Beckman Coulter CEQ 8000, User Manual

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Sequence Analysis Procedures
152 CEQ™ 8000 Genetic Analysis System
Figure 93: Sequence Analysis Parameters Editor Dialog
4. Make appropriate changes and click
Save As
to create a new Sequence Analysis
Parameter name or click
OK
to save and exit the editor.
General Tab
The general tab is displayed by default.
N Threshold
This value is the threshold for the probability of correctness, below which a called
base will be changed to an “N.” The range is 0.00 to 1.00 and the default is 0.60.
If Detect Heterozygotes is checked in the Heterozygote Detection tab,
this field is disabled.
In the CEQ System Software, ‘N’s are assigned to regions of data where it is likely that
an insertion or deletion exists, or where the identity of a called base(s) is ambiguous.
The N Threshold is used to specify the Call Score below which an ‘N’ will be assigned
to the called base.
It is important to set the N Threshold properly if you are exporting
data to any program that can not use CEQ Quality Values, such as
BLAST or FASTA, or to most primer design programs.