Phytophthora infestans vs Phaeodactylum tricornutum Translated Blat results
Phytophthora infestans (Phytophthora infestans T30-4, ASM14294v1) and Phaeodactylum tricornutum (Phaeodactylum tricornutum CCAP 1055/1, ASM15095v2) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl Protists release 70. Phytophthora infestans 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 | Phytophthora infestans | Phaeodactylum tricornutum |
---|---|---|
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 9,896 alignment blocks
Genome coverage (bp) | Coding exon coverage (bp) | |
---|---|---|
Phytophthora infestans |
Uncovered: 227,180,057 out of 228,543,505 |
Uncovered: 21,233,779 out of 22,421,425 |
Phaeodactylum tricornutum |
Uncovered: 26,645,703 out of 27,568,093 |
Uncovered: 13,534,756 out of 14,407,044 |