Chicken (Gallus gallus, WASHUC2) and C.savignyi (Ciona savignyi, CSAV2.0) 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 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: 37923
Genome coverage(bp) | Coding exon coverage (bp) | |
---|---|---|
Chicken | ![]() |
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3,827,100 out of 1,100,480,441 | 3,286,283 out of 24,644,731 | |
C.savignyi | ![]() |
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2,621,533 out of 176,989,013 | 2,167,403 out of 13,806,906 |