FastQCFastQC Report
Mon 21 Jul 2014
13L15C_CAGATC_L004_R1_001.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename 13L15C_CAGATC_L004_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 11538093
Filtered Sequences 0
Sequence length 101
%GC 43

[OK] Per base sequence quality

Per base quality graph

[OK] Per sequence quality scores

Per Sequence quality graph

[WARN] Per base sequence content

Per base sequence content

[FAIL] 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

[FAIL] Sequence Duplication Levels

Duplication level graph

[FAIL] Overrepresented sequences

Sequence Count Percentage Possible Source
ACCCAATTGGTCAAGGAAGCTTCTCTGACGGTATGCCTTTAGGAATCTCT 209245 1.8135145903226815 No Hit
CTGGTACTTTCAACTTCATGATTGTGTTCCAAGCTGAACACAACATCCTT 106342 0.921660104490404 No Hit
GGTGTATTCGGTGGCTCTCTATTCAGTGCTATGCATGGTTCCTTAGTAAC 83138 0.7205523477753213 No Hit
GGTACTTTCAACTTCATGATTGTGTTCCAAGCTGAACACAACATCCTTAT 69754 0.604553976120664 No Hit
ACATGGGTCGTGAGTGGGAACTTAGCTACCGTTTAGGTATGCGTCCTTGG 69109 0.5989637975703611 No Hit
GTATTCGGTGGCTCTCTATTCAGTGCTATGCATGGTTCCTTAGTAACTTC 62475 0.5414672944653852 No Hit
CTGACGGTATGCCTTTAGGAATCTCTGGTACTTTCAACTTCATGATTGTG 49262 0.42695097014731986 No Hit
GCTACTGCTGTTTTCTTGATCTACCCAATTGGTCAAGGAAGCTTCTCTGA 48337 0.41893404742014123 No Hit
TGGTGTAGCTGGTGTATTCGGTGGCTCTCTATTCAGTGCTATGCATGGTT 48225 0.41796334974939103 No Hit
GTAGCTGGTGTATTCGGTGGCTCTCTATTCAGTGCTATGCATGGTTCCTT 47377 0.4106137816708533 No Hit
AGCTGGTGTATTCGGTGGCTCTCTATTCAGTGCTATGCATGGTTCCTTAG 35718 0.30956588753444786 No Hit
GGTGTAGCTGGTGTATTCGGTGGCTCTCTATTCAGTGCTATGCATGGTTC 33406 0.2895279141882458 No Hit
CCTGTAGATATTGATGGTATCCGTGAGCCTGTTTCTGGTTCTCTTCTTTA 32433 0.2810949781736029 No Hit
GCTTGGCCTGTAGTAGGTATCTGGTTCACTGCATTAGGTATCAGCACTAT 31130 0.26980195080764213 No Hit
TGGCCTGTAGTAGGTATCTGGTTCACTGCATTAGGTATCAGCACTATGGC 29423 0.2550074782721894 No Hit
TGCTACATGGGTCGTGAGTGGGAACTTAGCTACCGTTTAGGTATGCGTCC 29356 0.25442679305843696 No Hit
GAACACAACATCCTTATGCACCCATTCCACATGCTTGGTGTAGCTGGTGT 29094 0.25215605386436046 No Hit
GCTACTTTAGAAAGACGCGAAAGCGCAAGCCTATGGGGTCGCTTCTGCGA 27429 0.237725592955439 No Hit
ATGCATGGTTCCTTAGTAACTTCAAGTTTAATCCGTGAAACTACTGAGAA 27375 0.23725757800704153 No Hit
CCTGTTGCGGCTGCTACTGCTGTTTTCTTGATCTACCCAATTGGTCAAGG 25216 0.2185456470146323 No Hit
AGCCTATGGGGTCGCTTCTGCGACTGGGTTACCAGCACTGAAAACCGCCT 24736 0.21438551413998833 No Hit
ATGGTTCGGTGTTTTAATGATTCCTACTCTATTAACTGCAACTTCTGTAT 22888 0.19836900257260887 No Hit
AAGCCTATGGGGTCGCTTCTGCGACTGGGTTACCAGCACTGAAAACCGCC 22751 0.1971816313146375 No Hit
CTGGTGTATTCGGTGGCTCTCTATTCAGTGCTATGCATGGTTCCTTAGTA 22627 0.19610693032202117 No Hit
GCCCTAGGTAACTTCTGTATTATAGTTGCTCCAGTTTTAAACTGAAAAAA 21412 0.1855765939830785 No Hit
CAAGCCTATGGGGTCGCTTCTGCGACTGGGTTACCAGCACTGAAAACCGC 21370 0.18521258235654714 No Hit
TGACCAAACTTGTAACCTGCGTTAGCAGACTCATTCTCAGTAGTTTCACG 20983 0.1818584752263654 No Hit
CCACATGCTTGGTGTAGCTGGTGTATTCGGTGGCTCTCTATTCAGTGCTA 20888 0.18103511559492544 No Hit
GCTCATGGTAAGGCTTTATATGGTTTTGATGTTCTTTTATCATCTGCAGA 20062 0.1738762202731422 No Hit
GACGGTATGCCTTTAGGAATCTCTGGTACTTTCAACTTCATGATTGTGTT 19708 0.17080812227809222 No Hit
GGTATCCGTGAGCCTGTTTCTGGTTCTCTTCTTTACGGAAACAACATCAT 18483 0.16019111650426116 No Hit
CCTCCTGTAGATATTGATGGTATCCGTGAGCCTGTTTCTGGTTCTCTTCT 18458 0.1599744429170401 No Hit
GCAAGCCTATGGGGTCGCTTCTGCGACTGGGTTACCAGCACTGAAAACCG 18095 0.15682834243059057 No Hit
GGCCTGTAGTAGGTATCTGGTTCACTGCATTAGGTATCAGCACTATGGCT 18017 0.1561523208384609 No Hit
GCAACTTCTGTATTTATTATTGCTTTCATTGCAGCTCCTCCTGTAGATAT 17948 0.15555430173773083 No Hit
GCTTGGTGTAGCTGGTGTATTCGGTGGCTCTCTATTCAGTGCTATGCATG 17737 0.15372557666158523 No Hit
ACATGCTTGGTGTAGCTGGTGTATTCGGTGGCTCTCTATTCAGTGCTATG 17327 0.15017212983116016 No Hit
GATGGTTCGGTGTTTTAATGATTCCTACTCTATTAACTGCAACTTCTGTA 17058 0.14784072203266171 No Hit
GGCTCTCTATTCAGTGCTATGCATGGTTCCTTAGTAACTTCAAGTTTAAT 16832 0.1458819928041835 No Hit
TGACCGAACTTGTAACCTGCGTTAGCAGACTCATTCTCAGTAGTTTCACG 16654 0.1443392768631697 No Hit
CTATTCAGTGCTATGCATGGTTCCTTAGTAACTTCAAGTTTAATCCGTGA 15182 0.1315815360475947 No Hit
GTAGATATTGATGGTATCCGTGAGCCTGTTTCTGGTTCTCTTCTTTACGG 15042 0.13036816395915687 No Hit
TAGCTGCTTGGCCTGTAGTAGGTATCTGGTTCACTGCATTAGGTATCAGC 13791 0.11952581765461588 No Hit
TACCAGCACTGAAAACCGCCTTTACATCGGATGGTTCGGTGTTTTAATGA 13770 0.1193438118413502 No Hit
TTCATGCGTTGGAGAGACCGTTTCTTATTCTGTGCAGAAGCTATTTACAA 13367 0.115851033615347 No Hit
ACTTTAGAAAGACGCGAAAGCGCAAGCCTATGGGGTCGCTTCTGCGACTG 12725 0.11028685589551063 No Hit
ATTCAGTGCTATGCATGGTTCCTTAGTAACTTCAAGTTTAATCCGTGAAA 12657 0.10969750373826939 No Hit
GCTCACGGTTACTTTGGTAGATTAATTTTCCAATACGCTAGCTTTAACAA 12653 0.10966283596431402 No Hit
ATTAACTGCAACTTCTGTATTTATTATTGCTTTCATTGCAGCTCCTCCTG 12637 0.10952416486849258 No Hit
GGGTTACCAGCACTGAAAACCGCCTTTACATCGGATGGTTCGGTGTTTTA 12613 0.10931615822476037 No Hit
GACTGCTACTTTAGAAAGACGCGAAAGCGCAAGCCTATGGGGTCGCTTCT 12256 0.10622205939924388 No Hit
CCACGTAGTTGGTTAGCTACTTCTCACTTTGTATTAGGATTTTTCTTCTT 12047 0.10441066821007597 No Hit
CCAGCACTGAAAACCGCCTTTACATCGGATGGTTCGGTGTTTTAATGATT 11967 0.10371731273096862 No Hit
GCGACTGGGTTACCAGCACTGAAAACCGCCTTTACATCGGATGGTTCGGT 11843 0.10264261173835226 No Hit

[WARN] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CTGCT 3405545 3.383574 7.558054 85-89
AAAAA 4328885 3.262407 4.9549117 45-49
ACTTC 3659250 3.2227693 7.5773716 60-64
AGCTG 2947085 3.055598 7.242733 3
AACTT 4382390 3.0469093 7.8570366 7
GGAAG 2747125 2.9723263 7.1419997 15-19
AGCAC 2103285 2.8693883 6.919256 80-84
CTGGT 3135870 2.7746649 14.681665 1
GAAGA 2800645 2.6861122 5.1752167 95-97
TCTCT 3545395 2.664714 8.832323 20-24
CTTCA 3004860 2.6464357 7.8120146 60-64
TCAAG 2875445 2.6427536 6.123159 10-14
CTACT 2977180 2.6220574 9.1161 2
GCTGC 1973355 2.5917752 8.490052 3
CTTCT 3400255 2.555627 6.361357 20-24
TTCAA 3655865 2.541784 8.728879 9
GGTGG 2423430 2.5243495 10.000033 7
CTGAA 2722855 2.5025115 6.8535385 80-84
CAACT 2421410 2.4989438 9.9441805 9
CGGTG 2134320 2.4964054 12.014459 9
AGGAA 2598330 2.492071 6.984676 40-44
GGTGT 3155340 2.486349 10.732388 1
TGGTG 3153755 2.4851003 8.518809 6
CAAGC 1790760 2.443029 8.713537 75-79
ACAAC 1957695 2.3674688 7.8409705 85-89
ACCCA 1543190 2.3639987 39.206673 1
CAACA 1946060 2.3533983 7.6939807 85-89
TCAAC 2236095 2.307695 8.89977 8
AAGCT 2493170 2.2914135 6.1029005 15-19
GCAGC 1488245 2.2904334 6.4120817 1
TATGC 2906965 2.2800288 7.8629193 30-34
CCAAG 1654970 2.2577784 8.486184 75-79
CGGAA 1852710 2.2509308 6.365549 95-97
GAAGC 1839565 2.23496 8.036283 15-19
CAGCA 1636615 2.232738 5.810842 2
ATGCA 2422930 2.2268574 5.322251 1
TCTGC 2234690 2.220273 5.5317793 85-89
CCGTG 1689760 2.2193058 5.952786 60-64
ACATC 2125020 2.1930635 6.4311705 90-94
GCTGG 1870930 2.1883316 8.748553 4
AGAGC 1781905 2.1649067 9.335419 95-97
ACTGC 1818220 2.1168327 6.944421 4
TCCTT 2815770 2.116329 6.2942743 40-44
GTTCC 2128920 2.1151853 5.8271093 70-74
CATGG 2037940 2.112978 11.067214 2
CTCTG 2121770 2.1080816 7.8532133 45-49
CAAGG 1733670 2.1063042 7.760128 10-14
CGTGA 2027635 2.1022935 8.974852 9
CAGCT 1749735 2.0371006 5.116437 2
TCGGA 1964460 2.0367923 5.0977592 95-97
ATCGG 1960165 2.0323393 5.2328544 95-97
GGCTC 1513800 1.9882027 5.395453 90-94
CTTGG 2235930 1.9783845 6.502254 2
GAGCA 1618470 1.9663432 5.3123274 90-94
GCTAC 1682220 1.9584973 11.370728 1
AAGGA 2032420 1.9493039 6.658099 10-14
GATCG 1868515 1.9373145 5.5669055 95-97
CATCC 1478420 1.9327451 7.984941 90-94
CCTTA 2182475 1.922146 8.449494 95-97
TGGCT 2169250 1.9193851 7.354443 9
CTCTC 1716930 1.9154826 5.0029345 15-19
TTCCA 2170450 1.9115554 6.0324035 75-79
TTTCA 3207870 1.9033306 7.639628 8
CCAGC 1100705 1.902176 7.161119 1
TGCTG 2146510 1.8992643 5.5317426 6
GTGGC 1599985 1.871421 8.948879 8
AGATC 2028605 1.8644428 5.8759522 95-97
GCACA 1357290 1.8516713 5.656709 95-97
GCTTC 1860200 1.848199 8.62051 15-19
TAGCT 2346445 1.8403943 5.185745 2
CACAA 1508065 1.8237246 7.390501 85-89
CTCCT 1615275 1.8020718 5.48991 70-74
TTCGG 2013245 1.7813495 9.0359125 7
TCTGG 1998845 1.7686081 5.682383 45-49
CTCTA 1998820 1.7603977 5.9813924 95-97
TATTC 2963125 1.7581156 5.6457076 5
CCCAA 1137400 1.7423726 38.54119 2
CACCC 896255 1.7391937 8.017978 50-54
GCTCT 1742110 1.7308708 5.519596 10-14
TCGGT 1945715 1.7215979 9.943794 8
GCAGG 1251005 1.7146112 5.3787417 90-94
GGTAT 2448930 1.710568 5.6108255 30-34
TTGGT 2866540 1.7087197 18.09168 7
CACAC 1112430 1.7041212 6.2800355 95-97
TGAAC 1852255 1.7023638 6.531913 80-84
CATGC 1450265 1.6884472 5.289751 2
CCTGT 1688780 1.6778849 7.0400696 1
GCACC 970875 1.6778114 7.3114524 50-54
CTTTC 2227605 1.6742649 9.385879 7
GCTGA 1575155 1.633153 6.464969 80-84
GCCTT 1635490 1.6249387 5.863493 35-39
GTGTA 2317465 1.6187401 9.122296 2
CCACA 1056525 1.6184809 6.6852164 60-64
AATGA 2209120 1.602811 5.1046004 75-79
TCCAA 1546540 1.5960604 6.3797774 75-79
TGGTA 2278450 1.5914884 10.481512 2
TGTAG 2274410 1.5886663 5.9652424 3
GCTTG 1795040 1.5882784 6.2865086 1
GAACA 1468235 1.5812415 6.7350435 80-84
AGCTT 2015995 1.5812114 5.2781515 15-19
AAGTT 2549485 1.5785719 5.0205665 60-64
ACACA 1302240 1.5748175 7.1564684 85-89
CCAAT 1519130 1.5677727 26.34015 3
GTAGC 1508795 1.5643495 6.125962 1
CCGCC 712140 1.5589557 6.5443544 45-49
AACAC 1261230 1.5252236 7.1803994 85-89
ATGCC 1297955 1.5111227 6.808389 30-34
TACTT 2539840 1.5069672 7.8766007 5
CGCAG 971180 1.4946618 6.102135 90-94
CATGA 1617330 1.4864497 5.5381584 65-69
GTCTG 1671520 1.478986 5.7138433 90-94
ACGGT 1425715 1.4782106 6.442845 4
AACAT 1809495 1.474202 5.0091205 90-94
CCTCC 884090 1.4640697 5.2028503 1
GCTGT 1644475 1.4550562 5.64294 7
GGTAC 1388170 1.4392831 12.998307 3
ATCTC 1627315 1.4332064 6.0389886 45-49
TTCTC 1899395 1.4275827 5.551746 20-24
TTAGG 2042515 1.4266887 5.4644785 35-39
GCAAC 1044870 1.4254549 5.1594143 1
GAGCC 921420 1.4180803 6.903872 95-97
GACGG 1032865 1.4156314 8.427162 3
AGCCT 1189490 1.3848444 5.6866236 4
GGTCA 1335110 1.3842694 27.28403 9
GTCAA 1501725 1.3802 5.711359 10-14
TGCAC 1181250 1.375251 5.139402 50-54
CTGTA 1752875 1.3748378 5.0260077 5
ACTTT 2296725 1.3627194 7.8245254 6
ACATG 1480315 1.3605226 9.67629 1
GTATT 2546115 1.3453612 5.6586623 4
TGGTC 1519840 1.3447773 23.552582 8
CTGCG 1012665 1.3300192 5.858595 15-19
GGAAT 1620820 1.3266299 5.1807694 40-44
GCCTG 990880 1.3014071 6.2361856 3
ATGGG 1405925 1.2981627 9.48664 3
GCGGC 735165 1.2763802 5.319073 7
ACACG 924770 1.2616094 5.352139 95-97
GGTCG 1065125 1.2458225 9.411004 6
TGCCT 1235310 1.2273405 5.7650385 30-34
TGGGT 1553700 1.2242867 7.40997 4
CAATT 1759325 1.223192 17.88974 4
CTGAC 1048140 1.2202798 7.318958 1
ATCCT 1375705 1.2116088 5.23319 90-94
GAATC 1314460 1.2080891 5.4977913 40-44
GTACT 1536870 1.205418 9.806706 4
TGTAT 2248990 1.188361 5.2976456 3
AAGCC 868230 1.1844752 5.417318 1
ATTCG 1499230 1.1758957 7.2406464 6
AACGC 857615 1.1699938 5.076901 95-97
TGACG 1125230 1.1666616 6.322183 2
ACTTG 1456325 1.1422439 8.250519 8
ATTGG 1624875 1.1349688 18.185658 6
GGGTC 966210 1.1301266 9.43766 5
TGGCC 843615 1.1079915 11.011587 1
GCTCA 949525 1.1054689 5.146534 1
CTTAT 1833000 1.0875766 5.7548814 95-97
TGGGG 1017780 1.0601636 5.074772 8
CCAAA 861995 1.0424229 6.0827374 4
TTATG 1904420 1.006291 5.1372004 95-97
CGGTA 952365 0.98743165 6.0034347 5
AATTG 1572425 0.973603 14.911382 5
TCGTG 1098400 0.97188085 7.2115674 8
CAAAC 802480 0.9704507 5.932619 5
CCCAG 532910 0.92094487 6.0837574 2
GACCA 648865 0.88520855 5.0851483 2
GCCCA 511475 0.88390225 5.3668194 1
GGCCT 614685 0.8073182 6.4947534 2
GCCTA 674920 0.7857646 5.607023 3
GGCCC 390290 0.7608853 5.8319016 1
CTTGT 1096965 0.7342471 6.94421 9
GTCGT 788870 0.69800407 6.9554214 7
TGACC 568065 0.66136044 7.933623 1
Produced by FastQC (version 0.10.1)