Simple Sequence Repeats

Species/Cultivar	Gossypium arboreum L. cv. AKA8401
Tissue	Developing fibers (seed trichomes)

Statistics

Number of Sequences Probed	13946
Number of sequences containing one or more SSRs	220
Number sequences containing one or more Complex SSRs	289

*More specific statistics for SSRs at tail of files.

Construction of the SSR and complex SSR databases

Simple sequence repeats were found by running sputnik against the full Gossypium arboreum contig set. These results were then parsed with a house written perl script that trimmed any sequences less than 19 bp in length and reported statistics.

Complex SSRs were found by running an in-house script against the against the full Gossypium arboreum contig set. These results were then analyzed with another script which again trimmed any repeat less than 19bp long and reported statistics.

Downloads

Simple Sequence Repeats

Entire SSR database with sequence:
  Tab delimited text file / Excel

Trimmed (to 18bp or less) SSR database with sequence:
  Tab delimited text file / Excel

Entire SSR database with annotation and sequence:
  Tab delimited text file / Excel

Trimmed (to 18bp or less) SSR database with annotation and sequence:
  Tab delimited text file / Excel

Entire SSR database with annotation and sequence linked to previously Mapped positions:
  Tab delimited text file / Excel

Trimmed (to 18bp or less) SSR database with annotation and sequence linked to previously Mapped positions:
  Tab delimited text file / Excel

Complex Sequence Repeats

Entire complex SSR database with sequence:
  Tab delimited text file / Excel

Trimmed (to 18bp or less) complex SSR database with sequence:
  Tab delimited text file / Excel

Entire complex SSR database with annotation and sequence:
  Tab delimited text file / Excel

Trimmed (to 18bp or less) complex SSR database with annotation and sequence:
  Tab delimited text file / Excel

Entire complex SSR database with annotation and sequence linked to previously Mapped positions:
  Tab delimited text file / Excel

Trimmed (to 18bp or less) complex SSR database with annotation and sequence linked to previously Mapped positions:
  Tab delimited text file / Excel

Note: All sequence names are in the files above are referencing the Cotton Ga Fiber dbEST Non-redundant database