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Table 3 Results
Result
QC (Sample QC)
CRL (Contiguous Read
Length)
Table 4 Well details
Result
Sample file name, Sample
name, Capillary number,
Run module, Dye set,
Analysis settings name,
Re-injections
Signal strength
Trace score
Median PUP (pull-up peak) A measure of noise or pull-up that is determined by taking the mean of the ratios
SeqStudio
™
Flex Series Genetic Analyzer with Instrument Software v1.0 User Guide
•
—All QC tests passed.
•
—At least 1 caution quality alert was triggered.
•
—At least 1 error quality alert was triggered.
For more information see "Sample QC and quality alerts"
The longest uninterrupted segment of basecalls with an average Quality Value (QV)
≥20.
In addition to evaluating the QV of a basecall, the software considers the QV of
adjacent basecalls within a 21-bp moving window to determine a contiguous read
length based on quality values: the software starts from the 5' end and calculates the
average QV across a moving window size of 21, sliding 1 bp at a time, to the 3' end.
The resulting longest contiguous segment is determined as the CRL.
For more information, see "Understanding Quality Values (QVs)"
Sample identification information, settings used to collect the data, and re-injection
status.
The average relative fluorescence unit (RFU) for all dyes across the electropherogram
in the raw data.
The average basecall Quality Value (QV) of basecalls in the clear range sequence of a
trace.
The clear range is the region of the sequence that remains after excluding the
low‑quality or error-prone sequence at the 5' and 3' ends. The clear range
is determined by the settings in the analysis method. See "Analysis settings—
Sequencing"
on page
291.
of signal strength calculated for each basecalled peak: primary peak/secondary peak
under the primary peak.
A higher value indicates less baseline or secondary noise. A lower value indicates an
elevated baseline or secondary noise.
Example 1: Main called base signal strength is 1,000 RFU and the largest secondary
peak beneath it is 10 RFU; PUP=100
Example 2: Main called base signal strength is 1,000 RFU and the largest secondary
peak beneath it is 100 RFU; PUP=10
Chapter 7 View results on the instrument
Sequence analysis results
Description
on page
Description
7
172.
on page
178.
177
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