Overall Categorization
Attributes of FASTQ
Alphabet Frequency & GC content
eel_PE500
Attributes of FASTQ
Name Value InputFile eel_PE500.fastq #Read 1,000,000 #Base 192,776,599 AvgReadLen 192.78 MinReadLen 35 MaxReadLen 201
Alphabet Frequency & GC content
Name Count Freq% A 54,469,383 28.26% C 42,098,739 21.84% G 41,483,633 21.52% T 54,720,725 28.39% N 4,119 0.00% GC% - 43.36%
Distribution of Bases' Quality Values
Name AreaFreq Q30 & above 93.6% Q20-Q29 4.8% Q15-Q19 0.9% < Q15 0.7%
Distribution of Reads' MinimalQ Values
Name AreaFreq % of reads whose bases are all Q20 & above 66.5% % of reads whose bases are all Q15 & above 77.8% % of reads whose bases are all Q10 & above 81.4%
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 66.5% %HighQ(20) >= 100%
(i.e., MinimaQ>=20) Coverage of reads that >= 95% of their bases with Q20 & above 88.9% %HighQ(20) >= 95% Coverage of reads that >= 90% of their bases with Q20 & above 93.7% %HighQ(20) >= 90% Coverage of reads that >= 90% of their bases with Q15 & above 97.9% %HighQ(15) >= 90% % of Poor-quality reads
Coverage of reads that > 10% of their bases with Q14 & less 2.1% 1 - {%HighQ(15) >= 90%}
Attributes of FASTQ
| Name | Value |
|---|---|
| InputFile | eel_PE500.fastq |
| #Read | 1,000,000 |
| #Base | 192,776,599 |
| AvgReadLen | 192.78 |
| MinReadLen | 35 |
| MaxReadLen | 201 |
Alphabet Frequency & GC content
| Name | Count | Freq% |
|---|---|---|
| A | 54,469,383 | 28.26% |
| C | 42,098,739 | 21.84% |
| G | 41,483,633 | 21.52% |
| T | 54,720,725 | 28.39% |
| N | 4,119 | 0.00% |
| GC% | - | 43.36% |
Distribution of Bases' Quality Values
| Name | AreaFreq |
|---|---|
| Q30 & above | 93.6% |
| Q20-Q29 | 4.8% |
| Q15-Q19 | 0.9% |
| < Q15 | 0.7% |
Distribution of Reads' MinimalQ Values
| Name | AreaFreq |
|---|---|
| % of reads whose bases are all Q20 & above | 66.5% |
| % of reads whose bases are all Q15 & above | 77.8% |
| % of reads whose bases are all Q10 & above | 81.4% |
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 | 66.5% | %HighQ(20) >= 100% (i.e., MinimaQ>=20) |
| Coverage of reads that >= 95% of their bases with Q20 & above | 88.9% | %HighQ(20) >= 95% |
| Coverage of reads that >= 90% of their bases with Q20 & above | 93.7% | %HighQ(20) >= 90% |
| Coverage of reads that >= 90% of their bases with Q15 & above | 97.9% | %HighQ(15) >= 90% |
| % of Poor-quality reads Coverage of reads that > 10% of their bases with Q14 & less | 2.1% | 1 - {%HighQ(15) >= 90%} |
|