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Amplicon Summary
| Statistic | Definition |
|---|---|
|
Total Aligned Reads (R1/R2) |
The total number of reads passing filter present in the data set that aligned to the reference genome. Numbers are per read. |
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Percent Aligned Reads (R1/R2) |
The percentage of reads passing filter that aligned to the reference genome. Numbers are calculated per read. |
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Overall Aligned Reads |
The percentage of reads passing filter that aligned for the sample across both reads. |
|
Statistic |
Definition |
|---|---|
|
Total Aligned Bases (R1/R2) |
The total number of bases present in the data set that aligned to the reference genome. Numbers are calculated per read. |
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Overall Total Aligned Bases |
The total number of bases present in the data set that aligned to the reference genome across both reads (R1 and R2). The value is the sum of the individual Total Aligned Bases values. |
|
Percent Aligned Bases (R1/R2) |
The percentage of bases that aligned to the reference genome. Numbers are calculated per read, and the average over both reads. |
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Overall Percent Aligned Bases |
The percentage of bases that aligned to the reference genome across both reads (R1 and R2). The value is the average of the individual Percent Aligned Bases values. |
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Percent Q30 (R1/R2) |
The percentage of bases with a quality score of 30 or higher. Numbers are calculated per read. |
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Mismatch Rate (R1/R2) |
The average percentage of mismatches across both reads 1 and 2 over all cycles. Numbers are calculated per read. |