FastQCFastQC Report
Mon 3 Feb 2014
filtered_BS_CgF_TTAGGC_L007_R1.fastq

Summary

[OK] Basic Statistics

Measure Value
Filename filtered_BS_CgF_TTAGGC_L007_R1.fastq
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 323336
Filtered Sequences 0
Sequence length 76
%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

[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
AGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG 3260 1.0082391073063315 No Hit
GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA 959 0.2965954919959423 No Hit
ATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATGCC 684 0.2115446470544573 TruSeq Adapter, Index 3 (100% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATGC 585 0.18092634287552267 TruSeq Adapter, Index 3 (100% over 50bp)
TGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG 437 0.13515352450701437 No Hit

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CCCCC 5 33719.004 2424561.2 15
CACAC 4800 7180.881 143069.31 12
CCGTC 2320 6817.3228 270016.0 50
CGCGC 545 3865.998 33262.086 72
ACTCC 2855 3852.7217 123757.375 23
CTCCA 2815 3798.743 123281.6 24
CGCCC 15 3280.773 157754.52 64
CACGC 720 2345.4883 31645.752 31
CCCGC 10 2187.1821 78877.266 64
CCGCC 10 2187.1821 78877.266 66
ACCCC 20 2008.8643 36229.438 72
CGCAC 575 1873.133 19971.773 66
CTCCC 20 1812.0729 32674.77 64
CACCC 15 1506.6482 36221.57 62
CCCCG 5 1093.5911 78660.08 23
GCCCC 5 1093.591 78883.375 71
CCACC 10 1004.43225 72223.58 7
CCCCA 10 1004.43225 36223.26 66
CCCAC 10 1004.43225 36226.07 71
CCCCT 10 906.03644 32680.348 72
ACGCC 240 781.82947 31646.73 32
CGCCA 225 732.9651 29304.344 33
CCGGC 70 496.55023 20449.307 50
CCCTC 5 453.01822 32574.219 6
TCCCC 5 453.01822 32584.297 22
CCTCC 5 453.01822 32574.219 7
GCGCG 1160 266.87216 1493.5453 71
GCGCC 35 248.27512 5116.768 71
CACCA 160 239.36267 5920.7944 31
AGCAC 4865 236.04756 4657.5366 10
GCACA 4735 229.74002 4674.9805 11
TGCCG 2385 227.29736 9101.699 48
GCCGT 2320 221.10268 8825.289 49
CGCCG 30 212.80722 5104.8887 33
ACACG 4335 210.3322 4657.5366 13
CGTCT 5325 210.22597 3641.9744 51
CACGT 4000 175.06593 4138.336 14
AGCGC 1360 143.68779 800.1297 67
ACGTC 3280 143.55408 4012.4556 15
GCACC 40 130.3049 3524.4304 66
ACACC 85 127.16144 1618.67 71
TCCAG 2830 123.859146 4092.8398 25
CCAGT 2780 121.67084 4092.9038 26
CAGTC 2725 119.26368 4093.4736 27
GTCAC 2715 118.82601 4109.5356 29
GCCCG 15 106.40361 5116.5293 65
ATGCC 2390 104.601906 4180.2793 47
TCACC 75 101.20985 5340.619 30
GCCAC 30 97.72868 3524.7039 71
CGCGA 900 95.08752 419.12213 64
TCTGC 2385 94.15754 3781.4258 56
TCTCG 2375 93.76273 3668.039 41
CTCGT 2360 93.17056 3711.4385 42
CTGCT 2360 93.17056 3766.6262 57
ACGCG 865 91.38966 533.4033 69
CACTC 65 87.7152 1460.1024 71
CCACG 25 81.440575 2349.511 68
CGCGT 845 80.53093 446.7824 62
GCGCA 700 73.956955 685.80426 69
CGCTC 25 73.462524 2112.9258 2
GCATC 1660 72.65237 2773.069 37
GCACG 655 69.202576 723.92694 67
CGCGG 285 65.56773 248.87788 70
CACCG 20 65.15245 2342.39 8
ACCGC 20 65.15245 1175.0106 72
TCGCG 630 60.040813 239.84969 18
ACCAC 40 59.840675 1079.1134 71
AACTC 2905 58.38798 1857.6896 22
CCACT 40 53.97859 1946.9846 72
CGGCG 215 49.46338 248.55022 41
CCAGC 15 48.864346 1174.7921 67
CGACC 15 48.86434 2342.39 4
CCCAG 15 48.86434 1174.792 67
CCGCA 15 48.86434 1174.9014 71
CAGCC 15 48.86434 1174.7737 63
GACCC 15 48.864338 1175.0105 72
CGTCG 510 48.60447 171.31856 9
CGACG 450 47.543755 114.29362 70
CTCGC 15 44.07752 1059.6089 70
CGTCC 15 44.07752 1059.8062 71
CCCGT 15 44.07752 1059.9048 72
CGCCT 15 44.077507 1059.6746 68
ATCTC 2375 43.0592 1684.4946 40
TCACT 2160 39.161213 1167.5967 30
CTTCT 2370 38.759285 1549.9344 54
TCTTC 2325 38.02335 1514.575 53
CGGCC 5 35.467873 2558.0667 69
GGCCC 5 35.467873 2558.622 72
CGGAC 325 34.33716 114.3149 71
TCCAC 25 33.736618 486.74615 72
CACTT 1860 33.722153 1115.4135 30
CCCGA 10 32.57623 2349.6204 66
CCGAC 10 32.57623 1174.7921 67
AGCCC 10 32.576225 1174.9011 71
CATCT 1735 31.45588 1142.212 38
CGAGC 290 30.63931 266.72235 65
CCACA 20 29.920338 1618.8208 72
AACCC 20 29.920334 1075.8921 21
GTCCC 10 29.385012 2114.2334 28
GCTCC 10 29.385012 1059.691 63
TCCCG 10 29.385008 1059.7567 65
CTCAC 20 26.989294 486.64798 63
GATCG 18045 25.614079 237.5641 72
GACAC 510 24.744965 192.49077 71
ATCGG 17295 24.549486 233.98018 72
CTTCC 20 24.345379 438.6078 49
GGCAC 215 22.715351 228.4349 54
CAACC 15 22.440254 1078.0765 43
ACCCA 15 22.44025 539.45624 70
GAGAG 432765 22.086613 33.808765 22
TCGGA 14480 20.553719 229.37225 72
ACACA 920 20.499353 176.81374 72
CCCTA 15 20.24197 486.28592 52
CCTAC 15 20.24197 486.28592 53
CACCT 15 20.24197 486.74615 72
GGCGC 85 19.555288 165.92374 61
CGGAA 12390 19.497017 228.74042 72
GCCGG 80 18.404978 746.06665 49
GCGGC 80 18.404978 165.83627 60
TCCCT 15 18.259033 875.84454 29
CTCCT 15 18.259033 439.06366 72
GACGC 170 17.960974 152.27339 59
GCCCA 5 16.288113 1175.0106 72
ACCCG 5 16.288113 1174.7737 63
CGGTC 170 16.201488 103.126015 72
GCGAC 145 15.319655 76.217026 72
AACGC 310 15.041057 87.50395 72
AGAGC 9545 15.020097 153.31847 8
CCAAC 10 14.960169 539.4563 70
CGGGC 65 14.954044 82.97474 71
CACAG 305 14.798459 122.209755 33
GCGTC 155 14.771945 68.75068 72
GCCTC 5 14.692506 1059.8062 71
TCGCC 5 14.692506 1059.6747 68
CCTGC 5 14.692506 1059.6747 69
TGCCC 5 14.692506 1056.9205 26
CTCCG 5 14.692504 1056.8877 24
GCCCT 5 14.692502 1057.0675 27
CACGA 290 14.070666 174.56915 31
ACGGC 130 13.734863 113.954285 15
ACCCT 10 13.494647 486.74615 72
CCATC 10 13.494647 485.84164 58
GAGCG 3905 13.380802 56.84416 66
CGGCT 135 12.865889 274.74274 51
CCCTT 10 12.172689 875.8988 30
CTCTC 10 12.172689 878.04565 71
AGATC 17695 11.534748 109.08778 71
TTCGC 285 11.251531 42.683357 48
ACGAC 230 11.159493 69.98796 69
CACGG 105 11.093543 114.29362 70
TCACG 245 10.72279 614.10657 30
ATCGC 245 10.72279 47.268955 39
AGAGA 451235 10.575853 15.9369955 21
GTCGC 110 10.483315 68.73362 61
CAGAC 210 10.189103 139.99329 71
GACCA 200 9.703907 523.8371 35
TCGTC 240 9.474973 56.774734 4
CACTG 215 9.409794 488.15103 31
AACAC 415 9.24699 80.3624 71
GAGCA 5875 9.244952 152.18697 9
TCGGC 95 9.053773 137.05482 3
CGTTC 225 8.882787 28.47499 64
CGTAC 200 8.753298 31.572771 72
CGATC 200 8.753298 173.23099 33
CGTGC 90 8.577258 68.74108 65
CTGAC 195 8.534465 472.44815 33
CGCAG 80 8.452223 76.217026 72
TGACC 190 8.315633 472.44815 34
TCGAC 185 8.0968 31.568363 65
CCAGA 160 7.763127 192.04393 33
ACGCA 160 7.763126 87.49174 65
TACGC 175 7.6591353 47.31438 52
TGCGC 80 7.6242294 68.73575 68
GCGAG 2200 7.538481 34.600796 64
GCCAA 155 7.5205283 453.92194 34
CCCAA 5 7.4800844 538.74603 40
GCGGG 995 7.424181 32.289913 67
CAGGC 70 7.3956957 114.3149 71
CCAAT 355 7.135194 224.30836 37
GGGGG 28655 6.9343553 9.948954 64
CTACC 5 6.7473235 485.96954 40
TCCCA 5 6.7473235 485.36063 24
TACCC 5 6.7473235 485.81158 38
GCTCG 70 6.6712017 137.282 41
GCCAG 60 6.339167 114.314896 71
CACAT 310 6.230732 36.248363 72
TTCCC 5 6.0863447 437.71234 21
CCTCT 5 6.0863442 439.06366 72
ACCAG 115 5.5797467 192.03201 32
TCACA 270 5.4267664 238.63202 30
CGGGG 690 5.148427 13.456635 72
CGGGA 1460 5.00281 21.006647 68
TGCAC 110 4.8143134 110.4807 68
ACCAA 215 4.79061 248.66827 36
GCAGC 45 4.754376 76.07069 38
GAGCC 45 4.754375 76.21702 72
ACACT 235 4.7232966 188.02477 32
AGCGG 1355 4.6430182 19.770962 69
CGAAC 95 4.609356 34.99832 71
TCGGG 1485 4.589999 10.031875 63
GGGCG 585 4.3649707 16.145708 65
GACGG 1230 4.214696 8.637069 56
CGAGA 2655 4.1779323 17.592415 66
CTCGA 95 4.1578164 47.352547 65
CAATC 200 4.019827 224.30833 38
GGCGG 530 3.9545887 18.83403 70
CGACA 80 3.881563 69.98796 68
CGCAA 80 3.881563 52.4926 67
GTCTG 2995 3.8348086 117.38757 17
AGCGA 2435 3.8317378 15.8926325 72
CCAGG 35 3.6978478 76.19575 70
CAAGC 75 3.6389654 87.48495 68
CACAA 160 3.565105 40.176216 68
GCGCT 35 3.3356009 68.735756 68
TCGTA 5585 3.2840195 57.20439 43
GCGGA 935 3.2038543 12.357043 63
ACAGC 65 3.15377 35.00158 72
GGACG 920 3.1524553 9.873229 55
CGTAT 5310 3.1223176 57.631702 44
GGTCG 1000 3.0909085 8.8939085 26
GCTTG 2405 3.0793705 122.25759 59
TTTCG 5785 3.0683925 4.970484 47
AGCTC 70 3.0636537 47.283592 40
ACTCG 70 3.0636537 63.13182 69
TTCGG 2340 2.9961443 6.9079294 25
GTCGG 960 2.9672723 8.890057 10
GCTTC 75 2.960929 99.58524 53
TCGGT 2275 2.9129179 6.4458046 21
ACGGA 1850 2.911177 6.2243185 21
CGAGG 840 2.8783293 7.409974 60
CTCGG 30 2.8590863 102.961494 41
GACTC 65 2.8448215 47.35915 72
GCACT 65 2.8448215 47.348866 69
AGGCA 1805 2.840364 99.670784 35
CGGAG 815 2.7926645 8.650199 66
GCGTG 885 2.735454 14.490486 63
TAGGC 1895 2.689869 89.892975 34
CGGGT 870 2.6890905 5.564977 56
CGGTA 1890 2.6827712 5.626583 53
CGGCA 25 2.64132 38.102013 64
CAGCG 25 2.6413198 76.19575 70
GTTCG 2060 2.6376312 5.527626 29
CGCAT 60 2.625989 47.348866 68
TACAC 125 2.5123918 21.745306 64
TCGTT 4645 2.4637308 5.3528285 47
GGCAT 1695 2.4059777 90.448524 36
GCCTG 25 2.382572 34.37534 72
CGGTT 1855 2.3751485 5.0748434 43
GGCGA 680 2.3300757 7.414456 66
GGCCG 10 2.3006222 82.92071 47
CGTGT 1795 2.2983243 9.69585 70
GGAGC 670 2.29581 14.828911 66
TGAAC 3520 2.2945642 61.638935 20
AGACG 1445 2.273865 5.1076336 65
GACGA 1415 2.2266567 5.107395 67
ACGAG 1390 2.1873164 6.8104944 71
GCGGT 705 2.1790905 6.6886425 71
TCGAG 1520 2.1575727 5.1188045 69
CGGAT 1510 2.1433783 5.613619 5
GGGGC 285 2.1265242 10.762971 69
GCCGA 20 2.113056 76.03301 34
CCGAG 20 2.113056 38.108513 72
AGGCC 20 2.1130557 38.10496 71
GACCG 20 2.1130555 38.10496 71
ACGGG 610 2.0902152 7.4084806 45
TACGG 1435 2.0369189 5.111273 56
GAACT 3050 1.9881878 60.94431 21
CCGAT 45 1.969492 31.501417 35
CGAAG 1250 1.9670112 5.674708 69
ACGTG 1380 1.9588488 9.725728 69
GGCGT 630 1.9472724 5.570067 60
AGCCA 40 1.9407814 35.001575 72
GTACG 1360 1.9304597 5.1032896 2
GCGTT 1500 1.9206053 5.5286527 33
CTGAA 2940 1.9164826 60.466152 19
CTGCG 20 1.9060576 68.63462 56
AACGG 1210 1.9040669 5.107475 64
AAGCG 1180 1.8568586 5.0989327 57
AGTCA 2815 1.8349993 61.440662 28
TGCGG 585 1.8081815 6.6675425 3
GTCGA 1265 1.7956115 5.106211 27
GCGAA 1140 1.7939144 6.2276897 30
TCTGA 2995 1.7610812 53.90857 18
CAGCT 40 1.7506593 31.512634 39
CATAC 85 1.7084265 21.728453 54
AGACC 35 1.6981839 17.50079 72
GAACG 1070 1.6837616 5.1078706 71
CGTGG 540 1.6690906 6.6883316 65
GAGAC 1050 1.6522894 10.7842865 72
TATGC 2695 1.5846791 56.150276 46
GTGCG 505 1.5609088 6.6883316 65
CGTCA 35 1.5318271 47.244812 33
TGCGT 1195 1.5300822 5.992805 57
CGGTG 485 1.4990907 6.6727023 32
CTTGA 2515 1.4788378 55.52494 60
CAGCA 30 1.4555862 34.99398 68
GGAAG 28265 1.4425337 6.2571363 70
CCGTG 15 1.4295431 34.342308 50
TCCGA 30 1.3129946 15.770726 44
ACGCT 30 1.3129945 15.786384 72
TTCTG 2455 1.3021443 50.815636 55
AGGGC 375 1.2849683 7.40871 52
TGCTT 2395 1.2703198 50.604214 58
TCATC 70 1.2691134 78.32311 38
GTCTT 2365 1.2544076 49.121418 52
ACAAC 55 1.2255048 16.073977 72
ACCGA 25 1.2129885 34.887917 9
AACCG 25 1.2129884 34.922478 35
TTCCG 30 1.1843714 14.227784 48
ATTCC 65 1.1784623 45.642544 23
CAAAC 50 1.1140953 16.073977 72
CTGCA 25 1.0941622 15.784182 65
CATGC 25 1.0941622 31.49362 31
CTTCA 60 1.0878115 19.562605 24
ACTTC 60 1.0878114 19.56109 23
CTTAG 1750 1.0290124 37.658836 32
CTACA 50 1.0049567 14.485636 54
ACTCT 55 0.99716043 13.078964 72
GAGGC 285 0.97657585 6.1749773 60
GAACC 20 0.97039074 17.498346 65
GTCCG 10 0.9530288 34.37534 72
CCGGT 10 0.9530288 34.342308 50
CGCTG 10 0.9530288 34.372143 71
GGCTC 10 0.9530287 34.369473 64
GTGCC 10 0.9530287 34.37534 72
TTCCA 50 0.9065095 45.646076 24
ACATC 45 0.9044611 14.496422 63
CCTGA 20 0.87532973 15.786386 72
GGGCA 235 0.8052468 6.178618 67
CTTGC 20 0.78958106 14.228888 60
CCTGT 20 0.78958106 14.2386 71
GCTCT 20 0.78958106 14.2359495 70
TCCTG 20 0.78958094 14.226461 51
AAACC 35 0.77986664 16.069489 70
CTCTA 40 0.7252076 13.040728 23
CACTA 35 0.70346963 14.497318 65
ACTCA 35 0.70346963 7.249672 72
CAACA 30 0.66845715 8.035368 63
CCGTA 15 0.6564973 15.786386 72
CGCTA 15 0.6564973 15.782957 69
CGACT 15 0.65649724 15.771459 51
CTCAG 15 0.65649724 15.7836895 66
CATCG 15 0.65649724 31.512634 39
AGCCT 15 0.65649724 15.784915 71
AGTCC 15 0.65649724 31.488255 27
ACCGT 15 0.65649724 15.756073 36
CAGAG 390 0.61370754 5.674708 69
AGACA 835 0.603419 5.211734 70
ACTAC 30 0.60297406 14.496645 67
TCCGT 15 0.5921858 14.239926 72
TCGCT 15 0.5921858 14.239926 72
CGCTT 15 0.5921858 14.237055 63
CTGTC 15 0.5921858 14.237939 65
AACCA 25 0.5570476 8.035616 66
GGCCA 5 0.528264 38.014153 32
CCGGA 5 0.528264 38.078976 60
ACCGG 5 0.5282639 38.108513 72
ACTTA 1800 0.48606092 17.099434 31
CCGAA 10 0.48519543 17.44396 3
CAACG 10 0.48519537 17.49916 71
TCCGG 5 0.4765144 34.278023 25
GGCCT 5 0.4765144 34.365746 70
CCTGG 5 0.4765144 34.26371 10
TGGCC 5 0.47651434 34.37534 72
CTGGC 5 0.47651434 34.372143 71
GCTGC 5 0.47651434 34.34284 52
GCCTA 10 0.43766487 15.759736 56
TCGCA 10 0.43766487 15.77415 60
GTCCA 10 0.43766487 15.781979 70
TAGCC 10 0.43766487 15.784917 71
GCTCA 10 0.43766487 15.784182 65
ACTGC 10 0.43766487 15.759736 56
TGCCA 10 0.43766487 31.496542 33
GCCAT 10 0.43766484 15.781977 70
ACCTG 10 0.43766484 15.7832 63
ATCCG 10 0.43766484 15.742421 1
TCTCT 25 0.4088532 17.696592 72
CTCTT 25 0.4088532 5.889453 40
GAATC 620 0.4041562 6.570855 38
ATCAC 20 0.4019827 7.2489977 71
CATCA 20 0.40198267 7.2484345 64
GTCTC 10 0.39479053 28.4772 71
TTGCC 10 0.39479053 14.225139 49
CCGTT 10 0.39479053 14.199612 25
TGCTC 10 0.39479053 14.213464 58
TCTAC 20 0.3626038 6.5385695 65
TTCAC 20 0.3626038 13.076734 66
TACTC 20 0.36260378 13.076733 64
CAACT 15 0.30148703 7.2489977 71
AATCC 15 0.301487 7.247648 70
CCTTA 15 0.27195287 13.046176 31
CCAAG 5 0.24259771 17.487226 60
GCAAC 5 0.24259768 17.49699 68
AAGCC 5 0.24259768 17.49699 69
CTAGC 5 0.21883243 15.7612 40
GCTAC 5 0.21883243 15.756319 39
CCATG 5 0.21883243 15.784917 71
TCAAC 10 0.20099135 7.2476487 70
ACCAT 10 0.20099135 7.242818 54
TACCA 10 0.20099133 7.242817 52
CCTAA 10 0.20099133 7.2273583 21
ATCCA 10 0.20099133 7.2489967 71
GTCCT 5 0.19739527 14.193684 16
TGCCT 5 0.19739527 14.2359495 70
TGTCC 5 0.19739527 14.2359495 70
CTTCG 5 0.19739524 14.226461 54
ACTGA 285 0.18578148 7.2708225 32
CTACT 10 0.1813019 6.5380626 62
ACCTT 10 0.18130189 6.533097 45
TTACC 10 0.18130189 6.533299 51
TTCTC 10 0.16354129 5.8846226 34
TTCCT 10 0.16354129 5.8931956 50
TTTCC 10 0.16354129 5.882164 25
AATCT 440 0.11881489 5.638444 39
ACTTG 195 0.11466138 5.501069 34
CCAAA 5 0.11140954 8.029266 46
CTAAC 5 0.10049567 7.2262416 19
TAACC 5 0.100495666 7.226352 20
CTCAA 5 0.100495666 7.2480974 68
ATACC 5 0.100495666 7.235752 37
AACCT 5 0.100495666 7.2424803 44
TCTCA 5 0.09065095 6.538367 66
CTTAC 5 0.09065095 6.5236936 33
CTATC 5 0.09065095 6.527331 58
TCCTA 5 0.09065095 6.521978 27
CCATT 5 0.09065095 6.5299597 55
CATTC 5 0.090650946 6.5184474 20
CTCAT 5 0.090650946 6.539482 72
TACCT 5 0.090650946 6.529049 41
CCTAT 5 0.090650946 6.527431 57
CCTTT 5 0.08177064 5.8926477 43
Produced by FastQC (version 0.10.1)