Zebrafish (Danio rerio, Zv9) and Medaka (Oryzias latipes, MEDAKA1) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl release 60. Zebrafish 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 alignmentsMinimum 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: 365231
Genome coverage(bp) | Coding exon coverage (bp) | |
---|---|---|
Zebrafish | ![]() |
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38,969,728 out of 1,412,464,843 | 24,057,251 out of 39,233,654 | |
Medaka | ![]() |
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27,437,647 out of 868,983,502 | 17,815,874 out of 30,193,605 |