View probe details |
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This topic describes how to view the probes that you retrieve with the Search Standard Probes or GO Probe Search tools. The search results let you view the following information about the returned probes:
View probe sequences and statistics
You can view the sequence and ID information of selected probes, as well as results of statistical calculations based on their base composition.
Note: This feature is not available for microRNA or SureSelect Capture Array type probes.
Perform a search
for probes of the main probe database.
A search results pane appears, with the probes that match your search
criteria.
In the Search Results pane, select the probe(s) of interest. Use the following as a guide:
To select an individual probe, mark the check box next to its Probe ID.
To select all of the probes on the current page, mark the check box in the heading row of the Search Results table.
To navigate among multiple pages of results, use the Pages links. eArray remembers the probes you select as you go from page to page.
To select all of the probes on every page of the search results, mark Select Entire Result.
Click Show
Statistics.
A list of the probes appears. ID and sequence information appears for
each probe, along with results of statistical calculations based on
the probe's sequence. The table below describes these statistics.
Statistic |
Description |
Example |
Length |
The number of nucleotides in the probe |
Agilent expression probe A_12_P119943 contains 60 nucleotides. Length = 60. |
G% |
Percentage of bases in the probe sequence that are G bases |
Same probe as above: 11 Gs; %G = 18.33% |
C% |
Percentage of bases in the probe sequence that are C bases |
Same probe as above: 16 Cs; %C = 26.67% |
A%
|
Percentage of bases in the probe sequence that are A bases |
Same probe as above: 13 As; %A = 21.67% |
T% |
Percentage of bases in the probe sequence that are T bases |
Same probe as above: 20 Ts; %T = 33.33% |
GC% |
Percentage of bases in the probe sequence that are, collectively, G and C bases |
Same probe as above: 11 Gs and 16 C's. %GC = 45% |
PolyX |
The longest homeomeric run (run of one type of base) in the probe sequence, represented as the number bases in the run. |
ATTAGTTTATG has a PolyX of 3 because it contains a run of three Ts. Same probe as above: contains a run of 5 Ts; therefore, the PolyX = 5. |
FivePrimeAs |
The length of any poly A sequence on the 5' end of the probe |
AAAAAAATTGAGGATG has seven A bases on the 5' end. FivePrimeAs = 7 |
BC_Score |
Base Composition Score: A numeric value that defines the quality of the probe, based upon its base composition and distribution |
BC_1 is the best, and BC_Poor is the worst. |
Note: Guest users cannot view probe sequences and statistics.
Use the Search
Standard Probes tool to do a probe search.
A search results pane lists the probes that match your search criteria.
To navigate among multiple pages of results, use the Pages links.
The accessions associated with each
probe appear in the Accessions column in the Search Results pane.
If an accession number appears as a link, click the link to open the
Web site of the relevant database in a new browser window. For microRNA
probes, the miMAT# column (accession numbers of mature miRNAs) appears
in place of the Accessions column.
Some probe annotation information appears in the initial table of probe search results when you perform a probe search of the main probe database. See View probe annotations for further information.
See also