FastQCFastQC Report
Mon 3 Feb 2014
filtered_BS_CgF_TTAGGC_L007_R2.fastq

Summary

[OK] Basic Statistics

Measure Value
Filename filtered_BS_CgF_TTAGGC_L007_R2.fastq
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 323336
Filtered Sequences 0
Sequence length 76
%GC 18

[FAIL] 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

[WARN] Overrepresented sequences

Sequence Count Percentage Possible Source
TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 1173 0.36278051315040705 No Hit
ACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 388 0.11999901031744069 No Hit

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
GGGGG 4745 3269013.8 5.214178E7 40
CGGGG 1620 58590.54 1345496.1 39
GGGGC 1610 58228.875 1458993.1 10
GGGCG 1575 56963.027 1446865.9 42
GGCGG 1010 36528.67 1433028.9 12
GGGAG 2435 35862.53 519840.94 29
AGGGG 2280 33579.7 647511.25 27
GGGGA 2240 32990.582 764228.0 20
GCGGG 790 28571.93 1367891.0 13
GAGGG 1930 28424.922 435347.88 26
GGTGG 1065 17071.25 612361.1 40
GTGGG 655 10499.219 231079.67 40
GGAGG 605 8910.402 339530.16 17
GGGGT 460 7373.4966 190628.84 41
TGGGG 445 7133.057 213635.7 19
GGGTG 395 6331.5903 167436.39 16
GAGCG 4505 3483.1223 46266.24 72
GAGAG 9040 2846.242 20532.818 72
GCGCG 1145 2173.9521 14967.213 72
TCGGG 2400 2019.5698 28246.121 37
GGAAG 6275 1975.6824 23578.895 72
GGCGC 840 1594.8646 56110.535 43
GCGGC 660 1253.1077 21978.15 44
CGGCG 610 1158.1754 21201.965 11
CGGGA 1450 1121.0938 20889.047 3
GCGAG 1300 1005.1185 6649.657 63
GGGAA 2775 873.7081 33473.777 21
GCCGG 455 863.8849 24720.787 46
CCGGG 420 797.43225 23935.844 14
CGGTG 905 761.54614 31609.217 39
GGGCC 385 730.9795 12994.752 11
GGCCG 380 721.4863 15107.149 46
GGAGA 2280 717.8575 11907.172 30
GCGTG 725 610.0784 7236.792 70
GGTCG 715 601.6635 29114.205 43
AGAGG 1905 599.7888 9307.47 25
GAGTG 1640 561.9801 7735.793 69
AGCGG 700 541.21765 8907.26 9
CGGGT 570 479.64783 21217.227 15
AGGGA 1510 475.42316 15770.181 20
GTAGG 1305 447.1854 14194.648 18
AAGGG 1405 442.36395 7717.789 26
TAGGG 1270 435.19193 13948.001 19
CGCGG 200 379.7296 4120.1313 46
GTGTG 995 371.0854 6548.1807 72
GGCGT 435 366.04706 6668.3755 12
GGTAG 1000 342.6708 8145.861 30
GGGTA 935 320.39722 8269.025 29
GTCGG 370 311.35034 11518.103 13
CGTGG 365 307.1429 6365.0693 14
GGGTC 325 273.48343 7278.6646 42
GATCG 14600 262.64066 2932.8796 72
GTGGT 640 238.68811 11289.875 41
ATCGG 12175 219.0171 2326.9658 72
TGGGC 260 218.78674 8491.114 41
AGGGT 630 215.88258 7407.6304 28
GCGGT 245 206.16441 1826.1418 47
GTGAG 515 176.47546 1473.4388 72
AGGGC 210 162.3653 3620.2617 10
CGCCG 1585 157.98131 5515.478 46
TCGGA 8725 156.95476 1708.1605 71
GGCAG 195 150.76779 3047.477 71
TGGAG 425 145.6351 2715.4136 16
CGGAG 185 143.0361 1396.2935 39
GAAGG 435 136.95966 3626.2595 6
GCGGA 170 131.43857 4753.9927 47
GTGCG 150 126.223114 3015.2368 72
CGGAA 7545 124.70808 1569.4772 72
GTGGA 345 118.22143 2592.026 15
GTGGC 135 113.60081 3335.795 41
GGTGT 290 108.15555 668.4092 57
GGAGC 135 104.37769 1108.2075 70
GGTGC 115 96.77106 3336.0027 43
GAGGC 125 96.64601 831.1557 69
AGGCG 125 96.64601 835.53595 11
GCGCC 940 93.6924 2848.3953 44
AGAGC 5480 90.57658 1077.905 71
TGGGA 260 89.09441 2221.9436 3
TGTGG 235 87.64328 942.93463 39
CGCGC 860 85.71857 392.8828 61
TGGCG 95 79.94131 909.83307 42
CGAGG 100 77.3168 1939.3032 72
CGTCG 1615 71.343124 1241.149 12
TTGGG 190 70.86053 1346.1053 37
GGACG 90 69.58513 1950.5542 43
AGGAG 220 69.26695 2041.1659 29
TCGCG 1545 68.250854 379.90768 69
GAGGA 215 67.6927 1701.5535 28
GCGTC 1530 67.58823 1320.7714 11
AGTGG 195 66.82081 613.9994 66
GGGAC 85 65.719284 1114.6196 42
GATGG 190 65.10745 1235.1237 1
GACGG 80 61.853447 836.04285 1
ACGGG 80 61.853447 2508.1675 2
CTCGG 1365 60.2993 2327.8804 37
CGCGA 1455 59.056664 290.8907 62
GGGCA 75 57.987606 1671.0718 11
TGGTG 150 55.94252 269.40988 39
ATGGG 160 54.82733 1235.143 2
CTGGG 60 50.489246 1518.7032 38
TGCGG 60 50.489246 909.8189 40
GGGCT 60 50.489243 2426.2212 42
AGCGC 1220 49.5183 380.10352 10
AGAGA 6950 46.77886 354.54333 70
CAGGG 60 46.390087 558.16064 38
GCCGT 1020 45.05881 1901.3506 47
CGAGA 2715 44.875072 331.68362 68
GAGGT 125 42.833847 617.1106 31
GCCGC 425 42.360916 757.0619 47
AGGTG 120 41.1205 368.37683 61
GTCGC 915 40.42041 1518.0984 44
AAGAG 5900 39.711548 520.94556 72
GGCGA 50 38.658405 554.1038 70
GAAGA 5425 36.51443 501.65125 71
GTTGG 95 35.430264 671.70294 17
GCAGG 45 34.79256 557.0066 17
CCGCG 340 33.888737 250.0125 70
TCGAG 1880 33.81948 244.97032 67
GGCTG 40 33.659496 1213.0919 43
AGCGT 1810 32.56024 531.30707 10
GGGAT 95 32.553722 617.1106 31
CGTGT 1655 32.402668 479.5508 15
CGCGT 690 30.48096 253.26393 71
GGGTT 80 29.836014 672.2882 49
GGAGT 85 29.127016 613.9328 71
CGGGC 15 28.479721 686.8172 44
TGGGT 75 27.971264 537.6131 41
TCGTG 1395 27.31222 401.97018 14
GTCGT 1360 26.626966 380.82568 13
GGTGA 75 25.700312 370.28943 15
GCTGG 30 25.244623 303.0891 10
GCTCG 570 25.179928 142.4764 65
GCCCG 245 24.419823 1045.4175 46
GCGCT 530 23.412914 158.3071 65
CTCTC 403295 21.760536 32.278904 34
TAGAG 2830 20.731224 149.63533 67
CGACG 510 20.700274 87.26315 71
TGAGG 60 20.56025 493.73456 17
GGAAA 3050 20.52885 584.79407 22
GGTTG 50 18.647507 268.82324 40
GTGTA 2275 18.138178 183.79276 16
CAGAG 1075 17.768217 124.37367 72
TCGGT 880 17.229214 713.7719 38
CGAGC 410 16.641396 101.81804 64
ACGCG 410 16.641396 58.53297 49
TGTAG 2045 16.304424 198.1608 17
AGAGT 2225 16.299284 194.25441 68
TCGGC 345 15.240482 490.6989 71
AGCGA 895 14.793072 94.77114 66
CGGCA 355 14.409016 450.85968 72
GGATG 40 13.706833 370.3009 17
GTGTC 665 13.019803 84.18561 71
CGCTG 280 12.369086 126.64566 66
GAGAT 1685 12.343503 171.50145 31
CCGGA 295 11.973689 425.73523 47
GGCCC 120 11.9607315 360.52258 45
GTAGA 1580 11.574323 303.42563 31
GTCCG 260 11.485581 95.52497 43
AGTGT 1395 11.122091 182.84344 70
TAGCG 615 11.063288 64.46587 66
CTGTG 560 10.964045 77.17371 60
GAAAG 1595 10.7355795 317.87564 23
TCTCT 433850 10.375032 14.898152 35
GCGAC 255 10.350137 72.72604 63
TCCGG 230 10.160321 446.44284 37
CCGTG 225 9.9394455 222.7634 14
TGGTC 505 9.887219 585.67096 42
GCGCA 240 9.741306 87.26856 68
CCCGG 95 9.468912 288.40457 47
TGTGT 1020 8.850873 49.75077 61
AAAGG 1210 8.144232 165.00157 25
GCCGA 200 8.117754 337.65204 47
GCGAT 450 8.095088 45.123314 59
CGGCC 80 7.9738207 396.57486 45
GAGTC 435 7.8252516 77.35904 67
GACGC 190 7.7118664 117.460686 44
TGTCG 390 7.6356735 70.15466 72
AGATC 18960 7.2913647 64.76526 71
GAGCA 430 7.107286 94.76089 72
GCTGT 355 6.9504213 56.12981 67
GAGAC 420 6.9420004 65.15516 67
CTGAG 380 6.8358526 45.124016 68
GCGTA 380 6.835852 64.458885 71
CCCCC 23670 6.5018754 13.465195 1
GAGCT 355 6.386125 45.122616 69
GACCG 155 6.29126 102.4088 1
GACGT 345 6.206234 58.014793 69
GAACG 370 6.1155715 71.49076 1
AAGCG 360 5.950286 124.9611 9
CGCAG 140 5.682428 87.26315 72
TGAGA 770 5.640651 39.375893 68
GCACG 135 5.479484 101.807014 72
TTCGG 275 5.3841286 176.66519 37
GCGAA 315 5.2065 17.859077 29
AGTCG 285 5.1268897 58.016594 68
AGAAG 755 5.081732 94.05961 72
CCGGT 115 5.0801606 255.69966 48
GAGCC 125 5.0735965 58.181736 66
AGCCG 120 4.8706527 58.177235 70
CGTGC 110 4.8592844 63.31599 71
CGGAT 265 4.7671075 279.8389 48
TCTCG 4635 4.7639203 54.533962 36
GCAGA 285 4.710643 94.76089 72
CAGTG 250 4.4972715 32.487167 39
GCGTT 220 4.3073034 21.165209 20
CGTGA 235 4.2274346 45.357597 15
AGACG 255 4.214786 71.07066 72
GTCGA 230 4.1374893 25.91903 13
CTCGC 1745 4.0467563 13.296138 58
GATAG 525 3.8458984 34.124718 70
GGTCC 85 3.7549014 111.4458 43
GACAG 225 3.718929 59.22556 72
ACGTG 200 3.5978172 58.0148 70
ACGAG 215 3.5536432 47.380447 71
GGATC 195 3.5078714 194.56512 49
GACGA 210 3.4710002 17.933784 46
GAGAA 510 3.432693 82.42513 31
CCCCG 655 3.4272811 34.06405 46
CGTAG 185 3.327981 45.121227 72
CGGTA 185 3.3279805 26.031527 48
CGGTC 75 3.3131483 79.63139 49
AACGG 200 3.3057144 71.49187 2
GTACG 180 3.2380354 19.339762 66
GGCTC 70 3.0922718 95.55767 49
TGGCC 70 3.0922718 127.36861 42
AGATG 420 3.0767188 99.746086 72
ACCGG 75 3.0441582 58.52023 2
GTGCC 65 2.8713953 143.81984 44
CGCTC 1195 2.7712739 10.029021 54
CGCCC 510 2.6685698 39.745113 45
GTCTG 135 2.643118 21.04868 67
ACGGC 65 2.6382701 73.09683 10
TCGCC 1135 2.6321309 81.36532 45
CCCGC 495 2.5900826 9.442928 37
TCTGG 130 2.5452247 28.266432 37
CTCGA 2670 2.5214612 7.4453397 66
GCTAG 140 2.518472 45.12611 65
CCGGC 25 2.491819 108.15171 47
CCCGA 1165 2.4823546 14.642902 47
AGTGA 335 2.4540496 20.999176 72
GTTCG 125 2.4473312 77.62628 1
CTGCG 55 2.4296422 47.48699 72
ACGGA 145 2.396643 65.4955 3
CGATG 130 2.338581 25.784353 70
AGGAA 345 2.322116 65.48579 20
CCGCC 430 2.249971 37.852486 45
TGTGA 280 2.232391 14.285749 65
CCGAG 55 2.2323825 43.63293 70
CAGCG 55 2.2323825 58.177235 69
CGGCT 50 2.2087655 127.84983 48
GCTGC 50 2.2087655 63.91993 44
CGTTG 110 2.1536517 21.047377 59
CCGTC 920 2.1335335 5.8727326 48
AGCTG 115 2.068745 38.676533 70
CTGGA 115 2.0687447 12.969999 52
CGGAC 50 2.0294385 29.266485 49
CGGTT 100 1.9578651 84.70299 49
GTCAG 105 1.888854 12.9585085 56
GAGTA 255 1.8680078 23.624804 69
GGTCT 95 1.8599719 35.280834 43
CCGAA 2110 1.8308375 9.103239 48
CCGAT 1910 1.803742 10.932553 48
GTGAC 100 1.7989085 12.896165 57
TGCGC 40 1.7670125 47.48846 70
CCGTA 1870 1.7659672 40.997074 48
ACCGA 2030 1.7614219 5.0213785 47
CTCCG 755 1.7508888 19.251938 36
CGAGT 95 1.708963 32.229443 72
TGAGC 95 1.708963 12.896165 57
GGTTC 85 1.6641854 105.87049 50
CCGCA 780 1.6620057 13.875256 48
TCCCG 715 1.6581265 7.5333667 36
AGCAG 100 1.6528573 29.61278 72
ATGTG 205 1.6344289 19.997883 72
CCTCG 700 1.6233406 5.012251 11
ATCGA 4215 1.620944 13.91764 72
GTAGC 90 1.6190176 19.33976 65
GTGCA 90 1.6190176 12.958104 29
AAGGA 240 1.6153849 26.679394 20
ATCGC 1710 1.6148684 6.0909815 71
GATGT 200 1.594565 19.997883 71
TCGCT 1525 1.5674171 5.156283 59
TGAGT 195 1.5547009 11.496697 51
AGTGC 85 1.5290722 19.337666 71
CCGAC 715 1.5235052 5.3721967 32
TAGTG 190 1.5148365 14.2857485 66
ATGAG 205 1.5017318 18.374279 72
ATAGG 205 1.5017316 15.832378 17
TCAGA 3895 1.4978832 26.043903 72
GCAAG 90 1.4875715 17.767666 72
CTTGG 75 1.4683989 42.39965 37
ACCGC 680 1.448928 5.3447804 61
TAGAT 8495 1.4478949 11.298807 69
GACTG 80 1.4391268 12.892377 62
GCATG 80 1.4391267 38.878544 13
TTGTG 165 1.431759 9.32827 61
GCCAG 35 1.420607 29.240551 13
CTCTG 1380 1.418384 7.366118 58
AAGAT 9000 1.4094265 12.289416 70
CGAAG 85 1.4049287 23.690222 71
GAAGC 85 1.4049287 11.846393 67
CGCAC 655 1.3956585 6.108226 69
CCGCT 600 1.3914348 8.389618 48
TCCGT 1345 1.3824105 5.1936307 37
TCCGC 595 1.3798395 5.872274 44
TGCAG 75 1.3491814 25.784754 59
TCAGG 75 1.3491814 19.338266 69
CCCGT 575 1.3334583 15.098012 47
CAGAT 3435 1.3209829 10.473005 69
CGTAT 3105 1.2995883 18.40936 49
GTAAG 175 1.2819661 31.664265 18
TAGGA 175 1.2819661 39.580948 19
ATGCG 70 1.259236 19.337667 72
TGCGA 70 1.2592359 25.783556 71
GGACA 75 1.2396429 17.767666 72
GTATG 155 1.2357877 25.711563 72
CTCAG 1305 1.2323996 6.429668 62
GGCAC 30 1.2176633 14.682587 44
CACGG 30 1.2176633 29.08862 70
GGACC 30 1.2176632 14.632104 50
GCAGC 30 1.2176632 29.365171 44
GTTGT 140 1.2148256 15.547115 60
TTCCG 1155 1.1871257 6.3066487 36
ACGCC 555 1.1825808 6.10832 61
TAAGG 155 1.1354556 29.026026 19
TGTTG 130 1.1280525 9.376995 17
CTAGA 2920 1.1229317 6.477227 64
CTGGC 25 1.1043828 15.945381 38
GGCCT 25 1.1043828 47.7365 12
TGCCG 25 1.1043828 47.935455 45
AGTAG 150 1.0988281 21.10787 30
TGAAG 150 1.0988281 13.193649 17
ACTCG 1145 1.0813009 5.79471 35
GGACT 60 1.0793451 38.871292 33
TGTGC 55 1.0768259 21.046402 71
TTGAG 135 1.0763313 11.428598 65
CAGGA 65 1.0743572 17.768215 70
AGGAC 65 1.0743572 35.719265 32
ATGGA 145 1.0622005 7.8749347 69
CCGTT 1025 1.05351 7.064785 48
ATTGG 125 0.99660313 22.98982 1
ACTGG 55 0.98939973 12.891779 72
GCAGT 55 0.9893997 19.338564 61
GGTCA 55 0.9893997 38.909996 50
GATGC 55 0.9893997 19.338264 70
TGGAA 135 0.9889453 26.385248 4
AAGTG 135 0.9889453 34.318428 27
GATCA 2555 0.9825652 20.808207 70
GTGCT 50 0.97893256 14.030934 72
TGCGT 50 0.97893256 7.071565 39
ATCAG 2540 0.97679675 23.56353 71
AAAGA 6700 0.96405315 6.858018 66
GGTAA 125 0.9156901 13.193649 17
GTGAA 125 0.9156901 18.468813 29
GGAAC 55 0.90907145 17.768215 69
GGCAT 50 0.8994543 45.358307 12
CATGG 50 0.8994543 19.43867 14
TGGAC 50 0.89945424 12.966771 42
GCCTG 20 0.8835061 47.736496 13
GATCT 2105 0.88104135 22.008959 34
CGCAT 930 0.87826174 6.832845 48
GCCCC 165 0.8633608 11.355746 45
CACAG 970 0.8416646 7.462181 70
ATAGA 5300 0.8299955 6.8459463 72
GTGTT 95 0.824346 9.376556 16
ACAGA 2305 0.8144561 7.2172585 68
AGGTC 45 0.8095088 12.958709 10
GGATA 110 0.8058073 10.554591 15
TGCTG 40 0.7831461 14.031367 70
TATGG 95 0.7574184 11.427362 72
GTGAT 95 0.7574184 8.570521 71
GGATT 95 0.7574184 34.492775 49
TTGGA 95 0.7574184 25.84867 3
CAAGA 2085 0.7367206 5.824274 69
TGACG 40 0.7195634 12.892178 70
TACGG 40 0.71956336 19.478634 37
GATTG 90 0.71755415 20.11609 1
GAAAA 4785 0.6885066 6.2767196 23
GTAGT 85 0.67769015 5.7464714 41
TAAGA 4255 0.6663454 5.611605 69
CCTGG 15 0.66262966 15.9443865 37
GGCAA 40 0.66114295 5.958769 22
ACAGG 40 0.6611429 17.767666 71
TTAGG 80 0.6378259 22.974806 18
ACGGT 35 0.6296179 6.493283 38
GGAAT 85 0.6226693 7.874691 71
GAAGT 85 0.6226693 10.553935 31
GGCCA 15 0.60883164 14.679838 46
TAGGT 75 0.5979619 11.511383 38
TTGCG 30 0.5873595 7.0715647 39
AGGTA 75 0.54941404 10.557218 28
AATGG 75 0.54941404 5.280825 1
AAGGT 75 0.54941404 15.839273 27
GGTAT 65 0.51823366 5.748796 49
TGATG 65 0.51823354 14.359478 17
GTATC 1190 0.49807087 16.446428 50
AGGCA 30 0.49585715 5.95849 51
AAGGC 30 0.49585715 11.906607 10
GTTGC 25 0.48946628 7.0823846 44
TGGAT 60 0.4783695 5.7433453 4
GAGTT 60 0.4783695 5.745042 28
GGTTT 55 0.47725293 9.381952 43
TTTGG 55 0.4772529 15.659968 36
CTAGG 25 0.44972715 6.492879 37
GGTAC 25 0.44972712 6.5073733 44
GCTGA 25 0.44972712 6.4797573 13
GATGA 60 0.43953124 7.8750567 60
GGTTA 55 0.43850538 11.486155 29
GTTAG 55 0.43850532 5.743255 30
CCAGG 10 0.40588775 29.239647 14
CAGGC 10 0.40588772 14.628463 42
ATGGT 50 0.39864126 5.745042 28
CAGAA 1125 0.39751115 8.736142 72
TTGGT 45 0.39047968 6.264281 38
GAATG 50 0.36627603 7.874691 71
CAGGT 20 0.35978168 6.4974327 39
TGGTA 45 0.35877714 5.746918 42
GCCCT 150 0.34785864 5.0324345 46
AGGTT 40 0.318913 11.490084 28
GTCCC 130 0.30147755 6.71117 44
CTGGT 15 0.29367977 7.0526567 11
TTGGC 15 0.29367977 7.051889 10
AGTTG 35 0.27904883 5.713857 70
TGGCA 15 0.26983628 6.446487 63
ATGGC 15 0.26983628 6.4465866 64
CAAGG 15 0.24792857 11.907348 18
AGGCC 5 0.20294386 14.628463 42
GGCTT 10 0.19578652 14.117165 49
TGGCT 10 0.19578652 7.0526567 11
GCTTG 10 0.19578652 7.0668283 35
TAGGC 10 0.17989084 6.4849997 50
TGCCC 65 0.15073878 5.032906 45
GGCTA 5 0.08994542 6.446188 62
AGGCT 5 0.08994542 6.446188 62
Produced by FastQC (version 0.10.1)