Zebrafish vs X.tropicalis Translated Blat alignments

Zebrafish (Danio rerio, Zv9) and X.tropicalis (Xenopus tropicalis, JGI_4.2) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl release 62. Zebrafish 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: 191372

Genome coverage(bp) Coding exon coverage (bp)
Zebrafish
22,762,917 out of 1,412,464,843 18,218,244 out of 39,233,654
X.tropicalis
15,502,688 out of 1,511,717,716 12,551,899 out of 30,481,746