Chicken vs X.tropicalis Translated Blat alignments

Chicken (Gallus gallus, WASHUC2) 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. Chicken 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: 190096

Genome coverage(bp) Coding exon coverage (bp)
Chicken
23,539,291 out of 1,100,480,441 15,621,812 out of 24,644,731
X.tropicalis
20,761,373 out of 1,510,886,836 12,108,416 out of 26,238,419