Overall Categorization
Attributes of FASTQ
Alphabet Frequency & GC content
D3_VMT_ecv
Attributes of FASTQ
Name Value InputFile D3_VMT_ecv.fastq #Read 1,000,000 #Base 195,725,188 AvgReadLen 195.73 MinReadLen 25 MaxReadLen 251
Alphabet Frequency & GC content
Name Count Freq% A 50,462,214 25.78% C 47,519,705 24.28% G 47,428,709 24.23% T 50,251,026 25.67% N 63,534 0.03% GC% - 48.51%
Distribution of Bases' Quality Values
Name AreaFreq Q30 & above 83.6% Q20-Q29 6.9% Q15-Q19 1.0% < Q15 8.4%
Distribution of Reads' MinimalQ Values
Name AreaFreq % of reads whose bases are all Q20 & above 30.6% % of reads whose bases are all Q15 & above 36.2% % of reads whose bases are all Q10 & above 45.7%
Coverage of Reads with Sufficient High-Quality Bases
Name Coverage of reads Remark % of High-quality reads
Coverage of reads that 100% of their bases with Q20 & above 30.6% %HighQ(20) >= 100%
(i.e., MinimaQ>=20) Coverage of reads that >= 95% of their bases with Q20 & above 69.3% %HighQ(20) >= 95% Coverage of reads that >= 90% of their bases with Q20 & above 79.0% %HighQ(20) >= 90% Coverage of reads that >= 90% of their bases with Q15 & above 82.2% %HighQ(15) >= 90% % of Poor-quality reads
Coverage of reads that > 10% of their bases with Q14 & less 17.8% 1 - {%HighQ(15) >= 90%}
Attributes of FASTQ
| Name | Value |
|---|---|
| InputFile | D3_VMT_ecv.fastq |
| #Read | 1,000,000 |
| #Base | 195,725,188 |
| AvgReadLen | 195.73 |
| MinReadLen | 25 |
| MaxReadLen | 251 |
Alphabet Frequency & GC content
| Name | Count | Freq% |
|---|---|---|
| A | 50,462,214 | 25.78% |
| C | 47,519,705 | 24.28% |
| G | 47,428,709 | 24.23% |
| T | 50,251,026 | 25.67% |
| N | 63,534 | 0.03% |
| GC% | - | 48.51% |
Distribution of Bases' Quality Values
| Name | AreaFreq |
|---|---|
| Q30 & above | 83.6% |
| Q20-Q29 | 6.9% |
| Q15-Q19 | 1.0% |
| < Q15 | 8.4% |
Distribution of Reads' MinimalQ Values
| Name | AreaFreq |
|---|---|
| % of reads whose bases are all Q20 & above | 30.6% |
| % of reads whose bases are all Q15 & above | 36.2% |
| % of reads whose bases are all Q10 & above | 45.7% |
Coverage of Reads with Sufficient High-Quality Bases
| Name | Coverage of reads | Remark |
|---|---|---|
| % of High-quality reads Coverage of reads that 100% of their bases with Q20 & above | 30.6% | %HighQ(20) >= 100% (i.e., MinimaQ>=20) |
| Coverage of reads that >= 95% of their bases with Q20 & above | 69.3% | %HighQ(20) >= 95% |
| Coverage of reads that >= 90% of their bases with Q20 & above | 79.0% | %HighQ(20) >= 90% |
| Coverage of reads that >= 90% of their bases with Q15 & above | 82.2% | %HighQ(15) >= 90% |
| % of Poor-quality reads Coverage of reads that > 10% of their bases with Q14 & less | 17.8% | 1 - {%HighQ(15) >= 90%} |
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