Mouse vs Tetraodon Translated Blat alignments

Mouse (Mus musculus, NCBIM37) and Tetraodon (Tetraodon nigroviridis, TETRAODON8) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl release 50. Mouse 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: 182634

Genome coverage(bp) Coding exon coverage (bp)
Mouse
20,730,383 out of 2,716,965,481 14,620,764 out of 35,152,623
Tetraodon
14,218,803 out of 358,618,246 11,998,589 out of 30,080,167