FastQCFastQC Report
Wed 16 Nov 2011
dataset_1.dat

Summary

[OK] Basic Statistics

Measure Value
Filename dataset_1.dat
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 5000
Filtered Sequences 0
Sequence length 54
%GC 43

[WARN] Per base sequence quality

Per base quality graph

[WARN] Per sequence quality scores

Per Sequence quality graph

[WARN] 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
CGGAAGAGCGGTTCAGCAGGAATGCCGAGATCGGAAGAGCGGTTCAGCAGGAAT 7 0.13999999999999999 Illumina Paired End PCR Primer 2 (96% over 33bp)
CGGTTCAGCAGGAATGCCGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGAC 7 0.13999999999999999 Illumina Paired End PCR Primer 2 (100% over 35bp)

[FAIL] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CCCCC 1180 9.957459 29.638031 50
AAAAA 2175 4.133217 7.129659 47
CTCCC 555 3.668942 11.56272 11
CCTCC 525 3.4706206 11.56272 14
CTGGG 465 3.0945942 8.331139 39
GGGGG 350 2.9865708 12.818572 41
TGGAA 800 2.9261596 6.397646 17
CCCAG 455 2.855999 9.429343 40
GAATG 775 2.8347175 10.053445 20
GTGTG 530 2.763172 7.8240557 33
GGGAG 435 2.7487729 6.3220544 43
TGTGT 670 2.7303638 6.109576 27
ATGGA 735 2.688409 6.397646 20
GGAAT 730 2.6701207 7.3115954 19
GCTGG 400 2.6620166 8.322799 31
GGAGG 420 2.6539874 7.9104857 40
GCAGG 405 2.5535064 14.17877 16
CCTGG 375 2.4900866 6.6367774 7
CAGCC 390 2.4479992 6.279937 38
GGCTG 365 2.4290898 9.97737 24
TGGGA 490 2.4202447 7.40506 20
CCAGC 385 2.4166145 6.286229 41
AATGG 660 2.4140818 5.4836965 18
GCCTG 360 2.3904827 8.295971 5
GCCTC 360 2.3851626 6.6286345 31
CCCTC 360 2.379854 8.267352 34
CTGTG 450 2.3408678 9.09864 44
GGAAG 500 2.3397229 14.031037 2
CAGCA 500 2.32932 10.47649 14
CAGGA 495 2.3111706 13.99981 17
TCCCA 470 2.305994 7.370469 39
CTGCC 345 2.285781 8.277508 10
GGTGG 340 2.2677608 5.009832 42
CCAGG 360 2.264732 6.300251 41
TTCCT 555 2.2516627 7.0961456 1
TCCCC 335 2.2145865 8.267353 29
CAGGC 350 2.2018228 6.300251 42
CTCCT 425 2.2009897 6.4701333 15
GGCAG 340 2.1436844 6.301676 16
CCCCA 340 2.129403 6.26596 31
CTCTG 410 2.1280441 5.1928453 48
TGGTG 405 2.1114805 6.520046 33
TTCCA 545 2.094778 6.7295837 33
CCCCT 315 2.0823722 6.607268 12
CTCAG 420 2.0652719 6.149596 46
AGGGA 440 2.0589561 7.0225415 31
CAGAG 440 2.054374 5.8390937 38
AGCAG 440 2.0543735 10.499857 15
CCCTG 310 2.05389 6.622006 24
CTTCC 390 2.0197318 6.4701333 17
AGGAA 580 2.0098667 10.390455 18
AGAGC 430 2.0076835 10.499858 5
TCTCC 385 1.9938378 5.181288 29
TCCTC 385 1.9938378 5.181288 48
TCAGC 405 1.9915122 12.286894 44
TGCTG 380 1.9767327 6.5055346 47
CACCC 315 1.9728295 6.259694 9
TCCTG 380 1.9723336 6.4845653 8
CAGGG 310 1.954536 6.3016763 21
GATGG 395 1.9510134 6.1708827 1
TGGCT 375 1.9507233 9.098641 45
AAGAG 560 1.9405607 9.524584 4
TGTGG 370 1.929007 6.5200467 30
CTGAG 390 1.9220302 6.163313 35
CCTGT 370 1.9204301 6.4845653 6
CAGAA 555 1.9189543 6.0476103 6
TCCCT 370 1.9161558 6.4766097 33
CCCAC 305 1.9101999 6.259694 4
CACCA 405 1.8825499 6.9757566 33
AAAGA 730 1.8732982 5.1399345 42
CAGTG 380 1.8727474 6.163313 30
GAAGA 540 1.8712552 7.792842 26
TCTCT 460 1.8662432 5.068676 8
TTTCC 460 1.8662429 5.073749 38
GAGGC 295 1.8599615 6.301676 22
TCTGT 455 1.8500755 5.0850673 49
CCTGC 275 1.8219992 9.93301 6
CCTCT 350 1.8125799 7.7641597 2
TGCCT 345 1.7906713 5.187652 12
TTCCC 345 1.7866857 6.470133 18
GAGGG 280 1.769325 6.3283887 41
CACAC 380 1.7663432 5.813131 33
TCTGC 340 1.7647195 5.1980486 42
CTGGC 265 1.7596608 6.6434207 43
TTCAG 455 1.7527524 9.6255 12
AGCCA 375 1.74699 5.8319354 39
CTCTC 335 1.7348979 5.1761065 3
GGGTG 260 1.7341703 8.333022 28
TGGGG 260 1.7341703 8.349721 39
GTGGG 255 1.7008208 6.6730905 31
GGCCA 270 1.698549 6.293945 43
GCCCC 200 1.6914694 6.3460584 32
CTTTG 415 1.6874313 5.0799813 2
ACACA 485 1.6731915 5.1721287 14
GTGGT 320 1.6683302 5.216037 31
CTCAC 340 1.6681659 7.363092 31
TGCTT 410 1.6671008 5.090162 40
GGGGC 195 1.6602434 8.526694 40
AGTGG 335 1.654657 6.1708827 3
TTCTG 405 1.6467704 5.0850663 49
AGAAG 475 1.6460115 5.1952276 22
ACTCC 335 1.6436341 6.1297736 10
GGCTC 245 1.6268562 8.304275 46
TGGCA 330 1.6263331 8.637284 40
TCCTT 400 1.6228201 6.0946 40
TCTGG 310 1.612598 5.204428 43
GGGGA 255 1.6113497 6.3157325 7
CTGCT 310 1.609009 6.4845653 3
CCCAA 345 1.6036536 5.8073177 10
TGGCC 240 1.5936551 6.6434207 49
GTGCT 305 1.5865883 5.220104 50
GCTTT 390 1.5857788 6.1081944 41
CCACA 335 1.5571709 5.813131 30
CCTTC 300 1.5536399 6.4701333 17
CCACT 315 1.5455065 6.135909 32
TCTTC 380 1.5416791 5.0737495 49
GTTCA 400 1.5408814 7.700401 11
AGGCA 330 1.5407803 5.8332543 6
AAAAG 600 1.5396972 5.782427 41
GCACA 330 1.5373511 5.8202715 18
ATGCC 305 1.4997808 12.286893 22
GAAGG 320 1.4974226 5.8462653 8
GAGAG 320 1.4974226 5.857981 41
TGTGC 285 1.4825499 5.2044287 29
TTGGC 285 1.4825495 5.199223 15
GGGAT 300 1.4817826 7.40506 21
AGCTG 300 1.4784846 6.1633124 30
AACAG 425 1.4694693 5.1836653 10
GAGTG 295 1.4570862 6.1770606 33
GGGAC 230 1.4501395 6.3143044 40
GTGTT 355 1.4466851 6.134112 50
TTTGG 355 1.4466851 6.1095753 3
TCTTT 455 1.4461157 5.5590916 1
GAGAT 395 1.4447913 6.397646 27
CAAAA 560 1.4338523 5.123362 31
GGTTC 275 1.4305303 10.398446 10
CCCTT 275 1.4241698 5.186479 39
CTGTT 350 1.4231348 5.0799813 10
ATGGT 365 1.4091904 6.7596393 47
TGTTG 345 1.4059336 5.1015162 40
CTGTC 270 1.4013947 5.198048 39
GAGAC 300 1.4007094 5.856681 50
CTTCT 345 1.3996824 7.1246448 50
GGCCC 165 1.398575 6.353853 2
TGAGT 360 1.3898867 5.7939773 32
GGCAC 220 1.3840029 6.2876506 17
CCTTT 340 1.3793972 5.068676 8
CCTTG 265 1.3754432 5.187652 18
TTGAA 475 1.3580486 6.4295163 7
GAGCG 215 1.3555653 12.603353 6
AAGGA 390 1.3514621 5.1952276 44
TTCTT 420 1.3348758 7.941558 4
GGGGT 200 1.3339773 8.333022 45
CAGAT 365 1.3320893 5.4769697 34
CTTGG 255 1.3264918 5.1992235 18
TGGTT 320 1.3040541 5.091313 25
TTGGG 250 1.3033829 6.5135255 6
CTGGT 250 1.3004823 5.204428 48
GCTCC 195 1.2919631 8.277508 26
TGATG 330 1.2740628 5.7939773 46
TGTCC 245 1.2716361 5.187652 21
GGCTT 240 1.2484628 5.199223 4
GACAG 265 1.2372932 5.833254 27
GGTGT 235 1.2251799 5.21082 27
AATGC 335 1.2226022 10.031068 21
TTTGC 300 1.2198299 5.0799813 9
GTCCT 230 1.1937809 5.1928453 47
GGGCC 140 1.1893166 6.3744006 43
ATCCC 240 1.1775287 6.135909 43
GCTCT 225 1.1678292 7.789268 47
AGCCC 185 1.1612303 6.2799363 31
GATCG 235 1.1581463 6.1633124 29
ACCCT 230 1.128465 6.129773 10
GTTGG 215 1.1209095 5.2160373 47
AGCTC 225 1.1063956 6.1434464 25
CCCAT 225 1.1039332 6.129773 21
CGGAA 235 1.0972222 9.333206 1
TCTTG 265 1.0775164 5.0799813 21
ATGCA 295 1.0766199 5.4714913 37
GCTTG 205 1.0663953 5.199223 2
AGCGG 165 1.0403174 12.603352 7
TTGCC 200 1.0380702 5.1876516 3
AACCT 285 1.0378094 5.4593143 13
AACCA 300 1.0349638 5.1721287 22
CCGAG 160 1.0065476 12.575301 25
GTTCC 190 0.9861668 6.4845653 27
ACTCA 270 0.983188 5.4593153 11
CTCAT 255 0.9801258 5.7624474 4
GAACC 210 0.9783144 5.820272 25
GGCGG 110 0.93654746 10.637051 44
GCGGG 110 0.93654746 6.3886194 36
ATCGG 190 0.93637353 6.163312 30
GTCTG 180 0.9363471 5.2096424 41
GCGGT 140 0.93170583 13.303162 8
CGGGG 105 0.8939771 6.3886194 46
GGGCG 105 0.8939771 8.518159 43
TCGGA 170 0.83780795 7.395975 31
CTTGT 205 0.83355045 5.0850673 38
TGCCG 125 0.83002883 14.93275 23
AGGCG 125 0.7881193 6.3016763 15
CGGTT 150 0.78028923 10.398446 9
GTGAC 150 0.7392424 6.163313 32
GCCGA 115 0.723456 12.575301 24
CCCGC 85 0.7188745 6.3460584 30
CCCCG 85 0.7188745 10.576764 29
CGAGA 135 0.6303192 9.333206 26
CGGGA 90 0.5674459 6.301676 24
CACGG 85 0.5347284 6.2876506 37
CGCCT 80 0.5300361 6.6286345 30
CCGCA 75 0.47076905 6.2799363 36
CGTTG 40 0.20807713 5.2044277 46

Files created by FastQC

dataset_1.dat_fastqc.zip (312.4 KB)
duplication_levels.png (14.5 KB)
fastqc_data.txt (15.0 KB)
fastqc_report.html (25.2 KB)
kmer_profiles.png (186.7 KB)
per_base_gc_content.png (12.1 KB)
per_base_n_content.png (7.4 KB)
per_base_quality.png (9.6 KB)
per_base_sequence_content.png (23.9 KB)
per_sequence_gc_content.png (29.6 KB)
per_sequence_quality.png (21.9 KB)
sequence_length_distribution.png (18.9 KB)
summary.txt (465 B)
FastQC documentation and full attribution is here
FastQC was run by Galaxy using the rgenetics rgFastQC wrapper - see http://rgenetics.org for details and licensing
Produced by FastQC (version 0.10.0)