FastQCFastQC Report
Mon 3 Feb 2014
filtered_BS_CgLarv_T3D5_CAGATC_L007_R1.fastq

Summary

[OK] Basic Statistics

Measure Value
Filename filtered_BS_CgLarv_T3D5_CAGATC_L007_R1.fastq
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 4421486
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
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATCATCTCGTATGC 23320 0.5274244903184133 TruSeq Adapter, Index 7 (100% over 50bp)
ATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATCATCTCGTATGCC 5429 0.12278677349651225 TruSeq Adapter, Index 7 (100% over 50bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CCCCC 1900 802705.8 1675933.6 66
CCGTC 49245 9721.643 559616.5 50
CACAC 55810 5964.3857 300322.75 12
ACTCC 49925 4405.63 243137.05 23
CTCCA 49570 4374.3027 242361.12 24
CACCA 36815 3934.3997 221216.67 31
TCACC 37445 3304.3328 182270.69 30
CACCC 225 1511.857 12106.037 50
CGCCA 4675 1117.694 62458.773 33
CACGC 4675 1117.6938 62194.125 31
ACGCC 4615 1103.3491 62366.88 32
CCGCC 70 1052.2377 10833.021 50
CCACC 150 1007.90466 7260.43 55
CCCCA 135 907.1143 12115.967 67
CCCAC 135 907.1142 7263.6553 54
ACCCC 125 839.9206 9693.068 65
CTCCC 130 721.2865 13969.141 24
CGCCC 40 601.27875 10841.943 66
CCCCG 40 601.2787 16262.858 67
CCCGC 35 526.11884 10833.353 48
GCCCC 30 450.95905 5421.2915 71
CCTCC 65 360.64325 7982.3657 24
TGCCG 49985 351.09952 20200.63 48
GCCGT 49510 347.7631 20044.873 49
CGCGC 575 307.53653 1154.6488 31
CCGGC 575 307.5365 12526.968 50
TCCCC 55 305.15967 6002.868 65
CGTCT 100305 260.05298 7359.7817 51
AGCAC 54410 206.8928 10867.487 10
GCACA 53680 204.11699 10867.487 11
ACACG 52365 199.11673 10788.192 13
ACGTC 53685 168.56055 8816.658 15
CCCCT 30 166.45074 4001.79 67
CACGT 52020 163.33276 8870.845 14
TCCAG 50400 158.24626 8759.223 25
CAGTC 50305 157.948 8736.961 27
GTCAC 50265 157.8224 8746.601 29
CCAGT 50215 157.66539 8726.719 26
ATGCC 50065 157.19444 9023.824 47
ACCAG 37315 141.88945 7994.242 32
CCAGA 37285 141.77538 7997.729 33
TCTGC 49965 129.54036 7437.8604 56
CTGCT 49915 129.41072 7434.31 57
TCTCG 49525 128.3996 7380.1123 41
CTCGT 49485 128.29588 7373.2954 42
CCCTC 15 83.225365 2000.9019 66
CGCGG 4295 81.73443 150.52704 11
GCACC 320 76.50525 2752.5208 30
CGGCG 3955 75.264175 150.58766 25
TCGCG 10635 74.70127 128.99612 40
CGCAC 310 74.114456 1289.3848 12
AACTC 50720 71.186 3918.485 22
GCGCG 3540 67.36667 102.93787 70
CGCGA 7600 64.6499 95.02169 52
CGTCG 8970 63.006157 116.1717 16
ATCTC 49485 57.348915 3295.9814 40
CGACG 6235 53.038437 91.83126 34
CGCGT 7195 50.538383 101.196594 42
CTTCT 49775 47.632034 2733.0508 54
TCTTC 49620 47.48371 2716.1394 53
ACGCG 5395 45.89292 91.754105 13
TCATC 37445 43.395576 2436.812 38
CATCT 37355 43.291275 2447.6785 39
CGCCG 75 40.113457 384.92343 33
CGGAC 4665 39.68313 73.5535 45
CTCCG 200 39.482758 2130.1292 24
CACCG 140 33.471043 1032.2676 31
CCCAG 130 31.080256 687.9487 25
GCCGC 55 29.416536 770.8616 49
CGCTC 145 28.625006 1135.658 2
CGTCC 125 24.67673 922.72626 16
GCTCC 125 24.67673 1064.9877 23
GCGCC 45 24.068073 769.77454 32
CTTCC 320 23.317186 550.16815 3
ACACC 215 22.976938 153.84288 35
TCGCC 115 22.702587 852.31104 30
TCACG 6935 21.774559 1128.5161 30
CCGAC 85 20.321707 344.32144 58
AACCC 185 19.770853 230.61005 22
ACCCA 180 19.236506 154.15904 64
CAACC 175 18.702158 231.00304 43
ACCAC 175 18.702158 115.63858 72
GCCAC 75 17.930918 257.87695 11
CCAGC 75 17.930916 515.97614 26
GCCAA 4650 17.68152 1015.2795 34
CCACA 165 17.633461 115.62768 71
CCAAC 165 17.633461 231.05249 54
GCGGC 900 17.12712 61.71652 48
GCGTC 2415 16.963196 65.661964 15
CGGGC 885 16.841667 61.61624 1
CGATC 5345 16.782269 305.0579 33
CCACG 70 16.735521 257.8769 14
CCCGG 30 16.045382 385.75165 68
CCGCG 30 16.045382 192.86357 62
TCGGC 2235 15.698857 85.86565 3
CGACC 65 15.540129 257.87695 4
TTCGC 5935 15.387212 28.932604 39
CCCAA 130 13.893031 192.69597 68
CGGAA 100490 13.595728 392.41147 4
ATCGG 121425 13.565132 329.20612 2
CGAGC 1580 13.440373 36.814796 71
CGCCT 65 12.831897 142.26935 50
CTCGC 65 12.831896 212.9358 8
TCCCG 65 12.831896 71.193245 66
CGGTC 1825 12.818977 65.69933 27
ACGGC 1475 12.547184 134.57268 15
TCGGA 110615 12.357482 324.98862 3
GATCG 109160 12.194934 326.91208 1
CGTTC 4615 11.9649515 20.552832 51
CCCGA 50 11.953944 86.23211 72
CCGCT 60 11.844827 142.26933 50
TCGTC 4510 11.692725 29.894821 52
GCCGG 605 11.513231 466.2709 49
GGCGC 605 11.51323 27.432081 47
ATCGC 3560 11.1777115 27.13502 40
GTCGC 1580 11.098074 58.122654 29
AGCGC 1285 10.930937 58.11093 10
CCCGT 55 10.857758 142.07675 33
TGCGC 1540 10.81711 25.290264 58
ACCGC 45 10.758551 86.217255 69
ACCCG 45 10.75855 258.06982 32
GCCCG 20 10.696922 192.88065 67
CGTAC 3400 10.675344 18.104223 47
CACTC 115 10.148171 63.533546 38
ACGAC 2650 10.076566 21.892843 33
CACGA 2510 9.544219 366.66656 31
TCGAC 2905 9.12114 16.939531 24
AGAGC 66760 9.032251 393.18982 8
CCAAT 6425 9.017548 375.79587 35
GTCCC 45 8.883621 71.192276 64
GGGGG 368315 8.8733425 9.964898 24
CCCTA 95 8.383272 190.78664 52
CAGCC 35 8.367762 172.01581 27
AACGC 2195 8.346438 24.615715 22
GACGC 975 8.293901 21.418518 26
TACGC 2565 8.053604 27.1134 31
GGCCC 15 8.022691 192.87276 70
CACCT 90 7.942047 190.50703 31
CCATC 90 7.942046 126.96588 26
GAGCA 58375 7.897807 391.92505 9
CGGGG 11555 7.823927 12.179675 1
GCGAC 905 7.698442 21.40929 10
TCCCA 85 7.5008216 190.44344 25
CGTGC 1065 7.480664 17.678421 18
CGGCT 1020 7.164579 164.51805 51
GACCA 1845 7.015571 405.06253 35
GCCTC 35 6.909484 71.1918 63
CTGCC 35 6.909483 71.18671 62
ACCCT 75 6.6183724 95.470894 67
CGAAC 1740 6.616311 13.68024 29
GAGAG 1371390 6.6016665 7.6202087 42
CCCTT 90 6.557959 105.10786 68
TCCCT 85 6.193628 78.769325 51
CCTAC 70 6.177148 63.5954 54
GGGCG 8870 6.0059056 8.765529 21
GGCGG 8845 5.9889774 10.011326 69
GCCCA 25 5.976973 86.232124 72
GACCC 25 5.9769716 86.21861 67
AGCCC 25 5.9769716 86.22399 71
TCCGC 30 5.9224133 71.1034 55
GCGGG 8675 5.87387 8.7641 6
CTGAC 1835 5.761546 334.43384 33
TGACC 1825 5.730148 336.69315 34
CACTG 1780 5.5888557 340.0472 31
TCACA 3980 5.5859675 313.57852 30
GACGG 17495 5.2951856 7.0842614 56
TCGGG 19775 4.9421964 10.78288 3
CCTGC 25 4.9353447 71.19227 64
AGATC 97745 4.8811584 105.530525 35
TCCAC 55 4.853473 158.74472 30
CATCC 55 4.853473 31.824606 65
GTCTG 52075 4.803762 262.21854 17
CCGCA 20 4.7815776 86.15851 47
CTCCT 65 4.736304 78.832855 67
TTCCC 65 4.736304 52.39697 5
GCTTG 50225 4.6331053 264.8191 59
GGCAC 540 4.5935454 134.65857 29
ACCTC 50 4.412248 126.947945 23
TCGTA 105330 4.343269 120.10399 43
ACACT 3080 4.322809 254.01427 32
GTCGG 16585 4.144947 5.930584 2
GCGAG 13625 4.1238585 5.7790422 43
CGTAT 98980 4.0814276 119.97736 44
GGACG 13410 4.0587854 5.998459 51
GGTCG 16020 4.0037413 7.102994 1
CTCAC 45 3.9710236 31.7977 54
CCACT 45 3.971023 31.823627 67
CGAGG 13120 3.9710107 5.5667114 66
CCCTG 20 3.948276 71.191795 63
GCCCT 20 3.948276 71.193245 66
CCTCG 20 3.9482756 71.13684 48
CGGGA 12855 3.890804 10.446926 4
CACAG 1015 3.8595147 164.19633 33
CACTT 3290 3.8128307 209.76604 33
CGGAG 12585 3.8090832 5.3322845 7
TTCGG 40835 3.7669055 4.6860743 45
TCGGT 40550 3.7406156 5.439338 4
GGCGA 12310 3.7258496 5.117766 28
ACGGA 27430 3.7111237 4.73302 71
CGGTA 32820 3.666524 4.699502 4
GAGCG 12065 3.6516955 5.876395 9
TTTCG 106625 3.6304457 4.238262 1
CCAGG 425 3.61529 131.57089 26
CTACC 40 3.5297987 95.35073 55
ATCCC 40 3.5297987 63.646614 64
AGAGA 1629530 3.5064485 3.957662 45
CGGGT 14025 3.5051482 4.8558707 31
ACCAA 2030 3.4504452 181.10909 36
AGCGG 11390 3.4473944 5.223521 18
GCGGA 11310 3.423181 5.6625233 30
GCGGT 13120 3.2789693 4.678173 36
CACGG 385 3.2750278 131.5142 14
GCACG 380 3.2324948 48.93552 13
ACGGG 10580 3.2022328 4.57237 25
CGAGA 23530 3.183476 4.137228 1
GGCGT 12510 3.1265173 4.231942 44
TCGAG 27935 3.1207907 3.9776306 22
GTTCG 33490 3.089352 4.0795035 7
AGGCG 10195 3.0857053 4.4750724 68
GGCCG 160 3.0448213 89.14609 48
TGCCC 15 2.9612072 71.14338 47
CAGGC 340 2.8922322 131.58907 27
TCACT 2495 2.891493 163.03008 30
TGAAC 57815 2.887147 142.52849 20
ACACA 1660 2.8215463 72.778114 32
CAATC 1930 2.7087731 150.5618 38
CGGCC 5 2.6742303 192.87276 70
GCGCA 310 2.6370354 42.81858 11
CTGAA 52260 2.6097434 141.98744 19
GAACT 52170 2.6052487 142.06282 21
AGTCA 51475 2.570542 140.63533 28
CCTTC 35 2.5503173 26.2593 47
TCTCC 35 2.5503173 52.56346 72
TCCTC 35 2.5503173 52.556847 65
CTCTC 35 2.5503173 52.47738 40
TATGC 57980 2.390798 118.54587 46
CCCAT 25 2.206124 63.595543 52
CTTGA 53040 2.1870975 117.651726 60
CCTCT 30 2.1859863 52.554695 64
CTCGG 310 2.17747 98.66666 42
TCTGA 52195 2.152254 116.91663 18
ACGAT 41980 2.0963838 7.133351 32
CAGAT 39670 1.9810277 105.66246 34
GATCA 39415 1.9682935 105.322525 36
GCTCG 265 1.861386 70.82237 41
CCGTG 255 1.7911448 91.11646 50
CGGCA 210 1.7863787 73.40328 4
CCTCA 20 1.7648991 31.82861 72
TTCTG 50940 1.7344422 97.97295 55
TGCTT 50845 1.7312076 97.66942 58
GTCTT 50125 1.7066925 96.875694 52
GCCAG 200 1.7013131 39.776123 25
CACAT 1205 1.691229 62.57301 12
TCCGA 520 1.6326995 24.835653 8
GGAAG 337565 1.6249878 15.3607025 5
GCTTC 625 1.6203889 60.723373 53
CCGGT 225 1.5804218 58.11062 26
TCCGG 220 1.5453012 63.161926 25
CCGGA 170 1.4461161 36.732544 33
ACTTC 1160 1.3443415 60.852753 23
TACCC 15 1.3236744 31.823307 64
ACCGG 155 1.3185177 39.789856 32
CATAC 935 1.3122813 51.471344 12
AACAC 770 1.3087895 11.035179 72
CCGAT 415 1.3030199 23.706762 6
GAAGA 597130 1.2849138 7.33438 6
CTTCA 1100 1.2748065 60.85715 24
GGGCC 65 1.2369587 13.714784 48
TTCCG 470 1.2185323 22.371775 7
GACAC 320 1.2167928 15.038667 12
ATTCC 1025 1.187888 56.684757 23
TTCCA 1015 1.1762987 56.272022 24
CACAA 680 1.1558142 5.512281 51
AGGCC 135 1.1483864 39.852406 47
AAGAG 518160 1.1149849 7.2036304 7
TACCA 780 1.0947373 45.954346 31
AGCTC 345 1.0832334 30.526897 40
TACAC 765 1.0736847 33.30499 12
CCGGG 55 1.0466573 6.862805 67
GTATG 681270 0.9995326 5.1357403 45
ACTCT 835 0.9676941 45.014366 23
CTGCG 135 0.94825315 25.290695 57
GCATC 300 0.9419421 35.03869 38
ACAAC 550 0.9348497 5.5066953 36
ACGCT 295 0.92624307 19.202719 1
GACCG 105 0.8931893 6.13043 52
CTCTA 770 0.89236456 44.60079 24
TTACC 760 0.8807754 37.943058 30
CAACA 510 0.8668606 6.1186404 37
CAGAC 225 0.85555744 9.570061 12
CCGAA 220 0.83654505 17.77297 3
CAACG 215 0.81753266 6.8357577 14
GCCGA 95 0.80812377 9.195241 49
GCTGC 115 0.8077712 17.70527 56
CACTA 575 0.80701786 32.31954 31
CGTCA 250 0.78495175 15.817817 33
AAACC 445 0.75637835 9.195117 71
CGCTG 105 0.7375303 12.627358 16
ATCAT 38645 0.71231216 38.80918 37
GACTC 225 0.7064565 21.455063 22
CATCG 225 0.7064565 6.781735 39
GGCCA 80 0.68052524 6.1357994 71
CTTCG 250 0.6481555 17.750008 54
ACGCA 170 0.6464212 5.468606 4
CCGAG 75 0.6379924 6.1363773 72
CGCTA 195 0.61226237 13.558128 33
AACCA 360 0.6119016 6.1306553 72
GCAAC 160 0.6083964 5.478252 42
GTCCG 85 0.5970483 10.101944 17
GAGCC 70 0.5954596 12.23388 9
CATCA 420 0.58947396 20.19971 31
TGCCA 185 0.5808643 25.986414 33
ATATC 31010 0.5715824 5.4940243 38
CCGTT 220 0.5703768 10.276275 50
CAGCG 65 0.5529268 6.130389 50
ACCGA 145 0.55135924 5.476422 57
CAGCT 175 0.54946625 16.954338 39
CATGC 175 0.5494662 23.724224 31
ACTCG 175 0.5494662 6.783755 40
GCTCT 205 0.5314876 16.778831 3
GTGCC 75 0.5268073 15.187935 47
GAATC 10390 0.5188525 9.401848 38
ATCCG 165 0.51806813 16.943573 1
TCAGC 165 0.51806813 14.693642 38
CGCAG 60 0.5103939 6.135416 67
CCTGA 140 0.43957293 7.9023423 19
CCAAG 115 0.43728492 6.838704 26
GCGCT 60 0.42144582 7.599135 63
CAGCA 110 0.41827253 5.471719 27
TCCGT 160 0.41481948 5.5951953 25
CTCGA 125 0.39247584 5.6465096 24
CTCTT 400 0.3827788 7.5739317 1
GAACC 95 0.36123538 10.938993 21
CTTGC 135 0.35000396 8.410262 60
AGCCG 40 0.3402626 6.1311393 47
CCTGG 45 0.31608433 5.066492 71
TCCTG 120 0.31111464 6.5251746 18
CCGTA 95 0.29828167 7.9196286 50
ACCTG 95 0.29828164 6.7784266 32
AGTCC 95 0.29828164 7.907082 28
GTCCA 85 0.2668836 6.7776837 29
CTCAG 85 0.26688358 7.9051137 24
CTGTC 95 0.24629909 8.407861 50
GTCCT 90 0.23333597 7.457334 17
ACTTG 3620 0.14927024 7.641646 34
CAATA 6485 0.14476073 6.058729 36
GATCT 3275 0.13504419 5.967292 39
ATCAG 2500 0.12484419 5.0141377 35
ACTGA 2395 0.11960074 5.5701227 32
AATCT 6025 0.11105398 5.354726 39
Produced by FastQC (version 0.10.1)