Human vs Stickleback Translated Blat alignments

Human (Homo sapiens, GRCh37) and Stickleback (Gasterosteus aculeatus, BROADS1) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl release 55. Human 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: 189249

Genome coverage(bp) Coding exon coverage (bp)
Human
20,621,373 out of 3,098,825,702 15,165,221 out of 35,483,623
Stickleback
15,126,150 out of 461,533,448 12,957,615 out of 32,649,418