FastQCFastQC Report
Wed 2 Apr 2014
mcf_M3_R1.fastq

Summary

[OK] Basic Statistics

Measure Value
Filename mcf_M3_R1.fastq
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 7867124
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 60 421565.8 4975439.0 15
ACCCC 100 5631.3003 99903.75 22
CCCCA 85 4786.6055 99967.516 23
GCCCC 35 4505.8994 91560.664 27
CACCC 70 3941.9102 100003.15 24
CGCCC 30 3862.1995 136748.31 15
CCCAC 65 3660.3455 40595.727 49
CCACC 65 3660.3452 41968.54 66
CGCGC 1130 2665.5767 5920.4844 42
CCCCG 20 2574.7998 91165.55 12
CCCGC 20 2574.7996 47279.9 62
CCCCT 45 2112.9202 33236.164 1
CCCTC 40 1878.1514 33909.23 51
TCCCC 30 1408.6132 17815.797 69
CTCCC 30 1408.6132 17714.766 68
CCTCC 25 1173.8446 33848.715 49
CCGCC 5 643.6999 45796.914 28
CCGTC 655 563.5224 16383.84 45
CACAC 1185 534.83716 7188.399 7
CGCTC 530 455.97992 24968.592 2
CGCGG 7105 307.0974 505.02548 15
CGGCG 6935 299.74954 510.744 40
TCGCG 17925 282.5715 360.78287 38
ACTCC 750 282.2451 6397.421 18
CTCCA 700 263.4287 6266.7036 19
GCGCG 6025 260.41687 398.73883 22
CGCGA 12635 238.8815 320.86508 51
CGTCG 14845 234.01808 309.9132 58
CGACG 11460 216.66656 284.67822 62
CTTCC 690 216.50905 8773.45 6
CGCCG 90 212.30258 2504.566 10
CGCGT 11780 185.7011 251.07188 9
ACGCG 8885 167.98277 274.45963 13
CGGAC 7575 143.21547 224.54335 47
ACGCC 120 123.81956 1467.6871 27
CACCA 265 119.604935 1124.9291 30
CACTC 315 118.54294 1997.8955 7
CGCAC 110 113.50126 1866.4916 53
CACGC 110 113.50126 1096.0151 13
GCCAC 105 108.34211 765.381 65
CCGAC 100 103.18297 742.70605 47
ACACC 225 101.55136 642.536 29
CCGGC 40 94.3567 879.0184 66
ACCAC 205 92.524574 1127.1943 34
GCACC 75 77.387215 757.88104 62
CCACA 165 74.471 497.26465 62
CTCGC 85 73.12886 613.5568 33
CGACC 70 72.22807 737.53455 37
CCACG 70 72.22807 736.6548 35
CAACC 160 72.2143 651.89935 51
GCGCC 30 70.767525 858.79565 58
GCGGC 1630 70.45303 152.97783 8
CTCAC 185 69.62045 680.7429 53
AGCCC 65 67.068924 741.4945 45
CCACT 170 63.97555 545.1823 54
CGGGC 1460 63.105175 168.51414 20
TCACC 165 62.093918 574.9873 70
CACCG 60 61.90978 739.9195 42
CGTCC 70 60.223766 324.58975 68
TTCCC 185 58.04953 888.80035 13
TTCGC 9975 57.350765 79.36103 5
CGCCA 55 56.750633 1096.7446 19
GCCCA 55 56.750633 391.50992 69
GCGTC 3585 56.514305 102.461105 51
CCGCT 65 55.922073 918.15063 28
CCCAA 120 54.160732 801.5088 24
TCGGC 3415 53.8344 85.23187 49
CCCTA 130 48.92248 1065.9636 15
CCTAC 130 48.92248 1466.0234 16
CGGTC 3100 48.868713 83.7232 17
AACCC 105 47.390636 800.1303 21
CCCGT 55 47.31868 612.3985 29
TCCGC 55 47.318672 917.81805 27
TCGCC 55 47.318672 334.67902 72
CGAGC 2490 47.076767 88.06274 41
GGCGC 1065 46.032196 107.084465 7
TCCCT 145 45.49828 888.80035 14
CGTTC 7555 43.437096 65.64739 63
GTCGC 2750 43.35128 96.087 42
CACCT 115 43.27758 283.96188 68
ACCTC 115 43.27758 953.0401 53
TCCCA 115 43.277576 271.7768 51
CTCTC 135 42.360466 681.1241 53
ACGGC 2195 41.499405 81.13073 38
TCGTC 7210 41.453537 66.88551 57
CTACC 110 41.395947 951.21893 51
TCCAC 110 41.395947 413.56454 61
CCCAG 40 41.27319 1101.7004 29
CAGCC 40 41.273186 740.9457 44
ATCGC 5960 41.097057 74.6301 50
CGATC 5935 40.924667 209.8753 10
TGCGC 2560 40.3561 84.36416 34
TCTCC 125 39.222656 359.56827 70
CTCCG 45 38.715275 615.74786 39
ACGAC 4650 38.455242 61.575703 21
ATCCC 100 37.63268 542.5836 49
CCATC 100 37.63268 405.08838 43
CGTAC 5450 37.58036 69.27649 43
TCGAC 5400 37.235584 68.57368 24
ACGTC 5310 36.614994 156.18628 10
GACCC 35 36.114037 389.28973 68
ACCGC 35 36.114037 760.0943 63
ACCCG 35 36.114037 376.26303 59
CCCAT 95 35.75105 270.2362 44
TACCC 95 35.751045 269.33835 39
CCCGG 15 35.383762 866.31506 62
GGCCC 15 35.383762 868.84485 63
GCCGC 15 35.383762 843.0574 37
CCGCG 15 35.383762 852.5907 52
GCCCG 15 35.383762 851.0225 50
CCTCT 110 34.515938 681.8596 54
CCCTG 40 34.413586 328.6269 70
CCTCG 40 34.413586 315.15692 61
TCCCG 40 34.413578 630.3137 61
CCTGC 40 34.413578 611.1318 24
ACCCT 90 33.86941 269.50842 40
CCAAC 75 33.850452 482.59415 32
ACCCA 75 33.850452 484.53772 39
GCGAC 1735 32.802486 66.985916 19
CCTTC 100 31.378126 336.0271 35
AGCGC 1610 30.4392 61.692932 55
TGCCC 35 30.111883 917.4185 26
GACGC 1590 30.061073 100.688255 23
TACGC 4310 29.719515 54.068542 32
AACGC 3585 29.64775 58.539497 6
CCCTT 90 28.240314 223.90022 34
TCCTC 90 28.24031 231.14603 63
CCTCA 75 28.224508 272.03384 52
CGTGC 1745 27.508356 56.21137 33
CTCCT 85 26.671406 241.34117 71
GCCCT 30 25.810188 310.95514 52
GTCCC 30 25.810184 324.58975 68
CCGCA 25 25.795744 377.08362 60
CCAGC 25 25.795742 371.35303 47
CGGCC 10 23.589174 835.2183 15
CGAAC 2740 22.659645 41.66866 47
CATCC 60 22.579607 146.39415 72
CTGCC 25 21.508488 330.86005 71
CCCGA 20 20.636595 377.08362 60
CGCCT 20 17.206793 313.72815 59
GCCTC 20 17.206789 314.4123 60
CGGGG 20280 16.061249 22.984526 1
GGCGG 16470 13.043825 17.378786 7
GCTCC 15 12.905092 310.10693 49
GGGCG 15860 12.56072 19.340908 6
GCGGG 15325 12.137014 17.378157 3
GCCGT 730 11.507793 299.98077 44
GACGG 32415 11.2293005 15.694274 63
TGCCG 670 10.561948 294.12772 43
ACACG 1210 10.006633 140.4948 8
GCACA 1205 9.965282 137.56781 6
AGCAC 1180 9.758534 134.64084 5
TCGGG 33470 9.667723 12.203141 51
CGTCT 1585 9.11288 109.57979 46
GGACG 25020 8.667501 11.178464 55
CGAGG 24425 8.46138 11.747792 35
GGTCG 29150 8.419902 10.395794 62
GCGAG 23825 8.253527 11.242948 59
GTCGG 28360 8.191714 10.529702 2
CACGT 1160 7.998756 114.70403 9
CGGAG 23070 7.991977 11.53035 53
GGCGA 22485 7.7893195 10.613128 31
ATCGG 60165 7.601647 10.866266 1
ACGGA 50040 7.582619 9.481551 46
CACGA 915 7.566999 132.27917 26
TCGGT 71650 7.548173 8.89953 55
TTCGG 71375 7.519202 9.167691 51
CGGTA 59110 7.4683514 9.0614 23
CGGGA 21410 7.416916 9.334858 21
CGGGT 25425 7.343946 9.404914 10
TTTCG 185585 7.130593 7.9270945 43
AGCGG 20475 7.0930104 9.055382 40
GCGGA 20415 7.072225 9.604564 26
GAGCG 20015 6.9336557 8.898907 34
GTCAC 1005 6.9299564 122.453 24
ACGGG 19475 6.7465873 9.2401705 49
GCGGT 23230 6.709926 8.425683 28
CGGAA 43480 6.5885735 9.170572 4
GGGGG 445330 6.4623823 7.6691747 24
TCGGA 50925 6.4342036 10.239998 3
AGGCG 18280 6.332612 8.943049 42
CGAGA 41685 6.316575 7.4878683 40
TCACG 910 6.274886 115.152245 25
TCGAG 49530 6.25795 7.2742186 38
CAGTC 905 6.2404084 114.99141 22
GGCGT 21340 6.164004 7.68909 59
GTTCG 58245 6.1359854 7.288923 22
CGGTT 57250 6.0311646 7.1989684 14
CGGAT 47575 6.010942 7.467559 4
TACGG 46530 5.8789105 7.541941 25
TGGCG 20180 5.828942 7.977199 14
TCGTT 151575 5.823852 6.51649 22
GACGA 38365 5.813493 6.805843 45
TTCGT 150895 5.7977247 6.676924 44
AGACG 37800 5.7278776 7.280366 42
GTCGA 44680 5.645169 6.63341 36
CGTTT 146070 5.612338 6.527133 4
TATCG 121350 5.5919166 6.190015 20
CCAGT 805 5.550861 114.90787 21
CCGAT 800 5.516383 195.2409 9
CGAAA 83130 5.5100417 6.7401047 69
CGGTG 19035 5.4982114 7.2581396 4
GTCGT 52075 5.485989 6.4876175 1
TCCGA 795 5.481906 195.2409 8
ACGGT 43255 5.465125 6.728132 37
AACGG 36020 5.4581523 7.379023 26
GATCG 43160 5.453122 8.496259 1
TTCCG 935 5.3757358 170.93146 7
CGTGG 18605 5.374007 7.2581396 10
AGCGA 35455 5.372537 6.603638 19
GCGAA 35265 5.343745 6.6105695 57
GTACG 41955 5.300874 6.2927446 57
GACGT 41940 5.2989793 6.6629486 5
TCCAG 765 5.2750416 119.75456 20
CGAAG 34340 5.203579 6.4970326 69
TCTCG 900 5.174505 112.93922 36
TTCGA 111330 5.1301856 5.714718 37
GCGAT 40415 5.1063 6.573512 7
ATGCC 740 5.1026545 131.03484 42
TGACG 40330 5.095561 6.577792 44
AAACG 76720 5.0851727 5.888355 34
AAGCG 33230 5.0353804 6.1179423 18
AGTCG 39805 5.029229 6.4220304 63
TAGCG 39685 5.014067 6.295934 51
GCTCT 870 5.0020223 172.9601 3
GCGTT 47270 4.979793 5.8911376 7
ACGAG 32440 4.915671 5.9567313 16
CTCGT 850 4.8870325 108.90469 37
ACGCT 700 4.8268356 212.32152 1
TGCGG 16685 4.81942 7.2583385 2
CGAGT 37325 4.715889 6.3073473 33
CGTTA 102225 4.710619 5.411927 22
TTACG 101795 4.6908045 5.434746 37
TCTGC 815 4.685802 103.803894 51
CGTAG 37075 4.684303 6.0366497 11
TCGTG 44215 4.6579547 5.8319407 36
ATTCG 100955 4.6520967 5.2190537 23
TGTCG 44050 4.6405725 6.0773144 11
TTGCG 43880 4.6226635 5.624911 50
GCGTA 36540 4.6167073 5.697019 23
GCGTG 15975 4.6143384 6.1866584 56
CGATA 83380 4.6080894 5.1247973 6
ACGAA 69430 4.601976 5.516303 16
TCGAT 99705 4.594495 5.3238792 54
ATCGT 99570 4.5882745 5.138398 42
TCGTA 98730 4.5495663 5.4049473 38
ACGTT 98090 4.520075 5.333165 6
AGCGT 35345 4.465723 5.455492 2
CTGCT 775 4.455824 105.9801 52
AATCG 79865 4.4138293 5.339886 1
ATCGA 79775 4.408855 5.0269957 8
CGATT 95535 4.402338 5.0724483 31
AACGA 66395 4.4008093 5.0508814 20
TCGAA 79515 4.3944855 5.0848284 64
CGTTG 41395 4.360874 5.2738156 23
GCACG 230 4.3484564 41.084232 54
CGTAA 77190 4.265992 5.0036 39
CGTGT 40225 4.2376175 5.0728483 13
GAACG 27910 4.2292347 5.5776553 6
TACGT 91770 4.228843 5.1211433 5
TACGA 75575 4.1767373 4.7941585 15
ATACG 75280 4.1604333 4.7138596 3
ACGAT 74585 4.122024 5.443826 27
GGGGC 5195 4.1143093 7.578909 20
GGCCG 95 4.1061583 30.766373 29
GTGCG 14190 4.0987453 5.5649314 34
CGTAT 87535 4.033691 4.8776016 43
ACGTA 71935 3.9755688 4.795284 27
GGCAC 210 3.9703298 26.766012 9
TAACG 70690 3.906762 4.530716 66
TGCGA 30840 3.896531 4.918651 36
CGATG 30835 3.8958995 4.9069967 46
AACGT 69660 3.8498383 4.6133504 69
TGCGT 35095 3.697183 4.5860744 2
CACGG 195 3.6867352 20.480753 51
ACGTG 28755 3.6330984 4.681324 70
CGTGA 28620 3.6160417 4.841945 69
CGAAT 63880 3.5304 4.1384077 33
TCTTC 1675 3.5123537 62.341766 5
GCGCA 185 3.4976714 20.50012 52
ATGCG 27550 3.4808507 5.053037 1
GGGCC 80 3.4578173 30.751396 28
CGGCA 175 3.308608 20.073782 3
AACTC 1075 3.2424116 54.46471 17
ACACA 845 3.056712 14.277557 43
AACAC 815 2.9481897 14.297511 45
GACAC 355 2.93583 14.959622 53
CTCTT 1395 2.9252138 64.56559 4
TCCGG 185 2.9163585 17.418867 63
ATCTC 1125 2.829268 48.477623 35
CACAT 880 2.6542532 13.026263 47
GCCGA 140 2.6468866 20.215576 32
CCGGG 60 2.593363 30.858023 35
GCCGG 60 2.593363 31.214714 51
TGCAC 375 2.5858047 9.889421 42
ACACT 850 2.5637677 19.215364 6
CACTG 370 2.5513272 9.989439 54
CACAG 305 2.522333 11.993558 55
CTCGG 155 2.4434354 12.264725 72
TCACA 795 2.3978765 13.081837 52
TACAC 790 2.3827956 18.14784 5
GCACT 345 2.37894 14.984157 54
CGGCT 150 2.364615 16.911695 38
CACTT 905 2.2759888 18.236315 55
CTTCT 1085 2.2751663 40.059074 49
CACAA 625 2.2608814 7.8692713 55
TTCAC 880 2.2131162 11.828044 53
CCGGT 140 2.206974 11.578766 62
GCGCT 140 2.206974 11.418678 54
CGCTT 380 2.1847913 12.507287 55
CAGGC 115 2.1742287 26.966358 33
GTCCG 135 2.1281536 11.496953 59
CCGTT 370 2.127297 12.368701 42
TCACT 845 2.1250947 13.6624775 54
ACGCA 255 2.1088357 11.795531 33
TCGCA 305 2.103121 17.445776 52
ACAAC 580 2.0980983 16.795654 36
GAGCC 110 2.079697 14.541587 71
ACCGG 110 2.0796967 20.28268 38
ATCAC 680 2.051014 9.71416 39
CGCAT 295 2.0341663 12.370802 43
CGCAG 105 1.985165 13.709538 55
AGCCG 105 1.985165 20.379734 45
CCGGA 105 1.9851649 14.176444 67
GCTCG 125 1.9705126 12.124774 71
CTGCG 125 1.9705125 11.89499 68
AACCA 540 1.9534018 9.253915 60
GAACC 235 1.9434369 17.586742 20
TCGCT 325 1.8685713 8.32021 53
CACTA 605 1.8247993 14.216365 55
CGCAA 220 1.8193877 8.99517 55
GACCG 95 1.7961017 13.7662115 58
TTTCC 855 1.792873 8.909472 12
CCAAA 495 1.7906181 10.246443 17
ACTCG 255 1.7583472 7.339877 22
TGCTC 305 1.7535824 12.257097 25
CAACG 210 1.7366883 11.822437 37
GGCTC 110 1.734051 11.89499 68
AGGCC 90 1.7015702 6.8943114 59
TTGCC 295 1.6960878 8.144883 18
CGACA 205 1.6953385 11.707414 4
ACCGT 245 1.6893924 7.500172 55
GACTC 240 1.654915 12.224241 21
CAGAC 200 1.6539888 14.959622 53
CAACA 450 1.6278348 12.928325 37
CTGAC 235 1.6204374 9.825682 31
ACCAG 195 1.612639 9.651225 72
CAAAC 445 1.6097478 11.572221 26
GGCCA 85 1.6070383 13.388274 15
TGACC 230 1.5859601 7.543437 59
CTTCG 275 1.5810988 8.296876 50
ACTCA 515 1.5533414 8.64552 41
TACCG 225 1.5514828 7.3931603 37
AAACC 425 1.5373995 9.233778 59
ACCAA 425 1.5373993 7.731919 31
GACCA 185 1.5299397 9.066788 60
AGATC 27625 1.5267268 50.43659 72
GTCTC 265 1.5236043 6.544588 69
CCAGG 80 1.5125067 13.463599 30
GGTCC 95 1.4975895 17.2174 58
CTACA 495 1.4930174 16.01214 4
CATCG 210 1.4480506 9.896642 43
CGCTA 210 1.4480506 9.989439 54
AACCG 175 1.4472402 14.778047 37
TCCGT 250 1.4373626 10.3000145 41
CCGTG 90 1.4187691 11.296416 41
GTGCC 90 1.4187691 11.202354 25
GCTGC 90 1.4187691 11.328415 45
CGCTG 90 1.4187691 11.578767 62
CTGGC 90 1.418769 11.364249 49
CAGCG 75 1.4179751 13.4463005 27
TCTCT 675 1.4154261 9.697271 28
CGTCA 205 1.4135733 9.850997 36
CGACT 205 1.413573 7.39316 37
CTCTG 245 1.4086154 10.337715 46
TAACC 465 1.4025315 7.6991234 59
ACCAT 460 1.3874506 9.9439535 61
GATCC 200 1.3790959 9.779394 21
ATCCG 195 1.3446184 9.876469 40
TTCTC 640 1.3420336 6.711065 27
GCCAG 70 1.3234434 20.102964 20
ACAGC 160 1.323191 8.901994 43
AAGCC 160 1.323191 12.062745 59
GTTCC 230 1.3223735 6.3344755 62
ACTCT 525 1.320325 13.351474 8
CTCAG 190 1.3101411 7.500172 55
TGTCC 225 1.2936263 8.38629 59
TATCC 510 1.2826016 5.4778285 56
GCCAA 155 1.2818414 8.8299465 29
TGCCA 185 1.2756636 12.215484 19
CCATG 185 1.2756636 10.129489 62
GCTTC 220 1.2648791 6.3733177 64
CCTGG 80 1.2611281 11.267918 37
AACCT 415 1.2517219 8.818188 60
TCCAA 415 1.2517217 6.409055 16
GCTCA 180 1.2411863 7.4696975 51
GCAAC 150 1.2404915 8.815234 25
TGCCT 215 1.2361319 6.5074754 68
CTCAT 485 1.2197288 6.2874613 36
CTACG 175 1.2067089 7.380456 34
ACTGC 175 1.2067089 12.3531 41
CATAC 400 1.2064787 6.5409184 52
AGCCA 145 1.1991419 9.167308 64
ACCGA 145 1.1991419 8.87198 38
TCTAC 475 1.1945798 13.350989 3
TCCTG 205 1.1786373 6.3183618 61
CCAAT 390 1.1763167 5.3432546 19
CATCA 390 1.1763167 8.623709 37
CCTTT 560 1.1742796 6.7110653 27
GTCCA 170 1.1722314 7.388248 36
CCAGA 140 1.1577922 8.808541 23
TCAAC 380 1.1461548 5.4001637 40
ACTAC 375 1.1310738 7.528573 33
GCCTT 195 1.121143 6.1133485 20
TCTCA 445 1.1191326 6.3758225 54
ACTTC 445 1.1191326 5.392836 37
TCATC 445 1.1191326 6.2874613 36
CCATT 445 1.1191326 6.24176 21
CATTC 440 1.1065581 6.2874613 36
TGGCC 70 1.1034871 5.9474955 68
GTACC 160 1.1032766 7.5204086 57
TTCCA 435 1.0939837 6.2331123 17
CTTTC 515 1.0799177 8.905599 11
CCGAA 130 1.0750928 8.796528 21
CCGTA 155 1.0687993 5.0647445 62
AGCTC 155 1.0687993 7.8046 68
CCTTG 185 1.0636485 6.1111627 19
CTGTC 185 1.0636483 8.32021 53
CTTCA 420 1.05626 5.359297 24
CAACT 345 1.040588 8.645521 41
ACCTA 345 1.040588 7.734187 61
CAATC 345 1.0405879 7.536743 35
CTCAA 345 1.0405879 5.4678326 55
ATCCA 345 1.0405879 5.350973 22
GGACC 55 1.0398483 13.567528 43
GCAGC 55 1.0398483 13.58649 45
CCGAG 55 1.0398483 7.354717 72
CAGCA 125 1.033743 8.866827 37
TTCCT 480 1.0065253 6.8969264 60
CCTGT 175 1.006154 6.289718 59
CTTGC 175 1.0061538 6.3733177 64
CTCTA 400 1.0059619 7.1605396 29
GCTAC 145 0.9998445 7.4630094 50
TCCTT 470 0.98555595 5.3769794 61
CCTGA 140 0.9653671 7.5971165 62
CATGC 140 0.9653671 7.350143 25
TACCA 320 0.96518296 5.339701 15
AGACC 115 0.9510436 6.0313725 59
CCAAG 115 0.9510435 8.796527 21
GCCTG 60 0.9458461 11.28242 39
TACCT 370 0.9305148 5.3462467 19
GTCCT 160 0.91991216 6.3034344 60
ATCCT 360 0.90536577 5.3426914 15
CTAGC 130 0.8964123 7.5096774 56
GCATC 130 0.8964123 7.388248 36
CTAAC 295 0.8897781 5.377552 33
TCCAT 350 0.8802167 5.3403683 11
CCTAT 350 0.8802167 6.4652114 62
CAAGC 105 0.8683441 5.897766 33
CTACT 345 0.86764216 5.3959703 38
GGCCT 55 0.8670255 5.981415 69
GCCAT 125 0.8619349 7.331912 20
GACCT 125 0.8619349 7.4630094 50
ATTCC 340 0.85506773 5.5024543 59
AATCC 280 0.84453523 6.599249 59
CTTAC 335 0.8424931 5.4031873 40
CCATA 275 0.82945424 5.3397017 12
CCTAG 110 0.7585027 7.5971165 62
TCAGC 105 0.7240253 5.1390123 66
AGTCC 100 0.68954796 5.0289583 59
Produced by FastQC (version 0.10.1)