FastQCFastQC Report
Mon 3 Feb 2014
filtered_BS_CgM1_ACTTGA_L007_R1.fastq

Summary

[OK] Basic Statistics

Measure Value
Filename filtered_BS_CgM1_ACTTGA_L007_R1.fastq
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 5543163
Filtered Sequences 0
Sequence length 76
%GC 17

[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
GATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTGAATCTCGTATGC 21405 0.3861513724204033 TruSeq Adapter, Index 8 (100% over 50bp)
ATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTGAATCTCGTATGCC 11824 0.21330781721555003 TruSeq Adapter, Index 8 (100% over 50bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CCCCC 1635 1047029.75 2532752.2 15
CACAC 103525 12967.642 327918.22 12
CCGTC 54555 12585.337 606388.9 50
ACTCC 54495 5635.5083 267128.2 23
CTCCA 54230 5608.104 266145.06 24
ACCCC 205 1836.0411 19327.377 22
CACCC 195 1746.4781 16111.702 30
CACGC 5605 1566.1927 76612.01 31
CCCCA 170 1522.5707 19327.588 23
CCGCC 75 1498.4547 43194.582 50
CTCCC 180 1330.9498 47869.57 23
ACGCC 4740 1324.4878 75808.37 32
CGCCA 4710 1316.105 75412.945 33
CCCAC 130 1164.3187 16111.702 30
CGCCC 55 1098.8668 28796.389 50
CCACC 120 1074.7557 9675.099 56
CCCGC 50 998.96985 21596.178 49
CCCCG 50 998.96985 21550.828 16
GCCCC 50 998.96985 21550.752 10
CGCGC 1475 919.42334 4945.107 69
CCGGC 935 582.82086 20888.252 50
CCCCT 75 554.56244 10665.727 67
CCTCC 60 443.64993 7999.323 66
TGCCG 55585 400.0635 19284.934 48
GCCGT 54820 394.5576 19055.213 49
TCCCC 45 332.73746 5320.507 29
CGCAC 1190 332.5191 2411.2356 12
CGTCT 110355 293.94778 7007.465 51
CACCA 2115 264.92694 14512.556 31
CCCTC 35 258.7958 7999.323 66
GCACA 61530 240.46053 10385.295 11
AGCAC 61500 240.34332 10396.538 10
ACACG 60125 234.96976 10298.178 13
ACGTC 58790 189.67976 8490.398 15
TCACC 1830 189.24635 11868.887 30
CACGT 57590 185.80807 8488.077 14
ATGCC 55600 179.38756 8639.908 47
TCCAG 55000 177.45172 8425.618 25
GTCAC 54965 177.3388 8382.0205 29
CCAGT 54750 176.64511 8392.105 26
CAGTC 54515 175.88693 8353.506 27
TCTGC 55505 147.84622 7108.2153 56
CTGCT 55345 147.42004 7103.6665 57
CTCGT 54765 145.87514 7019.9146 42
TCTCG 54675 145.6354 7015.3057 41
GCGCG 5360 104.23879 308.56366 70
CGCGG 4790 93.153694 168.02153 39
CGGCG 4735 92.084076 140.26128 64
TCGCG 12085 86.97971 124.4005 40
CGCGA 9440 82.29675 132.0393 64
AACTC 55640 80.473114 3792.14 22
CGTCG 9900 71.253555 150.09274 16
ATCTC 54675 65.28496 3140.47 40
TCACA 44750 64.72272 2811.002 30
ACACT 43315 62.647247 2753.453 32
CGCGT 8590 61.825058 100.924065 14
CGACG 7040 61.37385 91.16992 66
ACGCG 6950 60.58924 113.17215 68
GCGCC 95 59.217094 672.8542 32
CGCCG 95 59.21709 448.60953 33
GCCGC 90 56.100407 1123.0547 48
ACACC 440 55.114826 405.33774 12
CTTCT 55295 54.509327 2618.95 54
TCTTC 54770 53.991783 2588.388 53
CACTT 43425 51.851837 2273.4065 33
CTCCG 205 47.291615 2406.36 24
CGGAC 5015 43.72015 75.45349 65
CCGAC 145 40.517033 906.1661 50
CCCAG 140 39.119892 1005.1356 26
GCACC 135 37.722755 503.43106 51
CGCTC 160 36.91053 1575.9508 2
CCACA 285 35.699375 225.84747 69
CCGCG 55 34.283577 448.4945 1
GCCAC 120 33.531338 302.3207 71
ACCAC 245 30.688936 271.04663 71
CGTCC 130 29.989805 1327.1213 16
CCAAC 230 28.810022 406.21527 54
CTTCC 335 28.601042 583.24286 6
CCCAA 220 27.557413 225.84583 68
CCCGT 115 26.529442 995.77026 25
GCTCC 115 26.529442 1078.6276 23
GCGGC 1350 26.254173 49.049644 49
AGCGC 2920 25.4562 100.60092 67
CACCG 85 23.751362 301.40442 13
TCCCG 100 23.06908 995.7352 24
CAACC 180 22.546974 406.02847 55
CAGCC 80 22.354225 502.70352 31
CCACG 80 22.354223 401.87256 13
CGGGC 1130 21.975716 63.119633 65
AACCC 175 21.92067 270.27588 21
AGCCC 75 20.957088 201.52364 68
TCACG 6455 20.82638 1251.3511 30
GCCGG 975 18.961348 658.6667 49
GCCCG 30 18.700134 449.22183 48
GCCAA 4685 18.309078 1075.8113 34
TCGGC 2535 18.24523 75.046104 3
CCAGC 65 18.162806 502.5678 26
GCGTC 2520 18.13727 69.87051 15
CACTC 170 17.580263 149.16924 66
TTCGC 6575 17.513538 26.868748 43
GGCGC 870 16.919355 49.089893 69
CCCGA 60 16.765669 301.40582 17
GCCCA 60 16.765669 301.6537 34
CGGTC 2300 16.553858 69.909294 27
CGATC 5055 16.309427 355.26627 33
ACCCA 130 16.283926 135.38527 45
CGCCT 70 16.148355 332.49924 51
CGAGC 1810 15.779357 40.869274 66
TCCCA 145 14.99493 371.98383 25
ACCCG 50 13.97139 201.10118 33
CCGCT 60 13.841448 332.27365 56
ATCGC 4185 13.502463 30.206501 40
ACGGC 1540 13.42553 125.380356 15
GTCGC 1815 13.063152 67.32535 29
TCGTC 4870 12.972005 30.71347 52
CGGAA 105990 12.922987 332.07748 4
ATCGG 128000 12.884529 277.74048 2
CGACC 45 12.574251 301.99667 43
CGGCC 20 12.466757 673.8146 50
CGTTC 4605 12.266137 22.02748 10
GCACG 1380 12.03067 75.22821 13
ACGAC 3075 12.017164 25.367088 67
TCGGA 117055 11.782802 274.98987 3
TGCGC 1620 11.659673 25.954498 67
TCCGC 50 11.53454 332.34448 55
CGTAC 3440 11.098799 17.438784 48
CACCT 105 10.858397 149.18095 71
AACGC 2760 10.786138 30.922365 22
CTCTC 125 10.67203 92.36366 66
GATCG 105580 10.627724 274.89148 1
GCGAC 1205 10.505041 25.076162 16
GTCCC 45 10.381085 497.9615 28
TCGAC 3160 10.195408 20.912193 40
GACGC 1160 10.112737 25.15023 67
CCAAT 6950 10.051908 398.71228 35
GCGCA 1150 10.025558 78.362724 11
TACGC 3055 9.856637 33.66571 31
CGGCT 1360 9.788367 241.18744 51
GACCC 35 9.779974 201.56667 72
CGTGC 1315 9.464488 23.359915 65
TCCAC 90 9.307198 111.87267 68
ACCTC 90 9.307198 111.58236 23
GACCA 2355 9.20339 549.9217 35
AGAGC 75455 9.199961 331.33215 8
CCATC 85 8.790132 111.7658 43
CACGA 2230 8.714886 426.06094 31
CCGCA 30 8.382834 100.783325 72
GGGGG 438430 8.299406 9.802991 65
TCGCC 35 8.074178 166.23923 49
CGGGG 13135 7.969585 11.350439 1
CCAGA 2035 7.9528217 469.69757 33
GAGCA 64915 7.9148564 329.97318 9
CGAAC 2025 7.913742 18.320742 66
ACCAG 1990 7.7769613 472.46796 32
GAGAG 2040705 7.7628155 8.635887 42
CTCAC 75 7.755998 111.54663 12
CCACT 75 7.7559977 186.0453 31
CACTG 2360 7.614292 452.7458 31
TGACC 2265 7.3077846 457.43723 34
CTGAC 2250 7.259389 452.79034 33
CTACC 70 7.2389317 149.02107 43
GGCAC 805 7.0178905 131.73279 29
GCCTC 30 6.920724 166.24976 52
CTCCT 80 6.8301005 153.54633 24
CCTCT 80 6.8301005 123.15111 67
TCTCC 80 6.8300996 153.8085 49
GGCGG 10745 6.5194664 9.816957 11
GCGGG 10695 6.489129 9.8459635 63
CCCTT 75 6.403219 122.88874 33
GGGCG 10445 6.337444 9.384891 26
GGCCC 10 6.2333784 224.77655 70
CCCGG 10 6.233378 224.24725 1
TACCC 60 6.2047987 149.16937 64
CTCGC 25 5.76727 83.19046 64
GCCCT 25 5.76727 166.24962 51
TGCCC 25 5.7672696 166.26643 47
ATCCC 55 5.687732 74.45529 39
ACCGC 20 5.588556 100.77357 71
GACGG 19560 5.3201113 7.153738 59
CCCTA 50 5.1706657 186.31473 52
CCTCA 50 5.1706657 74.52589 52
ACCCT 50 5.1706653 74.587105 65
CCTTC 60 5.122575 153.81642 53
CACAG 1305 5.099967 189.84784 33
GGCCG 260 5.0563593 154.18126 47
TCGGG 22495 5.051245 11.141671 3
ACACA 2875 5.0366397 85.7271 32
CACGG 555 4.8384213 125.38035 14
GTCTG 57170 4.751026 220.84276 17
CCTAC 45 4.653599 74.52542 54
GACAC 1185 4.6310053 22.552568 72
GCTTG 55690 4.6280336 221.59912 59
CTGCC 20 4.613816 83.20498 72
GCGAG 16585 4.510943 7.356819 71
ACCAA 2570 4.502318 244.68613 36
GAGCG 16365 4.4511046 9.215169 60
TCGTA 118245 4.405023 101.54137 43
GGACG 15525 4.2226334 5.880289 50
GGTCG 18715 4.2024474 5.8971066 1
GTCGG 18605 4.1777472 5.7355423 1
CGTAT 111635 4.1587787 101.050735 44
CGAGG 15110 4.109758 5.77161 22
CGGGA 14835 4.0349617 10.46392 4
AGAGA 2358500 4.021806 4.4188223 43
TTCGG 47020 3.9075258 4.870543 20
CAGGC 445 3.879455 125.44994 27
AGCGG 14165 3.8527286 6.669405 68
GGCGA 14120 3.8404891 5.2808566 15
TCGGT 46090 3.83024 4.721012 8
CGGAG 13885 3.7765718 6.6499677 3
TTTCG 121820 3.7466636 4.235314 19
GCTCG 520 3.7426112 132.17673 41
CGGTA 36635 3.6876934 4.6326275 5
ACGGA 30215 3.6840081 4.7461925 60
CCAGG 420 3.6615078 125.437035 26
CTTGA 98240 3.6597698 98.1805 60
CATCC 35 3.6194658 37.292072 63
GCGGA 13280 3.612018 5.688651 69
CGGGT 16085 3.6118817 5.101444 63
CCCTG 15 3.460362 83.12488 52
CCTGC 15 3.460362 83.08612 55
CGAGA 28090 3.4249144 4.9693027 72
TCCTC 40 3.4150498 30.788918 65
CAATC 2330 3.36992 198.88805 38
CTCGG 465 3.3467581 116.6553 42
GCGGT 14310 3.2133062 4.605771 33
AGGCG 11800 3.2094734 4.20524 20
TCGAG 31850 3.2060332 4.234511 13
ACGGG 11720 3.1877143 4.609506 61
TCACT 2635 3.146335 186.01805 30
GGCGT 13880 3.1167498 4.6116953 49
GTTCG 37405 3.1084862 3.9762583 1
CGGAT 30615 3.0817182 4.2430806 44
CGGTT 36770 3.0557156 3.8246174 5
TCGTT 98925 3.0425107 3.7045004 8
TTCGT 97975 3.0132928 3.4612198 7
TCCCT 35 2.988169 92.29086 51
TTCCC 35 2.9881685 30.788918 65
TGAAC 63655 2.8723495 120.37067 20
CACAT 1960 2.8347826 55.122425 12
AGATC 60005 2.7076483 21.19019 72
CATCT 2220 2.6508021 160.7626 39
AACAC 1490 2.6102931 30.329365 72
CTGAA 57260 2.5837836 120.04347 19
GAACT 57125 2.5776918 120.13037 21
AGTCA 55890 2.521964 118.295395 28
GCTTC 920 2.4505637 88.30019 53
TCATC 2040 2.435872 145.28564 38
TATGC 64160 2.3901753 99.55355 46
GAATC 51465 2.3222916 86.822876 38
CCTCG 10 2.3069081 83.18782 69
AGGCC 255 2.2230585 69.10293 46
AGCTC 675 2.1778169 59.251217 40
ACGAT 47970 2.1645844 7.1114 32
CAGAC 545 2.1298714 19.731583 71
TCTGA 57005 2.1236277 98.81114 18
CCCAT 20 2.0682662 74.58178 68
CGGCA 235 2.048701 68.9592 4
TACAC 1330 1.9236025 40.070675 31
CCGTG 260 1.8713056 93.36187 50
CATAC 1260 1.8223602 59.80263 12
ACGCA 460 1.7976896 11.276282 72
TCCGA 545 1.7583853 31.321321 2
TTCTG 56310 1.7318553 82.180664 55
TGCTT 56310 1.7318553 81.98762 58
GTCTT 55415 1.7043289 81.01104 52
TCCGG 235 1.6913724 67.31198 25
GCCAG 190 1.6563965 34.494595 25
CTGCG 230 1.6553856 57.01638 56
ACTTG 43900 1.6354225 71.25026 34
GGAAG 403415 1.5345855 11.6023855 5
CCGGT 210 1.5114391 59.546234 26
CACAA 825 1.4452965 11.371083 68
GAGCC 155 1.3512709 22.010395 72
ACTTC 1130 1.3492821 50.246758 23
TTCCA 1065 1.2716686 48.10328 24
GCACT 390 1.2582941 16.25256 32
ACGCT 390 1.2582941 32.50512 32
ACTCT 1040 1.2418172 47.240543 23
GAAGA 727205 1.2400582 5.7283607 6
CCGAT 380 1.2260301 23.20098 9
CTTCA 1010 1.2059956 49.391758 24
CTCTA 995 1.1880847 47.244293 24
ATTCC 990 1.1821145 48.09946 23
TGCAC 365 1.1776342 15.126481 71
CCGGG 60 1.1668521 34.97757 26
ACTCG 360 1.1615022 16.26504 40
CGCAA 295 1.1528661 7.047676 72
CGCAG 130 1.1333239 9.432114 71
TTCCG 425 1.132054 19.15433 7
CGTCA 350 1.1292382 16.2497 27
AAGAG 640510 1.0922225 5.555461 7
GTGCC 150 1.0795994 28.525097 46
CGACA 275 1.0747057 11.276282 72
GCATC 310 1.0001825 44.134964 38
CCGAA 250 0.9770052 36.533306 3
GCCGA 110 0.95896643 28.270046 49
TCGCA 295 0.9517864 15.090503 30
CTCGA 290 0.9356546 8.1346 42
GCTCT 340 0.90564317 20.112045 3
ACAAC 515 0.9022154 8.84424 69
CAAAC 500 0.8759373 7.580777 69
CAAGC 220 0.8597646 8.455467 69
GACTC 250 0.8065988 20.8848 21
AAACC 455 0.7971029 8.2134075 71
GCTGC 110 0.7917062 31.099846 56
AATCT 46590 0.7780442 34.266956 39
CTTGC 290 0.7724602 22.07315 59
CAACA 435 0.7620655 5.685557 70
CAACG 195 0.76206404 5.6205087 12
ATCCG 235 0.75820285 33.660397 1
AACCA 420 0.73578733 6.3186173 72
CGCTA 220 0.7098069 26.70302 33
CTTCG 265 0.7058689 22.075169 54
GAACC 175 0.68390363 8.432345 21
GGGCC 35 0.68066376 7.0128417 69
CCGTT 250 0.66591406 10.557632 50
CGACT 205 0.661411 15.113368 51
CCGGA 70 0.61025137 12.538035 3
CATGC 185 0.59688306 24.37862 31
ACAGC 150 0.5862031 9.866747 72
ATATC 34625 0.578231 5.3082814 38
CCAAA 330 0.5781186 5.054176 65
GCGCT 80 0.57578635 7.7863283 63
GTCCG 80 0.5757863 10.351233 17
AGCCA 145 0.5666631 8.436929 32
ACCGG 65 0.56666195 6.287341 68
AACCG 140 0.5471229 7.0469937 71
TGCTC 200 0.5327312 13.446842 62
ACCGA 135 0.52758276 7.035402 57
GGACC 60 0.5230726 6.2822328 49
AGCCG 60 0.5230726 6.287586 64
GCAAC 130 0.5080427 8.430763 11
CGCTG 70 0.503813 7.7689962 31
TGCCA 155 0.5000912 20.898014 33
CCAAG 125 0.4885026 5.6272244 37
AGACC 125 0.4885026 5.6369524 70
CCGAG 55 0.47948322 9.403526 3
GACCG 55 0.47948322 6.2875576 67
CATCG 145 0.4678273 5.8035164 1
TCAGC 145 0.4678273 6.968679 38
ACCGT 140 0.45169526 5.8002443 15
CTCTT 445 0.4386771 7.443258 4
GGCCA 50 0.43589383 6.2825904 54
CAGCG 50 0.43589383 6.2765083 37
AGTCC 135 0.43556333 8.12485 27
GTCTC 150 0.3995484 8.632373 40
AAGCC 95 0.37126195 5.636952 70
CCGTA 115 0.37103543 9.300433 50
CATCA 235 0.33988464 5.2039843 31
CTCAG 105 0.3387715 9.2841015 24
CAGCT 105 0.3387715 6.968798 39
TCCTG 125 0.33295703 12.45037 18
CCTGA 100 0.3226395 15.080704 19
GTCCT 100 0.2663656 11.492649 17
GTCCA 80 0.25811157 5.8025627 24
GGCCT 35 0.2519065 7.78024 51
TACCA 165 0.23864241 7.8059764 31
TTACC 185 0.22090018 6.444043 30
GGCTC 30 0.21591987 5.177933 26
CAGAT 4575 0.20644097 5.5857434 34
GATCA 4435 0.20012365 5.604005 36
GATCT 3890 0.14491557 6.128733 39
ACTGA 3010 0.13582237 6.413249 32
CAATA 6670 0.13492014 5.7014756 36
Produced by FastQC (version 0.10.1)