Overall Categorization
Attributes of FASTQ
Alphabet Frequency & GC content
D2_MMT_ecv
Attributes of FASTQ
Name Value InputFile D2_MMT_ecv.fastq #Read 1,000,000 #Base 194,226,179 AvgReadLen 194.23 MinReadLen 25 MaxReadLen 251
Alphabet Frequency & GC content
Name Count Freq% A 35,029,794 18.04% C 62,517,762 32.19% G 62,510,915 32.18% T 34,108,532 17.56% N 59,176 0.03% GC% - 64.37%
Distribution of Bases' Quality Values
Name AreaFreq Q30 & above 69.0% Q20-Q29 10.1% Q15-Q19 2.0% < Q15 19.0%
Distribution of Reads' MinimalQ Values
Name AreaFreq % of reads whose bases are all Q20 & above 14.6% % of reads whose bases are all Q15 & above 21.1% % of reads whose bases are all Q10 & above 26.6%
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 14.6% %HighQ(20) >= 100%
(i.e., MinimaQ>=20) Coverage of reads that >= 95% of their bases with Q20 & above 46.5% %HighQ(20) >= 95% Coverage of reads that >= 90% of their bases with Q20 & above 57.9% %HighQ(20) >= 90% Coverage of reads that >= 90% of their bases with Q15 & above 64.1% %HighQ(15) >= 90% % of Poor-quality reads
Coverage of reads that > 10% of their bases with Q14 & less 35.9% 1 - {%HighQ(15) >= 90%}
Attributes of FASTQ
| Name | Value |
|---|---|
| InputFile | D2_MMT_ecv.fastq |
| #Read | 1,000,000 |
| #Base | 194,226,179 |
| AvgReadLen | 194.23 |
| MinReadLen | 25 |
| MaxReadLen | 251 |
Alphabet Frequency & GC content
| Name | Count | Freq% |
|---|---|---|
| A | 35,029,794 | 18.04% |
| C | 62,517,762 | 32.19% |
| G | 62,510,915 | 32.18% |
| T | 34,108,532 | 17.56% |
| N | 59,176 | 0.03% |
| GC% | - | 64.37% |
Distribution of Bases' Quality Values
| Name | AreaFreq |
|---|---|
| Q30 & above | 69.0% |
| Q20-Q29 | 10.1% |
| Q15-Q19 | 2.0% |
| < Q15 | 19.0% |
Distribution of Reads' MinimalQ Values
| Name | AreaFreq |
|---|---|
| % of reads whose bases are all Q20 & above | 14.6% |
| % of reads whose bases are all Q15 & above | 21.1% |
| % of reads whose bases are all Q10 & above | 26.6% |
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 | 14.6% | %HighQ(20) >= 100% (i.e., MinimaQ>=20) |
| Coverage of reads that >= 95% of their bases with Q20 & above | 46.5% | %HighQ(20) >= 95% |
| Coverage of reads that >= 90% of their bases with Q20 & above | 57.9% | %HighQ(20) >= 90% |
| Coverage of reads that >= 90% of their bases with Q15 & above | 64.1% | %HighQ(15) >= 90% |
| % of Poor-quality reads Coverage of reads that > 10% of their bases with Q14 & less | 35.9% | 1 - {%HighQ(15) >= 90%} |
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