FastQC ReportTue 25 Feb 2014
TestSample_2_1M.fastq
Summary
![[PASS]](Icons/tick.png)
Basic Statistics- Per base sequence quality
- Per sequence quality scores
![[FAIL]](Icons/error.png)
Per base sequence content- Per base GC content
![[WARNING]](Icons/warning.png)
Per sequence GC content- Per base N content
- Sequence Length Distribution
- Sequence Duplication Levels
- Overrepresented sequences
- Kmer Content
Basic Statistics
| Measure | Value |
|---|---|
| Filename | TestSample_2_1M.fastq |
| File type | Conventional base calls |
| Total Sequences | 250000 |
| Sequence length | 50 |
| %GC | 54 |
Overrepresented sequences
| Sequence | Count | Percentage | Possible Source |
|---|---|---|---|
| CTGCTATCTGCCTTCCAGGCCACTGTCACGGCTCCCGGGTAGAAGTCACT | 322 | 0.1288 | No Hit |
| GGTTTATTGAGTGCAGGGAGAAGGGCTTGATGCCTTGGGGTGGGAGGAGA | 277 | 0.11080000000000001 | No Hit |
| CCTCAGTTCACCTTCTCACAATGAGGCTCCCTGCTCAGCTCCTGGGGCTG | 251 | 0.10039999999999999 | No Hit |
Kmer Content
| Sequence | Count | Obs/Exp Overall | Obs/Exp Max | Max Obs/Exp Position |
|---|---|---|---|---|
| AAAAA | 22330 | 3.2698724 | 6.589597 | 2 |
| AGAAG | 31475 | 3.2595756 | 6.081666 | 41 |
| CTTCT | 30350 | 2.9788415 | 5.675558 | 5 |
| CCTGG | 39385 | 2.8140948 | 5.707198 | 1 |
| AGCAG | 31000 | 2.685992 | 5.2052436 | 6 |
| CTCCA | 31350 | 2.6499631 | 6.3523664 | 1 |
| AAGAA | 20635 | 2.5411084 | 5.7355604 | 2 |
| CCAGG | 34050 | 2.4683566 | 5.056375 | 8 |
| CTGGA | 28740 | 2.4544084 | 7.7629757 | 1 |
| CTGGG | 34055 | 2.445781 | 5.881998 | 1 |
| CTCAG | 26825 | 2.2791395 | 5.199803 | 1 |
| TCCAG | 26765 | 2.274042 | 6.576221 | 7 |
| TCTCC | 26825 | 2.2349052 | 5.267596 | 7 |
| GGAAG | 25035 | 2.1803162 | 5.859086 | 3 |
| CTGCC | 29750 | 2.1147835 | 5.7899427 | 8 |
| CAGGA | 24270 | 2.102872 | 5.244234 | 1 |
| TGCAG | 22745 | 1.9424329 | 5.0344048 | 7 |
| TGGAA | 18615 | 1.9000955 | 6.5914516 | 2 |
| CCTTC | 22120 | 1.8429115 | 5.923702 | 11 |
| AAAAT | 12690 | 1.8315582 | 6.105254 | 3 |
| TGCCT | 21295 | 1.7833061 | 5.878813 | 9 |
| TCTGC | 21215 | 1.7766067 | 6.7267184 | 7 |
| TTTAT | 11945 | 1.6508074 | 5.0996556 | 3 |
| CTTTG | 16400 | 1.6179364 | 5.0388355 | 1 |
| ATCTG | 13550 | 1.3562502 | 6.486042 | 6 |
| ATCCA | 12525 | 1.265413 | 5.6603165 | 6 |
| AATCT | 10090 | 1.2009227 | 5.838042 | 5 |