Overall Categorization
Attributes of FASTQ
Alphabet Frequency & GC content
D1_RMT_ecv
Attributes of FASTQ
Name Value InputFile D1_RMT_ecv.fastq #Read 1,000,000 #Base 245,196,258 AvgReadLen 245.20 MinReadLen 25 MaxReadLen 251
Alphabet Frequency & GC content
Name Count Freq% A 36,161,507 14.75% C 82,689,422 33.72% G 84,344,577 34.40% T 40,848,900 16.66% N 1,151,852 0.47% GC% - 68.12%
Distribution of Bases' Quality Values
Name AreaFreq Q30 & above 40.4% Q20-Q29 8.6% Q15-Q19 1.7% < Q15 49.4%
Distribution of Reads' MinimalQ Values
Name AreaFreq % of reads whose bases are all Q20 & above 1.5% % of reads whose bases are all Q15 & above 2.0% % of reads whose bases are all Q10 & above 2.3%
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 1.5% %HighQ(20) >= 100%
(i.e., MinimaQ>=20) Coverage of reads that >= 95% of their bases with Q20 & above 2.9% %HighQ(20) >= 95% Coverage of reads that >= 90% of their bases with Q20 & above 3.5% %HighQ(20) >= 90% Coverage of reads that >= 90% of their bases with Q15 & above 3.9% %HighQ(15) >= 90% % of Poor-quality reads
Coverage of reads that > 10% of their bases with Q14 & less 96.1% 1 - {%HighQ(15) >= 90%}
Attributes of FASTQ
| Name | Value |
|---|---|
| InputFile | D1_RMT_ecv.fastq |
| #Read | 1,000,000 |
| #Base | 245,196,258 |
| AvgReadLen | 245.20 |
| MinReadLen | 25 |
| MaxReadLen | 251 |
Alphabet Frequency & GC content
| Name | Count | Freq% |
|---|---|---|
| A | 36,161,507 | 14.75% |
| C | 82,689,422 | 33.72% |
| G | 84,344,577 | 34.40% |
| T | 40,848,900 | 16.66% |
| N | 1,151,852 | 0.47% |
| GC% | - | 68.12% |
Distribution of Bases' Quality Values
| Name | AreaFreq |
|---|---|
| Q30 & above | 40.4% |
| Q20-Q29 | 8.6% |
| Q15-Q19 | 1.7% |
| < Q15 | 49.4% |
Distribution of Reads' MinimalQ Values
| Name | AreaFreq |
|---|---|
| % of reads whose bases are all Q20 & above | 1.5% |
| % of reads whose bases are all Q15 & above | 2.0% |
| % of reads whose bases are all Q10 & above | 2.3% |
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 | 1.5% | %HighQ(20) >= 100% (i.e., MinimaQ>=20) |
| Coverage of reads that >= 95% of their bases with Q20 & above | 2.9% | %HighQ(20) >= 95% |
| Coverage of reads that >= 90% of their bases with Q20 & above | 3.5% | %HighQ(20) >= 90% |
| Coverage of reads that >= 90% of their bases with Q15 & above | 3.9% | %HighQ(15) >= 90% |
| % of Poor-quality reads Coverage of reads that > 10% of their bases with Q14 & less | 96.1% | 1 - {%HighQ(15) >= 90%} |
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