Primer 1 (96% over 29bp)
GATCGGAAGAGCGTCGGGTAGGGAAAGAGTGTAGAT 6997 0.20288098538050695 Illumina Single End PCR Primer 1 (97% over 36bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
GGGGG 58845 240021.44 1076072.0 27
GAGGG 31725 4936.8525 91307.19 27
AGGGG 22330 3474.8594 28992.459 26
GGGCG 6985 3104.4487 43610.176 9
GGGGA 16740 2604.9775 16976.617 20
GGGGT 10600 2494.8018 40585.24 28
CGGGG 5050 2244.4475 29205.139 15
GGCGG 4590 2040.0032 29889.113 12
GGGAG 12720 1979.4094 10850.94 4
GCGGG 4380 1946.6693 29925.191 13
GGGGC 3995 1775.5581 24685.883 10
GGAGG 10190 1585.7062 9672.899 18
GGGTG 6175 1453.3397 20797.404 27
GAGCG 73895 1252.9714 37914.098 9
TGGGG 4655 1095.5947 5768.69 20
TCGGG 31520 808.33984 22957.398 14
GGTGG 3295 775.5069 4296.1626 12
GTGGG 3260 767.26935 4449.269 18
TAGGG 84825 761.6617 23391.266 19
CGGGT 28385 727.94183 22296.996 15
GTCGG 28165 722.29987 22332.762 13
GTAGG 69580 624.7736 18991.287 18
GGGAA 93245 553.58215 16294.989 21
GGAAG 93040 552.3651 15285.469 5
GAGTG 57045 512.2192 15629.301 27
AGGGA 85570 508.01678 15664.107 20
GGGTA 53620 481.46533 7799.632 16
GGTAG 52280 469.43323 7535.167 17
GCGTC 82205 229.71196 7047.699 11
AGGGT 25040 224.83948 5411.4194 28
CGTCG 77005 215.18121 6485.5864 12
AGAGG 24365 144.6515 3510.861 26
AAGGG 19605 116.39207 1465.4547 25
ATCGG 104560 102.30136 2836.8816 2
GGCGT 3950 101.29894 2380.8765 10
TCGGA 99535 97.3849 2824.9421 3
GATCG 97460 95.35472 2670.7458 1
GGTCG 3205 82.19319 2040.844 12
GGGTC 3195 81.93674 2114.7979 11
AGCGT 79870 78.1447 2390.0107 10
GTCGT 51190 75.75 2257.3118 13
CGGCG 1430 69.2519 1147.6548 11
AGGGC 3995 67.73965 1609.5931 8
CGGGA 3945 66.89184 1166.173 3
GCGGC 1375 66.58837 1077.4858 10
CGGAA 98725 63.864758 1881.4976 4
CGTGT 42920 63.512207 1883.2583 15
TCGTG 42895 63.475212 1889.1953 14
TGTAG 110980 57.500637 1055.6073 30
GTGTA 109825 56.90221 1066.7561 29
GAAGG 9405 55.836136 832.1574 6
GGTGT 4030 54.729942 1180.6884 28
AGAGC 82795 53.55972 1614.4164 8
TTGGG 2860 38.8406 526.50616 19
AAGAG 167160 37.861423 581.78265 7
AGTGT 65850 34.118008 1035.8613 28
GTAGA 92780 31.78342 957.73566 31
CCGGG 625 30.267447 472.3131 14
GCGTG 1075 27.568697 262.4971 13
GCCGG 565 27.361767 472.45697 13
GGAGA 4385 26.033115 189.88681 31
GGGTT 1840 24.988356 132.6357 21
GGGCC 500 24.213953 170.59734 11
CGTGG 935 23.978355 234.06055 12
GGAAA 105735 23.94878 638.1663 22
GTTGG 1740 23.630295 313.2989 18
AGCGG 1300 22.042938 320.27084 9
GTGTG 1620 22.00062 295.2663 29
GCGCG 450 21.792557 116.27765 9
ACGGG 1265 21.449474 390.53235 3
AGAGT 61905 21.206646 634.78973 26
TGTGG 1485 20.167234 249.74031 30
GAAGA 88100 19.954485 570.51904 6
GAAAG 86295 19.545654 580.0392 23
GAGAG 3260 19.35415 171.74515 6
GAGGT 2135 19.170618 351.8136 31
CGGGC 385 18.644743 170.34042 15
GACGG 1095 18.566936 360.60645 2
GGACG 1075 18.227814 355.1439 1
GTGGT 1285 17.45111 169.40367 31
GGCCG 360 17.43405 155.08556 12
GGTTG 1260 17.111593 104.436005 17
TGGGT 1230 16.704176 139.50621 32
TGGGA 1700 15.264661 179.80583 20
CGCGG 315 15.25479 69.78848 12
GTGGA 1685 15.129973 78.97856 31
CAGGG 835 14.158348 268.92398 19
ATGGG 1545 13.872883 152.19481 2
GATGG 1530 13.7381935 142.12823 1
GGGCA 755 12.80186 171.032 21
GGCGC 260 12.591256 69.76527 10
TGGTG 920 12.494179 134.622 14
TGGAG 1240 11.134223 54.665203 17
CGCCG 2040 10.764739 131.80852 12
GGGCT 385 9.873441 98.5439 21
GGGAC 555 9.41064 143.8841 21
GCGGT 365 9.360535 82.005356 14
TTAGG 17520 9.077412 273.66757 18
GCAGG 520 8.817175 190.15187 18
CGGTG 325 8.3347225 106.60571 15
CTGGG 325 8.3347225 78.06019 19
AGGCG 470 7.9693694 40.725178 12
GGGAT 875 7.856811 96.32162 21
AGGAG 1310 7.7772818 27.53122 30
CCCCC 119015 7.456418 8.441384 17
GTGCG 285 7.308911 45.15541 9
TGGGC 285 7.308911 135.57426 20
GGCAG 430 7.291126 65.19684 17
GAGGA 1210 7.183596 35.116673 29
AGTGG 800 7.183369 34.440216 28
CGGAG 420 7.1215644 70.50693 4
GGCTG 260 6.6677785 40.993538 5
GAGCT 6705 6.5601625 196.54811 9
CCGCG 1240 6.5432725 16.048567 9
GAGGC 365 6.188979 38.01089 11
GGAGT 680 6.1058645 24.395157 28
TCGCG 2115 5.910113 26.359783 14
CGAGG 345 5.8498564 16.265848 15
GCGCC 1095 5.778132 130.12115 11
GCTGG 225 5.7701926 53.410614 18
CGCGA 3105 5.7367415 11.8108225 28
GTGAG 605 5.4324236 27.261244 27
AGGTG 595 5.3426313 30.12975 26
AAGCG 8125 5.2560263 144.13939 9
GCGAG 305 5.1716123 21.675539 27
GTGGC 195 5.000834 36.911236 31
CGACG 2665 4.9238067 11.833395 12
GGAGC 290 4.917271 35.251514 31
CGCGC 920 4.854686 14.336351 28
GGATG 540 4.848775 30.141516 5
TGAGG 530 4.7589827 24.454771 18
TGCGG 185 4.7443805 12.3148775 10
CGCGT 1690 4.7225013 24.572392 15
TGGCG 180 4.616154 20.543146 17
GGTGA 485 4.354918 17.22011 28
GCGGA 255 4.323807 18.982828 13
ACGCG 2270 4.194011 7.0875363 7
GGCGA 230 3.8999047 16.28211 22
GGTGC 150 3.8467953 20.492468 28
AAGTG 9210 3.1550474 81.83541 27
AAAGG 13115 2.9705226 49.31057 24
GCCGT 940 2.6267166 43.79739 13
GAACG 3780 2.4452653 25.162266 9
GCCCG 455 2.4009588 6.757567 23
GAGTT 4625 2.3962915 59.526535 27
TAGTG 4410 2.2848964 38.596603 19
GCTTC 13745 2.2162557 63.048477 11
GTCCG 785 2.193588 5.3719854 19
TTTGG 2795 2.1902385 16.069265 18
GACCG 1170 2.1616712 24.518213 1
CTCGG 770 2.1516724 32.741753 32
AGCGC 1155 2.1339571 45.83914 10
TAGAT 107805 2.1309578 61.25858 32
TATGG 4015 2.0802402 54.948284 19
GCCGC 375 1.9788121 10.127245 13
CCGTG 700 1.956066 38.42274 14
TTCGG 1255 1.8571253 33.36978 13
CGTCT 10960 1.7671999 34.36361 12
AGGTC 1805 1.7660094 41.77256 32
CGTTT 20355 1.7380341 32.14974 15
TGGAA 5040 1.7265406 38.173874 21
GCGAC 920 1.6997755 11.537778 11
ACCGG 920 1.6997755 28.066162 2
TCGTT 19055 1.6270322 31.986292 14
CCGGA 875 1.6166345 28.073452 3
GCCGA 865 1.5981582 5.023303 13
CGGTT 1070 1.5833658 26.261517 15
GTCGC 565 1.5788244 23.239431 13
TCGGT 1055 1.5611691 27.917976 14
GCGTT 1055 1.5611691 8.767041 11
GGTTT 1980 1.5515823 7.6501985 22
GTGTT 1955 1.5319916 12.402232 29
CCCGG 290 1.5302815 10.144509 18
GAGCA 2335 1.510501 36.552586 9
GTGAA 4390 1.5038717 27.039827 21
CTTCG 9285 1.4971215 24.578629 12
ATGGA 4320 1.4798919 36.933193 20
GCGTA 1415 1.384434 8.13421 16
AGGAA 6065 1.3737111 16.971537 21
AGTGA 3915 1.3411521 26.341652 20
GTAAG 3855 1.320598 17.287544 18
GGCCC 245 1.2928241 10.134163 22
GTAGT 2435 1.2616152 21.581306 18
TTGGT 1605 1.257722 5.900149 20
TGTTG 1605 1.2577219 12.177845 17
TAGGT 2355 1.2201657 19.422808 19
GCGCT 435 1.2155552 7.594329 29
TGGTT 1545 1.2107043 11.194205 32
GGTAA 3515 1.204125 13.437643 21
GCGAT 1225 1.1985383 6.2564917 29
GTCGA 1215 1.1887543 5.9457645 31
CGGCC 225 1.1872873 7.5953565 4
TAAGG 3425 1.173294 23.378899 19
TGAAG 3390 1.1613041 19.165577 5
TAGCG 1165 1.1398344 22.552134 9
GTATG 2160 1.119133 25.482542 18
TATCG 19555 1.1039854 12.763268 1
ATAGG 3215 1.1013547 20.580408 18
TCTGG 740 1.095038 19.873814 14
TTGTG 1370 1.0735694 5.900321 19
GAGAT 3130 1.0722365 11.395093 31
CCGGC 200 1.0553666 5.0721583 19
GGTTA 2030 1.0517777 8.946391 16
CGTGC 375 1.0478922 14.743435 15
AAGGA 4620 1.0464213 17.01739 20
TGTGT 1330 1.0422245 7.514106 28
GTTGT 1310 1.026552 8.020434 31
TAGGA 2975 1.0191386 20.689777 19
CTGGT 680 1.0062512 19.87358 15
CGTGA 1025 1.0028585 14.391398 15
AGAGA 4425 1.0022542 11.937572 20
TTCGT 11545 0.98578256 11.552988 13
TTTAG 32770 0.9797022 17.860727 17
GTTAG 1875 0.9714696 9.877887 17
AACGG 1480 0.95740545 12.309399 2
TAGAG 2750 0.9420608 16.189613 19
GGCCT 330 0.92214537 7.150595 13
GGTAT 1745 0.90411437 12.36811 17
AGGTT 1740 0.90152377 7.5350437 28
ACGTC 8415 0.89711374 5.633278 11
GAGAA 3955 0.89580005 12.075902 21
TCGGC 320 0.8942014 8.045005 3
AAAGA 100425 0.8677895 21.56252 24
GTCTG 585 0.865672 19.406538 13
CATCG 8065 0.85980064 6.8451567 12
AGGTA 2430 0.8324392 13.774489 20
GTGTC 560 0.8286774 6.6238513 29
CGTCA 7755 0.8267519 6.811016 12
GTTTA 26950 0.80570567 11.251756 16
GAGCC 435 0.8036981 11.533938 9
CGTAG 810 0.7925029 7.994202 17
GGAAT 2310 0.7913311 14.01825 5
ACGGA 1220 0.7892125 10.96752 3
TGGTA 1520 0.787538 6.958304 16
AGCTT 13890 0.78416556 22.157822 10
AGATC 20765 0.7750966 7.5130286 32
GGCTT 520 0.7694863 5.9206696 22
GTCTT 8875 0.75780165 17.165611 13
TTGGA 1445 0.7486792 5.220798 3
GGTTC 505 0.7472895 5.923677 11
ATTGG 1440 0.7460886 9.361859 2
GATTG 1415 0.73313564 8.610235 27
CGGCA 395 0.72979486 5.0316234 20
CACGG 385 0.711319 5.022366 2
CGGAC 365 0.6743674 7.978106 4
TTGCG 435 0.6437048 5.4385 27
GGTCC 230 0.6427074 6.2610435 22
GTGCA 645 0.63106716 7.6649294 16
AGAAG 2735 0.6194723 7.530702 5
GGCCA 335 0.61894006 5.322425 22
GGCAA 945 0.6113163 7.2471204 22
CAGCG 325 0.60046417 6.5063243 9
GGAAC 920 0.5951439 5.694166 22
GAGTC 600 0.5870392 6.2665663 11
AGGCC 315 0.58198833 5.023252 4
GGACA 850 0.5498612 7.6612406 22
GAGTA 1505 0.5155642 7.940892 29
TGCAG 500 0.4891993 7.523955 17
AAAGC 17675 0.436216 10.307457 8
CTTGT 5050 0.43119982 8.491353 15
GCATC 3960 0.42217124 7.5622497 11
TCTTG 4800 0.4098533 8.518756 14
AGTAG 1195 0.40936822 6.683085 30
AGTTT 12625 0.37744093 7.0760207 28
ATCTG 5830 0.329135 6.4906793 2
TCTGA 5805 0.3277236 6.501393 3
TTAGA 16085 0.31794867 5.901855 31
AAGCT 7805 0.29133776 6.530604 9
Produced by FastQC (version 0.10.1)