Sequencing Status Help
The Rice sequencing status Web Pages display
information about clones that have GenBank entries (SD clones).
Nightly, updated and new sequenced clones are downloaded from GenBank.
A program that computes the simulated digest is run on each sequence,
the SD (simulated digest) clone is entered into FPC, compared with all
clones in FPC, and placed in the same location of its best hit.
Hence, SD refers to Genbank clones that have been entered into FPC.
Currently we have status pages for clones
The following columns are displayed on the status page:
Chromsome: lists total number of
chromosomes present in a genome. All clones that do not go into a contig
are assigned to Chromosome 0.
# SD Clones: This column contains
a count of the SD clones that have been entered into FPC.
# Finished: count of the number
of clones that have been annotated as finished in the GenBank records.
# Repeats: count of the number of repeat regions in a given chrosome.
This count is obtained by reading through GenBank records of each clone.
Total Size: summation of known clone lengths obtained from GenBank
records. This value expressed in Mega Bases (Mb) is an approximate value,
since it includes overlaps too.
Estimated Size: approximate known size of the entire chromsome
in Mega Bases (Mb).