Tetrahymena thermophila vs Phytophthora infestans Translated Blat results
Tetrahymena thermophila (Tetrahymena thermophila, JCVI-TTA1-2.2) and Phytophthora infestans (Phytophthora infestans T30-4, ASM14294v1) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl Protists release 70. Tetrahymena thermophila was used as the reference species. After running Translated Blat, the raw Translated Blat alignment blocks were chained according to their location in both genomes. During the final netting process, the best sub-chain was chosen in each region on the reference species.
Configuration parameters
Parameter | Value |
---|---|
Minimum score (minScore) | 30 |
Database type (t) | dnax |
Query type (q) | dnax |
Mask out repeats (mask) | lower |
Mask out repeats on query (qMask) | lower |
Chunking parameters
Parameter | Tetrahymena thermophila | Phytophthora infestans |
---|---|---|
Chunk size | 1,000,000 | 1,000,000 |
Overlap | 10,000 | 10,000 |
Group set size | 100,000,000 | 100,000,000 |
Masking options | {default_soft_masking => 1} | {default_soft_masking => 1} |
Statistics over 5,300 alignment blocks
Genome coverage (bp) | Coding exon coverage (bp) | |
---|---|---|
Tetrahymena thermophila |
Uncovered: 102,349,290 out of 103,014,375 |
Uncovered: 47,569,846 out of 48,193,658 |
Phytophthora infestans |
Uncovered: 228,074,831 out of 228,543,505 |
Uncovered: 21,984,694 out of 22,421,425 |