Symptom
Possible Cause Action
QV flag for sequencing data, but
data quality is good
Contiguous Read Length of the
amplicon is less than the Contiguous
Read Length Pass value specified in
Basecalling Protocol QV settings or
Trace Quality preference settings.
• If the expected read length of the
amplicon is <300, adjust the
Contiguous Read Length Pass
value.
• If the expected read length of the
amplicon ³300, review the
sample quality throughout the
entire trace.
QV flag for sequencing data Run Time in Instrument Protocol is
too short for the amplicon.
Adjust Run Time.
Incorrect Mobility file for dye/polymer
is selected in Basecalling Protocol.
Select the correct Mobility file for
dye/polymer in Basecalling Protocol,
then re‑inject.
Apply correct Basecalling Protocol in
secondary sequence analysis
software.
Audit troubleshooting
Symptom
Possible Cause Action
“Export did not complete
successfully”
You exported records for samples that
are not in their original location
(samples have been deleted or
moved).
Return sample data files to their
original location, then export again.
Audit report does not print after you
change font settings.
Font settings are not activated until
you close the report.
Close the report, reopen it, then print.
Electronic signature troubleshooting
Symptom
Possible Cause Action
The dye set calibrated is not listed in
a spectral calibration e‑signature
record.
The e‑signature function creates a
record when a spectral calibration is
performed, but does not record the
dye set calibrated.
To include the dye set calibrated in
the e‑signature record, enter the dye
set in the Comments field.
Electronic signature prompt is
displayed when you edit sample
comments.
Electronic signature prompt is
displayed for sample comments,
regardless of the electronic signature
setting.
No action.
Appendix A Troubleshoot
Audit troubleshooting
A
3500/3500xL Genetic Analyzer User Guide—Data Collection Software v3.1
277
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