10. File - Database
A number of any size oligonucleotide databases may be created with OLIGO. Analyze priming efficiency, multiplex primers (check for dimers) and catalog your oligos. Data from an oligonucleotide database may also be transferred directly to an order form to be e-mailed or faxed to your synthesis facility.
• The ID Number is generated automatically. It consists of
the accession number, position of the first (the lowest position
number) nucleotide in the primer on the sequence, letter "L" for a
negative strand or "U" for a positive strand primer, and the primer
length.
• In the "3' dim. DeltaG" field you can read two types of data:
1) free energy of the 3'-end dimer (if you multiplex using this
window, this value refers to the strongest dimer formed with any of
the multiplexed primers; 2) a letter code for compatibility &
multiplexing: M- a multiplexed primer
(compatible with all M and C primers),
C- compatible primer with any
multiplexed oligo,
D- primer forming a self-dimer
(the stringency definition can be set by changing the search
parameters),
NC- primer that is compatible
with itself but not compatible with at least one multiplexed
primers.
• P.E.- priming efficiency numbers: first the actual number
within a user-selected search range, second the maximum value (with
no mismatches).
|
|
|
|
