Mouse (Mus musculus, NCBIM37) and Fugu (Takifugu rubripes, FUGU4) 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| Minimum score (minScore) | 30 |
| Database type (t) | dnax |
| Query type (q) | dnax |
| Mask out repeats (mask) | lower |
| Mask out repeats on query (qmask) | lower |
Number of alignment blocks: 181888
| Genome coverage(bp) | Coding exon coverage (bp) | |
|---|---|---|
| Mouse |
|
|
| 20,258,466 out of 2,716,965,481 | 14,914,311 out of 35,152,623 | |
| Fugu |
|
|
| 14,605,308 out of 393,312,790 | 12,748,685 out of 33,921,072 |