FastQCFastQC Report
Wed 2 Apr 2014
mcf_T3D3_R1.fastq

Summary

[OK] Basic Statistics

Measure Value
Filename mcf_T3D3_R1.fastq
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 7109789
Filtered Sequences 0
Sequence length 19-76
%GC 16

[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

[WARN] Sequence Length Distribution

Sequence length distribution

[OK] Sequence Duplication Levels

Duplication level graph

[OK] Overrepresented sequences

No overrepresented sequences

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CCCCC 180 1138390.4 1.7934328E7 15
ACCCC 185 9913.594 190991.08 31
CCCCA 175 9377.726 152859.8 32
CACCC 135 7234.244 152727.72 30
CTCCC 100 4341.557 77171.96 24
CCGCC 35 4254.7456 87731.19 52
CCACC 75 4019.0251 96461.125 49
CCCGC 25 3039.1038 43566.152 42
CGCCC 25 3039.1035 86181.08 15
CCTCC 65 2822.012 30868.783 24
CGCGC 1060 2476.8416 6624.2344 4
CCCAC 45 2411.415 19279.0 48
CCCCG 15 1823.4623 43538.844 41
CCCTC 25 1085.3894 16638.486 69
CCCCT 20 868.3114 30770.746 1
TCCCC 15 651.2335 15450.109 27
GCCCC 5 607.82074 43099.09 16
CACAC 1015 460.85703 8691.043 12
CACGC 420 432.609 5137.393 30
ACGCC 395 406.85846 5141.8354 32
CGCCA 385 396.55823 5143.4985 33
CCGTC 405 337.9772 4807.012 49
CGCGG 7095 318.66296 527.44745 27
TCGCG 18200 291.938 370.89807 26
CGGCG 6455 289.91815 530.84094 41
GCGCG 5980 268.58414 397.9079 7
CGCGA 13045 258.2719 344.13828 19
CGTCG 14330 229.86104 321.5749 70
CGACG 11040 218.57585 337.39218 57
ACTCC 545 200.4854 3921.9883 23
CGCGT 12095 194.01042 261.47604 3
CTCCA 510 187.61021 2877.0867 24
ACGCG 9225 182.64151 252.58112 9
CGGAC 7960 157.59634 239.02388 62
CGCCG 65 151.88179 2484.156 9
CCGCG 50 116.83215 1656.0936 2
CGTCC 135 112.65906 918.23615 63
CCCAG 105 108.15225 767.66766 67
ACACC 235 106.70089 2092.288 12
CCCAA 230 104.43067 1457.562 33
ACCAC 195 88.53903 972.1738 34
CACCA 195 88.539024 809.75653 33
CACCG 80 82.40171 399.51535 71
AACCC 180 81.72834 1772.9832 21
CAACC 175 79.45811 644.5218 20
CGCAC 75 77.25161 794.211 70
GCACC 75 77.25161 1095.0209 11
GCCAC 75 77.25161 397.1055 70
GCGGC 1650 74.10766 159.22342 17
CCACG 70 72.1015 383.83383 67
CCGAC 70 72.1015 799.0308 71
ACCCA 155 70.377174 487.62982 40
GCCCG 30 70.09929 906.3159 71
GCGCC 30 70.09928 1656.1038 8
CCAAC 145 65.836716 805.6523 20
CGGGC 1460 65.57405 146.56348 57
TCCGC 75 62.588364 601.7673 51
CTTCC 200 59.607704 844.9381 1
GCCGC 25 58.416073 857.02435 63
TCGCC 70 58.415806 596.7717 38
CGCTC 70 58.415806 1182.9185 2
TTCGC 10120 57.974865 80.27001 46
CCACA 125 56.75579 323.03693 26
GCGTC 3505 56.22212 98.35748 69
CGACC 50 51.501072 394.7431 69
TCGGC 3160 50.68813 98.871735 57
CGGTC 2965 47.560223 90.94785 4
CCGGC 20 46.732857 841.85156 50
CCGCA 45 46.350964 730.30457 17
GACCC 45 46.350964 1105.4099 39
ACCGC 45 46.350964 375.14087 60
CTGCC 55 45.898136 900.10754 47
CGAGC 2240 44.34872 84.215195 13
TCACC 120 44.143574 397.31076 49
GGCGC 970 43.566322 127.5107 20
TGCGC 2715 43.550083 91.04224 19
GTCGC 2670 42.82826 79.94358 28
ATCGC 6005 42.460598 62.976948 30
ACGAC 4850 42.3281 71.89293 41
CACTC 115 42.30426 392.33 24
CCCGA 40 41.20086 730.30457 17
TCGTC 7150 40.960503 61.91896 50
CGTTC 6990 40.0439 54.88674 69
ACGGC 1945 38.508152 92.13939 40
CTCCG 45 37.55302 593.34375 24
CGCCT 45 37.55302 895.59033 39
CCACT 100 36.786316 656.6854 35
CAGCC 35 36.05075 386.89246 68
ACCCG 35 36.050747 371.37482 51
CGATC 5070 35.84933 70.159424 3
CGTAC 5030 35.566494 57.055374 63
TCGAC 4960 35.071537 60.160595 17
CGGCC 15 35.04964 865.95593 66
ACCTC 95 34.946995 398.538 53
GCGAC 1740 34.44945 70.32383 22
CTCTC 115 34.274426 430.52124 53
ACGTC 4785 33.834133 140.35814 15
CCTCG 40 33.380463 313.4558 68
AACGC 3815 33.295197 58.76305 5
CCTAC 90 33.107685 263.99173 44
AGCGC 1600 31.677658 57.250164 54
TCCCA 85 31.268368 400.13965 57
CTCAC 85 31.268368 263.50424 41
CACCT 85 31.268366 662.6732 50
TACGC 4370 30.899721 51.736538 62
CTACC 80 29.429049 530.5331 51
TACCC 80 29.429049 262.22247 31
CCCGT 35 29.207905 307.98584 65
CCGCT 35 29.207905 307.98584 65
GCCCT 35 29.207903 597.06024 39
GCTCC 35 29.207903 597.4908 40
TGCCC 35 29.207903 321.7303 70
CGTGC 1770 28.391768 74.23332 28
TCCCT 95 28.313658 214.75612 50
GACGC 1395 27.618958 56.763184 42
CCCTT 90 26.823467 318.9172 33
CCCTG 30 25.035347 591.4593 2
CTCGC 30 25.035347 302.23114 56
TCCCG 30 25.035347 306.97766 64
GCCTC 30 25.035347 306.0787 63
CCTGC 30 25.035347 309.26855 66
CGAAC 2780 24.262291 43.4224 23
CCCTA 65 23.911106 392.58127 26
TCCAC 65 23.911106 262.1107 30
CCCGG 10 23.366432 836.491 40
GGCCC 10 23.366428 835.48425 38
CCATC 60 22.071789 263.06445 38
TCTCC 70 20.862698 211.72485 22
CCAGC 20 20.60043 369.37863 43
ATCCC 55 20.232471 264.87384 49
ACCCT 55 20.232471 393.50598 32
CCTCT 65 19.372503 114.90315 70
TCCTC 65 19.372501 229.8063 70
CCCAT 50 18.393158 140.97905 69
TTCCC 60 17.88231 222.12599 67
CGGGG 19760 17.058975 25.698502 1
GTCCC 20 16.690231 301.89026 55
CCTTC 55 16.392117 109.31333 63
CTCCT 55 16.392117 211.33185 16
AGCCC 15 15.450322 368.29193 38
GCCCA 15 15.45032 369.37857 43
CATCC 40 14.714524 135.76399 65
GGCGG 15715 13.566894 18.408401 23
GGGCG 15040 12.98416 18.74702 28
CCTCA 35 12.875211 141.82274 70
GCGGG 14500 12.517973 19.579397 4
GACGG 30795 11.719257 14.292741 53
CGTCT 2045 11.715274 412.11432 1
TCGGG 33020 10.180828 13.657491 3
GGACG 23375 8.895525 12.4071 1
CGAGG 22565 8.587273 11.629998 47
GTCGG 27555 8.495842 10.925954 4
GGTCG 27320 8.423387 10.49189 15
AGCAC 965 8.421983 182.47101 10
GCACA 955 8.334708 167.00735 11
GCGAG 21545 8.199104 10.384217 6
TCTGC 1405 8.048882 408.05472 6
CTGCT 1400 8.020237 403.99472 7
ACGGA 47705 8.002722 9.842279 56
GGCGA 20980 7.9840903 12.137381 1
CGGAG 20920 7.961256 10.93912 20
ACACG 910 7.941973 173.24118 13
CGGGA 20615 7.8451858 9.979413 4
ATCGG 56150 7.631496 11.800177 2
TCGGT 69265 7.6271067 8.45276 23
CGGTA 55870 7.5934405 9.054887 8
TTCGG 68870 7.5836124 9.638412 2
CGGGT 24260 7.479918 10.577796 37
AGCGG 19565 7.445601 10.9234495 3
GCGGA 19240 7.32192 9.268302 41
CACGT 1035 7.3183546 125.31967 14
TTTCG 182455 7.1753287 8.108482 20
GGGGG 428575 7.111803 10.590809 1
GCGGT 22645 6.981976 10.16135 1
ACGGG 18345 6.9813213 8.881286 45
GAGCG 17935 6.8252935 9.170465 2
CGGAA 40500 6.7940516 11.532643 4
AGGCG 17290 6.579834 9.737585 23
TCGGA 47535 6.4606085 11.414664 3
GGCGT 20690 6.3792043 9.287256 1
TCGAG 46850 6.3675084 7.6716933 72
CGAGA 37105 6.2245255 8.382168 7
CGGAT 45385 6.168396 7.220878 32
GTTCG 55890 6.1543202 7.6873155 1
CGGTT 55730 6.136702 7.1735387 28
TACGG 43725 5.9427814 7.798398 43
TGGCG 19180 5.9136367 7.9333467 37
TCGTT 149640 5.8848276 6.8009405 6
TTCGT 148950 5.8576922 6.452541 5
TGCCG 365 5.8547997 92.27413 47
GACGA 34705 5.821915 7.755445 25
AGACG 34275 5.7497816 6.824506 34
CGAAA 77375 5.721744 6.7419343 29
AACGG 33950 5.695261 7.2005053 19
GCCGT 355 5.6943946 92.33456 48
GTCGA 41820 5.6838675 6.9217 29
CGGTG 18325 5.6500206 7.5429287 48
GCGAA 33425 5.6071897 6.973091 54
CGTTT 142115 5.5888953 6.6058354 7
TATCG 114640 5.564627 6.3471622 4
AGCGA 32975 5.5317 7.6813865 39
GTCGT 49995 5.505193 7.101987 1
ACGGT 40370 5.486794 6.5968175 47
CGTGG 17710 5.4604015 7.7575903 1
GACGT 40125 5.453495 7.3690896 1
GATCG 39980 5.4337883 11.174045 1
CGAAG 31840 5.3412995 6.4746385 37
GCGAT 39050 5.3073893 7.3074293 52
TTCGA 109105 5.295959 5.9791737 21
GTACG 38650 5.2530246 6.694653 4
AAGCG 31245 5.2414856 6.242027 2
TAGCG 38280 5.202737 6.3575125 4
AAACG 70155 5.1878376 6.1253047 24
TGACG 38025 5.168079 6.2131634 6
AGTCG 37460 5.0912886 5.9734383 70
GCGTT 45775 5.0405083 6.009412 8
CGTAG 36305 4.934309 6.2442513 55
CGTTA 100805 4.893076 5.814055 1
GCGTA 35625 4.841889 6.4538383 4
TGCGG 15635 4.8206315 6.824939 35
ACGAG 28625 4.801969 6.328381 46
GCGTG 15545 4.7928824 6.920142 30
TTACG 98655 4.7887154 5.5231004 12
ATTCG 98535 4.7828903 5.6050725 43
CGAGT 35185 4.782087 5.9723344 1
CGATA 79565 4.7668986 5.7170424 54
TCGAT 97795 4.746971 5.5448656 27
TGTCG 42475 4.6771293 5.9027605 37
ACGAA 63105 4.666503 5.5832486 58
TTGCG 42330 4.6611633 5.7752433 2
ATCGT 95840 4.6520753 5.20942 67
TCGTG 42145 4.640792 6.022162 71
TCGTA 95440 4.6326594 5.2506385 58
ACGTT 95050 4.613729 5.5388412 6
TCACG 650 4.596068 37.786163 30
GTCAC 645 4.560714 40.274433 28
AGCGT 33410 4.5408416 5.7795763 3
TCGAA 75770 4.5395327 5.204033 28
CGTTG 41050 4.5202155 5.9266777 44
AATCG 74860 4.485013 5.352751 16
ATCGA 74615 4.470334 5.1069784 62
GCCAA 510 4.450996 59.174294 34
CGATT 91660 4.449178 5.2635007 4
AACGA 59935 4.432087 5.523305 57
CGTAA 73795 4.4212065 5.0855746 65
GAACG 26225 4.3993587 5.510142 35
CGTGT 38830 4.2757607 6.7898116 1
TACGT 88020 4.2724924 4.992361 67
GTGCG 13845 4.268733 5.9001393 1
TACGA 71230 4.267532 4.9626513 24
GGGGC 4890 4.221579 6.780939 35
CGATG 30845 4.192226 5.1286397 28
ATACG 69665 4.17377 4.8195095 6
ACGAT 69425 4.159391 5.031727 3
CGTAT 85490 4.149686 4.8163867 7
ACGTA 69110 4.1405187 4.6814923 55
TAACG 67495 4.043761 4.847203 40
AACGT 66340 3.9745622 4.640802 43
TGCGA 28710 3.9020526 4.806229 52
CAGTC 540 3.818272 42.776783 27
TGCGT 34245 3.7708838 4.79961 3
CCAGT 525 3.712209 40.245293 26
TCTTC 1800 3.6827452 150.80556 3
GCGCA 185 3.6627288 14.87329 68
CGAAT 60745 3.6393547 4.647896 27
CGTGA 26760 3.637023 5.10913 54
ACGTG 26575 3.611879 4.706876 35
GCACG 180 3.563737 14.340687 56
TCTCG 620 3.5518198 30.776682 41
CTCGT 610 3.4945319 34.880238 41
ATGCG 25390 3.4508226 4.7308073 57
CTTCT 1600 3.2735517 147.17993 4
TCCAG 460 3.252602 40.233025 25
CGGCA 160 3.1677654 21.46881 54
GGCCG 70 3.1439617 32.339405 49
CGCAG 150 2.9697807 14.137225 35
ATGCC 415 2.9344127 40.64645 46
CCGAT 400 2.8283496 22.55164 2
TCCGA 385 2.7222865 25.057377 1
CCGGG 60 2.6948242 17.420734 71
CACGG 135 2.6728027 35.08967 14
GGCAC 130 2.5738099 21.415125 51
CAGCG 125 2.4748173 22.762642 69
GACCG 125 2.4748173 21.053814 15
GCCGG 55 2.4702556 47.74892 6
AACTC 785 2.44679 42.070732 22
CGCAA 280 2.443684 9.284364 18
TTCCG 425 2.434715 16.241007 5
CCGAG 120 2.3758245 14.032194 1
GCAGC 120 2.3758242 14.87329 68
TGCAC 330 2.3333883 15.296447 51
ACACA 605 2.3275352 12.269822 10
CCAAA 595 2.2890637 9.610178 34
AACAC 590 2.2698278 10.956385 28
CGACA 260 2.2691352 12.374423 12
CAACG 260 2.2691352 9.556172 61
GACAC 260 2.2691352 9.455195 53
CGGCT 140 2.2456765 17.053118 7
GCCGA 110 2.177839 14.255615 49
GCACT 295 2.085908 12.789686 55
TCCGG 130 2.0852714 12.368266 70
CACAA 525 2.019762 8.28259 44
CCAAT 645 2.0104198 23.369392 35
GTCCG 125 2.0050683 11.448317 34
CCGGA 100 1.9798537 14.076902 24
CGTCA 280 1.9798447 7.7423005 61
TCGCA 275 1.9444904 7.861362 66
ACAAC 505 1.9428186 12.367908 36
GCTCG 120 1.9248656 17.053118 7
GCGCT 120 1.9248656 11.412247 26
ACCGA 220 1.9200374 12.741563 61
TCACA 615 1.9169117 8.880426 29
ACGCA 215 1.8764002 9.278363 6
CACAG 210 1.8327631 15.546245 30
CAAAC 475 1.8274037 12.317013 26
CACGA 200 1.7454886 9.471636 55
AACCA 450 1.7312247 6.8505864 29
ACCAA 450 1.7312245 5.61664 61
CACAT 555 1.729896 9.020565 55
CGCAT 240 1.6970098 10.022951 1
CGCTG 105 1.6842575 11.8892 66
ACACT 535 1.6675574 11.266283 54
ATCTC 650 1.6414455 13.5506525 39
CATCG 230 1.6263009 12.610358 33
CCGAA 185 1.6145769 12.392494 21
CCGGT 100 1.6040548 11.41656 27
AAACC 410 1.577338 9.556886 20
CAACA 410 1.5773379 15.123471 37
GAACC 180 1.5709398 24.777327 20
AACCG 180 1.5709398 9.278377 5
CTCGA 220 1.5555923 12.581407 27
CACTG 220 1.5555922 10.154899 45
ATCAC 495 1.5428802 6.6684074 32
TTCAC 590 1.4899274 6.383714 53
ACCGG 75 1.4848903 14.035868 13
GCAAC 170 1.4836653 12.410549 24
CTTCG 255 1.460829 12.180506 3
AGATC 24325 1.4573594 50.233494 72
CTCGG 90 1.4436493 11.6055565 55
GCTGC 90 1.4436492 17.350286 51
CACTA 460 1.4337876 7.8929944 55
TACAC 460 1.4337876 6.75977 54
CACTT 565 1.4267949 8.221904 55
CGACT 200 1.4141748 7.522085 18
GCTCT 245 1.4035413 14.210838 1
ACGCT 195 1.3788204 10.022951 1
GGCTC 85 1.3634465 11.476381 39
TGCCA 190 1.343466 10.088286 33
ACCGT 185 1.3081118 10.046217 22
CTACG 185 1.3081117 7.569842 34
ACTCG 185 1.3081117 7.6369014 49
TGCTC 225 1.2889667 8.149083 25
CGCTT 225 1.2889667 10.1505995 1
GAGCC 65 1.2869049 14.052079 20
TGACC 180 1.2727574 5.4196515 69
CGCTA 175 1.237403 10.093124 34
CTGGC 75 1.203041 17.164248 33
TCAAC 385 1.2000179 7.810771 40
AGGCC 60 1.1879122 14.245844 48
CAGAC 135 1.1782048 18.895426 52
TCGCT 205 1.1743919 6.155336 41
TTGCC 200 1.1457483 6.090232 4
AGCCA 130 1.1345676 9.338833 33
GGGCC 25 1.1228435 16.234274 54
TGGCC 70 1.1228383 11.7366295 62
GTGCC 70 1.1228383 17.563705 61
TCCAA 360 1.1220948 8.86761 25
TAACC 355 1.1065102 5.522686 4
CAATC 355 1.10651 6.680225 36
CTGAC 155 1.0959855 5.1216507 56
TCACT 425 1.0732528 5.467425 52
AGACC 120 1.0472932 9.280778 14
CTGCG 65 1.0426357 17.053122 7
CCGTT 180 1.0311735 8.120497 7
TCCGT 180 1.0311733 6.111812 25
CATCA 325 1.0130022 7.7319236 1
ACTAC 325 1.0130022 5.5817237 41
CAAGC 115 1.0036559 6.3707814 61
GTCTC 175 1.0025296 6.3034925 63
AGCCG 50 0.9899269 14.037535 17
GCATC 140 0.9899224 5.0425124 32
GACTC 140 0.9899224 5.0589333 39
GCCAT 140 0.9899224 7.7802796 63
TACCG 140 0.98992234 7.5301924 21
CCTTT 470 0.96160567 5.268314 64
ACCAG 110 0.9600187 6.2886896 50
CCGTA 135 0.954568 7.517229 7
GCCTT 165 0.9452422 6.1524673 40
GTCCT 165 0.9452421 8.124221 16
CTCTT 460 0.94114596 5.075277 2
CATGC 130 0.91921365 5.0589333 39
GATCC 130 0.91921365 7.7126093 59
AACCT 285 0.88832504 6.6388073 21
GTACC 125 0.8838593 7.6738114 55
AAGCC 100 0.8727443 6.284053 49
GCTTC 150 0.8593111 10.1505995 2
TCTCT 415 0.84907746 5.1132655 35
CCTGA 120 0.8485049 10.029447 18
ATCCG 120 0.84850484 7.7257814 60
ATACC 270 0.8415711 5.666358 59
TTCTC 410 0.8388475 5.0931535 25
TGCCT 145 0.8306673 8.383268 62
CCAAG 95 0.8291071 6.231866 35
CAGCA 95 0.8291071 9.278377 5
TCAGC 115 0.8131505 5.133328 58
ACCTG 115 0.81315047 7.5346622 22
GGCCT 50 0.8020274 5.9446 66
TCCTG 140 0.8020237 6.0926776 17
ACATC 255 0.79481703 5.566854 36
CAGGC 40 0.79194146 14.032224 7
GACCT 110 0.77779615 5.4520864 70
GCTCA 110 0.7777961 5.095024 50
CTCTG 135 0.77338 6.1667233 44
CTAGC 105 0.7424418 5.1736536 62
AGCTC 105 0.7424418 10.213988 53
GACCA 85 0.7418327 6.2258883 33
ACAGC 85 0.7418327 6.2378497 37
ACTCA 235 0.73247844 7.753965 23
CCGTG 45 0.72182465 11.371698 13
CCTTG 125 0.7160926 6.201531 52
CTGCA 100 0.7070874 7.8031287 64
GTCCA 100 0.7070874 5.084449 47
GCTAC 100 0.7070874 5.0774493 45
ACTGC 100 0.7070874 5.186853 63
CCAGA 80 0.69819546 6.255481 42
CCAGG 35 0.6929488 14.200007 43
CCTGT 120 0.6874489 6.0902524 3
CCTAG 95 0.671733 5.102953 52
CCTGG 40 0.64162195 5.8321166 59
TAGCC 90 0.6363787 7.5637684 32
AGTCC 90 0.6363787 5.0147233 18
ACCTA 195 0.60780126 5.619055 51
CTCAG 85 0.6010243 5.1158743 55
GGACC 30 0.5939561 14.031898 4
GGCCA 30 0.5939561 14.523254 63
GCCTA 80 0.56566995 5.062581 40
GGTCC 35 0.5614192 11.470837 38
AGCCT 70 0.4949612 5.0950246 50
GCCTG 25 0.4010137 5.883287 63
GCCAG 20 0.39597076 7.632955 70
GCTTG 2150 0.23674698 7.882475 9
Produced by FastQC (version 0.10.1)