Tetraodon vs X.tropicalis Translated Blat alignments

Tetraodon (Tetraodon nigroviridis, TETRAODON8) and X.tropicalis (Xenopus tropicalis, JGI4.1) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl release 50. 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: 170655

Genome coverage(bp) Coding exon coverage (bp)
Tetraodon
19,456,831 out of 358,618,246 15,787,446 out of 30,080,167
X.tropicalis
13,794,289 out of 1,510,886,836 9,787,534 out of 26,238,419