Zebrafish (Danio rerio, Zv9) and C.intestinalis (Ciona intestinalis, JGI2) 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: 65825
Genome coverage(bp) | Coding exon coverage (bp) | |
---|---|---|
Zebrafish | ![]() |
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6,356,532 out of 1,412,464,843 | 4,740,558 out of 39,233,654 | |
C.intestinalis | ![]() |
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3,048,849 out of 173,499,994 | 2,429,386 out of 16,722,294 |