Table 2

Summary of synteny blocks before and after quota-based screening in the four examples used in this study.

Example

# of anchors

# of blocks

Percentage of regions exceed quota

Run time

CoGe link


A. thaliana vs. A. lyrata (1:1)

before

27381

388

76.3%

0.73s

http://bit.ly/aT6Uyx webcite

after

20826

69

0.1%

A. thaliana vs. poplar (4:2)

before

16257

1084

18.4%

0.55s

http://bit.ly/9qXnMg webcite

after

14839

910

1.9%

A. thaliana vs. A. thaliana (1:1)

before

6523

440

22.0%

0.25s

http://bit.ly/akpvUh webcite

after

5477

315

3.5%

grape vs. grape (2:2)

before

4459

270

9.0%

0.24s

http://bit.ly/bCSHZG webcite

after

4297

259

2.7%


For each case, summary of blocks before screening is in the first row, and blocks after screening is in the second row. The running time for QUOTA-ALIGN is based on a single-threaded 3.0 GHz Intel Xeon CPU.

Tang et al. BMC Bioinformatics 2011 12:102   doi:10.1186/1471-2105-12-102

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