Tetraodon vs Zebrafish Translated Blat alignments

Tetraodon (Tetraodon nigroviridis, TETRAODON8) and Zebrafish (Danio rerio, Zv9) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl release 60. Tetraodon was used as the reference species. After running Translated Blat , the raw Translated Blat alignment blocks are chained according to their location in both genomes. During the final netting process, the best sub-chain is chosen in each region on the reference species.

Full list of pairwise alignments

Configuration parameters

Minimum score (minScore) 30
Database type (t) dnax
Query type (q) dnax
Mask out repeats (mask) lower
Mask out repeats on query (qmask) lower

Results

Number of alignment blocks: 249742

Genome coverage(bp) Coding exon coverage (bp)
Tetraodon
28,087,885 out of 358,618,246 20,723,901 out of 30,080,167
Zebrafish
23,541,371 out of 1,412,464,843 18,266,006 out of 39,233,654